Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003653.1 Hibiscus syriacus cultivar Beakdansim tig00007767_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: 84664
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:142 original size:20 final size:19
Alignment explanation
Indices: 97--146 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
87 CTACTTCTCG
97 TTATCGATACTGATTGAAT
1 TTATCGATACTGATTGAAT
116 TTATCGATACTGATTG-AT
1 TTATCGATACTGATTGAAT
134 TAGTATCGATACT
1 T--TATCGATACT
147 TCTCAGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 3 0.10
19 16 0.55
20 10 0.34
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (19 bp):
TTATCGATACTGATTGAAT
Found at i:2931 original size:89 final size:85
Alignment explanation
Indices: 2811--2975 Score: 217
Period size: 89 Copynumber: 1.9 Consensus size: 85
2801 GATAAAATCT
* *
2811 CTTACCATTTATTCCATAAGATCGTAAGCTTA-TTTACCAAAATACTTACCATTTAATCCCATAA
1 CTTACCATTTATCCCATAAGATCGTAAGCTTATTTTACC-AAATACATACCA-TT-ATCCC--AA
2875 GCTCGTAAGCTTATTTACCAAAATA
61 GCTCGTAAGCTTATTTACCAAAATA
* * *
2900 CTTACCATTTAATCCCATAAGCTCGT-AGCTTATTTTACCATATACATACCATTATTCCAAGCTC
1 CTTACCATTT-ATCCCATAAGATCGTAAGCTTATTTTACCAAATACATACCATTATCCCAAGCTC
2964 GTAAGCTTATTT
65 GTAAGCTTATTT
2976 GCCAGTTCAT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
85 18 0.26
87 4 0.06
88 2 0.03
89 26 0.38
90 19 0.28
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (85 bp):
CTTACCATTTATCCCATAAGATCGTAAGCTTATTTTACCAAATACATACCATTATCCCAAGCTCG
TAAGCTTATTTACCAAAATA
Found at i:2950 original size:44 final size:44
Alignment explanation
Indices: 2811--2975 Score: 223
Period size: 45 Copynumber: 3.8 Consensus size: 44
2801 GATAAAATCT
* *
2811 CTTACCATTTATTCCATAAGATCGTAAGCTTATTTACCAAAATA
1 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTACCAAAATA
2855 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTACCAAAATA
1 CTTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTACCAAAATA
*
2900 CTTACCATTTAATCCCATAAGCTCGT-AGCTTATTTTACC-ATATA
1 CTTACCATTT-ATCCCATAAGCTCGTAAGCTTA-TTTACCAAAATA
* *
2944 CATACCA-TTATTCC--AAGCTCGTAAGCTTATTT
1 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTT
2976 GCCAGTTCAT
Statistics
Matches: 113, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
40 11 0.10
41 6 0.05
42 4 0.04
43 2 0.02
44 26 0.23
45 64 0.57
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (44 bp):
CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTACCAAAATA
Found at i:3129 original size:40 final size:40
Alignment explanation
Indices: 3050--3130 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
3040 ATAGGAGTCA
* * * *
3050 AATATTGCACCGAAGTGCTGAGGTCAAGCTTTGCTCACCT
1 AATAATGCACCGAAGTGCTGAGGTCAAGATTTACCCACCT
* **
3090 AATAATGCACCGTAGTGCTGAGGTCGGGATTTACCCACCT
1 AATAATGCACCGAAGTGCTGAGGTCAAGATTTACCCACCT
3130 A
1 A
3131 GACACCGTAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
AATAATGCACCGAAGTGCTGAGGTCAAGATTTACCCACCT
Found at i:14066 original size:17 final size:17
Alignment explanation
Indices: 14041--14087 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
14031 CATAACTGTA
*
14041 AAATATATGATATTTGT
1 AAATATATGATAATTGT
*
14058 AATTATATGATAATTGT
1 AAATATATGATAATTGT
*
14075 AAATATCTGATAA
1 AAATATATGATAA
14088 CTGGAAAGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (17 bp):
AAATATATGATAATTGT
Found at i:16567 original size:22 final size:20
Alignment explanation
Indices: 16527--16567 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
16517 TTCAAATTTT
*
16527 CTAAAATTTCATTTTAGTCA
1 CTAAAATTCCATTTTAGTCA
16547 CTAAAATTCCACTATTTAGTC
1 CTAAAATTCCA-T-TTTAGTC
16568 GAATCTGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (20 bp):
CTAAAATTCCATTTTAGTCA
Found at i:17065 original size:20 final size:20
Alignment explanation
Indices: 17036--17074 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17026 TATCCACCTC
*
17036 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
17056 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
17075 TATGAACTTT
