Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 150 of 292
Found at i:44476294 original size:27 final size:26
Alignment explanation
Indices: 44476277--44476363 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 26
44476267 TATTACAGTT
44476277 ATTTTACCCTATAGGGGTATTTCGGTC
1 ATTTTACCCTATAGGGGTATTTC-GTC
*
44476304 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATAGGGGTATTTCG-TC
*
44476331 ATTTTACCCTAT-GAGCGTATTTCGGTC
1 ATTTTACCCTATAG-GGGTATTTC-GTC
44476358 ATTTTA
1 ATTTTA
44476364 TCACACAACA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
26 2 0.04
27 52 0.95
28 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (26 bp):
ATTTTACCCTATAGGGGTATTTCGTC
Found at i:44476310 original size:54 final size:54
Alignment explanation
Indices: 44476247--44476363 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
44476237 AAGAAAATCT
* * *
44476247 GTCATTTTACCTTAACAGGGTATTAC-AGTTATTTTACCCTAT-AGGGGTATTTCG
1 GTCATTTTACCCTAACAGGGTATTACGA-TCATTTTACCCTATGA-GCGTATTTCG
*** *
44476301 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGCGTATTTCG
1 GTCATTTTACCCTAACAGGGTATTACGATCATTTTACCCTATGAGCGTATTTCG
44476355 GTCATTTTA
1 GTCATTTTA
44476364 TCACACAACA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 52 0.96
55 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCCTAACAGGGTATTACGATCATTTTACCCTATGAGCGTATTTCG
Found at i:44476385 original size:27 final size:27
Alignment explanation
Indices: 44476355--44476509 Score: 166
Period size: 27 Copynumber: 5.7 Consensus size: 27
44476345 GCGTATTTCG
* ** *
44476355 GTCATTTTATCACACAACAGCAGAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
44476382 GTCATTTTAGCACATGAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
44476409 ATCATTTTATCACATGAGGGTAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
44476436 GTTATTTTATCACATAAGGGTAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* **
44476463 GTCATTTTATCACATGAGGGTGAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
44476490 ATCATTTTATCACATGAGGG
1 GTCATTTTATCACATAAGGG
44476510 TTCATGTACG
Statistics
Matches: 112, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:44476413 original size:81 final size:81
Alignment explanation
Indices: 44476355--44476507 Score: 216
Period size: 81 Copynumber: 1.9 Consensus size: 81
44476345 GCGTATTTCG
*
44476355 GTCATTTTATCACACAACAGCAGAATCGTCATTTTAGCACATGAGGGCAAAATCATCATTTTATC
1 GTCATTTTATCACACAACAGCAAAATCGTCATTTTAGCACATGAGGGCAAAATCATCATTTTATC
*
44476420 ACATGAGGGTAAAATC
66 ACATGAGCGTAAAATC
* * ** * * **
44476436 GTTATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATGAGGGTGAAATCATCATTTTATC
1 GTCATTTTATCACACAACAGCAAAATCGTCATTTTAGCACATGAGGGCAAAATCATCATTTTATC
44476501 ACATGAG
66 ACATGAG
44476508 GGTTCATGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (81 bp):
GTCATTTTATCACACAACAGCAAAATCGTCATTTTAGCACATGAGGGCAAAATCATCATTTTATC
ACATGAGCGTAAAATC
Found at i:44476510 original size:27 final size:27
Alignment explanation
Indices: 44476378--44476510 Score: 203
Period size: 27 Copynumber: 4.9 Consensus size: 27
44476368 ACAACAGCAG
* *
44476378 AATCGTCATTTTAGCACATGAGGGCAA
1 AATCGTCATTTTATCACATGAGGGTAA
*
44476405 AATCATCATTTTATCACATGAGGGTAA
1 AATCGTCATTTTATCACATGAGGGTAA
* *
44476432 AATCGTTATTTTATCACATAAGGGTAA
1 AATCGTCATTTTATCACATGAGGGTAA
*
44476459 AATCGTCATTTTATCACATGAGGGTGA
1 AATCGTCATTTTATCACATGAGGGTAA
*
44476486 AATCATCATTTTATCACATGAGGGT
1 AATCGTCATTTTATCACATGAGGGT
44476511 TCATGTACGC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (27 bp):
AATCGTCATTTTATCACATGAGGGTAA
Found at i:44478281 original size:40 final size:40
Alignment explanation
Indices: 44478265--44478498 Score: 330
Period size: 40 Copynumber: 5.8 Consensus size: 40
44478255 AGCCCAGTTA
* * *
44478265 TAGTAGCTCGCACAAATGGCTTCAGGA-CTTATCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGCCCGGATT
*
44478305 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATT
*
44478345 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATT
**
44478385 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTTCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATT
* *
44478425 TAGTAACTCGCACAATTGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATT
*
44478465 TAGTAACTTAGCACAAA-GCCTTCGGGA-CTTAGCC
1 TAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGCC
44478499 TAGACATCAT
Statistics
Matches: 181, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 3 0.02
40 168 0.93
41 10 0.06
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATT
Found at i:44478496 original size:120 final size:120
Alignment explanation
Indices: 44478237--44478498 Score: 363
Period size: 120 Copynumber: 2.2 Consensus size: 120
44478227 GCTACTCGTT
* * * *
44478237 CAAATACCTTCGGGACATAGCCCAGTTATAGTAGCTCGCACAAATGGCTTCAGGACTTATCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAATGCCTTCAGGACTTATCCCGG
*
44478302 ATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
66 ATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTAGCA
* *
44478357 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-
1 CAAATGCCTTCGGGA-CTTAGCCCAG-TTATAGTAACTCGCACAAATGCCTTCAGGA-CTTA-TC
* *
44478418 TCGGATTTAGTAACTCGCACAATTGCCTTCGGATCTTAGTCCGGATTTAGTAACTTAGCA
62 CCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TAGCA
44478478 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
44478499 TAGACATCAT
Statistics
Matches: 126, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
119 6 0.05
120 106 0.84
121 14 0.11
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAATGCCTTCAGGACTTATCCCGG
ATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTAGCA
Found at i:44484261 original size:38 final size:39
Alignment explanation
Indices: 44484182--44484343 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
44484172 TGTGAATGAA
*
44484182 TGTGCGAATTGCGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
44484221 TGTGCGAATTGTGATATCCGGGCTAAG-CCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
44484259 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
44484298 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
44484338 TGTGCG
1 TGTGCG
44484344 GGTTACCATA
Statistics
Matches: 113, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
38 35 0.31
39 61 0.54
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:44484310 original size:77 final size:78
Alignment explanation
Indices: 44484194--44484343 Score: 257
Period size: 77 Copynumber: 1.9 Consensus size: 78
44484184 TGCGAATTGC
44484194 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCGAAGGCAA
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAA
44484258 TTGTGCGAGCTAT
66 TTGTGCGAGCTAT
* *
44484271 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
*
44484336 TTTGTGCG
65 ATTGTGCG
44484344 GGTTACCATA
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
77 52 0.76
79 16 0.24
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (78 bp):
GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAA
TTGTGCGAGCTAT
Found at i:44489815 original size:40 final size:40
Alignment explanation
Indices: 44489771--44489996 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
44489761 GCTACTCGTT
* * *
44489771 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
44489811 CAAATGCCTTCGGGACTTATCCCGGATTTACTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
44489851 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
44489891 CAAATGCCTT-TGGATCTTAGTCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
44489931 CAATTGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
44489972 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44489997 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.02
40 150 0.91
41 12 0.07
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44492012 original size:24 final size:24
Alignment explanation
Indices: 44491960--44492149 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
44491950 GCTTTATCAT
* *
44491960 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
44491985 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
*
44492009 ATAACTGGGGCATAAGTCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
44492032 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
44492056 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
44492080 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
44492104 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
44492127 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
44492150 TCACTTCCTC
Statistics
Matches: 152, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
23 42 0.28
24 98 0.64
25 12 0.08
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:44492040 original size:47 final size:47
Alignment explanation
Indices: 44491985--44492149 Score: 276
Period size: 47 Copynumber: 3.5 Consensus size: 47
44491975 GCCTCTTTTA
* * *
44491985 ATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGTCCTTTG
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTG
*
44492032 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTG
*
44492080 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTG
44492127 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
44492150 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
47 65 0.59
48 46 0.41
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTG
Found at i:44492061 original size:71 final size:72
Alignment explanation
Indices: 44491960--44492150 Score: 289
Period size: 71 Copynumber: 2.7 Consensus size: 72
44491950 GCTTTATCAT
* *
44491960 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
*
44492024 GTCC-TTTG
64 GCCCTTTTG
* * *
44492032 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
44492097 CCTTTTG
66 CCTTTTG
