Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 320 of 438
Found at i:100158931 original size:27 final size:27
Alignment explanation
Indices: 100158883--100159041 Score: 155
Period size: 27 Copynumber: 5.9 Consensus size: 27
100158873 GCGAGGCTGC
* * *
100158883 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGATA
*
100158910 CATATATTGTGGCAAAGCCACCAGA-A
1 CAGATATTGTGGCAAAGCCACCAGATA
* *
100158936 CAGATATATATGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAAAGCCACCAGATA
* *
100158963 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAAAGCCACCAGATA
*
100158990 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAAAGCCACCAGATA
* *
100159017 CAGATAATTGTGGCATAGGCACCAG
1 CAGAT-ATTGTGGCAAAGCCACCAG
100159042 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
26 9 0.08
27 98 0.88
28 4 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGATA
Found at i:100158976 original size:54 final size:54
Alignment explanation
Indices: 100158901--100159041 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
100158891 GTGACGAAGT
* *
100158901 CACCAGAT-ACATATATTGTGGCAAAGCCACCAGAACAGATATATATGGCAGAGC
1 CACCAGATCAGATA-ATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
* *
100158955 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
*
100159009 CACCAGATCAGATAATTGTGGCATAGGCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
100159042 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 76 0.95
55 4 0.05
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
Found at i:100159174 original size:26 final size:27
Alignment explanation
Indices: 100159145--100159220 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
100159135 CAAAATTAAC
* *
100159145 CCTAGGGGTATAATGGTAATTTTGC-A
1 CCTAGGGGTATAATAGTAATTTTCCAA
* *
100159171 CCTAGGAGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTTCCA-A
* *
100159199 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
100159221 AGCTACTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 21 0.52
28 19 0.47
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCAA
Found at i:100160690 original size:26 final size:26
Alignment explanation
Indices: 100160652--100160707 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
100160642 TGAAATGTCA
100160652 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
100160678 ATCATGGACCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
100160704 ATCA
1 ATCA
100160708 CTTTGTACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:100166264 original size:30 final size:30
Alignment explanation
Indices: 100166228--100166387 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
100166218 GACAAGATTG
* * * * *
100166228 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
100166258 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
100166286 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
100166315 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
100166345 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
100166374 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
100166388 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:100166355 original size:59 final size:57
Alignment explanation
Indices: 100166228--100166387 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
100166218 GACAAGATTG
* * * * * *
100166228 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
100166286 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
100166345 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
100166388 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:100174184 original size:30 final size:30
Alignment explanation
Indices: 100174148--100174307 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
100174138 GACAAGATTG
* * * * *
100174148 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
100174178 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
100174206 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
100174235 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
100174265 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
100174294 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
100174308 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:100174275 original size:59 final size:57
Alignment explanation
Indices: 100174148--100174307 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
100174138 GACAAGATTG
* * * * * *
100174148 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
100174206 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
100174265 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
100174308 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:100179177 original size:3 final size:3
Alignment explanation
Indices: 100179169--100179224 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
100179159 TCGAACGTCC
100179169 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
100179217 ATT ATT AT
1 ATT ATT AT
100179225 AAATAAAATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:100188617 original size:24 final size:24
Alignment explanation
Indices: 100188589--100188636 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
100188579 TTCCTGATAT
100188589 ATGGCTATCTGGAGCTTCCCGTTA
1 ATGGCTATCTGGAGCTTCCCGTTA
* * *
100188613 ATGGCTCTTTGGAGCTTCCTGTTA
1 ATGGCTATCTGGAGCTTCCCGTTA
100188637 TACAGCCTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.38
Consensus pattern (24 bp):
ATGGCTATCTGGAGCTTCCCGTTA
Found at i:100192594 original size:24 final size:24
Alignment explanation
Indices: 100192539--100192595 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
100192529 TTAGATCGTA
*
100192539 TTTAGATAGATATGTGGTGATATTT
1 TTTAGAT-GATATCTGGTGATATTT
*
100192564 ATT-GATGATATTCTGGT-ATATTT
1 TTTAGATGATA-TCTGGTGATATTT
100192587 TTTAGATGA
1 TTTAGATGA
100192596 AACCGAGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 12 0.44
24 13 0.48
25 2 0.07
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (24 bp):
TTTAGATGATATCTGGTGATATTT
Found at i:100194165 original size:9 final size:9
Alignment explanation
Indices: 100194147--100194182 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
100194137 TTCTGGTTAG
*
100194147 TGTTTAAAT
1 TGTTTTAAT
100194156 TGTTTTAAT
1 TGTTTTAAT
*
100194165 TTTTTTAAT
1 TGTTTTAAT
100194174 TGTTTTAAT
1 TGTTTTAAT
100194183 GGTGGGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (9 bp):
TGTTTTAAT
Found at i:100197326 original size:17 final size:17
Alignment explanation
Indices: 100197304--100197337 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
100197294 CATGAGTTAA
100197304 AAAATAATTGAATCCAT
1 AAAATAATTGAATCCAT
100197321 AAAATAATTGAATCCAT
1 AAAATAATTGAATCCAT
100197338 TTTGTGTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAATAATTGAATCCAT
Found at i:100205566 original size:2 final size:2
Alignment explanation
Indices: 100205559--100205599 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
100205549 TGATACATAC
100205559 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
100205600 CACACATATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:100206784 original size:30 final size:30
Alignment explanation
Indices: 100206748--100206807 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
100206738 CGCTCAAATT
* *
100206748 ATTATCTTCATCAGTTGTATATATTAATAA
1 ATTATCTCCATAAGTTGTATATATTAATAA
100206778 ATTATCTCCATAAGTTGTATATATTAATAA
1 ATTATCTCCATAAGTTGTATATATTAATAA
100206808 TGTTGTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (30 bp):
ATTATCTCCATAAGTTGTATATATTAATAA
Found at i:100208034 original size:49 final size:49
Alignment explanation
Indices: 100207979--100208078 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
100207969 ATGTGTATTT
*
100207979 ATAATTTTTAGTACATTAATAAATGTTATATATAAGTAAATATATCTCA
1 ATAATTTTTAGTACATTAATAAATGTTATATACAAGTAAATATATCTCA
*
100208028 ATAATTTTTAGTATATTAATAAATGTTATATACAAGTAAATATATCTCA
1 ATAATTTTTAGTACATTAATAAATGTTATATACAAGTAAATATATCTCA
100208077 AT
1 AT
100208079 TATAATATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (49 bp):
ATAATTTTTAGTACATTAATAAATGTTATATACAAGTAAATATATCTCA
Found at i:100208260 original size:29 final size:29
Alignment explanation
Indices: 100208168--100208261 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
100208158 ATGTATTGTT
* *
100208168 TGATACTTGTACTTTCATAAAATGTCTAATG
1 TGATACTTATACTTT--GAAAATGTCTAATG
* * * *
100208199 TGGTAAC-TATACTTTGAAAATATCCAATA
1 TGAT-ACTTATACTTTGAAAATGTCTAATG
*
100208228 TGATACTTATACTTTGAAAATGTTTAATG
1 TGATACTTATACTTTGAAAATGTCTAATG
100208257 TGATA
1 TGATA
100208262 GTTGAACTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
28 2 0.04
29 36 0.72
31 10 0.20
32 2 0.04
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (29 bp):
TGATACTTATACTTTGAAAATGTCTAATG
Found at i:100209294 original size:32 final size:32
Alignment explanation
Indices: 100209258--100209323 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
100209248 ACAACATGTT
100209258 TTTGATGTATGAGGTTCATTTCTGATGTCAAA
1 TTTGATGTATGAGGTTCATTTCTGATGTCAAA
100209290 TTTGATGTATGAGGTTCATTTCTGATGTCAAA
1 TTTGATGTATGAGGTTCATTTCTGATGTCAAA
100209322 TT
1 TT
100209324 GGTGACAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.45
Consensus pattern (32 bp):
