Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2096
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: 82266
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Found at i:1453 original size:52 final size:53
Alignment explanation
Indices: 1148--1537 Score: 223
Period size: 52 Copynumber: 7.4 Consensus size: 53
1138 CTCAATTCTC
* * * * *
1148 CACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAGACACTAATTTTCT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTT
* * * *
1200 -ATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTC--AAAAACACCAATTTTTT
* ** ** * * *
1254 CACAATCGGGGATACTCCAACCCCG--TTGATCATCGGGGATACTCCAACCCCGTTATTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTC--AAAAACACCAA-----TTTTTT
* * * * ***
1312 C-CGA--GGGGATACTCCAACTCCGACTTTATTTTC-AAAATATTGA-TTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTT
* * * * * * *
1360 CATAATCGGGGATATTCCAATCCCGGTTTTA-TTGCTAAAACACTAATTTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTT
* *
1412 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTC-GAAACACCAATTTTCCTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTT--TT
* * * *
1466 --TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAA-TTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTT
* * *
1516 CACAGTCGAGGATACTCTAACC
1 CACAATCGGGGATACTCCAACC
1538 TTGTTATTTC
Statistics
Matches: 254, Mismatches: 62, Indels: 44
0.71 0.17 0.12
Matches are distributed among these distances:
48 5 0.02
49 1 0.00
50 5 0.02
51 58 0.23
52 93 0.37
53 23 0.09
54 17 0.07
55 39 0.15
57 8 0.03
58 5 0.02
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (53 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTT
Found at i:1571 original size:28 final size:28
Alignment explanation
Indices: 1525--1596 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
1515 TCACAGTCGA
** * **
1525 GGATACTCTAACCTTGTTATTTCATCGG
1 GGATACTCTAACCCCGTTACTTCAGAGG
*
1553 GGATACTCTAACCCCGTTACTTCCGAGG
1 GGATACTCTAACCCCGTTACTTCAGAGG
*
1581 GGATACTCCAACCCCG
1 GGATACTCTAACCCCG
1597 GCTTTATTCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (28 bp):
GGATACTCTAACCCCGTTACTTCAGAGG
Found at i:1616 original size:263 final size:263
Alignment explanation
Indices: 1148--1647 Score: 738
Period size: 263 Copynumber: 1.9 Consensus size: 263
1138 CTCAATTCTC
* * *
1148 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAGACACTAATTTTCTATAATCGGGGATA
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAGACACCAATTTTCTATAATCGGGGATA
*
1213 CTCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCC
66 CTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCC
* * *
1278 GTTGATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGACTTTATTT
130 GTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTC
* * * *
1343 TCAAAATATTGATTTTTCATAATCGGGGATATTCCAATCCCGGTTTTATTGCTAAAACACTAATT
195 CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATT
1408 TTTT
260 TTTT
* *
1412 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAA-ACACCAATTTTCCTTTAATCGGGGA
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAGACACCAATTTT-CTATAATCGGGGA
* * * *
1476 TACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAGTCGAGGATACTCTAACCT
64 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * *
1539 TGTT-ATTTCATCGGGGATACTCTAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTA
129 CGTTGA--TCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTA
*
1603 TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
192 TTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
1648 TTATTTTCGA
Statistics
Matches: 211, Mismatches: 21, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
261 1 0.00
262 24 0.11
263 105 0.50
264 43 0.20
265 38 0.18
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (263 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAGACACCAATTTTCTATAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
TTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTCC
CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
TTT
Found at i:1781 original size:80 final size:77
Alignment explanation
Indices: 1550--1784 Score: 229
Period size: 80 Copynumber: 2.9 Consensus size: 77
1540 GTTATTTCAT
* * * *
1550 CGGGGATACTCTAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GTTTTATT-CCAAAATAT
* *
1615 TGATTTCTCATAAT
64 TGATTTCTCACAAC
* * * * *
1629 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTTC-TAATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG---TTTTATTCCAAAAT-
*
1693 ATCGATTTCTCACAAC
62 ATTGATTTCTCACAAC
* * * *
1709 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAATACTCCAGCCCCGTTATTATCTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGTT-TTAT-TCCAAAATAT