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:19731 original size:20 final size:20
Alignment explanation
Indices: 19708--19745 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19698 TTTTGACTTA
* *
19708 TTTCCTGTATTTTGTATCCT
1 TTTCATGTATTTGGTATCCT
19728 TTTCATGTATTTGGTATC
1 TTTCATGTATTTGGTATC
19746 GGTATTGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.13, T:0.58
Consensus pattern (20 bp):
TTTCATGTATTTGGTATCCT
Found at i:20389 original size:2 final size:2
Alignment explanation
Indices: 20377--20422 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
20367 AATGAACTTT
* * *
20377 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20419 TA TA
1 TA TA
20423 ATCATACTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:31877 original size:15 final size:15
Alignment explanation
Indices: 31866--31894 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31856 ACTCAAAAAG
31866 AAGAAAAGCAAAGAA
1 AAGAAAAGCAAAGAA
31881 AAGAAAAG-AAAGAA
1 AAGAAAAGCAAAGAA
31895 GTTGAAGCAC
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:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAAAGCAAAGAA
Found at i:33078 original size:24 final size:23
Alignment explanation
Indices: 33051--33111 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
33041 AAGATTCAAG
33051 AAACATGTCTTTTGAAGAATCCAT
1 AAACATGTCTTTTGAAG-ATCCAT
* * **
33075 AAACGTGACTTTTGGTGATCCAT
1 AAACATGTCTTTTGAAGATCCAT
33098 AAGACATGTACTTT
1 AA-ACATGT-CTTT
33112 GACATTTCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 8 0.28
24 17 0.59
25 4 0.14
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
AAACATGTCTTTTGAAGATCCAT
Found at i:46238 original size:20 final size:20
Alignment explanation
Indices: 46201--46238 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46191 TAAATTGGTA
*
46201 ATTTCACTATTTGTTATATT
1 ATTTCACTATTTGATATATT
46221 ATTTCACTAGTTT-ATATA
1 ATTTCACTA-TTTGATATA
46239 AGATGCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTTCACTATTTGATATATT
Found at i:48336 original size:80 final size:82
Alignment explanation
Indices: 48208--48372 Score: 196
Period size: 80 Copynumber: 2.0 Consensus size: 82
48198 TGATATATAA
* * *
48208 TATTCCATCATTCGAGATGATGCAATATATTTCATCCTTCAGGGTGATGCATCGTATTCCATCCT
1 TATTCCATCATTCGAGATGATGCAATAGATTTCATCCTTCAGGATGATGCATAGTATTCCATCCT
* *
48273 TCGAGATGA-TGCACTG
66 TCAAGATGATTGCACCG
* *
48289 TATTCCATCATTC-AGATGATG-TATAGGA-TTCAATCCTTC-GAGATGATGCATAGTATTTCAT
1 TATTCCATCATTCGAGATGATGCAATA-GATTTC-ATCCTTCAG-GATGATGCATAGTATTCCAT
*
48350 CCTTCAAGGTGATTGCACCG
63 CCTTCAAGATGATTGCACCG
48370 TAT
1 TAT
48373 ATTCGTTTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
79 7 0.10
80 43 0.60
81 22 0.31
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (82 bp):
TATTCCATCATTCGAGATGATGCAATAGATTTCATCCTTCAGGATGATGCATAGTATTCCATCCT
TCAAGATGATTGCACCG
Found at i:48362 original size:27 final size:27
Alignment explanation
Indices: 48208--48362 Score: 129
Period size: 27 Copynumber: 5.8 Consensus size: 27
48198 TGATATATAA
* * *
48208 TATTCCATCATTCGAGATGATGCAATA-
1 TATTTCATCCTTCAAGATGATGC-ATAG
* * *
48235 TATTTCATCCTTCAGGGTGATGCATCG
1 TATTTCATCCTTCAAGATGATGCATAG
* *
48262 TATTCCATCCTTCGAGATGATGCACT-G
1 TATTTCATCCTTCAAGATGATGCA-TAG
* * *
48289 TATTCCATCATTC-AGATGATGTATAG
1 TATTTCATCCTTCAAGATGATGCATAG
* *
48315 GA-TTCAATCCTTCGAGATGATGCATAG
1 TATTTC-ATCCTTCAAGATGATGCATAG
*
48342 TATTTCATCCTTCAAGGTGAT
1 TATTTCATCCTTCAAGATGAT
48363 TGCACCGTAT
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
25 3 0.03
26 19 0.18
27 77 0.75
28 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
TATTTCATCCTTCAAGATGATGCATAG
Found at i:51005 original size:57 final size:57
Alignment explanation
Indices: 50825--51016 Score: 208
Period size: 57 Copynumber: 3.4 Consensus size: 57
50815 TGACACTGAG
* * * *
50825 TGTGTAAAAAGATAAGAAATTCATAATTTCTTTATGAATTTACGTATGAGCACTTTG
1 TGTGCAAAAAGATAAGAAATTCATAATTTCTTTATGAATTTCCTTATGAGCACTTTA
* * * * *
50882 TGTACTAAAAGATAAGAAATTCATAATTTGTTTATGAATTTCCTTATGGGCAC-TGA
1 TGTGCAAAAAGATAAGAAATTCATAATTTCTTTATGAATTTCCTTATGAGCACTTTA
