Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 89 of 126
Found at i:17535027 original size:22 final size:22
Alignment explanation
Indices: 17535002--17535050 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
17534992 CAAATATTTG
* *
17535002 TATATATACACATACATGCTTA
1 TATATACACACACACATGCTTA
*
17535024 TATACACACACACACATGCTTA
1 TATATACACACACACATGCTTA
17535046 TATAT
1 TATAT
17535051 TTTTAAACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (22 bp):
TATATACACACACACATGCTTA
Found at i:17539829 original size:2 final size:2
Alignment explanation
Indices: 17539809--17539865 Score: 64
Period size: 2 Copynumber: 29.5 Consensus size: 2
17539799 AAGGTGGATA
* * * *
17539809 AT AT TT AT AT -T AG AT AT AT AT AA AT A- AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17539849 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
17539866 CTCGATTGGA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:17540956 original size:10 final size:10
Alignment explanation
Indices: 17540941--17540968 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
17540931 TTCCTTTTCC
17540941 ACCACAACTA
1 ACCACAACTA
17540951 ACCACAACTA
1 ACCACAACTA
17540961 ACCACAAC
1 ACCACAAC
17540969 CAACAGGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.43, G:0.00, T:0.07
Consensus pattern (10 bp):
ACCACAACTA
Found at i:17546296 original size:5 final size:5
Alignment explanation
Indices: 17546286--17546320 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
17546276 TAGATAGTGT
17546286 TTATA TTATA TTATA TTATA TTATA TTATA -TATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
17546321 ACATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:17548213 original size:235 final size:238
Alignment explanation
Indices: 17547961--17548395 Score: 786
Period size: 239 Copynumber: 1.8 Consensus size: 238
17547951 TATCACAATT
17547961 AATAAATAGATATTAATTTTATTAAAATAAAAAAAATCAAAGGCAAATAAAGCTTAAAAAAATAC
1 AATAAATAGATATTAATTTTATTAAAATAAAAAAAATCAAAGGCAAATAAAGCTTAAAAAAATAC
17548026 ATTTAGCTATCACAA-T-T-AATCTAATTTTAAATAAGCGAATACTATCTTTAAAATTGTAAAAA
66 ATTTAGCTATCACAATTATCAATCTAATTTTAAATAAGCGAATACTATCTTTAAAATTGTAAAAA
*
17548088 TACTAAAAGACAAAAATCCCAAGAGAAACAATCAATTATTATAATTAATAGATAAATATTATTTT
131 TACTAAAAGACAAAAATCCCAAAAGAAACAATCAATTATTATAATTAATAGATAAATATTATTTT
17548153 TAAAGGTGAAAAAAATGAAAAGGTAAAAACCAAAAAAAAAAAC
196 TAAAGGTGAAAAAAATGAAAAGGTAAAAACCAAAAAAAAAAAC
* *
17548196 AATAAATGGATATTAATTTTATTAAAATAAAAAAAATCAAAGGCAAATAAAGCTTAAAAAAATAG
1 AATAAATAGATATTAATTTTATTAAAATAAAAAAAATCAAAGGCAAATAAAGCTTAAAAAAATAC
*
17548261 ATTTAGCTATCACAATTAATCAATCTAATTTTAAATAAGTGAATACTATCTTTAAAATTGTAAAA
66 ATTTAGCTATCACAATT-ATCAATCTAATTTTAAATAAGCGAATACTATCTTTAAAATTGTAAAA
* *
17548326 ATACTGAAAGACAAAAATCCCAAAAGAAACAATCAATTATTATAATTAATCGATAAATATTATTT
130 ATACTAAAAGACAAAAATCCCAAAAGAAACAATCAATTATTATAATTAATAGATAAATATTATTT
17548391 TTAAA
195 TTAAA
17548396 AAAGAAAAAG
Statistics
Matches: 190, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
235 78 0.41
236 1 0.01
238 1 0.01
239 110 0.58
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.29
Consensus pattern (238 bp):
AATAAATAGATATTAATTTTATTAAAATAAAAAAAATCAAAGGCAAATAAAGCTTAAAAAAATAC
ATTTAGCTATCACAATTATCAATCTAATTTTAAATAAGCGAATACTATCTTTAAAATTGTAAAAA
TACTAAAAGACAAAAATCCCAAAAGAAACAATCAATTATTATAATTAATAGATAAATATTATTTT
TAAAGGTGAAAAAAATGAAAAGGTAAAAACCAAAAAAAAAAAC
Found at i:17548614 original size:18 final size:17
Alignment explanation
Indices: 17548584--17548617 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17548574 AATTAATCTA
*
17548584 ATTTTAAATAAATAAAT
1 ATTTTAAAAAAATAAAT
17548601 ATTTATAAAAAAATAAA
1 ATTT-TAAAAAAATAAA
17548618 AAAACATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTTAAAAAAATAAAT
Found at i:17549540 original size:33 final size:33
Alignment explanation
Indices: 17549498--17549563 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
17549488 AGAGCATGGA
17549498 GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
1 GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
*
17549531 GCCGTGCGATAAGCACAAAGCGAATTATTCTTT
1 GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
17549564 CGCCTTTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (33 bp):
GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
Found at i:17550081 original size:33 final size:33
Alignment explanation
Indices: 17550039--17550104 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
17550029 AGAGCATGGA
17550039 GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
1 GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
17550072 GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
1 GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
17550105 CGCCTTTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (33 bp):
GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
Found at i:17552118 original size:8 final size:8
Alignment explanation
Indices: 17552089--17552127 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
17552079 GTGGATAATT
17552089 TATATTAAA
1 TATA-TAAA
17552098 TATATATAA
1 TATATA-AA
17552107 -ATATAAA
1 TATATAAA
17552114 TATATAAA
1 TATATAAA
17552122 TATATA
1 TATATA
17552128 TAAACTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 2 0.07
8 20 0.71
9 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TATATAAA
Found at i:17552118 original size:14 final size:14
Alignment explanation
Indices: 17552099--17552125 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17552089 TATATTAAAT
17552099 ATATATAAATATAA
1 ATATATAAATATAA
17552113 ATATATAAATATA
1 ATATATAAATATA
17552126 TATAAACTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATATATAAATATAA
Found at i:17555054 original size:12 final size:12
Alignment explanation
Indices: 17555015--17555062 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
17555005 AAACACACAC
17555015 ATACATATATAT
1 ATACATATATAT
* *
17555027 ATATATATATGT
1 ATACATATATAT
*
17555039 ATACATATACAT
1 ATACATATATAT
*
17555051 ATACCTATATAT
1 ATACATATATAT
17555063 TTTTAAGCTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (12 bp):
ATACATATATAT
Found at i:17556607 original size:43 final size:44
Alignment explanation
Indices: 17556542--17556626 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 44
17556532 TGTTAACTTG
17556542 AAACTTATGGTACAACTCAAACAAAAGTCCCATTTGTTCAACAA
1 AAACTTATGGTACAACTCAAACAAAAGTCCCATTTGTTCAACAA
17556586 AAACTTAT-GTACAACTCAAACAAAAGTCCCATTTGTTCAAC
1 AAACTTATGGTACAACTCAAACAAAAGTCCCATTTGTTCAAC
17556627 GAGTTTAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 33 0.80
44 8 0.20
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (44 bp):
AAACTTATGGTACAACTCAAACAAAAGTCCCATTTGTTCAACAA
Found at i:17556822 original size:2 final size:2
Alignment explanation
Indices: 17556815--17556872 Score: 73
Period size: 2 Copynumber: 29.5 Consensus size: 2
17556805 ATTGGGGATA
* * *
17556815 AT AT AT AT AT AT AT AT AT -T AT AT AA AT AT AT AT CT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
17556856 AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
17556873 AACTCAATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17559879 original size:2 final size:2
Alignment explanation
Indices: 17559867--17559898 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
17559857 AGATAGTGTT
17559867 TA TA T- 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 T
17559899 TGGATTCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:17561346 original size:2 final size:2
Alignment explanation
Indices: 17561339--17561381 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
17561329 AGTTAAAAAC
* *
17561339 AT AT AT AT AT AT AT CT AT AT AT AT CT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17561381 A
1 A
17561382 GACATACGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17562672 original size:21 final size:21
Alignment explanation
Indices: 17562646--17562687 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17562636 AACACCTAAG
*
17562646 CTTAAAGAATAGGTTCGGGTC
1 CTTAAAGAATAGGTTCAGGTC
*
17562667 CTTAAAGAATAGTTTCAGGTC
1 CTTAAAGAATAGGTTCAGGTC
17562688 TATTAACTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (21 bp):
CTTAAAGAATAGGTTCAGGTC
Found at i:17563223 original size:56 final size:57
Alignment explanation
Indices: 17563120--17563254 Score: 154
Period size: 57 Copynumber: 2.4 Consensus size: 57
17563110 ATTTGGAAGT
* * * *
17563120 TTTTA-TTTTAAGGAAAATTGATACTTTCATTTTTCTTAAAATG-TTTTTCTTGATAA
1 TTTTATTTTTAAGGAAAATTGATACGTCCAATTTTCTCAAAATGTTTTTTCTTGA-AA
*
17563176 TTTTATTTTTAAGGAAAATTG-TA-GTCCAATTTTCTCAAAATGTTTTTTTTTTGAAA
1 TTTTATTTTTAAGGAAAATTGATACGTCCAATTTTCTCAAAATG-TTTTTTCTTGAAA
*
17563232 TTTTAATTTTTAA-AAAAATTGAT
1 TTTT-ATTTTTAAGGAAAATTGAT
17563255 TTCAACTTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
55 15 0.22
56 20 0.29
57 33 0.49
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.53
Consensus pattern (57 bp):
TTTTATTTTTAAGGAAAATTGATACGTCCAATTTTCTCAAAATGTTTTTTCTTGAAA
Found at i:17563518 original size:16 final size:16
Alignment explanation
Indices: 17563497--17563531 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
17563487 ATCATTATTC
17563497 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
* *
17563513 TTTTATTTTCTTTTCT
1 TTTTATTTTATTTTAT
17563529 TTT
1 TTT
17563532 CTTGAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:17563837 original size:22 final size:23
Alignment explanation
Indices: 17563812--17563856 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
17563802 CTAGTTAATA
*
17563812 GACCTGAAACTATTCT-TTTAAG
1 GACCCGAAACTATTCTCTTTAAG
* *
17563834 GACCCGAACCTATTTTCTTTAAG
1 GACCCGAAACTATTCTCTTTAAG
17563857 CTTAGGTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (23 bp):
GACCCGAAACTATTCTCTTTAAG
Found at i:17566034 original size:14 final size:14
Alignment explanation
Indices: 17566015--17566047 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
17566005 TACGTGTGCT
17566015 TTTATAAATGAAAA
1 TTTATAAATGAAAA
17566029 TTTAT--ATGAAAA
1 TTTATAAATGAAAA
17566041 TTTATAA
1 TTTATAA
17566048 TTCAAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
12 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
TTTATAAATGAAAA
Found at i:17566595 original size:2 final size:2
Alignment explanation
Indices: 17566588--17566624 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
17566578 TTAGAATCCA
17566588 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17566625 AAATATAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17569633 original size:2 final size:2
Alignment explanation
