Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 230 of 318
Found at i:72471393 original size:60 final size:60
Alignment explanation
Indices: 72471320--72471460 Score: 282
Period size: 60 Copynumber: 2.4 Consensus size: 60
72471310 GCAGACGAAT
72471320 GGCAGGCCATGTCAATAATGACCAAATATTGATTCACTGCTTCCAAGAAAGCCTGGTTGG
1 GGCAGGCCATGTCAATAATGACCAAATATTGATTCACTGCTTCCAAGAAAGCCTGGTTGG
72471380 GGCAGGCCATGTCAATAATGACCAAATATTGATTCACTGCTTCCAAGAAAGCCTGGTTGG
1 GGCAGGCCATGTCAATAATGACCAAATATTGATTCACTGCTTCCAAGAAAGCCTGGTTGG
72471440 GGCAGGCCATGTCAATAATGA
1 GGCAGGCCATGTCAATAATGA
72471461 TCAATTCATG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 81 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (60 bp):
GGCAGGCCATGTCAATAATGACCAAATATTGATTCACTGCTTCCAAGAAAGCCTGGTTGG
Found at i:72478499 original size:8 final size:7
Alignment explanation
Indices: 72478428--72478551 Score: 140
Period size: 7 Copynumber: 17.1 Consensus size: 7
72478418 AAAAACAGGG
72478428 ACCCTAA
1 ACCCTAA
72478435 ACCCTAA
1 ACCCTAA
*
72478442 ACCATAA
1 ACCCTAA
*
72478449 ACCATAA
1 ACCCTAA
72478456 ACCCTAA
1 ACCCTAA
*
72478463 ACTCTAA
1 ACCCTAA
72478470 ACCCTAA
1 ACCCTAA
*
72478477 ACACTAA
1 ACCCTAA
*
72478484 ACCTTAAA
1 ACCCT-AA
72478492 ACCCTAAA
1 ACCCT-AA
72478500 ACCCTAAA
1 ACCCT-AA
*
72478508 ACCATAA
1 ACCCTAA
72478515 ACCCTAA
1 ACCCTAA
*
72478522 ACCCCAA
1 ACCCTAA
72478529 ACCCTAAA
1 ACCCT-AA
72478537 ACCCTAA
1 ACCCTAA
*
72478544 AACCTAA
1 ACCCTAA
72478551 A
1 A
72478552 ACCTTGATGA
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
7 74 0.73
8 28 0.27
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (7 bp):
ACCCTAA
Found at i:72478873 original size:44 final size:44
Alignment explanation
Indices: 72478817--72478968 Score: 121
Period size: 44 Copynumber: 3.5 Consensus size: 44
72478807 GATCTTATCA
* *
72478817 CCCTAAGCAGTAGGGGAACAGATCGAAGACGGTTAGCCTTAACC
1 CCCTAAGAAGTAGGGGAACAGATCGAAGACGGTCAGCCTTAACC
* * * * * * * *
72478861 CCCTAAGAAGTAGGGTAATAG-GCTGAAGA-TGACAGATCTTATCA
1 CCCTAAGAAGTAGGGGAACAGATC-GAAGACGGTCAG-CCTTAACC
* * * *
72478905 CCCTAAGCAGTAGGAGAATAGATCGAAGACGGTGAGCCTTAA-C
1 CCCTAAGAAGTAGGGGAACAGATCGAAGACGGTCAGCCTTAACC
* *
72478948 CCATAAGAAGTAGGGTAACAG
1 CCCTAAGAAGTAGGGGAACAG
72478969 GCCGAACTAC
Statistics
Matches: 79, Mismatches: 25, Indels: 9
0.70 0.22 0.08
Matches are distributed among these distances:
43 20 0.25
44 55 0.70
45 4 0.05
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.18
Consensus pattern (44 bp):
CCCTAAGAAGTAGGGGAACAGATCGAAGACGGTCAGCCTTAACC
Found at i:72479099 original size:86 final size:86
Alignment explanation
Indices: 72478762--72479128 Score: 416
Period size: 86 Copynumber: 4.2 Consensus size: 86
72478752 TGAATTCACA
* * *
72478762 AGCCTTAACCCCCTAAGCAGTAAGGTAACAGGTTGGAAATTTATAGATCTTATCACCCTAAGCAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAA-TTACAGATCTTATCACCCTAAGCAG
*
72478827 TAGGGGAACAGATCGAAGACGGTT
64 TA-GGGAACAGATCGAAGACGGTG
* * *
72478851 AGCCTTAACCCCCTAAGAAGTAGGGTAATAGGCTGAAGATGACAGATCTTATCACCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAA-ATTACAGATCTTATCACCCTAAGCAGT
*
72478916 AGGAGAATAGATCGAAGACGGTG
65 AGG-GAACAGATCGAAGACGGTG
* * * * * * * *
72478939 AGCCTTAA-CCCATAAGAAGTAGGGTAACAGGCCG-AACTACAGATCTTGTCTCCCTAAACACTA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAATTACAGATCTTATCACCCTAAGCAGTA
**
72479002 GCGGAGTAGATCGAAGACGGTG
66 G-GGAACAGATCGAAGACGGTG
* * * * *
72479024 ATCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTG-AATTAAAGATCTTATCTCCTTAAGCAGTA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAATTACAGATCTTATCACCCTAAGCAGTA
* *
72479088 GTGGAGCAGATCAAAGACGGTG
66 G-GGAACAGATCGAAGACGGTG
*
72479110 AGCTTTAACCCCCTAAGCA
1 AGCCTTAACCCCCTAAGCA
72479129 ATAGTGGAGC
Statistics
Matches: 240, Mismatches: 34, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
85 48 0.20
86 83 0.35
87 25 0.10
88 53 0.22
89 31 0.13
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (86 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAATTACAGATCTTATCACCCTAAGCAGTA
GGGAACAGATCGAAGACGGTG
Found at i:72479142 original size:44 final size:44
Alignment explanation
Indices: 72479079--72479172 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
72479069 CTTATCTCCT
* * *
72479079 TAAGCAGTAGTGGAGCAGATCAAAGACGGT-GAGCTTTAACCCCC
1 TAAGCAATAGTGGAGCAGATCAAAGACGATGGA-CCTTAACCCCC
*
72479123 TAAGCAATAGTGGAGCAGATCGAAGACGATGGACCTTAACCCCC
1 TAAGCAATAGTGGAGCAGATCAAAGACGATGGACCTTAACCCCC
72479167 TAAGCA
1 TAAGCA
72479173 GTAGGTTAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 43 0.96
45 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (44 bp):
TAAGCAATAGTGGAGCAGATCAAAGACGATGGACCTTAACCCCC
Found at i:72479166 original size:130 final size:132
Alignment explanation
Indices: 72478990--72479236 Score: 356
Period size: 130 Copynumber: 1.9 Consensus size: 132
72478980 GATCTTGTCT
* * *
72478990 CCCTAAACACTAGCGGAGTAGATCGAAGACGGTGATCCTTAACCCCCTAAGCAGTAGGGTAACAA
1 CCCTAAACAATAGCGGAGCAGATCGAAGACGATGATCCTTAACCCCCTAAGCAGTAGGGTAACAA
*
72479055 GCTG-A-ATTAAAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCTTTAA
66 GCTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCTTTAA
72479118 CC
131 CC
* * *
72479120 CCCTAAGCAATAGTGGAGCAGATCGAAGACGATGGA-CCTTAACCCCCTAAGCAGTAGGTTAACA
1 CCCTAAACAATAGCGGAGCAGATCGAAGACGAT-GATCCTTAACCCCCTAAGCAGTAGGGTAACA
* * * * *
72479184 GGCTGAAGATTATATATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
65 AGCTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA
72479237 TGATGGACCT
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
130 59 0.58
131 3 0.03
132 40 0.39
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (132 bp):
CCCTAAACAATAGCGGAGCAGATCGAAGACGATGATCCTTAACCCCCTAAGCAGTAGGGTAACAA
GCTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCTTTAA
CC
Found at i:72479192 original size:44 final size:43
Alignment explanation
Indices: 72479144--72479277 Score: 110
Period size: 44 Copynumber: 3.1 Consensus size: 43
72479134 GGAGCAGATC
*
72479144 GAAGACGATGGACCTTAACCCCCTAAGCAGTAGGTTAACAGGCT
1 GAAGATGATGGACCTTAACCCCCTAAGCAGTAGGTTAACA-GCT
* ** * ** * * * *
72479188 GAAGATTATATATCTTGTCTCCCTAAGCAGTA-GTGGAGCAGAT
1 GAAGATGATGGACCTTAACCCCCTAAGCAGTAGGT-TAACAGCT
*
72479231 CGAAGATGATGGACCTTAA-CCCCTAAGCAGTAGGGTAACAAGCT
1 -GAAGATGATGGACCTTAACCCCCTAAGCAGTAGGTTAAC-AGCT
72479275 GAA
1 GAA
72479278 TTACAGTTCT
Statistics
Matches: 64, Mismatches: 22, Indels: 9
0.67 0.23 0.09
Matches are distributed among these distances:
43 21 0.33
44 43 0.67
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (43 bp):
GAAGATGATGGACCTTAACCCCCTAAGCAGTAGGTTAACAGCT
Found at i:72479231 original size:88 final size:87
Alignment explanation
Indices: 72479120--72479401 Score: 390
Period size: 88 Copynumber: 3.2 Consensus size: 87
72479110 AGCTTTAACC
* * *
72479120 CCCTAAGCAATAGTGGAGCAGATCGAAGACGATGGACCTTAACCCCCTAAGCAGTAGGTTAACAG
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGATGATGGACCTTAACCCCCTAAGCAGTAGGGTAACAG
72479185 GCTGAAGATTATATATCTTGTCT
66 GCTGAA-ATTATATATCTTGTCT
*
72479208 CCCTAAGCAGTAGTGGAGCAGATCGAAGATGATGGACCTTAA-CCCCTAAGCAGTAGGGTAACAA
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGATGATGGACCTTAACCCCCTAAGCAGTAGGGTAACAG
*
72479272 GCTG-AATTACAGT-TCTTGTCT
66 GCTGAAATTATA-TATCTTGTCT
* * * * *
72479293 CCCTAAGCAGTAATGGAACAGATCGAAGATGAAGGGCCTTAACCCCCTAAGTAGTAGGGTAACAG
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGATGATGGACCTTAACCCCCTAAGCAGTAGGGTAACAG
* * *
72479358 GCTAAAAATTATAGATCTTGTTT
66 GCT-GAAATTATATATCTTGTCT
*
72479381 CCCTAAGCAGTAGTAGAGCAG
1 CCCTAAGCAGTAGTGGAGCAG
72479402 GTTGAAATCA
Statistics
Matches: 171, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
85 51 0.30
86 25 0.15
87 24 0.14
88 71 0.42
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.23
Consensus pattern (87 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAGATGATGGACCTTAACCCCCTAAGCAGTAGGGTAACAG
GCTGAAATTATATATCTTGTCT
Found at i:72480528 original size:10 final size:9
Alignment explanation
Indices: 72480509--72480548 Score: 62
Period size: 9 Copynumber: 4.2 Consensus size: 9
72480499 ACAGACATAT
72480509 ATAAAAAAA
1 ATAAAAAAA
72480518 ATAAAAGAAA
1 ATAAAA-AAA
72480528 ATATAAAAAA
1 ATA-AAAAAA
72480538 ATAAAAAAA
1 ATAAAAAAA
72480547 AT
1 AT
72480549 TCCTTTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 14 0.48
10 12 0.41
11 3 0.10
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:72480533 original size:21 final size:19
Alignment explanation
Indices: 72480507--72480548 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 19
72480497 ATACAGACAT
72480507 ATATAAAAAAAATAAAAGAAA
1 ATAT-AAAAAAATAAAA-AAA
72480528 ATATAAAAAAATAAAAAAA
1 ATATAAAAAAATAAAAAAA
72480547 AT
1 AT
72480549 TCCTTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.24
20 12 0.57
21 4 0.19
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (19 bp):
ATATAAAAAAATAAAAAAA
Found at i:72481155 original size:3 final size:3
Alignment explanation
Indices: 72481147--72481298 Score: 134
Period size: 3 Copynumber: 50.3 Consensus size: 3
72481137 ATCATTTACT
* *
72481147 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
72481195 TTA -TA CTT- GTA CTTA -TA TTTA TT- TTA TTC TAA TGCCA TTT TTA
1 TTA TTA -TTA TTA -TTA TTA -TTA TTA TTA TTA TTA T--TA TTA TTA
* *
72481238 TTA CTA TT- TCCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
72481283 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
72481299 ATATACATAT
Statistics
Matches: 123, Mismatches: 15, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
2 8 0.07
3 107 0.87
4 6 0.05
5 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:72481362 original size:12 final size:12
Alignment explanation
Indices: 72481347--72481375 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
72481337 ATATTATTTA
72481347 TATTATTACTAT
1 TATTATTACTAT
72481359 TATTATTACTAT
1 TATTATTACTAT
72481371 TATTA
1 TATTA
72481376 CTATTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:72481364 original size:21 final size:21
Alignment explanation
Indices: 72481338--72481380 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
72481328 TTCATACATA
72481338 TATTATTTA-TATTATTACTAT
1 TATTA-TTACTATTATTACTAT
72481359 TATTATTACTATTATTACTAT
1 TATTATTACTATTATTACTAT
72481380 T
1 T
72481381 TCTTTTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATTACTATTATTACTAT
Found at i:72481468 original size:26 final size:26
Alignment explanation
Indices: 72481439--72481532 Score: 75
Period size: 26 Copynumber: 3.6 Consensus size: 26
72481429 ATTATCATTC
72481439 TTATTAATACATTATTACTATTATTT
1 TTATTAATACATTATTACTATTATTT
** **
72481465 TTATTTTTATTTTATTACTATTACTTTT
1 TTATTAATACATTATTACTATTA--TTT
* * *
72481493 TTATTATTAC--TACTACTGTTATTT
1 TTATTAATACATTATTACTATTATTT
* *
72481517 TTATTAACATATTATT
1 TTATTAATACATTATT
72481533 TTTATCATAT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
24 10 0.19
26 31 0.60
28 11 0.21
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.62
Consensus pattern (26 bp):
TTATTAATACATTATTACTATTATTT
Found at i:72481502 original size:14 final size:14
Alignment explanation
Indices: 72481462--72481503 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
72481452 ATTACTATTA
*
72481462 TTTTTATTTTTA-T
1 TTTTTATTATTACT
*
72481475 TTTATTACTATTACT
