Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008526.1 Hibiscus syriacus cultivar Beakdansim tig00111398_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: 3043201
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 12
Found at i:1180416 original size:19 final size:20
Alignment explanation
Indices: 1180344--1180418 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 20
1180334 ATATTAGACA
* *
1180344 AAATATAATAAATAAATGTTT
1 AAATATAATAAAAAAAT-ATT
*
1180365 AAA-AAAATAGATAAAGAATA-T
1 AAATATAATA-A-AAA-AATATT
1180386 AAATATAGATAAAAAAATATT
1 AAATATA-ATAAAAAAATATT
1180407 AAATA-AATAAAA
1 AAATATAATAAAA
1180419 CAAAATAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
19 6 0.14
20 10 0.23
21 17 0.39
22 5 0.11
23 6 0.14
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (20 bp):
AAATATAATAAAAAAATATT
Found at i:1180521 original size:17 final size:16
Alignment explanation
Indices: 1180484--1180542 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
1180474 GAAAGGGGGA
1180484 AAATAAAAAAAATAGTT
1 AAATAAAAAAAA-AGTT
1180501 ---TAAAAACAAAAGTT
1 AAATAAAAA-AAAAGTT
*
1180515 AAATAAATAAAAACGTT
1 AAATAAA-AAAAAAGTT
*
1180532 AATTAAAAAAA
1 AAATAAAAAAA
1180543 TAGGAAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
14 10 0.29
15 3 0.09
16 4 0.11
17 16 0.46
18 2 0.06
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.22
Consensus pattern (16 bp):
AAATAAAAAAAAAGTT
Found at i:1180527 original size:16 final size:16
Alignment explanation
Indices: 1180484--1180542 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
1180474 GAAAGGGGGA
*
1180484 AAATAAAAAAAATAGTT
1 AAATAAAAAAAA-CGTT
* *
1180501 TAA-AAACAAAA-GTT
1 AAATAAAAAAAACGTT
1180515 AAATAAATAAAAACGTT
1 AAATAAA-AAAAACGTT
*
1180532 AATTAAAAAAA
1 AAATAAAAAAA
1180543 TAGGAAAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
14 5 0.15
15 3 0.09
16 15 0.44
17 11 0.32
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.22
Consensus pattern (16 bp):
AAATAAAAAAAACGTT
Found at i:1180756 original size:2 final size:2
Alignment explanation
Indices: 1180749--1180785 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1180739 TAGTTTTGAA
1180749 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1180786 ACTAAGGCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1181663 original size:9 final size:9
Alignment explanation
Indices: 1181649--1181747 Score: 90
Period size: 10 Copynumber: 10.3 Consensus size: 9
1181639 GCTGCTGGAA
1181649 ACCGGTTTG
1 ACCGGTTTG
*
1181658 ACCGGTTTTCA
1 ACCGG-TTT-G
1181669 ACCGGTTCTG
1 ACCGGTT-TG
1181679 ACCGGTTTG
1 ACCGGTTTG
*
1181688 ACCGGTTTCA
1 ACCGGTTT-G
*
1181698 ACCGGTTCG
1 ACCGGTTTG
1181707 AACCGGTTTG
1 -ACCGGTTTG
*
1181717 ACCGGTCTG
1 ACCGGTTTG
*
1181726 AATCGGTTTG
1 -ACCGGTTTG
*
1181736 ACCGGTCTG
1 ACCGGTTTG
1181745 ACC
1 ACC
1181748 CGACCCGACC
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
9 33 0.45
10 34 0.47
11 6 0.08
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:1181693 original size:19 final size:19
Alignment explanation
Indices: 1181649--1181747 Score: 89
Period size: 19 Copynumber: 5.2 Consensus size: 19
1181639 GCTGCTGGAA
* *
1181649 ACCGGTTTGACCGGTTTTCA
1 ACCGGTTTGACCGGTTCT-G
1181669 ACCGGTTCTGACCGGTT-TG
1 ACCGGTT-TGACCGGTTCTG
*
1181688 ACCGGTTTCAACCGGTTC-G
1 ACCGGTTT-GACCGGTTCTG
1181707 AACCGGTTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
*
1181726 AATCGGTTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
1181745 ACC
1 ACC
1181748 CGACCCGACC
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
18 5 0.07
19 39 0.57
20 16 0.23
21 9 0.13
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.29
Consensus pattern (19 bp):
ACCGGTTTGACCGGTTCTG
Found at i:1181711 original size:29 final size:30
Alignment explanation
Indices: 1181648--1181747 Score: 127
Period size: 29 Copynumber: 3.4 Consensus size: 30
1181638 GGCTGCTGGA
1181648 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
1181679 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
* * *
1181707 AACCGGTTTGACCGGTCTGAATCGGTT-TG
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
*
1181736 -ACCGGTCTGACC
1 AACCGGTTTGACC
1181748 CGACCCGACC
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
28 12 0.19
29 37 0.59
30 14 0.22
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:1181765 original size:17 final size:17
Alignment explanation
Indices: 1181743--1181798 Score: 103
Period size: 17 Copynumber: 3.3 Consensus size: 17
1181733 TTGACCGGTC
*
1181743 TGACCCGACCCGACCAT
1 TGACCCGACCCGACCGT
1181760 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
1181777 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
1181794 TGACC
1 TGACC
1181799 GTTGACCGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.20, C:0.46, G:0.21, T:0.12
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:1181798 original size:7 final size:7
Alignment explanation
Indices: 1181788--1181818 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
1181778 GACCCGACCC
1181788 GACCGTT
1 GACCGTT
1181795 GACCGTT
1 GACCGTT
1181802 GACCGTT
1 GACCGTT
1181809 GACCGTT
1 GACCGTT
1181816 GAC
1 GAC
1181819 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:1182736 original size:31 final size:32
Alignment explanation
Indices: 1182692--1182764 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
1182682 TGTGACTCTT
* *
1182692 AGGTAGGCTCTGCGGCCCTGAGAT-TATTCTC
1 AGGTAGGCCCTGCGGCCCTAAGATGTATTCTC
* * *
1182723 GGGTAGGCCCTGCGGCCCTAAGATGTGTTCTT
1 AGGTAGGCCCTGCGGCCCTAAGATGTATTCTC
1182755 AGGTAGGCCC
1 AGGTAGGCCC
1182765 CACGACCCCG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 21 0.60
32 14 0.40
ACGTcount: A:0.15, C:0.26, G:0.33, T:0.26
Consensus pattern (32 bp):
AGGTAGGCCCTGCGGCCCTAAGATGTATTCTC
Found at i:1183072 original size:27 final size:28
Alignment explanation
Indices: 1183020--1183073 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
1183010 AACTATATAA
*
1183020 TATATATATTTTCAAAAATGTTTTAAAT
1 TATATATATTTTCAAAAATATTTTAAAT
* *
1183048 TATATTTATTTT-TAAAATATTTTAAA
1 TATATATATTTTCAAAAATATTTTAAA
1183074 AACTATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
TATATATATTTTCAAAAATATTTTAAAT
Found at i:1183107 original size:35 final size:33
Alignment explanation
Indices: 1183010--1183161 Score: 154
Period size: 35 Copynumber: 4.5 Consensus size: 33
1183000 TTGGAGGATC
1183010 AACTATATAATATATATATTTTCAAAAATGTTTT-A
1 AACTATATAATATATAT-TTTT--AAAATGTTTTAA
*
1183045 AA-T-TAT-AT-T-TATTTTTAAAATATTTTAAA
1 AACTATATAATATATATTTTTAAAATGTTTT-AA
1183074 AACTATATAATATATATTTTTCAAAATGTTTTAA
1 AACTATATAATATATATTTTT-AAAATGTTTTAA
* *
1183108 AACTATATATTATATTTATTTTAAAAATGTTTTAA
1 AACTATATA--ATATATATTTTTAAAATGTTTTAA
1183143 AACTATAATATATATATAT
1 AACTAT-ATA-ATATATAT
1183162 ATATATATAT
Statistics
Matches: 101, Mismatches: 5, Indels: 22
0.79 0.04 0.17
Matches are distributed among these distances:
27 9 0.09
29 7 0.07
30 4 0.04
31 4 0.04
32 4 0.04
33 4 0.04
34 19 0.19
35 37 0.37
36 13 0.13
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (33 bp):
AACTATATAATATATATTTTTAAAATGTTTTAA
Found at i:1183157 original size:2 final size:2
Alignment explanation
Indices: 1183146--1183174 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1183136 GTTTTAAAAC
1183146 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1183175 AAAAAAGACG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1184612 original size:229 final size:227
Alignment explanation
Indices: 1184207--1184655 Score: 776
Period size: 229 Copynumber: 2.0 Consensus size: 227
1184197 GTAAATTATC
* * *
1184207 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
1184272 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
1184337 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATTT
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAA-TT
1184401 GAAACATAAATTACATAACTTTCAAAAAAGTATA
195 GAAACATAAATTACATAACTTT-AAAAAAGTATA
* *
1184435 TATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
1184500 TTAATATTGTTAAATTT-AAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 TTAATATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
*
1184564 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
1184629 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
1184656 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
228 43 0.20
229 164 0.78
230 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:1184744 original size:20 final size:19
Alignment explanation
Indices: 1184721--1184766 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
1184711 CGATATACCA
1184721 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
1184741 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
1184761 GGTAAA
1 GGTAAA
1184767 TTTAAAAGTG
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:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1184911 original size:20 final size:19
Alignment explanation
Indices: 1184888--1184934 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1184878 CGATATAACA
*
1184888 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
1184908 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
1184928 GGTAAAA
1 GGTAAAA
1184935 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:1187278 original size:33 final size:33
Alignment explanation
Indices: 1187236--1187301 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1187226 AAATAGATGG
*
1187236 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
1187269 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1187302 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1189136 original size:19 final size:19
Alignment explanation
Indices: 1189092--1189135 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1189082 AATGTCGAGT
1189092 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1189111 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1189130 T-ATTTT
1 TAATTTT
1189136 TTATGTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1190184 original size:199 final size:200
Alignment explanation
Indices: 1189217--1190636 Score: 2651
Period size: 198 Copynumber: 7.1 Consensus size: 200
1189207 TTAAGGGTCA
*
1189217 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1189282 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
1189347 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
1189412 TAATG
196 TAATG
1189417 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1189482 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
1189547 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
1189612 TAATG
196 TAATG
1189617 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1189682 CATAAAGTGTCGATCC--ATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
1189745 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
1189810 TAATG
196 TAATG
1189815 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1189880 CATAAAGTGTCGATCC--ATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
