Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 7 of 199
Found at i:2274830 original size:42 final size:42
Alignment explanation
Indices: 2274707--2274830 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 42
2274697 CGCTTTACTT
* *
2274707 AGTTTAATTTTTGAATTCGAAGTAAGGTTAATAGTATGTTTC
1 AGTTTAATTTTTGGATTCGAAGTAAGATTAATAGTATGTTTC
* * **
2274749 AGTTTACTTTTTTTGATTCGAAGTAAGATTCTTAGTATGTTTC
1 AGTTTA-ATTTTTGGATTCGAAGTAAGATTAATAGTATGTTTC
* *
2274792 AGTTTAATTTTCGGATT-GCAAGTAAGATTAATAATATGT
1 AGTTTAATTTTTGGATTCG-AAGTAAGATTAATAGTATGT
2274831 GTGATTAAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 31 0.46
43 36 0.53
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (42 bp):
AGTTTAATTTTTGGATTCGAAGTAAGATTAATAGTATGTTTC
Found at i:2275037 original size:42 final size:42
Alignment explanation
Indices: 2274978--2275060 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
2274968 CTTAGTTCTA
*
2274978 TTTTTGGATTCGAAGTAAGATTAATAGTATGTTTCAGTTTAC
1 TTTTTGGATTCGAAGTAAGATTAAGAGTATGTTTCAGTTTAC
*
2275020 TTTTTGGATTCGAAGTAAGATTTAGAGTATGTTTCAGTTTA
1 TTTTTGGATTCGAAGTAAGATTAAGAGTATGTTTCAGTTTA
2275061 TATTTGATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.46
Consensus pattern (42 bp):
TTTTTGGATTCGAAGTAAGATTAAGAGTATGTTTCAGTTTAC
Found at i:2275275 original size:97 final size:98
Alignment explanation
Indices: 2275117--2275303 Score: 272
Period size: 97 Copynumber: 1.9 Consensus size: 98
2275107 TTTAGTTTAA
* *
2275117 TTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTGTTTGATTAAGTTATCTCGTAGCT-TT
1 TTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTGTTTGATTAAATTATCTCATAGCTCTT
*
2275181 ACATTTCTACATTTCCTC-TTTACTTAATTTATT
66 -CATTTCCACATTTCCTCTTTTACTTAATTTATT
* *
2275214 TTTTTTGATTTGATGTAAGATTCATGATATGTTCTTTTGTTTGATTAAATT-TCCTCATAGCTCT
1 TTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTGTTTGATTAAATTAT-CTCATAGCTCT
* *
2275278 TCGTTTCCATATTTCCTCTTTTACTT
65 TCATTTCCACATTTCCTCTTTTACTT
2275304 TGGTGTTCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
96 1 0.01
97 70 0.88
98 9 0.11
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (98 bp):
TTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTGTTTGATTAAATTATCTCATAGCTCTT
CATTTCCACATTTCCTCTTTTACTTAATTTATT
Found at i:2281444 original size:29 final size:28
Alignment explanation
Indices: 2281408--2281472 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
2281398 ACCAATAAAA
2281408 GCCTTTTTTTCAA-AAATTACCGAAATGG
1 GCCTTTTTTT-AATAAATTACCGAAATGG
* *
2281436 GCCTATTTTTTAATTATTTACCGAAATGG
1 GCCT-TTTTTTAATAAATTACCGAAATGG
*
2281465 TCCTTTTT
1 GCCTTTTT
2281473 CCGGGAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (28 bp):
GCCTTTTTTTAATAAATTACCGAAATGG
Found at i:2282529 original size:16 final size:16
Alignment explanation
Indices: 2282510--2282544 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2282500 ACCTAAATTC
*
2282510 TTTTAGTAATATTTAA
1 TTTTAATAATATTTAA
*
2282526 TTTTAATTATATTTAA
1 TTTTAATAATATTTAA
2282542 TTT
1 TTT
2282545 ATTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTTAATAATATTTAA
Found at i:2282627 original size:16 final size:17
Alignment explanation
Indices: 2282589--2282633 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
2282579 ACATGTTGTA
*
2282589 TAATTATATTTTAATTT
1 TAATTATTTTTTAATTT
*
2282606 TAAATTATTTTTTTA-TT
1 T-AATTATTTTTTAATTT
2282623 TAATTATTTTT
1 TAATTATTTTT
2282634 AGTTGAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 10 0.40
17 4 0.16
18 11 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TAATTATTTTTTAATTT
Found at i:2285163 original size:16 final size:16
Alignment explanation
Indices: 2285129--2285162 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2285119 AATTCCTTAC
*
2285129 TTTAATTTTTATGATT
1 TTTAATATTTATGATT
2285145 TTTAATATTTAT-ATT
1 TTTAATATTTATGATT
2285160 TTT
1 TTT
2285163 TTATTAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTAATATTTATGATT
Found at i:2291595 original size:6 final size:6
Alignment explanation
Indices: 2291584--2291616 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
2291574 GATCCTTTAT
2291584 AAAATA AAAATA AAAATA AAAATA AAAACTA AA
1 AAAATA AAAATA AAAATA AAAATA AAAA-TA AA
2291617 TTGTGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:2299163 original size:15 final size:15
Alignment explanation
Indices: 2299143--2299176 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2299133 ACAAGTTTTC
2299143 TTTAA-TTTTAATATA
1 TTTAATTTTTAATA-A
2299158 TTTAATTTTTAATAA
1 TTTAATTTTTAATAA
2299173 TTTA
1 TTTA
2299177 TTAAATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAATTTTTAATAA
Found at i:2301719 original size:24 final size:25
Alignment explanation
Indices: 2301690--2301744 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
2301680 TCTTCCATTC
* *
2301690 CTCTCCTCAAAT-TCA-CTCTTCTGT
1 CTCTCCACAAATCTCATCTCTT-TGA
2301714 CTCTCCACAAATCTCATCTCTTTGA
1 CTCTCCACAAATCTCATCTCTTTGA
2301739 CTCTCC
1 CTCTCC
2301745 CATTTCTCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 11 0.41
25 11 0.41
26 5 0.19
ACGTcount: A:0.18, C:0.40, G:0.04, T:0.38
Consensus pattern (25 bp):
CTCTCCACAAATCTCATCTCTTTGA
Found at i:2305107 original size:7 final size:6
Alignment explanation
Indices: 2305071--2305100 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
2305061 TGTTAAAGTG
2305071 TTTTTC TTTTTC TTTTTCC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTT-C TTTTTC TTTTT
2305101 TCGTTTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:2305107 original size:13 final size:13
Alignment explanation
Indices: 2305071--2305107 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2305061 TGTTAAAGTG
2305071 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
*
2305084 TTTTCCTTTTTCT
1 TTTTTCTTTTTCT
2305097 TTTTTCGTTTT
1 TTTTTC-TTTT
2305108 GATAGGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (13 bp):
TTTTTCTTTTTCT
Found at i:2305943 original size:65 final size:65
Alignment explanation
Indices: 2305839--2305962 Score: 212
Period size: 65 Copynumber: 1.9 Consensus size: 65
2305829 CTAACAATAC
* *
2305839 TCATCAATCCATCACATTTGACAGATTCCTCATCTAATCCCTTCAAGTTGATTCTAATAGTGCAT
1 TCATCAATCCATCACATTTGACAGATTCCTCATCTAATCCCTTCAAGTCGACTCTAATAGTGCAT
* *
2305904 TCATCAATCCATTACATTTGATAGATTCCTCATCTAATCCCTTCAAGTCGACTCTAATA
1 TCATCAATCCATCACATTTGACAGATTCCTCATCTAATCCCTTCAAGTCGACTCTAATA
2305963 ATGCCCTAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (65 bp):
TCATCAATCCATCACATTTGACAGATTCCTCATCTAATCCCTTCAAGTCGACTCTAATAGTGCAT
Found at i:2309599 original size:5 final size:5
Alignment explanation
Indices: 2309589--2309671 Score: 139
Period size: 5 Copynumber: 16.6 Consensus size: 5
2309579 TTAAATATAA
* *
2309589 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATGTT ATGTT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
*
2309639 ATATT ATATT ATAAT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATATT ATA
2309672 AAAGAAATAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 74 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:2309603 original size:33 final size:34
Alignment explanation
Indices: 2309541--2309605 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
2309531 AAAAAAATCG
*
2309541 AAAGTTAAAATATATTATTATAATAATATTATTA
1 AAAGTTAAAATATAATATTATAATAATATTATTA
*
2309575 AAAGTT-AAATATAAATATTAT-ATTATATTAT
1 AAAGTTAAAATAT-AATATTATAATAATATTAT
2309606 ATTATATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (34 bp):
AAAGTTAAAATATAATATTATAATAATATTATTA
Found at i:2310658 original size:25 final size:25
Alignment explanation
Indices: 2310624--2310692 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
2310614 ACTTTAGCGC
2310624 GCTCTCTGATTATTAGCACATTGGT
1 GCTCTCTGATTATTAGCACATTGGT
*
2310649 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACATTGGT
* *
2310674 GCTATCTGATTACTAGCAC
1 GCTCTCTGATTATTAGCAC
2310693 GTCAATGCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATTGGT
Found at i:2310701 original size:25 final size:25
Alignment explanation
Indices: 2310648--2310701 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
2310638 AGCACATTGG
* * ***
2310648 TGCTCTCTGATTATTAGCACGTTGG
1 TGCTATCTGATTACTAGCACGTCAA
2310673 TGCTATCTGATTACTAGCACGTCAA
1 TGCTATCTGATTACTAGCACGTCAA
2310698 TGCT
1 TGCT
2310702 CTCCGTTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (25 bp):