1 TTT-TTATTATTACT
72481490 TTTTTATTATTACT
1 TTTTTATTATTACT
72481504 ACTACTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 3 0.12
14 17 0.71
15 4 0.17
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTATTATTACT
Found at i:72481548 original size:28 final size:26
Alignment explanation
Indices: 72481512--72481575 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
72481502 CTACTACTGT
*
72481512 TATTTTTATTAACATATTATTTTTATCA
1 TATTATTATTAACATATT-TTTTTAT-A
* * *
72481540 TATTATTATT-TCCTATTTTTTTGTA
1 TATTATTATTAACATATTTTTTTATA
72481565 TATTATTATTA
1 TATTATTATTA
72481576 TTAATGTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 11 0.35
26 6 0.19
27 5 0.16
28 9 0.29
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (26 bp):
TATTATTATTAACATATTTTTTTATA
Found at i:72481712 original size:3 final size:3
Alignment explanation
Indices: 72481706--72481759 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
72481696 CCTACTTAGC
* * * * *
72481706 TAT TAT TAT TAT TAT TAT TTT TAC TAT TAT AAT TAT TAT TAA TCT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
72481753 TAT TAT T
1 TAT TAT T
72481760 CTCTTACATT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:72500728 original size:9 final size:9
Alignment explanation
Indices: 72500714--72500738 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
72500704 GCCATATCCT
72500714 TGTTTGAAA
1 TGTTTGAAA
72500723 TGTTTGAAA
1 TGTTTGAAA
72500732 TGTTTGA
1 TGTTTGA
72500739 GCTATCATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (9 bp):
TGTTTGAAA
Found at i:72506136 original size:40 final size:40
Alignment explanation
Indices: 72506092--72506280 Score: 315
Period size: 40 Copynumber: 4.7 Consensus size: 40
72506082 GCTACAAGCT
72506092 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
72506132 CAAATGCCTTCAGGACCTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
72506172 CGAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
72506212 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
72506252 CAAATGCCTTCGGGACTTAGCCTGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
72506281 CAATCCGAAT
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:72514164 original size:40 final size:40
Alignment explanation
Indices: 72514120--72514308 Score: 290
Period size: 40 Copynumber: 4.7 Consensus size: 40
72514110 GCTACTAGCT
*
72514120 CAAATGCCTTCGGGGCTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
72514160 CAAATGCCTTAGGGAGC-TAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCGCA
* * *
72514200 CGAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
72514240 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
72514280 CAAATGCCTTCAGGACTGAGCACGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
72514309 CAATCCGAAT
Statistics
Matches: 135, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 133 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:72517951 original size:2 final size:2
Alignment explanation
Indices: 72517944--72517981 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
72517934 TGATACTTTG
72517944 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
72517982 GAAACGATTA
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:72519530 original size:27 final size:27
Alignment explanation
Indices: 72519190--72519529 Score: 405
Period size: 27 Copynumber: 12.6 Consensus size: 27
72519180 AAAGTACTCC
*
72519190 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
72519217 CGATTTATAGAATTACCGTTTTAACCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
72519244 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
72519271 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
72519298 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
72519325 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
72519351 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
72519379 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
72519406 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
72519433 CGATTTACAGTATTTCCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
72519460 CGATTTATAGAATTGCTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
72519487 TGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
72519514 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
72519530 TAAAATACCC
Statistics
Matches: 270, Mismatches: 39, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 266 0.99
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:72519540 original size:81 final size:81
Alignment explanation
Indices: 72519190--72519529 Score: 461
Period size: 81 Copynumber: 4.2 Consensus size: 81
72519180 AAAGTACTCC
* * * *
72519190 CGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTAACCTCGATTTGTAAA
1 CGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATAGA
*
72519255 ATTACCATTTTACCCT
66 ATTACCGTTTTACCCT
* *
72519271 CGATTTACAGAATTACCGTTTTACCCTC-AGTTTATAGAATTACTATTTTACCCTCGATTTATAG
1 CGATTTACAGAATTACCATTTTACCCTCGA-TTTATAGAATTACTGTTTTACCCTCGATTTATAG
72519335 AATTACCGTTTTACCC-
65 AATTACCGTTTTACCCT
* * * * * *
72519351 CTAATTTACATAATTACCATTTTACCCCCGATTTACATAATTA-TCGTTTTACCCTCGATTTACA
1 C-GATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACT-GTTTTACCCTCGATTTATA
72519415 GAATTACCGTTTTACCCT
64 GAATTACCGTTTTACCCT
* * * *
72519433 CGATTTACAGTATTTCCATTTTACCCTCGATTTATAGAATTGCTGTTTTACCCTTGATTTATAGA
1 CGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATAGA
*
72519498 ATTACTGTTTTACCCT
66 ATTACCGTTTTACCCT
*
72519514 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
72519530 TAAAATACCC
Statistics
Matches: 224, Mismatches: 29, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
80 3 0.01
81 218 0.97
82 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (81 bp):
CGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATAGA
ATTACCGTTTTACCCT
Found at i:72520900 original size:11 final size:11
Alignment explanation
Indices: 72520864--72520919 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
72520854 TATGGTATGT
72520864 ATGATATGCAC
1 ATGATATGCAC
* *
72520875 ATGAAATG--T
1 ATGATATGCAC
72520884 ATGATATGCAC
1 ATGATATGCAC
*
72520895 ATGATATG--T
1 ATGATATGCAC
72520904 ATGATATGCAC
1 ATGATATGCAC
72520915 ATGAT
1 ATGAT
72520920 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:72520919 original size:20 final size:20
Alignment explanation
Indices: 72520859--72520919 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
72520849 ATAAATATGG
72520859 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
72520879 AATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
72520899 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
72520919 T
1 T
72520920 GTAATCATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:72520996 original size:24 final size:24
Alignment explanation
Indices: 72520969--72521111 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
72520959 GAGGAAGTGA
72520969 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
72520993 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
72521017 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
72521040 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
72521064 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
72521088 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
72521112 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:72521062 original size:47 final size:47
Alignment explanation
Indices: 72520969--72521111 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
72520959 GAGGAAGTGA
72520969 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
72521017 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
72521064 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
72521112 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:72521085 original size:71 final size:72
Alignment explanation
Indices: 72520969--72521112 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
72520959 GAGGAAGTGA
*
72520969 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
72521032 CCAGTTAT
65 CCAGTTAT
** * *
72521040 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
72521105 CAGTTAT
66 CAGTTAT
72521112 A
1 A
72521113 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:72521338 original size:31 final size:31
Alignment explanation
Indices: 72521303--72521366 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
72521293 AGTTTACAGT
72521303 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
72521334 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
72521365 AA
1 AA
72521367 CATGCAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:72523196 original size:30 final size:29
Alignment explanation
Indices: 72523149--72523210 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 29
72523139 AGGTTCCATT
72523149 TCAATCATCCATCATGATAAACCTCATCA
1 TCAATCATCCATCATGATAAACCTCATCA
72523178 TCAATCATCCAGTCATGATAAACCTCATCA
1 TCAATCATCCA-TCATGATAAACCTCATCA
72523208 TCA
1 TCA
72523211 TATCTCATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.37, C:0.31, G:0.05, T:0.27
Consensus pattern (29 bp):
TCAATCATCCATCATGATAAACCTCATCA
Found at i:72524843 original size:54 final size:54
Alignment explanation
Indices: 72524761--72524869 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
72524751 CATGCCTGGT
72524761 TCAAATTTCTAACATGAACCCTAGCTTGAAATATGGGTAGAAATGGATAGAGCA
1 TCAAATTTCTAACATGAACCCTAGCTTGAAATATGGGTAGAAATGGATAGAGCA
72524815 TCAAATTTCTAACATGAACCCTAGCTTGAAATATGGGTAGAAATGGATAGAGCA
1 TCAAATTTCTAACATGAACCCTAGCTTGAAATATGGGTAGAAATGGATAGAGCA
72524869 T
1 T
72524870 GTTACGAGGG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (54 bp):
TCAAATTTCTAACATGAACCCTAGCTTGAAATATGGGTAGAAATGGATAGAGCA
Found at i:72526076 original size:47 final size:46
Alignment explanation
Indices: 72526014--72526223 Score: 224
Period size: 48 Copynumber: 4.5 Consensus size: 46
72526004 TTTGTATGCT
*
72526014 AGTGTAAGACCATGTTGGACATGGCATCGTCATTGATTATGAGAGCC
1 AGTGTAAGACCATGTTGGACATGGCATCGGCATTGA-TATGAGAGCC
* ** *
72526061 AGTGTAAGACCATGTTGGACATGGCATCTGTGTTGAT-TGTGAGCC
1 AGTGTAAGACCATGTTGGACATGGCATCGGCATTGATATGAGAGCC
* * * * *
72526106 AGTGTAAGACCATGTTGGACATGGCCTTGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTTGGACATGGCATCGGCATTGATATGAGAGCC
* * ** * *
72526152 AGTGTAAGGCCATGTCTGGGACATGGCATCGGCCTCAACATGTGAGCC
1 AGTGTAAGACCATGT-T-GGACATGGCATCGGCATTGATATGAGAGCC
72526200 AGTGTAAGACCATGTCTGGGACAT
1 AGTGTAAGACCATGT-T-GGACAT
72526224 AACATCAGTA
Statistics
Matches: 135, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
45 38 0.28
46 20 0.15
47 33 0.24
48 44 0.33
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACCATGTTGGACATGGCATCGGCATTGATATGAGAGCC
Found at i:72526120 original size:92 final size:94
Alignment explanation
Indices: 72525961--72526223 Score: 282
Period size: 92 Copynumber: 2.8 Consensus size: 94
72525951 GGTGACATGT
* * * *** *
72525961 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTTTGT-ATGCTAGTGTAAGACC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAACATGTGA-GCCAGTGTAAGACC
* * *
72526025 ATGTTGGACATGGCATCGTCATTGATTATGA
65 ATGTTGGACATGGCATCGGCATTGA-GACGA
* ** ** *
72526056 GAGCCAGTGTAAGACCATGT-T-GGACATGGCATCTGTGTTGA-TTGTGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAACATGTGAGCCAGTGTAAGACCA
* *
