Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 145 of 218
Found at i:44184370 original size:8 final size:9
Alignment explanation
Indices: 44184348--44184390 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
44184338 TAAAAATTTT
*
44184348 ATTTTTATA
1 ATTTTTATG
44184357 ATTTTTATG
1 ATTTTTATG
44184366 ATTTTTATG
1 ATTTTTATG
44184375 ATTTTTAAT-
1 ATTTTT-ATG
44184384 ATTTTTA
1 ATTTTTA
44184391 AATTTAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
8 1 0.03
9 29 0.91
10 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (9 bp):
ATTTTTATG
Found at i:44184371 original size:18 final size:18
Alignment explanation
Indices: 44184347--44184395 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
44184337 ATAAAAATTT
44184347 TATTTTTATAATTTTT-A
1 TATTTTTATAATTTTTAA
*
44184364 TGATTTTTATGATTTTTAA
1 T-ATTTTTATAATTTTTAA
44184383 TATTTTTA-AATTT
1 TATTTTTATAATTT
44184396 AAAAGCGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.18
18 21 0.75
19 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (18 bp):
TATTTTTATAATTTTTAA
Found at i:44199651 original size:61 final size:62
Alignment explanation
Indices: 44199577--44199702 Score: 236
Period size: 61 Copynumber: 2.0 Consensus size: 62
44199567 TATTCTAAAT
*
44199577 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTT-AAAATTATGGGGTATGGGTCGA
1 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGA
44199638 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGA
1 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGA
44199700 TTT
1 TTT
44199703 CACTTTACAA
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 39 0.62
62 24 0.38
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (62 bp):
TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGA
Found at i:44200629 original size:5 final size:5
Alignment explanation
Indices: 44200619--44200651 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
44200609 TTTATTTAAA
44200619 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
44200652 TAAATATCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:44200705 original size:21 final size:22
Alignment explanation
Indices: 44200679--44200721 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
44200669 ATTAATAAGT
44200679 ATGTAT-ATATATTAATTACAA
1 ATGTATAATATATTAATTACAA
*
44200700 ATGTATACATATATTTATTACA
1 ATGTATA-ATATATTAATTACA
44200722 CATTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
23 13 0.68
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (22 bp):
ATGTATAATATATTAATTACAA
Found at i:44205582 original size:19 final size:19
Alignment explanation
Indices: 44205558--44205595 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44205548 TGTCGTTTGT
44205558 TTGCTCATATTCCTCGCGA
1 TTGCTCATATTCCTCGCGA
44205577 TTGCTCATATTCCTCGCGA
1 TTGCTCATATTCCTCGCGA
44205596 GGGTAATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.37
Consensus pattern (19 bp):
TTGCTCATATTCCTCGCGA
Found at i:44225490 original size:84 final size:86
Alignment explanation
Indices: 44225346--44225517 Score: 321
Period size: 84 Copynumber: 2.0 Consensus size: 86
44225336 AGGGTGTGTC
44225346 TGAAAGGCTATTACGCCTATCATCTGGCAGCTCAGCTGCAACCTTCTGATTATGTGCCGCATCTC
1 TGAAAGGCTATTACGCC-ATCATCTGGCAGCTCAGCTGCAACCTTCTGATTATGTGCCGCATCTC
44225411 GATACAACATGGTGTGTAGGGA
65 GATACAACATGGTGTGTAGGGA
44225433 TGAAAGGCTATTACGCC-T-ATCTGGCAGCTCAGCTGCAACCTTCTGATTATGTGCCGCATCTCG
1 TGAAAGGCTATTACGCCATCATCTGGCAGCTCAGCTGCAACCTTCTGATTATGTGCCGCATCTCG
44225496 ATACAACATGGTGTGTAGGGA
66 ATACAACATGGTGTGTAGGGA
44225517 T
1 T
44225518 AGGTGGATTG
Statistics
Matches: 85, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
84 67 0.79
85 1 0.01
87 17 0.20
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (86 bp):
TGAAAGGCTATTACGCCATCATCTGGCAGCTCAGCTGCAACCTTCTGATTATGTGCCGCATCTCG
ATACAACATGGTGTGTAGGGA
Found at i:44226810 original size:101 final size:99
Alignment explanation
Indices: 44226688--44227024 Score: 305
Period size: 101 Copynumber: 3.4 Consensus size: 99
44226678 GGTGGAGCCA
* *
44226688 AAAATATCA-TTTTTAAAATTTTTAGATTAAAAAAAACGACACATTTAAAAAA-AATCCATGCAG
1 AAAATATTATTTTTTAAAATTTTTAAATTAAAAAAAA--ACACATTTAAAAAACAATCCAT-CAG
*
44226751 TACACTGGTGGCGCCATTCTATATGGCTCCACCAAAT
63 TAAACTGGTGGCGCCATTCTATATGGCTCCACCAAAT
* * *
44226788 AAAATATTATTTTTTAAAA-TTTTAAAATAAAAAAATAACACATTTAAAAATATACTATACAT-A
1 AAAATATTATTTTTTAAAATTTTTAAATTAAAAAAA-AACACATTT-AAAA-A-ACAATCCATCA
* * * **
44226851 GTATACTGGTGGCGTCATTCTATATGGATCTGCCAAAT
62 GTAAACTGGTGGCGCCATTCTATATGGCTCCACCAAAT
* ** * *
44226889 AAAATATTGTTTTTTTTAATTTTTAAATT-TAAAAAAACACATTTAAAAAACAATCC-TACTAAT
1 AAAATATTATTTTTTAAAATTTTTAAATTAAAAAAAAACACATTTAAAAAACAATCCAT-C-AGT
* *
44226952 AAAATGGTGGCGCCATT-TAGAATGGCTCCACC-AAT
64 AAACTGGTGGCGCCATTCTA-TATGGCTCCACCAAAT
** * * *
44226987 AAGAA-AACATTTTTTATAGTTTTAAAATTAAAAAAAAA
1 AA-AATATTATTTTTTAAAATTTTTAAATTAAAAAAAAA
44227025 TAACATTAAC
Statistics
Matches: 192, Mismatches: 32, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
96 1 0.01
97 5 0.03
98 26 0.14
99 45 0.23
100 35 0.18
101 66 0.34
102 9 0.05
103 5 0.03
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (99 bp):
AAAATATTATTTTTTAAAATTTTTAAATTAAAAAAAAACACATTTAAAAAACAATCCATCAGTAA
ACTGGTGGCGCCATTCTATATGGCTCCACCAAAT
Found at i:44230062 original size:21 final size:22
Alignment explanation
Indices: 44230036--44230077 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
44230026 ATTAGTAAGT
44230036 ATGTAT-ATATATTAATTACAA
1 ATGTATAATATATTAATTACAA
*
44230057 ATGTATACATATATTTATTAC
1 ATGTATA-ATATATTAATTAC
44230078 GCATGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
23 12 0.67
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (22 bp):
ATGTATAATATATTAATTACAA
Found at i:44231552 original size:9 final size:9
Alignment explanation
Indices: 44231526--44231576 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
44231516 TAAAAAATTT
44231526 ATTTTTATA
1 ATTTTTATA
44231535 ATTTGTTTATA
1 A-TT-TTTATA
*
44231546 ATTTTTATG
1 ATTTTTATA
44231555 ATTTTTA-A
1 ATTTTTATA
44231563 TATTTTTA-A
1 -ATTTTTATA
44231572 ATTTT
1 ATTTT
44231577 AAAAATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 5 0.14
9 21 0.57
10 4 0.11
11 7 0.19
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:44231567 original size:18 final size:19
Alignment explanation
Indices: 44231525--44231575 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
44231515 ATAAAAAATT
*
44231525 TATTTTTATAATTTGTTTA
1 TATTTTTATAATTTGTTAA
*
44231544 TAATTTTTATGATTT-TTAA
1 T-ATTTTTATAATTTGTTAA
44231563 TATTTTTA-AATTT
1 TATTTTTATAATTT
44231576 TAAAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.14
18 7 0.25
19 5 0.18
20 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TATTTTTATAATTTGTTAA
Found at i:44238846 original size:25 final size:25
Alignment explanation
Indices: 44238817--44238908 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 25
44238807 CCTTAGCGCA
44238817 CTCTCTGATTAATAGCACATTAGTG
1 CTCTCTGATTAATAGCACATTAGTG
* * *
44238842 CTCTCCGATTATTAGCACATTTA-TA
1 CTCTCTGATTAATAGCACA-TTAGTG
* *
44238867 CTCTCTG--T-ATAACACTTTAGTG
1 CTCTCTGATTAATAGCACATTAGTG
* * *
44238889 TTCTCTGTTTAATAGTACAT
1 CTCTCTGATTAATAGCACAT
44238909 AAAAATACAC
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
21 3 0.06
22 12 0.24
23 1 0.02
24 1 0.02
25 30 0.60
26 3 0.06
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (25 bp):
CTCTCTGATTAATAGCACATTAGTG
Found at i:44242167 original size:17 final size:18
Alignment explanation
Indices: 44242139--44242173 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
44242129 GAATTGTAAA
44242139 TATTGAGAAATAAATTAT
1 TATTGAGAAATAAATTAT
*
44242157 TATTG-GAAATATATTAT
1 TATTGAGAAATAAATTAT
44242174 CGAATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (18 bp):
TATTGAGAAATAAATTAT
Found at i:44254543 original size:21 final size:22
Alignment explanation
Indices: 44254508--44254552 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
44254498 AGCTCTCATA
*
44254508 AATTTTTAGAAAATTATA-AATT
1 AATTGTTAGAAAATT-TAGAATT
44254530 AATTGTTA-AAAATTTAGAATT
1 AATTGTTAGAAAATTTAGAATT
44254551 AA
1 AA
44254553 AATTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 12 0.57
22 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (22 bp):
AATTGTTAGAAAATTTAGAATT
Found at i:44255293 original size:31 final size:31
Alignment explanation
Indices: 44255258--44255321 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
44255248 CCACGTAAAA
*
44255258 ATATATGGTACACTATTTTTAGAAAAAGTAT
1 ATATATGGTACACTATTTTTAGAAAAAATAT
44255289 ATATATGGTACACTATTTTTAGAAAAAATAT
1 ATATATGGTACACTATTTTTAGAAAAAATAT
44255320 AT
1 AT
44255322 GATAATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (31 bp):
ATATATGGTACACTATTTTTAGAAAAAATAT
Found at i:44258786 original size:23 final size:23
Alignment explanation
Indices: 44258762--44258806 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
44258752 TGATTTTTAT
44258762 TTTTTA-AAAAAATTAAAAATAA
1 TTTTTATAAAAAATTAAAAATAA
*
44258784 TTTTTATATAAAATTAAAAATAA
1 TTTTTATAAAAAATTAAAAATAA
44258807 AAGAGCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TTTTTATAAAAAATTAAAAATAA
Found at i:44261635 original size:3 final size:3
Alignment explanation
Indices: 44261627--44261654 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
44261617 CCCATCATAC
44261627 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
44261655 AAGTTATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:44262916 original size:22 final size:22
Alignment explanation
Indices: 44262888--44262964 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
44262878 TTTATTTTAA
44262888 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
** * *
44262910 TTAGGAGATAATATTTTGGTTTAA--
1 TTAGGAGAT--TA-GAT-GCTAAAGT
44262934 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
44262956 TTAGGAGAT
1 TTAGGAGAT
44262965 AATATTTTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 4 0.10
21 1 0.02
22 20 0.49
24 11 0.27
25 1 0.02
26 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (22 bp):
TTAGGAGATTAGATGCTAAAGT
Found at i:44262936 original size:46 final size:46
Alignment explanation
Indices: 44262883--44262978 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
44262873 ATCTCTTTAT
44262883 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
44262929 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
44262975 TTTA
1 TTTA
44262979 TCTTTGTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.41
Consensus pattern (46 bp):
TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
Found at i:44267454 original size:22 final size:22
Alignment explanation
Indices: 44267426--44267502 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 22
44267416 TTTCTTTTAA
44267426 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
* * *
44267448 TTAGGAGATAATAGTTTGGTTCAA--
1 TTAGGAGAT--TAG-AT-GCTAAAGT
44267472 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
44267494 TTAGGAGAT
1 TTAGGAGAT
44267503 AATATTTGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
20 4 0.09
21 1 0.02
22 21 0.49
24 12 0.28
25 1 0.02
26 4 0.09
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (22 bp):
TTAGGAGATTAGATGCTAAAGT
Found at i:44267477 original size:46 final size:45
Alignment explanation
Indices: 44267424--44267513 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 45
44267414 CTTTTCTTTT
44267424 AATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATAGTTTGGTTC
1 AATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATA-TTTGGTTC
44267470 AATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTGGTT
1 AATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTGGTT
44267514 TCTATCTTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 7 0.16
46 37 0.84
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (45 bp):
AATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTGGTTC
Found at i:44268441 original size:30 final size:30
Alignment explanation
Indices: 44268396--44268454 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
44268386 CTTAATAAGC
44268396 AAATGCCTATAAAATAATAACAAAATTAAA
1 AAATGCCTATAAAATAATAACAAAATTAAA
* *
44268426 AAATTCCTTTAAAATAATAACAAAATTAA
1 AAATGCCTATAAAATAATAACAAAATTAA
44268455 CAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (30 bp):
AAATGCCTATAAAATAATAACAAAATTAAA
Found at i:44276379 original size:39 final size:40
Alignment explanation
Indices: 44276302--44276448 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
44276292 TAGCTCCTCG
* * *
44276302 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
44276342 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
44276381 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
44276421 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
44276449 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:44276459 original size:80 final size:80
Alignment explanation