TGCTATCTGATTACTAGCACGTCAA
Found at i:2312271 original size:20 final size:21
Alignment explanation
Indices: 2312246--2312286 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2312236 ACACCTCTCA
*
2312246 TGTGTT-TTTTTTTGTGGCTT
1 TGTGTTATTCTTTTGTGGCTT
2312266 TGTGTTATTCTTTTGTGGCTT
1 TGTGTTATTCTTTTGTGGCTT
2312287 CTTTTGGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.02, C:0.07, G:0.24, T:0.66
Consensus pattern (21 bp):
TGTGTTATTCTTTTGTGGCTT
Found at i:2313362 original size:22 final size:22
Alignment explanation
Indices: 2313337--2313381 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
2313327 ATACTTTACT
2313337 TAAAAACTCACATAAATCTAAG
1 TAAAAACTCACATAAATCTAAG
* *
2313359 TAAAAACTTAGATAAATCTAAG
1 TAAAAACTCACATAAATCTAAG
2313381 T
1 T
2313382 GAACACTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (22 bp):
TAAAAACTCACATAAATCTAAG
Found at i:2323529 original size:22 final size:24
Alignment explanation
Indices: 2323503--2323546 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2323493 GAAAAATATT
2323503 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
2323525 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
2323547 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:2323676 original size:59 final size:59
Alignment explanation
Indices: 2323613--2323782 Score: 322
Period size: 59 Copynumber: 2.9 Consensus size: 59
2323603 TCAAGTTTGT
*
2323613 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
2323672 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
2323731 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
2323783 AATAATTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 109 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:2323814 original size:16 final size:16
Alignment explanation
Indices: 2323793--2323834 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
2323783 AATAATTTGA
*
2323793 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
2323809 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
2323825 TAATTTTAAT
1 TAATTTTAAT
2323835 TTTATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:2323855 original size:23 final size:23
Alignment explanation
Indices: 2323808--2323869 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
2323798 TTACTAACAA
* * *
2323808 TTAATTTTAAT-AACAATTAATT
1 TTAATTTTATTAAAAAAATAATT
2323830 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTATTAAAAAAATAATT
2323853 TTAATTTTAATTAAAAA
1 TTAATTTT-ATTAAAAA
2323870 CGGGCCGGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 10 0.29
23 17 0.49
24 8 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAATTTTATTAAAAAAATAATT
Found at i:2324537 original size:29 final size:28
Alignment explanation
Indices: 2324462--2324538 Score: 66
Period size: 29 Copynumber: 2.6 Consensus size: 28
2324452 TCCTTATACT
* ***
2324462 TTTTATAGATTTGAAATTTAATCTTTTTA
1 TTTT-TAGATTTCAAATTTAATCTTCAAA
*
2324491 TTTTTA-TTTTCAAGAATTTAATCCTTCAAA
1 TTTTTAGATTTC-A-AATTTAAT-CTTCAAA
2324521 TTTTTAGATTTCAAATTT
1 TTTTTAGATTTCAAATTT
2324539 TAGATCCAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
27 3 0.08
28 3 0.08
29 17 0.45
30 11 0.29
31 4 0.11
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (28 bp):
TTTTTAGATTTCAAATTTAATCTTCAAA
Found at i:2324539 original size:14 final size:15
Alignment explanation
Indices: 2324515--2324543 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2324505 AATTTAATCC
2324515 TTCAAATTTTTAGAT
1 TTCAAATTTTTAGAT
2324530 TTCAAA-TTTTAGAT
1 TTCAAATTTTTAGAT
2324544 CCAATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (15 bp):
TTCAAATTTTTAGAT
Found at i:2328592 original size:22 final size:23
Alignment explanation
Indices: 2328567--2328613 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
2328557 TTTAGCTCGA
*
2328567 ATTTTTCT-ATTATTTTCCTGTT
1 ATTTTTCTCATTATTTTACTGTT
*
2328589 A-TTTTCTCATTATTTTATTGTT
1 ATTTTTCTCATTATTTTACTGTT
2328611 ATT
1 ATT
2328614 GTTTGGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
21 6 0.29
22 14 0.67
23 1 0.05
ACGTcount: A:0.17, C:0.11, G:0.04, T:0.68
Consensus pattern (23 bp):
ATTTTTCTCATTATTTTACTGTT
Found at i:2331713 original size:27 final size:26
Alignment explanation
Indices: 2331678--2331732 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
2331668 TAAAATTAAA
* * *
2331678 AATATTTTTTATAATTTTACACTTTTT
1 AATAGTTTTAATAATTTTA-AATTTTT
*
2331705 AATAGTTTTAATATTTTTAAATTTTT
1 AATAGTTTTAATAATTTTAAATTTTT
2331731 AA
1 AA
2331733 AAACAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
AATAGTTTTAATAATTTTAAATTTTT
Found at i:2331733 original size:8 final size:9
Alignment explanation
Indices: 2331678--2331732 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
2331668 TAAAATTAAA
2331678 AATATTTTT
1 AATATTTTT
* *
2331687 TATAATTTT
1 AATATTTTT
*
2331696 ACA-CTTTTT
1 A-ATATTTTT
*
2331705 AATAGTTTT
1 AATATTTTT
2331714 AATATTTTT
1 AATATTTTT
2331723 AA-ATTTTT
1 AATATTTTT
2331731 AA
1 AA
2331733 AAACAATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
8 9 0.25
9 26 0.72
10 1 0.03
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (9 bp):
AATATTTTT
Found at i:2331937 original size:20 final size:20
Alignment explanation
Indices: 2331909--2331962 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
2331899 TAGAAAAATA
2331909 AATGATTTTTTAAATAATTTT
1 AATG-TTTTTTAAATAATTTT
*
2331930 TATGTTTTTT-AATAATTTT
1 AATGTTTTTTAAATAATTTT
*
2331949 AATGATTTTTAAAT
1 AATGTTTTTTAAAT
2331963 TTTAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 17 0.59
20 9 0.31
21 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
AATGTTTTTTAAATAATTTT
Found at i:2334838 original size:27 final size:28
Alignment explanation
Indices: 2334799--2334854 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
2334789 TGTTGAACCC
*
2334799 TATTTTAACA-TTTTGCAAATTTTATTT
1 TATTTTAACATTTTTACAAATTTTATTT
*
2334826 TATTTTATA-ATTTTTACAATTTTTATTT
1 TATTTTA-ACATTTTTACAAATTTTATTT
2334854 T
1 T
2334855 TTGTAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (28 bp):
TATTTTAACATTTTTACAAATTTTATTT
Found at i:2334840 original size:9 final size:9
Alignment explanation
Indices: 2334828--2334992 Score: 66
Period size: 9 Copynumber: 18.4 Consensus size: 9
2334818 TTTTATTTTA
2334828 TTTTATAAT
1 TTTTATAAT
*
2334837 TTTTACAAT
1 TTTTATAAT
2334846 TTTTAT--T
1 TTTTATAAT
*
2334853 TTTTGTAAT
1 TTTTATAAT
*
2334862 TTATAT-A-
1 TTTTATAAT
2334869 TTTT-TAAT
1 TTTTATAAT
*
2334877 TTTTATAAA
1 TTTTATAAT
*
2334886 ATTTA-AACT
1 TTTTATAA-T
*
2334895 TTTCGAT-AT
1 TTT-TATAAT
2334904 TTTTATAATAT
1 TTTTAT-A-AT
2334915 TTTTCATAAT
1 TTTT-ATAAT
2334925 TTTTAT-AT
1 TTTTATAAT
*
2334933 TTTGT-T-CT
1 TTT-TATAAT
*
2334941 TTTAATAAT
1 TTTTATAAT
2334950 TTTTA-AAT
1 TTTTATAAT
2334958 GCTTTT-TGAAT
1 --TTTTAT-AAT
2334969 TTTTAATAAT
1 TTTT-ATAAT
*
2334979 TTATATAACT
1 TTTTATAA-T
2334989 TTTT
1 TTTT
2334993 GTCATCTATA
Statistics
Matches: 116, Mismatches: 18, Indels: 43
0.66 0.10 0.24
Matches are distributed among these distances:
6 1 0.01
7 10 0.09
8 23 0.20
9 47 0.41
10 22 0.19
11 11 0.09
12 2 0.02
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:2334862 original size:25 final size:24
Alignment explanation
Indices: 2334828--2334884 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
2334818 TTTTATTTTA
* *
2334828 TTTTATAATTTTTACAATTTTTATT
1 TTTTATAATTTATA-AATTTTTAAT
* *
2334853 TTTTGTAATTTATATATTTTTAAT
1 TTTTATAATTTATAAATTTTTAAT
2334877 TTTTATAA
1 TTTTATAA
2334885 AATTTAAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTATAATTTATAAATTTTTAAT
Found at i:2338689 original size:22 final size:22
Alignment explanation
Indices: 2338637--2338691 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 22
2338627 TCAATTTTTA
*
2338637 AATTTATATATATTTAATTTAAT
1 AATTAATATATATTTAA-TTAAT
2338660 AATTAATATAT-TTTAA-TAAT
1 AATTAATATATATTTAATTAAT
*
2338680 AATTAAAATATA
1 AATTAATATATA
2338692 GATTATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 14 0.48
22 5 0.17
23 10 0.34
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTAATATATATTTAATTAAT
Found at i:2344314 original size:21 final size:22
Alignment explanation
Indices: 2344285--2344331 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
2344275 CAGAAGGAGT
*
2344285 GAGTAGTACTTCACAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
*
