Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 53 of 320
Found at i:15411418 original size:86 final size:87
Alignment explanation
Indices: 15411273--15411469 Score: 297
Period size: 86 Copynumber: 2.3 Consensus size: 87
15411263 AGATAGCAAG
* * *
15411273 TCTTATCTCCCTAAGCAATAGTGGAACATATCAAAGATGATGGGCCTTAACCCCCTAAGCAATAG
1 TCTTATCTCCCTAAGCAATAGTGGAACAAATCAAAGACGATGAGCCTTAACCCCCTAAGCAATAG
*
15411338 GGTAACAGGCTG-AATTACAGA
66 GGTAACAGGCTGAAATTACAAA
* * * *
15411359 TCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAATAGTGGAACAAATCAAAGACGATGAGCCTTAACCCCCTAAGCAATAG
15411424 GGTAACAGGCTGAAAATTACAAA
66 GGTAACAGGCTG-AAATTACAAA
*
15411447 TCTTGTCTCCCTAAGCAATAGTG
1 TCTTATCTCCCTAAGCAATAGTG
15411470 TAGTAGATTT
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
86 70 0.71
88 29 0.29
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (87 bp):
TCTTATCTCCCTAAGCAATAGTGGAACAAATCAAAGACGATGAGCCTTAACCCCCTAAGCAATAG
GGTAACAGGCTGAAATTACAAA
Found at i:15411656 original size:44 final size:43
Alignment explanation
Indices: 15411608--15411750 Score: 112
Period size: 44 Copynumber: 3.3 Consensus size: 43
15411598 CTAGGGAAGC
*
15411608 TCGAAGCCACAATTTGTATCTCCTTGAAGTTCCAGCAGAGTAGA
1 TCGAAGCCACAATTTGTATCTCCTTGAAGTTCCAGCGGAGT-GA
* * * * ** *
15411652 TCGAAG-CACAAATCTCT-TCTCCCTGAAATGGCA-CTGGAGCTGC
1 TCGAAGCCAC-AATTTGTATCTCCTTGAAGTTCCAGC-GGAG-TGA
* * *
15411695 TCAAAGCCACAATTCGTATCTCTTTGAAGTTCCAGCGGAGTGGA
1 TCGAAGCCACAATTTGTATCTCCTTGAAGTTCCAGCGGAGT-GA
*
15411739 TCGAAGCTACAA
1 TCGAAGCCACAA
15411751 ACCTCTTCTC
Statistics
Matches: 72, Mismatches: 20, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
42 1 0.01
43 29 0.40
44 41 0.57
45 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (43 bp):
TCGAAGCCACAATTTGTATCTCCTTGAAGTTCCAGCGGAGTGA
Found at i:15411704 original size:87 final size:87
Alignment explanation
Indices: 15411529--15411779 Score: 360
Period size: 87 Copynumber: 2.9 Consensus size: 87
15411519 TTGAAATCAT
* * *
15411529 CAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGATACAAATCTCTTCTCCCTAAAAT
1 CAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAG-CACAAATCTCTTCTCCCTGAAAT
* *
15411594 GGCACTAGG-GAAGCTCGAAGCCA
65 GGCACT-GGAGCAGCTCAAAGCCA
* *
15411617 CAATTTGTATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCACAAATCTCTTCTCCCTGAAATG
1 CAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCACAAATCTCTTCTCCCTGAAATG
*
15411682 GCACTGGAGCTGCTCAAAGCCA
66 GCACTGGAGCAGCTCAAAGCCA
* * *
15411704 CAATTCGTATCTCTTTGAAGTTCCAGCGGAGTGGATCGAAGCTACAAACCTCTTCTCCCTGAAAT
1 CAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGC-ACAAATCTCTTCTCCCTGAAAT
*
15411769 GGCATTGGAGC
65 GGCACTGGAGC
15411780 GATTGAAGCT
Statistics
Matches: 147, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
86 2 0.01
87 76 0.52
88 69 0.47
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (87 bp):
CAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCACAAATCTCTTCTCCCTGAAATG
GCACTGGAGCAGCTCAAAGCCA
Found at i:15413299 original size:35 final size:35
Alignment explanation
Indices: 15413260--15413329 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
15413250 GCTACTTTTG
15413260 CTATTTTAATTTTAAGTTAGTTAA-TTATATATATT
1 CTATTTTAATTTTAAGTTAGTTAATTTA-ATATATT
*
15413295 CTATTTTATTTTTAAGTTAGTTAATTTAATATATT
1 CTATTTTAATTTTAAGTTAGTTAATTTAATATATT
15413330 GTTAGCATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
35 30 0.91
36 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.59
Consensus pattern (35 bp):
CTATTTTAATTTTAAGTTAGTTAATTTAATATATT
Found at i:15413496 original size:3 final size:3
Alignment explanation
Indices: 15413488--15413519 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15413478 TACTTATTAC
15413488 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
15413520 CATCACTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15418315 original size:25 final size:25
Alignment explanation
Indices: 15418287--15418397 Score: 111
Period size: 25 Copynumber: 4.5 Consensus size: 25
15418277 ATACGAGCAC
*
15418287 ATAACGGGAAGCTC-TTTCGAGCCAT
1 ATAACGGGAAGCTCATGT-GAGCCAT
*
15418312 ATAATGGGAAGCTCATGTGAGCCAT
1 ATAACGGGAAGCTCATGTGAGCCAT
* *
15418337 GTAACGGGAAGCTCATGAGAGCCAT
1 ATAACGGGAAGCTCATGTGAGCCAT
* * *
15418362 A-ATCGGGAAGTTCAAGTGAGCCA-
1 ATAACGGGAAGCTCATGTGAGCCAT
* *
15418385 ATATCTGGAAGCT
1 ATAACGGGAAGCT
15418398 TCGGAGATCC
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
23 1 0.01
24 27 0.38
25 42 0.58
26 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.22
Consensus pattern (25 bp):
ATAACGGGAAGCTCATGTGAGCCAT
Found at i:15418348 original size:50 final size:49
Alignment explanation
Indices: 15418288--15418384 Score: 124
Period size: 50 Copynumber: 2.0 Consensus size: 49
15418278 TACGAGCACA
* ** *
15418288 TAACGGGAAGCTCTTTCGAGCCATATAAT-GGGAAGCTCATGTGAGCCATG
1 TAACGGGAAGCTCATGAGAGCC--ATAATCGGGAAGCTCAAGTGAGCCATG
*
15418338 TAACGGGAAGCTCATGAGAGCCATAATCGGGAAGTTCAAGTGAGCCA
1 TAACGGGAAGCTCATGAGAGCCATAATCGGGAAGCTCAAGTGAGCCA
15418385 ATATCTGGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
48 5 0.12
49 17 0.41
50 19 0.46
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.21
Consensus pattern (49 bp):
TAACGGGAAGCTCATGAGAGCCATAATCGGGAAGCTCAAGTGAGCCATG
Found at i:15421605 original size:28 final size:25
Alignment explanation
Indices: 15421574--15421628 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
15421564 TATCTAATGG
15421574 AAGATTAAATTTATTAATGATATAATAA
1 AAGATT-AATTT-TTAAT-ATATAATAA
* *
15421602 AAGATTAGTTTTTCATATATAATAA
1 AAGATTAATTTTTAATATATAATAA
15421627 AA
1 AA
15421629 AAAATCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.44
26 4 0.16
27 4 0.16
28 6 0.24
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (25 bp):
AAGATTAATTTTTAATATATAATAA
Found at i:15422408 original size:26 final size:26
Alignment explanation
Indices: 15422379--15422460 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
15422369 TGATACAAAT
*
15422379 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
15422405 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
15422431 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
15422457 TGAT
1 TGAT
15422461 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:15426878 original size:42 final size:42
Alignment explanation
Indices: 15426831--15426940 Score: 193
Period size: 42 Copynumber: 2.6 Consensus size: 42
15426821 ACTGGCACAG
*
15426831 AGCCTGCTAGGTAATAAACCTGATATCATACACCGGCATCAA
1 AGCCTGCTAGGTAATAAGCCTGATATCATACACCGGCATCAA
15426873 AGCCTGCTAGGTAATAAGCCTGATATCATACACCGGCATCAA
1 AGCCTGCTAGGTAATAAGCCTGATATCATACACCGGCATCAA
* *
15426915 AGCCTGCTAGGCAATAAGCTTGATAT
1 AGCCTGCTAGGTAATAAGCCTGATAT
15426941 ATCACTGTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (42 bp):
AGCCTGCTAGGTAATAAGCCTGATATCATACACCGGCATCAA
Found at i:15427059 original size:14 final size:15
Alignment explanation
Indices: 15427042--15427092 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
15427032 TCAACCATAG
15427042 AAATTCATACA-ATT
1 AAATTCATACACATT
* *
15427056 AAATTCA-ACATATA
1 AAATTCATACACATT
*
15427070 AAAATCATACACATT
1 AAATTCATACACATT
15427085 CAAATTCA
1 -AAATTCA
15427093 AAAACGTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
13 3 0.10
14 15 0.52
15 5 0.17
16 6 0.21
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTCATACACATT
Found at i:15437493 original size:24 final size:24
Alignment explanation
Indices: 15437457--15437616 Score: 126
Period size: 24 Copynumber: 6.7 Consensus size: 24
15437447 GGGTCAACAT
*
15437457 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
15437481 TGGCACTATGTGTGCGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
15437505 TGGCACTATGTGTGCTGATTTGGA
1 TGGCACTATGTGTGCGGATTTGAA
* * ** * * * *
15437529 TGTCAATACATGAGTGAATCTTCAA
1 TGGCACTATGTGTGCGGAT-TTGAA
* *
15437554 -GGCACTATGTGTGCGG-TGTAGCA
1 TGGCACTATGTGTGCGGAT-TTGAA
* **
15437577 TGGCACTATGTGTGCGAATTTGTT
1 TGGCACTATGTGTGCGGATTTGAA
*
15437601 TAGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
15437617 AAATCGGTTG
Statistics
Matches: 102, Mismatches: 31, Indels: 6
0.73 0.22 0.04
Matches are distributed among these distances:
23 3 0.03
24 95 0.93
25 4 0.04
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:15439068 original size:19 final size:18
Alignment explanation
Indices: 15439044--15439080 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
15439034 TCAACAATTA
15439044 TTTATTTGTATTTATAAAT
1 TTTATTT-TATTTATAAAT
*
15439063 TTTATTTTATTTTTAAAT
1 TTTATTTTATTTATAAAT
15439081 GATAGAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTATTTTATTTATAAAT
Found at i:15443242 original size:16 final size:16
Alignment explanation
Indices: 15443221--15443289 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
15443211 TTTGGTTCGC
15443221 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15443237 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15443253 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
15443270 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15443286 TGTA
1 TGTA
15443290 ATAGCAAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15443267 original size:33 final size:32
Alignment explanation
Indices: 15443221--15443289 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
15443211 TTTGGTTCGC
15443221 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
15443253 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
15443286 TGTA
1 TGTA
15443290 ATAGCAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:15443532 original size:16 final size:16
Alignment explanation
Indices: 15443504--15443549 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
15443494 TTTAATCATA
*
15443504 ATTTTTATT-AAATAT
1 ATTTTAATTAAAATAT
15443519 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
15443535 ATAATTTAA-TAAAAT
1 AT--TTTAATTAAAAT
15443550 TCTTAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 8 0.30
16 8 0.30
17 6 0.22
18 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:15443542 original size:18 final size:17