1189943 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
1190008 TAATG
196 TAATG
*
1190013 TGTCGACACTAATATATTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1190077 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
1190142 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
1190207 TAATG
196 TAATG
*
1190212 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
1190276 AATAAAGTGTCGATCCATATAT--AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
1190339 GTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
1190404 TAATG
196 TAATG
*
1190409 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1190474 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
1190538 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
131 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
1190603 TAATG
196 TAATG
*
1190608 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
1190637 CAAATTTAAA
Statistics
Matches: 1197, Mismatches: 19, Indels: 9
0.98 0.02 0.01
Matches are distributed among these distances:
197 188 0.16
198 395 0.33
199 336 0.28
200 278 0.23
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (200 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
TAATG
Found at i:1191966 original size:184 final size:184
Alignment explanation
Indices: 1191657--1192144 Score: 904
Period size: 184 Copynumber: 2.7 Consensus size: 184
1191647 CTTTCAACAT
**
1191657 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1191722 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
1191787 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATTGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
1191841 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1191906 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* *
1191971 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTATACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
1192025 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
1192090 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
1192145 CCATTTAAAA
Statistics
Matches: 296, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
184 296 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:1193649 original size:23 final size:23
Alignment explanation
Indices: 1193618--1193681 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1193608 ATAGGTAAAC
*
1193618 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
1193641 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
1193664 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1193682 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:1193688 original size:23 final size:23
Alignment explanation
Indices: 1193618--1193690 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1193608 ATAGGTAAAC
* **
1193618 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1193641 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
1193664 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1193687 ATAT
1 ATAT
1193691 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1193879 original size:29 final size:30
Alignment explanation
Indices: 1193836--1193902 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
1193826 GTTACGGTAT
* *
1193836 ATATTATTATTAAAT-TAAAA-ATTCTAAATA
1 ATATT-TTATAAAATATAAAACAATC-AAATA
1193866 ATATTTTATAAAATATAAAACAATCAAATA
1 ATATTTTATAAAATATAAAACAATCAAATA
*
1193896 ATTTTTT
1 ATATTTT
1193903 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 21 0.66
31 3 0.09
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (30 bp):
ATATTTTATAAAATATAAAACAATCAAATA
Found at i:1194078 original size:23 final size:23
Alignment explanation
Indices: 1194047--1194110 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1194037 ATAGGTAAAC
*
1194047 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
1194070 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
1194093 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1194111 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:1194117 original size:23 final size:23
Alignment explanation
Indices: 1194047--1194119 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1194037 ATAGGTAAAC
* **
1194047 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1194070 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
1194093 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1194116 ATAT
1 ATAT
1194120 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1194506 original size:23 final size:23
Alignment explanation
Indices: 1194475--1194538 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1194465 ATAGGTAAAC
*
1194475 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
1194498 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
1194521 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1194539 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:1194545 original size:23 final size:23
Alignment explanation
Indices: 1194475--1194547 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1194465 ATAGGTAAAC
* **
1194475 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1194498 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
1194521 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1194544 ATAT
1 ATAT
1194548 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1194736 original size:29 final size:30
Alignment explanation
Indices: 1194693--1194759 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
1194683 GTTACGGTAT
* *
1194693 ATATTATTATTAAAT-TAAAA-ATTCTAAATA
1 ATATT-TTATAAAATATAAAACAATC-AAATA
1194723 ATATTTTATAAAATATAAAACAATCAAATA
1 ATATTTTATAAAATATAAAACAATCAAATA
*
1194753 ATTTTTT
1 ATATTTT
1194760 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 21 0.66
31 3 0.09
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (30 bp):
ATATTTTATAAAATATAAAACAATCAAATA
Found at i:1194936 original size:23 final size:23
Alignment explanation
Indices: 1194905--1194968 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1194895 ATAGGTAAAC
*
1194905 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
1194928 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
1194951 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1194969 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:1194975 original size:23 final size:23
Alignment explanation
Indices: 1194905--1194977 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1194895 ATAGGTAAAC
* **
1194905 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1194928 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
1194951 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1194974 ATAT
1 ATAT
1194978 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1195031 original size:430 final size:431
Alignment explanation
Indices: 1193522--1197970 Score: 8701
Period size: 429 Copynumber: 10.4 Consensus size: 431
1193512 AATTCGCAGT
1193522 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTAT-
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1193586 AAAA--ATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
*
1193649 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1193714 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1193779 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
1193844 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATAT-AAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
1193908 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
1193949 ACACTGTT-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1194013 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
1194078 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1194143 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1194207 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
1194271 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
1194336 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
*
1194377 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCATTTTTAT-
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1194441 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
1194506 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1194571 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1194636 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
1194701 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATAT-AAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
1194765 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
1194806 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1194871 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
1194936 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1195001 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1195066 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
1195131 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
1195196 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
1195237 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1195302 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
1195367 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1195432 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1195497 AAGATATTAATTTAGTAATTATAGGCGTCTAATGA-TTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
1195561 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
1195626 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
1195667 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1195732 AAAAGTATGGACACTTTCAAT-AAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
*
1195796 TAATAGGTATCG-TTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1195860 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1195925 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
1195989 ATTAAATT-AAAATTCTAAATAATATTTTATAAAATA-AAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
1196052 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
1196093 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1196157 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
1196222 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1196287 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1196352 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATA-TATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
1196416 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
1196481 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
*
1196522 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCATTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1196586 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
1196651 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1196716 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1196781 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