2344307 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
2344328 GAGT
1 GAGT
2344332 TTGAGCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCACAGCAGGTG
Found at i:2353638 original size:20 final size:19
Alignment explanation
Indices: 2353613--2353653 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
2353603 AAGTTTTTTT
2353613 TTTAAT-ATTCAAAGTTCTAA
1 TTTAATAATT-AAAGTTC-AA
2353633 TTTAATAATTAAAGTTCAA
1 TTTAATAATTAAAGTTCAA
2353652 TT
1 TT
2353654 CATAAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTAATAATTAAAGTTCAA
Found at i:2356872 original size:42 final size:42
Alignment explanation
Indices: 2356805--2356939 Score: 153
Period size: 42 Copynumber: 3.2 Consensus size: 42
2356795 GGCTAAACAA
* * *
2356805 AAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGAATGG
1 AAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGAATGG
* * ** **
2356847 AAGCTTATAAGAGCTGAACGGAAACCCATAAGGGTCAAACAG
1 AAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGAATGG
* * *
2356889 AAGCTCAAAAGAGCTGAACAAAAACCCATATGGGTTGAATGG
1 AAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGAATGG
*
2356931 AAACTCATA
1 AAGCTCATA
2356940 TGAGTTAAAC
Statistics
Matches: 73, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (42 bp):
AAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGAATGG
Found at i:2356877 original size:21 final size:21
Alignment explanation
Indices: 2356810--2356878 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
2356800 AACAAAAGCA
* * *
2356810 CATAAGTGCTAAACAGAAACC
1 CATAAGAGCTGAACGGAAACC
* * * * *
2356831 CATAAGGGTTGAATGGAAGCT
1 CATAAGAGCTGAACGGAAACC
*
2356852 TATAAGAGCTGAACGGAAACC
1 CATAAGAGCTGAACGGAAACC
2356873 CATAAG
1 CATAAG
2356879 GGTCAAACAG
Statistics
Matches: 34, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (21 bp):
CATAAGAGCTGAACGGAAACC
Found at i:2362544 original size:15 final size:15
Alignment explanation
Indices: 2362520--2362554 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
2362510 TTAAATATTT
2362520 AAAAAATA-TTTTAA
1 AAAAAATATTTTTAA
2362534 AAAATAATATTTTTAA
1 AAAA-AATATTTTTAA
2362550 AAAAA
1 AAAAA
2362555 TAAAAATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.21
15 5 0.26
16 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAAAATATTTTTAA
Found at i:2362549 original size:16 final size:14
Alignment explanation
Indices: 2362520--2362556 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
2362510 TTAAATATTT
2362520 AAAAAATATTTTAA
1 AAAAAATATTTTAA
*
2362534 AAAATAATATTTTTA
1 AAAA-AATATTTTAA
2362549 AAAAAATA
1 AAAAAATA
2362557 AAAATACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAAAATATTTTAA
Found at i:2364666 original size:31 final size:31
Alignment explanation
Indices: 2364628--2364689 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
2364618 ACAGAATTCG
2364628 GATGATGTTCTCGTTTGTTTCTTTTGAAAAT
1 GATGATGTTCTCGTTTGTTTCTTTTGAAAAT
2364659 GATGATGTTCTCGTTTGTTTCTTTTGAAAAT
1 GATGATGTTCTCGTTTGTTTCTTTTGAAAAT
2364690 AGACTCATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (31 bp):
GATGATGTTCTCGTTTGTTTCTTTTGAAAAT
Found at i:2387266 original size:19 final size:19
Alignment explanation
Indices: 2387244--2387300 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
2387234 AACTTAGAGT
2387244 TAATAATATATATTAAAGA
1 TAATAATATATATTAAAGA
* *
2387263 TAATAACATA-ATTTAATAATA
1 TAATAATATATA-TT-A-AAGA
*
2387284 TAAAAATATATATTAAA
1 TAATAATATATATTAAA
2387301 ATGTATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
18 1 0.03
19 13 0.43
20 2 0.07
21 13 0.43
22 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
TAATAATATATATTAAAGA
Found at i:2387301 original size:12 final size:12
Alignment explanation
Indices: 2387277--2387314 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2387267 AACATAATTT
*
2387277 AATA-ATATAAA
1 AATATATATTAA
2387288 AATATATATTAA
1 AATATATATTAA
*
2387300 AATGTATATTAA
1 AATATATATTAA
2387312 AAT
1 AAT
2387315 TAAAAAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (12 bp):
AATATATATTAA
Found at i:2388718 original size:30 final size:30
Alignment explanation
Indices: 2388643--2388720 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
2388633 AAAAAAGACC
* * *
2388643 AATTTACTCTTTGATTTAGCGTATATGAATT
1 AATTTACTC-ATGATTTGGCGAATATGAATT
** * *
2388674 AATTTGTTCATGATTTGGCGAATGTGGATT
1 AATTTACTCATGATTTGGCGAATATGAATT
*
2388704 AATTTACTCCTGATTTG
1 AATTTACTCATGATTTG
2388721 AGTAGAAAGA
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
30 30 0.81
31 7 0.19
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (30 bp):
AATTTACTCATGATTTGGCGAATATGAATT
Found at i:2393395 original size:15 final size:16
Alignment explanation
Indices: 2393363--2393395 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2393353 TGCTGCTGTT
*
2393363 AGTTGCCATTCAAATG
1 AGTTGCCAATCAAATG
2393379 AGTTGCCAATC-AATG
1 AGTTGCCAATCAAATG
2393394 AG
1 AG
2393396 CTGTGTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (16 bp):
AGTTGCCAATCAAATG
Found at i:2395920 original size:30 final size:28
Alignment explanation
Indices: 2395882--2395941 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
2395872 ATTAGACCTG
*
2395882 AATTTTGAAATCTGAAAAGTAGAGG-ATTA
1 AATTTTGAAA-ATG-AAAGTAGAGGCATTA
2395911 AATTCTTGAAAATGAAAGTAGAGGCATTA
1 AATT-TTGAAAATGAAAGTAGAGGCATTA
2395940 AA
1 AA
2395942 CTCCAAATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 10 0.36
29 12 0.43
30 6 0.21
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.28
Consensus pattern (28 bp):
AATTTTGAAAATGAAAGTAGAGGCATTA
Found at i:2406598 original size:42 final size:41
Alignment explanation
Indices: 2406518--2406611 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 41
2406508 TAATTTCAAC
*
2406518 TAATTTCTTT-TAATTATCATTTTTTATAAATTTTATTTT-T
1 TAATTT-TTTATAATTATCATTTTTTATAAATTATATTTTCT
* *
2406558 ATAATTTTTTATAATTTAT-ATATTTTTCTAGATTATATTTTCT
1 -TAATTTTTTATAA-TTATCAT-TTTTTATAAATTATATTTTCT
*
2406601 GAATTTTTTAT
1 TAATTTTTTAT
2406612 TTTTTATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
40 3 0.07
41 11 0.24
42 30 0.67
43 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (41 bp):
TAATTTTTTATAATTATCATTTTTTATAAATTATATTTTCT
Found at i:2407322 original size:29 final size:30
Alignment explanation
Indices: 2407283--2407340 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 30
2407273 TGGGTCAACT
2407283 TTTTCTCGCCTATACAATGACCCTATCTTG
1 TTTTCTCGCCTATACAATGACCCTATCTTG
2407313 TTTT-TCGCCTATACAATGACCCTATCTT
1 TTTTCTCGCCTATACAATGACCCTATCTT
2407341 TGTGCCTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.21, C:0.29, G:0.09, T:0.41
Consensus pattern (30 bp):
TTTTCTCGCCTATACAATGACCCTATCTTG
Found at i:2420520 original size:30 final size:28
Alignment explanation
Indices: 2420482--2420541 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
2420472 ATTAGACCTG
*
2420482 AATTTTGAAATCTGAAAAGTAGAGG-ATTA
1 AATTTTGAAA-ATG-AAAGTAGAGGCATTA
2420511 AATTCTTGAAAATGAAAGTAGAGGCATTA
1 AATT-TTGAAAATGAAAGTAGAGGCATTA
2420540 AA
1 AA
2420542 CTCCAAATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 10 0.36
29 12 0.43
30 6 0.21
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.28
Consensus pattern (28 bp):
AATTTTGAAAATGAAAGTAGAGGCATTA
Found at i:2431188 original size:43 final size:44
Alignment explanation
Indices: 2431119--2431218 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 44
2431109 TAATTTCAAC
* *
2431119 TAATTTCTTTT-TAATTATCATTTTTTTATAAATTTTAT-TTTTA
1 TAATTT-TTTTATAATTATCATATTTTTATAAATTATATATTTTA
* * *
2431162 TAATTTTTTTATAATTTAT-ATATTTTTCTAGATTATATATTTTC
1 TAATTTTTTTATAA-TTATCATATTTTTATAAATTATATATTTTA
2431206 TGAATTTTTTTAT
1 T-AATTTTTTTAT
2431219 TTTTTATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
42 4 0.08
43 24 0.50
44 9 0.19
45 11 0.23
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (44 bp):
TAATTTTTTTATAATTATCATATTTTTATAAATTATATATTTTA
Found at i:2431940 original size:29 final size:30
Alignment explanation
Indices: 2431901--2431958 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 30
2431891 GGGTCAACTT
2431901 TTTTCTCGCCTATACAATGACCCTATCTTG
1 TTTTCTCGCCTATACAATGACCCTATCTTG
2431931 TTTT-TCGCCTATACAATGACCCTATCTT
1 TTTTCTCGCCTATACAATGACCCTATCTT
2431959 TTGTGCCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.21, C:0.29, G:0.09, T:0.41
Consensus pattern (30 bp):
TTTTCTCGCCTATACAATGACCCTATCTTG
