Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 47 of 318
Found at i:17512644 original size:4 final size:4
Alignment explanation
Indices: 17512635--17512668 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
17512625 AGAACAGGTG
*
17512635 AGAA AGAA AGGAA AGAA AGAA AGAA AGAG AGAA A
1 AGAA AGAA A-GAA AGAA AGAA AGAA AGAA AGAA A
17512669 AGGGAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:17513842 original size:15 final size:15
Alignment explanation
Indices: 17513819--17513866 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
17513809 TATCAAATTT
17513819 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
17513834 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
17513849 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
17513863 ATAT
1 ATAT
17513867 ATTATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:17514389 original size:23 final size:23
Alignment explanation
Indices: 17514361--17514418 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
17514351 TAATATTCCG
17514361 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
*
17514384 GGTGTGTTTGGGTTGGGTATTCT
1 GGTGTGTTTGGGTTGGATATTCT
17514407 GGTGTGTTTGGG
1 GGTGTGTTTGGG
17514419 AGGAATCCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.05, C:0.03, G:0.45, T:0.47
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATATTCT
Found at i:17514562 original size:19 final size:18
Alignment explanation
Indices: 17514524--17514563 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
17514514 ATGAAATGAA
17514524 AAATTGAATTGAGAATTG
1 AAATTGAATTGAGAATTG
17514542 AAATTGAGATATGAG-ATTG
1 AAATTGA-AT-TGAGAATTG
17514561 AAA
1 AAA
17514564 ACATGAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (18 bp):
AAATTGAATTGAGAATTG
Found at i:17520945 original size:46 final size:46
Alignment explanation
Indices: 17520878--17521050 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
17520868 TAACCCGCCT
*
17520878 ATAAGTGAAATCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
* *
17520924 ATAAGTGAACTCGGGCTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCATCC
* * * * ** *
17520973 -TCA-CGAACTCGGACTCAACTCAACAAGTTCGAACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
*
17521017 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
17521051 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 58 0.57
47 24 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
Found at i:17522409 original size:24 final size:24
Alignment explanation
Indices: 17522360--17522413 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
17522350 AGCTCATACG
* * *
17522360 AGCCAATAACGGGTAGCTCCGAAT
1 AGCCATTAACGAGTAGCTCAGAAT
17522384 AGCCATTAACGAGTAGCTTCAG-AT
1 AGCCATTAACGAGTAGC-TCAGAAT
17522408 AGCCAT
1 AGCCAT
17522414 ATATAGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.20
Consensus pattern (24 bp):
AGCCATTAACGAGTAGCTCAGAAT
Found at i:17523780 original size:49 final size:51
Alignment explanation
Indices: 17523708--17523885 Score: 234
Period size: 51 Copynumber: 3.5 Consensus size: 51
17523698 ACTAGTGACT
*
17523708 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAA-ATAGC-TTGGTTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTTA
* *
17523757 CAAGTATGGTACTATGTGAAGGCCACTTTGTGAAGGAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAA-GAAGATAGCTTTGGTTA
* * * * **
17523809 GAAGTGTGGTACTATGTGAATGTCACTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTTA
* *
17523860 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
17523886 CGGGTATCCG
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 32 0.29
50 3 0.03
51 39 0.35
52 36 0.33
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTTA
Found at i:17531813 original size:6 final size:6
Alignment explanation
Indices: 17531802--17531829 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
17531792 GTATGTTTGC
17531802 ACATGG ACATGG ACATGG ACATGG ACAT
1 ACATGG ACATGG ACATGG ACATGG ACAT
17531830 CCACCATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.18
Consensus pattern (6 bp):
ACATGG
Found at i:17544840 original size:47 final size:49
Alignment explanation
Indices: 17544734--17544862 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 49
17544724 TGTAACCCGC
*
17544734 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GATGACTAGTTACAT
* *
17544784 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-A-GAC-A-TTCCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGATGACTAGTT--ACAT
17544828 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
17544863 GATGCTCAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.03
43 1 0.01
44 6 0.09
45 2 0.03
46 2 0.03
47 52 0.76
48 2 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (49 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGATGACTAGTTACAT
Found at i:17549524 original size:21 final size:21
Alignment explanation
Indices: 17549498--17549585 Score: 113
Period size: 21 Copynumber: 4.1 Consensus size: 21
17549488 CCTGATCAGT
*
17549498 ATACGACACATAAAGTGCCTG
1 ATACGACACACAAAGTGCCTG
*
17549519 ATACGACACACGAAGTGCCTG
1 ATACGACACACAAAGTGCCTG
* *
17549540 ATACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTG
*
17549561 AAATACGACACATAAAGTGCCTG
1 --ATACGACACACAAAGTGCCTG
17549584 AT
1 AT
17549586 CGATAAAGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
21 41 0.69
23 18 0.31
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
ATACGACACACAAAGTGCCTG
Found at i:17549582 original size:44 final size:42
Alignment explanation
Indices: 17549498--17549585 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 42
17549488 CCTGATCAGT
* *
17549498 ATACGACACATAAAGTGCCTGATACGACACACGAAGTGCCTG
1 ATACGACACACAAAGTGCCTGATACGACACACAAAGTGCCTG
* * *
17549540 ATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 ATACGACACACAAAGTGCCTG--ATACGACACACAAAGTGCCTG
17549584 AT
1 AT
17549586 CGATAAAGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 18 0.46
44 21 0.54
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (42 bp):
ATACGACACACAAAGTGCCTGATACGACACACAAAGTGCCTG
Found at i:17551101 original size:16 final size:17
Alignment explanation
Indices: 17551066--17551101 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
17551056 CCTAATTCTC
17551066 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
17551082 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
17551097 CCTTC
1 CCTTC
17551102 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:17554671 original size:48 final size:48
Alignment explanation
Indices: 17554607--17554726 Score: 231
Period size: 48 Copynumber: 2.5 Consensus size: 48
17554597 ATTACAAACA
17554607 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
*
17554655 TCAATTATTTATCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
17554703 TCAATTATTTACCCTATTAACAAA
1 TCAATTATTTACCCTATTAACAAA
17554727 GCTCGGACTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.43
Consensus pattern (48 bp):
TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
Found at i:17556338 original size:5 final size:5
Alignment explanation
Indices: 17556328--17556355 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
17556318 TATATATATA
17556328 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
17556356 CTTAATTATT
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:17558251 original size:47 final size:48
Alignment explanation
Indices: 17558145--17558275 Score: 157
Period size: 47 Copynumber: 2.8 Consensus size: 48
17558135 TGTAACCCGC
17558145 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * *
17558195 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCGGA-C-A-TTCCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT--ACAT
17558239 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17558276 TGCTCAACCA
Statistics
Matches: 70, Mismatches: 6, Indels: 13
0.79 0.07 0.15
Matches are distributed among these distances:
42 2 0.03
43 1 0.01
44 5 0.07
45 1 0.01
46 2 0.03
47 56 0.80
48 2 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:17558731 original size:30 final size:30
Alignment explanation
Indices: 17558697--17558756 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17558687 CCTTAATACG
17558697 AACTTTGGCAAAATTAC-CATTTTACCCCTA
1 AACTTTGGCAAAATTACAC-TTTTACCCCTA
* * *
17558727 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTACCCCTA
17558757 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTACCCCTA
Found at i:17562752 original size:16 final size:16
Alignment explanation
Indices: 17562731--17562761 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17562721 GATATTTTAA
17562731 TATATTATATTAATAT
1 TATATTATATTAATAT
*
17562747 TATATTATGTTAATA
1 TATATTATATTAATA
17562762 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:17562858 original size:12 final size:12
Alignment explanation
