Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 104 of 105
Found at i:19017220 original size:34 final size:35
Alignment explanation
Indices: 19017173--19017238 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
19017163 TAAATTTTTT
*
19017173 TATAAAAAGTATATAGTTATT-AATTTAATAACTA
1 TATAAAAACTATATAGTTATTAAATTTAATAACTA
* * *
19017207 TATAATAACTATATAGTTTTTAAATTTTATAA
1 TATAAAAACTATATAGTTATTAAATTTAATAA
19017239 GTTTTTATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 18 0.67
35 9 0.33
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (35 bp):
TATAAAAACTATATAGTTATTAAATTTAATAACTA
Found at i:19018973 original size:23 final size:22
Alignment explanation
Indices: 19018941--19018988 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
19018931 AGGTAAGAGT
19018941 AATGAATATT-TAAAATAGAATA
1 AATGAATATTCTAAAATA-AATA
*
19018963 AATGTAATATTCTAAATTAAATA
1 AATG-AATATTCTAAAATAAATA
19018986 AAT
1 AAT
19018989 TTACTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 13 0.57
24 6 0.26
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (22 bp):
AATGAATATTCTAAAATAAATA
Found at i:19020460 original size:25 final size:25
Alignment explanation
Indices: 19020432--19020482 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
19020422 AGCAATTTGC
19020432 TATGTGTTAAATGATACAATGAATA
1 TATGTGTTAAATGATACAATGAATA
19020457 TATGTGTTAAATGATACAATGAATA
1 TATGTGTTAAATGATACAATGAATA
19020482 T
1 T
19020483 TATTATGGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (25 bp):
TATGTGTTAAATGATACAATGAATA
Found at i:19020719 original size:9 final size:11
Alignment explanation
Indices: 19020669--19020716 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
19020659 TTGAACAAAG
19020669 ATAATATATAT
1 ATAATATATAT
19020680 ATAATATATAAT
1 ATAATATAT-AT
19020692 ATAATATATAT
1 ATAATATATAT
19020703 ATAAT-TATAT
1 ATAATATATAT
19020713 -TAAT
1 ATAAT
19020717 TATTTCTTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
9 4 0.11
10 5 0.14
11 16 0.44
12 11 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATAATATATAT
Found at i:19022760 original size:18 final size:17
Alignment explanation
Indices: 19022718--19022766 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
19022708 ATGATGAAAA
* *
19022718 ATTAAAATTAAAATTTG
1 ATTAAATTTGAAATTTG
*
19022735 ATTAAATTTTAAATTTG
1 ATTAAATTTGAAATTTG
*
19022752 AATTTAATTTGAAAT
1 -ATTAAATTTGAAAT
19022767 AAAAATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTAAATTTGAAATTTG
Found at i:19024884 original size:11 final size:11
Alignment explanation
Indices: 19024868--19024894 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
19024858 CCACTAATTA
19024868 TTTGTTCTTTC
1 TTTGTTCTTTC
19024879 TTTGTTCTTTC
1 TTTGTTCTTTC
19024890 TTTGT
1 TTTGT
19024895 CGAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.15, G:0.11, T:0.74
Consensus pattern (11 bp):
TTTGTTCTTTC
Found at i:19030157 original size:2 final size:2
Alignment explanation
Indices: 19030152--19030195 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
19030142 TGCACCACAA
19030152 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
19030194 AG
1 AG
19030196 GGCTGTGTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19038326 original size:7 final size:7
Alignment explanation
Indices: 19038309--19038339 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
19038299 ATGTTGCTAG
19038309 TTTTG-T
1 TTTTGTT
19038315 TTTTGTT
1 TTTTGTT
19038322 TTTTGTT
1 TTTTGTT
19038329 TTTTGTT
1 TTTTGTT
19038336 TTTT
1 TTTT
19038340 TATCATTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (7 bp):
TTTTGTT
Found at i:19040437 original size:23 final size:22
Alignment explanation
Indices: 19040418--19040459 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19040408 ATGTAATATA
*
19040418 ATTTAAATTTTAATAATAATTAT
1 ATTTAAA-ATTAATAATAATTAT
19040441 ATTTAAAATTAATAA-AATT
1 ATTTAAAATTAATAATAATT
19040460 TTAAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 7 0.39
23 7 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTAAAATTAATAATAATTAT
Found at i:19040444 original size:17 final size:17
Alignment explanation
Indices: 19040411--19040509 Score: 51
Period size: 17 Copynumber: 5.6 Consensus size: 17
19040401 AATATAAATG
19040411 TAATATAATTTAAATTT
1 TAATATAATTTAAATTT
*
19040428 TAATAATAA-TTATA-TT
1 TAAT-ATAATTTAAATTT
* *
19040444 TAAAATTAA-TAAAATTT
1 TAATA-TAATTTAAATTT
*
19040461 TAAATATATATTTTATATTT
1 T-AATATA-A-TTTAAATTT
* ** *
19040481 TTATATTAATACAAATTA
1 TAATA-TAATTTAAATTT
19040499 TAATATAATTT
1 TAATATAATTT
19040510 TTATGTAAAA
Statistics
Matches: 59, Mismatches: 15, Indels: 16
0.66 0.17 0.18
Matches are distributed among these distances:
15 1 0.02
16 11 0.19
17 17 0.29
18 17 0.29
19 4 0.07
20 9 0.15
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATATAATTTAAATTT
Found at i:19043025 original size:20 final size:21
Alignment explanation
Indices: 19042987--19043046 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 21
19042977 TCCTTAAATA
*
19042987 AATAATATCATCTAATTTA-TT
1 AATAATAT-ATCAAATTTATTT
19043008 AATAATATATCAAATTTATTT
1 AATAATATATCAAATTTATTT
19043029 ATTTATAATATATCAAAT
1 A---ATAATATATCAAAT
19043047 ATAAATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.26
21 11 0.32
24 14 0.41
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
AATAATATATCAAATTTATTT
Found at i:19043028 original size:24 final size:24
Alignment explanation
Indices: 19043001--19043046 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
19042991 ATATCATCTA
19043001 ATTTATTAATAATATATCAAATTT
1 ATTTATTAATAATATATCAAATTT
*
19043025 ATTTATTTATAATATATCAAAT
1 ATTTATTAATAATATATCAAAT
19043047 ATAAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTTATTAATAATATATCAAATTT
Found at i:19043057 original size:22 final size:23
Alignment explanation
Indices: 19043009--19043059 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
19042999 TAATTTATTA
** *
19043009 ATAATATATCAAATTTATTTATTT
1 ATAATATATCAAA-TTATAAATAT
19043033 ATAATATATCAAA-TATAAATAT
1 ATAATATATCAAATTATAAATAT
19043055 ATAAT
1 ATAAT
19043060 TAAGATATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 11 0.46
24 13 0.54
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
ATAATATATCAAATTATAAATAT
Found at i:19055807 original size:14 final size:14
Alignment explanation
Indices: 19055788--19055817 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19055778 ACCACAGGAG
19055788 ACCAGTTCTGCAAT
1 ACCAGTTCTGCAAT
*
19055802 ACCAGTTCTGTAAT
1 ACCAGTTCTGCAAT
19055816 AC
1 AC
19055818 TCCAGTCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (14 bp):
ACCAGTTCTGCAAT
Found at i:19065241 original size:18 final size:18
Alignment explanation
Indices: 19065218--19065272 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
19065208 TTGCAAAAGG
19065218 AAAGGGGTTGCAAAGCCT
1 AAAGGGGTTGCAAAGCCT
*
19065236 AAA--GG--GCAAAAG--G
1 AAAGGGGTTGC-AAAGCCT
19065249 AAAGGGGTTGCAAAGCCT
1 AAAGGGGTTGCAAAGCCT
19065267 AAAGGG
1 AAAGGG
19065273 CAAATATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
13 3 0.11
14 2 0.07
15 6 0.21
16 6 0.21
17 2 0.07
18 9 0.32
ACGTcount: A:0.40, C:0.13, G:0.36, T:0.11
Consensus pattern (18 bp):
AAAGGGGTTGCAAAGCCT
Found at i:19065248 original size:31 final size:31
Alignment explanation
Indices: 19065210--19065276 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
19065200 CATCATTGTT
19065210 GCAAAAGGAAAGGGGTTGCAAAGCCTAAAGG
1 GCAAAAGGAAAGGGGTTGCAAAGCCTAAAGG
19065241 GCAAAAGGAAAGGGGTTGCAAAGCCTAAAGG
1 GCAAAAGGAAAGGGGTTGCAAAGCCTAAAGG
19065272 GCAAA
1 GCAAA
19065277 TATTATGTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.43, C:0.13, G:0.34, T:0.09
Consensus pattern (31 bp):
GCAAAAGGAAAGGGGTTGCAAAGCCTAAAGG
Found at i:19069136 original size:22 final size:22
Alignment explanation
Indices: 19069110--19069153 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
19069100 AAACTCCCAT
19069110 TTTCATATTAACTCACCATTGC
1 TTTCATATTAACTCACCATTGC
*
19069132 TTTCATATTAACTCATCATTGC
1 TTTCATATTAACTCACCATTGC
19069154 AACAGTTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (22 bp):
TTTCATATTAACTCACCATTGC
Found at i:19075096 original size:16 final size:16
Alignment explanation
Indices: 19075075--19075113 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19075065 ATCATTAAAA
*
19075075 ATCATCGCAAATCATC
1 ATCATCACAAATCATC
*
19075091 ATCATCATAAATCATC
1 ATCATCACAAATCATC
*
19075107 ATTATCA
1 ATCATCA
19075114 TTGGTTTATC
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:0.41, C:0.26, G:0.03, T:0.31
Consensus pattern (16 bp):
ATCATCACAAATCATC
Found at i:19075114 original size:16 final size:16
Alignment explanation
Indices: 19075083--19075114 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19075073 AAATCATCGC
