Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005915.1 Hibiscus syriacus cultivar Beakdansim tig00013890_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: 76127
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:3459 original size:2 final size:2
Alignment explanation
Indices: 3452--3477 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3442 TGGACTCTTC
3452 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3478 GTCAAATACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9367 original size:22 final size:20
Alignment explanation
Indices: 9342--9382 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
9332 ACACATTCCT
*
9342 TTTTAATATTATTAGTTTTGAG
1 TTTTAAAATT-TTA-TTTTGAG
9364 TTTTAAAATTTTATTTTGA
1 TTTTAAAATTTTATTTTGA
9383 TAAAACGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (20 bp):
TTTTAAAATTTTATTTTGAG
Found at i:10784 original size:15 final size:15
Alignment explanation
Indices: 10764--10801 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
10754 CCTCTAAATA
*
10764 ATTTAGTATTGACTG
1 ATTTAGTACTGACTG
10779 ATTTAGTACTGACTG
1 ATTTAGTACTGACTG
10794 ATTTAGTA
1 ATTTAGTA
10802 AAACAGTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (15 bp):
ATTTAGTACTGACTG
Found at i:15343 original size:21 final size:21
Alignment explanation
Indices: 15305--15347 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15295 CATACAAGTT
* * *
15305 ATTTTTACTTCCTTTGTTTAG
1 ATTTTAACTACCTGTGTTTAG
15326 ATTTTAACTACCTGTGTTTAG
1 ATTTTAACTACCTGTGTTTAG
15347 A
1 A
15348 AGCATTACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (21 bp):
ATTTTAACTACCTGTGTTTAG
Found at i:21117 original size:19 final size:18
Alignment explanation
Indices: 21093--21133 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
21083 AAAAAATCAC
21093 ATTATAATAAATTATTATT
1 ATTATAATAAATT-TTATT
*
21112 ATTATAATAGATTTTATT
1 ATTATAATAAATTTTATT
21130 ATTA
1 ATTA
21134 AAAAGATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTATAATAAATTTTATT
Found at i:22405 original size:15 final size:14
Alignment explanation
Indices: 22372--22405 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22362 TGCTGGGAAT
*
22372 TTAAAATATAGACA
1 TTAAAATATAGAAA
22386 TTAAAATATAGAAAA
1 TTAAAATATAG-AAA
22401 TTAAA
1 TTAAA
22406 GTGTTGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (14 bp):
TTAAAATATAGAAA
Found at i:23823 original size:20 final size:20
Alignment explanation
Indices: 23778--23825 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
23768 GTATGAACAT
*
23778 TATCTATACTGATTGAAGTAG
1 TATCGATACTGATTGAAG-AG
23799 TATCGATACTGATGTGAAG-G
1 TATCGATACTGAT-TGAAGAG
23819 TATCGAT
1 TATCGAT
23826 GCTGTAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 8 0.32
21 12 0.48
22 5 0.20
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.35
Consensus pattern (20 bp):
TATCGATACTGATTGAAGAG
Found at i:26604 original size:23 final size:24
Alignment explanation
Indices: 26578--26648 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
26568 TTAGGATAAA
* *
26578 TCTATGTGGTCTTTTGGGAC-AAT
1 TCTATGTGGTCCTTCGGGACAAAT
26601 TCTATGTGGTCCTTCGGGACAAAT
1 TCTATGTGGTCCTTCGGGACAAAT
* * *
26625 TCTACGCGGTCCTTCGAGACAAAT
1 TCTATGTGGTCCTTCGGGACAAAT
26649 CTACGTGACA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 18 0.43
24 24 0.57
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (24 bp):
TCTATGTGGTCCTTCGGGACAAAT
Found at i:29351 original size:20 final size:21
Alignment explanation
Indices: 29305--29352 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
29295 ATTTATTTCG