Alignment explanation
Indices: 15443515--15443549 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15443505 TTTTTATTAA
*
15443515 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15443533 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15443550 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15443632 original size:120 final size:120
Alignment explanation
Indices: 15443490--15443826 Score: 377
Period size: 120 Copynumber: 2.8 Consensus size: 120
15443480 TCAATAATAA
* *
15443490 ATAATTTAATCATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
1 ATAATTTAA-CATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTA
* * *
15443555 ATAATTAGCAGAAATT-TGT-TTTGGTAAATT-AT-TATTA-ACA-ATA-AATAATTTAAAAG
65 ATAATTA--A-AAATTCT-TATAT-G-AAATTAATAAATTATA-ATATATAATAATATAAAAG
*
15443611 ATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAA
1 ATAATTTAACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAA
* * * *
15443676 T-ATTAAATATTCTTATATGAATTTAATAAAATTATAATATATAATACTATAAAAT
66 TAATTAAAAATTCTTATATGAAATTAAT-AAATTATAATATATAATAATATAAAAG
*
15443731 ATAATTTAAAATAATTATTATTAAATATAATTTAA-TAGAAATATATAATTTAATAAAATTCTTA
1 ATAATTTAACATAATTATTATTAAATATAATTTAATTA-AAATATATAATTTAATAAAATTCTTA
* * * * *
15443795 ATATTTAAATATTCTTAAATGAATTTACTAAA
65 ATAATTAAAAATTCTTATATGAAATTAATAAA
15443827 ATTCTTAATA
Statistics
Matches: 191, Mismatches: 15, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
115 4 0.02
116 8 0.04
117 4 0.02
118 5 0.03
119 9 0.05
120 129 0.68
121 32 0.17
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (120 bp):
ATAATTTAACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAA
TAATTAAAAATTCTTATATGAAATTAATAAATTATAATATATAATAATATAAAAG
Found at i:15443710 original size:19 final size:18
Alignment explanation
Indices: 15443635--15443790 Score: 77
Period size: 18 Copynumber: 8.0 Consensus size: 18
15443625 TTATTATTAA
*
15443635 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAATT
15443653 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
* ***
15443671 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAATT
15443690 ATATGAATTTAATAAAATT
1 ATAT-AATTTAATAAAATT
* *
15443709 ATA-ATATATAATACTATAA-A
1 ATATA-ATTTAATA--A-AATT
15443729 ATATAATTTAAAATAATTATTATT
1 ATATAATTT--AATAA--A--ATT
15443753 AAATATAATTTAATAGAAA-T
1 --ATATAATTTAATA-AAATT
15443773 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
15443791 CTTAATATTT
Statistics
Matches: 106, Mismatches: 13, Indels: 38
0.68 0.08 0.24
Matches are distributed among these distances:
17 8 0.08
18 41 0.39
19 16 0.15
20 12 0.11
21 9 0.08
22 4 0.04
23 2 0.02
24 4 0.04
25 1 0.01
26 9 0.08
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAATT
Found at i:15443743 original size:22 final size:23
Alignment explanation
Indices: 15443701--15443743 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
15443691 TATGAATTTA
*
15443701 ATAAAATTATAATATATAATACT
1 ATAAAATTATAATATAAAATACT
*
15443724 ATAAAA-TATAATTTAAAATA
1 ATAAAATTATAATATAAAATA
15443744 ATTATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAAAATTATAATATAAAATACT
Found at i:15443787 original size:59 final size:58
Alignment explanation
Indices: 15443605--15443789 Score: 187
Period size: 59 Copynumber: 3.1 Consensus size: 58
15443595 ATAAATAATT
* *
15443605 TAAAAGATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAA
1 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAA
* * * * ** * *
15443664 TAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTAATAAAATTATAATATATAATACT-A
1 TAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAA-TAAAATATATAAT-TTAA
15443725 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAGAAATATATAATTTAA
1 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATA-AAATATATAATTTAA
15443784 TAAAAT
1 TAAAAT
15443790 TCTTAATATT
Statistics
Matches: 98, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
58 5 0.05
59 40 0.41
60 15 0.15
61 34 0.35
62 4 0.04
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (58 bp):
TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAA
Found at i:15443798 original size:22 final size:21
Alignment explanation
Indices: 15443775--15443867 Score: 76
Period size: 17 Copynumber: 4.7 Consensus size: 21
15443765 ATAGAAATAT
15443775 ATAATTTAATAAAATTCTT-A
1 ATAATTTAATAAAATTCTTAA
*
15443795 AT-ATTT-A-AATATTCTTAA
1 ATAATTTAATAAAATTCTTAA
*
15443813 ATGAATTTACTAAAATTCTT-A
1 AT-AATTTAATAAAATTCTTAA
*
15443834 AT-ATTT-A-AATATTCTTAA
1 ATAATTTAATAAAATTCTTAA
*
15443852 ATGAATTTACTAAAAT
1 AT-AATTTAATAAAAT
15443868 CATAATATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
17 16 0.29
18 7 0.12
19 8 0.14
20 10 0.18
21 3 0.05
22 12 0.21
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.45
Consensus pattern (21 bp):
ATAATTTAATAAAATTCTTAA
Found at i:15443821 original size:39 final size:39
Alignment explanation
Indices: 15443777--15443995 Score: 171
Period size: 39 Copynumber: 5.6 Consensus size: 39
15443767 AGAAATATAT
15443777 AATTTAATAAAATTCTTAATATTTAAATATTCTTAAATG
1 AATTTAATAAAATTCTTAATATTTAAATATTCTTAAATG
*
15443816 AATTTACTAAAATTCTTAATATTTAAATATTCTTAAATG
1 AATTTAATAAAATTCTTAATATTTAAATATTCTTAAATG
* * * * * * *
15443855 AATTTACTAAAA-TCATAATATAT-AATACTATAAAATAT
1 AATTTAATAAAATTCTTAATATTTAAATATTCTTAAAT-G
* * ** ** *
15443893 AATTTAA-AATAATTATTATTAAATATAAT-TTAACAAAAATATAT
1 AATTTAATAA-AATTCTTAATATTTA-AATATT--C-TTAA-AT-G
15443937 AATTTAATAAAATTCTTAATA-TTAAATATTCTTAAATG
1 AATTTAATAAAATTCTTAATATTTAAATATTCTTAAATG
* *
15443975 AATTTACTAAAA-TCATAATAT
1 AATTTAATAAAATTCTTAATAT
15443996 ATAATACTAT
Statistics
Matches: 145, Mismatches: 23, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
37 19 0.13
38 28 0.19
39 59 0.41
40 3 0.02
41 4 0.03
42 3 0.02
43 7 0.05
44 20 0.14
45 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.42
Consensus pattern (39 bp):
AATTTAATAAAATTCTTAATATTTAAATATTCTTAAATG
Found at i:15443875 original size:160 final size:159
Alignment explanation
Indices: 15443657--15443995 Score: 592
Period size: 160 Copynumber: 2.1 Consensus size: 159
15443647 AAAAATATAT
* * *
15443657 AATTTAATAAAATTCTTAATA-TTAAATATTCTTATATGAATTTAATAAAATTATAATATATAAT
1 AATTTACTAAAATTCTTAATATTTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAAT
* *
15443721 ACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAGAAATATATAATTTAATA
66 ACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATA
15443786 AAATTCTTAATATTTAAATATTCTTAAATG
131 AAATTCTTAATA-TTAAATATTCTTAAATG
*
15443816 AATTTACTAAAATTCTTAATATTTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAAT
1 AATTTACTAAAATTCTTAATATTTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAAT
15443881 ACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATA
66 ACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATA
15443946 AAATTCTTAATATTAAATATTCTTAAATG
131 AAATTCTTAATATTAAATATTCTTAAATG
*
15443975 AATTTACTAAAA-TCATAATAT
1 AATTTACTAAAATTCTTAATAT
15443996 ATAATACTAT
Statistics
Matches: 172, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
158 8 0.05
159 49 0.28
160 115 0.67
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (159 bp):
AATTTACTAAAATTCTTAATATTTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAAT
ACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATA
AAATTCTTAATATTAAATATTCTTAAATG
Found at i:15443903 original size:59 final size:58
Alignment explanation
Indices: 15443836--15444020 Score: 196
Period size: 59 Copynumber: 3.1 Consensus size: 58
15443826 AATTCTTAAT
15443836 ATTTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
1 ATTTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
* * * * * ** * * *
15443894 ATTTAAAATAATTATT-ATTAAATATAATTTAA-CAAAAATATATAAT-TTAATAAAATTCTTA
1 ATTT-AAAT-ATTCTTAAATGAATTTACTAAAATC-ATAATATATAATACT-ATAAAA-T-ATA
15443955 ATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
1 AT-TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
15444014 ATTTAAA
1 ATTTAAA
15444021 ATAATTATTA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 11 0.11
59 35 0.36
60 12 0.12
61 35 0.36
62 4 0.04
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (58 bp):
ATTTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:15444057 original size:120 final size:122
Alignment explanation
Indices: 15443816--15444071 Score: 437
Period size: 120 Copynumber: 2.1 Consensus size: 122
15443806 TTCTTAAATG
*
15443816 AATTTACTAAAATTCTTAATATTTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAAT
1 AATTTAATAAAATTCTTAATATTTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAAT
15443881 ACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAC-AAAAATATAT
66 ACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAAATATAT
15443937 AATTTAATAAAATTCTTAATA-TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAAT
1 AATTTAATAAAATTCTTAATATTTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAAT
**
15444001 ACTATAAAATATAATTTAAAATAATTATTATTAAAAATATAATTT-AGTAAAAATATAT
66 ACTATAAAATATAATTTAAAATAATTATTATT--AAATATAATTTAACAAAAAATATAT
*
15444059 AATTTAATCAAAT
1 AATTTAATAAAAT
15444072 CATTATATTC
Statistics
Matches: 129, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
120 75 0.58
121 21 0.16
122 33 0.26
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (122 bp):
AATTTAATAAAATTCTTAATATTTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAAT
ACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAAATATAT
Found at i:15444269 original size:25 final size:25
Alignment explanation
Indices: 15444195--15444273 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
15444185 ATTGCAAAAA
15444195 GAAATTACTGTAAGTTAGAGCATAT
1 GAAATTACTGTAAGTTAGAGCATAT
*
15444220 GAAATTACT-T---TTTGAAGCATAT
1 GAAATTACTGTAAGTTAG-AGCATAT
15444242 GAAATTACTGTAAGTTAGAGCATAT
1 GAAATTACTGTAAGTTAGAGCATAT
15444267 GAAATTA
1 GAAATTA
15444274 AGCAAAGATC
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.06
22 16 0.34
23 1 0.02
24 1 0.02
25 23 0.49
26 3 0.06
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.34
Consensus pattern (25 bp):
GAAATTACTGTAAGTTAGAGCATAT