Indices: 17569626--17569685 Score: 77
Period size: 2 Copynumber: 30.5 Consensus size: 2
17569616 AAATCAAGTT
* * * *
17569626 TA TA TA TA TA CA TA TA TA TT TA TA GA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17569668 TA -A TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
17569686 TATCCCCAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17571257 original size:12 final size:12
Alignment explanation
Indices: 17571234--17571277 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
17571224 AAGCTTAAAA
*
17571234 ATATATAGGTAT
1 ATATATATGTAT
*
17571246 ATGTATATGTAT
1 ATATATATGTAT
*
17571258 ATATATATATAT
1 ATATATATGTAT
17571270 ATATATAT
1 ATATATAT
17571278 ATGTTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:17571262 original size:2 final size:2
Alignment explanation
Indices: 17571243--17571279 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
17571233 AATATATAGG
* *
17571243 TA TA TG TA TA TG 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 T
17571280 GTTTTTAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17574268 original size:8 final size:8
Alignment explanation
Indices: 17574255--17574292 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
17574245 ATTGAGTTTA
17574255 TATATATT
1 TATATATT
17574263 TATATATT
1 TATATATT
17574271 TATAT-TT
1 TATATATT
17574278 ATATATATT
1 -TATATATT
17574287 TA-ATAT
1 TATATAT
17574293 AAATTATCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.21
8 20 0.71
9 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATATATT
Found at i:17574276 original size:14 final size:14
Alignment explanation
Indices: 17574257--17574283 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17574247 TGAGTTTATA
17574257 TATATTTATATATT
1 TATATTTATATATT
17574271 TATATTTATATAT
1 TATATTTATATAT
17574284 ATTTAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TATATTTATATATT
Found at i:17577700 original size:225 final size:226
Alignment explanation
Indices: 17577422--17577836 Score: 778
Period size: 225 Copynumber: 1.8 Consensus size: 226
17577412 CTTTTACTTT
*
17577422 TTTAAAAATAATATTTATCAATTAATTATAATAATTGATTGTTTCTTTTGGGATTTTTGTCTTTT
1 TTTAAAAATAATATTTATCAATTAATTATAATAATTGATTGTTTCTCTTGGGATTTTTGTCTTTT
*
17577487 AGTATTTTTACAATTTTAAAGATAGTATTCACTTATTTAAAATTAGATTAATTGTGATAGTTAAA
66 AGTATTTTTACAATTTTAAAGATAGTATTCACTTATTTAAAATTAGATTAATTGTGATAGCTAAA
*
17577552 TGTATTTTTTTAAGCTTTATTTTCCCTTGA-TTTTTTTTATTTTAATAAAATTAATATCTTTTTT
131 TGTATTTTTTTAAGCTTTATTTGCCCTTGATTTTTTTTTATTTTAATAAAATTAATATCTTTTTT
17577616 TTTTGGTTTTTACCTTTTCATTTTTTTCACC
196 TTTTGGTTTTTACCTTTTCATTTTTTTCACC
*
17577647 TTTAAAAATAATATTTATCTATTAATTATAATAATTGATTGTTTCTCTTGGGATTTTTGTCTTTT
1 TTTAAAAATAATATTTATCAATTAATTATAATAATTGATTGTTTCTCTTGGGATTTTTGTCTTTT
17577712 AGTATTTTTACAATTTTAAAGATAGTATTCACTTATTTAAAATTAGATTAATTGTGATAGCTAAA
66 AGTATTTTTACAATTTTAAAGATAGTATTCACTTATTTAAAATTAGATTAATTGTGATAGCTAAA
*
17577777 TGTATTTTTTTAAGCTTTATTTGCCTTTGATTTTTTTTTATTTTAATAAAATTAATATCT
131 TGTATTTTTTTAAGCTTTATTTGCCCTTGATTTTTTTTTATTTTAATAAAATTAATATCT
17577837 ATTTGTTAAT
Statistics
Matches: 184, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
225 155 0.84
226 29 0.16
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.55
Consensus pattern (226 bp):
TTTAAAAATAATATTTATCAATTAATTATAATAATTGATTGTTTCTCTTGGGATTTTTGTCTTTT
AGTATTTTTACAATTTTAAAGATAGTATTCACTTATTTAAAATTAGATTAATTGTGATAGCTAAA
TGTATTTTTTTAAGCTTTATTTGCCCTTGATTTTTTTTTATTTTAATAAAATTAATATCTTTTTT
TTTTGGTTTTTACCTTTTCATTTTTTTCACC
Found at i:17578686 original size:88 final size:83
Alignment explanation
Indices: 17578518--17578690 Score: 231
Period size: 88 Copynumber: 2.0 Consensus size: 83
17578508 AAAGGTAAGA
* * * *
17578518 AATTCATTTTTTAATTATTAGATTTATTTATCTTTCAAAACAAAAACAGTCCCTTAAGTGAAAGT
1 AATTCATTATTCAATTATTAGATTTATTTATCTTTCAAAAAAAAAAAAGTCCCTTAAGTGAAAGT
*
17578583 ATCAATTTCATGAGAAAG
66 ATCAATCTCATGAGAAAG
*
17578601 AATTCATTATTCAATTATTAGATTTATTTATCCTTTAGAAGAAAAAAAAAAGAATCCCTTTAA-T
1 AATTCATTATTCAATTATTAGATTTATTTAT-CTTT-CAA-AAAAAAAAAAG--TCCC-TTAAGT
17578665 GAAAGTATCAATCTCATGAGAAAG
60 GAAAGTATCAATCTCATGAGAAAG
17578689 AA
1 AA
17578691 GATATCAACT
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
83 29 0.37
84 4 0.05
85 2 0.03
86 9 0.12
88 30 0.38
89 4 0.05
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (83 bp):
AATTCATTATTCAATTATTAGATTTATTTATCTTTCAAAAAAAAAAAAGTCCCTTAAGTGAAAGT
ATCAATCTCATGAGAAAG
Found at i:17579468 original size:2 final size:2
Alignment explanation
Indices: 17579461--17579500 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
17579451 CAATCGAATT
*
17579461 TA TA TA TA TA TA TA TG TA TA TA TA TA TA -A TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17579501 AACACTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:17581162 original size:2 final size:2
Alignment explanation
Indices: 17581155--17581187 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17581145 TGATGAAAGC
17581155 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 T
17581188 GAAGCAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17583463 original size:28 final size:28
Alignment explanation
Indices: 17583431--17583488 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
17583421 TGAACTTTGA
17583431 ACGTAGACCAACAAGCATCTACTCCTAC
1 ACGTAGACCAACAAGCATCTACTCCTAC
17583459 ACGTAGACCAACAAGCATCTACTCCTAC
1 ACGTAGACCAACAAGCATCTACTCCTAC
17583487 AC
1 AC
17583489 TAATATTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.36, G:0.10, T:0.17
Consensus pattern (28 bp):
ACGTAGACCAACAAGCATCTACTCCTAC
Found at i:17589723 original size:17 final size:16
Alignment explanation
Indices: 17589666--17589729 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
17589656 ATAATCCAAT
17589666 AATA-AAAATAAAA-A
1 AATATAAAATAAAATA
*
17589680 AGAGATAAAAT-AAATA
1 A-ATATAAAATAAAATA
*
17589696 AATAAATAAATAAAATA
1 AATATA-AAATAAAATA
17589713 ACATATAAAATAGAAAT
1 A-ATATAAAATA-AAAT
17589730 GGACAACTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
14 1 0.03
15 8 0.21
16 11 0.28
17 11 0.28
18 8 0.21
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (16 bp):
AATATAAAATAAAATA
Found at i:17591553 original size:2 final size:2
Alignment explanation
Indices: 17591546--17591570 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17591536 TCAAATACCA
17591546 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 A
17591571 GGCTATGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17592186 original size:2 final size:2
Alignment explanation
Indices: 17592173--17592218 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
17592163 AAGTTTAAAA
* * * *
17592173 AT AT AT AG AT AT AT GT AT AT GT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17592215 AT AT
1 AT AT
17592219 GTTTTAAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17594376 original size:79 final size:81
Alignment explanation
Indices: 17594272--17594423 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 81
17594262 AAGTATAATA
* * * * *
17594272 AATTTATTATTCAATTATTAGATTTATTTATCTTTC-AAAAGAAAAATAATT-CTTT-ATCGAAA
1 AATTCATTATTCAATTATGAAATTTATTTATCTTTCAAAAAAAAAAACAATTGCTTTAAT-GAAA
17594334 GTATCAATCAAAAAAAG
65 GTATCAATCAAAAAAAG
*
17594351 AATTCATTATTTAATTATGAAATTTATTTATCTTTCAAAAAAAAAAACAATTGCTTTAATGAAAG
1 AATTCATTATTCAATTATGAAATTTATTTATCTTTCAAAAAAAAAAACAATTGCTTTAATGAAAG
*
17594416 TATTAATC
66 TATCAATC
17594424 TCATAAGAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
79 32 0.51
80 13 0.21
81 16 0.25
82 2 0.03
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (81 bp):
AATTCATTATTCAATTATGAAATTTATTTATCTTTCAAAAAAAAAAACAATTGCTTTAATGAAAG
TATCAATCAAAAAAAG
Found at i:17594857 original size:23 final size:23
Alignment explanation
Indices: 17594813--17594863 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
17594803 ATGGTTAGAA
*
17594813 CAAATTATTCTCATTGACAAATT
1 CAAATTATTCTCATTGAAAAATT
*
17594836 CAAATTATTCT-TTTGATAAAATT
1 CAAATTATTCTCATTGA-AAAATT
17594859 -AAATT
1 CAAATT
17594864 GAGAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (23 bp):
CAAATTATTCTCATTGAAAAATT
Found at i:17595223 original size:2 final size:2
Alignment explanation
Indices: 17595216--17595269 Score: 56
Period size: 2 Copynumber: 27.5 Consensus size: 2
17595206 CGAGTTTGTG
* * * * *
17595216 TA TA TA TA TA TA TA TA TA TT TA TA TA TT TA TT TT TA TA TA TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17595258 TA -A TA TA TA TA T
1 TA TA TA TA TA TA T
17595270 TATCCACCTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:17599516 original size:2 final size:2
Alignment explanation
Indices: 17599511--17599539 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17599501 GATGTGTGCA
17599511 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
17599540 ATATGTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:17599849 original size:17 final size:17
Alignment explanation
Indices: 17599827--17599861 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17599817 AAAAGAATCT
17599827 AGTTGAGTAATAAAAAA
1 AGTTGAGTAATAAAAAA
17599844 AGTTGAGTAATAAAAAA
1 AGTTGAGTAATAAAAAA
17599861 A
1 A
17599862 TTTTGCAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (17 bp):
AGTTGAGTAATAAAAAA
Found at i:17601778 original size:29 final size:29
Alignment explanation
Indices: 17601739--17601796 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
17601729 TAAAAGATAA
*
17601739 AAAAAACTAAAAAAGCTGCAATCAATTAT
1 AAAAAACTAAAAAAGCTACAATCAATTAT
*
17601768 AAAAAATTAAAAAAGCTACAATCAATTAT
1 AAAAAACTAAAAAAGCTACAATCAATTAT
17601797 CACAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.22
Consensus pattern (29 bp):
AAAAAACTAAAAAAGCTACAATCAATTAT
Found at i:17602155 original size:66 final size:65
Alignment explanation
Indices: 17601969--17602165 Score: 217
Period size: 67 Copynumber: 3.0 Consensus size: 65
17601959 AACCAATGAT
* * * *
17601969 CACAATTAATAGATAAATATTATTTTAAAATGGTAA-AAAATAAAAAAGATAAACAAAACC-AAA
1 CACAATTAATAGATAAATATTATTTTTAAAT--TAAGAAAAT-GAAAAGATAAAGAAAGCCTAAA
17602032 GATG
63 -ATG
17602036 CACAATTAATTA-ATAAATATTATTTTTAAAATTGAAGAAAATGAAAAGATAAAGAAAGCCTAAA
1 CACAATTAA-TAGATAAATATTATTTTT-AAATT-AAGAAAATGAAAAGATAAAGAAAGCCTAAA
17602100 A-G
63 ATG
*
17602102 C-CATGATTAATAGATAAATATTATTTTTAAATTAAAGAAAATGAAAAGGTAAAGAAAG-CTAAA
1 CACA--ATTAATAGATAAATATTATTTTTAAATT-AAGAAAATGAAAAGATAAAGAAAGCCTAAA
17602165 A
63 A
17602166 ATATCAATTA
Statistics
Matches: 116, Mismatches: 6, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
65 8 0.07
66 33 0.28
67 61 0.53
68 14 0.12
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (65 bp):