**
29305 AGGGATCAATCTTTTTCTCAA
1 AGGGATCAATCTTTTTCGAAA
29326 AGGGATCAATCTTTTT-GAAA
1 AGGGATCAATCTTTTTCGAAA
*
29346 ATGGATC
1 AGGGATC
29353 GATTCTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (21 bp):
AGGGATCAATCTTTTTCGAAA
Found at i:33186 original size:31 final size:31
Alignment explanation
Indices: 33144--33217 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
33134 AAAACATAGA
*
33144 TTTTGGACACTTACGTTATCGTTTTATTAAG
1 TTTTGGACACTTACGTTATCATTTTATTAAG
* ** *
33175 TTTTGGCCACTTTTGTTATCATTTTATTAGG
1 TTTTGGACACTTACGTTATCATTTTATTAAG
*
33206 TTTTGGTCACTT
1 TTTTGGACACTT
33218 GGACGTTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.53
Consensus pattern (31 bp):
TTTTGGACACTTACGTTATCATTTTATTAAG
Found at i:34612 original size:29 final size:30
Alignment explanation
Indices: 34579--34653 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
34569 TTCAATGTCC
* *
34579 AAGTGCCCAAAACTTAA-AAACAATAACGT
1 AAGTGACCAAAACTTAATAAAAAATAACGT
34608 AAGTGACCAAAACTTAATAAAAAATAACGT
1 AAGTGACCAAAACTTAATAAAAAATAACGT
* *
34638 AAGTGGCTAAAACTTA
1 AAGTGACCAAAACTTA
34654 TGTTTTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 16 0.39
30 25 0.61
ACGTcount: A:0.52, C:0.16, G:0.12, T:0.20
Consensus pattern (30 bp):
AAGTGACCAAAACTTAATAAAAAATAACGT
Found at i:41027 original size:15 final size:15
Alignment explanation
Indices: 41003--41045 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
40993 TTAATTTAAA
41003 TTAAATATATATAAT
1 TTAAATATATATAAT
* *
41018 ATT-TATATATTTAAT
1 -TTAAATATATATAAT
41033 TTAAATATATATA
1 TTAAATATATATA
41046 CCTGGCCCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
14 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAAATATATATAAT
Found at i:41031 original size:35 final size:35
Alignment explanation
Indices: 40972--41038 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
40962 ATATATATAT
40972 ATATATATAATTTTAATAATTTTAATTTAAATTAA
1 ATATATATAATTTTAATAATTTTAATTTAAATTAA
41007 ATATATATAATATTT-AT-ATATTTAATTTAAAT
1 ATATATATAAT-TTTAATAAT-TTTAATTTAAAT
41039 ATATATACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 2 0.07
35 25 0.83
36 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (35 bp):
ATATATATAATTTTAATAATTTTAATTTAAATTAA
Found at i:42158 original size:18 final size:18
Alignment explanation
Indices: 42135--42171 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
42125 AAAATTCACA
42135 TTCTCTACTCTTTTTTTT
1 TTCTCTACTCTTTTTTTT
42153 TTCTCTACTCTTTTTTTT
1 TTCTCTACTCTTTTTTTT
42171 T
1 T
42172 ATAAAATCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (18 bp):
TTCTCTACTCTTTTTTTT
Found at i:45148 original size:20 final size:20
Alignment explanation
Indices: 45104--45148 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
45094 AAAAATCATT
* *
45104 AAATTTATTATATTCTTATA
1 AAATTTATTATAATCATATA
45124 AAATTTATTATAAT-ATATA
1 AAATTTATTATAATCATATA
45143 ATAATT
1 A-AATT
45149 ATAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATTTATTATAATCATATA
Found at i:49750 original size:2 final size:2
Alignment explanation
Indices: 49743--49771 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
49733 TTCTATAACC
49743 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 A
49772 CTTATTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51101 original size:2 final size:2
Alignment explanation
Indices: 51096--51123 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
51086 ACACACACAC
51096 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51124 CTTATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51414 original size:20 final size:20