TTTGATGTATGAGGTTCATTTCTGATGTCAAA
Found at i:100214275 original size:78 final size:78
Alignment explanation
Indices: 100214146--100214301 Score: 278
Period size: 78 Copynumber: 2.0 Consensus size: 78
100214136 TTTTAGCTCT
*
100214146 GAAGAGTCAGTAAATATTTTTCGAAGTGTCACTTCATAGAGCTTTTATACTGTTTACATGGTGTC
1 GAAGAATCAGTAAATATTTTTCGAAGTGTCACTTCATAGAGCTTTTATACTGTTTACATGGTGTC
100214211 ACT-CGTAAGAGCC
66 ACTCCG-AAGAGCC
*
100214224 GAAGAATCAGTAAATATTTTTCGAGGTGTCACTTCATAGAGCTTTTATACTGTTTACATGGTGTC
1 GAAGAATCAGTAAATATTTTTCGAAGTGTCACTTCATAGAGCTTTTATACTGTTTACATGGTGTC
100214289 ACTCCGAAGAGCC
66 ACTCCGAAGAGCC
100214302 TATAGATCAT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
78 73 0.97
79 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (78 bp):
GAAGAATCAGTAAATATTTTTCGAAGTGTCACTTCATAGAGCTTTTATACTGTTTACATGGTGTC
ACTCCGAAGAGCC
Found at i:100224596 original size:50 final size:50
Alignment explanation
Indices: 100224521--100224623 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
100224511 CCCTGGTCAC
100224521 TAGAACTAAAAGTCCAACACTCTACCAATAGGCAGCATGACCATTTACCT
1 TAGAACTAAAAGTCCAACACTCTACCAATAGGCAGCATGACCATTTACCT
* *
100224571 TAGAACTAAAAGTCCAACACTCTACCAATAGGCAGCATGACTATTTGCCT
1 TAGAACTAAAAGTCCAACACTCTACCAATAGGCAGCATGACCATTTACCT
100224621 TAG
1 TAG
100224624 GAGGAGATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (50 bp):
TAGAACTAAAAGTCCAACACTCTACCAATAGGCAGCATGACCATTTACCT
Found at i:100225291 original size:19 final size:18
Alignment explanation
Indices: 100225267--100225310 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
100225257 AATATGAATA
*
100225267 AAATTTATCTTCCTAAAT
1 AAATTTATCTACCTAAAT
100225285 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
100225304 AAATTTA
1 AAATTTA
100225311 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:100226023 original size:125 final size:125
Alignment explanation
Indices: 100225884--100226134 Score: 475
Period size: 125 Copynumber: 2.0 Consensus size: 125
100225874 TATCTTAGAA
* *
100225884 TTCGAAACACTGCTTCTTCATGTTCCTCTATTGGAGAGTGCATAAATTGACTCACTAAGCTCACT
1 TTCGAAACACTGCTTCTTCATATTCCTCCATTGGAGAGTGCATAAATTGACTCACTAAGCTCACT
100225949 GCAAAAGCTATGTCTGGCATTGTATGTGATAAGTAAATTAACTTACCAACTAATCTTTGG
66 GCAAAAGCTATGTCTGGCATTGTATGTGATAAGTAAATTAACTTACCAACTAATCTTTGG
100226009 TTCGAAACACTGCTTCTTCATATTCCTCCATTGGAGAGTGCATAAATTGACTCACTAAGCTCACT
1 TTCGAAACACTGCTTCTTCATATTCCTCCATTGGAGAGTGCATAAATTGACTCACTAAGCTCACT
*
100226074 GCAAAAGCTATGTTTGGCATTGTATGTGATAAGTAAATTAACTTACCAACTAATCTTTGG
66 GCAAAAGCTATGTCTGGCATTGTATGTGATAAGTAAATTAACTTACCAACTAATCTTTGG
100226134 T
1 T
100226135 ACTGCCCTTT
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 123 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (125 bp):
TTCGAAACACTGCTTCTTCATATTCCTCCATTGGAGAGTGCATAAATTGACTCACTAAGCTCACT
GCAAAAGCTATGTCTGGCATTGTATGTGATAAGTAAATTAACTTACCAACTAATCTTTGG
Found at i:100228356 original size:33 final size:33
Alignment explanation
Indices: 100228319--100228409 Score: 164
Period size: 33 Copynumber: 2.8 Consensus size: 33
100228309 CTCTGTTTCA
100228319 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
100228352 GGTTGCTGGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
100228385 GGTTGCTGGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
100228410 CAAGAAGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.18, C:0.10, G:0.43, T:0.30
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:100231685 original size:33 final size:33
Alignment explanation
Indices: 100231640--100231706 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
100231630 CATAGCCAAC
100231640 AAAGACACATTTTGTTGCTCTAGGATCTAGTTT
1 AAAGACACATTTTGTTGCTCTAGGATCTAGTTT
*
100231673 AAAGACATATTTTGTTGCTCTAGGATCTAGTTT
1 AAAGACACATTTTGTTGCTCTAGGATCTAGTTT
100231706 A
1 A
100231707 CCCTGGTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.40
Consensus pattern (33 bp):
AAAGACACATTTTGTTGCTCTAGGATCTAGTTT
Found at i:100233450 original size:42 final size:42
Alignment explanation
Indices: 100233391--100233474 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
100233381 AATCCTAAAT
100233391 GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
1 GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
* * *
100233433 GGGAAAATAGTTTCCTTATTCTAATAAACTATTAAAAGATAA
1 GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
100233475 AATAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (42 bp):
GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
Found at i:100237628 original size:13 final size:13
Alignment explanation
Indices: 100237610--100237647 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
100237600 AAGCACAGCA
100237610 AATCTGTTGATGC
1 AATCTGTTGATGC
*
100237623 AATCTGTAGATG-
1 AATCTGTTGATGC
*
100237635 AAGCTGTTGATGC
1 AATCTGTTGATGC
100237648 GGCATCTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (13 bp):
AATCTGTTGATGC
Found at i:100250332 original size:40 final size:40
Alignment explanation
Indices: 100250254--100250434 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
100250244 ACCCAAGTAT
* *
100250254 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
100250293 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
**
100250333 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
100250373 CTTCGGGACTTAGCCTGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
100250413 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
100250435 CATCCGAATA
Statistics
Matches: 128, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 11 0.09
40 116 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:100255435 original size:20 final size:20
Alignment explanation
Indices: 100255409--100255461 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
100255399 ATAGGGGTCA
100255409 CACGCCCGTGTGGTTTGGGG
1 CACGCCCGTGTGGTTTGGGG
*
100255429 TACGCCCGTGTGGTTTGGGG
1 CACGCCCGTGTGGTTTGGGG
100255449 CACGCCCGTGTGG
1 CACGCCCGTGTGG
100255462 GCAAGCTGCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.06, C:0.26, G:0.43, T:0.25
Consensus pattern (20 bp):
CACGCCCGTGTGGTTTGGGG
Found at i:100257485 original size:21 final size:22
Alignment explanation
Indices: 100257456--100257496 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
100257446 TGTAAATGTT
100257456 ATTTATCTAACAATAAACATGC
1 ATTTATCTAACAATAAACATGC
* *
100257478 ATTT-TCTACCATTAAACAT
1 ATTTATCTAACAATAAACAT
100257497 CAAAATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (22 bp):
ATTTATCTAACAATAAACATGC
Found at i:100261526 original size:149 final size:151
Alignment explanation
Indices: 100261306--100261630 Score: 379
Period size: 149 Copynumber: 2.2 Consensus size: 151
100261296 CTTCGTTAGT
* * *** ** * * *
100261306 TTATCCAACTAGCACTGGGCACAAATCTTTGTCAATTTACCTTACTAGTATTGGGCATATCATTA
1 TTATCCAACTAGCGCTGGGCGCAAATCTTCACCGGTTTATCTGACTAGTATTGGGCACATCATTA
* * * * * *
100261371 TCTTCGT-TGATTTATCTGGCTAGCGTTGGGCACAAATCTTCGTCAGTTTAACTGACTAGAGCTG
66 TATTCGTCGGA-TTATCTGACTAGCGCTGGGCACAAATCTTCGTCAGTTTAACTAACTAGAGCTA
*
100261435 GGCAC-A-TTATTATATCTGTCA
130 GGCACAACCT-TTATATCTGTCA
* * *
100261456 -TATCCAACTAGCGCTGGGTGCAAATCTTCACCGGTTTATCTGACTAGTGTTGGGCACATCATTT
1 TTATCCAACTAGCGCTGGGCGCAAATCTTCACCGGTTTATCTGACTAGTATTGGGCACATCATTA
* * *
100261520 TATTCGTCGGATTATCTGACTAGCGCTGGGCCCAAATCTTCGTTAGTTTAACTAACTAGTGCTAG
66 TATTCGTCGGATTATCTGACTAGCGCTGGGCACAAATCTTCGTCAGTTTAACTAACTAGAGCTAG
*
100261585 GCACAACCTTTATATTTGTCA
131 GCACAACCTTTATATCTGTCA
*
100261606 TTATCCGACTAGCGCTGGGCGCAAA
1 TTATCCAACTAGCGCTGGGCGCAAA
100261631 ACTTATTTAT
Statistics
Matches: 145, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
149 108 0.74
150 14 0.10
151 23 0.16
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (151 bp):
TTATCCAACTAGCGCTGGGCGCAAATCTTCACCGGTTTATCTGACTAGTATTGGGCACATCATTA
TATTCGTCGGATTATCTGACTAGCGCTGGGCACAAATCTTCGTCAGTTTAACTAACTAGAGCTAG
GCACAACCTTTATATCTGTCA
Found at i:100261580 original size:76 final size:75
Alignment explanation
Indices: 100261250--100261630 Score: 320
Period size: 76 Copynumber: 5.1 Consensus size: 75
100261240 TTCTTGGTGA
* * ** * * * *
100261250 ACAAATCTTCATCAATTTATGTGACTAGTGCTGGGCACATCATTATCTTCGTTAGTTTATCCAAC
1 ACAAATCTTCGTCAGTTTAACTGACTAGTGCTGGGCACATCATTATATTCG-TCGATTATCCGAC
*
100261315 TAGCACTGGGC
65 TAGCGCTGGGC
* * * * ** * * * * *
100261326 ACAAATCTTTGTCAATTTACCTTACTAGTATTGGGCATATCATTATCTTCGTTGATTTATCTGGC
1 ACAAATCTTCGTCAGTTTAACTGACTAGTGCTGGGCACATCATTATATTCGTCGA-TTATCCGAC
*
100261391 TAGCGTTGGGC
65 TAGCGCTGGGC
* * *
100261402 ACAAATCTTCGTCAGTTTAACTGACTAGAGCTGGGCACATTATTATA-TCTGTC-A-TATCCAAC
1 ACAAATCTTCGTCAGTTTAACTGACTAGTGCTGGGCACATCATTATATTC-GTCGATTATCCGAC
*
100261464 TAGCGCTGGGT
65 TAGCGCTGGGC
* ** * * * * *
100261475 GCAAATCTTCACCGGTTTATCTGACTAGTGTTGGGCACATCATTTTATTCGTCGGATTATCTGAC
1 ACAAATCTTCGTCAGTTTAACTGACTAGTGCTGGGCACATCATTATATTCGTC-GATTATCCGAC
100261540 TAGCGCTGGGC
65 TAGCGCTGGGC
* * * * * * *
100261551 CCAAATCTTCGTTAGTTTAACTAACTAGTGCTAGGCACAACCTTTATATTTGTC-ATTATCCGAC
1 ACAAATCTTCGTCAGTTTAACTGACTAGTGCTGGGCAC-ATCATTATATTCGTCGATTATCCGAC
100261615 TAGCGCTGGGC
65 TAGCGCTGGGC
*
100261626 GCAAA
1 ACAAA
100261631 ACTTATTTAT
Statistics
Matches: 240, Mismatches: 58, Indels: 15
0.77 0.19 0.05
Matches are distributed among these distances:
