Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001842.1 Hibiscus syriacus cultivar Beakdansim tig00003731_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: 133697
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:557 original size:27 final size:29
Alignment explanation
Indices: 530--728 Score: 225
Period size: 29 Copynumber: 7.1 Consensus size: 29
520 ATAAATTTAT
* *
530 TTACGAAATTAACA-CC-TTTAAAAATAT
1 TTACGAAAATAACACCCTTTTAAAAATAA
* * *
557 TTAGGAAAATAGCA-TC-TTTAAAAATAA
1 TTACGAAAATAACACCCTTTTAAAAATAA
*
584 TTACGAAAATAGCACCC-TTTAAATAATAA
1 TTACGAAAATAACACCCTTTTAAA-AATAA
*
613 TTATG-AAATAACA-CCTTTTAAAAATAA
1 TTACGAAAATAACACCCTTTTAAAAATAA
*
640 TTACGAAAAT-ACACCCTTTTGAAAATAA
1 TTACGAAAATAACACCCTTTTAAAAATAA
*
668 TTACAAAAATAACACCCTTTTAAAAATAA
1 TTACGAAAATAACACCCTTTTAAAAATAA
* * *
697 TTACAAAAATAGCACCCTTTTGAAAATAA
1 TTACGAAAATAACACCCTTTTAAAAATAA
726 TTA
1 TTA
729 TGAATATGTC
Statistics
Matches: 151, Mismatches: 15, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
27 49 0.32
28 46 0.30
29 56 0.37
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.30
Consensus pattern (29 bp):
TTACGAAAATAACACCCTTTTAAAAATAA
Found at i:3476 original size:2 final size:2
Alignment explanation
Indices: 3469--3497 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3459 TGTAGAATTT
3469 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3498 TGAAAACTGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11387 original size:76 final size:76
Alignment explanation
Indices: 11291--11438 Score: 269
Period size: 76 Copynumber: 1.9 Consensus size: 76
11281 ATTGTCAGCG
*
11291 AGGCATTCAATCGAGTTTTTCACTTTGATATTAAAGGTCGTTTTAAGCTCCTACTTTGTAGTTTG
1 AGGCATTCAACCGAGTTTTTCACTTTGATATTAAAGGTCGTTTTAAGCTCCTACTTTGTAGTTTG
11356 CTTTCGATCGT
66 CTTTCGATCGT
* *
11367 AGGCATTCAACCGAGTTTTTCACTTTGATATTAAAGGTTGTTTTAAGCTCCTCCTTTGTAGTTTG
1 AGGCATTCAACCGAGTTTTTCACTTTGATATTAAAGGTCGTTTTAAGCTCCTACTTTGTAGTTTG
11432 CTTTCGA
66 CTTTCGA
11439 GGCATTCATC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (76 bp):
AGGCATTCAACCGAGTTTTTCACTTTGATATTAAAGGTCGTTTTAAGCTCCTACTTTGTAGTTTG
CTTTCGATCGT
Found at i:16222 original size:25 final size:25
Alignment explanation
Indices: 16192--16246 Score: 103
Period size: 24 Copynumber: 2.2 Consensus size: 25
16182 TACCCCTCCT
16192 CCTCCCCTATATAAACCCCCTCAAC
1 CCTCCCCTATATAAACCCCCTCAAC
16217 CCT-CCCTATATAAACCCCCTCAAC
1 CCTCCCCTATATAAACCCCCTCAAC
16241 CCTCCC
1 CCTCCC
16247 TCATTCTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.25, C:0.55, G:0.00, T:0.20
Consensus pattern (25 bp):
CCTCCCCTATATAAACCCCCTCAAC
Found at i:20002 original size:17 final size:17
Alignment explanation
Indices: 19980--20017 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
19970 TCTTGAGGTG
19980 TATTTTACAAATGAGGA
1 TATTTTACAAATGAGGA
*
19997 TATTTTACAAATGAGGT
1 TATTTTACAAATGAGGA
20014 TATT
1 TATT
20018 GGTTTAGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (17 bp):
TATTTTACAAATGAGGA
Found at i:23283 original size:14 final size:14
Alignment explanation
Indices: 23264--23294 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
23254 GTCCCCTATA
23264 TATATTTTTTTAAT
1 TATATTTTTTTAAT
*
23278 TATATTTTTTTATT
1 TATATTTTTTTAAT
23292 TAT
1 TAT
23295 TTATTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATATTTTTTTAAT
Found at i:23302 original size:21 final size:22
Alignment explanation
Indices: 23266--23336 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
23256 CCCCTATATA
*
23266 TATTTTTTTAATTATATT-TTTT
1 TATTTATTT-ATTATATTATTTT
**
23288 TATTTATTTATTATATTCCTTT
1 TATTTATTTATTATATTATTTT
23310 T-TTTATTTATATTATATTATTTT
1 TATTTA-TT-TATTATATTATTTT
23333 TATT
1 TATT
23337 ATATATATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 12 0.29
22 14 0.34
23 13 0.32
24 2 0.05
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (22 bp):
