Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 50 of 62
Found at i:11687256 original size:14 final size:14
Alignment explanation
Indices: 11687239--11687265 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11687229 TGAATCCATG
11687239 TGTGATGAACTATT
1 TGTGATGAACTATT
11687253 TGTGATGAACTAT
1 TGTGATGAACTAT
11687266 GTTACTCGAA
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:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (14 bp):
TGTGATGAACTATT
Found at i:11689689 original size:29 final size:29
Alignment explanation
Indices: 11689653--11689728 Score: 134
Period size: 29 Copynumber: 2.6 Consensus size: 29
11689643 AACTAAATTA
11689653 ATGTAAGCAATGACATCATTACTTAAATG
1 ATGTAAGCAATGACATCATTACTTAAATG
*
11689682 ATGTAAGCAATGACATCTTTACTTAAATG
1 ATGTAAGCAATGACATCATTACTTAAATG
*
11689711 ATATAAGCAATGACATCA
1 ATGTAAGCAATGACATCA
11689729 ATTTAGTTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (29 bp):
ATGTAAGCAATGACATCATTACTTAAATG
Found at i:11694419 original size:29 final size:29
Alignment explanation
Indices: 11694383--11694456 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
11694373 AACTAAATTA
11694383 ATGTAAGCAATGACATCATTACTTAAATG
1 ATGTAAGCAATGACATCATTACTTAAATG
*
11694412 ATGTAAGCAATGACATCTTTACTTAAATG
1 ATGTAAGCAATGACATCATTACTTAAATG
11694441 ATGTAAGCAATGACAT
1 ATGTAAGCAATGACAT
11694457 TAATTTAGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (29 bp):
ATGTAAGCAATGACATCATTACTTAAATG
Found at i:11698134 original size:90 final size:88
Alignment explanation
Indices: 11697970--11698143 Score: 303
Period size: 89 Copynumber: 2.0 Consensus size: 88
11697960 CCTAACACAC
11697970 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
*
11698035 TGTAATTAATTAGAATTTAATAAT
66 TGTAATTAATT-GAAATTAATAAT
*
11698059 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTAT
*
11698124 ATTTAATTAATTGAAATTAA
65 ATGTAATTAATTGAAATTAA
11698144 ATATTCAGGA
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
89 41 0.51
90 40 0.49
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (88 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
TGTAATTAATTGAAATTAATAAT
Found at i:11710644 original size:33 final size:33
Alignment explanation
Indices: 11710607--11710706 Score: 146
Period size: 33 Copynumber: 3.0 Consensus size: 33
11710597 ACCGTAGTGC
11710607 TAATCCGTATGACACATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
* **
11710640 TAATCCATATGACACATAAGGTCGTGTCCAAAA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
** *
11710673 TAATATGTATGATACATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
11710706 T
1 T
11710707 CTGTACTAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (33 bp):
TAATCCGTATGACACATAAGGTCGTGTCCACCA
Found at i:11717040 original size:20 final size:20
Alignment explanation
Indices: 11717015--11717053 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11717005 TTATATATAG
* *
11717015 TGAACAGTACTCGTGAACAT
1 TGAACAGTAATAGTGAACAT
11717035 TGAACAGTAATAGTGAACA
1 TGAACAGTAATAGTGAACA
11717054 ATACCTGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (20 bp):
TGAACAGTAATAGTGAACAT
Found at i:11717744 original size:33 final size:33
Alignment explanation
Indices: 11717707--11717773 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
11717697 ACCGTAGTGC
11717707 TAATCCGTATGACACATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
*
11717740 TAATCTGTATGACACATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
11717773 T
1 T
11717774 CTGTACTAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (33 bp):
TAATCCGTATGACACATAAGGTCGTGTCCACCA
Found at i:11717844 original size:57 final size:56
Alignment explanation
Indices: 11717742--11717862 Score: 145
Period size: 57 Copynumber: 2.2 Consensus size: 56
11717732 GTCCACCATA
** * **
11717742 ATCT-GTATGACACATAAGGTCGTGTCCACCATCTGTACTAAGTATCCTTAAGTAT
1 ATCTCGTATGACACATAAGGTCGTACCCACCATATACACTAAGTATCCTTAAGTAT
* * * *
11717797 AGTCTCGTATGGCACATAAGGTCGTACCCACCATATACACTAGGTATCCTTTAGTGT
1 A-TCTCGTATGACACATAAGGTCGTACCCACCATATACACTAAGTATCCTTAAGTAT
11717854 ATCTCGTAT
1 ATCTCGTAT
11717863 TATCAAAATT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
55 1 0.02
56 11 0.20
57 43 0.78
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (56 bp):
ATCTCGTATGACACATAAGGTCGTACCCACCATATACACTAAGTATCCTTAAGTAT
Found at i:11723474 original size:22 final size:22
Alignment explanation
Indices: 11723443--11723484 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11723433 CCGACAAAAG
*
11723443 AAAAACGCAAATCAGATGGATA
1 AAAAACGCAAATAAGATGGATA
*
11723465 AAAAATGCAAATAAGATGGA
1 AAAAACGCAAATAAGATGGA
11723485 CAACATCCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.10, G:0.19, T:0.14
Consensus pattern (22 bp):
AAAAACGCAAATAAGATGGATA
Found at i:11724175 original size:2 final size:2
Alignment explanation
Indices: 11724168--11724192 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11724158 ATCCAGCCCA
11724168 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11724193 ACAATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11728252 original size:17 final size:18
Alignment explanation
Indices: 11728230--11728267 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11728220 TTAAGTGGCT
* *
11728230 TCAATTT-CTAGTACATA
1 TCAATTTGCTAATACAAA
11728247 TCAATTTGCTAATACAAA
1 TCAATTTGCTAATACAAA
11728265 TCA
1 TCA
11728268 GAATCAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.37
Consensus pattern (18 bp):
TCAATTTGCTAATACAAA
Found at i:11728586 original size:3 final size:3
Alignment explanation
Indices: 11728578--11728655 Score: 97
Period size: 3 Copynumber: 25.7 Consensus size: 3
11728568 CTCTATTTTC
11728578 TAT TAT TAT TATT TAT TAT TAT T-T TAT ATAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* *
11728624 TAT T-T TATT TAT TAT TAT TAA AAT TAT TAT TA
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA
11728656 CAAACAGGCC
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
2 4 0.06
3 53 0.80
4 9 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11728628 original size:27 final size:27
Alignment explanation
Indices: 11728578--11728654 Score: 118
Period size: 27 Copynumber: 2.8 Consensus size: 27
11728568 CTCTATTTTC
11728578 TATTATTATTATTTATTATTATTTTATA
1 TATTATTATTA-TTATTATTATTTTATA
*
11728606 TATTATTATTATTATTATTATTTTATT
1 TATTATTATTATTATTATTATTTTATA
**
11728633 TATTATTATTAAAATTATTATT
1 TATTATTATTATTATTATTATT
11728655 ACAAACAGGC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 35 0.76
28 11 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TATTATTATTATTATTATTATTTTATA
Found at i:11732057 original size:12 final size:12
Alignment explanation
Indices: 11732040--11732064 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11732030 ACAAAACAAA
11732040 AGGGCGAAAGCG
1 AGGGCGAAAGCG
11732052 AGGGCGAAAGCG
1 AGGGCGAAAGCG
11732064 A
1 A
11732065 AGGCATTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.48, T:0.00
Consensus pattern (12 bp):
AGGGCGAAAGCG
Found at i:11741536 original size:12 final size:12
Alignment explanation
Indices: 11741521--11741592 Score: 67
Period size: 12 Copynumber: 5.7 Consensus size: 12
11741511 AAAATATGGA
11741521 AAAAAAAGAAAG
1 AAAAAAAGAAAG
11741533 AAAAAAA-AAAG
1 AAAAAAAGAAAG
11741544 AAAAGAAA-AAAG
1 AAAA-AAAGAAAG
11741556 AAGAAAAAAGAGAAG
1 -A-AAAAAAGA-AAG
*
11741571 AAGAAAAAAAAAG
1 AA-AAAAAGAAAG
11741584 AGAAAAAAG
1 A-AAAAAAG
11741593 GGGGTCAAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
11 8 0.16
12 14 0.27
13 14 0.27
14 12 0.24
15 3 0.06
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:11741540 original size:15 final size:14
Alignment explanation
Indices: 11741520--11741591 Score: 80
Period size: 15 Copynumber: 5.3 Consensus size: 14
11741510 GAAAATATGG
11741520 AAAAAAAAGAAAGAA
1 AAAAAAAAG-AAGAA
11741535 AAAAAAAAG-A-AA
1 AAAAAAAAGAAGAA
*
11741547 AGAAAAAAGAAGAA
1 AAAAAAAAGAAGAA
*
11741561 AAAAGAGAAGAAG-A
1 AAAA-AAAAGAAGAA
11741575 AAAAAAAAG-AGAA
1 AAAAAAAAGAAGAA
11741588 AAAA
1 AAAA
11741592 GGGGGTCAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
12 12 0.24
13 11 0.22
14 10 0.20
15 16 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAGAA
Found at i:11741552 original size:27 final size:27
Alignment explanation
Indices: 11741522--11741591 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 27
11741512 AAATATGGAA
11741522 AAAAAAGAAAGAAAAAAAAAAGAA-AAG
1 AAAAAAGAAAG-AAAAAAAAAGAAGAAG
*
11741549 AAAAAAG-AAG-AAAAAAGAGAAGAAG
1 AAAAAAGAAAGAAAAAAAAAGAAGAAG
*
11741574 AAAAAA-AAAGAGAAAAAA
1 AAAAAAGAAAGAAAAAAAA
11741592 GGGGGTCAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 10 0.27
25 12 0.32
26 8 0.22
27 7 0.19
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (27 bp):
AAAAAAGAAAGAAAAAAAAAGAAGAAG
Found at i:11741592 original size:27 final size:27
Alignment explanation
Indices: 11741519--11741592 Score: 89
Period size: 26 Copynumber: 2.7 Consensus size: 27
11741509 AGAAAATATG
*
11741519 GAAAAAAAAGAAAGAAAAAA-AAAAGAA
1 GAAAAAAAA-AGAGAAAAAAGAAAAGAA
* *
11741546 -AAGAAAAAAGAAGAAAAAAGAGAAGAA
1 GAAAAAAAAAG-AGAAAAAAGAAAAGAA
11741573 GAAAAAAAAAGAGAAAAAAG
1 GAAAAAAAAAGAGAAAAAAG
11741593 GGGGTCAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.03
26 15 0.38
27 15 0.38
28 9 0.22
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (27 bp):
GAAAAAAAAAGAGAAAAAAGAAAAGAA
Found at i:11743505 original size:124 final size:124
Alignment explanation
Indices: 11743318--11744199 Score: 1050
Period size: 124 Copynumber: 7.3 Consensus size: 124
11743308 CAAATTTTCC
* *
11743318 AGAAAGTTCATAATGAGAAGAACTTATCTGAA-AAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
11743382 GTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCCAG
66 GTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCCAG
11743441 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
** *** * *
11743506 GTTCAACCTTTTGTTTGAATTC-AT--C---ATTTGATGGATCA--A-CA---TTGCCAG
66 GTTCAACCTTTTGCAT-AATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCCAG
*
11743554 -GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGAAGA
1 AG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
*
11743614 ATTTGTACAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCCAG
62 ATTTGTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCCAG
11743677 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
** *** * *
11743742 GTTCAACCTTTTGTTTGAATTC-AT--C---ATTTGATGGATCA--A-CA---TTGCCAG
66 GTTCAACCTTTTGCAT-AATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCCAG
*
