Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 116 of 182
Found at i:35516464 original size:4 final size:4
Alignment explanation
Indices: 35516457--35516485 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
35516447 TCCATCCATC
35516457 TTCT TTCT TTCT TTCT TTCT TTCT TTCT T
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT T
35516486 ATGATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTCT
Found at i:35518995 original size:22 final size:22
Alignment explanation
Indices: 35518969--35519012 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
35518959 GTATAGAAAT
35518969 ATCCAATACTCAATCCTTAAAA
1 ATCCAATACTCAATCCTTAAAA
35518991 ATCCAATACTCAATCCTTAAAA
1 ATCCAATACTCAATCCTTAAAA
35519013 TAACATAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (22 bp):
ATCCAATACTCAATCCTTAAAA
Found at i:35524556 original size:14 final size:14
Alignment explanation
Indices: 35524521--35524550 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
35524511 GCAAAAATTA
35524521 TTACTTTTTTTGTT
1 TTACTTTTTTTGTT
35524535 TTACTTTTTTTGTT
1 TTACTTTTTTTGTT
35524549 TT
1 TT
35524551 TGTTTTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.80
Consensus pattern (14 bp):
TTACTTTTTTTGTT
Found at i:35535365 original size:40 final size:40
Alignment explanation
Indices: 35535272--35535536 Score: 295
Period size: 40 Copynumber: 6.7 Consensus size: 40
35535262 GCTCCTCGTT
* * * *
35535272 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
**
35535312 C-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
35535351 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
35535391 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
35535431 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
35535471 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
35535512 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
35535537 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 38 0.19
40 144 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:35535545 original size:41 final size:41
Alignment explanation
Indices: 35535468--35535545 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35535458 TTTGTATCTC
* * *
35535468 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35535509 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35535546 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:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35543324 original size:40 final size:40
Alignment explanation
Indices: 35543224--35543488 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
35543214 GCTCCTCGTT
* * * *
35543224 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
35543264 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
35543303 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
35543343 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
35543383 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
35543423 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
35543464 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
35543489 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:35543448 original size:80 final size:80
Alignment explanation
Indices: 35543191--35543488 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
35543181 AAATCACGTA
* ** * * *
35543191 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
35543253 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
35543269 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
35543332 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
35543349 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
35543413 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
35543429 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
35543489 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:35543497 original size:41 final size:41
Alignment explanation
Indices: 35543420--35543497 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35543410 TTTGTATCTC
* * *
35543420 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35543461 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35543498 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:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35548269 original size:28 final size:28
Alignment explanation
Indices: 35548236--35548293 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
35548226 CAAATGCACG
* *
35548236 GTTAGTCTCTTGTTGCCATATAATGGTT
1 GTTAGTCTCCTGTTGCCATATAACGGTT
*
35548264 GTTAGTCTCCTGTTGTCATATAACGGTT
1 GTTAGTCTCCTGTTGCCATATAACGGTT
35548292 GT
1 GT
35548294 GTGACCAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (28 bp):
GTTAGTCTCCTGTTGCCATATAACGGTT
Found at i:35571538 original size:57 final size:59
Alignment explanation
Indices: 35571469--35571639 Score: 197
Period size: 57 Copynumber: 2.9 Consensus size: 59
35571459 GCATTAGAGT
35571469 GGACAGTTTTGCATGGGAAAAGATGATCAACTTTGTGCAATAATTTTTAAAAAAT-AA-
1 GGACAGTTTTGCATGGGAAAAGATGATCAACTTTGTGCAATAATTTTTAAAAAATAAAG
* ** *** ** *
35571526 GGACAGTTTTGCATGGTAAAAGATGATCAA-TTTG-AAAATAAGAGTTACATGCATTAAAG
1 GGACAGTTTTGCATGGGAAAAGATGATCAACTTTGTGCAATAATTTTTA-A-AAAATAAAG
*
35571585 TGGACAGTTTTGCATGGGAAAAGATGATCAACTTTGTGCAAAAATTTTTAAAAAA
1 -GGACAGTTTTGCATGGGAAAAGATGATCAACTTTGTGCAATAATTTTTAAAAAA
35571640 CAATTGATAG
Statistics
Matches: 88, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
55 8 0.09
56 5 0.06
57 31 0.35
58 2 0.02
60 30 0.34
61 5 0.06
62 7 0.08
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.30
Consensus pattern (59 bp):
GGACAGTTTTGCATGGGAAAAGATGATCAACTTTGTGCAATAATTTTTAAAAAATAAAG
Found at i:35571598 original size:60 final size:61
Alignment explanation
Indices: 35571439--35571620 Score: 223
Period size: 57 Copynumber: 3.1 Consensus size: 61
35571429 TACTTAGCAA
*
35571439 TTTGAAAATAAGAGTTACATGCATTAGAGTGGACAGTTTTGCATGGGAAAAGATGATCAAC
1 TTTGAAAATAAGAGTTACATGCATTAAAGTGGACAGTTTTGCATGGGAAAAGATGATCAAC
** *** ** * *
35571500 TTTGTGCAATAATTTTTA-A-AAAAT-AA--GGACAGTTTTGCATGGTAAAAGATGATCAA-
1 TTTG-AAAATAAGAGTTACATGCATTAAAGTGGACAGTTTTGCATGGGAAAAGATGATCAAC
35571556 TTTGAAAATAAGAGTTACATGCATTAAAGTGGACAGTTTTGCATGGGAAAAGATGATCAAC
1 TTTGAAAATAAGAGTTACATGCATTAAAGTGGACAGTTTTGCATGGGAAAAGATGATCAAC
35571617 TTTG
1 TTTG
35571621 TGCAAAAATT
Statistics
Matches: 95, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
55 8 0.08
56 5 0.05
57 31 0.33
58 2 0.02
59 1 0.01
60 31 0.33
61 9 0.09
62 8 0.08
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (61 bp):
TTTGAAAATAAGAGTTACATGCATTAAAGTGGACAGTTTTGCATGGGAAAAGATGATCAAC
Found at i:35572887 original size:85 final size:85
Alignment explanation
Indices: 35572744--35572913 Score: 286
Period size: 85 Copynumber: 2.0 Consensus size: 85
35572734 TTTGGTATTC
35572744 TTAAGATACCCTACCTATCTTAGGAAAAAAGGTTACGTGCATGAGTAATGTCCTAAGTAGAATAT
1 TTAAGATACCCTACCTATCTTAGGAAAAAAGGTTACGTGCATGAGTAATGTCCTAAGTAGAATAT
35572809 AAGTCAACTTTCTAATTTAA
66 AAGTCAACTTTCTAATTTAA
* * * * *
35572829 TTAAGATACCCTACTTGTCTTAGTAAAAAAGGTTATGTGCATGAGTAGTGTCCTAAGTAGAATAT
1 TTAAGATACCCTACCTATCTTAGGAAAAAAGGTTACGTGCATGAGTAATGTCCTAAGTAGAATAT
*
35572894 AAGTCAACTTTCTTATTTAA
66 AAGTCAACTTTCTAATTTAA
35572914 GTATAACTCT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (85 bp):
TTAAGATACCCTACCTATCTTAGGAAAAAAGGTTACGTGCATGAGTAATGTCCTAAGTAGAATAT
AAGTCAACTTTCTAATTTAA
Found at i:35572957 original size:34 final size:34
Alignment explanation
Indices: 35572914--35572982 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
35572904 TCTTATTTAA
35572914 GTATAACTCTACTTTTACTAGCAAATACTTTTTT
1 GTATAACTCTACTTTTACTAGCAAATACTTTTTT
*
35572948 GTATAACTCTATTTTTACTAGCAAATACTTTTTT
1 GTATAACTCTACTTTTACTAGCAAATACTTTTTT
35572982 G
1 G
35572983 CCCAACCAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.48
Consensus pattern (34 bp):
GTATAACTCTACTTTTACTAGCAAATACTTTTTT
Found at i:35576527 original size:16 final size:16
Alignment explanation
Indices: 35576506--35576537 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35576496 ATTTTGTTGC
*
35576506 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
35576522 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
35576538 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:35576819 original size:51 final size:50
Alignment explanation
Indices: 35576761--35576951 Score: 242
Period size: 51 Copynumber: 3.8 Consensus size: 50
35576751 GATACTGGTT
35576761 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCATTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCAT-ATTATCCGATA
* * *
35576812 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATA-TTATCCGATA
* * * *
35576863 CGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATCCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATATTATCC-GATA
* * *
35576913 CACGTAGTAGCTTGCACATAGTACTACACAAGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCAT
35576952 CACTTTCACT
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
49 4 0.03
50 38 0.32
51 76 0.63
52 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATATTATCCGATA
Found at i:35579152 original size:27 final size:27
Alignment explanation
Indices: 35579122--35579174 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
35579112 GCTCGGTGAT
*
35579122 TTGGCGAGCACCAACTCGTCAGACCTG
1 TTGGCGAGCACCAACTCGCCAGACCTG
* * *
35579149 TTGGTGGGCACCAACTTGCCAGACCT
1 TTGGCGAGCACCAACTCGCCAGACCT
35579175 ATTCGTAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (27 bp):
TTGGCGAGCACCAACTCGCCAGACCTG
Found at i:35581854 original size:107 final size:107
Alignment explanation
Indices: 35581668--35582098 Score: 835
Period size: 107 Copynumber: 4.0 Consensus size: 107
35581658 ATACTATAAA
*
35581668 AATAAGAAAGATAAAGAAAGTAAGCATAAAGCTTAGTATATTTACAAGTAAATAAATAACAACAT
1 AATAAGGAAGATAAAGAAAGTAAGCATAAAGCTTAGTATATTTACAAGTAAATAAATAACAACAT
35581733 TTATCATAAATAATCATACTCATAGATTTCATCAAACATTAG
66 TTATCATAAATAATCATACTCATAGATTTCATCAAACATTAG
35581775 AATAAGGAAGATAAAGAAAGTAAGCATAAAGCTTAGTATATTTACAAGTAAATAAATAACAACAT
1 AATAAGGAAGATAAAGAAAGTAAGCATAAAGCTTAGTATATTTACAAGTAAATAAATAACAACAT
35581840 TTATCATAAATAATCATACTCATAGATTTCATCAAACATTAG
66 TTATCATAAATAATCATACTCATAGATTTCATCAAACATTAG
35581882 AATAAGGAAGATAAAGAAAGTAAGCATAAAGCTTAGTATATTTACAAGTAAATAAATAACAACAT