*
1774 TAAATTTCTCA
64 T-GATTTCTCA
1785 TCGGGAAATA
Statistics
Matches: 125, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
77 2 0.02
78 4 0.03
79 48 0.38
80 66 0.53
81 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (77 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGTTTTATTCCAAAATATTG
ATTTCTCACAAC
Found at i:10377 original size:46 final size:46
Alignment explanation
Indices: 10306--10442 Score: 247
Period size: 46 Copynumber: 3.0 Consensus size: 46
10296 TCTCCTACTC
10306 TGACTAACTCTAGTGACGATGAGTCTTAGATTTAGTCTTCGTATTG
1 TGACTAACTCTAGTGACGATGAGTCTTAGATTTAGTCTTCGTATTG
* *
10352 TGAGTAACTCTAGTGACAATGAGTCTTAGATTTAGTCTTCGTATTG
1 TGACTAACTCTAGTGACGATGAGTCTTAGATTTAGTCTTCGTATTG
*
10398 TGACTAACTCTAGTGACGATGAGTCTTAGATTTAGTCTTCATATT
1 TGACTAACTCTAGTGACGATGAGTCTTAGATTTAGTCTTCGTATT
10443 AGGATTAGTC
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (46 bp):
TGACTAACTCTAGTGACGATGAGTCTTAGATTTAGTCTTCGTATTG
Found at i:10656 original size:24 final size:24
Alignment explanation
Indices: 10629--10676 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
10619 AAAGGGAGAG
10629 AAATATTGCTTTGAAAATAAATTT
1 AAATATTGCTTTGAAAATAAATTT
10653 AAATATTGCTTTGAAAATAAATTT
1 AAATATTGCTTTGAAAATAAATTT
10677 TTTATCAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (24 bp):
AAATATTGCTTTGAAAATAAATTT
Found at i:10702 original size:22 final size:20
Alignment explanation
Indices: 10674--10720 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
10664 TGAAAATAAA
*
10674 TTTTTTATCAAGGGGGAGAAAT
1 TTTTTTATCAA-AGGGA-AAAT
10696 TTTTTTATCAAAGGGAAAAT
1 TTTTTTATCAAAGGGAAAAT
10716 TTTTT
1 TTTTT
10721 AAAGAAAGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.38
21 4 0.17
22 11 0.46
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (20 bp):
TTTTTTATCAAAGGGAAAAT
Found at i:11336 original size:32 final size:33
Alignment explanation
Indices: 11277--11338 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
11267 CACCCAGATG
*
11277 TATCGATACATTATGCTTTGTAATGATACAATC
1 TATCGATACATTATGCATTGTAATGATACAATC
*
11310 TATCGATACATGT-T-CATTGTATTGATACA
1 TATCGATACAT-TATGCATTGTAATGATACA
11339 TGGACAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 13 0.50
33 12 0.46
34 1 0.04
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTAATGATACAATC
Found at i:11338 original size:19 final size:20
Alignment explanation
Indices: 11310--11360 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
11300 TGATACAATC
**
11310 TATCGATACATGTTC-ATTG
1 TATCGATACATGGACAATTG
*
11329 TATTGATACATGGACAATTG
1 TATCGATACATGGACAATTG
11349 TATCGATACATG
1 TATCGATACATG
11361 AAACTAGCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (20 bp):
TATCGATACATGGACAATTG
Found at i:11432 original size:33 final size:32
Alignment explanation
Indices: 11390--11454 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
11380 TACCACTATT
*
11390 TGTATCGATACATGGCAT-ATTGTATCGATACAA
1 TGTATCGATAAAT-G-ATAATTGTATCGATACAA
11423 TGTATCGATAAATGATGAATTGTATCGATACA
1 TGTATCGATAAATGAT-AATTGTATCGATACA
11455 TTGCTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 2 0.07
32 1 0.03
33 26 0.90
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATAAATGATAATTGTATCGATACAA
Found at i:14860 original size:31 final size:32
Alignment explanation
Indices: 14811--14886 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
14801 TGAGTTTGGC
* *
14811 CTTTTCAAGTTCGGA-TTTTCCA-ATTTC-AGCT
1 CTTTTCAAGTTTGAATTTTTCCAGA-TTCAAG-T
*
14842 CTTTTCAAGTTTGAATTTTTTCAGATTCAAGT
1 CTTTTCAAGTTTGAATTTTTCCAGATTCAAGT
14874 CTTTTCAAGTTTG
1 CTTTTCAAGTTTG
14887 GATGTTCGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
31 13 0.33
32 23 0.59
33 3 0.08
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (32 bp):
CTTTTCAAGTTTGAATTTTTCCAGATTCAAGT
Found at i:14864 original size:16 final size:17
Alignment explanation
Indices: 14841--14886 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
14831 CAATTTCAGC
14841 TCTTTTCAAGTTTGAA-
1 TCTTTTCAAGTTTGAAG
* * *
14857 TTTTTTC-AGATTCAAG
1 TCTTTTCAAGTTTGAAG
14873 TCTTTTCAAGTTTG
1 TCTTTTCAAGTTTG
14887 GATGTTCGAG
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
15 6 0.27
16 12 0.55
17 4 0.18
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.52
Consensus pattern (17 bp):
TCTTTTCAAGTTTGAAG
Found at i:18586 original size:18 final size:18
Alignment explanation
Indices: 18563--18597 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18553 TAAACAATAT
18563 AAAATAGAAAAA-GAAAAA
1 AAAATA-AAAAATGAAAAA
18581 AAAATAAAAAATGAAAA
1 AAAATAAAAAATGAAAA