CACAATTAATAGATAAATATTATTTTTAAATTAAGAAAATGAAAAGATAAAGAAAGCCTAAAATG
Found at i:17602389 original size:19 final size:21
Alignment explanation
Indices: 17602362--17602406 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17602352 TTATACAAAG
*
17602362 TTAAAATGTT-CAA-AAAGTT
1 TTAATATGTTGCAACAAAGTT
*
17602381 TTAATATGTTGCAACAAATTT
1 TTAATATGTTGCAACAAAGTT
17602402 TTAAT
1 TTAAT
17602407 TAAAATTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 3 0.14
21 10 0.45
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (21 bp):
TTAATATGTTGCAACAAAGTT
Found at i:17606921 original size:44 final size:44
Alignment explanation
Indices: 17606863--17607346 Score: 504
Period size: 44 Copynumber: 11.0 Consensus size: 44
17606853 ATGATTGTTA
* *
17606863 AGGAGCTTTGTTTATTTTTCCAAAGTTGTTGAGCCTTTGTTTAG
1 AGGAGCTTTGTTTATTTTTCCAAAGTCGTTGAGCCTCTGTTTAG
* * * * * *
17606907 AGGAGCTATATTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAT
1 AGGAGCTTTGTTTATTTTTCCAAAGTCGTTGAGCCTCTGTTTAG
* * *
17606951 AGGAGCTTTGTTTATTTTTCCAAAGTCGTTAAGCCTTTATTTAG
1 AGGAGCTTTGTTTATTTTTCCAAAGTCGTTGAGCCTCTGTTTAG
* * *
17606995 AGGAGCCTTGTTTA-TTTTCCAAAAGTCATTGAGCCTCTGTTTAA
1 AGGAGCTTTGTTTATTTTTCC-AAAGTCGTTGAGCCTCTGTTTAG
** * * * ** *
17607039 ATAAGCATTATTTATTTTTCAAAAGTTATTGAGCCTCTGTTTAT
1 AGGAGCTTTGTTTATTTTTCCAAAGTCGTTGAGCCTCTGTTTAG
* * * *
17607083 AAGAGCTTTATTTATTTTTCAAAAGTCGTTGAGCCTCTATTTAG
1 AGGAGCTTTGTTTATTTTTCCAAAGTCGTTGAGCCTCTGTTTAG
** * * * * * *
17607127 ATAAGCTTTATTTATTTTTTCAAAGTTGTTAAGCCTTTGATTAG
1 AGGAGCTTTGTTTATTTTTCCAAAGTCGTTGAGCCTCTGTTTAG
* * *
17607171 AGGAGCCTTGTTTATTCTTCCAAAGTCGTTAAGCCTCTGTTTAG
1 AGGAGCTTTGTTTATTTTTCCAAAGTCGTTGAGCCTCTGTTTAG
* *
17607215 AGGAGTTTTGTTTATTTTTCCAAAGTCGTTGAGCCTCAGTTTAG
1 AGGAGCTTTGTTTATTTTTCCAAAGTCGTTGAGCCTCTGTTTAG
* * *
17607259 AGGAGCTATGTTTATTTTTCAAAAAGTCATTGAGCCTCTGTTTAG
1 AGGAGCTTTGTTTATTTTTC-CAAAGTCGTTGAGCCTCTGTTTAG
* * * * * *
17607304 AGGAGTTTTGTTTATTCTTCAAAAGTTG-TGAACCTCTGCTTAG
1 AGGAGCTTTGTTTATTTTTCCAAAGTCGTTGAGCCTCTGTTTAG
17607347 GATGTTTCGA
Statistics
Matches: 367, Mismatches: 70, Indels: 7
0.83 0.16 0.02
Matches are distributed among these distances:
43 19 0.05
44 305 0.83
45 43 0.12
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (44 bp):
AGGAGCTTTGTTTATTTTTCCAAAGTCGTTGAGCCTCTGTTTAG
Found at i:17607560 original size:4 final size:5
Alignment explanation
Indices: 17607531--17607566 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
17607521 AAACTTGGGC
17607531 TTTAT TTTAT TTTAT TTTAT TTTA- TTTA- TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
17607567 TCTTTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 8 0.27
5 22 0.73
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:17607848 original size:20 final size:21
Alignment explanation
Indices: 17607810--17607848 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17607800 ATAAGAAGCA
*
17607810 AAAAAAAAAACACACAAAGAG
1 AAAAAAAAAACACAAAAAGAG
*
17607831 AAAAAAAAAGCA-AAAAAG
1 AAAAAAAAAACACAAAAAG
17607849 GTGTTTAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.79, C:0.10, G:0.10, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAACACAAAAAGAG
Found at i:17607961 original size:19 final size:19
Alignment explanation
Indices: 17607936--17607986 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
17607926 TCATATTTCG
* *
17607936 GTTGAATTTTTTGGTGAGA
1 GTTGAATTTTTCGGTGACA
* *
17607955 TTTGAATTTTTCGGTGCCA
1 GTTGAATTTTTCGGTGACA
17607974 GTTGAATTTTTCG
1 GTTGAATTTTTCG
17607987 ACCAATTACC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.18, C:0.08, G:0.25, T:0.49
Consensus pattern (19 bp):
GTTGAATTTTTCGGTGACA
Found at i:17608445 original size:3 final size:3
Alignment explanation
Indices: 17608430--17608469 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
17608420 GTTTATTTAT
* *
17608430 TTA TTA GTA TTA TTA TCA TTA TTA TTA TTA TTA TTGA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
17608470 AATTAGAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:17608514 original size:20 final size:21
Alignment explanation
Indices: 17608425--17608527 Score: 68
Period size: 21 Copynumber: 4.8 Consensus size: 21
17608415 TTAAGGTTTA
*
17608425 TTTATTTATTAGTATTATT-ATC
1 TTTA-TTATTATTATT-TTGATC
*
17608447 ATTATTATTATTATTATTGAT-
1 TTTATTATTATTATT-TTGATC
** ** *
17608468 TAAATTAGAATTATTTGGTATTC
1 TTTATTATTATTATTTTG-A-TC
*
17608491 TTTATT-TTTTTATTTTGATC
1 TTTATTATTATTATTTTGATC
17608511 TTTATTATTATTATTTT
1 TTTATTATTATTATTTT
17608528 TTGTCAATGA
Statistics
Matches: 61, Mismatches: 15, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
20 10 0.16
21 34 0.56
22 13 0.21
23 4 0.07
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (21 bp):
TTTATTATTATTATTTTGATC
Found at i:17608816 original size:70 final size:70
Alignment explanation
Indices: 17608638--17608894 Score: 299
Period size: 70 Copynumber: 3.6 Consensus size: 70
17608628 AAAAAAATAT
** *
17608638 TTTTGA-AGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAATTTTTTTAAAAAAATAAAAA-
1 TTTTGAGA-AAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAA-AATTCT---AAAATAAAAAT
*
17608701 TTTCAAAAGTA
60 TTTCAAAAGCA
* * *
17608712 -TTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAACATAAAATTCTAAAATAAAAATTTTCAA
1 TTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTCTAAAATAAAAATTTTCAA
17608776 AAGCA
66 AAGCA
* *
17608781 TTTTGAGAAAAAGTTGAAAGTATTAATTTTCCTT-AAAATAAAATTTCTAAAATAAAAATTTTTA
1 TTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA-TTCTAAAATAAAAATTTTCA
*
17608845 AAAACA
65 AAAGCA
* *
17608851 TTTTGAGAAAAAGTTGGAAGTA-CTAATTTTTCTTAAAAATAAAA
1 TTTTGAGAAAAAGTTGAAAGTATC-AATTTTCCTTAAAAATAAAA
17608895 ATTATCAAGA
Statistics
Matches: 161, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
68 10 0.06
69 18 0.11
70 84 0.52
71 12 0.07
72 7 0.04
73 30 0.19
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (70 bp):
TTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTCTAAAATAAAAATTTTCAA
AAGCA
Found at i:17608833 original size:14 final size:15
Alignment explanation
Indices: 17608814--17608847 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17608804 TAATTTTCCT
17608814 TAAAAT-AAAATTTC
1 TAAAATAAAAATTTC
*
17608828 TAAAATAAAAATTTT
1 TAAAATAAAAATTTC
17608843 TAAAA
1 TAAAA
17608848 ACATTTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAATAAAAATTTC
Found at i:17608939 original size:60 final size:58
Alignment explanation
Indices: 17608844--17609074 Score: 198
Period size: 60 Copynumber: 3.9 Consensus size: 58
17608834 AAAAATTTTT
* * * * *
17608844 AAAAACATTTTGAGAAAAAGTTGGAAGTA-CTAATTTTTCTTAAAAATAAAAATTATCAAG
1 AAAAAAATTTTAAGGAAAAGTT-AAAGTATC-AATTTTCCTT-AAAATAAAAATTATCAAG
** * * * *
17608904 AAAGGTAGTTTT-AGGAAAAGTTAAACGTATCAATTTTCCTTGAAATTAAAATT-TCAAAA
1 AAA-AAAATTTTAAGGAAAAGTTAAA-GTATCAATTTTCCTTAAAATAAAAATTATC-AAG
* * * *
17608963 AAAAAACATTTTGAGAAAAAGTTAGAAGTACCAATTTTCCTTAAAAATAAAAATTACCAAG
1 AAAAAA-ATTTTAAGGAAAAGTTA-AAGTATCAATTTTCCTT-AAAATAAAAATTATCAAG
* *
17609024 AAAAACATTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTAAAATAAAAA
1 AAAAAAATTTTAAGGAAAAGTT-AAAGTATCAATTTTCCTTAAAATAAAAA
17609075 CTTCCAAATG
Statistics
Matches: 137, Mismatches: 24, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
58 3 0.02
59 31 0.23
60 77 0.56
61 25 0.18
62 1 0.01
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (58 bp):
AAAAAAATTTTAAGGAAAAGTTAAAGTATCAATTTTCCTTAAAATAAAAATTATCAAG
Found at i:17608980 original size:120 final size:120
Alignment explanation
Indices: 17608844--17609074 Score: 340
Period size: 120 Copynumber: 1.9 Consensus size: 120
17608834 AAAAATTTTT
* * * * **
17608844 AAAAACATTTTGAGAAAAAGTTGGAAGTACTAATTTTTCTTAAAAATAAAAATTATCAAGAAAGG
1 AAAAACATTTTGAGAAAAAGTTAGAAGTACCAATTTTCCTTAAAAATAAAAATTACCAAGAAAAA
* * * *
17608909 TAGTTTT-AGGAAAAGTT-AAACGTATCAATTTTCCTTGAAATTAAAATTTCAAAAA
66 CA-TTTTAAGGAAAAATTGAAA-GTATCAATTTTCCTTAAAATAAAAATTTCAAAAA
17608964 AAAAACATTTTGAGAAAAAGTTAGAAGTACCAATTTTCCTTAAAAATAAAAATTACCAAGAAAAA
1 AAAAACATTTTGAGAAAAAGTTAGAAGTACCAATTTTCCTTAAAAATAAAAATTACCAAGAAAAA
17609029 CATTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTAAAATAAAAA
66 CATTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTAAAATAAAAA
17609075 CTTCCAAATG
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
119 4 0.04
120 92 0.93
121 3 0.03
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (120 bp):
AAAAACATTTTGAGAAAAAGTTAGAAGTACCAATTTTCCTTAAAAATAAAAATTACCAAGAAAAA
CATTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTAAAATAAAAATTTCAAAAA
Found at i:17610924 original size:21 final size:20
Alignment explanation
Indices: 17610896--17610934 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
17610886 ATTAGCTAGC
17610896 ATTTGCATAGCA-TGTATTGA
1 ATTTGCAT-GCATTGTATTGA
17610916 ATTTCGCATGCATTGTATT
1 ATTT-GCATGCATTGTATT
17610935 TCACATAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (20 bp):
ATTTGCATGCATTGTATTGA
Found at i:17611236 original size:44 final size:44
Alignment explanation
Indices: 17611177--17611723 Score: 564
Period size: 44 Copynumber: 12.4 Consensus size: 44
17611167 CATGATTGTC
* * * *
17611177 GAGGAACTTTGTTTATTTTTTCAAAGTTGTTAAGCCTCTGTTTA
1 GAGGAGCTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTA
* * *
17611221 GAGGAGCTATATTTATTTTTTCAAAGTTGTTGAGCCTCTGATTA
1 GAGGAGCTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTA
* * * * * *
17611265 TAGGAGCTTTGTTTATTTTTCCAAAGTCGTTAAGCCTTTATTTA
1 GAGGAGCTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTA
* * *
17611309 GAGGAGCCTTATTTA-TTTTCCAAAAGTCATTGAGCCTCTGTTTA
1 GAGGAGCTTTATTTATTTTTTC-AAAGTCGTTGAGCCTCTGTTTA
* * *
17611353 AAGGAGCATTATTTA-TTTTTCAAAAGTCATTGAGCCTCTGTTTA
1 GAGGAGCTTTATTTATTTTTTC-AAAGTCGTTGAGCCTCTGTTTA
* * *
17611397 TAAGAGCTTTATTTA-TTTTTCAAAAGTCGTTGAGCCTCTATTTA
1 GAGGAGCTTTATTTATTTTTTC-AAAGTCGTTGAGCCTCTGTTTA
* * *
17611441 GAGGAGCTTTATTTATTTTTTCAAAGTAGTTAAGCCTCTGATTA
1 GAGGAGCTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTA
* * * * *
17611485 GAGGAGCCTTGTTTATTCTTCCAAAGTCGTTAAGCCTCTGTTTA
1 GAGGAGCTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTA
* * *
17611529 GAGGAGTTTTATTTATTTTTCCAAAGTCGTTGAGCCTCAGTTTA
1 GAGGAGCTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTA
* * * *
17611573 GAGGAGCTATGTTTA-TTTTTCAAAAAGTCATTGAGCTTCTGTTTA
1 GAGGAGCTTTATTTATTTTTTC--AAAGTCGTTGAGCCTCTGTTTA
* * * * *
17611618 TAGGAGTTTTGTTTATTTTTCCAAAGTCGTTGAGCCTCAGTTTA
1 GAGGAGCTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTA
* * * *
17611662 AAGGAGCTATGTTTA-TTTTTCAAAAAGTCATTGAGCCTCTGTTTA
1 GAGGAGCTTTATTTATTTTTTC--AAAGTCGTTGAGCCTCTGTTTA