1 AATAAGGAAGATAAAGAAAGTAAGCATAAAGCTTAGTATATTTACAAGTAAATAAATAACAACAT
35581947 TTATCATAAATAATCATACTCATAGATTTCATCAAACATTAG
66 TTATCATAAATAATCATACTCATAGATTTCATCAAACATTAG
35581989 AATAAGGAAGATAAAGAAAGTAAGCATAAAGCTTAGTATATTTACAAGTAAATAAATAACAACAT
1 AATAAGGAAGATAAAGAAAGTAAGCATAAAGCTTAGTATATTTACAAGTAAATAAATAACAACAT
* *
35582054 TTATCATAAATAATCATACTCATAAAGTTCATCAAACATTAG
66 TTATCATAAATAATCATACTCATAGATTTCATCAAACATTAG
35582096 AAT
1 AAT
35582099 CTTTACTCGC
Statistics
Matches: 321, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 321 1.00
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (107 bp):
AATAAGGAAGATAAAGAAAGTAAGCATAAAGCTTAGTATATTTACAAGTAAATAAATAACAACAT
TTATCATAAATAATCATACTCATAGATTTCATCAAACATTAG
Found at i:35582493 original size:50 final size:50
Alignment explanation
Indices: 35582400--35582642 Score: 216
Period size: 50 Copynumber: 4.7 Consensus size: 50
35582390 TTTTCGGTAC
* * * * **
35582400 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * ** ** *
35582450 TGCCCATGCGATGTCTTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * *
35582500 TGCCAACGCCATGTCCCAGAAATGGTCCTACATGGGACCTATCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
35582550 TGCCAACGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
** *
35582606 TGCCAAATCTATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
35582643 TCTCATTCCC
Statistics
Matches: 155, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
50 120 0.77
53 1 0.01
56 34 0.22
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:35589386 original size:12 final size:12
Alignment explanation
Indices: 35589361--35589399 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
35589351 ACTCGCTTCT
* *
35589361 TTACTTACTCAC
1 TTACTTGCTTAC
*
35589373 TTACTTGTTTAC
1 TTACTTGCTTAC
35589385 TTACTTGCTTAC
1 TTACTTGCTTAC
35589397 TTA
1 TTA
35589400 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:35589740 original size:50 final size:50
Alignment explanation
Indices: 35589656--35589792 Score: 161
Period size: 50 Copynumber: 2.7 Consensus size: 50
35589646 ACTGCCAATG
* * * *
35589656 CCATATCCCAGATATGGTCTTAC--GGGAGACCTCTCATCTCGTTTCCAACA
1 CCATGTCCCAGACATGGTCTTACATGGGA-A-CTCTCATCTCGGTGCCAACA
**
35589706 CCATGTCCCAGACATGGTCTTACATGGGAACTCTCATCTCGGTGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGAACTCTCATCTCGGTGCCAACA
* * *
35589756 CCATGTCCCAAACATGGTTTTACATGGGACCTCTCAT
1 CCATGTCCCAGACATGGTCTTACATGGGAACTCTCAT
35589793 AATCTCAATG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
50 71 0.93
51 1 0.01
52 4 0.05
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGAACTCTCATCTCGGTGCCAACA
Found at i:35602734 original size:44 final size:44
Alignment explanation
Indices: 35602488--35603412 Score: 374
Period size: 44 Copynumber: 21.1 Consensus size: 44
35602478 GTAAGGAAGT
* * *
35602488 AGATTGAAGC-CGATAATCCTATCTCCCTGAGATTATAGTGGAGC
1 AGATTGAAGCAAG-TAATCTTATCTCCCTGAGATTACAGTGGAGC
* * * *
35602532 GGATTAAAACAAAG-AATCTTATCTGCCTGAGATTACAGTGGAGC
1 AGATTGAAGC-AAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
* * ** * * * * * * *
35602576 GGATTAAAATAAAG-GATATTATCTCTCTGAAATTACAATAGAGT
1 AGATT-GAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
* * * * ** * **
35602620 AGATCGCATC-AG--GTCTTATCTCTTTGAGATTACAGGGGAAT
1 AGATTGAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
** * **
35602661 AGAACGAAG-AATTTCAAATCTTATCTCCCTGAGATTACAGCAGAGC
1 AGATTGAAGCAA-GT--AATCTTATCTCCCTGAGATTACAGTGGAGC
* *
35602707 AGATTGAAGCGAGTAATCTTATTTCCCTGAGATTACAGTGGAGC
1 AGATTGAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
* * ** * * * * * *
35602751 GGATTAAAATAAAG-GATTTTATCTCTCTGAAATTACAGTAGAGT
1 AGATT-GAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
* * * * * * **
35602795 AGA-T--CGC-ATTAGGTCTTATCTCCTTAAGATTACAGGGGAAT
1 AGATTGAAGCAAGTA-ATCTTATCTCCCTGAGATTACAGTGGAGC
** * * *
35602836 AGACCGAAG-AATTTCAAATCTCATCTCCCTGAGGTTACAGTGGAGC
1 AGATTGAAGCAA-GT--AATCTTATCTCCCTGAGATTACAGTGGAGC
* * *
35602882 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
1 AGATTGAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
* *
35602926 AGATTGAAGCTAGTAATCTTATTTCCCTGAGATTACAGTGGAGC
1 AGATTGAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
* * ** * * * * *
35602970 GGATTAAAATAAAG-GATCTTATCTCTCTGAAATTACAGTAGAGT
1 AGATT-GAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
* * * * * **
35603014 AGATCGCATC-AG--GTCTTATCTCCCTGAGATTACAGGGGAAT
1 AGATTGAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
** * * * *
35603055 AGACCGAAG-AATTTCAAATCTCATCTCCCTGAGGTTACAGTGGAGT
1 AGATTGAAGCAA-GT--AATCTTATCTCCCTGAGATTACAGTGGAGC
* *
35603101 AGATTGAAGCCAA-AAATCTTATATCCCTGAGATTACAGTGGAGC
1 AGATTGAAG-CAAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
* * *
35603145 AGATTGAAGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAGC
1 AGATTGAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
* * ** * * * * * *
35603189 GGATTAAAATAAAG-GATTTTATCTCTCTGAAATTACAGTAGAGT
1 AGATT-GAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
* * * * * * **
35603233 AGA-T--CGC-ATTAGGTCTTATCTCCTTAAGATTACAGGGGAAT
1 AGATTGAAGCAAGTA-ATCTTATCTCCCTGAGATTACAGTGGAGC
** * * * * *
35603274 AGACCGAAG-AATTTCAAATCTCATCTCCCTAAGGTTATAGTGGAGC
1 AGATTGAAGCAA-GT--AATCTTATCTCCCTGAGATTACAGTGGAGC
* * *
35603320 AGATTGAAGCCAA-AAATCTTATCTCCTTGAGATTACAGCGGAGC
1 AGATTGAAG-CAAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
* *
35603364 AGATTGAAGTC-AGTAATCCTATTTCCCTGAGATTACAGTGGAGC
1 AGATTGAAG-CAAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
*
35603408 GGATT
1 AGATT
35603413 AAAATAAATG
Statistics
Matches: 644, Mismatches: 193, Indels: 88
0.70 0.21 0.10
Matches are distributed among these distances:
39 2 0.00
41 104 0.16
42 4 0.01
43 9 0.01
44 380 0.59
45 19 0.03
46 118 0.18
47 4 0.01
48 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
AGATTGAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAGC
Found at i:35602798 original size:175 final size:174
Alignment explanation
Indices: 35602502--35602930 Score: 642
Period size: 175 Copynumber: 2.4 Consensus size: 174
35602492 TGAAGCCGAT
* * * * * *
35602502 AATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAACAAAGAATCTTATCTGCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGC-AAGAATCTTATCTCCCTGAGATTA
35602567 CAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTGAAATTACAATAGAGTAGATCGCATCAG
65 CAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTGAAATTACAATAGAGTAGATCGCATCAG
* *
35602632 GTCTTATCTCTTTGAGATTACAGGGGAATAGAACGAAGAATTTCA
130 GTCTTATCTCCTTAAGATTACAGGGGAATAGAACGAAGAATTTCA
** * *
35602677 AATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCGAGTAATCTTATTTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAAG-AATCTTATCTCCCTGAGATTA
* * *
35602742 CAGTGGAGCGGATTAAAATAAAGGATTTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATTAG
65 CAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTGAAATTACAATAGAGTAGATCGCATCAG
*
35602807 GTCTTATCTCCTTAAGATTACAGGGGAATAGACCGAAGAATTTCA
130 GTCTTATCTCCTTAAGATTACAGGGGAATAGAACGAAGAATTTCA
* * *
35602852 AATCTCATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAAG-AATCTTATCTCCCTGAGATTA
* *
35602917 CAGCGGAGCAGATT
65 CAGTGGAGCGGATT
35602931 GAAGCTAGTA
Statistics
Matches: 228, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
174 2 0.01
175 226 0.99
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (174 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAAGAATCTTATCTCCCTGAGATTAC
AGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTGAAATTACAATAGAGTAGATCGCATCAGG
TCTTATCTCCTTAAGATTACAGGGGAATAGAACGAAGAATTTCA
Found at i:35602828 original size:85 final size:85
Alignment explanation
Indices: 35602548--35602829 Score: 257
Period size: 85 Copynumber: 3.3 Consensus size: 85
35602538 AAACAAAGAA
35602548 TCTTATCTGCC-TGAGATTACAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTGAAATTAC
1 TCTTATCT-CCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTGAAATTAC
* *
35602612 AATAGAGTAGATCGCATCAGG
65 AGTAGAGTAGATCGCATTAGG
* * ** * ** * * * *
35602633 TCTTATCTCTTTGAGATTACAGGGGAATAGAACGAAGAATTTCAA--ATCTTATCTCCCTGAGAT
1 TCTTATCTCCTTGAGATTACAGTGG-AGCGGATTAA-AA--TAAAGGATATTATCTCTCTGAAAT
* * * * *
35602696 TACAGCAGAGCAGATTGAAGCGAGTA-A
62 TACAGTAGAGTAGA-T--CGC-ATTAGG
* * *
35602723 TCTTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATTTTATCTCTCTGAAATTACA
1 TCTTATCTCCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTGAAATTACA
35602788 GTAGAGTAGATCGCATTAGG
66 GTAGAGTAGATCGCATTAGG
*
35602808 TCTTATCTCCTTAAGATTACAG
1 TCTTATCTCCTTGAGATTACAG
35602830 GGGAATAGAC
Statistics
Matches: 146, Mismatches: 39, Indels: 24
0.70 0.19 0.11
Matches are distributed among these distances:
84 4 0.03
85 42 0.29
86 8 0.05
87 29 0.20
88 30 0.21
89 8 0.05
90 23 0.16
91 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (85 bp):
TCTTATCTCCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTGAAATTACA
GTAGAGTAGATCGCATTAGG
Found at i:35602905 original size:219 final size:218
Alignment explanation
Indices: 35602676--35603513 Score: 1451
Period size: 219 Copynumber: 3.8 Consensus size: 218
35602666 GAAGAATTTC
* *
35602676 AAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCGAGTAATCTTATTTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC-AGTAATCCTATTTCCCTGAGATT
* *
35602741 ACAGTGGAGCGGATTAAAATAAAGGATTTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATTA
65 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCA
*
35602806 GGTCTTATCTCCTTAAGATTACAGGGGAATAGACCGAAGAATTTCAAATCTCATCTCCCTGAGGT
130 GGTCTTATCTCCCTAAGATTACAGGGGAATAGACCGAAGAATTTCAAATCTCATCTCCCTGAGGT
*
35602871 TACAGTGGAGCAGATTGAAGCCAG
195 TACAGTGGAGCAGATTGAAGCCAA
*
35602895 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCTTATTTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC-AGTAATCCTATTTCCCTGAGATT
35602960 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCA
65 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCA
*
35603025 GGTCTTATCTCCCTGAGATTACAGGGGAATAGACCGAAGAATTTCAAATCTCATCTCCCTGAGGT
130 GGTCTTATCTCCCTAAGATTACAGGGGAATAGACCGAAGAATTTCAAATCTCATCTCCCTGAGGT
*
35603090 TACAGTGGAGTAGATTGAAGCCAA
195 TACAGTGGAGCAGATTGAAGCCAA
* *
35603114 AAATCTTATATCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CAGTAATCCTATTTCCCTGAGATT
