Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, 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: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 32
Found at i:1251831 original size:74 final size:76
Alignment explanation
Indices: 1251683--1251865 Score: 244
Period size: 75 Copynumber: 2.4 Consensus size: 76
1251673 ACCCCCTTGG
* * ** *
1251683 GGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACAAAAACTGTTTAGGGGGAATCA
1 GGGGGGGATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAACAAAAACCATTCAGGGGGAATCA
1251748 GTTCCTCCTAT
66 GTTCCTCCTAT
* * * *
1251759 -GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGC-CAAACCATTCAGGGGGAATCG
1 GGGGGGGATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAACAAAAACCATTCAGGGGGAATCA
1251822 GTTCCTCCTAT
66 GTTCCTCCTAT
* * *
1251833 GGGGGGGATCGGTTCCCTCTGAACAATCTGGAA
1 GGGGGGGATCGGTTCCCTCCGAGCATTCTGGAA
1251866 TTTTTGGCTT
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
74 27 0.29
75 66 0.71
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (76 bp):
GGGGGGGATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAACAAAAACCATTCAGGGGGAATCA
GTTCCTCCTAT
Found at i:1251863 original size:75 final size:76
Alignment explanation
Indices: 1251661--1251865 Score: 238
Period size: 75 Copynumber: 2.7 Consensus size: 76
1251651 GTTGTACAAG
* * *
1251661 GGGGGAATCGGTACCCCCT-TGGGGGGGGGATCGGTTCCCTCCGAGC-ATACTGGAATTCTCGGA
1 GGGGGAATCGGTTCCTCCTAT--GGGGGGGATCGGTTCCCTCCGAGCAAT-CTGGAAATCTCGGA
** *
1251724 ACAAAAACTGTTTA
63 ACAAAAACCATTCA
* * * *
1251738 GGGGGAATCAGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGC-
1 GGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGAACA
*
1251801 CAAACCATTCA
66 AAAACCATTCA
* *
1251812 GGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCTGAACAATCTGGAA
1 GGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCAATCTGGAA
1251866 TTTTTGGCTT
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
74 27 0.25
75 64 0.59
76 1 0.01
77 16 0.15
78 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.23
Consensus pattern (76 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGAACA
AAAACCATTCA
Found at i:1256503 original size:73 final size:73
Alignment explanation
Indices: 1256416--1256561 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
1256406 CATCCTTGAC
1256416 ATAGTTGTACTCTCTTGGAAAAGATACTTCCCTTTCTTCAATGGTTGGATTCTCGAGGGGATCAT
1 ATAGTTGTACTCTCTTGGAAAAGATACTTCCCTTTCTTCAATGGTTGGATTCTCGAGGGGATCAT
1256481 GAGTTTCT
66 GAGTTTCT
1256489 ATAGTTGTACTCTCTTGGAAAAGATACTTCCCTTTCTTCAATGGTTGGATTCTCGAGGGGATCAT
1 ATAGTTGTACTCTCTTGGAAAAGATACTTCCCTTTCTTCAATGGTTGGATTCTCGAGGGGATCAT
1256554 GAGTTTCT
66 GAGTTTCT
1256562 TCATCTTTTG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (73 bp):
ATAGTTGTACTCTCTTGGAAAAGATACTTCCCTTTCTTCAATGGTTGGATTCTCGAGGGGATCAT
GAGTTTCT
Found at i:1258446 original size:22 final size:21
Alignment explanation
Indices: 1258404--1258443 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1258394 GAGTTTGTTT
*
1258404 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1258425 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1258444 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1260480 original size:75 final size:76
Alignment explanation
Indices: 1260364--1260573 Score: 239
Period size: 75 Copynumber: 2.8 Consensus size: 76
1260354 CCGTTGTACA
* * *
1260364 AGGGGGGAATCGGTACCCCCT-TGGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
1 AGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
** *
1260428 ACAAAAACTGTTT
65 AC-AAAACCATTC
* * *
1260441 A-GGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
*
1260504 CCAAACCATTC
66 CAAAACCATTC
* * *
1260515 AGGGGGGAATCCGTTCCTCCTATGGGGGGGAATCAGTTCCCTCTGAGCA-ATCTGGAATT
1 AGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATA-CTGGAATT
1260574 TTTGGCTTTG
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
74 7 0.06
75 58 0.51
76 17 0.15
77 31 0.27
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.23
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
CAAAACCATTC
Found at i:1269129 original size:162 final size:164
Alignment explanation
Indices: 1268950--1269276 Score: 640
Period size: 162 Copynumber: 2.0 Consensus size: 164
1268940 AAAAGTTTGC
1268950 GGGAGAGACAGAGAGAGCAACTGTCTGTGAAAGGGAGTGCGAATCGGAAAGTGGGAAAGTGGAGA
1 GGGAGAGACAGAGAGAGCAACTGTCTGTGAAAGGGAGTGCGAATCGGAAAGTGGGAAAGTGGAGA
1269015 TTTTAAGTGAAGAGGGAGATTGAAGGAGAGGCAAATATTTCGCTTGCGGTA-TTGATTGTATAGT
66 TTTTAAGTGAAGAGGGAGATTGAAGGAGAGGCAAATATTTCGCTTGCGGTATTTGATTGTATAGT
1269079 AATGGG-TGGCTTTGAGGAGGTGCTGAATGTAAA
131 AATGGGTTGGCTTTGAGGAGGTGCTGAATGTAAA
1269112 GGGAGAGACAGAGAGAGCAACTGTCTGTGAAAGGGAGTGCGAATCGGAAAGTGGGAAAGTGGAGA
1 GGGAGAGACAGAGAGAGCAACTGTCTGTGAAAGGGAGTGCGAATCGGAAAGTGGGAAAGTGGAGA
1269177 TTTTAAGTGAAGAGGGAGATTGAAGGAGAGGCAAATATTTCGCTTGCGGTATTTGATTGTATAGT
66 TTTTAAGTGAAGAGGGAGATTGAAGGAGAGGCAAATATTTCGCTTGCGGTATTTGATTGTATAGT
1269242 AATGGGTTGGCTTTGAGGAGGTGCTGAATGTAAA
131 AATGGGTTGGCTTTGAGGAGGTGCTGAATGTAAA
1269276 G
1 G
1269277 AATAAGTTGG
Statistics
Matches: 163, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
162 116 0.71
163 19 0.12
164 28 0.17
ACGTcount: A:0.31, C:0.07, G:0.38, T:0.24
Consensus pattern (164 bp):
GGGAGAGACAGAGAGAGCAACTGTCTGTGAAAGGGAGTGCGAATCGGAAAGTGGGAAAGTGGAGA
TTTTAAGTGAAGAGGGAGATTGAAGGAGAGGCAAATATTTCGCTTGCGGTATTTGATTGTATAGT
AATGGGTTGGCTTTGAGGAGGTGCTGAATGTAAA
Found at i:1271093 original size:14 final size:14
Alignment explanation
Indices: 1271074--1271103 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1271064 CACCCTAAAC
1271074 CCTAAACTCTTAAT
1 CCTAAACTCTTAAT
*
1271088 CCTAAACTTTTAAT
1 CCTAAACTCTTAAT
1271102 CC
1 CC
1271104 GATTATGTGA
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:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (14 bp):
CCTAAACTCTTAAT
Found at i:1271180 original size:7 final size:7
Alignment explanation
Indices: 1271168--1271251 Score: 53
Period size: 7 Copynumber: 12.0 Consensus size: 7
1271158 GTTAGATTAT
1271168 ACCCTAA
1 ACCCTAA
1271175 ACCCTAA
1 ACCCTAA
**
1271182 ACTATAA
1 ACCCTAA
* *
1271189 ATCTTAA
1 ACCCTAA
1271196 ACCCTAA
1 ACCCTAA
**
1271203 A-TATCAA
1 ACCCT-AA
1271210 ACCCTAA
1 ACCCTAA
* *
1271217 ACCATAC
1 ACCCTAA
1271224 ACCCTAA
1 ACCCTAA
**
1271231 ACTATAA
1 ACCCTAA
1271238 ACCCTAA
1 ACCCTAA
*
1271245 GCCCTAA
1 ACCCTAA
1271252 GTCTTAAACC
Statistics
Matches: 55, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
6 1 0.02
7 53 0.96
8 1 0.02
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.20
Consensus pattern (7 bp):
ACCCTAA
Found at i:1271217 original size:21 final size:21
Alignment explanation
Indices: 1271168--1271219 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1271158 GTTAGATTAT
1271168 ACCCTAAACCCTAAACTATAA
1 ACCCTAAACCCTAAACTATAA
* *
1271189 ATCTTAAACCCTAAA-TATCAA
1 ACCCTAAACCCTAAACTAT-AA
1271210 ACCCTAAACC
1 ACCCTAAACC
1271220 ATACACCCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (21 bp):
ACCCTAAACCCTAAACTATAA
Found at i:1273150 original size:11 final size:11
Alignment explanation
Indices: 1273134--1273176 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
1273124 GTCGTGGAGT
*
1273134 TTGAATCAAGC
1 TTGAATCGAGC
1273145 TTGAATCGAGC
1 TTGAATCGAGC
1273156 TTGAATCGAGC
1 TTGAATCGAGC
*
1273167 TTCAATCGAG
1 TTGAATCGAG
1273177 TTCGAGTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (11 bp):
TTGAATCGAGC
Found at i:1279759 original size:86 final size:86
Alignment explanation
Indices: 1279614--1279771 Score: 316
Period size: 86 Copynumber: 1.8 Consensus size: 86
1279604 TATATAGGGT
1279614 ATTTTAGGCCAAAAAAGGCCACTCACCCCCCATTTCTCACTTCTCGTTCTCTCTCTAAGAGGGAG
1 ATTTTAGGCCAAAAAAGGCCACTCACCCCCCATTTCTCACTTCTCGTTCTCTCTCTAAGAGGGAG
1279679 AGACTGAGCCACAGCCTCACC
66 AGACTGAGCCACAGCCTCACC
1279700 ATTTTAGGCCAAAAAAGGCCACTCACCCCCCATTTCTCACTTCTCGTTCTCTCTCTAAGAGGGAG
1 ATTTTAGGCCAAAAAAGGCCACTCACCCCCCATTTCTCACTTCTCGTTCTCTCTCTAAGAGGGAG
1279765 AGACTGA
66 AGACTGA
1279772 TATCTCTCTG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 72 1.00
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (86 bp):
ATTTTAGGCCAAAAAAGGCCACTCACCCCCCATTTCTCACTTCTCGTTCTCTCTCTAAGAGGGAG
AGACTGAGCCACAGCCTCACC
Found at i:1280633 original size:17 final size:16
Alignment explanation
Indices: 1280607--1280651 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
1280597 TAAAACAAAA
1280607 AATA-AAATAAGTAAT
1 AATATAAATAAGTAAT
*
1280622 AATAATAAATAAATAAT
1 AAT-ATAAATAAGTAAT
*
1280639 AATATAAAAAAGT
1 AATATAAATAAGT
1280652 GTTTCTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 3 0.12
16 9 0.36
17 13 0.52
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (16 bp):
AATATAAATAAGTAAT
Found at i:1280638 original size:14 final size:14
Alignment explanation
Indices: 1280606--1280642 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
1280596 CTAAAACAAA
*
1280606 AAATAA-AATAAGT
1 AAATAATAATAAAT
1280619 -AATAATAATAAAT
1 AAATAATAATAAAT
1280632 AAATAATAATA
1 AAATAATAATA
1280643 TAAAAAAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 5 0.24
13 6 0.29
14 10 0.48
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AAATAATAATAAAT
Found at i:1280759 original size:32 final size:31
Alignment explanation
Indices: 1280721--1280816 Score: 124
Period size: 33 Copynumber: 3.0 Consensus size: 31
1280711 TTATATAAAA
*
1280721 AATTTTCGAAAATGATTTTAAAAAAACTATAT
1 AATTTTCAAAAATGATTTT-AAAAAACTATAT
1280753 AATTTTCAAAAAAT-ATTTTTTAAAAAACTATAT
1 AATTTTC-AAAAATGA--TTTTAAAAAACTATAT
*
1280786 AATTTTCAAAAATG-TTTTCAAAAACTATAT
1 AATTTTCAAAAATGATTTTAAAAAACTATAT
1280816 A
1 A
1280817 TTATATAAGT
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
30 16 0.28
32 14 0.24
33 24 0.41
34 4 0.07
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (31 bp):
AATTTTCAAAAATGATTTTAAAAAACTATAT
Found at i:1280843 original size:38 final size:38
Alignment explanation
Indices: 1280781--1280872 Score: 159
Period size: 38 Copynumber: 2.4 Consensus size: 38
1280771 TTTAAAAAAC
*
1280781 TATATAA-TTTTCAAAAATGTTTTCAAAAACTATATAT
1 TATATAAGTTTTCAAAAAGGTTTTCAAAAACTATATAT
*
1280818 TATATAAGTTTTAAAAAAGGTTTTCAAAAACTATATAT