* *
17611707 GAGGAGTTTTGTTTATT
1 GAGGAGCTTTATTTATT
17611724 CTTCAAAAGT
Statistics
Matches: 425, Mismatches: 70, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
43 16 0.04
44 334 0.79
45 69 0.16
46 6 0.01
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (44 bp):
GAGGAGCTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTA
Found at i:17611298 original size:88 final size:88
Alignment explanation
Indices: 17611177--17611750 Score: 643
Period size: 88 Copynumber: 6.5 Consensus size: 88
17611167 CATGATTGTC
* * *
17611177 GAGGAACTTTGTTTATTTTTTCAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTATATTTATTTTTT
1 GAGGAGCTTTGTTTATTTTTCCAAAGTCGTTAAGCCTCTGTTTAGAGGAGCTATATTTA-TTTTT
** *
17611242 C-AAAGTTGTTGAGCCTCTGATTA
65 CAAAAGTCATTGAGCCTCTGTTTA
* * * *
17611265 TAGGAGCTTTGTTTATTTTTCCAAAGTCGTTAAGCCTTTATTTAGAGGAGCCT-TATTTATTTTC
1 GAGGAGCTTTGTTTATTTTTCCAAAGTCGTTAAGCCTCTGTTTAGAGGAG-CTATATTTATTTTT
17611329 CAAAAGTCATTGAGCCTCTGTTTA
65 CAAAAGTCATTGAGCCTCTGTTTA
* * * * * * * * *
17611353 AAGGAGCATTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTATAAGAGCTTTATTTATTTTTC
1 GAGGAGCTTTGTTTATTTTTCCAAAGTCGTTAAGCCTCTGTTTAGAGGAGCTATATTTATTTTTC
* *
17611418 AAAAGTCGTTGAGCCTCTATTTA
66 AAAAGTCATTGAGCCTCTGTTTA
* * * * * *
17611441 GAGGAGCTTTATTTATTTTTTCAAAGTAGTTAAGCCTCTGATTAGAGGAGCCT-TGTTTATTCTT
1 GAGGAGCTTTGTTTATTTTTCCAAAGTCGTTAAGCCTCTGTTTAGAGGAG-CTATATTTATTTTT
* * *
17611505 CCAAAGTCGTTAAGCCTCTGTTTA
65 CAAAAGTCATTGAGCCTCTGTTTA
* * * * *
17611529 GAGGAGTTTTATTTATTTTTCCAAAGTCGTTGAGCCTCAGTTTAGAGGAGCTATGTTTATTTTTC
1 GAGGAGCTTTGTTTATTTTTCCAAAGTCGTTAAGCCTCTGTTTAGAGGAGCTATATTTATTTTTC
*
17611594 AAAAAGTCATTGAGCTTCTGTTTA
66 -AAAAGTCATTGAGCCTCTGTTTA
* * * * * *
17611618 TAGGAGTTTTGTTTATTTTTCCAAAGTCGTTGAGCCTCAGTTTAAAGGAGCTATGTTTATTTTTC
1 GAGGAGCTTTGTTTATTTTTCCAAAGTCGTTAAGCCTCTGTTTAGAGGAGCTATATTTATTTTTC
17611683 AAAAAGTCATTGAGCCTCTGTTTA
66 -AAAAGTCATTGAGCCTCTGTTTA
* * * * * *
17611707 GAGGAGTTTTGTTTATTCTTCAAAAGTTGTGAA-CCTCTGCTTAG
1 GAGGAGCTTTGTTTATTTTTCCAAAGTCGTTAAGCCTCTGTTTAG
17611751 GGTGTTTCAA
Statistics
Matches: 418, Mismatches: 62, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
87 9 0.02
88 274 0.66
89 135 0.32
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.43
Consensus pattern (88 bp):
GAGGAGCTTTGTTTATTTTTCCAAAGTCGTTAAGCCTCTGTTTAGAGGAGCTATATTTATTTTTC
AAAAGTCATTGAGCCTCTGTTTA
Found at i:17613109 original size:64 final size:65
Alignment explanation
Indices: 17612972--17613110 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 65
17612962 TAAAATTTCC
* * * * *
17612972 AAAAAAAAATTATTTTTGGGGAAAAGTTGAATGTATCAATTTTCCTTGAAAATAAACTCTTTTTT
1 AAAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAATCTTTTTT
** *
17613037 -TTAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTT-AAAA-AATAAT-TTTTT
1 AAAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAA-AATCTTTTT
17613098 T
65 T
17613099 AAAAATAAAAAT
1 AAAAA-AAAAAT
17613111 TTCCAAAAGC
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
62 8 0.13
63 8 0.13
64 45 0.74
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (65 bp):
AAAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAATCTTTTTT
Found at i:17613182 original size:15 final size:15
Alignment explanation
Indices: 17613150--17613178 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17613140 AGTATCAATT
17613150 TTTCTTAAAATAAAA
1 TTTCTTAAAATAAAA
17613165 TTTC-TAAAATAAAA
1 TTTCTTAAAATAAAA
17613179 ATTTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTCTTAAAATAAAA
Found at i:17613209 original size:70 final size:70
Alignment explanation
Indices: 17613049--17613305 Score: 390
Period size: 70 Copynumber: 3.6 Consensus size: 70
17613039 AAAAAAATAT
* * *
17613049 TTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAA-AATAATTTTTTTAAAAATAAAAATTT
1 TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATAA-AA--TTTCT-AAAATAAAAATTT
*
17613113 CCAAAAGCA
62 TCAAAAGCA
*
17613122 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAATTTCTAAAATAAAAATTTTCAA
1 TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAATTTCTAAAATAAAAATTTTCAA
17613187 AAGCA
66 AAGCA
*
17613192 TTTTGAGAAAAAGTTGAAAGTATTAATTTTTCTTAAAATAAAATTTCTAAAATAAAAATTTTCAA
1 TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAATTTCTAAAATAAAAATTTTCAA
*
17613257 AAACA
66 AAGCA
*
17613262 TTTTGAGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAA
1 TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAAA
17613306 ATTATCAAGA
Statistics
Matches: 174, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
70 120 0.69
71 13 0.07
73 39 0.22
74 2 0.01
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (70 bp):
TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAATTTCTAAAATAAAAATTTTCAA
AAGCA
Found at i:17613252 original size:15 final size:15
Alignment explanation
Indices: 17613220--17613248 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17613210 AGTATTAATT
17613220 TTTCTTAAAATAAAA
1 TTTCTTAAAATAAAA
17613235 TTTC-TAAAATAAAA
1 TTTCTTAAAATAAAA
17613249 ATTTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTCTTAAAATAAAA
Found at i:17613467 original size:119 final size:121
Alignment explanation
Indices: 17613255--17613484 Score: 333
Period size: 119 Copynumber: 1.9 Consensus size: 121
17613245 AAAAATTTTC
* *
17613255 AAAAACATTTTGAGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAG
1 AAAAACATTTTGAGAAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAAATTATCAAGAAAAA
* * * *
17613320 TAGTTTTAGGAAAAGTTAAACATATCAATTTTCCTTGAAATTAAAATTTCAGAAAA
66 CAGTTTTAGGAAAAATTAAACATATCAATTTTCCTTAAAATAAAAATTTCAGAAAA
* *
17613376 AAAAACATTTTGAGAAAAAGTTGGAAGTACCAATTTTCCTT-TAAA-AAAAATTATCAAGAAAAA
1 AAAAACATTTTGAGAAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAAATTATCAAGAAAAA
*
17613439 CA-TTTTAAGGAAAAATTGAAA-GTATCAATTTTCCTTAAAATAAAAA
66 CAGTTTT-AGGAAAAATT-AAACATATCAATTTTCCTTAAAATAAAAA
17613485 CTTCCAAATG
Statistics
Matches: 98, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
118 4 0.04
119 49 0.50
120 6 0.06
121 39 0.40
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.30
Consensus pattern (121 bp):
AAAAACATTTTGAGAAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAAATTATCAAGAAAAA
CAGTTTTAGGAAAAATTAAACATATCAATTTTCCTTAAAATAAAAATTTCAGAAAA
Found at i:17616674 original size:2 final size:2
Alignment explanation
Indices: 17616667--17616700 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
17616657 CAATCCAATT
*
17616667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17616701 AACACTATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:17621627 original size:18 final size:17
Alignment explanation
Indices: 17621593--17621625 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17621583 AAAGAATCTA
17621593 GTTGAGTAATAAAAAAT
1 GTTGAGTAATAAAAAAT
17621610 GTTGAGTAATAAAAAA
1 GTTGAGTAATAAAAAA
17621626 ATTTTATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (17 bp):
GTTGAGTAATAAAAAAT
Found at i:17623590 original size:29 final size:30
Alignment explanation
Indices: 17623523--17623581 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17623513 AAAAGATAAA
*
17623523 AAAAAACT-AAAAAAGCTACAATCAATTAT
1 AAAAAATTAAAAAAAGCTACAATCAATTAT
*
17623552 AAAAAATTAAAAAAAGCTGCAATCAATTAT
1 AAAAAATTAAAAAAAGCTACAATCAATTAT
17623582 CACAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.22
Consensus pattern (30 bp):
AAAAAATTAAAAAAAGCTACAATCAATTAT
Found at i:17623881 original size:67 final size:66
Alignment explanation
Indices: 17623756--17623948 Score: 194
Period size: 67 Copynumber: 2.9 Consensus size: 66
17623746 TAATGATCAT
* * * * * **
17623756 AATTAATAGATAAATAATA-TTTTAAAATTGAAAAAATAAAAAAGATAAACAAAACCAAAGATGC
1 AATTAATAGATAAATATTATTTTTAAAATTGAAAAAAT-GAAAAGATAAAGAAAGCCAAAAAAAC
17623820 AC
65 AC
*
17623822 AATTAATTA-ATAAATATTATTTTTAAAATCGAAGAAAATGAAAAGATAAAGAAAGCCAAAAAAA
1 AATTAA-TAGATAAATATTATTTTTAAAATTGAA-AAAATGAAAAGATAAAGAAAGCCAAAAAAA
**
17623886 CGT
64 CAC
* * * * *
17623889 GACTAATAGATAAATATTATTTTT-AAATTAAATAAAATGAAAAGGTAAAGAAAGCTAAAA
1 AATTAATAGATAAATATTATTTTTAAAATTGAA-AAAATGAAAAGATAAAGAAAGCCAAAA
17623949 CTATCAATTA
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
66 48 0.45
67 53 0.50
68 5 0.05
ACGTcount: A:0.59, C:0.06, G:0.10, T:0.25
Consensus pattern (66 bp):
AATTAATAGATAAATATTATTTTTAAAATTGAAAAAATGAAAAGATAAAGAAAGCCAAAAAAACA
C
Found at i:17624214 original size:15 final size:14
Alignment explanation
Indices: 17624176--17624217 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
17624166 TATGTTGCAA
17624176 CAAATTTT-TAATT
1 CAAATTTTATAATT
*
17624189 AAAATTTTTATATATT
1 CAAA-TTTTATA-ATT
17624205 CAAATTTTATAAT
1 CAAATTTTATAAT
17624218 CTAATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 3 0.12
14 6 0.25
15 9 0.38
16 6 0.25
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (14 bp):
CAAATTTTATAATT
Found at i:17629409 original size:2 final size:2
Alignment explanation
Indices: 17629402--17629432 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17629392 TGATGAAAGC
17629402 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 T
17629433 GAAGCAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17630312 original size:28 final size:28
Alignment explanation
Indices: 17630272--17630327 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
17630262 ACAACCAGAT
17630272 CATCCATGATCATGTAAGTTATAACCCC
1 CATCCATGATCATGTAAGTTATAACCCC
17630300 CATCCATGATCATGTAAGTTATAACCCC
1 CATCCATGATCATGTAAGTTATAACCCC
17630328 TTTGACATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.29
Consensus pattern (28 bp):
CATCCATGATCATGTAAGTTATAACCCC
Found at i:17633077 original size:2 final size:2
Alignment explanation
Indices: 17633070--17633124 Score: 69
Period size: 2 Copynumber: 28.5 Consensus size: 2
17633060 AAATTGAGTT
* * *
17633070 TA TA TA TA TA CA TA TA TA TT TA TA GA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17633111 TA -A TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
17633125 TATCGACCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:17635027 original size:75 final size:75
Alignment explanation
Indices: 17634937--17635084 Score: 226
Period size: 75 Copynumber: 2.0 Consensus size: 75
17634927 ATAGGGAAGC
* * *
17634937 GACAATGGCCCAAGAAAATACGAAA-TTTTACTTTGATATTTCTAAATTTTCAACTAAAATTGAT
1 GACAATGGCCCAAGAAAATAC-AAATTTTTAATTTGACACTTCTAAATTTTCAACTAAAATTGAT
*
17635001 AGGTTGTTCCA
65 AGGCTGTTCCA
* *
17635012 GACAATGGCCCAAGAAAATACAAATTTTTAATTTGGCACTTCTAAATTTTTAACTAAAATTGATA
1 GACAATGGCCCAAGAAAATACAAATTTTTAATTTGACACTTCTAAATTTTCAACTAAAATTGATA