TATTTATTTATTATATTATTTT
Found at i:23322 original size:23 final size:22
Alignment explanation
Indices: 23280--23344 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 22
23270 TTTTTAATTA
23280 TATTTTTTTATTTATTTATTATAT
1 TATTTTTTTATTTA--TATTATAT
*
23304 TCCTTTTTTTATTTATATTATAT
1 T-ATTTTTTTATTTATATTATAT
*
23327 TATTTTTATTATATATAT
1 TATTTTT-TTATTTATAT
23345 CTTATATCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.14
23 18 0.50
24 1 0.03
25 12 0.33
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTTTTTTATTTATATTATAT
Found at i:23329 original size:14 final size:14
Alignment explanation
Indices: 23312--23351 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
23302 ATTCCTTTTT
23312 TTATTTATATTATA
1 TTATTTATATTATA
*
23326 TTATTTTTATTATA
1 TTATTTATATTATA
23340 TATATCTTATAT
1 T-TAT-TTATAT
23352 CATTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:23341 original size:21 final size:21
Alignment explanation
Indices: 23276--23367 Score: 66
Period size: 21 Copynumber: 4.3 Consensus size: 21
23266 TATTTTTTTA
*
23276 ATTATATT-TTTTTATTTATTT
1 ATTATATTATTTTTA-TTATAT
*
23297 ATTATATTCCTTTTT-TTATTTAT
1 ATTATATT-ATTTTTATTA--TAT
23320 ATTATATTATTTTTATTATAT
1 ATTATATTATTTTTATTATAT
* * *
23341 A-TATCTTA-TATCATTATAT
1 ATTATATTATTTTTATTATAT
23360 ATATATAT
1 AT-TATAT
23368 ATAGATGTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
19 10 0.17
20 6 0.10
21 19 0.33
22 5 0.09
23 18 0.31
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTATATTATTTTTATTATAT
Found at i:23342 original size:39 final size:39
Alignment explanation
Indices: 23268--23340 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
23258 CCTATATATA
* *
23268 TTTTTTTAATTATATTTTTTTATTTATTTATTATATTCC
1 TTTTTTTAATTATATTATATTATTTATTTATTATATTCC
*
23307 TTTTTTTATTTATATTATATTA-TT-TTTATTATAT
1 TTTTTTTAATTATATTATATTATTTATTTATTATAT
23341 ATATCTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 10 0.32
38 2 0.06
39 19 0.61
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.73
Consensus pattern (39 bp):
TTTTTTTAATTATATTATATTATTTATTTATTATATTCC
Found at i:23432 original size:23 final size:22
Alignment explanation
Indices: 23406--23452 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 22
23396 TATGTATATA
23406 TATA-TTTTTTTAATATTATATTT
1 TATACTTTTTTT-ATA-TATATTT
23429 TATACGTTTTTTTATATATATTT
1 TATAC-TTTTTTTATATATATTT
23452 T
1 T
23453 CTTAATATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 12 0.55
24 3 0.14
25 7 0.32
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (22 bp):
TATACTTTTTTTATATATATTT
Found at i:23452 original size:14 final size:14
Alignment explanation
Indices: 23402--23491 Score: 55
Period size: 14 Copynumber: 6.6 Consensus size: 14
23392 TTACTATGTA
23402 TATATATATTTTTT
1 TATATATATTTTTT
* *
23416 TA-ATAT-TATATT
1 TATATATATTTTTT
**
23428 T-TATACGTTTTTT
1 TATATATATTTTTT
*
23441 TATATATATTTTCT
1 TATATATATTTTTT
23455 TA-ATAT-TCTATTTT
1 TATATATAT-T-TTTT
* * *
23469 TATTTTTATTTATT
1 TATATATATTTTTT
23483 TATATATAT
1 TATATATAT
23492 ATATTATATT
Statistics
Matches: 55, Mismatches: 14, Indels: 14
0.66 0.17 0.17
Matches are distributed among these distances:
12 9 0.16
13 14 0.25
14 28 0.51
15 3 0.05
16 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (14 bp):
TATATATATTTTTT
Found at i:23521 original size:18 final size:18
Alignment explanation
Indices: 23495--23537 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23485 TATATATATA
23495 TTATATTTTTACT-TTATT
1 TTATATTTTT-CTATTATT
*
23513 TTATTTTTTTCTATTATT
1 TTATATTTTTCTATTATT
*
23531 TTTTATT
1 TTATATT
23538 AATATCATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (18 bp):
TTATATTTTTCTATTATT
Found at i:23551 original size:51 final size:48
Alignment explanation
Indices: 23441--23571 Score: 114
Period size: 51 Copynumber: 2.7 Consensus size: 48
23431 TACGTTTTTT
* *
