Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009463.1 Hibiscus syriacus cultivar Beakdansim tig00113726_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: 3931635
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 20
Found at i:793204 original size:22 final size:22
Alignment explanation
Indices: 793174--793226 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
793164 TTCCATTTTG
793174 CATTGCGATAATCTACAGTTGT
1 CATTGCGATAATCTACAGTTGT
** *
793196 TGTTGCGATAGTCTACAGTTGT
1 CATTGCGATAATCTACAGTTGT
793218 CATTGCGAT
1 CATTGCGAT
793227 TTTCCAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (22 bp):
CATTGCGATAATCTACAGTTGT
Found at i:793350 original size:6 final size:6
Alignment explanation
Indices: 793339--793387 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
793329 GACACGTATT
793339 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
793385 ACC
1 ACC
793388 CGAGACGGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 10 0.23
6 33 0.77
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:793917 original size:6 final size:6
Alignment explanation
Indices: 793891--793933 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
793881 TTTCGTCTCG
793891 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTC
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
793934 ATACGTGTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 15 0.41
6 22 0.59
ACGTcount: A:0.00, C:0.19, G:0.53, T:0.28
Consensus pattern (6 bp):
GGTCGT
Found at i:794069 original size:22 final size:22
Alignment explanation
Indices: 794044--794096 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
794034 AATTTGGAAA
*
794044 ATCGCAACGACAACTGTGGACT
1 ATCGCAACGACAACTGTAGACT
*
794066 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
794088 ATCGCAACG
1 ATCGCAACG
794097 CGAAATGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:794113 original size:20 final size:20
Alignment explanation
Indices: 794088--794195 Score: 93
Period size: 20 Copynumber: 5.7 Consensus size: 20
794078 ACTGTAGACT
794088 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
794108 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
*
794129 ATCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAAATGGAAA
*
794149 ATCGCAACGCG--AT----T
1 ATCGCAACGCGAAATGGAAA
*
794163 ATCGCAATGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
794183 ATCGCAACGCGAA
1 ATCGCAACGCGAA
794196 TTTGCGATAG
Statistics
Matches: 66, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
18 1 0.02
20 38 0.58
21 15 0.23
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:794134 original size:41 final size:36
Alignment explanation
Indices: 794085--794194 Score: 143
Period size: 41 Copynumber: 3.0 Consensus size: 36
794075 ACAACTGTAG
794085 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTT
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA---T
*
794124 CAACTATCGCAACGCGAACTGGAAAATCGCAACGCGAT
1 --ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAT
*
794162 --TATCGCAATGCGAAATGGAAAATCGCAACGCGA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
794195 ATTTGCGATA
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
34 31 0.47
38 1 0.02
41 34 0.52
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (36 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAT
Found at i:794175 original size:34 final size:34
Alignment explanation
Indices: 794128--794194 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
794118 GATTTTCAAC
*
794128 TATCGCAACGCGAACTGGAAAATCGCAACGCGAT
1 TATCGCAACGCGAAATGGAAAATCGCAACGCGAT
*
794162 TATCGCAATGCGAAATGGAAAATCGCAACGCGA
1 TATCGCAACGCGAAATGGAAAATCGCAACGCGA
794195 ATTTGCGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (34 bp):
TATCGCAACGCGAAATGGAAAATCGCAACGCGAT
Found at i:794201 original size:28 final size:28
Alignment explanation
Indices: 794170--794225 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
794160 ATTATCGCAA
794170 TGCGA-AATGGAAAATCGCAACGCGAATT
1 TGCGATAATGG-AAATCGCAACGCGAATT
* * *
794198 TGCGATAGTGGAGATCGCAATGCGAATT
1 TGCGATAATGGAAATCGCAACGCGAATT
794226 AGAGATCGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (28 bp):
TGCGATAATGGAAATCGCAACGCGAATT
Found at i:797140 original size:21 final size:22
Alignment explanation
Indices: 797114--797155 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
797104 CAGGACAGGT
*
797114 AGTATCGGTAGTT-CTTTAATG
1 AGTATCGGTACTTCCTTTAATG
797135 AGTATCGGTACTTCCTTTAAT
1 AGTATCGGTACTTCCTTTAAT
797156 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (22 bp):
AGTATCGGTACTTCCTTTAATG
Found at i:797937 original size:16 final size:16
Alignment explanation
Indices: 797916--797948 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
797906 TAATAAATAA
797916 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
797932 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
797948 A
1 A
797949 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:799170 original size:24 final size:24
Alignment explanation
Indices: 799129--799183 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
799119 AACATAAATG
*
799129 AACGAACATAAATGAACGAACATA
1 AACGAACATAAATAAACGAACATA
799153 AACGAACA-AACATAAACGAACATA
1 AACGAACATAA-ATAAACGAACATA
*
799177 ACCGAAC
1 AACGAAC
799184 GTTCACGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.58, C:0.22, G:0.11, T:0.09
Consensus pattern (24 bp):
AACGAACATAAATAAACGAACATA
Found at i:799184 original size:14 final size:14
Alignment explanation
Indices: 799119--799173 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
799109 GATTGGATTA
*
799119 AACATAAATGAACG
1 AACATAAACGAACG
*
799133 AACATAAATGAACG
1 AACATAAACGAACG
*
799147 AACATAAACGAACA
1 AACATAAACGAACG
799161 AACATAAACGAAC
1 AACATAAACGAAC
799174 ATAACCGAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.60, C:0.18, G:0.11, T:0.11
