Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006573.1 Hibiscus syriacus cultivar Beakdansim tig00016106_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1218788
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 7
Found at i:147631 original size:8 final size:8
Alignment explanation
Indices: 147614--147697 Score: 55
Period size: 8 Copynumber: 9.9 Consensus size: 8
147604 TAGATATAGC
147614 AAAAAGAAG
1 AAAAA-AAG
147623 AAAAAAAG
1 AAAAAAAG
147631 AAAAACCATA-
1 AAAAA--A-AG
147641 AAAAAAAG
1 AAAAAAAG
147649 AGAAAGAAAG
1 A-AAA-AAAG
*
147659 -AAAGAAG
1 AAAAAAAG
*
147666 ATAAAAAG
1 AAAAAAAG
*
147674 AAGAAAAG
1 AAAAAAAG
*
147682 AAGAAAAG
1 AAAAAAAG
147690 AAAGAAAA
1 AAA-AAAA
147698 CCGATCAAGT
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
7 4 0.07
8 34 0.56
9 12 0.20
10 10 0.16
11 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:147694 original size:28 final size:28
Alignment explanation
Indices: 147614--147694 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 28
147604 TAGATATAGC
* **
147614 AAAAAGAAGAAAAAAAG-AAA-AACCAT
1 AAAAAGAAGAAAAGAAGAAAAGAAAGAT
*
147640 AAAAAAAAGAGAAAGAA-AGAAAG-AAGAT
1 AAAAAGAAGA-AAAGAAGA-AAAGAAAGAT
147668 AAAAAGAAGAAAAGAAGAAAAGAAAGA
1 AAAAAGAAGAAAAGAAGAAAAGAAAGA
147695 AAACCGATCA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
26 9 0.20
27 15 0.34
28 20 0.45
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (28 bp):
AAAAAGAAGAAAAGAAGAAAAGAAAGAT
Found at i:150187 original size:21 final size:21
Alignment explanation
Indices: 150126--150193 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
150116 ACATAGAATT
150126 TGTCCCGAATGACCACATATA
1 TGTCCCGAATGACCACATATA
* * * *
150147 TATCCCAAAGGGCCACATATA
1 TGTCCCGAATGACCACATATA
*
150168 TGTCCCGAATGACCATATATA
1 TGTCCCGAATGACCACATATA
150189 TGTCC
1 TGTCC
150194 TGGAGGACCA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (21 bp):
TGTCCCGAATGACCACATATA
Found at i:150202 original size:21 final size:21
Alignment explanation
Indices: 150126--150203 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
150116 ACATAGAATT
* *
150126 TGTCCCGAATGACCACATATA
1 TGTCCCGAAGGACCATATATA
* * * *
150147 TATCCCAAAGGGCCACATATA
1 TGTCCCGAAGGACCATATATA
*
150168 TGTCCCGAATGACCATATATA
1 TGTCCCGAAGGACCATATATA
* *
150189 TGTCCTGGAGGACCA
1 TGTCCCGAAGGACCA
150204 CTCCTTAAGG
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (21 bp):
TGTCCCGAAGGACCATATATA
Found at i:152502 original size:53 final size:53
Alignment explanation
Indices: 152363--152985 Score: 473
Period size: 53 Copynumber: 12.2 Consensus size: 53
152353 TGATTTTCAA
* * * * * * *
152363 GGTTTCTTGATGCTTTCAAGTGGATTTGGAAAGAAACTAAGCCTAAGTGTCAGG
1 GGTTTCTTGATGTTTTCAAATGAATTT-GAAAGAAGCTAAGCCTAATTTTTAGG
* * * * * * *
152417 AGTTTCATGATATTTTC--A--AATTTGAAATAAGTTAAGACTAATTTTTATG
1 GGTTTCTTGATGTTTTCAAATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGG
* * * * *
152466 GGTTTCTTGATGTTTTTAAATGAATTTGAAAAAAGTTAAACCTGATTTTTAGG
1 GGTTTCTTGATGTTTTCAAATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGG
* * *
152519 GGTTTCTTGATGTTTTCAAATGAATTTTGAAAGAAGCTATGCCTGATTTTCAGG
1 GGTTTCTTGATGTTTTCAAATGAA-TTTGAAAGAAGCTAAGCCTAATTTTTAGG
** * * ***
152573 GGTTTCTTGAAT-TGTTT--AA-GAAGCT--AAG--CCTAA---T-CTTTAGGGG
1 GGTTTCTTG-ATGT-TTTCAAATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGG
** * * * * * *
152616 TTTTTT--AATGTCTTT-AAATGAATTTGAAAGAAGTTAAGCCTGATTTTCATG
1 GGTTTCTTGATGT-TTTCAAATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGG
* *
152667 GGTTTC-T--TG------AAT---TTTTAAAGAAGCTAAGCCTAATCTTTAGG
1 GGTTTCTTGATGTTTTCAAATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGG
* * * *
152708 GGTTTCTTGATGTCTTCAAATGAATTTGAAAGAAGTTAAGCC-AGATTTTCAAG
1 GGTTTCTTGATGTTTTCAAATGAATTTGAAAGAAGCTAAGCCTA-ATTTTTAGG
*
152761 GGTTTCTTGATGTTTTCAAATGAATTTGAAAGAATCTAAGCCTAATTTTTAGG
1 GGTTTCTTGATGTTTTCAAATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGG
* *
152814 GGTTTCTTGATGTTTTCAAATGAATTTGAAAGAAACTAAGCCTAATTTTTAAG
1 GGTTTCTTGATGTTTTCAAATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGG
* * * *
152867 GGTTTCTTTATATTTTCAAATGAATTTGAAAGAAGCTAAGCTTGATTTTTAGG
1 GGTTTCTTGATGTTTTCAAATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGG
* * * *
152920 GGTTTCTTGATGTTTTCAAATAAATTTTTAAAGAAGCTAAACCTAATATTTAGG
1 GGTTTCTTGATGTTTTCAAATGAA-TTTGAAAGAAGCTAAGCCTAATTTTTAGG
152974 GGTTTCTTGATG
1 GGTTTCTTGATG
152986 ATAATAGTGA
Statistics
Matches: 449, Mismatches: 86, Indels: 68
0.74 0.14 0.11
Matches are distributed among these distances:
40 2 0.00
41 33 0.07
42 3 0.01
43 12 0.03
44 6 0.01
45 3 0.01
47 6 0.01
49 34 0.08
50 10 0.02
51 9 0.02
52 4 0.01
53 238 0.53
54 84 0.19
55 5 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
GGTTTCTTGATGTTTTCAAATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGG
Found at i:152632 original size:41 final size:41
Alignment explanation
Indices: 152549--152717 Score: 103
Period size: 41 Copynumber: 3.8 Consensus size: 41
152539 TGAATTTTGA
* * *
152549 AAGAAGCTATGCCTGATTTTCAGGGGTTTCTTGAATTGTTT
1 AAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGAATTCTTT
*
152590 AAGAAGCTAAGCCTAATCTTT-AGGGGTTT-TTTAATGTCTTTAAATGAATTT
1 AAGAAGCTAAGCCTAAT-TTTCAGGGGTTTCTTGAAT-TC----------TTT
* * *
152641 GAAAGAAGTTAAGCCTGATTTTCATGGGTTTCTTGAATT-TTT
1 --AAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGAATTCTTT
152683 AAAGAAGCTAAGCCTAATCTTT-AGGGGTTTCTTGA
1 -AAGAAGCTAAGCCTAAT-TTTCAGGGGTTTCTTGA
152718 TGTCTTCAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 34
0.69 0.08 0.23
Matches are distributed among these distances:
40 5 0.05
41 52 0.52
42 9 0.09
51 3 0.03
52 3 0.03
53 23 0.23
54 5 0.05
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (41 bp):
AAGAAGCTAAGCCTAATTTTCAGGGGTTTCTTGAATTCTTT
Found at i:152657 original size:94 final size:94
Alignment explanation
Indices: 152513--152874 Score: 426
Period size: 94 Copynumber: 3.7 Consensus size: 94
152503 AAACCTGATT
* * *
152513 TTTAGGGGTTTCTTGATGT-TTTCAAATGAATTTTGAAAGAAGCTATGCCTGATTTTCAGGGGTT
1 TTTAGGGGTTTCTTGATGTCTTT-AAATGAA-TTTGAAAGAAGTTAAGCCTGATTTTCAAGGGTT
152577 TCTTGAATTGTTT-AAGAAGCTAAGCCTAATC
64 TCTTGAATT-TTTAAAGAAGCTAAGCCTAATC
* * *
152608 TTTAGGGGTTTTTTAATGTCTTTAAATGAATTTGAAAGAAGTTAAGCCTGATTTTCATGGGTTTC
1 TTTAGGGGTTTCTTGATGTCTTTAAATGAATTTGAAAGAAGTTAAGCCTGATTTTCAAGGGTTTC
152673 TTGAATTTTTAAAGAAGCTAAGCCTAATC
66 TTGAATTTTTAAAGAAGCTAAGCCTAATC
* *
152702 TTTAGGGGTTTCTTGATGTCTTCAAATGAATTTGAAAGAAGTTAAGCCAGATTTTCAAGGGTTTC
1 TTTAGGGGTTTCTTGATGTCTTTAAATGAATTTGAAAGAAGTTAAGCCTGATTTTCAAGGGTTTC
*
152767 TTG-ATGTTTTCAAATGAATTTGAAAGAATCTAAGCCTAATT
66 TTGAAT-TTTT---A--AA---G-AAG---CTAAGCCTAATC
** * *
152808 TTTAGGGGTTTCTTGATGT-TTTCAAATGAATTTGAAAGAAACTAAGCCTAATTTTTAAGGGTTT
1 TTTAGGGGTTTCTTGATGTCTTT-AAATGAATTTGAAAGAAGTTAAGCCTGATTTTCAAGGGTTT
152872 CTT
65 CTT
152875 TATATTTTCA
Statistics
Matches: 234, Mismatches: 17, Indels: 21
0.86 0.06 0.08
Matches are distributed among these distances:
93 5 0.02
94 124 0.53
95 24 0.10
96 3 0.01
97 1 0.00
99 2 0.01
102 1 0.00
103 3 0.01
105 2 0.01
106 69 0.29
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (94 bp):
TTTAGGGGTTTCTTGATGTCTTTAAATGAATTTGAAAGAAGTTAAGCCTGATTTTCAAGGGTTTC
TTGAATTTTTAAAGAAGCTAAGCCTAATC
Found at i:154351 original size:139 final size:139
Alignment explanation
Indices: 153916--154810 Score: 1290
Period size: 139 Copynumber: 6.5 Consensus size: 139
153906 GATAAATCGG
* * * * *
153916 TCAACATTTTCATTGAAGAGTTTATAATGAGAAGAACTTATCCGATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* * * *
153981 ATGAGAAGAACTTGTTCAACCTTATCTTGATTCATCGCATATGGAGTTTAATCACCAACACCTCA
66 ATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAACAACACCTCA
154046 CTCGAGGGA
131 CTCGAGGGA
* *
154055 TCAACATTT----T-GAGAGTTCATAATGAGAAGAACTCATTCGATGAGGGAGAAGAAATTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
154115 ATGAGAAGAA-TTGTTTTCAACCTTAGCTCGATTCAT---ATATGGAGTTGAATCAACAACACCT
66 ATGAGAAGAACTTG--TTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAACAACACCT
* * *
154176 GACTTGCGGGA
129 CACTCGAGGGA
*
154187 TCAACATTTCCAGTGGAGAGTTCATAATAAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* * * *
154252 ATGAGAAGAACTTGTTCAACCTTAGATCAATTCATTGCATATGGAGTTGAATCAACAACACCACA
66 ATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAACAACACCTCA
* *
154317 CTCAAGGCA
131 CTCGAGGGA
*
154326 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTTATCCGATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* **
154391 ATGAGAAGAA-TATATTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTAACACCTC
66 ATGAGAAGAACT-TGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAACAACACCTC
154455 ACTCGAGGGA
130 ACTCGAGGGA
* * *
154465 TCAACATTTCCAATGGAGAGTTCATAATGAGAAAAACTCATCCAATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* * **
154530 ATGAGAAGAACTTGTTCAACCTTAGCTCGATTAATCGTATATGGAGTTGAATCGGCAACACCTCA
66 ATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAACAACACCTCA
154595 CTCGAGGGA
131 CTCGAGGGA
* * * * *
154604 TCAACATTTCTAGTTGAGAGTTCATAAAGAGAA-AACAGTCATCCGATAAGGGAGAATAAGTTCA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAAC--TCATCCGATGAGGGAGAAGAAGTTCA
*
154668 TAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCAACAACACCT
64 TAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAACAACACCT
154733 CACTCGAGGGA
129 CACTCGAGGGA
* * * *
154744 TCAATATTTCCAGTGGAAAGTTCATAATGAGAAGAACTAATTCGATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
154809 AT
66 AT
154811 AGCTCGTTTC
Statistics
Matches: 676, Mismatches: 64, Indels: 32
0.88 0.08 0.04
Matches are distributed among these distances:
132 40 0.06
133 3 0.00
134 55 0.08
135 20 0.03
136 20 0.03
137 57 0.08
138 7 0.01
139 348 0.51
140 123 0.18
141 3 0.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (139 bp):
TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAACAACACCTCA
CTCGAGGGA
Found at i:154792 original size:418 final size:409
Alignment explanation
Indices: 153916--154810 Score: 1314
Period size: 418 Copynumber: 2.2 Consensus size: 409
153906 GATAAATCGG
* * *
153916 TCAACATTTTCA-TTGAAGAGTTTATAATGAGAAGAACTTATCCGATGAGGGAGAAGAAGTTCAT
1 TCAACATTTCCAGTGGAA-AGTTCATAATGAGAAGAACTTATCCGATGAGGGAGAAGAAGTTCAT
* * * *
153980 AATGAGAAGAACTTGTTCAACCTTATCTTGATTCATCGCATATGGAGTTTAATCACCAACACCTC
65 AATGAGAAGAACTTATTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCACCAACACCTC
* * *
154045 ACTCGAGGGATCAACATTTTGAGAGTTCATAATGAGAAGAACTCATTCGATGAGGGAGAAGAAAT
130 ACTCGAGGGATCAACATTTTGAGAGTTCATAATGAGAAAAACTCATCCAATGAGGGAGAAGAAAT
154110 TCATAATGAGAAGAATTGTTTTCAACCTTAGCTCGATTCATATATGGAGTTGAATCAACAACACC
195 TCATAATGAGAAGAATTG-TTTCAACCTTAGCTCGATTCATATATGGAGTTGAATCAACAACACC
* * * *
154175 TGACTTGCGGGATCAACATTTCCAGTGGAGAGTTCATAATAAGAAGAACTCATCCGATGAGGGAG
259 TCACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATAAGAAGAACTCATCCGATAAGGGAG
**
154240 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATCAATTCATTGCATATGGAGTTGAATC
324 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATCAATTCATCACATATGGAGTTGAATC
154305 AACAACACCACACTCAAGGCA
389 AACAACACCACACTCAAGGCA
*
154326 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTTATCCGATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAAAGTTCATAATGAGAAGAACTTATCCGATGAGGGAGAAGAAGTTCATA
**
154391 ATGAGAAGAA-TATATTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTAACACCTC
66 ATGAGAAGAACT-TATTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCACCAACACCTC
154455 ACTCGAGGGATCAACATTTCCAATGGAGAGTTCATAATGAGAAAAACTCATCCAATGAGGGAGAA
130 ACTCGAGGGATCAACATTT----T-GAGAGTTCATAATGAGAAAAACTCATCCAATGAGGGAGAA
* * *
154520 GAAGTTCATAATGAGAAGAACTTG-TTCAACCTTAGCTCGATTAATCGTATATGGAGTTGAATCG
190 GAAATTCATAATGAGAAGAA-TTGTTTCAACCTTAGCTCGA-T--TCATATATGGAGTTGAATCA
* * *
154584 GCAACACCTCACTCGAGGGATCAACATTTCTAGTTGAGAGTTCATAA-AGAGAA-AACAGTCATC
251 ACAACACCTCACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATA-AGAAGAAC--TCATC
* * *
154647 CGATAAGGGAGAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATAT
313 CGATAAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATCAATTCATCACATAT
* * *
154712 GGAGTTGAATCAACAACACCTCACTCGAGGGA
378 GGAGTTGAATCAACAACACCACACTCAAGGCA
* * *
154744 TCAATATTTCCAGTGGAAAGTTCATAATGAGAAGAACTAATTCGATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAAAGTTCATAATGAGAAGAACTTATCCGATGAGGGAGAAGAAGTTCATA
154809 AT
66 AT
154811 AGCTCGTTTC
Statistics
Matches: 436, Mismatches: 35, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
409 1 0.00
410 132 0.30
411 3 0.01
414 17 0.04
415 57 0.13
416 7 0.02
417 63 0.14
418 156 0.36
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (409 bp):
TCAACATTTCCAGTGGAAAGTTCATAATGAGAAGAACTTATCCGATGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTATTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCACCAACACCTCA
CTCGAGGGATCAACATTTTGAGAGTTCATAATGAGAAAAACTCATCCAATGAGGGAGAAGAAATT
CATAATGAGAAGAATTGTTTCAACCTTAGCTCGATTCATATATGGAGTTGAATCAACAACACCTC
ACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATAAGAAGAACTCATCCGATAAGGGAGAA
GAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATCAATTCATCACATATGGAGTTGAATCAA
CAACACCACACTCAAGGCA
Found at i:156296 original size:20 final size:20
Alignment explanation
Indices: 156273--156310 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
156263 GTGTTGTTTT
156273 TTATG-TTTATGTTTATTTGG
1 TTATGTTTTAT-TTTATTTGG
156293 TTATGTTTTATTTTATTT
1 TTATGTTTTATTTTATTT
156311 ATTAATTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (20 bp):
TTATGTTTTATTTTATTTGG
Found at i:156794 original size:14 final size:14
Alignment explanation
Indices: 156775--156810 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
156765 TTTTTATTTA
*
156775 TTTAATTTCAGTCC
1 TTTAATTTCAGTAC
*
156789 TTTAATTTCATTAC
1 TTTAATTTCAGTAC
156803 TTTAATTT
1 TTTAATTT
156811 ATTATTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTAATTTCAGTAC
Found at i:156828 original size:17 final size:16
Alignment explanation
Indices: 156802--156861 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 16
156792 AATTTCATTA
* *
156802 CTTTAATTTATTATTTT
1 CTTTATTTTATT-TTAT
156819 CTTTATTTTATTTTAT
1 CTTTATTTTATTTTAT
156835 CTTTCATTTT-TTTGTAT
1 CTTT-ATTTTATTT-TAT
156852 -TTTAATTTTA
1 CTTT-ATTTTA
156862 GTCCTTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 18 0.49
17 19 0.51
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (16 bp):
CTTTATTTTATTTTAT
Found at i:156852 original size:22 final size:19
Alignment explanation
Indices: 156812--156860 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
156802 CTTTAATTTA
156812 TTATTTTCTTTATTTTATT
1 TTATTTTCTTTATTTTATT
*
156831 TTATCTTTCATTTTTTTGTATT
1 TTAT-TTTC-TTTATTT-TATT
156853 TTAATTTT
1 TT-ATTTT
156861 AGTCCTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 4 0.16
21 6 0.24
22 9 0.36
23 2 0.08
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (19 bp):
TTATTTTCTTTATTTTATT
Found at i:160456 original size:26 final size:24
Alignment explanation
Indices: 160394--160456 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 24
160384 AATTTTAATC
160394 AAAATAT-TAATTATTAAGATATTT
1 AAAATATAT-ATTATTAAGATATTT
*
160418 AAAATATAT-TTATTAATAT-TTCT
1 AAAATATATATTATTAAGATATT-T
160441 AATAATATAGTATTAT
1 AA-AATATA-TATTAT
160457 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 13 0.39
25 2 0.06
26 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAGATATTT
Found at i:160458 original size:22 final size:23
Alignment explanation
Indices: 160428--160471 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
160418 AAAATATATT
160428 TATTAATATTTCTAATAATATAG
1 TATTAATATTTCTAATAATATAG
* *
160451 TATT-ATATTTTTAATATTATA
1 TATTAATATTTCTAATAATATA
160472 ATAAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAG
Found at i:160808 original size:14 final size:14
Alignment explanation
Indices: 160759--160809 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
160749 AAAATATACC
*
160759 AATATTAATATTTTT
1 AATAATAATA-TTTT
* *
160774 AATAATAAAATTAT
1 AATAATAATATTTT
*
160788 AAAAATAATATTTT
1 AATAATAATATTTT
160802 AATAATAA
1 AATAATAA
160810 ATAAATTATT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 21 0.72
15 8 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATAATAATATTTT
Found at i:160809 original size:20 final size:21
Alignment explanation
Indices: 160785--160866 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 21
160775 ATAATAAAAT
160785 TATAAAAATAATATTTTAATA
1 TATAAAAATAATATTTTAATA
*
160806 -ATAAATAA-ATTATTTTAATA
1 TATAAA-AATAATATTTTAATA
* * *
160826 TTTTAAAAATAATAATATTAAGTTT
1 -TATAAAAATAAT-ATTTTAA--TA
160851 TATAATAAATAATATT
1 TATAA-AAATAATATT
160867 ATTTATTGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 13
0.70 0.11 0.20
Matches are distributed among these distances:
20 16 0.35
21 4 0.09
22 6 0.13
23 6 0.13
24 6 0.13
25 8 0.17
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (21 bp):
TATAAAAATAATATTTTAATA
Found at i:160851 original size:22 final size:22
Alignment explanation
Indices: 160808--160867 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
160798 TTTTAATAAT
* * *
160808 AAATAAATTATTTTAATATTTTA
1 AAATAAATAATATTAA-GTTTTA
160831 AAA-ATAATAATATTAAGTTTTA
1 AAATA-AATAATATTAAGTTTTA
*
160853 TAATAAATAATATTA
1 AAATAAATAATATTA
160868 TTTATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
AAATAAATAATATTAAGTTTTA
Found at i:161701 original size:23 final size:22
Alignment explanation
Indices: 161675--161734 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
161665 ATTAAGTAAA
161675 ATAACAAATTAGGTAGCGCTTAT
1 ATAACAAA-TAGGTAGCGCTTAT
**
161698 ATAATGTAATAGGTAGCGCTTAT
1 ATAA-CAAATAGGTAGCGCTTAT
*
161721 ATAATAAAATAGGT
1 ATAA-CAAATAGGT
161735 TAATACTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 30 0.94
24 2 0.06
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (22 bp):
ATAACAAATAGGTAGCGCTTAT
Found at i:161787 original size:23 final size:23