73 55 0.23
74 2 0.01
75 30 0.12
76 142 0.59
77 11 0.05
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (75 bp):
ACAAATCTTCGTCAGTTTAACTGACTAGTGCTGGGCACATCATTATATTCGTCGATTATCCGACT
AGCGCTGGGC
Found at i:100264821 original size:17 final size:17
Alignment explanation
Indices: 100264796--100264828 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
100264786 TATTTTTTAT
100264796 TTAAATATAATTATTAA
1 TTAAATATAATTATTAA
*
100264813 TTAATTATAATTATTA
1 TTAAATATAATTATTA
100264829 TAAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATATAATTATTAA
Found at i:100264842 original size:20 final size:20
Alignment explanation
Indices: 100264805--100264847 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
100264795 TTTAAATATA
* * * *
100264805 ATTATTAATTAATTATAATT
1 ATTATAAATAAATAATAACT
100264825 ATTATAAATAAATAATAACT
1 ATTATAAATAAATAATAACT
100264845 ATT
1 ATT
100264848 GGAATTAGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTATAAATAAATAATAACT
Found at i:100264931 original size:10 final size:10
Alignment explanation
Indices: 100264913--100264950 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
100264903 AGAGTTTTAG
100264913 TATTTAATTA
1 TATTTAATTA
*
100264923 TAATTAATTA
1 TATTTAATTA
100264933 TTATTTAATTA
1 -TATTTAATTA
100264944 TATTTAA
1 TATTTAA
100264951 ATAAAGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TATTTAATTA
Found at i:100265140 original size:7 final size:8
Alignment explanation
Indices: 100265117--100265141 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
100265107 TATAATGAAG
100265117 TTAATTTT
1 TTAATTTT
100265125 TTAATTTT
1 TTAATTTT
100265133 TTAATTTT
1 TTAATTTT
100265141 T
1 T
100265142 CCAAAGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTAATTTT
Found at i:100265981 original size:26 final size:25
Alignment explanation
Indices: 100265943--100265991 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
100265933 AATTCTTTTA
*
100265943 TAAATTTTTAAAAAA-AATATAATTT
1 TAAA-TTTTAAAAAATAAAATAATTT
100265968 TAAATTTTAAAAAAATAAAATAAT
1 TAAATTTT-AAAAAATAAAATAAT
100265992 ATATAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 10 0.48
26 7 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
TAAATTTTAAAAAATAAAATAATTT
Found at i:100266480 original size:13 final size:13
Alignment explanation
Indices: 100266458--100266487 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
100266448 TGTAGGTACT
100266458 AAAT-TAAGATAA
1 AAATATAAGATAA
100266470 AAATATAAGATAA
1 AAATATAAGATAA
100266483 AAATA
1 AAATA
100266488 AATTTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (13 bp):
AAATATAAGATAA
Found at i:100275881 original size:13 final size:14
Alignment explanation
Indices: 100275855--100275884 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
100275845 CTGAAAAATG
100275855 TATTAGAAAATATT
1 TATTAGAAAATATT
100275869 TATTA-AAAATATT
1 TATTAGAAAATATT
100275882 TAT
1 TAT
100275885 GAAGTTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
TATTAGAAAATATT
Found at i:100276430 original size:2 final size:2
Alignment explanation
Indices: 100276423--100276480 Score: 82
Period size: 2 Copynumber: 29.5 Consensus size: 2
100276413 AAATTATTAA
* * *
100276423 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AA AG AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100276464 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
100276481 AGAAAAGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:100276581 original size:2 final size:2
Alignment explanation
Indices: 100276574--100276623 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
100276564 TTATTGTCAT
100276574 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100276616 TA TA TA TA
1 TA TA TA TA
100276624 AGAAACAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:100277209 original size:51 final size:51
Alignment explanation
Indices: 100277133--100277240 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 51
100277123 AGAACTAAGT
* * * *
100277133 TATCCGGATGAAATATGAAGCTCTTGTTGAA-ACTAGAGCAATAAAGTAATA
1 TATCCGGATGAAATATAAAGCTCTTGATGAAGAC-AGAACAACAAAGTAATA
* *
100277184 TATCCGGATGAAATATAAAGTTCTTGATGAAGGCAGAACAACAAAGTAATA
1 TATCCGGATGAAATATAAAGCTCTTGATGAAGACAGAACAACAAAGTAATA
*
100277235 TTTCCG
1 TATCCG
100277241 AATAAAGTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
51 48 0.98
52 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (51 bp):
TATCCGGATGAAATATAAAGCTCTTGATGAAGACAGAACAACAAAGTAATA
Found at i:100277593 original size:15 final size:15
Alignment explanation
Indices: 100277571--100277617 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
100277561 ATCAAATTTT
100277571 TATTGATTGAAATCA
1 TATTGATTGAAATCA
* * *
100277586 TTTTGATTGAATTTA
1 TATTGATTGAAATCA
100277601 TATTGATTGAAAT-A
1 TATTGATTGAAATCA
100277615 TAT
1 TAT
100277618 ATATATATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (15 bp):
TATTGATTGAAATCA
Found at i:100277619 original size:2 final size:2
Alignment explanation
Indices: 100277612--100277649 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
100277602 ATTGATTGAA
100277612 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100277650 GATTTATGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100278295 original size:18 final size:19
Alignment explanation
Indices: 100278274--100278314 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
100278264 AATGAAATGA
100278274 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
100278292 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
100278311 GAAA
1 GAAA
100278315 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:100288121 original size:47 final size:47
Alignment explanation
Indices: 100288070--100288590 Score: 735
Period size: 47 Copynumber: 11.1 Consensus size: 47
100288060 GATTTTATGA
* *
100288070 GATGAATGTGAACATGTACATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
*
100288117 GATGAATGTGAACATGCATATGTGTGATAAGGCCAAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
* * * * *
100288164 GATAAACGTGGAA-GTGTATATATGTGATAAGGCCGAATGGCCAAATGT
1 GATGAATGT-GAACATGCATATGTGTGATAAGGCCGAATGGCC-AATGT
*
100288212 GATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
* * * * *
100288259 GATAAACGTGGAA-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGT-GAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
100288306 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
* * * * *
100288353 GATAAACGTGGAA-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGT-GAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
100288400 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
* * * * *
100288447 GATAAACGTGGAA-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGT-GAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
100288494 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
**
100288541 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
100288588 GAT
1 GAT
100288591 AAACGTGGAA
Statistics
Matches: 417, Mismatches: 48, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
46 9 0.02
47 359 0.86
48 49 0.12
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
Found at i:100288434 original size:141 final size:141
Alignment explanation
Indices: 100288070--100288636 Score: 845
Period size: 141 Copynumber: 4.0 Consensus size: 141
100288060 GATTTTATGA
* *
100288070 GATGAATGTGAACATGTACATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
*
100288135 TATGTGTGATAAGGCCAAATGGCCAATGTGATAAACGTGGAAGTGTATATATGTGATAAGGCCGA
66 TATGTGTGATAAGGCCGAATGGCCAATGTGATAAACGTGGAAGTGTATATATGTGATAAGGCCGA
100288200 ATGGCCAAATGT
131 ATGGCC-AATGT
* * * * *
100288212 GATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCAATGTGATAAACGTGGAA-GTGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGC
* * * * * *
100288276 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGCATATGTGTGATAAGGCC
65 ATATGTGTGATAAGGCCGAATGGCCAATGTGATAAACGTGGAA-GTGTATATATGTGATAAGGCC
100288340 GAATGGCCAATGT
129 GAATGGCCAATGT
* * * * *
100288353 GATAAACGTGGAA-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 GATGAATGT-GAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
100288417 ATATGTGTGATAAGGCCGAATGGCCAATGTGATAAACGTGGAAGTGTATATATGTGATAAGGCCG
65 ATATGTGTGATAAGGCCGAATGGCCAATGTGATAAACGTGGAAGTGTATATATGTGATAAGGCCG
100288482 AATGGCCAATGT
130 AATGGCCAATGT
100288494 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
** **
100288559 TATGTGTGATAAGGTAGAATGGCCAATGTGATAAACGTGGAAGTGTATATATGTGGCGAA-GCCG
66 TATGTGTGATAAGGCCGAATGGCCAATGTGATAAACGTGGAAGTGTATATATGT-GATAAGGCCG
*
100288623 AATGGCTAATGT
130 AATGGCCAATGT
100288635 GA
1 GA
100288637 GATATGTATG
Statistics
Matches: 378, Mismatches: 40, Indels: 15
0.87 0.09 0.03
Matches are distributed among these distances:
140 6 0.02
141 246 0.65
142 123 0.33
143 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (141 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
TATGTGTGATAAGGCCGAATGGCCAATGTGATAAACGTGGAAGTGTATATATGTGATAAGGCCGA
ATGGCCAATGT
Found at i:100288564 original size:23 final size:23
Alignment explanation
Indices: 100288490--100288564 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
100288480 CGAATGGCCA
100288490 ATGTGATGAATGTGAACATGCAT
1 ATGTGATGAATGTGAACATGCAT
* *