Alignment explanation
Indices: 51391--51431 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
51381 TTGAAAATTG
51391 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
51411 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
51431 C
1 C
51432 CTATATCGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (20 bp):
CATTGCGATAGTACTGTTTA
Found at i:51465 original size:77 final size:77
Alignment explanation
Indices: 51336--51508 Score: 265
Period size: 77 Copynumber: 2.2 Consensus size: 77
51326 GAAATTCGCG
** * * *
51336 TTGCGATAGTTGTGTTTACCTATATCGGTAAATAGCGTTGCGAATTTGAAAATTGCATTGCGATA
1 TTGCGATAGTACTGTTTACCTATATCGGTAAATAGCATTGCGAATTTAAAAATCGCATTGCGATA
51401 GTACTGTTTACA
66 GTACTGTTTACA
*
51413 TTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGCATTGCGATA
1 TTGCGATAGTACTGTTTACCTATATCGGTAAATAGCATTGCGAATTTAAAAATCGCATTGCGATA
51478 GTACTGTTTACA
66 GTACTGTTTACA
** *
51490 TTATGATAGTATTGTTTAC
1 TTGCGATAGTACTGTTTAC
51509 ATTGCAATAG
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
77 87 1.00
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (77 bp):
TTGCGATAGTACTGTTTACCTATATCGGTAAATAGCATTGCGAATTTAAAAATCGCATTGCGATA
GTACTGTTTACA
Found at i:51491 original size:20 final size:20
Alignment explanation
Indices: 51468--51528 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
51458 TTAAAAATCG
*
51468 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTATTGTTTA
**
51488 CATTATGATAGTATTGTTTA
1 CATTGCGATAGTATTGTTTA
*
51508 CATTGCAATAGTATTGTTTA
1 CATTGCGATAGTATTGTTTA
51528 C
1 C
51529 CTATATCGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.44
Consensus pattern (20 bp):
CATTGCGATAGTATTGTTTA
Found at i:51539 original size:97 final size:97
Alignment explanation
Indices: 51391--51605 Score: 306
Period size: 97 Copynumber: 2.2 Consensus size: 97
51381 TTGAAAATTG
* * * *
51391 CATTGCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGA
1 CATTACGATAGTACTGTTTACATTGCAATAGTACTGTTTACCTATATCGGTAATTAGCATTACAA
51456 ATTTAAAAATCG-CATTGCGATAGTACTGTTTA
66 ATTTAAAAATCGTCA-TGCGATAGTACTGTTTA
* * * * *
51488 CATTATGATAGTATTGTTTACATTGCAATAGTATTGTTTACCTATATCGGTAATTAGCGTTATAA
1 CATTACGATAGTACTGTTTACATTGCAATAGTACTGTTTACCTATATCGGTAATTAGCATTACAA
* *
51553 ATTTGAAAATCGTGATGCGATAGTACTGTTTA
66 ATTTAAAAATCGTCATGCGATAGTACTGTTTA
*
51585 CATTGCGATAGTACTGTTTAC
1 CATTACGATAGTACTGTTTAC
51606 CTATATGTGT
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
97 102 0.99
98 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (97 bp):
CATTACGATAGTACTGTTTACATTGCAATAGTACTGTTTACCTATATCGGTAATTAGCATTACAA
ATTTAAAAATCGTCATGCGATAGTACTGTTTA
Found at i:51593 original size:20 final size:20
Alignment explanation
Indices: 51568--51605 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
51558 AAAATCGTGA
51568 TGCGATAGTACTGTTTACAT
1 TGCGATAGTACTGTTTACAT
51588 TGCGATAGTACTGTTTAC
1 TGCGATAGTACTGTTTAC
51606 CTATATGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (20 bp):
TGCGATAGTACTGTTTACAT
Found at i:51621 original size:77 final size:77
Alignment explanation
Indices: 51494--51818 Score: 467
Period size: 77 Copynumber: 4.2 Consensus size: 77
51484 TTTACATTAT
* * * ***
51494 GATAGTATTGTTTACATTGCAATAGTATTGTTTACCTATATCGGTAATTAGCGTTATAAATTTGA
1 GATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGA
*
51559 AAATCGTGA-TGC
66 AAATC-TCATTGC
51571 GATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATAT-GTGTAATTAGCGTTGCGAATTTG
1 GATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATCG-GTAATTAGCGTTGCGAATTTG
51635 AAAATCTCATTGC