Indices: 44276348--44276528 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
44276338 CTCATTCAAT
* * *
44276348 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
44276411 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
44276427 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
44276491 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
44276508 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
44276529 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:44276488 original size:40 final size:40
Alignment explanation
Indices: 44276345--44276528 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
44276335 TAACTCATTC
* *
44276345 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
44276385 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
44276425 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
44276465 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
44276506 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44276529 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:44278037 original size:3 final size:3
Alignment explanation
Indices: 44278031--44278055 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44278021 TAATGTACAT
44278031 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
44278056 CCGAACTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:44290834 original size:40 final size:40
Alignment explanation
Indices: 44290645--44290827 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
44290635 TCGAATGATG
* * * *
44290645 TCCGGGCTAAGTCCCG-AGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
44290684 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TA-TAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44290722 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44290762 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44290803 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44290828 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
38 20 0.16
39 36 0.29
40 59 0.48
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44290845 original size:80 final size:76
Alignment explanation
Indices: 44290697--44290850 Score: 186
Period size: 80 Copynumber: 2.0 Consensus size: 76
44290687 GGACTAAGAT
**
44290697 CCGAAGGCATTTGTGCGAGTATAAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGAAGGCATTTGTGCGAGTATAAA-TCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
44290762 TCCGGGTTAAGTC
65 TCC-GGTTAAGTC
* *
44290775 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAG-TA-TA-AATCCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
44290838 TATATCCGGTTAA
61 TAAATCCGGTTAA
44290851 ATTCGAAGGT
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
78 19 0.29
79 19 0.29
80 26 0.39
81 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (76 bp):
CCGAAGGCATTTGTGCGAGTATAAATCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
CCGGTTAAGTC
Found at i:44298944 original size:40 final size:38
Alignment explanation
Indices: 44298860--44299043 Score: 174
Period size: 40 Copynumber: 4.7 Consensus size: 38
44298850 TCGAATGATG
* * **
44298860 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTATTA-A
* *
44298900 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATATTAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTATTAA
* * *
44298939 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTA-TTAA
*
44298979 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTA-T-TAA
*
44299020 -CCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
44299044 AATGAGTAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
39 44 0.36
40 67 0.55
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTATTAA
Found at i:44298996 original size:79 final size:81
Alignment explanation
Indices: 44298860--44299041 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
44298850 TCGAATGATG
* *
44298860 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
44298924 TGTGCGAGATA-T-TAA
65 TGTGCGAGATACTATAA
* * * **
44298939 TTCCGGGCTAAGCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
44299002 TTGTGCGAGTTACTATAA
64 TTGTGCGAGATACTATAA
* *
44299020 -CCGGGCTATGTCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATT
44299042 TGAATGAGTA
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 66 0.75
80 18 0.20
81 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATAA
Found at i:44299061 original size:79 final size:77
Alignment explanation
Indices: 44298913--44299066 Score: 177
Period size: 79 Copynumber: 2.0 Consensus size: 77
44298903 GGACTAAGAT
**
44298913 CCGAAGGCATTTGTGCGAGATATTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATTAA-TCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
44298978 ATCCGGGTTAAGTC
65 ATCC-GGTTAAGTC
* * * * *
44298992 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCGAAGGCATTTGAATGAG-TAGCT
1 CCGAAGGCATTTGTGCGAGATA-T-TAATCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTA-CT
*
44299055 ATATCCGGTTAA
63 AAATCCGGTTAA
44299067 ATTCTGAAGG
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
78 8 0.12
79 52 0.81
80 1 0.02
81 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGATATTAATCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
TCCGGTTAAGTC
Found at i:44302389 original size:28 final size:28
Alignment explanation
Indices: 44302349--44302402 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
44302339 ATCCCGAAAG
44302349 ATCTCACAACTCCCTTCAAACGGCTCTA
1 ATCTCACAACTCCCTTCAAACGGCTCTA
44302377 ATCTCACAACTCCCTTCAAACGGCTC
1 ATCTCACAACTCCCTTCAAACGGCTC
44302403 CCAAAATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.28, C:0.41, G:0.07, T:0.24
Consensus pattern (28 bp):
ATCTCACAACTCCCTTCAAACGGCTCTA
Found at i:44308774 original size:40 final size:40
Alignment explanation
Indices: 44308690--44308913 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
44308680 TTGAATGATG
* * * *
44308690 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
44308730 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44308770 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44308809 TCCGGGTTAA-TCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44308848 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44308889 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44308914 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 70 0.43
40 83 0.51
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44308882 original size:79 final size:80
Alignment explanation
Indices: 44308690--44308913 Score: 271
Period size: 79 Copynumber: 2.8 Consensus size: 80
44308680 TTGAATGATG
* * * * * *
44308690 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGG-GTTAGATCCCGAAGGCAT
*
44308753 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
44308770 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTA-ATCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAGATCCCGAAGGCATTT
*
44308833 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAA
* *
44308848 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTA-GATCCCGAAGGCAT
44308911 TTG
64 TTG
44308914 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
77 2 0.02
78 37 0.29
79 53 0.42
80 34 0.27
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAGATCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:44308935 original size:79 final size:79
Alignment explanation
Indices: 44308690--44308946 Score: 222
Period size: 79 Copynumber: 3.3 Consensus size: 79
44308680 TTGAATGATG
* * * * * * *
44308690 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCT-A-ATCCCGAAGGCAT
** *
44308753 TTGTGCGAGAT-ACTAAT
63 TTGAACGAG-TGACTAAA
* *
44308770 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAATCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAATCCCGAAGGCATTTG
** *
44308834 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
44308848 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTA-ATCCCGAAGGCATT
*
44308912 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
44308928 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
44308947 TACGTGATTT
Statistics
Matches: 152, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
77 3 0.02
78 35 0.23
79 69 0.45
80 45 0.30
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAATCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:44316947 original size:40 final size:39
Alignment explanation
Indices: 44316863--44317047 Score: 162
Period size: 40 Copynumber: 4.6 Consensus size: 39
44316853 TCGAATGATG
* * * * *
44316863 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
44316903 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
44316943 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTATTAAA
1 TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
44316982 TCC-GAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGA-CTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
44317023 -CCAGG-CTATGTCCCGAAGGCATTTG
1 TCC-GGACTAAGT-CCGAAGGCATTTG
44317048 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
38 1 0.01
39 31 0.26
40 77 0.64
41 10 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44317070 original size:79 final size:79
Alignment explanation
Indices: 44316916--44317080 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
44316906 GGACTAAGAT
* * ** *
44316916 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTATTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
44316981 ATCCGAGTTAAGTC
66 ATCCGAGTTAAATC
* *
44316995 CCGAAGGCATTTGTGCGAGTTACT-ATAACCAGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
44317058 TATATCCG-GTTAAATT
63 TAAATCCGAGTTAAATC
44317074 CCGAAGG
1 CCGAAGG
44317081 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:44322636 original size:3 final size:3
Alignment explanation
Indices: 44322630--44322681 Score: 88
Period size: 3 Copynumber: 17.3 Consensus size: 3
44322620 TAATGTACAT
44322630 ATA ATA ATA ATA A-A TATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44322675 ATA ATA A
1 ATA ATA A
44322682 ACCAATTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 1 0.02
3 45 0.96
4 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44337708 original size:156 final size:156
Alignment explanation
Indices: 44337424--44337743 Score: 595
Period size: 156 Copynumber: 2.1 Consensus size: 156
44337414 TCTAAGTCTT
* *
44337424 AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGTAATTTCTCTGCATTAGTAAATTAAAAAAAA
1 AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGTAATTTCTCTACATTAGCAAATTAAAAAAAA
44337489 AGAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTGTTTTGTTTTAAGGTAAAGTGGTAGATA
66 AGAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTGTTTTGTTTTAAGGTAAAGTGGTAGATA
44337554 ATCATTCAAATGGTCTTTGCATGCAA
131 ATCATTCAAATGGTCTTTGCATGCAA
* * *
44337580 AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGTAATTTTTCTACATTAGCAAATTCAAGAAAA
1 AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGTAATTTCTCTACATTAGCAAATTAAAAAAAA
44337645 AGAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTGTTTTGTTTTAAGGTAAAGTGGTAGATA
66 AGAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTGTTTTGTTTTAAGGTAAAGTGGTAGATA
44337710 ATCATTCAAATGGTCTTTGCATGCAA
131 ATCATTCAAATGGTCTTTGCATGCAA
44337736 AGAAATTA
1 AGAAATTA
44337744 TGGTTTTTAT
Statistics
Matches: 159, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 159 1.00
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (156 bp):
AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGTAATTTCTCTACATTAGCAAATTAAAAAAAA
AGAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTGTTTTGTTTTAAGGTAAAGTGGTAGATA
ATCATTCAAATGGTCTTTGCATGCAA
Found at i:44338560 original size:55 final size:53
Alignment explanation
Indices: 44338499--44338689 Score: 168
Period size: 55 Copynumber: 3.5 Consensus size: 53
44338489 TGTAACTGTG
* * * *
44338499 GAAGTCCGTCAAGACAATCTTAA-ATGTGGGAAGTCCACCAGGATTATCTTATGT
1 GAAGTCCGT-AAGACTATC-TAATATGTGGGAAGTCCACCAAGACTATCTTATAT
* **
44338553 CGAAGTCCGTAAGGACTATCTAATATGTAGGAAGTCTGCCAAGACTATCTTATAT
1 -GAAGTCCGTAA-GACTATCTAATATGTGGGAAGTCCACCAAGACTATCTTATAT
* ** * * *
44338608 GAAATCCTGTAAAGACTATCTAATATGTGGGAAGTCTGCCAATACTATCGTATGT
1 GAAGTCC-GT-AAGACTATCTAATATGTGGGAAGTCCACCAAGACTATCTTATAT
* *
44338663 GGAAATTCGTAAGGACTATCTAATATG
1 -GAAGTCCGTAA-GACTATCTAATATG
44338690 GCGAAGTTCG
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
54 13 0.11
55 96 0.82
56 8 0.07
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (53 bp):
GAAGTCCGTAAGACTATCTAATATGTGGGAAGTCCACCAAGACTATCTTATAT
Found at i:44338598 original size:29 final size:29
Alignment explanation
Indices: 44338566--44338656 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
44338556 AGTCCGTAAG
44338566 GACTATCTAATATGTAGGAAGTCTGCCAA
1 GACTATCTAATATGTAGGAAGTCTGCCAA
* **
44338595 GACTATCTTATATG-A--AA-TCCTGTAAA
1 GACTATCTAATATGTAGGAAGT-CTGCCAA
*
44338621 GACTATCTAATATGTGGGAAGTCTGCCAA
1 GACTATCTAATATGTAGGAAGTCTGCCAA