* *
35603179 ACAGTGGAGCGGATTAAAATAAAGGATTTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATTA
65 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCA
* *
35603244 GGTCTTATCTCCTTAAGATTACAGGGGAATAGACCGAAGAATTTCAAATCTCATCTCCCTAAGGT
130 GGTCTTATCTCCCTAAGATTACAGGGGAATAGACCGAAGAATTTCAAATCTCATCTCCCTGAGGT
*
35603309 TATAGTGGAGCAGATTGAAGCCAA
195 TACAGTGGAGCAGATTGAAGCCAA
*
35603333 AAATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGTCAGTAATCCTATTTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CAGTAATCCTATTTCCCTGAGATT
* * *
35603398 ACAGTGGAGCGGATTAAAATAAATGAACTTATCTCTCGGAAATTACAGTAGAGTAGATCGCATCA
65 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCA
*
35603463 GGTCTTATCTCCCTGAGATTACAGGGGAATAGACCGAAGAATTTCAAATCT
130 GGTCTTATCTCCCTAAGATTACAGGGGAATAGACCGAAGAATTTCAAATCT
35603514 TACTTCCCAG
Statistics
Matches: 589, Mismatches: 29, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
219 588 1.00
220 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (218 bp):
AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCAGTAATCCTATTTCCCTGAGATTA
CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
GTCTTATCTCCCTAAGATTACAGGGGAATAGACCGAAGAATTTCAAATCTCATCTCCCTGAGGTT
ACAGTGGAGCAGATTGAAGCCAA
Found at i:35603680 original size:99 final size:100
Alignment explanation
Indices: 35603509--35603695 Score: 250
Period size: 99 Copynumber: 1.9 Consensus size: 100
35603499 AAGAATTTCA
* *** *
35603509 AATCTTACTTCCCAGGCGATTCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCG
1 AATCTTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACAGCGAATCCCCCTTCCCCA
35603574 ACATTGCAGTT-AAAAGATTAAAACTACAACAGGG
66 ACATTGCAGTTAAAAAGATTAAAACTACAACAGGG
* * * * * * * *
35603608 AATCTTACTTCTCTGGCGGTGCAGTGGAATAGATTAAAGCCACATCAGTGTATCCCCCTTCCTCA
1 AATCTTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACAGCGAATCCCCCTTCCCCA
35603673 ACATTGCAGTTAAAAAGATTAAA
66 ACATTGCAGTTAAAAAGATTAAA
35603696 GCCACAACGG
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
99 63 0.85
100 11 0.15
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (100 bp):
AATCTTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACAGCGAATCCCCCTTCCCCA
ACATTGCAGTTAAAAAGATTAAAACTACAACAGGG
Found at i:35605790 original size:18 final size:18
Alignment explanation
Indices: 35605769--35605846 Score: 54
Period size: 18 Copynumber: 4.2 Consensus size: 18
35605759 TATATATATT
35605769 TATTTCTTTCAAATTATC
1 TATTTCTTTCAAATTATC
**
35605787 TATTT-TTT-ATTTTA-C
1 TATTTCTTTCAAATTATC
* *
35605802 TTATTTATTTCTATATATATATT
1 -TATTTCTTTC-A-A-AT-TATC
35605825 TATTTCTTTCAAATTATC
1 TATTTCTTTCAAATTATC
35605843 TATT
1 TATT
35605847 ATCTATTTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
15 1 0.02
16 9 0.20
17 6 0.13
18 12 0.27
19 3 0.07
20 1 0.02
21 2 0.04
22 11 0.24
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTCTTTCAAATTATC
Found at i:35605821 original size:56 final size:57
Alignment explanation
Indices: 35605748--35605887 Score: 203
Period size: 56 Copynumber: 2.4 Consensus size: 57
35605738 TATATTTCAC
* *
35605748 TTAATTTTCTATATATATATTTATTTCTTTCAAATTATCTATTTTTTATTTTACTTAT
1 TTAA-TTTCTATATATATATTTATTTCTTTCAAATTATCTATTATCTATTTTACTTAT
**
35605806 TT-ATTTCTATATATATATTTATTTCTTTCAAATTATCTATTATCTATTTTGGTTAT
1 TTAATTTCTATATATATATTTATTTCTTTCAAATTATCTATTATCTATTTTACTTAT
35605862 TTCAATTTCTAGTATAT-TATTTATTT
1 TT-AATTTCTA-TATATATATTTATTT
35605888 TAAATTCTGG
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
56 51 0.68
57 1 0.01
58 18 0.24
59 5 0.07
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (57 bp):
TTAATTTCTATATATATATTTATTTCTTTCAAATTATCTATTATCTATTTTACTTAT
Found at i:35606438 original size:57 final size:57
Alignment explanation
Indices: 35606370--35606482 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
35606360 ACACGTTGTG
35606370 TCCTAACGCATTGGATATGACAGGTTGTTTTCTCGAGACGACAATTTTTCTAATAAA
1 TCCTAACGCATTGGATATGACAGGTTGTTTTCTCGAGACGACAATTTTTCTAATAAA
*
35606427 TCCTAACGCATTGGATATGACAGGTTGTTTTCTTGAGACGACAATTTTTCTAATAA
1 TCCTAACGCATTGGATATGACAGGTTGTTTTCTCGAGACGACAATTTTTCTAATAA
35606483 GTAAAAATAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (57 bp):
TCCTAACGCATTGGATATGACAGGTTGTTTTCTCGAGACGACAATTTTTCTAATAAA
Found at i:35608038 original size:22 final size:22
Alignment explanation
Indices: 35608011--35608059 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
35608001 AGTGATCAAG
* * *
35608011 AGAAAAAAAATGAGAAAGAAAA
1 AGAAAAAAAATCAAAAAAAAAA
*
35608033 AGAAAAGAAATCAAAAAAAAAA
1 AGAAAAAAAATCAAAAAAAAAA
35608055 AGAAA
1 AGAAA
35608060 GGAAAAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (22 bp):
AGAAAAAAAATCAAAAAAAAAA
Found at i:35608065 original size:17 final size:16
Alignment explanation
Indices: 35608011--35608068 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 16
35608001 AGTGATCAAG
**
35608011 AGAAAAAAAATGAGAA
1 AGAAAAAAAAAAAGAA
*
35608027 AG-AAAAAGAAAAGAA
1 AGAAAAAAAAAAAGAA
*
35608042 ATCAAAAAAAAAAAGAA
1 A-GAAAAAAAAAAAGAA
35608059 AGGAAAAAAA
1 A-GAAAAAAA
35608069 GAATTGAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
15 11 0.33
16 2 0.06
17 20 0.61
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.03
Consensus pattern (16 bp):
AGAAAAAAAAAAAGAA
Found at i:35627728 original size:40 final size:39
Alignment explanation
Indices: 35627630--35627852 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
35627620 TCCTCGTTCA
* * * * *
35627630 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
35627669 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
35627708 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
35627748 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
35627788 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
35627829 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35627853 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:35627852 original size:120 final size:119
Alignment explanation
Indices: 35627630--35627852 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
35627620 TCCTCGTTCA
* * * *
35627630 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
35627695 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
35627749 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
35627813 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
35627853 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:35635582 original size:39 final size:40
Alignment explanation
Indices: 35635537--35635721 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
35635527 GCTCCTCGTT
* * *
35635537 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
35635577 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
35635616 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
35635656 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
35635697 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
35635722 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:35635637 original size:40 final size:39
Alignment explanation
Indices: 35635504--35635721 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
35635494 AAATCACGTA
* * **
35635504 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
35635543 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
35635582 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
35635622 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
35635662 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
35635702 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
35635722 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:35641585 original size:28 final size:29
Alignment explanation
Indices: 35641529--35641610 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 29
35641519 CTAGTTTCCA
* * *
35641529 GTGATTACAGATC-AGTTACTTTGTACCG
1 GTGATTACAGTTCAAGGTACTCTGTACCG
* *
35641557 GTG-TTACAGTTCCAGGTACTCTGTGCCG
1 GTGATTACAGTTCAAGGTACTCTGTACCG
* * *
35641585 GTGATTATAGTTTAAGGTACTATGTA
1 GTGATTACAGTTCAAGGTACTCTGTA
35641611 TTGGTGATGG
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
27 8 0.19
28 18 0.42
29 17 0.40
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (29 bp):
GTGATTACAGTTCAAGGTACTCTGTACCG
Found at i:35641744 original size:44 final size:44
Alignment explanation
Indices: 35641676--35641770 Score: 127
Period size: 44 Copynumber: 2.2 Consensus size: 44
35641666 TGAAGCTTGT
* ** *
35641676 GTGAGCAGTATCATGTATTGATTAATGTCCCTTTGTCAGCTCGG
1 GTGAGCAGCATCATGTATCAATTAATGACCCTTTGTCAGCTCGG
* * *
35641720 GTGAGCAGCATCGTGTATCAATTAATGACCCTTTGTCAGCTTGT
1 GTGAGCAGCATCATGTATCAATTAATGACCCTTTGTCAGCTCGG
35641764 GTGAGCA
1 GTGAGCA
35641771 TTACCCTCCT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (44 bp):
GTGAGCAGCATCATGTATCAATTAATGACCCTTTGTCAGCTCGG
Found at i:35649292 original size:56 final size:51
Alignment explanation
Indices: 35649228--35649416 Score: 159
Period size: 50 Copynumber: 3.6 Consensus size: 51
35649218 GGGAATGAGA
* * *
35649228 CCCCATGTAAGACCATATCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGT
1 CCCCATGTAAGACCATGTCTGGGACATGGCATTG---GTATCGA-G--ATGAGAGGT
* *
35649285 -CCCATGTAATACCATGTCTGGGACATGGCTTTGGTATCGAGATGAGAGGT
1 CCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCGAGATGAGAGGT
* * * * * **
35649335 CCCCA-ATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACT
1 CCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCGAGATGAGAGGT
* * * *
35649385 -CTCATGTAAGACCATATCTAGGATATGGCATT
1 CCCCATGTAAGACCATGTCTGGGACATGGCATT
35649417 TGTAGTACAG
Statistics
Matches: 110, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
49 3 0.03
50 67 0.61
51 4 0.04
52 1 0.01
53 5 0.05
56 30 0.27
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (51 bp):
CCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCGAGATGAGAGGT
Found at i:35649697 original size:20 final size:20
Alignment explanation
Indices: 35649672--35649710 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
35649662 TGAGTCATTT
35649672 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
35649692 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
35649711 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:35651133 original size:21 final size:20
Alignment explanation
Indices: 35651104--35651149 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