23441 TATATATATT-T-TC-TTAATATTCTATTTTTATTTTTATTTATTTATA
1 TATATATATTATATCTTTATTATTTTATTTTT-TTTTTATTTATTTATA
*
23487 TATATATATTATATTTTTACTTTATTTTATTTTTTTCTATTATTT-TTTAT-
1 TATATATATTATATCTTTA--TTATTTTATTTTTTT-T-TTATTTATTTATA
*
23537 TA-ATATCATGTATATCTTTATT-TTTTATTTGTTTT
1 TATATAT-AT-TATATCTTTATTATTTTATTTTTTTT
23572 ACTTAGTATT
Statistics
Matches: 71, Mismatches: 5, Indels: 17
0.76 0.05 0.18
Matches are distributed among these distances:
46 10 0.14
47 2 0.03
48 12 0.17
49 9 0.13
50 6 0.08
51 26 0.37
52 6 0.08
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (48 bp):
TATATATATTATATCTTTATTATTTTATTTTTTTTTTATTTATTTATA
Found at i:26679 original size:57 final size:57
Alignment explanation
Indices: 26599--26769 Score: 342
Period size: 57 Copynumber: 3.0 Consensus size: 57
26589 CTAAGCACAA
26599 ATGCCTATCTTTAAATGACTTGTTTCCATTGGGCCAGGAAGTTGTAGGACACAAAAC
1 ATGCCTATCTTTAAATGACTTGTTTCCATTGGGCCAGGAAGTTGTAGGACACAAAAC
26656 ATGCCTATCTTTAAATGACTTGTTTCCATTGGGCCAGGAAGTTGTAGGACACAAAAC
1 ATGCCTATCTTTAAATGACTTGTTTCCATTGGGCCAGGAAGTTGTAGGACACAAAAC
26713 ATGCCTATCTTTAAATGACTTGTTTCCATTGGGCCAGGAAGTTGTAGGACACAAAAC
1 ATGCCTATCTTTAAATGACTTGTTTCCATTGGGCCAGGAAGTTGTAGGACACAAAAC
26770 TCAAAACAAA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 114 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (57 bp):
ATGCCTATCTTTAAATGACTTGTTTCCATTGGGCCAGGAAGTTGTAGGACACAAAAC
Found at i:29097 original size:17 final size:17
Alignment explanation
Indices: 29075--29125 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
29065 ATTCAAAATT
29075 TAAAATAA-AAAATATAA
1 TAAAATAATAAAATA-AA
29092 TAAAATAATAAAATAAA
1 TAAAATAATAAAATAAA
29109 TAAAATATAATAAAATA
1 T-AAA-ATAATAAAATA
29126 TAAATTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.35
18 9 0.29
19 11 0.35
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAAATAATAAAATAAA
Found at i:29118 original size:27 final size:26
Alignment explanation
Indices: 29069--29135 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 26
29059 TAAAAGATTC
*
29069 AAAATTTAAAAT-AA-AAAATATAAT
1 AAAATATAAAATAAATAAAATATAAT
29093 AAAATAATAAAATAAATAAAATATAAT
1 AAAAT-ATAAAATAAATAAAATATAAT
*
29120 AAAATATAAATTAAAT
1 AAAATATAAAATAAAT
29136 TATTTAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 5 0.13
25 6 0.16
26 12 0.32
27 15 0.39
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (26 bp):
AAAATATAAAATAAATAAAATATAAT
Found at i:29856 original size:38 final size:38
Alignment explanation
Indices: 29779--29856 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
29769 TTTTTATATT
*
29779 TTAAATTTTGTAAAAAAAATTATATAAATTTTATGAAC
1 TTAAATTTTGTAAAAAAAATTATATAAATTTTATCAAC
* * *
29817 TTAAATTTTTTAAAGAAAA-TATATAAATATTTTTCAAC
1 TTAAATTTTGTAAAAAAAATTATATAAAT-TTTATCAAC
29855 TT
1 TT
29857 GTTAAAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 9 0.26
38 26 0.74
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (38 bp):
TTAAATTTTGTAAAAAAAATTATATAAATTTTATCAAC
Found at i:31381 original size:14 final size:15
Alignment explanation
Indices: 31353--31381 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31343 TGGAACAATG
31353 AAGCTATCATTCGTT
1 AAGCTATCATTCGTT
31368 AAGCTATC-TTCGTT
1 AAGCTATCATTCGTT
31382 GCAGTCATTG
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:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (15 bp):
AAGCTATCATTCGTT
Found at i:33786 original size:39 final size:40
Alignment explanation
Indices: 33742--33817 Score: 136
Period size: 39 Copynumber: 1.9 Consensus size: 40
33732 TGTGTATTCT
*
33742 ATACACAAAAAGACAGGTA-AAGATATCTGCAGTAATAGA
1 ATACACAAAAAGACAGGTACAAGACATCTGCAGTAATAGA
33781 ATACACAAAAAGACAGGTACAAGACATCTGCAGTAAT
1 ATACACAAAAAGACAGGTACAAGACATCTGCAGTAAT
33818 TTCTATACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 19 0.54
40 16 0.46
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.17