19075083 AAATCATCATCATCAT
1 AAATCATCATCATCAT
*
19075099 AAATCATCATTATCAT
1 AAATCATCATCATCAT
19075115 TGGTTTATCG
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:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATCATCATCATCAT
Found at i:19086789 original size:11 final size:11
Alignment explanation
Indices: 19086773--19086803 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
19086763 ATGTCTTTAA
19086773 GATTTATTGAT
1 GATTTATTGAT
19086784 GATTTATTGAT
1 GATTTATTGAT
19086795 GA-TTATTGA
1 GATTTATTGA
19086804 ATGGAGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (11 bp):
GATTTATTGAT
Found at i:19092631 original size:7 final size:7
Alignment explanation
Indices: 19092621--19092662 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
19092611 TTTTTTTTAC
19092621 ATTATTA
1 ATTATTA
19092628 ATTATTA
1 ATTATTA
19092635 ATTATTA
1 ATTATTA
*
19092642 TTTATT-
1 ATTATTA
*
19092648 ATTATAA
1 ATTATTA
19092655 ATTTATTA
1 A-TTATTA
19092663 CAATATATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.14
7 20 0.69
8 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTATTA
Found at i:19094751 original size:2 final size:2
Alignment explanation
Indices: 19094746--19094784 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
19094736 TATATGTTCC
19094746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19094785 ACACGTTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19095250 original size:20 final size:20
Alignment explanation
Indices: 19095225--19095263 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19095215 CTATATGAAT
*
19095225 ATTAAAAATTTAAAATTTAC
1 ATTAAAAACTTAAAATTTAC
*
19095245 ATTAAAAACTTAAGATTTA
1 ATTAAAAACTTAAAATTTA
19095264 TACTTATGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (20 bp):
ATTAAAAACTTAAAATTTAC
Found at i:19097028 original size:20 final size:20
Alignment explanation
Indices: 19097003--19097040 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19096993 AGAACAGACC
19097003 TTTCTTGTTGC-TGTTTTCCA
1 TTTCTTGTT-CTTGTTTTCCA
19097023 TTTCTTGTTCTTGTTTTC
1 TTTCTTGTTCTTGTTTTC
19097041 GACACACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.03, C:0.18, G:0.13, T:0.66
Consensus pattern (20 bp):
TTTCTTGTTCTTGTTTTCCA
Found at i:19098703 original size:12 final size:12
Alignment explanation
Indices: 19098686--19098712 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19098676 TCCTTAGACA
19098686 ATGAAGATTGGT
1 ATGAAGATTGGT
19098698 ATGAAGATTGGT
1 ATGAAGATTGGT
19098710 ATG
1 ATG
19098713 TTATTCAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (12 bp):
ATGAAGATTGGT
Found at i:19103106 original size:17 final size:18
Alignment explanation
Indices: 19103084--19103118 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
19103074 TTAATTTTTC
19103084 TTAAAAAA-TAAAAAAAA
1 TTAAAAAACTAAAAAAAA
19103101 TTAAAAAAGCTAAAAAAA
1 TTAAAAAA-CTAAAAAAA
19103119 GGGGAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (18 bp):
TTAAAAAACTAAAAAAAA
Found at i:19105187 original size:21 final size:21
Alignment explanation
Indices: 19105141--19105187 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
19105131 TTTAACTTTG
*
19105141 TGCATTTGCATTATTTCAATTA
1 TGCATTTGCATTA-TTCAATCA
19105163 -GCATTTGCATTA-TCATATCA
1 TGCATTTGCATTATTCA-ATCA
19105183 TGCAT
1 TGCAT
19105188 CATTTTCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 3 0.14
20 3 0.14
21 16 0.73
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.45
Consensus pattern (21 bp):
TGCATTTGCATTATTCAATCA
Found at i:19107996 original size:9 final size:9
Alignment explanation
Indices: 19107968--19108055 Score: 85
Period size: 9 Copynumber: 9.9 Consensus size: 9
19107958 TGGGTGAAAG
19107968 AATGAAAAA
1 AATGAAAAA
*
19107977 AA--AAAAG
1 AATGAAAAA
19107984 AATGAAAAA
1 AATGAAAAA
19107993 AATGAAAAA
1 AATGAAAAA
19108002 AATGAAAAAA
1 AATG-AAAAA
* *
19108012 AAAGGAAAA
1 AATGAAAAA
19108021 AATGAAAAA
1 AATGAAAAA
*
19108030 AA-AAAAAA
1 AATGAAAAA
19108038 ACAT-AAAAA
1 A-ATGAAAAA
19108047 AGATGAAAA
1 A-ATGAAAA
19108056 TGAGAGAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
7 6 0.09
8 6 0.09
9 41 0.63
10 12 0.18
ACGTcount: A:0.80, C:0.01, G:0.11, T:0.08
Consensus pattern (9 bp):
AATGAAAAA
Found at i:19108000 original size:19 final size:17
Alignment explanation
Indices: 19107968--19108071 Score: 88
Period size: 16 Copynumber: 6.0 Consensus size: 17
19107958 TGGGTGAAAG
*
19107968 AATGAAAAAAA-AAAAG
1 AATGAAAAAAAGAAAAA
19107984 AATGAAAAAAATGAAAAA
1 AATGAAAAAAA-GAAAAA
*
19108002 AATGAAAAAAAAAGGAAAA
1 AATG--AAAAAAAGAAAAA
19108021 AATGAAAAAAA-AAAAA
1 AATGAAAAAAAGAAAAA
* **
19108037 AA-CATAAAAAAGATGAA
1 AATGA-AAAAAAGAAAAA
*
19108054 AATGAGAGAAAAGAAAAA
1 AATGA-AAAAAAGAAAAA
19108072 CTCAGATTGA
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
15 1 0.01
16 23 0.33
17 12 0.17
18 18 0.26
19 9 0.13
20 7 0.10
ACGTcount: A:0.78, C:0.01, G:0.13, T:0.08
Consensus pattern (17 bp):
AATGAAAAAAAGAAAAA
Found at i:19109336 original size:21 final size:21
Alignment explanation
Indices: 19109319--19109358 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
19109309 GTCTTGATTC
19109319 TCAAATGAGAATATTTGAGTT
1 TCAAATGAGAATATTTGAGTT
19109340 TCAAATGAGAATATTTGAG
1 TCAAATGAGAATATTTGAG
19109359 GTGTGAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (21 bp):
TCAAATGAGAATATTTGAGTT
Found at i:19109409 original size:20 final size:21
Alignment explanation
Indices: 19109381--19109430 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
19109371 AAATTTGTCG
*
19109381 AATGTGAATCTTCGAA-CTCA
1 AATGAGAATCTTCGAATCTCA
* *
19109401 AATGAGAATCTTTGAATTTCA
1 AATGAGAATCTTCGAATCTCA
19109422 AATGAGAAT
1 AATGAGAAT
19109431 ATTTAAGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (21 bp):
AATGAGAATCTTCGAATCTCA
Found at i:19109452 original size:79 final size:79
Alignment explanation
Indices: 19109318--19109527 Score: 323
Period size: 79 Copynumber: 2.7 Consensus size: 79
19109308 AGTCTTGATT
* * *
19109318 CTCAAATGAGAATATTTGAGTTTCAAATGAGAATATTTGAGGTGTGAAACTCAAAATTTGTCGAA
1 CTCAAATGAGAATATTTGAATTTCAAATGAGAATATTTAAGGTGTGAAACCCAAAATTTGTCGAA
19109383 TGTGAATCTTCGAA
66 TGTGAATCTTCGAA
*
19109397 CTCAAATGAGAATCTTTGAATTTCAAATGAGAATATTTAAGGTGTGAAACCCAAAATTTGTCGAA
1 CTCAAATGAGAATATTTGAATTTCAAATGAGAATATTTAAGGTGTGAAACCCAAAATTTGTCGAA
*
19109462 TGTGAATCTTTGAA
66 TGTGAATCTTCGAA
* * * *
19109476 CTCAAATGAAAATATTT-AAGTTTCAAATAAGGATCTTTAAGGTGTGAAACCC
1 CTCAAATGAGAATATTTGAA-TTTCAAATGAGAATATTTAAGGTGTGAAACCC
19109528 TAATGTTCAT
Statistics
Matches: 120, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
78 2 0.02
79 118 0.98
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.32
Consensus pattern (79 bp):
CTCAAATGAGAATATTTGAATTTCAAATGAGAATATTTAAGGTGTGAAACCCAAAATTTGTCGAA
TGTGAATCTTCGAA
Found at i:19109544 original size:79 final size:78
Alignment explanation
Indices: 19109318--19109554 Score: 307
Period size: 79 Copynumber: 3.0 Consensus size: 78
19109308 AGTCTTGATT
* * *
19109318 CTCAAATGAGAATATTTGAGTTTCAAATGAGAATATTTGAGGTGTGAAACTCAAAATTTGTCGAA
1 CTCAAATGAGAATATTTAAGTTTCAAATGAGAATATTTAAGGTGTGAAAC-CCAAATTTGTCGAA
*
19109383 TGTGAATCTTCGAA
65 TGTGAATCTTTGAA
*
19109397 CTCAAATGAGAATCTTTGAA-TTTCAAATGAGAATATTTAAGGTGTGAAACCCAAAATTTGTCGA
1 CTCAAATGAGAATATTT-AAGTTTCAAATGAGAATATTTAAGGTGTGAAACCC-AAATTTGTCGA
19109461 ATGTGAATCTTTGAA
64 ATGTGAATCTTTGAA
* * * * * * *
19109476 CTCAAATGAAAATATTTAAGTTTCAAATAAGGATCTTTAAGGTGTGAAACCCTAATGTTCATTG-
1 CTCAAATGAGAATATTTAAGTTTCAAATGAGAATATTTAAGGTGTGAAACCCAAAT-TT-GTCGA
19109540 ATGTGAATCTTTGAA
64 ATGTGAATCTTTGAA
19109555 GTAGAATGAA
Statistics
Matches: 140, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
78 6 0.04
79 131 0.94
80 3 0.02
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (78 bp):
CTCAAATGAGAATATTTAAGTTTCAAATGAGAATATTTAAGGTGTGAAACCCAAATTTGTCGAAT
GTGAATCTTTGAA
Found at i:19110043 original size:42 final size:41
Alignment explanation
Indices: 19109935--19110347 Score: 405
Period size: 41 Copynumber: 10.0 Consensus size: 41
19109925 CAATGAGCTT
*
19109935 TTTATTTTTCAAAGTTGTGATGCCTCTGTTTAGAGGAGCAA
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* *
19109976 TTTA-TTTTCAAAGTTGTGGTGCCTTTGTTTAGAGGAGAAA
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
** * *
19110016 TTTATTTTTTCAAAGTTGTAATACCTTTGTTTAGAGGAGCAA
1 TTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* *
19110058 TTTATTTTTTTCAAAGTTGTGGTGCCTTTGTTTAGATGAGCAA
1 TTTA--TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * *
19110101 TTTATTTTTCAAAGTTATGGTGCCTCTATTTAGAGGAGCAT
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * * **
19110142 TTTATTTTTTCAAAGTTGTGTTGTCTCTGTTTAGAAGAATAA