* * * * *
50938 GTGTGCAAAAAGTTAAGGAATTCATAATTTTTTTTATGAATTTCCTTATAAGAACTTTA
1 -TGTGCAAAAAGATAAGAAATTCATAA-TTTCTTTATGAATTTCCTTATGAGCACTTTA
**
50997 TGTG-AAAAATCTAAGAAATT
1 TGTGCAAAAAGATAAGAAATT
51017 ATATGAATTT
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
56 1 0.01
57 81 0.73
58 27 0.24
59 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.39
Consensus pattern (57 bp):
TGTGCAAAAAGATAAGAAATTCATAATTTCTTTATGAATTTCCTTATGAGCACTTTA
Found at i:51303 original size:50 final size:50
Alignment explanation
Indices: 51224--51321 Score: 169
Period size: 50 Copynumber: 2.0 Consensus size: 50
51214 TTGAGGCATA
* *
51224 ATTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCGC
1 ATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCGC
*
51274 ATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGGTAAGTGC
1 ATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
51322 CTTTGAGGCC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.27
Consensus pattern (50 bp):
ATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCGC
Found at i:51509 original size:130 final size:131
Alignment explanation
Indices: 51274--51576 Score: 464
Period size: 130 Copynumber: 2.3 Consensus size: 131
51264 CTAAGTGCGC
* *
51274 ATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGGTAAGTGCCTTTGAGGCCTAGCTGT
1 ATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTAT
* * *
51339 ACATTGACAGAAAGGTGTCAATTATGCCAATTAGAAGAAAGGCTAAGTGCCTTTGAGGCCTAACT
66 ACATTGACAGAAAGGTGTCAACTATGACAATTAGAAGAAAGACTAAGTGCCTTTGAGGCCTAACT
51404 G
131 G
*
51405 -TTGACAGAAAGGTGTCAATTATGCCAGTTAAATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTAT
1 ATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTAT
* * * *
51469 GCATTGACAGAAAGGTGTCAACTATGACAGTTAGATGAAAGACTAAGTGCCTTTGAGGTCTAACT
66 ACATTGACAGAAAGGTGTCAACTATGACAATTAGAAGAAAGACTAAGTGCCTTTGAGGCCTAACT
51534 G
131 G
* *
51535 TACATTAACATAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 ---ATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
51577 ACGCCTAACT
Statistics
Matches: 155, Mismatches: 13, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
130 120 0.77
134 35 0.23
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (131 bp):
ATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTAT
ACATTGACAGAAAGGTGTCAACTATGACAATTAGAAGAAAGACTAAGTGCCTTTGAGGCCTAACT
G
Found at i:51578 original size:67 final size:67
Alignment explanation
Indices: 51273--51576 Score: 454
Period size: 67 Copynumber: 4.6 Consensus size: 67
51263 GCTAAGTGCG
* *
51273 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGGTAAGTGCCTTTGAGGCCTAGCTG
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
51338 TA
66 TA
* *
51340 CATTGACAGAAAGGTGTCAATTATGCCAATTAGAAGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
51405 --
66 TA
* * *
51405 --TTGACAGAAAGGTGTCAATTATGCCAGTTAAATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTA
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
*
51468 TG
66 TA
* * * *
51470 CATTGACAGAAAGGTGTCAACTATGACAGTTAGATGAAAGACTAAGTGCCTTTGAGGTCTAACTG
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
51535 TA
66 TA
* *
51537 CATTAACATAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
51577 ACGCCTAACT
Statistics
Matches: 212, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
63 58 0.27
67 154 0.73
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (67 bp):
CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
TA
Found at i:51608 original size:53 final size:53
Alignment explanation
Indices: 51528--51629 Score: 150
Period size: 53 Copynumber: 1.9 Consensus size: 53
51518 CCTTTGAGGT
* *
51528 CTAACTGTACATTAACATAAAGGTGTCAATTATGCCAGTTAGATGAAAGACGC
1 CTAACTGTACATTAACAAAAAGGTGTCAATTATGCCAATTAGATGAAAGACGC
* * * *
51581 CTAACTGTGCATTGATAAAAAGGTGTCAATTATGGCAATTAGATGAAAG
1 CTAACTGTACATTAACAAAAAGGTGTCAATTATGCCAATTAGATGAAAG
51630 GCTAAGTGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (53 bp):
CTAACTGTACATTAACAAAAAGGTGTCAATTATGCCAATTAGATGAAAGACGC
Found at i:51694 original size:68 final size:67