18598 GGATGCGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (18 bp):
AAAATAAAAAATGAAAAA
Found at i:23054 original size:16 final size:18
Alignment explanation
Indices: 23025--23062 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
23015 AAAAAATTAA
*
23025 ATTTATTTTCTAAAATTT
1 ATTTATTTTCTAAAAGTT
23043 ATTT-TTTT-TAAAAGTT
1 ATTTATTTTCTAAAAGTT
23059 ATTT
1 ATTT
23063 CCAGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
17 4 0.21
18 4 0.21
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
ATTTATTTTCTAAAAGTT
Found at i:24322 original size:17 final size:17
Alignment explanation
Indices: 24300--24332 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24290 TTGACCTTTT
24300 TTTTAAAAAATTTATTA
1 TTTTAAAAAATTTATTA
*
24317 TTTTAAAAATTTTATT
1 TTTTAAAAAATTTATT
24333 TTTAATTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAAAAATTTATTA
Found at i:24640 original size:2 final size:2
Alignment explanation
Indices: 24633--24666 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
24623 TATCAAATCA
24633 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
24667 GCTTCAAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28627 original size:17 final size:18
Alignment explanation
Indices: 28594--28630 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
28584 TAGCCAAACT
28594 TGTATCGATACACAATGTA
1 TGTATCGATA-ACAATGTA
28613 TGTATCGAT-ACAATGTA
1 TGTATCGATAACAATGTA
28630 T
1 T
28631 CGATACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (18 bp):
TGTATCGATAACAATGTA
Found at i:28630 original size:13 final size:13
Alignment explanation
Indices: 28612--28637 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28602 TACACAATGT
28612 ATGTATCGATACA
1 ATGTATCGATACA
28625 ATGTATCGATACA
1 ATGTATCGATACA
28638 CAAAAATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:28656 original size:33 final size:32
Alignment explanation
Indices: 28594--28657 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
28584 TAGCCAAACT
**
28594 TGTATCGATACACAATGTATGTATCGATACAA
1 TGTATCGATACACAAAATATGTATCGATACAA
*
28626 TGTATCGATACACAAAAATATGTATTGATACA
1 TGTATCGATACAC-AAAATATGTATCGATACA
28658 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (32 bp):
TGTATCGATACACAAAATATGTATCGATACAA
Found at i:32360 original size:13 final size:13
Alignment explanation
Indices: 32342--32366 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32332 TTTTCCAGAT
32342 TGTATCGATACAA
1 TGTATCGATACAA
32355 TGTATCGATACA
1 TGTATCGATACA
32367 TTACTTCAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:34245 original size:20 final size:21
Alignment explanation
Indices: 34222--34278 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
34212 ACAATTCAAA
*
34222 GTATCGATACATGTTGCA-AT
1 GTATCGATACATGTTGAAGAT
***
34242 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGAAGAT
34263 GTATCGATACATGTTG
1 GTATCGATACATGTTG
34279 TCGCGACGTG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (21 bp):
GTATCGATACATGTTGAAGAT
Found at i:35304 original size:28 final size:28
Alignment explanation
Indices: 35243--35324 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
35233 TTTTGGAGAT
*
35243 AATAACGGGGTTGGAGTGTTCCCTCG--GA
1 AATAACGGGGTTGGAGT-ATCCC-CGATGA
*
35271 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* *
35299 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
35325 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 4 0.09
28 41 0.87
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:35466 original size:51 final size:51
Alignment explanation
Indices: 35304--35476 Score: 204
Period size: 52 Copynumber: 3.4 Consensus size: 51
35294 GATGAAATAA
* *
35304 CGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAAT
* * * * *
35356 CG-GTGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
1 CGAG-GTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAAT
* *** *
35408 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
35459 CGAGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
35477 TCGGAAATAA
Statistics
Matches: 101, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
51 38 0.38
52 52 0.51
53 11 0.11
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
Found at i:38023 original size:13 final size:13
Alignment explanation
Indices: 38005--38030 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37995 ACAAAGATCC
38005 ATGTATCGATACA
1 ATGTATCGATACA
38018 ATGTATCGATACA
1 ATGTATCGATACA
38031 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:38026 original size:33 final size:33
Alignment explanation
Indices: 37984--38050 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
37974 AAAATTTCCA
***
37984 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