65 AAAATCTCATTGC
*
51648 GATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTTGA
1 GATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGA
*
51713 AAATCGCATTGC
66 AAATCTCATTGC
* * *
51725 GATAGTACTGTTTACATTACGACAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGA
1 GATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGA
* *
51790 AAAT-TGAATTGT
66 AAATCT-CATTGC
*
51802 GATAGTATTGTTTACAT
1 GATAGTACTGTTTACAT
51819 ATATCAGTAC
Statistics
Matches: 228, Mismatches: 16, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
76 3 0.01
77 224 0.98
78 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (77 bp):
GATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGA
AAATCTCATTGC
Found at i:51648 original size:174 final size:174
Alignment explanation
Indices: 51348--51682 Score: 532
Period size: 174 Copynumber: 1.9 Consensus size: 174
51338 GCGATAGTTG
* *
51348 TGTTTACCTATATCGGTAAATAGCGTTGCGAATTTGAAAATTGCATTGCGATAGTACTGTTTACA
1 TGTTTACCTATATCGGTAAATAGCGTTACAAATTTGAAAATTGCATTGCGATAGTACTGTTTACA
51413 TTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGCATTGCGATA
66 TTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGCATTGCGATA
* *
51478 GTACTGTTTACATTATGATAGTATTGTTTACATTGCAATAGTAT
131 GTACTGTTTACATTACGATAGTACTGTTTACATTGCAATAGTAT
* *
51522 TGTTTACCTATATCGGTAATTAGCGTTATAAATTTGAAAATCGTG-A-TGCGATAGTACTGTTTA
1 TGTTTACCTATATCGGTAAATAGCGTTACAAATTTGAAAAT--TGCATTGCGATAGTACTGTTTA
* * *
51585 CATTGCGATAGTACTGTTTACCTATAT-GTGTAATTAGCGTTGCGAATTTGAAAATCTCATTGCG
64 CATTGCGATAGTACTGTTTACCTATATCG-GTAATTAGCATTGCGAATTTAAAAATCGCATTGCG
*
51649 ATAGTACTGTTTACATTGCGATAGTACTGTTTAC
128 ATAGTACTGTTTACATTACGATAGTACTGTTTAC
51683 CTATATTGGT
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
173 1 0.01
174 144 0.97
175 1 0.01
176 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (174 bp):
TGTTTACCTATATCGGTAAATAGCGTTACAAATTTGAAAATTGCATTGCGATAGTACTGTTTACA
TTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGCATTGCGATA
GTACTGTTTACATTACGATAGTACTGTTTACATTGCAATAGTAT
Found at i:51665 original size:20 final size:20
Alignment explanation
Indices: 51642--51682 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
51632 TTGAAAATCT
51642 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
51662 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
51682 C
1 C
51683 CTATATTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (20 bp):
CATTGCGATAGTACTGTTTA
Found at i:51833 original size:57 final size:57
Alignment explanation
Indices: 51748--51909 Score: 234
Period size: 57 Copynumber: 2.8 Consensus size: 57
51738 ACATTACGAC
* * *
51748 AGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATTGAATTGTGAT
1 AGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGAATTGCGAT
* * * * *
51805 AGTATTGTTTACATATATCAGTACTTAGCGTTGCGAATTTGAAAATCGCATTGCGAT
1 AGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGAATTGCGAT
* *
51862 AGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCG
1 AGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
51910 TGTTGCAAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 91 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (57 bp):
AGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGAATTGCGAT
Found at i:51915 original size:134 final size:133
Alignment explanation
Indices: 51585--52061 Score: 468
Period size: 134 Copynumber: 3.6 Consensus size: 133
51575 GTACTGTTTA
* *
51585 CATTGCGATAGTACTGTTTACCTATAT-GTGTAATTAGC-GTTGCGAATTTGAAAATC-TCATTG
1 CATTGCGATAGTACTGTTTACCTATATCG-GTAATTA-CAGTTGCGAATTTAAAAATCGT-GTTG
* *** * * *