*
44338650 TACTATC
1 GACTATC
44338657 GTATGTGGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
25 1 0.02
26 20 0.41
28 1 0.02
29 26 0.53
30 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (29 bp):
GACTATCTAATATGTAGGAAGTCTGCCAA
Found at i:44341673 original size:25 final size:26
Alignment explanation
Indices: 44341645--44341696 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
44341635 AAGTTGTAAA
44341645 TAAAAAAATATCTCTAG-AAATTTTC
1 TAAAAAAATATCTCTAGAAAATTTTC
* * *
44341670 TAAAATAATTTCTTTAGAAAATTTTC
1 TAAAAAAATATCTCTAGAAAATTTTC
44341696 T
1 T
44341697 CTCTACAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (26 bp):
TAAAAAAATATCTCTAGAAAATTTTC
Found at i:44341846 original size:17 final size:17
Alignment explanation
Indices: 44341802--44341859 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 17
44341792 TAATCACTTT
*
44341802 AATATTAAATT-AATAA
1 AATATTAAATTAAATTA
*
44341818 AATACT--ATTAAATTA
1 AATATTAAATTAAATTA
*
44341833 AGTATTAAATTAAATTA
1 AATATTAAATTAAATTA
44341850 AATATTAAAT
1 AATATTAAAT
44341860 CTATTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 3 0.09
15 8 0.24
16 5 0.15
17 18 0.53
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
AATATTAAATTAAATTA
Found at i:44347867 original size:23 final size:21
Alignment explanation
Indices: 44347836--44347881 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
44347826 AATTTTAAAA
*
44347836 ATTTAGAAAAGTATATAAAAATT
1 ATTTAGAAAA-AAT-TAAAAATT
*
44347859 ATTTTGAAAAAATTAAAAATT
1 ATTTAGAAAAAATTAAAAATT
44347880 AT
1 AT
44347882 ATAAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (21 bp):
ATTTAGAAAAAATTAAAAATT
Found at i:44347883 original size:32 final size:32
Alignment explanation
Indices: 44347827--44347887 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
44347817 ACTTTTTAAA
*
44347827 ATTTTAAAAATTTAGAAAAGTATATAAAAATT
1 ATTTTAAAAAATTAGAAAAGTATATAAAAATT
*
44347859 ATTTTGAAAAAATTA-AAAATTATATAAAA
1 ATTTT-AAAAAATTAGAAAAGTATATAAAA
44347888 TATAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (32 bp):
ATTTTAAAAAATTAGAAAAGTATATAAAAATT
Found at i:44352970 original size:5 final size:5
Alignment explanation
Indices: 44352960--44352984 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
44352950 ACGAAGAAGG
44352960 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
44352985 TCTAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:44353862 original size:44 final size:44
Alignment explanation
Indices: 44353765--44354487 Score: 364
Period size: 44 Copynumber: 16.7 Consensus size: 44
44353755 TCTGATGCGA
* * * **
44353765 TCTGCTCTACTGCAACTTCAGAGAGATGAGATTCATCG-TTT-TG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGT-GTTTTCTG
* * *
44353808 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTCTG
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTTTTCTG
* * * * *
44353853 TCTGTTCCACTGTAACTTTAGAGAGATAAGACTGGATG----C-G
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG-TGTTTTCTG
* * * **
44353893 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATAT-GTGGTTTT-AA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGT-GTTTTCTG
* *
44353938 TCTGCTCCACTGCAATTTTAGGGAGATAAGATTGGT-TTCTTCTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTT-TTCTG
* * * * **
44353982 TCTTCTCCACTGTAACTTCAGAGAGATAAGACTGGATG----CAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG-TGTTTTCTG
** * * * **
44354023 TCTGCTATACCGCAACTTCAGAGAGATAATATCT-GTGGTTTT-AA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGT-GTTTTCTG
* * * *
44354067 TCCGCTCCACTGTAACTTCAGGCAGATAGGATTGGT-TTCTTCTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTT-TTCTG
* * *
44354111 TCTGCTCCACTGCAACTTTAGGGGGATAAGACTGGATG----C-G
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG-TGTTTTCTG
* * * * *
44354151 ATCTGCTCTACTGCAACTTCAGAGAGGTAAGGTCT-GTGGTTT-TG
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTGTTTTCTG
* * * * *
44354195 ATCCGTTCCACTACAACTTCAGGGAGATAGGATTGAT-TTCTTCTG
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTT-TTCTG
* *
44354240 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TGG-G-ATGC-G
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTTTTCTG
* ** **
44354280 ATCTGCTCTACTGCAACTTCAAAGAGATAAGATCT-GTGGTTTT-AA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGT-GTTTTCTG
* * * *
44354325 TCTGCTCCACTGTAACTTCAAGGAGATAGGATTGGT-TTCTTCTA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTT-TTCTG
* * * **
44354369 TCTGCTCCACTGCAACTTTAGAGAAATAAGATCT-GTGGTTTT-AA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGT-GTTTTCTG
** *
44354413 TCCACTCCACTGCAACTTCAGGGAGATAGGATTGGT-TTCTTCTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTT-TTCTG
*
44354457 TCTGCTCCACTGTAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
44354488 CTGGATGTAA
Statistics
Matches: 510, Mismatches: 115, Indels: 108
0.70 0.16 0.15
Matches are distributed among these distances:
40 7 0.01
41 116 0.23
42 12 0.02
43 17 0.03
44 345 0.68
45 11 0.02
46 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTGTTTTCTG
Found at i:44353948 original size:85 final size:85
Alignment explanation
Indices: 44353853--44354223 Score: 252
Period size: 85 Copynumber: 4.3 Consensus size: 85
44353843 GTTTTTTCTG
* *
44353853 TCTGTTCCACTGTAACTTTAGAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGCAACTTTAGAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGA
44353918 GATAAGATATGTGGTTTTAA
66 GATAAGATATGTGGTTTTAA
* * * * * *
44353938 TCTGCTCCACTGCAATTTTAGGGAGATAAGATTGGTTTC-TTCTGTCTTCTCCACTGTAACTTCA
1 TCTGCTCCACTGCAACTTTAGAGAGATAAGACTGGATGCGATCTG-C-TCT--ACTGTAACTTCA
* * **
44354002 GAGAGATAAG--A-CTGGATGCAA
62 GAGAGATAAGATATGTGGTTTTAA
** * * * * *** * *
44354023 TCTGCTATACCGCAACTTCAGAGAGATAATATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAG
1 TCTGCTCCACTGCAACTTTAGAGAGATAAGA-C--TGGATGCGATCTGCTCTACTGTAACTTCAG
* * **
44354088 -GCAGATAGGAT-TG-GTTTCTTCTG
63 AG-AGATAAGATATGTGGTT-TT-AA
* * *
44354111 TCTGCTCCACTGCAACTTTAGGGGGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACTTTAGAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGA
* * * *
44354176 GGTAAGGTCTGTGGTTTTGA
66 GATAAGATATGTGGTTTTAA
* * * * *
44354196 TCCGTTCCACTACAACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTTAGAGAGATA
44354224 GGATTGATTT
Statistics
Matches: 212, Mismatches: 57, Indels: 34
0.70 0.19 0.11
Matches are distributed among these distances:
84 5 0.02
85 134 0.63
86 11 0.05
87 6 0.03
88 53 0.25
89 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (85 bp):
TCTGCTCCACTGCAACTTTAGAGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGA
GATAAGATATGTGGTTTTAA
Found at i:44354400 original size:129 final size:129
Alignment explanation
Indices: 44353748--44354399 Score: 914
Period size: 129 Copynumber: 5.1 Consensus size: 129
44353738 TGTAACTTAA
* * * * *
44353748 AGATAAGTCT-GATGCGATCTGCTCTACTGCAACTTCAGAGAGATGAGAT-TCATCGTTTTGATC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-GTGGTTTTAATC
* * *
44353811 CGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTCTGTCTGTTCCACTGTAACTTTAGAG
65 CGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* * *
44353876 AGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATATGTGGTTTTAATCT
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
* * * * * *
44353941 GCTCCACTGCAATTTTAGGGAGATAAGATTGGTTTCTTCTGTCTTCTCCACTGTAACTTCAGAG
66 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* * * *
44354005 AGATAAGACTGGATGCAATCTGCTATACCGCAACTTCAGAGAGATAATATCTGTGGTTTTAATCC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
* * *
44354070 GCTCCACTGTAACTTCAGGCAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGGG
66 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* * * *
44354134 GGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGGTAAGGTCTGTGGTTTTGATCC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
* * * * *
44354199 GTTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGGG
66 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
*
44354263 AGATAAGA-TGGGATGCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGGTTTTAATC
1 AGATAAGACT-GGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
* * * *
44354327 TGCTCCACTGTAACTTCAAGGAGATAGGATTGGTTTCTTCTATCTGCTCCACTGCAACTTTAGAG
65 CGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
*
44354392 AAATAAGA
1 AGATAAGA
44354400 TCTGTGGTTT
Statistics
Matches: 462, Mismatches: 59, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
128 10 0.02
129 451 0.98
130 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (129 bp):
AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
Found at i:44354449 original size:129 final size:127
Alignment explanation
Indices: 44353748--44354484 Score: 816
Period size: 129 Copynumber: 5.7 Consensus size: 127
44353738 TGTAACTTAA
* * * *
44353748 AGATAAGTCT-GATGCGATCTGCTCTACTGCAACTTCAGAGAGAT-GAGATTCATCGTTTTGATC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAG-GA-T-GTGGTTTTAATC
* * *
44353811 CGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTCTGTCTGTTCCACTGTAACTTTAGAG
63 CGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* * *
44353876 AGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATATGTGGTTTTAATCT
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGAT-AG-GATGTGGTTTTAATCC
* * * * * *
44353941 GCTCCACTGCAATTTTAGGGAGATAAGATTGGTTTCTTCTGTCTTCTCCACTGTAACTTCAGAG
64 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* * * **
44354005 AGATAAGACTGGATGCAATCTGCTATACCGCAACTTCAGAGAGATAATATCTGTGGTTTTAATCC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAGGA--TGTGGTTTTAATCC
* * *
44354070 GCTCCACTGTAACTTCAGGCAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGGG
64 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* * * *
44354134 GGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGGTAAGGTCTGTGGTTTTGATCC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGAT-AGG-ATGTGGTTTTAATCC
* * * * *
44354199 GTTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGGG
64 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* *
44354263 AGATAAGA-TGGGATGCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGGTTTTAATC
1 AGATAAGACT-GGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAGGA--TGTGGTTTTAATC
* * * *
44354327 TGCTCCACTGTAACTTCAAGGAGATAGGATTGGTTTCTTCTATCTGCTCCACTGCAACTTTAGAG
63 CGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
* * *** ** * * *
44354392 AAATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGAT-TGGTTTCTTCT
1 AGATAAGA-C--TGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAGGATGTGG-TT-TT-A
* * *
44354456 GTCTGCTCCACTGTAACTTCAGGGAGATA
60 ATCCGCTCCACTGCAACTTCAGGGAGATA
44354485 AGACTGGATG
Statistics
Matches: 519, Mismatches: 73, Indels: 30
0.83 0.12 0.05
Matches are distributed among these distances:
127 2 0.00
128 13 0.03
129 437 0.84
130 5 0.01
131 5 0.01
132 56 0.11
133 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (127 bp):
AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAGGATGTGGTTTTAATCCGC
TCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGAG
Found at i:44354768 original size:44 final size:44
Alignment explanation
Indices: 44354727--44354849 Score: 210
Period size: 44 Copynumber: 2.8 Consensus size: 44
44354717 ATCTACAACT
*
44354727 TTCAACCTATTCCACTGCTGTCCAGGGAGATATGACTTACAATC
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACAATC
* *
44354771 TTCAACCTATTCCACTGCTATCTAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACAATC
*
44354815 TTCAACATATTCCACTGCTGTCCAGGGAGATAGGA
1 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGA
44354850 TTTATGGTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 73 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACAATC
Found at i:44362449 original size:20 final size:22
Alignment explanation
Indices: 44362419--44362462 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
44362409 TTTGGTGTTT
44362419 AGGGCTTAGGTG-ATTTGGGCC
1 AGGGCTTAGGTGAATTTGGGCC
44362440 AGGG-TTAGGTGATATTTGGGCC
1 AGGGCTTAGGTGA-ATTTGGGCC
44362462 A
1 A
44362463 AATTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 4 0.19
22 10 0.48
ACGTcount: A:0.18, C:0.11, G:0.41, T:0.30
Consensus pattern (22 bp):
AGGGCTTAGGTGAATTTGGGCC
Found at i:44377347 original size:20 final size:21
Alignment explanation
Indices: 44377312--44377350 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
44377302 TTTATGGTTT
*
44377312 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTGGGGTAAAAA
44377333 TAAAT-ATTTTGGGGTAAA
1 TAAATAATTTTGGGGTAAA
44377351 TTGAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (21 bp):
TAAATAATTTTGGGGTAAAAA
Found at i:44381349 original size:49 final size:49
Alignment explanation
Indices: 44381194--44381430 Score: 158
Period size: 49 Copynumber: 4.8 Consensus size: 49
44381184 TTGGTGTCCA
* * *
44381194 GAATGATGGATCACTGGTAGGGCATGTTAGTTGCTAACCAGAATGGCA-