1 TATATAAGTTTTCAAAAAGGTTTTCAAAAACTATATAT
1280856 TATATAAGTTTTCAAAA
1 TATATAAGTTTTCAAAA
1280873 TGTATTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 7 0.14
38 44 0.86
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (38 bp):
TATATAAGTTTTCAAAAAGGTTTTCAAAAACTATATAT
Found at i:1280919 original size:37 final size:40
Alignment explanation
Indices: 1280878--1280964 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 40
1280868 CAAAATGTAT
1280878 TTTTTCTAAAA-TG-TTTTAAAAACCATATATTAGATA-G
1 TTTTTCTAAAAGTGTTTTTAAAAACCATATATTAGATACG
* * *
1280915 -TTTT-TAAAAGTGTTTTTAGAAACTATATATTATATACG
1 TTTTTCTAAAAGTGTTTTTAAAAACCATATATTAGATACG
*
1280953 TATTTTCAAAAA
1 T-TTTTCTAAAA
1280965 CCATTTGCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
35 5 0.12
36 6 0.15
37 20 0.50
38 1 0.03
40 4 0.10
41 4 0.10
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (40 bp):
TTTTTCTAAAAGTGTTTTTAAAAACCATATATTAGATACG
Found at i:1281238 original size:29 final size:29
Alignment explanation
Indices: 1281179--1281240 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
1281169 AGTATATCTT
* *
1281179 GAAATGATCTGGGACTGAAGTCGTAGTTC
1 GAAATGATCTGGGACTGAAGCCGTAGGTC
* * *
1281208 GAAATGATCTGGGACTGTAGCCTTGGGTC
1 GAAATGATCTGGGACTGAAGCCGTAGGTC
1281237 GAAA
1 GAAA
1281241 ATTCGACTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
GAAATGATCTGGGACTGAAGCCGTAGGTC
Found at i:1281542 original size:34 final size:34
Alignment explanation
Indices: 1281504--1281590 Score: 131
Period size: 34 Copynumber: 2.6 Consensus size: 34
1281494 CTCGAAGGTC
* * *
1281504 TTTGTGCTTCAATAGAAAC-ATTTTCAAAGGTTTT
1 TTTGTGTTTCAAGAGAAACGA-TTTCAAAGATTTT
1281538 TTTGTGTTTCAAGAGAAACGATTTCAAAGATTTT
1 TTTGTGTTTCAAGAGAAACGATTTCAAAGATTTT
1281572 TTTGTGTTTCAAGAGAAAC
1 TTTGTGTTTCAAGAGAAAC
1281591 TGTCTCCAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
34 48 0.98
35 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (34 bp):
TTTGTGTTTCAAGAGAAACGATTTCAAAGATTTT
Found at i:1281624 original size:37 final size:37
Alignment explanation
Indices: 1281576--1281757 Score: 163
Period size: 37 Copynumber: 5.1 Consensus size: 37
1281566 GATTTTTTTG
* * *
1281576 TGTTTCAAGAGAAACTGTCTCCAGGGAGGCAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGGCAAAACTT
*
1281613 TGTTTCAAGAGAAACATAT-TC---AGA-G----A-TT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGGCAAAACTT
* *
1281641 GGTGTTTCAAGAGAAACCGTCTCAAGAGATGCAAAACTT
1 --TGTTTCAAGAGAAACTGTCTCAAGAGAGGCAAAACTT
* *
1281680 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGGCAAAACTT
*
1281716 TGTTTCAATG-GAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAA-GAGAAACTGTCTCAAGAGAGGCAAAACTT
1281753 TGTTT
1 TGTTT
1281758 TGAGTACATT
Statistics
Matches: 122, Mismatches: 8, Indels: 30
0.76 0.05 0.19
Matches are distributed among these distances:
28 2 0.02
29 2 0.02
30 17 0.14
33 4 0.03
34 3 0.02
36 34 0.28
37 55 0.45
38 3 0.02
39 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGGCAAAACTT
Found at i:1281640 original size:71 final size:67
Alignment explanation
Indices: 1281542--1281694 Score: 182
Period size: 67 Copynumber: 2.2 Consensus size: 67
1281532 GGTTTTTTTG
* * * *
1281542 TGTTTCAAGAGAAACGATTTCAAAGATTTTTTTGTGTTTCAAGAGAAACTGTCTCCAGGGAGGCA
1 TGTTTCAAGAGAAACGATTTCAAAGA----TTGGTGTTTCAAGAGAAACCGTCTCAAGAGAGGCA
*
1281607 AAATTT
62 AAACTT
* *
1281613 TGTTTCAAGAGAAAC-ATATTCAGAGATTGGTGTTTCAAGAGAAACCGTCTCAAGAGATGCAAAA
1 TGTTTCAAGAGAAACGAT-TTCAAAGATTGGTGTTTCAAGAGAAACCGTCTCAAGAGAGGCAAAA
1281677 CTT
65 CTT
*
1281680 TGTTTCAAGGGAAAC
1 TGTTTCAAGAGAAAC
1281695 TGTCTCAAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
67 49 0.67
70 2 0.03
71 22 0.30
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (67 bp):
TGTTTCAAGAGAAACGATTTCAAAGATTGGTGTTTCAAGAGAAACCGTCTCAAGAGAGGCAAAAC
TT
Found at i:1281729 original size:36 final size:36
Alignment explanation
Indices: 1281643--1281757 Score: 171
Period size: 36 Copynumber: 3.1 Consensus size: 36
1281633 CAGAGATTGG
*
1281643 TGTTTCAAGAGAAACCGTCTCAAGAGATG-CAAAACTT
1 TGTTTCAAG-GAAACTGTCTCAAGAGA-GACAAAACTT
1281680 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
1 TGTTTCAA-GGAAACTGTCTCAAGAGAGACAAAACTT
1281716 TGTTTCAATGGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAA-GGAAACTGTCTCAAGAGAGACAAAACTT
1281753 TGTTT
1 TGTTT
1281758 TGAGTACATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
36 36 0.49
37 36 0.49
38 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGGAAACTGTCTCAAGAGAGACAAAACTT
Found at i:1282068 original size:124 final size:122
Alignment explanation
Indices: 1281860--1282343 Score: 350
Period size: 124 Copynumber: 3.9 Consensus size: 122
1281850 TTGATGGTAG
* * * * * * *
1281860 GTACGATTCCCTTCATCGTGAAGTTGAAACCGTGGATGACCAATTCGTTGTGAAGTTGAGCCTTG
1 GTACAATTCCCTTCATCGTGAAGTTGAAACCGTAGATGGCCACTCCGTCGTGGAGTTGAGCCTTG
* *
1281925 AATTGGATATTCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGCTGCTTGTGT
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAT-TAAAGATG-ATGTTGCTTGTGT
* ** *
1281984 GTACAATTCCCTTCGTCGTGAAGTTGAAATTGTAGATGGCCCCTCCGTCGTGGAGTTGAGCCTTG
1 GTACAATTCCCTTCATCGTGAAGTTGAAACCGTAGATGGCCACTCCGTCGTGGAGTTGAGCCTTG
* * * * *
1282049 AATTGGATATCCTTTGTCGTAAAGTTGAAATCCAATAAAAGTTG-TGTTG-TT-TCGA
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATTAAAGATGATGTTGCTTGT-GT
* ** * ** * * **
1282104 GTCCAATAT-CCTTCATCGTGAAGTTGAAATTGGATCTGAAATTGGAAAGT--TTATTGAGAGGC
1 GTACAAT-TCCCTTCATCGTGAAGTTGAAA-CCG---T-AGA-TGGCCACTCCGTCGTG-GA-G-
* * * * * * * * ** *
1282166 ACTCATTCTTTGAGTTGGATATCCTTCGTCATGAAGCTGAAATCTAAATCTGGAGATGGATATTG
56 -TTGA-GCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATC-CAAT-TAAAGAT-GATGTTG
1282231 CTTGTGT
116 CTTGTGT
* * * * * *
1282238 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTCCGTCGTAGAGTTGAGCCTTG
1 GTACAATTCCCTTCATCGTGAAGTTGAAACCGTAGATGGCCACTCCGTCGTGGAGTTGAGCCTTG
*
1282303 AATTAGATATCCTTCGTCGTGAAGTTGAAATCCAATTAAAG
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATTAAAG
1282344 TTGTGCTGTT
Statistics
Matches: 266, Mismatches: 72, Indels: 45
0.69 0.19 0.12
Matches are distributed among these distances:
119 1 0.00
120 28 0.11
121 7 0.03
123 9 0.03
124 94 0.35
125 36 0.14
126 7 0.03
128 7 0.03
129 34 0.13
130 6 0.02
131 3 0.01
132 1 0.00
133 6 0.02
134 26 0.10
135 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (122 bp):
GTACAATTCCCTTCATCGTGAAGTTGAAACCGTAGATGGCCACTCCGTCGTGGAGTTGAGCCTTG
AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATTAAAGATGATGTTGCTTGTGT
Found at i:1282425 original size:254 final size:253
Alignment explanation
Indices: 1281922--1282655 Score: 1092
Period size: 254 Copynumber: 2.9 Consensus size: 253
1281912 AAGTTGAGCC
* * * * ** * * *
1281922 TTGAATTGGATATTCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGCTGCTTGTGTGTA
1 TTGAGTTGGATATACTTCGTCATGAAGTTGAAATCAAATCTGGAGATGGATGTTGCTTGTGTGCA
* ** *
1281987 CAATTCCCTTCGTCGTGAAGTTGAAATTGTAGATGGCCCCTCCGTCGTGGAGTTGAGCCTTGAAT
66 CGATTCCCTTCGTCGTGAAGTTGAAACCGTAGATGGCCCCTCCGTCGTAGAGTTGAGCCTTGAAT
* * *
1282052 TGGATATCCTTTGTCGTAAAGTTGAAATCCAATAAAAGTTGTGTTGTTTCGAGTCCAATATCCTT
131 TGGATATCCTTCGTCGTGAAGTTGAAATCCAATTAAAGTTGTGTTGTTTCGAGTCCAATATCCTT
** * * *
1282117 CATCGTGAAGTTGAAATTGGATCTGAAATTGGAAAGTTTATTGAGAGGCACTCATTCT
196 CGCCGTGAAGTTGAAATTGGATCTGAAACTGGAAAGTTTATTGACAGACACTCATTCT
* * *
1282175 TTGAGTTGGATATCCTTCGTCATGAAGCTGAAATCTAAATCTGGAGATGGATATTGCTTGTGTGC
1 TTGAGTTGGATATACTTCGTCATGAAGTTGAAATC-AAATCTGGAGATGGATGTTGCTTGTGTGC
*
1282240 ACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTCCGTCGTAGAGTTGAGCCTTGAA
65 ACGATTCCCTTCGTCGTGAAGTTGAAACCGTAGATGGCCCCTCCGTCGTAGAGTTGAGCCTTGAA
* *
1282305 TTAGATATCCTTCGTCGTGAAGTTGAAATCCAATTAAAGTTGTGCTGTTTCGAGTCCAATATCCT
130 TTGGATATCCTTCGTCGTGAAGTTGAAATCCAATTAAAGTTGTGTTGTTTCGAGTCCAATATCCT
* *
1282370 TCGCCATGAGGTTGAAATTGGATCTGAAACTGGAAAGTTTATTGACAGACACTCATTCT
195 TCGCCGTGAAGTTGAAATTGGATCTGAAACTGGAAAGTTTATTGACAGACACTCATTCT
* * *
1282429 TTGAGTTTGATATACTTCGTCATGAAGTTGAAATCCAAATTTGGAGATGGATGTTTCTTGTGTGC
1 TTGAGTTGGATATACTTCGTCATGAAGTTGAAAT-CAAATCTGGAGATGGATGTTGCTTGTGTGC
* * **
1282494 ACGATTCCCTTCGTCATGAAGTTGAAACCGTAGATGGTCCCTCTTTCGTAGAGTTGAGCCTTGAA
65 ACGATTCCCTTCGTCGTGAAGTTGAAACCGTAGATGGCCCCTCCGTCGTAGAGTTGAGCCTTGAA
* *
1282559 TTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGT-AAGTTGTATTGTTTCGAGTCCAATATCCT
130 TTGGATATCCTTCGTCGTGAAGTTGAAATCCAATTAAAGTTGTGTTGTTTCGAGTCCAATATCCT
*
1282623 CCGCCGTGAAGTTGAAATTGGATCTGAAACTGG
195 TCGCCGTGAAGTTGAAATTGGATCTGAAACTGG
1282656 GAAGCCCCTT
Statistics
Matches: 433, Mismatches: 46, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
253 88 0.20
254 344 0.79
255 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (253 bp):
TTGAGTTGGATATACTTCGTCATGAAGTTGAAATCAAATCTGGAGATGGATGTTGCTTGTGTGCA
CGATTCCCTTCGTCGTGAAGTTGAAACCGTAGATGGCCCCTCCGTCGTAGAGTTGAGCCTTGAAT
TGGATATCCTTCGTCGTGAAGTTGAAATCCAATTAAAGTTGTGTTGTTTCGAGTCCAATATCCTT
CGCCGTGAAGTTGAAATTGGATCTGAAACTGGAAAGTTTATTGACAGACACTCATTCT
Found at i:1282750 original size:43 final size:43
Alignment explanation
Indices: 1282689--1282770 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
1282679 AGCTTCAAAT
*
1282689 GGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGTGTG
1 GGTACGATATCCTCCGTCGTGGAGTTGAAATCGTAGATGTGTG
*
1282732 GGTACGATATCCTCCGTCGTGGAGTTGGAATCGTAGATG
1 GGTACGATATCCTCCGTCGTGGAGTTGAAATCGTAGATG
1282771 GCCCCTTCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (43 bp):
GGTACGATATCCTCCGTCGTGGAGTTGAAATCGTAGATGTGTG
Found at i:1287820 original size:17 final size:17
Alignment explanation
Indices: 1287787--1287833 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
1287777 CTGAAACAAA
1287787 AAATAA-AATAA-AAAT
1 AAATAATAATAATAAAT
1287802 AAATAATAATAATAAAT
1 AAATAATAATAATAAAT
1287819 AAATAATAAT-ATAAA
1 AAATAATAATAATAAA
1287834 AAAGTGTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.20
16 10 0.33
17 14 0.47
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAATAATAATAAAT
Found at i:1288002 original size:29 final size:29
Alignment explanation
Indices: 1287964--1288023 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
1287954 ATGTTTTTTT
