Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 68 of 163
Found at i:22436703 original size:29 final size:29
Alignment explanation
Indices: 22436662--22436818 Score: 174
Period size: 29 Copynumber: 5.3 Consensus size: 29
22436652 CTATCAAATT
* * *
22436662 ATGAAAAGGGATGGTGATGATCATCAAAA
1 ATGAAAAGGGATGGTGACGACCATCAATA
22436691 ATGAAAAGGGATGGTGACGACCATCGAATA
1 ATGAAAAGGGATGGTGACGACCATC-AATA
* * * *
22436721 ACGAAAAGGGATAGCT-TC-AGCTATCAATTA
1 ATGAAAAGGGAT-GGTGACGA-CCATCAA-TA
*
22436751 ATGAAAAGGGATGGTGACGACCATTAATA
1 ATGAAAAGGGATGGTGACGACCATCAATA
*
22436780 ATGAAAAGGGATGGTGACGACTATCAAATA
1 ATGAAAAGGGATGGTGACGACCATC-AATA
22436810 ATGAAAAGG
1 ATGAAAAGG
22436819 AATAGCTTTG
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
29 53 0.50
30 51 0.48
31 3 0.03
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.20
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAATA
Found at i:22436728 original size:59 final size:58
Alignment explanation
Indices: 22436664--22436818 Score: 181
Period size: 59 Copynumber: 2.6 Consensus size: 58
22436654 ATCAAATTAT
22436664 GAAAAGGGATGGTGATGA-TCATCAAAAATGAAAAGGGATGGTGACGACCATCGAATAAC
1 GAAAAGGGATGGTGATGACT-ATCAAAAATGAAAAGGGATGGTGACGACCAT-GAATAAC
* * * * *
22436723 GAAAAGGGATAGCT--TCAGCTATCAATTAATGAAAAGGGATGGTGACGACCATTAATAAT
1 GAAAAGGGAT-GGTGATGA-CTATCAA-AAATGAAAAGGGATGGTGACGACCATGAATAAC
*
22436782 GAAAAGGGATGGTGACGACTATCAAATAATGAAAAGG
1 GAAAAGGGATGGTGATGACTATCAAA-AATGAAAAGG
22436819 AATAGCTTTG
Statistics
Matches: 80, Mismatches: 9, Indels: 14
0.78 0.09 0.14
Matches are distributed among these distances:
58 4 0.05
59 47 0.59
60 29 0.36
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.19
Consensus pattern (58 bp):
GAAAAGGGATGGTGATGACTATCAAAAATGAAAAGGGATGGTGACGACCATGAATAAC
Found at i:22436833 original size:89 final size:89
Alignment explanation
Indices: 22436622--22436834 Score: 284
Period size: 89 Copynumber: 2.4 Consensus size: 89
22436612 TAGCCTCGGT
* * * * *
22436622 TATCAAAATAATGAAAAGGGATAACCTCGACTATCAAATTATGAAAAGGGATGGTGATGATCATC
1 TATC-AAATAATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATC
22436687 AAAAATGAAAAGGGATGGTGACGAC
65 AAAAATGAAAAGGGATGGTGACGAC
* * * * *
22436712 CATCGAATAACGAAAAGGGATAGCTTCAGCTATC-AATTAATGAAAAGGGATGGTGACGACCATT
1 TATCAAATAATGAAAAGGGATAGCTTCGGCTATCAAATT-ATGAAAAGGGATGGTGACGACCATC
*
22436776 AATAATGAAAAGGGATGGTGACGAC
65 AAAAATGAAAAGGGATGGTGACGAC
* *
22436801 TATCAAATAATGAAAAGGAATAGCTTTGGCTATC
1 TATCAAATAATGAAAAGGGATAGCTTCGGCTATC
22436835 GAGCTGCGAA
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
88 4 0.04
89 98 0.93
90 3 0.03
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.22
Consensus pattern (89 bp):
TATCAAATAATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCA
AAAATGAAAAGGGATGGTGACGAC
Found at i:22436879 original size:30 final size:30
Alignment explanation
Indices: 22436810--22436879 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
22436800 CTATCAAATA
* * *
22436810 ATGAAAAGGAATAGCTTTGGCTATCGAGCT
1 ATGAAAAGGGATAGCTTCGGCTATCAAGCT
**
22436840 GCGAAAAGGGATAGCTTCGGCTATCAAGCT
1 ATGAAAAGGGATAGCTTCGGCTATCAAGCT
22436870 ATGAAAAGGG
1 ATGAAAAGGG
22436880 TTGGGACAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.21
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGGCTATCAAGCT
Found at i:22438605 original size:69 final size:67
Alignment explanation
Indices: 22438487--22438615 Score: 188
Period size: 69 Copynumber: 1.9 Consensus size: 67
22438477 AATAATATTA
* *
22438487 ATTTAATATATTTAATACTTATCTTAAAAGTATTTTATTAATTTAATATTAAAGTGATTATCTTA
1 ATTTAATATATTTAATACTTATCTTAAAAGTATTATATTAATTTAATATTAAAATGATTATCTTA
22438552 AT
66 AT
* *
22438554 ATTTAATTTAATTTAATATTTATCTTGATAAA-TATTATATTAATTTAATATTAAAATGATTA
1 ATTTAATAT-ATTTAATACTTATCTT-A-AAAGTATTATATTAATTTAATATTAAAATGATTA
22438616 AGTTTAATCA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
67 8 0.15
68 15 0.27
69 29 0.53
70 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (67 bp):
ATTTAATATATTTAATACTTATCTTAAAAGTATTATATTAATTTAATATTAAAATGATTATCTTA
AT
Found at i:22441119 original size:21 final size:21
Alignment explanation
Indices: 22441093--22441132 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
22441083 TTCATTTAAG
22441093 AAAAAAAAAGAAATTGCCAAA
1 AAAAAAAAAGAAATTGCCAAA
22441114 AAAAAAAAAGAAATTGCCA
1 AAAAAAAAAGAAATTGCCA
22441133 TCCCTATCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.70, C:0.10, G:0.10, T:0.10
Consensus pattern (21 bp):
AAAAAAAAAGAAATTGCCAAA
Found at i:22445061 original size:12 final size:12
Alignment explanation
Indices: 22445044--22445076 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
22445034 CGTTTTTACC
22445044 TAATTTCTTCAA
1 TAATTTCTTCAA
22445056 TAATTTCTTCAA
1 TAATTTCTTCAA
22445068 TAATTTCTT
1 TAATTTCTT
22445077 TTTCTAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (12 bp):
TAATTTCTTCAA
Found at i:22446983 original size:110 final size:111
Alignment explanation
Indices: 22446853--22447073 Score: 435
Period size: 110 Copynumber: 2.0 Consensus size: 111
22446843 ACCAATACAA
22446853 ATAAATTATAATAAATACTATGTAATTTAATTAAATATCTAGTAGATAAAATATAGGTGACTAAA
1 ATAAATTATAATAAATACTATGTAATTTAATTAAATATCTAGTAGATAAAATATAGGTGACTAAA
22446918 TAAACAATCAACACATTATTTTTTAAAATAAAAAATATTAATGTTT
66 TAAACAATCAACACATTATTTTTTAAAATAAAAAATATTAATGTTT
22446964 ATAAATTAT-ATAAATACTATGTAATTTAATTAAATATCTAGTAGATAAAATATAGGTGACTAAA
1 ATAAATTATAATAAATACTATGTAATTTAATTAAATATCTAGTAGATAAAATATAGGTGACTAAA
22447028 TAAACAATCAACACATTATTTTTTAAAATAAAAAATATTAATGTTT
66 TAAACAATCAACACATTATTTTTTAAAATAAAAAATATTAATGTTT
22447074 TTTTTAAAAG
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
110 101 0.92
111 9 0.08
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.37
Consensus pattern (111 bp):
ATAAATTATAATAAATACTATGTAATTTAATTAAATATCTAGTAGATAAAATATAGGTGACTAAA
TAAACAATCAACACATTATTTTTTAAAATAAAAAATATTAATGTTT
Found at i:22449994 original size:38 final size:38
Alignment explanation
Indices: 22449952--22450025 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
22449942 TCTAGCTTTC
22449952 ATATACATTATATTATATA-TATTCTCTTTTTATTTTGT
1 ATATACA-TATATTATATAGTATTCTCTTTTTATTTTGT
* * *
22449990 ATATACATATATTTTCTAGTATTTTCTTTTTATTTT
1 ATATACATATATTATATAGTATTCTCTTTTTATTTT
22450026 CAACTTTCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 9 0.28
38 23 0.72
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (38 bp):
ATATACATATATTATATAGTATTCTCTTTTTATTTTGT
Found at i:22453731 original size:17 final size:17
Alignment explanation
Indices: 22453709--22453743 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
22453699 ACACCGAATG
22453709 AGAAGACTTGTTTGGAA
1 AGAAGACTTGTTTGGAA
22453726 AGAAGACTTGTTTGGAA
1 AGAAGACTTGTTTGGAA
22453743 A
1 A
22453744 TTCTACACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.29
Consensus pattern (17 bp):
AGAAGACTTGTTTGGAA
Found at i:22458944 original size:9 final size:9
Alignment explanation
Indices: 22458930--22458958 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
22458920 CAAAAGGTAA
22458930 GCAATAGTG
1 GCAATAGTG
22458939 GCAATAGTG
1 GCAATAGTG
22458948 GCAATAGTG
1 GCAATAGTG
22458957 GC
1 GC
22458959 GTTTTTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (9 bp):
GCAATAGTG
Found at i:22460951 original size:28 final size:27
Alignment explanation
Indices: 22460908--22460972 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
22460898 AATACGAAAG
*
22460908 AAATGAAATTATATATTAAA-ATAAATTTA
1 AAAT-AAATAATATA-TAAATA-AAATTTA
*
22460937 AAATAAATAATATATAAATGAAAATTTG
1 AAATAAATAATATATAAAT-AAAATTTA
22460965 AAATAAAT
1 AAATAAAT
22460973 TAAAAATACG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 4 0.12
28 23 0.72
29 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (27 bp):
AAATAAATAATATATAAATAAAATTTA
Found at i:22461355 original size:15 final size:15
Alignment explanation
Indices: 22461337--22461367 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22461327 CTAATAGTTC
*
22461337 TAATAACATTAATAA
1 TAATAACAATAATAA
22461352 TAATAACAATAATAA
1 TAATAACAATAATAA
22461367 T
1 T
22461368 GAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (15 bp):
TAATAACAATAATAA
Found at i:22465374 original size:9 final size:9
Alignment explanation
Indices: 22465360--22465388 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
22465350 CAAAAGGTAA
22465360 GCAATAGTG
1 GCAATAGTG
22465369 GCAATAGTG
1 GCAATAGTG
22465378 GCAATAGTG
1 GCAATAGTG
22465387 GC
1 GC
22465389 GTTTTTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (9 bp):
GCAATAGTG
Found at i:22467402 original size:19 final size:19
Alignment explanation
Indices: 22467357--22467403 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
22467347 TATATATTAA
*
22467357 AATAAAT-TTAAAATAAAT
1 AATAAATATGAAAATAAAT
*
22467375 AATATATATGAAAATAAATT
1 AATAAATATGAAAATAAA-T
22467395 AA-AAATATG
1 AATAAATATG
22467404 GTTAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.25
19 15 0.62
20 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (19 bp):
AATAAATATGAAAATAAAT
Found at i:22480060 original size:22 final size:23
Alignment explanation
Indices: 22480034--22480077 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
22480024 GTGATGAGGT
*
22480034 TATCTTGTGAATATGTT-AAATC
1 TATCTTGAGAATATGTTGAAATC