1196846 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
1196911 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
1196952 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1197017 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
1197082 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1197147 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1197212 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGG--TATA-TATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
1197274 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
1197339 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
1197380 ACACTGTT-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1197444 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
1197509 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1197574 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1197638 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
1197703 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
1197768 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
1197809 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1197874 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
1197939 TAATAGGTATCGTTTATATAATGTAATAGGTA
131 TAATAGGTATCGTTTATATAATGTAATAGGTA
1197971 TCTATCTCGC
Statistics
Matches: 3994, Mismatches: 7, Indels: 39
0.99 0.00 0.01
Matches are distributed among these distances:
425 45 0.01
426 322 0.08
427 470 0.12
428 662 0.17
429 976 0.24
430 885 0.22
431 634 0.16
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (431 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:1195367 original size:23 final size:23
Alignment explanation
Indices: 1195336--1195399 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1195326 ATAGGTAAAC
*
1195336 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
1195359 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
1195382 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1195400 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:1195406 original size:23 final size:23
Alignment explanation
Indices: 1195336--1195408 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1195326 ATAGGTAAAC
* **
1195336 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1195359 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
1195382 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1195405 ATAT
1 ATAT
1195409 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1195560 original size:857 final size:861
Alignment explanation
Indices: 1193522--1197970 Score: 8672
Period size: 857 Copynumber: 5.2 Consensus size: 861
1193512 AATTCGCAGT
1193522 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTAT-
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1193586 AAAA--ATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
*
1193649 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1193714 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1193779 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGG-ATATATTATT
1193844 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATAT-AAAACAATCAAATAATTTTTTGTGCA
325 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
1193908 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAATTGAAACAT
390 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAT
1193972 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAAA
455 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAAA
1194037 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGT
520 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGT
1194102 AATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTCACT
585 AATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
1194166 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
650 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
1194231 GCGTCTAATGATTTA-TTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAAT
715 GCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAAT
1194295 ATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTG
780 ATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTG
1194360 TAGGTGGAAAACATGAA
845 TAGGTGGAAAACATGAA
*
1194377 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCATTTTTAT-
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1194441 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
1194506 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1194571 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1194636 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGG-ATATATTATT
1194701 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATAT-AAAACAATCAAATAATTTTTTGTGCA
325 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
1194765 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAT
390 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAT
1194830 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAAA
455 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAAA
1194895 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGT
520 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGT
1194960 AATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
585 AATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
1195025 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
650 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
1195090 GCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAAT
715 GCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAAT
1195155 ATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTG
780 ATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTG
1195220 TAGGTGGAAAACATGAA
845 TAGGTGGAAAACATGAA
1195237 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1195302 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
1195367 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1195432 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1195497 AAGATATTAATTTAGTAATTATAGGCGTCTAATGA-TTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGG-ATATATTATT
1195561 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
325 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
1195626 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAT
390 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAT
1195691 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT-AA
455 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAAA
1195755 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCG-TTATATAATGT
520 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGT
*
1195819 AATAGGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACT
585 AATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
1195884 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
650 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
1195949 GCGTCTAATGATTTA-TTTTTACGTTACGGTATATATTATTATTAAATT-AAAATTCTAAATAAT
715 GCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAAT
1196012 ATTTTATAAAATA-AAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTG
780 ATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTG
1196076 TAGGTGGAAAACATGAA
845 TAGGTGGAAAACATGAA
1196093 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1196157 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
1196222 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1196287 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1196352 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGG-TATATATATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGATATAT-TATT
1196416 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
325 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
1196481 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAT
390 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAT
*
1196546 AAATTACATAAGTTTT-AAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATAAA
455 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAAA
1196610 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGT
520 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGT
1196675 AATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
585 AATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
1196740 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
650 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
1196805 GCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAAT
715 GCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAAT
1196870 ATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTG
780 ATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTG
1196935 TAGGTGGAAAACATGAA
845 TAGGTGGAAAACATGAA
1196952 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1197017 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
1197082 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
1197147 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
1197212 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGG-TATA-TATTA
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGATATATTATTA
1197275 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
326 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
1197340 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAATTGAAACATA
391 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
1197404 AATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAAAA
456 AATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAAAA
1197469 TAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTA
521 TAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTA
1197534 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTCACTG
586 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
1197598 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
651 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
1197663 CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATA
716 CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATA
1197728 TTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGT
781 TTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGT
1197793 AGGTGGAAAACATGAA
846 AGGTGGAAAACATGAA
1197809 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1197874 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
1197939 TAATAGGTATCGTTTATATAATGTAATAGGTA
131 TAATAGGTATCGTTTATATAATGTAATAGGTA
1197971 TCTATCTCGC
Statistics
Matches: 3571, Mismatches: 7, Indels: 30
0.99 0.00 0.01
Matches are distributed among these distances:
854 49 0.01
855 526 0.15
856 281 0.08
857 841 0.24
858 546 0.15
859 352 0.10
860 593 0.17
861 383 0.11
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (861 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGATATATTATTA
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
AATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAAAA
TAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTA
ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATA
TTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGT
AGGTGGAAAACATGAA
Found at i:1195796 original size:23 final size:23
Alignment explanation
Indices: 1195765--1195827 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 23
1195755 ATAGGTAAAC
*
1195765 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* *
1195788 ATATAATGTAATAGGTA-TCGTT
1 ATATAATGTAATAGGTAGCCCTT
1195810 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1195828 TGGTTATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 20 0.56
23 16 0.44
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:1195814 original size:22 final size:23
Alignment explanation
Indices: 1195765--1195836 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1195755 ATAGGTAAAC
* * *
1195765 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTCGTT
1195788 ATATAATGTAATAGGTA-TCGTT
1 ATATAATGTAATAGGTAGTCGTT
*
1195810 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTCGTT
1195833 ATAT
1 ATAT
1195837 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 20 0.45
23 24 0.55
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTCGTT
Found at i:1196222 original size:23 final size:23
Alignment explanation
Indices: 1196191--1196254 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1196181 ATAGGTAAAC
*
1196191 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
1196214 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
1196237 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1196255 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:1196261 original size:23 final size:23
Alignment explanation
Indices: 1196191--1196263 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1196181 ATAGGTAAAC
* **
1196191 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1196214 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
1196237 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1196260 ATAT
1 ATAT
1196264 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1196651 original size:23 final size:23
Alignment explanation
Indices: 1196620--1196683 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1196610 ATAGGTAAAC
*
1196620 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
1196643 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
1196666 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1196684 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:1196690 original size:23 final size:23
Alignment explanation
Indices: 1196620--1196692 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1196610 ATAGGTAAAC
* **
1196620 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1196643 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
1196666 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1196689 ATAT
1 ATAT
1196693 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1197082 original size:23 final size:23
Alignment explanation
Indices: 1197051--1197114 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1197041 ATAGGTAAAC
*
1197051 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
1197074 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
1197097 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1197115 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:1197121 original size:23 final size:23
Alignment explanation
Indices: 1197051--1197123 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1197041 ATAGGTAAAC
* **
1197051 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1197074 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
1197097 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1197120 ATAT
1 ATAT
1197124 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1197509 original size:23 final size:23
Alignment explanation
Indices: 1197478--1197541 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1197468 ATAGGTAAAC
*
1197478 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
1197501 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
1197524 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1197542 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:1197548 original size:23 final size:23
Alignment explanation
Indices: 1197478--1197550 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1197468 ATAGGTAAAC
* **
1197478 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1197501 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
1197524 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1197547 ATAT
1 ATAT
1197551 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1197971 original size:23 final size:23
Alignment explanation
Indices: 1197908--1197972 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
1197898 ATAGGTAAAC
* *
1197908 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
1197931 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
1197954 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
1197973 TATCTCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:1198220 original size:24 final size:24
Alignment explanation
Indices: 1198168--1198214 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1198158 TTTCATATGT
* *
1198168 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
1198192 AATTTGAGTTTGAATTTTAATAT
1 AATTTGAGTTTGAATTTAAATAT
1198215 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:1201087 original size:23 final size:23
Alignment explanation
Indices: 1201002--1201100 Score: 87
Period size: 23 Copynumber: 4.4 Consensus size: 23
1200992 CATTTAAATG
* *
1201002 ATAAACGAACATAAACGAACACA
1 ATAAATGAACGTAAACGAACACA
* * *
1201025 ATAAACGAACGTAAATGGACACAA
1 ATAAATGAACGTAAACGAACAC-A
* * *
1201049 ATGAATGAACATAAACGAATACA
1 ATAAATGAACGTAAACGAACACA
*
1201072 ATAAATTAACGTAAAC-AA-AC-
1 ATAAATGAACGTAAACGAACACA
1201092 ATAAATGAA
1 ATAAATGAA
1201101 AAAATATTTT
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
20 8 0.13
21 2 0.03
22 2 0.03
23 33 0.53
24 17 0.27
ACGTcount: A:0.59, C:0.15, G:0.11, T:0.15
Consensus pattern (23 bp):
ATAAATGAACGTAAACGAACACA
Found at i:1201098 original size:47 final size:47
Alignment explanation
Indices: 1201008--1201100 Score: 123
Period size: 47 Copynumber: 2.0 Consensus size: 47
1200998 AATGATAAAC
***
1201008 GAACATAAACGAACACAATAAACGAACGTAAATGGACACAAATGAAT
1 GAACATAAACGAACACAATAAACGAACGTAAACAAACACAAATGAAT
* ** *
1201055 GAACATAAACGAATACAATAAATTAACGTAAACAAACATAAATGAA
1 GAACATAAACGAACACAATAAACGAACGTAAACAAACACAAATGAA
1201101 AAAATATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (47 bp):
GAACATAAACGAACACAATAAACGAACGTAAACAAACACAAATGAAT
Found at i:1201285 original size:14 final size:14
Alignment explanation
Indices: 1201264--1201330 Score: 52
Period size: 14 Copynumber: 5.1 Consensus size: 14
1201254 AGATTGGACT
1201264 AAATATAAATGAAC
1 AAATATAAATGAAC
** *
1201278 GCATATAAACGAAC
1 AAATATAAATGAAC
*
1201292 AAACATAAATGAAC
1 AAATATAAATGAAC
*
1201306 ----ATAAACGAAC
1 AAATATAAATGAAC
*
1201316 AAACATAAATGAAC
1 AAATATAAATGAAC
1201330 A
1 A
1201331 TAAACGAATA
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
10 9 0.22
14 31 0.77
ACGTcount: A:0.61, C:0.15, G:0.09, T:0.15
Consensus pattern (14 bp):
AAATATAAATGAAC
Found at i:1201313 original size:24 final size:24
Alignment explanation
Indices: 1201282--1201338 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
1201272 ATGAACGCAT
1201282 ATAAACGAACAAACATAAATGAAC
1 ATAAACGAACAAACATAAATGAAC
1201306 ATAAACGAACAAACATAAATGAAC
1 ATAAACGAACAAACATAAATGAAC
1201330 ATAAACGAA
1 ATAAACGAA
1201339 TATATTATCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.63, C:0.16, G:0.09, T:0.12
Consensus pattern (24 bp):
ATAAACGAACAAACATAAATGAAC
Found at i:1201856 original size:19 final size:19
Alignment explanation
Indices: 1201834--1201873 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1201824 TACAAATAAT
1201834 TATTTTAAT-TTGTATATTA
1 TATTTTAATCTT-TATATTA
*
1201853 TATTTTACTCTTTATATTA
1 TATTTTAATCTTTATATTA
1201872 TA
1 TA
1201874 AAAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (19 bp):
TATTTTAATCTTTATATTA
Found at i:1207201 original size:6 final size:6
Alignment explanation
Indices: 1207190--1207230 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
1207180 ATTTGCCTTG
1207190 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCC
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCC
1207231 CAAAGGGTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.15, C:0.68, G:0.00, T:0.17
Consensus pattern (6 bp):
CCTCCA
Found at i:1207868 original size:5 final size:5
Alignment explanation
Indices: 1207860--1207908 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
1207850 TTGGATGAAA
** *
1207860 AAAAT AAAAT AAAAT AAAAT TGAAT AAGAT AAAAT -AAAT GAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
1207909 ATATATATAC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
4 4 0.11
5 28 0.78
6 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:1207905 original size:20 final size:22
Alignment explanation
Indices: 1207860--1207908 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
1207850 TTGGATGAAA
1207860 AAAATAAAATAAAATAAAATTG
1 AAAATAAAATAAAATAAAATTG
*
1207882 --AATAAGATAAAAT-AAA-TG
1 AAAATAAAATAAAATAAAATTG
1207900 AAAATAAAA
1 AAAATAAAA
1207909 ATATATATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
18 2 0.09
19 3 0.13
20 18 0.78
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (22 bp):
AAAATAAAATAAAATAAAATTG
Found at i:1212388 original size:21 final size:21
Alignment explanation
Indices: 1212364--1212476 Score: 151
Period size: 21 Copynumber: 5.4 Consensus size: 21
1212354 TTGTACCAAG
1212364 GACGAGAATAG-CATTCATCAA
1 GACGAGAAT-GCCATTCATCAA
*
1212385 GACGAGAATGTCATTCATCAA
1 GACGAGAATGCCATTCATCAA
1212406 GACGAGAATGCCATTCATCAA
1 GACGAGAATGCCATTCATCAA
*
1212427 GACGAGAAGGCCATTCATCAA
1 GACGAGAATGCCATTCATCAA
*
1212448 GACGAGAA-GACCTTTCAT-AA
1 GACGAGAATG-CCATTCATCAA
1212468 CGACGAGAA
1 -GACGAGAA
1212477 GACCTTCATA
Statistics
Matches: 86, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
20 4 0.05
21 82 0.95
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (21 bp):
GACGAGAATGCCATTCATCAA
Found at i:1212486 original size:20 final size:21
Alignment explanation
Indices: 1212364--1212506 Score: 145
Period size: 21 Copynumber: 6.8 Consensus size: 21
1212354 TTGTACCAAG
* *
1212364 GACGAGAATAGCATTCATCAA
1 GACGAGAAGACCATTCATCAA
*
1212385 GACGAGAATG-TCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
1212406 GACGAGAATG-CCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
*
1212427 GACGAGAAGGCCATTCATCAA
1 GACGAGAAGACCATTCATCAA
*
1212448 GACGAGAAGACCTTTCAT-AA
1 GACGAGAAGACCATTCATCAA
1212468 CGACGAGAAGACC-TTCAT-AA
1 -GACGAGAAGACCATTCATCAA
1212488 CGAC-ATGAAGACCACTTCA
1 -GACGA-GAAGACCA-TTCA
1212507 CATTGGAGGT
Statistics
Matches: 111, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.01
20 21 0.19