72526118 TGTTGGACATGGCCTTGGCATTGAGACGA
66 TGTTGGACATGGCATCGGCATTGAGACGA
* *
72526147 GAGCTAGTGTAAGGCCATGTCTGGGACATGGCATCGGCCTCAACATGTGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAACATGTGAGCCAGTGTAAGACCA
72526212 TGTCTGGGACAT
66 TGT-T-GGACAT
72526224 AACATCAGTA
Statistics
Matches: 139, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
91 21 0.15
92 40 0.29
93 28 0.20
94 24 0.17
95 20 0.14
96 6 0.04
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (94 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAACATGTGAGCCAGTGTAAGACCA
TGTTGGACATGGCATCGGCATTGAGACGA
Found at i:72526204 original size:48 final size:46
Alignment explanation
Indices: 72525955--72526223 Score: 191
Period size: 48 Copynumber: 5.7 Consensus size: 46
72525945 ATTTGGGGTG
* * *
72525955 ACATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACA
1 ACATGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCCTCA
*** * * * *
72526003 TTTTGT-ATGCTAGTGTAAGACCATGTTGGACATGGCATCGTCATTGA
1 ACATGTGA-GCCAGTGTAAGACCATGTTGGACATGGCATCGGC-CTCA
** * * ** **
72526050 TTATGAGAGCCAGTGTAAGACCATGTTGGACATGGCATCTGTGTTG
1 ACATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCTCA
* * * * **
72526096 A-TTGTGAGCCAGTGTAAGACCATGTTGGACATGGCCTTGGCATTG
1 ACATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCTCA
* * * * *
72526141 AGACGAGAGCTAGTGTAAGGCCATGTCTGGGACATGGCATCGGCCTCA
1 ACATGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCCTCA
72526189 ACATGTGAGCCAGTGTAAGACCATGTCTGGGACAT
1 ACATGTGAGCCAGTGTAAGACCATGT-T-GGACAT
72526224 AACATCAGTA
Statistics
Matches: 175, Mismatches: 40, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
45 38 0.22
46 33 0.19
47 38 0.22
48 66 0.38
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (46 bp):
ACATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCTCA
Found at i:72527783 original size:40 final size:39
Alignment explanation
Indices: 72527706--72527791 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
72527696 TAACGACTTA
**
72527706 TCGGCTAAAATGGCACTTAGTGTGCGGTTCGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
* * *
72527745 TCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCT
*
72527785 TTGGCTA
1 TCGGCTA
72527792 TATATATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 10 0.25
40 30 0.75
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
Found at i:72530574 original size:50 final size:50
Alignment explanation
Indices: 72530515--72530659 Score: 172
Period size: 50 Copynumber: 2.9 Consensus size: 50
72530505 CAATACATGT
*
72530515 AAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGA-A-AAGAGG
1 AAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGCCACGATATAAGA-G
* *
72530564 AAAGCTAGTGTAAGACCATGTTTGGGATATGGCATCAGCCTCGATATAAGAG
1 -AAGCTAGTGTAAGACCATGTTTGGGACATGGCATC-GCCACGATATAAGAG
* * *
72530616 -AG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATAT
1 AAGCT-AGTGTAAGACCATGTTTGGGACATGGCATCGCCACGATAT
72530660 GTGATTAAAT
Statistics
Matches: 85, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
49 10 0.12
50 64 0.75
51 5 0.06
52 2 0.02
53 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (50 bp):
AAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGCCACGATATAAGAG
Found at i:72530684 original size:47 final size:49
Alignment explanation
Indices: 72530572--72530696 Score: 155
Period size: 47 Copynumber: 2.6 Consensus size: 49
72530562 GGAAAGCTAG
* * * * *
72530572 TGTAAGACCATGTTTGGGATATGGCATCAGCCTCGATATAAGAGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGACTCGATAT-AGAGAGTAAA
* *
72530622 TGTAAGACCATGTCTGGGACATGGCATC-GACTCGATAT-GTGATTAAA
1 TGTAAGACCATGTCTGGGACATGGCATCAGACTCGATATAGAGAGTAAA
72530669 TGTAAGACCATGTCTGGGACATTGGCAT
1 TGTAAGACCATGTCTGGGACA-TGGCAT
72530697 TGTATTGTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
47 26 0.39
48 6 0.09
49 9 0.13
50 26 0.39
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGACTCGATATAGAGAGTAAA
Found at i:72530759 original size:43 final size:43
Alignment explanation
Indices: 72530622--72530765 Score: 132
Period size: 43 Copynumber: 3.3 Consensus size: 43
72530612 AGAGAGTCAG
72530622 TGTAAGACCATGTCTGGGACA-TGGCATCGACTCGATATGTGATTAA-A
1 TGTAAGACCATGTCTGGGACAGTGG---C-A-TCGATATGTGA-TAACA
* * * ** *
72530669 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTAATTTCG
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATA-TGTGATAACA
* *
72530712 TGTAAGACCCTGTGTGGGACAGTGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGATAACA
72530755 TGTAAGACCAT
1 TGTAAGACCAT
72530766 ATCTAGGATA
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
42 3 0.04
43 48 0.61
44 3 0.04
45 1 0.01
47 21 0.27
48 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGATAACA
Found at i:72532250 original size:26 final size:26
Alignment explanation
Indices: 72532221--72532280 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
72532211 TTCATTATTA
* *
72532221 TTCTCTTATGAGTTATGT-TCTCGGGT
1 TTCTCTTATGAGAT-TGTATCTAGGGT
* *
72532247 TTCTGTTGTGAGATTGTATCTAGGGT
1 TTCTCTTATGAGATTGTATCTAGGGT
72532273 TT-TCTTAT
1 TTCTCTTAT
72532281 CATCCTCACT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.13, C:0.12, G:0.23, T:0.52
Consensus pattern (26 bp):
TTCTCTTATGAGATTGTATCTAGGGT
Found at i:72532865 original size:15 final size:16
Alignment explanation
Indices: 72532834--72532867 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
72532824 TAACCGAATG
72532834 ATGTTGTTATGAGTTA
1 ATGTTGTTATGAGTTA
*
72532850 ATGTTGTTCT-AGTTA
1 ATGTTGTTATGAGTTA
72532865 ATG
1 ATG
72532868 AGATTATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.50
Consensus pattern (16 bp):
ATGTTGTTATGAGTTA
Found at i:72534729 original size:40 final size:39
Alignment explanation
Indices: 72534652--72534737 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 39
72534642 TAACGACTTA
**
72534652 TCGGCTAAAATGACACTTAGTGTGCGGTTCGAAATAGCT
1 TCGGCTAAAATGACACTTAGTGTGCAATTCGAAATAGCT
* * * *
72534691 TCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGACACTTAGTGTGCAATTCGAAATAGCT
*
72534731 TTGGCTA
1 TCGGCTA
72534738 TATATATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 10 0.26
40 29 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (39 bp):
TCGGCTAAAATGACACTTAGTGTGCAATTCGAAATAGCT
Found at i:72543272 original size:48 final size:45
Alignment explanation
Indices: 72543102--72543315 Score: 221
Period size: 48 Copynumber: 4.6 Consensus size: 45
72543092 TTTGTATGCT
* *
72543102 AGTGTAAGACCATGTTGGACATGGCATCAGCATTGATTATAAGAGCC
1 AGTGTAAGACCATGTTGGACATGGCATCGGCATTGA--ATGAGAGCC
* * ** * *
72543149 ATTGTAAGACCTTGTTGGACATGGCATCGGTGTTGATTGTGAGCC
1 AGTGTAAGACCATGTTGGACATGGCATCGGCATTGAATGAGAGCC
* *
72543194 AGTGTAAGACCATGTTGGACATGGCCTCGGCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTTGGACATGGCATCGGCATTGA-ATGAGAGCC
* * * *
72543240 AGTGTAAGGCCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGT-T-GGACATGGCATCGGCATTGA-ATGAGAGCC
*
72543288 CGTGTAAGACCATGTCTGGGACATGGCA
1 AGTGTAAGACCATGT-T-GGACATGGCA
72543316 GTGGTAATTC
Statistics
Matches: 139, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
45 37 0.27
46 20 0.14
47 32 0.23
48 50 0.36
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACCATGTTGGACATGGCATCGGCATTGAATGAGAGCC
Found at i:72552121 original size:25 final size:25
Alignment explanation
Indices: 72552093--72552153 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
72552083 TCAATTTAGG
* *
72552093 GTTTGGTTTGGGGGTTTTAAATTCA
1 GTTTGGTTTGGGGGATTCAAATTCA
* *
72552118 GTTTCGATTT-GGGGATTCAATTTCA
1 GTTT-GGTTTGGGGGATTCAAATTCA
72552143 GATTTGGTTTG
1 G-TTTGGTTTG
72552154 TGCTTTCGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.16, C:0.07, G:0.30, T:0.48
Consensus pattern (25 bp):
GTTTGGTTTGGGGGATTCAAATTCA
Found at i:72553477 original size:84 final size:84
Alignment explanation
Indices: 72553336--72553504 Score: 320
Period size: 84 Copynumber: 2.0 Consensus size: 84
72553326 TAGTCATATT
72553336 ATTTGGTAGTTTCCATTCAATAATAGCAGAAACTTTACTGGAATCAACCCTAATACCATCACTCG
1 ATTTGGTAGTTTCCATTCAATAATAGCAGAAACTTTACTGGAATCAACCCTAATACCATCACTCG
72553401 AAACAATATGGCCCAAAAA
66 AAACAATATGGCCCAAAAA
* *
72553420 ATTTGGTGGTTTCTATTCAATAATAGCAGAAACTTTACTGGAATCAACCCTAATACCATCACTCG
1 ATTTGGTAGTTTCCATTCAATAATAGCAGAAACTTTACTGGAATCAACCCTAATACCATCACTCG
72553485 AAACAATATGGCCCAAAAA
66 AAACAATATGGCCCAAAAA
72553504 A
1 A
72553505 CTGACTTCTC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (84 bp):
ATTTGGTAGTTTCCATTCAATAATAGCAGAAACTTTACTGGAATCAACCCTAATACCATCACTCG
AAACAATATGGCCCAAAAA
Found at i:72555257 original size:29 final size:28
Alignment explanation
Indices: 72555225--72555327 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
72555215 GTGACGAGAT
* *
72555225 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
72555254 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
72555283 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
72555312 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
72555328 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:72563733 original size:39 final size:39
Alignment explanation
Indices: 72563676--72563991 Score: 524
Period size: 39 Copynumber: 8.1 Consensus size: 39
72563666 AAGCAAGACA
72563676 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
*
72563715 CTAGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
*
72563754 CTGGAAATGTATCCGGGCTAAAGACCCTCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
* * *
72563793 TTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
72563832 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
*
72563871 CTGGAAATGTATCTGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
* * *
72563910 CTGGAAATGTATCAGGGCTAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
* * *
72563949 CTGGAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
72563988 CTGG
1 CTGG
72563992 TAATATAATT
Statistics
Matches: 259, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 259 1.00
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
Found at i:72567245 original size:20 final size:20
Alignment explanation
Indices: 72567207--72567245 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
72567197 TGTTTCTCTA
*
72567207 ACCATAAACATGCATAATCT
1 ACCATAAACATGCAAAATCT
72567227 ACCATTAAACAT-CAAAATC
1 ACCA-TAAACATGCAAAATC
72567246 CACAAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.49, C:0.26, G:0.03, T:0.23
Consensus pattern (20 bp):
ACCATAAACATGCAAAATCT
Found at i:72570796 original size:27 final size:27
Alignment explanation
Indices: 72570370--72570795 Score: 550
Period size: 27 Copynumber: 15.8 Consensus size: 27
72570360 CCTCAAATTG
***
72570370 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
72570397 TAAAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
*
72570424 TAAAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* *
72570451 TAGAATTACAATTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* **
72570478 TAGAATTATAATTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
*
72570505 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* *
72570532 TAGAATTGCCATTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* *
72570559 TAAAATTATCGTTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
*
72570586 TAAAATTACCATTTTACCCTAGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