1 GAATGATGGGTCACTAGTAAGGCATGTTAGTTGCTAACCAGAATGGCAG
* * * * * * *
44381242 G-ATGTACTGGATGACTGGTAAGGCCTGCTAGTTGCTAACCAG-GTGGGAG
1 GAATG-A-TGGGTCACTAGTAAGGCATGTTAGTTGCTAACCAGAATGGCAG
* * * *
44381291 GATAAGATGGGCCAGTAGTAAGGCATGTTAGTTGCTAACCAGATTGGCAG
1 GA-ATGATGGGTCACTAGTAAGGCATGTTAGTTGCTAACCAGAATGGCAG
* * ** * * * *
44381341 GAATGATGGGTCACTAGTAGGGTATCATAGTTACTAACTAGATTGAC-G
1 GAATGATGGGTCACTAGTAAGGCATGTTAGTTGCTAACCAGAATGGCAG
* * * ** *
44381389 TGAGTGCTAGGTTTCTAGTAAGGCATGATAGTTGCTAACCAG
1 -GAATGATGGGTCACTAGTAAGGCATGTTAGTTGCTAACCAG
44381431 CCTAGTGATA
Statistics
Matches: 146, Mismatches: 36, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
47 3 0.02
48 7 0.05
49 126 0.86
50 8 0.05
51 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (49 bp):
GAATGATGGGTCACTAGTAAGGCATGTTAGTTGCTAACCAGAATGGCAG
Found at i:44382558 original size:14 final size:15
Alignment explanation
Indices: 44382536--44382564 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44382526 TTCTTATTGG
44382536 TTATCTTTTATTTTT
1 TTATCTTTTATTTTT
44382551 TTAT-TTTTATTTTT
1 TTATCTTTTATTTTT
44382565 GCATACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTATCTTTTATTTTT
Found at i:44383383 original size:26 final size:26
Alignment explanation
Indices: 44383354--44383407 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
44383344 TATTAGATTG
* * *
44383354 TTTTATATTATTTTAGATATTATGTA
1 TTTTAAATCATTTCAGATATTATGTA
* *
44383380 TTTTAAATCATTTCATATATTATTTA
1 TTTTAAATCATTTCAGATATTATGTA
44383406 TT
1 TT
44383408 ATGAATGGCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTTAAATCATTTCAGATATTATGTA
Found at i:44389933 original size:143 final size:143
Alignment explanation
Indices: 44389668--44391006 Score: 1804
Period size: 143 Copynumber: 9.4 Consensus size: 143
44389658 GATGGATTGA
* * *
44389668 AAATTATGGCAGATCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * *
44389733 CCCTAAAGTTGCAGCAGAGCAGATTGAAGACAACGAATCTTATTTCCCTGGCATTGCAGTGGAAT
66 CCCTGAAGTTGCAGCAGAGCAGACTAAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
44389798 AGATTAAAGCTAC
131 AGATTAAAGCTAC
* * *
44389811 AAATTATGGCGGATCTTATCTTCCTAAAGTTGCAGTCGAGCAAATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * *
44389876 CCCTGAAGTTACAGCGGAGCAGACTGAAGACAAC-AGATCTTATTTCCTTGGCGTTGCAATGGAA
66 CCCTGAAGTTGCAGCAGAGCAGACTAAAGACAACGA-ATCTTATTTCCCTGGCGTTGCAGTGGAA
*
44389940 CAGATTAAA-ATGAC
130 CAGATTAAAGCT-AC
* * *
44389954 AAATTATGGCGGATCTTATCTTCCTAAAGTTGCAGTAGAGGAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * ** * *
44390019 CCCTAAAGTTGCAGTAGAGCAGACTGAAGACAGCGAATCTTATTTATCTGGCGTTGTAGTGGAAT
66 CCCTGAAGTTGCAGCAGAGCAGACTAAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
44390084 AGATTAAAGCTAC
131 AGATTAAAGCTAC
* * *
44390097 AAATTATGGCGGATCTTATCTTCCTGAAGTTACAATGGAGCAGATTGAAGCTACCAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * *
44390162 CCTTGAAGTTGCAGCGGAGCAGACTAAAGACAACGAATCTTATTTCCTTGGCGTTGCAGTGGAAC
66 CCCTGAAGTTGCAGCAGAGCAGACTAAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
44390227 AGATTAAAGCTAC
131 AGATTAAAGCTAC
*
44390240 AAATTATGGCGGATATTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * *
44390305 CCCTGAAGTTGTAGCAGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGTACTGGAAT
66 CCCTGAAGTTGCAGCAGAGCAGACTAAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
44390370 AGATTAAAGCTAC
131 AGATTAAAGCTAC
*
44390383 AAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * ** * * **
44390448 CCTTGACGTTATAGCGGAGCTGACTAAAGACAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
66 CCCTGAAGTTGCAGCAGAGCAGACTAAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
*
44390513 AGATTAAAGTTAC
131 AGATTAAAGCTAC
* ** * *
44390526 AAACTATGGTAGATCTTATCTTCCTGCAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * * *
44390591 CCCTAAAGTTGCAGCGGAGTAGACTAAAGACAACGAATCTTATTTCCCTAGCGTTGCAGTGAAAT
66 CCCTGAAGTTGCAGCAGAGCAGACTAAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
*
44390656 AGATTAAAACTAC
131 AGATTAAAGCTAC
*** * * * *
44390669 AAATTATGGAAAATCTTATCTTCCTGAAGTTGCAATGGAGCATATTGAAGCCACCAGCCTAATTT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * * *
44390734 CCCTAAAGTTGCAGCAGAGCAGACAAAAGACAGCAAATCTTATTTCCCTGGCATTACAGTGGAAC
66 CCCTGAAGTTGCAGCAGAGCAGACTAAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
*
44390799 AGATTAAGGCTAC
131 AGATTAAAGCTAC
*
44390812 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* ** * *
44390877 CCCTGAAGTTGCAG-ATGAGCAGACTGAAGACAGTGAATCTTATTTCTCTGGCGCTGCAGTGGAA
66 CCCTGAAGTTGCAGCA-GAGCAGACTAAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAA
44390941 CAGATTAAAGCTAC
130 CAGATTAAAGCTAC
* ** * * * *
44390955 CAATTATGGCCAATTTTTATC-TCCTTGAAGTTACAGTGGAGTAGATCGAAGC
1 AAATTATGGCGGA-TCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGC
44391007 TACAAATCTC
Statistics
Matches: 1054, Mismatches: 135, Indels: 13
0.88 0.11 0.01
Matches are distributed among these distances:
142 3 0.00
143 1019 0.97
144 32 0.03
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (143 bp):
AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
CCCTGAAGTTGCAGCAGAGCAGACTAAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
AGATTAAAGCTAC
Found at i:44390181 original size:44 final size:43
Alignment explanation
Indices: 44390111--44390333 Score: 113
Period size: 44 Copynumber: 4.8 Consensus size: 43
44390101 TATGGCGGAT
* * *
44390111 CTTATCTTCCTGAAGTTACAATGGAGCAGATTGAAGCTACCAGC
1 CTTATC-TCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACCAGC
* * * * **
44390155 CTTATCTCCTTGAAGTTGCAGCGGAGCAGACTAAAGACAACGAAT
1 CTTATCTCC-TGAAGTTGCAGTGGAGCAGATTAAAG-CTACCAGC
* ** * *
44390200 CTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGC
1 CTTATCTCC-TGAAGTTGCAGTGGAGCAGATTAAAGCTAC----CA--GC
* * *
44390250 GGATATTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
1 ----CTTATC-TCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACCAGC
* ** *
44390298 CTTATCTCCCTGAAGTTGTAGCAGAGCAGACTAAAG
1 CTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAG
44390334 ACAGCGAATC
Statistics
Matches: 132, Mismatches: 33, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
43 4 0.03
44 58 0.44
45 34 0.26
48 3 0.02
50 1 0.01
54 29 0.22
55 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
CTTATCTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACCAGC
Found at i:44391066 original size:44 final size:44
Alignment explanation
Indices: 44390971--44391085 Score: 144
Period size: 44 Copynumber: 2.6 Consensus size: 44
44390961 TGGCCAATTT
* * *
44390971 TTATCTCCTTGAAGTTACAGTGGAGTAGATCGAAGCTACAAATC
1 TTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGCCACAAATC
* * *
44391015 TCT-TCTCCCTAAAATTACATTGGAGCAGATCGAAGCCAC-AATCC
1 T-TATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGCCACAAAT-C
44391059 TTATCTCCCTGAAGTTACAGTGGAGCA
1 TTATCTCCCTGAAGTTACAGTGGAGCA
44391086 TGATAAAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
43 4 0.07
44 54 0.92
45 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGCCACAAATC
Found at i:44391868 original size:30 final size:31
Alignment explanation
Indices: 44391844--44391902 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
44391834 GTAAATACTC
* **
44391844 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACCAATAGTGTAAATATGA
44391874 AAAATTTGAAGGACCAATAGTGTAAATAT
1 AAAATTTGAAGGACCAATAGTGTAAATAT
44391903 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGACCAATAGTGTAAATATGA
Found at i:44396877 original size:24 final size:23
Alignment explanation
Indices: 44396817--44396879 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
44396807 TTTTTAGCAG
* *
44396817 TTTTATATTTTTATTTATTTTAAA
1 TTTTATA-TATTATTTATATTAAA
*
44396841 TTTTATATATTATTTATATTAGA
1 TTTTATATATTATTTATATTAAA
*
44396864 TTGTTTTATATTATTT
1 TT-TTATATATTATTT
44396880 TAGATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 15 0.44
24 19 0.56
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (23 bp):
TTTTATATATTATTTATATTAAA
Found at i:44403195 original size:26 final size:26
Alignment explanation
Indices: 44403121--44403196 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
44403111 CCTAAAATTT
*
44403121 TATACTAATAATTTTATACATTTTTTAA
1 TATA-TAATAATTTTATACA-ATTTTAA
* * **
44403149 TATAT-CT-ATATTATATTATTTTAA
1 TATATAATAATTTTATACAATTTTAA
*
44403173 TATTTAATAATTTTATACAATTTT
1 TATATAATAATTTTATACAATTTT
44403197 TATTGAATTT
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
24 10 0.28
25 8 0.22
26 13 0.36
27 1 0.03
28 4 0.11
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (26 bp):
TATATAATAATTTTATACAATTTTAA
Found at i:44405314 original size:17 final size:17
Alignment explanation
Indices: 44405292--44405328 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
44405282 TACTACAATA
44405292 ATAATAATAAT-ATAATC
1 ATAATAATAATCAT-ATC
44405309 ATAATAATAATCATATC
1 ATAATAATAATCATATC
44405326 ATA
1 ATA
44405329 GGAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATAATAATCATATC
Found at i:44405433 original size:19 final size:20
Alignment explanation
Indices: 44405411--44405455 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
44405401 AATAGTAAAA
44405411 AATAAAAAATAACAATG-G-C
1 AATAAAAAATAA-AATGTGCC
*
44405430 AAT-AATAATAAAATGTGCC
1 AATAAAAAATAAAATGTGCC
44405449 AATAAAA
1 AATAAAA
44405456 GCATGTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
17 4 0.19
18 8 0.38
19 7 0.33
20 2 0.10
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.20
Consensus pattern (20 bp):
AATAAAAAATAAAATGTGCC
Found at i:44405515 original size:3 final size:3
Alignment explanation
Indices: 44405509--44405548 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
44405499 ATGATAATCA
44405509 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
44405549 AGGCAAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:44405529 original size:23 final size:23
Alignment explanation
Indices: 44405502--44405548 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
44405492 TATATTGATG
44405502 ATAATCAA-ATAATAATAATAATA
1 ATAAT-AATATAATAATAATAATA
44405525 ATAATAATATAATAATAATAATA
1 ATAATAATATAATAATAATAATA
44405548 A
1 A
44405549 AGGCAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
ATAATAATATAATAATAATAATA
Found at i:44407162 original size:44 final size:44
Alignment explanation
Indices: 44407081--44407509 Score: 317
Period size: 44 Copynumber: 9.5 Consensus size: 44
44407071 TCGTTCTAAC
* * * * * *
44407081 CCACTGCGACTTCAGGGATATAGGAATTGTTGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
* * *
44407125 CCACTGCAACTTTAGGGAGATAAAATTAGTAGTTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
* * *
44407169 CCACTGCAACTTCAGAGAGATAAGATTTAGAACTCGTAGCTTT-AATTTGTT
1 CCACTGCAACTTCAGGGAGATAAGA-TT-----T-GTAG-TTTCAATCTGCT
* * * * *
44407220 CCATTACAACTTCAGGGAAATAAGATTCTCTA-TCTTCCATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATT-TGTAGT-TTCAATCTGCT
* * * * *
44407265 CCACTGCAACTTCAGGAAGATAAGATATGTGGCTTCAATGTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
* * * **
44407309 CTACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
* * * * *
44407353 CTACTGTAACTTCAGAGAGATAAGATTTGTAGCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
** ** * *
44407397 TTACTGCAACTTCAAAGAGATAAAATTTGTTA-TCTTCAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGT-TTCAATCTGCT
* * * *
44407442 CTACTGTAACTTTAGGGAGATAATATTTGTAGCTTT-AATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAG-TTTCAATCTGCT
* *
44407486 CCTCTGCAACTTCAGGGAGTTAAG
1 CCACTGCAACTTCAGGGAGATAAG
44407510 GTTCGCCACG
Statistics
Matches: 305, Mismatches: 65, Indels: 30
0.76 0.16 0.08
Matches are distributed among these distances:
43 1 0.00
44 198 0.65
45 67 0.22
46 3 0.01
50 2 0.01
51 31 0.10
52 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
Found at i:44407470 original size:89 final size:88
Alignment explanation
Indices: 44407089--44407499 Score: 340
Period size: 89 Copynumber: 4.6 Consensus size: 88
44407079 ACCCACTGCG
* * * * * * ** *
44407089 ACTTCAGGGATATAGGAATTGTTGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAAATTAG
1 ACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTGCAACTTCAAAGAGATAAAATTTG
* *
44407154 TAGT-TTCAATCTGCTCCACTGCA
66 TA-TCTTCAATCTGCTCTACTGTA
* * * * * * * ** *
44407177 ACTTCAGAGAGATAAGATTTAGAACTCGTAGCTTTAATTTGTTCCATTACAACTTCAGGGAAATA
1 ACTTCAGGGAGATAAGA-TT-----T-GTAGCTTCAATCTGCTCTACTGCAACTTCAAAGAGATA
* * * * *
44407242 AGATTCTCTATCTTCCATCTGCTCCACTGCA
59 AAATT-TGTATCTTCAATCTGCTCTACTGTA
* * * * * * *
44407273 ACTTCAGGAAGATAAGATATGTGGCTTCAATGTGCTCTACTACAACTTCAGAGAGATAAGATTTG
1 ACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTGCAACTTCAAAGAGATAAAATTTG
*
44407338 TAACTTCAATCTGCTCTACTGTA
66 TATCTTCAATCTGCTCTACTGTA
* * *
44407361 ACTTCAGAGAGATAAGATTTGTAGCTTCAATCTACTTTACTGCAACTTCAAAGAGATAAAATTTG
1 ACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTGCAACTTCAAAGAGATAAAATTTG
*