Alignment explanation
Indices: 161761--161820 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
161751 ATCAAGCACA
* * *
161761 ATAACATATTAGTTAGCGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
161784 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
161807 ATAATAAAATAGGT
1 ATAACATAATAGGT
161821 TAATTACTGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.37
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:161807 original size:86 final size:87
Alignment explanation
Indices: 161674--161872 Score: 330
Period size: 86 Copynumber: 2.3 Consensus size: 87
161664 TATTAAGTAA
*
161674 AATAACAAATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAA-
1 AATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAAT
161738 TACT-AGAAACATTATCAAGCAC
66 TACTGA-AAACATTATCAAGCAC
* *
161760 AATAACATATTAGTTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAAT
1 AATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAAT
* *
161825 TACTGAAAATATTATTAAGCAC
66 TACTGAAAACATTATCAAGCAC
161847 AATAACATATTAGGTAGCGCTTATAT
1 AATAACATATTAGGTAGCGCTTATAT
161873 TAATATATTC
Statistics
Matches: 104, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
86 61 0.59
87 42 0.40
88 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.33
Consensus pattern (87 bp):
AATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAAT
TACTGAAAACATTATCAAGCAC
Found at i:162518 original size:200 final size:198
Alignment explanation
Indices: 161897--162553 Score: 914
Period size: 198 Copynumber: 3.3 Consensus size: 198
161887 ATAAAACCAG
* * ** * * *
161897 TATATTTATACCGGTAATATTACAGATTTACCTATTACATTATAATTATCGATTTCTATGTTTTT
1 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* * * *
161962 GGGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGTATTCATTCTG
66 GGGATCGATAC-TTTTATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATTCATTCTG
*
162026 GAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACCTATTTTCTCATAAAA
130 GAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTAGACCTATTTTCTCATAAAA
*
162091 -TCGG
195 CT-GA
* * * * *
162095 TATATTTCTACCGGGTT-CATTGTAAATTTACCTACTACATTGTAATTATCAGTTTGGAT-TTTT
1 TATATTTATACC-GGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
*
162158 TGGGATCGATACTTTTGATAAATGTATCGACACTTTATGTGTGCACCTCG-TTGGACATTCATTT
65 TGGGATCGATACTTTT-ATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGG-CATTCATTC
162222 TGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTAGACCTATTTTCTCATAA
128 TGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTAGACCTATTTTCTCATAA
162287 AACTGA
193 AACTGA
*
162293 TATATTTATACCGAG-TACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTTT
1 TATATTTATACCG-GTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
*
162357 TGGGATCGATACTTTTAATAAATGTATCGACATTTTATGTGTGCACCTCGTTTGGCATTCATTCT
65 TGGGATCGATACTTTT-ATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATTCATTCT
* *** * * * *
162422 GGACAAAATGTATCGACAC-TTTTTAAATTTGTGTTGATACATTATGTAGACATATTCTCTCATA
129 GGA-AAAAAGTATCGACACAAACTTAAA-ATGTGTCGATACATTATGTAGACCTATTTTCTCATA
162486 AAACTGA
192 AAACTGA
*
162493 TATATTTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
1 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
162554 AACATATGTG
Statistics
Matches: 411, Mismatches: 36, Indels: 22
0.88 0.08 0.05
Matches are distributed among these distances:
196 3 0.01
197 21 0.05
198 199 0.48
199 74 0.18
200 114 0.28
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (198 bp):
TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
GGGATCGATACTTTTATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATTCATTCTGG
AAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTAGACCTATTTTCTCATAAAAC
TGA
Found at i:162695 original size:31 final size:30
Alignment explanation
Indices: 162654--162747 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
162644 TTATAATAAA
*
162654 TAAT-AAATATAATTTATAATAATTTTATT-T
1 TAATAAAATATAA-TAATAATAATTTT-TTAT
*
162684 TAATAAAATATAATAATCATAATTTTTTAT
1 TAATAAAATATAATAATAATAATTTTTTAT
* * *
162714 TTATAAAAT-T-ATAGAT-ATAATATTTTAA
1 TAATAAAATATAATA-ATAATAATTTTTTAT
162742 TAATAA
1 TAATAA
162748 TATTGACATA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
28 18 0.33
29 5 0.09
30 24 0.44
31 8 0.15
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
TAATAAAATATAATAATAATAATTTTTTAT
Found at i:162747 original size:14 final size:14
Alignment explanation
Indices: 162665--162751 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
162655 AATAAATATA
**
162665 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
162680 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
162693 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * * *
162707 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
162721 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
162735 ATTTTAATAATAAT
1 ATTTTAATAATAAT
162749 ATT
1 ATT
162752 GACATAAATA
Statistics
Matches: 53, Mismatches: 16, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
13 10 0.19
14 38 0.72
15 5 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:162747 original size:28 final size:28
Alignment explanation
Indices: 162679--162747 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
162669 ATAATAATTT
*
162679 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATAATAATCATAA
* * * *
162706 TTTTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATAATA-ATCATAA
162734 TATTTTAATAATAA
1 TATTTTAATAATAA
162748 TATTGACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATCATAA
Found at i:163472 original size:31 final size:30
Alignment explanation
Indices: 163435--163525 Score: 82
Period size: 30 Copynumber: 3.1 Consensus size: 30
163425 TAAAAAATAA
*
163435 AAAATATAATTTATAATAATTTTATT-TTAAT
1 AAAATATAA-TAATAATAATTTT-TTATTAAT
* *
163466 AAAATATAATAATCATAATTTTTTATTTAT
1 AAAATATAATAATAATAATTTTTTATTAAT
* *
163496 AAAAT-T-ATAGAT-ATAATATTTTAATAAT
1 AAAATATAATA-ATAATAATTTTTTATTAAT
163524 AA
1 AA
163526 TATTTACATA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
28 18 0.35
29 5 0.10
30 20 0.38
31 9 0.17
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
AAAATATAATAATAATAATTTTTTATTAAT
Found at i:163525 original size:14 final size:14
Alignment explanation
Indices: 163443--163544 Score: 57
Period size: 14 Copynumber: 7.2 Consensus size: 14
163433 AAAAAATATA
**
163443 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
163458 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
163471 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * * *
163485 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
163499 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
163513 ATTTTAATAATAAT
1 ATTTTAATAATAAT
163527 A-TTTACATAAATAAT
1 ATTTTA-AT-AATAAT
163542 ATT
1 ATT
163545 AAATAAATTA
Statistics
Matches: 65, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
13 14 0.22
14 38 0.58
15 12 0.18
16 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:163525 original size:28 final size:28
Alignment explanation
Indices: 163457--163525 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
163447 ATAATAATTT
*
163457 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATAATAATCATAA
* * * *
163484 TTTTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATAATA-ATCATAA
163512 TATTTTAATAATAA
1 TATTTTAATAATAA
163526 TATTTACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATCATAA
Found at i:163550 original size:14 final size:15
Alignment explanation
Indices: 163508--163552 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
163498 AATTATAGAT
*
163508 ATAATATTTTAAT-A
1 ATAATATTTAAATAA
*
163522 ATAATATTTACATAA
1 ATAATATTTAAATAA
163537 ATAATA-TTAAATAA
1 ATAATATTTAAATAA
163551 AT
1 AT
163553 TATTCTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 20 0.74
15 7 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATTTAAATAA
Found at i:163612 original size:24 final size:24
Alignment explanation
Indices: 163561--163612 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
163551 ATTATTCTAA
163561 TATT-TTAAAAATAATATTATTAT
1 TATTGTTAAAAATAATATTATTAT
*
163584 T-TTGTTAATAAATAATATTGTT-T
1 TATTGTTAA-AAATAATATTATTAT
163607 TATTGT
1 TATTGT
163613 ATTTGATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.28
24 16 0.64
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (24 bp):
TATTGTTAAAAATAATATTATTAT
Found at i:163914 original size:23 final size:23
Alignment explanation
Indices: 163866--163915 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
163856 ACCTATTTTA
*
163866 TTATATAAGCGCTACATATTACG
1 TTATATAAGCGCTACATAATACG
* *
163889 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACATAATACG
163912 TTAT
1 TTAT
163916 TGTGCTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACATAATACG
Found at i:163996 original size:87 final size:86
Alignment explanation
Indices: 163850--164079 Score: 383
Period size: 87 Copynumber: 2.7 Consensus size: 86
163840 ACAAATTAAA
*
163850 TAATTAACCTATTTTATTATATAAGCGCTACATATTACGTTATATAAGCGCTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTAC-TATTACATTATATAAGCGCTACCTAATATGTTA
163915 TTGTGCTTGATAATGTTTCCAG
65 TTGTGCTTGATAATGTTTCCAG
* *
163937 TAATTAACCTATTTTATTATATAAGCGCTATCTATTACATTATATAAGCGGTATCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTA-CTATTACATTATATAAGCGCTACCTAATATGTTA
164002 TTGTGCTTGATAATGTTTCCAG
65 TTGTGCTTGATAATGTTTCCAG
164024 TAATTAA-C-ATTATTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTA
1 TAATTAACCTATT-TTATTATATAAGCGCTA-CTATTACATTATATAAGCGCTACCTA
164080 TTACATCATA
Statistics
Matches: 135, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
85 3 0.02
86 42 0.31
87 89 0.66
88 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (86 bp):
TAATTAACCTATTTTATTATATAAGCGCTACTATTACATTATATAAGCGCTACCTAATATGTTAT
TGTGCTTGATAATGTTTCCAG
Found at i:164002 original size:23 final size:23
Alignment explanation
Indices: 163952--163996 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
163942 AACCTATTTT
*
163952 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTATCTAATAC
*
163975 ATTATATAAGCGGTATCTAATA
1 ATTATATAAGCGCTATCTAATA
163997 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTATCTAATAC
Found at i:164065 original size:23 final size:23
Alignment explanation
Indices: 164038--164090 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
164028 TAACATTATT
164038 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
164061 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
164084 ATCATAT
1 ATTATAT
164091 TTTTACCTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTATTAC
Found at i:165187 original size:46 final size:46
Alignment explanation
Indices: 165135--165230 Score: 174
Period size: 46 Copynumber: 2.1 Consensus size: 46
165125 TCAAATGCTC
* *
165135 TAAACTCATCAGTTTTCGTTAAAACATTAACGGTCATTCGTTAACT
1 TAAACTCATCAATTTTCGTTAAAACATTAACGGTCATCCGTTAACT
165181 TAAACTCATCAATTTTCGTTAAAACATTAACGGTCATCCGTTAACT
1 TAAACTCATCAATTTTCGTTAAAACATTAACGGTCATCCGTTAACT
165227 TAAA
1 TAAA
165231 TATAATAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.35
Consensus pattern (46 bp):
TAAACTCATCAATTTTCGTTAAAACATTAACGGTCATCCGTTAACT
Found at i:165631 original size:15 final size:15
Alignment explanation
Indices: 165613--165668 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
165603 TAATCGGTTT
*
165613 CGGTTTTAAAAAAAA
1 CGGTTTTAAAAAAAC
*
165628 CGGTTTTTTTAAAAAAC
1 CGG--TTTTAAAAAAAC
*
165645 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
165660 CGATTTTAA
1 CGGTTTTAA
165669 TATTATTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 20 0.61
17 13 0.39
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:165641 original size:17 final size:17
Alignment explanation
Indices: 165616--165649 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
165606 TCGGTTTCGG
165616 TTTTAAAAAAAACGGTT
1 TTTTAAAAAAAACGGTT
* *
165633 TTTTTAAAAAACCGGTT
1 TTTTAAAAAAAACGGTT
165650 ATAAAAAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (17 bp):
TTTTAAAAAAAACGGTT
Found at i:166869 original size:32 final size:33
Alignment explanation
Indices: 166773--166871 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
166763 AACTCAACAT
* * *
166773 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
166806 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
166839 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
166871 A
1 A
166872 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:166890 original size:21 final size:21
Alignment explanation
Indices: 166866--166907 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
166856 ACTTCAAGTT
166866 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
166887 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
166908 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:173793 original size:8 final size:8
Alignment explanation
Indices: 173780--173818 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
173770 CTCATTTTCA
173780 GAGAATTT
1 GAGAATTT
173788 GAGAATTT
1 GAGAATTT
*
173796 -AGAGTTT
1 GAGAATTT
*
173803 GGGAATTT
1 GAGAATTT
173811 GAGAATTT
1 GAGAATTT
173819 AAAAGATTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.38
Consensus pattern (8 bp):
GAGAATTT
Found at i:174121 original size:114 final size:115
Alignment explanation
Indices: 173921--174376 Score: 538
Period size: 128 Copynumber: 3.7 Consensus size: 115
173911 TTCCCGGGGG
*
173921 GCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGTCAGTCATGTCCCTCG
1 GCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCG
173986 GGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAA-GGC
66 GGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGGC
174035 GCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCG
1 GCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCG
*
174100 GGGACACTAGATATATCAGTACCTATTATTTTACTATTCACATGAAGGCGCGTTCTCGGGGGC
66 GGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAA-------------GGGC
* *
174163 GCGCCTTTCATTATTTCGTCAGAGAATATGTTATCATTGCCATATTATGTCACTCATGTCCCTCG
1 GCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCG
* * ***
174228 GAGACACTAGATATATCAGTACCTATTATTTCTC-AGGGGACATGAAGGCGCGTTCCCGGGGGC
66 GGGACACTAGATATATCAGTACCTATTATTTCACTA-TTCACATGAA-------------GGGC
* * * *
174291 GCGCCTTCTATTATTTTGTCATAGAATATGTTATCATTGCCCTACTATGTCACTCATGTCCCTCG
1 GCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCG
174356 GGGACACTAGATATATCAGTA
66 GGGACACTAGATATATCAGTA
174377 AATCAGGTAA
Statistics
Matches: 309, Mismatches: 18, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
114 109 0.35
127 1 0.00
128 199 0.64
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (115 bp):
GCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCG
GGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGGC
Found at i:174271 original size:128 final size:128
Alignment explanation
Indices: 174032--174376 Score: 552
Period size: 128 Copynumber: 2.7 Consensus size: 128
174022 TTCACATGAA
*
174032 GGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCC
1 GGCGCGCCTTTCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCC
** *
174097 TCGGGGACACTAGATATATCAGTACCTATTATTTTACTATTCACATGAAGGCGCGTTCTCGGG
66 TCGGGGACACTAGATATATCAGTACCTATTATTTTACTAGGCACATGAAGGCGCGTTCCCGGG
*
174160 GGCGCGCCTTTCATTATTTCGTCAGAGAATATGTTATCATTGCCATATTATGTCACTCATGTCCC
1 GGCGCGCCTTTCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCC
* *
174225 TCGGAGACACTAGATATATCAGTACCTATTA-TTT-CTCAGGGGACATGAAGGCGCGTTCCCGGG
66 TCGGGGACACTAGATATATCAGTACCTATTATTTTACT-A-GGCACATGAAGGCGCGTTCCCGGG
* * *
174288 GGCGCGCC-TTCTATTATTTTGTCATAGAATATGTTATCATTGCCCTACTATGTCACTCATGTCC
1 GGCGCGCCTTTC-ATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCC
174352 CTCGGGGACACTAGATATATCAGTA
65 CTCGGGGACACTAGATATATCAGTA
174377 AATCAGGTAA
Statistics
Matches: 202, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
126 2 0.01
127 7 0.03
128 193 0.96
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (128 bp):
GGCGCGCCTTTCATTATTTCGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCC
TCGGGGACACTAGATATATCAGTACCTATTATTTTACTAGGCACATGAAGGCGCGTTCCCGGG
Found at i:174469 original size:33 final size:32
Alignment explanation
Indices: 174431--174503 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
174421 AGCAAGTTAA
* *
174431 GAATAACTTAAATTAAAACGTTATGTGA-AATTT
1 GAATAAATTAAA-TAAAACGTTATG-GATAAATT
* *
174464 GAATAAATTAGATAAAATGTTATGGATAAATT
1 GAATAAATTAAATAAAACGTTATGGATAAATT
174496 GAATAAAT
1 GAATAAAT
174504 ATGAAGTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 2 0.06
32 23 0.66
33 10 0.29
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.34
Consensus pattern (32 bp):
GAATAAATTAAATAAAACGTTATGGATAAATT
Found at i:174837 original size:33 final size:34
Alignment explanation
Indices: 174776--174875 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
174766 AAATTTAATG
*
174776 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
174810 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
174843 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
174876 ACATTTATCA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:175448 original size:21 final size:20
Alignment explanation
Indices: 175398--175487 Score: 92
Period size: 21 Copynumber: 4.3 Consensus size: 20
175388 GTATAAAACT
175398 CTGCGGGCTAGACATGTAA-C
1 CTGCGGGCTAGA-ATGTAACC
* *
175418 CTGGCAGGCTAGGAACGTAACC
1 CT-GCGGGCTA-GAATGTAACC
* *
175440 CTGCGGGCTCGGAATATAACC
1 CTGCGGGCT-AGAATGTAACC
175461 CTGCGGGCTCAGAATGTAACC
1 CTGCGGGCT-AGAATGTAACC
175482 CTGCGG
1 CTGCGG
175488 AGATGGCATA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
20 2 0.03
21 51 0.88
22 5 0.09
ACGTcount: A:0.23, C:0.28, G:0.31, T:0.18
Consensus pattern (20 bp):
CTGCGGGCTAGAATGTAACC
Found at i:175517 original size:21 final size:21
Alignment explanation
Indices: 175491--175538 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
175481 CCTGCGGAGA