Alignment explanation
Indices: 51586--51713 Score: 184
Period size: 68 Copynumber: 1.9 Consensus size: 67
51576 GACGCCTAAC
* * * *
51586 TGTGCATTGATAAAAAGGTGTCAATTATGGCAATTAGATGAAAGGCTAAGTGCCTTTGAGACCTA
1 TGTGCATTGACAAAAAGGTGTCAATTATGACAATTAGATGAAAGGCTAAATACCTTTGAGACCTA
51651 GA
66 GA
* * *
51653 TGTGCATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGGTTAAATACCTTTGAG
1 TGTGCA-TTGACAAAAAGGTGTCAATTATGACAATTAGATGAAAGGCTAAATACCTTTGAG
51714 TAAAAGATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
67 6 0.11
68 47 0.89
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (67 bp):
TGTGCATTGACAAAAAGGTGTCAATTATGACAATTAGATGAAAGGCTAAATACCTTTGAGACCTA
GA
Found at i:51793 original size:81 final size:81
Alignment explanation
Indices: 51653--51801 Score: 262
Period size: 81 Copynumber: 1.8 Consensus size: 81
51643 GAGACCTAGA
*
51653 TGTGCATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
1 TGTGCATTTGACAAAAAGGTGTCAATTATGACAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
51718 AGATTAATGTCATTGC
66 AGATTAATGTCATTGC
* * *
51734 TGTGTATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATTCCTTTGAGTAAA
1 TGTGCATTTGACAAAAAGGTGTCAATTATGACAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
51799 AGA
66 AGA
51802 CTAGATGTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.32
Consensus pattern (81 bp):
TGTGCATTTGACAAAAAGGTGTCAATTATGACAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
AGATTAATGTCATTGC
Found at i:51821 original size:81 final size:81
Alignment explanation
Indices: 51658--51821 Score: 240
Period size: 81 Copynumber: 2.0 Consensus size: 81
51648 CTAGATGTGC
* *
51658 ATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATT
1 ATTTGACAAAAAGGTGTCAATTATGACAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGACT
** **
51723 AATGTCATTGCTGTGT
66 AATGTCATAACAATGT
* *
51739 ATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATTCCTTTGAGTAAAAGACT
1 ATTTGACAAAAAGGTGTCAATTATGACAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGACT
51804 AGATGT-ATAACAATGT
66 A-ATGTCATAACAATGT
51820 AT
1 AT
51822 AACGTTGTAT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 70 0.95
82 4 0.05
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (81 bp):
ATTTGACAAAAAGGTGTCAATTATGACAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGACT
AATGTCATAACAATGT
Found at i:51932 original size:45 final size:44
Alignment explanation
Indices: 51836--52144 Score: 348
Period size: 45 Copynumber: 6.9 Consensus size: 44
51826 TTGTATAAAA
* * * ** * *
51836 GGCATGAAATGATGCCATAAATAAAATTTATATAGTGTATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGTGCATTATC
* *
51880 GGCATGAAAGGATGCCTTGATTGAAATGCATATAGGTGCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATAT-GGTGCATTATC
** * *
51925 TACATGAAAGGATACCATAATTGAAATGCATATGGTTGCATTATT
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGG-TGCATTATC
*
51970 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATA
1 GGCATGAAAGGATGCCATAATTGAAATGCATAT-GGTGCATTATC
* *
52015 GGCATGGAAGGATGCCATAATTGAAATGCATATGGTTGTATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGG-TGCATTATC
* *
52060 GGCATGAAAGGATGCCATTATTGAAATGCATATGGGTGCATTATT
1 GGCATGAAAGGATGCCATAATTGAAATGCATAT-GGTGCATTATC
* * * * *
52105 GGAATGAAAGAATTCCATAAATGAAAATGTATATTGGTGC
1 GGCATGAAAGGATGCCATAATTG-AAATGCATA-TGGTGC
52145 GTAATAAGTA
Statistics
Matches: 226, Mismatches: 32, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
44 30 0.13
45 178 0.79
46 17 0.08
47 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (44 bp):
GGCATGAAAGGATGCCATAATTGAAATGCATATGGTGCATTATC
Found at i:52083 original size:135 final size:134
Alignment explanation
Indices: 51836--52144 Score: 395
Period size: 135 Copynumber: 2.3 Consensus size: 134
51826 TTGTATAAAA
* * * * * * * *
51836 GGCATGAAATGATGCCATAAATAAAATTTATATAGTGTATTATCGGCATGAAAGGATGCCTTGAT
1 GGCATGAAAGGATGCCATAAATGAAATGTATATGGTGCATTATAGGCATGAAAGGATGCCATAAT
* *
51901 TGAAATGCATATAGGTGCATTATCTACATGAAAGGATACCATAATTGAAATGCATATGGTTGCAT