Found at i:15446792 original size:21 final size:20
Alignment explanation
Indices: 15446768--15446810 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
15446758 CTATAAGTAA
15446768 TTTTAAAAAATTATGTATTTT
1 TTTTAAAAAA-TATGTATTTT
* *
15446789 TTTTTAAAAATATTTATTTT
1 TTTTAAAAAATATGTATTTT
15446809 TT
1 TT
15446811 AATATTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTAAAAAATATGTATTTT
Found at i:15451498 original size:85 final size:85
Alignment explanation
Indices: 15451355--15451522 Score: 212
Period size: 85 Copynumber: 2.0 Consensus size: 85
15451345 CTTGTAACTT
* * * * * *
15451355 TAATCTGTTCCACTGCAACTTTAGGAAATAAGATTTGCTATCTTCACTCTGCTCCACTGCCACTT
1 TAATCTGCTCCACTGCAACTTCAGGAAATAAGATTTGCTAACTTCAATCTACTCCACTGCAACTT
* * *
15451420 TAGGGAGATAAGATTTGTGG
66 CAAGGAGATAAGAATTGTGG
* * *
15451440 TAATCTGCTCCTCTGCAACTTCAGAGATATGAGATTTG-TAACTTCAATCTACTCCACTGCAACT
1 TAATCTGCTCCACTGCAACTTCAG-GAAATAAGATTTGCTAACTTCAATCTACTCCACTGCAACT
15451504 TCAAGGAGATAAGAATTGT
65 TCAAGGAGATAAGAATTGT
15451523 CATAATAACT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
85 59 0.84
86 11 0.16
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (85 bp):
TAATCTGCTCCACTGCAACTTCAGGAAATAAGATTTGCTAACTTCAATCTACTCCACTGCAACTT
CAAGGAGATAAGAATTGTGG
Found at i:15451500 original size:44 final size:44
Alignment explanation
Indices: 15451346--15451703 Score: 222
Period size: 44 Copynumber: 8.0 Consensus size: 44
15451336 AATTTGTGAC
* * * *
15451346 TTGTAACTTTAATCTGTTCCACTGCAACTTTA-GGAAATAAGAT
1 TTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGATATAAGAT
* * * * *
15451389 TTGCTATCTTCACTCTGCTCCACTGCCACTTTAGGGAGATAAGAT
1 TTG-TAACTTCAATCTGCTCCACTGCAACTTCAGGGATATAAGAT
** * * *
15451434 TTGT--GGT-AATCTGCTCCTCTGCAACTTCAGAGATATGAGAT
1 TTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGATATAAGAT
* * *
15451475 TTGTAACTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGAATT
1 TTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGATATAAG-A-T
* * ** * **
15451521 GTCATAATAACTTCAATCCG-TCCCACTATAACTTCAGGGGTATGGGAT
1 -T--T-GTAACTTCAATCTGCT-CCACTGCAACTTCAGGGATATAAGAT
* ** *
15451569 TTGTAACTTGTAATCTATTCCACTGCAACTTCAGGGAAATAAGAT
1 TTGTAACTT-CAATCTGCTCCACTGCAACTTCAGGGATATAAGAT
*** * * * *
15451614 CCACTATCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGT
1 -TTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGATATAAGAT
** * * * *
15451659 TAATAGCTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGATATAAGAT
15451703 T
1 T
15451704 CTCTATGGTA
Statistics
Matches: 240, Mismatches: 60, Indels: 29
0.73 0.18 0.09
Matches are distributed among these distances:
41 31 0.13
42 1 0.00
43 4 0.02
44 95 0.40
45 68 0.28
46 7 0.03
47 2 0.01
48 1 0.00
49 3 0.01
50 28 0.12
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (44 bp):
TTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGATATAAGAT
Found at i:15452312 original size:65 final size:65
Alignment explanation
Indices: 15452225--15452420 Score: 302
Period size: 65 Copynumber: 3.0 Consensus size: 65
15452215 TATAGTGGAC
* * * *
15452225 AAGAAGGAAATTGATTGGGAGCATAGCTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAAT
1 AAGAAGGAAATTAATTGAGAGCATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATACAAT
* *
15452290 AAGAAGGAAATTAATTGAGAGCATAGCTCGAAACGAATAAATTAATCAAATATAGAAAATACAAT
1 AAGAAGGAAATTAATTGAGAGCATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATACAAT
* ** *
15452355 AAGAAGGAAATTTATTGAGAGTGTAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATTCAAT
1 AAGAAGGAAATTAATTGAGAGCATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATACAAT
15452420 A
1 A
15452421 TGGGTAAGAT
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 119 1.00
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.22
Consensus pattern (65 bp):
AAGAAGGAAATTAATTGAGAGCATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATACAAT
Found at i:15456269 original size:21 final size:21
Alignment explanation
Indices: 15456255--15456323 Score: 111
Period size: 21 Copynumber: 3.3 Consensus size: 21
15456245 GACACATAAA
15456255 GTGCCTAAAACGACACACGAG
1 GTGCCTAAAACGACACACGAG
* *
15456276 GTGCCTGATACGACACACGAG
1 GTGCCTAAAACGACACACGAG
*
15456297 GTGCCTAATACGACACACGAG
1 GTGCCTAAAACGACACACGAG
15456318 GTGCCT
1 GTGCCT
15456324 GAAATATGAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.30, C:0.29, G:0.26, T:0.14
Consensus pattern (21 bp):
GTGCCTAAAACGACACACGAG
Found at i:15456301 original size:42 final size:42
Alignment explanation
Indices: 15456241--15456344 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 42
15456231 CCTGATCAGT
*
15456241 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG
* * *
15456283 ATACGACACACGAGGTGCCTAATACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG
* *
15456325 AAATATGACACATAAAGTGC
1 --ATACGACACACAAAGTGC
15456345 TTGATCGGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 38 0.73
44 14 0.27
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (42 bp):
ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG
Found at i:15456650 original size:22 final size:21
Alignment explanation
Indices: 15456622--15456662 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
15456612 AATATCACAA
15456622 TCTCATATATTCATATCAATTT
1 TCTCATATATTCA-ATCAATTT
*
15456644 TCTCATATTTTCAATCAAT
1 TCTCATATATTCAATCAAT
15456663 ATATATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.49
Consensus pattern (21 bp):
TCTCATATATTCAATCAATTT
Found at i:15456748 original size:15 final size:15
Alignment explanation
Indices: 15456720--15456777 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
15456710 TCATATATAT
*
15456720 TATATAATTAAATCAA
1 TATA-AATTCAATCAA
15456736 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
15456751 AATAATTTCAATCAA
1 TATAAATTCAATCAA
15456766 TATAAATTCAAT
1 TATAAATTCAAT
15456778 AAATTCATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:15457883 original size:5 final size:5
Alignment explanation
Indices: 15457873--15457928 Score: 58
Period size: 5 Copynumber: 10.6 Consensus size: 5
15457863 TTACTTATTT
* * *
15457873 ATATA ATATAA TATATA ATAAA ATATA CTATA ATATA ATAATA ATATC
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
15457921 ATATA ATA
1 ATATA ATA
15457929 ACAATTTCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
5 31 0.74
6 7 0.17
7 4 0.10
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:15458060 original size:21 final size:22
Alignment explanation
Indices: 15458021--15458071 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
15458011 CATACAATTG
*
15458021 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
15458043 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
15458063 ATAAAATAA
1 TTAAAATAA
15458072 ATATATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:15458261 original size:19 final size:22
Alignment explanation
Indices: 15458237--15458283 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
15458227 ATCCTTTCCA
15458237 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
15458256 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
15458277 CTAATTA
1 CTAATTA
15458284 ACCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:15459539 original size:80 final size:80
Alignment explanation
Indices: 15459406--15459556 Score: 268
Period size: 80 Copynumber: 1.9 Consensus size: 80
15459396 TTCCAAAGAA
15459406 TAAAAGAATCTAAGAATAATTATTCGTATAGTATGATTATGAATAAAATGGAAAGAATAAAAGAA
1 TAAAAGAATCTAAGAATAATTATTCGTATAGTATGATTATGAATAAAATGGAAAGAATAAAAGAA
15459471 TATTTGAAAGAAAGT
66 TATTTGAAAGAAAGT
* *
15459486 TAAAAGAATCTAAGAATAATTA-TCTTTATAGTATGATTATGAATGAAATGGAAAGAATAAAAGA
1 TAAAAGAATCTAAGAATAATTATTC-GTATAGTATGATTATGAATAAAATGGAAAGAATAAAAGA
15459550 ATATTTG
65 ATATTTG
15459557 CTCAATATGA
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
79 2 0.03
80 66 0.97
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.30
Consensus pattern (80 bp):
TAAAAGAATCTAAGAATAATTATTCGTATAGTATGATTATGAATAAAATGGAAAGAATAAAAGAA
TATTTGAAAGAAAGT
Found at i:15465932 original size:39 final size:39
Alignment explanation
Indices: 15465889--15465966 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
15465879 AGAATTAATC
15465889 AAATCGTGGCTTGACCCTCTTATTTGTCCCCAGTGGAGT
1 AAATCGTGGCTTGACCCTCTTATTTGTCCCCAGTGGAGT
*
15465928 AAATCGTGGCTTGACCCTCTTATTTGTCCCTAGTGGAGT
1 AAATCGTGGCTTGACCCTCTTATTTGTCCCCAGTGGAGT
15465967 CGCCAAGCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (39 bp):
AAATCGTGGCTTGACCCTCTTATTTGTCCCCAGTGGAGT
Found at i:15472386 original size:44 final size:44
Alignment explanation
Indices: 15472336--15472460 Score: 178
Period size: 44 Copynumber: 2.8 Consensus size: 44
15472326 TGTTTCAGGG
* *
15472336 ATGCCATAATATCTTTCAACCATGGTATTTCCTTTTTGAATATA
1 ATGCCATGATATCTTTCAATCATGGTATTTCCTTTTTGAATATA
* * *
15472380 ATGCCATGATATCTTTGAATCATTGTATTTCCTTTTTGAGTATA
1 ATGCCATGATATCTTTCAATCATGGTATTTCCTTTTTGAATATA
* * *
15472424 ATGTCATGATATCTTTCAATCATGGTTTTTCCCTTTT
1 ATGCCATGATATCTTTCAATCATGGTATTTCCTTTTT
15472461 CTCAAATCAA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 71 1.00
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (44 bp):
ATGCCATGATATCTTTCAATCATGGTATTTCCTTTTTGAATATA
Found at i:15483543 original size:24 final size:24
Alignment explanation
Indices: 15483515--15483560 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
15483505 ACAAATAATT
*
15483515 TAAAAATTATAAAAAATTAAAATA
1 TAAAAAATATAAAAAATTAAAATA
15483539 TAAAAAATATAAAAAATTAAAA
1 TAAAAAATATAAAAAATTAAAA
15483561 GTTCGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (24 bp):
TAAAAAATATAAAAAATTAAAATA
Found at i:15483554 original size:9 final size:9
Alignment explanation
Indices: 15483515--15483560 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
15483505 ACAAATAATT
*
15483515 TAAAAATTA
1 TAAAAAATA
15483524 TAAAAAAT-
1 TAAAAAATA
15483532 T--AAAATA
1 TAAAAAATA
15483539 TAAAAAATA
1 TAAAAAATA
15483548 TAAAAAAT-
1 TAAAAAATA
15483556 TAAAA
1 TAAAA
15483561 GTTCGTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
6 5 0.15
7 1 0.03
8 6 0.18
9 21 0.64