44407426 TTATCTTCAATCTGTTCTACTGTA
66 -TATCTTCAATCTGCTCTACTGTA
* * *
44407450 ACTTTAGGGAGATAATATTTGTAGCTTTAATCTGCTCCT-CTGCAACTTCA
1 ACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT-CTACTGCAACTTCA
44407500 GGGAGTTAAG
Statistics
Matches: 262, Mismatches: 50, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
88 89 0.34
89 99 0.38
90 2 0.01
94 1 0.00
95 36 0.14
96 35 0.13
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (88 bp):
ACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTGCAACTTCAAAGAGATAAAATTTG
TATCTTCAATCTGCTCTACTGTA
Found at i:44408342 original size:27 final size:27
Alignment explanation
Indices: 44408280--44408343 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 27
44408270 AAAAAATATT
*
44408280 ATAAAAATTATTAAATTTTAATAAAAA
1 ATAAAAATTATTAAAATTTAATAAAAA
* *
44408307 ATAAAAAATATTTAAAATTTATTAAAAA
1 ATAAAAATTA-TTAAAATTTAATAAAAA
44408335 ATAAAAATT
1 ATAAAAATT
44408344 TGTATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 9 0.28
28 23 0.72
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
ATAAAAATTATTAAAATTTAATAAAAA
Found at i:44410473 original size:23 final size:24
Alignment explanation
Indices: 44410436--44410485 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
44410426 ACATATATAT
*
44410436 TTTTTTTAAACGAATATTTTCCTA
1 TTTTTTTAAACGAATATTTTCATA
*
44410460 TTTTTTT-AATGAATATTTTCATA
1 TTTTTTTAAACGAATATTTTCATA
44410483 TTT
1 TTT
44410486 ATATGTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTTTTAAACGAATATTTTCATA
Found at i:44415262 original size:9 final size:9
Alignment explanation
Indices: 44415248--44415289 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
44415238 TTAGATTCAA
44415248 AAAAAAAAC
1 AAAAAAAAC
44415257 -AAAAAAAC
1 AAAAAAAAC
44415265 AAAAAAAAC
1 AAAAAAAAC
44415274 AAAAAAAAAC
1 -AAAAAAAAC
44415284 AAAAAA
1 AAAAAA
44415290 TGAAAAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.26
9 14 0.45
10 9 0.29
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:44415269 original size:19 final size:19
Alignment explanation
Indices: 44415245--44415289 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
44415235 AGTTTAGATT
44415245 CAAAAAAAA-AACAAAAAAA
1 CAAAAAAAACAA-AAAAAAA
44415264 CAAAAAAAACAAAAAAAAA
1 CAAAAAAAACAAAAAAAAA
44415283 CAAAAAA
1 CAAAAAA
44415290 TGAAAAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 23 0.92
20 2 0.08
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (19 bp):
CAAAAAAAACAAAAAAAAA
Found at i:44415296 original size:19 final size:17
Alignment explanation
Indices: 44415246--44415289 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
44415236 GTTTAGATTC
44415246 AAAAAAAAAACAAAAAA
1 AAAAAAAAAACAAAAAA
*
44415263 ACAAAAAAAACAAAAAA
1 AAAAAAAAAACAAAAAA
44415280 AAACAAAAAA
1 AAA-AAAAAA
44415290 TGAAAAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAACAAAAAA
Found at i:44415306 original size:1 final size:1
Alignment explanation
Indices: 44415246--44415289 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
44415236 GTTTAGATTC
* * * *
44415246 AAAAAAAAAACAAAAAAACAAAAAAAACAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
44415290 TGAAAAATGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:44417180 original size:44 final size:42
Alignment explanation
Indices: 44416903--44417188 Score: 156
Period size: 44 Copynumber: 6.6 Consensus size: 42
44416893 AAGATGGCAA
* **
44416903 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTAAAGCCAATG
1 ATCTTATCT-CCTGAAGTTGCAGTGGAGCAAATTAAAGCCAA-G
* * *
44416947 ATCCTATCTCTCTGAAGTTACAGTGGAGCGAATTAAAGCC--G
1 ATCTTATCTC-CTGAAGTTGCAGTGGAGCAAATTAAAGCCAAG
* * * * * *
44416988 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCATA-TC-TG
1 ATCTTATCTC-CTGAAGTTGCAGTGGAGCAAATTAAAGCCAAG
* * * **
44417028 GTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAG
1 ATCTTATC-TCCTGAAGTTGCAGTGGAGCAAATTAA--AGCCAAG
*** * *
44417073 -TCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACCCAAGATGGCGA-
1 ATCTTAT-CTCCTGAAGTTGCAGTGGA-GCA-AATTAA-A-GCCAAG
*
44417117 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCCAATG
1 ATCTTATCT-CCTGAAGTTGCAGTGGAGCAAATTAAAGCCAA-G
* *
44417161 ATCCTATCTACCTGAAGTTGTAGTGGAG
1 ATCTTATCT-CCTGAAGTTGCAGTGGAG
44417189 TGGGTTAAAA
Statistics
Matches: 187, Mismatches: 38, Indels: 34
0.72 0.15 0.13
Matches are distributed among these distances:
39 1 0.01
40 28 0.15
41 32 0.17
42 3 0.02
43 5 0.03
44 87 0.47
45 29 0.16
46 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (42 bp):
ATCTTATCTCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAAG
Found at i:44417373 original size:132 final size:132
Alignment explanation
Indices: 44417201--44417742 Score: 802
Period size: 132 Copynumber: 4.1 Consensus size: 132
44417191 GGTTAAAACC
* * *
44417201 GATCTTATCTCCCTAAGTAGTAGTAGG-GTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTT
1 GATCTTATCTCCCTAAGCAGTAGT-GGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTT
* * * *
44417265 ATAGTGGAGTACATTAAAGCCAGTAATTCTATTTCCCTGGACAACAGTGGAATAGATTGAAGATT
65 ACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATT
44417330 TCA
130 TCA
44417333 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTA
*
44417398 CAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTT
66 CAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTT
44417463 CA
131 CA
* *
44417465 GATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCATGTGGTTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTA
* *
44417530 CAATGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAATATTT
66 CAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTT
44417595 CA
131 CA
* * * * **
44417597 GATCTTATATCCCTAAGCAGTAGTGGAACAGATCAAAGATGGCGGATTTTACCTCTTTGTGGTTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTA
* * * * * *
44417662 CAGTGGAGTACATTGAAGCTAGTAATCCTA-TCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATT
66 CAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAACAGTGGAATAGATTGAAGATT
*
44417726 GTAA
130 -TCA
*
44417730 G-TTTTATCTCCCT
1 GATCTTATCTCCCT
44417743 GCAGTTGCAG
Statistics
Matches: 376, Mismatches: 31, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
131 3 0.01
132 370 0.98
133 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (132 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTA
CAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTT
CA
Found at i:44417490 original size:44 final size:44
Alignment explanation
Indices: 44417306--44417491 Score: 112
Period size: 44 Copynumber: 4.2 Consensus size: 44
44417296 TTTCCCTGGA
44417306 CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
1 CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
** ** * ** * * **
44417350 CAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGG
1 CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-AAG
** * * * **
44417395 TTACAGTGGAGTACATTGAAG---CCAGTAAT-TCTA-CTTCCCTGGG
1 CAACAGTGGAATAGATTGAAGATTTCAG--ATCT-TATC-TCCCTAAG
*
44417438 CAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
1 CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
*
44417482 CAATAGTGGA
1 CAACAGTGGA
44417492 GCAGATCGAA
Statistics
Matches: 102, Mismatches: 30, Indels: 20
0.67 0.20 0.13
Matches are distributed among these distances:
42 3 0.03
43 20 0.20
44 59 0.58
45 17 0.17
46 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
Found at i:44417511 original size:44 final size:44
Alignment explanation
Indices: 44417306--44417520 Score: 110
Period size: 44 Copynumber: 4.9 Consensus size: 44
44417296 TTTCCCTGGA
** * ** *
44417306 CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
1 CAACAGTGGAGCAGATCGAAGATGGCAGATCTTACCTCCCTAAG
** * **
44417350 CAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGG
1 CAACAGTGGAGCAGATCGAAGATGGCAGATCTTACCTCCCT-AAG
** * * * *** * * **
44417395 TTACAGTGGAGTACATTGAAGCCAGTA-AT-TCTACTTCCCTGGG
1 CAACAGTGGAGCAGATCGAAGATGGCAGATCT-TACCTCCCTAAG
* ** * ** *
44417438 CAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
1 CAACAGTGGAGCAGATCGAAGATGGCAGATCTTACCTCCCTAAG
* *
44417482 CAATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCC
1 CAACAGTGGAGCAGATCGAAGATGGCAGATCTTACCTCC
44417521 ATGTGGTTAC
Statistics
Matches: 120, Mismatches: 47, Indels: 8
0.69 0.27 0.05
Matches are distributed among these distances:
43 20 0.17
44 82 0.68
45 18 0.15
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
CAACAGTGGAGCAGATCGAAGATGGCAGATCTTACCTCCCTAAG
Found at i:44419179 original size:22 final size:23
Alignment explanation
Indices: 44419141--44419191 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
44419131 ACAAATATAT
44419141 ATATTTTTTAAACGAATATTTTC
1 ATATTTTTTAAACGAATATTTTC
* *
44419164 CTATTTTTT-AATGAATATTTTC
1 ATATTTTTTAAACGAATATTTTC
44419186 ATATTT
1 ATATTT
44419192 ATATGTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (23 bp):
ATATTTTTTAAACGAATATTTTC
Found at i:44420712 original size:199 final size:199
Alignment explanation
Indices: 44420366--44420765 Score: 773
Period size: 199 Copynumber: 2.0 Consensus size: 199
44420356 AATTTCACTG
44420366 TTATTGTTATTTTTATATTAACCTTAAATAAATGCACTGCCCATCCAAAACCTTATTAAAGTAAA
1 TTATTGTTATTTTTATATTAACCTTAAATAAATGCACTGCCCATCCAAAACCTTATTAAAGTAAA
*
44420431 AAGTTAGTCACCAAATGTGTTTTATTTTCATGAGTAGGAATTCAACTTTTAACTTAGTGATTAAA
66 AAGTTAGTCACCAAATATGTTTTATTTTCATGAGTAGGAATTCAACTTTTAACTTAGTGATTAAA
44420496 GGATGATATGAATAACAGTCACACCACATTTTCTATTAAATTTATTAAAGGAATTATGATAAATT
131 GGATGATATGAATAACAGTCACACCACATTTTCTATTAAATTTATTAAAGGAATTATGATAAATT
44420561 TAAT
196 TAAT
* *
44420565 TTATTTTTATTTTTATATTAACCTTAAATATATGCACTGCCCATCCAAAACCTTATTAAAGTAAA
1 TTATTGTTATTTTTATATTAACCTTAAATAAATGCACTGCCCATCCAAAACCTTATTAAAGTAAA
44420630 AAGTTAGTCACCAAATATGTTTTATTTTCATGAGTAGGAATTCAACTTTTAACTTAGTGATTAAA
66 AAGTTAGTCACCAAATATGTTTTATTTTCATGAGTAGGAATTCAACTTTTAACTTAGTGATTAAA
44420695 GGATGATATGAATAACAGTCACACCACATTTTCTATTAAATTTATTAAAGGAATTATGATAAATT
131 GGATGATATGAATAACAGTCACACCACATTTTCTATTAAATTTATTAAAGGAATTATGATAAATT
44420760 TAAT
196 TAAT
44420764 TT
1 TT
44420766 TCAACGTTTA
Statistics
Matches: 198, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
199 198 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.39
Consensus pattern (199 bp):
TTATTGTTATTTTTATATTAACCTTAAATAAATGCACTGCCCATCCAAAACCTTATTAAAGTAAA
AAGTTAGTCACCAAATATGTTTTATTTTCATGAGTAGGAATTCAACTTTTAACTTAGTGATTAAA
GGATGATATGAATAACAGTCACACCACATTTTCTATTAAATTTATTAAAGGAATTATGATAAATT
TAAT
Found at i:44425653 original size:141 final size:141
Alignment explanation
Indices: 44425395--44425678 Score: 489
Period size: 141 Copynumber: 2.0 Consensus size: 141
44425385 TCAAATGATG
* *
44425395 AATGAATGGTTTACAGAATTTGTAAAAACAAATCCGGCTGTACAACAACCTCTACCCCCTCCTAT
1 AATGAATGGTTTACAAAATTTGTAAAAAAAAATCCGGCTGTACAACAACCTCTACCCCCTCCTAT
* *
44425460 TTCTTAACCGATTCCCGATATGCCTCAAGGTATATAACTTGTTAGAATTGGTAAACCTCCTT-TA
66 TTCTTAACCGATTCCCGATATGCCTCAAGGTATAGAACTTGTTAGAACTGGTAAACCT-CTTGTA
44425524 GATAAAATTCAT
130 GATAAAATTCAT
*
44425536 AATGAATGGTTTACAAAATTTGTAAAAAAAAATTCGGCTGTACAACAACCTCTACCCCCTCCTAT
1 AATGAATGGTTTACAAAATTTGTAAAAAAAAATCCGGCTGTACAACAACCTCTACCCCCTCCTAT
* *
44425601 TTCTTAACCGATTCTCGATATGCCTCAAGGTATAGAACTTGTTAGAACTGGTAAGCCTCTTGTAG
66 TTCTTAACCGATTCCCGATATGCCTCAAGGTATAGAACTTGTTAGAACTGGTAAACCTCTTGTAG
44425666 ATAAAATTCAT
131 ATAAAATTCAT
44425677 AA
1 AA
44425679 ATATGGGGCA
Statistics
Matches: 135, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
140 3 0.02
141 132 0.98
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (141 bp):
AATGAATGGTTTACAAAATTTGTAAAAAAAAATCCGGCTGTACAACAACCTCTACCCCCTCCTAT
TTCTTAACCGATTCCCGATATGCCTCAAGGTATAGAACTTGTTAGAACTGGTAAACCTCTTGTAG
ATAAAATTCAT
Found at i:44431429 original size:27 final size:25
Alignment explanation
Indices: 44431389--44431456 Score: 82
Period size: 27 Copynumber: 2.6 Consensus size: 25
44431379 TGATATATGT
44431389 CTCTTTAGAGCTTCCCAATTAAAGG
1 CTCTTTAGAGCTTCCCAATTAAAGG
* *
44431414 CTCTTTAATGAGCTTCCTAATTAATGG
1 CTCTTT-A-GAGCTTCCCAATTAAAGG
* *
44431441 CTCTCTGGAGCTTCCC
1 CTCTTTAGAGCTTCCC
44431457 TGATATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 14 0.39
26 1 0.03
27 21 0.58
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.35
Consensus pattern (25 bp):
CTCTTTAGAGCTTCCCAATTAAAGG
Found at i:44431574 original size:25 final size:26
Alignment explanation
Indices: 44431494--44431586 Score: 77
Period size: 25 Copynumber: 3.7 Consensus size: 26
44431484 TACAACTCTT
* *
44431494 ATGAGCTTCCC-ATTACATGGCTCAC
1 ATGAGCTTCCCGATTATATAGCTCAC
** *
44431519 ATGAGCTTCTTG-TTATATAGCT-AG
1 ATGAGCTTCCCGATTATATAGCTCAC
* *
44431543 AGAGAGCTTCCCGTTTATAT-GCTCAC
1 A-TGAGCTTCCCGATTATATAGCTCAC
44431569 ATGAGCATTCCCGATTAT
1 ATGAGC-TTCCCGATTAT
44431587 GAATTGTTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
24 2 0.04
25 32 0.62
26 18 0.35
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (26 bp):
ATGAGCTTCCCGATTATATAGCTCAC
Found at i:44432982 original size:22 final size:23