44492104 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
44492151 CACTTCCTCC
Statistics
Matches: 109, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 75 0.69
72 34 0.31
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTG
Found at i:44492307 original size:25 final size:25
Alignment explanation
Indices: 44492261--44492308 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
44492251 ATATATAAAC
* * * *
44492261 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
44492286 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
44492309 CATATTATAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:44493569 original size:27 final size:27
Alignment explanation
Indices: 44493549--44494024 Score: 586
Period size: 27 Copynumber: 17.6 Consensus size: 27
44493539 AGGGTATTTT
*
44493549 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
44493576 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
44493603 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
44493630 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
44493657 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
44493684 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
44493711 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
44493738 TGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
44493765 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
44493792 GGTAATTCTATAATTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
44493819 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
44493846 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
44493873 AGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
44493900 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
44493927 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
44493954 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
44493981 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
44494008 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
44494025 GGAGTACTTT
Statistics
Matches: 393, Mismatches: 44, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.01
27 382 0.97
28 6 0.02
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:44505168 original size:30 final size:30
Alignment explanation
Indices: 44505132--44505291 Score: 229
Period size: 29 Copynumber: 5.5 Consensus size: 30
44505122 GACAAGATTG
* * * * *
44505132 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
**
44505162 GCACTAAGTGTGCGAG-T-TTAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
44505190 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
44505219 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
44505249 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
44505278 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44505292 GATTCACTAT
Statistics
Matches: 120, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
28 23 0.19
29 51 0.43
30 46 0.38
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:44505258 original size:59 final size:57
Alignment explanation
Indices: 44505132--44505291 Score: 230
Period size: 59 Copynumber: 2.8 Consensus size: 57
44505122 GACAAGATTG
* * * * * **
44505132 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTAAAATTATATA
44505190 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-T-AAAATTATATA
44505249 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
44505292 GATTCACTAT
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
57 20 0.22
58 21 0.23
59 52 0.56
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTAAAATTATATA
Found at i:44516574 original size:30 final size:30
Alignment explanation
Indices: 44516538--44516697 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
44516528 GACAAGATTG
* * * * *
44516538 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
44516568 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
44516596 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
44516625 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
44516655 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
44516684 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44516698 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:44516665 original size:59 final size:57
Alignment explanation
Indices: 44516538--44516697 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
44516528 GACAAGATTG
* * * * * *
44516538 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
44516596 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
44516655 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
44516698 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:44524491 original size:30 final size:30
Alignment explanation
Indices: 44524455--44524554 Score: 125
Period size: 28 Copynumber: 3.4 Consensus size: 30
44524445 GACAAGATTG
* * *
44524455 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
*
44524485 GCACTAAGTGTGCGAGTTT--GATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
44524513 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
44524542 GCACTAAGTGTGC
1 GCACTAAGTGTGC
44524555 AGATTCACTA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:44524549 original size:29 final size:29
Alignment explanation
Indices: 44524455--44524554 Score: 114
Period size: 29 Copynumber: 3.4 Consensus size: 29
44524445 GACAAGATTG
* * * *
44524455 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTGAAAA-TATATA
*
44524485 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-TTGAAAATATATA
*
44524513 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTTGAAAATATATA
44524542 GCACTAAGTGTGC
1 GCACTAAGTGTGC
44524555 AGATTCACTA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 21 0.35
30 15 0.25
31 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTGAAAATATATA
Found at i:44528177 original size:55 final size:54
Alignment explanation
Indices: 44528052--44528248 Score: 211
Period size: 55 Copynumber: 3.6 Consensus size: 54
44528042 ATTAGGGTTT
* *
44528052 AAGGATACCAAGTAAGACCATGCCAAGGA-ATGGCATTGGAAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCATTGTAAAGTTCTATAAGGC
* * * * * *
44528106 AAGGAAATCATGTAAGACCATGTCAAGATATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTG-TAAAGTTCTATAAGGC
* * * * *
44528161 AAAGATCCCATGTAAGACCAAGCCAAGACATGGTAATGGT-AAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGTAAAGTTCTATAAGGC
* *
44528214 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
44528249 ATGGTAACTT
Statistics
Matches: 116, Mismatches: 24, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
52 1 0.01
53 37 0.32
54 35 0.30
55 40 0.34
56 3 0.03
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGTAAAGTTCTATAAGGC
Found at i:44528232 original size:53 final size:54
Alignment explanation
Indices: 44528052--44528255 Score: 223
Period size: 53 Copynumber: 3.8 Consensus size: 54
44528042 ATTAGGGTTT
* * *
44528052 AAGGATACCAAGTAAGACCATGCCAAGGA-ATGGCATTGGAAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCAATGGTAAGTTCTATAAGGC
* * * * * * * *
44528106 AAGGAAATCATGTAAGACCATGTCAAGATATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * *
44528161 AAAGATCCCATGTAAGACCAAGCCAAGACATGGTAATGGTAAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* *
44528214 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAA
44528256 CTTAAAAAGG
Statistics
Matches: 122, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
53 45 0.37
54 35 0.29
55 42 0.34
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:44534836 original size:20 final size:20
Alignment explanation
Indices: 44534811--44534859 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
44534801 GATTTTCCAT
44534811 GATTGCTACTCCATTGACAA
1 GATTGCTACTCCATTGACAA
44534831 GATTGCTACTCCATTGACAA
1 GATTGCTACTCCATTGACAA
44534851 GATTGCTAC
1 GATTGCTAC
44534860 AGAAAGATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (20 bp):
GATTGCTACTCCATTGACAA
Found at i:44539661 original size:24 final size:24
Alignment explanation
Indices: 44539623--44539696 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
44539613 CATATGTTGA
* *
44539623 CATTCAAATCAGCACACATAGTGC
1 CATTCAACTCCGCACACATAGTGC
*
44539647 TATTCAACTCCGCACACATAGTGC
1 CATTCAACTCCGCACACATAGTGC
* * *
44539671 CATACTACACCGCACACATAGTGC
1 CATTCAACTCCGCACACATAGTGC
44539695 CA
1 CA
44539697 ATGTACACTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.20
Consensus pattern (24 bp):
CATTCAACTCCGCACACATAGTGC
Found at i:44549827 original size:40 final size:39
Alignment explanation
Indices: 44549782--44549989 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
44549772 CGGAATACAA
*
44549782 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
44549822 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
44549862 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
44549902 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
44549942 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
44549982 CCGGATAT
1 CCGGATAT
44549990 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:44549922 original size:80 final size:81
Alignment explanation
Indices: 44549782--44549987 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
44549772 CGGAATACAA
* * *
44549782 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
44549846 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
44549862 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
44549925 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
44549942 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
44549988 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:44553548 original size:39 final size:39
Alignment explanation
Indices: 44553505--44553630 Score: 117
Period size: 39 Copynumber: 3.2 Consensus size: 39
44553495 GCAATTAGCT