Consensus pattern (40 bp):
ATACACAAAAAGACAGGTACAAGACATCTGCAGTAATAGA
Found at i:37332 original size:23 final size:21
Alignment explanation
Indices: 37272--37323 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
37262 GTTGTAGGTG
* *
37272 AAAAACATAAAGAAATATTAA
1 AAAAAAATGAAGAAATATTAA
37293 AAAAAAATGAAGAAATATTAA
1 AAAAAAATGAAGAAATATTAA
37314 AAAAAAATGA
1 AAAAAAATGA
37324 CAACCAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (21 bp):
AAAAAAATGAAGAAATATTAA
Found at i:46166 original size:81 final size:80
Alignment explanation
Indices: 46014--46167 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 80
46004 TAATAAAACT
* * * ** *
46014 GGTAAAAAATTACATGAAATATTATTATTTCTACCGGTTTTTTTATTATTGGGCGTTTTACCAGT
1 GGTAAAAAACTACATAAAATATTATTATTTCTACCGGTTTTGTTATTATTGGGCACTTTACCAGA
**
46079 TTTGTTAACATATCC
66 AATGTTAACATATCC
* *
46094 GGTAAATAACTACATAAAATATTATTATTTTCTACCGGTTTTGTTATTATTGGGCACTTTACCGG
1 GGTAAAAAACTACATAAAATATTATTA-TTTCTACCGGTTTTGTTATTATTGGGCACTTTACCAG
46159 AAATGTTAA
65 AAATGTTAA
46168 AAAACATTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 24 0.38
81 39 0.62
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (80 bp):
GGTAAAAAACTACATAAAATATTATTATTTCTACCGGTTTTGTTATTATTGGGCACTTTACCAGA
AATGTTAACATATCC
Found at i:47128 original size:23 final size:23
Alignment explanation
Indices: 47108--47149 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
47098 ATTAATATCA
47108 TTAAATA-TTTTTAT-TTGATAT
1 TTAAATATTTTTTATATTGATAT
*
47129 TTACATATTTTTTATATTGAT
1 TTAAATATTTTTTATATTGAT
47150 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (23 bp):
TTAAATATTTTTTATATTGATAT
Found at i:50109 original size:95 final size:95
Alignment explanation
Indices: 49973--50196 Score: 322
Period size: 95 Copynumber: 2.4 Consensus size: 95
49963 TCATTTTGTC
* **
49973 TAGCTGTAAGAGCATTTGCAACTGCCAAAGGAAGGTATAAGAGTGACTGCATATGAAACATATAA
1 TAGCTGTAAGAGCATTTGCAATTGCCAAAGGAAGACATAAGAGTGACTGCATATGAAACATATAA
** *
50038 CAATTTAATGCACACATCCTTCATTCGGTT
66 CAATTTAAAACACACATCCTTCATTCAGTT
* * *
50068 TAGCTGTAAGATCATTTGCAATTGCCAAAGGAAGACATAAGAGTGACTGCATGTGAAATATATAA
1 TAGCTGTAAGAGCATTTGCAATTGCCAAAGGAAGACATAAGAGTGACTGCATATGAAACATATAA
**
50133 CAATTTAAAACACGTATCCTTCATTCAGTT
66 CAATTTAAAACACACATCCTTCATTCAGTT
* * *
50163 TAGCTGTAGGAGCATTTGCAGTTGCCAATGGAAG
1 TAGCTGTAAGAGCATTTGCAATTGCCAAAGGAAG
50197 GTACAAACAG
Statistics
Matches: 114, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 114 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (95 bp):
TAGCTGTAAGAGCATTTGCAATTGCCAAAGGAAGACATAAGAGTGACTGCATATGAAACATATAA
CAATTTAAAACACACATCCTTCATTCAGTT
Found at i:54577 original size:9 final size:9
Alignment explanation
Indices: 54561--54610 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
54551 ATTGCTTTTT
54561 AATTATTAA
1 AATTATTAA
*
54570 ATTTATTAA
1 AATTATTAA
**
54579 AATTACAAAA
1 AATTA-TTAA
54589 TAATTATTAA
1 -AATTATTAA
54599 AATTATTAA
1 AATTATTAA
54608 AAT
1 AAT
54611 GGGTTAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 24 0.73
10 4 0.12
11 5 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTATTAA
Found at i:56630 original size:61 final size:63
Alignment explanation
Indices: 56564--56690 Score: 161
Period size: 63 Copynumber: 2.0 Consensus size: 63
56554 GAGAGAATAA
** * *
56564 AGTGGTGATT-TTTTTT-ACAACATTGTCTCCTATGCCAACTTACAGTCTCACAG-GAGAACAG
1 AGTGGTGATTGTTTTTTCACAACACCGGCTCCTATGCCAACTTACAGTCCCAC-GTGAGAACAG
* * *
56625 AGTGGTGGTTGTTTTTTCACAACACCGGCTCTTATGCCAATTTACAGTCCCACGTGAGAACAG
1 AGTGGTGATTGTTTTTTCACAACACCGGCTCCTATGCCAACTTACAGTCCCACGTGAGAACAG
56688 AGT
1 AGT
56691 ATTGATAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 9 0.16
62 7 0.12
63 40 0.71
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (63 bp):
AGTGGTGATTGTTTTTTCACAACACCGGCTCCTATGCCAACTTACAGTCCCACGTGAGAACAG
Found at i:62359 original size:16 final size:16