*
175491 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
175512 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
175533 GGGCAT
1 TGGCAT
175539 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:177299 original size:17 final size:19
Alignment explanation
Indices: 177277--177320 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
177267 ATAATTATAT
177277 AAATATTAT-TTTA-ATAA
1 AAATATTATATTTACATAA
*
177294 AAATATAATATTTACATAA
1 AAATATTATATTTACATAA
*
177313 ATATATTA
1 AAATATTA
177321 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 4 0.18
19 10 0.45
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATATTATATTTACATAA
Found at i:177312 original size:19 final size:18
Alignment explanation
Indices: 177264--177351 Score: 55
Period size: 17 Copynumber: 5.1 Consensus size: 18
177254 TTCTAAATAA
* *
177264 ATAATAATT-ATATAAAT
1 ATAATATTTAATAAAAAT
*
177281 ATTAT-TTTAATAAAAAT
1 ATAATATTTAATAAAAAT
*
177298 ATAATATTTACATAAATAT
1 ATAATATTTA-ATAAAAAT
177317 ATTAATA--T-A-AAAAAT
1 A-TAATATTTAATAAAAAT
177332 AATAACTATTTAA-AAAAAT
1 -ATAA-TATTTAATAAAAAT
177351 A
1 A
177352 CTAACATAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
15 8 0.14
16 6 0.11
17 15 0.27
18 7 0.12
19 15 0.27
20 5 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATATTTAATAAAAAT
Found at i:177361 original size:34 final size:34
Alignment explanation
Indices: 177292--177363 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
177282 TTATTTTAAT
* * *
177292 AAAAATATAATATTTACATAAATATATTAATATA
1 AAAAATATAATATTTACATAAAAATACTAACATA
177326 AAAAATAATAACTATTTA-A-AAAAATACTAACATA
1 AAAAAT-ATAA-TATTTACATAAAAATACTAACATA
177360 AAAA
1 AAAA
177364 TAAATTTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 22 0.67
35 5 0.15
36 6 0.18
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (34 bp):
AAAAATATAATATTTACATAAAAATACTAACATA
Found at i:183293 original size:20 final size:20
Alignment explanation
Indices: 183270--183332 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 20
183260 ATCTAAATTC
183270 TAAACAGATTACCTAACAAT
1 TAAACAGATTACCTAACAAT
* **
183290 TAAACATATTATAGATAAACAAT
1 TAAACAGA-T-TACCT-AACAAT
183313 TAAACAGATTACCTTAACAA
1 TAAACAGATTACC-TAACAA
183333 AATAACAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 7 0.21
21 8 0.24
22 5 0.15
23 13 0.39
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (20 bp):
TAAACAGATTACCTAACAAT
Found at i:183488 original size:24 final size:27
Alignment explanation
Indices: 183427--183480 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
183417 CCAATATATA
*
183427 AACAATTAAACAAATTACATTGAAGAT
1 AACAATTAAACAAATTACAGTGAAGAT
183454 GAAGCAATTAAACAAATTACAGTGAAG
1 -AA-CAATTAAACAAATTACAGTGAAG
183481 TAAATTAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.22
Consensus pattern (27 bp):
AACAATTAAACAAATTACAGTGAAGAT
Found at i:183960 original size:31 final size:31
Alignment explanation
Indices: 183925--183992 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
183915 ATCGCCTCGT
183925 CGCCTCTCGCCGCCTCCGACGACTGAATCGC
1 CGCCTCTCGCCGCCTCCGACGACTGAATCGC
183956 CGCCTCTCGCCGCCTCCGACGACTGAATCGC
1 CGCCTCTCGCCGCCTCCGACGACTGAATCGC
183987 CGCCTC
1 CGCCTC
183993 ATGTACTCGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.12, C:0.50, G:0.22, T:0.16
Consensus pattern (31 bp):
CGCCTCTCGCCGCCTCCGACGACTGAATCGC
Found at i:192964 original size:20 final size:20
Alignment explanation
Indices: 192941--192981 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
192931 ATTTTTCCAA
192941 CAACCTACTTCATCTTCCTC
1 CAACCTACTTCATCTTCCTC
192961 CAACCTACTTCATCTTCCTC
1 CAACCTACTTCATCTTCCTC
192981 C
1 C
192982 TTCGAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.46, G:0.00, T:0.34
Consensus pattern (20 bp):
CAACCTACTTCATCTTCCTC
Found at i:197434 original size:28 final size:28
Alignment explanation
Indices: 197403--197492 Score: 162
Period size: 28 Copynumber: 3.2 Consensus size: 28
197393 TTATATTTAT
197403 AAAAAATTCCTAATTCTTCTTAAATTAC
1 AAAAAATTCCTAATTCTTCTTAAATTAC
197431 AAAAAATTCCTAATTCTTCTTAAATTAC
1 AAAAAATTCCTAATTCTTCTTAAATTAC
* *
197459 AAAAAATTCCTATTTTTTCTTAAATTAC
1 AAAAAATTCCTAATTCTTCTTAAATTAC
197487 AAAAAA
1 AAAAAA
197493 CCCAAATCCC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.39
Consensus pattern (28 bp):
AAAAAATTCCTAATTCTTCTTAAATTAC
Found at i:198392 original size:31 final size:32
Alignment explanation
Indices: 198336--198401 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
198326 AATTTGGCCA
* ***
198336 TTTATTTTGGCTTTGATTTGTAATTTCA-CCC
1 TTTAATTTGGCTTTGATTCACAATTTCATCCC
*
198367 TTTAATTTGGCTTTGATTCACAATTTGATCCC
1 TTTAATTTGGCTTTGATTCACAATTTCATCCC
198399 TTT
1 TTT
198402 TTTAATGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 23 0.79
32 6 0.21
ACGTcount: A:0.18, C:0.17, G:0.12, T:0.53
Consensus pattern (32 bp):
TTTAATTTGGCTTTGATTCACAATTTCATCCC
Found at i:201704 original size:14 final size:14
Alignment explanation
Indices: 201687--201713 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
201677 TCTAAGGCTA
201687 ATTTTGAGAAAAAG
1 ATTTTGAGAAAAAG
201701 ATTTTGAGAAAAA
1 ATTTTGAGAAAAA
201714 ATAATCTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (14 bp):
ATTTTGAGAAAAAG
Found at i:205118 original size:16 final size:16
Alignment explanation
Indices: 205097--205127 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
205087 ATTTTTTATG
205097 TTTGGTTGTTCGATAT
1 TTTGGTTGTTCGATAT
*
205113 TTTGGTTGTTTGATA
1 TTTGGTTGTTCGATA
205128 GAGCTAACAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.03, G:0.26, T:0.58
Consensus pattern (16 bp):
TTTGGTTGTTCGATAT
Found at i:205898 original size:20 final size:21
Alignment explanation
Indices: 205875--205928 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
205865 AATATAACAT
205875 AAAGTTTTAGAACAC-TATGG
1 AAAGTTTTAGAACACTTATGG
*
205895 AAAGATTTAGAAC-CTTATGG
1 AAAGTTTTAGAACACTTATGG
* *
205915 CATGTTTTAGAACA
1 AAAGTTTTAGAACA
205929 TCATAGAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (21 bp):
AAAGTTTTAGAACACTTATGG
Found at i:208792 original size:18 final size:18
Alignment explanation
Indices: 208769--208809 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
208759 TTTTCAATAC
208769 ATCGAATCTAAATTTGGT
1 ATCGAATCTAAATTTGGT
208787 ATCGAATCTAAATTTGGT
1 ATCGAATCTAAATTTGGT
208805 ATCGA
1 ATCGA
208810 TACTCTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
ATCGAATCTAAATTTGGT
Found at i:210225 original size:20 final size:20
Alignment explanation
Indices: 210200--210245 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
210190 CCACTGGTAC
210200 CGATACTG-ACCCTTCAGTAT
1 CGATACTGAACCC-TCAGTAT
*
210220 CGATACTGAACCCTGAGTAT
1 CGATACTGAACCCTCAGTAT
210240 CGATAC
1 CGATAC
210246 CCACCTCTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
CGATACTGAACCCTCAGTAT
Found at i:213742 original size:45 final size:45
Alignment explanation
Indices: 213687--213964 Score: 457
Period size: 45 Copynumber: 6.2 Consensus size: 45
213677 ATCAACATAT
*
213687 CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTA
1 CCAATATACTTACCATTTACTCCATAAGCTCGTAAGCTTATTTTA
* *
213732 CCAAAATACTTACCATTTACTCCATAAGTTCGTAAGCTTATTTTA
1 CCAATATACTTACCATTTACTCCATAAGCTCGTAAGCTTATTTTA
213777 CCAATATACTTACCATTTACTCCATAAGCTCGTAAGCTTATTTTA
1 CCAATATACTTACCATTTACTCCATAAGCTCGTAAGCTTATTTTA
* *
213822 CCAATATACTTACTATTTATTCCATAAGCTCGTAAGCTTATTTTA
1 CCAATATACTTACCATTTACTCCATAAGCTCGTAAGCTTATTTTA
* *
213867 CCAATATACTTTCCATTTACTCCATAAGCTCGTAAGTTTATTTTA
1 CCAATATACTTACCATTTACTCCATAAGCTCGTAAGCTTATTTTA
* * * *
213912 CCAATATACTTACTATTTATTCTATAAGCTTGTAAGCTTATTTTA
1 CCAATATACTTACCATTTACTCCATAAGCTCGTAAGCTTATTTTA
213957 CCAATATA
1 CCAATATA
213965 ATTGTCATTA
Statistics
Matches: 216, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 216 1.00
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (45 bp):
CCAATATACTTACCATTTACTCCATAAGCTCGTAAGCTTATTTTA
Found at i:213864 original size:25 final size:25
Alignment explanation
Indices: 213791--213864 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
213781 TATACTTACC
*
213791 ATTTACTCCATAAGCTCGTAAGCTT
1 ATTTATTCCATAAGCTCGTAAGCTT
*
213816 ATTT-TACCAATATA-CT--T-A-C-T
1 ATTTATTCC-ATA-AGCTCGTAAGCTT
213836 ATTTATTCCATAAGCTCGTAAGCTT
1 ATTTATTCCATAAGCTCGTAAGCTT
213861 ATTT
1 ATTT
213865 TACCAATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 18
0.64 0.05 0.31
Matches are distributed among these distances:
19 1 0.03
20 10 0.27
21 4 0.11
22 2 0.05
23 2 0.05
24 3 0.08
25 14 0.38
26 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (25 bp):
ATTTATTCCATAAGCTCGTAAGCTT
Found at i:213930 original size:135 final size:135
Alignment explanation
Indices: 213687--213998 Score: 475
Period size: 135 Copynumber: 2.3 Consensus size: 135
213677 ATCAACATAT
213687 CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAC
1 CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAC
*
213752 TCCATAAGTTCGTAAGCTTATTTTACCAATATACTTACCATTTACTCCATAAGCTCGTAAGCTTA
66 TCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTACTCCATAAGCTCGTAAGCTTA
213817 TTTTA
131 TTTTA
* * *
213822 CCAATATACTTACTATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTTCCATTTAC
1 CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAC
* * * * *
213887 TCCATAAGCTCGTAAGTTTATTTTACCAATATACTTACTATTTATTCTATAAGCTTGTAAGCTTA
66 TCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTACTCCATAAGCTCGTAAGCTTA
213952 TTTTA
131 TTTTA
* ** ** *
213957 CCAATATAATTGTCA-TTATT-CATAAGCTTTTAAGCTGATTTT
1 CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTT
213999 CATGTTTACC
Statistics
Matches: 161, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
133 19 0.12
134 5 0.03
135 137 0.85
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (135 bp):
CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAC
TCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTACTCCATAAGCTCGTAAGCTTA
TTTTA
Found at i:214146 original size:40 final size:40
Alignment explanation
Indices: 214102--214183 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
214092 ACCGTAGTTC
214102 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
214142 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
214182 TA
1 TA
214184 TAAACCTGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:220647 original size:36 final size:35
Alignment explanation
Indices: 220542--220649 Score: 198
Period size: 35 Copynumber: 3.1 Consensus size: 35
220532 TCCCCCTAAC
*
220542 TCGATTCTCTATCACCCAAATTTAAATCAAAGTGG
1 TCGATTCTTTATCACCCAAATTTAAATCAAAGTGG
220577 TCGATTCTTTATCACCCAAATTTAAATCAAAGTGG
1 TCGATTCTTTATCACCCAAATTTAAATCAAAGTGG
220612 TCGATTCTTTATCACCCAAATTTAAAATCAAAGTGG
1 TCGATTCTTTATCACCCAAATTT-AAATCAAAGTGG
220648 TC
1 TC
220650 AGACAAAATT
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
35 57 0.80
36 14 0.20
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (35 bp):
TCGATTCTTTATCACCCAAATTTAAATCAAAGTGG
Found at i:222282 original size:38 final size:38
Alignment explanation
Indices: 222240--222329 Score: 162
Period size: 38 Copynumber: 2.4 Consensus size: 38
222230 AAATATCCAC
*
222240 AAAATCATCCAAATCCACAACCAAAGTATGAAAACCAT
1 AAAATCATCCAAATCCAAAACCAAAGTATGAAAACCAT
*
222278 AAAATCATCCAAGTCCAAAACCAAAGTATGAAAACCAT
1 AAAATCATCCAAATCCAAAACCAAAGTATGAAAACCAT
222316 AAAATCATCCAAAT
1 AAAATCATCCAAAT
222330 ATCCAAACCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.17
Consensus pattern (38 bp):
AAAATCATCCAAATCCAAAACCAAAGTATGAAAACCAT
Found at i:223906 original size:2 final size:2
Alignment explanation
Indices: 223901--223926 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
223891 TGTGTGTGTG
223901 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
223927 GTGAAATCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:224658 original size:20 final size:20
Alignment explanation
Indices: 224587--224663 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
224577 AACGGTGCTA
* *
224587 TAAGAACAATAACGGTACTTG
1 TAAGAACAATATCGATA-TTG
*
224608 -AAGAACAATATCGGTATT-
1 TAAGAACAATATCGATATTG
*
224626 TGAAGAACTATATCGATATTG
1 T-AAGAACAATATCGATATTG
224647 TAAGAACAATATCGATA
1 TAAGAACAATATCGATA
224664 CTAAATCAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
19 2 0.04
20 46 0.94
21 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (20 bp):
TAAGAACAATATCGATATTG
Found at i:231155 original size:29 final size:29
Alignment explanation
Indices: 231089--231150 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
231079 TTTGAAAACA
*
231089 ATATTTTATAGTTTTTGAAAATATAATAT
1 ATATTATATAGTTTTTGAAAATATAATAT
*
231118 ATGTTATATAGTTTTT-AAAATA-AATAT
1 ATATTATATAGTTTTTGAAAATATAATAT
231145 ATATTA
1 ATATTA
231151 CATATTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 10 0.33
28 6 0.20
29 14 0.47
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (29 bp):
ATATTATATAGTTTTTGAAAATATAATAT
Found at i:234799 original size:29 final size:29
Alignment explanation
Indices: 234745--234800 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
234735 CATTTTAGAA
*
234745 AATATTTATCAATTAAAAATTCCAAAATT
1 AATATTTATCAATTAAAAATTACAAAATT
*
234774 AATATTTTTC-ATTAAAAATCTACAAAA
1 AATATTTATCAATTAAAAAT-TACAAAA
234801 CCAACCCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (29 bp):
AATATTTATCAATTAAAAATTACAAAATT
Found at i:244426 original size:21 final size:21
Alignment explanation
Indices: 244401--244442 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
244391 CCAGAATGGG
*
244401 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
244422 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
244443 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:244589 original size:19 final size:19
Alignment explanation
Indices: 244550--244595 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
244540 TCCTCGGGGC
* *
244550 ACTGTTCAAACAGTGATTT
1 ACTGTTCAAACAGTAAATT
*
244569 ACTGTTCAAATAGTAAATT
1 ACTGTTCAAACAGTAAATT
*
244588 ACTATTCA
1 ACTGTTCA
244596 TAAAAACATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
ACTGTTCAAACAGTAAATT
Found at i:244691 original size:29 final size:31
Alignment explanation
Indices: 244659--244718 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
244649 AAATTTTGAA
*
244659 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAATCATTTTG
244688 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1 TAAATTCAATTCAAGTCCAAAAATCATTTTG
244719 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAATCATTTTG
Found at i:248913 original size:44 final size:44
Alignment explanation
Indices: 248850--248938 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
248840 TGAATGACTG
248850 AACATTCAAATATGATGTACATGCCAAGGATAAAGAAAAACATA
1 AACATTCAAATATGATGTACATGCCAAGGATAAAGAAAAACATA
* * *
248894 AACATTCAAATATGATGTACATGCCAAGGCTAAAGGAAAGCATA
1 AACATTCAAATATGATGTACATGCCAAGGATAAAGAAAAACATA
248938 A
1 A
248939 CTAAATGCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (44 bp):
AACATTCAAATATGATGTACATGCCAAGGATAAAGAAAAACATA
Found at i:251069 original size:19 final size:20
Alignment explanation
Indices: 251024--251069 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
251014 AAATATTTAT
*
251024 TTTATTATTATAAAAAATCA
1 TTTAATATTATAAAAAATCA
251044 TAATTAATATT-TAAAAAATCA
1 T--TTAATATTATAAAAAATCA
251065 TTTAA
1 TTTAA
251070 ACACTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
21 11 0.48
22 7 0.30
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (20 bp):
TTTAATATTATAAAAAATCA
Found at i:252301 original size:19 final size:20
Alignment explanation
Indices: 252260--252303 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
252250 CTGCTTGTGT
252260 CTGTATGGCACATTAGTTCC
1 CTGTATGGCACATTAGTTCC
*
252280 CTGTAT-GCATCA-TAGTTGC
1 CTGTATGGCA-CATTAGTTCC
252299 CTGTA
1 CTGTA
252304 ATATGTAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (20 bp):
CTGTATGGCACATTAGTTCC
Found at i:252374 original size:36 final size:36
Alignment explanation
Indices: 252318--252510 Score: 210
Period size: 36 Copynumber: 5.4 Consensus size: 36
252308 GTAACTGTAT
* * * * * *
252318 GGCATATTTAGTGCCTTGTGATTGCAGCATAGGTGT
1 GGCACATTCAGTGCCCTGTGATTGCACCATAGATGC
*
252354 GACACATTCAGTGCCCTGTGATTGCACCATAGATGC
1 GGCACATTCAGTGCCCTGTGATTGCACCATAGATGC
*
252390 GGCACATTCAGTGCCCTGTGATTGCA-TAGTAGATGC
1 GGCACATTCAGTGCCCTGTGATTGCACCA-TAGATGC
* * * *
252426 GGCACATTCAGTGCCTTATGATTGCACCGTAGATGT
1 GGCACATTCAGTGCCCTGTGATTGCACCATAGATGC
* * * *
252462 GACACAGTT-AGTACACTGTGATTGCACCATAGGTGC
1 GGCACA-TTCAGTGCCCTGTGATTGCACCATAGATGC
252498 GGCACATTCAGTG
1 GGCACATTCAGTG
252511 TCATATGAAT
Statistics
Matches: 129, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
35 3 0.02
36 124 0.96
37 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (36 bp):
GGCACATTCAGTGCCCTGTGATTGCACCATAGATGC
Found at i:252808 original size:28 final size:28
Alignment explanation
Indices: 252764--252817 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
252754 ATACTTTAAC
252764 TAATATAATAAATTCATATTA-GTATAAA
1 TAATATAATAAATTCAT-TTACGTATAAA
*
252792 TAATATAA-AATTATCATTTACGTATA
1 TAATATAATAAAT-TCATTTACGTATA
252818 TTCGATTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (28 bp):
TAATATAATAAATTCATTTACGTATAAA
Found at i:256391 original size:24 final size:23
Alignment explanation
Indices: 256337--256392 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
256327 TCGAAACTTT
*
256337 CACATAGAATTACACCAAAGTGT
1 CACATAGAATTACACCAAAGTGC
* * * *
256360 CGCGTAGAATATTCACCGAAGTGC
1 CACATAGAAT-TACACCAAAGTGC
256384 CACATAGAA
1 CACATAGAA
256393 ATGTCCTGAA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (23 bp):
CACATAGAATTACACCAAAGTGC
Found at i:256409 original size:23 final size:24
Alignment explanation
Indices: 256375--256487 Score: 88
Period size: 23 Copynumber: 4.8 Consensus size: 24
256365 AGAATATTCA
*
256375 CCGAAGTG-CCACATAGAAA-TGTC
1 CCGAAG-GACCACGTAGAAATTGTC
* *
256398 CTGAAGGACCACGTATAAATTTGTC
1 CCGAAGGACCACGTAGAAA-TTGTC
*