44553505 TGCTAGGTATAAACCTAAACTTATCACCGGCACGAGGCC
1 TGCTAGGTATAAACCTAAACTTATCACCGGCACGAGGCC
** ** * * ** *
44553544 TGCTAGACATTAAGTCTGAAACTCATTCATCGGCATTATGCC
1 TGCTAGGTA-TAAACCT-AAACTTA-TCACCGGCACGAGGCC
* * *
44553586 TGCTAGGTATAAACCTGAACTTATCACTGACACGAGGCC
1 TGCTAGGTATAAACCTAAACTTATCACCGGCACGAGGCC
44553625 TGCTAG
1 TGCTAG
44553631 ACTTTAAGTC
Statistics
Matches: 63, Mismatches: 21, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
39 23 0.37
40 10 0.16
41 11 0.17
42 19 0.30
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (39 bp):
TGCTAGGTATAAACCTAAACTTATCACCGGCACGAGGCC
Found at i:44553587 original size:42 final size:41
Alignment explanation
Indices: 44553541--44553672 Score: 108
Period size: 42 Copynumber: 3.2 Consensus size: 41
44553531 CCGGCACGAG
44553541 GCCTGCTAGACATTAAGTCTGAAACTCATTCATCGGCATTAT
1 GCCTGCTAGACATTAAGTCTGAAACTCATTCA-CGGCATTAT
** ** * * ** *
44553583 GCCTGCTAGGTA-TAAACCTG-AACTTA-TCACTGACACGAG
1 GCCTGCTAGACATTAAGTCTGAAACTCATTCAC-GGCATTAT
* * *
44553622 GCCTGCTAGACTTTAAGTCCGAAACACATTCACCGGCATTAT
1 GCCTGCTAGACATTAAGTCTGAAACTCATTCA-CGGCATTAT
44553664 GCCTGCTAG
1 GCCTGCTAG
44553673 GCTCATGGCC
Statistics
Matches: 64, Mismatches: 21, Indels: 10
0.67 0.22 0.11
Matches are distributed among these distances:
38 1 0.02
39 16 0.25
40 10 0.16
41 10 0.16
42 26 0.41
43 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (41 bp):
GCCTGCTAGACATTAAGTCTGAAACTCATTCACGGCATTAT
Found at i:44553628 original size:81 final size:81
Alignment explanation
Indices: 44553488--44553673 Score: 284
Period size: 81 Copynumber: 2.3 Consensus size: 81
44553478 CTTTTATTAT
* *
44553488 TTCACCGGCAATTA-GCTTGCTAGGTATAAACCTAAACTTATCACCGGCACGAGGCCTGCTAGAC
1 TTCACCGGC-ATTATGCCTGCTAGGTATAAACCTAAACTTATCACCGACACGAGGCCTGCTAGAC
* *
44553552 ATTAAGTCTGAAACTCA
65 ATTAAGTCCGAAACACA
* * * *
44553569 TTCATCGGCATTATGCCTGCTAGGTATAAACCTGAACTTATCACTGACACGAGGCCTGCTAGACT
1 TTCACCGGCATTATGCCTGCTAGGTATAAACCTAAACTTATCACCGACACGAGGCCTGCTAGACA
44553634 TTAAGTCCGAAACACA
66 TTAAGTCCGAAACACA
44553650 TTCACCGGCATTATGCCTGCTAGG
1 TTCACCGGCATTATGCCTGCTAGG
44553674 CTCATGGCCC
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 4 0.04
81 91 0.96
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (81 bp):
TTCACCGGCATTATGCCTGCTAGGTATAAACCTAAACTTATCACCGACACGAGGCCTGCTAGACA
TTAAGTCCGAAACACA
Found at i:44556644 original size:21 final size:21
Alignment explanation
Indices: 44556618--44556659 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
44556608 AATTGAGCCG
44556618 ACTTTGTCAATCTATCAACCA
1 ACTTTGTCAATCTATCAACCA
44556639 ACTTTGTCAATCTATCAACCA
1 ACTTTGTCAATCTATCAACCA
44556660 CAACCCAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (21 bp):
ACTTTGTCAATCTATCAACCA
Found at i:44561409 original size:39 final size:39
Alignment explanation
Indices: 44561353--44561494 Score: 160
Period size: 39 Copynumber: 3.6 Consensus size: 39
44561343 TTTTATTATT
*
44561353 TCACCGGCAATTA-GCCTGCTAGGTATAAATCTGAACTTA
1 TCACCGGC-ATGAGGCCTGCTAGGTATAAATCTGAACTTA
* ** * *
44561392 TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCA
1 TCACCGGCATGAGGCCTGCTAGGTA-TAAATCTG-AACTTA
* * *
44561433 TTCACCGGCATTATGCCTGCTAGGTATAAACCTGAACTTA
1 -TCACCGGCATGAGGCCTGCTAGGTATAAATCTGAACTTA
44561473 TCACCGGCATGAGGCCTGCTAG
1 TCACCGGCATGAGGCCTGCTAG
44561495 ACATTAAGTC
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
38 2 0.02
39 38 0.46
40 12 0.14
41 11 0.13
42 20 0.24
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
TCACCGGCATGAGGCCTGCTAGGTATAAATCTGAACTTA
Found at i:44561442 original size:42 final size:42
Alignment explanation
Indices: 44561392--44561536 Score: 143
Period size: 42 Copynumber: 3.5 Consensus size: 42
44561382 TCTGAACTTA
*
44561392 TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
1 TCACCGGCATGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
* * ** ** *
44561434 TCACCGGCATTATGCCTGCTAGGTA-TAAACCTG-AACTTA-
1 TCACCGGCATGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
**
44561473 TCACCGGCATGAGGCCTGCTAGACATTAAGTCCAAAACTCAT
1 TCACCGGCATGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
* * * *
44561515 TCACTGTCATTATGCCTGCTAG
1 TCACCGGCATGAGGCCTGCTAG
44561537 GCTCATGGCT
Statistics
Matches: 79, Mismatches: 21, Indels: 6
0.75 0.20 0.06
Matches are distributed among these distances:
39 21 0.27
40 9 0.11
41 11 0.14
42 38 0.48
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (42 bp):
TCACCGGCATGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
Found at i:44561487 original size:81 final size:81
Alignment explanation
Indices: 44561352--44561537 Score: 302
Period size: 81 Copynumber: 2.3 Consensus size: 81
44561342 CTTTTATTAT
*
44561352 TTCACCGGCAATTA-GCCTGCTAGGTATAAATCTGAACTTATCACCGGCACGAGGCCTGCTAGAC
1 TTCACCGGC-ATTATGCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAGGCCTGCTAGAC
**
44561416 ATTAAGTCTGAAACTCA
65 ATTAAGTCCAAAACTCA
*
44561433 TTCACCGGCATTATGCCTGCTAGGTATAAACCTGAACTTATCACCGGCATGAGGCCTGCTAGACA
1 TTCACCGGCATTATGCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAGGCCTGCTAGACA
44561498 TTAAGTCCAAAACTCA
66 TTAAGTCCAAAACTCA
* *
44561514 TTCACTGTCATTATGCCTGCTAGG
1 TTCACCGGCATTATGCCTGCTAGG
44561538 CTCATGGCTC
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 4 0.04
81 94 0.96
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (81 bp):
TTCACCGGCATTATGCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAGGCCTGCTAGACA
TTAAGTCCAAAACTCA
Found at i:44567113 original size:16 final size:16
Alignment explanation
Indices: 44567092--44567122 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44567082 GCTCCTGTGA
44567092 GGCCCACCAGCCCATG
1 GGCCCACCAGCCCATG
44567108 GGCCCACCAGCCCAT
1 GGCCCACCAGCCCAT
44567123 TTTGGCCCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.52, G:0.23, T:0.06
Consensus pattern (16 bp):
GGCCCACCAGCCCATG
Found at i:44584842 original size:40 final size:40
Alignment explanation
Indices: 44584798--44584906 Score: 218
Period size: 40 Copynumber: 2.7 Consensus size: 40
44584788 GCTACTTCCT
44584798 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
44584838 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
44584878 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
44584907 CATCCGAATA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:44600375 original size:51 final size:49
Alignment explanation
Indices: 44600320--44600462 Score: 120
Period size: 51 Copynumber: 3.0 Consensus size: 49
44600310 CTACCACATA
*
44600320 ACATGTAACACATCCATAATGAACTCAGACCTCTCAATGAGCTCGGATG
1 ACATGTAACACATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATG
** * * ** * *
44600369 TTACATG-AATTGCATCCATTATGGACTTGGACCTCTCAACAAGCCCGGATG
1 --ACATGTAA-CACATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATG
*
44600420 -C---T--CACATCCATAATAAACTCAGACCTCTCAACGAGCTCGGATG
1 ACATGTAACACATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATG
44600463 CCACATACCT
Statistics
Matches: 72, Mismatches: 18, Indels: 12
0.71 0.18 0.12
Matches are distributed among these distances:
43 32 0.44
48 1 0.01
50 2 0.03
51 37 0.51
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
ACATGTAACACATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATG
Found at i:44605592 original size:27 final size:27
Alignment explanation
Indices: 44605561--44605613 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
44605551 TACGGACTTT
*
44605561 CCTGTGTTTACTGTCTCAGTGGACTAC
1 CCTGTGTTTACTGTCCCAGTGGACTAC
*
44605588 CCTGTGTTTATTGTCCCAGTGGACTA
1 CCTGTGTTTACTGTCCCAGTGGACTA
44605614 TACTAGATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.38
Consensus pattern (27 bp):
CCTGTGTTTACTGTCCCAGTGGACTAC
Found at i:44605761 original size:31 final size:31
Alignment explanation
Indices: 44605726--44605784 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
44605716 CAGACCACCG
*
44605726 TTGCGGTGTTGTTCTATGAAACCTATAACCA
1 TTGCGATGTTGTTCTATGAAACCTATAACCA
44605757 TTGCGATGTTGTTCTATGAAACCTATAA
1 TTGCGATGTTGTTCTATGAAACCTATAA
44605785 ACTGTTGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (31 bp):
TTGCGATGTTGTTCTATGAAACCTATAACCA
Found at i:44608404 original size:8 final size:7
Alignment explanation
Indices: 44608386--44608543 Score: 75
Period size: 7 Copynumber: 22.0 Consensus size: 7
44608376 ACTAATTAAT
44608386 CTAAACC
1 CTAAACC
44608393 CTAAATCC
1 CTAAA-CC
*
44608401 CTAACCC
1 CTAAACC
44608408 CTAAACC
1 CTAAACC
*
44608415 TTAAACC
1 CTAAACC
* *
44608422 ATAAAAC
1 CTAAACC
* **
44608429 ATAAATA
1 CTAAACC
*
44608436 CTTAACC
1 CTAAACC
*
44608443 CTTAACCC
1 C-TAAACC
44608451 CTAAACC
1 CTAAACC
*
44608458 TTAAACC
1 CTAAACC
* *
44608465 CCAACCCC
1 CTAA-ACC
*
44608473 CTAAAAC
1 CTAAACC
*
44608480 TTAAACC
1 CTAAACC
44608487 CT-AACC
1 CTAAACC
*
44608493 CTTAACC
1 CTAAACC
44608500 CATAAACC
1 C-TAAACC
*
44608508 ATAAACC
1 CTAAACC
* *
44608515 ATAATCC
1 CTAAACC
*
44608522 TTAAACC
1 CTAAACC
*
44608529 CATAATCC
1 C-TAAACC
*
44608537 GTAAACC
1 CTAAACC
44608544 TTACAATAGT
Statistics
Matches: 112, Mismatches: 33, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
6 6 0.05
7 80 0.71
8 26 0.23
ACGTcount: A:0.42, C:0.37, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:44608482 original size:43 final size:43
Alignment explanation
Indices: 44608394--44608546 Score: 132
Period size: 43 Copynumber: 3.5 Consensus size: 43
44608384 ATCTAAACCC
*
44608394 TAAATCCCTAACCCCTAAACCTTAAACCATAAAACATAAATACT
1 TAAA-CCCTAACCCCTAAACCTTAAACCACAAAACATAAATACT
* ** *
44608438 T-AACCCTTAACCCCTAAACCTTAAACCCCAACCCCCTAAA-ACT
1 TAAACCC-TAACCCCTAAACCTTAAACCACAA-AACATAAATACT
* * * * * *
44608481 TAAACCCTAACCCTTAACCCATAAACCATAAACCAT-AATCCT
1 TAAACCCTAACCCCTAAACCTTAAACCACAAAACATAAATACT
* *
44608523 TAAACCCATAATCCGTAAACCTTA
1 TAAACCC-TAACCCCTAAACCTTA
44608547 CAATAGTAAC