Alignment explanation
Indices: 62340--62373 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62330 CAATATACGA
62340 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
62356 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
62372 AT
1 AT
62374 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:62447 original size:16 final size:18
Alignment explanation
Indices: 62415--62448 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
62405 TATTAATGTA
62415 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
62433 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
62449 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:62587 original size:30 final size:28
Alignment explanation
Indices: 62528--62587 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
62518 AAATATGAAA
* *
62528 ATATAATTATTAAATTTAGTTTAAAAAT
1 ATATAAATATTAAATTTACTTTAAAAAT
*
62556 ATATAAATATTAAATTTATTCTTTTAAAAT
1 ATATAAATATTAAATTTA--CTTTAAAAAT
62586 AT
1 AT
62588 TGTATCAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 17 0.63
30 10 0.37
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (28 bp):
ATATAAATATTAAATTTACTTTAAAAAT
Found at i:63080 original size:130 final size:130
Alignment explanation
Indices: 62911--63151 Score: 401
Period size: 130 Copynumber: 1.9 Consensus size: 130
62901 TAATTTTCCT
* **
62911 GTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGATACTGGTT
1 GTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGATACTAATT
*
62976 AAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAATAATTAG
66 AAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAATAATTAG
* * * * *
63041 GTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCATATCCTAATT
1 GTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGATACTAATT
63106 AAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 AAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
63152 TATATAAATA
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 102 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
GTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGATACTAATT
AAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAATAATTAG
Found at i:63594 original size:35 final size:35
Alignment explanation
Indices: 63548--63623 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
63538 AATTGAATTT
*
63548 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTATTTTGGAAATTAGGGTTTAGAATGA
*
63583 AATTGAATTATTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTATTTTGGAAATTAGGGTTTAGAATGA
63618 AATTGA
1 AATTGA
63624 GGACTGTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.41
Consensus pattern (35 bp):
AATTGAATTATTTTGGAAATTAGGGTTTAGAATGA
Found at i:81169 original size:6 final size:6
Alignment explanation
Indices: 81158--81183 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
81148 AAAGGAAAGT
81158 TGAAGG TGAAGG TGAAGG TGAAGG TG
1 TGAAGG TGAAGG TGAAGG TGAAGG TG
81184 CAATAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.50, T:0.19
Consensus pattern (6 bp):
TGAAGG
Found at i:95491 original size:10 final size:9
Alignment explanation
Indices: 95478--95531 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 9
95468 GGCCATCCGA
95478 CCGAGGTCAT
1 CCGAGG-CAT
*
95488 CCGAAAGCAT
1 CCG-AGGCAT
95498 CCGAGGCCAT
1 CCGAGG-CAT
95508 CCGAGAGCAT
1 CCGAG-GCAT
95518 CCGAGGCCAT
1 CCGAGG-CAT
95528 CCGA
1 CCGA
95532 CCGAGGCCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 3 0.08
10 32 0.84
11 3 0.08
ACGTcount: A:0.26, C:0.35, G:0.28, T:0.11
Consensus pattern (9 bp):
CCGAGGCAT
Found at i:95503 original size:20 final size:20
Alignment explanation
Indices: 95478--95531 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
95468 GGCCATCCGA
*
95478 CCGAGGTCATCCGAAAGCAT
1 CCGAGGCCATCCGAAAGCAT
*
95498 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAAAGCAT
95518 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
95532 CCGAGGCCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.35, G:0.28, T:0.11
Consensus pattern (20 bp):
CCGAGGCCATCCGAAAGCAT
Found at i:95537 original size:14 final size:14
Alignment explanation
Indices: 95518--95550 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
95508 CCGAGAGCAT
95518 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
95532 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
95546 ACGAG
1 CCGAG
95551 CTATGCGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.30, T:0.06
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:95545 original size:10 final size:10
Alignment explanation
Indices: 95495--95531 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
95485 CATCCGAAAG
95495 CATCCGAGGC
1 CATCCGAGGC
95505 CATCCGAGAG-
1 CATCCGAG-GC
95515 CATCCGAGGC
1 CATCCGAGGC
95525 CATCCGA
1 CATCCGA
95532 CCGAGGCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 1 0.04
10 23 0.92
11 1 0.04
ACGTcount: A:0.24, C:0.38, G:0.27, T:0.11
Consensus pattern (10 bp):
CATCCGAGGC
Found at i:95673 original size:33 final size:32
Alignment explanation
Indices: 95616--95698 Score: 114
Period size: 33 Copynumber: 2.6 Consensus size: 32
95606 GCGACCTACC
*
95616 CTCGCTCGGTTG-CTCGGATTCCCTCGCATAG
1 CTCGCTCGGTTGCCTCGGATGCCCTCGCATAG
95647 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTG-CCTCGGATGCCCTCGCATAG
* *
95680 CTCGTTCGGATGGCCTCGG
1 CTCGCTCGG-TTGCCTCGG
95699 TCGGATGGCC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
31 12 0.26
33 32 0.70
34 2 0.04
ACGTcount: A:0.08, C:0.36, G:0.29, T:0.27
Consensus pattern (32 bp):
CTCGCTCGGTTGCCTCGGATGCCCTCGCATAG
Found at i:95702 original size:14 final size:14
Alignment explanation
Indices: 95680--95711 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
95670 CCTCGCATAG
*
95680 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
95694 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
95708 CTCG
1 CTCG
95712 ATGCCCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.31, G:0.38, T:0.25
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:95790 original size:29 final size:30
Alignment explanation
Indices: 95725--95804 Score: 126
Period size: 29 Copynumber: 2.7 Consensus size: 30
95715 CCCAGCGTGT
95725 TGGGACGTGCATGGCGACCTACCTAGGTCGC
1 TGGG-CGTGCATGGCGACCTACCTAGGTCGC
**
95756 TGGGCGTGCATGGCGACCT-GGTAGGTCGC
1 TGGGCGTGCATGGCGACCTACCTAGGTCGC
95785 TGGGCGTGCATGGCGACCTA
1 TGGGCGTGCATGGCGACCTA
95805 TATGGGGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
29 27 0.59
30 15 0.33
31 4 0.09
ACGTcount: A:0.14, C:0.26, G:0.40, T:0.20
Consensus pattern (30 bp):
TGGGCGTGCATGGCGACCTACCTAGGTCGC
Found at i:111652 original size:24 final size:24
Alignment explanation
Indices: 111625--111764 Score: 117
Period size: 23 Copynumber: 6.0 Consensus size: 24
111615 ACATGTTCAG
* *
111625 GAACCCGTTCGTGAACATATAAAC
1 GAACACGTTCGTGAACATATAAAT
* * *
111649 GAACATGTTCGCGAACAT-TAAAC
1 GAACACGTTCGTGAACATATAAAT
**** **
111672 GAACAC-TAAACGAACATATTCAT
1 GAACACGTTCGTGAACATATAAAT
**
111695 GAACGTGTTCGTGAACATATAAAT
1 GAACACGTTCGTGAACATATAAAT
*
111719 GAACACGTTCATGAACAT-TAAAT
1 GAACACGTTCGTGAACATATAAAT
*
111742 GAACATGTTCGTGAACA-ATAAAT
1 GAACACGTTCGTGAACATATAAAT
111765 AAACGAACAC
Statistics
Matches: 90, Mismatches: 23, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
22 8 0.09
23 41 0.46
24 41 0.46
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (24 bp):
GAACACGTTCGTGAACATATAAAT
Found at i:111723 original size:70 final size:70
Alignment explanation
Indices: 111598--111746 Score: 199
Period size: 70 Copynumber: 2.1 Consensus size: 70
111588 CTAACGATAA
* * * * *
111598 AAACAAACGCTAAACGAACATGTTCAGGAACCCGTTCGTGAACATATAAACGAACATGTTCGCGA
1 AAACGAACACTAAACGAACATATTCAGGAACCCGTTCGTGAACATATAAACGAACACGTTCACGA