256423 CCGAAGGACCACGTAGAATTTGTC
1 CCGAAGGACCACGTAGAAATTGTC
* * ** *
256447 CCAAAGAACCATATAG-AATTATC
1 CCGAAGGACCACGTAGAAATTGTC
* *
256470 CCGAATGACCACCTAGAA
1 CCGAAGGACCACGTAGAA
256488 CCCTCGACTC
Statistics
Matches: 69, Mismatches: 17, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
22 1 0.01
23 30 0.43
24 18 0.26
25 20 0.29
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (24 bp):
CCGAAGGACCACGTAGAAATTGTC
Found at i:256447 original size:24 final size:24
Alignment explanation
Indices: 256394--256487 Score: 91
Period size: 24 Copynumber: 3.9 Consensus size: 24
256384 CACATAGAAA
* *
256394 TGTCCTGAAGGACCACGTATAAATT
1 TGTCCCGAAGGACCACGTA-GAATT
256419 TGTCCCGAAGGACCACGTAGAATT
1 TGTCCCGAAGGACCACGTAGAATT
* * **
256443 TGTCCCAAAGAACCATATAGAA-T
1 TGTCCCGAAGGACCACGTAGAATT
* * *
256466 TATCCCGAATGACCACCTAGAA
1 TGTCCCGAAGGACCACGTAGAA
256488 CCCTCGACTC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
23 17 0.30
24 22 0.39
25 18 0.32
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (24 bp):
TGTCCCGAAGGACCACGTAGAATT
Found at i:263405 original size:24 final size:23
Alignment explanation
Indices: 263348--263406 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
263338 CAGCAGAAAC
*
263348 TGCCAAATAGAATTGCAACGAAG
1 TGCCACATAGAATTGCAACGAAG
* * *
263371 TGCCGCGTAGAATATGCACCGAAG
1 TGCCACATAGAAT-TGCAACGAAG
263395 TGCCACATAGAA
1 TGCCACATAGAA
263407 ATGTCCTGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (23 bp):
TGCCACATAGAATTGCAACGAAG
Found at i:263442 original size:25 final size:25
Alignment explanation
Indices: 263410--263478 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 25
263400 CATAGAAATG
263410 TCCTGAAGGACCGCATAGAAAATTT
1 TCCTGAAGGACCGCATAGAAAATTT
* *
263435 TCCTGAAGGACCGCGTAG-AATTTT
1 TCCTGAAGGACCGCATAGAAAATTT
* * *
263459 TCCCGAAAGACCACATAGAA
1 TCCTGAAGGACCGCATAGAA
263479 TTGTCCCGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 19 0.51
25 18 0.49
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (25 bp):
TCCTGAAGGACCGCATAGAAAATTT
Found at i:263470 original size:24 final size:23
Alignment explanation
Indices: 263400--263501 Score: 87
Period size: 23 Copynumber: 4.3 Consensus size: 23
263390 CGAAGTGCCA
* * *
263400 CATAGAAATGTCCTGAAGGACCG
1 CATAGAATTTTCCCGAAGGACCG
*
263423 CATAGAAAATTTTCCTGAAGGACCG
1 CATAG--AATTTTCCCGAAGGACCG
* * *
263448 CGTAGAATTTTTCCCGAAAGACCA
1 CATAGAA-TTTTCCCGAAGGACCG
* *
263472 CATAGAATTGTCCCGAAGGATCG
1 CATAGAATTTTCCCGAAGGACCG
*
263495 CGTAGAA
1 CATAGAA
263502 CCCTCGACTC
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
23 25 0.39
24 19 0.30
25 20 0.31
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (23 bp):
CATAGAATTTTCCCGAAGGACCG
Found at i:265223 original size:23 final size:23
Alignment explanation
Indices: 265197--265241 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
265187 CACCACAGCT
*
265197 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
265220 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
265242 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:265951 original size:21 final size:21
Alignment explanation
Indices: 265927--265969 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
265917 TTCATATTCG
* *
265927 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
265948 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
265969 T
1 T
265970 AGCCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:283759 original size:126 final size:126
Alignment explanation
Indices: 283534--283783 Score: 394
Period size: 126 Copynumber: 2.0 Consensus size: 126
283524 TTTTTGTGGT
* *
283534 TGTGCCACACAGTCTGAGGGTTGAACCGGACTCTAATACCACTAAATATAACCCTTAAATCCGAC
1 TGTGCCACACAGTCCGAGGGTTGAACCGGACTCTAATACCACTAAATATAACCCTTAAATCCAAC
283599 CTAAAAGAAATTAGATCAAATAGAGAGAGTCTAATTTAAATCAATTTCCCCCAAGTATGAC
66 CTAAAAGAAATTAGATCAAATAGAGAGAGTCTAATTTAAATCAATTTCCCCCAAGTATGAC
* * * *
283660 TGTGCCACACAGTCCGATGGTTGAA-CGAGACTCTAATACCACTAATTGTTACCCTTAAATCCAA
1 TGTGCCACACAGTCCGAGGGTTGAACCG-GACTCTAATACCACTAAATATAACCCTTAAATCCAA
* * **
283724 CCTAAAAGAAATTATATCGAATTTAGAGAGTCTAATTTAAATCAATTTCCCCCAAGTATG
65 CCTAAAAGAAATTAGATCAAATAGAGAGAGTCTAATTTAAATCAATTTCCCCCAAGTATG
283784 CCATGACCAT
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
125 2 0.02
126 111 0.98
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (126 bp):
TGTGCCACACAGTCCGAGGGTTGAACCGGACTCTAATACCACTAAATATAACCCTTAAATCCAAC
CTAAAAGAAATTAGATCAAATAGAGAGAGTCTAATTTAAATCAATTTCCCCCAAGTATGAC
Found at i:287523 original size:2 final size:2
Alignment explanation
Indices: 287506--287550 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
287496 ATATAACATT
*
287506 TC TC CC TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
287547 TC TC
1 TC TC
287551 GCCAAACTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:293140 original size:2 final size:2
Alignment explanation
Indices: 293133--293198 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
293123 GAGACCTTTC
293133 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
293175 TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
293199 AGGCTTAGGG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:299673 original size:226 final size:226
Alignment explanation
Indices: 298983--300133 Score: 1654
Period size: 226 Copynumber: 5.1 Consensus size: 226
298973 AAAAAATATT
* * ** *
298983 GACGATAACATAATCGGTTAATTATTGGAAACATTATCAATAATAATAACATATTAGGTAGGGCT
1 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * *
299048 TATGTAACATAATA-GTAAGCGCCTTTTTAAAGCTGATGGGGCCTTAAAAATCCGACGATAACAA
66 TATGTAACGTAATAGGT-AGCGCCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAA
* * *
299112 AATATGTTAATTACTTAATTTGTCATGAGTATTATCAACAAATTAGGTAACGCCTAAAATGTTAC
130 AATAGGTTAATTACTTAATTTGTCATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTAC
** *
299177 CAAAGTTTAAGCTGA-ACAGGCCTTAAAAATCC
195 CAAAGTTTAAGCTGATGGA-GCCTTAGAAATCC
* * *
299209 GACGATAAAATAACCGATTAATTACTGGAAACATTATCAAGCATAATAACATATTACGTAGCGCT
1 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* *
299274 TATGTAACGTAATAGGTAGTGCCTTTTTAAATCTGATGGGGCTTTAGAAATCCGA-GATAACAAA
66 TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAA
*
299338 ATAGGTTAATTACTTAATTTGTCATGAGCATTATCAACATATTAGGTAATGCCTAAAATGTTACC
131 ATAGGTTAATTACTTAATTTGTCATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACC
* *
299403 AAAGTTTAAGCTGATGTAGCCTTAGAAATTC
196 AAAGTTTAAGCTGATGGAGCCTTAGAAATCC
* *
299434 GATGATAACATAACCGGTTAATTATTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
1 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * *
299499 TATGTAAGGTAATAGGTAGCACCTTTTTAAAGATGATGGGGCTTTAGAAATCCGACGATAACAAA
66 TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAA
* * *
299564 ATAGGTTAATTACTTAATTTGTCATGAGTATTATCAATATATTATGTAATGCCTAAAATGTTTCC
131 ATAGGTTAATTACTTAATTTGTCATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACC
*
299629 AAAGTTTAAGCTGATGGAGCCTTAGAAATCT
196 AAAGTTTAAGCTGATGGAGCCTTAGAAATCC
*
299660 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTATGTAGCGCT
1 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * ** **
299725 TATGTAACGTAATAGGTAGCGCCTTTTGAAAGCTAATGGGGCTTTTTAAATCTAACGATAACAAA
66 TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAA
* * *
299790 ATAGGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAATGCCTAAAATGTTACC
131 ATAGGTTAATTACTTAATTTGTCATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACC
*
299855 AAAGTTTAAGCTGATGAAGCC-TAGAAATCC
196 AAAGTTTAAGCTGATGGAGCCTTAGAAATCC
* * * *
299885 GACGATAATATAACCGGTTAATTACTGGAAACAATATCAAGCATAATAACATATTAGGTAGTGAT
1 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
** * * * *
299950 TATGTAACGTAATAGGTAGCGTATTATTAAAGCTGATAGGGCCTTAGAAA-CCACACGATAACAA
66 TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAGAAATCC-GACGATAACAA
* * * *
300014 AATAGGTTAATTACTTAATTTGTTATCAATATTATCATCATATTAGGTAATGCCTAAAATGTT--
130 AATAGGTTAATTACTTAATTTGTCATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTAC
* *
300077 -AAAGTTTAAGCTCATGGAGCC-TATCAAATCC
195 CAAAGTTTAAGCTGATGGAGCCTTA-GAAATCC
* **
300108 GACGATAATATAACTAGTTAATTACT
1 GACGATAACATAACCGGTTAATTACT
300134 TTATTTGTTA
Statistics
Matches: 840, Mismatches: 80, Indels: 13
0.90 0.09 0.01
Matches are distributed among these distances:
222 21 0.03
223 30 0.04
224 1 0.00
225 386 0.46
226 400 0.48
227 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (226 bp):
GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAA
ATAGGTTAATTACTTAATTTGTCATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACC
AAAGTTTAAGCTGATGGAGCCTTAGAAATCC
Found at i:299882 original size:451 final size:451
Alignment explanation
Indices: 298983--300133 Score: 1681
Period size: 451 Copynumber: 2.6 Consensus size: 451
298973 AAAAAATATT
* ** *
298983 GACGATAACATAATCGGTTAATTATTGGAAACATTATCAATAATAATAACATATTAGGTAGGGCT
1 GACGATAACATAACCGGTTAATTATTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* *
299048 TATGTAACATAATA-GTAAGCGCCTTTTTAAAGCTGATGGGGCCTTAAAAATCCGACGATAACAA
66 TATGTAACGTAATAGGT-AGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATCCGACGATAACAA
* * * * *
299112 AATATGTTAATTACTTAATTTGTCATGAGTATTATCAACAAATTAGGTAACGCCTAAAATGTTAC
130 AATAGGTTAATTACTTAATTTGTCATGAGTATTATCAATATATTAGGTAATGCCTAAAATGTTTC
** *
299177 CAAAGTTTAAGCTGA-ACAGGCCTTAAAAATCCGACGATAAAATAACCGATTAATTACTGGAAAC
195 CAAAGTTTAAGCTGATGGA-GCCTTAAAAATCCGACGATAAAATAACCGGTTAATTACTGGAAAC
* * *
299241 ATTATCAAGCATAATAACATATTACGTAGCGCTTATGTAACGTAATAGGTAGTGCCTTTTTAAAT
259 ATTATCAAGCATAATAACATATTACGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTGAAAG
* * * *
299306 CTGATGGGGCTTTAGAAATCCGAGATAACAAAATAGGTTAATTACTTAATTTGTCATGAGCATTA
324 CTAATGGGGCTTTAGAAATCCAAGATAACAAAATAGGTTAATTACTTAATTTGTCATCAACATTA
* *
299371 TCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGTAGCCTTAGAAATTC
389 TCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTTAGAAATCC
*
299434 GATGATAACATAACCGGTTAATTATTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
1 GACGATAACATAACCGGTTAATTATTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * * *
299499 TATGTAAGGTAATAGGTAGCACCTTTTTAAAGATGATGGGGCTTTAGAAATCCGACGATAACAAA
66 TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATCCGACGATAACAAA
*
299564 ATAGGTTAATTACTTAATTTGTCATGAGTATTATCAATATATTATGTAATGCCTAAAATGTTTCC
131 ATAGGTTAATTACTTAATTTGTCATGAGTATTATCAATATATTAGGTAATGCCTAAAATGTTTCC
* * *
299629 AAAGTTTAAGCTGATGGAGCCTTAGAAATCTGACGATAACATAACCGGTTAATTACTGGAAACAT
196 AAAGTTTAAGCTGATGGAGCCTTAAAAATCCGACGATAAAATAACCGGTTAATTACTGGAAACAT
*
299694 TATCAAGCATAATAACATATTATGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTGAAAGCT
261 TATCAAGCATAATAACATATTACGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTGAAAGCT
** * * *
299759 AATGGGGCTTTTTAAATCTAACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAATATTAT
326 AATGGGGCTTTAGAAATCCAA-GATAACAAAATAGGTTAATTACTTAATTTGTCATCAACATTAT
299824 CAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCC-TAGAAATCC
390 CAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTTAGAAATCC
* * * * *
299885 GACGATAATATAACCGGTTAATTACTGGAAACAATATCAAGCATAATAACATATTAGGTAGTGAT
1 GACGATAACATAACCGGTTAATTATTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
** * * *
299950 TATGTAACGTAATAGGTAGCGTATTATTAAAGCTGATAGGGCCTTAGAAA-CCACACGATAACAA
66 TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATCC-GACGATAACAA
* * *
300014 AATAGGTTAATTACTTAATTTGTTATCAATATTATC-ATCATATTAGGTAATGCCTAAAATG-TT
130 AATAGGTTAATTACTTAATTTGTCATGAGTATTATCAAT-ATATTAGGTAATGCCTAAAATGTTT
* * * **
300077 --AAAGTTTAAGCTCATGGAGCC-TATCAAATCCGACGATAATATAACTAGTTAATTACT
194 CCAAAGTTTAAGCTGATGGAGCCTTA-AAAATCCGACGATAAAATAACCGGTTAATTACT
300134 TTATTTGTTA
Statistics
Matches: 631, Mismatches: 63, Indels: 15
0.89 0.09 0.02
Matches are distributed among these distances:
447 2 0.00
448 48 0.08
450 6 0.01
451 482 0.76
452 93 0.15
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (451 bp):
GACGATAACATAACCGGTTAATTATTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATCCGACGATAACAAA
ATAGGTTAATTACTTAATTTGTCATGAGTATTATCAATATATTAGGTAATGCCTAAAATGTTTCC
AAAGTTTAAGCTGATGGAGCCTTAAAAATCCGACGATAAAATAACCGGTTAATTACTGGAAACAT
TATCAAGCATAATAACATATTACGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTGAAAGCT
AATGGGGCTTTAGAAATCCAAGATAACAAAATAGGTTAATTACTTAATTTGTCATCAACATTATC
AACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTTAGAAATCC
Found at i:300537 original size:2 final size:2
Alignment explanation
Indices: 300525--300563 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
300515 GTTTCGAAAT
*
300525 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
300564 TTGTGTGTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:300570 original size:2 final size:2
Alignment explanation
Indices: 300565--300599 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
300555 TATATATATT
*
300565 TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
300600 ATCAGTACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:301699 original size:118 final size:117
Alignment explanation
Indices: 301577--302355 Score: 332
Period size: 118 Copynumber: 6.9 Consensus size: 117
301567 CAAGAATAAT
* *
301577 AACATATTACGTAGCGCTTATGTAACGTAATAGGTTGCACATTTTTAAATCTGATGGGGATTTAG
1 AACATATTACGTAGCGCTTATGTAACGTAATAGGTTGC-CATTTTTAAAGCTGATGGGGCTTTAG
* * * *
301642 AAATTTGACGATAACAAAATAGGTTAATTACTTAATTTTTCATGTGTATTATC
65 AAATCTGACGATAACAAAATAGGTTAATTACTTAATTTATCATGAGCATTATC
* * * * * * * *
301695 AACATA-T---TAG-G-TAATG---CCTAAAATGTTACCAATGTTT-AAGCTGATGGAGCCTTAG
1 AACATATTACGTAGCGCTTATGTAACGTAATAGGTTGCC-ATTTTTAAAGCTGATGGGGCTTTAG
* * ** * * * *
301750 AAATCTGATGATAACATAACCGTTTAAGTACTGGAAATATTATCA--AGCATAAT-
65 AAATCTGACGATAACAAAATAGGTTAATTACT--TAAT-TTATCATGAGCATTATC
* * *
301803 AACATGTTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCATTTTTAAAGCTGATGGGGCTTTAG
1 AACATATTACGTAGCGCTTATGTAACGTAATAGGTTGC-CATTTTTAAAGCTGATGGGGCTTTAG
* * * * *
301868 AAATCCGACGATAACAAAATAGGTAAATAAATTAATTTGTCATGAGCATTATC
65 AAATCTGACGATAACAAAATAGGTTAATTACTTAATTTATCATGAGCATTATC
* * * ** *
301921 AACATATTACGTA------ATG---CCTAA-ATGTTTCCAAAGTTT-AAGGTGATGGAGGC-TTA
1 AACATATTACGTAGCGCTTATGTAACGTAATAGGTTGCC-ATTTTTAAAGCTGATGG-GGCTTTA
* * * ** * * *
301974 GAAATCCGATGATAACATAACCGGTTAATTACTGGAAACATTATCA--AGCATAAT-
64 GAAATCTGACGATAACAAAATAGGTTAATTACT--TAA-TTTATCATGAGCATTATC
* * * * * * *
302028 AACATATTAGGTAGTGCTTATGTAACGTACTAGGTAGCGTC-TTTTTAAAGCTGATTGGACTTTT
1 AACATATTACGTAGCGCTTATGTAACGTAATAGGTTGC--CATTTTTAAAGCTGATGGGGCTTTA
* * * * **
302092 GAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAATATTATC
64 GAAATCTGACGATAACAAAATAGGTTAATTACTTAATTTATCATGAGCATTATC
* * * * ** * ** *
302146 AACATATTAGGTAACGC----CTAA---AAT--GTTACCAAAGTTT-AAGTTGATGAAGCCTT-G
1 AACATATTACGTAGCGCTTATGTAACGTAATAGGTTGCC-ATTTTTAAAGCTGATGGGGCTTTAG
** * *
302200 AAATCTGACGATAACATAACCA-GTTAATTACTGGAATCATTATCA-G-GCATAAT-
65 AAATCTGACGATAACA-AAATAGGTTAATTACT-TAAT--TTATCATGAGCATTATC
* * * * * * * * *
302253 AACATATTAGGTAGAGCTTATGTAACGTAAAAGGTAGCGTATTATTAAAGCTGTTAGGGCCTTAG
1 AACATATTACGTAGCGCTTATGTAACGTAATAGGTTGC-CATTTTTAAAGCTGATGGGGCTTTAG
** *
302318 AAATCACACTATAACAAAATAGGTTAATTACTTAATTT
65 AAATCTGACGATAACAAAATAGGTTAATTACTTAATTT
302356 GTTATCAAAA
Statistics
Matches: 469, Mismatches: 133, Indels: 121
0.65 0.18 0.17
Matches are distributed among these distances:
107 93 0.20
108 83 0.18
109 32 0.07
110 12 0.03
111 10 0.02
112 10 0.02
113 5 0.01
114 12 0.03
115 11 0.02
116 14 0.03
117 52 0.11
118 134 0.29
119 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (117 bp):
AACATATTACGTAGCGCTTATGTAACGTAATAGGTTGCCATTTTTAAAGCTGATGGGGCTTTAGA
AATCTGACGATAACAAAATAGGTTAATTACTTAATTTATCATGAGCATTATC
Found at i:302064 original size:225 final size:226
Alignment explanation
Indices: 301382--302446 Score: 1413
Period size: 225 Copynumber: 4.7 Consensus size: 226
301372 AATAACATAT
* * *
301382 TAGGTAGCACCTTTTTAAAGCTGAT-GGGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTA
1 TAGGTAGCGCATTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATAGGTTAATTA
* * **
301446 CTTAATTTGTTAAGAGTATTATAAACATATTAGGTAACACCTAAAATGTTACCAAAGTTTAAGCT
66 CTTAATTTGTTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCT
* * ** ** * *
301511 AATGAAGCCTTAGAAATCCGGCGATAACATAACATGTTAATTACTGTAAACATTATCAAGAATAA
131 GATGGAGCCTTAGAAATCCGATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAA
*
301576 TAACATATTACGTAGCGCTTATGTAACGTAA
196 TAACATATTAGGTAGCGCTTATGTAACGTAA
* * * * **
301607 TAGGTTGCACATTTTTAAATCTGATGGGGATTTAGAAATTTGACGATAACAAAATAGGTTAATTA
1 TAGGTAGCGCATTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATAGGTTAATTA
* *
301672 CTTAATTT-TTCATGTGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAATGTTTAAGC
66 CTTAATTTGTT-ATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGC
* * * *
301736 TGATGGAGCCTTAGAAATCTGATGATAACATAACCGTTTAAGTACTGGAAATATTATCAAGCATA
130 TGATGGAGCCTTAGAAATCCGATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATA
*
301801 ATAACATGTTAGGTAGCGCTTATGTAACGTAA
195 ATAACATATTAGGTAGCGCTTATGTAACGTAA
* *
301833 TAGGTAGCGCATTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATAGGTAAATAA
1 TAGGTAGCGCATTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATAGGTTAATTA
* * * * * *
301898 ATTAATTTGTCATGAGCATTATCAACATATTACGTAATGCCT-AAATGTTTCCAAAGTTTAAGGT
66 CTTAATTTGTTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCT
*
301962 GATGGAGGCTTAGAAATCCGATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAA
131 GATGGAGCCTTAGAAATCCGATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAA
* *
302027 TAACATATTAGGTAGTGCTTATGTAACGTAC
196 TAACATATTAGGTAGCGCTTATGTAACGTAA
* * *
302058 TAGGTAGCGTC-TTTTTAAAGCTGATTGGACTTTTGAAATCCGACGATAACAAAATAGGTTAATT
1 TAGGTAGCG-CATTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATAGGTTAATT
* * * *
302122 ACTTAATTTGTTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGT
65 ACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGC
* * * * * *
302187 TGATGAAGCCTT-GAAATCTGACGATAACATAACCAGTTAATTACTGGAATCATTATCAGGCATA
130 TGATGGAGCCTTAGAAATCCGATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATA
*
302251 ATAACATATTAGGTAGAGCTTATGTAACGTAA
195 ATAACATATTAGGTAGCGCTTATGTAACGTAA
* * * * * * *
302283 AAGGTAGCGTATTATTAAAGCTGTTAGGGCCTTAGAAATCAC-ACTATAACAAAATAGGTTAATT
1 TAGGTAGCGCATTTTTAAAGCTGATGGGGCTTTAGAAATC-CGACGATAACAAAATAGGTTAATT
* ** * * * **
302347 ACTTAATTTGTTATCAAAATTATCATCGTATTAGGTAATGCTTAAAATGTTAAGAAAGTTTAAGC
65 ACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGC
* * *
302412 TGATGGAGCCTGACAAATCCGATAATAACATAACC
130 TGATGGAGCCTTAGAAATCCGATGATAACATAACC
302447 AATTAGTTAC
Statistics
Matches: 735, Mismatches: 97, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
225 420 0.57
226 314 0.43
227 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (226 bp):
TAGGTAGCGCATTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATAGGTTAATTA
CTTAATTTGTTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCT
GATGGAGCCTTAGAAATCCGATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAA
TAACATATTAGGTAGCGCTTATGTAACGTAA
Found at i:302397 original size:451 final size:451
Alignment explanation
Indices: 301396--302446 Score: 1434
Period size: 451 Copynumber: 2.3 Consensus size: 451
301386 TAGCACCTTT
*
301396 TTAAAGCTGATGGGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTAAGA
1 TTAAAGCTGATGGGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATGA
* * ** * *
301461 GTATTATAAACATATTAGGTAACACCTAAAATGTTACCAAAGTTTAAGCTAATGAAGCCTTAGAA
66 GAATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAGAA
** ** *
301526 ATCCGGCGATAACATAACATGTTAATTACTGTAAACATTATCAAGAATAATAACATATTACGTAG
131 ATCCGATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGAATAATAACATATTACGTAG
* * **
301591 CGCTTATGTAACGTAATAGGTTGCACATTTTTAAATCTGATGGGGATTTAGAAATTTGACGATAA
196 CGCTTATGTAACGTAATAGGTAGCACATTTTTAAAGCTGATGGGGATTTAGAAATCCGACGATAA
*** *
301656 CAAAATAGGTTAATTACTTAATTTTTCATGTGTATTATCAACATATTAGGTAATGCCTAAAATGT
261 CAAAATAGGTTAATTACTTAATTTTTCATCAATATTATCAACATATTAGGTAACGCCTAAAATGT
* * *
301721 TACCAATGTTTAAGCTGATGGAGCCTTAGAAATCTGATGATAACATAACCGTTTAAGTACTGGAA
326 TACCAAAGTTTAAGCTGATGAAGCCTTAGAAATCTGACGATAACATAACCGTTTAAGTACTGGAA
* * * *
301786 ATATTATCAAGCATAATAACATGTTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCATTT
391 ATATTATCAAGCATAATAACATATTAGGTAGAGCTTATGTAACGTAAAAGGTAGCGCATTA
* * * * *
301847 TTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATAGGTAAATAAATTAATTTGTCATG
1 TTAAAGCTGAT-GGGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATG
* * * * *
301912 AGCATTATCAACATATTACGTAATGCCT-AAATGTTTCCAAAGTTTAAGGTGATGGAGGCTTAGA
65 AGAATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAGA
* *
301976 AATCCGATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTA
130 AATCCGATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGAATAATAACATATTACGTA
* * * * *
302041 GTGCTTATGTAACGTACTAGGTAGCGTC-TTTTTAAAGCTGAT-TGGACTTTTGAAATCCGACGA
195 GCGCTTATGTAACGTAATAGGTAGC-ACATTTTTAAAGCTGATGGGGA-TTTAGAAATCCGACGA
302104 TAACAAAATAGGTTAATTACTTAATTTGTT-ATCAATATTATCAACATATTAGGTAACGCCTAAA
258 TAACAAAATAGGTTAATTACTTAATTT-TTCATCAATATTATCAACATATTAGGTAACGCCTAAA
* *
302168 ATGTTACCAAAGTTTAAGTTGATGAAGCCTT-GAAATCTGACGATAACATAACCAG-TTAATTAC
322 ATGTTACCAAAGTTTAAGCTGATGAAGCCTTAGAAATCTGACGATAACATAACC-GTTTAAGTAC
* *
302231 TGG-AATCATTATCAGGCATAATAACATATTAGGTAGAGCTTATGTAACGTAAAAGGTAGCGTAT
386 TGGAAAT-ATTATCAAGCATAATAACATATTAGGTAGAGCTTATGTAACGTAAAAGGTAGCGCAT
302295 TA
450 TA
* *
302297 TTAAAGCTGTTAGGGCCTTAGAAATCAC-ACTATAACAAAATAGGTTAATTACTTAATTTGTTAT
1 TTAAAGCTGAT-GGGCCTTAGAAATC-CGACGATAACAAAATAGGTTAATTACTTAATTTGTTAT
* * * * * ** * *
302361 CAAAATTATCATCGTATTAGGTAATGCTTAAAATGTTAAGAAAGTTTAAGCTGATGGAGCCTGAC
64 GAGAATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAG
*
302426 AAATCCGATAATAACATAACC
129 AAATCCGATGATAACATAACC
302447 AATTAGTTAC
Statistics
Matches: 522, Mismatches: 70, Indels: 16
0.86 0.12 0.03
Matches are distributed among these distances:
449 3 0.01
450 163 0.31
451 283 0.54
452 73 0.14
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (451 bp):
TTAAAGCTGATGGGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATGA
GAATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAGAA
ATCCGATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGAATAATAACATATTACGTAG
CGCTTATGTAACGTAATAGGTAGCACATTTTTAAAGCTGATGGGGATTTAGAAATCCGACGATAA
CAAAATAGGTTAATTACTTAATTTTTCATCAATATTATCAACATATTAGGTAACGCCTAAAATGT
TACCAAAGTTTAAGCTGATGAAGCCTTAGAAATCTGACGATAACATAACCGTTTAAGTACTGGAA
ATATTATCAAGCATAATAACATATTAGGTAGAGCTTATGTAACGTAAAAGGTAGCGCATTA
Found at i:302599 original size:2 final size:2
Alignment explanation
Indices: 302587--302617 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
302577 GTTTCAAAAT
*
302587 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
302618 CGATACATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:302870 original size:9 final size:9
Alignment explanation
Indices: 302856--302893 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
302846 AAAGTATAAG
302856 TATATAATA
1 TATATAATA
*
302865 TATATAAAA
1 TATATAATA
302874 TATAT-ATA
1 TATATAATA
*
302882 TACATAATA
1 TATATAATA
302891 TAT
1 TAT
302894 CTCTGTGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
8 6 0.25
9 18 0.75
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (9 bp):
TATATAATA
Found at i:302878 original size:13 final size:15
Alignment explanation
Indices: 302862--302893 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
302852 TAAGTATATA
302862 ATATATATA-A-AAT
1 ATATATATACATAAT
302875 ATATATATACATAAT
1 ATATATATACATAAT
302890 ATAT
1 ATAT
302894 CTCTGTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 1 0.06
15 7 0.41
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATATATACATAAT
Found at i:304069 original size:118 final size:118
Alignment explanation
Indices: 303921--304169 Score: 320
Period size: 118 Copynumber: 2.1 Consensus size: 118
303911 CATGCATAAT
* * * * * *
303921 AACATATTACGTAGCTCTTTTGTAAAGTAATAGGTAGC-ACATTTTTAAATATGATGGGGATTTA
1 AACATATTAGGTAGCGCTTATGTAAAGTAATAGGTAGCGAC-TTTTTAAAGATGACGGGGACTTA
* * *
303985 GAAATCCAATGATAACAAAATAGGTTAATTATTTAATTTTTCATGTGTATTATC
65 GAAATCCAACGATAACAAAATAGGTTAATTACTTAATTTTTCATGAGTATTATC
** * * *
304039 AACATATTAGGTAGCGCTTATGTAGCGTAATAGGTAGCGTCTTTTTAAAGCTGACGGGGCCTTAG
1 AACATATTAGGTAGCGCTTATGTAAAGTAATAGGTAGCGACTTTTTAAAGATGACGGGGACTTAG
** * *
304104 AAATCTGACGATAACAAAATATGTTAATTACTTAATTTTTCTTGAGTATTATC
66 AAATCCAACGATAACAAAATAGGTTAATTACTTAATTTTTCATGAGTATTATC
304157 AACATATTAGGTA
1 AACATATTAGGTA
304170 ACACATAAAA
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
118 111 0.99
119 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (118 bp):
AACATATTAGGTAGCGCTTATGTAAAGTAATAGGTAGCGACTTTTTAAAGATGACGGGGACTTAG
AAATCCAACGATAACAAAATAGGTTAATTACTTAATTTTTCATGAGTATTATC
Found at i:304202 original size:226 final size:226
Alignment explanation
Indices: 304039--306533 Score: 2242
Period size: 226 Copynumber: 11.1 Consensus size: 226
304029 GTGTATTATC
* * * *
304039 AACATATTAGGTAGCGCTTATGTAGCGTAATAGGTAGCGTCTTTTTAAAGCTGACGGGGCCTTAG
1 AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAG
* * *
304104 AAATCTGACGATAACAAAATATGTTAATTACTTAATTTTTCTTGAGTATTATCAACATATTAGGT
66 AAATCCGACGATAACAAAATAGGTTAATTACTTAATTTTTCATGAGTATTATCAACATATTAGGT
* * * * *
304169 AACACATAAAATGTTACCAAAGTTT-AGTATGATGAAGCCTTCGAAAT-AAGACGATAACATAAC
131 AACGCATAAAATGTTACCAAAGTTTAAGTATGATGGAGCCTTAGAAATCCA-ACGATAACAAAAC
*
304232 TGGTTAATTAATGGAAACATTATCAAGCATAAT
195 CGGTTAATT-ATGGAAACATTATCAAGCATAAT
** * * ** *
304265 AACATATTACATAGCGTTTATGTAACGTAATAGGTAGTGCCTTTTTAAATTTGATGGGGATTTAG
1 AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAG
* * * *
304330 AAATCCGACGATAACAAAATAGGTTAATTAATTAATTTTCCATGTGTATTATCAATATATTAGGT
66 AAATCCGACGATAACAAAATAGGTTAATTACTTAATTTTTCATGAGTATTATCAACATATTAGGT
* * * *** *
304395 AATGCCTAAAATGTTACCAAAGTTTAAG-CTGATGGAGCCTTAGAAATTTGACGATAACATAACC
131 AACGCATAAAATGTTACCAAAGTTTAAGTATGATGGAGCCTTAGAAATCCAACGATAACAAAACC
304459 GGTTAATTACTGGAAACATTATCAAGCATAAT
196 GGTTAATTA-TGGAAACATTATCAAGCATAAT
* * ** * *
304491 AACATTTTATGTAGCGCTTATGTAGTGTAATAGGTAGCACCTTTTTAAATCTGATGGGGCTTTAG
1 AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAG
* * * * *
304556 AAATCCGACTATAACAAAATAGGTAAATTACTTAATTTTTCATGAGCATTATCAACATATTACGA
66 AAATCCGACGATAACAAAATAGGTTAATTACTTAATTTTTCATGAGTATTATCAACATATTAGGT
* * * * * *
304621 AATGCATAAAATGTTTCCAAACTTTAAG-CTGATGGAGCCTTAGAAATCCGACGATAACAAAGCC
131 AACGCATAAAATGTTACCAAAGTTTAAGTATGATGGAGCCTTAGAAATCCAACGATAACAAAACC
304685 GGTTAATTATTGGAAACATTATCAAGCATAAT
196 GGTTAATTA-TGGAAACATTATCAAGCATAAT
* * * * * * *
304717 AACATATTAGGTAGTGCTTATATAACGTACTAGGTAGCGTCTTTTTAAAGCTGATTGGACTTTTG
1 AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAG
* *
304782 AAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTT-ATCAATATTATCAACATATTAGG
66 AAATCCGACGATAACAAAATAGGTTAATTACTTAATTT-TTCATGAGTATTATCAACATATTAGG
* * ** *
304846 TAACGCCTAAAATGTTACCAAAGTTTAAGT-TGATGAAGCCTT-GAAATCTGGA-GATAACATAA
130 TAACGCATAAAATGTTACCAAAGTTTAAGTATGATGGAGCCTTAGAAATC-CAACGATAACAAAA
* * *
304908 CCAGTTAATTACTGGAATCATTATCAGGCATAAT
194 CCGGTTAATTA-TGGAAACATTATCAAGCATAAT
* * * * ** * ** * *
304942 AACATATTAGGTAGCGCCTT-TTTAAAGCTGAT-GG--G-G-ATTTAGAAATCAAAT---GATAA
1 AACATATTAGGTAGCG-CTTATGTAACG-TAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCT-T
* * * * ** * * * * *
304998 TA-AAAT---A-GGT---TAATTA-CTTAATT--TTCCTTGTGT-AT---TATCAACATA-TTAG
63 TAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATT-TTTCATGAGTATTATCA-ACATAT
* * * * * *
305047 ---GTAATGCCTACAATGTTACCAAAGTTTAAG-CTGATGGAGCCTTAGAAATCCGACAATAACA
126 TAGGTAACGCATAAAATGTTACCAAAGTTTAAGTATGATGGAGCCTTAGAAATCCAACGATAACA
* *
305108 TAACCAGTTAATTACTGGAAACATTATCAAGCATAAT
191 AAACCGGTTAATTA-TGGAAACATTATCAAGCATAAT
* * *
305145 AAC-TATTAGGTAGCGCTTATGTAACATAATAGGTAGCGTCTTTTTAAAGCTGATGTGG-TATTA
1 AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCT-TTA
* * * * *
305208 GAAATCTGACGATAACAAAATAGGTAAATTACTTAATTTATCATGAGCATTATCAACATATTACG
65 GAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTTTCATGAGTATTATCAACATATTAGG
* * * * *
305273 CAAAGCCTAAAATGTTTCCAAAGTTTAAG-CTGATGGAGCCTTAGAAATCCAACGATAACAAAAC
130 TAACGCATAAAATGTTACCAAAGTTTAAGTATGATGGAGCCTTAGAAATCCAACGATAACAAAAC
*
305337 TGGTTAATTACTGGAAACATTATCAAGCATAAT
195 CGGTTAATTA-TGGAAACATTATCAAGCATAAT
* * * * * * *
305370 AACATATTAGGTAGTGCTTATATAACGTACTAGGTAGCGTCTTTTTAAAGCTGATTGGACTTTTG
1 AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAG
* *
305435 AAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTT-ATCAATATTATCAACATATTAGG
66 AAATCCGACGATAACAAAATAGGTTAATTACTTAATTT-TTCATGAGTATTATCAACATATTAGG
* * * ** *
305499 CAACGCCTAAAATGTTACCAAAGTTTAAGT-TGATGAAGCCTT-GAAATCTGACGATAACATAAC
130 TAACGCATAAAATGTTACCAAAGTTTAAGTATGATGGAGCCTTAGAAATCCAACGATAACAAAAC
* *
305562 CAGTTAATTACTGGAATA-ATTATCAGGCATAAT
195 CGGTTAATTA-TGGAA-ACATTATCAAGCATAAT
* * * * * *** * * * * *
305595 AACATATTAGGTAGTGCTTATGAAATGTAAAAAGTAGCGTAATATTAAAGCTGTTTGGGCCTTAA
1 AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAG
* * * *
305660 AAATCAC-ATGATAACAAAATAGGTTAATTACTTAATTTGTTAAATGA-T-TTCACCGAAAAATA
66 AAATC-CGACGATAACAAAATAGGTTAATTACTTAATTT-TT-CATGAGTATT-ATC--AACATA
* ** * * * ** * *
305722 TCTTTTGAGT-TGGTTATAGTAATGGTAATAACCAGTTATGTTATATTTCT-ATGGAAATTGCGT
125 ---TTAG-GTAACG-CATA-AAAT-GT--T-ACCA---AAGTT-TAAGTATGATGG--A--GCCT
* * ** * * * *
305785 AAAAAAATATTAACGATAACATATCCGATTAATTACTGGAAACA-TATCAAGTATAAT
172 -TAGAAAT-CCAACGATAACAAAACCGGTTAATTA-TGGAAACATTATCAAGCATAAT
* * * *
305842 AACATATTAGGTAGCGCTTATGTAACGTAATATGTAGCACATTTTTAAAGCTGATGGGGCCTTAG
1 AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAG
*
305907 AAATCTGACGATAACAAAATAGGTTAATTACTTAATTTGTT-ATGAGTATTATCAACATATTAGG
66 AAATCCGACGATAACAAAATAGGTTAATTACTTAATTT-TTCATGAGTATTATCAACATATTAGG
** * * * * *
305971 TAATACCTAAAATGTTACCAAAGTTTAAG-CTGATGAAGCCTTAGAAATCCGACGATAACATAAC
130 TAACGCATAAAATGTTACCAAAGTTTAAGTATGATGGAGCCTTAGAAATCCAACGATAACAAAAC
** *
306035 AAGTTAATTACTGGAAACATTATCAAGAATAAT
195 CGGTTAATTA-TGGAAACATTATCAAGCATAAT
* ** * * *
306068 AACAAATTAGGTAGCGCTTATGTAGTGTAATAGGTAGCACCTTTTTAAATCTGATGGGGCTTTTG
1 AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAG
* * * * * *
306133 AAATCCGACGATAACAAAATAGGTAAATTAATTAATTTGTCATGAGCATTATCAATATATTACGT
66 AAATCCGACGATAACAAAATAGGTTAATTACTTAATTTTTCATGAGTATTATCAACATATTAGGT
** * * * *
306198 AATACATAAAATGTTTCCAAAGTTTAAG-CTGATGGAGCCTTAGAAATCCGATGATAACAAAACC
131 AACGCATAAAATGTTACCAAAGTTTAAGTATGATGGAGCCTTAGAAATCCAACGATAACAAAACC
*
306262 GATTAATTACTGGAAACATTATCAAGCATAAT
196 GGTTAATTA-TGGAAACATTATCAAGCATAAT
* * *
306294 AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATTGGACTTTTG
1 AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAG
* * *
306359 AAATCCGACGATAACAAAATA-GTATAATTACTTAAATTGTT-ATCAATATTATCAACATATTAG
66 AAATCCGACGATAACAAAATAGGT-TAATTACTT-AATTTTTCATGAGTATTATCAACATATTAG
* * ** ** * *
306422 GTAACGCCTAAAATGTTACCAAAGTTTAAG-CTGAT-GAAACTTAGAAATCTGATGATAACATAA
129 GTAACGCATAAAATGTTACCAAAGTTTAAGTATGATGGAGCCTTAGAAATCCAACGATAACAAAA
*
306485 CCAGTTAATTACTGGAAACATTATCAAGCATAAT
194 CCGGTTAATTA-TGGAAACATTATCAAGCATAAT
306519 AACATATTAGGTAGC
1 AACATATTAGGTAGC
306534 TCTTTTTAAA
Statistics
Matches: 1881, Mismatches: 303, Indels: 171
0.80 0.13 0.07
Matches are distributed among these distances:
201 6 0.00
202 59 0.03
203 50 0.03
204 1 0.00
205 9 0.00
206 10 0.01
208 11 0.01
209 6 0.00
210 6 0.00
211 4 0.00
212 1 0.00
213 2 0.00
214 2 0.00
215 1 0.00
216 4 0.00
217 5 0.00
218 7 0.00
219 7 0.00
221 10 0.01
222 8 0.00
223 1 0.00
225 398 0.21
226 1041 0.55
227 17 0.01
228 5 0.00
229 1 0.00
230 2 0.00
231 9 0.00
232 7 0.00
233 3 0.00
234 2 0.00
235 4 0.00
236 2 0.00
237 4 0.00
238 2 0.00
239 3 0.00
240 8 0.00
241 9 0.00
242 1 0.00
243 1 0.00
244 5 0.00
245 7 0.00
246 3 0.00
247 109 0.06
248 28 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (226 bp):
AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAG
AAATCCGACGATAACAAAATAGGTTAATTACTTAATTTTTCATGAGTATTATCAACATATTAGGT
AACGCATAAAATGTTACCAAAGTTTAAGTATGATGGAGCCTTAGAAATCCAACGATAACAAAACC
GGTTAATTATGGAAACATTATCAAGCATAAT
Found at i:304297 original size:344 final size:344
Alignment explanation
Indices: 303695--304395 Score: 1084
Period size: 344 Copynumber: 2.0 Consensus size: 344
303685 CAAGTATAAT
* *
303695 AACATATTAGGTAGTGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAACTGATGGGGCCTTAG
1 AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAACTGACGGGGCCTTAG
*
303760 AAATCCGACGATAACAAAATAGGTTAATTTCTTAATTTTTTATGAGTATTATCAACATATTAGGT
66 AAATCCGACGATAACAAAATAGGTTAATTACTTAATTTTTTATGAGTATTATCAACATATTAGGT
* * * * **
303825 AATACCTTAAATGTTACCAAAGTTTAAGCTGATGAAGCCTTAGAAATTCGACGATAACATAACCG
131 AACACATAAAATGTTACCAAAGTTTAAGATGATGAAGCCTTAGAAATAAGACGATAACATAACCG
* * * *
303890 GTTAATTACTGGAAACATTATCATGCATAATAACATATTACGTAGCTCTTTTGTAAAGTAATAGG
196 GTTAATTAATGGAAACATTATCAAGCATAATAACATATTACATAGCTCTTATGTAAAGTAATAGG
* *
303955 TAGCACATTTTTAAATATGATGGGGATTTAGAAATCCAATGATAACAAAATAGGTTAATTATTTA
261 TAGCACATTTTTAAATATGATGGGGATTTAGAAATCCAACGATAACAAAATAGGTTAATTAATTA
*
304020 ATTTTTCATGTGTATTATC
326 ATTTTCCATGTGTATTATC
* * *
304039 AACATATTAGGTAGCGCTTATGTAGCGTAATAGGTAGCGTCTTTTTAAAGCTGACGGGGCCTTAG
1 AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAACTGACGGGGCCTTAG
* *
304104 AAATCTGACGATAACAAAATATGTTAATTACTTAATTTTTCT-TGAGTATTATCAACATATTAGG
66 AAATCCGACGATAACAAAATAGGTTAATTACTTAATTTTT-TATGAGTATTATCAACATATTAGG
*
304168 TAACACATAAAATGTTACCAAAGTTT-AGTATGATGAAGCCTTCGAAATAAGACGATAACATAAC
130 TAACACATAAAATGTTACCAAAGTTTAAG-ATGATGAAGCCTTAGAAATAAGACGATAACATAAC
* *
304232 TGGTTAATTAATGGAAACATTATCAAGCATAATAACATATTACATAGCGT-TTATGTAACGTAAT
194 CGGTTAATTAATGGAAACATTATCAAGCATAATAACATATTACATAGC-TCTTATGTAAAGTAAT
** * * *
304296 AGGTAGTGCCTTTTTAAATTTGATGGGGATTTAGAAATCCGACGATAACAAAATAGGTTAATTAA
258 AGGTAGCACATTTTTAAATATGATGGGGATTTAGAAATCCAACGATAACAAAATAGGTTAATTAA
304361 TTAATTTTCCATGTGTATTATC
323 TTAATTTTCCATGTGTATTATC
*
304383 AATATATTAGGTA
1 AACATATTAGGTA
304396 ATGCCTAAAA
Statistics
Matches: 324, Mismatches: 30, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
343 2 0.01
344 320 0.99
345 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (344 bp):
AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAACTGACGGGGCCTTAG
AAATCCGACGATAACAAAATAGGTTAATTACTTAATTTTTTATGAGTATTATCAACATATTAGGT
AACACATAAAATGTTACCAAAGTTTAAGATGATGAAGCCTTAGAAATAAGACGATAACATAACCG
GTTAATTAATGGAAACATTATCAAGCATAATAACATATTACATAGCTCTTATGTAAAGTAATAGG
TAGCACATTTTTAAATATGATGGGGATTTAGAAATCCAACGATAACAAAATAGGTTAATTAATTA
ATTTTCCATGTGTATTATC
Found at i:304797 original size:570 final size:565
Alignment explanation
Indices: 303648--304729 Score: 1437
Period size: 570 Copynumber: 1.9 Consensus size: 565
303638 AAAAAATATT
* * * ** *
303648 GACGATAACATAAGC-GATTAATTACTGGAAACATTATCAAGTATAATAACATATTAGGTAGTGC
1 GACGATAACATAA-CTGGTTAATTAATGGAAACATTATCAAGCATAATAACATATTACATAGCGC
*
303712 TTATGTAACGTAATAGGTAGCGCCTTTTTAAAACTGATGGGGCCTTAGAAATCCGACGATAACAA
65 TTATGTAACGTAATAGGTAGCGCCTTTTTAAAACTGATGGGGACTTAGAAATCCGACGATAACAA
** ** *
303777 AATAGGTTAATTTCTTAATTTTTTATGAGTATTATCAACATATTAGGTAATACCTTAAATGTTAC
130 AATAGGTTAATTAATTAATTTTCCATGAGTATTATCAACATATTAGGTAATACCTAAAATGTTAC
303842 CAAAGTTTAAGCTGATGAAGCCTTAGAAATTCGACGATAACATAACCGGTTAATTACTGGAAACA
195 CAAAGTTTAAGCTGATGAAGCCTTAGAAATTCGACGATAACATAACCGGTTAATTACTGGAAACA
* * *
303907 TTATCATGCATAATAACATATTACGTAGCTCTTTTGTAAAGTAATAGGTAGCACATTTTTAAATA
260 TTATCAAGCATAATAACATATTACGTAGCGCTTATGTAAAGTAATAGGTAGCACATTTTTAAATA
* * * *
303972 TGATGGGGATTTAGAAATCCAATGATAACAAAATAGGTTAATTATTTAATTTTTCATGTGTATTA
325 TGATGGGGATTTAGAAATCCAATGATAACAAAATAGGTAAATTACTTAATTTTTCATGAGCATTA
* * * * * ** *
304037 TCAACATATTAGGTAGCGCTTATGTAGCGTAATAGGTAGCGTCTTTTTAAAGCTGACGGGGCCTT