Statistics
Matches: 87, Mismatches: 17, Indels: 11
0.76 0.15 0.10
Matches are distributed among these distances:
41 2 0.02
42 15 0.17
43 59 0.68
44 11 0.13
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.22
Consensus pattern (43 bp):
TAAACCCTAACCCCTAAACCTTAAACCACAAAACATAAATACT
Found at i:44608514 original size:15 final size:15
Alignment explanation
Indices: 44608496--44608543 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
44608486 CCTAACCCTT
*
44608496 AACCCATAAACCATA
1 AACCCATAATCCATA
*
44608511 AA-CCATAATCCTTA
1 AACCCATAATCCATA
*
44608525 AACCCATAATCCGTA
1 AACCCATAATCCATA
44608540 AACC
1 AACC
44608544 TTACAATAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:44608545 original size:22 final size:22
Alignment explanation
Indices: 44608386--44608546 Score: 109
Period size: 22 Copynumber: 7.5 Consensus size: 22
44608376 ACTAATTAAT
*
44608386 CTAAACCCTAAATCCC-TAACCC
1 CTAAACCTTAAA-CCCATAACCC
**
44608408 CTAAACCTTAAA-CCATAAAAC
1 CTAAACCTTAAACCCATAACCC
* * *
44608429 ATAAATACTT-AACCCTTAACCC
1 CTAAA-CCTTAAACCCATAACCC
*
44608451 CTAAACCTTAAACCCCA-ACCCC
1 CTAAACCTTAAA-CCCATAACCC
*
44608473 CTAAAACTTAAACCC-TAACCC
1 CTAAACCTTAAACCCATAACCC
* * * *
44608494 TTAACCCATAAA-CCATAAACC
1 CTAAACCTTAAACCCATAACCC
* * *
44608515 ATAATCCTTAAACCCATAATCC
1 CTAAACCTTAAACCCATAACCC
*
44608537 GTAAACCTTA
1 CTAAACCTTA
44608547 CAATAGTAAC
Statistics
Matches: 106, Mismatches: 25, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
20 4 0.04
21 42 0.40
22 57 0.54
23 3 0.03
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.21
Consensus pattern (22 bp):
CTAAACCTTAAACCCATAACCC
Found at i:44610115 original size:28 final size:28
Alignment explanation
Indices: 44610083--44610136 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
44610073 ATAATAAAAT
* *
44610083 CTTTCATATAGTACTCAAATTGAACAAC
1 CTTTCACATAGTACTAAAATTGAACAAC
44610111 CTTTCACATAGTACTAAAATTGAACA
1 CTTTCACATAGTACTAAAATTGAACA
44610137 CCCGCTCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.31
Consensus pattern (28 bp):
CTTTCACATAGTACTAAAATTGAACAAC
Found at i:44612062 original size:25 final size:26
Alignment explanation
Indices: 44612034--44612082 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
44612024 TCGTATTTAA
44612034 TATTTTAAATAAA-AATTATTTATTT
1 TATTTTAAATAAATAATTATTTATTT
* *
44612059 TATTTTATATAAATAATTGTTTAT
1 TATTTTAAATAAATAATTATTTAT
44612083 ATATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
TATTTTAAATAAATAATTATTTATTT
Found at i:44612085 original size:2 final size:2
Alignment explanation
Indices: 44612080--44612118 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
44612070 AATAATTGTT
44612080 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44612119 TTGCTATCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44613946 original size:47 final size:47
Alignment explanation
Indices: 44613891--44613986 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
44613881 TTTCATAAAA
44613891 GTAAAATTATTTTAAAAACTTCTATGATATATCATTTCTAACCTAAT
1 GTAAAATTATTTTAAAAACTTCTATGATATATCATTTCTAACCTAAT
*
44613938 GTAAAATTATTTTAAAAACTTCTATGATATATCATTTCTAATCTAAT
1 GTAAAATTATTTTAAAAACTTCTATGATATATCATTTCTAACCTAAT
44613985 GT
1 GT
44613987 TTTCTTATAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (47 bp):
GTAAAATTATTTTAAAAACTTCTATGATATATCATTTCTAACCTAAT
Found at i:44617103 original size:31 final size:33
Alignment explanation
Indices: 44617046--44617111 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 33
44617036 TAATAAAGAT
*
44617046 AAAATTACATTTAACTATTTTTAAAATTAAAAA
1 AAAATTACATTTAACTATTTTAAAAATTAAAAA
*
44617079 AAAATTA-ATTTAA-TATTTTAAAAATTATAAA
1 AAAATTACATTTAACTATTTTAAAAATTAAAAA
44617110 AA
1 AA
44617112 CATAAACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 18 0.58
32 6 0.19
33 7 0.23
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (33 bp):
AAAATTACATTTAACTATTTTAAAAATTAAAAA
Found at i:44619842 original size:2 final size:2
Alignment explanation
Indices: 44619835--44619868 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
44619825 TAATAATAAC
44619835 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
44619869 TCTAGAGCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44621867 original size:63 final size:63
Alignment explanation
Indices: 44621777--44621900 Score: 203
Period size: 63 Copynumber: 2.0 Consensus size: 63
44621767 ATTATGTGAG
* *
44621777 AATACTACTAATGAGAACTTGTTAGAGAATTTGTTTTAACTTTTCATGCTTCAAATGTGCTCC
1 AATACTACTAATGAGAACTTATTAGAGAATTTGTTCTAACTTTTCATGCTTCAAATGTGCTCC
* * *
44621840 AATATTACTGATGAGAACTTATTAGAGAATTTGTTCTAACTTTTCATGTTTCAAATGTGCT
1 AATACTACTAATGAGAACTTATTAGAGAATTTGTTCTAACTTTTCATGCTTCAAATGTGCT
44621901 ATTGCAGCAG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (63 bp):
AATACTACTAATGAGAACTTATTAGAGAATTTGTTCTAACTTTTCATGCTTCAAATGTGCTCC
Found at i:44633494 original size:39 final size:39
Alignment explanation
Indices: 44633430--44633504 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
44633420 TAAGGTATTG
* *
44633430 AATTTTTTTATTGATAAATTTTATTAATATTCATAAAAT
1 AATTTTTTTATTGATAAATTCTATTAATAGTCATAAAAT
*
44633469 AATTTTTTT-TT-ATACAATGTCTATTACTAGTCATAA
1 AATTTTTTTATTGATA-AAT-TCTATTAATAGTCATAA
44633505 TCTCTCCTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 3 0.10
38 5 0.16
39 23 0.74
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (39 bp):
AATTTTTTTATTGATAAATTCTATTAATAGTCATAAAAT
Found at i:44633668 original size:2 final size:2
Alignment explanation
Indices: 44633656--44633689 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
44633646 ATAATTAACC
44633656 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44633690 CAAAGTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:44635800 original size:31 final size:31
Alignment explanation
Indices: 44635742--44635802 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
44635732 TTAGCAGCCG
*
44635742 AGTGACTTAAATAAAAACTTTTGAATAGTTA
1 AGTGACTTAAATAAAAACTTTTAAATAGTTA
* *
44635773 AGTGACTTACATTAAAA-TTTTCAAATAGTT
1 AGTGACTTAAATAAAAACTTTT-AAATAGTT
44635803 CAGAAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTAAATAGTTA
Found at i:44636324 original size:16 final size:16
Alignment explanation
Indices: 44636281--44636335 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
44636271 AATTTGGTTC
44636281 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
44636297 G-TTTAATGGAATAGA
1 GCTGTAATGGAATAGA
* *
44636312 GCTGTAATAGAATTGA
1 GCTGTAATGGAATAGA
*
44636328 ACTGTAAT
1 GCTGTAAT
44636336 CAATAATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
15 14 0.42
16 19 0.58
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.31
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:44636369 original size:46 final size:44
Alignment explanation
Indices: 44636317--44636405 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
44636307 ATAGAGCTGT
*
44636317 AATAGAATTGAACTGTAATCAATAATTCA-ATTGTTTGGTTGAATGA
1 AATAGAATAGAACTGTAAT-AAT-ATTCATA-TGTTTGGTTGAATGA
* *
44636363 AATAGAATAGAACTGTAATAGTATTCTTATGTTTGGTTGAATG
1 AATAGAATAGAACTGTAATAATATTCATATGTTTGGTTGAATG
44636406 GAATGATGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 18 0.46
45 3 0.08
46 18 0.46
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (44 bp):
AATAGAATAGAACTGTAATAATATTCATATGTTTGGTTGAATGA
Found at i:44636647 original size:63 final size:61
Alignment explanation
Indices: 44636529--44636649 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 61
44636519 ATTTAATAAT
* * *
44636529 AATAAATAATTTAATCATATTTTAATATAATTATTACCAAATATAATTTAATAAAAATGAA
1 AATAAATAATTTAATAACATTTTAATATAATTATTACAAAATATAATTTAATAAAAATGAA
* *
44636590 AATATATAATTTAATAACATTCTTAATATAATTATTATTAAAATATGAA-TTAATAAAAAT
1 AATAAATAATTTAATAACATT-TTAATATAATTATTA-CAAAATAT-AATTTAATAAAAAT
44636650 CATAACATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 18 0.35
62 15 0.29
63 17 0.33
64 2 0.04
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (61 bp):
AATAAATAATTTAATAACATTTTAATATAATTATTACAAAATATAATTTAATAAAAATGAA
Found at i:44641741 original size:38 final size:38
Alignment explanation
Indices: 44641699--44641777 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 38
44641689 TACTTTTGGT
* * *
44641699 ACACCGGCACAAAACTTGCTAGGCACAGAGCCCAAATA
1 ACACCAGCACAAAACCTACTAGGCACAGAGCCCAAATA
* * * * *
44641737 ACACCAGCATAAAGCCTATTAGGCATAGAGCCCGAATA
1 ACACCAGCACAAAACCTACTAGGCACAGAGCCCAAATA
44641775 ACA
1 ACA
44641778 TTACGCTTCT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.41, C:0.29, G:0.18, T:0.13
Consensus pattern (38 bp):
ACACCAGCACAAAACCTACTAGGCACAGAGCCCAAATA
Found at i:44649568 original size:40 final size:40
Alignment explanation
Indices: 44649364--44649568 Score: 245
Period size: 40 Copynumber: 5.1 Consensus size: 40
44649354 CGGAGTTTAA
** *
44649364 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44649404 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44649444 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
44649484 CCGAATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
44649524 CCGGATATAATCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
44649564 CCGGA
1 CCGGA
44649569 CATCATTCGA
Statistics
Matches: 145, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 4 0.03
40 130 0.90
41 11 0.08
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:44657597 original size:39 final size:40
Alignment explanation
Indices: 44657514--44657694 Score: 225
Period size: 39 Copynumber: 4.7 Consensus size: 40
44657504 GCTACTCGTT
*
44657514 CAAATGCCTTC-GGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
44657553 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
44657593 -AAATGCCTTCGGGACTTA-CCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