*
1287964 AAAAACTATATAATT-TAGAAATTTTTAAA
1 AAAAACTATAT-ATTATAGAAATTTTCAAA
* *
1287993 AAAAATTATATATTATATAAATTTTCAAA
1 AAAAACTATATATTATAGAAATTTTCAAA
1288022 AA
1 AA
1288024 TATTTTCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 3 0.11
29 24 0.89
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAAACTATATATTATAGAAATTTTCAAA
Found at i:1288043 original size:38 final size:38
Alignment explanation
Indices: 1287993--1288098 Score: 185
Period size: 38 Copynumber: 2.8 Consensus size: 38
1287983 AATTTTTAAA
* *
1287993 AAAAATTATATATTATATAAATTTTCAAAAATATTTTC
1 AAAAACTATATATTATATAAGTTTTCAAAAATATTTTC
*
1288031 AAAAACTATATATTATATAAGTTTTCAAAAATGTTTTC
1 AAAAACTATATATTATATAAGTTTTCAAAAATATTTTC
1288069 AAAAACTATATATTATATAAGTTTTCAAAA
1 AAAAACTATATATTATATAAGTTTTCAAAA
1288099 TGTATTTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.42
Consensus pattern (38 bp):
AAAAACTATATATTATATAAGTTTTCAAAAATATTTTC
Found at i:1288131 original size:51 final size:50
Alignment explanation
Indices: 1288059--1288156 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 50
1288049 AAGTTTTCAA
* *
1288059 AAATGTTTTCAAAAACTATATATTATATAAGTTTTCAAAATGTATTTTTTTT
1 AAATGTTTTCAAAAACCATATATTAGAT-AGTTTTCAAAA-GTATTTTTTTT
* *
1288111 AAATGTTTT-AAAAACCATATATTAGATAGTTTTTAAAAGTGTTTTT
1 AAATGTTTTCAAAAACCATATATTAGATAGTTTTCAAAAGTATTTTT
1288157 AGAAACTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
49 7 0.17
50 10 0.24
51 16 0.38
52 9 0.21
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (50 bp):
AAATGTTTTCAAAAACCATATATTAGATAGTTTTCAAAAGTATTTTTTTT
Found at i:1288250 original size:12 final size:12
Alignment explanation
Indices: 1288233--1288261 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1288223 AAACAAAATA
1288233 AAAATATGAATG
1 AAAATATGAATG
1288245 AAAATATGAATG
1 AAAATATGAATG
1288257 AAAAT
1 AAAAT
1288262 GAGTGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (12 bp):
AAAATATGAATG
Found at i:1299304 original size:27 final size:27
Alignment explanation
Indices: 1299274--1299329 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
1299264 CAATCTTTGA
*
1299274 GGACTCGCAGCAAGCAATGGCCAATTG
1 GGACTAGCAGCAAGCAATGGCCAATTG
*
1299301 GGACTAGCAGCAAGCAATGGCCAGTTG
1 GGACTAGCAGCAAGCAATGGCCAATTG
1299328 GG
1 GG
1299330 TTTTGTCAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.23, G:0.34, T:0.14
Consensus pattern (27 bp):
GGACTAGCAGCAAGCAATGGCCAATTG
Found at i:1301566 original size:16 final size:17
Alignment explanation
Indices: 1301528--1301569 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1301518 ACTAAAAATT
1301528 AAATAAATACAAATTAA
1 AAATAAATACAAATTAA
* **
1301545 ACATAAATACTTA-TAA
1 AAATAAATACAAATTAA
1301561 AAATAAATA
1 AAATAAATA
1301570 AACAATACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAAATACAAATTAA
Found at i:1302155 original size:20 final size:20
Alignment explanation
Indices: 1302116--1302155 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1302106 AGTAATCCTT
**
1302116 TCACTGGTAATCTTTTATTC
1 TCACTGGTAATCTTACATTC
1302136 TCACTGGTAATCTTACATTC
1 TCACTGGTAATCTTACATTC
1302156 CGTGAACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (20 bp):
TCACTGGTAATCTTACATTC
Found at i:1302430 original size:20 final size:20
Alignment explanation
Indices: 1302391--1302430 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1302381 GTAATCCTAT
**
1302391 TCACTGGTAATCTTTTATTC
1 TCACTGGTAATCTTACATTC
1302411 TCACTGGTAATCTTACATTC
1 TCACTGGTAATCTTACATTC
1302431 CGTGAACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (20 bp):
TCACTGGTAATCTTACATTC
Found at i:1304200 original size:34 final size:32
Alignment explanation
Indices: 1304153--1304216 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
1304143 CTGCAACAAT
* * *
1304153 AAATAAAAATACAATATGTGGAAGCCACCATA
1 AAATAAAAATACAAGACGTAGAAGCCACCATA
1304185 AAATAGAAAAGTACAAGACGTAGAAGCCACCA
1 AAATA-AAAA-TACAAGACGTAGAAGCCACCA
1304217 CAAGAAGACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 5 0.19
33 4 0.15
34 18 0.67
ACGTcount: A:0.53, C:0.17, G:0.16, T:0.14
Consensus pattern (32 bp):
AAATAAAAATACAAGACGTAGAAGCCACCATA
Found at i:1304349 original size:12 final size:12
Alignment explanation
Indices: 1304328--1304375 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
1304318 CTTGCAAGCA
*
1304328 AGAATGACCTTT
1 AGAATCACCTTT
1304340 AGAATCACCTTT
1 AGAATCACCTTT
* * *
1304352 TGTATCATCTTT
1 AGAATCACCTTT
*
1304364 AGCATCACCTTT
1 AGAATCACCTTT
1304376 TCTACTACCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (12 bp):
AGAATCACCTTT
Found at i:1304477 original size:13 final size:13
Alignment explanation
Indices: 1304459--1304483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1304449 TATCACTATC
1304459 CTTGTGTAAAATA
1 CTTGTGTAAAATA
1304472 CTTGTGTAAAAT
1 CTTGTGTAAAAT
1304484 CGTTTCTGCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
CTTGTGTAAAATA
Found at i:1305247 original size:15 final size:15
Alignment explanation
Indices: 1305229--1305281 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
1305219 CCGGTTTCGG
1305229 TTTTAAAAAAACCGA
1 TTTTAAAAAAACCGA
* * *
1305244 TTTTTTTAAAAATCCGG
1 --TTTTAAAAAAACCGA
*
1305261 TTATAAAAAAACCGA
1 TTTTAAAAAAACCGA
1305276 TTTTAA
1 TTTTAA
1305282 TATTATTAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 16 0.57
17 12 0.43
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (15 bp):
TTTTAAAAAAACCGA
Found at i:1305370 original size:33 final size:33
Alignment explanation
Indices: 1305323--1305425 Score: 156
Period size: 33 Copynumber: 3.2 Consensus size: 33
1305313 ACAAAATTTA
* *
1305323 CGAT-AATTGAAATACTTAAATACTTCCAAGTT
1 CGATAAATTAAAATACTTAAAAACTTCCAAGTT
1305355 CGATAAATTAAAATACTTAAAAACTTCCAAGTT
1 CGATAAATTAAAATACTTAAAAACTTCCAAGTT
*
1305388 CGATAAATTCAAATACTTAAAAACTT-CAAGTT
1 CGATAAATTAAAATACTTAAAAACTTCCAAGTT
*
1305420 CAATAA
1 CGATAA
1305426 TTGAAACAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
32 15 0.23
33 51 0.77
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.31
Consensus pattern (33 bp):
CGATAAATTAAAATACTTAAAAACTTCCAAGTT
Found at i:1305446 original size:21 final size:21
Alignment explanation
Indices: 1305422--1305461 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1305412 TTCAAGTTCA
*
1305422 ATAATTGAAACAAAGTTTACG
1 ATAATTAAAACAAAGTTTACG
*
1305443 ATAATTAAAATAAAGTTTA
1 ATAATTAAAACAAAGTTTA
1305462 AAAATAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.33
Consensus pattern (21 bp):
ATAATTAAAACAAAGTTTACG
Found at i:1311820 original size:23 final size:23
Alignment explanation
Indices: 1311794--1311868 Score: 150
Period size: 23 Copynumber: 3.3 Consensus size: 23
1311784 TTACATGAAG
1311794 CTAAACCCTTAATGGATGAGAAT
1 CTAAACCCTTAATGGATGAGAAT
1311817 CTAAACCCTTAATGGATGAGAAT
1 CTAAACCCTTAATGGATGAGAAT
1311840 CTAAACCCTTAATGGATGAGAAT
1 CTAAACCCTTAATGGATGAGAAT
1311863 CTAAAC
1 CTAAAC
1311869 ATAAAGAACA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (23 bp):
CTAAACCCTTAATGGATGAGAAT
Found at i:1317173 original size:34 final size:32
Alignment explanation
Indices: 1317106--1317175 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
1317096 ACCTTACAAC
* *
1317106 TCCCTAGTTTTTCCGGGCTAAACTAGAAAATT
1 TCCCTAGTTTTACCGGGATAAACTAGAAAATT
* *
1317138 TCCCTAGCTTTTACACGGGATAAGCTAGAACATT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAAAATT
1317172 TCCC
1 TCCC
1317176 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAAAATT
Found at i:1317748 original size:30 final size:31
Alignment explanation
Indices: 1317714--1317774 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
1317704 AAACTTTGAA
1317714 TAAATTCAATT-AAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
*
1317744 TAAATTTAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1317775 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 10 0.34
31 19 0.66
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:1321513 original size:23 final size:23
Alignment explanation
Indices: 1321487--1321534 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1321477 ATAAAGTACA
*
1321487 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
1321510 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1321533 AT
1 AT
1321535 TTACCTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1321961 original size:20 final size:20
Alignment explanation
Indices: 1321936--1322028 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
1321926 TTTTCCCAAT
1321936 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
1321956 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
1321976 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
1321997 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
1322018 TCGCAATGCGA
1 TCGCAATGCGA
1322029 TACTGACTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.46
21 32 0.54
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:1321978 original size:41 final size:41
Alignment explanation
Indices: 1321933--1322028 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
1321923 CGATTTTCCC
*
1321933 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1321974 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
1322015 AAATCGCAATGCGA
1 AATTCGCAATGCGA
1322029 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:1322041 original size:41 final size:41
Alignment explanation
Indices: 1321955--1322089 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
1321945 GAATAAGTAA
* * * *
1321955 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCG-ATACTG-ACT
1321996 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
* * * * * *
1322037 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
*
1322078 TTCGCAACGCGA
1 ATCGCAACGCGA
1322090 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
Found at i:1322042 original size:20 final size:20
Alignment explanation
Indices: 1322017--1322111 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
1322007 AATTGAGAAA
*
1322017 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
1322037 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
1322058 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