*
72570613 TAAAATTACCATTTTACCCTTGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* *
72570640 TAGAATTACTATTTTACCC-CTGATTTA
1 TAAAATTACCATTTTACCCTC-GATTTA
* *
72570667 CAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* ***
72570694 TAGAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* *
72570721 TAAAATTATCGTTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
*
72570748 CAAAATTACCATTTTACCCTC-AGTTTA
1 TAAAATTACCATTTTACCCTCGA-TTTA
* * *
72570775 CAAAATTATCGTTTTACCCTC
1 TAAAATTACCATTTTACCCTC
72570796 AATTGTGAAA
Statistics
Matches: 357, Mismatches: 39, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 355 0.99
28 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (27 bp):
TAAAATTACCATTTTACCCTCGATTTA
Found at i:72570881 original size:27 final size:26
Alignment explanation
Indices: 72570851--72570929 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
72570841 ATACCACTGG
72570851 TTTGAGAAATTACCGAAATACCCTTAA
1 TTTGA-AAATTACCGAAATACCCTTAA
* * *
72570878 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTG-AAAATTACCGAAATACCCTTAA
* *
72570905 TTTACAAAATTACAGAAATACCCTT
1 TTT-GAAAATTACCGAAATACCCTT
72570930 GACTTTTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
27 42 0.98
28 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (26 bp):
TTTGAAAATTACCGAAATACCCTTAA
Found at i:72570974 original size:27 final size:26
Alignment explanation
Indices: 72570937--72570992 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
72570927 CTTGACTTTT
*
72570937 TTTAAAAATTA-TAGGAATACCATTGG
1 TTTAAAAATTACT-GAAATACCATTGG
*
72570963 TTTACAAAATTACTGAAATACCCTTGG
1 TTTA-AAAATTACTGAAATACCATTGG
72570990 TTT
1 TTT
72570993 GTAGATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (26 bp):
TTTAAAAATTACTGAAATACCATTGG
Found at i:72571076 original size:27 final size:27
Alignment explanation
Indices: 72571046--72571106 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
72571036 ACCCGTAATA
72571046 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAAAGACCGTAATA-CCCCTGTAG
** * *
72571073 GGTAAAGTGACCGTAATACCCTTGTAT
1 GGTAAAAAGACCGTAATACCCCTGTAG
72571100 GGTAAAA
1 GGTAAAA
72571107 TGATGAATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (27 bp):
GGTAAAAAGACCGTAATACCCCTGTAG
Found at i:72571947 original size:25 final size:24
Alignment explanation
Indices: 72571913--72571982 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
72571903 AGGAAGTGCT
72571913 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTCTGCCCCAGTTTACC
*
72571937 GAAAAGGGCTCTGCCCCAGTTTATC
1 -AAAAGGGCTCTGCCCCAGTTTACC
*
72571962 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTCTGCCCCAGTT
72571983 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (24 bp):
AAAAGGGCTCTGCCCCAGTTTACC
Found at i:72571995 original size:24 final size:24
Alignment explanation
Indices: 72571912--72571995 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
72571902 GAGGAAGTGC
*
72571912 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTCTGCCCCAGTTTA-T
*
72571937 GAAAAGGGCTCTGCCCCAGTTTAT
1 TAAAAGGGCTCTGCCCCAGTTTAT
* *
72571961 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTCTGCCCCAGTTTAT
72571985 TAAAAGAGGCT
1 TAAAAG-GGCT
72571996 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (24 bp):
TAAAAGGGCTCTGCCCCAGTTTAT
Found at i:72572188 original size:42 final size:42
Alignment explanation
Indices: 72572129--72572220 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
72572119 TAGTCTCCCC
* ** *
72572129 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
72572171 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
72572213 AAATGGGC
1 AAATGGGC
72572221 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:72572280 original size:31 final size:31
Alignment explanation
Indices: 72572244--72572378 Score: 243
Period size: 31 Copynumber: 4.4 Consensus size: 31
72572234 CGTTTACAGT
*
72572244 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
72572275 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
72572306 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
72572337 AAAGGCTTTGGCCGAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
72572368 AAAGGCTTCGG
1 AAAGGCTTCGG
72572379 TTCAGTAACC
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 100 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:72574678 original size:27 final size:27
Alignment explanation
Indices: 72574659--72575074 Score: 548
Period size: 27 Copynumber: 15.4 Consensus size: 27
72574649 ATTACCAAAG
* *
72574659 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
72574686 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * *
72574713 TACCCTTGATTTATAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
72574740 TACCCTCGATTTATAGAATTACAATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
72574767 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
72574794 TACCCTCGATTTATAGAATTGCCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * **
72574821 TACCCTTGATTTATAAAATAACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
72574848 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
72574875 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
72574902 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
72574929 TACCAC-CGATTTATAAAATTACCATTT
1 TACC-CTCGATTTATAGAATTACCATTT
***
72574956 TACCCTCGATTTATAGAATTACCAAAG
1 TACCCTCGATTTATAGAATTACCATTT
* * *
72574983 TACCCTCGATTTATAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
72575010 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
72575037 TACCTTC-AGTTTACAAAATTACCATTT
1 TACCCTCGA-TTTATAGAATTACCATTT
72575064 TACCCTCGATT
1 TACCCTCGATT
72575075 GTGAAATTAC
Statistics
Matches: 341, Mismatches: 44, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 337 0.99
28 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:72575109 original size:27 final size:27
Alignment explanation
Indices: 72575077--72575148 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
72575067 CCTCGATTGT
72575077 GAAATTACTGAAATACCCCT-GTAGGA
1 GAAATTACTGAAATACCCCTAGTAGGA
* ** * **
72575103 TAGAATTACCAAAATACCACTAGTTTGA
1 GA-AATTACTGAAATACCCCTAGTAGGA
72575131 GAAATTACTGAAATACCC
1 GAAATTACTGAAATACCC
72575149 TTAATTTGTA
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.82
28 5 0.15
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (27 bp):
GAAATTACTGAAATACCCCTAGTAGGA
Found at i:72575265 original size:27 final size:27
Alignment explanation
Indices: 72575132--72575262 Score: 120
Period size: 27 Copynumber: 4.7 Consensus size: 27
72575122 CTAGTTTGAG
* **
72575132 AAATTACTGAAATACCCTTAATTTGTA
1 AAATTACTGAAATACCCTTGATTTACA
**
72575159 AAATTACCAAAATACCCTTGATTTACA
1 AAATTACTGAAATACCCTTGATTTACA
* **
72575186 AAATTACAGAAATACCCTTGACTTTTTTGA
1 AAATTACTGAAATACCCTTGA---TTTACA
* * *
72575216 AAATTA-TAGGAATACCATTGGTTTACA
1 AAATTACT-GAAATACCCTTGATTTACA
72575243 AAATTACTGAAATACCCTTG
1 AAATTACTGAAATACCCTTG
72575263 GTTGTAGATT
Statistics
Matches: 82, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
27 61 0.74
28 1 0.01
30 20 0.24
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATTACTGAAATACCCTTGATTTACA
Found at i:72576223 original size:25 final size:24
Alignment explanation
Indices: 72576185--72576254 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
72576175 AGGAAGTGCT
72576185 AAAAGGGCTTTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* *
72576209 GAAAAGGGCTCTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
72576234 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
72576255 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:72576267 original size:24 final size:24
Alignment explanation
Indices: 72576184--72576267 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
72576174 GAGGAAGTGC
*
72576184 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
* *
72576209 GAAAAGGGCTCTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
72576233 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
72576257 TAAAAGAGGCT
1 TAAAAG-GGCT
72576268 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.20
25 37 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:72576461 original size:42 final size:42
Alignment explanation
Indices: 72576402--72576493 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
72576392 TAGTCTCCCC
* * ** *
72576402 AAATGGGATTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
72576444 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
72576486 AAATGGGC
1 AAATGGGC
72576494 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:72580333 original size:49 final size:49
Alignment explanation
Indices: 72580261--72580360 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
72580251 ATGGGACAGA
72580261 ATTACGATGGATTTCGTAACTAGATTACCTTTGACTCCAAAGAAGAAAG
1 ATTACGATGGATTTCGTAACTAGATTACCTTTGACTCCAAAGAAGAAAG
* *
72580310 ATTACGATGGATTTTGTAACTAGATTACCTTTGACTCCGAAGAAGAAAG
1 ATTACGATGGATTTCGTAACTAGATTACCTTTGACTCCAAAGAAGAAAG
72580359 AT
1 AT
72580361 GCTGTTTGAA
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:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (49 bp):
ATTACGATGGATTTCGTAACTAGATTACCTTTGACTCCAAAGAAGAAAG
Found at i:72583687 original size:40 final size:40
Alignment explanation
Indices: 72583628--72583796 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
72583618 CGGGACTTTA
* * *
72583628 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
72583668 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
72583708 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
72583748 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
72583788 CCCGGATAT
1 CCCGGATAT
72583797 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:72591694 original size:39 final size:38
Alignment explanation
Indices: 72591651--72591816 Score: 133
Period size: 39 Copynumber: 4.2 Consensus size: 38
72591641 CGGGACTTTA
* *
72591651 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTAG
1 CCCGGATAT-ACAACTTGCACAAATGCCTTCGGGTCTAG
* *
72591690 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATAT-ACAACTTGCACAAATGCCTTCGGGTC-TAG
* * *
72591730 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTA-
1 CCCGGATATA-CAACTTGCACAAATGCCTTCGGGTC-TAG
* * *
72591769 ACCGGATATA-AA-TTTCAGCATAATTGTCTTCGGG-CTTAG
1 CCCGGATATACAACTTGCA-CA-AA-TGCCTTCGGGTC-TAG
72591808 CCCGGATAT
1 CCCGGATAT
72591817 CATTCAATTC
Statistics
Matches: 104, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
36 3 0.03
37 3 0.03
38 5 0.05
39 58 0.56
40 35 0.34
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (38 bp):
CCCGGATATACAACTTGCACAAATGCCTTCGGGTCTAG
Found at i:72591758 original size:40 final size:40
Alignment explanation
Indices: 72591668--72591816 Score: 155
Period size: 39 Copynumber: 3.8 Consensus size: 40
72591658 ATCACGATTT
* * * *
72591668 GCACAAATGCCTTCGGGTC-TAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
72591707 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
72591747 GCACAATTGCCTTCGGGTCTTA-ACCGGATATAAAT-TTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACT-A
* *
72591786 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
72591817 CATTCAATTC
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
38 5 0.05
39 52 0.55
40 37 0.39