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
TAAAAAATA
Found at i:15483560 original size:15 final size:17
Alignment explanation
Indices: 15483517--15483552 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
15483507 AAATAATTTA
15483517 AAAATTATAAAAAAT-T
1 AAAATTATAAAAAATAT
15483533 AAAA-TATAAAAAATAT
1 AAAATTATAAAAAATAT
15483549 AAAA
1 AAAA
15483553 AATTAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAATTATAAAAAATAT
Found at i:15489565 original size:6 final size:6
Alignment explanation
Indices: 15489556--15489590 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
15489546 AAAATAGATC
15489556 AAAATT AAAATT AAAATT AAAATT AAAATTT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAA-TT AAAA
15489591 AATTCATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:15502694 original size:42 final size:42
Alignment explanation
Indices: 15502630--15502789 Score: 140
Period size: 42 Copynumber: 3.8 Consensus size: 42
15502620 TCGTGTTTAC
* * * * *
15502630 TTTCCGTTTAGCTCTCACGAGCTTCTGTTCAACTCATATGAG
1 TTTCCGTTAAGCTCTTATGAGCTTCTGTTCAACCCATATAAG
* * * *
15502672 TTTCCGTTAAGCTCTTTTGAGCTTCTTTTTAACCCGTATAAG
1 TTTCCGTTAAGCTCTTATGAGCTTCTGTTCAACCCATATAAG
* * ** **
15502714 TTTCCGTTCAGCTCTTATGAGCTTCCGTTCAACCTTTATGGG
1 TTTCCGTTAAGCTCTTATGAGCTTCTGTTCAACCCATATAAG
* * * * *
15502756 TTTCTGTTTAGCACTTATGTGCTTCTATTCAACC
1 TTTCCGTTAAGCTCTTATGAGCTTCTGTTCAACC
15502790 TTTGGGCTTC
Statistics
Matches: 94, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 94 1.00
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.42
Consensus pattern (42 bp):
TTTCCGTTAAGCTCTTATGAGCTTCTGTTCAACCCATATAAG
Found at i:15502741 original size:21 final size:21
Alignment explanation
Indices: 15502631--15502744 Score: 75
Period size: 21 Copynumber: 5.4 Consensus size: 21
15502621 CGTGTTTACT
* * *
15502631 TTCCGTTTAGCTCTCACGAGC
1 TTCCGTTCAGCTCTTATGAGC
* * * *
15502652 TTCTGTTCAACTCATATGAGT
1 TTCCGTTCAGCTCTTATGAGC
* *
15502673 TTCCGTTAAGCTCTTTTGAGC
1 TTCCGTTCAGCTCTTATGAGC
** * * * * * *
15502694 TTCTTTTTAACCCGTATAAGT
1 TTCCGTTCAGCTCTTATGAGC
15502715 TTCCGTTCAGCTCTTATGAGC
1 TTCCGTTCAGCTCTTATGAGC
15502736 TTCCGTTCA
1 TTCCGTTCA
15502745 ACCTTTATGG
Statistics
Matches: 63, Mismatches: 30, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (21 bp):
TTCCGTTCAGCTCTTATGAGC
Found at i:15503375 original size:72 final size:72
Alignment explanation
Indices: 15503266--15503421 Score: 231
Period size: 72 Copynumber: 2.2 Consensus size: 72
15503256 CACACAAGTG
* * **
15503266 TGTGGCTTGGCCGTGTGACCCCTGCATTTTAATTTCACAAATTAATATGCTCACACGGCCTAGCA
1 TGTGGCTTGG-CATGCGACCCCTGCACCTTAATTTCACAAATTAATATGCTCACACGGCCTAGCA
15503331 CACGGGCA
65 CACGGGCA
* *
15503339 TGTGGCTTGGCATGCGACCCCTGTACCTTAATTTCACAAATTAATATGCTCACACGGCCTAGCAG
1 TGTGGCTTGGCATGCGACCCCTGCACCTTAATTTCACAAATTAATATGCTCACACGGCCTAGCAC
*
15503404 ACGGGCG
66 ACGGGCA
*
15503411 TGTGTCTTGGC
1 TGTGGCTTGGC
15503422 TGTTCGGCCC
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 65 0.87
73 10 0.13
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.28
Consensus pattern (72 bp):
TGTGGCTTGGCATGCGACCCCTGCACCTTAATTTCACAAATTAATATGCTCACACGGCCTAGCAC
ACGGGCA
Found at i:15503523 original size:67 final size:67
Alignment explanation
Indices: 15503438--15503566 Score: 199
Period size: 67 Copynumber: 1.9 Consensus size: 67
15503428 GCCCAAGTTA
*
15503438 GAGAGTTACACAGGCTGGGACACGA-TCGTATGCCTCACATCGAATGTCCTCACGGCCTAAGACT
1 GAGAGTTACACAGGCTGGGACACGACT-GTATGCCTCACATCGAATGTCCACACGGCCTAAGACT
15503502 CGG
65 CGG
* *
15503505 GAGAGTTACAC-GGTCTGGGACACGACTGTGTGCCTCATATCGAATGTCCACACGGCCTAAGA
1 GAGAGTTACACAGG-CTGGGACACGACTGTATGCCTCACATCGAATGTCCACACGGCCTAAGA
15503567 AACGAGTGTG
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
66 2 0.04
67 54 0.95
68 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.27, T:0.20
Consensus pattern (67 bp):
GAGAGTTACACAGGCTGGGACACGACTGTATGCCTCACATCGAATGTCCACACGGCCTAAGACTC
GG
Found at i:15507085 original size:27 final size:27
Alignment explanation
Indices: 15507054--15507231 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
15507044 TAAATTGTAC
15507054 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
15507081 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15507107 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
15507135 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
15507163 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15507190 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
15507217 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15507232 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:15507168 original size:82 final size:81
Alignment explanation
Indices: 15507055--15507210 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
15507045 AAATTGTACA
*
15507055 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
15507119 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
15507136 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
15507201 TGCGAGTTGA
65 TGCGAATTGA
15507211 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:15507222 original size:82 final size:81
Alignment explanation
Indices: 15507051--15507231 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
15507041 GATTAAATTG
*
15507051 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
15507116 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
15507132 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
15507196 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
15507214 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
15507232 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:15515133 original size:27 final size:27
Alignment explanation
Indices: 15515102--15515279 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
15515092 TAAATTGTAC
15515102 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
15515129 TGCACTAAGTGTGCTAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15515155 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
15515183 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
15515211 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
15515238 AGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
15515265 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15515280 GACTCGATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:15515243 original size:82 final size:81
Alignment explanation
Indices: 15515103--15515258 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
15515093 AAATTGTACA
* * *
15515103 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCTAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAATGT
15515168 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
15515184 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACTAAAT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAAT
*
15515248 GTGCGAGTTGA
64 GTGCGAATTGA
15515259 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:15515270 original size:82 final size:81
Alignment explanation
Indices: 15515099--15515279 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
15515089 GATTAAATTG
* *
15515099 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCTAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
*
15515164 GTGTGCGAATTGACCA
66 ATGTGCGAATTGACCA
* * ** *
15515180 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
15515244 AAATGTGCGAGTTGATTA
64 AAATGTGCGAATTGACCA
* *
15515262 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
15515280 GACTCGATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
ATGTGCGAATTGACCA
Found at i:15519485 original size:39 final size:40
Alignment explanation
Indices: 15519390--15519612 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
15519380 TTGAATGATG
*
15519390 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
15519428 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
15519469 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
15519508 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
15519547 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
15519586 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
15519613 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 94 0.58
40 57 0.35
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:15519584 original size:79 final size:82
Alignment explanation
Indices: 15519390--15519612 Score: 275
Period size: 79 Copynumber: 2.8 Consensus size: 82
15519380 TTGAATGATG
* * * * *
15519390 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAATTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
15519452 TTGTGCGAGATACTAAT
66 TTGTGCGAGATACTAAA
*
15519469 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAATTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
15519530 TTGTGCGAGTTACTAAA
66 TTGTGCGAGATACTAAA
* * * *
15519547 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAATTACTAATATCCGGGCTAAGACCCGAAGGCAT
15519610 TTG
66 TTG
15519613 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
78 48 0.38
79 53 0.42
80 24 0.19
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAATTACTAATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGATACTAAA
Found at i:15519634 original size:79 final size:79
Alignment explanation
Indices: 15519390--15519645 Score: 215
Period size: 79 Copynumber: 3.3 Consensus size: 79
15519380 TTGAATGATG
* * * * *
15519390 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAAAT-ACTAATA-CCGGGCTAAG-CCCGAAGGCAT
** *
15519452 TTGTGCGAGAT-ACTAAT
63 TTGAACGAG-TGACTAAA
* * *
15519469 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAAATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
15519533 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
15519547 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAAA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
15519610 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
15519627 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
15519646 TACGTGATTT
Statistics
Matches: 151, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