Indices: 17562841--17562871 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
17562831 GAAGCAGGGG
17562841 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
17562853 AGAAAAAGGGAA
1 AGAAAAAGAGAA
17562865 AGAAAAA
1 AGAAAAA
17562872 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:17565593 original size:44 final size:45
Alignment explanation
Indices: 17565505--17565593 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 45
17565495 AGAACAGAAA
*
17565505 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
*
17565551 TGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGA
17565594 ATAATTTATG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 20 0.49
46 21 0.51
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:17565605 original size:44 final size:45
Alignment explanation
Indices: 17565498--17565631 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
17565488 ACAGGACAGA
* * *
17565498 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
17565544 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
*** * * *
17565588 ACAGGAATAATTTATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
17565632 CAGGATATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 35 0.48
45 1 0.01
46 37 0.51
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:17571241 original size:47 final size:46
Alignment explanation
Indices: 17571089--17571261 Score: 194
Period size: 47 Copynumber: 3.7 Consensus size: 46
17571079 TGTAACCCGC
* * * *
17571089 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-AAGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGC-ATTACAT
17571135 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTACAT
* *
17571185 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATT--ACAT
17571229 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
17571262 TAGATGCTCA
Statistics
Matches: 109, Mismatches: 9, Indels: 17
0.81 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.05
45 1 0.01
46 35 0.32
47 55 0.50
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTACAT
Found at i:17571268 original size:94 final size:93
Alignment explanation
Indices: 17571097--17571268 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 93
17571087 GCCCATAAGT
* **
17571097 GAACTCGGACTCAACTCAACGAGCTCAAGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
17571162 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* *
17571190 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCCACATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCAAG-CATT-CACATCCATAAGTGAACTCGGACTCAACTC
*
17571254 AACGAGTTTAGATGC
64 AACGAGTTCAGATGC
17571269 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
92 1 0.01
93 28 0.40
94 41 0.59
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAAGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:17571721 original size:30 final size:30
Alignment explanation
Indices: 17571687--17571746 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17571677 CCTTAATACG
17571687 AACTTTGGAAAAATTAC-CATTTTACCCCTA
1 AACTTTGGAAAAATTACAC-TTTTACCCCTA
* * *
17571717 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
17571747 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:17574922 original size:26 final size:26
Alignment explanation
Indices: 17574893--17574947 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
17574883 TACAGTTATG
*
17574893 TAAATATTATTAAA-ATAAAATAAAAA
1 TAAA-ATTATGAAATATAAAATAAAAA
*
17574919 TAAAATTATGAAATATAAAATAATAA
1 TAAAATTATGAAATATAAAATAAAAA
17574945 TAA
1 TAA
17574948 CTAAATATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (26 bp):
TAAAATTATGAAATATAAAATAAAAA
Found at i:17576922 original size:3 final size:3
Alignment explanation
Indices: 17576906--17576947 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
17576896 GGAAGAAGGT
* * *
17576906 GAA GGA GAA G-A GAA GAA GAA GAA GAA AAA GAA GGA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
17576948 GGACTGGAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17577602 original size:66 final size:66
Alignment explanation
Indices: 17577522--17577653 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
17577512 TTATTATTTG
17577522 GAGTGCCACTTGTATTTGCTACCTTTTCTAAATGAATTATGGTCAGTAATGAAGTTGGATAAACT
1 GAGTGCCACTTGTATTTGCTACCTTTTCTAAATGAATTATGGTCAGTAATGAAGTTGGATAAACT
17577587 T
66 T
17577588 GAGTGCCACTTGTATTTGCTACCTTTTCTAAATGAATTATGGTCAGTAATGAAGTTGGATAAACT
1 GAGTGCCACTTGTATTTGCTACCTTTTCTAAATGAATTATGGTCAGTAATGAAGTTGGATAAACT
17577653 T
66 T
17577654 CAGCAGCATC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (66 bp):
GAGTGCCACTTGTATTTGCTACCTTTTCTAAATGAATTATGGTCAGTAATGAAGTTGGATAAACT
T
Found at i:17582659 original size:21 final size:21
Alignment explanation
Indices: 17582633--17582673 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17582623 AGACGAGCAA
* *
17582633 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
17582654 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
17582674 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:17603271 original size:15 final size:15
Alignment explanation
Indices: 17603251--17603284 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17603241 AACAATCAAT
17603251 AACTT-AAATTTAATC
1 AACTTAAAATTT-ATC
17603266 AACTTAAAATTTATC
1 AACTTAAAATTTATC
17603281 AACT
1 AACT
17603285 GAAACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (15 bp):
AACTTAAAATTTATC
Found at i:17608434 original size:24 final size:24
Alignment explanation
Indices: 17608387--17608435 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
17608377 TTCTGGAAAA
**
17608387 TGAGCATAAATTTTGTTTATGTAT
1 TGAGCATAAATTCGGTTTATGTAT
17608411 TGAGCATAAATTCCGGTTTA-GTAT
1 TGAGCATAAATT-CGGTTTATGTAT
17608435 T
1 T
17608436 TCAATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (24 bp):
TGAGCATAAATTCGGTTTATGTAT
Found at i:17608463 original size:18 final size:19
Alignment explanation
Indices: 17608427--17608465 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
17608417 TAAATTCCGG
*
17608427 TTTAGTATTTCAATTTAAT
1 TTTAGTATTTCAATATAAT
*
17608446 TTTA-TATTTTAATATAAT
1 TTTAGTATTTCAATATAAT
17608464 TT
1 TT
17608466 ATTTCGTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTAGTATTTCAATATAAT
Found at i:17631954 original size:93 final size:93
Alignment explanation
Indices: 17631795--17631966 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
17631785 CAGATATTTG
* * *
17631795 GGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAG
1 GGCATTCGAACTCGTTAAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCAAACTCGTTGAG
*
17631860 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * * * * *
17631888 GGCATTTGAACTCGTTAAGTTGAGTTCGAGTTTAATTATGGATGTGAATGCCCGAGCTCGTTGAG
1 GGCATTCGAACTCGTTAAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCAAACTCGTTGAG
17631953 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
17631967 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (93 bp):
GGCATTCGAACTCGTTAAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCAAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:17636475 original size:23 final size:23
Alignment explanation
Indices: 17636393--17636479 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
17636383 CCTGATCAGT
*
17636393 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
17636415 A-ACGACACACGAGGTGCTTG--
1 ATACGACACACAAAGTGCCTGAA
* *
17636435 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
17636458 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
17636480 TCGATAAAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 32 0.60
22 1 0.02
23 19 0.36
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:17636875 original size:15 final size:15
Alignment explanation
Indices: 17636850--17636907 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
17636840 TCATATATAT
17636850 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
17636866 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
17636881 AATAATTTCAATCAA
1 TATAAATTCAATCAA
17636896 TATAAATTCAAT
1 TATAAATTCAAT
17636908 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:17638190 original size:5 final size:5
Alignment explanation
Indices: 17638177--17638213 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
17638167 TTCTTTAGTT
17638177 TATATA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA T
17638214 TAAAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:17641914 original size:23 final size:22
Alignment explanation
Indices: 17641887--17641929 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17641877 TGTACTATTT
*
17641887 ATAAACTCTTTTACATTTAATTA
1 ATAAA-TCTATTACATTTAATTA
*
17641910 ATAAATGTATTACATTTAAT
1 ATAAATCTATTACATTTAAT
17641930 GAACTAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (22 bp):
ATAAATCTATTACATTTAATTA
Found at i:17649858 original size:67 final size:66