35651094 CGAAATGCAA
35651104 TCAACCT-AACATGAATTAAAT
1 TCAACCTAAAC-TG-ATTAAAT
*
35651125 TCAAGCTAAACTGATTAAAT
1 TCAACCTAAACTGATTAAAT
35651145 T-AACC
1 TCAACC
35651150 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 8 0.36
21 8 0.36
22 3 0.14
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.28
Consensus pattern (20 bp):
TCAACCTAAACTGATTAAAT
Found at i:35656744 original size:3 final size:3
Alignment explanation
Indices: 35656729--35656777 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
35656719 TAATATTAAT
* * * *
35656729 TTA TTA TTG TTA TTA TTA TCA TTA TTA TTA TTG TTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35656777 T
1 T
35656778 ATTTTTCTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:35657130 original size:29 final size:29
Alignment explanation
Indices: 35657097--35657156 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
35657087 TGTTGACTTG
35657097 TCCACATCAGTGTTATTAGTGGTAGTTTA
1 TCCACATCAGTGTTATTAGTGGTAGTTTA
35657126 TCCACATCAGTGTTATTAGTGGTAGTTTA
1 TCCACATCAGTGTTATTAGTGGTAGTTTA
35657155 TC
1 TC
35657157 TGAAAATCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (29 bp):
TCCACATCAGTGTTATTAGTGGTAGTTTA
Found at i:35667914 original size:25 final size:25
Alignment explanation
Indices: 35667837--35667917 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
35667827 AGGTGATCTT
* *
35667837 TAGA-TGTAAAAATAATAGAAACTA
1 TAGATTGTGAAAACAATAGAAACTA
* * *
35667861 TAGATTTTG-AAACTATAAGAGACTA
1 TAGATTGTGAAAACAAT-AGAAACTA
** *
35667886 TAGATTGTGAAAAGGATAGAAACTT
1 TAGATTGTGAAAACAATAGAAACTA
35667911 TAGATTG
1 TAGATTG
35667918 AGACAATGTC
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
24 9 0.20
25 30 0.68
26 5 0.11
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.30
Consensus pattern (25 bp):
TAGATTGTGAAAACAATAGAAACTA
Found at i:35674813 original size:17 final size:17
Alignment explanation
Indices: 35674791--35674826 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
35674781 CGGAGTGCTA
35674791 TTGCTTTCATGTGCTCT
1 TTGCTTTCATGTGCTCT
35674808 TTGCTTTCATGTGCTCT
1 TTGCTTTCATGTGCTCT
35674825 TT
1 TT
35674827 CCCTTCCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.22, G:0.17, T:0.56
Consensus pattern (17 bp):
TTGCTTTCATGTGCTCT
Found at i:35675624 original size:17 final size:17
Alignment explanation
Indices: 35675602--35675637 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
35675592 ATGCACTAAC
* *
35675602 ATAAAAATGTAATGACA
1 ATAAAAAAGCAATGACA
35675619 ATAAAAAAGCAATGACA
1 ATAAAAAAGCAATGACA
35675636 AT
1 AT
35675638 GTATAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.08, G:0.11, T:0.19
Consensus pattern (17 bp):
ATAAAAAAGCAATGACA
Found at i:35676127 original size:21 final size:21
Alignment explanation
Indices: 35676089--35676130 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35676079 TCTTCAGCAA
*
35676089 CAACTTCCTCTTCTACAACAG
1 CAACTTCCTCTTCAACAACAG
35676110 CAACTTCCT-TCTCAACAACAG
1 CAACTTCCTCT-TCAACAACAG
35676131 TGTTCTCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.31, C:0.38, G:0.05, T:0.26
Consensus pattern (21 bp):
CAACTTCCTCTTCAACAACAG
Found at i:35689448 original size:26 final size:26
Alignment explanation
Indices: 35689419--35689468 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
35689409 ACTTTAACAT
35689419 CCCAACCCACAGCTCGTATGAGCAGA
1 CCCAACCCACAGCTCGTATGAGCAGA
*** *
35689445 CCCATTTCACAGCTCGTGTGAGCA
1 CCCAACCCACAGCTCGTATGAGCA
35689469 TATATGATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.26, C:0.36, G:0.20, T:0.18
Consensus pattern (26 bp):
CCCAACCCACAGCTCGTATGAGCAGA
Found at i:35698947 original size:79 final size:79
Alignment explanation
Indices: 35698836--35699058 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 79
35698826 GCTCCTCGTT
* * *
35698836 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCG
*
35698900 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
*
35698916 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
35698979 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * *
35698994 CAAATGCCTTCGGATCTTAGTCCAGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCAGA-ATTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
35699056 GGA
63 GGA
35699059 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 46 0.37
79 55 0.44
80 23 0.18
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCAGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:35698953 original size:39 final size:40
Alignment explanation
Indices: 35698836--35699058 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
35698826 GCTCCTCGTT
* * *
35698836 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
35698876 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
35698916 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
35698955 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
35698994 CAAATGCCTTC-GGATCTTAGTCCAGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
35699035 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35699059 CATCATTCAA
Statistics
Matches: 163, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 62 0.38
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:35702596 original size:56 final size:56
Alignment explanation
Indices: 35702503--35702615 Score: 167
Period size: 56 Copynumber: 2.0 Consensus size: 56
35702493 ATCGTCATTT
*
35702503 TCCAAAATTGATTAAGATAAGGGAAACAAAACTAGAGAAAGGGAAAATGAAAATTAA
1 TCCAAAATTGATTAAGATAAGGGAAACAAAACCAGAGAAAGGGAAAAT-AAAATTAA
* *
35702560 TCCAACATTGATTCAGATGAA-GG-AACAAAACCAGAGAAAGGGAAAATAAAATTAA
1 TCCAAAATTGATTAAGAT-AAGGGAAACAAAACCAGAGAAAGGGAAAATAAAATTAA
35702615 T
1 T
35702616 GGATAAAGGA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
55 9 0.17
56 23 0.44
57 18 0.35
58 2 0.04
ACGTcount: A:0.54, C:0.10, G:0.19, T:0.18
Consensus pattern (56 bp):
TCCAAAATTGATTAAGATAAGGGAAACAAAACCAGAGAAAGGGAAAATAAAATTAA
Found at i:35711128 original size:19 final size:19
Alignment explanation
Indices: 35711104--35711141 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
35711094 CTAAAAGAGT
35711104 TGAGAGAATGATGA-ATGAG
1 TGAGAG-ATGATGAGATGAG
35711123 TGAGAGATGATGAGATGAG
1 TGAGAGATGATGAGATGAG
35711142 GGATGATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.21
Consensus pattern (19 bp):
TGAGAGATGATGAGATGAG
Found at i:35713324 original size:22 final size:22
Alignment explanation
Indices: 35713291--35713344 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
35713281 TTTTAATTTG
* *
35713291 CAAAAATTAAA-TCCTAATTAC
1 CAAAAAATAAATTCCTAATAAC
*
35713312 TAAAGAAATAAATTCCTAATAAC
1 CAAA-AAATAAATTCCTAATAAC
35713335 CAAAAAATAA
1 CAAAAAATAA
35713345 TTAAATAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.11
22 12 0.44
23 12 0.44
ACGTcount: A:0.59, C:0.15, G:0.02, T:0.24
Consensus pattern (22 bp):
CAAAAAATAAATTCCTAATAAC
Found at i:35720887 original size:56 final size:56
Alignment explanation
Indices: 35720801--35720920 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
35720791 ACAAGGGATG
35720801 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
35720857 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
35720913 ATGGGCAA
1 ATGGGCAA
35720921 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:35722424 original size:40 final size:41
Alignment explanation
Indices: 35722377--35722466 Score: 108
Period size: 49 Copynumber: 2.0 Consensus size: 41
35722367 ATATTTGAAT
35722377 AAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 AAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
35722418 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 ------A--AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
35722467 GATGTGATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
47 1 0.02
49 40 0.98
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.30
Consensus pattern (41 bp):
AAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
Found at i:35722434 original size:49 final size:49
Alignment explanation
Indices: 35722378--35722750 Score: 460
Period size: 47 Copynumber: 7.6 Consensus size: 49
35722368 TATTTGAATA
*
35722378 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
35722427 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
35722476 AATGTGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AA--TGTGA--AA-GT----GTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
35722534 AATGTGAAAGTGTATATATATGTGGTAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
35722583 AATGTGAACA-TG--TGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
35722630 AATGTGAACA-TG--CATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
35722677 AATGTGAAAGTG--TATATATGTGATAAGGTCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
35722724 GATGTGGAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
35722751 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 18, Indels: 28
0.86 0.05 0.08
Matches are distributed among these distances:
46 1 0.00
47 137 0.47
48 1 0.00
49 97 0.33
50 1 0.00
51 5 0.02
53 4 0.01
54 4 0.01
56 5 0.02
58 38 0.13
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:35722510 original size:58 final size:59
Alignment explanation
Indices: 35722420--35722588 Score: 225
Period size: 49 Copynumber: 3.0 Consensus size: 59
35722410 TAATGGCCAA
*
35722420 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
35722480 TGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCAATGTGATGAA--
1 TGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
* *
35722536 TGTGA--AA-GT----GT-ATATATATGTGGTAAGGCCGAATGGCCAATGTGATGAATG
1 TGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
35722587 TG
1 TG
35722589 AACATGTGTA
Statistics
Matches: 103, Mismatches: 3, Indels: 15
0.85 0.02 0.12
Matches are distributed among these distances:
49 37 0.36
51 2 0.02
53 2 0.02
54 2 0.02
56 5 0.05
58 36 0.35
60 19 0.18
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (59 bp):
TGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
Found at i:35722722 original size:22 final size:22
Alignment explanation
Indices: 35722601--35722722 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
35722591 CATGTGTATG
*
35722601 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGTCGAATGGCCAA
* *