100288513 ATGTG-TGATAAG-G-CCGAATGGCCA-
1 ATGTGATGA-ATGTGAAC--AT-G-CAT
100288537 ATGTGATGAATGTGAACATGCAT
1 ATGTGATGAATGTGAACATGCAT
100288560 ATGTG
1 ATGTG
100288565 TGATAAGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
21 1 0.03
22 6 0.15
23 15 0.38
24 10 0.26
25 6 0.15
26 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCAT
Found at i:100288636 original size:94 final size:94
Alignment explanation
Indices: 100288092--100288590 Score: 892
Period size: 94 Copynumber: 5.3 Consensus size: 94
100288082 CATGTACATG
*
100288092 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCAAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGG
100288157 CCAATGTGATAAACGTGGAAGTGTATATA
66 CCAATGTGATAAACGTGGAAGTGTATATA
*
100288186 TGTGATAAGGCCGAATGGCCAAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCTGAATG
1 TGTGATAAGGCCGAATGGCC-AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATG
100288251 GCCAATGTGATAAACGTGGAAGTGTATATA
65 GCCAATGTGATAAACGTGGAAGTGTATATA
100288281 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGG
100288346 CCAATGTGATAAACGTGGAAGTGTATATA
66 CCAATGTGATAAACGTGGAAGTGTATATA
100288375 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGG
100288440 CCAATGTGATAAACGTGGAAGTGTATATA
66 CCAATGTGATAAACGTGGAAGTGTATATA
100288469 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGG
* * * * *
100288534 CCAATGTGATGAATGT-GAACATGCATATG
66 CCAATGTGATAAACGTGGAA-GTGTATATA
**
100288563 TGTGATAAGGTAGAATGGCCAATGTGAT
1 TGTGATAAGGCCGAATGGCCAATGTGAT
100288591 AAACGTGGAA
Statistics
Matches: 393, Mismatches: 10, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
93 3 0.01
94 298 0.76
95 92 0.23
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (94 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGG
CCAATGTGATAAACGTGGAAGTGTATATA
Found at i:100292260 original size:39 final size:39
Alignment explanation
Indices: 100292217--100292342 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
100292207 GGACTTTAGC
* * * * * *
100292217 CCGGACATATTTCCATCACGTAGCCTGCAGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
100292256 CCGGATATAATTCCAGCACATATCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
100292295 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
100292334 CCGGATATA
1 CCGGATATA
100292343 CATCACTGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:100304337 original size:13 final size:13
Alignment explanation
Indices: 100304319--100304343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100304309 TTCCCTATTT
100304319 TCACACGGCCGTA
1 TCACACGGCCGTA
100304332 TCACACGGCCGT
1 TCACACGGCCGT
100304344 GTCTCCTCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
TCACACGGCCGTA
Found at i:100306023 original size:136 final size:136
Alignment explanation
Indices: 100305777--100306052 Score: 471
Period size: 136 Copynumber: 2.0 Consensus size: 136
100305767 GCACTGCATT
* *
100305777 ACTGGGTGAACCTATGAATAACCAAGAAAACTGTCAATCTTTCTGTTCAAAAGTTCTACCTGATT
1 ACTGGGTGAACCTATGAAGAACCAAGAAAACTGTCAATCTTTCTGTTCAAAAGTTCTACCTAATT
* *
100305842 AGAGAGCATGGTGACTGAATCGACGTTAAAAATGCCGACTGTTTTCGTTGGTGTTGTCCTCATAA
66 AGAGAGCATGGTGACTGAATCGACGTTAAAAACGCCGACTATTTTCGTTGGTGTTGTCCTCATAA
*
100305907 CTTACC
131 ATTACC
*
100305913 ACTGGGTGAACCTGTGAAGAACCAAGAAAACTGTCAATCTTTCTGTTCAAAAGTTCTACCTAATT
1 ACTGGGTGAACCTATGAAGAACCAAGAAAACTGTCAATCTTTCTGTTCAAAAGTTCTACCTAATT
* *
100305978 AGAGAGCATGGTGACTGAATCGACGTTAAAAACGCTGACTATTTTCGTTGGTGTTGTCCTTATAA
66 AGAGAGCATGGTGACTGAATCGACGTTAAAAACGCCGACTATTTTCGTTGGTGTTGTCCTCATAA
*
100306043 ATTGCC
131 ATTACC
100306049 ACTG
1 ACTG
100306053 ATAATTATTC
Statistics
Matches: 131, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 131 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (136 bp):
ACTGGGTGAACCTATGAAGAACCAAGAAAACTGTCAATCTTTCTGTTCAAAAGTTCTACCTAATT
AGAGAGCATGGTGACTGAATCGACGTTAAAAACGCCGACTATTTTCGTTGGTGTTGTCCTCATAA
ATTACC
Found at i:100308044 original size:13 final size:13
Alignment explanation
Indices: 100308026--100308050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100308016 GCTCAGCAGG
100308026 GACACGCCCGTGT
1 GACACGCCCGTGT
100308039 GACACGCCCGTG
1 GACACGCCCGTG
100308051 CGCAATTACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.32, T:0.12
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:100310276 original size:28 final size:28
Alignment explanation
Indices: 100310236--100310305 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
100310226 AAGATCTGAC
*
100310236 ACACGCCCGTGTCTCTTACACGGCCATG
1 ACACGCCCGTGTCTCTCACACGGCCATG
*
100310264 ACACGCCCATGTCTCTCACACGGCCATG
1 ACACGCCCGTGTCTCTCACACGGCCATG
*
100310292 ACACACCCGTGTCT
1 ACACGCCCGTGTCT
100310306 AAAAACTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.20, C:0.41, G:0.19, T:0.20
Consensus pattern (28 bp):
ACACGCCCGTGTCTCTCACACGGCCATG
Found at i:100311503 original size:48 final size:44
Alignment explanation
Indices: 100311384--100311645 Score: 190
Period size: 48 Copynumber: 5.6 Consensus size: 44
100311374 AGGCCGACGC
* * * * *
100311384 CATGTTCCAAACATGGTCTTACACTAGCTCTCACATATACGTGTCGTTG
1 CATGTCCCAGACAT-GTCTTACACTA-C-CTCTCATATA--TGCCGATG
100311433 CTATGTCCCAGACATGGTCTTACACTGACAC-CTCTATATATGCCGATG
1 C-ATGTCCCAGACAT-GTCTTACACT-AC-CTCTC-ATATATGCCGATG
*
100311481 CCATGTCCCAGACATAGTCTTACACTCACACATCTC--GTA-GCCGATG
1 -CATGTCCCAGACAT-GTCTTACACT-AC-C-TCTCATATATGCCGATG
* * *
100311527 CATGTCCCAGAAATGTCTTACACTAGCTCTCATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTACCTCTCATAT--ATGCCGATG
* * * *
100311573 CCATGTCCCAGAAATGGTCTTACACTAGCTCTCATAGTGTGGTCGATG
1 -CATGTCCCAGACAT-GTCTTACACTACCTCTCATA-TAT-GCCGATG
100311621 CATGTCCCAGACATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
100311646 GCACACAAAT
Statistics
Matches: 182, Mismatches: 16, Indels: 33
0.79 0.07 0.14
Matches are distributed among these distances:
41 4 0.02
42 1 0.01
43 2 0.01
44 10 0.05
45 14 0.08
46 25 0.14
47 30 0.16
48 58 0.32
49 5 0.03
50 32 0.18
51 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTACCTCTCATATATGCCGATG
Found at i:100311561 original size:46 final size:48
Alignment explanation
Indices: 100311474--100311647 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 48
100311464 CTCTATATAT
* * *
100311474 GCCGATGCCATGTCCCAGACATAGTCTTACACT--CACACATCTCGTA
1 GCCGATGCCATGTCCCAGAAATAGTCTTACACTAGCTCTCATCTCGTA
*
100311520 GCCGATG-CATGTCCCAGAAAT-GTCTTACACTAGCTCTCATCTC-AA
1 GCCGATGCCATGTCCCAGAAATAGTCTTACACTAGCTCTCATCTCGTA
* * *
100311565 TGCCGATGCCATGTCCCAGAAATGGTCTTACACTAGCTCTCATAGT-GTG
1 -GCCGATGCCATGTCCCAGAAATAGTCTTACACTAGCTCTCAT-CTCGTA
* *
100311614 GTCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 GCCGATGCCATGTCCCAGAAATAGTCTTACACTAGC
100311648 ACACAAATAG
Statistics
Matches: 112, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
44 10 0.09
45 14 0.12
46 35 0.31
47 27 0.24
48 25 0.22
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGAAATAGTCTTACACTAGCTCTCATCTCGTA
Found at i:100311647 original size:94 final size:91
Alignment explanation
Indices: 100311371--100311649 Score: 280
Period size: 94 Copynumber: 3.0 Consensus size: 91
100311361 AATAATGGAA
* * * *
100311371 TCAAGGCCGACGCCATGTTCCA-AACATGGTCTTACACTAGCTCTCACATATACGTGTCGTTGCT
1 TCAATGCCGATGCCATGTCCCAGAA-ATGGTCTTACACTAGCTCT--CATAT-CGTGTCGATGC-
100311435 ATGTCCCAGACATGGTCTTACACT-GACACCTC
61 ATGTCCCAGACAT-GTCTTACACTAG-CACCTC
* * * * * * *
100311467 TATATATGCCGATGCCATGTCCCAGACATAGTCTTACACT--CACACATCTCGTAGCCGATGCAT
1 T-CA-ATGCCGATGCCATGTCCCAGAAATGGTCTTACACTAGCTCTCATATCGT-GTCGATGCAT
* *
100311530 GTCCCAGAAATGTCTTACACTAGCTCTCATC
63 GTCCCAGACATGTCTTACACTAGCAC-C-TC
100311561 TCAATGCCGATGCCATGTCCCAGAAATGGTCTTACACTAGCTCTCATAGT-GTGGTCGATGCATG
1 TCAATGCCGATGCCATGTCCCAGAAATGGTCTTACACTAGCTCTCATA-TCGT-GTCGATGCATG
100311625 TCCCAGACATGTCTTACACTAGCAC
64 TCCCAGACATGTCTTACACTAGCAC
100311650 ACAAATAGCC
Statistics
Matches: 150, Mismatches: 23, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
92 45 0.30
93 18 0.12
94 53 0.35
95 1 0.01
96 3 0.02
97 1 0.01
98 28 0.19
99 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (91 bp):
TCAATGCCGATGCCATGTCCCAGAAATGGTCTTACACTAGCTCTCATATCGTGTCGATGCATGTC
CCAGACATGTCTTACACTAGCACCTC
Found at i:100318475 original size:27 final size:27
Alignment explanation
Indices: 100318413--100318479 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
100318403 ATAGTTGAAC
100318413 TATGACAAAGTGATAAAGTGTGCCAAA
1 TATGACAAAGTGATAAAGTGTGCCAAA
* *
100318440 CAAGACAAAGTGATAAAGTGTGCCAAA
1 TATGACAAAGTGATAAAGTGTGCCAAA
*
100318467 TATGGCAAAGTGA
1 TATGACAAAGTGA
100318480 AGTGTGACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.19
Consensus pattern (27 bp):
TATGACAAAGTGATAAAGTGTGCCAAA
Found at i:100321995 original size:49 final size:47
Alignment explanation
Indices: 100321879--100322150 Score: 180
Period size: 49 Copynumber: 5.7 Consensus size: 47
100321869 AGGGTATAAT
** * *
100321879 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCAACAATCAA
** * *
100321926 GTAGATGCCATGTCCTAGACATGGTCTTACACTAACT-AACGGAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCAAC--AATC-AA
* * * *
100321975 GCCGATGCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTC-AACA-AT-CAA
* * * * * * **