Alignment explanation
Indices: 44432935--44432979 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
44432925 TATTAGGGTT
44432935 TTAGGGCTTTTAAGGTTTATTAA
1 TTAGGGCTTTTAAGGTTTATTAA
*
44432958 TTAGGG-TTTTAGAGTTTTATTA
1 TTAGGGCTTTTA-AGGTTTATTA
44432980 TTAAGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.51
Consensus pattern (23 bp):
TTAGGGCTTTTAAGGTTTATTAA
Found at i:44437579 original size:41 final size:41
Alignment explanation
Indices: 44437534--44437762 Score: 368
Period size: 41 Copynumber: 5.6 Consensus size: 41
44437524 GGTTTTAAAA
*
44437534 CCTAGCAGGCTAAGTTCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
44437575 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
44437616 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
44437657 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
44437698 CCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
44437739 CCTAACAGGGCTAAGTGCCAGTGA
1 CCTAGCA-GGCTAAGTGCCGGTGA
44437763 ATTTGTTTAA
Statistics
Matches: 175, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 161 0.92
42 14 0.08
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:44444576 original size:41 final size:41
Alignment explanation
Indices: 44444531--44444718 Score: 295
Period size: 41 Copynumber: 4.6 Consensus size: 41
44444521 GGTTTTAAAA
*
44444531 CCTAGCAGGCTAAGTTCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
44444572 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
44444613 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
44444654 CCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
44444695 CCTAACAGGGCTAAGTGCCAGTGA
1 CCTAGCA-GGCTAAGTGCCGGTGA
44444719 GTTTGTTTAA
Statistics
Matches: 134, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 120 0.90
42 14 0.10
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:44445905 original size:17 final size:16
Alignment explanation
Indices: 44445883--44445936 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
44445873 AATCGCCACC
44445883 AATATTATTTGGTTTGT
1 AATATTATTTGGTTT-T
44445900 AATATTCCATTT-GTTTT
1 AATATT--ATTTGGTTTT
*
44445917 TATATTATTTGGTATTT
1 AATATTATTTGGT-TTT
44445934 AAT
1 AAT
44445937 CGTCACTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 4 0.13
16 2 0.06
17 17 0.55
18 4 0.13
19 4 0.13
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.59
Consensus pattern (16 bp):
AATATTATTTGGTTTT
Found at i:44449210 original size:18 final size:19
Alignment explanation
Indices: 44449187--44449229 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
44449177 GAAAATATTA
44449187 ATAAAAAATAGAA-TTTAG
1 ATAAAAAATAGAATTTTAG
44449205 AT-AAAAATAGAATTTTAG
1 ATAAAAAATAGAATTTTAG
44449223 -TAAAAAA
1 ATAAAAAA
44449230 ATTAATAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
ATAAAAAATAGAATTTTAG
Found at i:44449212 original size:17 final size:17
Alignment explanation
Indices: 44449190--44449228 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
44449180 AATATTAATA
44449190 AAAAATAGAA-TTTAGAT
1 AAAAATAGAATTTTAG-T
44449207 AAAAATAGAATTTTAGT
1 AAAAATAGAATTTTAGT
44449224 AAAAA
1 AAAAA
44449229 AATTAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (17 bp):
AAAAATAGAATTTTAGT
Found at i:44454532 original size:687 final size:661
Alignment explanation
Indices: 44453550--44455184 Score: 1725
Period size: 687 Copynumber: 2.4 Consensus size: 661
44453540 AAATTAAATA
* * * *
44453550 AAAATTATTAAAAATATTGAAAATTATGTAATAATGCTAAATTA-TTGTTTAAAAAAA-TGTACA
1 AAAATTATTAAAAATATTGAAAATTATATAATAATGCTAAATTATTTTTTTAAAAAAATTCTAAA
* * * *
44453613 ATGATAAATTTAAAGTCTTAAATAAGTAAACTATCAATTCAAGTCTATCATTCTAATTATCTTGG
66 ATGATAAATTTGAAGCCTTAAACAAGTAAACTATCAATTCAAGTCTATCATTCTAATTATCTTGT
* * * * *
44453678 TTTTTACTCTTATTTTGTTTTCGAAAGAGTTGTTAAATTTATATGGTATTTATATTAATTAACTT
131 TTTTTTCTCTTATTTTGTTTT-AAAAGAGTTCTTAAATTT-TATGGTATTTATGTTATTTAACTT
* ** ** *
44453743 GGAATTTAGTC--CTTGCCAACAAGATGATT--ATATGACTGGTTTATTTTTTTTTAATTTGACT
194 GGAATTTAGTCATATTGTAAACAAGAT--TTCAATATGACCAGTTTA-ATTTTTTT-ATTTGACT
* * **
44453804 CAAACAAATTTATTTGATTATACTTT-TGGATTCTATTAATTAGAGGTAAAGTAATTATCTTATC
255 CAAACAAATTTATTCGATTATA-TTTGTGGATTCTATTAATTAAAGGTAAAGTAACAATCTTATC
** *** * *
44453868 CCCATTTTTAGATTTC-TAAGTAATCAATTCATCATAAGCTACATACTTTTGGCTAGAGGAGAGC
319 CCCATTTAAAGAAAACAT-AGTAATCAACTCATC-GAAGCTACATACTTTTGGCTAGAGGAGAGC
* *
44453932 AAAACTCAATTTGATTTGAAGAATAGAAATTTTCTTCGAATTT-TAAGTTAAT-GATTTTTTTGA
382 AAAACTCAATTTGATTTGAAGAATAGAAAATTTCTTCAAATTTCT-AGTTAATCGATTTTTTTGA
* *
44453995 ATCAA-C-T-TGATTCAGTTTTTCGAGTTTCAAGTTGAGTTGAATTTCACAACTTGAATAATAAA
446 ATAAACCATATGATTCAGTTTTTCGAGTTT-AAGTT-AGTTGAATTTCACAACTTGAATAACAAA
* ** * * *
44454057 TTGATGTACGTAATCATTAGGTCCCTGGCAG-TTTGAAAAATGTACAAATTAGTCCCTCTCAAAA
509 TTGAGGTAAATAACCATTAGGTCCCTGACAGTTTTG-AAAATGTACAAATAAG---C-CTC----
* * *
44454121 AATTTCCAAAAAAAATTCAAATAATCTTCTAAAATTCAAAATATTTAT-AATGTTTTCCCCAAAA
565 --TGT---AAAAAAATTCAAATAATCTTCAAAAATTCAAAATATTTATAAATGTTTTCCACAAAA
*
44454185 TTTATAATTACATATAAA-TGAAAACAA-TTAAATATCATATT
625 -TTAT-A-T--ATATAAATTGAAAAAAACTTAAATATCATA-T
44454226 AAAATTATTAAAAATATTGAAAATTATATAATAATGCTAAATTATTATTATTTTTTTAAAAAAAA
1 AAAATTATTAAAAATATTGAAAATTATATAATAATGCT--A--A--ATTATTTTTTT-AAAAAAA
** * * *
44454291 TTCTAAAACAATAAATTTGAAGCCTTAAACAAGTAAACTATCCATTTAAGTCTATCATT-TGATT
59 TTCTAAAATGATAAATTTGAAGCCTTAAACAAGTAAACTATCAATTCAAGTCTATCATTCT-AAT
* * *
44454355 TATCTTTATTTTTTTTCTCTTATTTTGTTTTATAAAAAGTTCTTAGACTTTTATGGTATTTATGT
123 TATC-TT-GTTTTTTTCTCTTATTTTGTTTTA-AAAGAGTTCTTA-AATTTTATGGTATTTATGT
* * * * *
44454420 TCTTTAACTTAGAATTTAATCATATTGTTAACAAAATTTCAATATGACCAGTTTAATTTCTTTTA
184 TATTTAACTTGGAATTTAGTCATATTGTAAACAAGATTTCAATATGACCAGTTTAATTT-TTTTA
* * * * *
44454485 TTCGACTCTAACAAATTT-TTCGATTATATTTGTGGATTTTGTTAATTAAAGGTAAAGTAGCAAT
248 TTTGACTCAAACAAATTTATTCGATTATATTTGTGGATTCTATTAATTAAAGGTAAAGTAACAAT
* * * * *
44454549 CTTATTCCCATTTAAAGAAAACATAGTAATCAACTCATCGAAGCTACATTCTTTTGGTTAGTGGT
313 CTTATCCCCATTTAAAGAAAACATAGTAATCAACTCATCGAAGCTACATACTTTTGGCTAGAGGA
* *
44454614 GAGCAAAACTCAATTTGATTTGAAGAATGGAAAATTTCTTTAAATTTCTAGTTAATCGATTTTTT
378 GAGCAAAACTCAATTTGATTTGAAGAATAGAAAATTTCTTCAAATTTCTAGTTAATCGATTTTTT
* *
44454679 TGAATAAACTCGAATAAGTGATTCATTTTTTCGAGTTTGAGTTAGTTGAATTTCACAACTTGAAT
443 TGAATAAAC-C--AT-A-TGATTCAGTTTTTCGAGTTTAAGTTAGTTGAATTTCACAACTTGAAT
* * * ** * *
44454744 AACAAATTGAGGTAAATACCCCTTGGGTTGCTGATAGTTTTGAAAATGTGCAAATAAGCCTCTGT
503 AACAAATTGAGGTAAATAACCATTAGGTCCCTGACAGTTTTGAAAATGTACAAATAAGCCTCTGT
* *
44454809 AAAAAAATTCAAATAATCTTCAAAAATTCAAAATTTTTATAAAATGTTTTTCACAAAATTATATA
568 AAAAAAATTCAAATAATCTTCAAAAATTCAAAATATTTAT-AAATGTTTTCCACAAAATTATATA
* **
44454874 TATAAATTTAAAAAAACTTAAATATTGTAT
632 TATAAATTGAAAAAAACTTAAATATCATAT
* * *
44454904 AAAA-TATTAAAAAATCTTGAAAATTATATAATAATGCTAAATTATTTTTTT--AAAATTTC-AG
1 AAAATTATT-AAAAATATTGAAAATTATATAATAATGCTAAATTATTTTTTTAAAAAAATTCTAA
* * * *
44454965 AATGATAAATTTGTAGCCTTAAACAAGTAAACCATCAATTCAAGTTTACCATTCTAATTATCTTG
65 AATGATAAATTTGAAGCCTTAAACAAGTAAACTATCAATTCAAGTCTATCATTCTAATTATCTT-
44455030 GTTTTTTTCTCTTATTTTGTTTTAAAATGAGTTCTTAAATTCTTATGGTATTTATGTTATTTAAC
129 GTTTTTTTCTCTTATTTTGTTTTAAAA-GAGTTCTTAAATT-TTATGGTATTTATGTTATTTAAC
* * * *
44455095 TTGGAA-TTAGTCATATTGTAAACAAGTTTTCAATAGGGCCAGTTTAATTTTTTAAATTTGACTC
192 TTGGAATTTAGTCATATTGTAAACAAGATTTCAATATGACCAGTTTAATTTTTT-TATTTGACTC
* * *
44455159 GAATAAATTTATTCAATTATATTTGT
256 AAACAAATTTATTCGATTATATTTGT
44455185 TGTAACAACC
Statistics
Matches: 806, Mismatches: 111, Indels: 93
0.80 0.11 0.09
Matches are distributed among these distances:
665 3 0.00
666 60 0.07
667 74 0.09
668 52 0.06
669 8 0.01
672 11 0.01
674 1 0.00
676 38 0.05
677 11 0.01
678 41 0.05
679 11 0.01
680 40 0.05
681 4 0.00
682 18 0.02
683 7 0.01
684 8 0.01
685 55 0.07
686 76 0.09
687 143 0.18
688 25 0.03
689 30 0.04
690 1 0.00
692 1 0.00
693 61 0.08
694 8 0.01
695 19 0.02
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (661 bp):
AAAATTATTAAAAATATTGAAAATTATATAATAATGCTAAATTATTTTTTTAAAAAAATTCTAAA
ATGATAAATTTGAAGCCTTAAACAAGTAAACTATCAATTCAAGTCTATCATTCTAATTATCTTGT
TTTTTTCTCTTATTTTGTTTTAAAAGAGTTCTTAAATTTTATGGTATTTATGTTATTTAACTTGG
AATTTAGTCATATTGTAAACAAGATTTCAATATGACCAGTTTAATTTTTTTATTTGACTCAAACA
AATTTATTCGATTATATTTGTGGATTCTATTAATTAAAGGTAAAGTAACAATCTTATCCCCATTT
AAAGAAAACATAGTAATCAACTCATCGAAGCTACATACTTTTGGCTAGAGGAGAGCAAAACTCAA
TTTGATTTGAAGAATAGAAAATTTCTTCAAATTTCTAGTTAATCGATTTTTTTGAATAAACCATA
TGATTCAGTTTTTCGAGTTTAAGTTAGTTGAATTTCACAACTTGAATAACAAATTGAGGTAAATA
ACCATTAGGTCCCTGACAGTTTTGAAAATGTACAAATAAGCCTCTGTAAAAAAATTCAAATAATC
TTCAAAAATTCAAAATATTTATAAATGTTTTCCACAAAATTATATATATAAATTGAAAAAAACTT
AAATATCATAT
Found at i:44454933 original size:29 final size:28
Alignment explanation
Indices: 44454870--44454934 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 28
44454860 CACAAAATTA
44454870 TATATATAAATTTAAAAAAACTTAAATAT
1 TATATA-AAATTTAAAAAAACTTAAATAT
* *
44454899 TGTATAAAATATTAAAAAATCTTGAAA-AT
1 TATATAAAAT-TTAAAAAAACTT-AAATAT
44454928 TATATAA
1 TATATAA
44454935 TAATGCTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 4 0.13
29 24 0.77
30 3 0.10
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (28 bp):
TATATAAAATTTAAAAAAACTTAAATAT
Found at i:44459281 original size:53 final size:53
Alignment explanation
Indices: 44459197--44459302 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 53
44459187 TTTTATAGTG
* * * ** ** *
44459197 CCAATTACTTGAATAAAAGAGATTTTTTGTAGAATTTATTTGCTCCATTTGAT
1 CCAATCACATGAATAAAAGAGAGTTCATGTAGAATTTAACTACTCCATTTGAT
44459250 CCAATCACATGAATAAAAGAGAGTTCATGTAGAATTTAACTACTCCATTTGAT
1 CCAATCACATGAATAAAAGAGAGTTCATGTAGAATTTAACTACTCCATTTGAT
44459303 TGTTCTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (53 bp):
CCAATCACATGAATAAAAGAGAGTTCATGTAGAATTTAACTACTCCATTTGAT
Found at i:44460418 original size:19 final size:20
Alignment explanation
Indices: 44460367--44460420 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
44460357 TTAGAAGAGC
* *
44460367 TTATCTTTATTTATTTCACT
1 TTATTTTTATTTTTTTCACT
*
44460387 TGATTTTGT-TTTTTTTC-CT
1 TTATTTT-TATTTTTTTCACT
44460406 TTATTTTTATTTTTT
1 TTATTTTTATTTTTT
44460421 ATTTTAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 1 0.04
19 14 0.50
20 12 0.43
21 1 0.04
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.74
Consensus pattern (20 bp):
TTATTTTTATTTTTTTCACT
Found at i:44465168 original size:30 final size:31
Alignment explanation
Indices: 44465134--44465197 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
44465124 ATCCATATTA
44465134 TGGAAAGTCAAAGATATGGGCATC-AAATAT
1 TGGAAAGTCAAAGATATGGGCATCGAAATAT
*
44465164 TGGAAAGTCAAAGATATGGGTATCGAAATAT
1 TGGAAAGTCAAAGATATGGGCATCGAAATAT
44465195 TGG
1 TGG
44465198 CATAAGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.25
Consensus pattern (31 bp):
TGGAAAGTCAAAGATATGGGCATCGAAATAT
Found at i:44465174 original size:15 final size:16
Alignment explanation
Indices: 44465132--44465182 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
44465122 TCATCCATAT
44465132 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
44465148 TATGGGCA-TCAAATA
1 TATGGAAAGTCAAAGA
44465163 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
44465178 TATGG
1 TATGG
44465183 GTATCGAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 4 0.15
15 14 0.52
16 9 0.33
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.24
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:44469806 original size:30 final size:31
Alignment explanation
Indices: 44469772--44469835 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
44469762 ATCCATATTA
44469772 TGGAAAGTCAAAGATATGGGTA-TCAAATAT
1 TGGAAAGTCAAAGATATGGGTATTCAAATAT
* *
44469802 TGGAAAGTCAAATATATGGGTATTGAAATAT
1 TGGAAAGTCAAAGATATGGGTATTCAAATAT
44469833 TGG
1 TGG
44469836 CATAAGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (31 bp):
TGGAAAGTCAAAGATATGGGTATTCAAATAT
Found at i:44469812 original size:15 final size:16
Alignment explanation
Indices: 44469770--44469820 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
44469760 GCATCCATAT
*
44469770 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAATA
**
44469786 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAATA
44469801 T-TGGAAAGTCAAATA
1 TATGGAAAGTCAAATA
44469816 TATGG
1 TATGG
44469821 GTATTGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 4 0.14
15 15 0.54
16 9 0.32
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.27
Consensus pattern (16 bp):
TATGGAAAGTCAAATA
Found at i:44475405 original size:18 final size:19
Alignment explanation
Indices: 44475369--44475415 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
44475359 TTATAACTAT
44475369 TTATATATATATCATCTTA
1 TTATATATATATCATCTTA
*
44475388 TTATATATTTAT-ATCTTA
1 TTATATATATATCATCTTA
44475406 TTATATATAT
1 TTATATATAT
44475416 CTATATATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATATATATATCATCTTA
Found at i:44475587 original size:30 final size:29
Alignment explanation