35722623 TGTGATGAATGT-GAACAT-GCATATA
1 TGTGAT-AAGGTCG-A-ATGGC-CA-A
* *
35722648 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGTCGAATGGCCAA
* ***
35722670 TGTGATGAATGT-GAAAGTGTATATA
1 TGTGAT-AAGGTCG-AA-TGGCCA-A
35722695 TGTGATAAGGTCGAATGGCCAA
1 TGTGATAAGGTCGAATGGCCAA
35722717 TGTGAT
1 TGTGAT
35722723 GGATGTGGAA
Statistics
Matches: 71, Mismatches: 17, Indels: 24
0.63 0.15 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 18 0.25
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGTCGAATGGCCAA
Found at i:35745698 original size:30 final size:31
Alignment explanation
Indices: 35745643--35745710 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
35745633 ACCCTTAAAA
* * * **
35745643 TATTTACACTATTGGTCCTTCAAATTTTTTG
1 TATTTACACTATTAGCCCCTCAAATTTTGAG
35745674 TATTTACACT-TTAGCCCCTCAAATTTTGAG
1 TATTTACACTATTAGCCCCTCAAATTTTGAG
35745704 TATTTAC
1 TATTTAC
35745711 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (31 bp):
TATTTACACTATTAGCCCCTCAAATTTTGAG
Found at i:35751718 original size:42 final size:42
Alignment explanation
Indices: 35751670--35751769 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
35751660 CTATACGAAT
* ** **
35751670 GGCACTAAGTGTGTGAAATTAAAATGAAGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACAAAAATGAAGATGTCAAATAACG
*
35751712 GGCACTAAGTGTGCGAAACAAAAATGACGATGTCAAATAACG
1 GGCACTAAGTGTGCGAAACAAAAATGAAGATGTCAAATAACG
* *
35751754 GGTACTGAGTGTGCGA
1 GGCACTAAGTGTGCGA
35751770 TACCAAGATC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACAAAAATGAAGATGTCAAATAACG
Found at i:35758403 original size:29 final size:30
Alignment explanation
Indices: 35758355--35758431 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
35758345 TTAATTCAAC
* * *
35758355 AATCAATTGAGCCATCAATCTAAA-AT-AGC
1 AATCAATTAAGCCCTCAATC-AAATATAAGA
* *
35758384 ACTCAATTAAGCCCTTAATCAAATATAAGA
1 AATCAATTAAGCCCTCAATCAAATATAAGA
35758414 AATCAATTAAGCCCTCAA
1 AATCAATTAAGCCCTCAA
35758432 AAAATCAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 3 0.08
29 18 0.46
30 18 0.46
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (30 bp):
AATCAATTAAGCCCTCAATCAAATATAAGA
Found at i:35758525 original size:25 final size:27
Alignment explanation
Indices: 35758489--35758543 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
35758479 CGTGGCGAAT
**
35758489 AAAAAATATAAA-ATTATAATTTTCAA
1 AAAAAATATAAAGAACATAATTTTCAA
*
35758515 AAAAAAT-TAAAGAACATAATTTTTAA
1 AAAAAATATAAAGAACATAATTTTCAA
35758541 AAA
1 AAA
35758544 TTACAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAAAATATAAAGAACATAATTTTCAA
Found at i:35758570 original size:34 final size:33
Alignment explanation
Indices: 35758530--35758612 Score: 103
Period size: 34 Copynumber: 2.5 Consensus size: 33
35758520 ATTAAAGAAC
*
35758530 ATAATTTTTAAAAATTACAAAAAATAAAAAATT
1 ATAATTTTTAAAAATTACAAAAAAGAAAAAATT
* * * *
35758563 TTGAATTTTTAAAAATTATAAAAAGGAAAATATT
1 AT-AATTTTTAAAAATTACAAAAAAGAAAAAATT
35758597 ATAATTTATTAAAAAT
1 ATAATTT-TTAAAAAT
35758613 AATATAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 6 0.14
34 36 0.86
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (33 bp):
ATAATTTTTAAAAATTACAAAAAAGAAAAAATT
Found at i:35758931 original size:19 final size:18
Alignment explanation
Indices: 35758857--35758931 Score: 53
Period size: 20 Copynumber: 4.0 Consensus size: 18
35758847 ATAAAAAATA
* *
35758857 TAATTTGTTAT-ATTTTCA
1 TAATTTTTTATAATTTT-T
* *
35758875 TAATTTTCATATACTTTTT
1 TAATTTT-TTATAATTTTT
* *
35758894 TAATTTTTTTTCCAATTTTG
1 TAATTTTTTAT--AATTTTT
35758914 TAATTTTTTATAATTTTT
1 TAATTTTTTATAATTTTT
35758932 AAAAATTTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
18 14 0.33
19 10 0.23
20 19 0.44
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (18 bp):
TAATTTTTTATAATTTTT
Found at i:35759012 original size:14 final size:14
Alignment explanation
Indices: 35758995--35759041 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
35758985 TTGTTTTTCT
35758995 AAAAGAATTTTACA
1 AAAAGAATTTTACA
* * *
35759009 AAAATTAATTTTTCT
1 AAAA-GAATTTTACA
35759024 AAAAGAATTTTACA
1 AAAAGAATTTTACA
35759038 AAAA
1 AAAA
35759042 TTAATTTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.34
Consensus pattern (14 bp):
AAAAGAATTTTACA
Found at i:35759020 original size:15 final size:15
Alignment explanation
Indices: 35759000--35759054 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
35758990 TTTCTAAAAG
35759000 AATTTTACAAAAATT
1 AATTTTACAAAAATT
* * *
35759015 AATTTTTCTAAAA-G
1 AATTTTACAAAAATT
35759029 AATTTTACAAAAATT
1 AATTTTACAAAAATT
*
35759044 AATTTTTCAAA
1 AATTTTACAAA
35759055 GGATTAATTG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (15 bp):
AATTTTACAAAAATT
Found at i:35759020 original size:29 final size:29
Alignment explanation
Indices: 35758988--35759051 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
35758978 TGATTTTTTG
35758988 TTTTTCTAAAAGAATTTTACAAAAATTAA
1 TTTTTCTAAAAGAATTTTACAAAAATTAA
35759017 TTTTTCTAAAAGAATTTTACAAAAATTAA
1 TTTTTCTAAAAGAATTTTACAAAAATTAA
35759046 TTTTTC
1 TTTTTC
35759052 AAAGGATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (29 bp):
TTTTTCTAAAAGAATTTTACAAAAATTAA
Found at i:35759107 original size:29 final size:30
Alignment explanation
Indices: 35759060--35759124 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
35759050 TCAAAGGATT
*
35759060 AATTGATTGCGTATATTTAATTAAGGACTC
1 AATTGAGTGCGTATATTTAATTAAGGACTC
* * *
35759090 AATTGAGTGC-TATTTTTAATTGAGGGCTC
1 AATTGAGTGCGTATATTTAATTAAGGACTC
*
35759119 ACTTGA
1 AATTGA
35759125 TTATTAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (30 bp):
AATTGAGTGCGTATATTTAATTAAGGACTC
Found at i:35771850 original size:25 final size:26
Alignment explanation
Indices: 35771821--35771870 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
35771811 TTTTTTAAAA
35771821 AATTTTGATAGGGTTA-AGGTTTTTT
1 AATTTTGATAGGGTTAGAGGTTTTTT
*
35771846 AATTTTGTTAGGGTTAGAGGTTTTT
1 AATTTTGATAGGGTTAGAGGTTTTT
35771871 AGGAATTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (26 bp):
AATTTTGATAGGGTTAGAGGTTTTTT
Found at i:35773739 original size:17 final size:17
Alignment explanation
Indices: 35773717--35773807 Score: 50
Period size: 17 Copynumber: 5.4 Consensus size: 17
35773707 ATTTTAATAG
35773717 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
35773734 TTTAATACTT--ATCTTAA
1 TTTAATA-TTAAAT-TTAA
* ** *
35773751 --TAGTATTTTA-TTCA
1 TTTAATATTAAATTTAA
35773765 TTTAATATTAAAGTGATT-A
1 TTTAATATTAAA-T--TTAA
35773784 TCTTAATATTAAATTTAA
1 T-TTAATATTAAATTTAA
35773802 TTTAAT
1 TTTAAT
35773808 GTTTATCTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 24
0.66 0.06 0.28
Matches are distributed among these distances:
14 5 0.09
15 4 0.07
16 10 0.18
17 18 0.32
18 4 0.07
19 3 0.05
20 13 0.23
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:35776138 original size:25 final size:25
Alignment explanation
Indices: 35776098--35776147 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
35776088 GTTGTAGAGG
35776098 GAAAATTCTATAAAGAAATTATTTTA
1 GAAAATTCTATAAAGAAATT-TTTTA
* *
35776124 GAAAA-TCTCTAAAGATATTTTTTA
1 GAAAATTCTATAAAGAAATTTTTTA
35776148 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 12 0.55
26 5 0.23
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (25 bp):
GAAAATTCTATAAAGAAATTTTTTA
Found at i:35777198 original size:22 final size:24
Alignment explanation
Indices: 35777170--35777224 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
35777160 AAATTTTCAT
*
35777170 AGCATGTCATGCATATATT-GG-A
1 AGCATGTCATACATATATTAGGTA
*
35777192 AGCATGTCATATATATATTAGGTA
1 AGCATGTCATACATATATTAGGTA
*
35777216 AGAATGTCA
1 AGCATGTCA
35777225 CTAGGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 17 0.61
23 2 0.07
24 9 0.32
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (24 bp):
AGCATGTCATACATATATTAGGTA
Found at i:35782938 original size:22 final size:22
Alignment explanation
Indices: 35782908--35782950 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
35782898 ACACCAAAAC
*
35782908 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
*
35782930 AGGCCTTTAGCGGTGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
35782951 AGTTCCGCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:35783083 original size:43 final size:43
Alignment explanation
Indices: 35783022--35783267 Score: 323
Period size: 43 Copynumber: 5.7 Consensus size: 43
35783012 GCGTCGCTAA
* *
35783022 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
*
35783065 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* *
35783108 CTTTAGCGACACTTTTCCCACAAACGCCGCTATAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* * *
35783151 CTTTAGCGGCACTTTT-ACACAAACGCCGCTATAGATCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
*** * *
35783193 CTTTAGCGGCGCTTTTTTTATAAACGCCGCTATAGATCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* * * **
35783236 TTTTAGCGACGTTTTTTTCACAAACGCCGCTA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
35783268 AAAGTGCCAT
Statistics
Matches: 183, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 39 0.21
43 144 0.79
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
Found at i:35783194 original size:128 final size:129
Alignment explanation
Indices: 35783022--35783267 Score: 343
Period size: 128 Copynumber: 1.9 Consensus size: 129
35783012 GCGTCGCTAA
* * *
35783022 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGGCACTTTTCACACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACA
35783087 AACGCCGCTATAGATCA-GAACCTTTAGCGACACTTTTCCCACAAACGCCGCTATAGATCAGGAC
66 AACGCCGCTATAGATCATG-ACCTTTAGCGACACTTTTCCCACAAACGCCGCTATAGATCAGGAC
* * *** *
35783151 CTTTAGCGGCACTTTT-ACACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTTTATA
1 CTTTAGCGGCACTTTTCACACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACA
* ** **
35783215 AACGCCGCTATAGATCATGACTTTTAGCGACGTTTTTTTCACAAACGCCGCTA
66 AACGCCGCTATAGATCATGACCTTTAGCGACACTTTTCCCACAAACGCCGCTA
35783268 AAAGTGCCAT
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
128 86 0.84
129 16 0.16
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (129 bp):
CTTTAGCGGCACTTTTCACACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACA
AACGCCGCTATAGATCATGACCTTTAGCGACACTTTTCCCACAAACGCCGCTATAGATCAGGAC
Found at i:35787851 original size:21 final size:21