Alignment explanation
Indices: 17649696--17649940 Score: 222
Period size: 67 Copynumber: 3.7 Consensus size: 66
17649686 ACGGGCTGTA
* * * *
17649696 ATGGGATATAATGTGTAAGACCATAGCTTAACTATGGTAACATAAAGAAT-TCATCAGGACATTA
1 ATGGG-TATAATGTGTAAGACCATAGCTCAATTATGGCAACATAAAGAGTCT-ATCAGGACATTA
17649760 AAC
64 AAC
* ** * ** * *
17649763 ATGGGGTATAATATGTAAGTTCAAAGCTCGGTTATGGCAAAATAAAGAGTCTATCAAGACATTAA
1 AT-GGGTATAATGTGTAAGACCATAGCTCAATTATGGCAACATAAAGAGTCTATCAGGACATTAA
17649828 AC
65 AC
* * ** **
17649830 ATGGGCTATGATGTGTAAGACCATAGCTCAATTAAGGCAACATTGAGAGTCTGCCAGGACATTAA
1 ATGGG-TATAATGTGTAAGACCATAGCTCAATTATGGCAACATAAAGAGTCTATCAGGACATTAA
17649895 AC
65 AC
* * * * * *
17649897 ATTGGGTATGATTTGTAAGACTATAGCTCGACTATGACAACATA
1 A-TGGGTATAATGTGTAAGACCATAGCTCAATTATGGCAACATA
17649941 TGAAGTCCGT
Statistics
Matches: 141, Mismatches: 33, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
66 3 0.02
67 130 0.92
68 8 0.06
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (66 bp):
ATGGGTATAATGTGTAAGACCATAGCTCAATTATGGCAACATAAAGAGTCTATCAGGACATTAAA
C
Found at i:17651061 original size:6 final size:6
Alignment explanation
Indices: 17651050--17651125 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
17651040 TAAATGAAAT
* * * * *
17651050 AAAGAA AAAGAA AGAGAG AAAGTA AAACAA AACAGAA AGGAA-AG AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AA-AGAA A--AAGAA AAAGAA
*
17651100 AAAGAA AAAGAG AAAGAA GAAAGAA A
1 AAAGAA AAAGAA AAAGAA -AAAGAA A
17651126 CAGATGCGAA
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
5 2 0.04
6 37 0.70
7 12 0.23
8 1 0.02
9 1 0.02
ACGTcount: A:0.74, C:0.03, G:0.22, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:17651119 original size:25 final size:25
Alignment explanation
Indices: 17651050--17651125 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 25
17651040 TAAATGAAAT
*
17651050 AAAG-AAAA-AGAAAGAGAGAAAGTA
1 AAAGAAAAAGAGAAAGA-AGAAAGAA
* *
17651074 AAACAAAACAGA-AAGGAAAGAAAGAA
1 AAAGAAAA-AGAGAAAG-AAGAAAGAA
17651100 AAAGAAAAAGAGAAAGAAGAAAGAA
1 AAAGAAAAAGAGAAAGAAGAAAGAA
17651125 A
1 A
17651126 CAGATGCGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
24 3 0.07
25 16 0.38
26 21 0.50
27 2 0.05
ACGTcount: A:0.74, C:0.03, G:0.22, T:0.01
Consensus pattern (25 bp):
AAAGAAAAAGAGAAAGAAGAAAGAA
Found at i:17651810 original size:20 final size:18
Alignment explanation
Indices: 17651785--17651824 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
17651775 ACACTTTGAC
17651785 ATTGAATTGAATTAAAGTTG
1 ATTGAA-TGAATTAAA-TTG
*
17651805 ATTGAATGGATTAAATTG
1 ATTGAATGAATTAAATTG
17651823 AT
1 AT
17651825 ATATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (18 bp):
ATTGAATGAATTAAATTG
Found at i:17652094 original size:41 final size:39
Alignment explanation
Indices: 17652049--17652150 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 39
17652039 TCGATTTAAC
* * *
17652049 CGATGAGACACTGGGTGTCAATTTATTACTTCAAATTTATT
1 CGATGAGACACTGAGTGTCAATTTACTAATTCAAA-TTA-T
* *
17652090 CGATGGGACAGTGAGTGTCAATTTACTAATTCAAATTAT
1 CGATGAGACACTGAGTGTCAATTTACTAATTCAAATTAT
*
17652129 CTGATGAGGCACTGAGTGTCAA
1 C-GATGAGACACTGAGTGTCAA
17652151 ACTTGTGTGT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
39 2 0.04
40 20 0.38
41 30 0.58
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (39 bp):
CGATGAGACACTGAGTGTCAATTTACTAATTCAAATTAT
Found at i:17652392 original size:16 final size:16
Alignment explanation
Indices: 17652344--17652393 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
17652334 ATGTACTCAA
* *
17652344 GAATTGAGTATGGTAT
1 GAATTGAGTATTGCAT
*
17652360 GAAATGATGTATT-CAT
1 GAATTGA-GTATTGCAT
17652376 GAATTGAGTATTGCAT
1 GAATTGAGTATTGCAT
17652392 GA
1 GA
17652394 CCAATGCCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 5 0.18
16 19 0.68
17 4 0.14
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (16 bp):
GAATTGAGTATTGCAT
Found at i:17653985 original size:25 final size:25
Alignment explanation
Indices: 17653972--17654021 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
17653962 GGGAAGCTTT
17653972 TGTGAGCCAAATATCGAGAAGCTCA
1 TGTGAGCCAAATATCGAGAAGCTCA
* *
17653997 TGTGAGCCAAGTATCGAAAAGCTCA
1 TGTGAGCCAAATATCGAGAAGCTCA
17654022 AGAGAGCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (25 bp):
TGTGAGCCAAATATCGAGAAGCTCA
Found at i:17654028 original size:25 final size:25
Alignment explanation
Indices: 17653975--17654028 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
17653965 AAGCTTTTGT
* * *
17653975 GAGCCAAATATCGAGAAGCTCATGT
1 GAGCCAAATATCGAAAAGCTCAAGA
*
17654000 GAGCCAAGTATCGAAAAGCTCAAGA
1 GAGCCAAATATCGAAAAGCTCAAGA
17654025 GAGC
1 GAGC
17654029 TGTGGTGTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.15
Consensus pattern (25 bp):
GAGCCAAATATCGAAAAGCTCAAGA
Found at i:17657694 original size:21 final size:23
Alignment explanation
Indices: 17657643--17657708 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
17657633 GCTTTACTAA
17657643 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* * *
17657666 TCAGGCACCTCATGTGTTGT-TT
1 TCAGGCACTTTATGTGTCGTATT
17657688 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
17657709 ACTGATTAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:17664510 original size:23 final size:23
Alignment explanation
Indices: 17664480--17664566 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
17664470 GCTTTACTAA
* *
17664480 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
17664503 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
17664524 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* * *
17664546 T-AGGCACTTTATGTATCGTAT
1 TCAGGCACCTCATGTGTCGTAT
17664567 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 34 0.63
22 2 0.04
23 18 0.33
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:17664527 original size:21 final size:21
Alignment explanation
Indices: 17664492--17664552 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 21
17664482 AGGCACTTTA
17664492 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
17664515 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* *
17664536 TGTGTCGTTTTAGGCAC
1 TGTGTCGTATCAGGCAC
17664553 TTTATGTATC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 27 0.75
23 9 0.25
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:17665989 original size:27 final size:27
Alignment explanation
Indices: 17665942--17665993 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
17665932 ATAATAATAT
**
17665942 AATAAAATAAAGTAATTAAATAAAACA
1 AATAAAATAAAGTAAAGAAATAAAACA
17665969 AATAAAATAAAAG-AAAGAAATAAAA
1 AATAAAAT-AAAGTAAAGAAATAAAA
17665994 GAGAGAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (27 bp):
AATAAAATAAAGTAAAGAAATAAAACA
Found at i:17667809 original size:20 final size:20
Alignment explanation
Indices: 17667786--17667826 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
17667776 ACCCCACGAC
*
17667786 CATGTTCCAGGCCACACGGG
1 CATGTCCCAGGCCACACGGG
17667806 CATGTCCCAGGCCACACGGG
1 CATGTCCCAGGCCACACGGG
17667826 C
1 C
17667827 TTGTGCCCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.39, G:0.29, T:0.12
Consensus pattern (20 bp):
CATGTCCCAGGCCACACGGG
Found at i:17673235 original size:16 final size:16
Alignment explanation
Indices: 17673214--17673244 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17673204 AGTAGCTTTG
*
17673214 AATCAATTAAGTTAGA
1 AATCAATTAAATTAGA
17673230 AATCAATTAAATTAG
1 AATCAATTAAATTAG
17673245 TAAAAAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (16 bp):
AATCAATTAAATTAGA
Found at i:17674926 original size:22 final size:23
Alignment explanation
Indices: 17674880--17674928 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
17674870 AATTGAAATT
* * *
17674880 TTAAATTTTCATAATTATAAAAA
1 TTAAATCTCCATAATGATAAAAA
17674903 TTAAATCTCCATAATGA-AAAAA
1 TTAAATCTCCATAATGATAAAAA
17674925 TTAA
1 TTAA
17674929 CACAATTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (23 bp):
TTAAATCTCCATAATGATAAAAA
Found at i:17687873 original size:13 final size:12
Alignment explanation
Indices: 17687857--17687906 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
17687847 ATAACTATTA
17687857 AATATTTGTAATT
1 AATATTT-TAATT
**
17687870 AATATTTTAAAA
1 AATATTTTAATT
17687882 AATATTTTTAATT
1 AATA-TTTTAATT
17687895 AATAATTTTAAT
1 AAT-ATTTTAAT
17687907 ACATTTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 7 0.23
13 23 0.74
14 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
AATATTTTAATT
Found at i:17687885 original size:25 final size:26
Alignment explanation
Indices: 17687856--17687905 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
17687846 TATAACTATT
17687856 AAATATTTGTAATTAAT-ATTTTAAA
1 AAATATTTGTAATTAATAATTTTAAA
*
17687881 AAATATTTTTAATTAATAATTTTAA
1 AAATATTTGTAATTAATAATTTTAA
17687906 TACATTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