1322078 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
1322098 TTCGCAACGCGATA
1 ATCGCAACGCGATA
1322112 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1322327 original size:22 final size:22
Alignment explanation
Indices: 1322299--1322342 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1322289 CACTCTCTCA
1322299 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
**
1322321 CCCATCTCCGGTGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
1322343 TATCTAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:1322631 original size:20 final size:20
Alignment explanation
Indices: 1322606--1322643 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1322596 CGATTCTCTC
1322606 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
1322626 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
1322644 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:1323983 original size:18 final size:18
Alignment explanation
Indices: 1323962--1324006 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1323952 TCCACTTCGG
*
1323962 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
1323980 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
1323998 GAGCCATCA
1 GAGCCATCA
1324007 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1324532 original size:19 final size:20
Alignment explanation
Indices: 1324478--1324544 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
1324468 TAGTTTACTT
* *
1324478 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
1324498 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
1324518 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
1324537 TCGCAACG
1 TCGCAACG
1324545 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:1324552 original size:14 final size:14
Alignment explanation
Indices: 1324533--1324590 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1324523 ATGCGAAATG
1324533 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1324547 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
1324563 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
1324579 AAAATCGCAACG
1 AAAATCGCAACG
1324591 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1324575 original size:32 final size:33
Alignment explanation
Indices: 1324517--1324607 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
1324507 GGAAATGGCT
*
1324517 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1324550 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1324582 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
1324608 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:1324601 original size:19 final size:19
Alignment explanation
Indices: 1324478--1324612 Score: 85
Period size: 19 Copynumber: 7.6 Consensus size: 19
1324468 TAGTTTACTT
* **
1324478 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
1324498 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
1324518 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1324537 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
1324551 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
1324569 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
1324583 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1324602 TCGCAATGCGA
1 TCGCAACGCGA
1324613 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 27 0.29
20 24 0.26
21 1 0.01
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1324643 original size:14 final size:15
Alignment explanation
Indices: 1324619--1324699 Score: 76
Period size: 14 Copynumber: 5.1 Consensus size: 15
1324609 GCGATTTGTG
1324619 TTTCGCGTTGCGATTT
1 TTTC-CGTTGCGATTT
1324635 TTT-CGTTGCGATTT
1 TTTCCGTTGCGATTT
1324649 CATTTCGCGTTGCGATTT
1 --TTTC-CGTTGCGATTT
*
1324667 TGT-CGTTGCGATTT
1 TTTCCGTTGCGATTT
1324681 CATTTCGCGTTGCGATTT
1 --TTTC-CGTTGCGATTT
1324699 T
1 T
1324700 CATTTCGCAT
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
14 22 0.40
16 11 0.20
18 22 0.40
ACGTcount: A:0.09, C:0.19, G:0.23, T:0.49
Consensus pattern (15 bp):
TTTCCGTTGCGATTT
Found at i:1324658 original size:32 final size:32
Alignment explanation
Indices: 1324619--1324699 Score: 153
Period size: 32 Copynumber: 2.5 Consensus size: 32
1324609 GCGATTTGTG
*
1324619 TTTCGCGTTGCGATTTTTTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1324651 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1324683 TTTCGCGTTGCGATTTT
1 TTTCGCGTTGCGATTTT
1324700 CATTTCGCAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.09, C:0.19, G:0.23, T:0.49
Consensus pattern (32 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:1324700 original size:19 final size:18
Alignment explanation
Indices: 1324619--1324756 Score: 139
Period size: 19 Copynumber: 7.9 Consensus size: 18
1324609 GCGATTTGTG
1324619 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
1324635 TTT--CGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
1324651 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
*
1324667 TGT--CGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
1324683 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGA-TTTCA
* **
1324702 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGAT-TTCA
*
1324721 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCGTTGCGAT-TTCA
1324741 TTTCGCGTTGCGATTT
1 TTTCGCGTTGCGATTT
1324757 TAAGTTTCGT
Statistics
Matches: 103, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
14 22 0.21
16 10 0.10
18 21 0.20
19 33 0.32
20 17 0.17
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.44
Consensus pattern (18 bp):
TTTCGCGTTGCGATTTCA
Found at i:1324731 original size:39 final size:38
Alignment explanation
Indices: 1324681--1324754 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
1324671 GTTGCGATTT
**
1324681 CATTTCGCGTTGCGATTTTCATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGC
*
1324719 CATTTCCGCGTTGCGATAGTCATTTCGCGTTGCGAT
1 CATTT-CGCGTTGCGATAGTCATTTCGCATTGCGAT
1324755 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (38 bp):
CATTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGC
Found at i:1326642 original size:14 final size:14
Alignment explanation
Indices: 1326623--1326658 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1326613 ATTGTTTAAT
1326623 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1326637 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1326651 TGATTTGT
1 TGATTTGT
1326659 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1326768 original size:19 final size:18
Alignment explanation
Indices: 1326744--1326813 Score: 58
Period size: 19 Copynumber: 4.0 Consensus size: 18
1326734 GCAAAACAGA
1326744 CTATCGCAATGCGAAATGG
1 CTATCGCAATGCGAAAT-G
* *
1326763 CTATCGCAACGAGAAA--
1 CTATCGCAATGCGAAATG
1326779 --ATCGCAATGCGAAATG
1 CTATCGCAATGCGAAATG
**
1326795 AAAATCGCAATGCGAAATG
1 -CTATCGCAATGCGAAATG
1326814 AAAATCGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 12 0.29
19 30 0.71
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (18 bp):
CTATCGCAATGCGAAATG
Found at i:1326814 original size:19 final size:19
Alignment explanation
Indices: 1326775--1326842 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
1326765 ATCGCAACGA
1326775 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
1326794 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
1326813 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
1326827 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
1326843 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:1326886 original size:20 final size:20
Alignment explanation
Indices: 1326861--1326917 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
1326851 TCACATTGCG
*
1326861 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
1326881 ATTTTCGCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
*
1326901 ATTTTCGCATTGCGATA
1 ATTTTCGCGTTGCGATA
1326918 GTCAAATGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAACC
Found at i:1327304 original size:14 final size:14
Alignment explanation
Indices: 1327285--1327320 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1327275 ATTGTTTAAT
1327285 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1327299 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1327313 TGATTTGT
1 TGATTTGT
1327321 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1327894 original size:14 final size:14
Alignment explanation
Indices: 1327875--1327910 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1327865 ATTGTTTAAT
1327875 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1327889 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1327903 TGATTTGT
1 TGATTTGT
1327911 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1328006 original size:590 final size:590
Alignment explanation
Indices: 1326881--1328285 Score: 2785
Period size: 590 Copynumber: 2.4 Consensus size: 590
1326871 TGCGATAACC
*
1326881 ATTTTCGCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1326946 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
1327011 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
131 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
1327076 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
196 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
1327141 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
261 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
1327206 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
326 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
1327271 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
391 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
1327336 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
456 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
1327401 ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
521 ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
1327466 TTGCG
586 TTGCG
1327471 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1327536 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
1327601 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
131 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
1327666 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