51647 CGA-TAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTT
63 CGATTTG-AAAATTGA-ATTGTGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTT
51711 GAAAATCG
126 GAAAATCG
* * * * * **** * * *
51719 CATTGCGATAGTACTGTTTACAT-TA-C-G-ACAGTACTATTTACCTATATCGGTAATTAGCGTT
1 CATTGCGATAGTACTGTTTACCTATATCGGTA-ATTAC-AGTT-GCGA-ATTTAAAAATCGTGTT
* * * *
51780 GCGAATTTGAAAATTGAATTGTGATAGTATTGTTTACATATATCAGTACTTAGCGTTGCGAATTT
62 GCG-ATTTGAAAATTGAATTGTGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTT
51845 GAAAATCG
126 GAAAATCG
51853 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCA-TTGCGAATTTAAAAATCGTGTTGCA
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTA-CAGTTGCGAATTTAAAAATCGTGTTGC-
* * * * *
51917 AATTCGAAGATCGCATTGTGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAA
64 GATTTGAAAATTGAATTGTGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAA
*
51982 GATCG
129 AATCG
* * *
51987 CATTGCGATAGTACTGTTTACCTATAGCGGTAATTACAGTTGCGAAATCAAAAATCGTGTTGCGA
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTACAGTTGCGAATTTAAAAATCGTGTTGCGA
52052 TTTAGAAAAT
66 TTT-GAAAAT
52062 CTTGTTGCGA
Statistics
Matches: 276, Mismatches: 50, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
130 2 0.01
131 4 0.01
132 2 0.01
133 9 0.03
134 238 0.86
135 9 0.03
136 5 0.02
137 5 0.02
138 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (133 bp):
CATTGCGATAGTACTGTTTACCTATATCGGTAATTACAGTTGCGAATTTAAAAATCGTGTTGCGA
TTTGAAAATTGAATTGTGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAA
TCG
Found at i:51961 original size:77 final size:77
Alignment explanation
Indices: 51834--51978 Score: 245
Period size: 77 Copynumber: 1.9 Consensus size: 77
51824 AGTACTTAGC
* *
51834 GTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAA
1 GTTGCAAATTCGAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAA
51899 TTTAAAAATCGT
66 TTTAAAAATCGT
* * *
51911 GTTGCAAATTCGAAGATCGCATTGTGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAA
1 GTTGCAAATTCGAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAA
51976 TTT
66 TTT
51979 GAAGATCGCA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (77 bp):
GTTGCAAATTCGAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAA
TTTAAAAATCGT
Found at i:51999 original size:57 final size:57
Alignment explanation
Indices: 51911--52032 Score: 192
Period size: 57 Copynumber: 2.1 Consensus size: 57
51901 TAAAAATCGT
* * *
51911 GTTGCAAATTCGAAGATCGCATTGTGATAGTACTGTTTACCTATATCGGTAATTAGC-
1 GTTGCGAATTCGAAGATCGCATTGCGATAGTACTGTTTACCTATAGCGGTAATTA-CA
*
51968 GTTGCGAATTTGAAGATCGCATTGCGATAGTACTGTTTACCTATAGCGGTAATTACA
1 GTTGCGAATTCGAAGATCGCATTGCGATAGTACTGTTTACCTATAGCGGTAATTACA
52025 GTTGCGAA
1 GTTGCGAA
52033 ATCAAAAATC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 1 0.02
57 59 0.98
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (57 bp):
GTTGCGAATTCGAAGATCGCATTGCGATAGTACTGTTTACCTATAGCGGTAATTACA
Found at i:52043 original size:191 final size:191
Alignment explanation
Indices: 51662--52052 Score: 473
Period size: 191 Copynumber: 2.0 Consensus size: 191
51652 GTACTGTTTA
* * * *
51662 CATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGCATTGCAA
* * *
51727 TAGTACTGTTTACATTACGACAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAA
66 TAGTACAGATCACATTACGACAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAA
* * * * * * **
51792 ATTGAATTGTGATAGTATTGTTTACATATATCAGTACTTAGCGTTGCGAATTTGAAAATCG
131 ATCGAATTGCGATAGTACTGTTTACATATAGCAGTAATTAGCGTTGCGAAATCAAAAATCG
**
51853 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGTGTTGCAA
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGCATTGCAA
* * ** * *
51918 -A-TTCGAAGATCGCATTGTGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGA
66 TAGTAC--AGATCACATTACGACAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGA
* * * *
51981 AGATCGCATTGCGATAGTACTGTTTACCTATAGCGGTAATTA-CAGTTGCGAAATCAAAAATCG
129 AAATCGAATTGCGATAGTACTGTTTACATATAGCAGTAATTAGC-GTTGCGAAATCAAAAATCG
**
52044 TGTTGCGAT
1 CATTGCGAT
52053 TTAGAAAATC
Statistics
Matches: 168, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
189 2 0.01
190 2 0.01
191 164 0.98
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (191 bp):
CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGCATTGCAA
TAGTACAGATCACATTACGACAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAA
ATCGAATTGCGATAGTACTGTTTACATATAGCAGTAATTAGCGTTGCGAAATCAAAAATCG
Found at i:52050 original size:20 final size:21
Alignment explanation
Indices: 52025--52073 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
52015 GGTAATTACA
52025 GTTGCGAAATCA-AAAATCGT
1 GTTGCGAAATCAGAAAATCGT
* * *
52045 GTTGCG-ATTTAGAAAATCTT
1 GTTGCGAAATCAGAAAATCGT
52065 GTTGCGAAA
1 GTTGCGAAA
52074 AGGAAACTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.13
20 19 0.83
21 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (21 bp):
GTTGCGAAATCAGAAAATCGT
Found at i:52050 original size:57 final size:57
Alignment explanation
Indices: 51926--52052 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
51916 AAATTCGAAG
* * * ** *
51926 ATCGCATTGTGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAG
1 ATCGCATTGCGATAGTACTGTTTACCTATAGCGGTAATTAGCGTTGCGAAATCAAAA
51983 ATCGCATTGCGATAGTACTGTTTACCTATAGCGGTAATTA-CAGTTGCGAAATCAAAA
1 ATCGCATTGCGATAGTACTGTTTACCTATAGCGGTAATTAGC-GTTGCGAAATCAAAA
**
52040 ATCGTGTTGCGAT
1 ATCGCATTGCGAT
52053 TTAGAAAATC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
56 1 0.02
57 60 0.98
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (57 bp):
ATCGCATTGCGATAGTACTGTTTACCTATAGCGGTAATTAGCGTTGCGAAATCAAAA
Found at i:52148 original size:20 final size:20
Alignment explanation
Indices: 52125--52195 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
52115 TGACTTCTGT
*
52125 GTTGCGTTTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
*
52145 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACAAATTCGC
** *
52165 GTTGCGAATTTGGAAAATCGC
1 GTTGCG-ATTTACAAATTCGC
*
52186 ATTGCGATTT
1 GTTGCGATTT
52196 TGGAACTTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:52218 original size:20 final size:20
Alignment explanation
Indices: 52159--52233 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
52149 CGATTTACAT
*
52159 ATTCGCGTTGCGAATTTGGAA
1 ATTCGCGTTGCGAAATTGG-A
* * **
52180 AATCGCATTGCGATTTTGGA
1 ATTCGCGTTGCGAAATTGGA
*
52200 ACTT-GTGTTGCGAAATTGGA
1 A-TTCGCGTTGCGAAATTGGA
52220 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
52234 TTTGTTGGTC
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 2 0.05
20 24 0.56
21 17 0.40
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTGGA
Found at i:52945 original size:31 final size:31
Alignment explanation
Indices: 52909--52986 Score: 156
Period size: 31 Copynumber: 2.5 Consensus size: 31
52899 TCTTCCCCCT
52909 TGATTCATTGTTCGCACCTTCCCAAATGCTC
1 TGATTCATTGTTCGCACCTTCCCAAATGCTC
52940 TGATTCATTGTTCGCACCTTCCCAAATGCTC
1 TGATTCATTGTTCGCACCTTCCCAAATGCTC
52971 TGATTCATTGTTCGCA
1 TGATTCATTGTTCGCA
52987 ATTCTTATGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.37
Consensus pattern (31 bp):
TGATTCATTGTTCGCACCTTCCCAAATGCTC