21 85 0.77
22 4 0.04
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (21 bp):
GACGAGAAGACCATTCATCAA
Found at i:1217348 original size:70 final size:71
Alignment explanation
Indices: 1217263--1217423 Score: 220
Period size: 70 Copynumber: 2.3 Consensus size: 71
1217253 TGGAGAAAAG
1217263 TCAATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATC-TGAAGCCTTCACC-G-GAATAG
1 TCAAT-CTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-AAGCCTTCACCAGAGAATAG
1217325 TGAAGCAA
64 TGAAGCAA
* *
1217333 TCAATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCATAAGTCTTCACCAGAGAGTAGT
1 TCAATCT-AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCATAAGCCTTCACCAGAGAATAGT
1217398 GAAGCAA
65 GAAGCAA
* * *
1217405 ACCATCTTAAGTCTTCACC
1 TCAATC-TAAGCCTTCACC
1217424 AAAAAGTAGT
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
69 2 0.02
70 49 0.60
71 2 0.02
72 27 0.33
73 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.20
Consensus pattern (71 bp):
TCAATCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCATAAGCCTTCACCAGAGAATAGTG
AAGCAA
Found at i:1217424 original size:36 final size:36
Alignment explanation
Indices: 1217270--1217457 Score: 220
Period size: 36 Copynumber: 5.2 Consensus size: 36
1217260 AAGTCAATCC
*
1217270 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
1 TAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCT
* * *
1217306 GAAGCCTTCACC-G-GAATAGTGAAGCAATCAATCT
1 TAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCT
* * *
1217340 GAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCA
1 TAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCT
* *
1217376 TAAGTCTTCACCAGAGAGTAGTGAAGCAAACCATCT
1 TAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCT
* * * *
1217412 TAAGTCTTCACCA-AAAAGTAGTGAAGCAGATCCATTT
1 TAAGCCTTCACCAGAGAA-TAGTGAAGCA-AACCATCT
1217449 TAAGCCTTC
1 TAAGCCTTC
1217458 TCAGAAGAGT
Statistics
Matches: 132, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
34 31 0.23
35 4 0.03
36 83 0.63
37 14 0.11
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (36 bp):
TAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCT
Found at i:1217439 original size:72 final size:70
Alignment explanation
Indices: 1217271--1217457 Score: 198
Period size: 70 Copynumber: 2.6 Consensus size: 70
1217261 AGTCAATCCT
* * *
1217271 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGGAATAGTGAAGCAATCA
1 AAGCCTTCACCGAAAAATAGTGAAGCAAACCATCTGAAGCCTTCACCGGAATAGTGAAGCAAACA
1217336 ATCTG
66 ATCTG
* * * *
1217341 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-AAGTCTTCACCAGAGAGTAGTGAAGCAA
1 AAGCCTTCACCGAAAAATAGTGAAGCAAACCATC-TGAAGCCTTCACC-G-GAATAGTGAAGCAA
* *
1217405 ACCATCTT
63 ACAATCTG
* * * *
1217413 AAGTCTTCACC-AAAAAGTAGTGAAGCAGATCCATTTTAAGCCTTC
1 AAGCCTTCACCGAAAAA-TAGTGAAGCA-AACCATCTGAAGCCTTC
1217458 TCAGAAGAGT
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
70 44 0.44
71 5 0.05
72 39 0.39
73 12 0.12
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (70 bp):
AAGCCTTCACCGAAAAATAGTGAAGCAAACCATCTGAAGCCTTCACCGGAATAGTGAAGCAAACA
ATCTG
Found at i:1217904 original size:51 final size:51
Alignment explanation
Indices: 1217839--1218726 Score: 720
Period size: 51 Copynumber: 16.8 Consensus size: 51
1217829 AAGATTATTT
* *
1217839 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGAAGATGTCC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * *
1217890 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * *
1217941 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * *
1217992 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATG-T-TC
* * * *
1218044 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGGACCCGTGTGAAGATATCC
1 -GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * *
1218096 GAGTTCTATACTCCCTAAAGAAAGAGGGAGTGAACCCGTTTGAAGATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * *
1218147 GAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTAAAGAATATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT---GAAGATGTTC
*
1218201 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAAGAGATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-A-AGATGTTC
* * * * *
1218254 GAGTTCCATACTCCTTAAAGAAAGAAGGAGAGAACCCGTTTGAAAATTGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGA-TGTTC
* * * *
1218306 GAGTTCTATACTCCCTAGAGAAAGAGAGAGCGAACTCGTTTGCAGAAGATATTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT---GAAGATGTTC
* * *
1218360 GAGTTCCATAATCCCTAGAGAAAGAGGGAACGAACCCGATTGTTGAAGTTTGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG--T-TTGAAG-ATGTTC
* * * * * *
1218415 GAG-TCTTATACTCTCT-GAAAGAATAGGGAGC-AGACACGATTGTTGAAGATTATTC
1 GAGTTC-CATACTCCCTAGAGA-AAGAGGGAGCGA-ACCCG--T-TTGAAGA-TGTTC
* * * * *
1218470 GAG-TCTCATACTCTCT-GAAAGAATAGGGAG-TAGACACGATTGTTGAAGATTGTTC
1 GAGTTC-CATACTCCCTAGAGA-AAGAGGGAGCGA-ACCCG--T-TTGAAGA-TGTTC
* * * *
1218525 GAG-TCTCATACTCTCT-GAAGAAATAGGGGGC-AGACGCGATTGATGAAGATTGTTC
1 GAGTTC-CATACTCCCTAG-AGAAAGAGGGAGCGA-ACCCG-TT--TGAAGA-TGTTC
* ** * * * ** * *
1218580 GAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTTT
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT---TTGAAGATGTTC
* *
1218634 GAGTTCTATACTCCCT-GAAGAAAGAGGGAGTGAACCCAG-TTGAAGATGTTC
1 GAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCC-GTTTGAAGATGTTC
* * *
1218685 GAGTTCCATACTCCCTAGAGAAATAGAGAGCGAACCCATTTG
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG
1218727 TTGAAGATTG
Statistics
Matches: 703, Mismatches: 98, Indels: 72
0.81 0.11 0.08
Matches are distributed among these distances:
50 1 0.00
51 264 0.38
52 45 0.06
53 87 0.12
54 129 0.18
55 169 0.24
56 6 0.01
57 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (51 bp):
GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
Found at i:1218119 original size:155 final size:156
Alignment explanation
Indices: 1217839--1218397 Score: 770
Period size: 155 Copynumber: 3.6 Consensus size: 156
1217829 AAGATTATTT
* * *
1217839 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTT---GAAGATGTCCGAGTTCCATAC
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATAC
* *
1217901 TCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGA
66 TCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCCGAGTTCTATACTCCTTAAAGAAAGA
*
1217966 AGGAGCGAACCCGTTTGAAGATGTTC
131 AGGAGAGAACCCGTTTGAAGATGTTC
* *
1217992 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-AGATG-TCTGAGTTCCATA
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGAAGATGTTC-GAGTTCCATA
* *
1218055 CTCCCTAGAGAAAGAGGGAGCGGACCCGTGTGAAGATATCCGAGTTCTATACTCCCTAAAGAAAG
65 CTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCCGAGTTCTATACTCCTTAAAGAAAG
* *
1218120 AGGGAGTGAACCCGTTTGAAGATGTTC
130 AAGGAGAGAACCCGTTTGAAGATGTTC
* ** * *
1218147 GAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTAAAGAATATGTTCGAGTTCCATAC
1 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATAC
* * * * *
1218212 TCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAAGAGATGTTCGAGTTCCATACTCCTTAAAGAAA
66 TCCCTAGAGAAAGAGGGAGCGAACCCGTGTG-A-AGATATCCGAGTTCTATACTCCTTAAAGAAA
*
1218277 GAAGGAGAGAACCCGTTTGAAAATTGTTC
129 GAAGGAGAGAACCCGTTTGAAGA-TGTTC
* * * *
1218306 GAGTTCTATACTCCCTAGAGAAAG-AGAGAGCGAACTCGTTTGCAGAAGATATTCGAGTTCCATA
1 GAGTTCCATACTCCCTAGAGAAAGAAG-GAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATA
* *
1218370 ATCCCTAGAGAAAGAGGGAACGAACCCG
65 CTCCCTAGAGAAAGAGGGAGCGAACCCG
1218398 ATTGTTGAAG
Statistics
Matches: 359, Mismatches: 37, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
153 37 0.10
154 1 0.00
155 140 0.39
156 44 0.12
157 3 0.01
158 48 0.13
159 86 0.24
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.22
Consensus pattern (156 bp):
GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATAC
TCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCCGAGTTCTATACTCCTTAAAGAAAGA
AGGAGAGAACCCGTTTGAAGATGTTC
Found at i:1218455 original size:55 final size:55
Alignment explanation
Indices: 1218396--1218938 Score: 473
Period size: 55 Copynumber: 10.1 Consensus size: 55
1218386 GGAACGAACC
* *
1218396 CGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAA-AGAATAGGGAGCAGACA
1 CGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGGGAGCAGACA
* * * *
1218451 CGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAA-AGAATAGGGAGTAGACA
1 CGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGGGAGCAGACA
* * * *
1218506 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACA
* * * * * *
1218561 CGATTGATGAAGATTGTTCGAGT-TCTATACTCTTTAAAGAGAGAAGGAGC-GAACC
1 CGATTGATGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGCAG-ACA
* * * * * *
1218616 CG-TAAGAAGAAGATT-TTTGAGT-TCTATACTCCCTGAAGAAAGAGGGAG-TGA-A
1 CGAT-TGATGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGCAGACA
* * * * *
1218668 CCCA--GTTGAAGA-TGTTCGAGT-TCCATACTCCCT-AGAGAAATAGAGAGC-GA-A
1 -CGATTGATGAAGATTGTTCGAGTCT-TATACTCTCTGA-AGAAATAGGGAGCAGACA
* * * *
1218719 CCCATTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 -CGA-TTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACA
* * *
1218776 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACA
* * *
1218829 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACA
* * *
1218882 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGATATAGGGGGCAGACA
1 CGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACA
1218935 CGAT
1 CGAT
1218939 CGTGGAAGCA
Statistics
Matches: 427, Mismatches: 43, Indels: 38
0.84 0.08 0.07
Matches are distributed among these distances:
50 2 0.00
51 40 0.09
53 145 0.34
54 40 0.09
55 193 0.45
56 7 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (55 bp):
CGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACA
Found at i:1218855 original size:106 final size:109
Alignment explanation
Indices: 1218396--1218938 Score: 489
Period size: 106 Copynumber: 5.0 Consensus size: 109
1218386 GGAACGAACC
* * * * *
1218396 CGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAA-AGAATAGGGAGCAGACACGATTGTTG
1 CGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGGGGGCAGACGCGATTGATG
* * *
1218460 AAGATTATTCGAGTCTCATACTCTCTGAA-AGAATAGGGAGTAGACA
65 AAGATT-GTCGAGTCTTATACTCTCTGAAGA-AATAGGGAGCAGACA
* *
1218506 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
1 CGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
* * * * * *
1218571 AGATTGTTCGAGT-TCTATACTCTTTAAAGAGAGAAGGAGC-GAACC
66 AGATTG-TCGAGTCT-TATACTCTCTGAAGAAATAGGGAGCAG-ACA
* * * * * *
1218616 CG-TAAGAAGAAGATT-TTTGAGT-TCTATACTCCCTGAAGAAAGAGGGAGTG-A-AC-CCA--G
1 CGAT-TGATGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGG-G-GCAGACGCGATTG
* * * *
1218673 TTGAAGA-TGTTCGAGT-TCCATACTCCCT-AGAGAAATAGAGAGC-GA-A
62 ATGAAGATTG-TCGAGTCT-TATACTCTCTGA-AGAAATAGGGAGCAGACA
* *
1218719 CCCATTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
1 -CGA-TTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
* * *