111663 ACATT
66 ACATT
* ** * *
111668 AAACGAACACTAAACGAACATATTCATGAACGTGTTCGTGAACATATAAATGAACACGTTCATGA
1 AAACGAACACTAAACGAACATATTCAGGAACCCGTTCGTGAACATATAAACGAACACGTTCACGA
111733 ACATT
66 ACATT
*
111738 AAATGAACA
1 AAACGAACA
111747 TGTTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.21
Consensus pattern (70 bp):
AAACGAACACTAAACGAACATATTCAGGAACCCGTTCGTGAACATATAAACGAACACGTTCACGA
ACATT
Found at i:111758 original size:12 final size:12
Alignment explanation
Indices: 111683--111758 Score: 55
Period size: 12 Copynumber: 6.4 Consensus size: 12
111673 AACACTAAAC
*
111683 GAACATATTCAT
1 GAACATGTTCAT
* *
111695 GAACGTGTTCGT
1 GAACATGTTCAT
* **
111707 GAACATATAAAT
1 GAACATGTTCAT
*
111719 GAACACGTTCAT
1 GAACATGTTCAT
**
111731 GAACAT-TAAAT
1 GAACATGTTCAT
*
111742 GAACATGTTCGT
1 GAACATGTTCAT
111754 GAACA
1 GAACA
111759 ATAAATAAAC
Statistics
Matches: 45, Mismatches: 18, Indels: 2
0.69 0.28 0.03
Matches are distributed among these distances:
11 9 0.20
12 36 0.80
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (12 bp):
GAACATGTTCAT
Found at i:111787 original size:47 final size:47
Alignment explanation
Indices: 111637--111780 Score: 145
Period size: 46 Copynumber: 3.1 Consensus size: 47
111627 ACCCGTTCGT
* * * *
111637 GAACATATAAACGAACATGTTCGCGAACAT-TAAACGAACACTAA-AC
1 GAACAT-TAAATGAACATGTTCGTGAACATATAAATGAACACGAACAC
** * ** *
111683 GAACATATTCATGAACGTGTTCGTGAACATATAAATGAACACGTTCAT
1 GAACAT-TAAATGAACATGTTCGTGAACATATAAATGAACACGAACAC
111731 GAACATTAAATGAACATGTTCGTGAACA-ATAAAT-AA-ACGAACAC
1 GAACATTAAATGAACATGTTCGTGAACATATAAATGAACACGAACAC
111775 GAACAT
1 GAACAT
111781 CTTTAAAAAT
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
44 11 0.14
45 2 0.03
46 31 0.39
47 29 0.36
48 7 0.09
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (47 bp):
GAACATTAAATGAACATGTTCGTGAACATATAAATGAACACGAACAC
Found at i:112459 original size:23 final size:22
Alignment explanation
Indices: 112423--112466 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
112413 TTAATATTGT
112423 ATTTTAAATAAATTACAATTAG
1 ATTTTAAATAAATTACAATTAG
* *
112445 ATTTTCAACTAAATTATAATTA
1 ATTTT-AAATAAATTACAATTA
112467 TACGGTGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTTAAATAAATTACAATTAG
Found at i:113031 original size:43 final size:43
Alignment explanation
Indices: 112974--113064 Score: 164
Period size: 43 Copynumber: 2.1 Consensus size: 43
112964 CTTTGGGTCA
*
112974 CTCTCATCCTGACTCATGTTAACTAAAACTAAACCCTCTCTCT
1 CTCTCATCCTGACTCACGTTAACTAAAACTAAACCCTCTCTCT
*
113017 CTCTCATCCTGACTCACGTTAATTAAAACTAAACCCTCTCTCT
1 CTCTCATCCTGACTCACGTTAACTAAAACTAAACCCTCTCTCT
113060 CTCTC
1 CTCTC
113065 TCTCTCCCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.26, C:0.36, G:0.04, T:0.33
Consensus pattern (43 bp):
CTCTCATCCTGACTCACGTTAACTAAAACTAAACCCTCTCTCT
Found at i:113059 original size:2 final size:2
Alignment explanation
Indices: 113052--113216 Score: 142
Period size: 2 Copynumber: 85.0 Consensus size: 2
113042 AAACTAAACC
* * * *
113052 CT CT CT CT CT CT CT CT CT CC CT CT CT CT CG CT C- CC CT CT CC
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * *
113093 CT TT CC CT CT CT TT CT CT CT CC CT CT CT CT CC CT CT CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* *
113135 CT CT CT CT CT CT CT CT CT CT C- CT CT CC CT CT CC CT CT C- CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * *
113175 CC CT CT AT CT CT CC CT CT CT C- CC CT CT CT CT C- CT CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
113215 CT
1 CT
113217 AAAGTAAATT
Statistics
Matches: 126, Mismatches: 32, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
1 5 0.04
2 121 0.96
ACGTcount: A:0.01, C:0.58, G:0.01, T:0.41
Consensus pattern (2 bp):
CT
Found at i:120095 original size:49 final size:50
Alignment explanation
Indices: 119991--120096 Score: 119