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:72599245 original size:60 final size:58
Alignment explanation
Indices: 72599171--72599303 Score: 142
Period size: 60 Copynumber: 2.3 Consensus size: 58
72599161 ATTTAAGCCC
* * * * * *
72599171 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-ACACACCCAGTGCC--ATATATTTCCAGCAT
* * **
72599231 GCACACTTAGTGCCATATATTTCCAGCATACACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATACACACCCAGTGCCATATATTTCCAGCAT
72599289 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
72599304 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
58 28 0.45
60 33 0.53
61 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.28
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATACACACCCAGTGCCATATATTTCCAGCAT
Found at i:72599264 original size:29 final size:29
Alignment explanation
Indices: 72599221--72599303 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
72599211 GCCGTATTTT
72599221 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
72599250 TTTCCAGCATACACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
72599279 TTTCCAGCATGCACACTTAGTGCCA
1 TTTCCAGCATGCACACTTAGTGCCA
72599304 ATCTCGTCAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:72607336 original size:29 final size:29
Alignment explanation
Indices: 72607293--72607375 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
72607283 GTATTTTTTT
72607293 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
72607322 TTTCCAGCATACACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
72607351 TTTCCAGCATGCACACTTAGTGCCA
1 TTTCCAGCATGCACACTTAGTGCCA
72607376 ATCTCGTCAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:72609561 original size:15 final size:16
Alignment explanation
Indices: 72609541--72609594 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 16
72609531 AAAGTAAACA
*
72609541 AATAAAAGTA-ACAAT
1 AATAAAAATATACAAT
*
72609556 AATAAAAATATATAAT
1 AATAAAAATATACAAT
* *
72609572 AATAAAACTAATATAAT
1 AATAAAAAT-ATACAAT
72609589 AATAAA
1 AATAAA
72609595 CACATATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 9 0.26
16 12 0.35
17 13 0.38
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.26
Consensus pattern (16 bp):
AATAAAAATATACAAT
Found at i:72609572 original size:16 final size:16
Alignment explanation
Indices: 72609553--72609606 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
72609543 TAAAAGTAAC
72609553 AATAATAAAAATATAT
1 AATAATAAAAATATAT
*
72609569 AATAATAAAACTAATAT
1 AATAATAAAAAT-ATAT
* *
72609586 AATAATAAACACATAT
1 AATAATAAAAATATAT
72609602 AATAA
1 AATAA
72609607 ACAAATATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
16 20 0.61
17 13 0.39
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AATAATAAAAATATAT
Found at i:72615445 original size:50 final size:50
Alignment explanation
Indices: 72615380--72615528 Score: 262
Period size: 50 Copynumber: 3.0 Consensus size: 50
72615370 TATGGCGTTG
* * *
72615380 ATATGAAATCTCATGTAAGACCATGTCTGGGACATGACATTGGCATCGAC
1 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCGAC
72615430 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCGAC
1 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCGAC
*
72615480 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGA
1 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCGA
72615529 GTGGTGATCC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 95 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (50 bp):
ATATGAGATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCGAC
Found at i:72617918 original size:24 final size:24
Alignment explanation
Indices: 72617886--72617948 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
72617876 AATCTCAAAT
72617886 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
72617910 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
72617934 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
72617949 CATAATAAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:72617964 original size:23 final size:24
Alignment explanation
Indices: 72617886--72617974 Score: 108
Period size: 24 Copynumber: 3.8 Consensus size: 24
72617876 AATCTCAAAT
**
72617886 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGACATACTATG
**
72617910 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGACATACTATG
* *
72617934 GCACTATGTGTGCGACATAATA-A
1 GCACTATGTGTGCGACATACTATG
*
72617957 GCACTATGTGTGCAACAT
1 GCACTATGTGTGCGACAT
72617975 TCGGTTGTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
23 17 0.28
24 43 0.72
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGACATACTATG
Found at i:72624771 original size:37 final size:37
Alignment explanation
Indices: 72624718--72624808 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
72624708 TATAAAAGAA
72624718 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
72624755 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
72624792 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
72624809 TTCCAAGTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:72624942 original size:40 final size:41
Alignment explanation
Indices: 72624898--72625033 Score: 111
Period size: 40 Copynumber: 3.2 Consensus size: 41
72624888 CATATATTTT
72624898 ACATT-AGCCATTAGGCCTTATCACATATACATACACTTTC
1 ACATTCAGCCATTAGGCCTTATCACATATACATACACTTTC
* * *
72624938 ACATTCA-CCACATCGGCCATTAGGC-C-T-TACATACACTTTC
1 ACATTCAGCCA-TTAGGCC-TTA-TCACATATACATACACTTTC
72624978 ACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTC
1 ACATT-----CA---GCCATTAGGCCTTATCACATATACATACACTTTC
72625027 ACATTCA
1 ACATTCA
72625034 TCGCATTGGC
Statistics
Matches: 74, Mismatches: 6, Indels: 28
0.69 0.06 0.26
Matches are distributed among these distances:
40 26 0.35
41 7 0.09
42 4 0.05
43 1 0.01
44 2 0.03
45 2 0.03
46 1 0.01
47 4 0.05
48 6 0.08
49 21 0.28
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (41 bp):
ACATTCAGCCATTAGGCCTTATCACATATACATACACTTTC
Found at i:72624959 original size:49 final size:49
Alignment explanation
Indices: 72624904--72625060 Score: 215
Period size: 49 Copynumber: 3.4 Consensus size: 49
72624894 TTTTACATTA
72624904 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
72624953 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
72624993 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
72625042 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
72625061 CACATATGTA
Statistics
Matches: 95, Mismatches: 4, Indels: 18
0.81 0.03 0.15
Matches are distributed among these distances:
40 37 0.39
41 1 0.01
42 1 0.01
43 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 52 0.55
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:72628470 original size:29 final size:29
Alignment explanation
Indices: 72628434--72628568 Score: 225
Period size: 29 Copynumber: 4.7 Consensus size: 29
72628424 TGTTGAAAAA
*
72628434 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
72628463 CTCGCACACGTAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
* *
72628492 CTCGCACACATAGTTCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
72628521 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
72628550 CTCGCACACATAGTGCCTC
1 CTCGCACACATAGTGCCTC
72628569 TATTCATTCG
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 100 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACTGAT
Found at i:72628799 original size:40 final size:40
Alignment explanation
Indices: 72628742--72628986 Score: 346
Period size: 40 Copynumber: 6.1 Consensus size: 40
72628732 CGAATACACG
* * * *
72628742 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
72628782 TCACTAGCACGAATGCTCTTCGGGACTTTGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
72628822 TCACTAGCACGAATGCTCTTCGGGACTTTGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
72628862 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * *
72628902 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * *
72628942 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
72628982 TCACT
1 TCACT
72628987 CTCAATTCTC
Statistics
Matches: 196, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 196 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:72628841 original size:80 final size:80
Alignment explanation
Indices: 72628742--72628986 Score: 382
Period size: 80 Copynumber: 3.1 Consensus size: 80
72628732 CGAATACACG
* * *
72628742 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
* * *
72628807 CTTTGCCCGGATACA
66 CTTAGTCCGGATATA
* *
72628822 TCACTAGCACGAATGCTCTTCGGGACTTTGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
72628887 CTTAGTCCGGATATA
66 CTTAGTCCGGATATA
* * * *
72628902 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCATGAATGCTCTTCGGAA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
72628967 CTTAGTCCGGATATA
66 CTTAGTCCGGATATA
72628982 TCACT
1 TCACT
72628987 CTCAATTCTC
Statistics
Matches: 151, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 151 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (80 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
CTTAGTCCGGATATA
Found at i:72630860 original size:37 final size:37
Alignment explanation
Indices: 72630807--72630897 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
72630797 TATAAAAGAA
72630807 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
72630844 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
72630881 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
72630898 TTCCAAGTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:72631031 original size:40 final size:41
Alignment explanation
Indices: 72630987--72631122 Score: 111
Period size: 40 Copynumber: 3.2 Consensus size: 41
72630977 CATATATTTT
72630987 ACATT-AGCCATTAGGCCTTATCACATATACATACACTTTC
1 ACATTCAGCCATTAGGCCTTATCACATATACATACACTTTC
* * *
72631027 ACATTCA-CCACATCGGCCATTAGGC-C-T-TACATACACTTTC
1 ACATTCAGCCA-TTAGGCC-TTA-TCACATATACATACACTTTC
72631067 ACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTC
1 ACATT-----CA---GCCATTAGGCCTTATCACATATACATACACTTTC
72631116 ACATTCA
1 ACATTCA
72631123 TCGCATTGGC
Statistics
Matches: 74, Mismatches: 6, Indels: 28
0.69 0.06 0.26
Matches are distributed among these distances:
40 26 0.35
41 7 0.09
42 4 0.05
43 1 0.01
44 2 0.03
45 2 0.03
46 1 0.01
47 4 0.05
48 6 0.08
49 21 0.28
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (41 bp):
ACATTCAGCCATTAGGCCTTATCACATATACATACACTTTC
Found at i:72631048 original size:49 final size:49
Alignment explanation
Indices: 72630993--72631149 Score: 215
Period size: 49 Copynumber: 3.4 Consensus size: 49
72630983 TTTTACATTA
72630993 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
72631042 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
72631082 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
72631131 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
72631150 CACATATGTA
Statistics
Matches: 95, Mismatches: 4, Indels: 18
0.81 0.03 0.15
Matches are distributed among these distances:
40 37 0.39
41 1 0.01
42 1 0.01
43 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 52 0.55
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:72635733 original size:24 final size:24
Alignment explanation
Indices: 72635701--72635762 Score: 124
Period size: 24 Copynumber: 2.6 Consensus size: 24
72635691 AATCTCAAAT
72635701 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