Alignment explanation
Indices: 35787827--35787867 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
35787817 AACCCTAAAT
35787827 CCCTAACTCTTAACCCCTAAC
1 CCCTAACTCTTAACCCCTAAC
*
35787848 CCCTAACTCTTAATCCCTAA
1 CCCTAACTCTTAACCCCTAA
35787868 ACCTTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.44, G:0.00, T:0.27
Consensus pattern (21 bp):
CCCTAACTCTTAACCCCTAAC
Found at i:35788104 original size:23 final size:24
Alignment explanation
Indices: 35788065--35788118 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
35788055 TATATGAAAT
*
35788065 TATTTAATATATAAATTAAAAAAA
1 TATTTAATAAATAAATTAAAAAAA
35788089 TATTTAA-AAATAAATT-AAAAAA
1 TATTTAATAAATAAATTAAAAAAA
*
35788111 TAATTAAT
1 TATTTAAT
35788119 CTAAACCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 12 0.44
23 8 0.30
24 7 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TATTTAATAAATAAATTAAAAAAA
Found at i:35788183 original size:22 final size:22
Alignment explanation
Indices: 35788148--35788210 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
35788138 TTGACCCATG
* *
35788148 AACTCATAAACCCTAAATCCCT
1 AACTCATAACCCCTAAACCCCT
*
35788170 AACTCTTAACCCCTAAACCCCT
1 AACTCATAACCCCTAAACCCCT
35788192 AAC-CACTAACCCCTAAACC
1 AACTCA-TAACCCCTAAACC
35788211 TTAAATCTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 35 0.97
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (22 bp):
AACTCATAACCCCTAAACCCCT
Found at i:35788259 original size:15 final size:15
Alignment explanation
Indices: 35788223--35788263 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
35788213 AAATCTCAAC
35788223 CCTTAAA-CCATAAT
1 CCTTAAATCCATAAT
*
35788237 CCCT-AATCCATAAT
1 CCTTAAATCCATAAT
35788251 CCTTAAATCCATA
1 CCTTAAATCCATA
35788264 CTCCATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTTAAATCCATAAT
Found at i:35788272 original size:15 final size:15
Alignment explanation
Indices: 35788226--35788272 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
35788216 TCTCAACCCT
*
35788226 TAAA-CCATAATCCC
1 TAAATCCATAATCCA
*
35788240 T-AATCCATAATCCT
1 TAAATCCATAATCCA
*
35788254 TAAATCCATACTCCA
1 TAAATCCATAATCCA
35788269 TAAA
1 TAAA
35788273 CCTTAAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCA
Found at i:35788554 original size:41 final size:41
Alignment explanation
Indices: 35788497--35788612 Score: 180
Period size: 41 Copynumber: 2.8 Consensus size: 41
35788487 TAAAATGTTT
35788497 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTA-CCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCC-AGCCA
* *
35788538 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCAGGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAGCCA
**
35788579 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGCC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCC
35788613 ACGAAATGTT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
40 1 0.01
41 68 0.99
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAGCCA
Found at i:35788692 original size:39 final size:39
Alignment explanation
Indices: 35788648--35788726 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
35788638 TGGGCTAAGG
* * *
35788648 TTTTTTGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCATTTTTTT-AAAAACGCCACTAATGCTCA
35788688 TTTTTAGCGGCATTTTTTTAAAAACGCCACTAATGCTCA
1 TTTTTAGCGGCATTTTTTTAAAAACGCCACTAATGCTCA
35788727 ATCTTTAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 19 0.53
40 17 0.47
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (39 bp):
TTTTTAGCGGCATTTTTTTAAAAACGCCACTAATGCTCA
Found at i:35788698 original size:40 final size:40
Alignment explanation
Indices: 35788648--35788785 Score: 136
Period size: 40 Copynumber: 3.5 Consensus size: 40
35788638 TGGGCTAAGG
*
35788648 TTTTTTGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
* *
35788688 TTTTTAGCGGCATTTTTTT-AAAAACGCCACTAATGCTCAA
1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTC-A
* * * *** * *
35788728 TCTTTAGTGGCGATTTCCAG-AAAGCGCCGCTAATGCTTAA
1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGC-TCA
*
35788768 TTTTTACCGGCGTTTTTT
1 TTTTTAGCGGCGTTTTTT
35788786 GTCCAAACGC
Statistics
Matches: 76, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
39 18 0.24
40 57 0.75
41 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
Found at i:35789505 original size:9 final size:9
Alignment explanation
Indices: 35789491--35789517 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
35789481 CAAGTAAATT
35789491 AAATTAATA
1 AAATTAATA
35789500 AAATTAATA
1 AAATTAATA
35789509 AAATTAATA
1 AAATTAATA
35789518 TGATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAATTAATA
Found at i:35789926 original size:62 final size:58
Alignment explanation
Indices: 35789831--35789964 Score: 160
Period size: 59 Copynumber: 2.2 Consensus size: 58
35789821 TCCAAAAATA
* * * *
35789831 ATATTATTTTAATAAATTTAATATTAAATTTAATTTATTATTTATATTGTAGATACATATT
1 ATATTAATTTAATAAATTTAATATTAAATTTAATCTAATA-TT-TATT-TAGATAAATATT
* * * *
35789892 GTATTAATTTAATAAGATTTGATATTATATTTAATCTAATATTTATTTCGATAAATATT
1 ATATTAATTTAATAA-ATTTAATATTAAATTTAATCTAATATTTATTTAGATAAATATT
35789951 ATATTAATTTAATA
1 ATATTAATTTAATA
35789965 TTAAAGTGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
59 23 0.37
60 4 0.06
61 15 0.24
62 21 0.33
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (58 bp):
ATATTAATTTAATAAATTTAATATTAAATTTAATCTAATATTTATTTAGATAAATATT
Found at i:35792892 original size:46 final size:46
Alignment explanation
Indices: 35792792--35793051 Score: 348
Period size: 46 Copynumber: 5.6 Consensus size: 46
35792782 TACATATGAT
*
35792792 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
35792835 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
35792881 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
35792927 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAA-GCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG-CTAAGGCTAC
* *
35792973 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
35793025 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
35793052 AGTACTCAAA
Statistics
Matches: 192, Mismatches: 14, Indels: 19
0.85 0.06 0.08
Matches are distributed among these distances:
43 10 0.05
44 5 0.03
45 19 0.10
46 113 0.59
47 3 0.02
48 1 0.01
50 1 0.01
51 3 0.02
52 37 0.19
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:35793038 original size:98 final size:97
Alignment explanation
Indices: 35792790--35793051 Score: 371
Period size: 98 Copynumber: 2.8 Consensus size: 97
35792780 CTTACATATG
*
35792790 ATCACTTATCACTTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCAC
1 ATCACTT-TCACTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCAC
*
35792853 TTGATCAGATAAGAGTAGCTAAGGCTACCACTT
65 TTGATCAGATAAGAGTAGCGAAGGCTACCACTT
*
35792886 ATCACTTT--C---TCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 ATCACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
**
35792946 TGATCAGATAAGTA-TAGCCGAA-GCTATTACTT
66 TGATCAGATAAG-AGTAG-CGAAGGCTACCACTT
*
35792978 ATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
1 ATCACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCAC
35793043 TTGATCAGA
65 TTGATCAGA
35793052 AGTACTCAAA
Statistics
Matches: 149, Mismatches: 7, Indels: 18
0.86 0.04 0.10
Matches are distributed among these distances:
90 2 0.01
91 20 0.13
92 56 0.38
93 5 0.03
95 2 0.01
96 7 0.05
98 57 0.38
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (97 bp):
ATCACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGAGTAGCGAAGGCTACCACTT
Found at i:35796168 original size:228 final size:228
Alignment explanation
Indices: 35795771--35796226 Score: 876
Period size: 228 Copynumber: 2.0 Consensus size: 228
35795761 TAAATAACAA
*
35795771 CATCAAATCAACTCATCATCCCCTTTTTCGTCATTTTATTCTTCAAGTATGAACTTAGTATTTCA
1 CATCAAATCAACTCATCATCCCCTTTTTCGTCATTTTATTCTTCAAGTATGAACTTAGTACTTCA
* *
35795836 TTTCCTTTCCACACCCATTTCCTACGAATATGACACAAAACAATAACATATCATTCAACCATAGT
66 TTTCATTTCCACACCCATTTCCTACGAATATCACACAAAACAATAACATATCATTCAACCATAGT
35795901 CACAAGCTAGTACATTTAAACATAATTCTTTTTGGAATTAACCACATGATAAACCATTTCAAGTA
131 CACAAGCTAGTACATTTAAACATAATTCTTTTTGGAATTAACCACATGATAAACCATTTCAAGTA
35795966 AGTTTACATAATTTAAACATTACCACCCTTTCC
196 AGTTTACATAATTTAAACATTACCACCCTTTCC
35795999 CATCAAATCAACTCATCATCCCCTTTTTCGTCATTTTATTCTTCAAGTATGAACTTAGTACTTCA
1 CATCAAATCAACTCATCATCCCCTTTTTCGTCATTTTATTCTTCAAGTATGAACTTAGTACTTCA
*
35796064 TTTCATTTCCACACCTATTTCCTACGAATATCACACAAAACAATAACATATCATTCAACCATAGT
66 TTTCATTTCCACACCCATTTCCTACGAATATCACACAAAACAATAACATATCATTCAACCATAGT
35796129 CACAAGCTAGTACATTTAAACATAATTCTTTTTGGAATTAACCACATGATAAACCATTTCAAGTA
131 CACAAGCTAGTACATTTAAACATAATTCTTTTTGGAATTAACCACATGATAAACCATTTCAAGTA
35796194 AGTTTACATAATTTAAACATTACCACCCTTTCC
196 AGTTTACATAATTTAAACATTACCACCCTTTCC
35796227 ATGATCACAA
Statistics
Matches: 224, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
228 224 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.35
Consensus pattern (228 bp):
CATCAAATCAACTCATCATCCCCTTTTTCGTCATTTTATTCTTCAAGTATGAACTTAGTACTTCA
TTTCATTTCCACACCCATTTCCTACGAATATCACACAAAACAATAACATATCATTCAACCATAGT
CACAAGCTAGTACATTTAAACATAATTCTTTTTGGAATTAACCACATGATAAACCATTTCAAGTA
AGTTTACATAATTTAAACATTACCACCCTTTCC
Found at i:35802461 original size:43 final size:42
Alignment explanation
Indices: 35802365--35802578 Score: 231
Period size: 42 Copynumber: 5.1 Consensus size: 42
35802355 TAACCGTTAC
*
35802365 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
* * * *
35802407 ACAG-GGAATCAGAACATAGCAACC-CCTT-TCACAGTCAAGGAC
1 ACGGTGGAATCAGCACTTAGCAACCACCTTAT-A-A-TCAAGGAT
* *
35802449 ACGGTGGAATCAGCACTTAGCAACCATCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
* * * *
35802491 ACAG-GGAATCAGCACATAGTAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGAT
* *
35802533 ACGGTGGAATCAGCACTTAGCAACCTCCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
35802575 ACGG
1 ACGG
35802579 GTTCACATAG
Statistics
Matches: 140, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
39 1 0.01
40 6 0.04
41 39 0.28
42 48 0.34
43 39 0.28
44 6 0.04
45 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (42 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
Found at i:35802508 original size:84 final size:84
Alignment explanation
Indices: 35802363--35802576 Score: 367