77 1 0.01
78 47 0.31
79 67 0.44
80 36 0.24
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAAATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:15529220 original size:40 final size:40
Alignment explanation
Indices: 15529171--15529256 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
15529161 CCCGGATGTC
*
15529171 ATTCCAGCACTAAGCCTGCGGGTCTTTAAGCCCGAATAAA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATAAA
* * *
15529211 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCTGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATAAA
15529251 ATTCCA
1 ATTCCA
15529257 CATCAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATAAA
Found at i:15536622 original size:40 final size:40
Alignment explanation
Indices: 15536539--15536761 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
15536529 TTGAATGCTG
* * * * * *
15536539 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
15536579 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
15536619 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
15536659 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
15536699 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
15536738 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15536762 TGAACGAGGA
Statistics
Matches: 162, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
39 36 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:15536781 original size:79 final size:80
Alignment explanation
Indices: 15536614--15536796 Score: 235
Period size: 79 Copynumber: 2.3 Consensus size: 80
15536604 GTGCGAGATA
* *
15536614 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
15536679 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
15536694 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
*
15536758 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
15536773 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
15536797 TACGTGATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.53
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:15544520 original size:40 final size:40
Alignment explanation
Indices: 15544437--15544659 Score: 213
Period size: 40 Copynumber: 5.6 Consensus size: 40
15544427 TTGAATGATG
* * * * *
15544437 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-T-ATTAAA
* * *
15544477 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATATTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATATTAAA
* *
15544517 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
*
15544557 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TATTAAA
* * * * *
15544597 TCTGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
* *
15544636 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15544660 TGAACGAGTA
Statistics
Matches: 158, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 33 0.21
40 114 0.72
41 10 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
Found at i:15544574 original size:80 final size:79
Alignment explanation
Indices: 15544437--15544661 Score: 242
Period size: 80 Copynumber: 2.8 Consensus size: 79
15544427 TTGAATGATG
* * * * * *
15544437 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
15544500 TTGTGCGAGA-TATTAAA
63 TTGTGCGA-ATTATTAAA
* *
15544517 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTT
*
15544582 GTGCGAATTGTTAAA
65 GTGCGAATTATTAAA
* * * * *
15544597 TCTGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
15544661 G
65 G
15544662 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 37 0.30
80 81 0.65
81 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAATTATTAAA
Found at i:15547919 original size:47 final size:47
Alignment explanation
Indices: 15547867--15548366 Score: 802
Period size: 47 Copynumber: 10.6 Consensus size: 47
15547857 GATAATTTTG
* *
15547867 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
15547914 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15547961 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15548008 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15548057 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
15548104 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15548151 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
15548200 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGACGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15548247 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
15548294 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15548341 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
15548367 TCCCGAAGGG
Statistics
Matches: 421, Mismatches: 28, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 329 0.78
49 92 0.22
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:15548021 original size:143 final size:143
Alignment explanation
Indices: 15547867--15548366 Score: 837
Period size: 143 Copynumber: 3.5 Consensus size: 143
15547857 GATAATTTTG
15547867 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
15547930 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
15547995 GCCGATGTGATGA
131 GCCGATGTGATGA
15548008 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
15548073 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
*
15548138 GCCAATGTGATGA
131 GCCGATGTGATGA
15548151 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
15548216 ATGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
15548281 GCCGATGTGATGA
131 GCCGATGTGATGA
* * * * * * * *
15548294 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
15548357 ATGTGATAAG
66 ATGTGATAAG
15548367 TCCCGAAGGG
Statistics
Matches: 340, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
141 59 0.17
142 2 0.01
143 279 0.82
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:15548156 original size:190 final size:188
Alignment explanation
Indices: 15547867--15548366 Score: 856
Period size: 190 Copynumber: 2.6 Consensus size: 188
15547857 GATAATTTTG
* *
15547867 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
15547932 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* *
15547997 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGACGTGATGA
*
15548057 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
15548122 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATG
15548187 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGACGTGATGA
129 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGACGTGATGA
*
15548247 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * *
15548312 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
15548367 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
188 14 0.05
190 234 0.79
192 47 0.16
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (188 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGACGTGATGA
Found at i:15550565 original size:38 final size:38
Alignment explanation
Indices: 15550501--15550575 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
15550491 AATCCGAGTT
*
15550501 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
15550539 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
15550576 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:15550677 original size:40 final size:40
Alignment explanation
Indices: 15550633--15550929 Score: 401
Period size: 40 Copynumber: 7.6 Consensus size: 40
15550623 CTCGACGATG
*
15550633 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* * *
15550673 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
15550713 ATCCGGGCTAAGTT-C------CATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
15550746 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
*
15550786 ATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
15550826 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *** * * *
15550866 ATCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
15550906 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
15550930 ATCATGCTGG
Statistics
Matches: 227, Mismatches: 23, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
33 30 0.13
34 1 0.00
39 1 0.00
40 195 0.86
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:15550774 original size:73 final size:74
Alignment explanation
Indices: 15550655--15550876 Score: 338
Period size: 73 Copynumber: 2.9 Consensus size: 74
15550645 TTCCGAAGAG
* *
15550655 CATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGG
1 CATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATCCGGG
15550720 CTAAGTTC-
66 CTAAGTTCA
15550728 CATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATCCGGG
1 CATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATCCGGG
15550793 CTAAGTTCTGAAGA
66 CTAAGTTC-----A
* * *
15550807 GCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGT
1 -CATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATCCGG
15550872 GCTAA
65 GCTAA
15550877 ACCCCAAAGA
Statistics
Matches: 137, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
73 71 0.52
80 66 0.48
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (74 bp):
CATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATCCGGG
CTAAGTTCA
Found at i:15550831 original size:113 final size:115
Alignment explanation
Indices: 15550633--15550942 Score: 417
Period size: 113 Copynumber: 2.7 Consensus size: 115
15550623 CTCGACGATG
15550633 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
*
15550698 TCATGCTAGTGATGTATCCGGGCTAAGTT-C-CATTCGTGCTAGTGATAT
66 TCATGCTAGTGATATATCCGGGCTAAGTTCCACATTCGTGCTAGTGATAT
* * *
15550746 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCTGAAGAGCAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
*
15550811 TCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
66 TCATGCTAGTGATATATCCGGGCTAAGTTCC----A-CATTCGTGCTAGTGATAT
* *** * * * * * *
15550866 ATCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCAA
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
*
15550931 TCATGCTGGTGA
66 TCATGCTAGTGA
15550943 CGTGTATTCG
Statistics
Matches: 170, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
113 89 0.52
114 1 0.01
120 80 0.47