66 TGAAATGCATATAGGTGCATTATCGACATGAAAGGATACCATAATTGAAATGCATATGGGTGCAT
51966 TATT
131 TATT
* * *
51970 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATAGGCATGGAAGGATGCCATAA
1 GGCATGAAAGGATGCCATAAATGAAATGTATAT-GGTGCATTATAGGCATGAAAGGATGCCATAA
* * * *
52035 TTGAAATGCATAT-GGTTGTATTATCGGCATGAAAGGATGCCATTATTGAAATGCATATGGGTGC
65 TTGAAATGCATATAGG-TGCATTATCGACATGAAAGGATACCATAATTGAAATGCATATGGGTGC
52099 ATTATT
129 ATTATT
* * *
52105 GGAATGAAAGAATTCCATAAATGAAAATGTATATTGGTGC
1 GGCATGAAAGGATGCCATAAATG-AAATGTATA-TGGTGC
52145 GTAATAAGTA
Statistics
Matches: 149, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
134 30 0.20
135 105 0.70
136 13 0.09
137 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (134 bp):
GGCATGAAAGGATGCCATAAATGAAATGTATATGGTGCATTATAGGCATGAAAGGATGCCATAAT
TGAAATGCATATAGGTGCATTATCGACATGAAAGGATACCATAATTGAAATGCATATGGGTGCAT
TATT
Found at i:53911 original size:2 final size:2
Alignment explanation
Indices: 53904--53938 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
53894 TGTCAAAACG
53904 AT AT AT AT AT 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 AT AT AT AT AT A
53939 CTTTTATGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:54853 original size:45 final size:45
Alignment explanation
Indices: 54794--54998 Score: 250
Period size: 45 Copynumber: 4.6 Consensus size: 45
54784 TCTTTTCTGT
* *
54794 TAATGCATCCATATACATTTCAACTATAGTATACTTTTATGTTGA
1 TAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTTGA
* * * *
54839 TAATGTACCAATATACATTTCAACCATAGTATATTTTTCTGTTGA
1 TAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTTGA
* *
54884 TAATGTACCCATATACATTTCAACTCTA-TCATACTTTTCTGTTGA
1 TAATGCACCCATATACATTTCAACTATAGT-ATACTTTTCTGTTGA
* * * * * *
54929 TAATGCACCCATATGCATTTAAACTCTAGCATATTTTTTTGTTGA
1 TAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTTGA
**
54974 TAATGCACCCATATTTATTTCAACT
1 TAATGCACCCATATACATTTCAACT
54999 TTGGCATCCT
Statistics
Matches: 139, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
44 1 0.01
45 138 0.99
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (45 bp):
TAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTTGA
Found at i:55022 original size:90 final size:90
Alignment explanation
Indices: 54794--55037 Score: 240
Period size: 90 Copynumber: 2.7 Consensus size: 90
54784 TCTTTTCTGT
* * * * * *** * * *
54794 TAATGCATCCATATACATTTCAACTATAGTATACTTTTATGTTGATAATGTACCAATATACATTT
1 TAATGCACCCATATACATTTCAACTCTAGCATACCTTTCTGCCAATAATGCACCCATATGCATTT
* *
54859 CAACCATAGTATATTTTTCTGTTGA
66 AAACCATAGCATATTTTTCTGTTGA
* * * ***
54884 TAATGTACCCATATACATTTCAACTCTATCATACTTTTCTGTTGATAATGCACCCATATGCATTT
1 TAATGCACCCATATACATTTCAACTCTAGCATACCTTTCTGCCAATAATGCACCCATATGCATTT
*
54949 AAACTC-TAGCATATTTTTTTGTTGA
66 AAAC-CATAGCATATTTTTCTGTTGA
** * *
54974 TAATGCACCCATATTTATTTCAACTTTGGCAT-CCTTTCATGCCAATAATGCACCCATATGCATT
1 TAATGCACCCATATACATTTCAACTCTAGCATACCTTTC-TGCCAATAATGCACCCATATGCATT
55038 ATTCTTTTAT
Statistics
Matches: 130, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
89 5 0.04
90 124 0.95
91 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (90 bp):
TAATGCACCCATATACATTTCAACTCTAGCATACCTTTCTGCCAATAATGCACCCATATGCATTT
AAACCATAGCATATTTTTCTGTTGA
Found at i:61185 original size:57 final size:58
Alignment explanation
Indices: 61072--61240 Score: 202
Period size: 57 Copynumber: 2.9 Consensus size: 58
61062 TACATAATGT
* * *
61072 CACTGAGTGTATAAAAATATAAGAAATTCATAATTTTTTTTATGAATTT-CTGTATGGG
1 CACTGAGTGTACAAAAAGATAAGAAATTCATAA-TTTGTTTATGAATTTCCTGTATGGG
** * *
61130 CACTTTGTGTGA-AAAAAGATAAGAAATTCATACTTTGTTTATTAATTTCCT-TATGGG
1 CACTGAGTGT-ACAAAAAGATAAGAAATTCATAATTTGTTTATGAATTTCCTGTATGGG
* * *
61187 CACTGAGTGTACAAAAAGTTAAGGAATTCACAATTTGTTTATGAATTTCC-GTAT
1 CACTGAGTGTACAAAAAGATAAGAAATTCATAATTTGTTTATGAATTTCCTGTAT
61241 AAGAACTTTA
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
56 1 0.01
57 63 0.67
58 29 0.31
59 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (58 bp):
CACTGAGTGTACAAAAAGATAAGAAATTCATAATTTGTTTATGAATTTCCTGTATGGG
Found at i:61286 original size:115 final size:115