11743790 -GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGAAGA
1 AG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
11743850 ATTTGTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCCAG
62 ATTTGTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCCAG
* * **
11743913 AAAAAGTTCATAATGAGAAGAACTCATCTG-A-AA--AAGAAGAAGTTCACAATGAGAAGAGCTT
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
*
11743974 GTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAG
66 GTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCCAG
* * * * *
11744033 AGAAAGTTCATAATAAGAAGAACTCATTTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAACTT
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
* * * * * * * *
11744098 ATTCAACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCAACTTTTCCAG
66 GTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCCAG
* *
11744157 GGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAG
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
11744200 GAAGAAGAAT
Statistics
Matches: 654, Mismatches: 57, Indels: 95
0.81 0.07 0.12
Matches are distributed among these distances:
111 10 0.02
112 71 0.11
113 54 0.08
114 4 0.01
115 10 0.02
116 28 0.04
117 23 0.04
118 3 0.00
119 23 0.04
120 124 0.19
121 7 0.01
122 5 0.01
123 83 0.13
124 199 0.30
125 10 0.02
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (124 bp):
AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
GTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCCAG
Found at i:11743625 original size:112 final size:113
Alignment explanation
Indices: 11743445--11743866 Score: 522
Period size: 112 Copynumber: 3.7 Consensus size: 113
11743435 TTCCAGAGAA
11743445 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
11743510 AACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAG
66 AACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAG
11743558 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
* ** *** * * *
11743619 TACAACCTTTTGCAT-AATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCCAGAG-AA
63 TTCAACCTTTTGTTTGAATTC-AT--C---ATTTGATGGATCA--A-CA---TTGCCAG-GTAG
11743681 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
11743746 AACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAG
66 AACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAG
11743794 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
11743855 TTCAACCTTTTG
63 TTCAACCTTTTG
11743867 CATAATTCTA
Statistics
Matches: 266, Mismatches: 18, Indels: 51
0.79 0.05 0.15
Matches are distributed among these distances:
111 5 0.02
112 67 0.25
113 47 0.18
114 3 0.01
115 10 0.04
116 26 0.10
117 10 0.04
119 10 0.04
120 14 0.05
121 5 0.02
122 2 0.01
123 27 0.10
124 35 0.13
125 5 0.02
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAG
Found at i:11743675 original size:236 final size:234
Alignment explanation
Indices: 11743203--11744199 Score: 1427
Period size: 236 Copynumber: 4.2 Consensus size: 234
11743193 ATCAACAGTA
11743203 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
* * *
11743268 ATTTGTTCAACCTTTTGTTCGAATTCATCATTCGATGGATCAA-ATTTTCCA-GAAAGTTCATAA
66 ATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACA-TTGCCAGGAAAGTTCATAA
11743331 TGAGAAGAACT--TATCTGAAAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
130 TGAGAAGAACTCGTATCTG--AA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
11743394 GCATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTT
192 GCATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTT
11743437 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
*
11743502 ATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAA
66 ATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGG-AAAGTTCATAA
*
11743567 TGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTACAACCTTTTGC
130 TGAGAAGAACTCGT-ATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11743632 ATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTT
194 ATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTT
11743673 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
*
11743738 ATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAA
66 ATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGG-AAAGTTCATAA
11743803 TGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
130 TGAGAAGAACTCGT-ATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
11743868 ATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTT
194 ATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTT
* *
11743909 CCAGAAAAAGTTCATAATGAGAAGAACTCATCTG-A-AA--AAGAAGAAGTTCACAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
** ** * * * * *
11743970 GCTTGTTCAACCTTTTGCAT-AATTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGA
66 ATTTGTTCAACCTTTTGTTTGAATTC-AT--C------A-TTTGAT--GGATCAACATTGCCAG-
* * * ** * *
11744034 GAAAGTTCATAATAAGAAGAACTCATTTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAACTTA
118 GAAAGTTCATAATGAGAAGAACTCGTAT-CTGAAG-AAGAAGAAATTCATAATGAGAAGAATTTG
* * * * * * *
11744099 TTCAACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCAACTTTT
181 TTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTT
* *
11744153 CCAGGGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAG
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
11744200 GAAGAAGAAT
Statistics
Matches: 703, Mismatches: 35, Indels: 36
0.91 0.05 0.05
Matches are distributed among these distances:
231 5 0.01
232 41 0.06
234 114 0.16
235 3 0.00
236 372 0.53
237 2 0.00
238 1 0.00
239 5 0.01
240 1 0.00
241 4 0.01
242 1 0.00
243 39 0.06
244 106 0.15
245 1 0.00
246 2 0.00
248 6 0.01
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (234 bp):
CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
ATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAAGTTCATAAT
GAGAAGAACTCGTATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCAT
AATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTT
Found at i:11744010 original size:120 final size:121
Alignment explanation
Indices: 11743794--11744198 Score: 580
Period size: 120 Copynumber: 3.3 Consensus size: 121
11743784 TGCCAGGTAG
* *
11743794 AGTTCATAATGAGAAGAACTCGTCATCTGAAG-AAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATAAGAAGAA--C-TCATCTGAAGAAAGAAGAAATTCATAATGAGAAGAACTTGTTC
* *
11743858 AACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCCAGAAAA
63 AACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAA
* * * *
11743917 AGTTCATAATGAGAAGAACTCATCTGAA-AAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAAC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
11743981 CTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAA
66 CTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAA
* *
11744037 AGTTCATAATAAGAAGAACTCATTTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAACTTATTC
1 AGTTCATAATAAGAAGAACTCATCT---GAAGAAAGAAGAAATTCATAATGAGAAGAACTTGTTC
* * * * * * *
11744102 AACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCAACTTTTCCAGGGAA
63 AACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAA
*
11744161 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAA
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAA
11744199 GGAAGAAGAA
Statistics
Matches: 256, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
120 117 0.46
121 13 0.05
123 21 0.08
124 105 0.41
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (121 bp):
AGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
CTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAA
Found at i:11744010 original size:356 final size:353
Alignment explanation
Indices: 11743306--11744199 Score: 1030
Period size: 356 Copynumber: 2.5 Consensus size: 353
11743296 CATTCGATGG
* *
11743306 ATCAAATTTTCC--AGAAAGTTCATAATGAGAAGAACTTATCTGAA-AAGGAAGAAGAAATTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
11743368 AATGAGAAGAATTTGTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGCATCAGC
66 AATGAGAAGAATTTGTTCAACCTTTTGCATAATTCTAT-AC--AAGGAGATAGATCA-CATCA-C
*
11743433 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
126 -TTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
** *** * ** *
11743498 AAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTC
190 AAGAATTTGTTCAACCTTTTGCATGAATTCATCAGGAGATAGATCAACATTGCCAGAAAAAGTTC
* * *
11743563 ATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTACAACCTT
255 ATAATGAGAAGAAC-CGTCATCTGAAAAAGAAGAAATTCACAATGAGAAGAACTTGTACAACCTT
11743628 TTGCATAATTCTATCACAGAAGGAGATAGATCAGC
319 TTGCATAATTCTATCACAGAAGGAGATAGATCAGC
* *
11743663 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
** *** *
11743728 AATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTC-AT-C-ATTTGATGGATCA-A-CA-TTGC
66 AATGAGAAGAATTTGTTCAACCTTTTGCAT-AATTCTATACAAGGAGATAGATCACATCACTTGC
*
11743787 CAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGA
130 CAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
11743847 AGAATTTGTTCAACCTTTTGCAT-AATTCTATCACAGAAGGAGATAGATCAGCATCAGCTTTTCC
191 AGAATTTGTTCAACCTTTTGCATGAATTC-AT--C---AGGAGATAGATCA--A-CA---TTGCC
* *
11743911 AGAAAAAGTTCATAATGAGAAGAA-C-TCATCTGAAAAAGAAGAAGTTCACAATGAGAAGAGCTT
244 AGAAAAAGTTCATAATGAGAAGAACCGTCATCTGAAAAAGAAGAAATTCACAATGAGAAGAACTT
*
11743974 GTTCAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGC
309 GTACAACCTTTTGCATAATTCTATCACAGAAGGAGATAGATCAGC
* * *
11744019 ATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATTTGAAGAAGAAAGAAGAAATTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
* * * * * * *
11744084 AATGAGAAGAACTTATTCAACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCAAC
66 AATGAGAAGAATTTGTTCAACCTTTTGCATAATTCTAT-AC--AAGGAGATAGATC-ACATC-AC
* * *
11744149 TTTTCCAGGGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAG
126 -TTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
11744200 GAAGAAGAAT
Statistics
Matches: 453, Mismatches: 48, Indels: 62
0.80 0.09 0.11
Matches are distributed among these distances:
347 5 0.01
348 36 0.08
349 27 0.06
350 2 0.00
351 5 0.01
352 14 0.03
353 10 0.02
355 13 0.03
356 167 0.37
357 11 0.02
358 2 0.00
359 56 0.12
360 47 0.10
361 11 0.02
362 1 0.00
363 1 0.00
364 13 0.03
365 6 0.01
366 1 0.00
367 24 0.05
368 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (353 bp):
ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
AATGAGAAGAATTTGTTCAACCTTTTGCATAATTCTATACAAGGAGATAGATCACATCACTTGCC
AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
TTGTTCAACCTTTTGCATGAATTCATCAGGAGATAGATCAACATTGCCAGAAAAAGTTCATAATG