22480056 TATCTTGAGAATATGTTGAAAT
1 TATCTTGAGAATATGTTGAAAT
22480078 GGATTGGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (23 bp):
TATCTTGAGAATATGTTGAAATC
Found at i:22482162 original size:46 final size:46
Alignment explanation
Indices: 22482112--22482203 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
22482102 ACTTTCATAT
*
22482112 TGTTTTCTATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
1 TGTTTTCCATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
22482158 TGTTTTCCATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
1 TGTTTTCCATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
22482204 CTAAACCTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.49
Consensus pattern (46 bp):
TGTTTTCCATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
Found at i:22484070 original size:28 final size:28
Alignment explanation
Indices: 22484030--22484086 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
22484020 AAGTTCATAC
22484030 AATATAATCAAGTTTAAAATTTTGTTGT
1 AATATAATCAAGTTTAAAATTTTGTTGT
22484058 AATATAATCAAGTTTAAAATTTTGTTGT
1 AATATAATCAAGTTTAAAATTTTGTTGT
22484086 A
1 A
22484087 TTATGTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.46
Consensus pattern (28 bp):
AATATAATCAAGTTTAAAATTTTGTTGT
Found at i:22484575 original size:31 final size:31
Alignment explanation
Indices: 22484516--22484580 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
22484506 CAACAATTTG
* *
22484516 ACTCTTTTTAAAAAGTTGATGGTCAAATTAA
1 ACTCTTTGTAAAAAGTTGATGCTCAAATTAA
*
22484547 ACTCTTTGTAAAAAGTTGAGTGCT-AAATTTA
1 ACTCTTTGTAAAAAGTTGA-TGCTCAAATTAA
22484578 ACT
1 ACT
22484581 TAAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (31 bp):
ACTCTTTGTAAAAAGTTGATGCTCAAATTAA
Found at i:22484776 original size:26 final size:24
Alignment explanation
Indices: 22484734--22484783 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
22484724 TATTTGTATT
22484734 TTTATATATTATATAAAGATTAAA
1 TTTATATATTATATAAAGATTAAA
* *
22484758 TTTATTATATTAATGTAAATATTAAA
1 TTTA-TATATT-ATATAAAGATTAAA
22484784 AAGTATGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 6 0.27
26 12 0.55
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TTTATATATTATATAAAGATTAAA
Found at i:22486569 original size:2 final size:2
Alignment explanation
Indices: 22486564--22486596 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22486554 TTTTTTTGGT
22486564 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
22486597 TATCTGGGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:22488078 original size:61 final size:61
Alignment explanation
Indices: 22487983--22488104 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
22487973 GGTGATTAGG
22487983 CATAAATTTTGTGATTTTACTAAAAATCAGGTTTACAAGCATAAAAATAAAAGCATGTTTT
1 CATAAATTTTGTGATTTTACTAAAAATCAGGTTTACAAGCATAAAAATAAAAGCATGTTTT
22488044 CATAAATTTTGTGATTTTACTAAAAATCAGGTTTACAAGCATAAAAATAAAAGCATGTTTT
1 CATAAATTTTGTGATTTTACTAAAAATCAGGTTTACAAGCATAAAAATAAAAGCATGTTTT
22488105 TTCATCGTTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (61 bp):
CATAAATTTTGTGATTTTACTAAAAATCAGGTTTACAAGCATAAAAATAAAAGCATGTTTT
Found at i:22496256 original size:27 final size:27
Alignment explanation
Indices: 22496169--22496332 Score: 143
Period size: 27 Copynumber: 5.8 Consensus size: 27
22496159 TTTATCCTGA
22496169 GGGTATTTAGGTCATTTTACCCTA-AGG
1 GGGTATTTAGGTCATTTTACCCTATA-G
* * *
22496196 GGGTATTTCGATCATTTTACCCTATGG
1 GGGTATTTAGGTCATTTTACCCTATAG
22496223 GGGTATTTAGGTCATTTTACCCTATAG
1 GGGTATTTAGGTCATTTTACCCTATAG
* *
22496250 GGATATTTCAGTTATTCGATCATTTTACCCTATGG
1 GGGTATTT-AG------G-TCATTTTACCCTATAG
* *
22496285 GGGTGTTTCA-GTTATTTTACCCTATAG
1 GGGTATTT-AGGTCATTTTACCCTATAG
* *
22496312 GGGTATTTTGGTTATTTTACC
1 GGGTATTTAGGTCATTTTACC
22496333 TATTTTAGGG
Statistics
Matches: 113, Mismatches: 14, Indels: 20
0.77 0.10 0.14
Matches are distributed among these distances:
27 86 0.76
28 3 0.03
34 1 0.01
35 23 0.20
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGTATTTAGGTCATTTTACCCTATAG
Found at i:22496280 original size:35 final size:35
Alignment explanation
Indices: 22496234--22496300 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
22496224 GGTATTTAGG
22496234 TCATTTTACCCTATAGGGATATTTCAGTTATTCGA
1 TCATTTTACCCTATAGGGATATTTCAGTTATTCGA
* * *
22496269 TCATTTTACCCTATGGGGGTGTTTCAGTTATT
1 TCATTTTACCCTATAGGGATATTTCAGTTATT
22496301 TTACCCTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (35 bp):
TCATTTTACCCTATAGGGATATTTCAGTTATTCGA
Found at i:22496327 original size:62 final size:62
Alignment explanation
Indices: 22496202--22496319 Score: 193
Period size: 62 Copynumber: 1.9 Consensus size: 62
22496192 AAGGGGGTAT
22496202 TTCGATCATTTTACCCTATGGGGGTATTTAGGTCATTTTACCCTATAGGGATATTTCAGTTA
1 TTCGATCATTTTACCCTATGGGGGTATTTAGGTCATTTTACCCTATAGGGATATTTCAGTTA
* * *
22496264 TTCGATCATTTTACCCTATGGGGGTGTTTCA-GTTATTTTACCCTATAGGGGTATTT
1 TTCGATCATTTTACCCTATGGGGGTATTT-AGGTCATTTTACCCTATAGGGATATTT
22496320 TGGTTATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
62 51 0.98
63 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (62 bp):
TTCGATCATTTTACCCTATGGGGGTATTTAGGTCATTTTACCCTATAGGGATATTTCAGTTA
Found at i:22502065 original size:43 final size:42
Alignment explanation
Indices: 22501998--22502161 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 42
22501988 ATTTCGATAA
* *
22501998 GTGTTTTCTTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
1 GTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TT
* * * *
22502041 GTGTTTACGTGTAAGCCCATGTCTGGGACATTGCCATCGTATT
1 GTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATT
*
22502084 -TGATTT--GTGTAAGACCATGTCTGGGACAG-TGGCATCGATAT
1 GTG-TTTACGTGTAAGACCACGTCTGGGAC-GTTGGCATCGAT-T
* *
22502125 GTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
22502162 TGTACGACTC
Statistics
Matches: 101, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
40 2 0.02
41 30 0.30
42 5 0.05
43 63 0.62
44 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (42 bp):
GTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATT
Found at i:22502351 original size:16 final size:17
Alignment explanation
Indices: 22502322--22502353 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
22502312 TGAATTGATG
22502322 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
22502339 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
22502354 TTGTATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:22503062 original size:2 final size:2
Alignment explanation
Indices: 22503055--22503084 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
22503045 GGTTATGTGT
22503055 TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
22503085 GTGTGATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22506136 original size:24 final size:24
Alignment explanation
Indices: 22506091--22506148 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
22506081 AAACACTCCA
*
22506091 CAGAATGAA-TCACACCATAGTGC
1 CAGAATGAATTCACACCAAAGTGC
**
22506114 CAGAATGAATTCGTACCAAAGTGC
1 CAGAATGAATTCACACCAAAGTGC
*
22506138 TAGAATGAATT
1 CAGAATGAATT
22506149 ACATTATGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 9 0.30
24 21 0.70
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (24 bp):
CAGAATGAATTCACACCAAAGTGC
Found at i:22514858 original size:12 final size:12
Alignment explanation
Indices: 22514841--22514874 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
22514831 ACTAAACAAC
22514841 TAAACATAAACA
1 TAAACATAAACA
22514853 TAAACATAAACA
1 TAAACATAAACA
22514865 TAAACATAAA
1 TAAACATAAA
22514875 ACTAAAGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.18
Consensus pattern (12 bp):
TAAACATAAACA
Found at i:22514880 original size:12 final size:11
Alignment explanation
Indices: 22514838--22514880 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 11
22514828 AAAACTAAAC
22514838 AACTAAACATA
1 AACTAAACATA
22514849 AACATAAACATA
1 AAC-TAAACATA
22514861 AACATAAACATAA
1 AAC-TAAACAT-A
22514874 AACTAAA
1 AACTAAA
22514881 GCTAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.10
12 23 0.77
13 4 0.13
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.16
Consensus pattern (11 bp):
AACTAAACATA
Found at i:22514880 original size:18 final size:18
Alignment explanation
Indices: 22514838--22514898 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
22514828 AAAACTAAAC
22514838 AACTAAACATAAACAT-A
1 AACTAAACATAAACATAA
22514855 AACATAAACATAAACATAA
1 AAC-TAAACATAAACATAA
22514874 AACTAAAGC-TAAA-ACTAA
1 AACTAAA-CATAAACA-TAA
22514892 AACTAAA
1 AACTAAA
22514899 AAGAAAACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.10
18 31 0.77
19 5 0.12
ACGTcount: A:0.66, C:0.16, G:0.02, T:0.16
Consensus pattern (18 bp):
AACTAAACATAAACATAA
Found at i:22514886 original size:12 final size:12
Alignment explanation
Indices: 22514866--22514899 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22514856 ACATAAACAT
22514866 AAACATAAAACTA
1 AAAC-TAAAACTA
*
22514879 AAGCTAAAACTA
1 AAACTAAAACTA
22514891 AAACTAAAA
1 AAACTAAAA
22514900 AGAAAACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.68, C:0.15, G:0.03, T:0.15
Consensus pattern (12 bp):
AAACTAAAACTA
Found at i:22516454 original size:14 final size:14
Alignment explanation