Found at i:2435285 original size:60 final size:60
Alignment explanation
Indices: 2435218--2435332 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
2435208 ATAAAATATA
* * * * *
2435218 ATTTAGTTTTTGAACTTGACAATTTTTCTTAACTTAGTCCCTAAACCTTTTTTAATTCAC
1 ATTTAGTTTCTGAACTTAACAACTTTTCTTAACTTAATCCCAAAACCTTTTTTAATTCAC
* *
2435278 ATTTAGTTTCTGAACTTAACAACTTTTCTTAATTTAATCCCAAAACTTTTTTTAA
1 ATTTAGTTTCTGAACTTAACAACTTTTCTTAACTTAATCCCAAAACCTTTTTTAA
2435333 ACCACAATAG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.48
Consensus pattern (60 bp):
ATTTAGTTTCTGAACTTAACAACTTTTCTTAACTTAATCCCAAAACCTTTTTTAATTCAC
Found at i:2435361 original size:59 final size:59
Alignment explanation
Indices: 2435225--2435363 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 59
2435215 ATAATTTAGT
* * * ** *
2435225 TTTTGAACTTGACAATTTTTCTTAACTTAGTCCCTAAACCTTTTTTAATTCACATTTAG
1 TTTTGAACTTGACAACTTTTCTTAACTTAATCCCAAAACCTTTTTTAAACCACATATAG
* * *
2435284 TTTCTGAACTTAACAACTTTTCTTAATTTAATCCCAAAACTTTTTTTAAACCACA-ATAG
1 TTT-TGAACTTGACAACTTTTCTTAACTTAATCCCAAAACCTTTTTTAAACCACATATAG
*
2435343 TTTTGAAACTTGATAACTTTT
1 TTTTG-AACTTGACAACTTTT
2435364 TCCAATGTTG
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
58 2 0.03
59 22 0.33
60 43 0.64
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (59 bp):
TTTTGAACTTGACAACTTTTCTTAACTTAATCCCAAAACCTTTTTTAAACCACATATAG
Found at i:2440251 original size:300 final size:296
Alignment explanation
Indices: 2439703--2440281 Score: 738
Period size: 299 Copynumber: 1.9 Consensus size: 296
2439693 CAATTTACTG
* * * * ** * *
2439703 AGATAATAATTGTGTATATTAAAACAAAATTGTATAAGTTATATTAAAATGAAGTTTTTGTTGAG
1 AGATAATAATTGTGTATATTAAAACAAAAATGTATAAGATATATGAAAATAAAACTTTGGTTGAA
* * *
2439768 TGATAAATTTAATGTTTTAGTAATCCAATTGGTGCGAGTTCGAATTCCACCATATGCATATTTAT
66 TAATAAATTTAAGGTTTTAGTAATCCAATTGGTGCGAGTTCGAACTCCACCA-ATGCATATTTAT
* *
2439833 TGATTTTTGTTTAAATAAAAAACTAAAATACCCTCGAATAATTTAACTTTTTTTAATTACAAAAG
130 TGATTTTTGTTAAAATAAAAAACTAAAATACCCTCGAATAATATAACTTTTTTTAATTACAAAAG
* * *
2439898 GATATTTTCATAATTTCTCAACCGAGTTGGTGATCCGGTTGAAGGTGACACCAACTCAG-CTAGA
195 GACATTTTCATAATTTCTCAACCGAGTTAGTGACCCGGTTGAAGGTGACACCAACTCAGTC-AGA
2439962 AGCTTAATAAAATAGTATAGATATATAAACAACTAATGT
259 AGCTTAAT-AAATAGTATAGATATATAAACAACTAATGT
*
2440001 AGATAATAAATTGTGTATATTAAAATAAAAATGTATAAGATATATGAAAATAAAACTTTGGTTGA
1 AGATAAT-AATTGTGTATATTAAAACAAAAATGTATAAGATATATGAAAATAAAACTTTGGTTGA
* * *
2440066 ATAATAAATTTAAGGTTTTAGTAATTCAATTGGCATG-G-GTT-TAACTCTTACC-ATGCATATT
65 ATAATAAATTTAAGGTTTTAGTAATCCAATTGG--TGCGAGTTCGAACTC-CACCAATGCATA-T
* **
2440127 TTAATTGGTTTTTGTTAAAATGAAAGGACTAAAATACCCTCGAATAATATAACTTTTTTTAATTA
126 TT-ATTGATTTTTGTTAAAAT-AAAAAACTAAAATACCCTCGAATAATATAACTTTTTTTAATTA
*** ** *
2440192 TGGATTGACATTTTCATAATTTC-CTAATCGAGTTAGTGACCCGGTTGAAGGTGACACCAACTCA
189 CAAAAGGACATTTTCATAATTTCTC-AACCGAGTTAGTGACCCGGTTGAAGGTGACACCAACTCA
**
2440256 GTCAGGGGCTTAATAAATAGTATAGA
253 GTCAGAAGCTTAATAAATAGTATAGA
2440282 AGCATATAAT
Statistics
Matches: 241, Mismatches: 31, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
297 7 0.03
298 14 0.06
299 113 0.47
300 104 0.43
301 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (296 bp):
AGATAATAATTGTGTATATTAAAACAAAAATGTATAAGATATATGAAAATAAAACTTTGGTTGAA
TAATAAATTTAAGGTTTTAGTAATCCAATTGGTGCGAGTTCGAACTCCACCAATGCATATTTATT
GATTTTTGTTAAAATAAAAAACTAAAATACCCTCGAATAATATAACTTTTTTTAATTACAAAAGG
ACATTTTCATAATTTCTCAACCGAGTTAGTGACCCGGTTGAAGGTGACACCAACTCAGTCAGAAG
CTTAATAAATAGTATAGATATATAAACAACTAATGT
Found at i:2442516 original size:50 final size:50
Alignment explanation
Indices: 2442401--2442596 Score: 275
Period size: 50 Copynumber: 3.9 Consensus size: 50
2442391 GATAATAACA
* * ** *
2442401 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTTGG
* * * * *
2442452 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
*
2442502 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
*
2442552 TGCCTACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
2442597 GATCTCAAAC
Statistics
Matches: 128, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
50 96 0.75
51 32 0.25
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
Found at i:2442611 original size:16 final size:16
Alignment explanation
Indices: 2442590--2442620 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2442580 TACATGGGAC
2442590 CTCTCATGATCTCAAA
1 CTCTCATGATCTCAAA
*
2442606 CTCTCATTATCTCAA
1 CTCTCATGATCTCAA
2442621 GGATGCCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.35
Consensus pattern (16 bp):
CTCTCATGATCTCAAA
Found at i:2442781 original size:13 final size:13
Alignment explanation
Indices: 2442760--2442791 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2442750 GCTTGGATCA
*
2442760 TCATCAAATAAAT
1 TCATAAAATAAAT
2442773 TCATAAAATAAAT
1 TCATAAAATAAAT
2442786 TCATAA
1 TCATAA
2442792 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:2443038 original size:30 final size:30
Alignment explanation
Indices: 2443003--2443060 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
2442993 CCTCGATTCT
*
2443003 AACTTTTTCAAAATTACAA-TTTTGCCCCTA
1 AACTTTTACAAAATTA-AATTTTTGCCCCTA
*
2443033 AACTTTTACATAATTAAATTTTTGCCCC
1 AACTTTTACAAAATTAAATTTTTGCCCC
2443061 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTAAATTTTTGCCCCTA
Found at i:2457033 original size:15 final size:14
Alignment explanation
Indices: 2456984--2457034 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
2456974 TAGCACATTA
*
2456984 AAAAAAATTTATGT
1 AAAAAAATTTATAT
* *
2456998 AACAAATATTTTTAT
1 AA-AAAAATTTATAT
2457013 -AAAAAATTTGATAT
1 AAAAAAATTT-ATAT
2457027 AAAAAAAT
1 AAAAAAAT
2457035 GAAACTTTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 7 0.24
14 6 0.21
15 16 0.55
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (14 bp):
AAAAAAATTTATAT
Found at i:2459261 original size:20 final size:20
Alignment explanation
Indices: 2459215--2459262 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
2459205 AATTTAACGA
*
2459215 TTAAATTAATTTATAATTTT
1 TTAAATTTATTTATAATTTT
* *
2459235 TTGAATTTATTT-TTATTTT
1 TTAAATTTATTTATAATTTT
2459254 TATAAATTT
1 T-TAAATTT
2459263 TAATTGTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTAAATTTATTTATAATTTT
Found at i:2464061 original size:11 final size:11
Alignment explanation
Indices: 2464025--2464151 Score: 56
Period size: 11 Copynumber: 11.7 Consensus size: 11
2464015 ATAAGTGATT
2464025 TTTAAATAATTA
1 TTTAAA-AATTA
*
2464037 TTAAAAAATTA
1 TTTAAAAATTA
*
2464048 TTTAAAATTTATTT
1 TTTAAAA---ATTA
*
2464062 TTGGTAGAAATTA
1 TT--TAAAAATTA
2464075 TTTAAAAATTA
1 TTTAAAAATTA
*
2464086 -TTATTAAATT-
1 TTTA-AAAATTA
*
2464096 TTAAAAAATTA
1 TTTAAAAATTA
2464107 -TT-AAAATTA
1 TTTAAAAATTA
**
2464116 TTTTTAAA--A
1 TTTAAAAATTA
*
2464125 -TGAAAAA-TA
1 TTTAAAAATTA
2464134 TTTAAAAATTA
1 TTTAAAAATTA
2464145 -TTAAAAA
1 TTTAAAAA
2464152 CCACGCTTGG
Statistics
Matches: 87, Mismatches: 15, Indels: 28
0.67 0.12 0.22
Matches are distributed among these distances:
8 4 0.05
9 9 0.10
10 24 0.28
11 31 0.36
12 5 0.06
13 5 0.06
14 5 0.06
16 4 0.05
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (11 bp):
TTTAAAAATTA
Found at i:2464102 original size:59 final size:60
Alignment explanation
Indices: 2464032--2464147 Score: 157
Period size: 59 Copynumber: 1.9 Consensus size: 60
2464022 ATTTTTAAAT
*** *
2464032 AATTATTAAAAAATTATTTAAAATTTATTTTTGGTA-G-AAATTATTTAAAAATTATTATTA
1 AATTATTAAAAAATTA-TTAAAA-TTATTTTTAAAATGAAAAATATTTAAAAATTATTATTA
2464092 AATT-TTAAAAAATTATTAAAATTATTTTTAAAATGAAAAATATTTAAAAATTATTA
1 AATTATTAAAAAATTATTAAAATTATTTTTAAAATGAAAAATATTTAAAAATTATTA
2464148 AAAACCACGC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
57 9 0.18
58 7 0.14
59 30 0.60
60 4 0.08
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (60 bp):
AATTATTAAAAAATTATTAAAATTATTTTTAAAATGAAAAATATTTAAAAATTATTATTA
Found at i:2464104 original size:21 final size:22
Alignment explanation
Indices: 2464069--2464117 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
2464059 TTTTTGGTAG
*
2464069 AAATTATTTAAAAATTATTATT
1 AAATTATTAAAAAATTATTATT
2464091 AAATT-TTAAAAAATTATTA--
1 AAATTATTAAAAAATTATTATT
2464110 AAATTATT
1 AAATTATT
2464118 TTTAAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 5 0.20
20 2 0.08
21 13 0.52
22 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATTATTAAAAAATTATTATT
Found at i:2464108 original size:18 final size:19