AAATATTTGTAATTAATAATTTTAAA
Found at i:17688789 original size:6 final size:6
Alignment explanation
Indices: 17688773--17688807 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
17688763 TTTTATTTTA
17688773 TTTTCGG TTTTGG TTTTGG TTTTGG TTTTGG TTTT
1 TTTT-GG TTTTGG TTTTGG TTTTGG TTTTGG TTTT
17688808 AACAGACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.00, C:0.03, G:0.29, T:0.69
Consensus pattern (6 bp):
TTTTGG
Found at i:17700652 original size:18 final size:18
Alignment explanation
Indices: 17700629--17700664 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17700619 CCGTCCTTTT
17700629 ATAAAAATATACAAGAAG
1 ATAAAAATATACAAGAAG
17700647 ATAAAAATATACAAGAAG
1 ATAAAAATATACAAGAAG
17700665 CTGATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.06, G:0.11, T:0.17
Consensus pattern (18 bp):
ATAAAAATATACAAGAAG
Found at i:17704130 original size:3 final size:3
Alignment explanation
Indices: 17704124--17704158 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
17704114 TTCCAATATC
17704124 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
17704159 GAGTCACTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:17708617 original size:125 final size:126
Alignment explanation
Indices: 17708331--17708699 Score: 659
Period size: 125 Copynumber: 2.9 Consensus size: 126
17708321 GTTTTAGCCT
17708331 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
17708396 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
* *
17708457 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAATCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* * * *
17708522 CTTCGAATTCTTTAAATACCGAACACT-ACTTTATTTTGAAATTTTTTGAGAGTGAGCTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
17708582 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* *
17708647 CTTCGAATTCTTTAAATACCAAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAG
17708700 AAGATCAATG
Statistics
Matches: 229, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
125 118 0.52
126 111 0.48
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
Found at i:17708943 original size:21 final size:21
Alignment explanation
Indices: 17708909--17708959 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
17708899 TAATATTATT
*
17708909 AAAAACATGATGATAATAACA
1 AAAAATATGATGATAATAACA
* *
17708930 AAAAATATGTTGATGATAACA
1 AAAAATATGATGATAATAACA
**
17708951 TTAAATATG
1 AAAAATATG
17708960 GGGGATAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (21 bp):
AAAAATATGATGATAATAACA
Found at i:17709177 original size:14 final size:14
Alignment explanation
Indices: 17709158--17709188 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17709148 ATATATTTAC
*
17709158 ATAATAAATATATA
1 ATAATAAATAAATA
17709172 ATAATAAATAAATA
1 ATAATAAATAAATA
17709186 ATA
1 ATA
17709189 TAATAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:17709189 original size:19 final size:18
Alignment explanation
Indices: 17709160--17709196 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
17709150 ATATTTACAT
17709160 AATAAATATATAATAATA
1 AATAAATATATAATAATA
17709178 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
17709197 TAAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:17709610 original size:18 final size:18
Alignment explanation
Indices: 17709587--17709658 Score: 76
Period size: 18 Copynumber: 4.0 Consensus size: 18
17709577 ATAACAAGTA
*
17709587 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
17709605 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
* * *
17709623 ATGGTCA-GTAGGGT-GTGG
1 -GGGTGATGGA-GGTAGTGG
17709641 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
17709659 ATGGTTTAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
17 7 0.16
18 29 0.67
19 7 0.16
ACGTcount: A:0.17, C:0.01, G:0.57, T:0.25
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:17709648 original size:36 final size:37
Alignment explanation
Indices: 17709601--17709674 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
17709591 GATGGAGTTA
17709601 GTGGGGGTGATGGAGGTAGTGGATGG-TCAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTCAGTAGGGT
*
17709637 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTCAGTAGGGT
17709674 G
1 G
17709675 ATGGAGTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 26 0.72
37 10 0.28
ACGTcount: A:0.16, C:0.01, G:0.55, T:0.27
Consensus pattern (37 bp):
GTGGGGGTGATGGAGGTAGTGGATGGTTCAGTAGGGT
Found at i:17709674 original size:29 final size:29
Alignment explanation
Indices: 17709641--17709703 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
17709631 TAGGGTGTGG
17709641 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
1 GGGTGATGGAGGTAGTGG-TCGGTTTAGTA
* *
17709670 GGGTGATGGAGTTAGTGGTCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGTCGGTTTAGTA
17709699 GGGTG
1 GGGTG
17709704 TTTAATTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.16, C:0.02, G:0.51, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGTCGGTTTAGTA
Found at i:17712203 original size:43 final size:43
Alignment explanation
Indices: 17712155--17712280 Score: 123
Period size: 44 Copynumber: 2.9 Consensus size: 43
17712145 GGGTATTACA
*
17712155 TTAGGGGGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGC
1 TTAGGGAGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGC
* * * * * *
17712198 TTAGGGAGATAAGATC-TATAATC-TTCAGCTTGTTACC-CTATTGC
1 TTAGGGAGTTAAG-GCGTGT-ATCTTTGATC-TGCT-CCACTATTGC
*
17712242 TTAGGGAGTTAAAGCGTGTATCTTTGATCTGCTCCACTA
1 TTAGGGAGTTAAGGCGTGTATCTTTGATCTGCTCCACTA
17712281 CCGCTTAAGG
Statistics
Matches: 62, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
42 2 0.03
43 27 0.44
44 31 0.50
45 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TTAGGGAGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGC
Found at i:17712301 original size:87 final size:86
Alignment explanation
Indices: 17712159--17712339 Score: 263
Period size: 87 Copynumber: 2.1 Consensus size: 86
17712149 ATTACATTAG
* ** *
17712159 GGGGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTATAATCTTC
1 GGGGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGATAAGATCTATAATCTTC
* *
17712224 AGCTTGTTACCCTATTGCTTA
66 AGCCTGTTACCCTACTGCTTA
* * *
17712245 GGGAGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGATAAGATCTGTAGTTTT
1 GGG-GTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGATAAGATCTATAATCTT
*
17712310 TAGCCTGTTACCCTACTGCTTA
65 CAGCCTGTTACCCTACTGCTTA
17712332 GGGGTTAA
1 GGGGTTAA
17712340 GACTGGTGGT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 8 0.10
87 76 0.90
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (86 bp):
GGGGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGATAAGATCTATAATCTTC
AGCCTGTTACCCTACTGCTTA
Found at i:17712441 original size:133 final size:130
Alignment explanation
Indices: 17712264--17712695 Score: 473
Period size: 133 Copynumber: 3.3 Consensus size: 130
17712254 AGCGTGTATC
* *
17712264 TTTGATCTGCTCCACTACC-GCTTAAG-GAGATAAGATCTGTAGTTTTTAGCCTGTTACC-CTAC
1 TTTGATCTGCTCCACT-CCTGC-TCAGCGAGATAAGATCTGTAG--TTTAGCCTGTT-CCACTCC
* * * *
17712326 TGCTTAG-GGGTTAAGACTGGTGGTTTG-AATCTGCTCCATTGCCGATACATGGAGATAAGATTC
61 TGCTCAGTGGGATAAGACTGGTGG-CTGAAATCTGCTCCATTGCTGATACATGGAGATAAGATTC
17712389 GTCAAAA
125 G-CAAAA
*
17712396 TTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAG-AGTTTAGCCTGCTCCACTCCTGC
1 TTTGATCTGCTCCACTCCTGCTCAGCG-AGATAAGATCT-GTAGTTTAGCCTGTTCCACTCCTGC
* * * *
17712460 TCAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCTATTGCTAATACATGGAGATAAGATCCGCT
64 TCAGTG-GGATAAGACTGGTGGCTGAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCGC-
*
17712525 GAAA
127 AAAA
* * * * * *
17712529 TTTGATATGTTCCACTCCTGC-CAGTGGGATGAGATCTGCTACATTTAGCCTGTTCCACTCCTGC
1 TTTGATCTGCTCCACTCCTGCTCAGCGAGATAAGATCTG-TA-GTTTAGCCTGTTCCACTCCTGC
* * *
17712593 TCAGTGGGATAAGGCTTGTGGCTGAAATCTGCTTCATTGCTGATACATGGAGATAAGATTCGCCA
64 TCAGTGGGATAAGACTGGTGGCTGAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCG-CA
17712658 AAA
128 AAA
* *
17712661 TTTGATCTACTCCGCTCCTGCTCAGCGAAGATAAG
1 TTTGATCTGCTCCACTCCTGCTCAGCG-AGATAAG
17712696 GTCTATCAAA
Statistics
Matches: 251, Mismatches: 34, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
130 3 0.01
131 33 0.13
132 97 0.39
133 112 0.45
134 6 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (130 bp):
TTTGATCTGCTCCACTCCTGCTCAGCGAGATAAGATCTGTAGTTTAGCCTGTTCCACTCCTGCTC
AGTGGGATAAGACTGGTGGCTGAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCGCAAAA
Found at i:17712732 original size:178 final size:178
Alignment explanation
Indices: 17712526--17712967 Score: 697
Period size: 179 Copynumber: 2.5 Consensus size: 178
17712516 AGATCCGCTG
* * *
17712526 AAATTTGATATGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTTAGCCTGTTCCACTCCT
1 AAATTTGATCTATTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCCT
* *