Indices: 22516437--22516478 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
22516427 AAATAATCAT
*
22516437 AAAAATAATAGT-A
1 AAAAATAATAATAA
22516450 AAAAATAATAATAA
1 AAAAATAATAATAA
* *
22516464 GATAATAATAATAA
1 AAAAATAATAATAA
22516478 A
1 A
22516479 GCTAAGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (14 bp):
AAAAATAATAATAA
Found at i:22516687 original size:5 final size:5
Alignment explanation
Indices: 22516677--22516730 Score: 71
Period size: 5 Copynumber: 11.4 Consensus size: 5
22516667 TAAGCATAGG
22516677 AATAA AAT-A AAT-A AATAA AATTAA AAT-- AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AA-TAA AATAA AATAA AATAA AATAA AATAA
22516724 AATAA AA
1 AATAA AA
22516731 AATAGGGCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
3 3 0.07
4 8 0.18
5 29 0.64
6 5 0.11
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:22516701 original size:19 final size:18
Alignment explanation
Indices: 22516677--22516729 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 18
22516667 TAAGCATAGG
22516677 AATAAAATAAATAAATAA
1 AATAAAATAAATAAATAA
22516695 AATTAAAAT-AATAAAATAA
1 AA-TAAAATAAAT-AAATAA
22516714 AATAAAATAAAATAAA
1 AATAAAAT-AAATAAA
22516730 AAATAGGGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 11 0.35
19 17 0.55
20 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAAAATAAATAAATAA
Found at i:22516713 original size:23 final size:21
Alignment explanation
Indices: 22516685--22516734 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 21
22516675 GGAATAAAAT
22516685 AAATAAATAAAATTAAAATAATA
1 AAATAAATAAAA-TAAAATAA-A
22516708 AAATAAAATAAAATAAAATAAA
1 AAAT-AAATAAAATAAAATAAA
22516730 AAATA
1 AAATA
22516735 GGGCAAGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 1 0.04
22 5 0.19
23 12 0.46
24 8 0.31
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAAATAAAATAAAATAAA
Found at i:22527074 original size:16 final size:16
Alignment explanation
Indices: 22527053--22527117 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
22527043 CGTTTGGTTT
22527053 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
22527069 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
22527085 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
22527101 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
22527117 G
1 G
22527118 GTGTGATAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.37, C:0.03, G:0.34, T:0.26
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:22527096 original size:32 final size:32
Alignment explanation
Indices: 22527055--22527121 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
22527045 TTTGGTTTGC
22527055 TGTAATGGAATAGAGCTGTAATGGAATAGAGG
1 TGTAATGGAATAGAGCTGTAATGGAATAGAGG
*
22527087 TGTAATGGAATAGAGTTGTAATGGAATAGAGG
1 TGTAATGGAATAGAGCTGTAATGGAATAGAGG
22527119 TGT
1 TGT
22527122 GATAGTAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.01, G:0.34, T:0.28
Consensus pattern (32 bp):
TGTAATGGAATAGAGCTGTAATGGAATAGAGG
Found at i:22527172 original size:45 final size:44
Alignment explanation
Indices: 22527106--22527198 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
22527096 ATAGAGTTGT
** *
22527106 AATGGAATAGAGGTGTGATAGTAATTCAAT-TGTTTGGTTGAATAG
1 AATGGAATAGAACTGTAATAGT-ATT-AATGTGTTTGGTTGAATAG
** *
22527151 AATGGAATAGAACTGTAATAGTATTTTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTAATGTGTTTGGTTGAATAG
22527195 AATG
1 AATG
22527199 ATGTTGTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.51
45 19 0.46
ACGTcount: A:0.32, C:0.02, G:0.28, T:0.38
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTAATGTGTTTGGTTGAATAG
Found at i:22529058 original size:49 final size:49
Alignment explanation
Indices: 22528986--22529089 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
22528976 GAAAAAAAAC
* * *
22528986 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
*
22529035 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAATACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
22529084 AAATTA
1 AAATTA
22529090 TAACACATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.33
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
Found at i:22534231 original size:78 final size:78
Alignment explanation
Indices: 22534102--22534245 Score: 207
Period size: 78 Copynumber: 1.8 Consensus size: 78
22534092 TATCAGCCAA
* * *
22534102 GGGGTTAACAAGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
22534167 GGCAGTGACACTC
66 GGCAGTGACACTC
** * * * *
22534180 GGGGTTAATGAGGACTGAATTCGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
22534245 G
66 G
22534246 ACAGCAACAC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 57 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.35
Consensus pattern (78 bp):
GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
GGCAGTGACACTC
Found at i:22538913 original size:13 final size:13
Alignment explanation
Indices: 22538897--22538924 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22538887 AAATTTAGAG
22538897 AAAAAAATCTAAA
1 AAAAAAATCTAAA
22538910 AAAAAAATCTAAA
1 AAAAAAATCTAAA
22538923 AA
1 AA
22538925 CTTAGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAAATCTAAA
Found at i:22563285 original size:29 final size:29
Alignment explanation
Indices: 22563241--22563297 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
22563231 CTGTCTTCTC
*
22563241 CCCCAAACATTTTTTCCCCTCTGCTGGTT
1 CCCCAAACATTCTTTCCCCTCTGCTGGTT
*
22563270 CCCCAAACGTTCTTTCCCCTCTGCTGGT
1 CCCCAAACATTCTTTCCCCTCTGCTGGT
22563298 GAAATTGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.12, C:0.40, G:0.12, T:0.35
Consensus pattern (29 bp):
CCCCAAACATTCTTTCCCCTCTGCTGGTT
Found at i:22566102 original size:13 final size:13
Alignment explanation
Indices: 22566081--22566144 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
22566071 ACACTCAAAT
22566081 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* * *
22566094 TTCTCAAAAGTAT
1 TTTTCAAAAGCAC
22566107 TTTTCCAAAA-CAC
1 TTTT-CAAAAGCAC
22566120 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
22566133 TTTTCAAAAGCA
1 TTTTCAAAAGCA
22566145 ACGAAGAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
12 5 0.12
13 33 0.77
14 5 0.12
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:22567860 original size:54 final size:52
Alignment explanation
Indices: 22567736--22567869 Score: 146
Period size: 54 Copynumber: 2.5 Consensus size: 52
22567726 TCACATTGTC
* * * *
22567736 GTGTGACTCAAGTAAAAGAGTTACACGGTCTGGCACAAGGCTTGACACGCTT
1 GTGTGACTCAAGTCAGAGAGTTACACGGTCTGGCACAAGGCTTGACACACCT
* *
22567788 GTGGGACTCCAGTCAGAGAGTTACACGGTCTAGCGCAC-A-GCTTGACACACACCT
1 GTGTGACTCAAGTCAGAGAGTTACACGGTCT-G-GCACAAGGCTTG--ACACACCT
* *
22567842 GTGTGACTCAAGCCAGAGATTTACACGG
1 GTGTGACTCAAGTCAGAGAGTTACACGG
22567870 CTTGACACAC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
52 32 0.47
53 2 0.03
54 34 0.50
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.21
Consensus pattern (52 bp):
GTGTGACTCAAGTCAGAGAGTTACACGGTCTGGCACAAGGCTTGACACACCT
Found at i:22577784 original size:54 final size:54
Alignment explanation
Indices: 22577553--22577761 Score: 256
Period size: 54 Copynumber: 3.9 Consensus size: 54
22577543 CACGGATTGT
* * * * * * * *
22577553 CACACGGCCTAACACATAGTCGTGTGACTCAAGTTAGAGAGTTACATAGTCTGA
1 CACATGGCCTGACACACACTCGTGTGACTCAAGTCAAAGAGTTACACAGTCTAA
* *
22577607 CACATGGCCTGACACACGCCCGTGTGACTCAAGTCAAAGAGTTACACAGTCTAA
1 CACATGGCCTGACACACACTCGTGTGACTCAAGTCAAAGAGTTACACAGTCTAA
* * * * *
22577661 CACACGGCCTGACACACGCTCGTGTGACTCAAGTCAAAGAGTTATACGGTCTAG
1 CACATGGCCTGACACACACTCGTGTGACTCAAGTCAAAGAGTTACACAGTCTAA
* * *
22577715 CACATGGCCTGACACATACTCGTCTGACTCAAGTCAGAGAGTTACAC
1 CACATGGCCTGACACACACTCGTGTGACTCAAGTCAAAGAGTTACAC
22577762 GGTTTGGCAT
Statistics
Matches: 134, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 134 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (54 bp):
CACATGGCCTGACACACACTCGTGTGACTCAAGTCAAAGAGTTACACAGTCTAA
Found at i:22587360 original size:89 final size:89
Alignment explanation
Indices: 22587161--22587362 Score: 230
Period size: 90 Copynumber: 2.3 Consensus size: 89
22587151 AACTTTCAAA
* * * * *
22587161 AAAAAGAAGCAATTAAGGCCCT-CCTTTTTTTGCACTTAATTGAGCACTCGAACTTTCAAAATGC
1 AAAAA-AAGCAATTAAGCCCCTGCTTTTTTTTCCACTCAATTGAGCACTCAAACTTTCAAAATGC
* * * *
22587225 ATCAAAAAGGCCTTCAAGCTTCTCC
65 ATAAAAAAGACCCTCAAGATTCTCC
* * *
22587250 AAAAAAAGCAATTAAGCCCCTGCTTTTTTTTCCCACTCAATTGGGTACTTAAACTTTCAAAATGC
1 AAAAAAAGCAATTAAGCCCCTGCTTTTTTTT-CCACTCAATTGAGCACTCAAACTTTCAAAATGC
* *
22587315 ATAAAAAAGACCCTCAA-ATTGTTTC
65 ATAAAAAAGACCCTCAAGATT-CTCC
22587340 -AAAAAAGCAATTAAGCCCCTGCT
1 AAAAAAAGCAATTAAGCCCCTGCT
22587363 CTTATTAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
88 15 0.16
89 38 0.40
90 43 0.45
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (89 bp):
AAAAAAAGCAATTAAGCCCCTGCTTTTTTTTCCACTCAATTGAGCACTCAAACTTTCAAAATGCA
TAAAAAAGACCCTCAAGATTCTCC
Found at i:22591279 original size:4 final size:4
Alignment explanation
Indices: 22591272--22591301 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
22591262 CAAAATAAAT
22591272 ATTA ATTA ATTA ATTA ATTA ATTAA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATT-A ATTA A
22591302 CTAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:22591289 original size:12 final size:13