Alignment explanation
Indices: 61072--61287 Score: 249
Period size: 115 Copynumber: 1.9 Consensus size: 115
61062 TACATAATGT
* * * * ** * *
61072 CACTGAGTGTATAAAAATATAAGAAATTCATAATTTTTTTTATGAATTTCTGTATGGGCACTTTG
1 CACTGAGTGTACAAAAATATAAGAAATTCACAATTTTGTTTATGAATTTCCGTATAAGAACTTTA
* * *
61137 TGTGAAAAAAGATAAGAAATTCATACTTTGTTTATTAATTTCCTTATGGG
66 TGCGAAAAAAGATAAGAAATTCATAATTTCTTTATTAATTTCCTTATGGG
*
61187 CACTGAGTGTACAAAAAGT-TAAGGAATTCACAA-TTTGTTTATGAATTTCCGTATAAGAACTTT
1 CACTGAGTGTACAAAAA-TATAAGAAATTCACAATTTTGTTTATGAATTTCCGTATAAGAACTTT
* * *
61250 ATGCGTAAAAA-CTAAGAAATTATATGAATTTCTTTATT
65 ATGCGAAAAAAGATAAGAAATT-CAT-AATTTCTTTATT
61288 TGTGTTGTGG
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
113 9 0.11
114 35 0.42
115 38 0.46
116 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (115 bp):
CACTGAGTGTACAAAAATATAAGAAATTCACAATTTTGTTTATGAATTTCCGTATAAGAACTTTA
TGCGAAAAAAGATAAGAAATTCATAATTTCTTTATTAATTTCCTTATGGG
Found at i:61794 original size:199 final size:199
Alignment explanation
Indices: 61445--61912 Score: 715
Period size: 199 Copynumber: 2.3 Consensus size: 199
61435 AAAAGATTTA
*
61445 AGGCCTAATTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 AGGCCTAGTTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * * *
61510 TGAGGCCTAAGTGTGCATTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCC
66 TGAGGCCTAACTGTACATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGATAAGTGCC
* * * * *
61575 TTTGAGGCTAACTGTGCATTGACAGAAATGTGTCAATTATGCCAG-TAGATGAAAGGCTAATTGG
131 TTTGAGCCTAACTATGCATTGA-AGAAATGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGC
61639 CTTTG
195 CTTTG
* * *
61644 AGGCCTAGTTGTGCATTGACAAAAAAGTGTCAATTAAGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 AGGCCTAGTTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
61709 TGAGGCCTAACTGTACATTGACAGAAAGGTGTCAATTATGCCAGTTAGATG-AAGGATAAGTGCC
66 TGAGGCCTAACTGTACATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGATAAGTGCC
61773 TTTGAGACCTAACTATGCATTGAAGAAATGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGC
131 TTTGAG-CCTAACTATGCATTGAAGAAATGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGC
61838 CTTTG
195 CTTTG
* * * * * * *
61843 AGACCTAGCTGTGCATTTGACAGAAAGGTGTCTATTATGCCAATTAGATGAAAGGTTAAATACCT
1 AGGCCTAGTTGTGCA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
61908 TTGAG
65 TTGAG
61913 TAAAAGATTA
Statistics
Matches: 243, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
198 39 0.16
199 158 0.65
200 46 0.19
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (199 bp):
AGGCCTAGTTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGAGGCCTAACTGTACATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGATAAGTGCC
TTTGAGCCTAACTATGCATTGAAGAAATGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCC
TTTG
Found at i:61863 original size:133 final size:132
Alignment explanation
Indices: 61447--61912 Score: 659
Period size: 132 Copynumber: 3.5 Consensus size: 132
61437 AAGATTTAAG
*
61447 GCCTAATTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
1 GCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
* *
61512 AGGCCTAAGTGTGCATTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTT
66 AGGCCTAACTGTGCATTGACAGAAAAGTGTCAATTATGC-AGTTAGATGAAAGGCTAAGTGCCTT
61577 TGA
130 TGA
* * * *
61580 GGCTAACTGTGCATTGACAGAAATGTGTCAATTATGCCAG-TAGATGAAAGGCTAATTGGCTTTG
1 GCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
** * *
61644 AGGCCTAGTTGTGCATTGACAAAAAAGTGTCAATTAAGCCAGTTAGATGAAAGGCTAAGTGCCTT
66 AGGCCTAACTGTGCATTGACAGAAAAGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTGCCTT
61709 TGA
130 TGA
* *
61712 GGCCTAACTGTACATTGACAGAAAGGTGTCAATTATGCCAGTTAGATG-AAGGATAAGTGCCTTT
1 -GCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
* * *
61776 GAGACCTAACTATGCATTGA-AGAAATGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCT
65 GAGGCCTAACTGTGCATTGACAGAAAAGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTGCCT
61840 TTGA
129 TTGA
* * * * * *
61844 GACCTAGCTGTGCATTTGACAGAAAGGTGTCTATTATGCCAATTAGATGAAAGGTTAAATACCTT