38017 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
38050 A
1 A
38051 TTTCCTCGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:38094 original size:19 final size:18
Alignment explanation
Indices: 38070--38137 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
38060 CAGTAGCTAA
38070 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
38089 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
38104 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
38121 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
38138 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:38110 original size:13 final size:13
Alignment explanation
Indices: 38092--38116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38082 ACAATACTTA
38092 TGTATCGATACAT
1 TGTATCGATACAT
38105 TGTATCGATACA
1 TGTATCGATACA
38117 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:38114 original size:32 final size:32
Alignment explanation
Indices: 38073--38135 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
38063 TAGCTAATTA
*
38073 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
38105 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
38136 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:38867 original size:55 final size:55
Alignment explanation
Indices: 38783--39699 Score: 1217
Period size: 55 Copynumber: 16.3 Consensus size: 55
38773 ATAAATTGTA
* * * * *
38783 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
38838 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAGGAAAAGG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGG----TG
** * **
38897 CATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAAGACG
1 --TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G--AAAGGTG
** *
38960 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G--AAAGGTG
* * *
39022 TCCTGTTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
39077 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
39132 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
39187 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
39242 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
39297 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
39352 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
39407 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
39462 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
39517 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
39572 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
***
39627 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
39682 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
39700 AAAAAGCGGA
Statistics
Matches: 792, Mismatches: 42, Indels: 56
0.89 0.05 0.06
Matches are distributed among these distances:
54 14 0.02
55 618 0.78
56 16 0.02
59 1 0.00
60 22 0.03
61 42 0.05
62 73 0.09
63 1 0.00
65 1 0.00
67 4 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:40703 original size:1 final size:1
Alignment explanation
Indices: 40692--40741 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
40682 TTTTCCTTTG
* * ** *
40692 TTTTGTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTGCTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
40742 GAAGAGAAGG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.04, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:40742 original size:14 final size:12
Alignment explanation
Indices: 40688--40742 Score: 74
Period size: 12 Copynumber: 4.3 Consensus size: 12
40678 TCTCTTTTCC
40688 TTTGTTTTGTTTT
1 TTTGTTTT-TTTT
40701 TTTGTTTTTTTT
1 TTTGTTTTTTTT
*
40713 TTTTTTTTTTTT
1 TTTGTTTTTTTT
40725 TTTGCTCTTTTTTT
1 TTTG-T-TTTTTTT
40739 TTTG
1 TTTG
40743 AAGAGAAGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
12 18 0.47
13 9 0.24
14 11 0.29
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (12 bp):
TTTGTTTTTTTT
Found at i:53215 original size:28 final size:28
Alignment explanation
Indices: 53134--53215 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
53124 TTTTGGAGAT
*
53134 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
53162 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
53190 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
53216 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:53358 original size:51 final size:51
Alignment explanation
Indices: 53198--53368 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
53188 GAAATAACGA
* * *
53198 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
53250 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
53303 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