1218784 GAAGATTGT-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
64 GAAGATTGTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACA
*
1218829 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
1 CGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
* * *
1218892 AGATTGT-GGGTCTTATACTCTCTGAAGATATAGGGGGCAGACA
66 AGATTGTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACA
1218935 CGAT
1 CGAT
1218939 CGTGGAAGCA
Statistics
Matches: 357, Mismatches: 51, Indels: 54
0.77 0.11 0.12
Matches are distributed among these distances:
104 4 0.01
105 38 0.11
106 126 0.35
107 4 0.01
108 37 0.10
109 44 0.12
110 101 0.28
111 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (109 bp):
CGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
AGATTGTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACA
Found at i:1218895 original size:215 final size:217
Alignment explanation
Indices: 1218415--1218895 Score: 508
Period size: 215 Copynumber: 2.2 Consensus size: 217
1218405 AAGTTTGTTC
*
1218415 GAGTCTTATACTCTCTGAA-AGAATAGGGAGCAGACACGATTGTTGAAGATTATTCGAGTCTCAT
1 GAGTCTTATACTCTCTGAAGA-AATAGGGGGCAGAC-CGATTGTTGAAGA-TATTCGAGTCTCAT
* * * *
1218479 ACTCTCTGAAAGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAA
63 ACTCCCTGAAAGAATAGAGAGGAGACACCATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAA
* *
1218544 GAAATAGGGGGCAGACGCGATTGATGAAGATTGTTCGAGTTCTATACTCTTTAAAGAGAGAAGGA
128 GAAATAGGGGGCAGACGCGATTGATGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAAGGA
*
1218609 GCGAACCCGTAAGAAGAAGATTTTT
193 GCGAACCCGTAAGAAGAAGATTTGT
* * * *
1218634 GAGT-TCTATACTCCCTGAAGAAAGAGGGAGTG-A-ACCCA--GTTGAAGATGTTCGAGT-TCCA
1 GAGTCT-TATACTCTCTGAAGAAATAGGG-G-GCAGACCGATTGTTGAAGATATTCGAGTCT-CA
* *
1218693 TACTCCCT-AGAGAAATAGAGAGCGA-AC-CCATTTGTTGAAGATTGTTCGAGTCTTATACTCTC
62 TACTCCCTGAAAG-AATAGAGAG-GAGACACCA-TTGTTGAAGATTGTTCGAGTCTCATACTCTC
* * *
1218755 TGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTG-T-G-GGTCTTATACTCTCTGAAGAAAT
124 TGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTTCGAGTTC-TATACTCTCTAAAGAAAG
* * * * *
1218817 AGGGGGC-AGACGCG-ATTGATGAAGA-TTGT
188 AAGGAGCGA-ACCCGTA-AGAAGAAGATTTGT
* *
1218846 GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGAT
1 GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CGATTGTTGAAGAT
1218896 TGTGGGTCTT
Statistics
Matches: 218, Mismatches: 27, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
210 1 0.00
211 2 0.01
212 33 0.15
213 34 0.16
214 7 0.03
215 102 0.47
216 9 0.04
218 3 0.01
219 24 0.11
220 2 0.01
221 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (217 bp):
GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACCGATTGTTGAAGATATTCGAGTCTCATACT
CCCTGAAAGAATAGAGAGGAGACACCATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAA
ATAGGGGGCAGACGCGATTGATGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAAGGAGCG
AACCCGTAAGAAGAAGATTTGT
Found at i:1222702 original size:30 final size:30
Alignment explanation
Indices: 1222649--1222738 Score: 80
Period size: 29 Copynumber: 3.0 Consensus size: 30
1222639 TTTCGACATG
**
1222649 TATAATATAATAAAATACTAAATAGTAATAATA
1 TATAATA-AAT-AAATAAAAAATA-TAATAATA
*
1222682 -ATAATAAATAAATAAAAAATA-AATATACA
1 TATAATAAATAAATAAAAAATATAATA-ATA
*
1222711 TATAAT-AATAACTAAAAAA-ATAATAATA
1 TATAATAAATAAATAAAAAATATAATAATA
1222739 GGGTTGATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
28 7 0.14
29 18 0.37
30 15 0.31
31 3 0.06
32 6 0.12
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (30 bp):
TATAATAAATAAATAAAAAATATAATAATA
Found at i:1222789 original size:3 final size:3
Alignment explanation
Indices: 1222764--1222805 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
1222754 AAATGTATGT
*
1222764 ATA AT- ATA ATA A-A ATA CTAA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
1222806 ATAAAAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.12
3 28 0.82
4 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:1224130 original size:42 final size:43
Alignment explanation
Indices: 1224032--1224142 Score: 163
Period size: 42 Copynumber: 2.6 Consensus size: 43
1224022 TAAGTTATTC
*
1224032 AATTTAGTTCAATATATTAAGGAAATGAGAAAAAAAAATAAGAA
1 AATTTAGTTCAATATATTAAAGAAATGAG-AAAAAAAATAAGAA
* *
1224076 AATTTAGTTCAATATATTAAAGAAAGTGAG-GAGAAAA-AAGAA
1 AATTTAGTTCAATATATTAAAGAAA-TGAGAAAAAAAATAAGAA
1224118 AATTTAGTTCAATATATTAAAGAAA
1 AATTTAGTTCAATATATTAAAGAAA
1224143 AGAAGTATTA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
42 30 0.48
43 5 0.08
44 24 0.38
45 4 0.06
ACGTcount: A:0.56, C:0.03, G:0.14, T:0.27
Consensus pattern (43 bp):
AATTTAGTTCAATATATTAAAGAAATGAGAAAAAAAATAAGAA
Found at i:1224715 original size:2 final size:2
Alignment explanation
Indices: 1224708--1224741 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1224698 ATATAAAGAA
1224708 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1224742 TGTATATGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1227363 original size:26 final size:25
Alignment explanation
Indices: 1227308--1227364 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
1227298 AAAATGCAAG
*
1227308 TTAA-AAATAATAATATTATAATTT
1 TTAATAAATAATAATATTATAATAT
* *
1227332 TCTAATAAATAATATTATTTATTATAT
1 T-TAATAAATAATAATA-TTATAATAT
1227359 TTAATA
1 TTAATA
1227365 TTTATAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.04
25 3 0.11
26 15 0.56
27 8 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAATAAATAATAATATTATAATAT
Found at i:1228002 original size:29 final size:29
Alignment explanation
Indices: 1227920--1228003 Score: 68
Period size: 29 Copynumber: 3.0 Consensus size: 29
1227910 ATATTTTTTT
* *
1227920 AAAT-AATAAGTCCTCAAACTTTCT--AA
1 AAATAAATAAGTCATCAAATTTTCTAAAA
* * * *
1227946 AAATCAATTAAGTAAT-AACTTTAGCTAAAA
1 AAAT-AAATAAGTCATCAAATTT-TCTAAAA
1227976 AAATAAATAAGTCATCAAATTTTCTAAA
1 AAATAAATAAGTCATCAAATTTTCTAAA
1228004 TCTATTTTAC
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
26 4 0.10
27 4 0.10
28 9 0.21
29 14 0.33
30 11 0.26
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (29 bp):
AAATAAATAAGTCATCAAATTTTCTAAAA
Found at i:1233029 original size:24 final size:23
Alignment explanation
Indices: 1232997--1233063 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 23
1232987 CATTTAAATG
1232997 ATAAACGAACACAAATGAACGAAC
1 ATAAACGAACA-AAATGAACGAAC
* *
1233021 ATAAACGAACAAACGTAAACGAAC
1 ATAAACGAACAAA-ATGAACGAAC
*
1233045 ATAAACGAACGTAAATGAA
1 ATAAACGAAC-AAAATGAA
1233064 AATATTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 2 0.06
24 32 0.89
25 2 0.06
ACGTcount: A:0.58, C:0.18, G:0.13, T:0.10
Consensus pattern (23 bp):
ATAAACGAACAAAATGAACGAAC
Found at i:1233055 original size:14 final size:14
Alignment explanation
Indices: 1233000--1233044 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
1232990 TTAAATGATA
* *
1233000 AACGAACACAAATG
1 AACGAACATAAACG
1233014 AACGAACATAAACG
1 AACGAACATAAACG
* *
1233028 AACAAACGTAAACG
1 AACGAACATAAACG
1233042 AAC
1 AAC
1233045 ATAAACGAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.58, C:0.22, G:0.13, T:0.07
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:1233265 original size:14 final size:15
Alignment explanation
Indices: 1233230--1233265 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
1233220 GATTGGACTA
1233230 AACAT-AATTAAACG
1 AACATAAATTAAACG
1233244 AACATAAATT-AACG
1 AACATAAATTAAACG
1233258 AACATAAA
1 AACATAAA
1233266 GGAACATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.61, C:0.14, G:0.06, T:0.19
Consensus pattern (15 bp):
AACATAAATTAAACG
Found at i:1238762 original size:21 final size:21
Alignment explanation
Indices: 1238738--1238804 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
1238728 AGTACCCATA
1238738 TATTTTAAAATATATTTATTT
1 TATTTTAAAATATATTTATTT
* *
1238759 TATTTTTAAATATTTTTATATT
1 TATTTTAAAATATATTTAT-TT
* * *
1238781 AAATTTATAAAAAATATATATTT
1 -TATTT-TAAAATATATTTATTT
1238804 T
1 T
1238805 CTAAAAAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
21 17 0.49
22 2 0.06
23 6 0.17
24 10 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTTAAAATATATTTATTT
Found at i:1241115 original size:63 final size:63
Alignment explanation
Indices: 1241012--1241133 Score: 235
Period size: 63 Copynumber: 1.9 Consensus size: 63
1241002 TATACATTAC
*
1241012 ATAATGCTTTTCTAGATGCTTATATATGGTTATATGCAATCTCAAGTTAGCAATTAGAAATGT
1 ATAATGCTTTTCTAGATGCTTATATATGGTTATATACAATCTCAAGTTAGCAATTAGAAATGT
1241075 ATAATGCTTTTCTAGATGCTTATATATGGTTATATACAATCTCAAGTTAGCAATTAGAA
1 ATAATGCTTTTCTAGATGCTTATATATGGTTATATACAATCTCAAGTTAGCAATTAGAA
1241134 GAGACGTGTC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (63 bp):
ATAATGCTTTTCTAGATGCTTATATATGGTTATATACAATCTCAAGTTAGCAATTAGAAATGT
Found at i:1246644 original size:109 final size:109
Alignment explanation
Indices: 1246453--1246685 Score: 421
Period size: 109 Copynumber: 2.1 Consensus size: 109
1246443 TTTTTTTATT
* *
1246453 TCATCTCATTATCTTTATAAAAATTGTAAATTTTTTCACTTATTTTTCGTCATCATTAGAAATTA
1 TCATCTTATTATCTTTATAAAAATTGTAAATTTTTTCACTTATTTTTCGTCATCATTAAAAATTA
*
1246518 TCAATCTATGACATCTTTTACGATCATTAGAAATATAGATAATC
66 TCAATATATGACATCTTTTACGATCATTAGAAATATAGATAATC
1246562 TCATCTTATTATCTTTATAAAAATTGTAAATTTTTTCACTTATTTTTCGTCATCATTAAAAATTA
1 TCATCTTATTATCTTTATAAAAATTGTAAATTTTTTCACTTATTTTTCGTCATCATTAAAAATTA
* *
1246627 TCAATATATGACATCTTTTACGATCATTAGGAATATCGATAATC
66 TCAATATATGACATCTTTTACGATCATTAGAAATATAGATAATC
1246671 TCATCTTATTATCTT
1 TCATCTTATTATCTT
1246686 CTAACACTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 119 1.00
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (109 bp):
TCATCTTATTATCTTTATAAAAATTGTAAATTTTTTCACTTATTTTTCGTCATCATTAAAAATTA
TCAATATATGACATCTTTTACGATCATTAGAAATATAGATAATC
Found at i:1249627 original size:12 final size:12
Alignment explanation
Indices: 1249605--1249642 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1249595 AGGAACAGGA
1249605 AAAACAAAAAAC
1 AAAACAAAAAAC
1249617 AAAA-AACAAAAC
1 AAAACAA-AAAAC
*
1249629 AAAACAAGAAAC
1 AAAACAAAAAAC
1249641 AA
1 AA
1249643 TCACAGAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 2 0.09
12 19 0.83
13 2 0.09
ACGTcount: A:0.82, C:0.16, G:0.03, T:0.00
Consensus pattern (12 bp):
AAAACAAAAAAC
Found at i:1255739 original size:19 final size:20
Alignment explanation
Indices: 1255715--1255761 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1255705 CGGTTGAACC
1255715 GCCGGTTCAC-ACCGATTTT
1 GCCGGTTCACAACCGATTTT
* *
1255734 GCCGGTTCCCAACCGGTTTT
1 GCCGGTTCACAACCGATTTT
*
1255754 ACCGGTTC
1 GCCGGTTC
1255762 TTTAGCGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.13, C:0.34, G:0.23, T:0.30
Consensus pattern (20 bp):
GCCGGTTCACAACCGATTTT
Found at i:1258818 original size:22 final size:22
Alignment explanation
Indices: 1258793--1258837 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
1258783 ACCACAATCT
1258793 ATAAAAT-TATAAAATATTTAAA
1 ATAAAATCTA-AAAATATTTAAA
1258815 ATAAAATCTAAAAATATTTAAA
1 ATAAAATCTAAAAATATTTAAA