17712591 GCTCAGTGGGATAAGGCTTGTGGCTGAAATCTGCTTCATTGCTGATACATGGAGATAAGATTCGC
66 GCTCAGTGGGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGC
* *
17712656 CAAAATTTGATCTACTCCGCTCCTGCTCAGCGAAGATAAGGTCTATCA
131 CAAAATTTGATCTACTCCGCTCCTGATCAGCGAAGATAAGATCTATCA
* *
17712704 AAATTTGATCTATTCCACTCCAGCCAGTGGGATGAGATCTGCTGTATTTAGCCTGCTT-CACTCC
1 AAATTTGATCTATTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTG-TTCCACTCC
* * * *
17712768 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATATATGGAGGTAAGATTC
65 TGCTCAGTG-GGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
* * *
17712833 GCCAAAATTTGATTTGCTCCGCTCCTGATCAGCGAAGATAAGATCTGTCA
129 GCCAAAATTTGATCTACTCCGCTCCTGATCAGCGAAGATAAGATCTATCA
* *
17712883 AAATTTGATCTATTCCACTTCTGCCAGTAGGATGAGATCTGCTATATTTAGCCTGTTCCACTCCT
1 AAATTTGATCTATTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCCT
17712948 GCTCAGTGGGATAAGGCTTG
66 GCTCAGTGGGATAAGGCTTG
17712968 CCGAAATCTG
Statistics
Matches: 239, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
178 77 0.32
179 162 0.68
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (178 bp):
AAATTTGATCTATTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCCT
GCTCAGTGGGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGC
CAAAATTTGATCTACTCCGCTCCTGATCAGCGAAGATAAGATCTATCA
Found at i:17714240 original size:24 final size:24
Alignment explanation
Indices: 17714213--17714261 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
17714203 TTCGCCTTTG
*
17714213 TCTCTCCTTTGATTTTCTTTTCTT
1 TCTCTCCTTTGATTTTCTCTTCTT
** *
17714237 TCTCTTTTTTGTTTTTCTCTTCTT
1 TCTCTCCTTTGATTTTCTCTTCTT
17714261 T
1 T
17714262 TTCTTTTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.02, C:0.22, G:0.04, T:0.71
Consensus pattern (24 bp):
TCTCTCCTTTGATTTTCTCTTCTT
Found at i:17714253 original size:15 final size:15
Alignment explanation
Indices: 17714235--17714279 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
17714225 TTTTCTTTTC
*
17714235 TTTCTCTTTTTTGTT
1 TTTCTCTTTTTTCTT
17714250 TTTCTCTTCTTTTTCTT
1 TTTCTC-T-TTTTTCTT
17714267 TTTC-CTTTTTTCT
1 TTTCTCTTTTTTCT
17714280 CTTCTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 7 0.26
15 7 0.26
16 2 0.07
17 11 0.41
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTCTCTTTTTTCTT
Found at i:17714263 original size:12 final size:12
Alignment explanation
Indices: 17714248--17714289 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
17714238 CTCTTTTTTG
17714248 TTTTTCTCTTC-
1 TTTTTCTCTTCT
*
17714259 TTTTTCTTTTTCCT
1 TTTTTC-TCTT-CT
17714273 TTTTTCTCTTCT
1 TTTTTCTCTTCT
17714285 TTTTT
1 TTTTT
17714290 TTTTGAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 6 0.23
12 10 0.38
13 4 0.15
14 6 0.23
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCTCTTCT
Found at i:17714276 original size:25 final size:24
Alignment explanation
Indices: 17714220--17714293 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
17714210 TTGTCTCTCC
* * *
17714220 TTTGATTTTCTTTTCTTTCTCTTT
1 TTTGTTTTTCTCTTCTTTTTCTTT
17714244 TTTGTTTTTCTCTTCTTTTTCTTT
1 TTTGTTTTTCTCTTCTTTTTCTTT
17714268 TTCCT-TTTTTCTCTTCTTTTT-TTT
1 TT--TGTTTTTCTCTTCTTTTTCTTT
17714292 TT
1 TT
17714294 GAAAGTGAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
24 28 0.62
25 16 0.36
26 1 0.02
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (24 bp):
TTTGTTTTTCTCTTCTTTTTCTTT
Found at i:17715982 original size:37 final size:37
Alignment explanation
Indices: 17715938--17716140 Score: 370
Period size: 37 Copynumber: 5.5 Consensus size: 37
17715928 CACTTGTCCC
* *
17715938 TGATCAGATAAGTGCAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
17715975 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
17716012 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
17716049 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
* *
17716086 TGTTCAGATAAGTGTAGCCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
17716123 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
17716141 TAAAGCTATC
Statistics
Matches: 161, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 161 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
Found at i:17716157 original size:46 final size:46
Alignment explanation
Indices: 17716104--17716372 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
17716094 TAAGTGTAGC
* **
17716104 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
17716150 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
17716196 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
17716248 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
17716294 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
17716346 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
17716373 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:17716223 original size:52 final size:52
Alignment explanation
Indices: 17716147--17716366 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
17716137 TAGCTAAAGC
* *
17716147 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
17716200 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
17716252 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
17716298 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
17716350 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
17716367 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:17716269 original size:98 final size:98
Alignment explanation
Indices: 17716104--17716372 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
17716094 TAAGTGTAGC
* * *
17716104 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
17716169 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
17716203 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
17716268 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
17716301 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
17716366 GATCAGA
66 GATCAGA
17716373 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:17723652 original size:125 final size:126
Alignment explanation
Indices: 17723429--17723797 Score: 632
Period size: 125 Copynumber: 2.9 Consensus size: 126
17723419 GTTTTAGCCT
* * * *
17723429 TAAGAAGATATTCAAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGTACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* *
17723494 CTTTGAATTATTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
66 CTTCGAATTATTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
*
17723555 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAA-CCAGTATGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
17723619 CTTCGAATTTTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTATTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
*
17723680 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAACGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* *
17723745 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTATTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAG
17723798 AAGATCAATG
Statistics
Matches: 230, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
125 119 0.52
126 111 0.48
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTATTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
Found at i:17724270 original size:14 final size:14
Alignment explanation
Indices: 17724251--17724281 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17724241 ATATATTTAC
*
17724251 ATAATAAATATATA
1 ATAATAAATAAATA
17724265 ATAATAAATAAATA
1 ATAATAAATAAATA
17724279 ATA
1 ATA
17724282 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:17724282 original size:19 final size:18
Alignment explanation
Indices: 17724253--17724289 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
17724243 ATATTTACAT
17724253 AATAAATATATAATAATA
1 AATAAATATATAATAATA
17724271 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
17724290 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:17724701 original size:18 final size:18
Alignment explanation
Indices: 17724678--17724713 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17724668 ATAACAAGTA
*
17724678 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
17724696 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
17724714 ATGGTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.58, T:0.25
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:17724729 original size:29 final size:29
Alignment explanation
Indices: 17724696--17724795 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 29
17724686 GAGTTAGTGG
17724696 GGGTGATGGAGGTAGTGGATGGTTTAGTA
1 GGGTGATGGAGGTAGTGGATGGTTTAGTA
17724725 GGGTGTGGGGGCGATGGAGGTAGTGGATGGTTTAGTA
1 -GG-GT------GATGGAGGTAGTGGATGGTTTAGTA
*
17724762 GGGTGATGGAGTTAGTGG-TCGGTTTAGTA
1 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
17724791 GGGTG
1 GGGTG
17724796 TTTAATTTGG
Statistics
Matches: 61, Mismatches: 1, Indels: 17
0.77 0.01 0.22