53354 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
53369 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:53414 original size:27 final size:28
Alignment explanation
Indices: 53351--53426 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
53341 AAAATAAAGT
*
53351 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
53379 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
53406 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
53427 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:55913 original size:13 final size:13
Alignment explanation
Indices: 55895--55920 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55885 ACAAAGATCC
55895 ATGTATCGATACA
1 ATGTATCGATACA
55908 ATGTATCGATACA
1 ATGTATCGATACA
55921 CAGAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:55916 original size:33 final size:32
Alignment explanation
Indices: 55874--55939 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
55864 AAAATTTCCA
**
55874 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGA-AAATGTATCGATAC
*
55907 AATGTATCGATACACAGAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAATGTATCGATAC
55939 A
1 A
55940 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (32 bp):
AATGTATCGATACAAAGAAAATGTATCGATAC
Found at i:56074 original size:21 final size:21
Alignment explanation
Indices: 56050--56127 Score: 147
Period size: 21 Copynumber: 3.7 Consensus size: 21
56040 CATTTGTAGG
56050 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
56071 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
56092 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
56113 ATGTATCGATACATT
1 ATGTATCGATACATT
56128 TGGAATTTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:56809 original size:55 final size:54
Alignment explanation
Indices: 56725--57624 Score: 1171
Period size: 55 Copynumber: 16.3 Consensus size: 54
56715 ATAAATTGTA
* * ** * *
56725 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
56780 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACC-ACTTGTGTGAGGCTTTGAAATGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTG-GGCTTT-AAAGGTG
* *
56835 TCCTGCTC-TTGGGGAAT-GAAATGTGCCACCAACTTAGT-TGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTT-GTGTGGGCTTTAA-AGGTG
*
56889 ATCCTGCTCGTTTGAGGACTGGAAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAGGTG
1 -TCCTGCTC-TTTGAGGACTGG-AAA-GTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* * *
56948 TCCTGTTCTTTGAGGACTAGAAA-TGCCACCAACTTGTGTTGGC-TTAAGAGGATG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAA-AGG-TG
* * *
57002 TCCTGGCT-TTTGAGGGACT-GAAAGGTG-CACCCACTTGTGTGGGCTTTAGAGGTT
1 TCCT-GCTCTTTGA-GGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAGGTG
* *
57056 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCGAACTTGTGTGGGCTTTAAGAGGTT
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACC-AACTTGTGTGGGCTTTAA-AGGTG
* *
57112 TCCTGGCTCTTT-AGGACTGGAAAATG-CACCGAACTTGTGTTGGGCTTGAAAGGTG
1 TCCT-GCTCTTTGAGGACTGGAAAGTGCCACC-AACTTGTG-TGGGCTTTAAAGGTG
*
57167 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
57222 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
57277 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
57332 TCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGG-AAAGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
57388 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
57443 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
57498 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGT-GGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
57552 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
57607 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
57625 AAAAAGCGGA
Statistics
Matches: 775, Mismatches: 35, Indels: 70
0.88 0.04 0.08
Matches are distributed among these distances:
52 2 0.00
53 25 0.03
54 151 0.19
55 434 0.56
56 94 0.12
57 29 0.04
58 9 0.01
59 29 0.04
60 2 0.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGTG
Found at i:57412 original size:221 final size:220
Alignment explanation
Indices: 56725--57624 Score: 1232
Period size: 221 Copynumber: 4.1 Consensus size: 220
56715 ATAAATTGTA
* * * * *
56725 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
* * * *
56789 TTGAGGACTGAAAGGTGCCACC-ACTTGTGTGAGGCTTTGAAATGTGTCCTGCTC-TTGGGGAAT
65 TTGAGGACTGAAAGATGCCACCAACTTGTGTG-GGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT
56852 GAAATG-TGCCACCAACTTAGT-TGGGCTTTAAGAGGTGATCCTGCTCGTTTGAGGACTGGAAAA
129 GAAA-GATGCCACCAACTT-GTGTGGGCTTTAAGAGGTG-TCCTGCTC-TTTGAGGACTGGAAAA
*
56915 GGTGCCACCAACTTTTGTGGGCTTTGAAAGGTG