72635725 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
72635749 GCACTATGTGTGCG
1 GCACTATGTGTGCG
72635763 GACATAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:72639550 original size:48 final size:48
Alignment explanation
Indices: 72639494--72639968 Score: 643
Period size: 48 Copynumber: 9.9 Consensus size: 48
72639484 TAAGTGAGAT
*
72639494 CCTGTGTAAGACCATGTCTGGGACATGGCATTGGTGATGATATATGTG
1 CCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTG
* * * *
72639542 TCTGTGTAAAACCATGTTTGGGACATGGCATCGGTGATGATATATATG
1 CCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTG
* * * *
72639590 CCTGTGTAAGACCATGCCTGGGACATGGCATTGG-CAGTAATATATGTG
1 CCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGA-TGATATATGTG
* *
72639638 CCTGTGTAAGACTATGTCTGGGACATGGCATCGGTAATGATATATGTG
1 CCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTG
* *
72639686 -CTAGTGTAAGACCATGTCTGGGACATGACATCGGCGATGATATATGTG
1 CCT-GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTG
* * *
72639734 TCTGTGTAAGACCATGTTTGGGACATGGCATCGGTGATGATATATATG
1 CCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTG
* * *
72639782 CCTGTGTAAGACCATGTCTAGGACATGGCATCGG-CAGTAATATATGTG
1 CCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGA-TGATATATGTG
*
72639830 CCTGTGTAAGACTATGTCTGGGACATGGCATCGGTGATGATATATGTG
1 CCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTG
* * *
72639878 -CTAGTGTAAGGCCATGTCTGGGACATGACATCGATGATGATATATGTG
1 CCT-GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTG
* * **
72639926 CCAGTGTAAGACCATGTTTGGGACATGGCATTAGTGATGATAT
1 CCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
72639969 GTGGATTCAT
Statistics
Matches: 372, Mismatches: 47, Indels: 16
0.86 0.11 0.04
Matches are distributed among these distances:
47 6 0.02
48 361 0.97
49 5 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (48 bp):
CCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTG
Found at i:72640004 original size:192 final size:192
Alignment explanation
Indices: 72639497--72639968 Score: 818
Period size: 192 Copynumber: 2.5 Consensus size: 192
72639487 GTGAGATCCT
* * *
72639497 GTGTAAGACCATGTCTGGGACATGGCATTGGTGATGATATATGTGTCTGTGTAAAACCATGTTTG
1 GTGTAAGACCATGTCTGGGACATGACATCGGTGATGATATATGTGTCTGTGTAAGACCATGTTTG
* *
72639562 GGACATGGCATCGGTGATGATATATATGCCTGTGTAAGACCATGCCTGGGACATGGCATTGGCAG
66 GGACATGGCATCGGTGATGATATATATGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCAG
72639627 TAATATATGTGCCTGTGTAAGACTATGTCTGGGACATGGCATCGGTAATGATATATGTGCTA
131 TAATATATGTGCCTGTGTAAGACTATGTCTGGGACATGGCATCGGTAATGATATATGTGCTA
*
72639689 GTGTAAGACCATGTCTGGGACATGACATCGGCGATGATATATGTGTCTGTGTAAGACCATGTTTG
1 GTGTAAGACCATGTCTGGGACATGACATCGGTGATGATATATGTGTCTGTGTAAGACCATGTTTG
*
72639754 GGACATGGCATCGGTGATGATATATATGCCTGTGTAAGACCATGTCTAGGACATGGCATCGGCAG
66 GGACATGGCATCGGTGATGATATATATGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCAG
*
72639819 TAATATATGTGCCTGTGTAAGACTATGTCTGGGACATGGCATCGGTGATGATATATGTGCTA
131 TAATATATGTGCCTGTGTAAGACTATGTCTGGGACATGGCATCGGTAATGATATATGTGCTA
* * * *
72639881 GTGTAAGGCCATGTCTGGGACATGACATCGATGATGATATATGTGCCAGTGTAAGACCATGTTTG
1 GTGTAAGACCATGTCTGGGACATGACATCGGTGATGATATATGTGTCTGTGTAAGACCATGTTTG
**
72639946 GGACATGGCATTAGTGATGATAT
66 GGACATGGCATCGGTGATGATAT
72639969 GTGGATTCAT
Statistics
Matches: 265, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
192 265 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (192 bp):
GTGTAAGACCATGTCTGGGACATGACATCGGTGATGATATATGTGTCTGTGTAAGACCATGTTTG
GGACATGGCATCGGTGATGATATATATGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCAG
TAATATATGTGCCTGTGTAAGACTATGTCTGGGACATGGCATCGGTAATGATATATGTGCTA
Found at i:72645496 original size:18 final size:18
Alignment explanation
Indices: 72645473--72645536 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
72645463 CCTTCGTGAT
72645473 CTGAAGCCCGAAGTTTAG
1 CTGAAGCCCGAAGTTTAG
** * *
72645491 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAGT--TTAG
*
72645512 CGGAAGCCCGAAGTTTAG
1 CTGAAGCCCGAAGTTTAG
72645530 CTGAAGC
1 CTGAAGC
72645537 ACATAAGTGC
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
18 15 0.45
19 5 0.15
20 5 0.15
21 8 0.24
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.19
Consensus pattern (18 bp):
CTGAAGCCCGAAGTTTAG
Found at i:72645529 original size:39 final size:39
Alignment explanation
Indices: 72645475--72645746 Score: 350
Period size: 39 Copynumber: 7.0 Consensus size: 39
72645465 TTCGTGATCT
** *
72645475 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAGCTGAAGCACACAAGTGCTAAACG
** *
72645514 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAGCTGAAGCACACAAGTGCTAAACG
* *
72645553 GAAGCCCGGAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAGCTGAAGCACACAAGTGCTAAACG
* *
72645592 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAGCTGAAGCACACAAGTGCTAAACG
* *
72645631 GAAGCCCGAAGG-TTGACTGAAGCACAGAAGTGCTAAACG
1 GAAGCCCGAAGGCTAG-CTGAAGCACACAAGTGCTAAACG
* *
72645670 GAAGCCCAAAGGCT-GACTGAAGCACAGAAGTGCTAAACG
1 GAAGCCCGAAGGCTAG-CTGAAGCACACAAGTGCTAAACG
* * * *
72645709 GAAGCCCGAAGGCTAACTGAAGCTCACCAGAGCTAAAC
1 GAAGCCCGAAGGCTAGCTGAAGCACACAAGTGCTAAAC
72645747 CGAAACCCCA
Statistics
Matches: 212, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
38 1 0.00
39 210 0.99
40 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAGCTGAAGCACACAAGTGCTAAACG
Found at i:72645683 original size:117 final size:117
Alignment explanation
Indices: 72645491--72645746 Score: 397
Period size: 117 Copynumber: 2.2 Consensus size: 117
72645481 CGAAGTTTAG
* * *
72645491 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACGGAA
1 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGTTGAGCTGAAGCACAGAAGTGCTAAACGGAA
**
72645556 GCCCGGAGGCTAACTGAAGCACACAAGTGCTAAACGGAAGCCCAAAGGCTAA
66 GCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAGCCCAAAGGCTAA
72645608 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGTTGA-CTGAAGCACAGAAGTGCTAAACGGA
1 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAA-GTTGAGCTGAAGCACAGAAGTGCTAAACGGA
* * *
72645672 AGCCCAAAGGCTGACTGAAGCACAGAAGTGCTAAACGGAAGCCCGAAGGCTAA
65 AGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAGCCCAAAGGCTAA
* * *
72645725 CTGAAGCTCACCAGAGCTAAAC
1 CTGAAGCACACAAGTGCTAAAC
72645747 CGAAACCCCA
Statistics
Matches: 127, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
117 123 0.97
118 4 0.03
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.12
Consensus pattern (117 bp):
CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGTTGAGCTGAAGCACAGAAGTGCTAAACGGAA
GCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAGCCCAAAGGCTAA
Found at i:72652353 original size:48 final size:47
Alignment explanation
Indices: 72652300--72652617 Score: 292
Period size: 48 Copynumber: 6.6 Consensus size: 47
72652290 AAGTGAGATC
* * * *
72652300 CTGTGTAAGACCATTTCTGGGACATGGCACCAGTGATGATATATGAGT
1 CTGTGTAAGACCATGTCTGGGACATGGCATC-GCGATGATATATGTGT
* *
72652348 CTGTGTAAGACAATGTCTGGGACATGGCATCGACGATGATATATGTGC
1 CTGTGTAAGACCATGTCTGGGACATGGCATCG-CGATGATATATGTGT
*
72652396 CTGTGTAAGACCATGTCTGGGACATGGTATCG-GCAGTGATATATGTG-
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGCG-A-TGATATATGTGT
* * * *
72652443 CTTGTGTAAGACTATGTCTGGGACATAGCATCG-GTTATAATATATGTGC
1 C-TGTGTAAGACCATGTCTGGGACATGGCATCGCG--ATGATATATGTGT
** *
72652492 CAATGTAAGACCATGTCTAGGACATGGCATCAGCGATGAT-T-TGTGT
1 CTGTGTAAGACCATGTCTGGGACATGGCATC-GCGATGATATATGTGT
** *
72652538 ACCAATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTG-GAT
1 --CTGTGTAAGACCATGTCTGGGACATGGCATC-GCGATGATATATGTG-T
*
72652588 -TCATGTAAGACCATGTC-GGAGACATGGCAT
1 CT-GTGTAAGACCATGTCTGG-GACATGGCAT
72652618 TAGTGACAAG
Statistics
Matches: 232, Mismatches: 23, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
46 5 0.02
47 6 0.03
48 212 0.91
49 5 0.02
50 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (47 bp):
CTGTGTAAGACCATGTCTGGGACATGGCATCGCGATGATATATGTGT
Found at i:72652561 original size:144 final size:144
Alignment explanation
Indices: 72652301--72652612 Score: 362
Period size: 144 Copynumber: 2.2 Consensus size: 144
72652291 AGTGAGATCC
* * * * **
72652301 TGTGTAAGACCATTTCTGGGACATGGCACCAGTGATGATATATGAGTCTGTGTAAGACAATGTCT
1 TGTGTAAGACCATGTCTGGGACATAGCACCAGTGATAATATATGAGCCAATGTAAGACAATGTCT
* * ** *
72652366 GGGACATGGCATCGACGATGATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGTATCGGC-
66 AGGACATGGCATCGACGATGATATATGTACCAATGTAAGACCATGTCTGGGACATGGCATCGGCG
72652430 AGTGATATATGTGCT
131 A-TGATATATGTGCT
* * * * * *
72652445 TGTGTAAGACTATGTCTGGGACATAGCATCGGTTATAATATATGTGCCAATGTAAGACCATGTCT
1 TGTGTAAGACCATGTCTGGGACATAGCACCAGTGATAATATATGAGCCAATGTAAGACAATGTCT
* *
72652510 AGGACATGGCATC-AGCGATGATTTGTGTACCAATGTAAGACCATGTCTGGGACATGGCATCGGC
66 AGGACATGGCATCGA-CGATGATATATGTACCAATGTAAGACCATGTCTGGGACATGGCATCGGC
* *
72652574 GATGATATGTG-GAT
130 GATGATATATGTGCT
*
72652588 TCATGTAAGACCATGTC-GGAGACAT
1 T-GTGTAAGACCATGTCTGG-GACAT
72652613 GGCATTAGTG
Statistics
Matches: 141, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
143 6 0.04
144 134 0.95
145 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (144 bp):
TGTGTAAGACCATGTCTGGGACATAGCACCAGTGATAATATATGAGCCAATGTAAGACAATGTCT
AGGACATGGCATCGACGATGATATATGTACCAATGTAAGACCATGTCTGGGACATGGCATCGGCG
ATGATATATGTGCT
Found at i:72654406 original size:21 final size:22
Alignment explanation
Indices: 72654373--72654413 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
72654363 AATACTTCAC
*
72654373 ATTTGAGTCAATTATAATTTTT
1 ATTTAAGTCAATTATAATTTTT
72654395 ATTTAAGT-AATTATAATTT
1 ATTTAAGTCAATTATAATTT
72654414 AAGTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (22 bp):
ATTTAAGTCAATTATAATTTTT
Found at i:72654413 original size:15 final size:15
Alignment explanation
Indices: 72654395--72654427 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
72654385 TATAATTTTT
72654395 ATTTAAG-TAATTATA
1 ATTTAAGTTAA-TATA
72654410 ATTTAAGTTAATATA
1 ATTTAAGTTAATATA
72654425 ATT
1 ATT
72654428 CATATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
ATTTAAGTTAATATA
Found at i:72656449 original size:34 final size:34
Alignment explanation
Indices: 72656398--72656500 Score: 111
Period size: 34 Copynumber: 3.1 Consensus size: 34
72656388 AAGTGTTGAA
* * **
72656398 CAATCTGGGCCTAAGCCCATATCAGTCGCAATAT
1 CAATGTGGGCCTTAGCCCATATCAGTAACAATAT
*
72656432 CAATGTGGGCCTTAGCCCA-ATACAGTAACAGTAT
1 CAATGTGGGCCTTAGCCCATAT-CAGTAACAATAT
* * *
72656466 CAATGTGGGCTTTAGCCCATTTCAGT-ACAGTAT
1 CAATGTGGGCCTTAGCCCATATCAGTAACAATAT
72656499 CA
1 CA
72656501 GTAATGCACA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
33 11 0.18
34 48 0.80
35 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (34 bp):
CAATGTGGGCCTTAGCCCATATCAGTAACAATAT
Found at i:72657816 original size:8 final size:8
Alignment explanation
Indices: 72657803--72657836 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
72657793 TCAAGCACAG
72657803 AGAAGAGA
1 AGAAGAGA
72657811 AGAAGAGA
1 AGAAGAGA
*
72657819 AGATGAGA
1 AGAAGAGA
72657827 AGAAGAGA
1 AGAAGAGA
72657835 AG
1 AG
72657837 GACGATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (8 bp):
AGAAGAGA
Found at i:72668094 original size:10 final size:10
Alignment explanation
Indices: 72668079--72668113 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
72668069 ACTTCATAAA