Matches are distributed among these distances:
28 1 0.02
29 27 0.44
30 2 0.03
31 2 0.03
35 2 0.03
36 2 0.03
37 25 0.41
ACGTcount: A:0.17, C:0.02, G:0.51, T:0.30
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGATGGTTTAGTA
Found at i:17724742 original size:37 final size:37
Alignment explanation
Indices: 17724692--17724766 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
17724682 GATGGAGTTA
*
17724692 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGCGATGGAGGTAGTGGATGGTTTAGTAGGGT
17724729 GTGGGGGCGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGCGATGGAGGTAGTGGATGGTTTAGTAGGGT
17724766 G
1 G
17724767 ATGGAGTTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.16, C:0.01, G:0.55, T:0.28
Consensus pattern (37 bp):
GTGGGGGCGATGGAGGTAGTGGATGGTTTAGTAGGGT
Found at i:17725389 original size:87 final size:85
Alignment explanation
Indices: 17725033--17725411 Score: 489
Period size: 85 Copynumber: 4.4 Consensus size: 85
17725023 AACGAAAATA
* * *
17725033 AGATCTGT-AATTTTAGCCTATTACCCTACTGCTTAGGAGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACTTGCTC
*
17725097 CACCACAGCTCGGA-GAG-CC
66 CACCACTGCTC-GACGAGCCC
* * *
17725116 AGGATCTGTAAATTTTAGCCTGTTACCCTACTGTTTAGGGGGCTAAGGCGAGTCTTTGACTTGCT
1 A-GATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACTTGCT
*
17725181 CCACCACTGCTCGGCGAGCCC
65 CCACCACTGCTCGACGAGCCC
* * * *
17725202 A-AGTTTGTAAACTTTAGCCTGTTACCGTACTGCTTAGGGGGTTAAGGTGAGTCTTCGACTTGCT
1 AGA-TCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACTTGCT
* * * *
17725266 TCGCCATTGCTCGGCGAGCCC
65 CCACCACTGCTCGACGAGCCC
* *
17725287 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTGTATCTTTGA-TCTG
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAG--TCTTCGACT-TG
*
17725351 CTCCGCCACTGCTCGACGAGCCC
63 CTCCACCACTGCTCGACGAGCCC
*
17725374 AGATCTGTAAATTTTAGCCTGTAACCCTACTGCTTAGG
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGG
17725412 TATAACAGCC
Statistics
Matches: 259, Mismatches: 28, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
83 1 0.00
84 9 0.03
85 179 0.69
86 5 0.02
87 65 0.25
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (85 bp):
AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACTTGCTC
CACCACTGCTCGACGAGCCC
Found at i:17728898 original size:87 final size:87
Alignment explanation
Indices: 17728752--17728937 Score: 264
Period size: 87 Copynumber: 2.1 Consensus size: 87
17728742 GGGTATTACA
* ** * *
17728752 TTAGGGGGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTATAAT
1 TTAGGGGGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATCTATAAT
* *
17728817 CTTCAGCTTGTTACCCTATTGC
66 CTTCAGCCTGTTACCCTACTGC
* * *
17728839 TTAGGGAGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATCTGTAGT
1 TTAGGGGGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATCTATAAT
* *
17728904 TTTTAGCCTGTTACCCTACTGC
66 CTTCAGCCTGTTACCCTACTGC
17728926 TTAGGGGGTTAA
1 TTAGGGGGTTAA
17728938 GACTGGTGGT
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.35
Consensus pattern (87 bp):
TTAGGGGGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATCTATAAT
CTTCAGCCTGTTACCCTACTGC
Found at i:17729260 original size:132 final size:133
Alignment explanation
Indices: 17728935--17729297 Score: 511
Period size: 133 Copynumber: 2.7 Consensus size: 133
17728925 CTTAGGGGGT
* *
17728935 TAAGACTGGTGGTTTG-AATCTGCTCCATTGCCGATACATGGAGATAAGATTCGTCAAAATTTGA
1 TAAGACTGGTGG-CTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGA
*
17728999 TCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGAGTTTAGCCTGCTCCACTCCTGCTCAGTG
65 TCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGAATTTAGCCTGCTCCACTCCTGCTCAGTG
17729064 AAGA
130 AAGA
* * **
17729068 TAAGACTGGTGGCTGAAATCTGCTCTATTGCCGATACATGGAGATAAGATCCGCTGAAATTTGAT
1 TAAGACTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGAT
* * * * *
17729133 CTGTTCCACTCCTGC-CAGTG-GGATGAGATCT-GCTACATTTAGCCTGTTCCACTCCTGCTCAG
66 CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAG--A-ATTTAGCCTGCTCCACTCCTGCTCAG
*
17729195 TG-GGA
128 TGAAGA
* *
17729200 TAAGGCTTGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGAT
1 TAAGACTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGAT
*
17729265 CTGCTCCGCTCCTGCTCAGCGAAGATAAGATCT
66 CTGCTCCACTCCTGCTCAGCGAAGATAAGATCT
17729298 GTCGAAATTT
Statistics
Matches: 200, Mismatches: 24, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
130 1 0.00
131 9 0.05
132 81 0.41
133 100 0.50
134 9 0.05
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (133 bp):
TAAGACTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGAT
CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGAATTTAGCCTGCTCCACTCCTGCTCAGTGA
AGA
Found at i:17729465 original size:179 final size:179
Alignment explanation
Indices: 17729109--17729563 Score: 729
Period size: 179 Copynumber: 2.6 Consensus size: 179
17729099 CGATACATGG
*
17729109 AGATAAGATCCG-CTGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTT
1 AGATAAGATCTGTC-GAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTT
* *
17729173 AGCCTGTTCCACTCCTGCTCAGTG-GGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCGATAC
65 AGCCTGTTCCACTCCTGCTCAGTGAGGATAAGGCTGGTGGCTGAAATATGCTCCATTGCCGATAC
*
17729237 ATGGAGATAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGA
130 ATGGAGATAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGATCAGCGA
* * *
17729287 AGATAAGATCTGTCGAAATTTGATCGGTTCCACTCCAGCCAGTGGGATGAGATCTGCTGCATTTA
1 AGATAAGATCTGTCGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTTA
* *
17729352 GCCTGCTT-CACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATATGCTCCATTGCCGATAT
66 GCCTG-TTCCACTCCTGCTCAGTGAGGATAAGGCTGGTGGCTGAAATATGCTCCATTGCCGATAC
*
17729416 ATGGAGGTAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGATCAGCGA
130 ATGGAGATAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGATCAGCGA
* * * * *
17729466 AGATAAGATCTGTCGAAATTTGATCTATTCCACTCCTGCCAGTAGGATGAGATTTTCTATATTTA
1 AGATAAGATCTGTCGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTTA
17729531 GCCTGTTCCACTCCTGCTCAGT-AGGATAAGGCT
66 GCCTGTTCCACTCCTGCTCAGTGAGGATAAGGCT
17729564 TGCCGAAATC
Statistics
Matches: 254, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
178 91 0.36
179 163 0.64
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (179 bp):
AGATAAGATCTGTCGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTTA
GCCTGTTCCACTCCTGCTCAGTGAGGATAAGGCTGGTGGCTGAAATATGCTCCATTGCCGATACA
TGGAGATAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGATCAGCGA
Found at i:17731073 original size:37 final size:37
Alignment explanation
Indices: 17731023--17731097 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
17731013 GATGGAGTTA
17731023 GTGGGGATGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGATGATGGAGGTAGTGGATGGTTTAGTAGGGT
*
17731060 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGATGATGGAGGTAGTGGATGGTTTAGTAGGGT
17731097 G
1 G
17731098 ATGGAGTTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.17, C:0.00, G:0.53, T:0.29
Consensus pattern (37 bp):
GTGGGGATGATGGAGGTAGTGGATGGTTTAGTAGGGT
Found at i:17731097 original size:29 final size:29
Alignment explanation
Indices: 17731064--17731126 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
17731054 TAGGGTGTGG
17731064 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
1 GGGTGATGGAGGTAGTGG-TCGGTTTAGTA
* *
17731093 GGGTGATGGAGTTAGTGGTCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGTCGGTTTAGTA
17731122 GGGTG
1 GGGTG
17731127 TTTAATTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.16, C:0.02, G:0.51, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGTCGGTTTAGTA
Found at i:17736829 original size:20 final size:20
Alignment explanation
Indices: 17736792--17736829 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17736782 TGATGGGGAG
*
17736792 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
17736812 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
17736830 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:17738729 original size:46 final size:46
Alignment explanation
Indices: 17738677--17738950 Score: 433
Period size: 46 Copynumber: 6.0 Consensus size: 46
17738667 AGTGTGCTCT
* *
17738677 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
17738723 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
17738769 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
17738815 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
17738861 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
17738907 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
17738951 TCATGTCAAA
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 212 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:17739633 original size:33 final size:32
Alignment explanation
Indices: 17739552--17739633 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 32