AGAAGAACCGTCATCTGAAAAAGAAGAAATTCACAATGAGAAGAACTTGTACAACCTTTTGCATA
ATTCTATCACAGAAGGAGATAGATCAGC
Found at i:11744471 original size:3 final size:3
Alignment explanation
Indices: 11744465--11744544 Score: 108
Period size: 3 Copynumber: 26.0 Consensus size: 3
11744455 CTCCATTTTC
11744465 TAT TAT TAT TATT TAT TAT TAT TAT T-T TAT ATAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* *
11744511 TAT TAT TATT TAT TAT TAT TAA AAT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
11744545 AAACAGGCCA
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.03
3 58 0.84
4 9 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11744540 original size:40 final size:42
Alignment explanation
Indices: 11744465--11744544 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 42
11744455 CTCCATTTTC
**
11744465 TATTATTATTATTTATTATTATTATTTTATATATTATTATTAT
1 TATTATTATTATTTATTATTATTA-TAAATATATTATTATTAT
11744508 TATTATTATTATTTATTATTATTA-AAAT-TATTATTAT
1 TATTATTATTATTTATTATTATTATAAATATATTATTAT
11744545 AAACAGGCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
40 9 0.26
41 2 0.06
43 24 0.69
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (42 bp):
TATTATTATTATTTATTATTATTATAAATATATTATTATTAT
Found at i:11750280 original size:135 final size:136
Alignment explanation
Indices: 11750005--11750283 Score: 386
Period size: 135 Copynumber: 2.1 Consensus size: 136
11749995 GTCATAAGTG
* * *
11750005 CATTTCGATATACATTTGTATATGATGGTTATCGATCGATTTTGTTTACTGCATATGTTGCATTT
1 CATTTCGACATACATTTGTATATAATGGTTATCGATCGATTTTGTTTAATGCATATGTTGCA-TT
* * * * *
11750070 TAGTATCAGTACTTTGTGTACTTTCGGCACTAGATGTGCAACCATGGTATTCATAATGAGTTTGT
65 TAGTATCAGTACTATATGTACTTTCGGCACTAGATGTGCAACCATAGAATTCATAATAAGTTTGT
11750135 GAATTAC
130 GAATTAC
11750142 CATTTCGACATACATTTGTGAGTA-AAT-GTTATCGATCGATTTTGTTTAATGCATATGTTGCA-
1 CATTTCGACATACATTTGT-A-TATAATGGTTATCGATCGATTTTGTTTAATGCATATGTTGCAT
* * *
11750204 TTCGTATCGGTACTATATGTACTTTCGGCACTATG-TGTGCATCCATAGAATTCATAATAAGTTT
64 TTAGTATCAGTACTATATGTACTTTCGGCACTA-GATGTGCAACCATAGAATTCATAATAAGTTT
*
11750268 GTGAATTTC
128 GTGAATTAC
11750277 CATTTCG
1 CATTTCG
11750284 GCACTTAGGT
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
135 69 0.54
136 1 0.01
137 52 0.41
138 3 0.02
139 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (136 bp):
CATTTCGACATACATTTGTATATAATGGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTT
AGTATCAGTACTATATGTACTTTCGGCACTAGATGTGCAACCATAGAATTCATAATAAGTTTGTG
AATTAC
Found at i:11755170 original size:23 final size:23
Alignment explanation
Indices: 11755144--11755193 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
11755134 GCGTGTTGTG
*
11755144 AAAACAAATGGAGATGTCGTGGC
1 AAAACAAATGGAAATGTCGTGGC
*** *
11755167 AAAATGGATGGAAATGTCTTGGC
1 AAAACAAATGGAAATGTCGTGGC
11755190 AAAA
1 AAAA
11755194 TAAAATGAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.28, T:0.20
Consensus pattern (23 bp):
AAAACAAATGGAAATGTCGTGGC
Found at i:11755194 original size:23 final size:23
Alignment explanation
Indices: 11755151--11755194 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11755141 GTGAAAACAA
*
11755151 ATGGAGATGTCGTGGCAAAATGG
1 ATGGAAATGTCGTGGCAAAATGG
*
11755174 ATGGAAATGTCTTGGCAAAAT
1 ATGGAAATGTCGTGGCAAAAT
11755195 AAAATGAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.25
Consensus pattern (23 bp):
ATGGAAATGTCGTGGCAAAATGG
Found at i:11757145 original size:2 final size:2
Alignment explanation
Indices: 11757138--11757172 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
11757128 ATTGTTATGA
11757138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11757173 GAAATATTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:11757181 original size:12 final size:12
Alignment explanation
Indices: 11757137--11757179 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
11757127 CATTGTTATG
11757137 AATATATATATA
1 AATATATATATA
*
11757149 TATATATATATA
1 AATATATATATA
*
11757161 TATATATTATATGA
1 AATATA-TATAT-A
11757175 AATAT
1 AATAT
11757180 TACAAGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 17 0.63
13 5 0.19
14 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
AATATATATATA
Found at i:11757631 original size:23 final size:24
Alignment explanation
Indices: 11757605--11757651 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
11757595 TTCTATGTAT
11757605 TCCTTCGGGACAAA-ACTATGTGG
1 TCCTTCGGGACAAATACTATGTGG
*
11757628 TCCTTCGGGACAAATTCTATGTGG
1 TCCTTCGGGACAAATACTATGTGG
11757652 CACTTTGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (24 bp):
TCCTTCGGGACAAATACTATGTGG
Found at i:11761461 original size:58 final size:58
Alignment explanation
Indices: 11761058--11761453 Score: 612
Period size: 58 Copynumber: 6.8 Consensus size: 58
11761048 CATATTTCCT
* * * *
11761058 ATACGGAAATCCATACACTTAGTATGAATCTCTTAACTTTTTACACACAAAGTGTCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* *
11761116 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAACTACCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
*
11761174 ATACGGAAATTCATACACTTAGCATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* *
11761232 ATACGAAAATTAATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* *
11761290 ATACGGAAATGCATACACTTAGTATGAATTTCTTAATTTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * * * *
11761348 ATATGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTTCACAAAAAGTGCCTA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * * *
11761406 ATACTGAAATTTAAACACTTAGTGTGAATTTCTTAACTTTTTGCACAC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
11761454 TTAGTGCCAT
Statistics
Matches: 307, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 307 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (58 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
Found at i:11761932 original size:19 final size:20
Alignment explanation
Indices: 11761888--11761926 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11761878 TTTGTTTTGA
*
11761888 ATGGTATCGATACCTTCCCT
1 ATGGTATCGATACCTCCCCT
11761908 ATGGTATCGATA-CTCCCCT
1 ATGGTATCGATACCTCCCCT
11761927 TCGGTACTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGGTATCGATACCTCCCCT
Found at i:11765885 original size:15 final size:15
Alignment explanation
Indices: 11765865--11765896 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11765855 ACCCATGCTA
*
11765865 CCCTTGCACTCTGAC
1 CCCTTGCACTCTAAC
11765880 CCCTTGCACTCTAAC
1 CCCTTGCACTCTAAC
11765895 CC
1 CC
11765897 ATAGGGTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.50, G:0.09, T:0.25
Consensus pattern (15 bp):
CCCTTGCACTCTAAC
Found at i:11768078 original size:58 final size:58
Alignment explanation
Indices: 11768013--11768398 Score: 574
Period size: 58 Copynumber: 6.8 Consensus size: 58
11768003 CATATTTTCC
* *
11768013 ATACGGAAATTCATACACTTAGTATGAATCTCTTAACTTTTTGCACACAAAGTGTCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
**
11768071 ATACGGAAATTTGTACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* *
11768129 ATACGGAATTTCATACATTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
11768187 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC--A------A
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* * * * *
11768237 A-ACAGAAATCCATACACTTAGTATGAATTTCTTAACATTTTACACACAAATTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
*
11768294 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTACACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
** *
11768352 ATACAAAAATTCATACACTTAGTATAAATTTCTTAACTTTTTGCACA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACA
11768399 TTTAGTGCCA
Statistics
Matches: 297, Mismatches: 22, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
49 42 0.14
50 2 0.01
51 1 0.00
56 1 0.00
57 2 0.01
58 249 0.84
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (58 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
Found at i:11768309 original size:165 final size:168
Alignment explanation
Indices: 11768013--11768398 Score: 571
Period size: 165 Copynumber: 2.3 Consensus size: 168
11768003 CATATTTTCC
* *
11768013 ATACGGAAATTCATACACTTAGTATGAATCTCTTAACTTTTTGCACACAAAGTGTCCAATACGGA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC-AA-----CAATACAGA
*** * * *
11768078 AATTTGTACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGGAATTTCAT
60 AATCCATACACTTAGTATGAATTTCTTAACATTTTACACACAAAGTGCCCAATACGGAAATTCAT
* *
11768143 ACATTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
125 ACACTTAGTATGAATTTCTTAACTTTTTACACACAAAGTGCCCA
11768187 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC-A-AA-ACAGAAATCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAACAATACAGAAATCCA
*
11768249 TACACTTAGTATGAATTTCTTAACATTTTACACACAAATTGCCCAATACGGAAATTCATACACTT
66 TACACTTAGTATGAATTTCTTAACATTTTACACACAAAGTGCCCAATACGGAAATTCATACACTT
11768314 AGTATGAATTTCTTAACTTTTTACACACAAAGTGCCCA
131 AGTATGAATTTCTTAACTTTTTACACACAAAGTGCCCA
** *
11768352 ATACAAAAATTCATACACTTAGTATAAATTTCTTAACTTTTTGCACA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACA
11768399 TTTAGTGCCA
Statistics
Matches: 198, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
165 148 0.75
166 2 0.01
172 1 0.01
174 47 0.24
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (168 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAACAATACAGAAATCCA
TACACTTAGTATGAATTTCTTAACATTTTACACACAAAGTGCCCAATACGGAAATTCATACACTT
AGTATGAATTTCTTAACTTTTTACACACAAAGTGCCCA
Found at i:11768326 original size:107 final size:107
Alignment explanation
Indices: 11768140--11768344 Score: 365
Period size: 107 Copynumber: 1.9 Consensus size: 107
11768130 TACGGAATTT
* * *
11768140 CATACATTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGGAAATTCATACAC
1 CATACACTTAGTATGAATTTCTTAACATTTTACACACAAAGTGCCCAATACGGAAATTCATACAC
*
11768205 TTAGTATGAATTTCTTAACTTTTTGCACACAAAACAGAAATC
66 TTAGTATGAATTTCTTAACTTTTTACACACAAAACAGAAATC
*
11768247 CATACACTTAGTATGAATTTCTTAACATTTTACACACAAATTGCCCAATACGGAAATTCATACAC
1 CATACACTTAGTATGAATTTCTTAACATTTTACACACAAAGTGCCCAATACGGAAATTCATACAC
11768312 TTAGTATGAATTTCTTAACTTTTTACACACAAA
66 TTAGTATGAATTTCTTAACTTTTTACACACAAA
11768345 GTGCCCAATA
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 93 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (107 bp):
CATACACTTAGTATGAATTTCTTAACATTTTACACACAAAGTGCCCAATACGGAAATTCATACAC
TTAGTATGAATTTCTTAACTTTTTACACACAAAACAGAAATC
Found at i:11768865 original size:19 final size:19
Alignment explanation
Indices: 11768822--11768874 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
11768812 TCTGTTTTGA
*
11768822 ATGGTATCGATACCTTCCCT
1 ATGGTATCGATA-CTCCCCT