44657630 CAAATGCCTTC-GGATCTTAGTCCGGATATA-TCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
44657670 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44657695 CATCATTCGA
Statistics
Matches: 127, Mismatches: 7, Indels: 16
0.85 0.05 0.11
Matches are distributed among these distances:
37 19 0.15
38 17 0.13
39 50 0.39
40 39 0.31
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44657655 original size:77 final size:80
Alignment explanation
Indices: 44657514--44657692 Score: 228
Period size: 77 Copynumber: 2.3 Consensus size: 80
44657504 GCTACTCGTT
* *
44657514 CAAATGCCTTC-GGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
44657578 ATTTAGTAAC-TCGCA
66 ATATA-TAACTTAGCA
**
44657593 -AAATGCCTTCGGGACTTA-CCCGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
44657654 GATATATCACTTAGCA
65 GATATATAACTTAGCA
44657670 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
44657693 GACATCATTC
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
76 6 0.07
77 53 0.60
78 23 0.26
79 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATATAACTTAGCA
Found at i:44662552 original size:49 final size:49
Alignment explanation
Indices: 44662480--44662598 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 49
44662470 GATACCTTGG
*
44662480 AATCTTGCACAATAAGTGCCAATAAAAATATAACCGAAGCTATCTCAAT
1 AATCTTGCACAATAAGTGCCAATAAAAATATAACCAAAGCTATCTCAAT
* * * *
44662529 AATCTTGCAC-CTGAAGTGCCAATATATATATAGCCAAAGCTATCTCAAT
1 AATCTTGCACAAT-AAGTGCCAATAAAAATATAACCAAAGCTATCTCAAT
44662578 AA-C--GCACACA-AAGTGCCAATA
1 AATCTTGCACA-ATAAGTGCCAATA
44662599 CATAGCCGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
46 15 0.25
48 2 0.03
49 44 0.72
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.24
Consensus pattern (49 bp):
AATCTTGCACAATAAGTGCCAATAAAAATATAACCAAAGCTATCTCAAT
Found at i:44662624 original size:26 final size:26
Alignment explanation
Indices: 44662588--44662639 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
44662578 AACGCACACA
44662588 AAGTGCCAATACATAGCCGAAGCTAT
1 AAGTGCCAATACATAGCCGAAGCTAT
44662614 AAGTGCCAATACATAGCCGAAGCTAT
1 AAGTGCCAATACATAGCCGAAGCTAT
44662640 CTCAATAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (26 bp):
AAGTGCCAATACATAGCCGAAGCTAT
Found at i:44665381 original size:31 final size:31
Alignment explanation
Indices: 44665343--44665405 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
44665333 CTTTTGACCG
44665343 AATATTAAGGAAGAAGAAAGCAATTGTTTGT
1 AATATTAAGGAAGAAGAAAGCAATTGTTTGT
44665374 AATATTAAGGAAGAAGAAAGCAATTGTTTGT
1 AATATTAAGGAAGAAGAAAGCAATTGTTTGT
44665405 A
1 A
44665406 CTCTATGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.03, G:0.22, T:0.29
Consensus pattern (31 bp):
AATATTAAGGAAGAAGAAAGCAATTGTTTGT
Found at i:44667499 original size:48 final size:48
Alignment explanation
Indices: 44667428--44667742 Score: 255
Period size: 48 Copynumber: 6.6 Consensus size: 48
44667418 GTGTGCTAGC
* * *
44667428 GTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAAAGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAGT
* * ** * * *
44667476 GTAAGAGCATGTCTAGGACATGGCATCAGCGTCGA-TATGTGTGCTAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCCAC-ATTATGAGAGCCAGT
*
44667524 GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAGT
* * * * * *
44667572 ATAAGACCATGTCTAGGACATGGAATCGG---TATTGAGACGAGAGCTAAT
1 GTAAGACCATGTCTAGGACATGGCATCGGCCACATT---ATGAGAGCCAGT
* * * * ** *
44667620 GTAAGACAATGTCTGGGACATGGCATCGG-TATTAAAATGAGAGCTAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCCA-CATTATGAGAGCCAGT
* * * * * *
44667668 GTAGGACCATGTCTGGGACATGGCATTGGCCTCGA-CATGTGAGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGGCCAC-ATTATGAGAGCCAGT
*
44667716 ATAAGACCATGTCTAGGACATGGCATC
1 GTAAGACCATGTCTAGGACATGGCATC
44667743 AGCAATTTAA
Statistics
Matches: 211, Mismatches: 46, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
45 3 0.01
47 1 0.00
48 203 0.96
49 2 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
GTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAGT
Found at i:44667577 original size:96 final size:96
Alignment explanation
Indices: 44667413--44667742 Score: 374
Period size: 96 Copynumber: 3.4 Consensus size: 96
44667403 ACATTTGGTT
* * * *
44667413 GATATGTGTGCTAGCGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAAAGCCAGTGT
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGT
* * *
44667478 AAGAGCATGTCTAGGACATGGCATCAGCGTC
66 AAGACCATGTCTAGGACATGGCATCGGCATC
* *
44667509 GATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTAT
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGT
* * *
44667574 AAGACCATGTCTAGGACATGGAATCGGTATT
66 AAGACCATGTCTAGGACATGGCATCGGCATC
* * * * * * * ** *
44667605 GAGACGAGAGCTAATGTAAGACAATGTCTGGGACATGGCATCGG-TATTAAAATGAGAGCTAGTG
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATGAGAGCCAGTG
* * * *
44667669 TAGGACCATGTCTGGGACATGGCATTGGCCTC
65 TAAGACCATGTCTAGGACATGGCATCGGCATC
* * * *
44667701 GACATGTGAGCCAGTATAAGACCATGTCTAGGACATGGCATC
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
44667743 AGCAATTTAA
Statistics
Matches: 196, Mismatches: 37, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
95 1 0.01
96 195 0.99
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (96 bp):
GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGT
AAGACCATGTCTAGGACATGGCATCGGCATC
Found at i:44667863 original size:22 final size:22
Alignment explanation
Indices: 44667835--44667878 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
44667825 AAAGATATGA
44667835 AAGGATATAATCATGTTGTGAG
1 AAGGATATAATCATGTTGTGAG
44667857 AAGGATATAATCATGTTGTGAG
1 AAGGATATAATCATGTTGTGAG
44667879 TGGTATAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (22 bp):
AAGGATATAATCATGTTGTGAG
Found at i:44673362 original size:34 final size:34
Alignment explanation
Indices: 44673323--44673392 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
44673313 AAAACATGGG
*
44673323 TATTGGAAATCTGGTTAAGATTTATGTTTTTTGA
1 TATTGGAAATCTGGTTAAGATTTATGTTCTTTGA
44673357 TATTGGAAATCTGGTTAAGATTTATGTTCTTTGA
1 TATTGGAAATCTGGTTAAGATTTATGTTCTTTGA
44673391 TA
1 TA
44673393 AGTATGAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.27, C:0.04, G:0.20, T:0.49
Consensus pattern (34 bp):
TATTGGAAATCTGGTTAAGATTTATGTTCTTTGA
Found at i:44677819 original size:25 final size:25
Alignment explanation
Indices: 44677790--44677837 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44677780 TTATAATATG
* * *
44677790 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
44677815 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
44677838 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:44677906 original size:20 final size:20
Alignment explanation
Indices: 44677881--44677939 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
44677871 TAAATATGGT
44677881 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
44677901 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
44677921 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
44677940 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:44678059 original size:47 final size:48
Alignment explanation
Indices: 44677990--44678108 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
44677980 GAGGAAGTGA
44677990 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
44678037 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
44678085 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
44678109 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 1 0.02
47 43 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:44678084 original size:24 final size:24
Alignment explanation
Indices: 44677990--44678108 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
44677980 GAGGAAGTGA
*
44677990 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
44678014 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
44678037 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
44678061 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
44678085 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
44678109 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.26
24 51 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:44678333 original size:31 final size:31
Alignment explanation
Indices: 44678298--44678394 Score: 185
Period size: 31 Copynumber: 3.1 Consensus size: 31
44678288 ACCGTTTACA
44678298 GAAAAGGCTTCGGCCCAGTAATATGAAATAT
1 GAAAAGGCTTCGGCCCAGTAATATGAAATAT
44678329 GAAAAGGCTTCGGCCCAGTAATATGAAATAT
1 GAAAAGGCTTCGGCCCAGTAATATGAAATAT
*
44678360 GAAAAGGCTTCGGCCCAGTATTATGAAATAT
1 GAAAAGGCTTCGGCCCAGTAATATGAAATAT
44678391 GAAA
1 GAAA
44678395 TATGAAAAGG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (31 bp):
GAAAAGGCTTCGGCCCAGTAATATGAAATAT
Found at i:44687461 original size:48 final size:47
Alignment explanation
Indices: 44687406--44687633 Score: 251
Period size: 48 Copynumber: 4.8 Consensus size: 47
44687396 TGATATGTGT
*
44687406 GCTAGTGTAAGACCATGTCTGGGACATGACATTGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCACA-TATGAGA
**** * *
44687454 GCTAGTGTAAGACCATGTCTGGGACATGGA-ATCGGTGTTGATATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACAT-GACATCGG-CCACATATGAGA
* * *
44687502 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCACA-TATGAGA
* * * *
44687550 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCAC-ATATGAGA
* * *
44687598 GCCAGTATAAGACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGC
44687634 AATTTAACCT
Statistics
Matches: 152, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
47 2 0.01
48 146 0.96
49 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCACATATGAGA
Found at i:44687558 original size:96 final size:96
Alignment explanation
Indices: 44687394--44687630 Score: 366