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:815414 original size:226 final size:225
Alignment explanation
Indices: 815020--815465 Score: 829
Period size: 226 Copynumber: 2.0 Consensus size: 225
815010 GTGCATGGAC
*
815020 TTCAAGGAAAACGTTGTTATCCCTAGCAAGCTTTGACACCGATAGTAGATTCTTGGTTATTCTTG
1 TTCAAGGAAAACGTTGTTATCCCTAGCAAGCTTTGACACCGATAGTAGATTCTTGGTTATTCCTG
* *
815085 GCACATGCAACAAATCGGTTAACAATAATACACGCGATTATGTAAATAGAGGAGATCTACTAACA
66 GCACATGCAACAAATCGGTTAACAACAATACACGCGATGATGTAAATAGAGGAGATCTACTAACA
*
815150 GATTTAACATCTAAAGCACCACCATCACCAACTATTAATTTACCTGGATTATTAAAGTCCACTGT
131 GATTTAACATCTAAAGCACCACCATCACCAACTATTAATTTACCTAGATTATTAAAGTCCACTGT
815215 CTGTGAGATGTTCATGCCATCAGAGGAAGAA
196 CTGTGAGATGTTCATG-CATCAGAGGAAGAA
815246 TTCAAGGAAAACGTTGTTATCCCTAGCAAGCTTTGACACCGATAGTAGATTCTTGGTTATTCCTG
1 TTCAAGGAAAACGTTGTTATCCCTAGCAAGCTTTGACACCGATAGTAGATTCTTGGTTATTCCTG
*
815311 GCACATGCAACAAATCGGTTAACAACAGTACACGCGATGATGTAAATAGAGGAGATCTACTAACA
66 GCACATGCAACAAATCGGTTAACAACAATACACGCGATGATGTAAATAGAGGAGATCTACTAACA
*
815376 GATTTAACATCTAAAGTACCACCATCACCAACTATTAATTTACCTAGATTATTAAAGTCCACTGT
131 GATTTAACATCTAAAGCACCACCATCACCAACTATTAATTTACCTAGATTATTAAAGTCCACTGT
815441 CTGTGAGATGTTCATGCATCAGAGG
196 CTGTGAGATGTTCATGCATCAGAGG
815466 TGACATGTTG
Statistics
Matches: 214, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
225 9 0.04
226 205 0.96
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (225 bp):
TTCAAGGAAAACGTTGTTATCCCTAGCAAGCTTTGACACCGATAGTAGATTCTTGGTTATTCCTG
GCACATGCAACAAATCGGTTAACAACAATACACGCGATGATGTAAATAGAGGAGATCTACTAACA
GATTTAACATCTAAAGCACCACCATCACCAACTATTAATTTACCTAGATTATTAAAGTCCACTGT
CTGTGAGATGTTCATGCATCAGAGGAAGAA
Found at i:823617 original size:36 final size:36
Alignment explanation
Indices: 823561--823741 Score: 276
Period size: 36 Copynumber: 5.1 Consensus size: 36
823551 GAAGGTGAAT
* *
823561 AAGAAAAACGAAAGGAAGCATCAGCACTTTCGATTC
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
* *
823597 AA-AGTGAACGGAAGGAAGCATCGGCACTTTCGATTC
1 AAGA-AGAACGAAAGGAAGCATCGGCACTTTCGATTC
*
823633 AAGAAGAACGAAAAGAAGCATCGGCACTTTCGATTC
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
823669 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
* *
823705 AAG-TGAACGGAAGGAAGCATCGGCACTTTCGATTC
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
823740 AA
1 AA
823742 TTATTCATCT
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
35 33 0.25
36 99 0.74
37 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (36 bp):
AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
Found at i:832987 original size:6 final size:6
Alignment explanation
Indices: 832976--833003 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
832966 TATATGAATT
832976 CAAATG CAAATG CAAATG CAAATG CAAA
1 CAAATG CAAATG CAAATG CAAATG CAAA
833004 GAGAGGTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.18, G:0.14, T:0.14
Consensus pattern (6 bp):
CAAATG
Found at i:846660 original size:21 final size:21
Alignment explanation
Indices: 846635--846674 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
846625 AAACCATTCA
846635 GGGGGAATCGGTACCCTCTTG
1 GGGGGAATCGGTACCCTCTTG
*
846656 GGGGGAATCGGTTCCCTCT
1 GGGGGAATCGGTACCCTCT
846675 GAGCAATCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.25, G:0.38, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGGTACCCTCTTG
Found at i:858359 original size:58 final size:60
Alignment explanation
Indices: 858254--858369 Score: 141
Period size: 58 Copynumber: 2.0 Consensus size: 60
858244 GGGACCATAG
** *
858254 GTCATAGTTTATTGATAAAATTAAATTGTTCAAAAGTTGAAGGACTAA-T-AAAATGATA
1 GTCATAGTTTAGGGATAAAATTAAATTGTTCAAAAGTTGAAGAACTAATTCAAAATGATA
* *
858312 GTCATAGTTTAGGGATAAAATTAGAATAT-TT-AAAAGTTTATGAACTAATTCAAAATGA
1 GTCATAGTTTAGGGATAAAATTA-AAT-TGTTCAAAAGTTGAAGAACTAATTCAAAATGA
858370 AGGTTATACT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
58 35 0.71
59 6 0.12
60 8 0.16
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (60 bp):
GTCATAGTTTAGGGATAAAATTAAATTGTTCAAAAGTTGAAGAACTAATTCAAAATGATA
Found at i:860498 original size:40 final size:40
Alignment explanation
Indices: 860414--860593 Score: 121
Period size: 41 Copynumber: 4.4 Consensus size: 40
860404 ATACTCTTAA
* * * * ** *
860414 TTTAGTGGCGTTTGTGACCAAACGCAGCAAAAAACTTGTAC
1 TTTAGTGGCGTTTTTGACTAAACGCCGCAATAGTCATGT-C
860455 TTTAGTGGCGTTTTT-A-TAAAACGCCGCAATAGTCATGTGC
1 TTTAGTGGCGTTTTTGACT-AAACGCCGCAATAGTCATGT-C
* * **
860495 TTTAGTGGCTTTTTTGACGTAAACGCCGTAATAGTTTTGTC
1 TTTAGTGGCGTTTTTGAC-TAAACGCCGCAATAGTCATGTC
* * * * * **
860536 TTTTAGTGGCGTTTTTTAATAAACGTCGTAGTAGTTTTGTCC
1 -TTTAGTGGCGTTTTTGACTAAACGCCGCAATAGTCATGT-C
*
860578 CTTAGTGGCGTTTTTG
1 TTTAGTGGCGTTTTTG
860594 TAATAAATAC
Statistics
Matches: 114, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
40 31 0.27
41 49 0.43
42 33 0.29
43 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (40 bp):
TTTAGTGGCGTTTTTGACTAAACGCCGCAATAGTCATGTC
Found at i:860541 original size:42 final size:40
Alignment explanation
Indices: 860449--860600 Score: 130
Period size: 42 Copynumber: 3.7 Consensus size: 40
860439 AGCAAAAAAC
* * *
860449 TTGTACTTTAGTGGCGTTTTT--ATAAAACGCCGCAATAGTC
1 TTGT-CTTTAGTGGCTTTTTTGAAT-AAACGCCGTAATAGTT
* *
860489 ATGTGCTTTAGTGGCTTTTTTGACGTAAACGCCGTAATAGTT
1 TTGT-CTTTAGTGGCTTTTTTGA-ATAAACGCCGTAATAGTT
* *
860531 TTGTCTTTTAGTGGCGTTTTTT-AATAAACGTCGTAGTAGTT
1 TTGTC-TTTAGTGGC-TTTTTTGAATAAACGCCGTAATAGTT
* *
860572 TTGTCCCTTAGTGGCGTTTTTGTAATAAA
1 TTGT-CTTTAGTGGCTTTTTTG-AATAAA
860601 TACCACAATA
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
40 23 0.25
41 28 0.30
42 34 0.37
43 7 0.08
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.43
Consensus pattern (40 bp):
TTGTCTTTAGTGGCTTTTTTGAATAAACGCCGTAATAGTT
Found at i:860571 original size:41 final size:41