390 TCAACATATTACGAAACGC-TA-GTA--GAAATAGGTACCAAC-TTTTAAAGCTGACGGAGCCTT
* * * *** * ** * *
304102 AGAAATCTGACGATAACAAAATATGTTAATTACTTAATTTTTCTTGAGTATTATCAACATATTAG
450 AGAAATCCGACGATAACAAAACAGGTTAATTACTTAAACATTATCAAGCATAATCAACATATTAG
*
304167 GTAACACATAAAATGTTACCAAAGTTTAGTATGATGAAGCCTTCGAAATAA
515 GTAACACATAAAACGTTACCAAAGTTTAGTATGATGAAGCCTTCGAAATAA
*
304218 GACGATAACATAACTGGTTAATTAATGGAAACATTATCAAGCATAATAACATATTACATAGCGTT
1 GACGATAACATAACTGGTTAATTAATGGAAACATTATCAAGCATAATAACATATTACATAGCGCT
* ** *
304283 TATGTAACGTAATAGGTAGTGCCTTTTTAAATTTGATGGGGATTTAGAAATCCGACGATAACAAA
66 TATGTAACGTAATAGGTAGCGCCTTTTTAAAACTGATGGGGACTTAGAAATCCGACGATAACAAA
* * *
304348 ATAGGTTAATTAATTAATTTTCCATGTGTATTATCAATATATTAGGTAATGCCTAAAATGTTACC
131 ATAGGTTAATTAATTAATTTTCCATGAGTATTATCAACATATTAGGTAATACCTAAAATGTTACC
* *
304413 AAAGTTTAAGCTGATGGAGCCTTAGAAATTTGACGATAACATAACCGGTTAATTACTGGAAACAT
196 AAAGTTTAAGCTGATGAAGCCTTAGAAATTCGACGATAACATAACCGGTTAATTACTGGAAACAT
* * ** * *
304478 TATCAAGCATAATAACATTTTATGTAGCGCTTATGTAGTGTAATAGGTAGCACCTTTTTAAATCT
261 TATCAAGCATAATAACATATTACGTAGCGCTTATGTAAAGTAATAGGTAGCACATTTTTAAATAT
* *
304543 GATGGGGCTTTAGAAATCCGACT-ATAACAAAATAGGTAAATTACTTAATTTTTCATGAGCATTA
326 GATGGGGATTTAGAAATCC-AATGATAACAAAATAGGTAAATTACTTAATTTTTCATGAGCATTA
* * * *
304607 TCAACATATTACGAAATGC-A-TA-AAAT-GTTTCCAAAC-TTT-AAGCTGATGGAGCCTTAGAA
390 TCAACATATTACGAAACGCTAGTAGAAATAGGTACC-AACTTTTAAAGCTGACGGAGCCTTAGAA
* *
304666 ATCCGACGATAACAAAGCCGGTTAATTA-TTGGAAACATTATCAAGCATAAT-AACATATTAGGT
454 ATCCGACGATAACAAAACAGGTTAATTACTT--AAACATTATCAAGCATAATCAACATATTAGGT
304729 A
517 A
304730 GTGCTTATAT
Statistics
Matches: 445, Mismatches: 62, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
559 2 0.00
560 54 0.12
561 14 0.03
562 3 0.01
563 4 0.01
566 2 0.00
568 1 0.00
569 1 0.00
570 362 0.81
571 2 0.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (565 bp):
GACGATAACATAACTGGTTAATTAATGGAAACATTATCAAGCATAATAACATATTACATAGCGCT
TATGTAACGTAATAGGTAGCGCCTTTTTAAAACTGATGGGGACTTAGAAATCCGACGATAACAAA
ATAGGTTAATTAATTAATTTTCCATGAGTATTATCAACATATTAGGTAATACCTAAAATGTTACC
AAAGTTTAAGCTGATGAAGCCTTAGAAATTCGACGATAACATAACCGGTTAATTACTGGAAACAT
TATCAAGCATAATAACATATTACGTAGCGCTTATGTAAAGTAATAGGTAGCACATTTTTAAATAT
GATGGGGATTTAGAAATCCAATGATAACAAAATAGGTAAATTACTTAATTTTTCATGAGCATTAT
CAACATATTACGAAACGCTAGTAGAAATAGGTACCAACTTTTAAAGCTGACGGAGCCTTAGAAAT
CCGACGATAACAAAACAGGTTAATTACTTAAACATTATCAAGCATAATCAACATATTAGGTAACA
CATAAAACGTTACCAAAGTTTAGTATGATGAAGCCTTCGAAATAA
Found at i:305154 original size:202 final size:202
Alignment explanation
Indices: 304738--308282 Score: 1000
Period size: 226 Copynumber: 16.1 Consensus size: 202
304728 TAGTGCTTAT
* * * * * **
304738 ATAACGTACTAGGTAGCGTCTTTTTAAAGCTGATTGGACTTTTGAAATCCGACGATAACAAAATA
1 ATAACATATTAGGTAGCGCCTTTTTAAAGCTGATGGGACTTTAGAAATCAAACGATAACAAAATA
304803 GGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAA
66 GGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAA
* * * *
304868 GTTTAAGTTGATGAAGCCTTGAAATCTGGAGATAACATAACCAGTTAATTACTGGAATCATTATC
131 GTTTAAGCTGATGAAGCCTTGAAATCTCGAAATAACATAACCAGTTAATTACTGGAAACATTATC
*
304933 AGGCATA
196 AAGCATA
* *
304940 ATAACATATTAGGTAGCGCCTTTTTAAAGCTGATGGGGA-TTTAGAAATCAAATGATAATAAAAT
1 ATAACATATTAGGTAGCGCCTTTTTAAAGCTGAT-GGGACTTTAGAAATCAAACGATAACAAAAT
*** * *
305004 AGGTTAATTACTTAATTT-TCCT-TGTGTATTATCAACATATTAGGTAATGCCTACAATGTTACC
65 AGGTTAATTACTTAATTTGT--TATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACC
*
305067 AAAGTTTAAGCTGATGGAGCCTTAGAAATC-CGACAATAACATAACCAGTTAATTACTGGAAACA
128 AAAGTTTAAGCTGATGAAGCCTT-GAAATCTCGA-AATAACATAACCAGTTAATTACTGGAAACA
305131 TTATCAAGCATA
191 TTATCAAGCATA
* ** * * * ** * ***
305143 ATAAC-TATTAGGTAGCG-CTTATGTAACATAATAGGTAGCGTCTTTTTAAAGCTGATGTGGTAT
1 ATAACATATTAGGTAGCGCCTT-TTTAA-A-GCT-GAT-GGGACTTTAGAAA--TCA-AACG-AT
* * * * * * * ** *
305206 TAGAAATCTGACGATAACAAAATAGGTAAATTACTTAATTTATCATGAGCATTATCAACATATTA
57 AACAAA-AT-A-GGT----TAAT---T-ACTTAATT-TGTTATCA--A-TATTATCAACATATTA
* * * * * *
305271 CGCAAAGCCTAAAATGTTTCCAAAGTTTAAGCTGATGGAGCCTTAGAAATC-C-AACGATAACAA
107 GGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTT-GAAATCTCGAA--ATAACAT
**
305334 AACTGGTTAATTACTGGAAACATTATCAAGCATA
169 AACCAGTTAATTACTGGAAACATTATCAAGCATA
* * *
305368 ATAACATATTAGGTAGTGCTTATATAACGTACTAGGTAGCGTCTTTTTAAAGCTGATTGGACTTT
1 ATAACATATTAGGTA--G---------CG-CCT---T----T-TTA---AAGCTGATGGGACTTT
* **
305433 TGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAG
43 AGAAATCAAACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAG
* * *
305498 GCAACGCCTAAAATGTTACCAAAGTTTAAGTTGATGAAGCCTTGAAATCT-GACGATAACATAAC
108 GTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTTGAAATCTCGA-AATAACATAAC
*
305562 CAGTTAATTACTGGAATA-ATTATCAGGCATA
172 CAGTTAATTACTGGAA-ACATTATCAAGCATA
* * *** *
305593 ATAACATATTAGGTAGTG-CTTATGAAATGTAAAAAGTAGCGTAATATTAAAGCTGTTTGGGCCT
1 ATAACATATTAGGTAGCGCCTT-T----T-T---AA--AGC-T--GATGGGA-C--TTT-AG---
* * * *
305657 TAA-AAATCACATGATAACAAAATAGGTTAATTACTTAATTTGTTA--AATGATTTCACCGAAAA
45 AAATCAA--AC--GATAACAAAATAGGTTAATTACTTAATTTGTTATCAAT-A-TT-ATC--AAC
* * ** * ** * * ***
305719 ATATCTTTTGAGT--TGGTTATAGTAATGGTAATAACCAG-TTATG-TTAT-ATTTCTATGGAAA
101 ATA---TTAG-GTAACGCCTA-A--AATGTTACCAA--AGTTTAAGCTGATGAAGCCT-T-GAAA
* * * * * * ** * *
305779 T-TGCGTAAA-AAAATATTAAC-GATAACATATCCGATTAATTACTGGAAACATATCAAGTATA
155 TCT-CG-AAATAACATA--ACCAGTTAA-TTA-CTG--GAA--AC----ATTATC--AAGCATA
* * * *
305840 ATAACATATTAGGTAGCG-CTTATGTAACG-TAATATGTAGCACATTTTTA-AAGCTGATGGGGC
1 ATAACATATTAGGTAGCGCCTT-TTTAAAGCT--GATG--GGAC---TTTAGAA----AT-----
*** * * * *** * * *
305902 CTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTAATTTGTTATGAGTATTATCAACATAT
49 C--A-AACGATAAC-AAAATAGGTTA-ATT----ACTTAATTTGTTATCAATATTATCAACATAT
** *
305967 TAGGTAATACCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTTAGAAATC-CGACGATAACA
105 TAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTT-GAAATCTCGA-AATAACA
* *
306031 TAACAAGTTAATTACTGGAAACATTATCAAGAATA
168 TAACCAGTTAATTACTGGAAACATTATCAAGCATA
* * *
306066 ATAACAAATTAGGTAGCGCTTATGTAGTGTAATAGGTAGCACCTTTTTAAATCTGATGGGGCTTT
1 ATAACATATTAGGTAGCGCCT-T-T--T-T-A-A---AG-------------CTGATGGGACTTT
* ** * * * * ** * *
306131 TGAAATCCGACGATAACAAAATAGGTAAATTAATTAATTTGTCATGAGCATTATCAATATATTAC
43 AGAAATCAAACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAG
** * * * * *
306196 GTAATACATAAAATGTTTCCAAAGTTTAAGCTGATGGAGCCTTAGAAATC-CGATGATAACAAAA
108 GTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTT-GAAATCTCGA-AATAACATAA
306260 CC-GATTAATTACTGGAAACATTATCAAGCATA
171 CCAG-TTAATTACTGGAAACATTATCAAGCATA
* *
306292 ATAACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATTGGACTTT
1 ATAACATATTAGGTAGCGC--------C-T--T---T------TTA---AAGCTGATGGGACTTT
* ** *
306357 TGAAATCCGACGATAACAAAATA-GTATAATTACTTAAATTGTTATCAATATTATCAACATATTA
43 AGAAATCAAACGATAACAAAATAGGT-TAATTACTTAATTTGTTATCAATATTATCAACATATTA
* *
306421 GGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAA-ACTTAGAAATCT-GATGATAACATA
107 GGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTT-GAAATCTCGA-AATAACATA
306484 ACCAGTTAATTACTGGAAACATTATCAAGCATA
170 ACCAGTTAATTACTGGAAACATTATCAAGCATA
* * *
306517 ATAACATATTAGGTAGC-TCTTTTTAAAGCTGATGGGGA-TTTAAAAATCCAACGATAACAAAAT
1 ATAACATATTAGGTAGCGCCTTTTTAAAGCTGAT-GGGACTTTAGAAATCAAACGATAACAAAAT
* *** *
306580 AGGTTAATTACTTAATTT-TCCATGTGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCA
65 AGGTTAATTACTTAATTTGT-TATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCA
* *
306644 AAGTTTAAGCTGATGGAGCCTTAGAAATC-CGACAATAACATAACTAGTTAATTACTGGAAACAT
129 AAGTTTAAGCTGATGAAGCCTT-GAAATCTCGA-AATAACATAACCAGTTAATTACTGGAAACAT
306708 TATCAAGCATA
192 TATCAAGCATA
*
306719 ATAACATATTAGGTAGCG-CTTATGTAACGTAATATGTAGCGCCTTTTTAAAGTGGATGTGG-CA
1 ATAACATATTAGGTAGCGCCTT-T-T----T-A-A---A--G-C---------T-GATG-GGACT
** ** * * * ** *
306782 TTAGAAATCTGACGATAACAAAATAAATAAATTACTTAATTTGTCATGAGCATTATTAACATATT
41 TTAGAAATCAAACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAATATTATCAACATATT
* ** * *
306847 ACGTATTGCCTAAAATGTTTCCAAAGTTTAAGCTGATGTAA-CCTTAGAAATC-C-AACGATCAC
106 AGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATG-AAGCCTT-GAAATCTCGAA--ATAAC
* * *
306909 ATAACCGGTTAATTACTGGATATATTATCAAGCATA
167 ATAACCAGTTAATTACTGGAAACATTATCAAGCATA
* * * * ***
306945 ATAACATATTAGGTAGCG-CTTATGTAACG-TAATAAGTAGCACCATTTTA-AAGCTGATGGGAC
1 ATAACATATTAGGTAGCGCCTT-TTTAAAGCTGAT--G--GGA-C--TTTAGAA----ATCAAAC
* *** * * * * ** * *
307007 TTTTGA-AATCCTACGATAACAAAATAAGATAATTACTTTATT-TGTTATCTATATTATCAACAT
54 ----GATAA--C-A--A-AATAGGTTAA-TTACTTAATTTGTTAT-CAATAT-TATCA---ACAT
* *
307070 ATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAA-ACTTAGAAATCT-GATGATAA
103 ATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTT-GAAATCTCGA-AATAA
* *
307133 CATAACAAGTTAATTACTGGAAACATTATCAAGAATA
166 CATAACCAGTTAATTACTGGAAACATTATCAAGCATA
* *
307170 ATAACATATTAGGTAGCGCTTATGTAGTGTAATAGGTAGCACCTTTTTAAATCTGATGGGGCTTT
1 ATAACATATTAGGTAGCGCCT-T-T--T-T-A-A---AG-------------CTGATGGGACTTT
* * * * ** *
307235 AGAAATCCAACGATAACAAAATAGGTAAATTACTTAATTT-TAATGAGCATTATCAACATATTAC
43 AGAAATCAAACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAG
* * * * * * *
307299 GTAATGCATAAAATGTTTCCAAAGTTTATGCTGATGGAGCCTTAGAAATC-CGACGATAACAAAA
108 GTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTT-GAAATCTCGA-AATAACATAA
* *
307363 CCGGTTAATTACTGGAAACATTATCAGGCATA
171 CCAGTTAATTACTGGAAACATTATCAAGCATA
* *
307395 ATAACATATTAGGTAGCGCTTATGTAACGTAATAAGTAGCGCCTTTTTAAAGCTAATTGGACTTT
1 ATAACATATTAGGTAGCGCCT-T-T----T--TAA--A--G-C----T---G---ATGGGACTTT
* ** * *
307460 TGAAATCCGATGATAACAAAATA-GTATAATTACTTAATTTGCTATCAATATTATCAACATATTA
43 AGAAATCAAACGATAACAAAATAGGT-TAATTACTTAATTTGTTATCAATATTATCAACATATTA
* *
307524 GGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAA-ACTTAGAAATCT-GATGATAACATA
107 GGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTT-GAAATCTCGA-AATAACATA
*
307587 ACCAGTTAATTAATGGAAACATTATCAAGCATA
170 ACCAGTTAATTACTGGAAACATTATCAAGCATA
* * * * * * *
307620 ATAACAAATTAGGTAGCACATTTTTAAAGCTGTTGGGGA-TTTAAAAAACCAACGATAACAAAAT
1 ATAACATATTAGGTAGCGCCTTTTTAAAGCTGAT-GGGACTTTAGAAATCAAACGATAACAAAAT
* * *** *
307684 ATGTTAATTACTTAATTT-TCCATGTGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCA
65 AGGTTAATTACTTAATTTGT-TATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCA
*
307748 AAGTTTAAGCTGATGGAGCCTTAGAAATC-CGACAATAACATAACCAGTTAATTACTGGAAACAT
129 AAGTTTAAGCTGATGAAGCCTT-GAAATCTCGA-AATAACATAACCAGTTAATTACTGGAAACAT
307812 TATCAAGCATA
192 TATCAAGCATA
* * *
307823 ATTACATATTAGGTAGCTCTTATGTAATGTAGCGCCTTTTTAAAGATGATGTGG-CATTAGAAAT
1 A-T--A-A-CA--TA----TTA-G----GTAGCGCCTTTTTAAAGCTGATG-GGACTTTAGAAAT
** * * * ** * * *
307887 CCGACGATAACAAAATAGGTAAATTACTTAATTTGTCATGAGCATTATCAACATATTACGCAATG
49 CAAACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAACG
* * * *
307952 CCTAAAATGTTTCCAAAGTTTAAGCTGATGTAA-CCTTAGAAATC-CGACGATCACATAACCGGT
114 CCTAAAATGTTACCAAAGTTTAAGCTGATG-AAGCCTT-GAAATCTCGA-AATAACATAACCAGT
* **
308015 TAATTACTGGATATTTTATCAAGCATA
176 TAATTACTGGAAACATTATCAAGCATA
* *
308042 ATAACACATTAGGTAGCGCTTATGTAACGTAATAAGTAGCACCTTTTTAAAGCTGATGGGACTTT
1 ATAACATATTAGGTAGCGC--------C-T--T---T------TTA---AAGCTGATGGGACTTT
* ** * * * * * *
308107 TGAAATCCTACGATAACAAAATAAGATAATTACTTCATTTTTTATCTATATTATCAACACATTAG
43 AGAAATCAAACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAG
* * *
308172 GTAACGCCTAAAATGTTACCAAAGTTTAAGCTAATGAA-ACTTAGAAATCT-GATGATAACATAA
108 GTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTT-GAAATCTCGA-AATAACATAA
**
308235 GAAGTTAATTACTGGAAACATTATCAAGCATA
171 CCAGTTAATTACTGGAAACATTATCAAGCATA
*
308267 ATAACATATTTGGTAG
1 ATAACATATTAGGTAG
308283 TGCTTATGTA
Statistics
Matches: 2539, Mismatches: 444, Indels: 697
0.69 0.12 0.19
Matches are distributed among these distances:
200 1 0.00
201 103 0.04
202 314 0.12
203 122 0.05
204 6 0.00
205 6 0.00
206 8 0.00
207 3 0.00
208 10 0.00
209 7 0.00
210 11 0.00
211 2 0.00
212 14 0.01
213 6 0.00
214 7 0.00
215 12 0.00
216 6 0.00
217 8 0.00
218 6 0.00
219 167 0.07
220 5 0.00
221 16 0.01
222 14 0.01
223 16 0.01
224 47 0.02
225 587 0.23
226 676 0.27
227 14 0.01
228 14 0.01
229 15 0.01
230 17 0.01
231 13 0.01
232 13 0.01
233 15 0.01
234 20 0.01
235 19 0.01
236 14 0.01
237 16 0.01
238 15 0.01
239 35 0.01
240 10 0.00
241 14 0.01
242 19 0.01
243 9 0.00
244 9 0.00
245 15 0.01
246 7 0.00
247 44 0.02
248 5 0.00
249 6 0.00
250 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (202 bp):
ATAACATATTAGGTAGCGCCTTTTTAAAGCTGATGGGACTTTAGAAATCAAACGATAACAAAATA
GGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAA
GTTTAAGCTGATGAAGCCTTGAAATCTCGAAATAACATAACCAGTTAATTACTGGAAACATTATC
AAGCATA
Found at i:305541 original size:653 final size:648
Alignment explanation
Indices: 304295--308282 Score: 4356
Period size: 653 Copynumber: 6.0 Consensus size: 648
304285 TGTAACGTAA
* ** *
304295 TAGGTAGTGCCTTTTTAAATTTGATGGGGATTTAGAAATCCGACGATAACAAAATAGGTTAATTA
1 TAGGTAGCGCCTTTTTAAAGCTGATGGGGATTTAGAAATCCAACGATAACAAAATAGGTTAATTA
* *
304360 ATTAATTTTCCATGTGTATTATCAATATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCT
66 CTTAATTTT--ATGTGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCT
* *
304425 GATGGAGCCTTAGAAATTTGACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAA
129 GATGGAGCCTTAGAAATCTGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAA
* * *
304490 TAACATTTTATGTAGCGCTTATGTAGTGTAATAGGTAGCACCTTTTTAAATCTGATGGGGCT-TT
194 TAACATATTAGGTAGCGCTTATGTA--GTAATAGGTAGC-CCTTTTTAAAGCTGATGGGG-TATT
*
304554 AGAAATCCGACTATAACAAAATAGGTAAATTACTTAATTTTTCATGAGCATTATCAACATATTAC
255 AGAAATCCGACGATAACAAAATAGGTAAATTACTTAA-TTTTCATGAGCATTATCAACATATTAC
* * *
304619 G-AAATGCATAAAATGTTTCCAAACTTTAAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAG
319 GTAAA-GCCTAAAATGTTTCCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAA
* * * *
304683 CCGGTTAATTATTGGAAACATTATCAAGCATAATAACATATTAGGTAGTGCTTATATAACGTACT
383 CCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATGTAACGTAAT
*
304748 AGGTAGCGTCTTTTTAAAGCTGATTGGACTTTTGAAATCCGACGATAACAAAATAGGTTAATTAC
448 AGGTAGCGCCTTTTTAAAGCTGATTGGACTTTTGAAATCCGACGATAACAAAATAGGTTAATTAC
*
304813 TTAATTTGTTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGTTG
513 TTAATTTGTTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTG
* *
304878 ATGAAGCCTT-GAAATCTGGA-GATAACATAACCAGTTAATTACTGGAATCATTATCAGGCATAA
578 ATGAA-CCTTAGAAATCT-GATGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAA
304941 TAACATAT
641 TAACATAT
* * *
304949 TAGGTAGCGCCTTTTTAAAGCTGATGGGGATTTAGAAATCAAATGATAATAAAATAGGTTAATTA
1 TAGGTAGCGCCTTTTTAAAGCTGATGGGGATTTAGAAATCCAACGATAACAAAATAGGTTAATTA
* *
305014 CTTAATTTTCCTTGTGTATTATCAACATATTAGGTAATGCCTACAATGTTACCAAAGTTTAAGCT
66 CTTAATTTT--ATGTGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCT
* *
305079 GATGGAGCCTTAGAAATCCGACAATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAA
129 GATGGAGCCTTAGAAATCTGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAA
* * *
305144 TAAC-TATTAGGTAGCGCTTATGTAACATAATAGGTAGCGTCTTTTTAAAGCTGATGTGGTATTA
194 TAACATATTAGGTAGCGCTTATGT-A-GTAATAGGTAGC-CCTTTTTAAAGCTGATGGGGTATTA
*
305208 GAAATCTGACGATAACAAAATAGGTAAATTACTTAATTTATCATGAGCATTATCAACATATTACG
256 GAAATCCGACGATAACAAAATAGGTAAATTACTTAATTT-TCATGAGCATTATCAACATATTACG
* * *
305273 CAAAGCCTAAAATGTTTCCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCAACGATAACAAAACT
320 TAAAGCCTAAAATGTTTCCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAACC
* * *
305338 GGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGTGCTTATATAACGTACTAG
385 GGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATGTAACGTAATAG
*
305403 GTAGCGTCTTTTTAAAGCTGATTGGACTTTTGAAATCCGACGATAACAAAATAGGTTAATTACTT
450 GTAGCGCCTTTTTAAAGCTGATTGGACTTTTGAAATCCGACGATAACAAAATAGGTTAATTACTT
* *
305468 AATTTGTTATCAATATTATCAACATATTAGGCAACGCCTAAAATGTTACCAAAGTTTAAGTTGAT
515 AATTTGTTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGAT
* *
305533 GAAGCCTT-GAAATCTGACGATAACATAACCAGTTAATTACTGGAATA-ATTATCAGGCATAATA
580 GAA-CCTTAGAAATCTGATGATAACATAACCAGTTAATTACTGGAA-ACATTATCAAGCATAATA
305596 ACATAT
643 ACATAT
* * ** *
305602 TAGGTAGTG-CTTATGAAATGTAAAAAGTAGCGTAATATTAAAGCTGTTTGGGCCTTAAAAAT-C
1 TAGGTAGCGCCTT-T----T-T---AA--AGC-------T---GATG---GGGATTTAGAAATCC
* ** * * *
305665 ACATGATAACAAAATAGGTTAATTACTTAATTTGTTAAATG-ATTTCACCGAAAAATATCTTTTG
42 A-ACGATAACAAAATAGGTTAATTACTTAA-TT-TTATGTGTA-TT-ATC--AACATA---TTAG
** * ** * * *
305729 AGT--TGGTTATAGTAATGGTAATAACCAGTTATGTTATATTTCT-ATGGAAATTGCGTAAAAAA
97 -GTAATGCCTA-A--AAT-GT--T-ACCA---AAGTT-TA-AGCTGATGG--A--GCCT-TAGAA
* * * *
305791 ATATTAACGATAACATATCC-GATTAATTACTGGAAACA-TATCAAGTATAATAACATATTAGGT
144 AT-CTGACGATAACATAACCAG-TTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGT
* * ** *
305854 AGCGCTTATGTAACGTAATATGTAGCACATTTTTAAAGCTGATGGGGCCTTAGAAATCTGACGAT
207 AGCGCTTATGT-A-GTAATAGGTAGC-CCTTTTTAAAGCTGATGGGGTATTAGAAATCCGACGAT
* * * *
305919 AACAAAATAGGTTAATTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATA-CCTAAAA
269 AACAAAATAGGTAAATTACTTAATTT-TCATGAGCATTATCAACATATTACGTAA-AGCCTAAAA
* * * **
305983 TGTTACCAAAGTTTAAGCTGATGAAGCCTTAGAAATCCGACGATAACATAACAAGTTAATTACTG
332 TGTTTCCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAACCGGTTAATTACTG
* * ** *
306048 GAAACATTATCAAGAATAATAACAAATTAGGTAGCGCTTATGTAGTGTAATAGGTAGCACCTTTT
397 GAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTT
* * * * * * *
306113 TAAATCTGATGGGGCTTTTGAAATCCGACGATAACAAAATAGGTAAATTAATTAATTTGTCATGA
462 TAAAGCTGATTGGACTTTTGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCA
** * * ** * * *
306178 GCATTATCAATATATTACGTAATACATAAAATGTTTCCAAAGTTTAAGCTGATGGAGCCTTAGAA
527 ATATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGAT-GAACCTTAGAA
* *
306243 ATCCGATGATAACAAAACC-GATTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTA
591 ATCTGATGATAACATAACCAG-TTAATTACTGGAAACATTATCAAGC---AT---A-A-TA---A