*
11768842 ATGGTATTGATACTCCCCT
1 ATGGTATCGATACTCCCCT
*
11768861 TTGGTATCGATACT
1 ATGGTATCGATACT
11768875 AAATGAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (19 bp):
ATGGTATCGATACTCCCCT
Found at i:11773805 original size:20 final size:20
Alignment explanation
Indices: 11773768--11773806 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11773758 TTACCACCAT
*
11773768 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
* *
11773788 ATGCATCTATATTATCCTA
1 ATGCAACTATATGATCCTA
11773807 TATGAGCTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:11775619 original size:38 final size:38
Alignment explanation
Indices: 11775577--11775652 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
11775567 AAGAGGTAAG
*
11775577 GGCCATCTCAATGACAGTAGCCAGCATCGTGTATGACC
1 GGCCATCCCAATGACAGTAGCCAGCATCGTGTATGACC
*
11775615 GGCCATCCCAATGACGGTAGCCAGCATCGTGTATGACC
1 GGCCATCCCAATGACAGTAGCCAGCATCGTGTATGACC
11775653 TTGTTCTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (38 bp):
GGCCATCCCAATGACAGTAGCCAGCATCGTGTATGACC
Found at i:11779499 original size:20 final size:20
Alignment explanation
Indices: 11779470--11779508 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11779460 TTTCCACCAC
*
11779470 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
11779490 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
11779509 TATGAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:11782570 original size:17 final size:17
Alignment explanation
Indices: 11782538--11782579 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
11782528 ATTTGGTTTG
*
11782538 AATCTCAATCACATATTC
1 AATCTCATTCACATA-TC
*
11782556 -ATCTCATTCATATATC
1 AATCTCATTCACATATC
11782572 AATCTCAT
1 AATCTCAT
11782580 GAATATCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (17 bp):
AATCTCATTCACATATC
Found at i:11783732 original size:14 final size:14
Alignment explanation
Indices: 11783713--11783751 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
11783703 TAATGGGGAG
11783713 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
11783727 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
* *
11783741 GAATCTCTGCA
1 TAATCCCTGCA
11783752 TATAGTAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:11788047 original size:59 final size:59
Alignment explanation
Indices: 11787974--11788380 Score: 670
Period size: 59 Copynumber: 6.9 Consensus size: 59
11787964 ATTACCAAAT
* * *
11787974 GGCACTAAATGTGCTAAAATGATAAGAAAAACATACTAAGTGTATGAATTTCCAGATAG
1 GGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
*
11788033 GGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCATATAG
1 GGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
11788092 GGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
1 GGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
*
11788151 GGCACTAAGTGTGCTAATATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
1 GGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
* ** *
11788210 GGCGCTTCGGGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
1 GGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
**
11788269 GGCACTTCGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
1 GGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
** * *
11788328 GGCACTTCGTGTGCTAAAATGATAAGGAAACCATACTAATTGTATGAAGTTTC
1 GGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAA-TTTC
11788381 TATTGAATTT
Statistics
Matches: 332, Mismatches: 15, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
59 328 0.99
60 4 0.01
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.28
Consensus pattern (59 bp):
GGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
Found at i:11788074 original size:31 final size:31
Alignment explanation
Indices: 11788036--11788134 Score: 84
Period size: 31 Copynumber: 3.3 Consensus size: 31
11788026 CAGATAGGGC
11788036 ACTAAGTGTGCTAAAATGATAAGGAAATCAT
1 ACTAAGTGTGCTAAAATGATAAGGAAATCAT
* ** * *
11788067 ACTAAGTGT-ATGAATTTCCATATAGG---GC--
1 ACTAAGTGTGCT-AAAAT-GATA-AGGAAATCAT
11788095 ACTAAGTGTGCTAAAATGATAAGGAAATCAT
1 ACTAAGTGTGCTAAAATGATAAGGAAATCAT
11788126 ACTAAGTGT
1 ACTAAGTGT
11788135 ATGAATTTCC
Statistics
Matches: 49, Mismatches: 10, Indels: 18
0.64 0.13 0.23
Matches are distributed among these distances:
26 3 0.06
27 3 0.06
28 12 0.24
29 2 0.04
30 2 0.04
31 21 0.43
32 3 0.06
33 3 0.06
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.28
Consensus pattern (31 bp):
ACTAAGTGTGCTAAAATGATAAGGAAATCAT
Found at i:11789720 original size:10 final size:10
Alignment explanation
Indices: 11789705--11789739 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
11789695 CTGCTTCAGA
11789705 TTATATATAT
1 TTATATATAT
11789715 TTATATATA-
1 TTATATATAT
11789724 -TATATATAT
1 TTATATATAT
11789733 TTATATA
1 TTATATA
11789740 CAAGCATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.35
10 15 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TTATATATAT
Found at i:11789754 original size:2 final size:2
Alignment explanation
Indices: 11789706--11789739 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
11789696 TGCTTCAGAT
* *
11789706 TA TA TA TA TT TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11789740 CAAGCATATA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:11791824 original size:17 final size:18
Alignment explanation
Indices: 11791786--11791831 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
11791776 GTTTCTGAGA
11791786 GAATTGGAATCTGTGAAG
1 GAATTGGAATCTGTGAAG
*
11791804 GAATTGGAATCTGT-CAG
1 GAATTGGAATCTGTGAAG
11791821 GAATTGGAATC
1 GAATTGGAATC
11791832 CAATTCCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (18 bp):
GAATTGGAATCTGTGAAG
Found at i:11795565 original size:21 final size:21
Alignment explanation
Indices: 11795533--11795573 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11795523 TTCAAGTTGA
11795533 CTTTATTTTTGGTAACATGGGC
1 CTTTATTTTTGG-AACATGGGC
*
11795555 CTTTA-TTTTGGAGCATGGG
1 CTTTATTTTTGGAACATGGG
11795574 GTATCGGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.12, G:0.27, T:0.44
Consensus pattern (21 bp):
CTTTATTTTTGGAACATGGGC
Found at i:11795732 original size:75 final size:74
Alignment explanation
Indices: 11795644--11795830 Score: 241
Period size: 75 Copynumber: 2.5 Consensus size: 74
11795634 GTTAAATGCC
* *
11795644 TAGGTGTATCGGTA-CCTATAAGGGGGTATCGGTACTCATCGGGCATTCTATTTTTCTCAGAGCC
1 TAGGGGTATCGGTACCCTATAA-GGGGTATCGGTACCCATCGGGCATTCTATTTTTCTCAGAGCC
*
11795708 AAAAATTTGCA
65 -AAAATTGGCA
* * ** *
11795719 TAGGGGTATCGGTACCCAATAAGGGGTATCAGTACCCATTTGGCATTCTATTTTTCTCGGAGCCA
1 TAGGGGTATCGGTACCCTATAAGGGGTATCGGTACCCATCGGGCATTCTATTTTTCTCAGAGCCA
11795784 AAATTGGCA
66 AAATTGGCA
* *
11795793 TAGGGGTATTGGTACACCCTATGAGGGGTATCGGTACC
1 TAGGGGTATCGGT--ACCCTATAAGGGGTATCGGTACC
11795831 TCTCTATTTA
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
74 21 0.22
75 50 0.52
76 26 0.27
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (74 bp):
TAGGGGTATCGGTACCCTATAAGGGGTATCGGTACCCATCGGGCATTCTATTTTTCTCAGAGCCA
AAATTGGCA
Found at i:11798444 original size:23 final size:21
Alignment explanation
Indices: 11798413--11798471 Score: 82
Period size: 23 Copynumber: 2.7 Consensus size: 21
11798403 GTACCCTTAT
11798413 AGGGGTATCGATACACATTCAA
1 AGGGGTATCGATACACATT-AA
* *
11798435 AGAGGGTATCGATACACGTTGA
1 AG-GGGTATCGATACACATTAA
11798457 AGGGGTATCGATACA
1 AGGGGTATCGATACA
11798472 TGTTGCACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 13 0.38
22 5 0.15
23 16 0.47
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (21 bp):
AGGGGTATCGATACACATTAA
Found at i:11798464 original size:21 final size:21
Alignment explanation
Indices: 11798413--11798476 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
11798403 GTACCCTTAT
* *
11798413 AGGGGTATCGATACACATTCAA
1 AGGGGTATCGATACACGTT-GA
11798435 AGAGGGTATCGATACACGTTGA
1 AG-GGGTATCGATACACGTTGA
*
11798457 AGGGGTATCGATACATGTTG
1 AGGGGTATCGATACACGTTG
11798477 CACAAAACTG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.45
22 5 0.13
23 16 0.42
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (21 bp):
AGGGGTATCGATACACGTTGA
Found at i:11802943 original size:75 final size:74
Alignment explanation
Indices: 11802864--11803049 Score: 195
Period size: 75 Copynumber: 2.5 Consensus size: 74
11802854 GTTAAATGAC
11802864 TAGGGGTATCGATACCTATAAGGGGGTATCGGTACCCA-TCGGACATTCTATTTTTCTCGGA-CA
1 TAGGGGTATCGATACCTATAAGGGGGTATCGGTACCCATTCGG-CATTCTATTTTTCTCGGAGC-
11802927 CAAAAACTGGCA
64 C-AAAACTGGCA
* * * * *
11802939 TAGGGGTATCGGTACCCAATGAA--GGGTATCGGTACACATTTGGCATTCTGTTTTTCTCGGAGC
1 TAGGGGTATCGATA-CCTAT-AAGGGGGTATCGGTACCCATTCGGCATTCTATTTTTCTCGGAGC
*
11803002 CAAAATTGGCA
64 CAAAACTGGCA
*
11803013 -AGGGGTATCGATACACCT-TATGAGGGGTATCGGTACC
1 TAGGGGTATCGAT--ACCTATAAG-GGGGTATCGGTACC
11803050 TCCCTATTTA
Statistics
Matches: 92, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
72 1 0.01
73 12 0.13
74 11 0.12
75 58 0.63
76 8 0.09
77 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (74 bp):
TAGGGGTATCGATACCTATAAGGGGGTATCGGTACCCATTCGGCATTCTATTTTTCTCGGAGCCA
AAACTGGCA
Found at i:11806990 original size:20 final size:20
Alignment explanation
Indices: 11806951--11806990 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11806941 TATTTCCACC
**
11806951 AAATGCAACTATATTCTCCT
1 AAATGCAACTATATGATCCT
*
11806971 AAATGCATCTATATGATCCT
1 AAATGCAACTATATGATCCT
11806991 TTATGAGCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (20 bp):
AAATGCAACTATATGATCCT
Found at i:11817676 original size:18 final size:18
Alignment explanation
Indices: 11817637--11817676 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11817627 ACGGAATCAC
** *
11817637 ATAAAACAAAGTTTAAAC
1 ATAAAACAAAGTAAAAAA
11817655 ATAAAACAAAGTAAAAAA
1 ATAAAACAAAGTAAAAAA
11817673 ATAA
1 ATAA
11817677 TTAATCAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.17
Consensus pattern (18 bp):
ATAAAACAAAGTAAAAAA
Found at i:11822477 original size:21 final size:21
Alignment explanation
Indices: 11822451--11822490 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11822441 ATATATCACA
*
11822451 TATATGTCCCGAATGACCAGT
1 TATATGTCCCAAATGACCAGT
11822472 TATATGTCCCAAATGACCA
1 TATATGTCCCAAATGACCA
11822491 CATAGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (21 bp):
TATATGTCCCAAATGACCAGT
Found at i:11825844 original size:5 final size:5
Alignment explanation
Indices: 11825834--11825858 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11825824 TTGTAGCCCT
11825834 TTCTC TTCTC TTCTC TTCTC TTCTC
1 TTCTC TTCTC TTCTC TTCTC TTCTC