Alignment explanation
Indices: 860449--860600 Score: 157
Period size: 41 Copynumber: 3.7 Consensus size: 41
860439 AGCAAAAAAC
* * *
860449 TTGTACTTTAGTGGCG-TTTTT-ATAAAACGCCGCAATAGTC
1 TTGTCCTTTAGTGGCGTTTTTTAAT-AAACGCCGTAATAGTT
* * *
860489 ATGTGCTTTAGTGGC-TTTTTTGACGTAAACGCCGTAATAGTT
1 TTGTCCTTTAGTGGCGTTTTTT-A-ATAAACGCCGTAATAGTT
* * *
860531 TTGTCTTTTAGTGGCGTTTTTTAATAAACGTCGTAGTAGTT
1 TTGTCCTTTAGTGGCGTTTTTTAATAAACGCCGTAATAGTT
*
860572 TTGTCCCTTAGTGGCGTTTTTGTAATAAA
1 TTGTCCTTTAGTGGCGTTTTT-TAATAAA
860601 TACCACAATA
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
40 18 0.19
41 34 0.37
42 34 0.37
43 7 0.08
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.43
Consensus pattern (41 bp):
TTGTCCTTTAGTGGCGTTTTTTAATAAACGCCGTAATAGTT
Found at i:860613 original size:42 final size:41
Alignment explanation
Indices: 860524--860646 Score: 120
Period size: 42 Copynumber: 3.0 Consensus size: 41
860514 TAAACGCCGT
** ** **
860524 AATAGTTTTGTCTTTTAGTGGCGTTTTTTAATAAACGTCGT
1 AATAGTTTTGTCCCTTAGTGGCGTTTTTTAATAAACACCAC
* *
860565 AGTAGTTTTGTCCCTTAGTGGCGTTTTTGTAATAAATACCAC
1 AATAGTTTTGTCCCTTAGTGGCGTTTTT-TAATAAACACCAC
* * * *
860607 AATAGTTTTTTCCCTTAATGGTGTTTTTAATATAAACACC
1 AATAGTTTTGTCCCTTAGTGGCGTTTTTTA-ATAAACACC
860647 GCCATTGTCC
Statistics
Matches: 66, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
41 26 0.39
42 40 0.61
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (41 bp):
AATAGTTTTGTCCCTTAGTGGCGTTTTTTAATAAACACCAC
Found at i:864495 original size:60 final size:60
Alignment explanation
Indices: 864336--864512 Score: 189
Period size: 60 Copynumber: 3.0 Consensus size: 60
864326 ATGTCCCTAG
* * * * *
864336 ACTATAACTCTCATTTTAAATT-GATCTTTAAAATTTTGAATATTTCAATTTCATCCCCAA
1 ACTATAACTCTCATTCTAAATTAG-TCCTCAAACTTTTGAACATTTCAATTTCATCCCCAA
* * * *
864396 ATTATAACTCTCATTCTAAATTAGTCCTTAAACTATTGAACATTTCAATTTCATCCCTAA
1 ACTATAACTCTCATTCTAAATTAGTCCTCAAACTTTTGAACATTTCAATTTCATCCCCAA
* * * *
864456 ACTATGACTCT-ATTTCTAAATTGGTCC-CAAACTTTTTGAACATTCCAATCTCATCCC
1 ACTATAACTCTCA-TTCTAAATTAGTCCTCAAAC-TTTTGAACATTTCAATTTCATCCC
864513 AAATTCATTC
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
59 5 0.05
60 94 0.94
61 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (60 bp):
ACTATAACTCTCATTCTAAATTAGTCCTCAAACTTTTGAACATTTCAATTTCATCCCCAA
Found at i:864792 original size:58 final size:60
Alignment explanation
Indices: 864688--864802 Score: 148
Period size: 58 Copynumber: 1.9 Consensus size: 60
864678 GGACCATAGG
*
864688 TCATAGTTTAGCGATAAAATTAAATTGTTCAAAAGTTGAAGGACTAA-T-AAAATGATAA
1 TCATAGTTTAGCGATAAAATTAAATTGTTCAAAAGTTGAAGAACTAATTCAAAATGATAA
* * *
864746 TCATAGTTTAGGGATAAAATTAGAATAT-TT-AAAAGTTTATGAACTAATTCAAAATGA
1 TCATAGTTTAGCGATAAAATTA-AAT-TGTTCAAAAGTTGAAGAACTAATTCAAAATGA
864803 AGGTCATACT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
58 35 0.71
59 6 0.12
60 8 0.16
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (60 bp):
TCATAGTTTAGCGATAAAATTAAATTGTTCAAAAGTTGAAGAACTAATTCAAAATGATAA
Found at i:867057 original size:42 final size:41
Alignment explanation
Indices: 866983--867122 Score: 113
Period size: 41 Copynumber: 3.4 Consensus size: 41
866973 ATACTCTTAA
* *
866983 TTTAGTGGCGTTTGTGACCAAACGCCGCAATAGTCATGTGC-
1 TTTAGTGGCTTTTTTGACCAAACGCCGCAATAGTCATGT-CT
* * **
867024 TTTAGTGGCTTTTTTGACGTAAACGCCGTAATAGTTTTGTCT
1 TTTAGTGGCTTTTTTGAC-CAAACGCCGCAATAGTCATGTCT
** * ** *
867066 TTTAGTGGCATTTTTT-AATAAACGCCGCAGTAGTTTTGTCC
1 TTTAGTGGC-TTTTTTGACCAAACGCCGCAATAGTCATGTCT
* *
867107 CTTAGTGGCGTTTTTG
1 TTTAGTGGCTTTTTTG
867123 TAATAAATGC
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
40 5 0.06
41 45 0.54
42 27 0.33
43 6 0.07
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (41 bp):
TTTAGTGGCTTTTTTGACCAAACGCCGCAATAGTCATGTCT
Found at i:867100 original size:41 final size:39
Alignment explanation
Indices: 867002--867129 Score: 130
Period size: 42 Copynumber: 3.1 Consensus size: 39
866992 GTTTGTGACC
** *
867002 AAACGCCGCAATAGTCATGTGCTTTAGTGGCTTTTTTGACGT
1 AAACGCCGCAATAGTTTTGT-CTTTAGTGGCTTTTTT-A-AT
*
867044 AAACGCCGTAATAGTTTTGTCTTTTAGTGGCATTTTTTAAT
1 AAACGCCGCAATAGTTTTGTC-TTTAGTGGC-TTTTTTAAT
* *
867085 AAACGCCGCAGTAGTTTTGTCCCTTAGTGGCGTTTTTGTAAT
1 AAACGCCGCAATAGTTTTGT-CTTTAGTGGC-TTTTT-TAAT
867127 AAA
1 AAA
867130 TGCCACAGTA
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
41 33 0.45
42 35 0.47
43 6 0.08
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.39
Consensus pattern (39 bp):
AAACGCCGCAATAGTTTTGTCTTTAGTGGCTTTTTTAAT
Found at i:867140 original size:42 final size:41
Alignment explanation
Indices: 867055--867167 Score: 140
Period size: 42 Copynumber: 2.8 Consensus size: 41
867045 AACGCCGTAA
** * *
867055 TAGTTTTGTCTTTTAGTGGCATTTTTTAATAAACGCCGCAG
1 TAGTTTTGTCCCTTAGTGGCGTTTTTTAATAAACGCCACAG
*
867096 TAGTTTTGTCCCTTAGTGGCGTTTTTGTAATAAATGCCACAG
1 TAGTTTTGTCCCTTAGTGGCGTTTTT-TAATAAACGCCACAG
*
867138 TAGATTTT-TCCCTTAATGGCG-TTTTTAATA
1 TAG-TTTTGTCCCTTAGTGGCGTTTTTTAATA
867168 TAAACACCGC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
40 5 0.08
41 27 0.42
42 28 0.44
43 4 0.06
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (41 bp):
TAGTTTTGTCCCTTAGTGGCGTTTTTTAATAAACGCCACAG
Found at i:869543 original size:16 final size:16
Alignment explanation
Indices: 869522--869556 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
869512 ACATGCTCCC
869522 TTAAAA-TTTTATCAAT
1 TTAAAAGTTTTAT-AAT
869538 TTAAAAGTTTTATAAT
1 TTAAAAGTTTTATAAT
869554 TTA
1 TTA
869557 GGAGTGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (16 bp):
TTAAAAGTTTTATAAT
Found at i:876303 original size:21 final size:21
Alignment explanation
Indices: 876279--876341 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
876269 TGAAGCGAGG
* *
876279 GAAGCAGAGAGAAAAGCAACA
1 GAAGCACAGAGAGAAGCAACA
876300 GAAGCACAGAGAGAAG-AAGCA
1 GAAGCACAGAGAGAAGCAA-CA