306307 GCGCTTATGTAACGT
644 ---C--A--T-A--T
* * *
306322 AATAGGTAGCGCCTTTTTAAAGCTGAT-TGGACTTTTGAAATCCGACGATAACAAAATA-GTATA
1 --TAGGTAGCGCCTTTTTAAAGCTGATGGGGA-TTTAGAAATCCAACGATAACAAAATAGGT-TA
*** *
306385 ATTACTTAAATTGTTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTA
62 ATTACTT-AATT-TTATGTGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTA
** *
306450 AGCTGAT-GAAACTTAGAAATCTGATGATAACATAACCAGTTAATTACTGGAAACATTATCAAGC
125 AGCTGATGGAGCCTTAGAAATCTGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGC
306514 ATAATAACATATTAGGTA--GC---------------T----CTTTTTAAAGCTGATGGGG-ATT
190 ATAATAACATATTAGGTAGCGCTTATGTAGTAATAGGTAGCCCTTTTTAAAGCTGATGGGGTA-T
* * * * *
306557 TAAAAATCCAACGATAACAAAATAGGTTAATTACTTAATTTTCCATGTGTATTATCAACATATTA
254 TAGAAATCCGACGATAACAAAATAGGTAAATTACTTAATTTT-CATGAGCATTATCAACATATTA
* * * * *
306622 GGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCGACAATAACATAA
318 CGTAAAGCCTAAAATGTTTCCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAA
**
306687 CTAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATGTAACGTAAT
383 CCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATGTAACGTAAT
* * * * ** *
306752 ATGTAGCGCCTTTTTAAAG-TGGATGTGG-CATTAGAAATCTGACGATAACAAAATAAATAAATT
448 AGGTAGCGCCTTTTTAAAGCT-GAT-TGGACTTTTGAAATCCGACGATAACAAAATAGGTTAATT
* * ** * * ** *
306815 ACTTAATTTGTCATGAGCATTATTAACATATTACGTATTGCCTAAAATGTTTCCAAAGTTTAAGC
511 ACTTAATTTGTTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGC
** * * * * *
306880 TGATGTAACCTTAGAAATCCAACGATCACATAACCGGTTAATTACTGGATATATTATCAAGCATA
576 TGATG-AACCTTAGAAATCTGATGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATA
306945 ATAACATAT
640 ATAACATAT
*
306954 TAGGTAGCGCTTATGTAACGTAATAAGTAGCACCATTTTAAAGCTGAT-GGGACTTTTGAAATCC
1 TAGGTAGCGC--------C--------T-------TTTTAAAGCTGATGGGGA-TTTAGAAATCC
* * * * * * *
307018 TACGATAACAAAATAAGATAATTACTTTATTTGTTATCTATATTATCAACATATTAGGTAACGCC
42 AACGATAACAAAATAGGTTAATTAC-TTAATT-TTATGTGTATTATCAACATATTAGGTAATGCC
** * *
307083 TAAAATGTTACCAAAGTTTAAGCTGAT-GAAACTTAGAAATCTGATGATAACATAACAAGTTAAT
105 TAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAGAAATCTGACGATAACATAACCAGTTAAT
*
307147 TACTGGAAACATTATCAAGAATAATAACATATTAGGTAGCGCTTATGTAGTGTAATAGGTAGCAC
170 TACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATGTA--GTAATAGGTAGC-C
* *
307212 CTTTTTAAATCTGATGGGGCT-TTAGAAATCCAACGATAACAAAATAGGTAAATTACTTAATTTT
232 CTTTTTAAAGCTGATGGGG-TATTAGAAATCCGACGATAACAAAATAGGTAAATTACTTAATTTT
* * * *
307276 AATGAGCATTATCAACATATTACGTAATGCATAAAATGTTTCCAAAGTTTATGCTGATGGAGCCT
296 CATGAGCATTATCAACATATTACGTAAAGCCTAAAATGTTTCCAAAGTTTAAGCTGATGGAGCCT
*
307341 TAGAAATCCGACGATAACAAAACCGGTTAATTACTGGAAACATTATCAGGCATAATAACATATTA
361 TAGAAATCCGACGATAACAAAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTA
* * *
307406 GGTAGCGCTTATGTAACGTAATAAGTAGCGCCTTTTTAAAGCTAATTGGACTTTTGAAATCCGAT
426 GGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATTGGACTTTTGAAATCCGAC
*
307471 GATAACAAAATA-GTATAATTACTTAATTTGCTATCAATATTATCAACATATTAGGTAACGCCTA
491 GATAACAAAATAGGT-TAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAACGCCTA
* *
307535 AAATGTTACCAAAGTTTAAGCTGATGAAACTTAGAAATCTGATGATAACATAACCAGTTAATTAA
555 AAATGTTACCAAAGTTTAAGCTGATGAACCTTAGAAATCTGATGATAACATAACCAGTTAATTAC
*
307600 TGGAAACATTATCAAGCATAATAACAAAT
620 TGGAAACATTATCAAGCATAATAACATAT
* * * * * *
307629 TAGGTAGCACATTTTTAAAGCTGTTGGGGATTTAAAAAACCAACGATAACAAAATATGTTAATTA
1 TAGGTAGCGCCTTTTTAAAGCTGATGGGGATTTAGAAATCCAACGATAACAAAATAGGTTAATTA
307694 CTTAATTTTCCATGTGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCT
66 CTTAATTTT--ATGTGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCT
* *
307759 GATGGAGCCTTAGAAATCCGACAATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAA
129 GATGGAGCCTTAGAAATCTGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAA
* * * * *
307824 TTACATATTAGGTAGCTCTTA--T-GTAAT--GTAGCGCCTTTTTAAAGATGATGTGGCATTAGA
194 TAACATATTAGGTAGCGCTTATGTAGTAATAGGTAGC-CCTTTTTAAAGCTGATGGGGTATTAGA
*
307884 AATCCGACGATAACAAAATAGGTAAATTACTTAATTTGTCATGAGCATTATCAACATATTACGCA
258 AATCCGACGATAACAAAATAGGTAAATTACTTAATTT-TCATGAGCATTATCAACATATTACGTA
* * * * *
307949 ATGCCTAAAATGTTTCCAAAGTTTAAGCTGATGTAACCTTAGAAATCCGACGATCACATAACCGG
322 AAGCCTAAAATGTTTCCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAACCGG
* ** * *
308014 TTAATTACTGGATATTTTATCAAGCATAATAACACATTAGGTAGCGCTTATGTAACGTAATAAGT
387 TTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGGT
* * * * * *
308079 AGCACCTTTTTAAAGCTGATGGGACTTTTGAAATCCTACGATAACAAAATAAGATAATTACTTCA
452 AGCGCCTTTTTAAAGCTGATTGGACTTTTGAAATCCGACGATAACAAAATAGGTTAATTACTTAA
* * * *
308144 TTTTTTATCTATATTATCAACACATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTAATGA
517 TTTGTTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGA
* **
308209 AACTTAGAAATCTGATGATAACATAAGAAGTTAATTACTGGAAACATTATCAAGCATAATAACAT
582 ACCTTAGAAATCTGATGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACAT
308274 AT
647 AT
*
308276 TTGGTAG
1 TAGGTAG
308283 TGCTTATGTA
Statistics
Matches: 2877, Mismatches: 289, Indels: 343
0.82 0.08 0.10
Matches are distributed among these distances:
630 10 0.00
632 1 0.00
634 1 0.00
635 1 0.00
637 1 0.00
638 1 0.00
639 1 0.00
642 1 0.00
645 2 0.00
646 65 0.02
647 330 0.11
648 6 0.00
650 4 0.00
651 6 0.00
652 108 0.04
653 1047 0.36
654 194 0.07
655 2 0.00
657 1 0.00
658 2 0.00
659 1 0.00
661 2 0.00
663 3 0.00
670 1 0.00
672 1 0.00
673 3 0.00
675 75 0.03
676 317 0.11
677 95 0.03
678 3 0.00
679 5 0.00
680 1 0.00
681 4 0.00
682 6 0.00
683 6 0.00
684 7 0.00
685 2 0.00
687 5 0.00
688 5 0.00
690 2 0.00
691 7 0.00
692 8 0.00
693 6 0.00
694 4 0.00
696 8 0.00
697 21 0.01
698 377 0.13
699 80 0.03
700 4 0.00
702 4 0.00
705 2 0.00
706 1 0.00
707 2 0.00
710 1 0.00
712 3 0.00
713 1 0.00
714 2 0.00
715 1 0.00
717 2 0.00
718 2 0.00
720 1 0.00
722 9 0.00
723 3 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (648 bp):
TAGGTAGCGCCTTTTTAAAGCTGATGGGGATTTAGAAATCCAACGATAACAAAATAGGTTAATTA
CTTAATTTTATGTGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGA
TGGAGCCTTAGAAATCTGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATA
ACATATTAGGTAGCGCTTATGTAGTAATAGGTAGCCCTTTTTAAAGCTGATGGGGTATTAGAAAT
CCGACGATAACAAAATAGGTAAATTACTTAATTTTCATGAGCATTATCAACATATTACGTAAAGC
CTAAAATGTTTCCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAACCGGTTAA
TTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCG
CCTTTTTAAAGCTGATTGGACTTTTGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTG
TTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAACCT
TAGAAATCTGATGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATAT
Found at i:306938 original size:226 final size:226
Alignment explanation
Indices: 306535--307636 Score: 1454
Period size: 225 Copynumber: 4.9 Consensus size: 226
306525 TTAGGTAGCT
* * * * *
306535 CTTTTTAAAGCTGATGGGGA-TTTAAAAATCCAACGATAACAAAATAGGTTAATTACTTAATTT-
1 CTTTTTAAAGCTGATGTGGACTTTAGAAATCCGACGATAACAAAATAAGTAAATTACTTAATTTG
* *
306598 TCCATGTGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGC
66 T-CATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGAT-GAAC
* *
306663 CTTAGAAATCCGACAATAACATAACTAGTTAATTACTGGAAACATTATCAAGCATAATAACATAT
129 CTTAGAAATCCGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATAT
* *
306728 TAGGTAGCGCTTATGTAACGTAATATGTAGCGC
194 TAGGTAGCGCTTATGTAACGTAATAAGTAGCAC
* * *
306761 CTTTTTAAAG-TGGATGTGG-CATTAGAAATCTGACGATAACAAAATAAATAAATTACTTAATTT
1 CTTTTTAAAGCT-GATGTGGACTTTAGAAATCCGACGATAACAAAATAAGTAAATTACTTAATTT
* * * * *
306824 GTCATGAGCATTATTAACATATTACGTATTGCCTAAAATGTTTCCAAAGTTTAAGCTGATGTAAC
65 GTCATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATG-AAC
* * * * *
306889 CTTAGAAATCCAACGATCACATAACCGGTTAATTACTGGATATATTATCAAGCATAATAACATAT
129 CTTAGAAATCCGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATAT
306954 TAGGTAGCGCTTATGTAACGTAATAAGTAGCAC
194 TAGGTAGCGCTTATGTAACGTAATAAGTAGCAC
* * * *
306987 CATTTTAAAGCTGATG-GGACTTTTGAAATCCTACGATAACAAAATAAG-ATAATTACTTTATTT
1 CTTTTTAAAGCTGATGTGGACTTTAGAAATCCGACGATAACAAAATAAGTA-AATTACTTAATTT
* * * *
307050 GTTATCTA-TATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAA
65 GTCAT-GAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAC
* * * *
307114 CTTAGAAATCTGATGATAACATAACAAGTTAATTACTGGAAACATTATCAAGAATAATAACATAT
129 CTTAGAAATCCGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATAT
** *
307179 TAGGTAGCGCTTATGTAGTGTAATAGGTAGCAC
194 TAGGTAGCGCTTATGTAACGTAATAAGTAGCAC
* * * *
307212 CTTTTTAAATCTGATG-GGGCTTTAGAAATCCAACGATAACAAAATAGGTAAATTACTTAATTT-
1 CTTTTTAAAGCTGATGTGGACTTTAGAAATCCGACGATAACAAAATAAGTAAATTACTTAATTTG
* * * * * * *
307275 TAATGAGCATTATCAACATATTACGTAATGCATAAAATGTTTCCAAAGTTTATGCTGATGGAGCC
66 TCATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGAT-GAACC
* * *
307340 TTAGAAATCCGACGATAACAAAACCGGTTAATTACTGGAAACATTATCAGGCATAATAACATATT
130 TTAGAAATCCGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATT
*
307405 AGGTAGCGCTTATGTAACGTAATAAGTAGCGC
195 AGGTAGCGCTTATGTAACGTAATAAGTAGCAC
* * *
307437 CTTTTTAAAGCTAAT-TGGACTTTTGAAATCCGATGATAACAAAAT-AGTATAATTACTTAATTT
1 CTTTTTAAAGCTGATGTGGACTTTAGAAATCCGACGATAACAAAATAAGTA-AATTACTTAATTT
* * * *
307500 G-CTATCAATATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAA
65 GTC-ATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAC
* * * *
307564 CTTAGAAATCTGATGATAACATAACCAGTTAATTAATGGAAACATTATCAAGCATAATAACAAAT
129 CTTAGAAATCCGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATAT
307629 TAGGTAGC
194 TAGGTAGC
307637 ACATTTTTAA
Statistics
Matches: 756, Mismatches: 105, Indels: 31
0.85 0.12 0.03
Matches are distributed among these distances:
223 1 0.00
224 52 0.07
225 355 0.47
226 345 0.46
227 3 0.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (226 bp):
CTTTTTAAAGCTGATGTGGACTTTAGAAATCCGACGATAACAAAATAAGTAAATTACTTAATTTG
TCATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGAACCT
TAGAAATCCGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTA
GGTAGCGCTTATGTAACGTAATAAGTAGCAC
Found at i:307162 original size:107 final size:108
Alignment explanation
Indices: 307059--307634 Score: 312
Period size: 107 Copynumber: 5.2 Consensus size: 108
307049 TGTTATCTAT
*
307059 ATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAACTTAGAAATC
1 ATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAGACTTAGAAATC
* * *
307124 TGATGATAACATAACAAGTTAATTACTGGAAACATTATCAAGA
66 CGATGATAACAAAACAAGTTAATTACTGGAAACATTATCAAGC
* * * * * *** * * *
307167 ATAAT-AACATATTAGGTAGCGCTTATGTAGTGTAATAGGTAGCACCTTTTTAAATCTGATGGGG
1 ATTATCAACATATTAGGTAACGCCTA---A----AAT-GTTACCA-AAGTTT-AAGCTGATGAGA
* * * * * * ** *
307231 CTTTAGAAATCCAACGATAACAAAATAGGTAAATTACT--TAATTTTAAT-GAGC
56 C-TTAGAAATCCGATGATAACAAAACAAGTTAATTACTGGAAACATT-ATCAAGC
* * * * * *
307283 ATTATCAACATATTACGTAATGCATAAAATGTTTCCAAAGTTTATGCTGATGGAGCCTTAGAAAT
1 ATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGAT-GAGACTTAGAAAT
* ** *
307348 CCGACGATAACAAAACCGGTTAATTACTGGAAACATTATCAGGC
65 CCGATGATAACAAAACAAGTTAATTACTGGAAACATTATCAAGC
* * * * * ** *
307392 ATAAT-AACATATTAGGTAGCGCTTATGTAACG-TAATAAGTAGCGCCTTTTTAAAGCTAATTG-
1 ATTATCAACATATTAGGTAACGCCTA--AAATGTTACCAA--A--G----TTT-AAGCTGA-TGA
* * * ** *
307454 GACTTTTGAAATCCGATGATAACAAAA-TAGTATAATTACT--TAATTTGCTATCAA-T
54 GAC-TTAGAAATCCGATGATAACAAAACAAGT-TAATTACTGGAAACAT--TATCAAGC
*
307509 ATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAACTTAGAAATC
1 ATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAGACTTAGAAATC
* * * *
307574 TGATGATAACATAACCAGTTAATTAATGGAAACATTATCAAGC
66 CGATGATAACAAAACAAGTTAATTACTGGAAACATTATCAAGC
* *
307617 ATAAT-AACAAATTAGGTA
1 ATTATCAACATATTAGGTA
307635 GCACATTTTT
Statistics
Matches: 338, Mismatches: 90, Indels: 81
0.66 0.18 0.16
Matches are distributed among these distances:
107 103 0.30
108 43 0.13
109 23 0.07
110 7 0.02
111 1 0.00
113 2 0.01
114 4 0.01
115 6 0.02
116 19 0.06
117 42 0.12
118 87 0.26
119 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (108 bp):
ATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGAGACTTAGAAATC
CGATGATAACAAAACAAGTTAATTACTGGAAACATTATCAAGC
Found at i:307831 original size:108 final size:107
Alignment explanation
Indices: 307717--308281 Score: 283
Period size: 108 Copynumber: 5.1 Consensus size: 107
307707 GTGTATTATC
*
307717 AACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCGACA
1 AACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCGACG
*
307782 ATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAAT
66 ATAACATAACCAGTTAATTACTGGAAA-TTTATCAAGCATAAT
* * *** * *
307825 TACATATTAGGT-A-GCTCTTATGTAATG-TAGCGC-CTTTTTAAAGATGATGTG-GCATTAGAA
1 AACATATTAGGTAATGC-C-TA--AAATGTTA-C-CAAAGTTT-AAGCTGATG-GAGCCTTAGAA
** * * * *
307885 ATCCGACGATAACA-AAATAGGTAAATTACT--TAATTTGTCATGAGCATTAT
58 ATCCGACGATAACATAACCA-GTTAATTACTGGAAATTTATCA--AGCATAAT
* * * * *
307935 CAACATATTACGCAATGCCTAAAATGTTTCCAAAGTTTAAGCTGATGTAACCTTAGAAATCCGAC
1 -AACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCGAC
* * *
308000 GATCACATAACCGGTTAATTACTGGATATTTTATCAAGCATAAT
65 GATAACATAACCAGTTAATTACTGGA-AATTTATCAAGCATAAT
* * * *** *
308044 AACACATTAGGTAGCGCTTATGTAACGTAATAA-G-TAGCACCTTTTTAAAGCTGATGG-GACTT
1 AACATATTAGGTA------ATG---CCTAA-AATGTTACCA-AAGTTT-AAGCTGATGGAG-CCT
* * * ** * ** ** * * *
308106 TTGAAATCCTACGATAACAAAATAAGATAATTACTTCATTTTTTATCTA-TATTAT
53 TAGAAATCCGACGATAACATAACCAGTTAATTACTGGA-AATTTATCAAGCATAAT
* * * ** * *
308161 CAACACATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTAAT-GAAACTTAGAAATCTGAT
1 -AACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCGAC
** *
308225 GATAACATAAGAAGTTAATTACTGGAAACATTATCAAGCATAAT
65 GATAACATAACCAGTTAATTACTGGAAA-TTTATCAAGCATAAT
*
308269 AACATATTTGGTA
1 AACATATTAGGTA
308282 GTGCTTATGT
Statistics
Matches: 328, Mismatches: 89, Indels: 81
0.66 0.18 0.16
Matches are distributed among these distances:
106 2 0.01
107 50 0.15
108 79 0.24
109 29 0.09
110 23 0.07
111 57 0.17
112 5 0.02
113 2 0.01
114 3 0.01
116 3 0.01
117 12 0.04
118 63 0.19
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (107 bp):
AACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCGACG
ATAACATAACCAGTTAATTACTGGAAATTTATCAAGCATAAT
Found at i:308347 original size:225 final size:221
Alignment explanation
Indices: 307638--308373 Score: 793
Period size: 219 Copynumber: 3.3 Consensus size: 221
307628 TTAGGTAGCA
* * * * * *
307638 CATTTTTAAAGCTGTTGGGGATTTAAAAAACCAACGATAACAAAATATGTTAATTACTTAATTT-
1 CATTTTTAAAGCTGATGGGCA-TTAGAAATCCGACGATAACAAAATAAGTTAATTACTTAATTTG
* * *
307702 TCCATGTGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGC
65 T-CATCTATATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGAT-GAAC
* *
307767 CTTAGAAATCCGACAATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATTACATAT
128 CTTAGAAATCCGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATAT
*
307832 TAGGTAGCT-CTTATGTAATGT---AG-CG
193 TAGGTAG-TGCTTATGTAATGTAAAAGTAG
* * * *
307857 CCTTTTTAAAGATGATGTGGCATTAGAAATCCGACGATAACAAAATAGGTAAATTACTTAATTTG
1 CATTTTTAAAGCTGATG-GGCATTAGAAATCCGACGATAACAAAATAAGTTAATTACTTAATTTG
* * * * *
307922 TCAT-GAGCATTATCAACATATTACGCAATGCCTAAAATGTTTCCAAAGTTTAAGCTGATGTAAC
65 TCATCTA-TATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATG-AAC
* * * ** *
307986 CTTAGAAATCCGACGATCACATAACCGGTTAATTACTGGATATTTTATCAAGCATAATAACACAT
128 CTTAGAAATCCGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATAT
* *
308051 TAGGTAGCGCTTATGTAACGTAATAAGTAG
193 TAGGTAGTGCTTATGTAATGTAA-AAGTAG
* * * * *
308081 CACCTTTTTAAAGCTGATGGGACTTTTGAAATCCTACGATAACAAAATAAGATAATTACTTCATT
1 CA--TTTTTAAAGCTGATGGG-CATTAGAAATCCGACGATAACAAAATAAGTTAATTACTTAATT
* * * * * *
308146 TTTTATCTATATTATCAACACATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTAATGAAA
63 TGTCATCTATATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAC
* * **
308211 CTTAGAAATCTGATGATAACATAAGAAGTTAATTACTGGAAACATTATCAAGCATAATAACATAT
128 CTTAGAAATCCGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATAT
*
308276 TTGGTAGTGCTTATGTAATGTAAAAAGTAG
193 TAGGTAGTGCTTATGTAATGT-AAAAGTAG
* * * * * * * ** *
308306 CGTAATATTAAAGCTGTTGGAGCCTAACAAATCCGACGATAACATAACCAGTTAATTACTTTATT
1 C--ATTTTTAAAGCTGATGG-GCATTAGAAATCCGACGATAACAAAATAAGTTAATTACTTAATT
308371 TGT
63 TGT
308374 TATCAAGCTT
Statistics
Matches: 425, Mismatches: 74, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
218 1 0.00
219 179 0.42
220 4 0.01
223 2 0.00
224 2 0.00
225 132 0.31
226 103 0.24
227 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (221 bp):
CATTTTTAAAGCTGATGGGCATTAGAAATCCGACGATAACAAAATAAGTTAATTACTTAATTTGT
CATCTATATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATGAACCTT
AGAAATCCGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAG
GTAGTGCTTATGTAATGTAAAAGTAG
Found at i:308505 original size:2 final size:2
Alignment explanation
Indices: 308498--308526 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
308488 TCGAAATTAT
308498 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
308527 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:308531 original size:2 final size:2
Alignment explanation
Indices: 308526--308559 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
308516 ACACACACAC
* *
308526 AT AT AT AT AT AT AT AT AT AT AT AA AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
308560 CTATTGTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:309966 original size:14 final size:14
Alignment explanation
Indices: 309949--309987 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
309939 CACGTACAGA
*
309949 GACAGCTGTCCAGT
1 GACAGCTGTCCAAT
309963 GACAGCTGTCCAAT
1 GACAGCTGTCCAAT
*
309977 GCCAGCTGTCC
1 GACAGCTGTCC
309988 TTATGTAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.21
Consensus pattern (14 bp):
GACAGCTGTCCAAT
Found at i:321913 original size:118 final size:117
Alignment explanation
Indices: 321766--322367 Score: 331