1258837 A
1 A
1258838 ATATAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAAAATCTAAAAATATTTAAA
Found at i:1259563 original size:2 final size:2
Alignment explanation
Indices: 1259491--1259547 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
1259481 AAGCATGTCA
1259491 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1259533 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
1259548 GTCACTTCAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1263018 original size:17 final size:17
Alignment explanation
Indices: 1262969--1263028 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
1262959 TTAACATACT
*
1262969 ATATCATCATGCATATA
1 ATATCATCATGCACATA
* *
1262986 ATATCATTCGT-AACATA
1 ATATCA-TCATGCACATA
* *
1263003 TTATCATCATGCACATC
1 ATATCATCATGCACATA
*
1263020 ATGTCATCA
1 ATATCATCA
1263029 ACATATACCA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
16 3 0.09
17 26 0.81
18 3 0.09
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (17 bp):
ATATCATCATGCACATA
Found at i:1269506 original size:25 final size:26
Alignment explanation
Indices: 1269478--1269538 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
1269468 ACATTAAATT
*
1269478 TTGCATCT-GTCCTTACCTCCTTCAG
1 TTGCATCTCGTCCTTACCTACTTCAG
*
1269503 TTGC-TTTCGTCCTTACCTACTTCAG
1 TTGCATCTCGTCCTTACCTACTTCAG
1269528 TTGCAT-TCGTC
1 TTGCATCTCGTC
1269539 TATATCATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 2 0.06
25 29 0.91
26 1 0.03
ACGTcount: A:0.11, C:0.33, G:0.13, T:0.43
Consensus pattern (26 bp):
TTGCATCTCGTCCTTACCTACTTCAG
Found at i:1271235 original size:23 final size:23
Alignment explanation
Indices: 1271205--1271290 Score: 111
Period size: 23 Copynumber: 3.7 Consensus size: 23
1271195 GTAATAGCAT
1271205 AGAAAAATGTGTCACAAGAACAG
1 AGAAAAATGTGTCACAAGAACAG
1271228 AGAAAAATGTGTCACAA-AAGCAG
1 AGAAAAATGTGTCACAAGAA-CAG
* * *
1271251 GGAAAATTGTGTCACAAGAGCAG
1 AGAAAAATGTGTCACAAGAACAG
* *
1271274 GGAAAATTGTGTCACAA
1 AGAAAAATGTGTCACAA
1271291 TGATAGAGAT
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
22 2 0.03
23 55 0.95
24 1 0.02
ACGTcount: A:0.47, C:0.13, G:0.24, T:0.16
Consensus pattern (23 bp):
AGAAAAATGTGTCACAAGAACAG
Found at i:1277869 original size:20 final size:20
Alignment explanation
Indices: 1277806--1277872 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
1277796 GACCAATAAA
* *
1277806 ATCGAAATGCGATCTCCAGT
1 ATCGCAATGCGATCTCTAGT
* *
1277826 GTCACAATGCGATCTCTAGT
1 ATCGCAATGCGATCTCTAGT
1277846 ATCGCAATGCGATCTCTAGT
1 ATCGCAATGCGATCTCTAGT
1277866 ATCGCAA
1 ATCGCAA
1277873 ATCAGTTTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (20 bp):
ATCGCAATGCGATCTCTAGT
Found at i:1278129 original size:22 final size:22
Alignment explanation
Indices: 1278104--1278154 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
1278094 CTACGGCGAC
1278104 ATCCGTCCCCATC-TCCGACGAA
1 ATCCGTCCCCA-CATCCGACGAA
*
1278126 ATCCGTCCCCACATCCGGCGAA
1 ATCCGTCCCCACATCCGACGAA
1278148 ATCCGTC
1 ATCCGTC
1278155 TATCTCCATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.22, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
ATCCGTCCCCACATCCGACGAA
Found at i:1278531 original size:19 final size:19
Alignment explanation
Indices: 1278509--1278550 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1278499 GAAATGAAAA
1278509 TCGCAACGCGATTTTAGTT
1 TCGCAACGCGATTTTAGTT
***
1278528 TCGCGTTGCGATTTTAGTT
1 TCGCAACGCGATTTTAGTT
1278547 TCGC
1 TCGC
1278551 GTTGCGATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.40
Consensus pattern (19 bp):
TCGCAACGCGATTTTAGTT
Found at i:1278578 original size:19 final size:19
Alignment explanation
Indices: 1278516--1278561 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
1278506 AAATCGCAAC
1278516 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
1278535 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
1278554 GCGATTTT
1 GCGATTTT
1278562 CATTTCGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.11, C:0.15, G:0.26, T:0.48
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:1278608 original size:20 final size:20
Alignment explanation
Indices: 1278583--1278631 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1278573 GTGATTATCT
1278583 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
1278603 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
1278623 TGTTGCGAT
1 CGTTGCGAT
1278632 TTTGATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:1278639 original size:20 final size:20
Alignment explanation
Indices: 1278616--1278654 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1278606 TGCGATAGTC
1278616 ATTTTCGTGTTGCGATTTTG
1 ATTTTCGTGTTGCGATTTTG
1278636 ATTTTCGTGTTGCGATTTT
1 ATTTTCGTGTTGCGATTTT
1278655 AAGTTTCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.10, G:0.23, T:0.56
Consensus pattern (20 bp):
ATTTTCGTGTTGCGATTTTG
Found at i:1278661 original size:20 final size:18
Alignment explanation
Indices: 1278516--1278578 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 18
1278506 AAATCGCAAC
1278516 GCGATTTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGCGTT
1278535 GCGATTTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGCGTT
*
1278554 GCGATTTTCATTTCGTGTT
1 GCGATTTT-ATTTCGCGTT
*
1278573 GTGATT
1 GCGATT
1278579 ATCTCGTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
19 40 0.98
20 1 0.02
ACGTcount: A:0.11, C:0.14, G:0.25, T:0.49
Consensus pattern (18 bp):
GCGATTTTATTTCGCGTT
Found at i:1280432 original size:20 final size:20
Alignment explanation
Indices: 1280409--1280457 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1280399 GAAACTTAAA
1280409 ATCGCAACGAGAAAATGACT
1 ATCGCAACGAGAAAATGACT
* **
1280429 ATCGCAACGCGAATTTGACT
1 ATCGCAACGAGAAAATGACT
*
1280449 ATCGTAACG
1 ATCGCAACG
1280458 GGATAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGAGAAAATGACT
Found at i:1280627 original size:20 final size:20
Alignment explanation
Indices: 1280604--1280647 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1280594 CGATAGTCAT
1280604 TTTCGCGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
* *
1280624 TTTCGTGTTGTGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
1280644 TTTC
1 TTTC
1280648 AAAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.11, G:0.23, T:0.52
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTAAG
Found at i:1282812 original size:20 final size:20
Alignment explanation
Indices: 1282742--1282815 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
1282732 AGGTACACTT
*
1282742 TCGCAACGCTAAA-CTCAAAA
1 TCGCAACGCGAAAGC-CAAAA
* * **
1282762 TCGCAATGCTAAAGTTAAAA
1 TCGCAACGCGAAAGCCAAAA
*
1282782 TCGCAATGCGAAAGCCAAAA
1 TCGCAACGCGAAAGCCAAAA
1282802 TCGCAACGCGAAAG
1 TCGCAACGCGAAAG
1282816 TCAATTCGCG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAGCCAAAA
Found at i:1282886 original size:20 final size:20
Alignment explanation
Indices: 1282858--1282954 Score: 122
Period size: 20 Copynumber: 4.8 Consensus size: 20
1282848 GCGATTTTCT
* * *
1282858 CGTTACGATTGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
1282878 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
* *
1282898 CATTGCGATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTCG
1282918 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
1282938 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
1282955 GAATGTGTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:1283148 original size:18 final size:18
Alignment explanation
Indices: 1283125--1283159 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1283115 AAGCCTGTTG
*
1283125 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
1283143 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
1283160 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:1283769 original size:24 final size:24
Alignment explanation
Indices: 1283742--1283795 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1283732 CTGAAACATC
* *
1283742 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* *
1283766 ATCAAAGTCCGGGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
1283790 ATCAAA
1 ATCAAA
1283796 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:1284466 original size:17 final size:17
Alignment explanation
Indices: 1284444--1284481 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
1284434 CGGATGGGGA
1284444 AGGATGTCGTTGGATAT
1 AGGATGTCGTTGGATAT
1284461 AGGATGTCGTTGGATAT
1 AGGATGTCGTTGGATAT
1284478 AGGA
1 AGGA
1284482 ACGGATATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.37, T:0.32
Consensus pattern (17 bp):
AGGATGTCGTTGGATAT
Found at i:1284652 original size:20 final size:20
Alignment explanation
Indices: 1284627--1284711 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
1284617 GAAATTCAGT
*
1284627 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAAAATCGC
* * *
1284647 GTTGCGAT-TTACATATTCGC
1 GTTGCGATAGT-CAAAATCGC
1284667 GTTGCGATAG--AAAATCGC
1 GTTGCGATAGTCAAAATCGC
***
1284685 AACGCGATAGTCAAAATCGC
1 GTTGCGATAGTCAAAATCGC
1284705 GTTGCGA
1 GTTGCGA
1284712 ATCTGGAAAC
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
18 13 0.27
19 1 0.02
20 35 0.71
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (20 bp):
GTTGCGATAGTCAAAATCGC
Found at i:1284749 original size:20 final size:19
Alignment explanation
Indices: 1284726--1284771 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
1284716 GGAAACTGAT
*
1284726 TTGCGATACTAGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
1284746 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
1284765 TTGCGAT
1 TTGCGAT
1284772 TTTGTTGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:1284759 original size:19 final size:19
Alignment explanation
Indices: 1284735--1284773 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1284725 TTTGCGATAC
*
1284735 TAGAGATCGCGTTGCGATT
1 TAGAGATCGCATTGCGATT
1284754 TAGAGATCGCATTGCGATT
1 TAGAGATCGCATTGCGATT
1284773 T
1 T
1284774 TGTTGGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (19 bp):
TAGAGATCGCATTGCGATT
Found at i:1288327 original size:28 final size:26
Alignment explanation
Indices: 1288295--1288347 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
1288285 ATCGATCTTA
*
1288295 ATTTAAAATAATTCAATAAATTTTTAAT
1 ATTTAAAATAATT--ATAAATTATTAAT
*
1288323 ATTTAAAATTATTATAAATTATTAA
1 ATTTAAAATAATTATAAATTATTAA
1288348 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 11 0.48
28 12 0.52
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
ATTTAAAATAATTATAAATTATTAAT
Found at i:1289937 original size:20 final size:20
Alignment explanation
Indices: 1289914--1289960 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
1289904 CACGGAATGT
1289914 AAGATTACCAGTGAGAATAA
1 AAGATTACCAGTGAGAATAA
*
1289934 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGAGAATAA
1289954 AAGATTA
1 AAGATTA
1289961 TCAGAGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.21