Alignment explanation
Indices: 22591272--22591313 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
22591262 CAAAATAAAT
22591272 ATTAATTAATT-A
1 ATTAATTAATTAA
22591284 ATTAATTAATTAA
1 ATTAATTAATTAA
*
22591297 ATTAACTAAATTAA
1 ATTAA-TTAATTAA
22591311 ATT
1 ATT
22591314 CTCAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 11 0.41
13 6 0.22
14 10 0.37
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTAATTAATTAA
Found at i:22592538 original size:42 final size:42
Alignment explanation
Indices: 22592479--22592566 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
22592469 CATACGACCG
*
22592479 TGTGGGGTGACCATGTGTGACACACGGTTGTGTGACAACCCA
1 TGTGGGGTGACCATGTGTGACACACGGCTGTGTGACAACCCA
* * * *
22592521 TGTGGGGTGACCTTGTGTGACACATGGCTGTGTGACAGCCCC
1 TGTGGGGTGACCATGTGTGACACACGGCTGTGTGACAACCCA
22592563 TGTG
1 TGTG
22592567 CTTTCAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.17, C:0.22, G:0.35, T:0.26
Consensus pattern (42 bp):
TGTGGGGTGACCATGTGTGACACACGGCTGTGTGACAACCCA
Found at i:22593916 original size:20 final size:20
Alignment explanation
Indices: 22593883--22593931 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
22593873 AGATGCAGAA
*
22593883 CAGGGGCA-ATTACGTGCAGT
1 CAGGGGCACA-TACGTGCAGC
*
22593903 CAGGTGCACATACGTGCAGC
1 CAGGGGCACATACGTGCAGC
22593923 CAGGGGCAC
1 CAGGGGCAC
22593932 CGAAGTGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.24, C:0.27, G:0.35, T:0.14
Consensus pattern (20 bp):
CAGGGGCACATACGTGCAGC
Found at i:22594080 original size:60 final size:59
Alignment explanation
Indices: 22593923--22594085 Score: 173
Period size: 60 Copynumber: 2.7 Consensus size: 59
22593913 TACGTGCAGC
* * * * * *
22593923 CAGGGGCACCGAAGTGTGAACAAGGGCACAATCGTGCAAACAGGGATACCAAAGTGTATA
1 CAGGGGCACCGAAGTGAGAAC-AGGGCACAGTAGTGCAAATAGAGACACCAAAGTGTATA
* * * * * *
22593983 TAAGGGCACTGAAGTGCGAATAGGAGCACAGTAGTGCAAATAGAGACACCGAAGTGTATA
1 CAGGGGCACCGAAGTGAGAACAGG-GCACAGTAGTGCAAATAGAGACACCAAAGTGTATA
* *
22594043 CAGGGGCACCGAAGTGAGAACATGGGCATAGTTGTGCAAATAG
1 CAGGGGCACCGAAGTGAGAACA-GGGCACAGTAGTGCAAATAG
22594086 GGGCACTTCT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
59 3 0.04
60 78 0.94
61 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.15
Consensus pattern (59 bp):
CAGGGGCACCGAAGTGAGAACAGGGCACAGTAGTGCAAATAGAGACACCAAAGTGTATA
Found at i:22595202 original size:20 final size:20
Alignment explanation
Indices: 22595177--22595214 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22595167 ACATTCAAAA
22595177 TACCATAATCACAA-CCAAGT
1 TACCATAA-CACAAGCCAAGT
22595197 TACCATAACACAAGCCAA
1 TACCATAACACAAGCCAA
22595215 ACCATATGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.47, C:0.32, G:0.05, T:0.16
Consensus pattern (20 bp):
TACCATAACACAAGCCAAGT
Found at i:22596355 original size:34 final size:34
Alignment explanation
Indices: 22596308--22596375 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
22596298 CCTGTACATG
* *
22596308 TATGCTCATACGAGCTGTGAATTGGTATGCTCAC
1 TATGCTCATACGAGCTGTAAAATGGTATGCTCAC
22596342 TATGCTC-TCACGAGCTGTAAAATGGTATGCTCAC
1 TATGCTCAT-ACGAGCTGTAAAATGGTATGCTCAC
22596376 ACGAGCTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 1 0.03
34 30 0.97
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (34 bp):
TATGCTCATACGAGCTGTAAAATGGTATGCTCAC
Found at i:22596378 original size:25 final size:25
Alignment explanation
Indices: 22596342--22596398 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
22596332 GTATGCTCAC
*
22596342 TATGCTCTCACGAGCTGTAAAAT-GG
1 TATGCTCACACGAGCTGT-AAATCGG
*
22596367 TATGCTCACACGAGCTGTAGATCGG
1 TATGCTCACACGAGCTGTAAATCGG
22596392 TATGCTC
1 TATGCTC
22596399 TCAAGAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 3 0.10
25 26 0.90
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTAAATCGG
Found at i:22600373 original size:3 final size:3
Alignment explanation
Indices: 22600365--22600413 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
22600355 CTTATGGCAT
*
22600365 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22600413 T
1 T
22600414 AAATTGAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:22602740 original size:14 final size:15
Alignment explanation
Indices: 22602721--22602749 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22602711 TTATCCCAAT
22602721 CAAATAAAG-AAAAA
1 CAAATAAAGCAAAAA
22602735 CAAATAAAGCAAAAA
1 CAAATAAAGCAAAAA
22602750 TGATTAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.10, G:0.07, T:0.07
Consensus pattern (15 bp):
CAAATAAAGCAAAAA
Found at i:22616169 original size:70 final size:70
Alignment explanation
Indices: 22616068--22616199 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 70
22616058 GAGACATAAT
* *
22616068 CAAACATTTTGACGCAAAACGAGATGGCAACCCAAGCACCTCA-TCCCGGTTACTCAATTTGGCT
1 CAAACATTTTGACGCAAAACGAGATGACAACCCAAGCACCTCACT-CCGGTTACTCAACTTGGCT
22616132 CGTCAC
65 CGTCAC
* * * * *
22616138 CAAACCTTTTGACGCGAAATGATATGACAACCCAAGCACCTCACTCGGGTTACTCAACTTGG
1 CAAACATTTTGACGCAAAACGAGATGACAACCCAAGCACCTCACTCCGGTTACTCAACTTGG
22616200 TCACATTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 53 0.98
71 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (70 bp):
CAAACATTTTGACGCAAAACGAGATGACAACCCAAGCACCTCACTCCGGTTACTCAACTTGGCTC
GTCAC
Found at i:22628822 original size:17 final size:17
Alignment explanation
Indices: 22628777--22628827 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
22628767 ACCGTAAAAC
22628777 ATTTATTATTAATATAT
1 ATTTATTATTAATATAT
22628794 -TTATAATT-TTAATATAT
1 ATT-T-ATTATTAATATAT
*
22628811 ATTTATTATTAAAATAT
1 ATTTATTATTAATATAT
22628828 TAATATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
16 5 0.17
17 19 0.66
18 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTATTATTAATATAT
Found at i:22628826 original size:19 final size:19
Alignment explanation
Indices: 22628788--22628827 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22628778 TTTATTATTA
**
22628788 ATATATTTATAATTTTAAT
1 ATATATTTATAATTAAAAT
*
22628807 ATATATTTATTATTAAAAT
1 ATATATTTATAATTAAAAT
22628826 AT
1 AT
22628828 TAATATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATATTTATAATTAAAAT
Found at i:22637730 original size:19 final size:18
Alignment explanation
Indices: 22637686--22637730 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
22637676 ATGTCGTTCG
22637686 TTTCCAAAACATTATTCA
1 TTTCCAAAACATTATTCA
* *
22637704 TTTACAAATCATTATTCAA
1 TTTCCAAAACATTATTC-A
22637723 TTTCCAAA
1 TTTCCAAA
22637731 GTTTTTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTCCAAAACATTATTCA
Found at i:22638613 original size:23 final size:23
Alignment explanation
Indices: 22638586--22638660 Score: 132
Period size: 23 Copynumber: 3.3 Consensus size: 23
22638576 CACTTTGCCG
22638586 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
22638609 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
22638632 ATCAGACACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
22638655 TTCAGG
1 ATCAGG
22638661 AACCTCGTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:22638671 original size:23 final size:21
Alignment explanation
Indices: 22638645--22638696 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
22638635 AGACACTTTA
*
22638645 TGTGTCGTATTTCAGGAACCTCG
1 TGTGTCGTA--TCAAGAACCTCG
*
22638668 TGTGTCGTATCAAGCACCTCG
1 TGTGTCGTATCAAGAACCTCG
22638689 TGTGTCGT
1 TGTGTCGT
22638697 TTTAAGCACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 18 0.67
23 9 0.33
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (21 bp):
TGTGTCGTATCAAGAACCTCG
Found at i:22638672 original size:46 final size:46
Alignment explanation
Indices: 22638586--22638677 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
22638576 CACTTTGCCG
* * * *
22638586 ATCAGGCACTTTATGTGTCGTATATCAGGCACTTTATGTGTCGTAT
1 ATCAGACACTTTATGTGTCGTATATCAGGAACCTCATGTGTCGTAT
* *
22638632 ATCAGACACTTTATGTGTCGTATTTCAGGAACCTCGTGTGTCGTAT
1 ATCAGACACTTTATGTGTCGTATATCAGGAACCTCATGTGTCGTAT
22638678 CAAGCACCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (46 bp):
ATCAGACACTTTATGTGTCGTATATCAGGAACCTCATGTGTCGTAT
Found at i:22638686 original size:21 final size:21
Alignment explanation
Indices: 22638662--22638705 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
22638652 TATTTCAGGA
22638662 ACCTCGTGTGTCGTATCAAGC
1 ACCTCGTGTGTCGTATCAAGC
* *
22638683 ACCTCGTGTGTCGTTTTAAGC
1 ACCTCGTGTGTCGTATCAAGC
22638704 AC
1 AC
22638706 TTATGTGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (21 bp):
ACCTCGTGTGTCGTATCAAGC
Found at i:22648705 original size:7 final size:8
Alignment explanation
Indices: 22648677--22648709 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
22648667 NNNNNNNNNC
22648677 TTTTTAATA
1 TTTTTAA-A
22648686 TTTTTAAA
1 TTTTTAAA
22648694 TTTTTAAA
1 TTTTTAAA
22648702 TTTTTAAA
1 TTTTTAAA
22648710 AATTAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTTAAA
Found at i:22652529 original size:13 final size:13
Alignment explanation
Indices: 22652506--22652530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22652496 CAAGGTTAAG
22652506 GTTTAAGGTTCGA
1 GTTTAAGGTTCGA
22652519 GTTTAAGGTTCG
1 GTTTAAGGTTCG
22652531 GGGTTCAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.32, T:0.40
Consensus pattern (13 bp):
GTTTAAGGTTCGA