Alignment explanation
Indices: 2464075--2464111 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
2464065 GTAGAAATTA
2464075 TTTAAAAATTATTATTAAAT
1 TTTAAAAA-TATTATTAAAT
2464095 TTTAAAAA-ATTATTAAA
1 TTTAAAAATATTATTAAA
2464112 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAAAAATATTATTAAAT
Found at i:2464112 original size:10 final size:10
Alignment explanation
Indices: 2464069--2464151 Score: 50
Period size: 10 Copynumber: 8.3 Consensus size: 10
2464059 TTTTTGGTAG
2464069 AAATTATTTAA
1 AAATTA-TTAA
*
2464080 AAATTATTATT
1 AAATTATTA-A
2464091 AAATT-TTAAA
1 AAATTATT-AA
2464101 AAATTATT-A
1 AAATTATTAA
**
2464110 AAATTATTTTT
1 AAATTA-TTAA
*
2464121 AAA--ATGAA
1 AAATTATTAA
2464129 AAA-TATTTAA
1 AAATTA-TTAA
2464139 AAATTATTAA
1 AAATTATTAA
2464149 AAA
1 AAA
2464152 CCACGCTTGG
Statistics
Matches: 57, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
8 4 0.07
9 9 0.16
10 25 0.44
11 19 0.33
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (10 bp):
AAATTATTAA
Found at i:2464464 original size:14 final size:14
Alignment explanation
Indices: 2464445--2464472 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2464435 ATGCGATTTT
2464445 AAAATAAATTTTAA
1 AAAATAAATTTTAA
2464459 AAAATAAATTTTAA
1 AAAATAAATTTTAA
2464473 TAATTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAATAAATTTTAA
Found at i:2465556 original size:24 final size:20
Alignment explanation
Indices: 2465529--2465578 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 20
2465519 ATTATTAACC
2465529 AAAATATATTATTACAAATTAAAT
1 AAAATAT-TT-TTACAAA--AAAT
*
2465553 AAAATATTTTTACTAAAAAT
1 AAAATATTTTTACAAAAAAT
2465573 AAAATA
1 AAAATA
2465579 AAAATTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 10 0.40
22 6 0.24
23 2 0.08
24 7 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATATTTTTACAAAAAAT
Found at i:2470058 original size:9 final size:11
Alignment explanation
Indices: 2470034--2470058 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2470024 ATTTAGTATT
2470034 TATATAATAAA
1 TATATAATAAA
2470045 TATATAATAAA
1 TATATAATAAA
2470056 TAT
1 TAT
2470059 TTATTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TATATAATAAA
Found at i:2471427 original size:16 final size:15
Alignment explanation
Indices: 2471394--2471436 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
2471384 TAATTTCACA
2471394 TTAATATATTATCATT
1 TTAAT-TATTATCATT
*
2471410 TTAATTATTATTACTT
1 TTAATTATTATCA-TT
*
2471426 TTTATTATTAT
1 TTAATTATTAT
2471437 ATAATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (15 bp):
TTAATTATTATCATT
Found at i:2472808 original size:17 final size:17
Alignment explanation
Indices: 2472758--2472815 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
2472748 GGGTGAGAAG
*
2472758 TAAAAGTTTAGGGGGAAAA
1 TAAAAGTTTA-AGGG-AAA
*
2472777 TAAAAAGTTT-TGGGAAA
1 T-AAAAGTTTAAGGGAAA
2472794 TAAAAGTTTAAGGGAAA
1 TAAAAGTTTAAGGGAAA
2472811 GTAAA
1 -TAAA
2472816 TAGGGGAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 8 0.24
17 10 0.29
18 7 0.21
19 1 0.03
20 8 0.24
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (17 bp):
TAAAAGTTTAAGGGAAA
Found at i:2481780 original size:25 final size:24
Alignment explanation
Indices: 2481736--2481782 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
2481726 AAAATATTTT
*
2481736 TTAGAGAAAATGCTTTTGAAAAGC
1 TTAGAGAAAATGCTTGTGAAAAGC
2481760 TTAGAAGAAAAGTGC-TGTGAAAA
1 TTAG-AGAAAA-TGCTTGTGAAAA
2481783 AAATGTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 13 0.65
26 3 0.15
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (24 bp):
TTAGAGAAAATGCTTGTGAAAAGC
Found at i:2482032 original size:32 final size:31
Alignment explanation
Indices: 2481996--2482080 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 31
2481986 AAACATAAAT
* *
2481996 TATTTAAAAAA-CTTAAATATAATAATAATTTG
1 TATTTAAAAAATC-T-AATATAATAATAAATTA
* *
2482028 TATTTAAATAATCTAATATAATGATAAATTA
1 TATTTAAAAAATCTAATATAATAATAAATTA
* * *
2482059 TATTTAAATAATTTGATATAAT
1 TATTTAAAAAATCTAATATAAT
2482081 GATACATAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 34 0.74
32 11 0.24
33 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (31 bp):
TATTTAAAAAATCTAATATAATAATAAATTA
Found at i:2482081 original size:31 final size:31
Alignment explanation
Indices: 2482011--2482084 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
2482001 AAAAAACTTA
* * *
2482011 AATATAATAATAATTTGTATTTAAATAATCT
1 AATATAATGATAAATTATATTTAAATAATCT
*
2482042 AATATAATGATAAATTATATTTAAATAATTT
1 AATATAATGATAAATTATATTTAAATAATCT
*
2482073 GATATAATGATA
1 AATATAATGATA
2482085 CATAAAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.43
Consensus pattern (31 bp):
AATATAATGATAAATTATATTTAAATAATCT
Found at i:2482098 original size:31 final size:31
Alignment explanation
Indices: 2482032--2482105 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
2482022 AATTTGTATT
* * *
2482032 TAAATAATCTAATATAATGATAAATTATATT
1 TAAATAATCTAATATAATGATAAATAAAATA
* * *
2482063 TAAATAATTTGATATAATGATACATAAAATA
1 TAAATAATCTAATATAATGATAAATAAAATA
2482094 TAAATTAATCTA
1 TAAA-TAATCTA
2482106 TGTAACAGCC
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 29 0.85
32 5 0.15
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (31 bp):
TAAATAATCTAATATAATGATAAATAAAATA
Found at i:2482962 original size:16 final size:17
Alignment explanation
Indices: 2482933--2482965 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2482923 TAAGATGTGA
2482933 ATTAGATTGAATTAAAT
1 ATTAGATTGAATTAAAT
*
2482950 ATTA-ATTGTATTAAAT
1 ATTAGATTGAATTAAAT
2482966 TAAGCTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (17 bp):
ATTAGATTGAATTAAAT
Found at i:2483321 original size:24 final size:23
Alignment explanation
Indices: 2483260--2483313 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2483250 CGAACACACC
* * * *
2483260 ATAGCTCACAAGATCGTCCTGTT
1 ATAGCTCACATGAGCATCCTGAT
2483283 ATAGCTCACATGAGCATCCTGAT
1 ATAGCTCACATGAGCATCCTGAT
2483306 ATAAGCTC
1 AT-AGCTC
2483314 TCTTGAGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (23 bp):
ATAGCTCACATGAGCATCCTGAT
Found at i:2486779 original size:52 final size:51
Alignment explanation
Indices: 2486708--2487066 Score: 468
Period size: 52 Copynumber: 7.1 Consensus size: 51
2486698 ATCAAGTGAC
* **
2486708 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
2486760 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* **
2486806 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
2486858 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
2486904 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
*
2486955 AAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAATGACAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
** *
2487007 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
2487060 ATAAGTG
1 A-AAGTG
2487067 GCTACACTTA
Statistics
Matches: 271, Mismatches: 22, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
46 85 0.31
52 176 0.65
53 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:2486814 original size:98 final size:98
Alignment explanation
Indices: 2486694--2487055 Score: 589
Period size: 98 Copynumber: 3.6 Consensus size: 98
2486684 TTTGAGTACT
*
2486694 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
2486759 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
2486792 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
2486857 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
2486890 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
2486955 AAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
2486988 TCTGATCAAATGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGA
2487053 CAA
60 CAA
2487056 AGTGATAAGT
Statistics
Matches: 248, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
98 203 0.82
104 45 0.18
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:2486983 original size:150 final size:144
Alignment explanation
Indices: 2486700--2487103 Score: 502
Period size: 150 Copynumber: 2.8 Consensus size: 144
2486690 TACTTCTGAT
*
2486700 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC------AAAGT
* * * *
2486765 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGC
59 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGC
*
2486830 TACACTTATCTGATCAAGTGA
124 TACACTTATCTGATCAAATGA
* * ** *