17635077 GGCTGTTC
66 GGCTGTTC
17635085 AACAAGGAAC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 3 0.05
75 63 0.95
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (75 bp):
GACAATGGCCCAAGAAAATACAAATTTTTAATTTGACACTTCTAAATTTTCAACTAAAATTGATA
GGCTGTTCCA
Found at i:17636521 original size:3 final size:3
Alignment explanation
Indices: 17636508--17636561 Score: 92
Period size: 3 Copynumber: 18.0 Consensus size: 3
17636498 GTTAAGGTTT
17636508 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17636555 TTGA TTA
1 TT-A TTA
17636562 AATTAGAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17636605 original size:12 final size:13
Alignment explanation
Indices: 17636588--17636619 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
17636578 TATTCCTTAA
17636588 TTATTTTTAT-TT
1 TTATTTTTATCTT
17636600 TTATTTTTATCTT
1 TTATTTTTATCTT
17636613 TT-TTTTT
1 TTATTTTT
17636620 TTTCAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (13 bp):
TTATTTTTATCTT
Found at i:17636732 original size:66 final size:67
Alignment explanation
Indices: 17636656--17636844 Score: 200
Period size: 74 Copynumber: 2.7 Consensus size: 67
17636646 TTTCAAAAAA
* *
17636656 ATATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCCTT-GAAAATAAAACTTTTAAAAAATAT
1 ATATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAAATAAAACTTTTAAAAAATAT
17636720 AT
66 AT
* * *
17636722 ATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAAATTTTTTAAAAATAA
1 ATATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAAATAAAA-CTTTT--AAA-AA
* *
17636787 AAATTTT
62 ATA-TAT
* * * * *
17636794 AAAAAGCATTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAATAA
1 ATATA--TTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAAATAA
17636845 TTTTTTTTAA
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
66 37 0.36
67 9 0.09
68 4 0.04
70 3 0.03
71 4 0.04
72 5 0.05
74 41 0.40
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.38
Consensus pattern (67 bp):
ATATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAAATAAAACTTTTAAAAAATAT
AT
Found at i:17636782 original size:17 final size:17
Alignment explanation
Indices: 17636755--17636798 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
17636745 AAGTATCAAT
17636755 TTTTCTTAAAAAATAAAA
1 TTTT-TTAAAAAATAAAA
17636773 TTTTTT-AAAAATAAAA
1 TTTTTTAAAAAATAAAA
*
17636789 -ATTTTAAAAA
1 TTTTTTAAAAA
17636799 GCATTTTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 14 0.58
17 2 0.08
18 4 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTTTTAAAAAATAAAA
Found at i:17636798 original size:144 final size:134
Alignment explanation
Indices: 17636662--17637052 Score: 387
Period size: 144 Copynumber: 2.8 Consensus size: 134
17636652 AAAAATATAT
* * *
17636662 TTTTGGGGAAAAGTTGAAAATATCAATTTTCCTTGAAAATAAAACTTTTAAAAAATATATATATA
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAACTTTTAAAAAA-A-ATATATA
17636727 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAAATTTTTTAAAAATAAAAATT
64 -TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT--AAAATAAAATTTTTT-AAAATAAAAATT
*
17636792 TTAAAAAGCA
125 TTAAAAAACA
* ***
17636802 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAATAATTTTTTTTAAAAATAAAAATTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAA-AACTTTT--AAA-AAAAA---
* * * * * *
17636867 TCAAAAGCAGTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTAAAATAAAA-TTTCTAAAATAA
58 T--ATA-TATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAATTTTTTAAAATAA
*
17636931 AAATTTTCAAAAACA
120 AAATTTTAAAAAACA
* * * * *
17636946 TTTTGAGGAAAAGTTGGAAGTA-CTAATTTTTCTTAAAAATAAAACTTAT-CAAGAAA-A-ATAT
1 TTTTGAGGAAAAGTTGAAAGTATC-AATTTTCCTTAAAAATAAAACTTTTAAAAAAAATATATAT
*
17637007 TTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTT
65 TTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAAATTT
17637053 CAGAAAAAAA
Statistics
Matches: 208, Mismatches: 29, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
130 32 0.15
131 9 0.04
132 3 0.01
138 4 0.02
139 1 0.00
140 31 0.15
141 7 0.03
142 7 0.03
143 10 0.05
144 53 0.25
145 7 0.03
146 10 0.05
148 33 0.16
149 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (134 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAACTTTTAAAAAAAATATATATT
TTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAATTTTTTAAAATAAAAATTTTAAAA
AACA
Found at i:17636806 original size:74 final size:73
Alignment explanation
Indices: 17636728--17636989 Score: 365
Period size: 74 Copynumber: 3.6 Consensus size: 73
17636718 ATATATATAT
17636728 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAAATTTTTTAAAAATAAAAATTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAAATTTTTTAAAAATAAAAATTT
17636793 TAAAAAGCA
65 TAAAAAGCA
**
17636802 TTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAAATAATTTTTTTTAAAAATAAAAATT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TT-AAAAATAAAATTTTTTAAAAATAAAAATT
*
17636866 TTCAAAAGCA
64 TTAAAAAGCA
* * * *
17636876 GTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTT-AAAATAAAA-TTTCT-AAAATAAAAATTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTTTAAAAATAAAAATTTT
17636938 CAAAAA-CA
66 -AAAAAGCA
*
17636946 TTTTGAGGAAAAGTTGGAAGTA-CTAATTTTTCTTAAAAATAAAA
1 TTTTGAGGAAAAGTTGAAAGTATC-AATTTTTCTTAAAAATAAAA
17636990 CTTATCAAGA
Statistics
Matches: 169, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
70 45 0.27
71 17 0.10
72 7 0.04
73 5 0.03
74 91 0.54
75 4 0.02
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (73 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTTTAAAAATAAAAATTTT
AAAAAGCA
Found at i:17637009 original size:60 final size:59
Alignment explanation
Indices: 17636939--17637159 Score: 284
Period size: 60 Copynumber: 3.7 Consensus size: 59
17636929 AAAAATTTTC
* * *
17636939 AAAAACATTTTGAGGAAAAGTTGGAAGTACTAATTTTTCTTAAAAATAAAACTTATCAAG
1 AAAAATATTTTAAGGAAAAGTTGAAAGTACTAATTTTTCTTAAAAATAAAA-TTATCAAG
* * * *
17636999 AAAAATATTTTGAGGAAAAGTTGAAAGTA-TCAATTTTTCTTGAAATTAAAATT-TCAGAAA
1 AAAAATATTTTAAGGAAAAGTTGAAAGTACT-AATTTTTCTTAAAAATAAAATTATC--AAG
* * *
17637059 AAAAATATTTTAAGGAAAAGTTGGAAGTACCAATTTTTCTTAAAAATAAAAATTATTAAG
1 AAAAATATTTTAAGGAAAAGTTGAAAGTACTAATTTTTCTTAAAAAT-AAAATTATCAAG
*
17637119 AAAAATATTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTT
1 AAAAATATTTTAAGGAAAAGTTGAAAGTACTAATTTTTCTT
17637160 GTACAAAAGC
Statistics
Matches: 140, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
58 2 0.01
59 3 0.02
60 128 0.91
61 6 0.04
62 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (59 bp):
AAAAATATTTTAAGGAAAAGTTGAAAGTACTAATTTTTCTTAAAAATAAAATTATCAAG
Found at i:17637085 original size:120 final size:120
Alignment explanation
Indices: 17636939--17637160 Score: 381
Period size: 120 Copynumber: 1.9 Consensus size: 120
17636929 AAAAATTTTC
* * *
17636939 AAAAACATTTTGAGGAAAAGTTGGAAGTACTAATTTTTCTTAAAAATAAAACTTATCAAGAAAAA
1 AAAAACATTTTAAGGAAAAGTTGGAAGTACCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAA
*
17637004 TATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTCAGAAA
66 TATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTCAGAAA
* *
17637059 AAAAATATTTTAAGGAAAAGTTGGAAGTACCAATTTTTCTTAAAAATAAAAATTATTAAGAAAAA
1 AAAAACATTTTAAGGAAAAGTTGGAAGTACCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAA
*
17637124 TATTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTG
66 TATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
17637161 TACAAAAGCA
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 95 1.00
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (120 bp):
AAAAACATTTTAAGGAAAAGTTGGAAGTACCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAA
TATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTCAGAAA
Found at i:17647705 original size:16 final size:16
Alignment explanation
Indices: 17647686--17647743 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
17647676 ATGTTTAAGA
17647686 AAAAAATAAAAAAAAT
1 AAAAAATAAAAAAAAT
* *
17647702 AAAAAATGAAAAAAAC
1 AAAAAATAAAAAAAAT
*
17647718 AAAAAAGAGAAAAAAAT
1 AAAAAATA-AAAAAAAT
*
17647735 GAAAAATAA
1 AAAAAATAA
17647744 GGACTCAAGG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 21 0.62
17 13 0.38
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.09
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:17647722 original size:26 final size:25
Alignment explanation
Indices: 17647684--17647740 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
17647674 TTATGTTTAA
*
17647684 GAAAAAAATAAAAAA-AATAAAAAAT
1 GAAAAAAA-AAAAAAGAAAAAAAAAT
*
17647709 GAAAAAAACAAAAAAGAGAAAAAAAT
1 GAAAAAAA-AAAAAAGAAAAAAAAAT
17647735 GAAAAA
1 GAAAAA
17647741 TAAGGACTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.82, C:0.02, G:0.09, T:0.07
Consensus pattern (25 bp):
GAAAAAAAAAAAAAGAAAAAAAAAT
Found at i:17647738 original size:9 final size:9
Alignment explanation
Indices: 17647684--17647740 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 9
17647674 TTATGTTTAA
17647684 GAAAAAAAT
1 GAAAAAAAT
*
17647693 AAAAAAAAT
1 GAAAAAAAT
17647702 --AAAAAAT
1 GAAAAAAAT
17647709 GAAAAAAA-
1 GAAAAAAAT
*
17647717 CAAAAAAGA-
1 GAAAAAA-AT
17647726 GAAAAAAAT
1 GAAAAAAAT
17647735 GAAAAA
1 GAAAAA
17647741 TAAGGACTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
7 7 0.17
8 7 0.17
9 27 0.66
ACGTcount: A:0.82, C:0.02, G:0.09, T:0.07
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:17648467 original size:16 final size:16
Alignment explanation
Indices: 17648446--17648477 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17648436 CTTTGCATAG
17648446 CATGCATTGAATTTCA
1 CATGCATTGAATTTCA
*
17648462 CATGCATTGTATTTCA
1 CATGCATTGAATTTCA
17648478 TATAGCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (16 bp):
CATGCATTGAATTTCA
Found at i:17648800 original size:44 final size:44
Alignment explanation
Indices: 17648747--17649206 Score: 336
Period size: 44 Copynumber: 10.1 Consensus size: 44
17648737 AGAGCTGGTA
* *
17648747 TATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTGTT
1 TATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATT
* * *
17648791 TATTTTTTCAAAATCGTTGAGCCTCTGTTATAGTGAAGCCCCTTTAATT
1 TATTTTTTCAAAGTCGTTGAGCCTCTGTT-TAGAGGAG---CTTT-ATT
* * * * *
17648840 TATTTTTTTTCAAACGTTGTTGAGCCTATGATTAGAGCAGCTTTGGTT
1 TA--TTTTTTCAAA-GTCGTTGAGCCTCTGTTTAGAGGAGCTTT-ATT
* * * *
17648888 TA-TTTTCCAAAAGTTGTTGCA-CGCTTTGTTTTAAAAGGAGCTTTATT
1 TATTTTTTC-AAAGTCGTTG-AGC-CTCTG-TTT-AGAGGAGCTTTATT
** * *
17648935 TA--TTTTCAAAAGTCGTTGAGCCTTCTCATTATAAGAGCTTTATAT
1 TATTTTTTC-AAAGTCGTTGAGCC-TCTGTTTAGAGGAGCTTTAT-T
* * * *
17648980 TATTTTTTCAAAAAGTCGTTGACCCTCTATTTGGAGGAGTTTTATT