Found at i:22652535 original size:20 final size:20
Alignment explanation
Indices: 22652485--22652539 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
22652475 TGAACCTTAG
22652485 GGTTCGGGGTTCAAGGTTAA
1 GGTTCGGGGTTCAAGGTTAA
*** * *
22652505 GGTTTAAGGTTCGAGTTTAA
1 GGTTCGGGGTTCAAGGTTAA
22652525 GGTTCGGGGTTCAAG
1 GGTTCGGGGTTCAAG
22652540 ATAAAATAAT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.09, G:0.38, T:0.33
Consensus pattern (20 bp):
GGTTCGGGGTTCAAGGTTAA
Found at i:22654172 original size:17 final size:19
Alignment explanation
Indices: 22654142--22654176 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
22654132 ATATATATAT
22654142 ATATATGAATAATTATTTG
1 ATATATGAATAATTATTTG
22654161 ATATAT-AA-AATTATTT
1 ATATATGAATAATTATTT
22654177 TAATTTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (19 bp):
ATATATGAATAATTATTTG
Found at i:22655935 original size:19 final size:22
Alignment explanation
Indices: 22655902--22655954 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 22
22655892 AAATCTTTTT
* *
22655902 TTAATATATATTTT-AAAATAA
1 TTAATAAAAATTTTAAAAATAA
22655923 -T-ATAAAAATTTTAAAAATAA
1 TTAATAAAAATTTTAAAAATAA
22655943 TTAATAAAAATT
1 TTAATAAAAATT
22655955 ACATTGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 9 0.33
20 8 0.30
21 1 0.04
22 9 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATAAAAATTTTAAAAATAA
Found at i:22658419 original size:11 final size:9
Alignment explanation
Indices: 22658394--22658423 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
22658384 ATATTTGTCC
22658394 AAATATATA
1 AAATATATA
22658403 AAATATATA
1 AAATATATA
22658412 AAATATATA
1 AAATATATA
22658421 AAA
1 AAA
22658424 CATCATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAATATATA
Found at i:22658525 original size:26 final size:25
Alignment explanation
Indices: 22658461--22658525 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 25
22658451 TTTGTATTTT
22658461 AATTTAATAATAATATAAAAATATTAC
1 AATTT-ATAA-AATATAAAAATATTAC
*
22658488 AATTTATGAAAATTTAAAAATATATA-
1 AATTTAT-AAAATATAAAAATAT-TAC
22658514 AATTTACTAAAA
1 AATTTA-TAAAA
22658526 AGCATGTCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
26 24 0.71
27 10 0.29
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (25 bp):
AATTTATAAAATATAAAAATATTAC
Found at i:22658680 original size:9 final size:8
Alignment explanation
Indices: 22658615--22658681 Score: 62
Period size: 9 Copynumber: 7.9 Consensus size: 8
22658605 GTGACAAATA
22658615 ATATTTTT
1 ATATTTTT
22658623 AATATTTTT
1 -ATATTTTT
22658632 AATATTTTT
1 -ATATTTTT
*
22658641 ATAATTTT
1 ATATTTTT
**
22658649 ATAAATTT
1 ATATTTTT
22658657 ATATTTTTT
1 ATA-TTTTT
*
22658666 AGATTTTCT
1 ATATTTT-T
22658675 ATATTTT
1 ATATTTT
22658682 GAATGTATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
8 21 0.42
9 29 0.58
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (8 bp):
ATATTTTT
Found at i:22660766 original size:29 final size:29
Alignment explanation
Indices: 22660727--22660836 Score: 132
Period size: 29 Copynumber: 3.8 Consensus size: 29
22660717 AGAAAAACTA
* *
22660727 TAAAATCTGGAAAACCAGTGGTAAAATTG
1 TAAAATCTGGAAAAACAGTGGCAAAATTG
* *
22660756 TAAAATATGGAAAAATAGTGGCAAAACTT-
1 TAAAATCTGGAAAAACAGTGGCAAAA-TTG
* * * *
22660785 TAAAATTTTGAAAACCAGTTGCAAAATTG
1 TAAAATCTGGAAAAACAGTGGCAAAATTG
22660814 TAAAATCTGGAAAAACAGTGGCA
1 TAAAATCTGGAAAAACAGTGGCA
22660837 GATCAATGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 62 0.94
30 2 0.03
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.25
Consensus pattern (29 bp):
TAAAATCTGGAAAAACAGTGGCAAAATTG
Found at i:22660834 original size:58 final size:58
Alignment explanation
Indices: 22660720--22660836 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
22660710 GAATAGTAGA
* *
22660720 AAAACTATAAAATCTGGAAAACCAGTGGTAAAATTGTAAAATATGGAAAAATAGTGGC
1 AAAACTATAAAATCTGGAAAACCAGTGGCAAAATTGTAAAATATGGAAAAACAGTGGC
* * * * *
22660778 AAAACTTTAAAATTTTGAAAACCAGTTGCAAAATTGTAAAATCTGGAAAAACAGTGGC
1 AAAACTATAAAATCTGGAAAACCAGTGGCAAAATTGTAAAATATGGAAAAACAGTGGC
22660836 A
1 A
22660837 GATCAATGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.24
Consensus pattern (58 bp):
AAAACTATAAAATCTGGAAAACCAGTGGCAAAATTGTAAAATATGGAAAAACAGTGGC
Found at i:22661307 original size:33 final size:32
Alignment explanation
Indices: 22661245--22661313 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
22661235 AAGAAAGATA
* *
22661245 AATTCTATTAGAATTTAAATAGTAGTAATTTG
1 AATTCTATTAGAATTTAAATAGGAGTAATTTC
* *
22661277 AATTCTAATTAGGATTTTAAA-AGGATTAATTTC
1 AATTCT-ATTA-GAATTTAAATAGGAGTAATTTC
22661310 AATT
1 AATT
22661314 TCAAATTAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 6 0.19
33 17 0.55
34 8 0.26
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (32 bp):
AATTCTATTAGAATTTAAATAGGAGTAATTTC
Found at i:22663211 original size:61 final size:62
Alignment explanation
Indices: 22663138--22663298 Score: 166
Period size: 65 Copynumber: 2.5 Consensus size: 62
22663128 TTTAACTTCT
* *
22663138 TTGAGTCGAATTTGATGTATAATTTCATATATATGTGGTTCGAATAAATATATT-C-AAGT-TC
1 TTGAGTCGAATTTGATGTATAATTTCATATATATGTGGTTC-AA-AAATAGATTGCAAAATCTC
* * * * *
22663199 TTGAGTTGAATTTAATATATAAATTTCTTATACGTATGTGGTTCAAACATAGATTGCAAAATCTC
1 TTGAGTCGAATTTGATGTAT-AATTTCATATA--TATGTGGTTCAAAAATAGATTGCAAAATCTC
* *
22663264 TTGAGCCGAATTTGATGTATACATTTTATATATAT
1 TTGAGTCGAATTTGATGTATA-ATTTCATATATAT
22663299 ATCTATGTGG
Statistics
Matches: 80, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
61 17 0.21
62 17 0.21
63 6 0.08
64 14 0.17
65 26 0.32
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (62 bp):
TTGAGTCGAATTTGATGTATAATTTCATATATATGTGGTTCAAAAATAGATTGCAAAATCTC
Found at i:22663591 original size:41 final size:41
Alignment explanation
Indices: 22663546--22663635 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
22663536 GCTTAGTAGA
22663546 CTTAATGCC-AGTGAAATAATTCAGACTGTACGTCTAGCAAG
1 CTTAATGCCGA-TGAAATAATTCAGACTGTACGTCTAGCAAG
* * *
22663587 CTTAATGCCGATGAAATATTTCAGACTTTACGTCTAGCAGG
1 CTTAATGCCGATGAAATAATTCAGACTGTACGTCTAGCAAG
22663628 CTTAATGC
1 CTTAATGC
22663636 TGGTGTTCTG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (41 bp):
CTTAATGCCGATGAAATAATTCAGACTGTACGTCTAGCAAG
Found at i:22669817 original size:13 final size:13
Alignment explanation
Indices: 22669786--22669818 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
22669776 GAAGGAGATC
*
22669786 ACACATGGCCTGG
1 ACACACGGCCTGG
22669799 -CACACGGCCTGG
1 ACACACGGCCTGG
22669811 ACACACGG
1 ACACACGG
22669819 GCATGTCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.24, C:0.36, G:0.30, T:0.09
Consensus pattern (13 bp):
ACACACGGCCTGG
Found at i:22670368 original size:21 final size:21
Alignment explanation
Indices: 22670338--22670428 Score: 75
Period size: 21 Copynumber: 4.4 Consensus size: 21
22670328 CATTTTCCCC
22670338 ATTTTA-TTTATTATTTTATT
1 ATTTTATTTTATTATTTTATT
**
22670358 ATTTTATTTTATTCCTTTATT
1 ATTTTATTTTATTATTTTATT
* *
22670379 AATTTATTTTTCTTAGTTTTA-T
1 ATTTTA-TTTTATTA-TTTTATT
22670401 -TTTTA-TTT-TTATTTTATTT
1 ATTTTATTTTATTATTTTA-TT
*
22670420 ATTCTATTT
1 ATTTTATTT
22670429 AGTACATTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
17 5 0.09
18 3 0.05
19 4 0.07
20 10 0.18
21 23 0.41
22 7 0.12
23 4 0.07
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (21 bp):
ATTTTATTTTATTATTTTATT
Found at i:22670461 original size:53 final size:52
Alignment explanation
Indices: 22670344--22670462 Score: 127
Period size: 53 Copynumber: 2.2 Consensus size: 52
22670334 CCCCATTTTA
* * * *
22670344 TTTATTAT-TTTATTATTTTATTTTATTCCTTTATTAATTTATTTTTCTTAGT
1 TTTATTATATTT-TTATTTTATTTTATTCATTTAGTAATTTAATTTTATTAGT
*
22670396 TTTATTTTTATTTTTATTTTA-TTTATTCTATTTAGTACATTTAATTTTATT-GT
1 TTTA-TTATATTTTTATTTTATTTTATTC-ATTTAGTA-ATTTAATTTTATTAGT
22670449 TTTATTACTATTTT
1 TTTATTA-TATTTT
22670463 ACATGCTACC
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
52 13 0.23
53 29 0.52
54 14 0.25
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.71
Consensus pattern (52 bp):
TTTATTATATTTTTATTTTATTTTATTCATTTAGTAATTTAATTTTATTAGT
Found at i:22674590 original size:2 final size:2
Alignment explanation
Indices: 22674583--22674608 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22674573 GCATATAAAT
22674583 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
22674609 CAACGTATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22676492 original size:50 final size:48
Alignment explanation
Indices: 22676438--22676600 Score: 137
Period size: 50 Copynumber: 3.3 Consensus size: 48
22676428 TGCAATGTCG
*
22676438 GGGAAGCAAGATTCGTCGTTGTGGCTTTAATTTGTTCCACTGCACCGCCA
1 GGGAAGCAAGATTC-ACGTTGTGGCTTTAATTT-TTCCACTGCACCGCCA
** * * ** ** *
22676488 GGGAAATAAGATTCACCGTTATAGCTTTAATCTTTTTAACTGCAATGTCA
1 GGGAAGCAAGATTCA-CGTTGTGGCTTTAAT-TTTTCCACTGCACCGCCA
* * *
22676538 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTATTCCACTGCACCGCCT
1 GGGAAGCAAGATTCAC-GTTGTGGCTTTAAT-TTTTCCACTGCACCGCCA
* *
22676588 GGGGAGTAAGATT
1 GGGAAGCAAGATT
22676601 TGCCATTATA
Statistics
Matches: 86, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
49 1 0.01
50 83 0.97
51 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (48 bp):
GGGAAGCAAGATTCACGTTGTGGCTTTAATTTTTCCACTGCACCGCCA
Found at i:22676585 original size:100 final size:100