100322025 GCCGCTGCTATGTCCCAGATATGGTCTTATACTGACACCTCTA-TAT-GT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-A-A-CTCAACAATCAA
* * * * *
100322073 GCTGATGCCATGTCCCAGGCATGGTCTTACACTAACACATC--TCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCAACAATC-AA
100322119 GCCGATG-CATGTCCCAGACAT-GTCTTACACTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTA
100322151 GCACACAAAT
Statistics
Matches: 175, Mismatches: 37, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
44 12 0.07
45 15 0.09
46 9 0.05
47 33 0.19
48 31 0.18
49 34 0.19
50 33 0.19
51 4 0.02
52 1 0.01
53 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCAACAATCAA
Found at i:100327182 original size:17 final size:16
Alignment explanation
Indices: 100327156--100327189 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
100327146 CTTTAGCGCA
100327156 TTTGAATAAAAAAAAT
1 TTTGAATAAAAAAAAT
100327172 TTTGCAATAAAAAAAAT
1 TTTG-AATAAAAAAAAT
100327189 T
1 T
100327190 AATATCAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (16 bp):
TTTGAATAAAAAAAAT
Found at i:100330922 original size:31 final size:31
Alignment explanation
Indices: 100330887--100330960 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
100330877 GTGATTTCTT
100330887 TTATGTATATA-TATATATAT-ATTTTCATATA
1 TTATGTATATATTATATATATAATTTT-A-ATA
*
100330918 TTATGTATATATTATGTATATAATTTTAATA
1 TTATGTATATATTATATATATAATTTTAATA
*
100330949 TTAT-CATATATT
1 TTATGTATATATT
100330961 TATTTTGAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 7 0.18
31 18 0.46
32 9 0.23
33 5 0.13
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (31 bp):
TTATGTATATATTATATATATAATTTTAATA
Found at i:100331049 original size:2 final size:2
Alignment explanation
Indices: 100331044--100331143 Score: 82
Period size: 2 Copynumber: 51.5 Consensus size: 2
100331034 GTGTATCGTG
*
100331044 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
100331086 T- TG TA TT TT TA CA TA TG T- TA TG TA TA TA TA TT TA -A TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
100331126 TA T- TA TT TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
100331144 TTTCATATTA
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
1 4 0.05
2 73 0.92
3 2 0.03
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (2 bp):
TA
Found at i:100331191 original size:28 final size:27
Alignment explanation
Indices: 100331103--100331194 Score: 89
Period size: 28 Copynumber: 3.4 Consensus size: 27
100331093 TTTACATATG
*
100331103 TTATGTATATA--TATTTAATACTATA
1 TTATGTATATATTTTTTTAATACTATA
* * * * *
100331128 TTATTTATATATATATTTTCATATTATC
1 TTATGTATATAT-TTTTTTAATACTATA
*
100331156 TTACGTATATATTTTTTTAATAACTATA
1 TTATGTATATATTTTTTTAAT-ACTATA
100331184 TTATGTATATA
1 TTATGTATATA
100331195 CTATTACCAT
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
25 10 0.20
27 7 0.14
28 33 0.66
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.55
Consensus pattern (27 bp):
TTATGTATATATTTTTTTAATACTATA
Found at i:100331328 original size:26 final size:26
Alignment explanation
Indices: 100331272--100331340 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
100331262 ATATATATAT
* * *
100331272 ATATTATGTATACATTTTTTAACTACT
1 ATATTATGTATATA-TTTTTAAATACC
*
100331299 ATATTATATATATATTTTTAAATACC
1 ATATTATGTATATATTTTTAAATACC
*
100331325 ATATTATGTACATATT
1 ATATTATGTATATATT
100331341 ATTATTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 24 0.67
27 12 0.33
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.51
Consensus pattern (26 bp):
ATATTATGTATATATTTTTAAATACC
Found at i:100331420 original size:16 final size:15
Alignment explanation
Indices: 100331385--100331443 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 15
100331375 ATCATATGTG
100331385 TATATATATATACTT
1 TATATATATATACTT
*
100331400 T-TATATATATAGTAT
1 TATATATATATACT-T
100331415 TATATATTATTATA-TT
1 TATATA-TA-TATACTT
100331431 TAT-TAT-TATACTT
1 TATATATATATACTT
100331444 ATTATTTTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
12 4 0.11
13 2 0.05
14 12 0.32
15 5 0.13
16 8 0.21
17 3 0.08
18 4 0.11
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (15 bp):
TATATATATATACTT
Found at i:100331445 original size:12 final size:12
Alignment explanation
Indices: 100331419--100331449 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
100331409 TAGTATTATA
*
100331419 TATTATTATATT
1 TATTATTATACT
100331431 TATTATTATACT
1 TATTATTATACT
100331443 TATTATT
1 TATTATT
100331450 TTCACTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTATTATACT
Found at i:100331446 original size:24 final size:24
Alignment explanation
Indices: 100331385--100331449 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 24
100331375 ATCATATGTG
100331385 TATATA-TA-TATACTT-TTA-TA
1 TATATAGTATTATACTTATTATTA
100331405 TATATAGTATTATA--TATTATTA
1 TATATAGTATTATACTTATTATTA
* *
100331427 TATTTATTATTATACTTATTATT
1 TATATAGTATTATACTTATTATT
100331450 TTCACTATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 7 0.19
21 5 0.14
22 18 0.49
24 7 0.19
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (24 bp):
TATATAGTATTATACTTATTATTA
Found at i:100331475 original size:12 final size:12
Alignment explanation
Indices: 100331419--100331477 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
100331409 TAGTATTATA
* *
100331419 TATTATTATATT
1 TATTATTTTACT
*
100331431 TATTATTATACT
1 TATTATTTTACT
100331443 TATTATTTTCAC-
1 TATTATTTT-ACT
*
100331455 TA-T-TGTTACT
1 TATTATTTTACT
100331465 TATTATTTTACT
1 TATTATTTTACT
100331477 T
1 T
100331478 TAACATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 2 0.05
10 5 0.13
11 2 0.05
12 28 0.72
13 2 0.05
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (12 bp):
TATTATTTTACT
Found at i:100331521 original size:17 final size:19
Alignment explanation
Indices: 100331499--100331535 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
100331489 TGTCTTGGTA
100331499 TACATA-TGTC-TTTTTTG
1 TACATATTGTCATTTTTTG
100331516 TACATATTGTCATTTTTTG
1 TACATATTGTCATTTTTTG
100331535 T
1 T
100331536 TATATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.19, C:0.11, G:0.11, T:0.59
Consensus pattern (19 bp):
TACATATTGTCATTTTTTG
Found at i:100331531 original size:18 final size:17
Alignment explanation
Indices: 100331499--100331532 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
100331489 TGTCTTGGTA
*
100331499 TACATATGTCTTTTTTG
1 TACATATGTCATTTTTG
100331516 TACATATTGTCATTTTT
1 TACATA-TGTCATTTTT
100331533 TGTTATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TACATATGTCATTTTTG
Found at i:100337130 original size:24 final size:24
Alignment explanation
Indices: 100337103--100337167 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 24
100337093 CGAAAGAGTG
*
100337103 TCCCGTTATTAGCTCTTGTGAGCT
1 TCCCGTTATTAGCTCTTGCGAGCT
* *
100337127 TCCCGTTATATGGTTCTTGCGAGCT
1 TCCCGTTAT-TAGCTCTTGCGAGCT
*
100337152 TCCCATTA-TAGCTCTT
1 TCCCGTTATTAGCTCTT
100337168 CAAAGCATCC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 6 0.18
24 9 0.26
25 19 0.56
ACGTcount: A:0.14, C:0.26, G:0.18, T:0.42
Consensus pattern (24 bp):
TCCCGTTATTAGCTCTTGCGAGCT
Found at i:100337756 original size:25 final size:25
Alignment explanation
Indices: 100337697--100337746 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
100337687 ATTTCTTGGT
*
100337697 ATTAATATGAATTATGTAACTAACA
1 ATTAATATGAACTATGTAACTAACA
100337722 ATTAATATGAACTATGTAACTAACA
1 ATTAATATGAACTATGTAACTAACA
100337747 TGTTTGATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (25 bp):
ATTAATATGAACTATGTAACTAACA
Found at i:100337863 original size:20 final size:20
Alignment explanation
Indices: 100337838--100337880 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
100337828 GAATGGTAAG
100337838 TTAAATTCTGTTATATGAAC
1 TTAAATTCTGTTATATGAAC
100337858 TTAAATTCTGTTATATGAAC
1 TTAAATTCTGTTATATGAAC
100337878 TTA
1 TTA
100337881 CTAAGCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (20 bp):
TTAAATTCTGTTATATGAAC
Found at i:100338729 original size:20 final size:20
Alignment explanation
Indices: 100338704--100338742 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
100338694 TTATACCTAA
100338704 GAAAAATTTTGAAATTTCGT
1 GAAAAATTTTGAAATTTCGT
100338724 GAAAAATTTTGAAATTTCG
1 GAAAAATTTTGAAATTTCG
100338743 CAAAAATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.38
Consensus pattern (20 bp):
GAAAAATTTTGAAATTTCGT
Found at i:100338747 original size:19 final size:20
Alignment explanation
Indices: 100338705--100338750 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
100338695 TATACCTAAG
*
100338705 AAAAATTTTGAAATTTCGTG
1 AAAAATTTTGAAATTTCGTC
100338725 AAAAATTTTGAAATTTCG-C
1 AAAAATTTTGAAATTTCGTC
100338744 AAAAATT
1 AAAAATT
100338751 CTCTGAGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.37
Consensus pattern (20 bp):
AAAAATTTTGAAATTTCGTC
Found at i:100342874 original size:43 final size:43
Alignment explanation
Indices: 100342808--100342890 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
100342798 AAATCGTACA
** *
100342808 ATGCCAACTTCCCAGACCTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACTTCCCAGACAGGGTCTTAC-TCGTAAACACATATCG
100342851 ATGCC-ACTGTCCCAGACAGGGTCTTACTCGTAAACACATA
1 ATGCCAACT-TCCCAGACAGGGTCTTACTCGTAAACACATA
100342891 CCAGAATCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 4 0.11