190 -GTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* * *
56948 TCCTGTTCTTTGAGGACTAG-AAATGCCACCAACTTGTGTTGGC-TT-AAGAGGATGTCCTGGCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGG-TGTCCT-GCT
* * * * *
57010 -TTTGAGGGACTGAAAGGTG-CACCCACTTGTGTGGGCTTT-AGAGGTTTCCTGCTCTTTGGGGA
63 CTTTGA-GGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGA
* *
57072 CTGAAAGGTGCCACCGAACTTGTGTGGGCTTTAAGAGGTTTCCTGGCTCTTT-AGGACTGGAAAA
127 CTGAAAGATGCCACC-AACTTGTGTGGGCTTTAAGAGGTGTCCT-GCTCTTTGAGGACTGGAAAA
*
57136 -TG-CACCGAACTTGTGTTGGGCTTGAAAGGTG
190 GTGCCACC-AACTTGTG-TGGGCTTTAAAGGTG
57167 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCT
57231 TTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT
65 TTGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT
57295 GGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAAAGT
129 -GAAAGATGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGGAAAAGT
57358 GCCACCAACTTGTGTGGGCTTTAAGAGGTG
192 GCCACCAACTTGTGTGGGCTTTAA-AGGTG
57388 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
57453 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
66 TGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-
*
57517 GAAA-ATGCCACCAACTTGTGT-GGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGG-AAGGTGC
129 GAAAGATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAAGTGC
57579 CACCAACTTGTGTGGGCTTTAAGAGGTG
194 CACCAACTTGTGTGGGCTTTAA-AGGTG
57607 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
57625 AAAAAGCGGA
Statistics
Matches: 624, Mismatches: 26, Indels: 58
0.88 0.04 0.08
Matches are distributed among these distances:
218 4 0.01
219 105 0.17
220 141 0.23
221 231 0.37
222 76 0.12
223 67 0.11
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (220 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGA
AAGATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAAGTGCCA
CCAACTTGTGTGGGCTTTAAAGGTG
Found at i:58608 original size:1 final size:1
Alignment explanation
Indices: 58604--58659 Score: 76
Period size: 1 Copynumber: 56.0 Consensus size: 1
58594 CTTTTCTCTC
* * * *
58604 TTTTTCTTTGTTTTGTTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
58660 GAAGAGAAGG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.02, G:0.05, T:0.93
Consensus pattern (1 bp):
T
Found at i:68324 original size:52 final size:51
Alignment explanation
Indices: 68239--68362 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
68229 ATATGAAAAG
* *
68239 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
68290 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
68342 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
68363 AAGATTAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.30
52 43 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:68389 original size:13 final size:13
Alignment explanation
Indices: 68371--68395 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68361 CAAAGATTAG
68371 TGTATCGATACAA
1 TGTATCGATACAA
68384 TGTATCGATACA
1 TGTATCGATACA
68396 TTGAGTAATG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:68392 original size:33 final size:33
Alignment explanation
Indices: 68350--68415 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
68340 AATTGCCTGC
* *
68350 ATGTATCGATACAAAGATTAGTGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
**
68383 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
68416 TTTTTTGGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:68474 original size:13 final size:13
Alignment explanation
Indices: 68456--68480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68446 ACAAAAAATA
68456 TGTATCGATACAT
1 TGTATCGATACAT
68469 TGTATCGATACA
1 TGTATCGATACA
68481 ACATTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:68476 original size:32 final size:32
Alignment explanation
Indices: 68435--68499 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
68425 AGTAGCTTAA
68435 ATTGTATCGATACAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAATATGTATCGATAC
* **
68467 ATTGTATCGATACAACATTTATGTATCGATAC
1 ATTGTATCGATACAAAAAATATGTATCGATAC
68499 A
1 A
68500 AATCGTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (32 bp):
ATTGTATCGATACAAAAAATATGTATCGATAC
Found at i:71343 original size:17 final size:18
Alignment explanation
Indices: 71310--71346 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
71300 TAGCCAAACT
71310 TGTATCGATACACAATGTA
1 TGTATCGATA-ACAATGTA
71329 TGTATCGAT-ACAATGTA
1 TGTATCGATAACAATGTA
71346 T
1 T
71347 CGATACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (18 bp):
TGTATCGATAACAATGTA
Found at i:71346 original size:13 final size:13
Alignment explanation