Alignment explanation
Indices: 22676412--22676600 Score: 290
Period size: 100 Copynumber: 1.9 Consensus size: 100
22676402 TAACTCATAA
* * * * *
22676412 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGTCGTTGTGGCTTTAATTTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCCTCGATGTGGCTTTAATCTATTCCA
22676477 CTGCACCGCCAGGGAAATAAGATTCACCGTTATAG
66 CTGCACCGCCAGGGAAATAAGATTCACCGTTATAG
22676512 CTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACT-GATGTGGCTTTAATCTATTCC
1 CTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTC-CTCGATGTGGCTTTAATCTATTCC
* * *
22676576 ACTGCACCGCCTGGGGAGTAAGATT
65 ACTGCACCGCCAGGGAAATAAGATT
22676601 TGCCATTATA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 79 0.99
101 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCCTCGATGTGGCTTTAATCTATTCCA
CTGCACCGCCAGGGAAATAAGATTCACCGTTATAG
Found at i:22676667 original size:80 final size:80
Alignment explanation
Indices: 22676531--22676680 Score: 255
Period size: 80 Copynumber: 1.9 Consensus size: 80
22676521 TTTTAACTGC
**
22676531 AATGTCAGGGAAGCAAGATTCACTGATGTGGCTTTAATCTATTCCACTGCACCGCCTGGGGAGTA
1 AATGTCAGGGAAGCAAGATTCACCAATGTGGCTTTAATCTATTCCACTGCACCGCCTGGGGAGTA
22676596 AGATTTGCCATTATA
66 AGATTTGCCATTATA
* * *
22676611 AATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTA
1 AATGTCAGGGAAGCAAGATTCACCAATGTGGCTTTAATCTATTCCACTGCACCGCCTGGGGAGTA
22676676 AGATT
66 AGATT
22676681 CGCTGTTGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (80 bp):
AATGTCAGGGAAGCAAGATTCACCAATGTGGCTTTAATCTATTCCACTGCACCGCCTGGGGAGTA
AGATTTGCCATTATA
Found at i:22676733 original size:180 final size:180
Alignment explanation
Indices: 22676431--22676780 Score: 556
Period size: 180 Copynumber: 1.9 Consensus size: 180
22676421 TTTTAACTGC
** ** *
22676431 AATGTCGGGGAAGCAAGATTCGTCGTTGTGGCTTTAATTTGTTCCACTGCACCGCCAGGGAAATA
1 AATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAATA
*
22676496 AGATTCACCGTTATAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACTGATGTG
66 AGATTCACCGTTATAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTG
*
22676561 GCTTTAATCTATTCCACTGCACCGCCTGGGGAGTAAGATTTGCCATTATA
131 GCTTTAATCTATTCCACTACACCGCCTGGGGAGTAAGATTTGCCATTATA
* * * *
22676611 AATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTA
1 AATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAATA
* * *
22676676 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTG
66 AGATTCACCGTTATAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTG
* *
22676741 GCTTTAATCTGTTCCACTACATCGCCTGGGGAGTAAGATT
131 GCTTTAATCTATTCCACTACACCGCCTGGGGAGTAAGATT
22676781 CGCTGTTGTA
Statistics
Matches: 154, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
180 154 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (180 bp):
AATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAATA
AGATTCACCGTTATAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTG
GCTTTAATCTATTCCACTACACCGCCTGGGGAGTAAGATTTGCCATTATA
Found at i:22676829 original size:50 final size:50
Alignment explanation
Indices: 22676611--22676854 Score: 208
Period size: 50 Copynumber: 4.9 Consensus size: 50
22676601 TGCCATTATA
* * *
22676611 AATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGC
1 AATGTCGGGGAAGCAAGATTCACCGATGTAGCTTTAATCTGTTCAACTGC
* * * * * * *
22676661 -ATCGCCTGGGG-AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGC
1 AAT-GTC-GGGGAAGCAAGATTCACCGATGTAGCTTTAATCTGTTCAACTGC
* * * *
22676711 AATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTAC
1 AATGTCGGGGAAGCAAGATTCACCGATGTAGCTTTAATCTGTTCAACTGC
* * * * * * *
22676761 -ATCGCCTGGGG-AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGC
1 AAT-GTC-GGGGAAGCAAGATTCACCGATGTAGCTTTAATCTGTTCAACTGC
* * *
22676811 AATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTAATATGTTC
1 AATGTCGGGGAAGCAAGATTCACCGATGTAGCTTTAATCTGTTC
22676855 CACTACACCT
Statistics
Matches: 144, Mismatches: 42, Indels: 16
0.71 0.21 0.08
Matches are distributed among these distances:
49 11 0.08
50 122 0.85
51 11 0.08
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (50 bp):
AATGTCGGGGAAGCAAGATTCACCGATGTAGCTTTAATCTGTTCAACTGC
Found at i:22676879 original size:100 final size:100
Alignment explanation
Indices: 22676611--22676861 Score: 457
Period size: 100 Copynumber: 2.5 Consensus size: 100
22676601 TGCCATTATA
* *
22676611 AATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTA
1 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACATCGCCTGGGGAGTA
22676676 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGC
66 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGC
*
22676711 AATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACATCGCCTGGGGAGTA
1 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACATCGCCTGGGGAGTA
22676776 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGC
66 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGC
* *
22676811 AATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTAATATGTTCCACTACA
1 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACA
22676862 CCTCTTGGGA
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 145 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.32
Consensus pattern (100 bp):
AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACATCGCCTGGGGAGTA
AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGC
Found at i:22677570 original size:87 final size:88
Alignment explanation
Indices: 22677143--22677976 Score: 998
Period size: 88 Copynumber: 9.5 Consensus size: 88
22677133 GGACTTGTAA
* * * * * * * *
22677143 TCTTCGATTTGATTCACTGTTGATGCAGGAAGGCAAGATCTGCTATCTTCAACTTGCTACACTGC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
* *
22677208 GACCGAGGGAGGCAAGGCTGGTG
66 AACCCAGGGAGGCAAGGCTGGTG
* * * * *
22677231 TCTTCGATCTGCTTCGCTATTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTTCTCCGCTGC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
22677296 AACCCAGGGAGGCAAGGCTGGTG
66 AACCCAGGGAGGCAAGGCTGGTG
* * * * *
22677319 TCTTCGATCTGCTTCGCTGTCGGTGCATGAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
* *
22677384 AACCCAGGGAGACAAGGTTGGTG
66 AACCCAGGGAGGCAAGGCTGGTG
* * * *
22677407 TCTTCGATCTGGTTCGCTGTCGGTGCAGGAAGGCAATATCTGCTATTTTTAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
22677472 AACCCAGGGAGGCAAGGCTGGTG
66 AACCCAGGGAGGCAAGGCTGGTG
* * * * ** *
22677495 TCTTCGATTTGCTTTGCTATCGGTGCAGGAA-GCAAGATCTGCTATTTTTAACCTGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
*
22677559 AACCCAAGGAGGCAAGGCTGGTG
66 AACCCAGGGAGGCAAGGCTGGTG
* * * *
22677582 TCTTCGATCTGCTTCGCTGTCTATGCAAGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGG
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
* * * *
22677647 AACCTATGGAGGCAAGACTGGGG
66 AACCCAGGGAGGCAAGGCTGGTG
* * * *
22677670 TCTTCGATCTGCTTCGCTGTCTATGTAGGAAGGCAAGATCTGCTATATTTAACCATG-TCCGCTG
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACC-TGCTCCACTG
* * * *
22677734 CAACCGATGGAGGCAAAGCT-TTG
65 CAACCCAGGGAGGCAAGGCTGGTG
* * * * *
22677757 TTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTACTATATTTAACCTACTCCACTGC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
* * *
22677822 AACCGATGGAGGCAAGGCT-TTG
66 AACCCAGGGAGGCAAGGCTGGTG
* * * *
22677844 TTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCT-CTCCACTA
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAA-CCTGCTCCACTG
* * *
22677908 CAACCGATGGAGGCAAGGCT-TTG
65 CAACCCAGGGAGGCAAGGCTGGTG
*
22677931 -CTTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTAT
1 TC-TTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
22677977 CTTCACTGAT
Statistics
Matches: 668, Mismatches: 73, Indels: 11
0.89 0.10 0.01
Matches are distributed among these distances:
86 1 0.00
87 278 0.42
88 387 0.58
89 2 0.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
AACCCAGGGAGGCAAGGCTGGTG
Found at i:22677616 original size:263 final size:263
Alignment explanation
Indices: 22677143--22677976 Score: 1052
Period size: 263 Copynumber: 3.2 Consensus size: 263
22677133 GGACTTGTAA
* * * * * * *
22677143 TCTTCGATTTGATTCACTGTTGATGCAGGAAGGCAAGATCTGCTATCTTCAACTTGCTACACTGC
1 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATATTTAACCTGCTCCACTGC
* *
22677208 GACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATTGGTGCAGGAAGGCAAGATCTG
66 AACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTG
* *
22677273 CTATTTTTAACCTTCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
131 CTATTTTTAACCTACTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
** * * * * *
22677338 TCGGTGCATGAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGGGAGACAAGGTT
196 TCAATGCAAGAAGGCAAGATCTGCTATCTTTAACCT-CTCCACTACAACCCATGGAGGCAAGGTT
22677403 GGTG
260 GGTG
* * * * * *
22677407 TCTTCGATCTGGTTCGCTGTCGGTGCAGGAAGGCAATATCTGCTATTTTTAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATATTTAACCTGCTCCACTGC
* * *
22677472 AACCCAGGGAGGCAAGGCTGGTGTCTTCGATTTGCTTTGCTATCGGTGCAGGAA-GCAAGATCTG
66 AACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTG
* * *
22677536 CTATTTTTAACCTGCTCTGCTACAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
131 CTATTTTTAACCTACTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
* ** * **
22677601 TCTATGCAAGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGGAACCTATGGAGGCAAGACT
196 TCAATGCAAGAAGGCAAGATCTGCTATCTTTAACCT-CTCCACTACAACCCATGGAGGCAAGGTT
*
22677666 GGGG
260 GGTG
* * * *
22677670 TCTTCGATCTGCTTCGCTGTCTATGTAGGAAGGCAAGATCTGCTATATTTAACCATG-TCCGCTG
1 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATATTTAACC-TGCTCCACTG
* * * * * **
22677734 CAACCGATGGAGGCAAAGCT-TTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
65 CAACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCT
* * * * * * *
22677798 ACTATATTTAACCTACTCCACTGCAACCGATGGAGGCAAGGCT-TTGTTTTCGATCTGCTTCGCT
130 GCTATTTTTAACCTACTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCT
* *
22677862 GTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCTCTCCACTACAACCGATGGAGGCAAGGC
195 GTCAATGCAAGAAGGCAAGATCTGCTATCTTTAA-CCTCTCCACTACAACCCATGGAGGCAAGG-
22677927 TT--TG
258 TTGGTG
22677931 -CTTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTAT
1 TC-TTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTAT
22677977 CTTCACTGAT
Statistics
Matches: 492, Mismatches: 73, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
260 1 0.00
261 42 0.09
262 100 0.20
263 244 0.50
264 105 0.21
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (263 bp):
TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATATTTAACCTGCTCCACTGC
AACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTG
CTATTTTTAACCTACTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
TCAATGCAAGAAGGCAAGATCTGCTATCTTTAACCTCTCCACTACAACCCATGGAGGCAAGGTTG
GTG
Found at i:22677704 original size:44 final size:44
Alignment explanation
Indices: 22677568--22677707 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
22677558 CAACCCAAGG
* * *
22677568 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCTATGCAAGA
1 AGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCTATGTAGGA
* * ** * * * ** **
22677612 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTG-GAACCTATGG-
1 AGGCAAGA-CTGGTGTCTTCGATCTGCTTCGCTGTCTATGTA-GGA
*
22677656 AGGCAAGACTGGGGTCTTCGATCTGCTTCGCTGTCTATGTAGGA
1 AGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCTATGTAGGA
22677700 AGGCAAGA
1 AGGCAAGA
22677708 TCTGCTATAT
Statistics
Matches: 66, Mismatches: 26, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
43 19 0.29
44 28 0.42
45 19 0.29
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (44 bp):
AGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCTATGTAGGA
Found at i:22677880 original size:43 final size:43
Alignment explanation
Indices: 22677744--22677880 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
22677734 CAACCGATGG
*
22677744 AGGCAAAGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * * *
22677787 AGGCAAGATCTACTATATTT-AACCTACTCCACTG-CAA-CCGATGG-
1 AGGCAAG-GCT-TTGT-TTTCGATCTGCTTCGCTGTCAATGC-A-GGA
22677831 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGA
22677874 AGGCAAG
1 AGGCAAG
22677881 ATCTGCTATC
Statistics
Matches: 66, Mismatches: 19, Indels: 18
0.64 0.18 0.17
Matches are distributed among these distances:
41 3 0.05
42 13 0.20
43 20 0.30
44 14 0.21
45 13 0.20
46 3 0.05
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGA
Found at i:22678942 original size:22 final size:22
Alignment explanation
Indices: 22678914--22678958 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22678904 TTTGAGTTGG
22678914 ACATGTGTTTAGGAGATCTACA
1 ACATGTGTTTAGGAGATCTACA
22678936 ACATGTGTTTAGGAGATCTACA
1 ACATGTGTTTAGGAGATCTACA
22678958 A
1 A
22678959 TGCTTTGTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (22 bp):
ACATGTGTTTAGGAGATCTACA
Found at i:22679188 original size:6 final size:6
Alignment explanation
Indices: 22679179--22679214 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
22679169 CATTTTTACT
22679179 TTTTCA TTTTCA TTTTTCA TTTTCA TTTTTCA TTTT
1 TTTTCA TTTTCA -TTTTCA TTTTCA -TTTTCA TTTT
22679215 TCACCTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTCA
Found at i:22679188 original size:7 final size:7
Alignment explanation
Indices: 22679169--22679217 Score: 68
Period size: 7 Copynumber: 7.3 Consensus size: 7
22679159 TTAGCCTCTC
22679169 CATTTTT
1 CATTTTT
22679176 -ACTTTTT
1 CA-TTTTT
22679183 CA-TTTT
1 CATTTTT
22679189 CATTTTT
1 CATTTTT
22679196 CA-TTTT
1 CATTTTT
22679202 CATTTTT
1 CATTTTT
22679209 CATTTTT
1 CATTTTT
22679216 CA
1 CA
22679218 CCTTTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 13 0.34
7 24 0.63
8 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:22679194 original size:13 final size:13
Alignment explanation
Indices: 22679178--22679214 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
22679168 CCATTTTTAC
22679178 TTTTTCATTTTCA
1 TTTTTCATTTTCA
22679191 TTTTTCATTTTCA
1 TTTTTCATTTTCA
22679204 TTTTTCATTTT
1 TTTTTCATTTT
22679215 TCACCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTTCATTTTCA
Found at i:22679216 original size:20 final size:19
Alignment explanation
Indices: 22679169--22679217 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
22679159 TTAGCCTCTC
*
22679169 CATTTTTACTTTTTCATTTT
1 CATTTTT-CATTTTCATTTT
22679189 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTTTCA-TTTT
22679209 CATTTTTCA
1 CATTTTTCA
22679218 CCTTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (19 bp):
CATTTTTCATTTTCATTTT
Found at i:22679943 original size:15 final size:13
Alignment explanation
Indices: 22679914--22679957 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
22679904 TCTCCTTTTC
22679914 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
*
22679927 TTTTTCTTCTCTCT
1 TTTTTCTTTTCT-T
*
22679941 TTTTTCATTTTCAT
1 TTTTTC-TTTTCTT
22679955 TTT
1 TTT
22679958 GACCTTGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 11 0.42
14 11 0.42
15 4 0.15
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:22684566 original size:2 final size:2
Alignment explanation
Indices: 22684559--22684584 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22684549 GCATATAAAT
22684559 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
22684585 CAACTGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22685229 original size:64 final size:64
Alignment explanation
Indices: 22685128--22685255 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
22685118 AATTGAAGTC
22685128 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGTGCAAGCATCACAATCCATCACAAAACGA
1 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGTGCAAGCATCACAATCCATCACAAAACGA
22685192 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGTGCAAGCATCACAATCCATCACAAAACGA
1 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGTGCAAGCATCACAATCCATCACAAAACGA
22685256 CAGCGTTCAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (64 bp):
TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGTGCAAGCATCACAATCCATCACAAAACGA
Found at i:22686751 original size:13 final size:13
Alignment explanation
Indices: 22686735--22686759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22686725 CATTAACGAC
22686735 AATAAATAACATT
1 AATAAATAACATT
22686748 AATAAATAACAT
1 AATAAATAACAT
22686760 GCATCCTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAAATAACATT
Found at i:22687897 original size:29 final size:29
Alignment explanation
Indices: 22687807--22687911 Score: 133
Period size: 29 Copynumber: 3.6 Consensus size: 29
22687797 AGAAAAATCA
* *
22687807 GTGGCAAAACTATAAAATACGGGAAAAAG
1 GTGGCAAAACTGTAAAATATGGGAAAAAG
22687836 GTGGCAAAACTGTAAAATATGGGAAAAAG
1 GTGGCAAAACTGTAAAATATGGGAAAAAG
* *
22687865 GTGGCAGAACTGTAAAAT-TTGGAAAACTA-
1 GTGGCAAAACTGTAAAATATGGGAAAA--AG
*
22687894 GTGGCAAAATTGTAAAAT
1 GTGGCAAAACTGTAAAAT
22687912 CTAAAAAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
28 7 0.10
29 60 0.88
30 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.25, T:0.20
Consensus pattern (29 bp):
GTGGCAAAACTGTAAAATATGGGAAAAAG
Found at i:22695372 original size:23 final size:23
Alignment explanation
Indices: 22695341--22695439 Score: 137
Period size: 23 Copynumber: 4.3 Consensus size: 23
22695331 ATAAGTGCCA
*
22695341 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
22695364 CACGGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
22695387 CATTG-TAATGTAGCCGTAGCTAC
1 CACTGAT-ATGTAGCCGAAGCTAC
*
22695410 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
22695433 CACTGAT
1 CACTGAT
22695440 CAACAACACT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
22 1 0.02
23 64 0.98
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:22710554 original size:12 final size:12
Alignment explanation
Indices: 22710537--22710566 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22710527 TCAGGCAGTT
22710537 ACACGGCCTAGC
1 ACACGGCCTAGC
*
22710549 ACACGGCCTGGC
1 ACACGGCCTAGC
22710561 ACACGG
1 ACACGG
22710567 GCATGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:22714232 original size:24 final size:25
Alignment explanation
Indices: 22714163--22714259 Score: 119
Period size: 24 Copynumber: 4.0 Consensus size: 25
22714153 AAGCTCTTCC
* **
22714163 GAGCTGAATAACGGGAAGCTCATGT
1 GAGCTGAATATCGGGAAGCTCATAA
* *
22714188 GAGCTAAATATTGGGAAGCTCATAA
1 GAGCTGAATATCGGGAAGCTCATAA
22714213 GAGCTGAA-ATCGGGAAGCTCATAA
1 GAGCTGAATATCGGGAAGCTCATAA
22714237 G-GCCTGAA-ATCGGGAAGCTCATA
1 GAG-CTGAATATCGGGAAGCTCATA
22714260 CCAGCTATGG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