1 TTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * * * * *
19110184 TTTACTTTCCAAAGTTGTGGTGCTTTTTGTTTAGAGGAGTAT
1 TTTATTTTTCAAAGTTGTGGTGC-CTCTGTTTAGAGGAGCAA
* * * *
19110226 TTTATTTTTTCAAAGTTGTGATGCCTCTATTTAGAGGAGTAT
1 TTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * * ** * *
19110268 TTTACTTTCCAAAGTTATGGTGCCTCTGCCTAGAAGAGCAT
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * * * * *
19110309 TTTATTTCTCAAAATCGTTGAGCCTTTGTTTAGAGGAGC
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
19110348 TTTGTTTAAT
Statistics
Matches: 306, Mismatches: 60, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
40 37 0.12
41 110 0.36
42 105 0.34
43 54 0.18
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.44
Consensus pattern (41 bp):
TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
Found at i:19110173 original size:126 final size:126
Alignment explanation
Indices: 19109939--19110347 Score: 443
Period size: 126 Copynumber: 3.3 Consensus size: 126
19109929 GAGCTTTTTA
* * * *
19109939 TTTTTCAAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTA-TTTTCAAAGTTGTGGTGCCTTTG
1 TTTTTCAAAGTTGTGGTGCCTTTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
* * * * *
19110003 TTTAGAGGAGAAATTTATTTTTTCAAAGTTGTAATACCTTTGTTTAGAGGAGCAATTTATT
66 TTTAGAGGAGAATTTTATTTTTTCAAAGTTGTGATGCCTCTGTTTAGAAGAGCAATTTATT
* *
19110064 TTTTTCAAAGTTGTGGTGCCTTTGTTTAGATGAGCAATTTATTTTTCAAAGTTATGGTGCCTCTA
1 TTTTTCAAAGTTGTGGTGCCTTTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
* * * **
19110129 TTTAGAGGAGCATTTTATTTTTTCAAAGTTGTGTTGTCTCTGTTTAGAAGAATAATTTA--
66 TTTAGAGGAGAATTTTATTTTTTCAAAGTTGTGATGCCTCTGTTTAGAAGAGCAATTTATT
* * * * * *
19110188 CTTTCCAAAGTTGTGGTGCTTTTTGTTTAGAGGAGTATTTTATTTTTTCAAAGTTGTGATGCCTC
1 TTTTTCAAAGTTGTGGTGC-CTTTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTTGTGGTGCCTC
* * * * * ** *
19110253 TATTTAGAGGAGTATTTTA-CTTTCCAAAGTTATGGTGCCTCTGCCTAGAAGAGC-ATTT-TA
64 TATTTAGAGGAGAATTTTATTTTTTCAAAGTTGTGATGCCTCTGTTTAGAAGAGCAATTTATT
* * * * *
19110313 TTTCTCAAAATCGTTGAGCCTTTGTTTAGAGGAGC
1 TTTTTCAAAGTTGTGGTGCCTTTGTTTAGAGGAGC
19110348 TTTGTTTAAT
Statistics
Matches: 236, Mismatches: 43, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
124 35 0.15
125 94 0.40
126 107 0.45
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.44
Consensus pattern (126 bp):
TTTTTCAAAGTTGTGGTGCCTTTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
TTTAGAGGAGAATTTTATTTTTTCAAAGTTGTGATGCCTCTGTTTAGAAGAGCAATTTATT
Found at i:19110221 original size:84 final size:83
Alignment explanation
Indices: 19109935--19110315 Score: 408
Period size: 84 Copynumber: 4.6 Consensus size: 83
19109925 CAATGAGCTT
*
19109935 TTTATTTTTCAAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTA--TTTTCAAAGTTGTGGTGC
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGTGC
*
19109998 CTTTGTTTAGAGGAGA-AA
66 CTCTGTTTAGAGGA-ATAA
** * *
19110016 TTTATTTTTTCAAAGTTGTAATACCTTTGTTTAGAGGAGCAATTTATTTTTTTCAAAGTTGTGGT
1 TTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTTCAAAGTTGTGGT
* * **
19110081 GCCTTTGTTTAGATGAGCAA
64 GCCTCTGTTTAGAGGAATAA
* * * * *
19110101 TTTATTTTTCAAAGTTATGGTGCCTCTATTTAGAGGAGCATTTTATTTTTTCAAAGTTGTGTTGT
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGTGC
*
19110166 CTCTGTTTAGAAGAATAA
66 CTCTGTTTAGAGGAATAA
* * * * * * *
19110184 TTTACTTTCCAAAGTTGTGGTGCTTTTTGTTTAGAGGAGTATTTTATTTTTTCAAAGTTGTGATG
1 TTTATTTTTCAAAGTTGTGGTGC-CTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGTG
* * *
19110249 CCTCTATTTAGAGGAGTAT
65 CCTCTGTTTAGAGGAATAA
* * * ** * *
19110268 TTTACTTTCCAAAGTTATGGTGCCTCTGCCTAGAAGAGCATTTTATTT
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTT
19110316 CTCAAAATCG
Statistics
Matches: 256, Mismatches: 38, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
81 4 0.02
82 38 0.15
83 71 0.28
84 106 0.41
85 37 0.14
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (83 bp):
TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGTGC
CTCTGTTTAGAGGAATAA
Found at i:19111167 original size:15 final size:15
Alignment explanation
Indices: 19111142--19111180 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
19111132 ATTTATTTTC
*
19111142 AAAACAAAAAAA-AA
1 AAAATAAAAAAATAA
*
19111156 AGAATAAAAAAATAA
1 AAAATAAAAAAATAA
19111171 AAAATAAAAA
1 AAAATAAAAA
19111181 TTTTGAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.87, C:0.03, G:0.03, T:0.08
Consensus pattern (15 bp):
AAAATAAAAAAATAA
Found at i:19117353 original size:12 final size:13
Alignment explanation
Indices: 19117331--19117359 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
19117321 ATTTTTAATT
19117331 AAAAAGCAAAAAA
1 AAAAAGCAAAAAA
19117344 AAAAAG-AAAAAA
1 AAAAAGCAAAAAA
19117356 AAAA
1 AAAA
19117360 GCCTACCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.90, C:0.03, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAGCAAAAAA
Found at i:19117417 original size:18 final size:18
Alignment explanation
Indices: 19117394--19117428 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19117384 TTTATCTAAA
19117394 TTAAAAACAAAAAAATTT
1 TTAAAAACAAAAAAATTT
*
19117412 TTAAAAACCAAAAAATT
1 TTAAAAACAAAAAAATT
19117429 GAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (18 bp):
TTAAAAACAAAAAAATTT
Found at i:19118289 original size:17 final size:17
Alignment explanation
Indices: 19118269--19118316 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
19118259 AAAAAATAAA
19118269 AAAATAAAATAAAAA-GG
1 AAAA-AAAATAAAAATGG
*
19118286 AAAAAAACTCAAAAATGG
1 AAAAAAAAT-AAAAATGG
19118304 -AAAAAAATAAAAA
1 AAAAAAAATAAAAA
19118317 AAGTCAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 9 0.33
17 16 0.59
18 2 0.07
ACGTcount: A:0.77, C:0.04, G:0.08, T:0.10
Consensus pattern (17 bp):
AAAAAAAATAAAAATGG
Found at i:19118300 original size:18 final size:17
Alignment explanation
Indices: 19118252--19118319 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 17
19118242 CCACACATAT
*
19118252 AAAATATAAAAAA-TAAA
1 AAAATA-AAAAAAGGAAA
19118269 AAAATAAAATAAAAAGGAAA
1 AAAAT--AA-AAAAAGGAAA
* *
19118289 AAAACTCAAAAATGGAAA
1 AAAA-TAAAAAAAGGAAA
19118307 AAAATAAAAAAAG
1 AAAATAAAAAAAG
19118320 TCAAAAAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
17 12 0.29
18 14 0.34
19 7 0.17
20 7 0.17
21 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (17 bp):
AAAATAAAAAAAGGAAA
Found at i:19118637 original size:26 final size:25
Alignment explanation
Indices: 19118585--19118634 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
19118575 AACTATTTAT
*
19118585 TAAATAAAAAAAGCAAAAAAGGAAAA
1 TAAAAAAAAAAAG-AAAAAAGGAAAA
19118611 TAAAAAAAAAAAG-AAAAAGGAAAA
1 TAAAAAAAAAAAGAAAAAAGGAAAA
19118635 AATGAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.48
26 12 0.52
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.06
Consensus pattern (25 bp):
TAAAAAAAAAAAGAAAAAAGGAAAA
Found at i:19118734 original size:22 final size:23
Alignment explanation
Indices: 19118690--19118736 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
19118680 ACGTAATAAT
***
19118690 AATATATTAAAAAATATTTATTA
1 AATATATTAAAAAATAAAAATTA
19118713 AATATA-TAAAAAATAAAAATTA
1 AATATATTAAAAAATAAAAATTA
19118735 AA
1 AA
19118737 GTTAAAGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AATATATTAAAAAATAAAAATTA
Found at i:19119386 original size:9 final size:9
Alignment explanation
Indices: 19119372--19119415 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
19119362 ACTAAAAAAT
19119372 AAATTATAA
1 AAATTATAA
19119381 AAATTATAA
1 AAATTATAA
19119390 AAATTAT-A
1 AAATTATAA
19119398 AAA-TAT-A
1 AAATTATAA
19119405 AAA-TATAA
1 AAATTATAA
19119413 AAA
1 AAA
19119416 ATAAAGAGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 10 0.29
8 8 0.24
9 16 0.47
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAATTATAA
Found at i:19119404 original size:16 final size:16
Alignment explanation
Indices: 19119372--19119420 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 16
19119362 ACTAAAAAAT
19119372 AAATTATAAAAATTATAA
1 AAATTAT-AAAA-TATAA
19119390 AAATTATAAAATAT-A
1 AAATTATAAAATATAA
*
19119405 AAA-TATAAAAAATAA
1 AAATTATAAAATATAA
19119420 A
1 A
19119421 GAGACTCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 9 0.31
15 6 0.21
16 3 0.10
17 4 0.14
18 7 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATTATAAAATATAA
Found at i:19119414 original size:7 final size:7
Alignment explanation
Indices: 19119364--19119420 Score: 51
Period size: 7 Copynumber: 7.6 Consensus size: 7
19119354 TGAGTCTCAC
*
19119364 TAAAAAA
1 TAAAATA
*
19119371 TAAATTA
1 TAAAATA
19119378 TAAAAATTA
1 T-AAAA-TA
19119387 TAAAAATTA
1 T-AAAA-TA
19119396 TAAAATA
1 TAAAATA
19119403 TAAAATA
1 TAAAATA
*