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (115 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
TCATGCTAGTGATATATCCGGGCTAAGTTCCACATTCGTGCTAGTGATAT
Found at i:15554486 original size:47 final size:47
Alignment explanation
Indices: 15554434--15554980 Score: 914
Period size: 47 Copynumber: 11.6 Consensus size: 47
15554424 GATAATTGTG
* *
15554434 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15554481 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15554528 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15554575 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15554622 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15554671 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
15554718 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15554765 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
15554814 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGACGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15554861 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
15554908 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15554955 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
15554981 TCCCGAAGGG
Statistics
Matches: 472, Mismatches: 24, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
47 380 0.81
49 92 0.19
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:15554674 original size:143 final size:141
Alignment explanation
Indices: 15554434--15554980 Score: 923
Period size: 143 Copynumber: 3.9 Consensus size: 141
15554424 GATAATTGTG
* *
15554434 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
15554499 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
15554564 CGATGTGATGA
131 CGATGTGATGA
15554575 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
15554640 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
15554705 GCCGATGTGATGA
129 GCCGATGTGATGA
* *
15554718 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
15554783 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
*
15554848 GCCGACGTGATGA
129 GCCGATGTGATGA
*
15554861 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * * *
15554926 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
15554981 TCCCGAAGGG
Statistics
Matches: 387, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
141 110 0.28
143 277 0.72
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
CGATGTGATGA
Found at i:15554721 original size:190 final size:190
Alignment explanation
Indices: 15554434--15554980 Score: 940
Period size: 190 Copynumber: 2.9 Consensus size: 190
15554424 GATAATTGTG
15554434 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
15554497 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
15554562 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15554622 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
15554687 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
15554752 GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 GCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
15554814 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
15554877 ATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* * *
15554942 GCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
15554981 TCCCGAAGGG
Statistics
Matches: 342, Mismatches: 13, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
188 19 0.06
189 2 0.01
190 274 0.80
192 47 0.14
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (190 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:15561354 original size:15 final size:16
Alignment explanation
Indices: 15561334--15561363 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15561324 GAAAATTGCC
15561334 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
15561349 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
15561364 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:15563171 original size:48 final size:47
Alignment explanation
Indices: 15563038--15563198 Score: 139
Period size: 48 Copynumber: 3.4 Consensus size: 47
15563028 GGGTGTTACA
* * * ** * *
15563038 AAGACCATGT-TGGAGATGGCATCGGCGTTGA-TTGAGAGCCAGTGT
1 AAGACCATGTCTGGACATGGCATCGGCATCGACACGAGAGCTAGTCT
* * *
15563083 AGGACCATG-CTGGACATGGCATCGGCATGGAGACGAGAGCTAGTCT
1 AAGACCATGTCTGGACATGGCATCGGCATCGACACGAGAGCTAGTCT
* * * * *
15563129 AAGACCATGTCTAGGACATGGCATTGGCCTCGACATGTGAGCTAGTGT
1 AAGACCATGTCT-GGACATGGCATCGGCATCGACACGAGAGCTAGTCT
*
15563177 AAGACAATGTCTGGGACATGGC
1 AAGACCATGTCT-GGACATGGC
15563199 GTTAGCATCT
Statistics
Matches: 94, Mismatches: 18, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
45 26 0.28
46 18 0.19
47 2 0.02
48 48 0.51
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (47 bp):
AAGACCATGTCTGGACATGGCATCGGCATCGACACGAGAGCTAGTCT
Found at i:15570371 original size:12 final size:12
Alignment explanation
Indices: 15570354--15570382 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
15570344 ACAGGTTTGG
15570354 CACGGCCTAGCA
1 CACGGCCTAGCA
15570366 CACGGCCTAGCA
1 CACGGCCTAGCA
15570378 CACGG
1 CACGG
15570383 GCATGTGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.41, G:0.28, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:15578631 original size:22 final size:23
Alignment explanation
Indices: 15578606--15578651 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
15578596 CAACCAAACC
15578606 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
15578628 AATTCATACATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
15578651 A
1 A
15578652 CGTTATCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:15589993 original size:27 final size:26
Alignment explanation
Indices: 15589963--15590139 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 26
15589953 AAATTGTACA
* *
15589963 GCACTAAGGGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
15589990 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
15590017 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
15590044 GCACTAAGTGTGCGAGTTTGACTATGTG
1 GCACTAAGTGTGCGA--TTGACTATGTG
* * *
15590072 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
15590099 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
15590126 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
15590140 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 101 0.78
28 27 0.21
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:15590077 original size:82 final size:81
Alignment explanation
Indices: 15589963--15590118 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
15589953 AAATTGTACA
* *
15589963 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
15590027 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
15590044 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
15590109 TGCGAGTTGA
65 TGCGAATTGA
15590119 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:15590130 original size:82 final size:81
Alignment explanation
Indices: 15589959--15590139 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
15589949 GATTAAATTG
* * *
15589959 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
15590024 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
15590040 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
15590104 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
15590122 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
15590140 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:15590150 original size:27 final size:27
Alignment explanation
Indices: 15590097--15590150 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
15590087 TTTGATTACG
* * *
15590097 TAGCACTAAGTGTGCGAGTTGATTATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
* *
15590124 TAGCACTGAGTGTGCGGGCTCAATATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
15590151 CATTCGTGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGAGCTCAATATA
Found at i:15591598 original size:23 final size:23
Alignment explanation
Indices: 15591559--15591617 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
15591549 ATCGGGTAAT
*
15591559 TCACAAAGAACCATATCAAGAAGC
1 TCACAAAGAGCC-TATCAAGAAGC
** **
15591583 TCATGAAGAGCCTATCGGGAAGC
1 TCACAAAGAGCCTATCAAGAAGC
15591606 TCACAAAGAGCC
1 TCACAAAGAGCC
15591618 ATGTAACGGG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.41, C:0.25, G:0.20, T:0.14
Consensus pattern (23 bp):
TCACAAAGAGCCTATCAAGAAGC
Found at i:15595226 original size:48 final size:48
Alignment explanation
Indices: 15595167--15595335 Score: 191
Period size: 48 Copynumber: 3.6 Consensus size: 48
15595157 AAGTTGACGT
* *
15595167 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATCGCGAGGCTGATG
* * ** * *
15595215 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTTGAAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATCGCGAGGCTGATG
* * * * *
15595263 CGTGTCCCAGACATGTCTTACACTGGC-TCT-CAT-GCTGTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATCGC-GAGGCTGATG
15595309 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
15595336 ACACATATCA
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
46 34 0.34
47 1 0.01
48 66 0.65
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATATATCGCGAGGCTGATG
Found at i:15597292 original size:4 final size:4
Alignment explanation
Indices: 15597283--15597380 Score: 160
Period size: 4 Copynumber: 24.0 Consensus size: 4
15597273 TTTTAAAGTC
15597283 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATGCA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT--A CATA
* *
15597333 CATA CATA CATG CATA CATA CATA CATA CATA TATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
15597381 TTCACTATAA
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
4 84 0.95
6 4 0.05
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:15597801 original size:9 final size:9
Alignment explanation
Indices: 15597780--15597894 Score: 76
Period size: 9 Copynumber: 12.4 Consensus size: 9
15597770 CTTCATAAAA
15597780 TTTTATAATT
1 TTTTATAA-T
*
15597790 TTTTATGAT
1 TTTTATAAT
15597799 TTTTATAATTT
1 TTTTATAA--T
*
15597810 TTTTCTAA-
1 TTTTATAAT
*
15597818 TTTTAAATAT
1 TTTTATA-AT