43 31 0.89
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACTTCCCAGACAGGGTCTTACTCGTAAACACATATCG
Found at i:100346622 original size:29 final size:28
Alignment explanation
Indices: 100346577--100346635 Score: 100
Period size: 29 Copynumber: 2.1 Consensus size: 28
100346567 ATTGCATGAT
*
100346577 TACGAATGTGTTTGGGCCTAATGGGCCA
1 TACGAATATGTTTGGGCCTAATGGGCCA
100346605 TACGAATATGATTTGGGCCTAATGGGCCA
1 TACGAATATG-TTTGGGCCTAATGGGCCA
100346634 TA
1 TA
100346636 TGAAAGAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 9 0.31
29 20 0.69
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (28 bp):
TACGAATATGTTTGGGCCTAATGGGCCA
Found at i:100346646 original size:29 final size:29
Alignment explanation
Indices: 100346587--100346665 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
100346577 TACGAATGTG
* *
100346587 TTTGGGCCTAATGGGCCATACGAATATGA
1 TTTGGGCCTAATGGGCCATATGAATAAGA
100346616 TTTGGGCCTAATGGGCCATATGAA-AGAGA
1 TTTGGGCCTAATGGGCCATATGAATA-AGA
* * *
100346645 -TTGAGCCTAGTGGGTCATATG
1 TTTGGGCCTAATGGGCCATATG
100346666 CATGTATGCG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
28 19 0.43
29 25 0.57
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (29 bp):
TTTGGGCCTAATGGGCCATATGAATAAGA
Found at i:100368285 original size:13 final size:13
Alignment explanation
Indices: 100368267--100368304 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
100368257 TAACATATAT
100368267 AGATAT-CAGAACC
1 AGATATACAGAA-C
100368280 AGATATACAGAAC
1 AGATATACAGAAC
100368293 AGATATACAGAA
1 AGATATACAGAA
100368305 TCCTACCCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (13 bp):
AGATATACAGAAC
Found at i:100369502 original size:41 final size:41
Alignment explanation
Indices: 100369440--100369520 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
100369430 GAGCCTAATA
*
100369440 TCCTTTGTGTCGCCACTACCCTTTCCACTCGGTCAATTCTC
1 TCCTCTGTGTCGCCACTACCCTTTCCACTCGGTCAATTCTC
100369481 TCCTCTGTGTCGCCACTACCCTTTCCACTCGGTCAATTCT
1 TCCTCTGTGTCGCCACTACCCTTTCCACTCGGTCAATTCT
100369521 AGTGTAAGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.12, C:0.40, G:0.12, T:0.36
Consensus pattern (41 bp):
TCCTCTGTGTCGCCACTACCCTTTCCACTCGGTCAATTCTC
Found at i:100370018 original size:16 final size:16
Alignment explanation
Indices: 100369993--100370035 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
100369983 GTAGATCAGC
100369993 AAAAGTCGAAATGCGG
1 AAAAGTCGAAATGCGG
* *
100370009 AAAAGCCGAAATGCTG
1 AAAAGTCGAAATGCGG
100370025 AAAAGTCGAAA
1 AAAAGTCGAAA
100370036 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.26, T:0.12
Consensus pattern (16 bp):
AAAAGTCGAAATGCGG
Found at i:100370356 original size:28 final size:29
Alignment explanation
Indices: 100370245--100370364 Score: 170
Period size: 29 Copynumber: 4.2 Consensus size: 29
100370235 GAAAGCATGT
* *
100370245 ATATGAATGTGATTTGGGCCTAATAGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
100370274 GTACGAATTTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
100370303 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
100370332 ATATGAATGAGA-TTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
100370360 ATATG
1 ATATG
100370365 CATCTATGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 21 0.26
29 61 0.74
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:100378764 original size:30 final size:30
Alignment explanation
Indices: 100378728--100378789 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
100378718 AATCGAAAGT
100378728 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
100378758 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
100378788 TT
1 TT
100378790 CGGCTACTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCGATTTAAACTAGC
Found at i:100379570 original size:62 final size:62
Alignment explanation
Indices: 100379473--100379596 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
100379463 AGATTGTATG
100379473 ATGATTTGATATAATCTTACATTTTATTCATTATAAATAGGTAAGGTTTATAAGTATGCAAA
1 ATGATTTGATATAATCTTACATTTTATTCATTATAAATAGGTAAGGTTTATAAGTATGCAAA
100379535 ATGATTTGATATAATCTTACATTTTATTCATTATAAATAGGTAAGGTTTATAAGTATGCAAA
1 ATGATTTGATATAATCTTACATTTTATTCATTATAAATAGGTAAGGTTTATAAGTATGCAAA
100379597 TGGTTGATAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (62 bp):
ATGATTTGATATAATCTTACATTTTATTCATTATAAATAGGTAAGGTTTATAAGTATGCAAA
Found at i:100384324 original size:40 final size:40
Alignment explanation
Indices: 100384267--100384452 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
100384257 TCGAATGATG
* * *
100384267 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
100384307 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
100384347 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
100384387 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * * *
100384428 -CCGGGCTATGTCCTGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
100384453 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:100384459 original size:80 final size:79
Alignment explanation
Indices: 100384301--100384485 Score: 200
Period size: 80 Copynumber: 2.3 Consensus size: 79
100384291 GTGCTAAGTG
** *
100384301 ACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAG
1 ACTAAATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAG
**
100384366 GCATTTGTGCGAGTT
66 GCATTTGAACGAG-T
* *
100384381 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCTG
1 ACTAAATCCGGGTTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGATCC-G
*
100384443 AAGGTATTTGAACGAGT
63 AAGGCATTTGAACGAGT
*
100384460 AGCTATATCC-GGTTAA-ACTCCGAAGG
1 A-CTAAATCCGGGTTAAGA-TCCGAAGG
100384486 TACGTGATTC
Statistics
Matches: 90, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
79 19 0.21
80 69 0.77
81 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAG
GCATTTGAACGAGT
Found at i:100386375 original size:2 final size:2
Alignment explanation
Indices: 100386368--100386394 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
100386358 CTGAAACTAG
100386368 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
100386395 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100388433 original size:42 final size:42
Alignment explanation
Indices: 100388303--100388446 Score: 144
Period size: 42 Copynumber: 3.3 Consensus size: 42
100388293 CATGGGCCCA
*
100388303 CATATCGATGCCATATCCCAGATATGGTCTTATACGAAGTCT
1 CATATCGATGCCATATCCCAGATATGGTCTTATACGAAATCT
* * * *
100388345 CATGTCGGTGCCGATGCCATGTCCCAGACATGGTCTTATACAAAATCT
1 CA--T--AT--CGATGCCATATCCCAGATATGGTCTTATACGAAATCT
* * * *
100388393 CATATCAATGCCATATCCCAGATATGGTCTTACATGAAATCA
1 CATATCGATGCCATATCCCAGATATGGTCTTATACGAAATCT
*
100388435 CATACCGATGCC
1 CATATCGATGCC
100388447 GATGCCATAT
Statistics
Matches: 81, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
42 42 0.52
44 2 0.02
46 2 0.02
48 35 0.43
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
CATATCGATGCCATATCCCAGATATGGTCTTATACGAAATCT
Found at i:100388447 original size:90 final size:89
Alignment explanation
Indices: 100388303--100388471 Score: 230
Period size: 90 Copynumber: 1.9 Consensus size: 89
100388293 CATGGGCCCA
* * * * ** * *
100388303 CATATCGATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATGTCGGTGCCGATGCCATGTC
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGAAATCACATACCGATGCCGATGCCATAT-
100388368 CCAGACATGGTCTTATACAAAATCT
65 CCAGACATGGTCTTATACAAAATCT
*
100388393 CATATCAATGCCATATCCCAGATATGGTCTTACATGAAATCACATACCGATGCCGATGCCATATC
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGAAATCACATACCGATGCCGATGCCATATC
* *
100388458 TAGATATGGTCTTA
66 CAGACATGGTCTTA
100388472 CACTGACACA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
89 13 0.19
90 55 0.81
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (89 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACACGAAATCACATACCGATGCCGATGCCATATC
CAGACATGGTCTTATACAAAATCT
Found at i:100388456 original size:48 final size:48
Alignment explanation
Indices: 100388308--100388522 Score: 178
Period size: 48 Copynumber: 4.6 Consensus size: 48
100388298 GCCCACATAT
* * * * *
100388308 CGATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATGTCGGTGC
1 CGATGCCATATCCCAGATATGGTCTTACACGAAATCACATATCGATGC
* * * * *
100388356 CGATGCCATGTCCCAGACATGGTCTTATACAAAATCTCATATC-A---
1 CGATGCCATATCCCAGATATGGTCTTACACGAAATCACATATCGATGC
* *
100388400 --ATGCCATATCCCAGATATGGTCTTACATGAAATCACATACCGATGC
1 CGATGCCATATCCCAGATATGGTCTTACACGAAATCACATATCGATGC
* * * **
100388446 CGATGCCATAT-CTAGATATGGTCTTACACTGACA-CACATATCAACAC
1 CGATGCCATATCCCAGATATGGTCTTACAC-GAAATCACATATCGATGC
* *
100388493 CGATGCCATA-CCTCAGACATGGTCGTACAC
1 CGATGCCATATCC-CAGATATGGTCTTACAC
100388523 TGGCTCTCAC
Statistics
Matches: 135, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
42 34 0.25
43 1 0.01
47 36 0.27
48 64 0.47
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (48 bp):
CGATGCCATATCCCAGATATGGTCTTACACGAAATCACATATCGATGC
Found at i:100388484 original size:47 final size:48
Alignment explanation
Indices: 100388400--100388524 Score: 137
Period size: 47 Copynumber: 2.6 Consensus size: 48
100388390 TCTCATATCA
* * **
100388400 ATGCCATATCCCAGATATGGTCTTACA-TGAAATCACATACCGATGCCG
1 ATGCCATAT-CTAGATATGGTCTTACACTGAAATCACATACCAACACCG
* *