Indices: 44475551--44475607 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
44475541 TTTTATATAT
*
44475551 ATATACATACTTACACTGTTTTATTTTACG
1 ATATACATACTTACA-TCTTTTATTTTACG
*
44475581 ATATACATACTTATATCTTTTATTTTA
1 ATATACATACTTACATCTTTTATTTTA
44475608 TGTAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.51
Consensus pattern (29 bp):
ATATACATACTTACATCTTTTATTTTACG
Found at i:44479405 original size:12 final size:11
Alignment explanation
Indices: 44479381--44479454 Score: 69
Period size: 12 Copynumber: 6.5 Consensus size: 11
44479371 AAAAATTGTT
*
44479381 AAAAGAAGAAG
1 AAAAAAAGAAG
44479392 AAAAAAAGAGAG
1 AAAAAAAGA-AG
44479404 AAAAAAAGAA-
1 AAAAAAAGAAG
* * *
44479414 AAAGAAGGAAA
1 AAAAAAAGAAG
44479425 AAGAAAAAGAAG
1 AA-AAAAAGAAG
*
44479437 AAAAAAGAAAAG
1 AAAAAA-AGAAG
44479449 AAAAAA
1 AAAAAA
44479455 GGAGAGGCCA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
10 8 0.15
11 15 0.29
12 29 0.56
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:44479417 original size:32 final size:32
Alignment explanation
Indices: 44479381--44479447 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
44479371 AAAAATTGTT
*
44479381 AAAAGAA-GAAGAA-AAAAAGAGAGAAAAAAAGA
1 AAAAGAAGGAAAAAGAAAAAGA-AG-AAAAAAGA
44479413 AAAAGAAGGAAAAAGAAAAAGAAGAAAAAAGA
1 AAAAGAAGGAAAAAGAAAAAGAAGAAAAAAGA
44479445 AAA
1 AAA
44479448 GAAAAAAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 18 0.56
33 7 0.22
34 7 0.22
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (32 bp):
AAAAGAAGGAAAAAGAAAAAGAAGAAAAAAGA
Found at i:44479418 original size:26 final size:24
Alignment explanation
Indices: 44479381--44479452 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 24
44479371 AAAAATTGTT
*
44479381 AAAAGAAGAAGAAAAAAAGAGAGAAA
1 AAAAGAAAAAGAAAAAAA-AGA-AAA
*
44479407 AAAAGAAAAAGAAGGAAAAAGAAAA
1 AAAAGAAAAAGAA-AAAAAAGAAAA
*
44479432 AGAAGAAAAAAGAAAAGAAAA
1 AAAAG-AAAAAGAAAA-AAAA
44479453 AAGGAGAGGC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 8 0.21
26 27 0.69
27 4 0.10
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (24 bp):
AAAAGAAAAAGAAAAAAAAGAAAA
Found at i:44479427 original size:16 final size:16
Alignment explanation
Indices: 44479381--44479447 Score: 84
Period size: 16 Copynumber: 4.2 Consensus size: 16
44479371 AAAAATTGTT
*
44479381 AAAAGAAG-AAGAA-A
1 AAAAGAAGAAAAAAGA
44479395 AAAAGAGAGAAAAAAAGA
1 AAAAGA-AG-AAAAAAGA
*
44479413 AAAAGAAGGAAAAAGA
1 AAAAGAAGAAAAAAGA
44479429 AAAAGAAGAAAAAAGA
1 AAAAGAAGAAAAAAGA
44479445 AAA
1 AAA
44479448 GAAAAAAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
14 6 0.13
15 2 0.04
16 25 0.54
17 6 0.13
18 7 0.15
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAGAAGAAAAAAGA
Found at i:44480862 original size:50 final size:50
Alignment explanation
Indices: 44480769--44481596 Score: 304
Period size: 50 Copynumber: 16.6 Consensus size: 50
44480759 GCAATTCAAA
* * * * *
44480769 AGATTGAAGCCACAACGGCGAATCTTACTT-CACAGACCA-TGCAACGGAGC
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCA-A-CATTGCAACGGAAC
* * *** *
44480819 AGGTTGAAGCTACGACGGTGAATCTCACTTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCAACATTGCAACGGAAC
* * * ** * * *
44480869 AGATTGAAACCACAACGGTGAATCTTACTT-CCC-AGGTGATGTAGCAGAAC
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCAACAT--TGCAACGGAAC
* * *** *
44480919 AGATTGAAGCTACGACGGTGAGTCTCACTTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCAACATTGCAACGGAAC
* * * * *
44480969 AGATTGAAGCCACAACGGTGAATCTTACTT-CCCAGGCGA-TGCAGCGAAAC
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCA-AC-ATTGCAACGGAAC
* * * * *** *** *
44481019 ATATTGAAGCTATGACGGCGAATCTCACTTCCGTGACATTGCAATTCAAA
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCAACATTGCAACGGAAC
* * * *
44481069 AGATTGAAGCCACAACAGTGAATCTTACTT-CCCAAGCGA-TGCAGCGGAAC
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCAA-C-ATTGCAACGGAAC
* * * *** *
44481119 AAATTGAAGCTACGACGGTGAATCTTACTTCCGCGACATTGCAATTCAAA
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCAACATTGCAACGGAAC
* * * * * * *
44481169 AGATTGAAGCCACAATGGCGAATCTTACTT-CCCAGGCGA-TGCAGCAGAAC
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCA-AC-ATTGCAACGGAAC
* ** * * * *** *
44481219 AGATTGAAGCGACGACGGCAAATCTCACTTCCGCGACATTGCAATTCAAA
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCAACATTGCAACGGAAC
* * * *
44481269 AGATTGAAGCCACAATGGTGAATCTTACTT-CCCAGGCGA-TGC-ACGGAAC
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCA-AC-ATTGCAACGGAAC
* * * * * *** *
44481318 ATATTGAAGCTACAACGGCGAATCTCACTTCCTCAACATTGCAATTTAAA
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCAACATTGCAACGGAAC
* * * ** * * * * * *
44481368 ATATTTAAGCCATAACAGCGAATCTTACTT-CCCAGGCGA-TGTAGCAGAAC
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCA-AC-ATTGCAACGGAAC
* * * * ** *
44481418 AAATTGAAGCTACGACGGTGAATCTCATTTCCCCGACATTGCAA-TTAAA
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCAACATTGCAACGGAAC
* * * * * ** *
44481467 AGATTGAAACGACAACGGTGAATCTTACTT-TCCAGGCGGTGCAGCGGAAC
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCA-ACATTGCAACGGAAC
* *** ** * * *** *
44481517 AGATTGAAGCTACAACAACGAATCTTGTTTCCCCGACATTGTAATTAAAA
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCCAACATTGCAACGGAAC
* *
44481567 AGATTTAAGCTACAACGGTGAATCTTACTT
1 AGATTGAAGCTACGACGGTGAATCTTACTT
44481597 TTTAGGCAGT
Statistics
Matches: 542, Mismatches: 206, Indels: 60
0.67 0.25 0.07
Matches are distributed among these distances:
48 5 0.01
49 85 0.16
50 428 0.79
51 22 0.04
52 2 0.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCTACGACGGTGAATCTTACTTCCCCAACATTGCAACGGAAC
Found at i:44480930 original size:100 final size:100
Alignment explanation
Indices: 44480757--44481981 Score: 1295
Period size: 100 Copynumber: 12.4 Consensus size: 100
44480747 AAACCATAGT
* * * * * * * *
44480757 TTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCACAGACCATGCAACGGAGCAGG
1 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* *
44480822 TTGAAGCTACGACGGTGAATCTCACTTCCCCAACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * *
44480857 TTGCAATTTAAAAGATTGAAACCACAACGGTGAATCTTACTTCCCAGGTGATGTAGCAGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* * *
44480922 TTGAAGCTACGACGGTGAGTCTCACTTCCCCAACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* *
44480957 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGAAACATA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* **
44481022 TTGAAGCTATGACGGCGAATCTCACTTCCGTGACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * *
44481057 TTGCAATTCAAAAGATTGAAGCCACAACAGTGAATCTTACTTCCCAAGCGATGCAGCGGAACAAA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* * *
44481122 TTGAAGCTACGACGGTGAATCTTACTTCCGCGACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * *
44481157 TTGCAATTCAAAAGATTGAAGCCACAATGGCGAATCTTACTTCCCAGGCGATGCAGCAGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* * *
44481222 TTGAAGCGACGACGGCAAATCTCACTTCCGCGACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * *
44481257 TTGCAATTCAAAAGATTGAAGCCACAATGGTGAATCTTACTTCCCAGGCGATGCA-CGGAACATA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* * *
44481321 TTGAAGCTACAACGGCGAATCTCACTTCCTCAACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * * * * * *
44481356 TTGCAATTTAAAATATTTAAGCCATAACAGCGAATCTTACTTCCCAGGCGATGTAGCAGAACAAA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* *
44481421 TTGAAGCTACGACGGTGAATCTCATTTCCCCGACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * *
44481456 TTGCAA-TTAAAAGATTGAAACGACAACGGTGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* ** ***
44481520 TTGAAGCTACAACAACGAATCTTGTTTCCCCGACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * * *** * * *
44481555 TTGTAATTAAAAAGATTTAAGCTACAACGGTGAATCTTACTTTTTAGGC-AGTACAACGAAACAG
1 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGA-TGCAGCGGAACAG
* * **
44481619 ATTGAAGCTATGACGGCAAATCTTGCTTCCCCGACA
65 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* ** * *** * * * *
44481655 ATGCAA-TTAAAAGATTGGGGCCAAAACAACGAATCTTACTT-CCAGGCGGTGTAGCGAAATAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* * ** *
44481718 TTGAAGCTAGGACGGGGAATCTTGCTTACCCGACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * ** * *
44481753 TTACAA-TTAAAAGATTGAGGCCACAACGACGAATCTTACTT-CCAGGCGGTGCAGTGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* * ** * *
44481816 TTGAAGCTACAACGGCAAATCTTGCTTCCCCAATA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * *** * * * *
44481851 TTGTAA-TTAAAAGATTGAGGCCACAACAACGAATCTTACTT-CCAGGCGGTACAGCGAAATAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
** * *
44481914 TTGAAGCTACGA---CGAATCTTGCTTTCTCGACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
*
44481946 TTGCAATTTAAAAGATTGAAGTCACAACGGTGAATC
1 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATC
44481982 ACGCTTCCCC
Statistics
Matches: 961, Mismatches: 159, Indels: 14
0.85 0.14 0.01
Matches are distributed among these distances:
95 20 0.02
96 24 0.02
98 194 0.20
99 190 0.20
100 533 0.55
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (100 bp):
TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
Found at i:44481787 original size:49 final size:48
Alignment explanation
Indices: 44481734--44482032 Score: 190
Period size: 49 Copynumber: 6.1 Consensus size: 48
44481724 CTAGGACGGG
*
44481734 GAATCTTGCTTACCCGACATTACAATTAAAAGATTGAGGCCACAACGAC
1 GAATCTTGCTT-CCCGACATTACAATTAAAAGATTGAAGCCACAACGAC
* * * ** * * * * * *
44481783 GAATCTTACTTCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGC
1 GAATCTTGCTTCCCGACATTACAAT-TAAAAGATTGAAGCCACAACGAC
* * * ** * *
44481832 AAATCTTGCTTCCCCAATATTGTAATTAAAAGATTGAGGCCACAACAAC
1 GAATCTTGCTT-CCCGACATTACAATTAAAAGATTGAAGCCACAACGAC
* * * ** *** *
44481881 GAATCTTACTTCCAGGCGGTACAGCGAAATAGATTGAAG---CTACGAC
1 GAATCTTGCTTCCCGACATTACAATTAAA-AGATTGAAGCCACAACGAC
* * * **
44481927 GAATCTTGCTTTCTCGACATTGCAATTTAAAAGATTGAAGTCACAACGGT
1 GAATCTTGC-TTCCCGACATTACAA-TTAAAAGATTGAAGCCACAACGAC
** *
44481977 GAATCACGCTTCCCCGACATTACAATTAAAAGATTGAGGCCACAACGAC
1 GAATCTTGCTT-CCCGACATTACAATTAAAAGATTGAAGCCACAACGAC
44482026 GAATCTT
1 GAATCTT
44482033 ACCTTCCCAG
Statistics
Matches: 174, Mismatches: 67, Indels: 18
0.67 0.26 0.07
Matches are distributed among these distances:
46 13 0.07
47 17 0.10
48 18 0.10
49 98 0.56
50 28 0.16
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (48 bp):
GAATCTTGCTTCCCGACATTACAATTAAAAGATTGAAGCCACAACGAC
Found at i:44481991 original size:145 final size:148
Alignment explanation
Indices: 44481813--44482102 Score: 381
Period size: 145 Copynumber: 2.0 Consensus size: 148
44481803 GCAGTGGAAC
** * **
44481813 AGATTGAAGCTACAACGGCAAATCTTGCTTCCCCAATATTGTAATTAAAAGATTGAGGCCACAAC
1 AGATTGAAGCTACAACGGCAAATCACGCTTCCCCAACATTACAATTAAAAGATTGAGGCCACAAC
* *
44481878 AACGAATCTTA-CTT-CCAGGCGGTACAGCGAAATAGATTGAAGCTAC-GACGAATCTTGCTTTC
66 AACGAATCTTACCTTCCCAGGCGGTACAGCGAAATAGATTGAAGCTACAGACGAATCTTCCTTCC
*
44481940 TCGACATTGCAATTTAAA
131 CCGACATTGCAATTTAAA
** *
44481958 AGATTGAAG-TCACAACGGTGAATCACGCTTCCCCGACATTACAATTAAAAGATTGAGGCCACAA
1 AGATTGAAGCT-ACAACGGCAAATCACGCTTCCCCAACATTACAATTAAAAGATTGAGGCCACAA
* * * * *
44482022 CGACGAATCTTACCTTCCCAGGCGGTGCAGTGGAATAGATTGAAGCTACAAAGGCGAATCTTCCT
65 CAACGAATCTTACCTTCCCAGGCGGTACAGCGAAATAGATTGAAGCTAC--AGACGAATCTTCCT
44482087 TCCCCGACATTGCAAT
128 TCCCCGACATTGCAAT
44482103 CTCATTTCCC
Statistics
Matches: 123, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
144 1 0.01
145 65 0.53
146 3 0.02
147 29 0.24
150 25 0.20
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (148 bp):
AGATTGAAGCTACAACGGCAAATCACGCTTCCCCAACATTACAATTAAAAGATTGAGGCCACAAC
AACGAATCTTACCTTCCCAGGCGGTACAGCGAAATAGATTGAAGCTACAGACGAATCTTCCTTCC
CCGACATTGCAATTTAAA
Found at i:44482342 original size:85 final size:85
Alignment explanation
Indices: 44482218--44482434 Score: 371
Period size: 85 Copynumber: 2.5 Consensus size: 85
44482208 TTCTTCGGTG
* * * * *
44482218 AACAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGACTTT
1 AACAGGTTGAAGATA-CAAGTCTTATCCCCCTAAAGTTGCAGTAGAGTAGATCGCATCAGACTTT
44482283 ATTTTCTTAAAGATGCAGTAA
65 ATTTTCTTAAAGATGCAGTAA
44482304 AACAGGTTGAAGATACAAGTCTTATCCCCCTAAAGTTGCAGTAGAGTAGATCGCATCAGACTTTA
1 AACAGGTTGAAGATACAAGTCTTATCCCCCTAAAGTTGCAGTAGAGTAGATCGCATCAGACTTTA
44482369 TTTTCTTAAAGATGCAGTAA
66 TTTTCTTAAAGATGCAGTAA
*
44482389 AACAGGTTGAAGATACAAGTCTTATACCCCTAAAGTTGCAGTAGAG
1 AACAGGTTGAAGATACAAGTCTTATCCCCCTAAAGTTGCAGTAGAG
44482435 CATACTGAGC
Statistics
Matches: 125, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
85 111 0.89
86 14 0.11
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (85 bp):
AACAGGTTGAAGATACAAGTCTTATCCCCCTAAAGTTGCAGTAGAGTAGATCGCATCAGACTTTA
TTTTCTTAAAGATGCAGTAA
Found at i:44482385 original size:41 final size:41
Alignment explanation
Indices: 44482255--44482387 Score: 115
Period size: 41 Copynumber: 3.2 Consensus size: 41
44482245 TCTCTGAAGT
44482255 TGCAGTAGAGTAGATCGCATCAGACTTTATTTTCTTAAAGA