11825859 ATTTTTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
TTCTC
Found at i:11829501 original size:85 final size:85
Alignment explanation
Indices: 11829353--11829518 Score: 194
Period size: 85 Copynumber: 2.0 Consensus size: 85
11829343 ATACAATCAC
* * * * *
11829353 GACACACGAATGTGTGTCATCTTTTTTAATGGCGTGTGCTTCAATGACACGCAACGTAAGTCATA
1 GACACACAAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACGCAACGTAAGTCATA
*
11829418 CA-TGCGTGTCATAAATTTAT
66 -ATTGCGCGTCATAAATTTAT
* * * *
11829438 GACACACAAATGTGTTTCATCTTAATTT-ATGACGGGGGCTTCAATGACGCTCAATG-AACGTCA
1 GACACACAAATGTGTGTCATCTT-ATTTAATGACGGGGGCTTCAATGACACGCAACGTAA-GTCA
11829501 TAATTGCGCGTCATAAAT
64 TAATTGCGCGTCATAAAT
11829519 GTGTGTCATA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
84 3 0.04
85 62 0.91
86 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (85 bp):
GACACACAAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACGCAACGTAAGTCATA
ATTGCGCGTCATAAATTTAT
Found at i:11829514 original size:13 final size:13
Alignment explanation
Indices: 11829496--11829544 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
11829486 GCTCAATGAA
*
11829496 CGTCATAATTGCG
1 CGTCATAAATGCG
*
11829509 CGTCATAAATGTG
1 CGTCATAAATGCG
*
11829522 TGTCATAAATGCG
1 CGTCATAAATGCG
11829535 CGTCATAAAT
1 CGTCATAAAT
11829545 TTATGACGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:11830337 original size:21 final size:21
Alignment explanation
Indices: 11830311--11830351 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11830301 ATATATCACA
11830311 TATATGTCCCAAAAGACCACT
1 TATATGTCCCAAAAGACCACT
* *
11830332 TATATGTCCCGAATGACCAC
1 TATATGTCCCAAAAGACCAC
11830352 ATAGAACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.24
Consensus pattern (21 bp):
TATATGTCCCAAAAGACCACT
Found at i:11834549 original size:16 final size:16
Alignment explanation
Indices: 11834528--11834560 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11834518 AATATATAAA
*
11834528 ACAAATTTAAACATCC
1 ACAAATTCAAACATCC
11834544 ACAAATTCAAACATCC
1 ACAAATTCAAACATCC
11834560 A
1 A
11834561 TAAACATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (16 bp):
ACAAATTCAAACATCC
Found at i:11836536 original size:23 final size:22
Alignment explanation
Indices: 11836509--11836561 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 22
11836499 TCAGTTCCCT
*
11836509 CAAGGGGGAATCGGTACCCATT
1 CAAGGGGGAATCGGTACCCATA
*
11836531 CAAAGGGAGAATCGGTACCCATA
1 C-AAGGGGGAATCGGTACCCATA
11836554 CAAGGGGG
1 CAAGGGGG
11836562 TATCAATTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.32, C:0.21, G:0.34, T:0.13
Consensus pattern (22 bp):
CAAGGGGGAATCGGTACCCATA
Found at i:11840397 original size:21 final size:22
Alignment explanation
Indices: 11840371--11840413 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
11840361 AAGACTATTT
11840371 TCATTTTTCAATTTT-AAAATA
1 TCATTTTTCAATTTTGAAAATA
**
11840392 TCATTTTTGTATTTTGAAAATA
1 TCATTTTTCAATTTTGAAAATA
11840414 AAGTCTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (22 bp):
TCATTTTTCAATTTTGAAAATA
Found at i:11846018 original size:33 final size:33
Alignment explanation
Indices: 11845978--11846179 Score: 144
Period size: 36 Copynumber: 5.8 Consensus size: 33
11845968 TCCTTTTATT
* * *
11845978 TAAAATTCAAATTTCAGGCTTATTTTCAATAAA
1 TAAAATTCAAATCTCAGCCTTATCTTCAATAAA
* *
11846011 TAAAATTCAAATCCCACCCTTATCTTCAATAGAAAA
1 TAAAATTCAAATCTCAGCCTTATCTTCAAT---AAA
**
11846047 TAAAATTCAAA-CTCTAGCCTTATCTTCAGCAAA
1 TAAAATTCAAATCTC-AGCCTTATCTTCAATAAA
* *
11846080 TAAAATTCAAAT-TCCAACCTTATCTTCAGCATCTAA
1 TAAAATTCAAATCT-CAGCCTTATCTTCA--AT-AAA
*
11846116 TAAAATTCAAA-CTCCAGTCTTATCTTCAGCAGCT-AA
1 TAAAATTCAAATCT-CAGCCTTATCTTCA--A--TAAA
*
11846152 TAAAATTCAAAT-TACAACCTTATCTTCA
1 TAAAATTCAAATCT-CAGCCTTATCTTCA
11846180 GTAGCTATCC
Statistics
Matches: 138, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
33 52 0.38
34 1 0.01
35 2 0.01
36 82 0.59
38 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (33 bp):
TAAAATTCAAATCTCAGCCTTATCTTCAATAAA
Found at i:11846055 original size:69 final size:69
Alignment explanation
Indices: 11845978--11846179 Score: 208
Period size: 69 Copynumber: 2.9 Consensus size: 69
11845968 TCCTTTTATT
* * * * *
11845978 TAAAATTCAAA-TTTCAGGCTTATTTTCAATAAATAAAATTCAAATCCCACCCTTATCTTCAATA
1 TAAAATTCAAACTCT-AGCCTTATCTTCAACAAATAAAATTCAAATCCCAACCTTATCTTCAATA
11846042 GAAAA
65 GAAAA
* * ** *
11846047 TAAAATTCAAACTCTAGCCTTATCTTCAGCAAATAAAATTCAAATTCCAACCTTATCTTCAGCAT
1 TAAAATTCAAACTCTAGCCTTATCTTCAACAAATAAAATTCAAATCCCAACCTTATCTTCAATAG
**
11846112 CTAA
66 AAAA
* * * **
11846116 TAAAATTCAAACTCCAGTCTTATCTTCAGCAGCTAATAAAATTCAAATTACAACCTTATCTTCA
1 TAAAATTCAAACTCTAGCCTTATCTTCA--A-CAAATAAAATTCAAATCCCAACCTTATCTTCA
11846180 GTAGCTATCC
Statistics
Matches: 112, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
69 80 0.71
70 2 0.02
72 30 0.27
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (69 bp):
TAAAATTCAAACTCTAGCCTTATCTTCAACAAATAAAATTCAAATCCCAACCTTATCTTCAATAG
AAAA
Found at i:11846186 original size:36 final size:36
Alignment explanation
Indices: 11846009--11846186 Score: 200
Period size: 36 Copynumber: 5.0 Consensus size: 36
11845999 ATTTTCAATA
* * ** **
11846009 AATAAAATTCAAATCCCACCCTTATCTTCAATAGAA
1 AATAAAATTCAAATTCCAACCTTATCTTCAGCAGCT
* * *
11846045 AATAAAATTCAAACTCTAGCCTTATCTTCAGCA---
1 AATAAAATTCAAATTCCAACCTTATCTTCAGCAGCT
*
11846078 AATAAAATTCAAATTCCAACCTTATCTTCAGCATCT
1 AATAAAATTCAAATTCCAACCTTATCTTCAGCAGCT
* **
11846114 AATAAAATTCAAACTCCAGTCTTATCTTCAGCAGCT
1 AATAAAATTCAAATTCCAACCTTATCTTCAGCAGCT
* *
11846150 AATAAAATTCAAATTACAACCTTATCTTCAGTAGCT
1 AATAAAATTCAAATTCCAACCTTATCTTCAGCAGCT
11846186 A
1 A
11846187 TCCACTCCTA
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
33 30 0.25
36 91 0.75
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (36 bp):
AATAAAATTCAAATTCCAACCTTATCTTCAGCAGCT
Found at i:11851816 original size:75 final size:75
Alignment explanation
Indices: 11851693--11851914 Score: 338
Period size: 75 Copynumber: 3.0 Consensus size: 75
11851683 TATCTCAAGG
* * * *
11851693 TTTATTAATGTCGTTGCCGCTACCATTGCTTGACATCATCGTTGTCACCATCAAATACTCACCCC
1 TTTATTAATGTCGTTGCCGCTACCATCGCTTGACGTCGTCGTTGTCACCGTCAAATACTCACCCC
11851758 CTATCGTAGA
66 CTATCGTAGA
11851768 TTTATTAATGTCGTTGCCGCTACCATCGCTTGACGTCGTCGTTGTCACCGTCAAATACTCACCCC
1 TTTATTAATGTCGTTGCCGCTACCATCGCTTGACGTCGTCGTTGTCACCGTCAAATACTCACCCC
*
11851833 CTATCGTAGG
66 CTATCGTAGA
* * * * *
11851843 TTTACT-ATAGTCATTGTCGCTACCACCGCTTGACGTCGTCGTTGTCACTGTCAAATACTCACCC
1 TTTATTAAT-GTCGTTGCCGCTACCATCGCTTGACGTCGTCGTTGTCACCGTCAAATACTCACCC
11851907 CCTATCGT
65 CCTATCGT
11851915 TGGACCTTCC
Statistics
Matches: 136, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
74 2 0.01
75 134 0.99
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.33
Consensus pattern (75 bp):
TTTATTAATGTCGTTGCCGCTACCATCGCTTGACGTCGTCGTTGTCACCGTCAAATACTCACCCC
CTATCGTAGA
Found at i:11852793 original size:8 final size:9
Alignment explanation
Indices: 11852768--11852797 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
11852758 CTAAACATTT
11852768 TTTTAAAAA
1 TTTTAAAAA
11852777 TTTTAAAAA
1 TTTTAAAAA
11852786 TTTTAAAAA
1 TTTTAAAAA
11852795 TTT
1 TTT
11852798 CATATCAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:11854034 original size:10 final size:10
Alignment explanation
Indices: 11854019--11854045 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
11854009 TCATGAATTG
11854019 AAGCTCGTAA
1 AAGCTCGTAA
11854029 AAGCTCGTAA
1 AAGCTCGTAA
11854039 AAGCTCG
1 AAGCTCG
11854046 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (10 bp):
AAGCTCGTAA
Found at i:11854576 original size:44 final size:42
Alignment explanation
Indices: 11854476--11854661 Score: 232
Period size: 42 Copynumber: 4.4 Consensus size: 42
11854466 CGTTTTTCGG
* *
11854476 ATACAAACGCCGTAAAAGGTGT-G-ATATAGCGGCATTTTTT
1 ATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCATTTTTT
*
11854516 ATACAAACGCTGCAAAAGGTCTGGTATATAGCGGCATTTTTTTT
1 ATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCA--TTTTTT
* * ** *
11854560 ATACAAACGCCACAAAAGGTGTGAAATATAACGGCATTTTTT
1 ATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCATTTTTT
*
11854602 ATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGTTTTTT
1 ATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCATTTTTT
* *
11854644 GTTACAAACGCCTCAAAA
1 -ATACAAACGCCGCAAAA
11854662 TATCTAAATT
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 19 0.15
41 1 0.01
42 53 0.43
43 15 0.12
44 36 0.29
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (42 bp):
ATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCATTTTTT
Found at i:11854607 original size:86 final size:84
Alignment explanation
Indices: 11854476--11854661 Score: 284
Period size: 86 Copynumber: 2.2 Consensus size: 84
11854466 CGTTTTTCGG
** * *
11854476 ATACAAACGCCGTAAAAGGTGTGATATAGCGGCATTTTTTATACAAACGCTGCAAAAGGTCTGGT
1 ATACAAACGCCACAAAAGGTGTGATATAACGGCATTTTTTATACAAACGCCGCAAAAGGTCTGGT
*
11854541 ATATAGCGGCATTTTTTTT
66 ATATAGCGGCATTTTTTGT
11854560 ATACAAACGCCACAAAAGGTGTGAAATATAACGGCATTTTTTATACAAACGCCGCAAAAGGTCTG
1 ATACAAACGCCACAAAAGGTGTG--ATATAACGGCATTTTTTATACAAACGCCGCAAAAGGTCTG
*
11854625 GTATATAGCGGCGTTTTTTGT
64 GTATATAGCGGCATTTTTTGT
*
11854646 -TACAAACGCCTCAAAA
1 ATACAAACGCCACAAAA
11854662 TATCTAAATT
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
84 21 0.23
85 15 0.16
86 57 0.61
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (84 bp):
ATACAAACGCCACAAAAGGTGTGATATAACGGCATTTTTTATACAAACGCCGCAAAAGGTCTGGT
ATATAGCGGCATTTTTTGT
Found at i:11855082 original size:21 final size:21
Alignment explanation
Indices: 11855058--11855126 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
11855048 GCTTATATGT
11855058 TGCTTCTCTCTGTG-TTGCCGC
1 TGCTTCTCTCTGTGCTT-CCGC
11855079 TGCTTCTCTCTGTGCTTCCGC
1 TGCTTCTCTCTGTGCTTCCGC
* * *
11855100 TACTGCTCTCTCTGCTTCC-C
1 TGCTTCTCTCTGTGCTTCCGC
11855120 TCGCTTC
1 T-GCTTC
11855127 ATTTTTGGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 2 0.05
21 37 0.90
22 2 0.05
ACGTcount: A:0.01, C:0.39, G:0.17, T:0.42
Consensus pattern (21 bp):
TGCTTCTCTCTGTGCTTCCGC
Found at i:11864031 original size:27 final size:27
Alignment explanation
Indices: 11864001--11864054 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
11863991 TTTTTCAAAA
* *
11864001 ATCTATTATTTTCCTTTTCGGAAGCAG
1 ATCTATTATTTTCCTATTCGAAAGCAG
*
11864028 ATCTATTATTTTTCTATTCGAAAGCAG
1 ATCTATTATTTTCCTATTCGAAAGCAG
11864055 TAAAACACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (27 bp):
ATCTATTATTTTCCTATTCGAAAGCAG