17739542 ATGTCAATGT
* *
17739552 TTGAATGTAAGACCATAGCTGAGCTATGACAT
1 TTGAATGTAAGACCATAACTGAGCTATGACAC
* * * *
17739584 TTTAATGAAAAGACCATAACTGGGTTATGACACC
1 TTGAATG-TAAGACCATAACTGAGCTATGACA-C
*
17739618 TTGAATGTAATACCAT
1 TTGAATGTAAGACCAT
17739634 GGTTGGACCA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
32 6 0.15
33 27 0.69
34 6 0.15
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (32 bp):
TTGAATGTAAGACCATAACTGAGCTATGACAC
Found at i:17739720 original size:33 final size:33
Alignment explanation
Indices: 17739661--17739738 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
17739651 ATATGTATAC
* *
17739661 GTGTAAGACCATAGTTGGCCTATGGCATCCTGA
1 GTGTAAGACCATAATTGGCCTATGGCATCATGA
** * *
17739694 -TGATAAGACCATAATTGGGTTTTGGCATTATGA
1 GTG-TAAGACCATAATTGGCCTATGGCATCATGA
17739727 GTGTAAGACCAT
1 GTGTAAGACCAT
17739739 GGCAGGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
32 2 0.05
33 33 0.89
34 2 0.05
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (33 bp):
GTGTAAGACCATAATTGGCCTATGGCATCATGA
Found at i:17739750 original size:105 final size:105
Alignment explanation
Indices: 17739557--17739750 Score: 221
Period size: 105 Copynumber: 1.8 Consensus size: 105
17739547 AATGTTTGAA
**
17739557 TGTAAGACCATAGCTGAGCTATGACATTTTAATGAAAAGACCATAACTGGGTTATGACACCTTGA
1 TGTAAGACCATAGCTGAGCTATGACATCCTAATGAAAAGACCATAACTGGGTTATGACACCTTGA
* **
17739622 ATGTAATACCATGGTTGGACCATGGCAGAATATGTATACG
66 ATGTAAGACCATGGCAGGACCATGGCAGAATATGTATACG
* * * * * * * *
17739662 TGTAAGACCATAGTTG-GCCTATGGCATCCTGATGATAAGACCATAATTGGGTTTTGGCA-TTAT
1 TGTAAGACCATAGCTGAG-CTATGACATCCTAATGAAAAGACCATAACTGGGTTATGACACCT-T
* *
17739725 GAGTGTAAGACCATGGCAGGGCCATG
64 GAATGTAAGACCATGGCAGGACCATG
17739751 ACAATTGTGT
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
104 2 0.03
105 70 0.97
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (105 bp):
TGTAAGACCATAGCTGAGCTATGACATCCTAATGAAAAGACCATAACTGGGTTATGACACCTTGA
ATGTAAGACCATGGCAGGACCATGGCAGAATATGTATACG
Found at i:17745074 original size:22 final size:21
Alignment explanation
Indices: 17745041--17745081 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
17745031 CAATGAAATA
*
17745041 AAAGAAATGAAAAAGAGAAAC
1 AAAGAAACGAAAAAGAGAAAC
*
17745062 AAAGCAAACGAAACAGAGAA
1 AAAG-AAACGAAAAAGAGAA
17745082 GAAAAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.68, C:0.10, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAGAAACGAAAAAGAGAAAC
Found at i:17745087 original size:22 final size:20
Alignment explanation
Indices: 17745040--17745087 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
17745030 ACAATGAAAT
*
17745040 AAAAGAAATGAAAAAGAGAA
1 AAAAGAAACGAAAAAGAGAA
*
17745060 ACAAAGCAAACGAAACAGAGAA
1 A-AAAG-AAACGAAAAAGAGAA
17745082 GAAAAG
1 -AAAAG
17745088 GGGAGAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 4 0.17
22 17 0.74
23 1 0.04
ACGTcount: A:0.69, C:0.08, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAAGAAACGAAAAAGAGAA
Found at i:17745105 original size:4 final size:4
Alignment explanation
Indices: 17745091--17745125 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
17745081 AGAAAAGGGG
17745091 AGAA AGAAA AGAA AGAA AGAA AGAA AGAA AGAA AG
1 AGAA AG-AA AGAA AGAA AGAA AGAA AGAA AGAA AG
17745126 GGAGAAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:17755006 original size:2 final size:2
Alignment explanation
Indices: 17754994--17755027 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
17754984 TTCCCCATTG
*
17754994 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17755028 AACTGCAAGC
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:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:17758659 original size:4 final size:4
Alignment explanation
Indices: 17758652--17758699 Score: 87
Period size: 4 Copynumber: 12.0 Consensus size: 4
17758642 CAAATAATAA
*
17758652 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
17758700 GAACATGTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:17760199 original size:20 final size:18
Alignment explanation
Indices: 17760170--17760214 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
17760160 AACGAAAAGC
17760170 AGGG-AAAGAAAGAAAGAA
1 AGGGAAAAGAAAG-AAGAA
17760188 AGGAGAAAAGAAAGAAGAA
1 AGG-GAAAAGAAAGAAGAA
17760207 AGGGAAAA
1 AGGGAAAA
17760215 TTGGTTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGGGAAAAGAAAGAAGAA
Found at i:17761086 original size:19 final size:20
Alignment explanation
Indices: 17761064--17761111 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
17761054 AATTATATTG
*
17761064 AATTGAAAAAAATAT-AGTT
1 AATTGAAAAAAATATGAATT
*
17761083 AATT-AATTAAAATATGAATT
1 AATTGAA-AAAAATATGAATT
17761103 AATTGAAAA
1 AATTGAAAA
17761112 CTAGAAAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.09
19 11 0.48
20 8 0.35
21 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (20 bp):
AATTGAAAAAAATATGAATT
Found at i:17761253 original size:12 final size:12
Alignment explanation
Indices: 17761236--17761260 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17761226 ACCGACTACT
17761236 GTTACTGTTACC
1 GTTACTGTTACC
17761248 GTTACTGTTACC
1 GTTACTGTTACC
17761260 G
1 G
17761261 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:17761535 original size:18 final size:18
Alignment explanation
Indices: 17761482--17761549 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
17761472 AAAGATCGAC
*
17761482 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
* *
17761501 TGTTACTGTATATTTGAT
1 TGTTACTGAATAATTGAT
* *
17761519 TTTTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
*
17761537 TGTTACTGGATAA
1 TGTTACTGAATAA
17761550 CCGATCAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
18 29 0.73
19 11 0.28
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:17766208 original size:15 final size:15
Alignment explanation
Indices: 17766188--17766217 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17766178 TTTAATCCCT
*
17766188 TATAAATTATAAAAA
1 TATAAACTATAAAAA
17766203 TATAAACTATAAAAA
1 TATAAACTATAAAAA
17766218 ATTAAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:17767924 original size:27 final size:27
Alignment explanation
Indices: 17767893--17767945 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
17767883 TTTATTTTTG
*
17767893 AAGGATATTATAATATTAAAATAAAAT
1 AAGGATAATATAATATTAAAATAAAAT
17767920 AAGGATAATATAATATTAAAATAAAA
1 AAGGATAATATAATATTAAAATAAAA
17767946 ATCTTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (27 bp):
AAGGATAATATAATATTAAAATAAAAT
Found at i:17767927 original size:22 final size:22
Alignment explanation
Indices: 17767902--17767943 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17767892 GAAGGATATT
17767902 ATAATATTAA-AATAAAATAAGG
1 ATAATA-TAATAATAAAATAAGG
*
17767924 ATAATATAATATTAAAATAA
1 ATAATATAATAATAAAATAA
17767944 AAATCTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (22 bp):
ATAATATAATAATAAAATAAGG
Found at i:17779866 original size:35 final size:35
Alignment explanation
Indices: 17779815--17780093 Score: 314
Period size: 35 Copynumber: 8.0 Consensus size: 35
17779805 CGATTCACAA
** *
17779815 CTCAGTATGGTTAATACCATACCTAGGTTTCATAG
1 CTCAGTATGGACAATACCATACCTACGTTTCATAG
* * *
17779850 CTCAGTATGGACAATACCATACCTATGTTTCACAA
1 CTCAGTATGGACAATACCATACCTACGTTTCATAG
*
17779885 CTCTGTATGGGA-AATACCATACCTACGTATT-ATAG
1 CTCAGTAT-GGACAATACCATACCTACGT-TTCATAG
* * *
17779920 CTCGGCATGGATAATACCATACCTACGTTTCATAG
1 CTCAGTATGGACAATACCATACCTACGTTTCATAG
* * * * *
17779955 CTCATTATGGACAACACCATACCTGCGTTTCACAA
1 CTCAGTATGGACAATACCATACCTACGTTTCATAG
*
17779990 CTCGGTATGAGA-AATACCATACCTACGTATT-ATAG
1 CTCAGTATG-GACAATACCATACCTACGT-TTCATAG
* * *
17780025 CTCGGTATGGATAATACCATACCTACGTGTCATAG
1 CTCAGTATGGACAATACCATACCTACGTTTCATAG
*
17780060 CTCAGTATGGACAATACCATACCTACGTGTCATA
1 CTCAGTATGGACAATACCATACCTACGTTTCATA
17780094 ACTTTTCCAT
Statistics
Matches: 208, Mismatches: 28, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
34 8 0.04
35 191 0.92
36 9 0.04
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (35 bp):
CTCAGTATGGACAATACCATACCTACGTTTCATAG
Found at i:17780008 original size:105 final size:105
Alignment explanation
Indices: 17779821--17780096 Score: 444
Period size: 105 Copynumber: 2.6 Consensus size: 105
17779811 ACAACTCAGT
* * *
17779821 ATGGTTAATACCATACCTAGGTTTCATAGCTCAGTATGGACAATACCATACCTATGTTTCACAAC
1 ATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
* *
17779886 TCTGTATGGGAAATACCATACCTACGTATTATAGCTCGGC
66 TCGGTATGAGAAATACCATACCTACGTATTATAGCTCGGC
* * *
17779926 ATGGATAATACCATACCTACGTTTCATAGCTCATTATGGACAACACCATACCTGCGTTTCACAAC
1 ATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
*
17779991 TCGGTATGAGAAATACCATACCTACGTATTATAGCTCGGT
66 TCGGTATGAGAAATACCATACCTACGTATTATAGCTCGGC
* * *
17780031 ATGGATAATACCATACCTACGTGTCATAGCTCAGTATGGACAATACCATACCTACGTGTCATAAC