1 TGCAGTAGAGTAGATCGCATCAGACTTTATTTTCTTAAAGA
* ** * * * * *** * *
44482296 TGCAGTAAAACAGGTTGAAGATACA-AGTCTTATCCCCCTAAAGT
1 TGCAGTAGAGTAGATCG--CAT-CAGACT-TTATTTTCTTAAAGA
44482340 TGCAGTAGAGTAGATCGCATCAGACTTTATTTTCTTAAAGA
1 TGCAGTAGAGTAGATCGCATCAGACTTTATTTTCTTAAAGA
44482381 TGCAGTA
1 TGCAGTA
44482388 AAACAGGTTG
Statistics
Matches: 63, Mismatches: 24, Indels: 10
0.65 0.25 0.10
Matches are distributed among these distances:
41 31 0.49
42 4 0.06
43 4 0.06
44 24 0.38
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (41 bp):
TGCAGTAGAGTAGATCGCATCAGACTTTATTTTCTTAAAGA
Found at i:44484214 original size:18 final size:19
Alignment explanation
Indices: 44484178--44484224 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
44484168 TTATAACTAT
44484178 TTATATATATATCATCTTA
1 TTATATATATATCATCTTA
*
44484197 TTATATATTTAT-ATCTTA
1 TTATATATATATCATCTTA
44484215 TTATATATAT
1 TTATATATAT
44484225 CTATATATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATATATATATCATCTTA
Found at i:44484396 original size:30 final size:29
Alignment explanation
Indices: 44484360--44484416 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
44484350 ATATATATAT
*
44484360 ATATACATACTTACACTGTTTTATTTTACG
1 ATATACATACTTACA-TCTTTTATTTTACG
*
44484390 ATATACATACTTATATCTTTTATTTTA
1 ATATACATACTTACATCTTTTATTTTA
44484417 TGTAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.51
Consensus pattern (29 bp):
ATATACATACTTACATCTTTTATTTTACG
Found at i:44487453 original size:4 final size:4
Alignment explanation
Indices: 44487444--44487470 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
44487434 AAGAATGCAA
44487444 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
44487471 AGAGACCGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:44489162 original size:50 final size:50
Alignment explanation
Indices: 44489094--44490422 Score: 694
Period size: 50 Copynumber: 26.7 Consensus size: 50
44489084 TTTGCAATTT
*
44489094 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCTG
** * * * * * ** *
44489144 AGCAGGTTGAAGCTACAACGGCGAATCTCACTTCCCTGAC-ATTGCAATTT
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCTG
* * *
44489194 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGTGATGTAGCAG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCTG
* * * * * ** *
44489244 AACAGATTGAAGCTACAACGGTGAATCTCACTTCCCCA-AC-ATTGCAATTT
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTT-CCCAGGCGA-TGCAGCTG
* * *
44489294 AAAAGATTGAAGCCATAAC-GCTGAATCTTACTTCCTAGGCGATGCAGCGG
1 AAAAGATTGAAGCCACAACGGC-GAATCTTACTTCCCAGGCGATGCAGCTG
* * * * * ** *
44489344 AACAGATTGAAGCTACGACGGCGAATCTCACTTCCGC-GAC-ATTGCAATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGGCGA-TGCAGCTG
* *
44489394 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCTG
* * * * * * * ** *
44489444 AATAGATTGAAGCTACGACGGTGAATCTCACTTCCGAGAC-ATTGCAATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCTG
* *
44489494 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGTGATGCAGCAG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCTG
* * * * * ** *
44489544 AATAGATTGAAGCGACGACGGCGAATCTCACTTCCGC-GAC-ATTGCAATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGGCGA-TGCAGCTG
* * * *
44489594 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGTGATGCAACGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCTG
* * * * * * *
44489644 AACATATTGAAGCTACAACGGCGAATCTCACTTCCTC-GAC-ATTGCAGTTT
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGGCGA-TGCAGCTG
* * * * *
44489694 AAAAGATTTAAGCCACAACAGCGAATCTTACTTCCCAGGAGATGTAGCGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCTG
* * ** * * * * * *
44489744 AACAA-ATTGAAGCTACGACGATGAATCTCATTTCCCCGAC-ATTGCA-ATT
1 AA-AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCTG
* * * * *
44489793 AAAAGATTGAAGCCACAATGGTGAATCTTACTTTCCAGGCGGTGCAGCGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCTG
* * * ** * * * ** *
44489843 AACAGATTGAAGCTACAACGACGAATCTTGTTTCCCCGAC-ATTGTAATTA
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCTG
* * ***
44489893 AAAAGATTGAAGCTACAATGGCGAATCTTACTTTTTAGGC-AGTGCAGC-G
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCTG
* * ** * * * * * *
44489942 AAACATATTGAAGCTATGACGGTGAATCTTGCTTCCCCGAC-ATTGCA-ATT
1 AAA-AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCTG
** * ** * *
44489992 AAAAGATTGGGGCCAAAACAACGAATCTTACTT-CCAGGCGGTGTAGC-G
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCTG
* * * * * * *
44490040 AAACAGATTGAAGCTACGACGGCGAATCTTGCTTACCC-GAC-ATTACA-ATT
1 AAA-AGATTGAAGCCACAACGGCGAATCTTACTT-CCCAGGCGA-TGCAGCTG
* ** *
44490090 AAAAGATTGAGGCCACAACAACGAATCTTACTT-CCAGGCGGTGCAG-TGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCT-G
* * * * * * *
44490139 AACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGGC-ATTGTA-ATT
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCTG
* *
44490188 AAAAGATTGAGGCCACAACGGCGAATCTTACTT-CCAGGCGGTGCAGC-G
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCTG
* * * * * ** ** *
44490236 AAACAGATTGAAGCTACGATGGCGAATCTTGCTTTCTC--GAAATTGCAATTT
1 AAA-AGATTGAAGCCACAACGGCGAATCTTAC-TTCCCAGGCGA-TGCAGCTG
* ** * * * * *
44490287 AAAAGATTGAATCCACAACGGCGAATCACACTTCCCCGAC-ATTACA-ATT
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCTG
* *
44490336 AAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGGTGCAG-TGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTA-CTTCCCAGGCGATGCAGCT-G
* * * *
44490387 AATAGATTGAAGCTACAGCGGCGAATCTTCCTTCCC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
44490423 CGACATTGCA
Statistics
Matches: 920, Mismatches: 302, Indels: 114
0.69 0.23 0.09
Matches are distributed among these distances:
47 2 0.00
48 29 0.03
49 227 0.25
50 615 0.67
51 47 0.05
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (50 bp):
AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCTG
Found at i:44489258 original size:100 final size:100
Alignment explanation
Indices: 44489085--44490322 Score: 1522
Period size: 100 Copynumber: 12.4 Consensus size: 100
44489075 AAACCATAGT
* *
44489085 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGG
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* *
44489150 TTGAAGCTACAACGGCGAATCTCACTTCCCTGACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * *
44489185 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGTGATGTAGCAGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* * *
44489250 TTGAAGCTACAACGGTGAATCTCACTTCCCCAACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* *
44489285 TTGCAATTTAAAAGATTGAAGCCATAAC-GCTGAATCTTACTTCCTAGGCGATGCAGCGGAACAG
1 TTGCAATTTAAAAGATTGAAGCCACAACGGC-GAATCTTACTTCCCAGGCGATGCAGCGGAACAG
*
44489349 ATTGAAGCTACGACGGCGAATCTCACTTCCGCGACA
65 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * *
44489385 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAATAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* **
44489450 TTGAAGCTACGACGGTGAATCTCACTTCCGAGACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * *
44489485 TTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGTGATGCAGCAGAATAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* *
44489550 TTGAAGCGACGACGGCGAATCTCACTTCCGCGACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * * *
44489585 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGTGATGCAACGGAACATA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* *
44489650 TTGAAGCTACAACGGCGAATCTCACTTCCTCGACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * * * *
44489685 TTGCAGTTTAAAAGATTTAAGCCACAACAGCGAATCTTACTTCCCAGGAGATGTAGCGGAACAAA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
** *
44489750 TTGAAGCTACGACGATGAATCTCATTTCCCCGACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * *
44489785 TTGCAA-TTAAAAGATTGAAGCCACAATGGTGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* * ***
44489849 TTGAAGCTACAACGACGAATCTTGTTTCCCCGACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * * *** * *
44489884 TTGTAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTTTAGGC-AGTGCAGCGAAACAT
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGGAACAG
* * **
44489948 ATTGAAGCTATGACGGTGAATCTTGCTTCCCCGACA
65 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
** * ** * * *
44489984 TTGCAA-TTAAAAGATTGGGGCCAAAACAACGAATCTTACTT-CCAGGCGGTGTAGCGAAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
** *
44490047 TTGAAGCTACGACGGCGAATCTTGCTTACCCGACA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * ** * *
44490082 TTACAA-TTAAAAGATTGAGGCCACAACAACGAATCTTACTT-CCAGGCGGTGCAGTGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* ** *
44490145 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGGCA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * *
44490180 TTGTAA-TTAAAAGATTGAGGCCACAACGGCGAATCTTACTT-CCAGGCGGTGCAGCGAAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* ** * * *
44490243 TTGAAGCTACGATGGCGAATCTTGCTTTCTCGAAA
66 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* **
44490278 TTGCAATTTAAAAGATTGAATCCACAACGGCGAATCACACTTCCC
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
44490323 CGACATTACA
Statistics
Matches: 1008, Mismatches: 123, Indels: 14
0.88 0.11 0.01
Matches are distributed among these distances:
98 228 0.23
99 145 0.14
100 634 0.63
101 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (100 bp):
TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
Found at i:44491703 original size:26 final size:26
Alignment explanation
Indices: 44491660--44491711 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
44491650 TTGATTTGTA
* ** *
44491660 ATAATATATATATTATAAATATATAC
1 ATAATATATAAAAAATAAAAATATAC
44491686 ATAATATATAAAAAATAAAAATATAC
1 ATAATATATAAAAAATAAAAATATAC
44491712 CTTTTCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAATATATAAAAAATAAAAATATAC
Found at i:44492463 original size:21 final size:19
Alignment explanation
Indices: 44492439--44492493 Score: 76
Period size: 18 Copynumber: 2.8 Consensus size: 19
44492429 TAATAACTAT
44492439 TTATATATATATATCATCTTA
1 TTATATATAT-TAT-ATCTTA
44492460 TTATATAT-TTATATCTTA
1 TTATATATATTATATCTTA
44492478 TTATATATATCTATAT
1 TTATATATAT-TATAT
44492494 ATCTCTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 14 0.44
19 4 0.12
20 6 0.19
21 8 0.25
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATATATATTATATCTTA
Found at i:44499267 original size:36 final size:37
Alignment explanation
Indices: 44499184--44499274 Score: 114
Period size: 36 Copynumber: 2.5 Consensus size: 37
44499174 TCTAATGGAG
*
44499184 GACATGGCTTTT-AAGCTACACATAGAACAAATGAAAA
1 GACATGCCTTTTCAA-CTACACATAGAACAAATGAAAA
** * *
44499221 GACATGCCTTTTCAACTACACAT-GGTCAAGTGAAGA
1 GACATGCCTTTTCAACTACACATAGAACAAATGAAAA
44499257 GACATGCCTTTTCAACTA
1 GACATGCCTTTTCAACTA
44499275 TACACCATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
36 27 0.56
37 19 0.40
38 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (37 bp):
GACATGCCTTTTCAACTACACATAGAACAAATGAAAA
Found at i:44501125 original size:97 final size:98
Alignment explanation
Indices: 44501005--44501201 Score: 333
Period size: 97 Copynumber: 2.0 Consensus size: 98
44500995 AAAAACCCTA
* *
44501005 AGGTAAGAAATTGTTACCAACATTAACAACGAAAAGGAAAAGAAAACTAGGTTTAGCAGCCGCAT
1 AGGTAAGAAAGTGTTACCAACATTAACAACAAAAAGGAAAAGAAAACTAGGTTTAGCAGCCGCAT
*
44501070 TTTTTTC-AAAAAAAACTCTTTGAAACATTCAG
66 TTTTTTCGAAAAAAAACTCTCTGAAACATTCAG
* * *
44501102 AGGTAAGAGAGTGTTACCGACATTAACAACAAAAAGGAAAAGAAAACTAGGTTTAGTAGCCGCAT
1 AGGTAAGAAAGTGTTACCAACATTAACAACAAAAAGGAAAAGAAAACTAGGTTTAGCAGCCGCAT
44501167 TTTTTTCGAAAAAAAACTCTCTGAAACATTCAG
66 TTTTTTCGAAAAAAAACTCTCTGAAACATTCAG
44501200 AG
1 AG
44501202 AGAGTTTTTG
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
97 67 0.72
98 26 0.28
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (98 bp):
AGGTAAGAAAGTGTTACCAACATTAACAACAAAAAGGAAAAGAAAACTAGGTTTAGCAGCCGCAT
TTTTTTCGAAAAAAAACTCTCTGAAACATTCAG
Found at i:44506766 original size:22 final size:21
Alignment explanation
Indices: 44506736--44506777 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
44506726 TCTCCCAATG
44506736 ATACAGTTATGCCAAGTATGT
1 ATACAGTTATGCCAAGTATGT
44506757 ATACAAGTTATGCCAAGTATG
1 ATAC-AGTTATGCCAAGTATG
44506778 CTTACCTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (21 bp):
ATACAGTTATGCCAAGTATGT
Found at i:44509566 original size:27 final size:27
Alignment explanation
Indices: 44509497--44509570 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
44509487 TTCTCATCCT
* *
44509497 ATTTTACCTCTAGT-TAATTTTTGATG
1 ATTTTACCCCTAGTAAAATTTTTGATG
* *
44509523 ATTTTACCCC-CGATAAAATTTTTTATG
1 ATTTTACCCCTAG-TAAAATTTTTGATG
44509550 ATTTTACCCCTAGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
44509571 CAAGATAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 10 0.25
27 28 0.70
28 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.47
Consensus pattern (27 bp):
ATTTTACCCCTAGTAAAATTTTTGATG
Done.