15597828 TTTTAT-AT
1 TTTTATAAT
*
15597836 TTTTATTAAGA
1 TTTTA-TAA-T
*
15597847 TTTAATAAT
1 TTTTATAAT
*
15597856 TTGTATAAT
1 TTTTATAAT
15597865 TTTTATTAAT
1 TTTTA-TAAT
15597875 TTTTAT--T
1 TTTTATAAT
*
15597882 TTTTATCAT
1 TTTTATAAT
15597891 TTTT
1 TTTT
15597895 CATTACATGT
Statistics
Matches: 83, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
7 7 0.08
8 12 0.14
9 27 0.33
10 25 0.30
11 12 0.14
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:15597804 original size:19 final size:19
Alignment explanation
Indices: 15597780--15597894 Score: 80
Period size: 19 Copynumber: 6.2 Consensus size: 19
15597770 CTTCATAAAA
*
15597780 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTATTAT
*
15597799 TTTTATAATTTTTT-TCTAA
1 TTTTATAATTTTTTAT-TAT
15597818 TTTTA-AATATTTTTA-TAT
1 TTTTATAAT-TTTTTATTAT
** * *
15597836 TTTTATTAAGATTTAATAAT
1 TTTTA-TAATTTTTTATTAT
* *
15597856 TTGTATAA-TTTTTATTAA
1 TTTTATAATTTTTTATTAT
*
15597874 TTTT-T-ATTTTTTATCAT
1 TTTTATAATTTTTTATTAT
15597891 TTTT
1 TTTT
15597895 CATTACATGT
Statistics
Matches: 74, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
16 1 0.01
17 13 0.18
18 20 0.27
19 32 0.43
20 8 0.11
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTTTTATTAT
Found at i:15597879 original size:10 final size:10
Alignment explanation
Indices: 15597780--15597881 Score: 65
Period size: 10 Copynumber: 10.7 Consensus size: 10
15597770 CTTCATAAAA
15597780 TTTTA-TAAT
1 TTTTATTAAT
*
15597789 TTTT-TATGAT
1 TTTTAT-TAAT
15597799 TTTTA-TAAT
1 TTTTATTAAT
*
15597808 TTTTTTCTAAT
1 TTTTAT-TAAT
* *
15597819 TTTAAAT-AT
1 TTTTATTAAT
15597828 TTTTA-T-AT
1 TTTTATTAAT
*
15597836 TTTTATTAAG
1 TTTTATTAAT
* *
15597846 ATTTAATAAT
1 TTTTATTAAT
*
15597856 TTGTA-TAAT
1 TTTTATTAAT
15597865 TTTTATTAAT
1 TTTTATTAAT
15597875 TTTTATT
1 TTTTATT
15597882 TTTTATCATT
Statistics
Matches: 71, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
8 8 0.11
9 26 0.37
10 30 0.42
11 7 0.10
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTTATTAAT
Found at i:15605635 original size:62 final size:62
Alignment explanation
Indices: 15605538--15605660 Score: 246
Period size: 62 Copynumber: 2.0 Consensus size: 62
15605528 TATTCCCACA
15605538 AACGCGTAATAGGGATTCAGTGCTGAAAGCTTGGAATGGCTATTCTGACCATCGCTGAATAG
1 AACGCGTAATAGGGATTCAGTGCTGAAAGCTTGGAATGGCTATTCTGACCATCGCTGAATAG
15605600 AACGCGTAATAGGGATTCAGTGCTGAAAGCTTGGAATGGCTATTCTGACCATCGCTGAATA
1 AACGCGTAATAGGGATTCAGTGCTGAAAGCTTGGAATGGCTATTCTGACCATCGCTGAATA
15605661 AAATTGAAGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (62 bp):
AACGCGTAATAGGGATTCAGTGCTGAAAGCTTGGAATGGCTATTCTGACCATCGCTGAATAG
Found at i:15608964 original size:53 final size:55
Alignment explanation
Indices: 15608852--15608983 Score: 151
Period size: 53 Copynumber: 2.4 Consensus size: 55
15608842 TTAATTCATA
* * * *
15608852 TAATAATAATTATATTAAGAATGTTATTAAATTATACATTATTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATATGATTAAATTAT--ATTATTTTAATAAAATATATT
* *
15608910 TAATAATAATTATGTTAAAATATGGTTAAATTAT-TT-TTTTAATAAAATATATT
1 TAATAATAATTATATTAAAATATGATTAAATTATATTATTTTAATAAAATATATT
* *
15608963 TAACAATAATTTTATTAAAAT
1 TAATAATAATTATATTAAAAT
15608984 TTAATAACAA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
53 33 0.51
54 2 0.03
57 13 0.20
58 17 0.26
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (55 bp):
TAATAATAATTATATTAAAATATGATTAAATTATATTATTTTAATAAAATATATT
Found at i:15609169 original size:46 final size:44
Alignment explanation
Indices: 15609078--15609171 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
15609068 ATTACAACAT
*
15609078 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
* ***
15609122 CATTCCATTCAACCAAATAGTTGAATTACTTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAA-TAC-TATTACAGCTCTATTC
15609168 CATT
1 CATT
15609172 ATAGCCCTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 21 0.49
45 3 0.07
46 19 0.44
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:15609181 original size:16 final size:16
Alignment explanation
Indices: 15609162--15609222 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
15609152 TATTACAGCT
* *
15609162 CTATTCCATTATAGCC
1 CTATTCCATTACAACC
*
15609178 CTATTCCATTACAACA
1 CTATTCCATTACAACC
**
15609194 CTATTTAATTACAACC
1 CTATTCCATTACAACC
15609210 CTATTCCATTACA
1 CTATTCCATTACA
15609223 GCCAACTAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.36
Consensus pattern (16 bp):
CTATTCCATTACAACC
Found at i:15609198 original size:32 final size:32
Alignment explanation
Indices: 15609153--15609222 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
15609143 TGAATTACTT
* * * * *
15609153 ATTACAGCTCTATTCCATTATAGCCCTATTCC
1 ATTACAACACTATTCAATTACAACCCTATTCC
*
15609185 ATTACAACACTATTTAATTACAACCCTATTCC
1 ATTACAACACTATTCAATTACAACCCTATTCC
15609217 ATTACA
1 ATTACA
15609223 GCCAACTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.36
Consensus pattern (32 bp):
ATTACAACACTATTCAATTACAACCCTATTCC
Found at i:15609591 original size:5 final size:5
Alignment explanation
Indices: 15609583--15609617 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
15609573 TAATAAAATA
15609583 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
15609618 TGATTATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:15613264 original size:40 final size:40
Alignment explanation
Indices: 15613227--15613412 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
15613217 GCTACTCGTT
* *
15613227 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
15613267 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
15613307 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
15613347 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
15613388 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
15613413 CATCATTCGA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:15614609 original size:56 final size:56
Alignment explanation
Indices: 15614540--15614660 Score: 224
Period size: 56 Copynumber: 2.2 Consensus size: 56
15614530 TATTAGTTTA
15614540 TTGCCCATCCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATCCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
* *
15614596 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATCCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
15614652 TTGCCCATC
1 TTGCCCATC
15614661 ATCCCTTGTC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.22, C:0.25, G:0.08, T:0.45
Consensus pattern (56 bp):
TTGCCCATCCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:15615135 original size:7 final size:7
Alignment explanation
Indices: 15615125--15615175 Score: 75
Period size: 7 Copynumber: 7.1 Consensus size: 7
15615115 AAGAGAGAAT
15615125 GATGAAG
1 GATGAAG
15615132 GATGAAG
1 GATGAAG
15615139 GATGAAG
1 GATGAAG
15615146 GATGAAG
1 GATGAAG
*
15615153 GATGATG
1 GATGAAG
*
15615160 GATGAGG
1 GATGAAG
15615167 GAATGAAG
1 G-ATGAAG
15615175 G
1 G
15615176 GGTCATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
7 34 0.85
8 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.45, T:0.16
Consensus pattern (7 bp):
GATGAAG
Found at i:15619039 original size:39 final size:40
Alignment explanation
Indices: 15618994--15619125 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
15618984 GCTCCTCGTT
* * *
15618994 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
15619034 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
15619073 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
15619113 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
15619126 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:15619187 original size:41 final size:41
Alignment explanation
Indices: 15619110--15619187 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
15619100 TTAGTATCTC
* * *
15619110 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
15619151 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
15619188 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:15623063 original size:40 final size:40
Alignment explanation
Indices: 15623011--15623098 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
15623001 GCAAAAATTG
* **
15623011 TAAAACACAGAGCAATAGCGGTGTTTTACCAAAAATGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTACCAAAAACACCGC
15623052 TAAAAACAGAGCAATAGCGGCGTTTTACCAAAAACACCGC
1 TAAAAACAGAGCAATAGCGGCGTTTTACCAAAAACACCGC
15623092 TAAAAAC
1 TAAAAAC
15623099 TACAACATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 39 0.89
41 5 0.11
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGTTTTACCAAAAACACCGC
Found at i:15623134 original size:41 final size:41
Alignment explanation
Indices: 15623082--15623178 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
15623072 CGTTTTACCA
* *
15623082 AAAACACCGCTAAAAACTACAACATTAGCTGCACT-TTCGGT
1 AAAACGCCGCTAAAAACTACAACATTAGCGGCACTGTT-GGT
* * *
15623123 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTGTTGGT
1 AAAACGCCGCTAAAAACTACAACATTAGCGGCACTGTTGGT
*
15623164 AAAACGCTGCTAAAA
1 AAAACGCCGCTAAAA
15623179 GTCATATAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 47 0.96
42 2 0.04
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACTACAACATTAGCGGCACTGTTGGT
Found at i:15623245 original size:22 final size:22
Alignment explanation
Indices: 15623218--15623295 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
15623208 CAAAAATAAT
*
15623218 AAACACTAATCTATAACCCCTA
1 AAACACTAAACTATAACCCCTA
** * *
15623240 AAACACTAAACCCCTAAACCCTT
1 AAACACTAAA-CTATAACCCCTA
*
15623263 AAACACTAAACTATGACCCCTA
1 AAACACTAAACTATAACCCCTA
*
15623285 AAACCCTAAAC
1 AAACACTAAAC
15623296 CCCAAAAAAC
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 26 0.59
23 18 0.41
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.18
Consensus pattern (22 bp):
AAACACTAAACTATAACCCCTA
Found at i:15623250 original size:46 final size:44
Alignment explanation
Indices: 15623183--15623304 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 44
15623173 CTAAAAGTCA
* * *
15623183 TATAACTCCTAAAACCCTAAACCCCCAAAAATAATAAACACTAATC
1 TATAACCCCTAAAACCCTAAA-CCCCAAAAA-ATTAAACACTAAAC
* ***