19119410 TAAAAAA
1 TAAAATA
19119417 TAAA
1 TAAA
19119421 GAGACTCCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
7 25 0.57
8 7 0.16
9 12 0.27
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAAATA
Found at i:19121696 original size:44 final size:44
Alignment explanation
Indices: 19121633--19121734 Score: 186
Period size: 44 Copynumber: 2.3 Consensus size: 44
19121623 TTATTTCAAT
*
19121633 TAGCAACAAAATATTTCGTTTTGTTCTGGTCAGAGTCTCAGAGA
1 TAGCAACAAAATATGTCGTTTTGTTCTGGTCAGAGTCTCAGAGA
*
19121677 TAGCAACAAAATCTGTCGTTTTGTTCTGGTCAGAGTCTCAGAGA
1 TAGCAACAAAATATGTCGTTTTGTTCTGGTCAGAGTCTCAGAGA
19121721 TAGCAACAAAATAT
1 TAGCAACAAAATAT
19121735 TTCTGCCTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (44 bp):
TAGCAACAAAATATGTCGTTTTGTTCTGGTCAGAGTCTCAGAGA
Found at i:19126915 original size:2 final size:2
Alignment explanation
Indices: 19126908--19126937 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19126898 TGATATCTTT
*
19126908 TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19126938 AGAAAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19128854 original size:52 final size:52
Alignment explanation
Indices: 19128771--19128875 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
19128761 GTAGTAAAAA
* * *
19128771 TAGTCATACTGAAAGATTTATTTATAATAAATGAACAGATATAAATTTTTAT
1 TAGTCATACTGAAAGATTTATTTATAATAAATAAACAAATATAAATTTCTAT
* *
19128823 TAGTTATACTGAAAGATTTATTTATAATAAATAAATAAATATAAATTTCTAT
1 TAGTCATACTGAAAGATTTATTTATAATAAATAAACAAATATAAATTTCTAT
19128875 T
1 T
19128876 CAGATGATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.42
Consensus pattern (52 bp):
TAGTCATACTGAAAGATTTATTTATAATAAATAAACAAATATAAATTTCTAT
Found at i:19133795 original size:6 final size:6
Alignment explanation
Indices: 19133784--19133811 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19133774 GCTCAAGCAG
19133784 CAACGC CAACGC CAACGC CAACGC CAAC
1 CAACGC CAACGC CAACGC CAACGC CAAC
19133812 CATCGCAAAG
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:0.50, G:0.14, T:0.00
Consensus pattern (6 bp):
CAACGC
Found at i:19141549 original size:26 final size:24
Alignment explanation
Indices: 19141502--19141580 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
19141492 AATTTTGATG
**
19141502 AAATTAAAAATAATAATAAAATTA
1 AAATTAATTATAATAATAAAATTA
*
19141526 AAATTAATTATTAAGTAATGAAATT-
1 AAATTAATTA-TAA-TAATAAAATTA
19141551 AAA-T-ATTATAATAATAAAATTA
1 AAATTAATTATAATAATAAAATTA
*
19141573 AATTTAAT
1 AAATTAAT
19141581 AGTAAGATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
21 9 0.20
22 5 0.11
23 5 0.11
24 11 0.24
25 6 0.13
26 9 0.20
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (24 bp):
AAATTAATTATAATAATAAAATTA
Found at i:19141550 original size:44 final size:45
Alignment explanation
Indices: 19141499--19141612 Score: 133
Period size: 47 Copynumber: 2.4 Consensus size: 45
19141489 ATTAATTTTG
*
19141499 ATGAAATTAAAAATAATAATAAAATTAAAATTAATTATTAAG-TA-
1 ATGAAATTAAAAATAATAATAAAATTAAAATTAA-TAGTAAGATAT
*
19141543 ATGAAATTAAATATTATAATAATAAAATTAAATTTAATAGTAAGATAT
1 ATGAAATTAAA-A--ATAATAATAAAATTAAAATTAATAGTAAGATAT
*
19141591 ATATAAATATAAAAATAATAAT
1 AT-GAAAT-TAAAAATAATAAT
19141613 TATGATGAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
44 11 0.18
45 1 0.02
46 6 0.10
47 31 0.52
48 2 0.03
49 5 0.08
50 4 0.07
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (45 bp):
ATGAAATTAAAAATAATAATAAAATTAAAATTAATAGTAAGATAT
Found at i:19141570 original size:21 final size:22
Alignment explanation
Indices: 19141511--19141575 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 22
19141501 GAAATTAAAA
19141511 ATAATAATAAAATTAAAATTAATT
1 ATAATAATAAAATT-AAA-TAATT
*
19141535 ATTAAGTAATGAAATTAAAT-ATT
1 A-TAA-TAATAAAATTAAATAATT
19141558 ATAATAATAAAATTAAAT
1 ATAATAATAAAATTAAAT
19141576 TTAATAGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
21 13 0.35
22 3 0.08
23 4 0.11
24 2 0.05
25 6 0.16
26 9 0.24
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (22 bp):
ATAATAATAAAATTAAATAATT
Found at i:19144009 original size:20 final size:20
Alignment explanation
Indices: 19143960--19144009 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
19143950 TTTTCTCAGA
19143960 TTTTCACTTTTTTTTCTCTC
1 TTTTCACTTTTTTTTCTCTC
* *
19143980 TCTTCCCTTTTCTTTTCTCT-
1 TTTTCACTTTT-TTTTCTCTC
*
19144000 TTTTCTCTTT
1 TTTTCACTTT
19144010 CTAAAAACTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTCACTTTTTTTTCTCTC
Found at i:19144192 original size:30 final size:31
Alignment explanation
Indices: 19144139--19144199 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
19144129 TTCTGGGATG
19144139 CTTGCAAAAAAATTCAACCGACACCAGAAAA
1 CTTGCAAAAAAATTCAACCGACACCAGAAAA
* *
19144170 CTTGCCAAAAAATT-AACTGACACCAGAAAA
1 CTTGCAAAAAAATTCAACCGACACCAGAAAA
19144200 TTTTATAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.51, C:0.25, G:0.10, T:0.15
Consensus pattern (31 bp):
CTTGCAAAAAAATTCAACCGACACCAGAAAA
Found at i:19144773 original size:37 final size:38
Alignment explanation
Indices: 19144709--19144904 Score: 151
Period size: 40 Copynumber: 4.9 Consensus size: 38
19144699 AGGTTCAATG
* *
19144709 ACTTTGAGAAAAATAAATGCTCTTCTAAACAAAGGCACA-
1 ACTTTG-GAAATA-AAATGCTCATCTAAACAAAGGCACAC
*
19144748 ACTTTGGAAATAAAATGTTCATCTAAACAAAGGCACCAC
1 ACTTTGGAAATAAAATGCTCATCTAAACAAAGGCA-CAC
* *
19144787 ACCTTTGGAAATAAAATGCTCATCTAAACAAAAGCACCATG
1 A-CTTTGGAAATAAAATGCTCATCTAAACAAAGGCA-CA-C
* * * * * * *
19144828 ACTTTGAAAAATAAATTGTTCTTTTAAATAGAGGCACCAC
1 ACTTTG-GAAATAAAATGCTCATCTAAACAAAGGCA-CAC
* * * * *
19144868 AACTTTGAAAAAAAAATGCTCTTCTAAATAGAGGCAC
1 -ACTTTGGAAATAAAATGCTCATCTAAACAAAGGCAC
19144905 CACCATTTTT
Statistics
Matches: 132, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
37 21 0.16
38 7 0.05
39 8 0.06
40 65 0.49
41 31 0.23
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (38 bp):
ACTTTGGAAATAAAATGCTCATCTAAACAAAGGCACAC
Found at i:19144865 original size:41 final size:41
Alignment explanation
Indices: 19144820--19145071 Score: 260
Period size: 41 Copynumber: 6.1 Consensus size: 41
19144810 CTAAACAAAA
* ** *
19144820 GCACCATGACTTTGAAAAATAAATTGTTCTTTTAAATAGAG
1 GCACCACGACTTTGAAAAATAAATTACTCTTCTAAATAGAG
* * *
19144861 GCACCACAACTTTGAAAAA-AAAATGCTCTTCTAAATAGAG
1 GCACCACGACTTTGAAAAATAAATTACTCTTCTAAATAGAG
* * * *
19144901 GCACCACCATTTTTGAAAAATAAATTACTCCTT-TAAACAGAA
1 GCACCACGA-CTTTGAAAAATAAATTACT-CTTCTAAATAGAG
* * * *
19144943 GCACTACAACTTTGAAAAATAAATTACTCATCTAAACAGAG
1 GCACCACGACTTTGAAAAATAAATTACTCTTCTAAATAGAG
19144984 TG-ACCACGACTTTGAAAAATAAATTACT-TCTCTAAATAGAG
1 -GCACCACGACTTTGAAAAATAAATTACTCT-TCTAAATAGAG
* * * * *
19145025 GCACCATGACTTTAAAAAATAAATTACTCCTCTAAACAAAG
1 GCACCACGACTTTGAAAAATAAATTACTCTTCTAAATAGAG
19145066 GCACCA
1 GCACCA
19145072 TAAATTTTAA
Statistics
Matches: 178, Mismatches: 25, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
40 29 0.16
41 125 0.70
42 21 0.12
43 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (41 bp):
GCACCACGACTTTGAAAAATAAATTACTCTTCTAAATAGAG
Found at i:19145072 original size:41 final size:41
Alignment explanation
Indices: 19144708--19145089 Score: 230
Period size: 41 Copynumber: 9.4 Consensus size: 41
19144698 GAGGTTCAAT
*
19144708 GACTTTGAGAAAAATAAA-TGCTCTTCTAAACAAAGGCA-CA-
1 GACTTT-A-AAAAATAAATTGCTCATCTAAACAAAGGCACCAC
** * *
19144748 -ACTTT-GGAAATAAAATGTTCATCTAAACAAAGGCACCAC
1 GACTTTAAAAAATAAATTGCTCATCTAAACAAAGGCACCAC
** * * *
19144787 -ACCTTT-GGAAATAAAATGCTCATCTAAACAAAAGCACCAT
1 GA-CTTTAAAAAATAAATTGCTCATCTAAACAAAGGCACCAC
* * * * * *
19144827 GACTTTGAAAAATAAATTGTTCTTTTAAATAGAGGCACCAC
1 GACTTTAAAAAATAAATTGCTCATCTAAACAAAGGCACCAC
* * * *
19144868 AACTTTGAAAAAA-AAA-TGCTCTTCTAAATAGAGGCACCAC
1 GACTTT-AAAAAATAAATTGCTCATCTAAACAAAGGCACCAC
* * * * * * *
19144908 CATTTTTGAAAAATAAATTACTCCTTTAAACAGAA-GCACTAC
1 GA-CTTTAAAAAATAAATTGCTCATCTAAACA-AAGGCACCAC
* * * *
19144950 AACTTTGAAAAATAAATTACTCATCTAAACAGAGTG-ACCAC
1 GACTTTAAAAAATAAATTGCTCATCTAAACAAAG-GCACCAC
* * * * *
19144991 GACTTTGAAAAATAAATTACTTC-TCTAAATAGAGGCACCAT
1 GACTTTAAAAAATAAATTGC-TCATCTAAACAAAGGCACCAC
* * *
19145032 GACTTTAAAAAATAAATTACTCCTCTAAACAAAGGCACCATA
1 GACTTTAAAAAATAAATTGCTCATCTAAACAAAGGCACCA-C
* *
19145074 AATTTTAAAAAATAAA
1 GACTTTAAAAAATAAA
19145090 AATTCCTTAA
Statistics
Matches: 280, Mismatches: 45, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
36 7 0.03
37 18 0.06
38 2 0.01
39 6 0.02
40 71 0.25
41 136 0.49
42 39 0.14
43 1 0.00
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (41 bp):
GACTTTAAAAAATAAATTGCTCATCTAAACAAAGGCACCAC
Found at i:19145084 original size:82 final size:83
Alignment explanation
Indices: 19144778--19145089 Score: 280
Period size: 82 Copynumber: 3.8 Consensus size: 83
19144768 ATCTAAACAA