1 G-CCTAACTGTGCA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
61909 TGAG
64 TGAG
61913 TAAAAGATTA
Statistics
Matches: 296, Mismatches: 31, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
131 1 0.00
132 137 0.46
133 136 0.46
134 22 0.07
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (132 bp):
GCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
AGGCCTAACTGTGCATTGACAGAAAAGTGTCAATTATGCAGTTAGATGAAAGGCTAAGTGCCTTT
GA
Found at i:61937 original size:132 final size:127
Alignment explanation
Indices: 61447--61925 Score: 432
Period size: 133 Copynumber: 3.6 Consensus size: 127
61437 AAGATTTAAG
* * * *
61447 GCCTAATTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
1 GCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGATAAATGCCTTTG
** *
61512 AGGCCTAAGTGTGCATTGACA-G-AAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCC
66 A-G--TAA--AAG-ATTGA-ATGCAAATGTGTCAATTATGC-AGTTAGATGAAAGGCTAAGTGCC
61575 TTTGA
123 TTTGA
* * * * * *
61580 GGCTAACTGTGCATTGACAGAAATGTGTCAATTATGCC-AGTAGATGAAAGGCTAATTGGCTTTG
1 GCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGATAAATGCCTTTG
**** * * * *
61644 AGGCCTAGTTGTGCATTGACAAAAAAGTGTCAATTAAGCCAGTTAGATGAAAGGCTAAGTGCCTT
66 AGTAAAAGAT-TG-AATG-C--AAATGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTGCCTT
61709 TGA
125 TGA
* * *
61712 GGCCTAACTGTACATTGACAGAAAGGTGTCAATTATGCCAGTTAGATG-AAGGATAAGTGCCTTT
1 -GCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGATAAATGCCTTT
*
61776 GAGACCTAACTATGCATTGAA-G-AAATGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCC
65 GAG---TAA--AAG-ATTGAATGCAAATGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTGCC
61839 TTTGA
123 TTTGA
* * * *
61844 GACCTAGCTGTGCATTTGACAGAAAGGTGTCTATTATGCCAATTAGATGAAAGGTTAAATACCTT
1 G-CCTAACTGTGCA-TTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGATAAATGCCTT
61909 TGAGTAAAAGATT-AATG
64 TGAGTAAAAGATTGAATG
61926 TCCTAGCTGT
Statistics
Matches: 284, Mismatches: 42, Indels: 45
0.77 0.11 0.12
Matches are distributed among these distances:
126 1 0.00
127 5 0.02
128 6 0.02
129 2 0.01
131 5 0.02
132 118 0.42
133 119 0.42
134 22 0.08
136 1 0.00
137 1 0.00
138 3 0.01
139 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (127 bp):
GCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGATAAATGCCTTTG
AGTAAAAGATTGAATGCAAATGTGTCAATTATGCAGTTAGATGAAAGGCTAAGTGCCTTTGA
Found at i:61984 original size:81 final size:81
Alignment explanation
Indices: 61846--62000 Score: 229
Period size: 81 Copynumber: 1.9 Consensus size: 81
61836 GCCTTTGAGA
* * * *
61846 CCTAGCTGTGCATTTGACAGAAAGGTGTCTATTATGCCAATTAGATGAAAGGTTAAATACCTTTG
1 CCTAGCTGTGCATTTGACAAAAAGGTGTCAATCATGCCAATTAGATGAAAGGCTAAATACCTTTG
61911 AGTAAAAGATTAATGT
66 AGTAAAAGATTAATGT
* * ** *
61927 CCTAGCTGTGTATTTTACAAAAAGGTGTCAATCATGCCTGTTAGATGAAAGGCTAAATGCCTTTG
1 CCTAGCTGTGCATTTGACAAAAAGGTGTCAATCATGCCAATTAGATGAAAGGCTAAATACCTTTG
61992 AGTAAAAGA
66 AGTAAAAGA
62001 CTAGATGTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (81 bp):
CCTAGCTGTGCATTTGACAAAAAGGTGTCAATCATGCCAATTAGATGAAAGGCTAAATACCTTTG
AGTAAAAGATTAATGT
Found at i:62087 original size:45 final size:45
Alignment explanation
Indices: 62036--62360 Score: 420
Period size: 45 Copynumber: 7.2 Consensus size: 45
62026 TGCATAAAAG
* * * * *
62036 GGCATGAAAGGATGTCATAAATGAAATGTATAAT-AGTGTATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCAT-ATGGGTGCATTATC
* * ** *
62081 GGCATGAAAGGATGCCATAAATGAAATGTATAAT-AATGTATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCAT-ATGGGTGCATTATC
* *
62126 GGCATGAAAGAATGCCATGATTGAAATGCATATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATC
*
62171 GGCATGAAAGGATGCTATAATTGAAATGCATATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATC
* * *
62216 GACATGAAATGATGCCATGATTGAAATGCATATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATC
* *
62261 GACATGAAAGGATGCCATAATTGAAATGCTTATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATC
* * *
62306 GACATGAAAGGATGCCATGATTGAAATGCATATGGGTGCATTATT