*
876321 GAAGCACAAAGAGAAGCAACA
1 GAAGCACAGAGAGAAGCAACA
876342 TATCAACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 2 0.05
21 33 0.89
22 2 0.05
ACGTcount: A:0.56, C:0.16, G:0.29, T:0.00
Consensus pattern (21 bp):
GAAGCACAGAGAGAAGCAACA
Found at i:876753 original size:44 final size:44
Alignment explanation
Indices: 876681--876948 Score: 266
Period size: 44 Copynumber: 6.1 Consensus size: 44
876671 AAACAACGCT
* * ** *
876681 GCTATATACCAGCCCTTTTACGGCGTTTGTATCCGAAAAATGCC
1 GCTATATACCAGACATTTGGCGGTGTTTGTATCCGAAAAATGCC
* * * * * **
876725 ACTATATACGAGATATTTGGTGGTGTTTGTATCCAAAAAACACC
1 GCTATATACCAGACATTTGGCGGTGTTTGTATCCGAAAAATGCC
* * * *
876769 GTTATATACCAGATATTTGGCAGCGTTTGTATCCGAAAAATGCC
1 GCTATATACCAGACATTTGGCGGTGTTTGTATCCGAAAAATGCC
* * * * * *
876813 GCTATTTAACAGACATTTGGCGGAGTTTGTATGCAAAAAACGCC
1 GCTATATACCAGACATTTGGCGGTGTTTGTATCCGAAAAATGCC
* *
876857 GCTATATACCAGACCTTTGGCGGTGTTTGTATACGAAAAATGCC
1 GCTATATACCAGACATTTGGCGGTGTTTGTATCCGAAAAATGCC
* ** * * *
876901 GCTATATACCAGACCTTTTACAGTGTTTGTATGCAAAAAATGCC
1 GCTATATACCAGACATTTGGCGGTGTTTGTATCCGAAAAATGCC
876945 GCTA
1 GCTA
876949 AATATCTTAA
Statistics
Matches: 182, Mismatches: 42, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 182 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
GCTATATACCAGACATTTGGCGGTGTTTGTATCCGAAAAATGCC
Found at i:876852 original size:132 final size:132
Alignment explanation
Indices: 876705--876948 Score: 308
Period size: 132 Copynumber: 1.8 Consensus size: 132
876695 CTTTTACGGC
* * * * * *
876705 GTTTGTATCCGAAAAATGCCACTATATACGAGATATTTGGTGGTGTTTGTATCCAAAAAACACCG
1 GTTTGTATCCAAAAAACGCCACTATATACCAGACATTTGGCGGTGTTTGTATACAAAAAACACCG
* * * *
876770 TTATATACCAGATATTTGGCAGCGTTTGTATCCGAAAAATGCCGCTATTTAACAGACATTTGGCG
66 CTATATACCAGACATTTGACAGCGTTTGTATCCAAAAAATGCCGCTATTTAACAGACATTTGGCG
876835 GA
131 GA
* * * * **
876837 GTTTGTATGCAAAAAACGCCGCTATATACCAGACCTTTGGCGGTGTTTGTATACGAAAAATGCCG
1 GTTTGTATCCAAAAAACGCCACTATATACCAGACATTTGGCGGTGTTTGTATACAAAAAACACCG
* * * *
876902 CTATATACCAGACCTTTTACAGTGTTTGTATGCAAAAAATGCCGCTA
66 CTATATACCAGACATTTGACAGCGTTTGTATCCAAAAAATGCCGCTA
876949 AATATCTTAA
Statistics
Matches: 92, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
132 92 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (132 bp):
GTTTGTATCCAAAAAACGCCACTATATACCAGACATTTGGCGGTGTTTGTATACAAAAAACACCG
CTATATACCAGACATTTGACAGCGTTTGTATCCAAAAAATGCCGCTATTTAACAGACATTTGGCG
GA
Found at i:876929 original size:88 final size:88
Alignment explanation
Indices: 876657--876948 Score: 343
Period size: 88 Copynumber: 3.3 Consensus size: 88
876647 GTGTTCATTA
* * * * **
876657 GCGGCGTTTGTAT-CAAACAACGCTGCTATATACCAGCCCTTTTACGGCGTTTGTATCCGAAAAA
1 GCGGTGTTTGTATGCAAAAAACGCCGCTATATACCAGACCTTTGGCGGCGTTTGTATCCGAAAAA
* * *
876721 TGCCACTATATACGAGATATTTG
66 TGCCGCTATATACCAGACATTTG
* * * * ** *
876744 GTGGTGTTTGTATCCAAAAAACACCGTTATATACCAGATATTTGGCAGCGTTTGTATCCGAAAAA
1 GCGGTGTTTGTATGCAAAAAACGCCGCTATATACCAGACCTTTGGCGGCGTTTGTATCCGAAAAA
* *
876809 TGCCGCTATTTAACAGACATTTG
66 TGCCGCTATATACCAGACATTTG
* * *
876832 GCGGAGTTTGTATGCAAAAAACGCCGCTATATACCAGACCTTTGGCGGTGTTTGTATACGAAAAA
1 GCGGTGTTTGTATGCAAAAAACGCCGCTATATACCAGACCTTTGGCGGCGTTTGTATCCGAAAAA
* *
876897 TGCCGCTATATACCAGACCTTTT
66 TGCCGCTATATACCAGACATTTG
* * *
876920 ACAGTGTTTGTATGCAAAAAATGCCGCTA
1 GCGGTGTTTGTATGCAAAAAACGCCGCTA
876949 AATATCTTAA
Statistics
Matches: 169, Mismatches: 35, Indels: 1
0.82 0.17 0.00
Matches are distributed among these distances:
87 11 0.07
88 158 0.93
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (88 bp):
GCGGTGTTTGTATGCAAAAAACGCCGCTATATACCAGACCTTTGGCGGCGTTTGTATCCGAAAAA
TGCCGCTATATACCAGACATTTG
Found at i:884682 original size:22 final size:22
Alignment explanation
Indices: 884657--884735 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
884647 AAAATGCTAT
884657 ATAAAAAATGTTAAAAGAAAAA
1 ATAAAAAATGTTAAAAGAAAAA
884679 ATAAAATATTAAAT-TTCAGAAA-ATAAAA
1 AT--AA-A--AAATGTT-A-AAAGA-AAAA
*
884707 ATAAAAAATGTTAAAAGAGAAA
1 ATAAAAAATGTTAAAAGAAAAA
884729 ATAAAAA
1 ATAAAAA
884736 TAAAACAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 20
0.69 0.01 0.30
Matches are distributed among these distances:
22 15 0.33
23 6 0.13
24 4 0.09
25 2 0.04
26 4 0.09
27 6 0.13
28 9 0.20
ACGTcount: A:0.70, C:0.01, G:0.08, T:0.22
Consensus pattern (22 bp):
ATAAAAAATGTTAAAAGAAAAA
Found at i:884689 original size:51 final size:50
Alignment explanation
Indices: 884631--884734 Score: 145
Period size: 50 Copynumber: 2.1 Consensus size: 50
884621 TCAAAGAAGG
* ** *
884631 AAATATTAAATTTTAAAAAATGCTATATAAAAAATGTTAAAAGAAAAAATA
1 AAATATTAAATTTCAAAAAAT-AAAAATAAAAAATGTTAAAAGAAAAAATA
* *
884682 AAATATTAAATTTCAGAAAATAAAAATAAAAAATGTTAAAAGAGAAAATA
1 AAATATTAAATTTCAAAAAATAAAAATAAAAAATGTTAAAAGAAAAAATA
884732 AAA
1 AAA
884735 ATAAAACAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 28 0.60
51 19 0.40
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (50 bp):
AAATATTAAATTTCAAAAAATAAAAATAAAAAATGTTAAAAGAAAAAATA
Found at i:884747 original size:10 final size:10
Alignment explanation
Indices: 884726--884813 Score: 50
Period size: 10 Copynumber: 8.2 Consensus size: 10
884716 GTTAAAAGAG
884726 AAAATAAAAAT
1 AAAA-AAAAAT
*
884737 AAAACAAAAT
1 AAAAAAAAAT
*
884747 AAAAAAAAAG
1 AAAAAAAAAT
884757 AAGTGAGAAAAAAT
1 AA---A-AAAAAAT
*
884771 AAAACAAAAT
1 AAAAAAAAAT
* *
884781 AATAATAAAT
1 AAAAAAAAAT
*
884791 AAAAGAGAAAT
1 AAAA-AAAAAT
* *
884802 ATAATAAAAT
1 AAAAAAAAAT
884812 AA
1 AA
884814 TAAATAATAG
Statistics
Matches: 58, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
10 36 0.62
11 13 0.22
13 1 0.02
14 8 0.14
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:884749 original size:28 final size:28
Alignment explanation
Indices: 884696--884750 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
884686 ATTAAATTTC