72668079 AAAAAGAAAG
1 AAAAAGAAAG
72668089 AAAAAGAAAG
1 AAAAAGAAAG
*
72668099 AAAAAAAAAAG
1 -AAAAAGAAAG
72668110 AAAA
1 AAAA
72668114 CCAAAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:72683450 original size:19 final size:19
Alignment explanation
Indices: 72683426--72683463 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
72683416 CTCATACATT
72683426 CTTATTAAATTAATCAATA
1 CTTATTAAATTAATCAATA
72683445 CTTATTAAATTAATCAATA
1 CTTATTAAATTAATCAATA
72683464 TCTTGAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (19 bp):
CTTATTAAATTAATCAATA
Found at i:72685815 original size:45 final size:45
Alignment explanation
Indices: 72685695--72685825 Score: 140
Period size: 45 Copynumber: 2.9 Consensus size: 45
72685685 ATAAATTATG
* * * *
72685695 GCAAATCTCATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA
1 GCAAATCTCATCTCCCTGAAGTTGCAGTTGAGCAGATTAAAGACA
* * * * * *
72685740 -CCAGTCTTATCTCCCT-AAGGTTGCAATTGAGCAGACTAAAGATA
1 GCAAATCTCATCTCCCTGAA-GTTGCAGTTGAGCAGATTAAAGACA
*
72685784 GCAAATCTCATCTCCCTGAAGTAGCAGTTGAGCAGATTAAAG
1 GCAAATCTCATCTCCCTGAAGTTGCAGTTGAGCAGATTAAAG
72685826 TTGTAGATCT
Statistics
Matches: 67, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
43 2 0.03
44 31 0.46
45 32 0.48
46 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (45 bp):
GCAAATCTCATCTCCCTGAAGTTGCAGTTGAGCAGATTAAAGACA
Found at i:72685972 original size:232 final size:232
Alignment explanation
Indices: 72685553--72685984 Score: 605
Period size: 232 Copynumber: 1.9 Consensus size: 232
72685543 AGTGAATCTA
* *
72685553 CAAATCTCATCTCCCTGAAGTAGTAGTGGAGTAGATTGAAATTGTAGATCTTATATCCTTGAAAT
1 CAAATCTCATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAATTGTAGATCTTATATCCTTGAAAT
* ** *
72685618 TGCAGTGGAGCAAATCGAAGATAGTGAATCTTATTTCCCTAACGCTGCAATGGAGTAGATTAAAG
66 TGCAGTAGAGCAAATCGAAGATAACGAATCTTATTTCCCTAACGCTGCAATGGAATAGATTAAAG
* * * * ** *
72685683 CTATAAATTATGGCAAATCTCATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGTCTT
131 CTACAAATTATAGCAAATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAGCCACCAATCTT
72685748 ATCTCCCTAAGGTTGCAATTGAGCAGACTAAAGATAG
196 ATCTCCCTAAGGTTGCAATTGAGCAGACTAAAGATAG
* * *
72685785 CAAATCTCATCTCCCTGAAGTAGCAGTTGAGCAGATT-AAAGTTGTAGATCTTATCTCCTTGAAG
1 CAAATCTCATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAA-TTGTAGATCTTATATCCTTGAAA
* * * * * * * *
72685849 TTGTAGTAGAGTAGATCGAAGATAACGAATCTTATTTCCCTGATGTTGTAGTGGAATAGATTAAA
65 TTGCAGTAGAGCAAATCGAAGATAACGAATCTTATTTCCCTAACGCTGCAATGGAATAGATTAAA
* * *
72685914 GCTACAAATTATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCAAAGCCACTAATCT
130 GCTACAAATTATAGCAAATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAGCCACCAATCT
72685979 TATCTC
195 TATCTC
72685985 TCTGAAGTTG
Statistics
Matches: 172, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
231 3 0.02
232 169 0.98
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (232 bp):
CAAATCTCATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAATTGTAGATCTTATATCCTTGAAAT
TGCAGTAGAGCAAATCGAAGATAACGAATCTTATTTCCCTAACGCTGCAATGGAATAGATTAAAG
CTACAAATTATAGCAAATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAGCCACCAATCTT
ATCTCCCTAAGGTTGCAATTGAGCAGACTAAAGATAG
Found at i:72685993 original size:44 final size:44
Alignment explanation
Indices: 72685928--72686395 Score: 183
Period size: 44 Copynumber: 10.3 Consensus size: 44
72685918 CAAATTATAG
* *
72685928 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCAAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
* * * * * *
72685972 CTAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
* * * * * * * *
72686016 -TAATCCTATACT-TCTGAAGTTGTAGTAGG-TTGGATCAAATCTAACA
1 CAAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGTAGATTAAAGC---CA
* * * * * *
72686062 TGGCGAATCTTATCTCTCTGAAGCTACAGTGGAGCAGATTGAAGCCA
1 ---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
* * *
72686109 CAAATCTTATCTCCCTGAAGTTACAGTAGAGTAGTTTAAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
* * *
72686153 CAAATCCTATAC-CCCTGAAGTTGCAGTGG-GATGGATTGAAATCATACAAATTA
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-TAGATT-AAAGC---C-----A
* * * * **
72686206 CAAGTCTTATCTCCCTAAAGTTGCAGTGGAATAGACTGAAA-ATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TTAAAGCCA
* * * * *
72686250 GTAAATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATTAAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
* ** * * * * * * * **
72686295 TAAGCCTAATCTCCTTGAAGTTACAGTGGGGCAGGTTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
* * * * *
72686339 CAGATCTTATATCCCTAAAGTTGCAGTGGAGTAGATCAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
*
72686383 GCAAGTCTTATCT
1 -CAAATCTTATCT
72686396 TATTAAAGTT
Statistics
Matches: 308, Mismatches: 88, Indels: 55
0.68 0.20 0.12
Matches are distributed among these distances:
43 30 0.10
44 169 0.55
45 44 0.14
46 1 0.00
47 2 0.01
48 1 0.00
49 4 0.01
50 24 0.08
52 1 0.00
53 31 0.10
54 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA
Found at i:72686013 original size:98 final size:99
Alignment explanation
Indices: 72685832--72686015 Score: 235
Period size: 98 Copynumber: 1.9 Consensus size: 99
72685822 AAAGTTGTAG
* * * * * * *
72685832 ATCTTATCTCCTTGAAGTTGTAGTAGAGTAGATCGAAGATAACGAATCTTATTTCCCTGATGTTG
1 ATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATCAAAGACAACGAATCTTATCTCCCTGAAGTTG
* *
72685897 TAGTGGAATAGATTAAAGCTACAAATTATAGCAA
66 TAGTAGAACAGATTAAAGCTACAAATTATAGCAA
* * * *
72685931 ATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCAAAG-CCACTAATCTTATCTCTCTGAAGTTG
1 ATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATCAAAGACAACGAATCTTATCTCCCTGAAGTTG
*
72685995 TAGTAGAGCAGATTAAAGCTA
66 TAGTAGAACAGATTAAAGCTA
72686016 TAATCCTATA
Statistics
Matches: 71, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
98 38 0.54
99 33 0.46
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (99 bp):
ATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATCAAAGACAACGAATCTTATCTCCCTGAAGTTG
TAGTAGAACAGATTAAAGCTACAAATTATAGCAA
Found at i:72686109 original size:137 final size:139
Alignment explanation
Indices: 72685930--72686302 Score: 410
Period size: 137 Copynumber: 2.7 Consensus size: 139
72685920 AATTATAGCA
**
72685930 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATCAAAGCCACTAATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGCCACTAATCTTATCTCTCTGAAGTTG
* ** * *
72685995 TAGTAGAGCAGATTAAAGCTATAATCCTATACTTCTGAAGTTGTAGTAGGTTGGA-TCAAATC-T
66 TAGTAGAGTAGATTAAAGCTATAATCCTATACCCCTGAAGTTGCAGTAGGATGGATTCAAATCAT
* *
72686058 A-ACATGGC
131 ACAAATGAC
* * * * * * *
72686066 GAATCTTATCTCTCTGAAGCTACAGTGGAGCAGATTGAAGCCACAAATCTTATCTCCCTGAAGTT
1 -AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGCCACTAATCTTATCTCTCTGAAGTT
** * * * * *
72686131 ACAGTAGAGTAGTTTAAAGCCACAAATCCTATACCCCTGAAGTTGCAGTGGGATGGATTGAAATC
65 GTAGTAGAGTAGATTAAAGCTA-TAATCCTATACCCCTGAAGTTGCAGTAGGATGGATTCAAATC
*
72686196 ATACAAATTAC
129 ATACAAATGAC
* * *** *
72686207 AAGTCTTATCTCCCTAAAGTTGCAGTGGAATAGACTGAAAATAGTAAATCTTATCTCTCTGAAGT
1 AA-TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGCCACT-AATCTTATCTCTCTGAAGT
*
72686272 TGTAGTAGAGTAGATTAAAGCTATAAGCCTA
64 TGTAGTAGAGTAGATTAAAGCTATAATCCTA
72686303 ATCTCCTTGA
Statistics
Matches: 187, Mismatches: 43, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
137 72 0.39
138 28 0.15
139 6 0.03
140 4 0.02
141 40 0.21
142 37 0.20
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (139 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGCCACTAATCTTATCTCTCTGAAGTTG
TAGTAGAGTAGATTAAAGCTATAATCCTATACCCCTGAAGTTGCAGTAGGATGGATTCAAATCAT
ACAAATGAC
Found at i:72686441 original size:133 final size:133
Alignment explanation
Indices: 72686210--72686456 Score: 311
Period size: 133 Copynumber: 1.9 Consensus size: 133
72686200 AAATTACAAG
* * * *
72686210 TCTTATCTCCCTAAAGTTGCAGTGGAATAGACTGAAAATAGTAAATCTTATCTCTCTGAAGTTGT
1 TCTTATATCCCTAAAGTTGCAGTGGAATAGACTCAAAATAGCAAATCTTATCTCTCTAAAGTTGT
* * * *
72686275 AGTAGAGTAGATTAAAGCTATAAGCCTAATCTCCTTGAAGTTACAGTGGGGCAGGTTGAAGTTAC
66 AGTAGAGCAGATTAAAGCTACAAGCCTAATCTCCCTAAAGTTACAGTGGGGCAGGTTGAAGTTAC
72686340 AGA
131 AGA
* * * *
72686343 TCTTATATCCCTAAAGTTGCAGTGGAGTAGA-TCAAAGCTAGCAAGTCTTATCT-TATTAAAGTT
1 TCTTATATCCCTAAAGTTGCAGTGGAATAGACTCAAA-ATAGCAAATCTTATCTCT-CTAAAGTT
* * *
72686406 GTAGTAGAGCAGATTAAAGTTACAAGTCCT-TTCTCCCTAAAGTTATAGTGG
64 GTAGTAGAGCAGATTAAAGCTACAAG-CCTAATCTCCCTAAAGTTACAGTGG
72686457 AGTGGATCGA
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
132 5 0.05
133 88 0.92
134 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (133 bp):
TCTTATATCCCTAAAGTTGCAGTGGAATAGACTCAAAATAGCAAATCTTATCTCTCTAAAGTTGT
AGTAGAGCAGATTAAAGCTACAAGCCTAATCTCCCTAAAGTTACAGTGGGGCAGGTTGAAGTTAC
AGA
Found at i:72686447 original size:44 final size:45
Alignment explanation
Indices: 72686206--72686454 Score: 114
Period size: 44 Copynumber: 5.6 Consensus size: 45
72686196 ATACAAATTA
* * ** * *
72686206 CAAGTCTTATCTCCCTAAAGTTGCAGTGGAATAGACTGAAA-ATAG
1 CAAGTCTTATCTCCCTAAAGTTGTAGTAGAGCAGA-TCAAAGCTAG
* * * * * *
72686251 TAAATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATTAAAGCTA-
1 CAAGTCTTATCTCCCTAAAGTTGTAGTAGAGCAGATCAAAGCTAG
* * * * * ** * * * ** *
72686295 TAAGCCTAATCTCCTTGAAGTTACAGTGGGGCAGGTTGAAGTTA-
1 CAAGTCTTATCTCCCTAAAGTTGTAGTAGAGCAGATCAAAGCTAG
* * * *
72686339 C-AGATCTTATATCCCTAAAGTTGCAGTGGAGTAGATCAAAGCTAG
1 CAAG-TCTTATCTCCCTAAAGTTGTAGTAGAGCAGATCAAAGCTAG
*** * *
72686384 CAAGTCTTATCTTATTAAAGTTGTAGTAGAGCAGATTAAAGTTA-
1 CAAGTCTTATCTCCCTAAAGTTGTAGTAGAGCAGATCAAAGCTAG
*
72686428 CAAGTCCTT-TCTCCCTAAAGTTATAGT
1 CAAGT-CTTATCTCCCTAAAGTTGTAGT
72686455 GGAGTGGATC
Statistics
Matches: 151, Mismatches: 48, Indels: 11
0.72 0.23 0.05
Matches are distributed among these distances:
43 2 0.01
44 82 0.54
45 65 0.43
46 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (45 bp):
CAAGTCTTATCTCCCTAAAGTTGTAGTAGAGCAGATCAAAGCTAG
Found at i:72686979 original size:3 final size:3
Alignment explanation
Indices: 72686971--72687025 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
72686961 AGCAAAACAA
72686971 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
72687019 AAT AAT A
1 AAT AAT A
72687026 TATTGTATCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:72688053 original size:24 final size:24
Alignment explanation
Indices: 72688026--72688079 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
72688016 AAGGCTGTTA
*
72688026 GGAGAAGATTTGGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
72688050 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGGAGCTGATAAG
72688074 GGAGAA
1 GGAGAA
72688080 CGGTGTTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.43, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:72690325 original size:49 final size:51
Alignment explanation
Indices: 72690205--72690340 Score: 177
Period size: 49 Copynumber: 2.7 Consensus size: 51
72690195 TCTTGTGAGC
**
72690205 GTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCATGTGT
1 GTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATGT
* * ** * *
72690256 GTAGTACTAAGTGTAGGCTACTATGTGTACTGGATAA-TT-GGTCGCATGT
1 GTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATGT
*
72690305 GTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTAGTACTAAGTGCAGGCTACTATGCGTACCCGATA
72690341 GCCTTGTCTA