100388448 ATGCCATATCTAGATATGGTCTTACACTGACA-CACATATCAACACCG
1 ATGCCATATCTAGATATGGTCTTACACTGAAATCACATACCAACACCG
* * *
100388495 ATGCCATACCTCAGACATGGTCGTACACTG
1 ATGCCATATCT-AGATATGGTCTTACACTG
100388525 GCTCTCACAT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 37 0.56
48 29 0.44
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (48 bp):
ATGCCATATCTAGATATGGTCTTACACTGAAATCACATACCAACACCG
Found at i:100388612 original size:49 final size:48
Alignment explanation
Indices: 100388445--100388618 Score: 174
Period size: 48 Copynumber: 3.6 Consensus size: 48
100388435 CATACCGATG
* * * * * * *
100388445 CCGATGCCATAT-CTAGATATGGTCTTACACTGACACACATATCAACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAACA
* *
100388492 CCGATGCCAT-ACCTCAGACATGGTCGTACACTGGCTCTCA-CATCAACA
1 CCGATGCCATGTCC-CAGACATGGTCTTACACTGGCTCTCATC-TCAACA
* * **
100388540 CCGATACTATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAGATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA-ACA
*
100388589 CCGATGCCATGTCCCAGACATGGTTTTACA
1 CCGATGCCATGTCCCAGACATGGTCTTACA
100388619 TGGGATCTTG
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
47 11 0.11
48 62 0.60
49 31 0.30
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAACA
Found at i:100389978 original size:71 final size:71
Alignment explanation
Indices: 100389856--100390004 Score: 262
Period size: 71 Copynumber: 2.1 Consensus size: 71
100389846 CTTCCAAGCC
** *
100389856 TGTAAAGATTTGAGGAAATCGACATCGGGAAGTGTATTCGTCCTAGGTGGTGGAGTCATAGTATG
1 TGTAAAGATTTGAGGAAATCGACATCGGGAAGTGTATTCGTCCTAAATGGTGGAGTCATAATATG
100389921 GAGAAG
66 GAGAAG
*
100389927 TGTAAAGATTTGAGGAAATCGATATCGGGAAGTGTATTCGTCCTAAATGGTGGAGTCATAATATG
1 TGTAAAGATTTGAGGAAATCGACATCGGGAAGTGTATTCGTCCTAAATGGTGGAGTCATAATATG
100389992 GAGAAG
66 GAGAAG
100389998 TGTAAAG
1 TGTAAAG
100390005 CAAACTTGCA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (71 bp):
TGTAAAGATTTGAGGAAATCGACATCGGGAAGTGTATTCGTCCTAAATGGTGGAGTCATAATATG
GAGAAG
Found at i:100390515 original size:15 final size:15
Alignment explanation
Indices: 100390495--100390524 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
100390485 TTCACTATTA
*
100390495 TGTCTTTTGTATTTT
1 TGTCTTTTATATTTT
100390510 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
100390525 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:100392245 original size:37 final size:37
Alignment explanation
Indices: 100392182--100392273 Score: 98
Period size: 37 Copynumber: 2.4 Consensus size: 37
100392172 ATTCCAAAAA
*
100392182 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAATATT
* *
100392218 TAATACTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAATATT
*
100392256 AAAGTGATTATCTTAATA
1 TAA-T-ATTATCTTAATA
100392274 TTAAATTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
36 5 0.11
37 22 0.47
38 7 0.15
39 12 0.26
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:100394028 original size:20 final size:20
Alignment explanation
Indices: 100394000--100394044 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
100393990 TATCGATCTA
*
100394000 GTATCGATACT-TTTCTTAAG
1 GTATCGATA-TATTTCCTAAG
*
100394020 GTATTGATATATTTCCTAAG
1 GTATCGATATATTTCCTAAG
100394040 GTATC
1 GTATC
100394045 AATGTTCCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (20 bp):
GTATCGATATATTTCCTAAG
Found at i:100396093 original size:25 final size:25
Alignment explanation
Indices: 100396021--100396094 Score: 112
Period size: 25 Copynumber: 3.0 Consensus size: 25
100396011 TATAGAGACA
*
100396021 AAAATCTCTAAAGAAATTATTTCAG
1 AAAATCTCTAAAGAAATTATTTTAG
100396046 AAAATCTCTAAAGAAATTATTTTAG
1 AAAATCTCTAAAGAAATTATTTTAG
* * *
100396071 AAAATTTCTAAAGATATTTTTTTA
1 AAAATCTCTAAAGAAATTATTTTA
100396095 TTATTTACCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (25 bp):
AAAATCTCTAAAGAAATTATTTTAG
Found at i:100403592 original size:16 final size:17
Alignment explanation
Indices: 100403537--100403633 Score: 63
Period size: 19 Copynumber: 5.4 Consensus size: 17
100403527 AAAATGGAAA
**
100403537 AAAAATTAAAAAGTTAGAA
1 AAAAATTAAAAA-TTA-TT
100403556 AAAAATTAGTAAAATTATT
1 AAAAATTA--AAAATTATT
*
100403575 AAAAGTTAAAAATT-TT
1 AAAAATTAAAAATTATT
*
100403591 AAAAATTAAAAAATA-T
1 AAAAATTAAAAATTATT
* *
100403607 ATATAATATAAAAATTTACT
1 A-AAAAT-TAAAAA-TTATT
100403627 AAAAATT
1 AAAAATT
100403634 TTAAAATATA
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
16 16 0.25
17 10 0.16
18 7 0.11
19 21 0.33
20 5 0.08
21 4 0.06
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (17 bp):
AAAAATTAAAAATTATT
Found at i:100403630 original size:36 final size:34
Alignment explanation
Indices: 100403581--100403662 Score: 105
Period size: 36 Copynumber: 2.4 Consensus size: 34
100403571 TATTAAAAGT
100403581 TAAAAATTTTAAAAATTAAAAAATATATATAATA
1 TAAAAATTTTAAAAATTAAAAAATATATATAATA
**
100403615 TAAAAATTTACTAAAAATTTTAAAATATATAT-AT-
1 TAAAAATTT--TAAAAATTAAAAAATATATATAATA
*
100403649 TAGAAATTTTAAAA
1 TAAAAATTTTAAAA
100403663 TCTTTAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
32 5 0.12
34 17 0.40
35 2 0.05
36 19 0.44
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (34 bp):
TAAAAATTTTAAAAATTAAAAAATATATATAATA
Found at i:100404608 original size:16 final size:16
Alignment explanation
Indices: 100404587--100404635 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
100404577 TCTTACAGTA
*
100404587 TTTTTACATTTTTTAT
1 TTTTTACAATTTTTAT
*
100404603 TTTTTATAATTTTTAT
1 TTTTTACAATTTTTAT
*
100404619 AATTTTTAAAATTTTTA
1 --TTTTTACAATTTTTA
100404636 AAAATTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 14 0.50
18 14 0.50
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTACAATTTTTAT
Found at i:100404615 original size:8 final size:9
Alignment explanation
Indices: 100404548--100404696 Score: 80
Period size: 9 Copynumber: 16.6 Consensus size: 9
100404538 AATTACAATC
*
100404548 TTTTACAAT
1 TTTTATAAT
*
100404557 TTCTAATAAT
1 TT-TTATAAT
100404567 TTTTATAAT
1 TTTTATAAT
*
100404576 TTCTTACAGTAT
1 TT-TTATA--AT
*
100404588 TTTTA-CAT
1 TTTTATAAT
*
100404596 TTTT-TATT
1 TTTTATAAT
100404604 TTTTATAAT
1 TTTTATAAT
100404613 TTTTATAAT
1 TTTTATAAT
*
100404622 TTTTAAAAT
1 TTTTATAAT
* *
100404631 TTTTAAAAA
1 TTTTATAAT
*
100404640 TTCTA-ACAT
1 TTTTATA-AT
100404649 ATTTT-TAA-
1 -TTTTATAAT
100404657 TTTT-TAAT
1 TTTTATAAT
100404665 TTTTA-AATTT
1 TTTTATAA--T
*
100404675 TTTTGTAAT
1 TTTTATAAT
100404684 TTTTAT-AT
1 TTTTATAAT
100404692 TTTTA
1 TTTTA
100404697 AAGTTTTTTA
Statistics
Matches: 111, Mismatches: 15, Indels: 29
0.72 0.10 0.19
Matches are distributed among these distances:
7 7 0.06
8 25 0.23
9 50 0.45
10 20 0.18
11 5 0.05
12 4 0.04
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:100404625 original size:19 final size:19
Alignment explanation
Indices: 100404548--100404634 Score: 65
Period size: 19 Copynumber: 4.7 Consensus size: 19
100404538 AATTACAATC
* * *
100404548 TTTTACAATTTCTAATAAT
1 TTTTATAATTTTTTATAAT
* *
100404567 TTTTATAATTTCTTACAGTAT
1 TTTTATAATTTTTTATA--AT
*
100404588 TTTTA-CATTTTTTAT--T
1 TTTTATAATTTTTTATAAT
100404604 TTTTATAA-TTTTTATAAT
1 TTTTATAATTTTTTATAAT
*
100404622 TTTTAAAATTTTT
1 TTTTATAATTTTT
100404635 AAAAATTCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
16 13 0.24
17 1 0.02
18 8 0.15
19 18 0.33
20 7 0.13
21 7 0.13
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTTATAAT
Found at i:100404625 original size:27 final size:26
Alignment explanation
Indices: 100404586--100404706 Score: 97
Period size: 27 Copynumber: 4.7 Consensus size: 26
100404576 TTCTTACAGT
* *
100404586 ATTTTTACA-TTTTTTATTTTTTATA
1 ATTTTTAAATTTTTTTAATTTTTATA
** *
100404611 ATTTTTATAATTTTTAAAATTTTTAAA
1 ATTTTTA-AATTTTTTTAATTTTTATA
* * *
100404638 AATTCTAACATATTTTTAA-TTTT-TA
1 ATTTTTAA-ATTTTTTTAATTTTTATA
100404663 ATTTTTAAATTTTTTTGTAATTTTTAT-
1 ATTTTTAAA-TTTTTT-TAATTTTTATA
*
100404690 ATTTTTAAAGTTTTTTA
1 ATTTTTAAATTTTTTTA
100404707 GGTTTCTTTT
Statistics
Matches: 74, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
24 1 0.01
25 21 0.28
26 14 0.19
27 37 0.50
28 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
ATTTTTAAATTTTTTTAATTTTTATA
Found at i:100404667 original size:6 final size:7
Alignment explanation
Indices: 100404649--100404697 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 7
100404639 ATTCTAACAT
100404649 ATTTTTA
1 ATTTTTA
100404656 ATTTTTA
1 ATTTTTA
100404663 ATTTTTA
1 ATTTTTA
*
100404670 AATTTT-
1 ATTTTTA
*
100404676 -TTTGTA
1 ATTTTTA
100404682 ATTTTTA
1 ATTTTTA
100404689 TATTTTTA
1 -ATTTTTA
100404697 A
1 A
100404698 AGTTTTTTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 3 0.09
7 25 0.71
8 7 0.20
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (7 bp):
ATTTTTA
Found at i:100404685 original size:19 final size:18
Alignment explanation
Indices: 100404657--100404695 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
100404647 ATATTTTTAA
100404657 TTTTTAATTTTTAAATTT
1 TTTTTAATTTTTAAATTT
*
100404675 TTTTGTAATTTTTATATTT
1 TTTT-TAATTTTTAAATTT
100404694 TT
1 TT
100404696 AAAGTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTAATTTTTAAATTT
Found at i:100412752 original size:18 final size:17
Alignment explanation
Indices: 100412692--100412753 Score: 52
Period size: 19 Copynumber: 3.4 Consensus size: 17
100412682 ATATTTTGAT