Found at i:11864612 original size:23 final size:23
Alignment explanation
Indices: 11864585--11864632 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
11864575 GACATTTTTG
11864585 CTACAAAAGTCGCTAAATTACTA
1 CTACAAAAGTCGCTAAATTACTA
11864608 CTACAAAAGTCGCTAAATTACTA
1 CTACAAAAGTCGCTAAATTACTA
11864631 CT
1 CT
11864633 CTATTTCAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (23 bp):
CTACAAAAGTCGCTAAATTACTA
Found at i:11866552 original size:229 final size:227
Alignment explanation
Indices: 11866142--11866590 Score: 790
Period size: 229 Copynumber: 2.0 Consensus size: 227
11866132 GTAAATTATC
* * *
11866142 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
11866207 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
*
11866272 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
11866337 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
11866370 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
11866435 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
11866500 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATT
11866565 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
11866591 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
228 40 0.19
229 170 0.81
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:11866679 original size:20 final size:19
Alignment explanation
Indices: 11866656--11866702 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
11866646 CGATATACCA
11866656 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
11866676 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
11866696 GGTAAAA
1 GGTAAAA
11866703 TTAAAAGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:11866844 original size:20 final size:19
Alignment explanation
Indices: 11866821--11866867 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
11866811 CGATATAACA
*
11866821 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
11866841 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
11866861 GGTAAAA
1 GGTAAAA
11866868 TGATATCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:11869213 original size:33 final size:33
Alignment explanation
Indices: 11869171--11869236 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
11869161 AAATAGATGG
*
11869171 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
11869204 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
11869237 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:11871079 original size:19 final size:19
Alignment explanation
Indices: 11871035--11871078 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
11871025 AATGTCGAGT
11871035 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
11871054 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
11871073 T-ATTTT
1 TAATTTT
11871079 TTTATGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:11871593 original size:198 final size:199
Alignment explanation
Indices: 11871161--11872579 Score: 2637
Period size: 199 Copynumber: 7.1 Consensus size: 199
11871151 TTAAGGGTCA
*
11871161 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
11871226 AATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
11871290 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
11871355 AATG
196 AATG
11871359 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
11871424 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
11871489 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
11871554 AATG
196 AATG
11871558 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
11871623 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
11871688 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
11871753 AATG
196 AATG
* *
11871757 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
*
11871822 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
11871887 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
11871952 AATG
196 AATG
11871956 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
11872021 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
11872086 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATAAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
11872151 AATG
196 AATG
* * *
11872155 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCCAGAATGAATAAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
*
11872219 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* *
11872284 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
11872349 AATG
196 AATG
* *
11872353 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
* *
11872417 CATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* * *
11872482 TAATATGTAATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
11872547 AATG
196 AATG
*
11872551 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
11872580 CTAATTTAAA
Statistics
Matches: 1199, Mismatches: 21, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
198 471 0.39
199 728 0.61
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATG
Found at i:11874065 original size:18 final size:18
Alignment explanation
Indices: 11874042--11874109 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
11874032 ATCGGTCGCA
11874042 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
11874060 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
11874081 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
11874102 GAAGATGA
1 GAAGATGA
11874110 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:11874066 original size:6 final size:6
Alignment explanation
Indices: 11874042--11874139 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
11874032 ATCGGTCGCA
* * * * * *
11874042 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
11874090 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
11874138 GA
1 GA
11874140 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:11874077 original size:3 final size:3
Alignment explanation
Indices: 11874057--11874143 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
11874047 TGAAGCTGAC
* * * * * ** *
11874057 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
11874105 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
11874144 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:11874092 original size:42 final size:42
Alignment explanation
Indices: 11874045--11874135 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
11874035 GGTCGCAGAA
*
11874045 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
11874087 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
11874129 GATGAAG
1 GATGAAG
11874136 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:11874143 original size:18 final size:18
Alignment explanation
Indices: 11874042--11874139 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
11874032 ATCGGTCGCA
* *
11874042 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
11874060 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
11874078 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
11874096 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
11874114 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
11874132 GAAGATGA
1 GAAGATGA
11874140 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:11875820 original size:184 final size:184
Alignment explanation
Indices: 11875511--11876366 Score: 1606
Period size: 184 Copynumber: 4.7 Consensus size: 184
11875501 CTTTCAACAT
**
11875511 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
11875576 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
11875641 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
11875695 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
11875760 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
11875825 GCA-GTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 -AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
11875879 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
11875944 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
11876009 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
11876063 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
11876128 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTCCTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* *
11876193 AATGTGTCGATACGATTTAAAAAAGTGTCTACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
11876247 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
11876312 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
11876367 CCATTTAAAA
Statistics
Matches: 658, Mismatches: 12, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
183 1 0.00
184 656 1.00
185 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:11878956 original size:23 final size:23
Alignment explanation
Indices: 11878925--11878987 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
11878915 ATAGGTAAAC
*
11878925 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
11878948 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
11878971 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
11878988 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:11878995 original size:23 final size:23
Alignment explanation
Indices: 11878925--11878997 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
11878915 ATAGGTAAAC
* * **
11878925 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
11878948 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
11878971 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
11878994 ATAT
1 ATAT
11878998 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:11879387 original size:23 final size:23
Alignment explanation
Indices: 11879356--11879418 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
11879346 ATAGGTAAAC
*
11879356 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
11879379 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
11879402 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
11879419 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:11879426 original size:23 final size:23
Alignment explanation
Indices: 11879356--11879428 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
11879346 ATAGGTAAAC
* * **
11879356 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
11879379 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
11879402 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
11879425 ATAT
1 ATAT
11879429 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:11879817 original size:23 final size:23
Alignment explanation
Indices: 11879786--11879848 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