15623229 TATAACCCCTAAAACACTAAACCCCTAAACCCTTAAACACTAAAC
1 TATAACCCCTAAAACCCTAAACCCC-AAAAAATTAAACACTAAAC
*
15623274 TATGACCCCTAAAACCCTAAACCCCAAAAAA
1 TATAACCCCTAAAACCCTAAACCCCAAAAAA
15623305 CATCATATGG
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
44 3 0.05
45 38 0.60
46 22 0.35
ACGTcount: A:0.48, C:0.34, G:0.01, T:0.17
Consensus pattern (44 bp):
TATAACCCCTAAAACCCTAAACCCCAAAAAATTAAACACTAAAC
Found at i:15623896 original size:12 final size:12
Alignment explanation
Indices: 15623879--15623903 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15623869 GCTGCAACTC
15623879 TTTTTTTGTTTT
1 TTTTTTTGTTTT
15623891 TTTTTTTGTTTT
1 TTTTTTTGTTTT
15623903 T
1 T
15623904 AAATAAGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTTGTTTT
Found at i:15624597 original size:14 final size:15
Alignment explanation
Indices: 15624563--15624600 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
15624553 ACTATTTTAA
15624563 GGTTTATGGGTTATG
1 GGTTTATGGGTTATG
15624578 GGTTTA-GGGATTAT-
1 GGTTTATGGG-TTATG
15624592 GGTTTATGG
1 GGTTTATGG
15624601 TTTAAAGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (15 bp):
GGTTTATGGGTTATG
Found at i:15624616 original size:21 final size:22
Alignment explanation
Indices: 15624592--15624646 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
15624582 TAGGGATTAT
*
15624592 GGTTTATGGTTTAAAGGCT-GG
1 GGTTTAAGGTTTAAAGGCTAGG
* * *
15624613 GGTTTAAGATTTAGAGGTTAGG
1 GGTTTAAGGTTTAAAGGCTAGG
*
15624635 GGTTTAGGGTTT
1 GGTTTAAGGTTT
15624647 TATGAGTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.20, C:0.02, G:0.38, T:0.40
Consensus pattern (22 bp):
GGTTTAAGGTTTAAAGGCTAGG
Found at i:15627342 original size:30 final size:30
Alignment explanation
Indices: 15627308--15627372 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
15627298 ATTACAGAAT
15627308 TTATCATTTCCAAATCTTTATTTACTGTTC
1 TTATCATTTCCAAATCTTTATTTACTGTTC
15627338 TTATCATTTCCAAATCTTTATTTACTGTTC
1 TTATCATTTCCAAATCTTTATTTACTGTTC
15627368 TTATC
1 TTATC
15627373 TTTAAGAGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.54
Consensus pattern (30 bp):
TTATCATTTCCAAATCTTTATTTACTGTTC
Found at i:15630943 original size:40 final size:40
Alignment explanation
Indices: 15630895--15631162 Score: 446
Period size: 40 Copynumber: 6.7 Consensus size: 40
15630885 ACAAACACAT
* * *
15630895 TTGCCTTCGGGTCTTAACCCGGACATATGAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
15630935 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
15630975 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
15631015 TTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
15631055 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
15631095 TTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
15631135 TTGCCTTCGGGTCATAACCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
15631163 TCCAATGTTC
Statistics
Matches: 213, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 213 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:15648476 original size:27 final size:27
Alignment explanation
Indices: 15648445--15648622 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
15648435 TAAATTGTAC
15648445 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
15648472 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
** * *
15648498 ATGCACTAAGTGTGCGAACTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
15648526 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
15648554 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15648581 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
15648608 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15648623 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 106 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:15648559 original size:82 final size:81
Alignment explanation
Indices: 15648446--15648596 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
15648436 AAATTGTACA
* *
15648446 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
15648510 TGCGAACTGACCATGCG
65 TGCGAACTGACCATGCG
** *
15648527 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
15648592 TGCGA
65 TGCGA
15648597 GTTGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAACTGACCATGCG
Found at i:15652189 original size:40 final size:39
Alignment explanation
Indices: 15652112--15652197 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
15652102 TAACGATTTA
**
15652112 TCGGCTAAAATGGCACTTAGTGTGCGGTTCGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
* * * *
15652151 TTGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCT
15652191 TCGGCTA
1 TCGGCTA
15652198 TATATATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 9 0.23
40 30 0.77
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
Found at i:15662590 original size:41 final size:42
Alignment explanation
Indices: 15662531--15662634 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
15662521 TTAGCTTTTG
* * * * * *
15662531 TTCAACTCATATGAGTTTCT-ATCAGCTTTTTTGAGCTTCTA
1 TTCAACCCTTATGGGTTTCTGATCAGCTCTTATGAGCTTCCA
* * *
15662572 TTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTTCCG
1 TTCAACCCTTATGGGTTTCTGATCAGCTCTTATGAGCTTCCA
15662614 TTCAACCCTTATGGGTTTCTG
1 TTCAACCCTTATGGGTTTCTG
15662635 TTTAGCATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
41 16 0.31
42 36 0.69
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.44
Consensus pattern (42 bp):
TTCAACCCTTATGGGTTTCTGATCAGCTCTTATGAGCTTCCA
Found at i:15662603 original size:21 final size:20
Alignment explanation
Indices: 15662578--15662693 Score: 108
Period size: 20 Copynumber: 5.8 Consensus size: 20
15662568 TCTATTTAAC
*
15662578 CCTTATGGGTTTCTGTTCAG
1 CCTTATGGGCTTCTGTTCAG
* * *
15662598 CTCTTATGAGCTTCCGTTCAAC
1 C-CTTATGGGCTTCTGTTC-AG
* *
15662620 CCTTATGGGTTTCTGTTTAG
1 CCTTATGGGCTTCTGTTCAG
* * *
15662640 CATTATGTGCTTCTGTTTAG
1 CCTTATGGGCTTCTGTTCAG
* *
15662660 CATTATGTGCTTCTGTTCAG
1 CCTTATGGGCTTCTGTTCAG
15662680 CCTT-TGGGCTTCTG
1 CCTTATGGGCTTCTG
15662694 AAAATGATGT
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
19 9 0.11
20 41 0.52
21 27 0.34
22 2 0.03
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.45
Consensus pattern (20 bp):
CCTTATGGGCTTCTGTTCAG
Found at i:15662608 original size:42 final size:41
Alignment explanation
Indices: 15662562--15662693 Score: 142
Period size: 42 Copynumber: 3.2 Consensus size: 41
15662552 TCAGCTTTTT
*
15662562 TGAGCTTCTATTTAACCCTTATGGGTTTCTGTTCAGCTCTTA
1 TGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGC-CTTA
* * * *
15662604 TGAGCTTCCGTTCAACCCTTATGGGTTTCTGTTTAGCATTA
1 TGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCCTTA
* * * * *
15662645 TGTGCTTCTGTTT-AGCATTATGTGCTTCTGTTCAGCCTT-
1 TGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCCTTA
*
15662684 TGGGCTTCTG
1 TGAGCTTCTG
15662694 AAAATGATGT
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
39 9 0.12
40 20 0.27
41 13 0.17
42 33 0.44
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.45
Consensus pattern (41 bp):
TGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCCTTA
Found at i:15684357 original size:12 final size:12
Alignment explanation
Indices: 15684340--15684370 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
15684330 CAAAAATCAA
15684340 ATAATAGAATTC
1 ATAATAGAATTC
15684352 ATAATAGAATTC
1 ATAATAGAATTC
*
15684364 ATCATAG
1 ATAATAG
15684371 GGTTCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (12 bp):
ATAATAGAATTC
Found at i:15685578 original size:23 final size:23
Alignment explanation
Indices: 15685552--15685599 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
15685542 ATAGAATAAA
15685552 TTTAGTGTTACTTGTGAATTTGT
1 TTTAGTGTTACTTGTGAATTTGT
15685575 TTTAGTGTTACTTGTGAATTTGT
1 TTTAGTGTTACTTGTGAATTTGT
15685598 TT
1 TT
15685600 AACTTTCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.17, C:0.04, G:0.21, T:0.58
Consensus pattern (23 bp):
TTTAGTGTTACTTGTGAATTTGT
Found at i:15689137 original size:42 final size:42
Alignment explanation
Indices: 15689069--15689154 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
15689059 CTTAATCAAA
*
15689069 GAAAAACCTTAGCATCGTATTCATTAAATTTATTCAGAAGCT
1 GAAAAACCTTAGCATCGTATTCATTAAATTTAATCAGAAGCT
* *
15689111 GAAACACCTTAGCATCGTATTGATTAAATTTAATCAGAAGCT
1 GAAAAACCTTAGCATCGTATTCATTAAATTTAATCAGAAGCT
15689153 GA
1 GA
15689155 TAAATTCATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (42 bp):
GAAAAACCTTAGCATCGTATTCATTAAATTTAATCAGAAGCT
Found at i:15695636 original size:29 final size:31
Alignment explanation
Indices: 15695604--15695661 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
15695594 TGTGCATTAT
*
15695604 ATATATATGCTGAA-TT-AAGT-TGTAAAAGA
1 ATATAAATG-TGAAGTTGAAGTATGTAAAAGA
15695633 ATATAAATGTGAAGTTGAAGTATGTAAAA
1 ATATAAATGTGAAGTTGAAGTATGTAAAA
15695662 TATGAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (31 bp):
ATATAAATGTGAAGTTGAAGTATGTAAAAGA
Found at i:15698620 original size:15 final size:15
Alignment explanation
Indices: 15698600--15698634 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15698590 TTTCCTTTCA
*
15698600 TCATTCATTAACCTT
1 TCATTCATAAACCTT
15698615 TCATTCATAAACCTT
1 TCATTCATAAACCTT
*
15698630 CCATT
1 TCATT
15698635 TTCCCCTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATTCATAAACCTT
Found at i:15702540 original size:26 final size:26
Alignment explanation
Indices: 15702504--15702559 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
15702494 TGAAATTCCC
*
15702504 ATCATGAAACATTTACCTAACCCGTT
1 ATCATGAAACATTTACCTAACCCATT
*
15702530 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
15702556 ATCA
1 ATCA
15702560 ATTTGTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:15709570 original size:26 final size:26
Alignment explanation
Indices: 15709540--15709595 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
15709530 TGAAATTCCC
15709540 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
15709566 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
15709592 ATCA
1 ATCA
15709596 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Done.