Period size: 118 Copynumber: 5.3 Consensus size: 117
321756 GAAGCCTTAA
* * *
321766 AAATCCAACGATAACATAACCA-GTTAATTACTGGAAACATTATCATGCATAATAACATATTACG
1 AAATCCGACGATAACA-AAACAGGTTAATTACTGGAAACATTATCATGCATAATAACATATTAGG
*
321830 TAGCGCTTATGTAACGTAATAGGTAGCACATTTTTAAATCTGATGGGGATTTAG
65 TAGCGCTTATGTAA-GTAATAGGTAGCACATTTTTAAATCTGATGGGGCTTTAG
* ** * * * *
321884 AAATCCGACGATAACAAAATAGGTTAATTA-T-TTAA-TTTTTCATGTGTATTATCAACATATTA
1 AAATCCGACGATAACAAAACAGGTTAATTACTGGAAACATTATCA--TGCATAAT-AACATATTA
** * * * * * * * *
321946 GGTAATGC----CTAA--AAT-GTTACCA-ATGTTT-AAGCTGATAGAGCCTTAG
63 GGTAGCGCTTATGTAAGTAATAGGTAGCACATTTTTAAATCTGATGGGGCTTTAG
* * * * *
321992 AAATACGATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGT
1 AAATCCGACGATAACAAAACAGGTTAATTACTGGAAACATTATCATGCATAATAACATATTAGGT
* * * *
322057 AGCGCTTATGTAATGTAATAGGTAGCGCCTTTTTATATCTGATGGGGCTTCAG
66 AGCGCTTATGTAA-GTAATAGGTAGCACATTTTTAAATCTGATGGGGCTTTAG
* * * * * * *
322110 AAATTCGACGATAACAAAATAGGTAAATTACT--TAA-TTTTTCATGAGCATTATCAACATATT-
1 AAATCCGACGATAACAAAACAGGTTAATTACTGGAAACATTATCAT--GCATAAT-AACATATTA
* * ** *** * *
322171 -GT---G-TAATGCCTAA--AA-AGTTTCCA-AAGATT-AATCTGATGGAGCCTTAG
63 GGTAGCGCTTATG--TAAGTAATAGGTAGCACATTTTTAAATCTGATGGGGCTTTAG
* * * * * * * *
322218 AAATCCGACAAAAACATAACCGGTTAATTGCTGGAAACATTATCAAGCATAATAGCATTTTAGGT
1 AAATCCGACGATAACAAAACAGGTTAATTACTGGAAACATTATCATGCATAATAACATATTAGGT
* * * * * *
322283 AGCGCTAATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGACTTTTG
66 AGCGCTTATGTAA-GTAATAGGTAGCACATTTTTAAATCTGATGGGGCTTTAG
* * * *
322336 AAAACTGACAATAACAAAATAGGTTAATTACT
1 AAATCCGACGATAACAAAACAGGTTAATTACT
322368 TAATTTGTTA
Statistics
Matches: 341, Mismatches: 106, Indels: 74
0.65 0.20 0.14
Matches are distributed among these distances:
108 97 0.28
109 19 0.06
110 15 0.04
111 15 0.04
112 10 0.03
113 2 0.01
114 11 0.03
115 15 0.04
116 14 0.04
117 22 0.06
118 121 0.35
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (117 bp):
AAATCCGACGATAACAAAACAGGTTAATTACTGGAAACATTATCATGCATAATAACATATTAGGT
AGCGCTTATGTAAGTAATAGGTAGCACATTTTTAAATCTGATGGGGCTTTAG
Found at i:321941 original size:226 final size:226
Alignment explanation
Indices: 321546--322412 Score: 1168
Period size: 226 Copynumber: 3.8 Consensus size: 226
321536 AAAATATATT
** * * * * *
321546 GACGATAACATAAGTGGTTAATTACTAGAAACATTATCAAGTATAATAAAATACTAGGTAGTGCT
1 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* ** *
321611 TATGTAACGTAATAGGTAGCACATTTTTAAAGCTGATAGGGACATAGAAATTCGACGATAACAAA
66 TATGTAACGTAATAGGTAGCACATTTTTAAAGCTGATGGGGATTTAGAAATCCGACGATAACAAA
**
321676 ATAGGTTAATTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAACACCTAAAATGTTACC
131 ATAGGTTAATTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACC
*
321741 AAAGTTTAAGCTGATGAAGCCTTAAAAATCC
196 AAAGTTTAAGCTGATGAAGCCTTAGAAATCC
* * * *
321772 AACGATAACATAACCAGTTAATTACTGGAAACATTATCATGCATAATAACATATTACGTAGCGCT
1 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
*
321837 TATGTAACGTAATAGGTAGCACATTTTTAAATCTGATGGGGATTTAGAAATCCGACGATAACAAA
66 TATGTAACGTAATAGGTAGCACATTTTTAAAGCTGATGGGGATTTAGAAATCCGACGATAACAAA
* *
321902 ATAGGTTAATTATTTAATTT-TTCATGTGTATTATCAACATATTAGGTAATGCCTAAAATGTTAC
131 ATAGGTTAATTACTTAATTTGTT-ATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTAC
* *
321966 CAATGTTTAAGCTGAT-AGAGCCTTAGAAATAC
195 CAAAGTTTAAGCTGATGA-AGCCTTAGAAATCC
*
321998 GATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
1 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * * * * * * *
322063 TATGTAATGTAATAGGTAGCGCCTTTTTATATCTGATGGGGCTTCAGAAATTCGACGATAACAAA
66 TATGTAACGTAATAGGTAGCACATTTTTAAAGCTGATGGGGATTTAGAAATCCGACGATAACAAA
* * * *
322128 ATAGGTAAATTACTTAATTT-TTCATGAGCATTATCAACATATT-GTGTAATGCCTAAAAAGTTT
131 ATAGGTTAATTACTTAATTTGTT-ATGAGTATTATCAACATATTAG-GTAATGCCTAAAATGTTA
* * *
322191 CCAAAGATTAATCTGATGGAGCCTTAGAAATCC
194 CCAAAGTTTAAGCTGATGAAGCCTTAGAAATCC
* * * * *
322224 GACAAAAACATAACCGGTTAATTGCTGGAAACATTATCAAGCATAATAGCATTTTAGGTAGCGCT
1 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * * * * * *
322289 AATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGAT-GGGACTTTTGAAAACTGACAATAACAA
66 TATGTAACGTAATAGGTAGCACATTTTTAAAGCTGATGGGGA-TTTAGAAATCCGACGATAACAA
* * *
322353 AATAGGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAATGCTTAAAAT
130 AATAGGTTAATTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATGCCTAAAAT
322413 CGTCAATGGC
Statistics
Matches: 565, Mismatches: 69, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
225 7 0.01
226 555 0.98
227 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (226 bp):
GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
TATGTAACGTAATAGGTAGCACATTTTTAAAGCTGATGGGGATTTAGAAATCCGACGATAACAAA
ATAGGTTAATTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACC
AAAGTTTAAGCTGATGAAGCCTTAGAAATCC
Found at i:323261 original size:118 final size:117
Alignment explanation
Indices: 323114--323715 Score: 340
Period size: 118 Copynumber: 5.3 Consensus size: 117
323104 GAAGCCTTAA
* * *
323114 AAATCCAACGATAACATAACCA-GTTAATTACTGGAAACATTATCATGCATAATAACATATTACG
1 AAATCCGACGATAACA-AAACAGGTTAATTACTGGAAACATTATCATGCATAATAACATATTAGG
*
323178 TAGCGCTTATGTAACGTAATAGGTAGCACATTTTTAAATCTGATGGGGATTTAG
65 TAGCGCTTATGTAA-GTAATAGGTAGCACATTTTTAAATCTGATGGGGCTTTAG
* ** * * * *
323232 AAATCCGACGATAACAAAATAGGTTAATTA-T-TTAA-TTTTTCATGTGTATTATCAACATATTA
1 AAATCCGACGATAACAAAACAGGTTAATTACTGGAAACATTATCA--TGCATAAT-AACATATTA
** * * * * * * * *
323294 GGTAATGC----CTAA--AAT-GTTACCA-ATGTTT-AAGCTGATAGAGCCTTAG
63 GGTAGCGCTTATGTAAGTAATAGGTAGCACATTTTTAAATCTGATGGGGCTTTAG
* * * * *
323340 AAATACGATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGT
1 AAATCCGACGATAACAAAACAGGTTAATTACTGGAAACATTATCATGCATAATAACATATTAGGT
* * * *
323405 AGCGCTTATGTAATGTAATAGGTAGCGCCTTTTTATATCTGATGGGGCTTCAG
66 AGCGCTTATGTAA-GTAATAGGTAGCACATTTTTAAATCTGATGGGGCTTTAG
* * * * * * *
323458 AAATTCGACGATAACAAAATAGGTAAATTACT--TAA-TTTTTCATGAGCATTATCAACATATT-
1 AAATCCGACGATAACAAAACAGGTTAATTACTGGAAACATTATCAT--GCATAAT-AACATATTA
* * ** *** * *
323519 -GT---G-TAATGCCTAA--AA-AGTTTCCA-AAGATT-AATCTGATGGAGCCTTAG
63 GGTAGCGCTTATG--TAAGTAATAGGTAGCACATTTTTAAATCTGATGGGGCTTTAG
* * * * * * * *
323566 AAATCCGACAAAAACATAACCGGTTAATTGCTGGAAACATTATCAAGCATAATAGCATTTTAGGT
1 AAATCCGACGATAACAAAACAGGTTAATTACTGGAAACATTATCATGCATAATAACATATTAGGT
* * * * *
323631 AGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGACTTTTG
66 AGCGCTTATGTAA-GTAATAGGTAGCACATTTTTAAATCTGATGGGGCTTTAG
* * * *
323684 AAAACTGACAATAACAAAATAGGTTAATTACT
1 AAATCCGACGATAACAAAACAGGTTAATTACT
323716 TAATTTGTTA
Statistics
Matches: 340, Mismatches: 107, Indels: 74
0.65 0.21 0.14
Matches are distributed among these distances:
108 97 0.29
109 19 0.06
110 15 0.04
111 15 0.04
112 10 0.03
113 2 0.01
114 10 0.03
115 15 0.04
116 14 0.04
117 22 0.06
118 121 0.36
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (117 bp):
AAATCCGACGATAACAAAACAGGTTAATTACTGGAAACATTATCATGCATAATAACATATTAGGT
AGCGCTTATGTAAGTAATAGGTAGCACATTTTTAAATCTGATGGGGCTTTAG
Found at i:323289 original size:226 final size:226
Alignment explanation
Indices: 322894--323760 Score: 1168
Period size: 226 Copynumber: 3.8 Consensus size: 226
322884 AAAATATATT
** * * * * *
322894 GACGATAACATAAGTGGTTAATTACTAGAAACATTATCAAGTATAATAAAATACTAGGTAGTGCT
1 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* ** *
322959 TATGTAACGTAATAGGTAGCACATTTTTAAAGCTGATAGGGACATAGAAATTCGACGATAACAAA
66 TATGTAACGTAATAGGTAGCACATTTTTAAAGCTGATGGGGATTTAGAAATCCGACGATAACAAA
*
323024 ATAGGTTAATTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAACACCTAAAATGTTACC
131 ATAGGTTAATTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATACCTAAAATGTTACC
*
323089 AAAGTTTAAGCTGATGAAGCCTTAAAAATCC
196 AAAGTTTAAGCTGATGAAGCCTTAGAAATCC
* * * *
323120 AACGATAACATAACCAGTTAATTACTGGAAACATTATCATGCATAATAACATATTACGTAGCGCT
1 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
*
323185 TATGTAACGTAATAGGTAGCACATTTTTAAATCTGATGGGGATTTAGAAATCCGACGATAACAAA
66 TATGTAACGTAATAGGTAGCACATTTTTAAAGCTGATGGGGATTTAGAAATCCGACGATAACAAA
* * *
323250 ATAGGTTAATTATTTAATTT-TTCATGTGTATTATCAACATATTAGGTAATGCCTAAAATGTTAC
131 ATAGGTTAATTACTTAATTTGTT-ATGAGTATTATCAACATATTAGGTAATACCTAAAATGTTAC
* *
323314 CAATGTTTAAGCTGAT-AGAGCCTTAGAAATAC
195 CAAAGTTTAAGCTGATGA-AGCCTTAGAAATCC
*
323346 GATGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
1 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * * * * * * *
323411 TATGTAATGTAATAGGTAGCGCCTTTTTATATCTGATGGGGCTTCAGAAATTCGACGATAACAAA
66 TATGTAACGTAATAGGTAGCACATTTTTAAAGCTGATGGGGATTTAGAAATCCGACGATAACAAA
* * * * *
323476 ATAGGTAAATTACTTAATTT-TTCATGAGCATTATCAACATATT-GTGTAATGCCTAAAAAGTTT
131 ATAGGTTAATTACTTAATTTGTT-ATGAGTATTATCAACATATTAG-GTAATACCTAAAATGTTA
* * *
323539 CCAAAGATTAATCTGATGGAGCCTTAGAAATCC
194 CCAAAGTTTAAGCTGATGAAGCCTTAGAAATCC
* * * * *
323572 GACAAAAACATAACCGGTTAATTGCTGGAAACATTATCAAGCATAATAGCATTTTAGGTAGCGCT
1 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * * * * *
323637 TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGAT-GGGACTTTTGAAAACTGACAATAACAA
66 TATGTAACGTAATAGGTAGCACATTTTTAAAGCTGATGGGGA-TTTAGAAATCCGACGATAACAA
* * *
323701 AATAGGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAATACTTAAAAT
130 AATAGGTTAATTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATACCTAAAAT
323761 CGTCAATGGC
Statistics
Matches: 565, Mismatches: 69, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
225 7 0.01
226 555 0.98
227 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (226 bp):
GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
TATGTAACGTAATAGGTAGCACATTTTTAAAGCTGATGGGGATTTAGAAATCCGACGATAACAAA
ATAGGTTAATTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATACCTAAAATGTTACC
AAAGTTTAAGCTGATGAAGCCTTAGAAATCC
Found at i:324655 original size:226 final size:225
Alignment explanation
Indices: 324243--325395 Score: 1474
Period size: 226 Copynumber: 5.1 Consensus size: 225
324233 AAAATACATT
* * *
324243 GACGATAA-ATAAGCAGTTAATTACTGGAAACATTATCAAGTATAATAACATATTAGGTAGTGCT
1 GACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * *
324307 TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAAT-CTATCGATAACAA
66 TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATTGGGCTTTAGAAATCCGA-CGATAACAA
* * *
324371 ATTAGGTTAACTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATACCTAAAATGTTAC
130 AATAGGTTAATTACTTAATTT-TTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTAC
*
324436 CAAAGTTTAAGCTGATGAAGCCTTAGAAATCC
194 CAAAGTTTAAGCTGATGGAGCCTTAGAAATCC
* * * *
324468 GACGATAACATAACCGGTTAATTACTGGAAACATGATCATGCATAATAACATATTACGTAGCGCT
1 GACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * * * * * *
324533 TATGTAACGTAATCGATAGCACATTTTTAAATCTGATTAGGATTTAGAAATCCGACGATAACAAA
66 TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATTGGGCTTTAGAAATCCGACGATAACAAA
* * * *
324598 ATAGGTTAATTATTTAATTTTTCATGTGTATTATCAATATATTAGGTAAAGCCTAAAATGTTACC
131 ATAGGTTAATTACTTAATTTTT-ATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACC
*
324663 AATGTTTAAGCTGATGGAGCCTTAGAAATCC
195 AAAGTTTAAGCTGATGGAGCCTTAGAAATCC
** * * *
324694 -AATATACCATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATTTTAGGTAGCTCT
1 GACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * * * * *
324758 TATGTAACATAATAGGTAGCACCTTTTTAAAACTGATGGGGCTTTAGAAATCCGATGATAACATA
66 TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATTGGGCTTTAGAAATCCGACGATAACAAA
* * * * * *
324823 ATAGGTAAATTACTTAATTTGTCATGAGCATTATCAACATATTACGTAATGCCTAAAATATTTCC
131 ATAGGTTAATTACTTAATTT-TTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACC
*
324888 AAAGTTTAATCTGATGGAGCCTTAGAAATCC
195 AAAGTTTAAGCTGATGGAGCCTTAGAAATCC
* * * * * * *
324919 GACAAAAATATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAGCATTTTAGCTAGCGCT
1 GACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * * *
324984 TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGA-TGGGACTTTTGAAAACTGACAATAACAA
66 TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATTGGG-CTTTAGAAATCCGACGATAACAA
* * * *
325048 AATAGGTTAATTACTTAATTTGTTATCAATATTATCAACATGTTAGGTAATGCTTAAAATGTTAC
130 AATAGGTTAATTACTTAATTT-TTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTAC
* *
325113 CAAAGTTTAAGCTGATGAAGCC-TAGAAATCT
194 CAAAGTTTAAGCTGATGGAGCCTTAGAAATCC
* *
325144 GATGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGTGCT
1 GACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* ** * *
325209 TATGTAACGTAAAAGGTAGCGTATTATTAAAGCTG-TTAGGGCCTTAGAAATCAC-ACGATAACA
66 TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATT-GGGCTTTAGAAATC-CGACGATAACA
** * * * *
325272 AAATAGGTTAATTACTTAATCGGTTATCAATATTATCATCATATTTGGTAATGCCTAAAATGTTA
129 AAATAGGTTAATTACTTAAT-TTTTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTA
* * *
325337 ACAAAGTTTAAGCTGATGGAGCCTAACAAATCC
193 CCAAAGTTTAAGCTGATGGAGCCTTAGAAATCC
*
325370 AACGATAACATAACCAGTTAATTACT
1 GACGATAACATAACCAGTTAATTACT
325396 TTATTTATTA
Statistics
Matches: 797, Mismatches: 120, Indels: 21
0.85 0.13 0.02
Matches are distributed among these distances:
225 396 0.50
226 399 0.50
227 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (225 bp):
GACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
TATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATTGGGCTTTAGAAATCCGACGATAACAAA
ATAGGTTAATTACTTAATTTTTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCA
AAGTTTAAGCTGATGGAGCCTTAGAAATCC
Found at i:325108 original size:451 final size:449
Alignment explanation
Indices: 324246--325395 Score: 1565
Period size: 451 Copynumber: 2.6 Consensus size: 449
324236 ATACATTGAC
* *
324246 GATAA-ATAAGCAGTTAATTACTGGAAACATTATCAAGTATAATAACATATTAGGTAGTGCTTAT
1 GATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGTGCTTAT
*
324310 GTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATCTATCGATAACAAATTA
66 GTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATCCAT-GATAACAAA-TA
* *
324375 GGTTAACTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATACCTAAAATGTTACCAAA
129 GGTTAATTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAA
*
324440 GTTTAAGCTGATGAAGCCTTAGAAATCCGACGATAACATAACCGGTTAATTACTGGAAACATGAT
194 GTTTAAGCTGATGGAGCCTTAGAAATCCGACGATAACATAACCGGTTAATTACTGGAAACATGAT
* * *
324505 CATGCATAATAACATATTACGTAGCGCTTATGTAACGTAATCGATAGCACATTTTTAAATCTGAT
259 CAAGCATAATAACATATTACGTAGCGCTTATGTAACGTAATAGATAGCACATTTTTAAAGCTGAT
* * * ***
324570 TAGGATTTAGAAATCCGACGATAACAAAATAGGTTAATTATTTAATTTTTCATGTGTATTATCAA
324 TAGGATTTAGAAAACCGACAATAACAAAATAGGTTAATTACTTAATTTTTCATCAATATTATCAA
* * *
324635 TATATTAGGTAAAGCCTAAAATGTTACCAATGTTTAAGCTGATGGAGCCTTAGAAATCCAAT
389 CATATTAGGTAAAGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCC-TAGAAATCCAAT
* *
324697 -ATACCATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATTTTAGGTAGCT-CTTA
1 GATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAG-TGCTTA
* * * *
324760 TGTAACATAATAGGTAGCACCTTTTTAAAACTGATGGGGCTTTAGAAATCCGATGATAACATAAT
65 TGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATCC-ATGATAACA-AAT
* * * * * *
324825 AGGTAAATTACTTAATTTGTCATGAGCATTATCAACATATTACGTAATGCCTAAAATATTTCCAA
128 AGGTTAATTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAA
* * * * *
324890 AGTTTAATCTGATGGAGCCTTAGAAATCCGACAAAAATATAACCGGTTAATTACTGGAAACATTA
193 AGTTTAAGCTGATGGAGCCTTAGAAATCCGACGATAACATAACCGGTTAATTACTGGAAACATGA
* * * * *
324955 TCAAGCATAATAGCATTTTA-GCTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTG
258 TCAAGCATAATAACATATTACG-TAGCGCTTATGTAACGTAATAGATAGCACATTTTTAAAGCTG
* * *
325019 A-TGGGACTTTTGAAAACTGACAATAACAAAATAGGTTAATTACTTAATTTGTT-ATCAATATTA
322 ATTAGGA-TTTAGAAAACCGACAATAACAAAATAGGTTAATTACTTAATTT-TTCATCAATATTA
* * * **
325082 TCAACATGTTAGGTAATGCTTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTAGAAATCTGAT
385 TCAACATATTAGGTAAAGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTAGAAATCCAAT
325147 GATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGTGCTTAT
1 GATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGTGCTTAT
* ** * * * *
325212 GTAACGTAAAAGGTAGCGTATTATTAAAGCTGTTAGGGCCTTAGAAATCACACGATAACAAAATA
66 GTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATC-CATGATAAC-AAATA
** * * * * *
325277 GGTTAATTACTTAATCGGTTATCAATATTATCATCATATTTGGTAATGCCTAAAATGTTAACAAA
129 GGTTAATTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAA
* * * *
325342 GTTTAAGCTGATGGAGCCTAACAAATCCAACGATAACATAACCAGTTAATTACT
194 GTTTAAGCTGATGGAGCCTTAGAAATCCGACGATAACATAACCGGTTAATTACT
325396 TTATTTATTA
Statistics
Matches: 606, Mismatches: 82, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
450 19 0.03
451 578 0.95
452 9 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (449 bp):
GATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGTGCTTAT
GTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATCCATGATAACAAATAGG
TTAATTACTTAATTTGTTATGAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAGT
TTAAGCTGATGGAGCCTTAGAAATCCGACGATAACATAACCGGTTAATTACTGGAAACATGATCA
AGCATAATAACATATTACGTAGCGCTTATGTAACGTAATAGATAGCACATTTTTAAAGCTGATTA
GGATTTAGAAAACCGACAATAACAAAATAGGTTAATTACTTAATTTTTCATCAATATTATCAACA
TATTAGGTAAAGCCTAAAATGTTACCAAAGTTTAAGCTGATGAAGCCTAGAAATCCAAT
Found at i:325792 original size:2 final size:2
Alignment explanation
Indices: 325781--325828 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
325771 AAATTATAAG
325781 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
325822 TA TA TA T
1 TA TA TA T
325829 GTGTGTGTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:325833 original size:2 final size:2
Alignment explanation
Indices: 325828--325893 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
325818 TATATATATA
325828 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T- TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
325869 TG TG TG TG TG TG TG TT TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
325894 ATTAGTAGTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Done.