1 TATTTTTTC--AAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATT
* * *
17649026 TATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCTTGTT
1 TATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATT
* *
17649070 TATTTTTCCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTATT
1 TATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATT
* * * * * * * * *
17649114 TCTTTTTCCAAAATGGTTGCGCCTCAGTTTAAAGGAGCTATGTT
1 TATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATT
* * * *
17649158 TA-TTTTTCAAAAAGTCATTGAGCCTCTATTTAGAGGAGTTTTGTT
1 TATTTTTTC--AAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATT
17649203 TATT
1 TATT
17649207 CTCCAAAAGT
Statistics
Matches: 330, Mismatches: 64, Indels: 42
0.76 0.15 0.10
Matches are distributed among these distances:
43 5 0.02
44 142 0.43
45 54 0.16
46 36 0.11
47 25 0.08
48 35 0.11
49 4 0.01
51 16 0.05
52 13 0.04
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.44
Consensus pattern (44 bp):
TATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATT
Found at i:17649430 original size:5 final size:5
Alignment explanation
Indices: 17649420--17649447 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
17649410 AGACTTAGGC
17649420 TTAAT TTAAT TTAAT TTAAT TTAAT TTA
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTA
17649448 TTGATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTAAT
Found at i:17650529 original size:17 final size:16
Alignment explanation
Indices: 17650500--17650537 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
17650490 TCAATTTTCC
17650500 TTAAAAAATAAATTTT
1 TTAAAAAATAAATTTT
*
17650516 TTAAAAAATAAAATTT
1 TTAAAAAATAAATTTT
*
17650532 TCAAAA
1 TTAAAA
17650538 GCATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAAAAATAAATTTT
Found at i:17650601 original size:15 final size:15
Alignment explanation
Indices: 17650569--17650597 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17650559 AGTATCAATT
17650569 TTTCTTAAAATAAAA
1 TTTCTTAAAATAAAA
17650584 TTTC-TAAAATAAAA
1 TTTCTTAAAATAAAA
17650598 ATTTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTCTTAAAATAAAA
Found at i:17650631 original size:70 final size:71
Alignment explanation
Indices: 17650469--17650799 Score: 357
Period size: 70 Copynumber: 4.8 Consensus size: 71
17650459 AAAAAAATTT
* * * *
17650469 TTTTG-GGAAAAGTTGAATGTATCAATTTTCCTTAAAAAATAAATTTTTTAAAAAATAAAATTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAAATTTCTAAAATA-AAAATTTT
17650533 CAAAAGCA
64 CAAAAGCA
*
17650541 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAAATTTCTAAAATAAAAATTTTCA
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTAAAATAAAAATTTTCA
17650605 AAAGCA
66 AAAGCA
* * * *
17650611 TTTTGAGAAAAAATTAAAAGTATTAATTTTCCTT-AAAATAAAATTTCTAAAATAAAAATTTTCA
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTAAAATAAAAATTTTCA
*
17650675 AAAACA
66 AAAGCA
* * * * * *
17650681 TTTTGAGGAAAAGTTGGAAGTACCAATTTTTCTTAAAAATAAAA-AT-T---AT--CAA----GA
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTAAAATAAAAATTTTCA
*
17650735 AAAGTA
66 AAAGCA
* * * *
17650741 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAATTTCAAAAAAAAAAA
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTAAAATAAAAA
17650800 CATTTTGAGG
Statistics
Matches: 220, Mismatches: 30, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
60 46 0.21
61 1 0.00
64 2 0.01
65 1 0.00
66 2 0.01
67 2 0.01
69 1 0.00
70 108 0.49
71 26 0.12
72 5 0.02
73 26 0.12
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.35
Consensus pattern (71 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTAAAATAAAAATTTTCA
AAAGCA
Found at i:17650751 original size:60 final size:60
Alignment explanation
Indices: 17650659--17650903 Score: 277
Period size: 60 Copynumber: 4.2 Consensus size: 60
17650649 TAAAATTTCT
* * *
17650659 AAAATAAAAATTTTC---AAAAACATTTTGAGGAAAAGTTGGAAGTACCAATTTTTCTTA
1 AAAATAAAAATTATCAAGAAAAACATTTTGAGGAAAAGTTGAAAGTACCAATTTTCCTTA
** * *
17650716 AAAATAAAAATTATCAAGAAAAGTATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAATAAAAATTATCAAGAAAAACATTTTGAGGAAAAGTTGAAAGTACCAATTTTCCTTA
* * ** * ** *
17650776 AAATTAAAATTTCAAAAAAAAAAACATTTTGAGGAAAA-TTGGTACTACCAATTTTCCTTA
1 AAAATAAAAATT-ATCAAGAAAAACATTTTGAGGAAAAGTTGAAAGTACCAATTTTCCTTA
* * *
17650836 AAAAT-AAAATTATCAAGAAAAACATTTTAAGGAAAAATTGAAAGTATCAATTTTCCTT-
1 AAAATAAAAATTATCAAGAAAAACATTTTGAGGAAAAGTTGAAAGTACCAATTTTCCTTA
17650894 AAAATAAAAA
1 AAAATAAAAA
17650904 CTTCCAAATG
Statistics
Matches: 155, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
57 14 0.09
58 26 0.17
59 26 0.17
60 69 0.45
61 20 0.13
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (60 bp):
AAAATAAAAATTATCAAGAAAAACATTTTGAGGAAAAGTTGAAAGTACCAATTTTCCTTA
Found at i:17650863 original size:119 final size:121
Alignment explanation
Indices: 17650674--17650903 Score: 365
Period size: 119 Copynumber: 1.9 Consensus size: 121
17650664 AAAAATTTTC
* * *
17650674 AAAAACATTTTGAGGAAAAGTTGGAAGTACCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAG
1 AAAAACATTTTGAGGAAAAGTTGGAACTACCAATTTTCCTTAAAAATAAAAATTATCAAGAAAAA
* * * * *
17650739 TATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAATTTCAAAAAA
66 CATTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTAAAATAAAAATTTCAAAAAA
*
17650795 AAAAACATTTTGAGGAAAA-TTGGTACTACCAATTTTCCTTAAAAAT-AAAATTATCAAGAAAAA
1 AAAAACATTTTGAGGAAAAGTTGGAACTACCAATTTTCCTTAAAAATAAAAATTATCAAGAAAAA
17650858 CATTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTAAAATAAAAA
66 CATTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTAAAATAAAAA
17650904 CTTCCAAATG
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
119 57 0.57
120 24 0.24
121 19 0.19
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (121 bp):
AAAAACATTTTGAGGAAAAGTTGGAACTACCAATTTTCCTTAAAAATAAAAATTATCAAGAAAAA
CATTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTAAAATAAAAATTTCAAAAAA
Found at i:17651027 original size:5 final size:5
Alignment explanation
Indices: 17651017--17651043 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
17651007 ATCATTATTC
17651017 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
17651044 CTTTTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:17651352 original size:23 final size:22
Alignment explanation
Indices: 17651326--17651371 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
17651316 CATGTTCTAG
*
17651326 TTAATAGACCTGAAACTATTCTT
1 TTAA-AGACCCGAAACTATTCTT
* *
17651349 TTAAGGACCCGAACCTATTCTT
1 TTAAAGACCCGAAACTATTCTT
17651371 T
1 T
17651372 AAGCTTAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (22 bp):
TTAAAGACCCGAAACTATTCTT
Found at i:17653462 original size:33 final size:33
Alignment explanation
Indices: 17653420--17653485 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
17653410 AGAGCATGGA
17653420 GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
1 GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
*
17653453 GCCGTGCGATAAGCACAAAGCGAATTATTCTTT
1 GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
17653486 CGCCTTTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (33 bp):
GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
Found at i:17654004 original size:33 final size:33
Alignment explanation
Indices: 17653962--17654027 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
17653952 AGAGCATGGA
17653962 GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
1 GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
17653995 GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
1 GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
17654028 CGCCTTTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (33 bp):
GCCGTGCGATAAGCACAAAGCGAACTATTCTTT
Found at i:17654135 original size:542 final size:542
Alignment explanation
Indices: 17653114--17654199 Score: 2104
Period size: 542 Copynumber: 2.0 Consensus size: 542
17653104 TTAAGCTAGC
17653114 AAAGAAGTTTTTCAACAACCCTTTTCATCACATTCAAATTCAATGATGAAAATGATGACTGGAGG
1 AAAGAAGTTTTTCAACAACCCTTTTCATCACATTCAAATTCAATGATGAAAATGATGACTGGAGG
*
17653179 CAGAAATACTTCAATAAGGGAGAAAAAGAAATGCTACTGTTTAAAGGTACATATTTTATATATAT
66 CAGAAATACTTCAATAAGGGAGAAAAAGAAATGCTACAGTTTAAAGGTACATATTTTATATATAT
*
17653244 AAAAAAAAAAGCATGAAAAATGAGAGAAAATGTGATAGCAAAGTGTGTGGCTTGGCAGAAGAGTG
131 AAAAAAAAAAGCATGAAAAATGAGAGAAAATGTGATAGCAAAGTGTGTGGCGTGGCAGAAGAGTG
17653309 GACAATTGCAAGAGCTAAGAGTAGAACAGAACCCACATTCCAAGAGACAAACTAGTGAACTTCAA
196 GACAATTGCAAGAGCTAAGAGTAGAACAGAACCCACATTCCAAGAGACAAACTAGTGAACTTCAA
17653374 CCTCCTTCTATAAATAAAATCACTAATAGAAGAGATAGAGCATGGAGCCGTGCGATAAGCACAAA
261 CCTCCTTCTATAAATAAAATCACTAATAGAAGAGATAGAGCATGGAGCCGTGCGATAAGCACAAA
*
17653439 GCGAACTATTCTTTGCCGTGCGATAAGCACAAAGCGAATTATTCTTTCGCCTTTTACTAAAGAAT
326 GCGAACTATTCTTTGCCGTGCGATAAGCACAAAGCGAACTATTCTTTCGCCTTTTACTAAAGAAT
*
17653504 ACCGTGTGCTTACCGCTTTTGGTGGCATATGCCTATTTTTGGAAGGTTGTTCCTCGTTGAACAGC
391 ACCGTGTGCTTACCGCTTTTGGCGGCATATGCCTATTTTTGGAAGGTTGTTCCTCGTTGAACAGC
17653569 CTATCAATTTTAGTTAAAAATTTTGTATTCTCTCGGGCAATTGTCACTTTACTATGAA-CTTGAT
456 CTATCAATTTTAGTTAAAAATTTTGTATTCTCTCGGGCAATTGTCACTTTACTATGAACCTTGAT
17653633 TACTATCAATGGACTATAACAT
521 TACTATCAATGGACTATAACAT
17653655 AAAGAAGTTTTTCAACAACCCTTTTCATCACATTCAAATTCAATGATGAAAATGATGACTGGAGG
1 AAAGAAGTTTTTCAACAACCCTTTTCATCACATTCAAATTCAATGATGAAAATGATGACTGGAGG
17653720 CAGAAATACTTCAATAAGGGAGAAAAAGAAATGCTACAAGTTTAAAGGTACATATTTTATATATA
66 CAGAAATACTTCAATAAGGGAGAAAAAGAAATGCTAC-AGTTTAAAGGTACATATTTTATATATA
17653785 -AAAAAAAAAAGCATGAAAAATGAGAGAAAATGTGATAGCAAAGTGTGTGGCGTGGCAGAAGAGT
130 TAAAAAAAAAAGCATGAAAAATGAGAGAAAATGTGATAGCAAAGTGTGTGGCGTGGCAGAAGAGT
17653849 GGACAATTGCAAGAGCTAAGAGTAGAACAGAACCCCACATTCCAAGAGACAAACTAGTGAACTTC
195 GGACAATTGCAAGAGCTAAGAGTAGAACAGAA-CCCACATTCCAAGAGACAAACTAGTGAACTTC
17653914 AACCTCCTTCTATAAATAAAATCACTAATAGAAGAGATAGAGCATGGAGCCGTGCGATAAGCACA
259 AACCTCCTTCTATAAATAAAATCACTAATAGAAGAGATAGAGCATGGAGCCGTGCGATAAGCACA
17653979 AAGCGAACTATTCTTTGCCGTGCGATAAGCACAAAGCGAACTATTCTTTCGCCTTTTACTAAAGA
324 AAGCGAACTATTCTTTGCCGTGCGATAAGCACAAAGCGAACTATTCTTTCGCCTTTTACTAAAGA
17654044 ATACCGTGTGCTTACCGCTTTTGGCGGCATATGCCTATTTTTGGAAGGTTGTTCCTCGTTGAACA
389 ATACCGTGTGCTTACCGCTTTTGGCGGCATATGCCTATTTTTGGAAGGTTGTTCCTCGTTGAACA
17654109 GCCTATCAATTTTAGTTAAAAATTTTGTATTCTCTCGGGCAATTGTCACTTTACTATGAACCTTG
454 GCCTATCAATTTTAGTTAAAAATTTTGTATTCTCTCGGGCAATTGTCACTTTACTATGAACCTTG
17654174 ATTACTATCAATGGACTATAACAT
519 ATTACTATCAATGGACTATAACAT
17654198 AA
1 AA
17654200 CATAAGATGC
Statistics
Matches: 538, Mismatches: 4, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
541 197 0.37