Period size: 49 Copynumber: 2.1 Consensus size: 50
119981 CCGTAAAGAG
119991 ATTATTTTATTGAATCTTCTAACCATTAAAAATTATAAAAAATATAATAT
1 ATTATTTTATTGAATCTTCTAACCATTAAAAATTATAAAAAATATAATAT
* * * * * *
120041 GTTATTTTATT-AATCTTTTTACTATTCACAATTATAAAAAGAT-TACATA-
1 ATTATTTTATTGAATCTTCTAACCATTAAAAATTATAAAAA-ATATA-ATAT
120090 ATTATTT
1 ATTATTT
120097 ATATGTTTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
49 32 0.68
50 15 0.32
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.46
Consensus pattern (50 bp):
ATTATTTTATTGAATCTTCTAACCATTAAAAATTATAAAAAATATAATAT
Found at i:120499 original size:15 final size:16
Alignment explanation
Indices: 120458--120496 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
120448 ACATTTTTAT
120458 AATTATTAAT-AAATAA
1 AATT-TTAATAAAATAA
120474 AATTTTAATAAAATAA
1 AATTTTAATAAAATAA
*
120490 TATTTTA
1 AATTTTA
120497 TAATCGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTTAATAAAATAA
Found at i:127917 original size:26 final size:27
Alignment explanation
Indices: 127894--127949 Score: 67
Period size: 31 Copynumber: 1.9 Consensus size: 27
127884 TTAAGCTCAC
*
127894 GAGTTTTTGAGTCGAGTCGAGCTCCATTTTA
1 GAGTTTTCGAGTCGAGTCGAGCT-CA---TA
127925 GAGTTTTCGAGTCGAGTCGAGCTCA
1 GAGTTTTCGAGTCGAGTCGAGCTCA
127950 ACAATACTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
30 2 0.08
31 22 0.92
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.34
Consensus pattern (27 bp):
GAGTTTTCGAGTCGAGTCGAGCTCATA
Found at i:131644 original size:22 final size:22
Alignment explanation
Indices: 131616--132143 Score: 646
Period size: 22 Copynumber: 24.5 Consensus size: 22
131606 GATTTAAATC
*
131616 TATTTTAAAATATGTATTGATT
1 TATTTTAAAATATGGATTGATT
*** *
131638 TATTTTAAAATATGGAAAAAAT
1 TATTTTAAAATATGGATTGATT
*
131660 TATTTTAAAATATAGATTGATT
1 TATTTTAAAATATGGATTGATT
131682 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
131704 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
131726 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGGATTGATT
* ***
131748 TATTTTAAAATATGAAAAAATT
1 TATTTTAAAATATGGATTGATT
*
131770 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGGATTGATT
***
131792 TATTTTAAAATATGGAAAAATT
1 TATTTTAAAATATGGATTGATT
131814 TATTTTAAAATATGGA-TGATT
1 TATTTTAAAATATGGATTGATT
131835 TA--TTAAAATATGGA-TGATT
1 TATTTTAAAATATGGATTGATT
*
131854 TATTTTAAAATATAGA-TGATT
1 TATTTTAAAATATGGATTGATT
*
131875 TATTTTAAAATATAGATTGATT
1 TATTTTAAAATATGGATTGATT
131897 TATTTT-AAA-ATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
131917 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGGATTGATT
* ***
131939 TATTTTAAAATATGAAAAAATT
1 TATTTTAAAATATGGATTGATT
*
131961 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGGATTGATT
***
131983 TATTTTAAAATAT-GAAAAATTT
1 TATTTTAAAATATGGATTGA-TT
132005 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
* **
132027 TATTTTAAAATAT-GA--AAAA
1 TATTTTAAAATATGGATTGATT
* ** *
132046 AAAATTACAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
132068 TATTTTAAAATATAGATTGATT
1 TATTTTAAAATATGGATTGATT
*
132090 TATTTTAAAATATAGATTGATT
1 TATTTTAAAATATGGATTGATT
*
132112 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGGATTGATT
132134 TATTTTAAAA
1 TATTTTAAAA
132144 AAATTATTAT
Statistics
Matches: 439, Mismatches: 57, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
19 29 0.07
20 18 0.04
21 47 0.11
22 342 0.78
23 3 0.01
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (22 bp):
TATTTTAAAATATGGATTGATT
Found at i:132224 original size:31 final size:31
Alignment explanation
Indices: 132167--132225 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
132157 AGTTGTATGG
*
132167 ATTATTTAAATTTCAGTATTATAAAACTAAA
1 ATTATTTAAATTTCAGTATTACAAAACTAAA
*
132198 ATTATTTAAATTTCAGTATTGCAAAACT
1 ATTATTTAAATTTCAGTATTACAAAACT
132226 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTACAAAACTAAA
Done.