Period size: 96 Copynumber: 2.5 Consensus size: 96
44687384 ACGACATTTG
* **
44687394 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGACATTGGCCACATTATGAGAGCTAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGCTAG
*
44687459 TGTAAGACCATGTCTGGGACATGGAATCGGT
66 TGTAAGACCATGTCTGGGACATGGAATCGGC
*
44687490 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCACATTATGAGAGCTAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGCTAG
*
44687555 TGTAAGACCATGTCTGGGACATGGCATCGGC
66 TGTAAGACCATGTCTGGGACATGGAATCGGC
* * * * * *
44687586 CTCGACATGTGAGCCAGTATAAGACCATGTCTGGGACATGGCATC
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATC
44687631 GGCAATTTAA
Statistics
Matches: 128, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 128 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (96 bp):
GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGCTAG
TGTAAGACCATGTCTGGGACATGGAATCGGC
Found at i:44689776 original size:141 final size:141
Alignment explanation
Indices: 44689522--44689790 Score: 448
Period size: 141 Copynumber: 1.9 Consensus size: 141
44689512 TTGATATATG
* * *
44689522 ATTCAATTCCGAATGGTTCAACGGGAAATGATAAATTTTGAACGATGGTGTAAAACGAGCTAAGA
1 ATTCAATTACGAATGGTTCAACGGGAAATGATAAATTGTGAACGATGGTGTAAAACAAGCTAAGA
* *
44689587 CGATCAGGTATGAGTTAGTTGATTACCTATTAGAAAATAAGGTAAGTTGGCTATTTGATATATAT
66 AGATCAGGTATGAGTTAGTTGATTACCTATTAGAAAATAAGGTAAGTTGGCCATTTGATATATAT
44689652 CTGAGTATTCT
131 CTGAGTATTCT
* * *
44689663 ATTCAATTACGAATGGTTCAACGGGCAATGATAAGTTGTGAACGATGGTGTAAAATAAGCTAAGA
1 ATTCAATTACGAATGGTTCAACGGGAAATGATAAATTGTGAACGATGGTGTAAAACAAGCTAAGA
* *
44689728 ATATCAGGTATGAGTTAGTTGATTACCTATTCGAAAATAAGGTAAGTTGGCCATTTGATATAT
66 AGATCAGGTATGAGTTAGTTGATTACCTATTAGAAAATAAGGTAAGTTGGCCATTTGATATAT
44689791 GATGCAAATT
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
141 118 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.32
Consensus pattern (141 bp):
ATTCAATTACGAATGGTTCAACGGGAAATGATAAATTGTGAACGATGGTGTAAAACAAGCTAAGA
AGATCAGGTATGAGTTAGTTGATTACCTATTAGAAAATAAGGTAAGTTGGCCATTTGATATATAT
CTGAGTATTCT
Found at i:44693456 original size:40 final size:39
Alignment explanation
Indices: 44693412--44693537 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
44693402 GGGACTCAAC
*
44693412 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
44693452 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
44693492 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
44693532 CCGGAT
1 CCGGAT
44693538 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:44693496 original size:80 final size:80
Alignment explanation
Indices: 44693351--44693537 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
44693341 GCTACACATT
* * *
44693351 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
44693415 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
44693431 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
44693494 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
44693512 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
44693538 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:44701503 original size:40 final size:39
Alignment explanation
Indices: 44701459--44701584 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
44701449 GGGACTCAAC
*
44701459 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
44701499 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
44701539 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
44701579 CCGGAT
1 CCGGAT
44701585 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:44701543 original size:80 final size:80
Alignment explanation
Indices: 44701398--44701584 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
44701388 GCTACACATT
* * *
44701398 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
44701462 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
44701478 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
44701541 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
44701559 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
44701585 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:44707701 original size:14 final size:14
Alignment explanation
Indices: 44707682--44707710 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44707672 GTTAATTTTT
44707682 AATATATATATATA
1 AATATATATATATA
44707696 AATATATATATATA
1 AATATATATATATA
44707710 A
1 A
44707711 GTTTTAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATATATATATA
Found at i:44710160 original size:47 final size:47
Alignment explanation
Indices: 44710103--44710202 Score: 130
Period size: 47 Copynumber: 2.1 Consensus size: 47
44710093 TACTGATATA
* * ** * *
44710103 TCAGCTCATAAGAA-CTTACTGTTTTTAGCTTGTTGGAGCTTTCTGTT
1 TCAGCTCATAA-AAGCTTACTATTTTTAGCTCGTCAGAGCTTACCGTT
44710150 TCAGCTCATAAAAGCTTACTATTTTTAGCTCGTCAGAGCTTACCGTT
1 TCAGCTCATAAAAGCTTACTATTTTTAGCTCGTCAGAGCTTACCGTT
44710197 TCAGCT
1 TCAGCT
44710203 TAATCGAGCT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 2 0.04
47 44 0.96
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (47 bp):
TCAGCTCATAAAAGCTTACTATTTTTAGCTCGTCAGAGCTTACCGTT
Found at i:44714782 original size:41 final size:41
Alignment explanation
Indices: 44714728--44714810 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
44714718 TCCATGTAAG
44714728 ACCACATCAAGATGTGGCGTTAGCACTAAGACAAGGATACC
1 ACCACATCAAGATGTGGCGTTAGCACTAAGACAAGGATACC
44714769 ACCACATCAAGATGTGGCGTTAGCACTAAGACAAGGATACC
1 ACCACATCAAGATGTGGCGTTAGCACTAAGACAAGGATACC
44714810 A
1 A
44714811 TGTAAGACCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (41 bp):
ACCACATCAAGATGTGGCGTTAGCACTAAGACAAGGATACC
Found at i:44714864 original size:47 final size:47
Alignment explanation
Indices: 44714795--44714914 Score: 195
Period size: 47 Copynumber: 2.6 Consensus size: 47
44714785 GCGTTAGCAC
*
44714795 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGAAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
44714842 TAAGAAAAGGATACCATGTAAGACAATGTTTGGAACATGTCATTTGG
1 TAAGAAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
44714889 TAAGATAAGGATATCATGTAAGACCA
1 TAAGAAAAGGATACCATGTAAGACCA
44714915 AGCCAAGGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.26
Consensus pattern (47 bp):
TAAGAAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:44715022 original size:55 final size:55
Alignment explanation
Indices: 44714895--44715102 Score: 246
Period size: 53 Copynumber: 3.8 Consensus size: 55
44714885 TTGGTAAGAT
* * *
44714895 AAGGATATCATGTAAGACCAAGCCAAGGCATGGCATTGATAAGTTCTATAAGG-A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCA
* * *
44714949 AAGGA-AGTCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCA
1 AAGGATA-CCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGCA
* * *
44715005 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTC-ATAAGGC-
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCA
* * * *
44715057 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
44715103 AAAAAGTAAA
Statistics
Matches: 134, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
52 4 0.03
53 44 0.33
54 40 0.30
55 41 0.31
56 5 0.04
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCA
Found at i:44715121 original size:108 final size:109
Alignment explanation
Indices: 44714903--44715121 Score: 291
Period size: 108 Copynumber: 2.0 Consensus size: 109
44714893 ATAAGGATAT
* *
44714903 CATGTAAGACCAAGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAGTCATGTAAGACC
1 CATGTAAGACCAAGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAGCCACGTAAGACC
* * * * *
44714968 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
* * *
44715012 CATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTC-ATAAGGCAAGGATA-CCACGTAAGAC
1 CATGTAAGACCAAGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGA-AGCCACGTAAGAC
* *
44715075 CATGTCAAGACATGGCAATGGTAAGTT-CAAAAAGTAAAAGGTTCC
65 CATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGG-TCC
44715120 CA
1 CA
44715122 AATAATCCAA
Statistics
Matches: 96, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
107 10 0.10
108 49 0.51
109 37 0.39
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCAAGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAGCCACGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
Found at i:44717435 original size:18 final size:18
Alignment explanation
Indices: 44717412--44717447 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
44717402 GGTTAGATAC
*
44717412 TTTAACCACAAACTCAAT
1 TTTAACCACAAAATCAAT
44717430 TTTAACCACAAAATCAAT
1 TTTAACCACAAAATCAAT
44717448 AGACTCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (18 bp):
TTTAACCACAAAATCAAT
Found at i:44720550 original size:10 final size:10
Alignment explanation
Indices: 44720537--44720579 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
44720527 AGGATTTACT
44720537 TTTATTTATC
1 TTTATTTATC
*
44720547 TTTAATTATC
1 TTTATTTATC
44720557 TTTATTTAT-
1 TTTATTTATC
44720566 TTGTATTTATC
1 TT-TATTTATC
44720577 TTT
1 TTT
44720580 TAGAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTATTTATC
Found at i:44726984 original size:21 final size:21
Alignment explanation
Indices: 44726958--44727002 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
44726948 TCTTTATTTT
*
44726958 TTTTATTTTAATTATTTATTA
1 TTTTATCTTAATTATTTATTA
44726979 TTTTATCTTAATTATTTATTA
1 TTTTATCTTAATTATTTATTA
44727000 TTT
1 TTT
44727003 AATTATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTATCTTAATTATTTATTA
Found at i:44728966 original size:10 final size:10
Alignment explanation
Indices: 44728951--44729002 Score: 68
Period size: 10 Copynumber: 5.1 Consensus size: 10
44728941 TAAATTTAGG
44728951 ATTTATTTTT
1 ATTTATTTTT
*
44728961 ATTTATCTTT
1 ATTTATTTTT
* *
44728971 AATTATCTTT
1 ATTTATTTTT