196 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
1327731 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
261 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
1327796 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
326 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
1327861 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
391 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
1327926 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
456 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
1327991 ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
521 ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
1328056 TTGCG
586 TTGCG
1328061 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1328126 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
1328191 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTG-AA
131 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
*
1328255 ATATTTGGTTAAGTACCTAGAATTCAATAAT
196 ATGTTTGGTTAAGTACCTAGAATTCAATAAT
1328286 AATTGTTAAA
Statistics
Matches: 813, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
589 32 0.04
590 781 0.96
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (590 bp):
ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
TTGCG
Found at i:1329211 original size:24 final size:24
Alignment explanation
Indices: 1329155--1329213 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
1329145 AGTCAGTATT
* *
1329155 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
1329179 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
1329203 CGAATTTTGAT
1 CGAAATTTGAT
1329214 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:1331732 original size:14 final size:14
Alignment explanation
Indices: 1331713--1331800 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
1331703 GCGAAATGAA
1331713 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1331727 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
1331746 AATCGCAACGAGGG
1 AATCGCAACGAGAG
*
1331760 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
1331779 AATCGCAACGAGGG
1 AATCGCAACGAGAG
1331793 AATCGCAA
1 AATCGCAA
1331801 TGCGAAATGA
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
14 26 0.46
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 19 0.33
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1331737 original size:33 final size:33
Alignment explanation
Indices: 1331695--1331821 Score: 245
Period size: 33 Copynumber: 3.8 Consensus size: 33
1331685 GGAAATTACT
*
1331695 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1331728 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1331761 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1331794 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
1331822 CGAATTTAAT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 93 1.00
ACGTcount: A:0.43, C:0.19, G:0.25, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
Found at i:1331843 original size:19 final size:20
Alignment explanation
Indices: 1331821--1331863 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1331811 AAATCGCAAC
1331821 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
1331840 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
1331860 GCGA
1 GCGA
1331864 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:1331848 original size:14 final size:14
Alignment explanation
Indices: 1331849--1331882 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1331839 TGCGATTTTC
1331849 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
1331863 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
1331877 ATTTTC
1 ATTTTC
1331883 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:1332023 original size:14 final size:14
Alignment explanation
Indices: 1332004--1332040 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1331994 CATCAATTAA
1332004 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1332018 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1332032 ACAAATCAA
1 ACAAATCAA
1332041 TTAACAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1333480 original size:42 final size:42
Alignment explanation
Indices: 1333434--1333517 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
1333424 CGATGACAGT
* *
1333434 GGCCTCTTAAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTAAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * * *
1333476 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTAAACGATAGGAGGGGACTCTCGAGGAATGATAGG
1333518 CGAGTCGGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (42 bp):
GGCCTCTTAAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:1335598 original size:33 final size:33
Alignment explanation
Indices: 1335541--1335639 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
1335531 ACGAGATAAT
* *
1335541 GAGAATTGCAACGCGGAAATGACTATCGCAATGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
1335575 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
1335608 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
1335640 CGATTTTGGT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 46 0.78
34 13 0.22
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:1335661 original size:19 final size:19
Alignment explanation
Indices: 1335639--1335704 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
1335629 AAATCGCAAC
*
1335639 GCGATTTTGGTTTCGCGTT
1 GCGATTTTGATTTCGCGTT
*
1335658 GCGATTTTTATTTCGCGTT
1 GCGATTTTGATTTCGCGTT
* *
1335677 GCGATAGTT-ATTTCCGCTTT
1 GCGAT-TTTGATTT-CGCGTT
1335697 GCGATTTT
1 GCGATTTT
1335705 CATTCTTGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 28 0.70
20 12 0.30
ACGTcount: A:0.11, C:0.17, G:0.24, T:0.48
Consensus pattern (19 bp):
GCGATTTTGATTTCGCGTT
Found at i:1336276 original size:20 final size:20
Alignment explanation
Indices: 1336227--1336278 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1336217 CGCTAAGTAA
* *
1336227 ATCGCGTTGAGAAAGTCAGT
1 ATCGCGTTGCGAAAGTAAGT
1336247 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGAAAGTAAGT
*
1336267 ATCTCGTTGCGA
1 ATCGCGTTGCGA
1336279 TTTTTTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTAAGT
Found at i:1336292 original size:41 final size:42
Alignment explanation
Indices: 1336246--1336381 Score: 118
Period size: 41 Copynumber: 3.3 Consensus size: 42
1336236 AGAAAGTCAG
* * * *
1336246 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTAT
1 TATCGCGTTGCGAAAGTAAGTATCGCATTGCGATTTTCTCAA
* * *
1336287 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCTCAA
1 TATCGCGTTGCGAAAGTAAGTATCGCATTGCGATTTTCTCAA
** ** * *
1336329 T-TCGCGTTGCG-ATTTACTTATTCGCATTGCGAATTTCCCAA
1 TATCGCGTTGCGAAAGTAAGTA-TCGCATTGCGATTTTCTCAA
1336370 T-TCGCGTTGCGA
1 TATCGCGTTGCGA
1336382 TTTACTTATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
40 3 0.04
41 70 0.92
42 3 0.04
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (42 bp):
TATCGCGTTGCGAAAGTAAGTATCGCATTGCGATTTTCTCAA
Found at i:1336297 original size:21 final size:21
Alignment explanation
Indices: 1336264--1336343 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
1336254 TGCGAAAGTA
* * *
1336264 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
1336285 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
1336305 AGTATCGCATTGCGATTTTCTC
1 AGTATCGCATTGCGATTTT-TC
* *
1336327 AAT-TCGCGTTGCGATTT
1 AGTATCGCATTGCGATTT
1336344 ACTTATTCGC
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 16 0.35
21 26 0.57
22 4 0.09
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:1336312 original size:20 final size:20
Alignment explanation
Indices: 1336240--1336320 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
1336230 GCGTTGAGAA
* *
1336240 AGTCAGTATCGCGTTGCGAA
1 AGTCAGTATCGCATTGCGAT
* * *
1336260 AGTAAGTATCTCGTTGCGATT
1 AGTCAGTATCGCATTGCGA-T
** * *
1336281 TTTTATTATCGCATTGCGAT
1 AGTCAGTATCGCATTGCGAT
1336301 AGTCAGTATCGCATTGCGAT
1 AGTCAGTATCGCATTGCGAT
1336321 TTTCTCAATT
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 34 0.72
21 13 0.28
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
AGTCAGTATCGCATTGCGAT
Found at i:1336353 original size:20 final size:20
Alignment explanation
Indices: 1336309--1336401 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
1336299 ATAGTCAGTA
*
1336309 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACT-AAT
* *
1336330 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
* *
1336350 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTAAT
* *
1336371 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
1336391 TCGCATTGCGA
1 TCGCATTGCGA
1336402 ATTGGGAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.47
21 31 0.53
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTAAT
Found at i:1336382 original size:41 final size:41
Alignment explanation
Indices: 1336309--1336404 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
1336299 ATAGTCAGTA
* *
1336309 TCGCATTGCGATTTTCTCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1336350 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1336391 TCGCATTGCGAATT
1 TCGCATTGCGAATT
1336405 GGGAAAATCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:1336879 original size:23 final size:23
Alignment explanation
Indices: 1336853--1336915 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1336843 ATATAACCAC
1336853 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1336876 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1336899 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1336916 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1337337 original size:23 final size:23
Alignment explanation
Indices: 1337275--1337347 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
1337265 ACACTTTACA
* *
1337275 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* **
1337298 ATATAAACGATGTCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
1337321 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
1337344 ATAT
1 ATAT
1337348 TTTACCTATT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:1337411 original size:430 final size:432
Alignment explanation