* ** * * * *
19144778 AGGCACCACACCTTT-GGAAATAAAATGCTCATCTAAACAAAAGCACCATGACTTTG-AAAAATA
1 AGGCACCACAACTTTAAAAAATAAATTACTCATCTAAACAAAGGCACCACGACTTTGAAAAAATA
*
19144841 AATT-GTTCTTTTAAATAG
66 AATTACTTC-TTTAAATAG
* * * * * *
19144859 AGGCACCACAACTTTGAAAAAA-AAA-TGCTCTTCTAAATAGAGGCACCACCATTTTTG-AAAAA
1 AGGCACCACAACTTT-AAAAAATAAATTACTCATCTAAACAAAGGCACCACGA-CTTTGAAAAAA
* *
19144921 TAAATTACTCCTTTAAACAG
64 TAAATTACTTCTTTAAATAG
* * * *
19144941 AAGCACTACAACTTTGAAAAATAAATTACTCATCTAAACAGAGTG-ACCACGACTTTG-AAAAAT
1 AGGCACCACAACTTTAAAAAATAAATTACTCATCTAAACAAAG-GCACCACGACTTTGAAAAAAT
*
19145004 AAATTACTTCTCTAAATAG
65 AAATTACTTCTTTAAATAG
** * ** * *
19145023 AGGCACCATGACTTTAAAAAATAAATTACTCCTCTAAACAAAGGCACCATAAATTTTAAAAAATA
1 AGGCACCACAACTTTAAAAAATAAATTACTCATCTAAACAAAGGCACCACGACTTTGAAAAAATA
19145088 AA
66 AA
19145090 AATTCCTTAA
Statistics
Matches: 187, Mismatches: 35, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
81 40 0.21
82 112 0.60
83 34 0.18
84 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (83 bp):
AGGCACCACAACTTTAAAAAATAAATTACTCATCTAAACAAAGGCACCACGACTTTGAAAAAATA
AATTACTTCTTTAAATAG
Found at i:19145084 original size:123 final size:122
Alignment explanation
Indices: 19144795--19145089 Score: 317
Period size: 123 Copynumber: 2.4 Consensus size: 122
19144785 ACACCTTTGG
* * * * ** * * *
19144795 AAATAAAATGCTCATCTAAACAAAAGCACCATGACTTTGAAAAATAAATTGTTCTTTTAAATAGA
1 AAATAAATTACTCCTCTAAAC-AAAGCACCATAACTTTGAAAAATAAATTACTCATCTAAACAGA
* * *
19144860 GGCACCACAACTTTGAAAAAAAAATGCTCTTCTAAATAGAGGCACCACCATTTTTGAA
65 GGCACCACAACTTTGAAAAAAAAATACTCTTCTAAATAGAGGCACCACCATCTTTAAA
* * *
19144918 AAATAAATTACTCCTTTAAACAGAAGCACTACAACTTTGAAAAATAAATTACTCATCTAAACAGA
1 AAATAAATTACTCCTCTAAACA-AAGCACCATAACTTTGAAAAATAAATTACTCATCTAAACAGA
* * **
19144983 GTG-ACCACGACTTTGAAAAATAAATTACT-TCTCTAAATAGAGGCACCATGA-CTTTAAA
65 G-GCACCACAACTTTGAAAAA-AAAATACTCT-TCTAAATAGAGGCACCACCATCTTTAAA
* *
19145041 AAATAAATTACTCCTCTAAACAAAGGCACCATAAATTTTAAAAAATAAA
1 AAATAAATTACTCCTCTAAACAAA-GCACCAT-AACTTTGAAAAATAAA
19145090 AATTCCTTAA
Statistics
Matches: 142, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
122 3 0.02
123 100 0.70
124 39 0.27
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.26
Consensus pattern (122 bp):
AAATAAATTACTCCTCTAAACAAAGCACCATAACTTTGAAAAATAAATTACTCATCTAAACAGAG
GCACCACAACTTTGAAAAAAAAATACTCTTCTAAATAGAGGCACCACCATCTTTAAA
Found at i:19145466 original size:20 final size:20
Alignment explanation
Indices: 19145428--19145466 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19145418 TCACATCCAA
*
19145428 AAGTTCAAAGCTTCTCATTT
1 AAGTTCAAAGCTTCACATTT
* *
19145448 AAGTTTAAAGGTTCACATT
1 AAGTTCAAAGCTTCACATT
19145467 CAACAAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (20 bp):
AAGTTCAAAGCTTCACATTT
Found at i:19145496 original size:110 final size:111
Alignment explanation
Indices: 19145296--19145496 Score: 264
Period size: 110 Copynumber: 1.8 Consensus size: 111
19145286 CTATCATTCA
* * * *
19145296 AATTTTGGAGATTCGCATCCAAAAGTTCAAAACTTCTCATTCGAGTTCAAAGATTCACCCTTGAC
1 AATTTTGGAGATTCACATCCAAAAGTTCAAAACTTCTCATTCAAGTTCAAAGATTCACCATTAAC
*
19145361 AAATTTAAGGTTTCACACCTCCAAAAAGTTTAAGCTTTTTTGTTTG
66 AAATTTAAGGTTCCACACCTCCAAAAAGTTTAAGCTTTTTTGTTTG
* * * *
19145407 AATTTTGGAGA-TCACATCCAAAAGTTCAAAGCTTCTCATTTAAGTTTAAAGGTTCA-CATTCAA
1 AATTTTGGAGATTCACATCCAAAAGTTCAAAACTTCTCATTCAAGTTCAAAGATTCACCATT-AA
* *
19145470 CAAATTTTAGGGTTCCATACCT-CAAAA
65 CAAA-TTTAAGGTTCCACACCTCCAAAA
19145497 TTCTCATTTG
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
109 3 0.04
110 49 0.64
111 25 0.32
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (111 bp):
AATTTTGGAGATTCACATCCAAAAGTTCAAAACTTCTCATTCAAGTTCAAAGATTCACCATTAAC
AAATTTAAGGTTCCACACCTCCAAAAAGTTTAAGCTTTTTTGTTTG
Found at i:19145569 original size:46 final size:46
Alignment explanation
Indices: 19145516--19145811 Score: 407
Period size: 46 Copynumber: 6.4 Consensus size: 46
19145506 GAAACCCAAA
**
19145516 ACTCAAAGATTCTCATTTGAAAATATCTTAAAGATTCTTATTTAAG
1 ACTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTTATTTAAG
*
19145562 ACTCAAAGGTTCTCATTTGAAAACGTCTTAAAGATTCTTATTTAAG
1 ACTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTTATTTAAG
*
19145608 ACTCAAAGGTTCTCATTTGAAAACGTCTTAAAGATTCTTATTTAAG
1 ACTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTTATTTAAG
* * * *
19145654 ACTCAAAGGTTCTTATTTGAAAACATATTAAAGATT-TTCATTTAAG
1 ACTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTT-ATTTAAG
* *
19145700 ACTCAAAGATTCTTATTTGAAAACGTCTTAAAGATTCTCATTTCAA-
1 ACTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTTATTT-AAG
* * *
19145746 ACTCAAAGATTTTCATTTGAAAATGTCTTAAAGATTCTCATTTAAG
1 ACTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTTATTTAAG
* * * *
19145792 ATTAAAAAATTCTCACTTGA
1 ACTCAAAGATTCTCATTTGA
19145812 GAATTCATAA
Statistics
Matches: 228, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
45 4 0.02
46 221 0.97
47 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (46 bp):
ACTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTTATTTAAG
Found at i:19145574 original size:21 final size:21
Alignment explanation
Indices: 19145545--19145756 Score: 149
Period size: 21 Copynumber: 9.3 Consensus size: 21
19145535 AAAATATCTT
19145545 AAAGATTCTTATTTAAGACTC
1 AAAGATTCTTATTTAAGACTC
* * *
19145566 AAAGGTTCTCATTTGAAAACGTC
1 AAAGATTCTTATTT-AAGAC-TC
19145589 TTAAAGATTCTTATTTAAGACTC
1 --AAAGATTCTTATTTAAGACTC
* * *
19145612 AAAGGTTCTCATTTGAAAACGTC
1 AAAGATTCTTATTT-AAGAC-TC
19145635 TTAAAGATTCTTATTTAAGACTC
1 --AAAGATTCTTATTTAAGACTC
* * *
19145658 AAAGGTTCTTATTTGAAAACATATT
1 AAAGATTCTTATTT-AAGAC---TC
19145683 AAAGATT-TTCATTTAAGACTC
1 AAAGATTCTT-ATTTAAGACTC
*
19145704 AAAGATTCTTATTTGAAAACGTC
1 AAAGATTCTTATTT-AAGAC-TC
*
19145727 TTAAAGATTCTCATTTCAA-ACTC
1 --AAAGATTCTTATTT-AAGACTC
19145750 AAAGATT
1 AAAGATT
19145757 TTCATTTGAA
Statistics
Matches: 152, Mismatches: 21, Indels: 36
0.73 0.10 0.17
Matches are distributed among these distances:
21 56 0.37
22 18 0.12
23 12 0.08
24 16 0.11
25 50 0.33
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (21 bp):
AAAGATTCTTATTTAAGACTC
Found at i:19151571 original size:12 final size:13
Alignment explanation
Indices: 19151543--19151596 Score: 60
Period size: 12 Copynumber: 4.3 Consensus size: 13
19151533 ATCATGAAAA
19151543 AAAATAC-TAAGA-
1 AAAATACATAA-AT
*
19151555 AAAAAACATAAAT
1 AAAATACATAAAT
19151568 AAAATAC-TAAAT
1 AAAATACATAAAT
*
19151580 AAAATAAATAAAT
1 AAAATACATAAAT
19151593 AAAA
1 AAAA
19151597 CTAAAAAACG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
12 18 0.50
13 18 0.50
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.19
Consensus pattern (13 bp):
AAAATACATAAAT
Found at i:19151577 original size:25 final size:25
Alignment explanation
Indices: 19151543--19151596 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
19151533 ATCATGAAAA
19151543 AAAATACTAAGA-AAAA-AACATAAAT
1 AAAATACTAA-ATAAAATAA-ATAAAT
19151568 AAAATACTAAATAAAATAAATAAAT
1 AAAATACTAAATAAAATAAATAAAT
19151593 AAAA
1 AAAA
19151597 CTAAAAAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 1 0.04
25 24 0.89
26 2 0.07
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.19
Consensus pattern (25 bp):
AAAATACTAAATAAAATAAATAAAT
Found at i:19155458 original size:15 final size:15
Alignment explanation
Indices: 19155417--19155460 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19155407 AGACTTCATT
19155417 TTAATAAACAATAAAA
1 TTAA-AAACAATAAAA
***
19155433 TTAATCTCAATAAAA
1 TTAAAAACAATAAAA
19155448 TTAAAAACAATAA
1 TTAAAAACAATAA
19155461 TAAAATTTAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (15 bp):
TTAAAAACAATAAAA
Found at i:19155478 original size:28 final size:27
Alignment explanation
Indices: 19155446--19155500 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
19155436 ATCTCAATAA
*
19155446 AATTAAAAACAATAATAAAATTTATTAT
1 AATTAAAAACAATAA-AAAATATATTAT
* * *
19155474 AATTATAATCGATAAAAAATATATTAT
1 AATTAAAAACAATAAAAAATATATTAT
19155501 TATTGCAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (27 bp):
AATTAAAAACAATAAAAAATATATTAT
Found at i:19155539 original size:27 final size:26
Alignment explanation
Indices: 19155508--19155568 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 26
19155498 TATTATTGCA
19155508 ATTAAATAAATTTTATGAAAATTTTAT
1 ATTAAATAAATTTTATGAAAA-TTTAT
*
19155535 ATTAAATAAATTTTATTAAAATTTAT
1 ATTAAATAAATTTTATGAAAATTTAT
19155561 ATTTAAAT
1 A-TTAAAT
19155569 TTAATTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
ATTAAATAAATTTTATGAAAATTTAT
Found at i:19156742 original size:21 final size:20
Alignment explanation
Indices: 19156718--19156756 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