Indices: 71328--71353 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71318 TACACAATGT
71328 ATGTATCGATACA
1 ATGTATCGATACA
71341 ATGTATCGATACA
1 ATGTATCGATACA
71354 CAAAAATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:71351 original size:32 final size:33
Alignment explanation
Indices: 71310--71373 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
71300 TAGCCAAACT
**
71310 TGTATCGATACAC-AATGTATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
71342 TGTATCGATACACAAAAATATGTATCGATACA
1 TGTATCGATACACAAAAATATGTATCGATACA
71374 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:74267 original size:51 final size:51
Alignment explanation
Indices: 74168--74290 Score: 196
Period size: 50 Copynumber: 2.4 Consensus size: 51
74158 ATATGAAAAG
* *
74168 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAGAGTATCGATACATCTGGGCAAA
74219 TTTGCCTGCATGTATCGATACATTTTAA-A-AGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAGAGTATCGATACATCTGGGCAAA
74270 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
74291 AAGATCAGGT
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
50 21 0.31
51 21 0.31
52 21 0.31
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAGAGTATCGATACATCTGGGCAAA
Found at i:74303 original size:50 final size:49
Alignment explanation
Indices: 74168--74309 Score: 164
Period size: 50 Copynumber: 2.8 Consensus size: 49
74158 ATATGAAAAG
* *
74168 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAG-GTATCGATACATCTGGGCAAAT
74220 TTGCCTGCATGTATCGATACATTTTAAA-A-GTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGGTATCGATACATCTGGGCAAAT
74270 TTGCCTGCATGTATCGATACAAAGATCAGGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGGTATCGATACA
74310 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 2, Indels: 14
0.84 0.02 0.14
Matches are distributed among these distances:
46 2 0.02
47 1 0.01
49 1 0.01
50 32 0.39
51 21 0.26
52 20 0.24
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (49 bp):
TTGCCTGCATGTATCGATACAAAATAGGTATCGATACATCTGGGCAAAT
Found at i:74400 original size:33 final size:33
Alignment explanation
Indices: 74363--74429 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
74353 AGTAGCTTAA
74363 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
74396 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
74429 A
1 A
74430 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:74403 original size:13 final size:13
Alignment explanation
Indices: 74385--74409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74375 CAAAAAAATA
74385 TGTATCGATACAT
1 TGTATCGATACAT
74398 TGTATCGATACA
1 TGTATCGATACA
74410 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:75830 original size:49 final size:49
Alignment explanation
Indices: 75367--75822 Score: 614
Period size: 49 Copynumber: 9.5 Consensus size: 49
75357 AAAAGGATGT
* * *
75367 CAATGTGCTGATTCAAGGGCCAGCTACATTGAACGTAAAGATGGAAAATGTGC
1 CAATGTGCTGATTCAA-GGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
75420 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
75463 CAATGTGCTGATTCAAGGACAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
75512 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA-GATGAAGGTGC
75561 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
75610 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
75659 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
75708 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
75751 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTAC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
75800 CAATATGCTGATTCAAGGCCAGC
1 CAATGTGCTGATTCAAGGCCAGC
75823 GATATTGGGG
Statistics
Matches: 363, Mismatches: 26, Indels: 32
0.86 0.06 0.08
Matches are distributed among these distances:
43 76 0.21
45 1 0.00
47 2 0.01
48 5 0.01
49 244 0.67
50 4 0.01
52 16 0.04
53 15 0.04
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:75877 original size:33 final size:33
Alignment explanation
Indices: 75835--75938 Score: 167
Period size: 32 Copynumber: 3.2 Consensus size: 33
75825 TATTGGGGTT
75835 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
75868 AGAATGGTTGCCACCGACTTGTGTGGGC-TTCG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
75900 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
75933 -GAAGGG
1 AGAAGGG
75939 AGAAAGATGC
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
32 35 0.54
33 30 0.46
ACGTcount: A:0.19, C:0.18, G:0.37, T:0.26
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:75979 original size:34 final size:33
Alignment explanation
Indices: 75941--76282 Score: 263
Period size: 34 Copynumber: 10.6 Consensus size: 33
75931 AGGAAGGGAG