Found at i:55919 original size:2 final size:2
Alignment explanation
Indices: 55912--55946 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
55902 ATGGATTGCT
55912 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55947 GTATTATGAG
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:56185 original size:13 final size:13
Alignment explanation
Indices: 56164--56231 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
56154 AATGACGCTC
*
56164 AATGAGCGTCATA
1 AATGCGCGTCATA
56177 AATGCGCGTCATA
1 AATGCGCGTCATA
***
56190 AATGTTTGTCATA
1 AATGCGCGTCATA
* **
56203 AGTGCGTATCATA
1 AATGCGCGTCATA
*
56216 AATGCGCATCATA
1 AATGCGCGTCATA
56229 AAT
1 AAT
56232 TTATGACGCA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:59359 original size:13 final size:13
Alignment explanation
Indices: 59341--59365 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59331 TTCATTTAAT
59341 AAATTGAAAGTAA
1 AAATTGAAAGTAA
59354 AAATTGAAAGTA
1 AAATTGAAAGTA
59366 CAATTAATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (13 bp):
AAATTGAAAGTAA
Found at i:59629 original size:12 final size:12
Alignment explanation
Indices: 59612--59639 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
59602 GTTTTAATTA
59612 TAAATTGGTCCC
1 TAAATTGGTCCC
59624 TAAATTGGTCCC
1 TAAATTGGTCCC
59636 TAAA
1 TAAA
59640 GTGTATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (12 bp):
TAAATTGGTCCC
Found at i:60691 original size:111 final size:111
Alignment explanation
Indices: 60488--60858 Score: 521
Period size: 111 Copynumber: 3.3 Consensus size: 111
60478 AACTTTCAAA
* * * *
60488 AAAGTATCGTTCATTTTTATAAAAAGTATCTATACTTTCAACATATTAGGTAAATTTTACCGATT
1 AAAGTATCGATCATTTTTAT-AAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACC-ATT
* * * *
60553 TTT-CCATAATGAAACTGATTTTGTCATATTTATACCTGTTATATTGT
64 TTTGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGT
* * *
60600 AAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTTAACATATCAAGTAAATTTTACCATTTT
1 AAAGTATCGATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCATTTT
60665 TGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGT
66 TGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGT
* *
60711 AAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
1 AAAGTATCGATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCATTTT
* * * *
60776 TGTCATAATAAAATTGGTTTTATCACATTTTTACATGTTATATTGT
66 TGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGT
* * *
60822 AAAATATCGATACATTTTTAT-AAAGCATCAATACTTT
1 AAAGTATCGAT-CATTTTTATAAAAGGATCGATACTTT
60859 ATAGGCGCTA
Statistics
Matches: 235, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
110 6 0.03
111 203 0.86
112 26 0.11
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (111 bp):
AAAGTATCGATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCATTTT
TGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGT
Found at i:61446 original size:111 final size:111
Alignment explanation
Indices: 61249--61605 Score: 520
Period size: 111 Copynumber: 3.2 Consensus size: 111
61239 AACTTTCAAA
** * * *
61249 AAAGTATCGATCATTTTTATAAAAAGTATTTATACTTTCAACATATTAGGTAAATTTTATCGGTT
1 AAAGTATCGATCATTTTTATAAAAAG-ATCGATACTTTCAACATATCAAGTAAATTTTATCGTTT
* * *
61314 TTGTCATAATG-AACTGGTTTTGTCATATTTATACTTCTTATATTGT
65 TTGTCATAATGAAACTGATTTTGTCATATTTATACCTGTTATATTGT
* *
61360 AAAGTATCGATCATTTTTATAAAAAGATCGATACTTTCAACATATCAAGTAAATGTTATTGTTTT
1 AAAGTATCGATCATTTTTATAAAAAGATCGATACTTTCAACATATCAAGTAAATTTTATCGTTTT
*
61425 TGTCATAATGAAACTGATTTTGTCATATTTGTACCTGTTATATTGT
66 TGTCATAATGAAACTGATTTTGTCATATTTATACCTGTTATATTGT