11879776 ATAGGTAAAC
*
11879786 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
11879809 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
11879832 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
11879849 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:11879856 original size:23 final size:23
Alignment explanation
Indices: 11879786--11879858 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
11879776 ATAGGTAAAC
* * **
11879786 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
11879809 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
11879832 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
11879855 ATAT
1 ATAT
11879859 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:11880008 original size:431 final size:431
Alignment explanation
Indices: 11878826--11880277 Score: 2883
Period size: 430 Copynumber: 3.4 Consensus size: 431
11878816 AATTCGCAGT
11878826 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
11878891 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
11878956 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
11879021 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
11879086 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
11879151 ATTAAATTTAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTTAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
11879216 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
11879257 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
11879322 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
11879387 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
11879452 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
11879517 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
11879582 ATTAAATTTAAAATTCTAAATAATATTTTATAAAATAT-AAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTTAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
11879646 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
11879687 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
11879752 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
11879817 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
11879882 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
11879947 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGGTATATA-TATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
11880010 ATTAAATTTAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTTAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
11880075 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
11880116 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
11880181 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
11880246 TAATAGGTATCGTTTATATAATGTAATAGGTA
131 TAATAGGTATCGTTTATATAATGTAATAGGTA
11880278 TCTATCTCGC
Statistics
Matches: 1020, Mismatches: 0, Indels: 4
1.00 0.00 0.00
Matches are distributed among these distances:
428 42 0.04
429 249 0.24
430 366 0.36
431 363 0.36
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (431 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
ATTAAATTTAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:11880278 original size:23 final size:23
Alignment explanation
Indices: 11880215--11880279 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
11880205 ATAGGTAAAC
* *
11880215 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
11880238 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
11880261 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
11880280 TATCTCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:11880504 original size:18 final size:18
Alignment explanation
Indices: 11880483--11880519 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11880473 GTAATTGGAG
11880483 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
11880501 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
11880519 T
1 T
11880520 ATATATTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:11881633 original size:21 final size:21
Alignment explanation
Indices: 11881607--11881647 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11881597 TACAATTGTG
11881607 ATACTCG-TAATGTCTACAATA
1 ATACTCGAT-ATGTCTACAATA
*
11881628 ATACTCGATATTTCTACAAT
1 ATACTCGATATGTCTACAAT
11881648 CTACAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (21 bp):
ATACTCGATATGTCTACAATA
Found at i:11883601 original size:22 final size:22
Alignment explanation
Indices: 11883561--11883604 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11883551 ATTCGGCTAT
* *
11883561 TTTATTTTTAATGTTATTTATG
1 TTTATTTTTAAGGTAATTTATG
*
11883583 TTTATTTTTAGGGTAATTTATG
1 TTTATTTTTAAGGTAATTTATG
11883605 CATTTAATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.64
Consensus pattern (22 bp):
TTTATTTTTAAGGTAATTTATG
Found at i:11884447 original size:41 final size:41
Alignment explanation
Indices: 11884390--11884474 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
11884380 AGAATATTAG
*
11884390 TTATGAATAAAGATTCTTCAATGACTGACAATTAAAAATAA
1 TTATGAATAAAGATTCTTCAATGACTGACAACTAAAAATAA
* *
11884431 TTATGAATAAAGATTCTTCAATGATTGACAACTAAAAATTA
1 TTATGAATAAAGATTCTTCAATGACTGACAACTAAAAATAA
11884472 TTA
1 TTA
11884475 AATCTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.34
Consensus pattern (41 bp):
TTATGAATAAAGATTCTTCAATGACTGACAACTAAAAATAA
Found at i:11887280 original size:47 final size:47
Alignment explanation
Indices: 11887206--11887301 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
11887196 CCTAAAAATA
*
11887206 TTAAGATTTAAAATTGGATTGAATTAATTAAGTGGACACTTCTTATT
1 TTAAAATTTAAAATTGGATTGAATTAATTAAGTGGACACTTCTTATT
*
11887253 TTAAAATTTAAATTTGGATTGAATTAATTAAGTGGACACTTCTTATT
1 TTAAAATTTAAAATTGGATTGAATTAATTAAGTGGACACTTCTTATT
11887300 TT
1 TT
11887302 TAAGGAACCG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (47 bp):
TTAAAATTTAAAATTGGATTGAATTAATTAAGTGGACACTTCTTATT
Found at i:11894579 original size:30 final size:30
Alignment explanation
Indices: 11894543--11894602 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
11894533 TTGAGTTTAT
11894543 TTAGTTACCTCCATATAACATATAGATGTG
1 TTAGTTACCTCCATATAACATATAGATGTG
11894573 TTAGTTACCTCCATATAACATATAGATGTG
1 TTAGTTACCTCCATATAACATATAGATGTG
11894603 CTTCTGTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (30 bp):
TTAGTTACCTCCATATAACATATAGATGTG
Found at i:11895925 original size:31 final size:29
Alignment explanation
Indices: 11895879--11895970 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 29
11895869 AAAATATTTA
*
11895879 ATTTTTTTATCAAAATAAGTTCATAAAGTT
1 ATTTTTTAATCAAAATAAGTTCATAAAG-T
* *
11895909 ATCTTTTTAATTAAAATATGTATC-TAAAGT
1 AT-TTTTTAATCAAAATAAGT-TCATAAAGT
* * *
11895939 ATTTTTTAATCAAAATAAATACATAAAAT
1 ATTTTTTAATCAAAATAAGTTCATAAAGT
11895968 ATT
1 ATT
11895971 CAATTTTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
28 1 0.02
29 23 0.45
30 5 0.10
31 20 0.39
32 2 0.04
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (29 bp):
ATTTTTTAATCAAAATAAGTTCATAAAGT
Found at i:11895953 original size:29 final size:30
Alignment explanation
Indices: 11895879--11895965 Score: 97
Period size: 31 Copynumber: 2.9 Consensus size: 30
11895869 AAAATATTTA
*
11895879 ATTTTTTTATCAAAATAAGTTCATAAAGTT
1 ATTTTTTAATCAAAATAAGTTCATAAAGTT
* *
11895909 ATCTTTTTAATTAAAATATGTATC-TAAAG-T
1 AT-TTTTTAATCAAAATAAGT-TCATAAAGTT
* *
11895939 ATTTTTTAATCAAAATAAATACATAAA
1 ATTTTTTAATCAAAATAAGTTCATAAA
11895966 ATATTCAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
28 1 0.02
29 19 0.40
30 5 0.11
31 20 0.43
32 2 0.04
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.44
Consensus pattern (30 bp):
ATTTTTTAATCAAAATAAGTTCATAAAGTT
Found at i:11902861 original size:20 final size:21
Alignment explanation
Indices: 11902826--11902864 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
11902816 CATTGCACAA
*
11902826 TGCAAGTGACTCTGAAACATG
1 TGCAAGTGAATCTGAAACATG
11902847 TGCAA-TGAATCTGAAACA
1 TGCAAGTGAATCTGAAACA
11902865 GAGGGCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (21 bp):
TGCAAGTGAATCTGAAACATG
Found at i:11903779 original size:22 final size:24
Alignment explanation
Indices: 11903737--11903785 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
11903727 TAGTGGAAAT
*
11903737 TTGAAGGGTGGTATCTGTACTG-G
1 TTGAAGAGTGGTATCTGTACTGAG
11903760 TTGAAGAG-GGTATC-GATACTGAG
1 TTGAAGAGTGGTATCTG-TACTGAG
11903783 TTG
1 TTG
11903786 GGAGTATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 1 0.04
22 11 0.48
23 11 0.48
ACGTcount: A:0.22, C:0.08, G:0.37, T:0.33
Consensus pattern (24 bp):
TTGAAGAGTGGTATCTGTACTGAG
Found at i:11904479 original size:21 final size:21
Alignment explanation
Indices: 11904453--11904525 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
11904443 GTCGAGGGTT
11904453 TTATGTGGTCATTTGGGATAA
1 TTATGTGGTCATTTGGGATAA
* *
11904474 TTATGTGG-CACTTCGTTGCA-AA
1 TTATGTGGTCA-TT--TGGGATAA
*
11904496 CCTATGTGGTCATTTGGGATAA
1 -TTATGTGGTCATTTGGGATAA
11904518 TTATGTGG
1 TTATGTGG
11904526 CACTTCGGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
20 2 0.05
21 20 0.50
22 4 0.10
23 12 0.30
24 2 0.05
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (21 bp):
TTATGTGGTCATTTGGGATAA
Found at i:11904576 original size:45 final size:44
Alignment explanation
Indices: 11904454--11904584 Score: 190
Period size: 44 Copynumber: 3.0 Consensus size: 44
11904444 TCGAGGGTTT
*
11904454 TATGTGGTCATTTGGGATAATTATGTGGCACTTCGTTGCAAACC
1 TATGTGGTCATTTGGGATAATTATGTGGCACTTCGGTGCAAACC
*
11904498 TATGTGGTCATTTGGGATAATTATGTGGCACTTCGGTGTAAACC
1 TATGTGGTCATTTGGGATAATTATGTGGCACTTCGGTGCAAACC
* * * * *
11904542 TATGTGGTCCCTTCGGGACAATTATGTTGCACTTCGGTACAAA
1 TATGTGGT-CATTTGGGATAATTATGTGGCACTTCGGTGCAAA
11904585 TTATGAGCTG
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 50 0.64
45 28 0.36
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (44 bp):
TATGTGGTCATTTGGGATAATTATGTGGCACTTCGGTGCAAACC
Found at i:11904586 original size:22 final size:22
Alignment explanation
Indices: 11904472--11904589 Score: 71
Period size: 21 Copynumber: 5.3 Consensus size: 22
11904462 CATTTGGGAT
* *
11904472 AATTATGTGGCACTTCGTTGCA
1 AATTATGTGGCACTTCGGTACA
* * * *
11904494 AACCTATGTGGTCA-TTTGGGA-T
1 AA-TTATGTGG-CACTTCGGTACA
**
11904516 AATTATGTGGCACTTCGGTGTA
1 AATTATGTGGCACTTCGGTACA
* * *
11904538 AACCTATGTGGTCCCTTCGGGAC-
1 AA-TTATGTGG-CACTTCGGTACA
*
11904561 AATTATGTTGCACTTCGGTACA
1 AATTATGTGGCACTTCGGTACA
11904583 AATTATG
1 AATTATG
11904590 AGCTGTGGTG
Statistics
Matches: 69, Mismatches: 20, Indels: 14
0.67 0.19 0.14