2486851 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
2486916 GATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCT
66 GATAGCTTCGGCTACACTTATCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCT
2486981 ACACTTATCTGATCAAATGA
125 ACACTTATCTGATCAAATGA
*
2487001 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG---A-T
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
2487062 -A-AG--T-GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
66 GATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
2487104 GCTACACTTA
Statistics
Matches: 228, Mismatches: 19, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
135 13 0.06
141 24 0.11
142 1 0.00
144 46 0.20
145 1 0.00
146 1 0.00
147 1 0.00
150 135 0.59
151 6 0.03
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (144 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
GATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTT
ATCTGATCAAATGA
Found at i:2487074 original size:37 final size:37
Alignment explanation
Indices: 2487030--2487175 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
2487020 GATAGCTTTA
2487030 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
2487067 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
2487104 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
2487141 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
2487176 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:2488500 original size:58 final size:59
Alignment explanation
Indices: 2488429--2488547 Score: 222
Period size: 58 Copynumber: 2.0 Consensus size: 59
2488419 CATGTGAACA
2488429 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGACATCGGTAAGTGATATG
1 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGACATCGGTAAGTGATATG
*
2488488 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGACATCGGTAAGTGATATG
2488546 TG
1 TG
2488548 ATTTCGTGTA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 54 0.92
59 5 0.08
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.32
Consensus pattern (59 bp):
TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGACATCGGTAAGTGATATG
Found at i:2488538 original size:28 final size:28
Alignment explanation
Indices: 2488448--2488538 Score: 71
Period size: 28 Copynumber: 3.2 Consensus size: 28
2488438 GTGATTCCGT
*
2488448 GTAAGACCATAGCTGGGCTATGACATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
2488476 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
2488505 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
2488534 GTAAG
1 GTAAG
2488539 TGATATGTGA
Statistics
Matches: 46, Mismatches: 9, Indels: 16
0.65 0.13 0.23
Matches are distributed among these distances:
27 11 0.24
28 12 0.26
29 4 0.09
30 8 0.17
31 11 0.24
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:2488561 original size:49 final size:49
Alignment explanation
Indices: 2488489--2488631 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
2488479 AGTGATATGT
* *
2488489 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
2488538 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
2488587 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
2488632 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:2491838 original size:52 final size:51
Alignment explanation
Indices: 2491767--2492125 Score: 468
Period size: 52 Copynumber: 7.1 Consensus size: 51
2491757 ATCAAGTGAC
* **
2491767 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
2491819 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* **
2491865 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
2491917 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
2491963 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
*
2492014 AAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAATGACAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
** *
2492066 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
2492119 ATAAGTG
1 A-AAGTG
2492126 GCTACACTTA
Statistics
Matches: 271, Mismatches: 22, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
46 85 0.31
52 176 0.65
53 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:2491873 original size:98 final size:98
Alignment explanation
Indices: 2491753--2492114 Score: 589
Period size: 98 Copynumber: 3.6 Consensus size: 98
2491743 TTTGAGTACT
*
2491753 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
2491818 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
2491851 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
2491916 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
2491949 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
2492014 AAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
2492047 TCTGATCAAATGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGA
2492112 CAA
60 CAA
2492115 AGTGATAAGT
Statistics
Matches: 248, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
98 203 0.82
104 45 0.18
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:2492042 original size:150 final size:144
Alignment explanation
Indices: 2491759--2492162 Score: 502
Period size: 150 Copynumber: 2.8 Consensus size: 144
2491749 TACTTCTGAT
*
2491759 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC------AAAGT
* * * *
2491824 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGC
59 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGC
*
2491889 TACACTTATCTGATCAAGTGA
124 TACACTTATCTGATCAAATGA
* * ** *
2491910 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
2491975 GATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCT
66 GATAGCTTCGGCTACACTTATCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCT
2492040 ACACTTATCTGATCAAATGA
125 ACACTTATCTGATCAAATGA
*
2492060 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG---A-T
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
2492121 -A-AG--T-GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
66 GATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
2492163 GCTACACTTA
Statistics
Matches: 228, Mismatches: 19, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
135 13 0.06
141 24 0.11
142 1 0.00
144 46 0.20
145 1 0.00
146 1 0.00
147 1 0.00
150 135 0.59
151 6 0.03
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (144 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
GATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTT
ATCTGATCAAATGA
Found at i:2492133 original size:37 final size:37
Alignment explanation
Indices: 2492089--2492234 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
2492079 GATAGCTTTA
2492089 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
2492126 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
2492163 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
2492200 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
2492235 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:2499277 original size:17 final size:18
Alignment explanation
Indices: 2499255--2499288 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2499245 TCAACGTCAA
*
2499255 CCATCT-CTACATCTTCT
1 CCATCTCCTAAATCTTCT
2499272 CCATCTCCTAAATCTTC
1 CCATCTCCTAAATCTTC
2499289 GTCTTCGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.41, G:0.00, T:0.38
Consensus pattern (18 bp):
CCATCTCCTAAATCTTCT
Found at i:2511602 original size:25 final size:26
Alignment explanation
Indices: 2511541--2511612 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
2511531 GATTCTTTTT
* * *
2511541 TAAAAAAT-TAATAATCAAATTTAAC
1 TAAAAAATATAAAAATAAAAATTAAC
2511566 TAATAAAA-ATAAAAATAAAAATT-AC
1 TAA-AAAATATAAAAATAAAAATTAAC
*
2511591 TAAAAAATATAAACATTAAAAA
1 TAAAAAATATAAA-AATAAAAA
2511613 CTAAATTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 4 0.10
25 13 0.33
26 22 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (26 bp):
TAAAAAATATAAAAATAAAAATTAAC
Found at i:2511615 original size:23 final size:22
Alignment explanation
Indices: 2511563--2511617 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
2511553 AATCAAATTT
2511563 AACTAATAAAAATAAAAATAAAA
1 AACTAA-AAAAATAAAAATAAAA
* *
2511586 ATTACTAAAAAATATAAACATTAAA
1 A--ACTAAAAAA-ATAAAAATAAAA
2511611 AACTAAA
1 AACTAAA
2511618 TTTATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 7 0.26
24 4 0.15
25 16 0.59
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (22 bp):
AACTAAAAAAATAAAAATAAAA