19156708 ATATTTTTTT
19156718 TCATATAAATAAATCAAATCA
1 TCATATAAATAAAT-AAATCA
* *
19156739 TCATGTTAATAAATAAAT
1 TCATATAAATAAATAAAT
19156757 ATTAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (20 bp):
TCATATAAATAAATAAATCA
Found at i:19171351 original size:1 final size:1
Alignment explanation
Indices: 19171336--19171369 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
19171326 AGCAGACGGT
* *
19171336 AAAAAAGAAACAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19171370 CTCCAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:19172936 original size:23 final size:23
Alignment explanation
Indices: 19172910--19172955 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19172900 TATGAATAAA
*
19172910 AAATTATACATATAT-AAATATTT
1 AAATT-TAAATATATGAAATATTT
*
19172933 AAATTTAAATTTATGAAATATTT
1 AAATTTAAATATATGAAATATTT
19172956 TTTATTCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
AAATTTAAATATATGAAATATTT
Found at i:19173048 original size:58 final size:58
Alignment explanation
Indices: 19172908--19173032 Score: 173
Period size: 58 Copynumber: 2.2 Consensus size: 58
19172898 TGTATGAATA
* * ***
19172908 AAAAATTATACATATATAAATATTTAAATTTAAATTTATGAAATATTTTTTATTCGAT
1 AAAAATTATACATATATAAAAATTTAAATTTAAATTTATAAAATATTTTTTATAAAAT
*
19172966 AAAAATTATATATATATAAAAATTTAAATTTAAATTTATAAAA-ATATTTTTATAAAAT
1 AAAAATTATACATATATAAAAATTTAAATTTAAATTTATAAAATAT-TTTTTATAAAAT
19173024 -AAAATTATA
1 AAAAATTATA
19173033 ACATTTTATG
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
57 11 0.18
58 49 0.82
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (58 bp):
AAAAATTATACATATATAAAAATTTAAATTTAAATTTATAAAATATTTTTTATAAAAT
Found at i:19180239 original size:18 final size:18
Alignment explanation
Indices: 19180216--19180252 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19180206 AGGAAAGTTA
* *
19180216 AAAAAATTTTATTTTTAT
1 AAAAAATATTATATTTAT
19180234 AAAAAATATTATATTTAT
1 AAAAAATATTATATTTAT
19180252 A
1 A
19180253 TTTTTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAAAAATATTATATTTAT
Found at i:19180404 original size:29 final size:29
Alignment explanation
Indices: 19180372--19180446 Score: 68
Period size: 29 Copynumber: 2.6 Consensus size: 29
19180362 TTTAAGTCTT
*
19180372 AATAATAAAATAAATCAAATT-ATTATCAA
1 AATAATAAAATAAATCAAATTAAATAT-AA
* *
19180401 AATAAATTAAA-AAATTAAATTAAATATAA
1 AAT-AATAAAATAAATCAAATTAAATATAA
19180430 AAT--TAATAATAAATCAA
1 AATAATAA-AATAAATCAA
19180447 TAATTAACTA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 6 0.16
29 17 0.46
30 10 0.27
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (29 bp):
AATAATAAAATAAATCAAATTAAATATAA
Found at i:19180417 original size:21 final size:21
Alignment explanation
Indices: 19180378--19180417 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19180368 TCTTAATAAT
**
19180378 AAAATAAATCAAATTATTATC
1 AAAATAAATCAAAAAATTATC
*
19180399 AAAATAAATTAAAAAATTA
1 AAAATAAATCAAAAAATTA
19180418 AATTAAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATAAATCAAAAAATTATC
Found at i:19180442 original size:18 final size:17
Alignment explanation
Indices: 19180399--19180453 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
19180389 AATTATTATC
19180399 AAAATAAATTAAAAAATT
1 AAAATAAA-TAAAAAATT
* *
19180417 AAATTAAATATAAAATT
1 AAAATAAATAAAAAATT
* *
19180434 AATAATAAATCAATAATT
1 AA-AATAAATAAAAAATT
19180452 AA
1 AA
19180454 CTAATATATT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
17 10 0.33
18 20 0.67
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATAAATAAAAAATT
Found at i:19190173 original size:3 final size:3
Alignment explanation
Indices: 19190165--19190200 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
19190155 GCTTCAGCTT
*
19190165 TTG TTG TTG TTG TTG TTG TTG TTG TTAT TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT-G TTG TTG TT
19190201 TGAATGTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 28 0.93
4 2 0.07
ACGTcount: A:0.03, C:0.00, G:0.28, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:19195397 original size:20 final size:20
Alignment explanation
Indices: 19195372--19195416 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
19195362 AAGTGTGTGA
19195372 GATTCTACTTACCTCTTTTC
1 GATTCTACTTACCTCTTTTC
19195392 GATTCTACTTACCTCTTTTC
1 GATTCTACTTACCTCTTTTC
19195412 GATTC
1 GATTC
19195417 CACCACTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.16, C:0.29, G:0.07, T:0.49
Consensus pattern (20 bp):
GATTCTACTTACCTCTTTTC
Found at i:19198115 original size:28 final size:27
Alignment explanation
Indices: 19198081--19198161 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 27
19198071 ACAAAATCAT
* *
19198081 CACTTGTAAGATTTCAACCAATCTTTTG
1 CACTTGTAA-ATTTCAAACAATCATTTG
* * *
19198109 CCCTTGTAAAATTCAAATAATCATTTG
1 CACTTGTAAATTTCAAACAATCATTTG
19198136 CACTTGTAAAATTTCAAACAATCATT
1 CACTTGT-AAATTTCAAACAATCATT
19198162 CTTAACCAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 20 0.45
28 24 0.55
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (27 bp):
CACTTGTAAATTTCAAACAATCATTTG
Found at i:19198130 original size:27 final size:28
Alignment explanation
Indices: 19198081--19198161 Score: 110
Period size: 27 Copynumber: 2.9 Consensus size: 28
19198071 ACAAAATCAT
* * *
19198081 CACTTGTAAGATTTCAACCAATCTTTTG
1 CACTTGTAAAATTTCAAACAATCATTTG
* *
19198109 CCCTTGTAAAA-TTCAAATAATCATTTG
1 CACTTGTAAAATTTCAAACAATCATTTG
19198136 CACTTGTAAAATTTCAAACAATCATT
1 CACTTGTAAAATTTCAAACAATCATT
19198162 CTTAACCAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 23 0.51
28 22 0.49
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (28 bp):
CACTTGTAAAATTTCAAACAATCATTTG
Found at i:19208151 original size:2 final size:2
Alignment explanation
Indices: 19208146--19208172 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19208136 TGTGTGTGTG
19208146 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 T
19208173 CTCAACTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19211439 original size:22 final size:22
Alignment explanation
Indices: 19211412--19211454 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19211402 AAATTTCATA
19211412 AGAGATTTATTTGAAATTTGTT
1 AGAGATTTATTTGAAATTTGTT
*
19211434 AGAGATTTATTTGAGATTTGT
1 AGAGATTTATTTGAAATTTGT
19211455 CAGATATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (22 bp):
AGAGATTTATTTGAAATTTGTT
Found at i:19211621 original size:52 final size:50
Alignment explanation
Indices: 19211482--19211622 Score: 158
Period size: 51 Copynumber: 2.7 Consensus size: 50
19211472 ATAAGAAGAT
** *
19211482 TTACAAAAAAAAATTTTAAGAGAAAAATAATTCTTAATAGGTAAATTTGAC
1 TTACAAAAAAAAATTTTAAGAG-AAAAGGATTCTTAATAAGTAAATTTGAC
** * *
19211533 TTACAAAAAAAAAAATTAAAATGAAAAGGATTCTTAATAAGTAAGTTTGAC
1 TTACAAAAAAAAATTTTAAGA-GAAAAGGATTCTTAATAAGTAAATTTGAC
*
19211584 TTATAAGAAAAAAATTTTAAGAGGAGAAA-GATTCTTAAT
1 TTACAA-AAAAAAATTTTAAGA-GA-AAAGGATTCTTAAT
19211623 GGACAAATTT
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
51 47 0.63
52 25 0.33
53 3 0.04
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (50 bp):
TTACAAAAAAAAATTTTAAGAGAAAAGGATTCTTAATAAGTAAATTTGAC
Found at i:19212077 original size:12 final size:12
Alignment explanation
Indices: 19212040--19212081 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
19212030 TCGAATCATA
*
19212040 TTAAATTATTAT
1 TTAATTTATTAT
19212052 TT--TTTATATAT
1 TTAATTTAT-TAT
19212063 TTAATTTATTAT
1 TTAATTTATTAT
19212075 TTAATTT
1 TTAATTT
19212082 TACTTTCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 4 0.15
11 5 0.19
12 12 0.46
13 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTAATTTATTAT
Found at i:19213791 original size:3 final size:3
Alignment explanation
Indices: 19213776--19213810 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
19213766 TGAAAGTCTT
* *
19213776 TAA TAA TAG TAA TAA TAA AAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
19213811 TTAGCCGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:19227618 original size:16 final size:16
Alignment explanation
Indices: 19227599--19227663 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
19227589 CCAGAAGGCA
19227599 CAGAAGGCAAAGAAAT
1 CAGAAGGCAAAGAAAT
* *
19227615 CAG-ATGCAAAGCAAT
1 CAGAAGGCAAAGAAAT
*
19227630 CAAGAA-GCAGAAGAAAC
1 C-AGAAGGCA-AAGAAAT
*
19227647 CAGAAGGCAAAGCAAT
1 CAGAAGGCAAAGAAAT
19227663 C
1 C
19227664 TACAAGCATG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
15 11 0.28
16 18 0.46
17 10 0.26
ACGTcount: A:0.52, C:0.18, G:0.23, T:0.06
Consensus pattern (16 bp):
CAGAAGGCAAAGAAAT
Found at i:19233001 original size:168 final size:167
Alignment explanation
Indices: 19232724--19233131 Score: 426
Period size: 168 Copynumber: 2.4 Consensus size: 167