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATC
*
62351 GCCATGAAAG
1 GGCATGAAAG
62361 AACACCATAA
Statistics
Matches: 256, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
44 2 0.01
45 254 0.99
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (45 bp):
GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATC
Found at i:80630 original size:55 final size:55
Alignment explanation
Indices: 80521--80862 Score: 427
Period size: 55 Copynumber: 6.2 Consensus size: 55
80511 CCACTGCCAT
* * * * ** *
80521 TACGAAAATTTATACACTTAGTATGAATTTCGT-AGTTTGTACATAAAGTACCCA
1 TACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCA
* *
80575 TACAGAAATTCATCCAGTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCA
1 TACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCA
* * * * * * *
80630 TAAGAAAATCCATCAAACATAGTATGAATTTCTTAAGTTTACATAT-AAGTGTCCA
1 TACGGAAATTCATC-CACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCA
* * * * * *
80685 AATGGAAATTTATCTACTTAGTATAAATTTCTTAAGTTTACACATAAAGTACCCA
1 TACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCA
* *
80740 TACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACGCATAAAGTGCCCA
1 TACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCA
* *
80795 TACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACAGATAAAGTTCCCA
1 TACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCA
80850 TACGGAAATTCAT
1 TACGGAAATTCAT
80863 AAACAAATTA
Statistics
Matches: 244, Mismatches: 41, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
54 54 0.22
55 163 0.67
56 27 0.11
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (55 bp):
TACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCA
Found at i:80738 original size:165 final size:163
Alignment explanation
Indices: 80526--80841 Score: 474
Period size: 165 Copynumber: 1.9 Consensus size: 163
80516 GCCATTACGA
* **
80526 AAATTTATACACTTAGTATGAATTTCGTAGTTTGTACATAAAGTACCCATAC-AGAAATTCATCC
1 AAATTTATACACTTAGTATAAATTTCGTAGTTTACACATAAAGTACCCATACGA-AAATTCATCC
*
80590 AGTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAAGAAAATCCATCAAACATAGTAT
65 ACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAAGAAAATCCATC-AACATAGTAT
*
80655 GAATTTCTTAAGTTTACATATAAGTGTCCAAATGG
129 GAATTTCTTAAGTTTACAGATAAGTGTCCAAATGG
*
80690 AAATTTAT-CTACTTAGTATAAATTTCTTAAGTTTACACATAAAGTACCCATACGAAAATTCATC
1 AAATTTATAC-ACTTAGTATAAATTTCGT-AGTTTACACATAAAGTACCCATACGAAAATTCATC
* * * * * *
80754 CACTTAGTATGAATTTCTTAAGTTTACGCATAAAGTGCCCATACGGAAATTCATCCACTTAGTAT
64 CACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAAGAAAATCCATCAACATAGTAT
80819 GAATTTCTTAAGTTTACAGATAA
129 GAATTTCTTAAGTTTACAGATAA
80842 AGTTCCCATA
Statistics
Matches: 137, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
163 1 0.01
164 54 0.39
165 81 0.59
166 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (163 bp):
AAATTTATACACTTAGTATAAATTTCGTAGTTTACACATAAAGTACCCATACGAAAATTCATCCA
CTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAAGAAAATCCATCAACATAGTATGA
ATTTCTTAAGTTTACAGATAAGTGTCCAAATGG
Found at i:81269 original size:22 final size:19
Alignment explanation
Indices: 81243--81296 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 19
81233 TACCCCTACC
81243 ATGGTATTGATACTACTATACT
1 ATGGTATTGATACT-CTAT--T
*
81265 ATGGTACTGATACTCTATT
1 ATGGTATTGATACTCTATT
*
81284 ATGGTATCGATAC
1 ATGGTATTGATAC
81297 CATTTTTGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 12 0.41
21 4 0.14
22 13 0.45
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (19 bp):
ATGGTATTGATACTCTATT
Found at i:81295 original size:19 final size:21
Alignment explanation
Indices: 81243--81296 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 21
81233 TACCCCTACC
*
81243 ATGGTATTGATACTACTATACT
1 ATGGTATCGATACTACTATA-T
81265 ATGGTA-CTGATACT-CTAT-T
1 ATGGTATC-GATACTACTATAT
81284 ATGGTATCGATAC
1 ATGGTATCGATAC
81297 CATTTTTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 12 0.41
20 1 0.03
21 4 0.14
22 12 0.41
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (21 bp):
ATGGTATCGATACTACTATAT
Done.