1 ATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
17780096 T
66 T
17780097 TTTCCATGGA
Statistics
Matches: 156, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 156 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (105 bp):
ATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
TCGGTATGAGAAATACCATACCTACGTATTATAGCTCGGC
Found at i:17783030 original size:13 final size:12
Alignment explanation
Indices: 17782976--17783030 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 12
17782966 TTTAGTATTT
*
17782976 AATTAATTTTTAA
1 AATTAATTTAT-A
17782989 AATTAATTTCATA
1 AATTAATTT-ATA
17783002 AA--AATTTAT-
1 AATTAATTTATA
17783011 AATTAATTTATA
1 AATTAATTTATA
17783023 ATATTAAT
1 A-ATTAAT
17783031 AATAATCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
9 2 0.06
10 2 0.06
11 12 0.33
12 1 0.03
13 18 0.50
14 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (12 bp):
AATTAATTTATA
Found at i:17783304 original size:29 final size:31
Alignment explanation
Indices: 17783266--17783327 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
17783256 TTTATTTAAT
*
17783266 GTGTAATTATATACACG-AACTTTAATT-TG
1 GTGTAATTATACACACGAAACTTTAATTGTG
* *
17783295 GTGTAGTTATACACGCGAAACTTTAATTGTG
1 GTGTAATTATACACACGAAACTTTAATTGTG
17783326 GT
1 GT
17783328 TCAAATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 14 0.50
30 10 0.36
31 4 0.14
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (31 bp):
GTGTAATTATACACACGAAACTTTAATTGTG
Found at i:17783477 original size:13 final size:13
Alignment explanation
Indices: 17783459--17783488 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17783449 TAAAATGATG
17783459 TTATATCAATAAT
1 TTATATCAATAAT
*
17783472 TTATATTAATAAT
1 TTATATCAATAAT
17783485 TTAT
1 TTAT
17783489 GAGAATTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
TTATATCAATAAT
Found at i:17783575 original size:31 final size:29
Alignment explanation
Indices: 17783507--17783581 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 29
17783497 AATCAAATAA
17783507 AAATTTTATATATAAAATTATACAAAATC
1 AAATTTTATATATAAAATTATACAAAATC
* * **
17783536 AAAATTTATATATACAATTGCATATTAAA-C
1 AAATTTTATATATAAAATT--ATACAAAATC
17783566 TAAATTTTATATATAA
1 -AAATTTTATATATAA
17783582 TTTTGAGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
29 17 0.46
30 1 0.03
31 19 0.51
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (29 bp):
AAATTTTATATATAAAATTATACAAAATC
Found at i:17786587 original size:29 final size:33
Alignment explanation
Indices: 17786554--17786619 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 33
17786544 TGCCTCTTCT
17786554 CACTCTCCCATGCTGTCTGCCACCAACACCACTCC
1 CACTCTCCCATGCTGTCTGCCACCAACACCA--CC
*
17786589 CACTCTCCCATGCTGTCTGCCACCAGCACCA
1 CACTCTCCCATGCTGTCTGCCACCAACACCA
17786620 TCACACACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.20, C:0.50, G:0.11, T:0.20
Consensus pattern (33 bp):
CACTCTCCCATGCTGTCTGCCACCAACACCACC
Found at i:17786987 original size:22 final size:22
Alignment explanation
Indices: 17786937--17786988 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
17786927 AAGGGGGGAT
*
17786937 CGATTGTATTTTGGGGAAGAAT
1 CGATTGTATTTTGGGGAAGAAC
17786959 CGATTGTATTTTAGGGG-AGAAC
1 CGATTGTATTTT-GGGGAAGAAC
*
17786981 CGTTTGTA
1 CGATTGTA
17786989 AATAGGGGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.25, C:0.08, G:0.31, T:0.37
Consensus pattern (22 bp):
CGATTGTATTTTGGGGAAGAAC
Found at i:17787983 original size:23 final size:23
Alignment explanation
Indices: 17787915--17787968 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
17787905 TCATTATTTT
* * *
17787915 CTATTATTGTTATTAATATACTA
1 CTATTATTCTTATTAATGTATTA
17787938 CTATTATTCTTATTAATGTATTA
1 CTATTATTCTTATTAATGTATTA
17787961 CTATTATT
1 CTATTATT
17787969 TTTTTTACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.56
Consensus pattern (23 bp):
CTATTATTCTTATTAATGTATTA
Found at i:17788017 original size:3 final size:3
Alignment explanation
Indices: 17787879--17787999 Score: 52
Period size: 3 Copynumber: 40.7 Consensus size: 3
17787869 ACTCTTTAGT
** * * *
17787879 TTA TTA TTA TTA TTA TTA TTA TT- TCG TCA TTA TTT TCTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * * * *
17787924 TTA TTA ATA -TA CTA CTA TTA TTC TTA TTAA TGTA TTA CTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA
* * * *
17787970 TTT TTA CT- TTA TTA TTA -CA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17788000 GCTATCATCA
Statistics
Matches: 90, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
2 5 0.06
3 78 0.87
4 6 0.07
5 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:17788086 original size:3 final size:3
Alignment explanation
Indices: 17788078--17788117 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
17788068 ATATATTTAC
** *
17788078 ATT ATT ATT GCT ATT ACT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
17788118 GACAATACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:17792715 original size:25 final size:24
Alignment explanation
Indices: 17792687--17792745 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
17792677 AAAAAAATTG
*
17792687 TTTTTAATTTGTTGAAAAA-TATT
1 TTTTTAATTTGTTGAAAAATTATA
* **
17792710 TATTTTAATATTTTTGATGAATTATA
1 T-TTTTAAT-TTGTTGAAAAATTATA
17792736 TTTTTAATTT
1 TTTTTAATTT
17792746 TTTTATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
23 1 0.03
24 9 0.31
25 15 0.52
26 4 0.14
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (24 bp):
TTTTTAATTTGTTGAAAAATTATA
Found at i:17803389 original size:21 final size:21
Alignment explanation
Indices: 17803363--17803403 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17803353 AGACGAGCAA
* *
17803363 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
17803384 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
17803404 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:17822926 original size:18 final size:20
Alignment explanation
Indices: 17822894--17822944 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
17822884 GTTAATTTCA
*
17822894 ATTTTTTAATATTATTTAAT
1 ATTTTTTAATATTATGTAAT
17822914 ATTTTTT-AT-TTATGTAAT
1 ATTTTTTAATATTATGTAAT
*
17822932 -TTTAATTAATATT
1 ATTT-TTTAATATT
17822945 TTTTTATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 3 0.12
18 10 0.38
19 4 0.15
20 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
ATTTTTTAATATTATGTAAT
Found at i:17824458 original size:18 final size:18
Alignment explanation
Indices: 17824435--17824470 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17824425 TGCCAGGTGC
17824435 GTATCCTAGCCATTATAT
1 GTATCCTAGCCATTATAT
* *
17824453 GTATCCTTGCCCTTATAT
1 GTATCCTAGCCATTATAT
17824471 ATTTCCTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAGCCATTATAT
Found at i:17826724 original size:43 final size:44
Alignment explanation
Indices: 17826575--17826733 Score: 177
Period size: 43 Copynumber: 3.7 Consensus size: 44
17826565 TATGTGTTAT
* * *
17826575 CATGTAAGACCACGTCTGGGAAGTTGGCATTGACT-TATGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGATTTA
* * *
17826619 CGTATAAGACCACATCTGGGACGTTGGCATCG-TATTTGATTT-
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTTA
* *
17826661 CGTGTAAGACC-CTGTTTGGGACAG-TGGCATCGATATTTG-TTTA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTTA
17826704 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
17826734 TGTGCGAGCT
Statistics
Matches: 97, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.01
42 30 0.31
43 38 0.39
44 28 0.29
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (44 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTTA
Found at i:17840106 original size:36 final size:36
Alignment explanation
Indices: 17840066--17840350 Score: 173
Period size: 36 Copynumber: 7.7 Consensus size: 36
17840056 TAACTCTCAA
* * *
17840066 AATTATTCAATAACAGTCAGTTATTCGGTAACAATC
1 AATTATTCAGTAACAATCAGTTATTCAGTAACAATC
* * * * *
17840102 AATTATTCAATAATAACCAGTTATTCAATATCGATCAATT
1 AATTATTCAGTAACAATCAGTTATTCAGTA---A-CAATC
* * *
17840142 AATTGGTTATCTAGTAACAGTCAATTATTCAGTAA-AATC
1 AATT--AT-TC-AGTAACAATCAGTTATTCAGTAACAATC
* * ****
17840181 AGA-TATTTAGTAACAATTAAGTTATTCAGTAGTTGTC
1 A-ATTATTCAGTAACAA-TCAGTTATTCAGTAACAATC
* *
17840218 -ATTCATTCAGTGACAATCAGTTATTCAGTAATAATC
1 AATT-ATTCAGTAACAATCAGTTATTCAGTAACAATC
* * *
17840254 AATTATTCAGTAATATTCAGTTATTCAGTAACAGTC
1 AATTATTCAGTAACAATCAGTTATTCAGTAACAATC
* * * * * *
17840290 TAA-TATCCAGTAACAGTCAATTATCCGGTAACAGTC
1 -AATTATTCAGTAACAATCAGTTATTCAGTAACAATC
*
17840326 AATTATTCAGTAATAATCAGTTATT
1 AATTATTCAGTAACAATCAGTTATT
17840351 TTATACCTTT
Statistics
Matches: 189, Mismatches: 44, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
35 10 0.05
36 126 0.67
37 18 0.10
39 6 0.03
40 9 0.05
41 1 0.01
42 1 0.01
43 2 0.01
44 16 0.08
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (36 bp):
AATTATTCAGTAACAATCAGTTATTCAGTAACAATC
Done.