Found at i:2515305 original size:21 final size:21
Alignment explanation
Indices: 2515266--2515306 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2515256 TCCTCTCAAA
*
2515266 TTTTTAAAAATTCTCATTAAT
1 TTTTTAAAAATTCTAATTAAT
*
2515287 TTTTTAAAAATTTTAATTAA
1 TTTTTAAAAATTCTAATTAA
2515307 ACTTTCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTTTAAAAATTCTAATTAAT
Found at i:2517746 original size:9 final size:9
Alignment explanation
Indices: 2517734--2517765 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
2517724 AACAATAACA
*
2517734 ACCACCACC
1 ACCACCATC
2517743 ACCACCATC
1 ACCACCATC
2517752 ACCACCATC
1 ACCACCATC
2517761 ACCAC
1 ACCAC
2517766 AACAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.34, C:0.59, G:0.00, T:0.06
Consensus pattern (9 bp):
ACCACCATC
Found at i:2520387 original size:22 final size:22
Alignment explanation
Indices: 2520353--2520395 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2520343 TATTCAAATA
2520353 ATAATAACAAAAT-AGTAGCAAT
1 ATAATAACAAAATGA-TAGCAAT
* *
2520375 ATAATAGCGAAATGATAGCAA
1 ATAATAACAAAATGATAGCAA
2520396 AACAACATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAATGATAGCAAT
Found at i:2528794 original size:13 final size:13
Alignment explanation
Indices: 2528776--2528800 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2528766 ATTATATTAA
2528776 TAAATTTTTAAAC
1 TAAATTTTTAAAC
2528789 TAAATTTTTAAA
1 TAAATTTTTAAA
2528801 AATTTTAAAA
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAATTTTTAAAC
Found at i:2528820 original size:21 final size:23
Alignment explanation
Indices: 2528770--2528820 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
2528760 AATATTATTA
2528770 TATTAATAAATTTTTAAACTAAAT
1 TATTAATAAATTTTTAAAC-AAAT
*
2528794 TTTTAA-AAA-TTTTAAA-AATAT
1 TATTAATAAATTTTTAAACAA-AT
2528815 TATTAA
1 TATTAA
2528821 CTATAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 2 0.08
21 7 0.29
22 7 0.29
23 3 0.12
24 5 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTAATAAATTTTTAAACAAAT
Found at i:2536750 original size:25 final size:25
Alignment explanation
Indices: 2536716--2536766 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2536706 GTTTAAACTT
2536716 CATTTCGATCAATATTGTCTTGTAC
1 CATTTCGATCAATATTGTCTTGTAC
2536741 CATTTCGATCAATATTGTCTTGTAC
1 CATTTCGATCAATATTGTCTTGTAC
2536766 C
1 C
2536767 GGTGAGTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.43
Consensus pattern (25 bp):
CATTTCGATCAATATTGTCTTGTAC
Found at i:2537057 original size:5 final size:5
Alignment explanation
Indices: 2537047--2537080 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
2537037 CAACCTCACA
2537047 TGGTT TGGTTT TGGTTT TGGTT TGGTT TGGTT TG
1 TGGTT TGG-TT TGG-TT TGGTT TGGTT TGGTT TG
2537081 CTTTTGTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 17 0.61
6 11 0.39
ACGTcount: A:0.00, C:0.00, G:0.38, T:0.62
Consensus pattern (5 bp):
TGGTT
Found at i:2537063 original size:11 final size:11
Alignment explanation
Indices: 2537047--2537079 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
2537037 CAACCTCACA
2537047 TGGTTTGGTTT
1 TGGTTTGGTTT
2537058 TGGTTTTGG-TT
1 TGG-TTTGGTTT
2537069 TGGTTTGGTTT
1 TGGTTTGGTTT
2537080 GCTTTTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.25
11 10 0.50
12 5 0.25
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (11 bp):
TGGTTTGGTTT
Found at i:2537457 original size:78 final size:78
Alignment explanation
Indices: 2537369--2537526 Score: 307
Period size: 78 Copynumber: 2.0 Consensus size: 78
2537359 GCTCCTAAGT
2537369 GTATATAAGATGATAAAAATTAAATTTTTTTAAAAAATTGGAAAAATTAAAATTAAAAAAATTTA
1 GTATATAAGATGATAAAAATTAAATTTTTTTAAAAAATTGGAAAAATTAAAATTAAAAAAATTTA
2537434 AGTGAGAAAATGA
66 AGTGAGAAAATGA
*
2537447 GTATATAAGATGATAAAAATTAAATTTTTTTTAAAAATTGGAAAAATTAAAATTAAAAAAATTTA
1 GTATATAAGATGATAAAAATTAAATTTTTTTAAAAAATTGGAAAAATTAAAATTAAAAAAATTTA
2537512 AGTGAGAAAATGA
66 AGTGAGAAAATGA
2537525 GT
1 GT
2537527 GATCAAATTA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (78 bp):
GTATATAAGATGATAAAAATTAAATTTTTTTAAAAAATTGGAAAAATTAAAATTAAAAAAATTTA
AGTGAGAAAATGA
Found at i:2542279 original size:33 final size:33
Alignment explanation
Indices: 2542218--2542283 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
2542208 TACTAAGGTA
* *
2542218 TTAACTACATGTAAAATAAATTTACTTTTGATC
1 TTAACTACATGTAAAACAAATTCACTTTTGATC
* * *
2542251 TTAATTACATGTAAAACGAATTCGCTTTTGATC
1 TTAACTACATGTAAAACAAATTCACTTTTGATC
2542284 GTTATGTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (33 bp):
TTAACTACATGTAAAACAAATTCACTTTTGATC
Found at i:2546211 original size:39 final size:40
Alignment explanation
Indices: 2546167--2546283 Score: 173
Period size: 39 Copynumber: 2.9 Consensus size: 40
2546157 TATATATCCC
2546167 TTTTGAACTTTCATATGTACGTATATATTCTTTGAACTA-
1 TTTTGAACTTTCATATGTACGTATATATTCTTTGAACTAT
* ** *
2546206 TTTTGAACTTTCATATGTACGTATAAATAGTTTAAACTATT
1 TTTTGAACTTTCATATGTACGTATATATTCTTTGAACTA-T
2546247 TATTTGAACTTTCATATGTACGTATATATTCTTTGAA
1 T-TTTGAACTTTCATATGTACGTATATATTCTTTGAA
2546284 ACTGTTGGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.52
41 1 0.01
42 31 0.46
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (40 bp):
TTTTGAACTTTCATATGTACGTATATATTCTTTGAACTAT
Found at i:2553547 original size:15 final size:15
Alignment explanation
Indices: 2553527--2553581 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
2553517 AAATTTTTCC
2553527 CAAAAATAAAGATAA
1 CAAAAATAAAGATAA
*
2553542 CAAAAATAAAAATAA
1 CAAAAATAAAGATAA
**
2553557 -ACCAATCAAA-ATAA
1 CAAAAAT-AAAGATAA
2553571 CAAAAATAAAG
1 CAAAAATAAAG
2553582 TTAAAAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.73, C:0.11, G:0.04, T:0.13
Consensus pattern (15 bp):
CAAAAATAAAGATAA
Found at i:2557449 original size:30 final size:30
Alignment explanation
Indices: 2557413--2557475 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
2557403 ACTTATTTTA
*
2557413 TTGTTAATTTTTTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
2557443 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
2557473 TTG
1 TTG
2557476 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:2562454 original size:18 final size:17
Alignment explanation
Indices: 2562423--2562456 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2562413 ATATTATTCT
2562423 TTTAATTTTATAATTAA
1 TTTAATTTTATAATTAA
*
2562440 TTTATATTTTTTAATTA
1 TTTA-ATTTTATAATTA
2562457 GAATGTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTAATTTTATAATTAA
Found at i:2567517 original size:6 final size:6
Alignment explanation
Indices: 2567506--2567534 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2567496 AATTATTAAA
2567506 AAAATC AAAATC AAAATC AAAATC AAAAT
1 AAAATC AAAATC AAAATC AAAATC AAAAT
2567535 ATAAATAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:2567715 original size:31 final size:32
Alignment explanation
Indices: 2567651--2567721 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
2567641 AAAAAATCAT
*
2567651 TTTAACTCTTTTTCAAAAGATTGATGATTAAA
1 TTTAACTCTTTTTCAAAAGATTGATGATCAAA
* *
2567683 TTTAATTCTTTTT-AAAAGGTTGA-GAATCAAA
1 TTTAACTCTTTTTCAAAAGATTGATG-ATCAAA
2567714 TTTAACTC
1 TTTAACTC
2567722 AAAAACAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.03
31 21 0.62
32 12 0.35
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (32 bp):
TTTAACTCTTTTTCAAAAGATTGATGATCAAA
Found at i:2570263 original size:32 final size:33
Alignment explanation
Indices: 2570226--2570296 Score: 101
Period size: 31 Copynumber: 2.2 Consensus size: 33
2570216 GACTAAAATT
*
2570226 TCAAATTTTGAAAAGTAAAATGACTAGATTTGA
1 TCAAATTTCGAAAAGTAAAATGACTAGATTTGA
* *
2570259 -CAAA-TTCGAAAAGTACAATGACTATATTTGA
1 TCAAATTTCGAAAAGTAAAATGACTAGATTTGA
2570290 TCAAATT
1 TCAAATT
2570297 AAAGTACAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 24 0.73
32 8 0.24
33 1 0.03
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (33 bp):
TCAAATTTCGAAAAGTAAAATGACTAGATTTGA
Found at i:2570310 original size:29 final size:29
Alignment explanation
Indices: 2570236--2570311 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 29
2570226 TCAAATTTTG
*
2570236 AAAAGTAAAATGACTAGATTTGACAAATT
1 AAAAGTACAATGACTAGATTTGACAAATT
*
2570265 CGAAAAGTACAATGACTATATTTGATCAAATT
1 --AAAAGTACAATGACTAGATTTGA-CAAATT
*
2570297 -AAAGTACAAGGACTA
1 AAAAGTACAATGACTA
2570312 AATTCATAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