Indices: 1336611--1337548 Score: 1709
Period size: 430 Copynumber: 2.2 Consensus size: 432
1336601 TTATTTTCTC
*
1336611 TTTAATAATTTCATTTGCACAAAAAAATATTTGATTATTTGATATTTTATAAAATATTATTTAGA
1 TTTAATAATTTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGA
*
1336676 ATTTTTAATTTAA-TA-ATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
66 ATTTTTAATTTAACAACATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
*
1336739 ACTAAATTAAAATCTTAAAACTCTCTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAA
131 ACTAAATTAAAATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAA
1336804 AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
196 AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
1336869 TAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGA
261 TAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGA
*
1336934 AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA
326 AAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA
1336999 TTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA
391 TTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA
1337041 TTTAATAATTTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGA
1 TTTAATAATTTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGA
1337106 ATTTTTAATTTAACAACATTAAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
66 ATTTTTAATTTAACAACA-T-AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
*
1337171 TTACTAAATTAAAATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAGT-AA
129 TTACTAAATTAAAATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAA
1337234 AAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTA
194 AAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTA
**
1337299 TATAAACGATGTCTATTACATTATATAAGCGCTACCTATTACATCATA-TTTTACCTATTA-ATT
259 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
1337362 GAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
324 GAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
1337427 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA
389 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA
*
1337471 TTTAATAATTTCATTTGCAC-AAAAATTATTTGATTTTTTGATA---TATAAAATATTATTTAGA
1 TTTAATAATTTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGA
1337532 A-TTTTAATTTAACAACA
66 ATTTTTAATTTAACAACA
1337549 ACCAAAGAAT
Statistics
Matches: 496, Mismatches: 8, Indels: 13
0.96 0.02 0.03
Matches are distributed among these distances:
425 16 0.03
426 19 0.04
429 22 0.04
430 208 0.42
431 13 0.03
432 114 0.23
433 32 0.06
434 72 0.15
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (432 bp):
TTTAATAATTTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGA
ATTTTTAATTTAACAACATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
ACTAAATTAAAATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAA
AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
TAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGA
AAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA
TTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA
Found at i:1337802 original size:39 final size:39
Alignment explanation
Indices: 1337748--1337833 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
1337738 CAAGTTGTAG
*
1337748 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
1337787 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
1337826 ATTTTGAT
1 ATTTTGAT
1337834 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:1338110 original size:18 final size:18
Alignment explanation
Indices: 1338087--1338121 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1338077 GAAATATATA
1338087 TGAAATTCAAACTCAAAT
1 TGAAATTCAAACTCAAAT
* *
1338105 TGAAATTTAAATTCAAA
1 TGAAATTCAAACTCAAA
1338122 CTCCAATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (18 bp):
TGAAATTCAAACTCAAAT
Found at i:1338140 original size:24 final size:25
Alignment explanation
Indices: 1338084--1338140 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
1338074 GCCGAAATAT
1338084 ATATGAAATTCAAACTCAAATTGAA
1 ATATGAAATTCAAACTCAAATTGAA
* * *
1338109 AT-TTAAATTCAAACTCCAATT-AC
1 ATATGAAATTCAAACTCAAATTGAA
1338132 ATATGAAAT
1 ATATGAAAT
1338141 GAATTTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.11
24 22 0.81
25 2 0.07
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (25 bp):
ATATGAAATTCAAACTCAAATTGAA
Found at i:1338565 original size:27 final size:25
Alignment explanation
Indices: 1338535--1338595 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 25
1338525 GATAGATACT
*
1338535 TTACAATATATATATAAGCGCTACCTA
1 TTAC-ATATATATATAA-CGATACCTA
1338562 TTAC--AT-TATATAACGATACCTA
1 TTACATATATATATAACGATACCTA
1338584 TTACAT-TATATA
1 TTACATATATATA
1338596 CTTGTAGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
22 12 0.40
23 8 0.27
24 6 0.20
27 4 0.13
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (25 bp):
TTACATATATATATAACGATACCTA
Found at i:1338584 original size:22 final size:23
Alignment explanation
Indices: 1338545--1338595 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 23
1338535 TTACAATATA
*
1338545 TATATAAGCGCTACCTATTACAT
1 TATATAAGCGATACCTATTACAT
1338568 TATATAA-CGATACCTATTACAT
1 TATATAAGCGATACCTATTACAT
1338590 TATATA
1 TATATA
1338596 CTTGTAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (23 bp):
TATATAAGCGATACCTATTACAT
Found at i:1341386 original size:183 final size:183
Alignment explanation
Indices: 1341078--1341924 Score: 1570
Period size: 183 Copynumber: 4.6 Consensus size: 183
1341068 ACACATTTTA
* * *
1341078 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACATATTCGCGCATAAA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATACA
*
1341143 ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
1341208 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
131 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
1341261 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATACA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATACA
1341326 ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
1341391 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
131 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
1341444 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATACA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATACA
1341509 ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
1341574 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
131 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
*
1341627 GACACAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATACA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATACA
1341692 ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
1341757 TGTAAATGTCGACAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
131 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
* *
1341809 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATACA
* * * * **
1341874 ACCGGTATATTTATACCGGTTATATTGCAAATTTACCTATTTTATTATAAT
66 ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAAT
1341925 ATGTTGAAAG
Statistics
Matches: 650, Mismatches: 14, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
182 144 0.22
183 506 0.78
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (183 bp):
GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATACA
ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
Found at i:1343398 original size:3 final size:3
Alignment explanation
Indices: 1343390--1343428 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
1343380 ACTTATTTGG
* * *
1343390 ATC ATC ATC TTC ATC ATC ATC ATC GTC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1343429 GCCAGCTTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.26, C:0.33, G:0.03, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:1343407 original size:12 final size:12
Alignment explanation
Indices: 1343394--1343476 Score: 85
Period size: 12 Copynumber: 6.9 Consensus size: 12
1343384 ATTTGGATCA
*
1343394 TCATCTTCATCA
1 TCATCTTCATCG
* * *
1343406 TCATCATCGTCA
1 TCATCTTCATCG
1343418 TCATCTTCATCG
1 TCATCTTCATCG
* *
1343430 CCAGCTTCATCG
1 TCATCTTCATCG
**
1343442 TCATAATCATCG
1 TCATCTTCATCG
1343454 TCATCTTCATCG
1 TCATCTTCATCG
*
1343466 TCAGCTTCATC
1 TCATCTTCATC
1343477 TTCTGCGACC
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 57 1.00
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:1343429 original size:15 final size:15
Alignment explanation
Indices: 1343394--1343445 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
1343384 ATTTGGATCA
* *
1343394 TCATCTTCATCATCA
1 TCATCGTCATCATCT
1343409 TCATCGTCATCATCT
1 TCATCGTCATCATCT
*
1343424 TCATCG-C--CAGCT
1 TCATCGTCATCATCT
1343436 TCATCGTCAT
1 TCATCGTCAT
1343446 AATCATCGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 10 0.32
13 1 0.03
14 1 0.03
15 19 0.61
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (15 bp):
TCATCGTCATCATCT
Found at i:1343438 original size:36 final size:36
Alignment explanation
Indices: 1343398--1343476 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
1343388 GGATCATCAT
* *
1343398 CTTCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATAATCATCATCATCTTCATCGCCAG
* * *
1343434 CTTCATCGTCATAATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATAATCATCATCATCTTCATCGCCAG
1343470 CTTCATC
1 CTTCATC
1343477 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.22, C:0.34, G:0.09, T:0.35
Consensus pattern (36 bp):
CTTCATCATCATAATCATCATCATCTTCATCGCCAG
Found at i:1343479 original size:6 final size:6
Alignment explanation
Indices: 1343394--1343479 Score: 55
Period size: 6 Copynumber: 14.3 Consensus size: 6
1343384 ATTTGGATCA
* * * * * * * *
1343394 TCATCT TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
** * * *
1343442 TCATAA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
1343480 TGCGACCGCT
Statistics
Matches: 60, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:1345459 original size:197 final size:199
Alignment explanation
Indices: 1344937--1345820 Score: 1613
Period size: 197 Copynumber: 4.5 Consensus size: 199
1344927 TTTAAATTAG
1344937 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