44728981 ATTTATTTTT
1 ATTTATTTTT
44728991 ATTTATCTTTT
1 ATTTAT-TTTT
44729002 A
1 A
44729003 GAATTTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
10 32 0.86
11 5 0.14
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:44730918 original size:45 final size:45
Alignment explanation
Indices: 44730825--44730920 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
44730815 ATATTTTTGA
* ** *
44730825 GTAAGACCACATCTGGGACGTTGGCATCGATATATGTGTTTTCAT
1 GTAAGACCACATCTGAGACGTTGGCATCGATATATGTGGCTACAT
* * *
44730870 GTAAGACCACGTCTGAGAGGTTGGCATCGATATATGTGGCTACGT
1 GTAAGACCACATCTGAGACGTTGGCATCGATATATGTGGCTACAT
44730915 GTAAGA
1 GTAAGA
44730921 TCATTTCTGG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (45 bp):
GTAAGACCACATCTGAGACGTTGGCATCGATATATGTGGCTACAT
Found at i:44731520 original size:18 final size:18
Alignment explanation
Indices: 44731497--44731540 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
44731487 ATTTGCTTAA
44731497 GGCTTACTAAGCTAAGTT
1 GGCTTACTAAGCTAAGTT
44731515 GGCTTACTAAGCTAAGTT
1 GGCTTACTAAGCTAAGTT
*
44731533 AGCTTACT
1 GGCTTACT
44731541 TTGTGTGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (18 bp):
GGCTTACTAAGCTAAGTT
Found at i:44733843 original size:23 final size:22
Alignment explanation
Indices: 44733797--44733853 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
44733787 CACATAAATC
*
44733797 TCAATTCAATATTTTCACATTT
1 TCAATTCAATATTTTCACACTT
44733819 TCAATTCAATTATTTTC-CACCTT
1 TCAATTCAA-TATTTTCACA-CTT
*
44733842 TCAA-CCAATATT
1 TCAATTCAATATT
44733854 CAATTCACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 4 0.13
22 14 0.45
23 13 0.42
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.46
Consensus pattern (22 bp):
TCAATTCAATATTTTCACACTT
Found at i:44734764 original size:2 final size:2
Alignment explanation
Indices: 44734757--44734784 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
44734747 TCATTTACTT
44734757 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
44734785 ATAATAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:44734909 original size:5 final size:5
Alignment explanation
Indices: 44734901--44734977 Score: 58
Period size: 5 Copynumber: 15.8 Consensus size: 5
44734891 TGATTTATTT
*
44734901 TATAA TATAA TAT-- TATAA TATAA T-TAA TATAA TTTACAA TATAA TA-ATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA --TATAA TATAA TATA-A
*
44734950 TAATAA TATAA TCTAA T-TAA -ATAA TATA
1 T-ATAA TATAA TATAA TATAA TATAA TATA
44734978 TTTATAAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
3 3 0.05
4 11 0.19
5 37 0.63
6 3 0.05
7 5 0.08
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:44734959 original size:8 final size:8
Alignment explanation
Indices: 44734907--44734961 Score: 56
Period size: 8 Copynumber: 6.2 Consensus size: 8
44734897 ATTTTATAAT
*
44734907 ATAATATT
1 ATAATATA
44734915 ATAATATA
1 ATAATATA
44734923 ATTAATATA
1 A-TAATATA
44734932 ATTTACAATATA
1 A--T--AATATA
44734944 ATAATATA
1 ATAATATA
44734952 ATAATATA
1 ATAATATA
44734960 AT
1 AT
44734962 CTAATTAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
8 24 0.57
9 8 0.19
10 3 0.07
12 7 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (8 bp):
ATAATATA
Found at i:44738143 original size:25 final size:25
Alignment explanation
Indices: 44738108--44738163 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
44738098 GTTTACACAC
* *
44738108 GGCCGTGTAACACGTTCGTGTCCAG
1 GGCCGTATAACACGTCCGTGTCCAG
44738133 GGCCGTATAACACGTCCGTGTCCAG
1 GGCCGTATAACACGTCCGTGTCCAG
44738158 GGCCGT
1 GGCCGT
44738164 GTCAACCACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.16, C:0.30, G:0.32, T:0.21
Consensus pattern (25 bp):
GGCCGTATAACACGTCCGTGTCCAG
Found at i:44743135 original size:43 final size:43
Alignment explanation
Indices: 44743074--44743239 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 43
44743064 AAAGCTTGTA
*
44743074 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATAT
*
44743117 CAATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATA-
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAAATAT
* * * * * * *
44743159 CAATGTCGATGTCCTAGACATGGTCTTACACATAAATCTCAA-AT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGT-AATC-AAATAT
* *
44743203 CGATGCCAACGTCCCAGACGTGGTCTTACACGAAATC
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATC
44743240 GTATATCGAA
Statistics
Matches: 99, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 26 0.26
43 45 0.45
44 28 0.28
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATAT
Found at i:44745086 original size:40 final size:40
Alignment explanation
Indices: 44745061--44745190 Score: 206
Period size: 40 Copynumber: 3.2 Consensus size: 40
44745051 TGCTAGTAAG
*
44745061 AAAACGCCGCTAAAGATCGAGCATTAGTGGCGCTTTTTTA
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTTA
*
44745101 AAAACGTCGCTAAAGATCGAGCATTAGCGGCGCTTTTTTA
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTTA
* * *
44745141 AAAACGCTGCTAAAGATCGAGTATTAGCGGCGCTTTTTGA
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTTA
*
44745181 AAAACACCGC
1 AAAACGCCGC
44745191 AAAAAAGTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTTA
Found at i:44746209 original size:6 final size:7
Alignment explanation
Indices: 44746192--44746267 Score: 89
Period size: 7 Copynumber: 10.3 Consensus size: 7
44746182 AAATCTTCAA
44746192 AAAAATT
1 AAAAATT
44746199 AAAAATT
1 AAAAATT
44746206 AAAAATT
1 AAAAATT
44746213 AAAAATT
1 AAAAATT
* *
44746220 GAAAGATAA
1 -AAAAAT-T
44746229 AAAAATT
1 AAAAATT
44746236 AAAAATT
1 AAAAATT
44746243 AAAAACTT
1 AAAAA-TT
44746251 AAAAACTT
1 AAAAA-TT
*
44746259 AAAATTT
1 AAAAATT
44746266 AA
1 AA
44746268 TATTTAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
7 37 0.61
8 24 0.39
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:44746267 original size:15 final size:15
Alignment explanation
Indices: 44746192--44746262 Score: 83
Period size: 15 Copynumber: 4.7 Consensus size: 15
44746182 AAATCTTCAA
44746192 AAAAATT-AAAAATT
1 AAAAATTAAAAAATT
44746206 AAAAATT-AAAAATT
1 AAAAATTAAAAAATT
* *
44746220 GAAAGATAAAAAAATT
1 -AAAAATTAAAAAATT
*
44746236 AAAAATTAAAAACTT
1 AAAAATTAAAAAATT
44746251 AAAAACTTAAAA
1 AAAAA-TTAAAA
44746263 TTTAATATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
14 14 0.29
15 22 0.45
16 13 0.27
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (15 bp):
AAAAATTAAAAAATT
Found at i:44746267 original size:23 final size:21
Alignment explanation
Indices: 44746192--44746267 Score: 89
Period size: 23 Copynumber: 3.4 Consensus size: 21
44746182 AAATCTTCAA
44746192 AAAAATTAAAAATTAAAAATT
1 AAAAATTAAAAATTAAAAATT
* *
44746213 AAAAATTGAAAGATAAAAAAATT
1 AAAAATT-AAAAAT-TAAAAATT
44746236 AAAAATTAAAAACTTAAAAACTT
1 AAAAATTAAAAA-TTAAAAA-TT
*
44746259 AAAATTTAA
1 AAAAATTAA
44746268 TATTTAATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
21 7 0.15
22 14 0.30
23 25 0.54
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (21 bp):
AAAAATTAAAAATTAAAAATT
Found at i:44746335 original size:23 final size:24
Alignment explanation
Indices: 44746295--44746340 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
44746285 CATATTTCAG
* * *
44746295 TTAAAAAGATCAATATT-CAAAAT
1 TTAAAAAAATAAAAATTCCAAAAT
44746318 TTAAAAAAATAAAAATTCCAAAA
1 TTAAAAAAATAAAAATTCCAAAA
44746341 AATATAATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (24 bp):
TTAAAAAAATAAAAATTCCAAAAT
Found at i:44746496 original size:41 final size:41
Alignment explanation
Indices: 44746422--44746560 Score: 152
Period size: 41 Copynumber: 3.3 Consensus size: 41
44746412 AAATTAAACA
* * ** *
44746422 ATAGTGGCGTTTTTTTGGGAAAAACGCTTCAAAAAGTTGAGCT
1 ATAGTGGCG-TTTTTAGCG-AAAACGCCACAAAAAGTTGAGAT
* * * *
44746465 ATAGTGGCGTTTTTAGTGAAAACGCCGCAAAAACTTGAGTT
1 ATAGTGGCGTTTTTAGCGAAAACGCCACAAAAAGTTGAGAT
* * *
44746506 ATAGTGGCGTTTTTACCAAAAATGCCACAAAAAGTTGAGAT
1 ATAGTGGCGTTTTTAGCGAAAACGCCACAAAAAGTTGAGAT
44746547 ATAGTGGCGTTTTT
1 ATAGTGGCGTTTTT
44746561 GCAAAAAATG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 67 0.81
42 7 0.08
43 9 0.11
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (41 bp):
ATAGTGGCGTTTTTAGCGAAAACGCCACAAAAAGTTGAGAT
Found at i:44746568 original size:41 final size:41
Alignment explanation
Indices: 44746451--44746579 Score: 161
Period size: 41 Copynumber: 3.1 Consensus size: 41
44746441 AAAAACGCTT
* ** *
44746451 CAAAAAGTTGAGCTATAGTGGCGTTTTTAG-TGAAAACGCCG
1 CAAAAAGTTGAGATATAGTGGCGTTTTT-GCAAAAAATGCCG
* * * * *
44746492 CAAAAACTTGAGTTATAGTGGCGTTTTTACCAAAAATGCCA
1 CAAAAAGTTGAGATATAGTGGCGTTTTTGCAAAAAATGCCG
44746533 CAAAAAGTTGAGATATAGTGGCGTTTTTGCAAAAAATGCCG
1 CAAAAAGTTGAGATATAGTGGCGTTTTTGCAAAAAATGCCG
44746574 CAAAAA
1 CAAAAA
44746580 ACTTTAAATC
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAAAAGTTGAGATATAGTGGCGTTTTTGCAAAAAATGCCG
Found at i:44748240 original size:30 final size:29
Alignment explanation
Indices: 44748146--44748247 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
44748136 TATAGTGAAT
* * *
44748146 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
44748175 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
44748203 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
44748233 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
44748248 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:44756079 original size:30 final size:29
Alignment explanation
Indices: 44755985--44756086 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
44755975 TATAGTGAAT
* * *
44755985 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
44756014 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
44756042 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
44756072 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