* *
100412692 ATACCAAAGTTTAAAATG
1 ATACCAAAATTT-TAATG
*
100412710 TATACCAAAATCTTTAACAG
1 -ATACCAAAAT-TTTAA-TG
100412730 ATACCAAAATTTCTAATG
1 ATACCAAAATTT-TAATG
100412748 ATACCA
1 ATACCA
100412754 CCAAAATTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 9 0.25
19 24 0.67
20 3 0.08
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (17 bp):
ATACCAAAATTTTAATG
Found at i:100415560 original size:19 final size:20
Alignment explanation
Indices: 100415536--100415578 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
100415526 TAATCAACTT
* *
100415536 AAAAATTGGACCTGAG-ATC
1 AAAAATTGAACCGGAGAATC
100415555 AAAAATTGAACCGGAGAATC
1 AAAAATTGAACCGGAGAATC
100415575 AAAA
1 AAAA
100415579 CTCGAGATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.51, C:0.14, G:0.19, T:0.16
Consensus pattern (20 bp):
AAAAATTGAACCGGAGAATC
Found at i:100422939 original size:26 final size:26
Alignment explanation
Indices: 100422899--100422954 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
100422889 CTTATTAGAC
100422899 GTTAGGTGTTATATGTGCTTGGTTGA
1 GTTAGGTGTTATATGTGCTTGGTTGA
* *
100422925 GTTAGGTGTTCTATGTGGTTGGTTGA
1 GTTAGGTGTTATATGTGCTTGGTTGA
100422951 GTTA
1 GTTA
100422955 AAGCAGCCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.14, C:0.04, G:0.36, T:0.46
Consensus pattern (26 bp):
GTTAGGTGTTATATGTGCTTGGTTGA
Found at i:100424169 original size:34 final size:34
Alignment explanation
Indices: 100424124--100424189 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
100424114 TACTTATATC
* *
100424124 TTACTTCTAAATTGCAACTTCACCTCAGTATGTG
1 TTACTTATAAATTACAACTTCACCTCAGTATGTG
* **
100424158 TTACTTATAAATTACAATTTCGTCTCAGTATG
1 TTACTTATAAATTACAACTTCACCTCAGTATG
100424190 CAAATTTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (34 bp):
TTACTTATAAATTACAACTTCACCTCAGTATGTG
Found at i:100425036 original size:40 final size:40
Alignment explanation
Indices: 100424977--100425056 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
100424967 ACTTCCAGTC
** *
100424977 TAAGGAAAGAGTTATCCTAAATCCAAAGCCAATTTTAATG
1 TAAGGAAAGAGCAACCCTAAATCCAAAGCCAATTTTAATG
100425017 TAAGGAAAGAGCAACCCTAAATCCAAAGCCAATTTTAATG
1 TAAGGAAAGAGCAACCCTAAATCCAAAGCCAATTTTAATG
100425057 GTTCGTGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (40 bp):
TAAGGAAAGAGCAACCCTAAATCCAAAGCCAATTTTAATG
Found at i:100425388 original size:26 final size:26
Alignment explanation
Indices: 100425352--100425402 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
100425342 ATTGGCAAGT
*
100425352 CATATAAATAAATATATCTTACAATC
1 CATATAAATAAATATATCTCACAATC
100425378 CATATAAATAAATATATCTCACAAT
1 CATATAAATAAATATATCTCACAAT
100425403 TTACAAGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (26 bp):
CATATAAATAAATATATCTCACAATC
Found at i:100429634 original size:2 final size:2
Alignment explanation
Indices: 100429627--100429662 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
100429617 AAATTTTCAA
100429627 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100429663 CTAAATTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100431275 original size:15 final size:15
Alignment explanation
Indices: 100431255--100431295 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
100431245 ATTTTAAATT
100431255 ATATTTTAAAATAAA
1 ATATTTTAAAATAAA
*
100431270 ATATTTT--ATTAAA
1 ATATTTTAAAATAAA
*
100431283 ATATGTTAAAATA
1 ATATTTTAAAATA
100431296 TCTCAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
13 11 0.52
15 10 0.48
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
ATATTTTAAAATAAA
Found at i:100439691 original size:113 final size:109
Alignment explanation
Indices: 100439444--100439852 Score: 493
Period size: 113 Copynumber: 3.7 Consensus size: 109
100439434 GTGTATTTTA
* * * * * * * *
100439444 TTAAGTGTGCATTAAAAGTATGATTTGTTTGTTTTATTATTGTTTTTATGATATCTTATATCAGT
1 TTAAGTTTGTATTAAAGGTATGATTAGTTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGT
* * * *
100439509 TTTATGTATTTAAGATAAATAAATTTTTTATTGTGTTTTATTAGAT
66 TTTTTGTATTTAAGA-GAA-AAATTTTTTTTTGTGTTTTATTAGGT
*
100439555 TTAAGTTTGTATTAACA-GCATGATTAGTTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAG
1 TTAAGTTTGTATTAA-AGGTATGATTAGTTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAG
* *
100439619 TTTTTTTGTATTTAAAGAGAAGGACATTTTTTTTTGTGTTTAATTAGGT
65 -TTTTTTGTATTT-AAGAGAA--AAATTTTTTTTTGTGTTTTATTAGGT
* *
100439668 TTAAGTTTGTATTAAAGGTATGATTAATTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAAT
1 TTAAGTTTGTATTAAAGGTATGATTAGTTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGT
* * *
100439733 TTTTTGTATTTAAGGGAAATA-TTATTTTTGTGTTTTATTAGGT
66 TTTTTGTATTTAAGAGAAAAATTTTTTTTTGTGTTTTATTAGGT
* ** **
100439776 TTAAGTTTGTATTAAAGGTATGATTA-ATT-TTTTATTAATGTTTTTGAAGTATCTTATATCGGT
1 TTAAGTTTGTATTAAAGGTATGATTAGTTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGT
*
100439839 TTTTCGTATTTAAG
66 TTTTTGTATTTAAG
100439853 GTATGAACAT
Statistics
Matches: 264, Mismatches: 29, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
106 42 0.16
107 2 0.01
108 46 0.17
109 2 0.01
111 60 0.23
112 27 0.10
113 85 0.32
ACGTcount: A:0.27, C:0.03, G:0.16, T:0.55
Consensus pattern (109 bp):
TTAAGTTTGTATTAAAGGTATGATTAGTTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGT
TTTTTGTATTTAAGAGAAAAATTTTTTTTTGTGTTTTATTAGGT
Found at i:100440727 original size:14 final size:15
Alignment explanation
Indices: 100440701--100440735 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
100440691 ATTTTCATTA
100440701 TTATTTAAAAATAAT
1 TTATTTAAAAATAAT
100440716 TTATTT-AAAATAAT
1 TTATTTAAAAATAAT
*
100440730 ATATTT
1 TTATTT
100440736 TTAATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTATTTAAAAATAAT
Found at i:100440755 original size:17 final size:17
Alignment explanation
Indices: 100440699--100440757 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 17
100440689 TAATTTTCAT
100440699 TATTATTT-AAA-AATA
1 TATTATTTAAAATAATA
100440714 -ATTTATTTAAAATAATA
1 TA-TTATTTAAAATAATA
*
100440731 TATT-TTTAATATAA-A
1 TATTATTTAAAATAATA
100440746 TATTAATTTAAA
1 TATT-ATTTAAA
100440758 CTTTTTTAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 1 0.03
15 11 0.31
16 12 0.33
17 11 0.31
18 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTATTTAAAATAATA
Found at i:100440845 original size:37 final size:38
Alignment explanation
Indices: 100440726--100440846 Score: 108
Period size: 36 Copynumber: 3.3 Consensus size: 38
100440716 TTATTTAAAA
* * *
100440726 TAATATATT-TTTAATATAAATATTAATTTAAACTTTTT
1 TAATATATTATTTAATAAAAATATAAATTT-AACTTATT
* * * * *
100440764 TAGT-TATTATTTAACAAAAACATAATTTTAATTTATT
1 TAATATATTATTTAATAAAAATATAAATTTAACTTATT
* *
100440801 T--TTTATTATTTAATAAAAATAGAAATTTAA-TTATT
1 TAATATATTATTTAATAAAAATATAAATTTAACTTATT
100440836 TAATATATTAT
1 TAATATATTAT
100440847 AAACATATTT
Statistics
Matches: 66, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
35 7 0.11
36 23 0.35
37 18 0.27
38 18 0.27
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (38 bp):
TAATATATTATTTAATAAAAATATAAATTTAACTTATT
Found at i:100446841 original size:43 final size:43
Alignment explanation
Indices: 100446793--100446880 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
100446783 TTTTTGAGCA
*
100446793 TATTTTCAATTTTTGCTTTTTTCACTCTCAATGCTTTTAGCCC
1 TATTTTCAATTTTTGCTCTTTTCACTCTCAATGCTTTTAGCCC
*
100446836 TATTTTTAATTTTTGCTCTTTTCACTCTCAATGCTTTTAGCCC
1 TATTTTCAATTTTTGCTCTTTTCACTCTCAATGCTTTTAGCCC
100446879 TA
1 TA
100446881 ACCATGCTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.17, C:0.23, G:0.07, T:0.53
Consensus pattern (43 bp):
TATTTTCAATTTTTGCTCTTTTCACTCTCAATGCTTTTAGCCC
Found at i:100451114 original size:10 final size:10
Alignment explanation
Indices: 100451087--100451136 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
100451077 TTAAATTCTA
100451087 AAAGATAAAT
1 AAAGATAAAT
*
100451097 -ACGAATAAAT
1 AAAG-ATAAAT
*
100451107 AAAGATAATT
1 AAAGATAAAT
100451117 AAAGATAAAT
1 AAAGATAAAT
100451127 GAAA-ATAAAT
1 -AAAGATAAAT
100451137 CCTAAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 2 0.06
10 26 0.79
11 5 0.15
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:100453000 original size:22 final size:18
Alignment explanation
Indices: 100452959--100452995 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
100452949 AAAAGAAGAG
100452959 AAATTAATTATCACTCAA
1 AAATTAATTATCACTCAA
100452977 AAATTAATTATCACTCAA
1 AAATTAATTATCACTCAA
100452995 A
1 A
100452996 CAAAATAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATTAATTATCACTCAA
Found at i:100453024 original size:5 final size:5
Alignment explanation
Indices: 100453014--100453113 Score: 91
Period size: 5 Copynumber: 19.4 Consensus size: 5
100453004 AGTAATAAAT
* *
100453014 AATAA AATAA AATAA AATAA AGTAA TGAGT-A AAT-A AATAATA AATAA
1 AATAA AATAA AATAA AATAA AATAA --AATAA AATAA AAT-A-A AATAA
100453061 AATAA AATAA AATAA AA-AA TAATAA AATAA AATAAA AATAA AGA-AA
1 AATAA AATAA AATAA AATAA -AATAA AATAA AAT-AA AATAA A-ATAA
100453107 AATAA AA
1 AATAA AA
100453114 ATTGGGTTGC
Statistics
Matches: 83, Mismatches: 2, Indels: 20
0.79 0.02 0.19
Matches are distributed among these distances:
4 9 0.11
5 57 0.69
6 10 0.12
7 7 0.08
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (5 bp):
AATAA
Done.