1345002 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
* *
1345067 CGACACTTTTTATATATGAATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATAT-T--TAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT-TCTGGAAA
**
1345128 ATTAA
195 AAAAA
*
1345133 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCAGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
1345198 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
1345263 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
*
1345326 TAAA
196 AAAA
1345330 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1345395 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
1345460 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
1345525 AAAAA
195 AAAAA
1345530 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1345595 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
1345660 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1345723 AAAA
196 AAAA
1345727 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
1345792 ATTGTACCAGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
1345821 CCTTTTGGCC
Statistics
Matches: 675, Mismatches: 7, Indels: 11
0.97 0.01 0.02
Matches are distributed among these distances:
195 1 0.00
196 184 0.27
197 267 0.40
198 77 0.11
199 4 0.01
200 142 0.21
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAAA
Found at i:1345740 original size:397 final size:393
Alignment explanation
Indices: 1344937--1345820 Score: 1603
Period size: 397 Copynumber: 2.2 Consensus size: 393
1344927 TTTAAATTAG
1344937 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
1345002 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
* **
1345067 CGACACTTTTTATATATGAATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTTAAATTA
131 CGACACTTTTTATATATGAATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTAAAAAAA
1345132 ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCAGTAT
196 ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCAGTAT
*
1345197 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
261 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGA
*
1345262 TCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
326 TCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1345327 AAA
391 AAA
1345330 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1345395 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
*
1345460 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT-TCTGGAAA
131 CGACACTTTTTATATATGAATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATAT-T---AA
1345524 AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACC
191 AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACC
*
1345589 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATAT
256 AGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATAT
1345654 TGGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT
321 TGGGATCGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCT
1345717 GGAAAAAAAA
385 GG-AAAAAAA
1345727 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
1345792 ATTGTACCAGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
1345821 CCTTTTGGCC
Statistics
Matches: 475, Mismatches: 9, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
393 161 0.34
394 24 0.05
395 20 0.04
396 32 0.07
397 238 0.50
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (393 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
CGACACTTTTTATATATGAATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTAAAAAAA
ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCAGTAT
AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAA
Found at i:1345991 original size:19 final size:19
Alignment explanation
Indices: 1345945--1345993 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1345935 TTATATTCAC
*
1345945 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
1345964 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1345983 ATACAAAATTA
1 ATACAAAATTA
1345994 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1347819 original size:33 final size:33
Alignment explanation
Indices: 1347782--1347847 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1347772 CATCTTAATA
*
1347782 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
1347815 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
1347848 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:1347920 original size:21 final size:21
Alignment explanation
Indices: 1347880--1347944 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
1347870 CCCCTTATGC
* *
1347880 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
1347901 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
1347922 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
1347943 CT
1 CT
1347945 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:1350232 original size:20 final size:19
Alignment explanation
Indices: 1350178--1350223 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
1350168 TCCGGTATCA
1350178 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
*
1350197 TGATACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCAT-TT
1350218 TTTACC
1 TTTACC
1350224 TGTTATATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:1350371 original size:20 final size:20
Alignment explanation
Indices: 1350345--1350390 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
1350335 CACTTTTAAA
1350345 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
1350364 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
1350385 TTTACC
1 TTTACC
1350391 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:1350857 original size:230 final size:227
Alignment explanation
Indices: 1350447--1350905 Score: 792
Period size: 230 Copynumber: 2.0 Consensus size: 227
1350437 TTTTAGGATT
1350447 TATAACTGTTTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCA
1 TATAACTGTTTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCA
**
1350512 CCTACAATATTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATA
66 CCTACAATATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATA
*
1350577 AAATATTATTTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATATTTTCAACA
131 AAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTC-ACA
* *
1350642 GTGAAATAAGTATGGACACTTTTATAAAAATGA
195 GTGAAATAAGTATAGACACTTTTATAAAAAGGA
* *
1350675 TATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTC
1 TATA-ACTGTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTATTTAATAGTGTTTCATGTTTTC
*
1350740 CACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTA
64 CACCTACAATATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTA
* * *
1350805 TAAAATATTATTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATTTTTTCAC
129 TAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAC
1350870 AGTGAAATAAGTATAGACACTTTTATAAAAAGGA
194 AGTGAAATAAGTATAGACACTTTTATAAAAAGGA
1350904 TA
1 TA
1350906 GATAATTTAC
Statistics
Matches: 218, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
228 4 0.02
229 68 0.31
230 146 0.67
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (227 bp):
TATAACTGTTTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCA
CCTACAATATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATA
AAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAG
TGAAATAAGTATAGACACTTTTATAAAAAGGA
Found at i:1356009 original size:3 final size:3
Alignment explanation
Indices: 1356001--1356107 Score: 187
Period size: 3 Copynumber: 35.7 Consensus size: 3
1355991 TTTTTACCCA
1356001 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
1356049 TAT TAT TAT TAT CAT TAT TAT TAT CAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1356097 TAT TAT TAT TA
1 TAT TAT TAT TA
1356108 AATATATATT
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 98 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1358221 original size:17 final size:17
Alignment explanation
Indices: 1358192--1358235 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1358182 TTTAATTTTT
*
1358192 AATTTTT-TCTTTTCAA
1 AATTTTTATATTTTCAA
*
1358208 AATTTTTATATTTTCAT
1 AATTTTTATATTTTCAA
*
1358225 AATATTTATAT
1 AATTTTTATAT
1358236 GTTTTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (17 bp):
AATTTTTATATTTTCAA
Found at i:1358259 original size:15 final size:13
Alignment explanation
Indices: 1358239--1358276 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
1358229 TTTATATGTT
1358239 TTATTTTATTTGCAA
1 TTATTTTATTT-C-A
1358254 TTATTTTATTTCA
1 TTATTTTATTTCA
1358267 TTA-TTTATTT
1 TTATTTTATTT
1358277 TGTCAGAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 1 0.04
15 11 0.48
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (13 bp):
TTATTTTATTTCA
Found at i:1368886 original size:13 final size:12
Alignment explanation
Indices: 1368865--1368909 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
1368855 ATTATGCTTG
*
1368865 AAGAAAAAAGAA
1 AAGAAAAAAAAA
1368877 AAGAAAAAAAAA
1 AAGAAAAAAAAA
1368889 GAAGAAAAAAAAA
1 -AAGAAAAAAAAA
1368902 AA-AAAAAA
1 AAGAAAAAA
1368910 GGGGGTCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
11 6 0.19
12 13 0.42
13 12 0.39
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:1368888 original size:10 final size:10
Alignment explanation
Indices: 1368869--1368910 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
1368859 TGCTTGAAGA
1368869 AAAAAGAAAAG
1 AAAAA-AAAAG
1368880 AAAAAAAAAG
1 AAAAAAAAAG
*
1368890 AAGAAAAAAAA
1 AA-AAAAAAAG
1368901 AAAAAAAAAG
1 AAAAAAAAAG
1368911 GGGGTCAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 14 0.50
11 14 0.50
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:1368894 original size:25 final size:23
Alignment explanation
Indices: 1368864--1368909 Score: 74
Period size: 25 Copynumber: 1.9 Consensus size: 23
1368854 TATTATGCTT
1368864 GAAGAAAAAAGAAAAGAAAAAAAAA
1 GAAGAAAAAA-AAAA-AAAAAAAAA
1368889 GAAGAAAAAAAAAAAAAAAAA
1 GAAGAAAAAAAAAAAAAAAAA
1368910 GGGGGTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 7 0.33
24 4 0.19
25 10 0.48
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (23 bp):
GAAGAAAAAAAAAAAAAAAAAAA
Found at i:1368895 original size:18 final size:16
Alignment explanation