44756087 CAATCTGTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:44763194 original size:43 final size:42
Alignment explanation
Indices: 44763130--44763274 Score: 148
Period size: 43 Copynumber: 3.4 Consensus size: 42
44763120 TTTCATGACC
* * * *
44763130 TTTAGCGGCATTTGTGGGAAAAGCGTCGCTAAAGGTAATGATT
1 TTTAGCGGCGTTTTTTGGAAAAGCG-CGCTAAAGGTCATGATT
* * *
44763173 TTTAGTGGCGTTTTTTGGAAAAGCACCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTTTTGGAAAAGC-GCGCTAAAGGTCATGATT
* * * *
44763216 TTTAGCGGCGCTTGTGGGAAAAGTGCTGCTAAAGGTCATG-TT
1 TTTAGCGGCGTTTTTTGGAAAAGCGC-GCTAAAGGTCATGATT
44763258 CTTTAGCGGCGTTTTTT
1 -TTTAGCGGCGTTTTTT
44763275 TCAAATAAAA
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
42 2 0.02
43 80 0.98
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTTGGAAAAGCGCGCTAAAGGTCATGATT
Found at i:44766904 original size:18 final size:17
Alignment explanation
Indices: 44766868--44766906 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
44766858 ATCAAAGGAT
44766868 ATAAACTTACTATTAAC
1 ATAAACTTACTATTAAC
44766885 ATAAACTTA-TATGCTAAC
1 ATAAACTTACTAT--TAAC
44766903 ATAA
1 ATAA
44766907 TTCCAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.15
17 9 0.45
18 8 0.40
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (17 bp):
ATAAACTTACTATTAAC
Found at i:44768910 original size:27 final size:27
Alignment explanation
Indices: 44768880--44768936 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
44768870 TGCCAGAAAT
* *
44768880 AGTAAATGTGGTGA-AGCCACCAGTATC
1 AGTAAATGTGG-CATAGCCACCAGTAAC
*
44768907 AGTAATTGTGGCATAGCCACCAGTAAC
1 AGTAAATGTGGCATAGCCACCAGTAAC
44768934 AGT
1 AGT
44768937 GCATGTGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (27 bp):
AGTAAATGTGGCATAGCCACCAGTAAC
Found at i:44768943 original size:27 final size:27
Alignment explanation
Indices: 44768894--44768958 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
44768884 AATGTGGTGA
* *
44768894 AGCCACCAGTATCAGTAATTGTGGCAT
1 AGCCACCAGTAACAGTAATTGTGACAT
*
44768921 AGCCACCAGTAACAGTGCA-TGTGACAT
1 AGCCACCAGTAACAGT-AATTGTGACAT
* *
44768948 AGTCACTAGTA
1 AGCCACCAGTA
44768959 CAGAACTTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (27 bp):
AGCCACCAGTAACAGTAATTGTGACAT
Found at i:44769154 original size:27 final size:27
Alignment explanation
Indices: 44769116--44769422 Score: 402
Period size: 27 Copynumber: 11.4 Consensus size: 27
44769106 TACCATAGGT
*
44769116 ATTACGGTCATTTTACTCTACAGGGGC
1 ATTACGATCATTTTACTCTACAGGGGC
* ** *
44769143 ATTATGGCCATTTTACCCTACAGGGGC
1 ATTACGATCATTTTACTCTACAGGGGC
* *
44769170 ATTACGATTATTTTACCCTACAGGGGC
1 ATTACGATCATTTTACTCTACAGGGGC
*
44769197 ATTACCATCATTTTACTCTACAGGGGC
1 ATTACGATCATTTTACTCTACAGGGGC
* *
44769224 ATTATGATTATTTTACTCTACAGGGGC
1 ATTACGATCATTTTACTCTACAGGGGC
* *
44769251 ATTACGATTATTTTACTCTATAGGGGC
1 ATTACGATCATTTTACTCTACAGGGGC
* *
44769278 ATTAC-AGTTATTTTACTCTACAGGGGA
1 ATTACGA-TCATTTTACTCTACAGGGGC
44769305 ATTACGATCATTTTACTCTACAGGGGC
1 ATTACGATCATTTTACTCTACAGGGGC
* * *
44769332 ATTATGGTCATTTTACTCTACAAGGGC
1 ATTACGATCATTTTACTCTACAGGGGC
** *
44769359 ATTACGGCCATTTAACTCTACA-GGGC
1 ATTACGATCATTTTACTCTACAGGGGC
44769385 ATTACGATCATTTTACTCTACAGGGGC
1 ATTACGATCATTTTACTCTACAGGGGC
*
44769412 ATTACGGTCAT
1 ATTACGATCAT
44769423 ATAACGACCT
Statistics
Matches: 248, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
26 24 0.10
27 223 0.90
28 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
ATTACGATCATTTTACTCTACAGGGGC
Found at i:44774519 original size:49 final size:49
Alignment explanation
Indices: 44774447--44774691 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 49
44774437 TAGTCGAAGC
* * * * *
44774447 TATCTGGTACGCATAGTAACCTGCAGTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
44774496 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * * *
44774546 CATTTGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
** * * *
44774597 TATCAAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
*
44774646 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
44774692 TCACAATAGC
Statistics
Matches: 163, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 81 0.50
50 47 0.29
51 35 0.21
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:44774633 original size:101 final size:98
Alignment explanation
Indices: 44774460--44774691 Score: 293
Period size: 100 Copynumber: 2.3 Consensus size: 98
44774450 CTGGTACGCA
* * * * ** *
44774460 TAGTAACCTGCAGTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAAGTACACATAGTAGCCTGCACTTA
* * *
44774525 GTACTACACACGTGACCTAACCATTTGATACATG
66 GTACTACACACGCGACC-AACCATCTGATACACG
* *
44774559 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAAGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAAGTACACATAGTAGCCTGCACT
* ** *
44774624 TAGTACTACACATGCGACCAATTATCTGGTACACG
64 TAGTACTACACACGCGACCAACCATCTGATACACG
44774659 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
44774692 TCACAATAGC
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 28 0.25
100 45 0.39
101 41 0.36
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAAGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCTGATACACG
Found at i:44775373 original size:30 final size:30
Alignment explanation
Indices: 44775339--44775398 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44775329 CTTTAATACG
44775339 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
44775369 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
44775399 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:44778003 original size:29 final size:29
Alignment explanation
Indices: 44777964--44778042 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
44777954 CTTAATAATC
**
44777964 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATCCA-TTTCA
*
44777994 AACTCGCACACTTAGTGCCATCCATTTCA
1 AACCCGCACACTTAGTGCCATCCATTTCA
*
44778023 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44778043 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATCCATTTCA
Found at i:44787744 original size:28 final size:28
Alignment explanation
Indices: 44787684--44787771 Score: 97
Period size: 28 Copynumber: 3.0 Consensus size: 28
44787674 GAATCACACG
44787684 GTCTGGGCCTAAGCCCTATTCAGTATAGTACA
1 GTCTGGGCCTAAGCCCTATTCAG--TA--ACA
44787716 GTCTGGGCCTAAGCCCTATTCAGTAACA
1 GTCTGGGCCTAAGCCCTATTCAGTAACA
* * *
44787744 GTGTGGGCCTACG-CCTAATGCAGTAACA
1 GTCTGGGCCTAAGCCCT-ATTCAGTAACA
44787772 ATACGGTACA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
27 3 0.06
28 24 0.46
30 2 0.04
32 23 0.44
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (28 bp):
GTCTGGGCCTAAGCCCTATTCAGTAACA
Found at i:44787964 original size:27 final size:27
Alignment explanation
Indices: 44787934--44787988 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
44787924 AGCTGCTAGA
* *
44787934 AACAGTAAATGTGGCAAAGCCACCAGT
1 AACAATAAATGTGACAAAGCCACCAGT
* * *
44787961 AACAATGAATGTGACATAGTCACCAGT
1 AACAATAAATGTGACAAAGCCACCAGT
44787988 A
1 A
44787989 CAGAACTTCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (27 bp):
AACAATAAATGTGACAAAGCCACCAGT
Found at i:44788159 original size:27 final size:27
Alignment explanation
Indices: 44788129--44788508 Score: 512
Period size: 27 Copynumber: 14.1 Consensus size: 27
44788119 GGGAAAAATC
* *
44788129 GTCATTTTAC-CATATAGGGGTATTACG
1 GTCATTTTACTC-TACAGGGGCATTACG
*
44788156 GTCATTTTACTCTACAGGGGCATTACA
1 GTCATTTTACTCTACAGGGGCATTACG
44788183 GTCATTTTA-TCGTACAGGGGCATTACG
1 GTCATTTTACTC-TACAGGGGCATTACG
* * * *
44788210 ATTATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
*
44788237 GTCATTTTACTCTACAGGGGCATTACA
1 GTCATTTTACTCTACAGGGGCATTACG
*
44788264 GTCATTTTACTCTATAGGGGCATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
* *
44788291 CTTATTTTACTCTACAGGGGCATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
* * *
44788318 GTCATTTTAGTCTACAGAGGCATTACA
1 GTCATTTTACTCTACAGGGGCATTACG
44788345 GTCATTTTACTCTACAGGGGCATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
* *
44788372 GTCATTTTACTCTATAGGGGGATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
44788399 GTCATTTTACTCTACAGGGGCATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
* *
44788426 GTCATTTAACTCTACAAGGGCATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
* * * **
44788453 GTCATTTAACTTTATAGGGGCATTATA
1 GTCATTTTACTCTACAGGGGCATTACG
*
44788480 GTCATTTTACTCTACAGAGGCATTACG
1 GTCATTTTACTCTACAGGGGCATTACG
44788507 GT
1 GT
44788509 TATATGACGA
Statistics
Matches: 307, Mismatches: 43, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 303 0.99
28 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (27 bp):
GTCATTTTACTCTACAGGGGCATTACG
Found at i:44790325 original size:13 final size:13
Alignment explanation
Indices: 44790307--44790382 Score: 91
Period size: 13 Copynumber: 5.9 Consensus size: 13
44790297 TGTTCTTCAT
44790307 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
44790320 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
44790333 TGCTGTGGAAGAG
1 TGCTTTTGAAAAG
*
44790346 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
44790359 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
44790372 TGC-TTTGAAAA
1 TGCTTTTGAAAA
44790383 AATTTAAGTG
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
12 7 0.13
13 46 0.87
ACGTcount: A:0.29, C:0.08, G:0.28, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:44793151 original size:17 final size:18
Alignment explanation
Indices: 44793118--44793153 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
44793108 GTTGGCCTTG
44793118 GCTCGTGTGAACCCACAC
1 GCTCGTGTGAACCCACAC
*
44793136 GCTCGTGTG-GCCCACAC
1 GCTCGTGTGAACCCACAC
44793153 G
1 G
44793154 ACCCAATTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.39, G:0.28, T:0.17
Consensus pattern (18 bp):
GCTCGTGTGAACCCACAC
Done.