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 38 0.52
50 2 0.03
51 33 0.45
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (51 bp):
GTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATGT
Found at i:72696463 original size:2 final size:2
Alignment explanation
Indices: 72696456--72696485 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
72696446 AACTTATACT
72696456 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
72696486 ATTATTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:72701638 original size:40 final size:40
Alignment explanation
Indices: 72701572--72701812 Score: 295
Period size: 40 Copynumber: 6.0 Consensus size: 40
72701562 AATGATACCC
* * * * **
72701572 GGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATATCCG
* * * *
72701612 GGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATATCCG
*
72701652 GGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATATCCG
*
72701692 GGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATATCCG
* *
72701732 GGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATATCCG
* * ** *
72701772 GGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATATCCG
72701812 G
1 G
72701813 TTGTATTCCG
Statistics
Matches: 179, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 177 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATATCCG
Found at i:72702061 original size:19 final size:19
Alignment explanation
Indices: 72702039--72702080 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
72702029 GTACGATTAT
72702039 GTGAATGTGTATTAATAAA
1 GTGAATGTGTATTAATAAA
72702058 GTGAATGTGTATTAATAAA
1 GTGAATGTGTATTAATAAA
72702077 GTGA
1 GTGA
72702081 TTCATTTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (19 bp):
GTGAATGTGTATTAATAAA
Found at i:72709122 original size:40 final size:40
Alignment explanation
Indices: 72709067--72709309 Score: 292
Period size: 40 Copynumber: 6.1 Consensus size: 40
72709057 TGAATGATAC
* * * * **
72709067 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
72709107 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
72709147 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
72709187 CCGGGCTAA-TCCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
72709226 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * ** *
72709266 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
72709306 CCGG
1 CCGG
72709310 TTGTATTCCG
Statistics
Matches: 178, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 38 0.21
40 138 0.78
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:72709235 original size:79 final size:80
Alignment explanation
Indices: 72709067--72709309 Score: 303
Period size: 79 Copynumber: 3.0 Consensus size: 80
72709057 TGAATGATAC
* * * * * *
72709067 CCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTT
* *
72709131 GTGCTAG-TGACTATAT
65 GTGCAAGTTG-TTATAT
* *
72709147 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGGCTAA-TCCCGAAGGCATTTG
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTTG
72709211 TGCAAGTTGTTATAT
66 TGCAAGTTGTTATAT
* * *
72709226 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATATCCGGGCTAAGACCCGAGGGCATTCG
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTTG
** *
72709291 TGCGTGTGGTTATAT
66 TGCAAGTTGTTATAT
72709306 CCGG
1 CCGG
72709310 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 72 0.50
80 71 0.50
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (80 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCAAGTTGTTATAT
Found at i:72709288 original size:119 final size:120
Alignment explanation
Indices: 72709067--72709309 Score: 319
Period size: 119 Copynumber: 2.0 Consensus size: 120
72709057 TGAATGATAC
* *
72709067 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGACATTTATGCAAGTAATTATATCCGGGCTAAGACCCGAAGGCAATTG
* * * *
72709132 TGCTAGTGACTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
66 TGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
* * ** * *
72709187 CCGGGCTAA-TCCCGAAGGCATTTGTGCAAGTTGTTATATCCGGGCTAATACCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGACATTTATGCAAGTAATTATATCCGGGCTAAGACCCGAAGGCAATTG
* * **
72709251 TGCAAGTCG-TTATATCCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
66 TGCAAGT-GACTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
72709306 CCGG
1 CCGG
72709310 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
119 96 0.91
120 10 0.09
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGACATTTATGCAAGTAATTATATCCGGGCTAAGACCCGAAGGCAATTG
TGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
Found at i:72712971 original size:11 final size:11
Alignment explanation
Indices: 72712955--72713015 Score: 68
Period size: 11 Copynumber: 5.5 Consensus size: 11
72712945 CTTCTATTTC
72712955 AAAAAAAAAAG
1 AAAAAAAAAAG
72712966 AAAAAAAAAAG
1 AAAAAAAAAAG
*
72712977 AAAAGAAAAAG
1 AAAAAAAAAAG
* * *
72712988 AGAAAAAATAT
1 AAAAAAAAAAG
* *
72712999 AGAGAAAAAAG
1 AAAAAAAAAAG
72713010 AAAAAA
1 AAAAAA
72713016 TGGAGAGGCC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:72712980 original size:16 final size:15
Alignment explanation
Indices: 72712955--72713015 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 15
72712945 CTTCTATTTC
72712955 AAAAAAAAAAGAAAA
1 AAAAAAAAAAGAAAA
72712970 AAAAAAGAAAAGAAAA
1 AAAAAA-AAAAGAAAA
72712986 AGAGAAAAAATATAGAGAAA
1 A-A-AAAAAA-A-AGA-AAA
72713006 AAAGAAAAAA
1 AAA-AAAAAA
72713016 TGGAGAGGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
15 6 0.15
16 10 0.26
17 3 0.08
18 7 0.18
19 9 0.23
20 4 0.10
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAGAAAA
Found at i:72712993 original size:20 final size:20
Alignment explanation
Indices: 72712966--72713015 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
72712956 AAAAAAAAAG
72712966 AAAA-AAAAAAGA-AAAGAA
1 AAAAGAAAAAAGATAAAGAA
* *
72712984 AAAGAGAAAAAATATAGAGAA
1 AAA-AGAAAAAAGATAAAGAA
72713005 AAAAGAAAAAA
1 AAAAGAAAAAA
72713016 TGGAGAGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 3 0.11
19 1 0.04
20 15 0.56
21 8 0.30
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (20 bp):
AAAAGAAAAAAGATAAAGAA
Found at i:72713022 original size:20 final size:21
Alignment explanation
Indices: 72712960--72713022 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
72712950 ATTTCAAAAA
* * *
72712960 AAAAAGAAAAAAAAAAGAAAAG
1 AAAAAGAGAAAAAATAG-AGAG
*
72712982 AAAAAGAGAAAAAATATAGAG
1 AAAAAGAGAAAAAATAGAGAG
*
72713003 AAAAA-AGAAAAAATGGAGAG
1 AAAAAGAGAAAAAATAGAGAG
72713023 GCCAAGGTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 13 0.37
21 8 0.23
22 14 0.40
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (21 bp):
AAAAAGAGAAAAAATAGAGAG
Found at i:72714026 original size:44 final size:44
Alignment explanation
Indices: 72713885--72714064 Score: 195
Period size: 44 Copynumber: 4.1 Consensus size: 44
72713875 CAAAGAAATA
* * *
72713885 AGATTTGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * * **
72713929 AGATCTGACATTCCTGTGCTTACAGCGAAGCAGATTGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
*
72713974 AGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
72714017 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
72714061 AGAT
1 AGAT
72714065 CTAACCTTCA
Statistics
Matches: 110, Mismatches: 20, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
42 2 0.02
43 13 0.12
44 81 0.74
45 13 0.12
46 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:72714271 original size:119 final size:119
Alignment explanation
Indices: 72714060--72714649 Score: 937
Period size: 119 Copynumber: 5.0 Consensus size: 119
72714050 TCGAAGATAG
*
72714060 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAATATGATTTGGCATTCTTGTGTTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
* *
72714125 AAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAACATAA
66 AAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAA
*
72714179 CAGATCTAACCTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
* * *
72714244 AAGGAACAAATCGAGAACATAGCAGATTTAACTCTCAGACGTTCTCAAATATAG
66 AAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAA
* *
72714298 CAAATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
* *
72714363 AAGGAAAAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATATAA
66 AAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAA
*
72714417 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
* * *
72714482 AAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAG
66 AAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAA
* * * * * * * *
72714536 TAGATCTAACCTTCAAATGTTTATAATGAAGCAGATCCATGATGGTTTGACATCCTTGTGCTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
* * * *
72714601 AAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 AAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
72714650 CAGACTCAAG
Statistics
Matches: 437, Mismatches: 34, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 437 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (119 bp):
CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTAC
AAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAA
Found at i:72714715 original size:83 final size:83
Alignment explanation
Indices: 72714576--72715001 Score: 771
Period size: 83 Copynumber: 5.1 Consensus size: 83
72714566 GCAGATCCAT
*
72714576 GATGGTTTGACATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAAT
1 GATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAAT
72714641 GTTCTCAAACAGACTCAA
66 GTTCTCAAACAGACTCAA
*
72714659 GATGGTTTGGAATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAAT
1 GATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAAT
72714724 GTTCTCAAACAGACTCAA
66 GTTCTCAAACAGACTCAA
72714742 GATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAAT
1 GATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAAT
72714807 GTTCTCAAACAGACTCAA
66 GTTCTCAAACAGACTCAA
*
72714825 GATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGTAGATATGACTCTCAAAT
1 GATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAAT
72714890 GTTCTCAAACATGACTCAA
66 GTTCTCAAACA-GACTCAA
* * *
72714909 GATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTCAAA
1 GATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAA
72714974 TGTTCTCAAACAGACTCAA
65 TGTTCTCAAACAGACTCAA
*
72714993 GATGATTTG
1 GATGGTTTG
72715002 ACGTCCTTAC
Statistics
Matches: 332, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
83 239 0.72
84 29 0.09
85 64 0.19
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (83 bp):
GATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAAT
GTTCTCAAACAGACTCAA
Found at i:72719218 original size:51 final size:53
Alignment explanation
Indices: 72719140--72719255 Score: 164
Period size: 51 Copynumber: 2.2 Consensus size: 53
72719130 GAAGACTATG
* * *
72719140 CCAAAGAGGAGTGACGTGTTTTATGCATGGTGTTTACTTGGCAAAGATTGAGA
1 CCAAAGAGGAGTGAAGCGTTTTATGCATGGTGTTCACTTGGCAAAGATTGAGA
*
72719193 CCAAAGAGG-GTGAAGCG-TTTATGCATGGTGTTCACTTGGCAAAGATTGATA
1 CCAAAGAGGAGTGAAGCGTTTTATGCATGGTGTTCACTTGGCAAAGATTGAGA
* *
72719244 GCAAAGCGGAGT
1 CCAAAGAGGAGT
72719256 TACGTGTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 39 0.70
52 8 0.14
53 9 0.16
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (53 bp):
CCAAAGAGGAGTGAAGCGTTTTATGCATGGTGTTCACTTGGCAAAGATTGAGA
Done.