Indices: 1368868--1368907 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
1368858 ATGCTTGAAG
1368868 AAAAAAGAAAAGAAAAA
1 AAAAAAGAAAA-AAAAA
1368885 AAAAGAAGAAAAAAAAA
1 AAAA-AAGAAAAAAAAA
1368902 AAAAAA
1 AAAAAA
1368908 AAGGGGGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.09
17 13 0.59
18 7 0.32
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAA
Found at i:1368900 original size:22 final size:21
Alignment explanation
Indices: 1368865--1368910 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 21
1368855 ATTATGCTTG
1368865 AAGAAAAAAGAAAAGAAAAAAA
1 AAGAAAAAAGAAAA-AAAAAAA
1368887 AAGAAGAAAA-AAAAAAAAAAA
1 AAGAA-AAAAGAAAAAAAAAAA
1368908 AAG
1 AAG
1368911 GGGGTCAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.43
22 9 0.39
23 4 0.17
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (21 bp):
AAGAAAAAAGAAAAAAAAAAA
Found at i:1370155 original size:59 final size:59
Alignment explanation
Indices: 1370089--1370208 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
1370079 ATGTTCTTTG
*
1370089 AGTTATCTGATCTGGTTAGACAGAACCAATCATTGAATTTAGAAGATAAATGTGCTCAT
1 AGTTATCTGATCTGGTTAGACAGAACCAATCATTAAATTTAGAAGATAAATGTGCTCAT
*
1370148 AGTTATCTGATCTGGTTAGACAGAACCAATCATTAAATTTAGAAGATGAATGTGCTCAT
1 AGTTATCTGATCTGGTTAGACAGAACCAATCATTAAATTTAGAAGATAAATGTGCTCAT
1370207 AG
1 AG
1370209 CATCTTCTGG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (59 bp):
AGTTATCTGATCTGGTTAGACAGAACCAATCATTAAATTTAGAAGATAAATGTGCTCAT
Found at i:1370245 original size:83 final size:83
Alignment explanation
Indices: 1370148--1370374 Score: 427
Period size: 83 Copynumber: 2.7 Consensus size: 83
1370138 ATGTGCTCAT
*
1370148 AGTTATCTGATCTGGTTAGACAGAACCAATCATTAAATTTAGAAGATGAATGTGCTCATAGCATC
1 AGTTATCTGATCTGGTTAGACAGAACCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATC
1370213 TTCTGGAAGTGTTCTTTG
66 TTCTGGAAGTGTTCTTTG
1370231 AGTTATCTGATCTGGTTAGACAGAACCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATC
1 AGTTATCTGATCTGGTTAGACAGAACCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATC
1370296 TTCTGGAAGTGTTCTTTG
66 TTCTGGAAGTGTTCTTTG
* *
1370314 AGTTATCTGATCTGGTTAGACAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAG
1 AGTTATCTGATCTGGTTAGACAGAACCAATCATTGAATTTAGAAGATGAATGTGCTCATAG
1370375 TAGAAATAAG
Statistics
Matches: 141, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 141 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (83 bp):
AGTTATCTGATCTGGTTAGACAGAACCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATC
TTCTGGAAGTGTTCTTTG
Found at i:1371351 original size:73 final size:73
Alignment explanation
Indices: 1371232--1371403 Score: 301
Period size: 73 Copynumber: 2.4 Consensus size: 73
1371222 TGAAGAAGGA
1371232 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTTGATGGATCA
1371297 ACATTGCC
66 ACATTGCC
* *
1371305 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTTGATGGATCA
1371370 ACATTGCC
66 ACATTGCC
*
1371378 AGGTA-AAGTTCATAATGAGAAGAACT
1 A-GAAGAAGTTCATAATGAGAAGAACT
1371404 CATCTGAAGA
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
73 93 0.98
74 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (73 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTTGATGGATCA
ACATTGCC
Found at i:1371502 original size:186 final size:188
Alignment explanation
Indices: 1371164--1371516 Score: 545
Period size: 186 Copynumber: 1.9 Consensus size: 188
1371154 GATTCAAATC
* * * *
1371164 CATCACTTGATGGATCAGCTTTTCCAGATAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 CATCACTTGATGGATCAACATTGCCAGATAAAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAA
*
1371229 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTTGATGGA
65 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATCCATCATTTGATGGA
1371294 TCAACATTGCCAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATT
130 TCAACATTGCCAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATT
* *
1371353 CATCATTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAA-C-TCATCTGAAGAAG
1 CATCACTTGATGGATCAACATTGCCAGATAAAGTTCATAATGAGAAGAACCGTCATCTGAAGAAG
*
1371416 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC-C-TGAATCCATCATTTGATGG
66 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTT-CGCTTGAATCCATCATTTGATGG
* *
1371479 ATCATCATTTCCAG-AGAAAGTTCATAATGAGAAGAACT
129 ATCAACATTGCCAGAAG-AAGTTCATAATGAGAAGAACT
1371517 CGTCATCTGA
Statistics
Matches: 151, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
185 2 0.01
186 98 0.65
187 7 0.05
188 1 0.01
189 43 0.28
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (188 bp):
CATCACTTGATGGATCAACATTGCCAGATAAAGTTCATAATGAGAAGAACCGTCATCTGAAGAAG
GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATCCATCATTTGATGGAT
CAACATTGCCAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATT
Found at i:1371503 original size:113 final size:116
Alignment explanation
Indices: 1371305--1371796 Score: 703
Period size: 113 Copynumber: 4.3 Consensus size: 116
1371295 CAACATTGCC
* ***
1371305 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCATTTGATGGATCA
1371370 ACATTGCCAG-GTAAAGTTCATAATGAGAAGAA-C-TCATCTGAAGAAGGA
66 ACATTGCCAGAGTAAAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGGA
* *
1371418 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCATTTGATGGATCA
* *
1371483 TCATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
66 ACATTGCCAGAGTAAAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAAGGA
* * *
1371534 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATT
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATC-ATTTGATGGATC
* * * *
1371599 AGCTTTTCCAGAG-AAGGTTCATAATGAGAAGAA-C-TCATCTGAAGAAGGA
65 AACATTGCCAGAGTAAAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGGA
* * *
1371648 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCATTTGATGGATCA
* *
1371713 ACATTGCCA-AGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAA
66 ACATTGCCAGAGTAAAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAAGGA
* *
1371764 AGAAGAAGTTTATAATAAGAAGAACTTGTTCAA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
1371797 TAATTCTATC
Statistics
Matches: 342, Mismatches: 28, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
112 2 0.01
113 122 0.36
114 64 0.19
115 3 0.01
116 111 0.32
117 40 0.12
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (116 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCATTTGATGGATCA
ACATTGCCAGAGTAAAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGGA
Found at i:1371667 original size:230 final size:229
Alignment explanation
Indices: 1371305--1371796 Score: 745
Period size: 230 Copynumber: 2.1 Consensus size: 229
1371295 CAACATTGCC
* *** *
1371305 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCA
1371370 ACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 ACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * *
1371435 AGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCATCATTTCCAGAG-AAAG
131 AGAAGAACTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCAACATTGCCA-AGTAAAG
*
1371499 TTCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
195 TTCATAATGAGAAGAACTCGTCATCTGAAGAAGAA
* *
1371534 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATT
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATC-AATTGATGGATC
* * * *
1371599 AGCTTTTCCAGAG-AAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
65 AACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* * * * *
1371663 TGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAAGTAGA
129 TGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCAACATTGCCAAGTAAA
1371728 GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAA
194 GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAA
* *
1371764 AGAAGAAGTTTATAATAAGAAGAACTTGTTCAA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
1371797 TAATTCTATC
Statistics
Matches: 237, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
229 49 0.21
230 187 0.79
231 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (229 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCA
ACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCAACATTGCCAAGTAAAGT
TCATAATGAGAAGAACTCGTCATCTGAAGAAGAA
Found at i:1372121 original size:3 final size:3
Alignment explanation
Indices: 1372113--1372189 Score: 118
Period size: 3 Copynumber: 25.7 Consensus size: 3
1372103 TTTTTACCCA
* * *
1372113 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1372161 TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1372190 AATATATATT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1376704 original size:2 final size:2
Alignment explanation
Indices: 1376697--1376728 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1376687 ATCAAAACTC
1376697 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1376729 CAATAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1380798 original size:6 final size:6
Alignment explanation
Indices: 1380787--1380835 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
1380777 ATATTTTTTT
* * *
1380787 ATTATA ATTATA ATTATA ATTATA ATTTTA TATTTTT ATTATA A-TATA
1 ATTATA ATTATA ATTATA ATTATA ATTATA -ATTATA ATTATA ATTATA
1380835 A
1 A
1380836 ATTGATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
5 5 0.13
6 28 0.74
7 5 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
ATTATA
Found at i:1380864 original size:26 final size:24
Alignment explanation
Indices: 1380789--1380906 Score: 73
Period size: 26 Copynumber: 4.6 Consensus size: 24
1380779 ATTTTTTTAT
* *
1380789 TATAATTATAATTATAATTATAATTT
1 TATATTTAT-ATTATAA-TATAATTA
*
1380815 TATATTTTTATTATAATATAAATTGA
1 TATATTTATATTATAATAT-AATT-A
1380841 TATATTTCATA-TATAATGATAATTTCA
1 TATATTT-ATATTATAAT-ATAA-TT-A
*
1380868 TTTAAATTTAT-TTATAATAT-A-TA
1 --TATATTTATATTATAATATAATTA
1380891 TATATTTATATATATA
1 TATATTTATAT-TATA
1380907 TTATTTAGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 23
0.71 0.07 0.22
Matches are distributed among these distances:
21 8 0.11
22 1 0.01
23 5 0.07
24 4 0.05
25 11 0.15
26 23 0.31
27 9 0.12
28 8 0.11
29 6 0.08
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TATATTTATATTATAATATAATTA
Done.