**
884696 AGAAAATAAAAATAAAAAATGTTAAAAG
1 AGAAAATAAAAATAAAAAATAATAAAAG
884724 AGAAAATAAAAATAAAACAA-AATAAAA
1 AGAAAATAAAAATAAAA-AATAATAAAA
884751 AAAAAGAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (28 bp):
AGAAAATAAAAATAAAAAATAATAAAAG
Found at i:884790 original size:20 final size:20
Alignment explanation
Indices: 884767--884809 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
884757 AAGTGAGAAA
884767 AAATAAAACA-AAATAATAAT
1 AAATAAAACAGAAAT-ATAAT
*
884787 AAATAAAAGAGAAATATAAT
1 AAATAAAACAGAAATATAAT
884807 AAA
1 AAA
884810 ATAATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (20 bp):
AAATAAAACAGAAATATAAT
Found at i:884799 original size:34 final size:34
Alignment explanation
Indices: 884731--884810 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
884721 AAGAGAAAAT
**
884731 AAAAATAAAACAAAATAAAAAAAAAGAAGTGAGA
1 AAAAATAAAACAAAATAAAAAAAAAGAAAAGAGA
* * *
884765 AAAAATAAAACAAAATAATAATAAATAAAAGAGA
1 AAAAATAAAACAAAATAAAAAAAAAGAAAAGAGA
884799 AATATAATAAAA
1 AA-A-AATAAAA
884811 TAATAAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 31 0.79
35 1 0.03
36 7 0.18
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (34 bp):
AAAAATAAAACAAAATAAAAAAAAAGAAAAGAGA
Found at i:886159 original size:200 final size:200
Alignment explanation
Indices: 885786--886285 Score: 599
Period size: 200 Copynumber: 2.5 Consensus size: 200
885776 TCTTCTCAGT
* *** ** *
885786 TTAAAGACC-TCAGTTTGAAAATTCAACCGGAAAGTAGTTCATTTATGCTACCATATGGTTGATA
1 TTAAAGACCAT-AGTTT-AAACTTCAACCGGAAAGTAGTTCATCGCTGCTACCATGCGATTGATA
* * * * * *
885850 TGCCCTCGAGCTGAATGGAATCGAACTCGAAGGGTTTTTTTTTATAGAGAGCTCTTCTCGCCTTA
64 TGCCATCGAGCTGAATGGAATCGAACTCGAA-AG-TTTTGTTAACAGAGAGCCCTTCTCGCCTTA
* * *
885915 AGCTATACTGTAAATTTGGCTGGGAGATGGTTCCTTGTTGCTAAATCACAACCAACCTAGGTCTT
127 AGCTATACTGTAAATTTGGCTGGGAGATAGTTCCTTGTTGCTAAATCACAACAAACCTAGGTATT
885980 CTTCTTGAC
192 CTTCTTGAC
* * * * *
885989 TTAAAGATCATAGTTTAAATTTTAACCGGAAAGTAGTTCCTCG-TTCTTACCATGCGATTGATAT
1 TTAAAGACCATAGTTTAAACTTCAACCGGAAAGTAGTTCATCGCTGC-TACCATGCGATTGATAT
* * * * * *
886053 GCCTTCGAGCTGAATGGAATCGAACTTGAAAGTTTTGTTAACATATATCCCTTCTCGCCTTGAGC
65 GCCATCGAGCTGAATGGAATCGAACTCGAAAGTTTTGTTAACAGAGAGCCCTTCTCGCCTTAAGC
* ** *
886118 TATGCTGTAAATTTGGCTGGGAGATAGTTCCTTGTTGCTAAATCACAGTAAACCTTGGTATTCTT
130 TATACTGTAAATTTGGCTGGGAGATAGTTCCTTGTTGCTAAATCACAACAAACCTAGGTATTCTT
*
886183 CTTGAT
195 CTTGAC
* * * *
886189 TTAAAGACCTTAGTTTAAACTTCAACTGGAAAGTAGTTCATCGCTGCTACCATGTGGTTGATATG
1 TTAAAGACCATAGTTTAAACTTCAACCGGAAAGTAGTTCATCGCTGCTACCATGCGATTGATATG
* *
886254 TCATCGAGCTGAATGGAATTGAACTCGAAAGT
66 CCATCGAGCTGAATGGAATCGAACTCGAAAGT
886286 CATGTGGTAT
Statistics
Matches: 252, Mismatches: 42, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
200 169 0.67
201 5 0.02
202 64 0.25
203 13 0.05
204 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (200 bp):
TTAAAGACCATAGTTTAAACTTCAACCGGAAAGTAGTTCATCGCTGCTACCATGCGATTGATATG
CCATCGAGCTGAATGGAATCGAACTCGAAAGTTTTGTTAACAGAGAGCCCTTCTCGCCTTAAGCT
ATACTGTAAATTTGGCTGGGAGATAGTTCCTTGTTGCTAAATCACAACAAACCTAGGTATTCTTC
TTGAC
Found at i:887023 original size:20 final size:20
Alignment explanation
Indices: 886998--887069 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
886988 GATTCAAGTT
886998 GTATCGATACCAAGAGGAGA
1 GTATCGATACCAAGAGGAGA
*
887018 GTATCGATACCAAGAGGGGA
1 GTATCGATACCAAGAGGAGA
*
887038 GTATCGATACCAAGATGATG-
1 GTATCGATACCAAGAGGA-GA
887058 GTATCGATACCA
1 GTATCGATACCA
887070 TTGATCACAA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
20 47 0.98
21 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (20 bp):
GTATCGATACCAAGAGGAGA
Found at i:887913 original size:68 final size:68
Alignment explanation
Indices: 887804--888327 Score: 782
Period size: 68 Copynumber: 7.7 Consensus size: 68
887794 AAGATAAAGA
*
887804 CCTAACTGTGCATTTGACAGAAAGGTG-CGAATCATGCCAGTTAAATGAAAGGCTAAGTGCCTTT
1 CCTAACTGTGCATTTGACAGAAAGGTGTC-AATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
887868 GAGG
65 GAGG
* * *
887872 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGATACGTACCTTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
887937 AGG
66 AGG
* * * * * *
887940 CCTAACTGTGTATTTGATAAAAAGGTGTCAATCATGTCAGTTAGATGAAAGGCTAAGTGTCTTAG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
888005 AGG
66 AGG
*
888008 CCTAACTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
888073 AGG
66 AGG
* * * * * *
888076 CCTAACTGTGAATTTGACAGAAAGGTGTCAATCATGTCAGTTAAATGAATGGCTAAGTTCATTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
888141 AGG
66 AGG
* * *
888144 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAATTAGATGAAAAGCTAAGTCCCTTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
*
888209 AGA
66 AGG
* * *
888212 CCTAA-TTTGCATTTGACAAAAAGGTGTCAATCATGCCAGTTAGATGGAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
888276 AGG
66 AGG
* * *
888279 CCTAACTGTGCATTTGACAAAAAGGTGTCGATGATGCCAGTTAGATGAA
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAA
888328 TGGTTAAATA
Statistics
Matches: 407, Mismatches: 47, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
67 60 0.15
68 346 0.85
69 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (68 bp):
CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
AGG
Found at i:888414 original size:81 final size:81
Alignment explanation
Indices: 888285--888579 Score: 423
Period size: 81 Copynumber: 3.6 Consensus size: 81
888275 GAGGCCTAAC
* *
888285 TGTGCATTTGACAAAAAGGTGTCGATGATGCCAGTTAGATGAATGGTTAAATACCATTT-AGTAA
1 TGTGCATTTGACAAAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACC-TTTGAGTAA
* *
888349 GAGATTAATTGCCTAGT
65 AAGATTAATAGCCTAGT
* * * *
888366 TGTGTATTTGACAGAAAGGTGTCAATGATGTCAGTTAGATGAAAGGTTAAATACCTTTGTGTAAA
1 TGTGCATTTGACAAAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
888431 AGATTAATAGCCTAGT
66 AGATTAATAGCCTAGT
888447 TGTGCATTTGACAAAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
1 TGTGCATTTGACAAAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
*
888512 AGATTAATAGCCTAGC
66 AGATTAATAGCCTAGT
* * * * * *
888528 TGTGCATTTGGCAGAAAGGTGAT-AATCATGCAAGATAGATGAAAGGCTAAAT
1 TGTGCATTTGACAAAAAGGTG-TCAATGATGCCAGTTAGATGAAAGGTTAAAT
888580 GTTTTTGGGT
Statistics
Matches: 193, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
80 3 0.02
81 189 0.98
82 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.30
Consensus pattern (81 bp):
TGTGCATTTGACAAAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
AGATTAATAGCCTAGT
Found at i:891221 original size:2 final size:2
Alignment explanation
Indices: 891214--891245 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
891204 ATGATGTCAG
891214 AT AT AT AT -T 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 A
891246 GCTTTTCTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:893793 original size:68 final size:68
Alignment explanation
Indices: 893679--894154 Score: 647
Period size: 68 Copynumber: 7.0 Consensus size: 68
893669 ACAAGATAAT
* * * *
893679 GACCTAACTGTGCATTTGACATAAAGGTGTCAATCATGCCAATTAGATGAAAGGCTAAGTGCCTT
1 GACCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
893744 TGA
66 TGA
* *
893747 GACCTAACTGTGCATTTGACAGAAAAGTGACAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTT
1 GACCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
893812 TGA
66 TGA
* * * *
893815 GGCCTAACTGTGAATTTGATAGAAAAGTGTCAATCATG-TCAGTTAGATGAAATGCTAAGTGCCT
1 GACCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCT-AGTTAGATGAAAGGCTAAGTGCCT
893879 TTGA
65 TTGA
*
893883 -AGCCTAACTGTACATTTGACA-AAAAGATGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCC
1 GA-CCTAACTGTGCATTTGACAGAAAAG-TGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCC
893946 TTTGA
64 TTTGA
* * *
893951 GACCTAACTGTGCATTTGACAGAAAGGTGTCAACCATACTAGTTAGATGAAAGGCTAAGTGCCTT
1 GACCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
894016 TGA
66 TGA
* * * *
894019 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAACCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GACCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
894084 TGA
66 TGA
* * * * * * *
894087 -AGCCTAACTATGCATTTGACAG-AAAGATGTCAATGATGCCAGTTAGATGGAAGGTTAAATACC
1 GA-CCTAACTGTGCATTTGACAGAAAAG-TGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCC
894150 TTTGA
64 TTTGA
894155 TTAAAAGATT
Statistics
Matches: 367, Mismatches: 33, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
67 9 0.02
68 352 0.96
69 6 0.02
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (68 bp):
GACCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:894051 original size:204 final size:204
Alignment explanation
Indices: 893681--894154 Score: 741
Period size: 204 Copynumber: 2.3 Consensus size: 204
893671 AAGATAATGA
* * *
893681 CCTAACTGTGCATTTGACATAAAGGTGTCAATCATGCCAATTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAAAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
** *
893746 AGACCTAACTGTGCATTTGACAGAAAAGTGACAATTATGCTAGTTAGATGAAAGGCTAAGTGCCT
66 AGACCTAACTGTGCATTTGACAGAAAAGTGACAACCATACTAGTTAGATGAAAGGCTAAGTGCCT
* * * *
893811 TTGAGGCCTAACTGTGAATTTGATAGAAAAGTGTCAATCATGTCAGTTAGATGAAATGCTAAGTG
131 TTGAGGCCTAACTGTGAATTTGACAGAAAAGTGTCAACCATGCCAGTTAGATGAAAGGCTAAGTG
893876 CCTTTGAAG
196 CCTTTGAAG
* *
893885 CCTAACTGTACATTTGACAAAAAGATGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAAAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
* *
893950 AGACCTAACTGTGCATTTGACAGAAAGGTGTCAACCATACTAGTTAGATGAAAGGCTAAGTGCCT
66 AGACCTAACTGTGCATTTGACAGAAAAGTGACAACCATACTAGTTAGATGAAAGGCTAAGTGCCT
* *
894015 TTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAACCATGCCAGTTAGATGAAAGGCTAAGTG
131 TTGAGGCCTAACTGTGAATTTGACAGAAAAGTGTCAACCATGCCAGTTAGATGAAAGGCTAAGTG
894080 CCTTTGAAG
196 CCTTTGAAG
* * * * * * *
894089 CCTAACTATGCATTTGACAGAAAGATGTCAATGATGCCAGTTAGATGGAAGGTTAAATACCTTTG
1 CCTAACTGTGCATTTGACAAAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
894154 A
66 A
894155 TTAAAAGATT
Statistics
Matches: 245, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
204 245 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (204 bp):
CCTAACTGTGCATTTGACAAAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
AGACCTAACTGTGCATTTGACAGAAAAGTGACAACCATACTAGTTAGATGAAAGGCTAAGTGCCT
TTGAGGCCTAACTGTGAATTTGACAGAAAAGTGTCAACCATGCCAGTTAGATGAAAGGCTAAGTG
CCTTTGAAG
Found at i:894224 original size:81 final size:81
Alignment explanation
Indices: 894097--894486 Score: 492
Period size: 81 Copynumber: 4.8 Consensus size: 81
894087 AGCCTAACTA
* * *
894097 TGCATTTGACAGAAAGATGTCAATGATGCCAGTTAGATGGAAGGTTAAATACCTTTGATTAAAAG
1 TGCATTTGACAGAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
*
894162 ATTTATAGCCTAGTTG
66 ATTAATAGCCTAGTTG
* * * * * * **
894178 TGCATTTGACAGGAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCATTAAGTAAGGG
1 TGCATTTGACAGAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
894243 ATTAATAGCCTAGTTG
66 ATTAATAGCCTAGTTG
* * *
894259 TTCATTTGACATAAAGGTGTCAATGATTCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
1 TGCATTTGACAGAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
*
894324 ATTAATAGCCTTGTTG
66 ATTAATAGCCTAGTTG
* * *
894340 TGCATTCGGCAGAAAGGTATCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
1 TGCATTTGACAGAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
*
894405 ATTAATAGCCTAGTTC
66 ATTAATAGCCTAGTTG
* ** * * ** * * ** *
894421 TGTATTTGGTAGAAAGATGTCAATCATGAAAGTTAGATGAAAAGCTAAATGTCTTTGGGTAAAAG
1 TGCATTTGACAGAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
894486 A
66 A
894487 CTAAAGGAAA
Statistics
Matches: 264, Mismatches: 45, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 264 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.31