19232714 CATTTTTACT
* * * * * *
19232724 CAAAAATCTCATAGTTTTCTCTCGCAAAAAATGTCTCACAAGTTTAAATTTAGATCTTTAAATGT
1 CAAAAATCTCATAGTTTTCTCCCACAAAAAATATCTCACAAATTTAAATTTAGATCTCTAAATAT
* *
19232789 ATATCATAGTAAAACTTCAAATTATTCCGATATGCGACTGGGGTATTACAAAAAATTTGTGGAAA
66 ATATCATAGCAAAACTTCAAATTATTCCGATATGCGACTGGGGTATTACAAAAAATTTATGGAAA
*
19232854 TTCACACGTAATTTAGGAGGTATTGTTTGTTTTAACC
131 CTCACACGTAATTTAGGAGGTATTGTTTGTTTTAACC
*
19232891 CAAAAATCTCATAGTTATT-TCCCACAAAAAGATATCTCACAAATTTAAATTTAGATCTCTACAT
1 CAAAAATCTCATAGTT-TTCTCCCACAAAAA-ATATCTCACAAATTTAAATTTAGATCTCTAAAT
* * * * *
19232955 ATATATTATAGCAAAACTTCATATTA-TCTTGATATGGGATTGGGGTATTACAAAAAATTTATGG
64 ATATATCATAGCAAAACTTCAAATTATTC-CGATATGCGACTGGGGTATTACAAAAAATTTATGG
* ** ** * * * *
19233019 AGACTCACACCCAACCTATGAGGTATTGTTCGCTTTAACT
128 AAACTCACACGTAATTTAGGAGGTATTGTTTGTTTTAACC
* * * * * * * * * ** * *
19233059 CGAAAGTCTTATTGTTTTGTCTCACAAAAAATACCTCATAAGTTTCGATTTAAATTTC-AACATA
1 CAAAAATCTCATAGTTTTCTCCCACAAAAAATATCTCACAAATTTAAATTTAGATCTCTAA-ATA
19233123 TATATCATA
65 TATATCATA
19233132 ATAGAATCTC
Statistics
Matches: 198, Mismatches: 38, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
166 1 0.01
167 61 0.31
168 136 0.69
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (167 bp):
CAAAAATCTCATAGTTTTCTCCCACAAAAAATATCTCACAAATTTAAATTTAGATCTCTAAATAT
ATATCATAGCAAAACTTCAAATTATTCCGATATGCGACTGGGGTATTACAAAAAATTTATGGAAA
CTCACACGTAATTTAGGAGGTATTGTTTGTTTTAACC
Found at i:19240983 original size:52 final size:52
Alignment explanation
Indices: 19240837--19240985 Score: 164
Period size: 52 Copynumber: 2.9 Consensus size: 52
19240827 ATAACCATAT
* ** * *
19240837 AAACTTATCC-ATTAAGAATCAAT-TTTCTCTTAGAATTCTTCTCCTGTAAGTC
1 AAACTTA-CCTATTAAGAATC-TTCTTTCTCTTAGAATTCTTCTTTTGCAAATC
*
19240889 AAACTTGA-CTATTAAGAA--TTCATTTCTTTTTAGAATTCTTCTTTTGCAAATC
1 AAACTT-ACCTATTAAGAATCTTC-TTTC-TCTTAGAATTCTTCTTTTGCAAATC
19240941 AAACTTACCTATTAAGAATCTTCTTTCTCTTAGAATTCTTCTTTT
1 AAACTTACCTATTAAGAATCTTCTTTCTCTTAGAATTCTTCTTTT
19240986 ACAAGTCTTC
Statistics
Matches: 82, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
49 1 0.01
51 6 0.07
52 67 0.82
53 5 0.06
54 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.45
Consensus pattern (52 bp):
AAACTTACCTATTAAGAATCTTCTTTCTCTTAGAATTCTTCTTTTGCAAATC
Found at i:19241025 original size:11 final size:11
Alignment explanation
Indices: 19241009--19241055 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
19240999 TCCATCCAGC
*
19241009 AATATCTAACA
1 AATATCAAACA
19241020 AATATCAAACA
1 AATATCAAACA
* *
19241031 AATCTCTAACA
1 AATATCAAACA
*
19241042 AATCTCAAACA
1 AATATCAAACA
19241053 AAT
1 AAT
19241056 TTCTTATGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.23
Consensus pattern (11 bp):
AATATCAAACA
Found at i:19241038 original size:22 final size:22
Alignment explanation
Indices: 19241013--19241055 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19241003 TCCAGCAATA
19241013 TCTAACAAATATCAAACAAATC
1 TCTAACAAATATCAAACAAATC
*
19241035 TCTAACAAATCTCAAACAAAT
1 TCTAACAAATATCAAACAAAT
19241056 TTCTTATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (22 bp):
TCTAACAAATATCAAACAAATC
Found at i:19241955 original size:52 final size:52
Alignment explanation
Indices: 19241887--19242042 Score: 172
Period size: 52 Copynumber: 3.0 Consensus size: 52
19241877 ATAACCATAT
* * * * *
19241887 AAACTTGCCCATTAAGAATCCATTTCCTCTTAAAATTCTTCTCA-TATAAGTC
1 AAACTTGCCTATTAAGAATCCATTTCATCTTAGAATTCTTCT-ATTACAAATC
* * *
19241939 AAACTTGCCTATTAAGAATCCATTTCTTTTTAGAATTATTCTATTACAAATC
1 AAACTTGCCTATTAAGAATCCATTTCATCTTAGAATTCTTCTATTACAAATC
* * * *
19241991 AAACTTACCTATTAAGAAT-CATATTTATCTTAGAATTCTTCTTTTATAAATC
1 AAACTTGCCTATTAAGAATCCAT-TTCATCTTAGAATTCTTCTATTACAAATC
19242043 TTTTTGTCCA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
51 4 0.05
52 84 0.95
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.41
Consensus pattern (52 bp):
AAACTTGCCTATTAAGAATCCATTTCATCTTAGAATTCTTCTATTACAAATC
Found at i:19254910 original size:25 final size:26
Alignment explanation
Indices: 19254882--19254946 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
19254872 ACGGGCTTTA
19254882 TCTCTTTCTTTCTTCTCCCGTTT-TT
1 TCTCTTTCTTTCTTCTCCCGTTTCTT
* *
19254907 TCTCTTTC-TTC-TCTCTCTTTTCTT
1 TCTCTTTCTTTCTTCTCCCGTTTCTT
19254931 TCTTCCTTTCTTTCTT
1 TC-T-CTTTCTTTCTT
19254947 GGCCTTCTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
23 8 0.24
24 7 0.21
25 9 0.27
26 5 0.15
27 3 0.09
28 1 0.03
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (26 bp):
TCTCTTTCTTTCTTCTCCCGTTTCTT
Found at i:19258062 original size:38 final size:38
Alignment explanation
Indices: 19258006--19258082 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
19257996 CTGGTTCTCA
*
19258006 AAGCAGATAAAGCCCAAGATAACAATAAAAAGAGAAAC
1 AAGCAGATAAAGCACAAGATAACAATAAAAAGAGAAAC
19258044 AAGCAGATAAAGCACAAGATAACAATAAAAAGAGAAAC
1 AAGCAGATAAAGCACAAGATAACAATAAAAAGAGAAAC
19258082 A
1 A
19258083 TACTTTGGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.62, C:0.14, G:0.16, T:0.08
Consensus pattern (38 bp):
AAGCAGATAAAGCACAAGATAACAATAAAAAGAGAAAC
Found at i:19259354 original size:21 final size:20
Alignment explanation
Indices: 19259317--19259355 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19259307 AACAAATCCT
*
19259317 AAATAAAAATTAAGAAACCC
1 AAATAAAAATGAAGAAACCC
*
19259337 AAATTAAAATGAAGGAAAC
1 AAATAAAAATGAA-GAAAC
19259356 AGATAAACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.64, C:0.10, G:0.10, T:0.15
Consensus pattern (20 bp):
AAATAAAAATGAAGAAACCC
Found at i:19272209 original size:15 final size:15
Alignment explanation
Indices: 19272186--19272238 Score: 88
Period size: 15 Copynumber: 3.5 Consensus size: 15
19272176 TTTGATTTTC
*
19272186 AATTATAATTTGAAT
1 AATTTTAATTTGAAT
19272201 AATTTTAATTTGAAT
1 AATTTTAATTTGAAT
19272216 AATTTTAATTTGAAT
1 AATTTTAATTTGAAT
*
19272231 AAATTTAA
1 AATTTTAA
19272239 AATTATCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (15 bp):
AATTTTAATTTGAAT
Found at i:19272356 original size:2 final size:2
Alignment explanation
Indices: 19272349--19272373 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19272339 AATGTTGTTT
19272349 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 T
19272374 TAGATTTCCT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19280811 original size:31 final size:31
Alignment explanation
Indices: 19280773--19280835 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
19280763 TCTCAGAGAA
19280773 AATGCTATTACACCCGAAACAATATGATGCT
1 AATGCTATTACACCCGAAACAATATGATGCT
*
19280804 AATGCTATTACACCCTAAACAATATGATGCT
1 AATGCTATTACACCCGAAACAATATGATGCT
19280835 A
1 A
19280836 CCACGCCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (31 bp):
AATGCTATTACACCCGAAACAATATGATGCT
Found at i:19286688 original size:12 final size:12
Alignment explanation
Indices: 19286671--19286736 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
19286661 AAATGAATTA
19286671 ATTTATAAATAT
1 ATTTATAAATAT
19286683 ATTTATAAA-AT
1 ATTTATAAATAT
*
19286694 -TATAATTAAATAT
1 AT-TTA-TAAATAT
*
19286707 ATTTACAAATA-
1 ATTTATAAATAT
19286718 A-TTA-AAATAT
1 ATTTATAAATAT
*
19286728 ATTTGTAAA
1 ATTTATAAA
19286737 AAATAAACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
9 5 0.12
10 5 0.12
11 7 0.16
12 21 0.49
13 4 0.09
14 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (12 bp):
ATTTATAAATAT
Found at i:19288097 original size:25 final size:25
Alignment explanation
Indices: 19288062--19288109 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
19288052 ATTTTACTAT
19288062 ATTATAATTTAATATTTAT-TTTTGC
1 ATTATAATTTAAT-TTTATCTTTTGC
*
19288087 ATTATATTTTAATTTTATCTTTT
1 ATTATAATTTAATTTTATCTTTT
19288110 TTTGTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTATAATTTAATTTTATCTTTTGC
Found at i:19303125 original size:8 final size:8
Alignment explanation
Indices: 19303112--19303142 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
19303102 ATACTATCAT
19303112 TTCATTTG
1 TTCATTTG
19303120 TTCATTTG
1 TTCATTTG
19303128 TTCATTTG
1 TTCATTTG
19303136 TTCATTT
1 TTCATTT
19303143 TATTTGGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.65
Consensus pattern (8 bp):
TTCATTTG
Found at i:19313247 original size:35 final size:36
Alignment explanation
Indices: 19313208--19313284 Score: 113
Period size: 35 Copynumber: 2.2 Consensus size: 36
19313198 AGGCACCTGA
19313208 AAATGAAG-AGGAAAGTGAACCAAACTATGTAGAAG
1 AAATGAAGCAGGAAAGTGAACCAAACTATGTAGAAG
** *
19313243 AAATG-AGCTTGTAAGTGAACCAAACTATGTAGAAG
1 AAATGAAGCAGGAAAGTGAACCAAACTATGTAGAAG
19313278 AAATGAA
1 AAATGAA
19313285 CTCGTATCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 2 0.05
35 34 0.92
36 1 0.03