542 311 0.58
543 30 0.06
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.28
Consensus pattern (542 bp):
AAAGAAGTTTTTCAACAACCCTTTTCATCACATTCAAATTCAATGATGAAAATGATGACTGGAGG
CAGAAATACTTCAATAAGGGAGAAAAAGAAATGCTACAGTTTAAAGGTACATATTTTATATATAT
AAAAAAAAAAGCATGAAAAATGAGAGAAAATGTGATAGCAAAGTGTGTGGCGTGGCAGAAGAGTG
GACAATTGCAAGAGCTAAGAGTAGAACAGAACCCACATTCCAAGAGACAAACTAGTGAACTTCAA
CCTCCTTCTATAAATAAAATCACTAATAGAAGAGATAGAGCATGGAGCCGTGCGATAAGCACAAA
GCGAACTATTCTTTGCCGTGCGATAAGCACAAAGCGAACTATTCTTTCGCCTTTTACTAAAGAAT
ACCGTGTGCTTACCGCTTTTGGCGGCATATGCCTATTTTTGGAAGGTTGTTCCTCGTTGAACAGC
CTATCAATTTTAGTTAAAAATTTTGTATTCTCTCGGGCAATTGTCACTTTACTATGAACCTTGAT
TACTATCAATGGACTATAACAT
Found at i:17660473 original size:42 final size:44
Alignment explanation
Indices: 17660413--17660496 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 44
17660403 TGTTAACTTG
17660413 AAACTTATGGTACAACTCAAACAAAAGTCCCATTTGTTCAACAA
1 AAACTTATGGTACAACTCAAACAAAAGTCCCATTTGTTCAACAA
17660457 AAAC-TAT-GTACAACTCAAACAAAAGTCCCATTTGTTCAAC
1 AAACTTATGGTACAACTCAAACAAAAGTCCCATTTGTTCAAC
17660497 GAGTTTAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 33 0.82
43 3 0.08
44 4 0.10
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (44 bp):
AAACTTATGGTACAACTCAAACAAAAGTCCCATTTGTTCAACAA
Found at i:17660689 original size:2 final size:2
Alignment explanation
Indices: 17660682--17660734 Score: 56
Period size: 2 Copynumber: 27.5 Consensus size: 2
17660672 ATTGGGGATA
* * *
17660682 AT AT AT AT A- AT AT AT AT -T AT AA AT AT AT AT CT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
17660722 AT GT AT AT AT AT A
1 AT AT AT AT AT AT A
17660735 AACTCAATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:17660730 original size:14 final size:14
Alignment explanation
Indices: 17660682--17660730 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
17660672 ATTGGGGATA
17660682 ATATATAT-AATAT
1 ATATATATAAATAT
17660695 ATAT-TATAAATAT
1 ATATATATAAATAT
*
17660708 ATATCTATAAATAT
1 ATATATATAAATAT
*
17660722 ATGTATATA
1 ATATATATA
17660731 TATAAACTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
12 3 0.09
13 13 0.41
14 16 0.50
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (14 bp):
ATATATATAAATAT
Found at i:17663730 original size:2 final size:2
Alignment explanation
Indices: 17663718--17663757 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
17663708 AGATAGTGTT
17663718 TA TA T- 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 TA T
17663758 TGGATTCTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:17664685 original size:84 final size:84
Alignment explanation
Indices: 17664533--17664686 Score: 240
Period size: 83 Copynumber: 1.8 Consensus size: 84
17664523 TTCTTTCACA
* ** *
17664533 TGATACTTTCATTAAAGGGAATTTTTTTTCTTTTAAAGGATAAATAAATCTAATAATTGAATAAT
1 TGATACTTTCATCAAAGGGAATTTTTTTTCTTTTAAAGGATAAATAAATCTAATAATAAAAAAAT
17664598 GAATTCTTTCTCAAGAGAT
66 GAATTCTTTCTCAAGAGAT
17664617 TGATACTTTCATCAAA-GGAATTTTTTTTCTTTTGAAA-GATAAATAAATCTAATAACTAAAAAA
1 TGATACTTTCATCAAAGGGAATTTTTTTTCTTTT-AAAGGATAAATAAATCTAATAA-TAAAAAA
17664680 ATGAATT
64 ATGAATT
17664687 TCTTACCTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
83 35 0.55
84 29 0.45
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.40
Consensus pattern (84 bp):
TGATACTTTCATCAAAGGGAATTTTTTTTCTTTTAAAGGATAAATAAATCTAATAATAAAAAAAT
GAATTCTTTCTCAAGAGAT
Found at i:17665208 original size:2 final size:2
Alignment explanation
Indices: 17665201--17665235 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
17665191 GTTTAAAAAC
*
17665201 AT AT AT AT AT CT 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
17665236 GACATACGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17666532 original size:22 final size:23
Alignment explanation
Indices: 17666505--17666567 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
17666495 ACCTAAGCTT
*
17666505 AAAGAATAGGTTCGGGTC-CTTA
1 AAAGAATAGGTTCGGGTCTATTA
* *
17666527 AAAGAATAGTTTCAGGTCTATTA
1 AAAGAATAGGTTCGGGTCTATTA
*
17666550 ACCAGAATAGGATTCGGG
1 A-AAGAATAGG-TTCGGG
17666568 AGTTCGATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 16 0.50
23 4 0.12
24 7 0.22
25 5 0.16
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (23 bp):
AAAGAATAGGTTCGGGTCTATTA
Found at i:17666844 original size:5 final size:5
Alignment explanation
Indices: 17666836--17666862 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
17666826 AAAAGAAAAG
17666836 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
17666863 GAATAATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:17667053 original size:59 final size:58
Alignment explanation
Indices: 17666978--17667224 Score: 220
Period size: 58 Copynumber: 4.3 Consensus size: 58
17666968 ATTTGGAAGT
* * *
17666978 TTTTATTTTAAGGAAAATTGATACTTTCCATTTTTTCTTAAAATGTTTTTCTTGATAA
1 TTTTATTTTAAGAAAAATTGATACTTTCCATTTTTCCTAAAAATGTTTTTCTTGATAA
* * * * *
17667036 TTTTATTTTTAAGGAAAATTGGTA-GTACCAATTTTTCCTCAAAAATGTTTTTTTTTGA-AA
1 TTTTA-TTTTAAGAAAAATTGATACTTTCC-ATTTTTCCT-AAAAATG-TTTTTCTTGATAA
* * * **
17667096 TTTTAATTTTAA-AAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATAA
1 TTTT-ATTTTAAGAAAAATTGATACTTTCCATTTTTCCTAAAAATGTTTTTCTTGATAA
* * * * *
17667154 TTTTATTTTAAGAAAAATTGGTAC-TTCCAACTTTTCCTCAAAATG-TTCT-TTGAAAA
1 TTTTATTTTAAGAAAAATTGATACTTTCC-ATTTTTCCTAAAAATGTTTTTCTTGATAA
17667210 TTTTTATTTT-AGAAA
1 -TTTTATTTTAAGAAA
17667225 TTTTATTTAA
Statistics
Matches: 158, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
56 11 0.07
57 30 0.19
58 45 0.28
59 42 0.27
60 20 0.13
61 10 0.06
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.49
Consensus pattern (58 bp):
TTTTATTTTAAGAAAAATTGATACTTTCCATTTTTCCTAAAAATGTTTTTCTTGATAA
Found at i:17667117 original size:118 final size:117
Alignment explanation
Indices: 17666977--17667200 Score: 315
Period size: 118 Copynumber: 1.9 Consensus size: 117
17666967 CATTTGGAAG
* * * * * * **
17666977 TTTTTATTTTAAGGAAAATTGATACTTTCCATTTTTTCTTAAAATGTTTTTCTTGATAATTTTAT
1 TTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATAATTTTA-
* * *
17667042 TTTTAAGGAAAATTGGTAGTACCAATTTTTCCTCAAAAATGTTTTTTTTTGAAA
65 TTTTAAGAAAAATTGGTACTACCAACTTTTCCTC-AAAATGTTTTTTTTTGAAA
17667096 TTTTAATTTTAA-AAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATAATTTTAT
1 TTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATAATTTTAT
*
17667160 TTTAAGAAAAATTGGTACTTCCAACTTTTCCTCAAAATGTT
66 TTTAAGAAAAATTGGTACTACCAACTTTTCCTCAAAATGTT
17667201 CTTTGAAAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
116 8 0.09
117 30 0.32
118 44 0.47
119 11 0.12
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (117 bp):
TTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATAATTTTAT
TTTAAGAAAAATTGGTACTACCAACTTTTCCTCAAAATGTTTTTTTTTGAAA
Found at i:17667171 original size:58 final size:58
Alignment explanation
Indices: 17666978--17667197 Score: 239
Period size: 58 Copynumber: 3.8 Consensus size: 58
17666968 ATTTGGAAGT
* * * * *
17666978 TTTTATTTTAAGGAAAATTGATACTTTCC-ATTTTTTCTTAAAATGTTTTTCTTGATAA
1 TTTTATTTTAAGAAAAATTGATAC-TTCCAACTTTTCCTCAAAATATTTTTCTTGATAA
* * * * * * *
17667036 TTTTATTTTTAAGGAAAATTGGTAGTACCAATTTTTCCTCAAAAATGTTTTTTTTTGA-AA
1 TTTTA-TTTTAAGAAAAATTGATACTTCCAACTTTTCCTC-AAAAT-ATTTTTCTTGATAA
* *
17667096 TTTTAATTTTAA-AAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATAA
1 TTTT-ATTTTAAGAAAAATTGATACTTCCAACTTTTCCTCAAAATATTTTTCTTGATAA
*
17667154 TTTTATTTTAAGAAAAATTGGTACTTCCAACTTTTCCTCAAAAT
1 TTTTATTTTAAGAAAAATTGATACTTCCAACTTTTCCTCAAAAT
17667198 GTTCTTTGAA
Statistics
Matches: 137, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
57 15 0.11
58 49 0.36
59 46 0.34
60 17 0.12
61 10 0.07
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (58 bp):
TTTTATTTTAAGAAAAATTGATACTTCCAACTTTTCCTCAAAATATTTTTCTTGATAA
Found at i:17667309 original size:138 final size:143
Alignment explanation
Indices: 17667152--17667408 Score: 348
Period size: 138 Copynumber: 1.8 Consensus size: 143
17667142 TTTTCTTGAT
** * *
17667152 AATTTTATTTTAAGAAAAATTGGTACTTCCAACTTTTCCTCAAAATGTTCTTTGAAAATTTT-TA
1 AATTTTATTTTAAGAAAAATTGACACTTCCAACTTTTCCCCAAAATGCT-TTTGAAAATTTTATA
*
17667216 TTTT-AGAAA-TT-TTATTTAAGGAAAATTAATACTTT-AA-TTTTTCTCAAAATGCTTTTGAAA
65 TTTTAAAAAATTTATTATTTAAGGAAAATTAATACTTTCAATTTTTTCTCAAAATGCTTTTGAAA
17667276 ATTTTTATTTTAGA
130 ATTTTTATTTTAGA
** *
17667290 AATTTTATTTTAA-AGAAAATTGACACTTTTAACTTTTCCCCAAAATGCTTTTGAAAATTTTATT
1 AATTTTATTTTAAGA-AAAATTGACACTTCCAACTTTTCCCCAAAATGCTTTTGAAAATTTTATA
* *
17667354 TTTTAAAAAATTTATTTTTTAAGGAAAATTGATACTTTCAATTTTTTTCTCAAAA
65 TTTTAAAAAATTTATTATTTAAGGAAAATTAATACTTTCAA-TTTTTTCTCAAAA
17667409 ATATTTTTTT
Statistics
Matches: 101, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
137 13 0.13
138 46 0.46
139 4 0.04
140 2 0.02
141 22 0.22
142 2 0.02
144 12 0.12
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.47
Consensus pattern (143 bp):
AATTTTATTTTAAGAAAAATTGACACTTCCAACTTTTCCCCAAAATGCTTTTGAAAATTTTATAT
TTTAAAAAATTTATTATTTAAGGAAAATTAATACTTTCAATTTTTTCTCAAAATGCTTTTGAAAA
TTTTTATTTTAGA
Found at i:17667365 original size:17 final size:16
Alignment explanation
Indices: 17667338--17667375 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
17667328 CCCAAAATGC
* *
17667338 TTTTGAAAATTTTATT
1 TTTTAAAAAATTTATT
17667354 TTTTAAAAAATTTATT
1 TTTTAAAAAATTTATT
17667370 TTTTAA
1 TTTTAA
17667376 GGAAAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTTAAAAAATTTATT
Found at i:17668864 original size:44 final size:43
Alignment explanation
Indices: 17668748--17669250 Score: 468
Period size: 44 Copynumber: 11.4 Consensus size: 43
17668738 ACTTTTGGAG
* * * * * *
17668748 AATAAACAAAACTCTTTTAAATAGAGGCTCAATGATTTTTTGAAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGA--CTTTGAAA
* * * * *
17668793 AATAAACATAGCTCCTTTAAACTGAGGCTCAACCATTTTGGAAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTT-GAAA
* * * *
17668837 AAAAAATAAAGTTCCTCTAAACAGAGGCTCAATGACTTTGGAAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTT-GAAA
* *
17668881 AATAAACAAGGCTCCTCTAATA-AGAGGCTCAACAACTTTGAAAA
1 AATAAACAAAGCTCCTCTAA-ACAGAGGCTCAACGACTTTG-AAA
* * * *
17668925 AATAAATAAAACTCCTCTAAATAGAGGCTCAATGACTTTTGAAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGAC-TTTGAAA
* * * * *
17668969 AATAAATAAAGCTCTTATAAATAGAGGCTCAACGACTTTTGGAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGAC-TTTGAAA
* * * **
17669013 AATAAATAAAGCTCATCTAAACAAAGGCTCAATAACTTTTGAAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGAC-TTTGAAA
* * * *
17669057 AATAAACAAGGCTTCTCTAAATAGAGGCTTAACGACTTTGGAAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTT-GAAA