Period size: 84 Copynumber: 2.5 Consensus size: 84
35802353 ATTAACCGTT
*
35802363 ACACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGAACATAGCA
1 ACACGGTGGAATCAGCACTTAGCAACCATCTTATAATCAATGATACAGGGAATCAGAACATAGCA
*
35802428 ACCCCTTTCACAGTCAAGG
66 ACCCCTTTCACAATCAAGG
* *
35802447 ACACGGTGGAATCAGCACTTAGCAACCATCTTATAATCAATGATACAGGGAATCAGCACATAGTA
1 ACACGGTGGAATCAGCACTTAGCAACCATCTTATAATCAATGATACAGGGAATCAGAACATAGCA
35802512 ACCCCTTTCACAATCAAGG
66 ACCCCTTTCACAATCAAGG
*
35802531 ATACGGTGGAATCAGCACTTAGCAACC-TCCTTATAATCAATGATAC
1 ACACGGTGGAATCAGCACTTAGCAACCAT-CTTATAATCAATGATAC
35802577 GGGTTCACAT
Statistics
Matches: 124, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
83 1 0.01
84 123 0.99
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.21
Consensus pattern (84 bp):
ACACGGTGGAATCAGCACTTAGCAACCATCTTATAATCAATGATACAGGGAATCAGAACATAGCA
ACCCCTTTCACAATCAAGG
Found at i:35802749 original size:50 final size:49
Alignment explanation
Indices: 35802586--35802772 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 49
35802576 CGGGTTCACA
* * *
35802586 TAGTAGCCTACACATAGTACTACACATGTAACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT--CTATCCGGTACACG
* * * * * * *
35802637 TAGTAGCTTGCACATAGCACTACACACGTGATCGAAGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-C-CATCTATCCGGTACACG
* * *
35802688 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCTATCCGGTACACG
*
35802738 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
35802773 AACTTTCACT
Statistics
Matches: 111, Mismatches: 22, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
49 2 0.02
50 43 0.39
51 64 0.58
52 1 0.01
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCTATCCGGTACACG
Found at i:35802762 original size:101 final size:101
Alignment explanation
Indices: 35802584--35802768 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
35802574 TACGGGTTCA
* *
35802584 CATAGTAGCCTACACATAGTACTACACATGTAACCATCACTATCCGATACACGTAGTAGCTTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCAACCAT-ACTATCCGATACACGTAGTAGCCTGCA
35802649 CATAGCACTACACACGTGATCGAAGCTATCCGGTACG
65 CATAGCACTACACACGTGATCGAAGCTATCCGGTACG
* * * * *
35802686 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCAACCATA-CTATCCGATACACGTAGTAGCCTGCA
*
35802750 CATAGTACTACACACGTGA
65 CATAGCACTACACACGTGA
35802769 CCATAACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 1 0.01
101 41 0.55
102 32 0.43
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCAACCATACTATCCGATACACGTAGTAGCCTGCAC
ATAGCACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:35802791 original size:101 final size:101
Alignment explanation
Indices: 35802578--35802798 Score: 250
Period size: 101 Copynumber: 2.2 Consensus size: 101
35802568 CAATGATACG
*
35802578 GGTTCACATAGTAGCCTACACATAGTACTACACATGTAACCATCACTATCCGATACACGTAGTAG
1 GGTTCACATAGTAGCCTACACATAGTACTACACATGCAACCAT-ACTATCCGATACACGTAGTAG
* * *
35802643 CTTGCACATAGCACTACACACGTGATCGAAGCTATCC
65 CCTGCACATAGCACTACACACGTGATCCAAACTATCC
* * * * * * *
35802680 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACGTAGTAG
1 GGTTCACATAGTAGCCTACACATAGTACTACACATGCAACCATA-CTATCCGATACACGTAGTAG
* *
35802744 CCTGCACATAGTACTACACACGTGA-CCATAACTTTCAC
65 CCTGCACATAGCACTACACACGTGATCCA-AACTATC-C
* *
35802782 -TTTCACATAGTGGCCTA
1 GGTTCACATAGTAGCCTA
35802799 TACACAGTCC
Statistics
Matches: 98, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
100 3 0.03
101 58 0.59
102 37 0.38
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (101 bp):
GGTTCACATAGTAGCCTACACATAGTACTACACATGCAACCATACTATCCGATACACGTAGTAGC
CTGCACATAGCACTACACACGTGATCCAAACTATCC
Found at i:35812604 original size:15 final size:16
Alignment explanation
Indices: 35812584--35812617 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
35812574 AAATTAAATT
35812584 AATTAA-CTAAATGCA
1 AATTAACCTAAATGCA
35812599 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
35812615 AAT
1 AAT
35812618 GAGTTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:35818616 original size:12 final size:12
Alignment explanation
Indices: 35818601--35818632 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
35818591 CTTTTTTCTT
35818601 GAGATTTTAACA
1 GAGATTTTAACA
35818613 GAGATTTTAACA
1 GAGATTTTAACA
35818625 GAGATTTT
1 GAGATTTT
35818633 TCTCTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (12 bp):
GAGATTTTAACA
Found at i:35820443 original size:23 final size:23
Alignment explanation
Indices: 35820413--35820459 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
35820403 ACCTTTTCAA
*
35820413 AACCGTTAAGTTTAACTCGAGTG
1 AACCGTTAAGTCTAACTCGAGTG
35820436 AACCGTTAAGTCTAACTCGAGTG
1 AACCGTTAAGTCTAACTCGAGTG
35820459 A
1 A
35820460 CTCTTCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (23 bp):
AACCGTTAAGTCTAACTCGAGTG
Found at i:35824686 original size:17 final size:17
Alignment explanation
Indices: 35824646--35824687 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
35824636 TTTTAAGAAT
* *
35824646 TATGTTTTCTAAGAAGG
1 TATGTTTTCTAAAAAGA
*
35824663 TAAGTTTTCTAAAAAGA
1 TATGTTTTCTAAAAAGA
35824680 TATGTTTT
1 TATGTTTT
35824688 AAAGCTATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (17 bp):
TATGTTTTCTAAAAAGA
Found at i:35824874 original size:42 final size:42
Alignment explanation
Indices: 35824815--35825024 Score: 253
Period size: 42 Copynumber: 5.0 Consensus size: 42
35824805 AAATGATTTT
*
35824815 ACAAGTTGTGTATTAGCGAAGCTCTCTACGTGAGCTTAAGTG
1 ACAAGTTGTGTATTAGCGAAGCTCCCTACGTGAGCTTAAGTG
*
35824857 ACAAGTTGTGTATTAGCGAAG-TTCCTCACGTGAGCTTAAGTG
1 ACAAGTTGTGTATTAGCGAAGCTCCCT-ACGTGAGCTTAAGTG
* * *
35824899 ACAAGTTGTGCATCAGCGAAGCTCCCCT-CGTGAGCTTAAATG
1 ACAAGTTGTGTATTAGCGAAGCT-CCCTACGTGAGCTTAAGTG
* * * **
35824941 ACAAGTTGTGTATTAGTGAAGCTCCCCATGCAAGCTTAAGTG
1 ACAAGTTGTGTATTAGCGAAGCTCCCTACGTGAGCTTAAGTG
* * * * *
35824983 ACAAGCTGTGTATCAGCAAAGCTCCCCATGTGAGCTTAAGTG
1 ACAAGTTGTGTATTAGCGAAGCTCCCTACGTGAGCTTAAGTG
35825025 TTTGCGCTTC
Statistics
Matches: 144, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
41 6 0.04
42 134 0.93
43 1 0.01
44 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
ACAAGTTGTGTATTAGCGAAGCTCCCTACGTGAGCTTAAGTG
Found at i:35830496 original size:13 final size:13
Alignment explanation
Indices: 35830474--35830504 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
35830464 AAACCCTATA
35830474 TAATTCTCATAAT
1 TAATTCTCATAAT
*
35830487 TAATTTTCATAAT
1 TAATTCTCATAAT
35830500 TAATT
1 TAATT
35830505 AAAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATTCTCATAAT
Found at i:35835883 original size:43 final size:43
Alignment explanation
Indices: 35835821--35836102 Score: 268
Period size: 43 Copynumber: 6.8 Consensus size: 43
35835811 TTTTAAAAAT
* * *
35835821 AAACGCCGCTAAA-AGTCATGACCTTTAGCGGCGCTTATCCCAT
1 AAACGCCGCTAAAGA-TCATGACCTTTAGCGGCGCTTCTACCAC
* *
35835864 AAACGCCGCTATAGATCATGATCTTTAGCGGCGCTTCT-CTCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTAC-CAC
* * * *
35835907 AAACGCCGCTAAAGAACAAGACCGTTAGCGGCGCTTCTACTAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCAC
* * *
35835950 AAACGCCGGTAAAGATCATGACCTTTAGCGGCGCTTCAACAAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCAC
* * * * *
35835993 AAACGCCGCTAAAAATCATAACCTTTAGCAGCGCTTCTACTAT
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCAC
* *
35836036 AAACG-C-C----G--C---ACCTTTAG-GGCGCTTTTATCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCAC
*
35836067 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTT
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTT
35836103 TTTGACAAAC
Statistics
Matches: 195, Mismatches: 29, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
31 14 0.07
32 9 0.05
33 1 0.01
35 1 0.01
37 1 0.01
39 1 0.01
41 1 0.01
42 10 0.05
43 155 0.79
44 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCAC
Found at i:35836111 original size:42 final size:41
Alignment explanation
Indices: 35836045--35836129 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 41
35836035 TAAACGCCGC
35836045 ACCTTTAGGGCGCTTTTATCACAAACGCCGCTAAAGAACATG
1 ACCTTTAGGGCGCTTTTATCACAAACGCCGCTAAA-AACATG
* *
35836087 ACCTTTAGCGGCGCTTTT-TGACAAACGCTGCTAAAAACATG
1 ACCTTTAG-GGCGCTTTTATCACAAACGCCGCTAAAAACATG
35836128 AC
1 AC
35836130 TTTTTTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
41 8 0.20
42 23 0.57
43 9 0.22
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (41 bp):
ACCTTTAGGGCGCTTTTATCACAAACGCCGCTAAAAACATG
Found at i:35840816 original size:13 final size:13
Alignment explanation
Indices: 35840798--35840827 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
35840788 CCTATTCCTA
35840798 GTTTGAGCATTGT
1 GTTTGAGCATTGT
35840811 GTTTGAGCATTGT
1 GTTTGAGCATTGT
35840824 GTTT
1 GTTT
35840828 AAAGGCATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.07, G:0.30, T:0.50
Consensus pattern (13 bp):
GTTTGAGCATTGT
Found at i:35843197 original size:21 final size:21
Alignment explanation
Indices: 35843136--35843200 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
35843126 GTATGTTTGT
35843136 AAAGTTGGGGATTTCAAGGGGGG
1 AAAGTTGGGGATTTC--GGGGGG
* *
35843159 -AA-TTAGGGATTTTAGGGGGG
1 AAAGTTGGGGA-TTTCGGGGGG
35843179 AAAGTTGGGGATTTCGGGGGG
1 AAAGTTGGGGATTTCGGGGGG
35843200 A
1 A
35843201 GAGGATTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 6 0.17
21 18 0.51
22 11 0.31
ACGTcount: A:0.25, C:0.03, G:0.48, T:0.25
Consensus pattern (21 bp):
AAAGTTGGGGATTTCGGGGGG
Found at i:35844456 original size:111 final size:105
Alignment explanation
Indices: 35844328--35844631 Score: 349
Period size: 96 Copynumber: 2.9 Consensus size: 105
35844318 TATATAAGAA
* * *
35844328 CTTATTTAATATATAAATTAAAAAATACCAATTAATCTAAACCTTAAACCCTAACCTGACCCTGA
1 CTTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAACCTGACCCTAA
35844393 ATCTCTAAACCCTAAATCACTAACTCTTAACCCCAAACCCTTAAAC
66 ATCTCTAAACCCTAAATC-CTAACTCTTAA-CCC---CCC-TAAAC
* * *
35844439 CTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACCCGACCCCAA
1 CTTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAACCTGACCCTAA
* *
35844504 ATCTCT-AA-CC-----CCTAGCCCTTAA--CCCCTAAAC
66 ATCTCTAAACCCTAAATCCTAACTCTTAACCCCCCTAAAC
* * * * *
35844535 ATTATTTAATATATAAATTAAAACATGCTAATTAATCTAAACCCTAAACCCTAACCTAACACTAA
1 CTTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAACCTGACCCTAA
35844600 ATC-CATAAACCCTAAATCCCTAACTCTTAACC
66 ATCTC-TAAACCCTAAAT-CCTAACTCTTAACC
35844632 TCTAACCCCT
Statistics
Matches: 164, Mismatches: 18, Indels: 27
0.78 0.09 0.13
Matches are distributed among these distances:
95 1 0.01
96 66 0.40
97 5 0.03
98 2 0.01
100 1 0.01
103 9 0.05
104 11 0.07
109 2 0.01
110 2 0.01
111 65 0.40
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (105 bp):
CTTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAACCTGACCCTAA
ATCTCTAAACCCTAAATCCTAACTCTTAACCCCCCTAAAC
Found at i:35844583 original size:7 final size:7
Alignment explanation
Indices: 35844571--35844672 Score: 54
Period size: 7 Copynumber: 14.7 Consensus size: 7
35844561 GCTAATTAAT
35844571 CTAAACC
1 CTAAACC
35844578 CTAAACC
1 CTAAACC
35844585 CT-AA-C
1 CTAAACC
*
35844590 CT-AACA
1 CTAAACC
35844596 CTAAATCC
1 CTAAA-CC
*
35844604 ATAAACC
1 CTAAACC
35844611 CTAAATCC
1 CTAAA-CC
*
35844619 CT-AACT
1 CTAAACC
*
35844625 CTTAACC
1 CTAAACC
*
35844632 TCTAACCC
1 -CTAAACC
35844640 CT-AACC
1 CTAAACC
*
35844646 TCTAACCC
1 -CTAAACC
35844654 CT-AACC
1 CTAAACC
35844660 CATAAACC
1 C-TAAACC
*
35844668 TTAAA
1 CTAAA
35844673 TCAGAATCCC
Statistics
Matches: 73, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
5 5 0.07
6 14 0.19
7 33 0.45
8 21 0.29
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:35844696 original size:14 final size:15
Alignment explanation
Indices: 35844677--35844709 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
35844667 CTTAAATCAG
35844677 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
35844691 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
35844706 AATC
1 AATC
35844710 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:35844957 original size:26 final size:24
Alignment explanation
Indices: 35844915--35844962 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
35844905 ACATGCTAAT
*
35844915 TAATCTAAACCCTAAACCCTAACC
1 TAATCTAAACCATAAACCCTAACC
35844939 TAATACTAAATCCATAAACCCTAA
1 TAAT-CTAAA-CCATAAACCCTAA
35844963 ATCCCTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 5 0.24
26 12 0.57
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (24 bp):
TAATCTAAACCATAAACCCTAACC
Found at i:35844961 original size:96 final size:96
Alignment explanation
Indices: 35844776--35844962 Score: 268
Period size: 96 Copynumber: 1.9 Consensus size: 96
35844766 ATATACCCCA
* *
35844776 AACCCCTAAACCTTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCGTAA
1 AACCCCTAAACATTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAA
* * *
35844841 CCCGACCCCAAATCTCTAACCCCTAACCCTT
66 CCCAACACCAAATCTCTAAACCCTAACCCTT
* *
35844872 AACCCCTAAACATTATTTAATATATAAATTAAAACATGCTAATTAATCTAAACCCTAAACCCTAA
1 AACCCCTAAACATTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAA
* * *
35844937 CCTAATACTAAATC-CATAAACCCTAA
66 CCCAACACCAAATCTC-TAAACCCTAA
35844963 ATCCCTAACT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 79 0.99
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.27
Consensus pattern (96 bp):
AACCCCTAAACATTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAA
CCCAACACCAAATCTCTAAACCCTAACCCTT
Found at i:35844979 original size:21 final size:20
Alignment explanation
Indices: 35844955--35845014 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
35844945 TAAATCCATA
*
35844955 AACCCTAAATCCCTAA-CTCTT
1 AACCCT-AACCCCTAACCTC-T
35844976 AACCTCTAACCCCTAACCTCT
1 AACC-CTAACCCCTAACCTCT
*
35844997 AACCCCTAACCCATAACC
1 AA-CCCTAACCCCTAACC
35845015 CTTAAATCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 27 0.79
22 7 0.21
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.22
Consensus pattern (20 bp):
AACCCTAACCCCTAACCTCT
Found at i:35845006 original size:7 final size:7
Alignment explanation
Indices: 35844965--35845015 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
35844955 AACCCTAAAT
35844965 CCCTAAC
1 CCCTAAC
* *
35844972 TCTTAAC
1 CCCTAAC
*
35844979 CTCTAAC
1 CCCTAAC
35844986 CCCTAAC
1 CCCTAAC
*
35844993 CTCTAAC
1 CCCTAAC
35845000 CCCTAAC
1 CCCTAAC
*
35845007 CCATAAC
1 CCCTAAC
35845014 CC
1 CC
35845016 TTAAATCACA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.29, C:0.49, G:0.00, T:0.22
Consensus pattern (7 bp):
CCCTAAC
Found at i:35845015 original size:14 final size:14
Alignment explanation
Indices: 35844975--35845007 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
35844965 CCCTAACTCT
35844975 TAACCTCTAACCCC
1 TAACCTCTAACCCC
35844989 TAACCTCTAACCCC
1 TAACCTCTAACCCC
35845003 TAACC
1 TAACC
35845008 CATAACCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.30, C:0.48, G:0.00, T:0.21
Consensus pattern (14 bp):
TAACCTCTAACCCC
Found at i:35845028 original size:14 final size:14
Alignment explanation
Indices: 35845011--35845037 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35845001 CCTAACCCAT
35845011 AACCCTTAAATCAC
1 AACCCTTAAATCAC
35845025 AACCCTTAAATCA
1 AACCCTTAAATCA
35845038 GAATCCCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (14 bp):
AACCCTTAAATCAC
Found at i:35845056 original size:14 final size:15
Alignment explanation
Indices: 35845039--35845071 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
35845029 CTTAAATCAG
35845039 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
*
35845053 AATCGCTAATTCCAT
1 AATCCCTAATTCCAT
35845068 AATC
1 AATC
35845072 TATAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.36, C:0.30, G:0.03, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:35845145 original size:20 final size:21
Alignment explanation
Indices: 35845120--35845163 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
35845110 ATCCTAAATT
*
35845120 AACCATATATA-TATACCCTA
1 AACCATATATATTAAACCCTA
35845140 AACCATATATATTAAACCCTA
1 AACCATATATATTAAACCCTA
35845161 AAC
1 AAC
35845164 TATAATGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (21 bp):
AACCATATATATTAAACCCTA
Found at i:35845546 original size:41 final size:41
Alignment explanation
Indices: 35845478--35845715 Score: 273
Period size: 41 Copynumber: 5.9 Consensus size: 41
35845468 AAATGCTTTT
* * *
35845478 GCGGCGCTT-TTCAAAAACACCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTCTTGAAAAACGCCGTTAAAGCCCCGAGCATTA
* * *
35845518 GCGACGCTTCTTGGAAAATGCCGTTAAAGCCCCGAGCATTA
1 GCGGCGCTTCTTGAAAAACGCCGTTAAAGCCCCGAGCATTA
* * *
35845559 GCGGCGCTTCTTTAAAAACGCCGTTAAAGACCCGAACATTA
1 GCGGCGCTTCTTGAAAAACGCCGTTAAAGCCCCGAGCATTA
*
35845600 GCGGCGCTTCTTGAAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTCTTGAAAAACGCCGTTAAAGCCCCGAGCATTA
* * * * * *
35845641 GCGGTGCTTTTTCAAAAACGCCGCTAAAGCCTCAAGCATTA
1 GCGGCGCTTCTTGAAAAACGCCGTTAAAGCCCCGAGCATTA
* * * * *
35845682 CCGGCGCTT-TTTAAAAACACCGCTAAAGTCCCGA
1 GCGGCGCTTCTTGAAAAACGCCGTTAAAGCCCCGA
35845716 AAGGTAGAAA
Statistics
Matches: 169, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
40 28 0.17
41 141 0.83
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTCTTGAAAAACGCCGTTAAAGCCCCGAGCATTA
Found at i:35851012 original size:21 final size:20
Alignment explanation
Indices: 35850974--35851014 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35850964 AAATATTTTT
*
35850974 TATTTTTTTTATTTTTAAAA
1 TATTTTTTGTATTTTTAAAA
*
35850994 TATTTTTTGTGTTTATTAAAA
1 TATTTTTTGTATTT-TTAAAA
35851015 ATCGGGCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TATTTTTTGTATTTTTAAAA
Found at i:35854931 original size:23 final size:24
Alignment explanation
Indices: 35854905--35854949 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
35854895 ATATCCTCAC
*
35854905 ATGGTGTGTAG-GGTTGGATGGAG
1 ATGGTGTGTAGAGGCTGGATGGAG
35854928 ATGGTGTGTAGAGGCTGGATGG
1 ATGGTGTGTAGAGGCTGGATGG
35854950 GTAGGATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.18, C:0.02, G:0.51, T:0.29
Consensus pattern (24 bp):
ATGGTGTGTAGAGGCTGGATGGAG
Found at i:35855491 original size:18 final size:18
Alignment explanation
Indices: 35855465--35855502 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
35855455 AAAAATAAAA
*
35855465 AACGTTTTG-AAATTGAAT
1 AACGATTTGTAAA-TGAAT
35855483 AACGATTTGTAAATGAAT
1 AACGATTTGTAAATGAAT
35855501 AA
1 AA
35855503 TATTTTGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (18 bp):
AACGATTTGTAAATGAAT
Found at i:35857342 original size:26 final size:25
Alignment explanation
Indices: 35857306--35857384 Score: 104
Period size: 26 Copynumber: 3.1 Consensus size: 25
35857296 GTTTATCTGC
*
35857306 AAGATAAATATTATATTATTTTAAT
1 AAGATAAATATTATATTAATTTAAT
* * *
35857331 AAGATTTAATATTAAATTTAATCTAAT
1 AAGA-TAAATATTATA-TTAATTTAAT
35857358 AAGATAAATATTATATTAATTTAAT
1 AAGATAAATATTATATTAATTTAAT
35857383 AA
1 AA
35857385 TAAAGTGATT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
25 15 0.33
26 18 0.40
27 12 0.27
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (25 bp):
AAGATAAATATTATATTAATTTAAT
Found at i:35857549 original size:16 final size:16
Alignment explanation
Indices: 35857528--35857560 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
35857518 TTCGCTGTAT
*
35857528 TGGAATAGAGGCGTAA
1 TGGAATAAAGGCGTAA
35857544 TGGAATAAAGGCGTAA
1 TGGAATAAAGGCGTAA
35857560 T
1 T
35857561 AGCAATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAAAGGCGTAA
Found at i:35857604 original size:45 final size:44
Alignment explanation
Indices: 35857540--35857636 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
35857530 GAATAGAGGC
35857540 GTAATGGAATAAAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAAAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* * *
35857585 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAAAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
35857629 GGAATGGA
1 GTAATGGA
35857637 GGTGTAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.51
45 22 0.47
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAAAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:35862266 original size:7 final size:7
Alignment explanation
Indices: 35862254--35862297 Score: 79
Period size: 7 Copynumber: 6.3 Consensus size: 7
35862244 CAATACCATC
35862254 GATATGT
1 GATATGT
35862261 GATATGT
1 GATATGT
*
35862268 AATATGT
1 GATATGT
35862275 GATATGT
1 GATATGT
35862282 GATATGT
1 GATATGT
35862289 GATATGT
1 GATATGT
35862296 GA
1 GA
35862298 GATGAGATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.41
Consensus pattern (7 bp):
GATATGT
Done.