ACGTcount: A:0.49, C:0.09, G:0.23, T:0.18
Consensus pattern (36 bp):
AAATGAAGCAGGAAAGTGAACCAAACTATGTAGAAG
Found at i:19313470 original size:29 final size:29
Alignment explanation
Indices: 19313437--19313501 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
19313427 TAATTATAGC
19313437 AAGCTATTGTAGTTTAATTAGCTAATTGT
1 AAGCTATTGTAGTTTAATTAGCTAATTGT
19313466 AAGCTATTGTAGTTTAATTAGCTAATTGT
1 AAGCTATTGTAGTTTAATTAGCTAATTGT
19313495 AAG-TATT
1 AAGCTATT
19313502 AGTAATTGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.11
29 32 0.89
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (29 bp):
AAGCTATTGTAGTTTAATTAGCTAATTGT
Found at i:19322348 original size:2 final size:2
Alignment explanation
Indices: 19322341--19322373 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
19322331 AGCCATGCAA
*
19322341 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19322374 GGATCATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19326651 original size:18 final size:18
Alignment explanation
Indices: 19326623--19326672 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
19326613 ATCATATTCG
*
19326623 TATTTAAAATTTAAAT-A
1 TATTTATAATTTAAATCA
*
19326640 TATTTTATAATTTATATCA
1 TA-TTTATAATTTAAATCA
*
19326659 TATTTATATTTTAA
1 TATTTATAATTTAA
19326673 TAATTTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 2 0.07
18 22 0.81
19 3 0.11
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTATAATTTAAATCA
Found at i:19326691 original size:25 final size:26
Alignment explanation
Indices: 19326637--19326697 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 26
19326627 TAAAATTTAA
19326637 ATATATTTT-ATAATTTATATCATATT
1 ATATATTTTAATAATTTATAT-ATATT
19326663 -TATATTTTAATAATTTATAT-TATT
1 ATATATTTTAATAATTTATATATATT
*
19326687 ATATATATTAA
1 ATATATTTTAA
19326698 ATATAATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 4 0.12
25 17 0.53
26 11 0.34
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
ATATATTTTAATAATTTATATATATT
Found at i:19326700 original size:26 final size:26
Alignment explanation
Indices: 19326637--19326700 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
19326627 TAAAATTTAA
*
19326637 ATATATTTTATAATTTATATCATATTT
1 ATATATTTAATAATTTATAT-ATATTT
19326664 ATAT-TTTAATAATTTATAT-TATTAT
1 ATATATTTAATAATTTATATATATT-T
*
19326689 ATATATTAAATA
1 ATATATTTAATA
19326701 TAATATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 4 0.12
25 5 0.15
26 20 0.61
27 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
ATATATTTAATAATTTATATATATTT
Found at i:19326706 original size:12 final size:12
Alignment explanation
Indices: 19326686--19326728 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
19326676 TTTATATTAT
*
19326686 TATATATATTAAA
1 TATA-ATATAAAA
19326699 TATAATATAAAA
1 TATAATATAAAA
*
19326711 TATGATATAAAAA
1 TATAATAT-AAAA
19326724 TATAA
1 TATAA
19326729 ATTATATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 14 0.54
13 12 0.46
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
TATAATATAAAA
Found at i:19326727 original size:20 final size:21
Alignment explanation
Indices: 19326702--19326743 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
19326692 TATTAAATAT
19326702 AATATAAA-ATATGATATAAA
1 AATATAAATATATGATATAAA
*
19326722 AATATAAATTATATGATCTAAA
1 AATATAAA-TATATGATATAAA
19326744 TGAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (21 bp):
AATATAAATATATGATATAAA
Found at i:19339940 original size:21 final size:21
Alignment explanation
Indices: 19339889--19339941 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
19339879 AATATGTATT
19339889 ATATT-TAAATTAAATAAATA
1 ATATTATAAATTAAATAAATA
*
19339909 AGT-TTAAAAATATAAA-AAATA
1 A-TATTATAAAT-TAAATAAATA
19339930 ATATTATAAATT
1 ATATTATAAATT
19339942 TTTTGTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 18 0.67
22 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATTATAAATTAAATAAATA
Found at i:19340183 original size:35 final size:36
Alignment explanation
Indices: 19340111--19340185 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
19340101 AAATACTTAT
*
19340111 AATTTTCGGTTTAAAAAAATAAAAAATATAAATATA
1 AATTTTCGGTTTAAAAAAATAAAAAATATAAAAATA
* *
19340147 AATTTT-GGTTTGAAAAAATAAAATAT-TAAAAAATA
1 AATTTTCGGTTTAAAAAAATAAAAAATAT-AAAAATA
19340182 AATT
1 AATT
19340186 AAAATAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
34 1 0.03
35 28 0.80
36 6 0.17
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.35
Consensus pattern (36 bp):
AATTTTCGGTTTAAAAAAATAAAAAATATAAAAATA
Found at i:19340212 original size:17 final size:16
Alignment explanation
Indices: 19340159--19340204 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
19340149 TTTTGGTTTG
* *
19340159 AAAAAATAAA-ATATT
1 AAAAAATAAATAAAAT
19340174 AAAAAATAAATTAAAAT
1 AAAAAATAAA-TAAAAT
19340191 AAAAAATAAA-AAAA
1 AAAAAATAAATAAAA
19340205 CTCAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 14 0.52
17 13 0.48
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAAATAAATAAAAT
Found at i:19348696 original size:2 final size:2
Alignment explanation
Indices: 19348691--19348717 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19348681 TCTCTCTCTC
19348691 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 T
19348718 TCCTACCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19351671 original size:2 final size:2
Alignment explanation
Indices: 19351664--19351694 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19351654 ACCGTATCTT
19351664 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
19351695 TTTAGAGCTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:19353979 original size:30 final size:30
Alignment explanation
Indices: 19353945--19354006 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
19353935 TGTTACTTAC
19353945 ATTCCTCTACTTTTATTGTGCTGCTAATGA
1 ATTCCTCTACTTTTATTGTGCTGCTAATGA
*
19353975 ATTCCTTTACTTTTATTGTGCTGCTAATGA
1 ATTCCTCTACTTTTATTGTGCTGCTAATGA
19354005 AT
1 AT
19354007 GACATTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (30 bp):
ATTCCTCTACTTTTATTGTGCTGCTAATGA
Found at i:19368049 original size:22 final size:22
Alignment explanation
Indices: 19368024--19368071 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
19368014 AATTATAAAA
* *
19368024 ATTTCGAATTAAAATGAATAAT
1 ATTTCGAATCAAAATAAATAAT
*
19368046 ATTTCGTATCAAAATAAATAAT
1 ATTTCGAATCAAAATAAATAAT
19368068 ATTT
1 ATTT
19368072 TATAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (22 bp):
ATTTCGAATCAAAATAAATAAT
Found at i:19372150 original size:2 final size:2
Alignment explanation
Indices: 19372143--19372170 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19372133 TGACAAAAGC
19372143 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19372171 TCATCCTCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19374807 original size:27 final size:21
Alignment explanation
Indices: 19374745--19374795 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
19374735 CTATTAGCAT
19374745 CTGGCTCATCACCAACTGTAG
1 CTGGCTCATCACCAACTGTAG
19374766 CTGGCTCATCACCAACTGTAG
1 CTGGCTCATCACCAACTGTAG
19374787 CTGGCTCAT
1 CTGGCTCAT
19374796 TCATATCCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (21 bp):
CTGGCTCATCACCAACTGTAG
Found at i:19378547 original size:112 final size:112
Alignment explanation
Indices: 19378331--19378562 Score: 367
Period size: 112 Copynumber: 2.1 Consensus size: 112
19378321 CAACAAGAAT
* *
19378331 AACAA-ATCAGAGAGACTGATGTAGAAATAAAGAACATACTAATTAGACCATGAGCCCTTGTTCT
1 AACAACATCAAAGAGACTGATATAGAAATAAAGAACATACTAATTAGACCATGAGCCCTTGTTCT
** * * *
19378395 CTAGCTTTCTTCAGCCACTTAAGGGTAACCACTAATGTTGAGTAAGC
66 CTAGCTTTCTTCAGCCACTTAAGGCCAACCACCAACGTTGAGTAAGA
* *
19378442 AGCAACATCAAAGAGATTGATATAGAAATAAAGAACATACTAATTAGACCATGAGCCCTTGTTCT
1 AACAACATCAAAGAGACTGATATAGAAATAAAGAACATACTAATTAGACCATGAGCCCTTGTTCT
*
19378507 CTAGCTTTCTTCAGCCACTTAAGGCCAACCTCCAACGTTGAGTAAGA
66 CTAGCTTTCTTCAGCCACTTAAGGCCAACCACCAACGTTGAGTAAGA
19378554 AACAACATC
1 AACAACATC
19378563 TGTGGGACTT
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
111 4 0.04
112 105 0.96
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (112 bp):
AACAACATCAAAGAGACTGATATAGAAATAAAGAACATACTAATTAGACCATGAGCCCTTGTTCT
CTAGCTTTCTTCAGCCACTTAAGGCCAACCACCAACGTTGAGTAAGA
Found at i:19379507 original size:19 final size:20
Alignment explanation
Indices: 19379478--19379518 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
19379468 TTAGGCACAT
19379478 GGAGAGATTGGATGAGGTGG
1 GGAGAGATTGGATGAGGTGG
* *
19379498 GGAG-GATTGGGTGTGGTGG
1 GGAGAGATTGGATGAGGTGG
19379517 GG
1 GG
19379519 CGTTGGGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.17, C:0.00, G:0.61, T:0.22
Consensus pattern (20 bp):
GGAGAGATTGGATGAGGTGG
Done.