* * **
17669101 AATAAACAAAGCTCCTCTAATCAGAGGCTTAATAACTTTGAAAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTG-AAA
* * *
17669145 AATAAATAAAGCTCCTATAAACAGAGGCTCAATGACTTTTGAAAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGAC-TTTG-AAA
* * *
17669190 AATAAACAAAACTCCTCTAAACAAAGGCTCAACAACTTTGGAAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTT-GAAA
17669234 AATAAACAAAGCTCCTC
1 AATAAACAAAGCTCCTC
17669251 GACAATCATA
Statistics
Matches: 383, Mismatches: 66, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
43 10 0.03
44 301 0.79
45 72 0.19
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (43 bp):
AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAA
Found at i:17668877 original size:132 final size:132
Alignment explanation
Indices: 17668741--17669250 Score: 553
Period size: 132 Copynumber: 3.9 Consensus size: 132
17668731 GTTCACAACT
* * * * * * * *
17668741 TTTGGAGAATAAACAAAACTCTTTTAAATAGAGGCTCAATGATTTTTTG-AAAAATAAACATAGC
1 TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGA-CTTTTGAAAAAATAAACAAAAC
* * * * * *
17668805 TCCTTTAAACT-GAGGCTCAACCATTTTGGAAAAAAAAATAAAGTTCCTCTAAACAGAGGCTCAA
65 TCCTCTAAA-TAGAGGCTCAACGACTTTGGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAA
17668869 TGAC
129 TGAC
* ** *
17668873 TTTGGAAAAATAAACAAGGCTCCTCTAATA-AGAGGCTCAACAAC-TTTGAAAAAATAAATAAAA
1 TTTGG-AAAATAAACAAAGCTCCTCTAA-ACAGAGGCTCAATGACTTTTGAAAAAATAAACAAAA
* * * * * *
17668936 CTCCTCTAAATAGAGGCTCAATGACTTTTGAAAAATAAATAAAGCTCTTATAAATAGAGGCTCAA
64 CTCCTCTAAATAGAGGCTCAACGACTTTGGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAA
*
17669001 CGAC
129 TGAC
* * * * **
17669005 TTTTGGAAAATAAATAAAGCTCATCTAAACAAAGGCTCAATAACTTTTG-AAAAATAAACAAGGC
1 -TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAAATAAACAAAAC
* * * *
17669069 TTCTCTAAATAGAGGCTTAACGACTTTGGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTTAAT
65 TCCTCTAAATAGAGGCTCAACGACTTTGGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAAT
*
17669134 AAC
130 GAC
* * *
17669137 TTTGAAAAAATAAATAAAGCTCCTATAAACAGAGGCTCAATGACTTTTGAAAAAATAAACAAAAC
1 TTTG-GAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAAATAAACAAAAC
* * *
17669202 TCCTCTAAACAAAGGCTCAACAACTTTGGAAAAATAAACAAAGCTCCTC
65 TCCTCTAAATAGAGGCTCAACGACTTTGGAAAAATAAACAAAGCTCCTC
17669251 GACAATCATA
Statistics
Matches: 315, Mismatches: 54, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
131 10 0.03
132 210 0.67
133 94 0.30
134 1 0.00
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (132 bp):
TTTGGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAAATAAACAAAACT
CCTCTAAATAGAGGCTCAACGACTTTGGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAATG
AC
Found at i:17669511 original size:16 final size:16
Alignment explanation
Indices: 17669490--17669521 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17669480 ATATGCTATA
17669490 TGAAATACAATGCATG
1 TGAAATACAATGCATG
*
17669506 TGAAATTCAATGCATG
1 TGAAATACAATGCATG
17669522 CTATGCAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (16 bp):
TGAAATACAATGCATG
Found at i:17670267 original size:17 final size:19
Alignment explanation
Indices: 17670237--17670281 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
17670227 TCATTTTTCA
17670237 TTTTTTTC-TCTTTT-TTG
1 TTTTTTTCATCTTTTATTG
*
17670254 TTTTTTTCAT-TTTTCATTT
1 TTTTTTTCATCTTTT-ATTG
17670273 TTTTTTTCA
1 TTTTTTTCA
17670282 AACATAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 12 0.50
18 1 0.04
19 11 0.46
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTTTCATCTTTTATTG
Found at i:17680859 original size:60 final size:59
Alignment explanation
Indices: 17680786--17681076 Score: 344
Period size: 60 Copynumber: 5.0 Consensus size: 59
17680776 TTTGTACAAA
* *
17680786 GAAAATTAATACTTTCAACTTTTCCTTAAAATGTTTTTCTTGATAATTTTTATTTTTAAG
1 GAAAATTAATACTTTCAACTTTTCCTCAAAATGTTTTT-TTGAAAATTTTTATTTTTAAG
** * * * *
17680846 GAAAATTGGTACTTCCAACTTTTCCTCAAAATATTTTTTTTTG-AAA-TTTTAATTTCAAG
1 GAAAATTAATACTTTCAACTTTTCCTC-AAA-ATGTTTTTTTGAAAATTTTTATTTTTAAG
* * * * *
17680905 AAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTCTTGATAAGTTTTATTTTTAAG
1 GAAAATTAATACTTTCAACTTTTCCTCAAAATGTTTTT-TTGAAAATTTTTATTTTTAAG
* * *
17680965 AAAAATTAGTACTTTCAACTTTTTCTCAAAATG--TTTTTGAAAATTTTTA-TTTTAAG
1 GAAAATTAATACTTTCAACTTTTCCTCAAAATGTTTTTTTGAAAATTTTTATTTTTAAG
*
17681021 GAAAATTAATACTTTCAACTTTTCCTCAAACTG--TTTTTGAAAATTTTTATTTTTAA
1 GAAAATTAATACTTTCAACTTTTCCTCAAAATGTTTTTTTGAAAATTTTTATTTTTAA
17681077 AAAAATTTAT
Statistics
Matches: 200, Mismatches: 25, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
56 52 0.26
57 24 0.12
58 9 0.05
59 37 0.19
60 65 0.32
61 6 0.03
62 7 0.04
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.48
Consensus pattern (59 bp):
GAAAATTAATACTTTCAACTTTTCCTCAAAATGTTTTTTTGAAAATTTTTATTTTTAAG
Found at i:17680926 original size:119 final size:116
Alignment explanation
Indices: 17680787--17681083 Score: 397
Period size: 119 Copynumber: 2.6 Consensus size: 116
17680777 TTGTACAAAG
* *
17680787 AAAATTAATACTTTCAACTTTTCCTTAAAATGTTTTTCTTGATAATTTTTATTTTTAAGGAAAAT
1 AAAATTAATACTTTCAACTTTTCCTCAAAATGTTTTTCTTGATAATTTTTATTTTTAAGAAAAAT
* *
17680852 TGGTACTTCCAACTTTTCCTCAAAATATTTTTTTTTG-AAATTTTAATTTCAAGA
66 TAGTACTTCCAACTTTTCCTC-AAA-A--TGTTTTTGAAAATTTTAATTTCAAGA
* * *
17680906 AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTCTTGATAAGTTTTATTTTTAAGAAAAAT
1 AAAATTAATACTTTCAACTTTTCCTCAAAATGTTTTTCTTGATAATTTTTATTTTTAAGAAAAAT
* * * * *
17680971 TAGTACTTTCAACTTTTTCTCAAAATGTTTTTGAAAATTTTTATTTTAAGG
66 TAGTACTTCCAACTTTTCCTCAAAATGTTTTTGAAAATTTTAATTTCAAGA
* *
17681022 AAAATTAATACTTTCAACTTTTCCTCAAACTG--TTT-TTGAAAATTTTTATTTTTAA-AAAAAT
1 AAAATTAATACTTTCAACTTTTCCTCAAAATGTTTTTCTTGATAATTTTTATTTTTAAGAAAAAT
17681083 T
66 T
17681084 TATTTTTTAA
Statistics
Matches: 160, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
112 7 0.04
113 18 0.11
114 3 0.02
115 7 0.04
116 43 0.27
117 1 0.01
118 3 0.02
119 78 0.49
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.48
Consensus pattern (116 bp):
AAAATTAATACTTTCAACTTTTCCTCAAAATGTTTTTCTTGATAATTTTTATTTTTAAGAAAAAT
TAGTACTTCCAACTTTTCCTCAAAATGTTTTTGAAAATTTTAATTTCAAGA
Found at i:17681079 original size:16 final size:16
Alignment explanation
Indices: 17681066--17681101 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 16
17681056 TTTGAAAATT
17681066 TTTATTTTTAAAAAAA
1 TTTATTTTTAAAAAAA
17681082 TTTATTTTTTAAAGAAAA
1 TTTA-TTTTTAAA-AAAA
17681100 TT
1 TT
17681102 GATACTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 8 0.44
18 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTATTTTTAAAAAAA
Found at i:17681091 original size:17 final size:19
Alignment explanation
Indices: 17681059--17681101 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
17681049 AACTGTTTTT
*
17681059 GAAAATTTTTATTTTTAAA
1 GAAAATTTATATTTTTAAA
17681078 -AAAATTTAT-TTTTTAAA
1 GAAAATTTATATTTTTAAA
17681095 GAAAATT
1 GAAAATT
17681102 GATACTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
GAAAATTTATATTTTTAAA
Found at i:17681117 original size:74 final size:74
Alignment explanation
Indices: 17681004--17681199 Score: 299
Period size: 74 Copynumber: 2.6 Consensus size: 74
17680994 AATGTTTTTG
* * *
17681004 AAAATTT-TTATTTTAAGGAAAATTAATACTTTCAACTTTTCCTCAAACTG-TTTTTGAAAATTT
1 AAAATTTATT-TTTTAAAGAAAATTGATACTTTCAACTTTTCCTCAAAATGCTTTTT-AAAATTT
17681067 TTATTTTTAAA
64 TTATTTTTAAA
17681078 AAAATTTATTTTTTAAAGAAAATTGATACTTTCAACTTTTCCTCAAAATGCTTTTTAAAATTTTT
1 AAAATTTATTTTTTAAAGAAAATTGATACTTTCAACTTTTCCTCAAAATGCTTTTTAAAATTTTT
17681143 ATTTTTAAA
66 ATTTTTAAA
* *
17681152 AAATTTTATTTTTT-AAGAAAAATTGATACTTTCAACTTTTTCTCAAAA
1 AAAATTTATTTTTTAAAG-AAAATTGATACTTTCAACTTTTCCTCAAAA
17681200 ATATTTTTTT
Statistics
Matches: 114, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
73 3 0.03
74 104 0.91
75 7 0.06
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (74 bp):
AAAATTTATTTTTTAAAGAAAATTGATACTTTCAACTTTTCCTCAAAATGCTTTTTAAAATTTTT
ATTTTTAAA
Found at i:17681148 original size:16 final size:16
Alignment explanation
Indices: 17681129--17681167 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
17681119 CTCAAAATGC
*
17681129 TTTTTAAAATTTTTAT
1 TTTTTAAAAATTTTAT
*
17681145 TTTTAAAAAATTTTAT
1 TTTTTAAAAATTTTAT
17681161 TTTTTAA
1 TTTTTAA
17681168 GAAAAATTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTAAAAATTTTAT
Found at i:17682918 original size:75 final size:75
Alignment explanation
Indices: 17682787--17682930 Score: 227
Period size: 75 Copynumber: 1.9 Consensus size: 75
17682777 GTTCCTTGTT
* * *
17682787 GAACAGCCTATCAATTTTAGTTAAAAATTTAGAAATGCCAAATTAAAAATTTGTATTTTCTTGGG
1 GAACAACCTATCAATTTTAGTTAAAAATTTAGAAATACCAAAGTAAAAATTTGTATTTTCTTGGG
17682852 CCATTGTCTG
66 CCATTGTCTG
* *
17682862 GAACAACCTATCAATTTTAGTTGAAAATTTAGAAATATCAAAGT-AAAATTTCGTATTTTCTTGG
1 GAACAACCTATCAATTTTAGTTAAAAATTTAGAAATACCAAAGTAAAAATTT-GTATTTTCTTGG
17682926 GCCAT
65 GCCAT
17682931 CGTCGCTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 7 0.11
75 56 0.89
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (75 bp):
GAACAACCTATCAATTTTAGTTAAAAATTTAGAAATACCAAAGTAAAAATTTGTATTTTCTTGGG
CCATTGTCTG
Found at i:17684767 original size:2 final size:2
Alignment explanation
Indices: 17684760--17684820 Score: 81
Period size: 2 Copynumber: 31.5 Consensus size: 2
17684750 AAGGTCGATA
*
17684760 AT AT AT AT AT -T AT AT AT AT AT AT AT A- AT AT AT AT AT CT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
17684800 AA AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
17684821 AACTCAATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
1 2 0.04
2 49 0.96
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17691742 original size:19 final size:20
Alignment explanation
Indices: 17691702--17691744 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
17691692 TTGGACTCAC
17691702 AATTAAACTTTGAAATTTTT
1 AATTAAACTTTGAAATTTTT
* *
17691722 AATTAAGCTTTTAAA-TTTT
1 AATTAAACTTTGAAATTTTT
17691741 AATT
1 AATT
17691745 CAAAATTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (20 bp):
AATTAAACTTTGAAATTTTT
Found at i:17692813 original size:17 final size:15
Alignment explanation
Indices: 17692781--17692825 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
17692771 TAATTAATTA
17692781 ATTATTTATATAAAT
1 ATTATTTATATAAAT
17692796 ATTATTTATAT-AAT
1 ATTATTTATATAAAT
*
17692810 AATATTT-T-TAAAT
1 ATTATTTATATAAAT
17692823 ATT
1 ATT
17692826 TATATTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 6 0.22
14 9 0.33
15 11 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTATTTATATAAAT
Done.