23 1 0.02
24 36 0.56
25 27 0.42
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (25 bp):
GAGCTGAATATCGGGAAGCTCATAA
Found at i:22718196 original size:18 final size:18
Alignment explanation
Indices: 22718162--22718197 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22718152 TTTAATATTT
* *
22718162 TATATTATATTATTTTTA
1 TATATTATATAACTTTTA
22718180 TATATTATATAACTTTTA
1 TATATTATATAACTTTTA
22718198 ACACATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATTATATAACTTTTA
Found at i:22719992 original size:18 final size:18
Alignment explanation
Indices: 22719958--22719993 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22719948 TTTAATATTT
* *
22719958 TATATTATATTATTTTTA
1 TATATTATATAACTTTTA
22719976 TATATTATATAACTTTTA
1 TATATTATATAACTTTTA
22719994 ACACATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATTATATAACTTTTA
Found at i:22721216 original size:23 final size:24
Alignment explanation
Indices: 22721185--22721233 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
22721175 TAATAAAATT
* *
22721185 TACATAAAATGAAAAACGACAAAG
1 TACATAAAATAAAAAACAACAAAG
*
22721209 TACA-AAAATAAAAAATAACAAAG
1 TACATAAAATAAAAAACAACAAAG
22721232 TA
1 TA
22721234 AATGATGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.67, C:0.10, G:0.08, T:0.14
Consensus pattern (24 bp):
TACATAAAATAAAAAACAACAAAG
Found at i:22725204 original size:26 final size:25
Alignment explanation
Indices: 22725175--22725274 Score: 83
Period size: 26 Copynumber: 3.9 Consensus size: 25
22725165 AGTATACTGT
22725175 TACTGGCAGCTTTGCTGCGATACTCA
1 TACTGGCAGCTTTGCTGCGATACT-A
* * * *
22725201 TACTAGTAGCCTTGCTGCGATACTGT
1 TACTGGCAGCTTTGCTGCGATACT-A
* * * * *
22725227 TACTGGTAGTTTTGTTACGATAATA
1 TACTGGCAGCTTTGCTGCGATACTA
*
22725252 TAACGGGCAGCTTTGCTGCGATA
1 T-ACTGGCAGCTTTGCTGCGATA
22725275 TTGGTGTGTT
Statistics
Matches: 56, Mismatches: 17, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
25 1 0.02
26 55 0.98
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (25 bp):
TACTGGCAGCTTTGCTGCGATACTA
Found at i:22732850 original size:26 final size:26
Alignment explanation
Indices: 22732795--22732895 Score: 100
Period size: 26 Copynumber: 3.9 Consensus size: 26
22732785 TGGAGGAAGT
* *
22732795 ATACTGTTACTGGCAG-TTTACTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
22732820 ATACTGATACTGGCAGCTTTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
* * *
22732846 ATACTGTTACTAGCTA-CTTTGCTGTG
1 ATACTGATACTGGC-AGCTTTGCTGCG
* *
22732872 ATACT-ATTACGGGCAACTTTGCTG
1 ATACTGA-TACTGGCAGCTTTGCTG
22732896 TGACATTTGC
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
25 16 0.25
26 47 0.73
27 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCG
Found at i:22732892 original size:52 final size:51
Alignment explanation
Indices: 22732795--22732895 Score: 123
Period size: 52 Copynumber: 2.0 Consensus size: 51
22732785 TGGAGGAAGT
* * * *
22732795 ATACTGTTACTGGCAGTTTACTGCGATACTGATACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCACTTTACTGCGATACTGATACGGGCAACTTTGCTGCG
* *
22732846 ATACTGTTACTAGCTACTTTGCTGTGATACT-ATTACGGGCAACTTTGCTG
1 ATACTGTTACTAGC-ACTTTACTGCGATACTGA-TACGGGCAACTTTGCTG
22732896 TGACATTTGC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 14 0.33
52 28 0.67
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (51 bp):
ATACTGTTACTAGCACTTTACTGCGATACTGATACGGGCAACTTTGCTGCG
Found at i:22737374 original size:26 final size:26
Alignment explanation
Indices: 22737344--22737401 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
22737334 AAGGAAACCA
22737344 TTGAAGAGGACCTCAACCGAGGACAT
1 TTGAAGAGGACCTCAACCGAGGACAT
22737370 TTGAAGAGGACCTCAACCGAGGACAT
1 TTGAAGAGGACCTCAACCGAGGACAT
22737396 TTGAAG
1 TTGAAG
22737402 CAATTTGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (26 bp):
TTGAAGAGGACCTCAACCGAGGACAT
Found at i:22738186 original size:20 final size:20
Alignment explanation
Indices: 22738145--22738186 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
22738135 ATTTCCACAA
* *
22738145 TGGCTGGGCACACGCCCGTG
1 TGGCTGGCCACACGCCCATG
*
22738165 TGGCTGGCCACACGCCTATG
1 TGGCTGGCCACACGCCCATG
22738185 TG
1 TG
22738187 CCAACCCGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.33, G:0.36, T:0.19
Consensus pattern (20 bp):
TGGCTGGCCACACGCCCATG
Found at i:22745688 original size:28 final size:28
Alignment explanation
Indices: 22745608--22745688 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
22745598 AATCCCTGGT
* *
22745608 GGACATTCCACCTAAGATAGT-CTGTGGT
1 GGACATTCCACTTAAGATAGTCCT-TGGA
*
22745636 GGACATTCCACTTAAAATA-TCCCTTGGA
1 GGACATTCCACTTAAGATAGT-CCTTGGA
* *
22745664 GGATATTCTACTTAAGATAGTCCTT
1 GGACATTCCACTTAAGATAGTCCTT
22745689 TCCGGACTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
27 1 0.02
28 40 0.91
29 3 0.07
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (28 bp):
GGACATTCCACTTAAGATAGTCCTTGGA
Found at i:22755919 original size:41 final size:41
Alignment explanation
Indices: 22755858--22756004 Score: 167
Period size: 41 Copynumber: 3.6 Consensus size: 41
22755848 ATTTCTTCAT
* *
22755858 CCTGTTTGTACTT-TGCTACCCTTGAACTGTACATACGTGCC
1 CCTGTTTGTACTTCAG-TACCCTTGAAATGTACATACGTGCC
* *
22755899 CCTGTTTGTACTTCAGTACCCTTGAATTGCACATACGTGCC
1 CCTGTTTGTACTTCAGTACCCTTGAAATGTACATACGTGCC
* *
22755940 CCTGTTT-TACTTCAGTACCCCTGAAAT-TCACATATGTG-C
1 CCTGTTTGTACTTCAGTACCCTTGAAATGT-ACATACGTGCC
** *
22755979 CCTGTTTACACTTCAGTAACCTTGAA
1 CCTGTTTGTACTTCAGTACCCTTGAA
22756005 TCTAGTAAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
39 8 0.09
40 41 0.44
41 43 0.46
42 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (41 bp):
CCTGTTTGTACTTCAGTACCCTTGAAATGTACATACGTGCC
Found at i:22755972 original size:40 final size:41
Alignment explanation
Indices: 22755874--22756005 Score: 153
Period size: 40 Copynumber: 3.3 Consensus size: 41
22755864 TGTACTTTGC
* * * *
22755874 TACCCTTGAACTGTACATACGTGCCCCTGTTTGTACTTCAG
1 TACCCCTGAATTGCACATACGTGCCCCTGTTTATACTTCAG
*
22755915 TACCCTTGAATTGCACATACGTGCCCCTGTTT-TACTTCAG
1 TACCCCTGAATTGCACATACGTGCCCCTGTTTATACTTCAG
* *
22755955 TACCCCTGAAATT-CACATATGTG-CCCTGTTTACACTTCAG
1 TACCCCTG-AATTGCACATACGTGCCCCTGTTTATACTTCAG
* *
22755995 TAACCTTGAAT
1 TACCCCTGAAT
22756006 CTAGTAAAAC
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
39 11 0.13
40 37 0.45
41 34 0.41
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (41 bp):
TACCCCTGAATTGCACATACGTGCCCCTGTTTATACTTCAG
Found at i:22771958 original size:22 final size:21
Alignment explanation
Indices: 22771933--22771976 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
22771923 TTGTTAATAA
* *
22771933 TTAAGTGACATAACTTTTGAAT
1 TTAAGAGAAATAACTTTT-AAT
22771955 TTAAGAGAAATAACTTTTAAT
1 TTAAGAGAAATAACTTTTAAT
22771976 T
1 T
22771977 ATTTGTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (21 bp):
TTAAGAGAAATAACTTTTAAT
Found at i:22773784 original size:114 final size:112
Alignment explanation
Indices: 22773584--22774138 Score: 815
Period size: 114 Copynumber: 4.9 Consensus size: 112
22773574 AAAATAAGCA
* *
22773584 TTAGCGGCGTTTTTGGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTAAGCTT
1 TTAGCGGCGTTTTTGG-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
22773649 TCGGGGATTTAGCAGCGTTTTTAATAAAGCGCCGCTGATGCTCAGGGCT
65 TCGGGGATTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTCAGGGCT
*
22773698 TTAGCGGCGCTTTTGGTAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGG-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
22773763 TCGGGGATTTAGCGGCGTTTTTAAGAAAGTGCCGCTAATGCTTAGGGCT
65 TCGGGGATTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTCAGGGCT
* * *
22773812 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAGAGCTAAGCCTAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTG-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
22773877 TCGAGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCCCAGAGCT
65 TCGGGGATTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTCAGGGCT
* *
22773926 TTAGCGGTGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCTTTTTCTGAGCTT
1 TTAGCGGCGTTTTT-GGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
22773991 TCGGGGCTTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
65 TCGGGGATTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTCAGGGCT
* *
22774040 TTAGCGGTGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTT
1 TTAGCGGCGTTTTTG-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
22774104 TCGGTGATTTAGCGGCGTTTTTGGAAAAGCGCCGC
65 TCGGGGATTTAGCGGCGTTTTT-AAAAAGCGCCGC
22774139 AAAAAATATT
Statistics
Matches: 399, Mismatches: 36, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
113 66 0.17
114 330 0.83
115 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (112 bp):
TTAGCGGCGTTTTTGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
CGGGGATTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCAGGGCT
Found at i:22774409 original size:15 final size:15
Alignment explanation
Indices: 22774389--22774419 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22774379 CATATTTTAA
22774389 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
22774404 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
22774419 G
1 G
22774420 ATTAGGGNNN
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Done.