*
75941 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAA-GGAA
*
75975 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
1 AAAGA-TGCCACGGAGTTGTGGGC-TTAAAAG--GAA
* * * *
76012 AAAGGTGCCACAGAGTTGTGGACTTAAAGATGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAA-AGGAA
*
76046 AAA-AGTGCCACGGAGTTATGGGCTTAAAAGG--
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
*
76077 ---G-TGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* **
76106 AAAGAGTGCCACAGAGTTGTGGGCTTAGGAGGAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
76140 AAAGAGTGCCACGGAGTTATGGGCTT-TAA--AA
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
76171 AGAG-TGCCACGGAGTCGTGGGCTTTGAAAGG--
1 AAAGATGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
76202 ---G-TGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
76231 CAAGGTGCCACGGAGTTGTGGGCTTTAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
76263 AAA-ATGCCACTGAGTCGTGG
1 AAAGATGCCACGGAGTTGTGG
76283 ACTTTGAGAC
Statistics
Matches: 251, Mismatches: 33, Indels: 51
0.75 0.10 0.15
Matches are distributed among these distances:
27 31 0.12
28 17 0.07
29 16 0.06
30 2 0.01
31 21 0.08
32 7 0.03
33 25 0.10
34 80 0.32
35 23 0.09
36 23 0.09
37 6 0.02
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (33 bp):
AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:76089 original size:61 final size:60
Alignment explanation
Indices: 76010--76260 Score: 226
Period size: 61 Copynumber: 4.1 Consensus size: 60
76000 TTAAAAGAAA
* * *
76010 AAAAAGGTGCCACAGAGTTGTGGACTTAAAGATGAAAAA-AGTGCCACGGAGTTATGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT-AA-ATGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* * *
76071 AAAAGGGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTA-AATGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* * * *
76132 AGGAGGAAAAAGAGTGCCACGGAGTTATGGGCTT---T-AAAAAGAGTGCCACGGAGTCGTGGGC
1 -------AAAAGGGTGCCACGGAGTTGTGGACTTAAATGAAAAAGAGTGCCACGGAGTTGTGGGC
76193 TTT
59 -TT
* * *
76196 GAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAG-GTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT-AAATGAAAAAGAGTGCCACGGAGTTGTGGGCTT
*
76256 TAAAG
1 AAAAG
76261 AAAAAATGCC
Statistics
Matches: 156, Mismatches: 19, Indels: 31
0.76 0.09 0.15
Matches are distributed among these distances:
57 23 0.15
60 14 0.09
61 63 0.40
62 5 0.03
63 24 0.15
64 2 0.01
68 25 0.16
ACGTcount: A:0.31, C:0.14, G:0.35, T:0.20
Consensus pattern (60 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAATGAAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:76092 original size:97 final size:95
Alignment explanation
Indices: 75974--76261 Score: 335
Period size: 97 Copynumber: 3.1 Consensus size: 95
75964 TTAAAAGGGA
75974 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAAAGGTGCCACAGAGTTGTGGACTTAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAG-AAAAAAAGGTGCCACAGAGTTGTGGACTTAA
*
76039 AGATGAAAAAAGTGCCACGGAGTTATGGGCTT
64 AGAGGAAAAAAGTGCCACGGAGTTATGGGCTT
* * *
76071 AAAAGGGTGCCACGGAGTTGTGGGC-TTAGAAG-GAAAAAGAGTGCCACAGAGTTGTGGGCTT-A
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTA-AAGAAAAAAAG-GTGCCACAGAGTTGTGGACTTAA
*
76133 GGAGGAAAAAGAGTGCCACGGAGTTATGGGCTTT
64 AGAGGAAAAA-AGTGCCACGGAGTTATGGGC-TT
* * *
76167 AAAAAGAGTGCCACGGAGTCGTGGGCTTT---G---AAAGGGTGCCACGGAGTTGTGGACTTAAA
1 -AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGAAAAAAAGGTGCCACAGAGTTGTGGACTTAAA
* * *
76226 -AGGAACAAGGTGCCACGGAGTTGTGGGCTT
65 GAGGAAAAAAGTGCCACGGAGTTATGGGCTT
*
76256 TAAAGA
1 AAAAGA
76262 AAAAATGCCA
Statistics
Matches: 169, Mismatches: 15, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
88 5 0.03
89 2 0.01
90 18 0.11
91 26 0.15
92 5 0.03
94 16 0.09
95 41 0.24
96 7 0.04
97 47 0.28
98 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.20
Consensus pattern (95 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGAAAAAAAGGTGCCACAGAGTTGTGGACTTAAAG
AGGAAAAAAGTGCCACGGAGTTATGGGCTT
Found at i:76298 original size:30 final size:31
Alignment explanation
Indices: 76203--76320 Score: 121
Period size: 30 Copynumber: 3.8 Consensus size: 31
76193 TTTGAAAGGG
* * * **
76203 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACTGAGTCGTGGACTTTAAA-GAA-AAAA
* * *
76236 TGCCACGGAGTTGTGGGCTTTAAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAA
* *
76267 TGCCACTGAGTCGTGGACTTT-GAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAA
76297 TGCCACTGAGTCGTGGACTTTAAA
1 TGCCACTGAGTCGTGGACTTTAAA
76321 AAGGTATTTG
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
30 28 0.38
31 21 0.28
32 3 0.04
33 22 0.30
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAAAA
Done.