Matches are distributed among these distances:
20 2 0.03
21 20 0.29
22 19 0.28
23 19 0.28
24 9 0.13
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (22 bp):
AATTATGTGGCACTTCGGTACA
Found at i:11918000 original size:18 final size:17
Alignment explanation
Indices: 11917962--11918009 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
11917952 TAAAAGAGAA
*
11917962 AAAAAATGAGAAAATGAG
1 AAAAAACGA-AAAATGAG
11917980 AAAAAA-GAAAAATGATGG
1 AAAAAACGAAAAATGA--G
11917998 AAAAAACGAAAA
1 AAAAAACGAAAA
11918010 GGAAAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.26
17 2 0.07
18 13 0.48
19 5 0.19
ACGTcount: A:0.71, C:0.02, G:0.19, T:0.08
Consensus pattern (17 bp):
AAAAAACGAAAAATGAG
Found at i:11918026 original size:25 final size:23
Alignment explanation
Indices: 11917998--11918066 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 23
11917988 AAAATGATGG
11917998 AAAAAACGAAAAGGAAAAAAGAAGA
1 AAAAAACGAAAAGGAAAAAA-AA-A
** *
11918023 AAAAATGGAAAAGGGAAGAAAAAA
1 AAAAAACGAAAA-GGAAAAAAAAA
* *
11918047 TAAAAATGAAAAGAGAAAAA
1 AAAAAACGAAAAG-GAAAAA
11918067 TGGAAAAAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 1 0.03
24 15 0.43
25 12 0.34
26 7 0.20
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.04
Consensus pattern (23 bp):
AAAAAACGAAAAGGAAAAAAAAA
Found at i:11918034 original size:19 final size:19
Alignment explanation
Indices: 11917943--11918079 Score: 67
Period size: 19 Copynumber: 7.3 Consensus size: 19
11917933 ATTTTGCTTG
*
11917943 AAGAAGAAATAAAAGAGAAAA
1 AAGAAGAAA-AAATG-GAAAA
*
11917964 AA-AATGAGAAAATGAGAAAA
1 AAGAA-GAAAAAATG-GAAAA
**
11917984 AAGAA-AAATGATGG-AAA
1 AAGAAGAAAAAATGGAAAA
*
11918001 AA-ACG--AAAA-GGAAAA
1 AAGAAGAAAAAATGGAAAA
11918016 AAGAAGAAAAAATGGAAAA
1 AAGAAGAAAAAATGGAAAA
**
11918035 GGGAAGAAAAAAT--AAAA
1 AAGAAGAAAAAATGGAAAA
*
11918052 ATGAAAAGAGAAAAATGGAAAA
1 A--AGAAGA-AAAAATGGAAAA
11918074 AGAGAA
1 A-AGAA
11918080 ATAAAAGGAG
Statistics
Matches: 88, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
14 2 0.02
15 7 0.08
16 3 0.03
17 9 0.10
18 5 0.06
19 26 0.30
20 20 0.23
21 11 0.12
22 5 0.06
ACGTcount: A:0.71, C:0.01, G:0.22, T:0.07
Consensus pattern (19 bp):
AAGAAGAAAAAATGGAAAA
Found at i:11919908 original size:55 final size:55
Alignment explanation
Indices: 11919226--11919906 Score: 753
Period size: 55 Copynumber: 12.6 Consensus size: 55
11919216 GTTGAAGATT
* * **
11919226 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTTGT-TGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTT-TATGAAGATTGTTC
* * * **
11919277 GAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACAAGTTTGT-TGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTT-TATGAAGATTGTTC
* * ** *
11919328 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGT-TGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTT-TTATGAAGATTGTTC
* * **
11919379 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAG-TTTATTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTA-TGAAGATTGTTC
* *
11919434 GAGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCCGTTTTATGAAGGTTGTTC
1 GAGTTCTATACTCTCTGAA-GGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
*
11919489 GAGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAA-GGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
*
11919544 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCG-TTTATTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTA-TGAAGATTGTTC
* *
11919599 GAGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCCATTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAA-GGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
*
11919654 GAGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAA-GGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
* *
11919709 GAGTTCTATACTCTATGAAGGAATAGAGAGCGGACCCGTTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCG-TTTTATGAAGATTGTTC
* *
11919765 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTATTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTA-TGAAGATTGTTC
* * * * * *
11919821 AAG-TCTTATACTCTCTGAATGAATAGAGAGCAGACACATTTTATGAAGATTGTTC
1 GAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
11919876 GAG-TCTTATACT-TCCTGAAGGAATAGGGAGC
1 GAGTTC-TATACTCT-CTGAAGGAATAGGGAGC
11919907 AGGCTCGTCA
Statistics
Matches: 579, Mismatches: 33, Indels: 32
0.90 0.05 0.05
Matches are distributed among these distances:
49 1 0.00
50 1 0.00
51 140 0.24
54 11 0.02
55 315 0.54
56 111 0.19
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (55 bp):
GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
Found at i:11920295 original size:18 final size:18
Alignment explanation
Indices: 11920259--11920295 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11920249 GAAAAAAGGG
**
11920259 GGGATCAAAAAAAGGAAA
1 GGGATCAAAAAAAAAAAA
11920277 GGGATCAAAAAAAAAAAA
1 GGGATCAAAAAAAAAAAA
11920295 G
1 G
11920296 AAAACAGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.65, C:0.05, G:0.24, T:0.05
Consensus pattern (18 bp):
GGGATCAAAAAAAAAAAA
Found at i:11927955 original size:24 final size:21
Alignment explanation
Indices: 11927920--11927962 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
11927910 GGCACATTCT
*
11927920 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
11927943 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
11927963 GTCTTGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:11929242 original size:15 final size:15
Alignment explanation
Indices: 11929207--11929235 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11929197 GTGCTTCAAC
11929207 TTCTTT-CTTTTCTT
1 TTCTTTGCTTTTCTT
11929221 TTCTTTGCTTTTCTT
1 TTCTTTGCTTTTCTT
11929236 CTTTTTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (15 bp):
TTCTTTGCTTTTCTT
Found at i:11929284 original size:28 final size:27
Alignment explanation
Indices: 11929230--11929287 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
11929220 TTTCTTTGCT
* * *
11929230 TTTCTTCTTTTTGAGTGCTGGATTTTC
1 TTTCTTCTTTTGGAGTGCTGCAATTTC
*
11929257 TTTCTTTCTTTTGGAGTGCTTCAATTTC
1 TTTC-TTCTTTTGGAGTGCTGCAATTTC
11929285 TTT
1 TTT
11929288 TCTGATTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.60
Consensus pattern (27 bp):
TTTCTTCTTTTGGAGTGCTGCAATTTC
Found at i:11931632 original size:19 final size:19
Alignment explanation
Indices: 11931605--11931676 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 19
11931595 TCTAATTTTT
*
11931605 GTATTGATACCGGTAAGGG
1 GTATCGATACCGGTAAGGG
*
11931624 GTATCGATACC-ATAGTAGGG
1 GTATCGATACCGGTA--AGGG
11931644 TAGTATCGATACCGTGATAA-GG
1 --GTATCGATACCG-G-TAAGGG
11931666 GTATCGATACC
1 GTATCGATACC
11931677 TGACAACATC
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
18 2 0.05
19 10 0.23
20 15 0.35
22 13 0.30
23 1 0.02
25 2 0.05
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (19 bp):
GTATCGATACCGGTAAGGG
Found at i:11931709 original size:95 final size:97
Alignment explanation
Indices: 11931529--11931735 Score: 252
Period size: 95 Copynumber: 2.2 Consensus size: 97
11931519 TGATTGAATC
*
11931529 AGTATCGATA-CATA-T-GAGGTAGTATTGATACCATAGTAAGGGGTATCGATACCTAGAAACAT
1 AGTATCGATACCATAGTAGAGGTAGTATCGATACCATAGTAAGGGGTATCGATACCTAGAAACAT
* * **
11931591 CGAATCTAATTTTTGTATTGATACCGGTAAGGG
66 CGAACCTAATTTTTGTATCGATACC-CAAAGGG
*
11931624 -GTATCGATACCATAGTAG-GGTAGTATCGATACCGT-GATAA-GGGTATCGATACCT-GACAAC
1 AGTATCGATACCATAGTAGAGGTAGTATCGATACCATAG-TAAGGGGTATCGATACCTAGA-AAC
11931684 ATCGAACCT-ATTTTTGGTATCGATACCCAAAGGG
64 ATCGAACCTAATTTTT-GTATCGATACCCAAAGGG
*
11931718 AGTATCGGTACCATAGTA
1 AGTATCGATACCATAGTA
11931736 TTGAAGTATC
Statistics
Matches: 98, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
94 22 0.22
95 56 0.57
96 19 0.19
97 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (97 bp):
AGTATCGATACCATAGTAGAGGTAGTATCGATACCATAGTAAGGGGTATCGATACCTAGAAACAT
CGAACCTAATTTTTGTATCGATACCCAAAGGG
Found at i:11931765 original size:95 final size:95
Alignment explanation
Indices: 11931549--11931770 Score: 238
Period size: 95 Copynumber: 2.3 Consensus size: 95
11931539 CATATGAGGT
* * *
11931549 AGTATTGATACCAT-AGTAAGGGGTATCGATACCTAGAAACATCGAATCTAATTTTTGTATTGAT
1 AGTATCGATACCATGA-TAA-GGGTATCGATACCTAGAAACATCGAACCTAATTTTTGTATCGAT
** *
11931613 ACCGGTAAGGGGTATCGATACCATAGTAGGGT
64 ACCGCAAAGGGGTATCGATACCATAGTAGGGA
*
11931645 AGTATCGATACCGTGATAAGGGTATCGATACCT-GACAACATCGAACCT-ATTTTTGGTATCGAT
1 AGTATCGATACCATGATAAGGGTATCGATACCTAGA-AACATCGAACCTAATTTTT-GTATCGAT
* **
11931708 ACC-CAAAGGGAGTATCGGTACCATAGTATTGA
64 ACCGCAAAGGG-GTATCGATACCATAGTAGGGA
* * *
11931740 AGTATCTG-TACCATGGTATGTGTATCGATAC
1 AGTATC-GATACCATGATAAGGGTATCGATAC
11931771 TGAGAAGCCA
Statistics
Matches: 107, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
94 13 0.12
95 77 0.72
96 16 0.15
97 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (95 bp):
AGTATCGATACCATGATAAGGGTATCGATACCTAGAAACATCGAACCTAATTTTTGTATCGATAC
CGCAAAGGGGTATCGATACCATAGTAGGGA
Found at i:11932181 original size:55 final size:55
Alignment explanation
Indices: 11932109--11932377 Score: 362
Period size: 55 Copynumber: 4.9 Consensus size: 55
11932099 CTATGTGTAC
* *
11932109 TACAGGCACTTTGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCG
1 TACAGGCACTTCGTGTGCAGATTCACGGAATTCATCATGAGTTGATGAATCACCG
* * ** *
11932164 TACATGCACTTCGTGTGCAGATTCATGGAATTTGTCATGAGTTGATGAATCACCA
1 TACAGGCACTTCGTGTGCAGATTCACGGAATTCATCATGAGTTGATGAATCACCG
* * * *
11932219 TACAAGTACTTTGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCG
1 TACAGGCACTTCGTGTGCAGATTCACGGAATTCATCATGAGTTGATGAATCACCG
* *
11932274 TACAGGAACTTCGTGTGCAGATTCACGAAATTCATCATGAGTTGATGAATCACCG
1 TACAGGCACTTCGTGTGCAGATTCACGGAATTCATCATGAGTTGATGAATCACCG
* ** *
11932329 TACAGGCGCTAT-GTGTGCAG-CCCACGGAATTCATCATGGGTTGATGAAT
1 TACAGGCACT-TCGTGTGCAGATTCACGGAATTCATCATGAGTTGATGAAT
11932378 TCTCGTATAG
Statistics
Matches: 187, Mismatches: 26, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
54 25 0.13
55 161 0.86
56 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (55 bp):
TACAGGCACTTCGTGTGCAGATTCACGGAATTCATCATGAGTTGATGAATCACCG
Found at i:11938667 original size:20 final size:20
Alignment explanation
Indices: 11938618--11938672 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
11938608 AACCGGTACG
* *
11938618 GGGTATCGGTACCATAGTAG
1 GGGTATCGATACCATAGTAA
*
11938638 GGTAGTATCGATACCATGGTAA
1 GG--GTATCGATACCATAGTAA
11938660 GGGTATCGATACC
1 GGGTATCGATACC
11938673 TGGCAACATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 13 0.43
22 17 0.57
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Done.