Consensus pattern (20 bp):
AAGATTACCAGTGAGAATAA
Found at i:1290096 original size:2 final size:2
Alignment explanation
Indices: 1290089--1290127 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1290079 TTGTCTTTAT
1290089 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1290128 TAACAAGTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1290237 original size:37 final size:36
Alignment explanation
Indices: 1290168--1290237 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 36
1290158 ATAATTAATT
**
1290168 TATATATTTTCTTTAAAAAATTAAATTCATAAAATG
1 TATATATTTTCTTTAAAAAATTAAAAACATAAAATG
* * *
1290204 TATATAATTTTTTTTACAAAATTAAAAAGATAAA
1 TATAT-ATTTTCTTTAAAAAATTAAAAACATAAA
1290238 TAGATTTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 5 0.18
37 23 0.82
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (36 bp):
TATATATTTTCTTTAAAAAATTAAAAACATAAAATG
Found at i:1293685 original size:6 final size:6
Alignment explanation
Indices: 1293674--1293708 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
1293664 AAAGGAGAGA
1293674 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGG
1293709 AGGGGTTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:1295172 original size:19 final size:19
Alignment explanation
Indices: 1295148--1295222 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
1295138 ATGGCCAACA
*
1295148 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
1295167 AAATCGCAACGCGATCTCT
1 AAATCGCAACGCGATCTCT
*
1295186 AAATCGCTACGCGATCTCT
1 AAATCGCAACGCGATCTCT
*
1295205 AAATCGCTACGCGATCTC
1 AAATCGCAACGCGATCTC
1295223 CATTATCGCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 54 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:1295295 original size:21 final size:21
Alignment explanation
Indices: 1295267--1295320 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
1295257 GATTTTGACC
*
1295267 ATCGCATTGCGATTTTCGA-A
1 ATCGCATTGCGATTTTAGATA
1295287 ATCCGCATTGCGATTTTAGATA
1 AT-CGCATTGCGATTTTAGATA
*
1295309 ATCGCAATGCGA
1 ATCGCATTGCGA
1295321 ATATGTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 25 0.83
22 3 0.10
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (21 bp):
ATCGCATTGCGATTTTAGATA
Found at i:1295378 original size:20 final size:20
Alignment explanation
Indices: 1295351--1295414 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
1295341 TAACACGTGC
* *
1295351 TCGCAACGCGTTTCTGACTA
1 TCGCAACGAGATTCTGACTA
*
1295371 TTGCAACGAGATTC-GAACTA
1 TCGCAACGAGATTCTG-ACTA
1295391 TCGCAACGAGATTCTGACTA
1 TCGCAACGAGATTCTGACTA
1295411 TCGC
1 TCGC
1295415 TTTGCGATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 36 0.95
21 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (20 bp):
TCGCAACGAGATTCTGACTA
Found at i:1295609 original size:22 final size:22
Alignment explanation
Indices: 1295577--1295656 Score: 106
Period size: 22 Copynumber: 3.6 Consensus size: 22
1295567 TCACTCTCTA
*
1295577 CGGCGACATCCGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
* * *
1295599 CGACGAAATCCATCCCCATTTC
1 CGGCGAAATCCGTCCCCATCTC
* *
1295621 CGGTGAAATTCGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
1295643 CGGCGAAATCCGTC
1 CGGCGAAATCCGTC
1295657 TATCTCCATC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.20, C:0.41, G:0.17, T:0.21
Consensus pattern (22 bp):
CGGCGAAATCCGTCCCCATCTC
Found at i:1296079 original size:20 final size:20
Alignment explanation
Indices: 1296016--1296103 Score: 88
Period size: 20 Copynumber: 4.5 Consensus size: 20
1296006 GCGATTATCT
*
1296016 CGTTGCGATAGCCA-TTTCG
1 CGTTGCGATAGTCATTTTCG
* **
1296035 CGTTACGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
1296055 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
1296075 CGTTGCCATTTTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
1296095 TGTTGCGAT
1 CGTTGCGAT
1296104 TTTAAGTTTC
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
19 12 0.21
20 44 0.79
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:1296113 original size:20 final size:20
Alignment explanation
Indices: 1296070--1296113 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
1296060 CGATAATCAT
* *
1296070 TTTCGCGTTGCCATTTTCAT
1 TTTCGCGTTGCCATTTTAAG
* *
1296090 TTTCGTGTTGCGATTTTAAG
1 TTTCGCGTTGCCATTTTAAG
1296110 TTTC
1 TTTC
1296114 AGAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.11, C:0.18, G:0.18, T:0.52
Consensus pattern (20 bp):
TTTCGCGTTGCCATTTTAAG
Found at i:1298183 original size:34 final size:34
Alignment explanation
Indices: 1298126--1298262 Score: 130
Period size: 34 Copynumber: 3.9 Consensus size: 34
1298116 GAAAATGATT
* **
1298126 ATCGCAACGCGAATTTGACTATCGCAACGGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGGGATA
* * *
1298160 ATCGCAATACGAAAACGAATATCGCAACGTGGAAATAA
1 ATCGCAATGCGAAAATGACTATCGCAACG-GG--AT-A
* **
1298198 CTATCGCAACGCGAATTTGACTATCGCAACGGGATA
1 --ATCGCAATGCGAAAATGACTATCGCAACGGGATA
*
1298234 ATCGTAATGCGAAAATGACTATCGCAACG
1 ATCGCAATGCGAAAATGACTATCGCAACG
1298263 CGAATTTAGT
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
34 48 0.59
35 2 0.02
36 1 0.01
37 4 0.05
38 1 0.01
39 2 0.02
40 23 0.28
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAACGGGATA
Found at i:1298228 original size:74 final size:74
Alignment explanation
Indices: 1298125--1298262 Score: 240
Period size: 74 Copynumber: 1.9 Consensus size: 74
1298115 CGAAAATGAT
1298125 TATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATACGAAAACGAATATCGCAACGT
1 TATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATACGAAAACGAATATCGCAACGT
1298190 GGAAATAAC
66 GGAAATAAC
* * * *
1298199 TATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGTAATGCGAAAATGACTATCGCAACG
1 TATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATACGAAAACGAATATCGCAACG
1298263 CGAATTTAGT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (74 bp):
TATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATACGAAAACGAATATCGCAACGT
GGAAATAAC
Found at i:1298265 original size:20 final size:20
Alignment explanation
Indices: 1298107--1298266 Score: 83
Period size: 20 Copynumber: 8.6 Consensus size: 20
1298097 AGAAGAATAG
* *
1298107 TCGCAACACGAAAATGATTA
1 TCGCAACGCGAAAATGACTA
**
1298127 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
*
1298147 TCGCAACG-G--GAT-A--A
1 TCGCAACGCGAAAATGACTA
** * *
1298161 TCGCAATACGAAAACGAATA
1 TCGCAACGCGAAAATGACTA
* * *
1298181 TCGCAACGTGGAAATAACTA
1 TCGCAACGCGAAAATGACTA
**
1298201 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
*
1298221 TCGCAACG-G--GAT-A--A
1 TCGCAACGCGAAAATGACTA
* *
1298235 TCGTAATGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
1298255 TCGCAACGCGAA
1 TCGCAACGCGAA
1298267 TTTAGTTTCG
Statistics
Matches: 99, Mismatches: 29, Indels: 24
0.65 0.19 0.16
Matches are distributed among these distances:
14 14 0.14
15 2 0.02
16 2 0.02
17 5 0.05
18 2 0.02
19 2 0.02
20 72 0.73
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:1298325 original size:33 final size:34
Alignment explanation
Indices: 1298272--1298352 Score: 119
Period size: 33 Copynumber: 2.4 Consensus size: 34
1298262 GCGAATTTAG
* *
1298272 TTTCGCGTTGTGATTTTCTCGTTGCGATAGTC-A
1 TTTCGCGTTGCGATTATCTCGTTGCGATAGTCAA
*
1298305 TTTCGCATTGCGATTATCTCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATTATCTCGTTGCGATAGTCAA
*
1298339 ATTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
1298353 AATCATTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 29 0.69
34 13 0.31
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (34 bp):
TTTCGCGTTGCGATTATCTCGTTGCGATAGTCAA
Found at i:1298386 original size:20 final size:20
Alignment explanation
Indices: 1298363--1298402 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1298353 AATCATTTTT
1298363 GTGTTGCGATTTTAAGTTTC
1 GTGTTGCGATTTTAAGTTTC
*
1298383 GTGTTGTGATTTTAAGTTTC
1 GTGTTGCGATTTTAAGTTTC
1298403 AGAAACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.07, G:0.25, T:0.53
Consensus pattern (20 bp):
GTGTTGCGATTTTAAGTTTC
Found at i:1298954 original size:42 final size:42
Alignment explanation
Indices: 1298890--1298971 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
1298880 CTGTAATCGT
* * *
1298890 TCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCATATCATCCC
1 TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCATATCATCCC
* *
1298932 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATC
1 TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCATATCATC
1298972 ATTGAAGAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.23, C:0.39, G:0.16, T:0.22
Consensus pattern (42 bp):
TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCATATCATCCC
Found at i:1298990 original size:42 final size:42
Alignment explanation
Indices: 1298908--1298990 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
1298898 CCTCTCCTAT
* *
1298908 CGTTCAAGAGGCCCATATCATCCCTCAAGAGTCCCCTCCCAC
1 CGTTCAAGAGGCCCATATCATCACTCAAGAGTCCCATCCCAC
* * *
1298950 CGTTCAAGAGGCCCCTATCATCATTGAAGAGGT-CCATCCCA
1 CGTTCAAGAGGCCCATATCATCACTCAAGA-GTCCCATCCCA
1298991 ACATTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.25, C:0.37, G:0.17, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCCATATCATCACTCAAGAGTCCCATCCCAC
Found at i:1300444 original size:36 final size:30
Alignment explanation
Indices: 1300364--1300429 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
1300354 ATAAAAGTTG
*
1300364 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
*
1300394 ATTTGTTTAATTGATGTGTGAATAATTATT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
1300424 ATTTGT
1 ATTTGT
1300430 GCTTGTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTATT
Found at i:1300604 original size:20 final size:20
Alignment explanation
Indices: 1300579--1300817 Score: 163
Period size: 20 Copynumber: 12.8 Consensus size: 20
1300569 GCGATTTTCT
*
1300579 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
1300599 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
* *
1300619 CGTTACGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
1300633 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
1300653 CGTTGCGATAGTTAAATTTG
1 CGTTGCGATAGTCAAATTCG
**
1300673 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
1300693 CATTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
*
1300707 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
** *
1300727 CGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCAAATTCG
* *
1300747 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* *
1300761 CGTTGCGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
* *
1300781 AGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
1300801 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
1300818 GAATGTGTAA
Statistics
Matches: 168, Mismatches: 33, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
14 29 0.17
15 1 0.01
16 3 0.02
18 3 0.02
19 3 0.02
20 129 0.77
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Done.