29 14 0.34
31 21 0.51
32 6 0.15
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (29 bp):
AAAAGTACAATGACTAGATTTGACAAATT
Found at i:2572651 original size:24 final size:24
Alignment explanation
Indices: 2572623--2572775 Score: 209
Period size: 24 Copynumber: 6.3 Consensus size: 24
2572613 CTATATAATG
2572623 GGAAGCTCATAAGAGCCATAATCA
1 GGAAGCTCATAAGAGCCATAATCA
2572647 GGAAGCTCATAAGAGCCATAATCA
1 GGAAGCTCATAAGAGCCATAATCA
**
2572671 GGAAGCTCATGCGAGCCATAATCA
1 GGAAGCTCATAAGAGCCATAATCA
2572695 GGAAGCTCATAAGAGCCATAATCA
1 GGAAGCTCATAAGAGCCATAATCA
** *
2572719 GGAAGCTCATGCGAGCCAATAA-CG
1 GGAAGCTCATAAGAGCC-ATAATCA
* **
2572743 GGTAGCTCCGAAGAGCCATTAATCA
1 GGAAGCTCATAAGAGCCA-TAATCA
2572768 GGAAGCTC
1 GGAAGCTC
2572776 CGAATAGCCA
Statistics
Matches: 112, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
23 1 0.01
24 99 0.88
25 12 0.11
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCA
Found at i:2572750 original size:72 final size:71
Alignment explanation
Indices: 2572548--2572775 Score: 210
Period size: 72 Copynumber: 3.1 Consensus size: 71
2572538 TTCATATTCG
* * * * * * * *
2572548 GGAATGCTCATACGAGCACATAAACATGAAGCTCATGTGAGCCAATATCGGGAGGCTTATCCGGG
1 GGAA-GCTCATAAGAGC-CATAATCAGGAAGCTCATGAGAGCCAATAACGGGA-GCTCATGCGAG
* *
2572613 CTATATAAT-G
63 C--CATAATCA
* *
2572623 GGAAGCTCATAAGAGCCATAATCAGGAAGCTCATAAGAGCC-ATAATCAGGAAGCTCATGCGAGC
1 GGAAGCTCATAAGAGCCATAATCAGGAAGCTCATGAGAGCCAATAA-C-GGGAGCTCATGCGAGC
2572687 CATAATCA
64 CATAATCA
* * *
2572695 GGAAGCTCATAAGAGCCATAATCAGGAAGCTCATGCGAGCCAATAACGGGTAGCTC-CGAAGAGC
1 GGAAGCTCATAAGAGCCATAATCAGGAAGCTCATGAGAGCCAATAACGGG-AGCTCATG-CGAGC
2572759 CATTAATCA
64 CA-TAATCA
2572768 GGAAGCTC
1 GGAAGCTC
2572776 CGAATAGCCA
Statistics
Matches: 129, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
71 8 0.06
72 54 0.42
73 49 0.38
74 14 0.11
75 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (71 bp):
GGAAGCTCATAAGAGCCATAATCAGGAAGCTCATGAGAGCCAATAACGGGAGCTCATGCGAGCCA
TAATCA
Found at i:2572971 original size:25 final size:25
Alignment explanation
Indices: 2572940--2573054 Score: 194
Period size: 25 Copynumber: 4.6 Consensus size: 25
2572930 TCCGAAAAGC
2572940 TATAACGGGAAGCTCGCAAGAACCA
1 TATAACGGGAAGCTCGCAAGAACCA
2572965 TATAACGGGAAGCTCGCAAGAACCA
1 TATAACGGGAAGCTCGCAAGAACCA
*
2572990 TATAACGGGAAGCTCGCAACAACCA
1 TATAACGGGAAGCTCGCAAGAACCA
* *
2573015 TATAACGGGAAGCTCGTAATAACCA
1 TATAACGGGAAGCTCGCAAGAACCA
*
2573040 TATAACGGAAAGCTC
1 TATAACGGGAAGCTC
2573055 ATAAGAGCTA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 86 1.00
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (25 bp):
TATAACGGGAAGCTCGCAAGAACCA
Found at i:2574963 original size:5 final size:5
Alignment explanation
Indices: 2574956--2574995 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
2574946 ATTTCTTTAT
* *
2574956 TTCTT TTCTC TTCTC TTCTC TTCTC TTCTT TTCTC TTCTC
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC
2574996 ACGTTACTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (5 bp):
TTCTC
Found at i:2580244 original size:25 final size:24
Alignment explanation
Indices: 2580216--2580273 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
2580206 TATTATCAAG
* *
2580216 AATTTTATGAAATTATATATTATTA
1 AATTATATGAAATAATA-ATTATTA
*
2580241 AATTATATGTAATAATAATTATTTTA
1 AATTATATGAAATAATAATTA--TTA
2580267 AATTATA
1 AATTATA
2580274 CAAATTCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 14 0.50
26 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (24 bp):
AATTATATGAAATAATAATTATTA
Found at i:2580340 original size:47 final size:49
Alignment explanation
Indices: 2580216--2580341 Score: 114
Period size: 47 Copynumber: 2.6 Consensus size: 49
2580206 TATTATCAAG
* *
2580216 AATTTTATGAAATTATATATTATTAAATTATATGTAATAATAATTATTTTA
1 AATTTTATCAAATCATATATT-TT-AATTATATGTAATAATAATTATTTTA
* * *** * *
2580267 AATTATA-CAAATTCATGTAAGATAATT-TAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTATATGTAATAATAATTATTTTA
*
2580314 AATTTTATTAAATCATATATTTTAATTA
1 AATTTTATCAAATCATATATTTTAATTA
2580342 AAATATATTT
Statistics
Matches: 57, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
47 32 0.56
48 6 0.11
49 4 0.07
50 4 0.07
51 11 0.19
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (49 bp):
AATTTTATCAAATCATATATTTTAATTATATGTAATAATAATTATTTTA
Found at i:2580469 original size:16 final size:16
Alignment explanation
Indices: 2580448--2580489 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
2580438 TTATTAAATT
*
2580448 ATATATTTTAATTATA
1 ATATATTTTAATAATA
2580464 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
2580479 AT-TATGTTTAA
1 ATATAT-TTTAA
2580490 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:2580474 original size:15 final size:15
Alignment explanation
Indices: 2580439--2580480 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2580429 TTAAGAATTT
*
2580439 TATTAAATTAT-ATA
1 TATTTAATTATAATA
2580453 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
2580467 TATTTAATAATAAT
1 TATTTAATTATAAT
2580481 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:2580726 original size:16 final size:16
Alignment explanation
Indices: 2580705--2580772 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
2580695 GATTTGCTAT
2580705 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
2580721 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
2580737 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
2580753 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
2580769 TACA
1 TACA
2580773 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:2582095 original size:39 final size:38
Alignment explanation
Indices: 2582041--2582120 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 38
2582031 TTGTTTCAAT
*
2582041 TATTTTTATTTTATTTTACCATTATATCATTCTTTAAAA
1 TATTTTTATTTTATTTTAACATTATATCA-TCTTTAAAA
* *
2582080 TATTTTTATTTTATTTTAACATTATATTATCTTTTAAA
1 TATTTTTATTTTATTTTAACATTATATCATCTTTAAAA
2582118 TAT
1 TAT
2582121 CTTACGTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
38 11 0.29
39 27 0.71
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.61
Consensus pattern (38 bp):
TATTTTTATTTTATTTTAACATTATATCATCTTTAAAA
Found at i:2582316 original size:16 final size:15
Alignment explanation
Indices: 2582276--2582319 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
2582266 ATAAATTCAG
2582276 TACTTAATTTTTTAA
1 TACTTAATTTTTTAA
2582291 T-CTTTAATTTTTTAAA
1 TAC-TTAATTTTTT-AA
*
2582307 TACTTGATTTTTT
1 TACTTAATTTTTT
2582320 TTCACATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 1 0.04
15 11 0.44
16 12 0.48
17 1 0.04
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (15 bp):
TACTTAATTTTTTAA
Found at i:2582580 original size:31 final size:31
Alignment explanation
Indices: 2582516--2582580 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
2582506 GTACATGTAC
* * *
2582516 TTTAATTTTATCAATTTTAGTATTTGTAATT
1 TTTAAGTTTATCAATTTTAGTATCTATAATT
* * *
2582547 TTTAAGTTTGTCAATTTTAGTCTCTATACTT
1 TTTAAGTTTATCAATTTTAGTATCTATAATT
2582578 TTT
1 TTT
2582581 TTAATTTTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.60
Consensus pattern (31 bp):
TTTAAGTTTATCAATTTTAGTATCTATAATT
Found at i:2594301 original size:147 final size:147
Alignment explanation
Indices: 2594114--2594409 Score: 592
Period size: 147 Copynumber: 2.0 Consensus size: 147
2594104 GGATCTTGTT
2594114 AATCACTGACCCAACCCAAAATTTCAGTTGTCGGCATTTGGTTGTCCCTTTGGAACCACTTCCTT
1 AATCACTGACCCAACCCAAAATTTCAGTTGTCGGCATTTGGTTGTCCCTTTGGAACCACTTCCTT
2594179 TGTTCTCGAAAATCATAGGTTCAATCGATTGTTTGGTTTGTCTGGATGGTCCCCTTGTTTTGCTT
66 TGTTCTCGAAAATCATAGGTTCAATCGATTGTTTGGTTTGTCTGGATGGTCCCCTTGTTTTGCTT
2594244 TTGATTTTGTTTTATGC
131 TTGATTTTGTTTTATGC
2594261 AATCACTGACCCAACCCAAAATTTCAGTTGTCGGCATTTGGTTGTCCCTTTGGAACCACTTCCTT
1 AATCACTGACCCAACCCAAAATTTCAGTTGTCGGCATTTGGTTGTCCCTTTGGAACCACTTCCTT
2594326 TGTTCTCGAAAATCATAGGTTCAATCGATTGTTTGGTTTGTCTGGATGGTCCCCTTGTTTTGCTT
66 TGTTCTCGAAAATCATAGGTTCAATCGATTGTTTGGTTTGTCTGGATGGTCCCCTTGTTTTGCTT
2594391 TTGATTTTGTTTTATGC
131 TTGATTTTGTTTTATGC
2594408 AA
1 AA
2594410 CTTGATAATG
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
147 149 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (147 bp):
AATCACTGACCCAACCCAAAATTTCAGTTGTCGGCATTTGGTTGTCCCTTTGGAACCACTTCCTT
TGTTCTCGAAAATCATAGGTTCAATCGATTGTTTGGTTTGTCTGGATGGTCCCCTTGTTTTGCTT
TTGATTTTGTTTTATGC
Done.