Consensus pattern (81 bp):
TGCATTTGACAGAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
ATTAATAGCCTAGTTG
Found at i:896534 original size:20 final size:20
Alignment explanation
Indices: 896495--896535 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
896485 GAATTCCACC
**
896495 ACATGCAACTATATTCTCCT
1 ACATGCAACTATATGATCCT
*
896515 ACATGCATCTATATGATCCT
1 ACATGCAACTATATGATCCT
896535 A
1 A
896536 AATGAGCTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (20 bp):
ACATGCAACTATATGATCCT
Found at i:903112 original size:68 final size:68
Alignment explanation
Indices: 902998--903450 Score: 523
Period size: 68 Copynumber: 6.8 Consensus size: 68
902988 ACAAGATAAT
* * * * *
902998 GACCTAACTGTGCATTTGACATAAAGGTGTCAATCATGCCAATTAGATGAAAGGCTAAGTTCCTT
1 GACCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
903063 TGA
66 TGA
* * *
903066 GACCTAACTGTTCA-TTGCACAGAAATATGACAATCATGCTAGTTAGATGAAAGGCTAAGTGCCT
1 GACCTAACTGTGCATTTG-ACAGAAAGATGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCT
903130 TTGA
65 TTGA
* * * * * * *
903134 GGCCTAATTATGAATTTGATAGAAA-AGTGTCAATCATG-TCAGCTAGATGAAATGCTAAGTGCC
1 GACCTAACTGTGCATTTGACAGAAAGA-TGTCAATCATGCT-AGTTAGATGAAAGGCTAAGTGCC
903197 TTTGA
64 TTTGA
* * *
903202 -AGCCTAACTGTACATTTGACAAAAAGATGTCAATCATACTAGTTAGATGAAAGGCTAAGTGCCT
1 GA-CCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCT
903266 TTGA
65 TTGA
* * * * *
903270 GACCTAACTGTGAATTTTACAGAAAGGTGTCAACCATACTAGTTAGATGAAAGGCTAAGTGCC--
1 GACCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
903333 ---
66 TGA
* * *
903333 G-CCTAACTGTGCATTTGACAGAAAGGTGTCAACCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GACCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
903397 TGA
66 TGA
* * *
903400 -AGCCCAACTGTGCATTTGAAAGAAAGATGTCAATGATGCTAGTTAGATGAA
1 GA-CCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCTAGTTAGATGAA
903451 CGGTTAAATA
Statistics
Matches: 327, Mismatches: 43, Indels: 30
0.82 0.11 0.08
Matches are distributed among these distances:
62 57 0.17
63 1 0.00
67 5 0.02
68 258 0.79
69 6 0.02
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (68 bp):
GACCTAACTGTGCATTTGACAGAAAGATGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:903486 original size:35 final size:35
Alignment explanation
Indices: 903435--903502 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
903425 GATGTCAATG
*
903435 ATGCTAGTTAGATGAACGGTTAAATACCGTTAATT
1 ATGCCAGTTAGATGAACGGTTAAATACCGTTAATT
903470 ATGCCAGTTAGATGAACGGTTAAATACCGTTAA
1 ATGCCAGTTAGATGAACGGTTAAATACCGTTAA
903503 GTAAGAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (35 bp):
ATGCCAGTTAGATGAACGGTTAAATACCGTTAATT
Found at i:903593 original size:81 final size:81
Alignment explanation
Indices: 903470--903753 Score: 372
Period size: 81 Copynumber: 3.5 Consensus size: 81
903460 ACCGTTAATT
* * * * *
903470 ATGCCAGTTAGATGAACGGTTAAATACCGTTAAGTAAGAGATTAATAGCCTAGTTGTTCATTTGA
1 ATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTTCATTTGG
*
903535 CATAAAGGTGTCAATG
66 CAGAAAGGTGTCAATG
* * * *
903551 ATTCCAGTTAGATGAAAGGTTAAGTACCTTTGAGCAAAAGATTAATAGCCTAGTTGTGCATTTGG
1 ATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTTCATTTGG
*
903616 CAGAAAGGTATCAATG
66 CAGAAAGGTGTCAATG
*
903632 ATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTCTGT-ATTTG
1 ATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGT-TCATTTG
*
903696 GCAGAAAGGTGTCAATC
65 GCAGAAAGGTGTCAATG
** * * ** *
903713 ATGAAAGTTAGATGAAAAGCTAAATGGCTTTGGGTAAAAGA
1 ATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGA
903754 CTAAAGGAAA
Statistics
Matches: 177, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
81 177 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (81 bp):
ATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGTTGTTCATTTGG
CAGAAAGGTGTCAATG
Found at i:904228 original size:20 final size:21
Alignment explanation
Indices: 904188--904229 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
904178 ACAAATGAGA
904188 ATGTTGTGGCAAAATAAAATGG
1 ATGTTGTGG-AAAATAAAATGG
*
904210 ATGTTGTGG-AAATAGAATGG
1 ATGTTGTGGAAAATAAAATGG
904230 TGCTAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.38, C:0.02, G:0.31, T:0.29
Consensus pattern (21 bp):
ATGTTGTGGAAAATAAAATGG
Found at i:910272 original size:111 final size:111
Alignment explanation
Indices: 910055--910471 Score: 566
Period size: 111 Copynumber: 3.7 Consensus size: 111
910045 TCTATGGTAG
* * * * * * *
910055 ACTTATTCCACTGTCACTAAGAGAATATCAAATCTTGGAAGAAAGTGATTTTTTTCCTCTTCTTA
1 ACTTGTTCCACTGTCACTCAGAGAATATCAAATCTTGGAAGAGAGTGA-TCTGTTCCGCTTCTTC
* * *
910120 TAAGGTAATATCATATCTGAGGGATTTGATCCATTGAATCGGGGCAG
65 TAAGGGAATATCATATCTGAGGGAGTTGATCCATTGAATCGGGGCAA
* * * *
910167 ACTTGTTCCGCTGTCACCCAGGGAATATCAAATCTTGGAAGAGAGTGATCTGTTCCACTTCTTCT
1 ACTTGTTCCACTGTCACTCAGAGAATATCAAATCTTGGAAGAGAGTGATCTGTTCCGCTTCTTCT
* * *
910232 AAGGGAATATCAAATCTGGGGGAGTTGATCCGTTGAATCGGGGCAA
66 AAGGGAATATCATATCTGAGGGAGTTGATCCATTGAATCGGGGCAA
* *
910278 ACTTGTTCCACTCTCACTCAGAGAATATCAAATCTTGGAAGAGAGTGATCTGTTCCGCTTTTTCT
1 ACTTGTTCCACTGTCACTCAGAGAATATCAAATCTTGGAAGAGAGTGATCTGTTCCGCTTCTTCT
* * *
910343 AAGGGAATATCAGATCTGAGTGAGTTGATCCATTGAATCGGGGAAA
66 AAGGGAATATCATATCTGAGGGAGTTGATCCATTGAATCGGGGCAA
* * * * *
910389 ACTTGTTCCACTATCACTCA-AGGAATATCAAATCTTCGAAGAGAGGGATCTATTCTGCTTCTTC
1 ACTTGTTCCACTGTCACTCAGA-GAATATCAAATCTTGGAAGAGAGTGATCTGTTCCGCTTCTTC
910453 TAAGGGAATATCATATCTG
65 TAAGGGAATATCATATCTG
910472 CAAATTAAAC
Statistics
Matches: 270, Mismatches: 34, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
110 1 0.00
111 227 0.84
112 42 0.16
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (111 bp):
ACTTGTTCCACTGTCACTCAGAGAATATCAAATCTTGGAAGAGAGTGATCTGTTCCGCTTCTTCT
AAGGGAATATCATATCTGAGGGAGTTGATCCATTGAATCGGGGCAA
Found at i:912181 original size:2 final size:2