* * *
61471 AAAGTATCTATCATTTTTATAAAATGATCGATACTTTCAACA-ATTCAAGTAAATTTTACCGTTT
1 AAAGTATCGATCATTTTTATAAAAAGATCGATACTTTCAACATA-TCAAGTAAATTTTATCGTTT
*
61535 TTGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
65 TTGTCATAATGAAACTGATTTTGTCATATTTATACCTGTTATATTGT
* *
61582 AAAATATTGATACATTTTTATAAA
1 AAAGTATCGAT-CATTTTTATAAA
61606 GTATCGATAT
Statistics
Matches: 223, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
110 43 0.19
111 168 0.75
112 12 0.05
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (111 bp):
AAAGTATCGATCATTTTTATAAAAAGATCGATACTTTCAACATATCAAGTAAATTTTATCGTTTT
TGTCATAATGAAACTGATTTTGTCATATTTATACCTGTTATATTGT
Found at i:62193 original size:110 final size:110
Alignment explanation
Indices: 62017--62229 Score: 318
Period size: 110 Copynumber: 1.9 Consensus size: 110
62007 ACGCTACCTA
* * * * * * *
62017 TTACGTTATATAAGTGTTACTTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACTTAT
1 TTACATTATATAAGCGGTACCTAATATGTTATTGTGCTTAATAATATTTCCAGTAATTAACCTAT
*
62082 TTTATTATATAAACACTACTTATTATATTATATAAGCGTTATAAT
66 TTTATTATATAAACACTACATATTATATTATATAAGCGTTATAAT
*
62127 TTACATTATATAAGCGGTACCTAATATGTTATTGTGCTTAATAATATTTCTAGTAATTAACCTAT
1 TTACATTATATAAGCGGTACCTAATATGTTATTGTGCTTAATAATATTTCCAGTAATTAACCTAT
* * *
62192 TTTATTATATAATCGCTACATATTCTATTATATAAGCG
66 TTTATTATATAAACACTACATATTATATTATATAAGCG
62230 GTACCTAATA
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
110 91 1.00
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.46
Consensus pattern (110 bp):
TTACATTATATAAGCGGTACCTAATATGTTATTGTGCTTAATAATATTTCCAGTAATTAACCTAT
TTTATTATATAAACACTACATATTATATTATATAAGCGTTATAAT
Found at i:62203 original size:87 final size:87
Alignment explanation
Indices: 62102--62263 Score: 247
Period size: 87 Copynumber: 1.9 Consensus size: 87
62092 AAACACTACT
*
62102 TATTATATTATATAAGCGTTATAAT-TTAC-ATTATATAAGCGGTACCTAATATGTTATTGTGCT
1 TATTATATTATATAAGCGCTA-AATATT-CTATTATATAAGCGGTACCTAATATGTTATTGTGCT
62165 TAATAATATTTCTAGTAATTAACC
64 TAATAATATTTCTAGTAATTAACC
* * * *
62189 TATTTTATTATATAATCGCTACATATTCTATTATATAAGCGGTACCTAATATGTTATTGTGCTTG
1 TATTATATTATATAAGCGCTAAATATTCTATTATATAAGCGGTACCTAATATGTTATTGTGCTTA
62254 ATAATATTTC
66 ATAATATTTC
62264 CGATTAAATG
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
86 3 0.04
87 65 0.96
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.45
Consensus pattern (87 bp):
TATTATATTATATAAGCGCTAAATATTCTATTATATAAGCGGTACCTAATATGTTATTGTGCTTA
ATAATATTTCTAGTAATTAACC
Found at i:74382 original size:57 final size:59
Alignment explanation
Indices: 74283--74416 Score: 166
Period size: 57 Copynumber: 2.3 Consensus size: 59
74273 GAGTCATTGG
* * * *
74283 CTATTAAAATTACAAAATTATCTTCTGATTGTAGGGTATTGTTTTGTTGA-TC-CCCGA
1 CTATTAAAATTACAAAATGATCTTCTGACTATAGAGTATTGTTTTGTTGAGTCTCCCGA
* **
74340 CTATTAAAAGTTACAAAATGATC-TCTGACTATAGAGTGTTGTTTTGTTGAGTCTCTTGA
1 CTATTAAAA-TTACAAAATGATCTTCTGACTATAGAGTATTGTTTTGTTGAGTCTCCCGA
*
74399 CTATTAAAATCACAAAAT
1 CTATTAAAATTACAAAAT
74417 AGTCACCCGA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 32 0.48
58 22 0.33
59 12 0.18
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (59 bp):
CTATTAAAATTACAAAATGATCTTCTGACTATAGAGTATTGTTTTGTTGAGTCTCCCGA
Found at i:75360 original size:2 final size:2
Alignment explanation
Indices: 75353--75424 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
75343 TTTATTGCTA
75353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75395 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75425 GGTGTTTGAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.