Alignment explanation
Indices: 912169--912229 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
912159 AACTTTATTG
*
912169 TA TA CA TA TA TA TA TA TA 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 TA TA TA TA TA TA
912211 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
912230 TCTAGGTATA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:917924 original size:19 final size:19
Alignment explanation
Indices: 917900--917938 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
917890 TCATTGTGTT
917900 TTTTTCTTTTTACTTTTAC
1 TTTTTCTTTTTACTTTTAC
917919 TTTTTCTTTTTACTTTTAC
1 TTTTTCTTTTTACTTTTAC
917938 T
1 T
917939 GAAACATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTCTTTTTACTTTTAC
Found at i:924592 original size:2 final size:2
Alignment explanation
Indices: 924587--924626 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
924577 AACGTGTGTG
924587 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
924627 GTTTGTTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:930539 original size:20 final size:21
Alignment explanation
Indices: 930515--930584 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 21
930505 ATATCTAGAG
930515 TTAATTAAATATATGTTTTAA
1 TTAATTAAATATATGTTTTAA
* * *
930536 -TAATCCTGAATATTTAATTTTAA
1 TTAAT--TAAATATAT-GTTTTAA
*
930559 TTAATTAAATATA-GATTTAA
1 TTAATTAAATATATGTTTTAA
930579 TTAATT
1 TTAATT
930585 TGAAATAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 15 0.39
22 13 0.34
23 6 0.16
24 4 0.11
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (21 bp):
TTAATTAAATATATGTTTTAA
Found at i:934139 original size:22 final size:22
Alignment explanation
Indices: 934113--934154 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
934103 CACTTCATGA
934113 AACTTGGACTTACCTCCATAGC
1 AACTTGGACTTACCTCCATAGC
*
934135 AACTTGGACTTACCTTCATA
1 AACTTGGACTTACCTCCATA
934155 ATTGCTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (22 bp):
AACTTGGACTTACCTCCATAGC
Found at i:934925 original size:14 final size:16
Alignment explanation
Indices: 934895--934935 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
934885 GTTATGAATT
934895 AATTAAATATCATTTC
1 AATTAAATATCATTTC
934911 AATTAAAT-T-ATTTC
1 AATTAAATATCATTTC
934925 -ATTAAAGTATC
1 AATTAAA-TATC
934936 TTTTATTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 6 0.27
14 6 0.27
15 2 0.09
16 8 0.36
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (16 bp):
AATTAAATATCATTTC
Found at i:935110 original size:14 final size:15
Alignment explanation
Indices: 935093--935145 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
935083 TCGGATCGGG
*
935093 TTTTGG-TCGAGTCA
1 TTTTGGATCGAGTTA
935107 TTTTGGATCGAGTTA
1 TTTTGGATCGAGTTA
*
935122 TTTCGGATCGAGTTA
1 TTTTGGATCGAGTTA
*
935137 TTTCGGATC
1 TTTTGGATC
935146 TATATTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (15 bp):
TTTTGGATCGAGTTA
Found at i:935119 original size:15 final size:15
Alignment explanation
Indices: 935099--935145 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
935089 CGGGTTTTGG
* *
935099 TCGAGTCATTTTGGA
1 TCGAGTTATTTCGGA
935114 TCGAGTTATTTCGGA
1 TCGAGTTATTTCGGA
935129 TCGAGTTATTTCGGA
1 TCGAGTTATTTCGGA
935144 TC
1 TC
935146 TATATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.40
Consensus pattern (15 bp):
TCGAGTTATTTCGGA
Found at i:935815 original size:20 final size:20
Alignment explanation
Indices: 935766--935817 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
935756 AATACTAAAG
935766 TAATTTTTTAATATTTTTAT
1 TAATTTTTTAATATTTTTAT
**
935786 T-ATAAATTTAATATTTTTAT
1 TAAT-TTTTTAATATTTTTAT
935806 TAATTTTTTAAT
1 TAATTTTTTAAT
935818 TTTATTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TAATTTTTTAATATTTTTAT
Found at i:936349 original size:21 final size:21
Alignment explanation
Indices: 936323--936365 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
936313 AATTTATCTC
936323 ACATGTAATTATTCTATACTA
1 ACATGTAATTATTCTATACTA
*
936344 ACATGTAATTATTCTATCCTA
1 ACATGTAATTATTCTATACTA
936365 A
1 A
936366 AATTTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (21 bp):
ACATGTAATTATTCTATACTA
Found at i:941997 original size:24 final size:26
Alignment explanation
Indices: 941954--942016 Score: 94
Period size: 24 Copynumber: 2.5 Consensus size: 26
941944 TAACAAGTTG
* *
941954 AATTCTACTATAATTTTACTATAATT
1 AATTCTAATATAATTCTACTATAATT
941980 AATT-T-ATATAATTCTACTATAATT
1 AATTCTAATATAATTCTACTATAATT
942004 AATTCTAATATAA
1 AATTCTAATATAA
942017 ATTCATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 21 0.64
25 2 0.06
26 10 0.30
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (26 bp):
AATTCTAATATAATTCTACTATAATT
Found at i:943247 original size:15 final size:15
Alignment explanation
Indices: 943203--943249 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
943193 GAGAATATAA
*
943203 AATATTTTATATTTTT
1 AATA-TTTATAATTTT
*
943219 AATATTCA-ATATTTT
1 AATATTTATA-ATTTT
943234 AATATTTATAATTTT
1 AATATTTATAATTTT
943249 A
1 A
943250 TGGGATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 1 0.04
15 20 0.77
16 5 0.19
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
AATATTTATAATTTT
Found at i:943296 original size:16 final size:17
Alignment explanation
Indices: 943261--943297 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
943251 GGGATGAAAA
943261 AAAAATAGTATTATTGT
1 AAAAATAGTATTATTGT
943278 AAAAAT-GTAATTATT-T
1 AAAAATAGT-ATTATTGT
943294 AAAA
1 AAAA
943298 TAATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
AAAAATAGTATTATTGT
Found at i:952361 original size:22 final size:22
Alignment explanation
Indices: 952327--952377 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
952317 CTGAGTGGCA
*
952327 TATGAAATTTGTCCCGAAGGACC
1 TATG-AATATGTCCCGAAGGACC
* *
952350 TGTGAATATGTCCCGGAGGACC
1 TATGAATATGTCCCGAAGGACC
952372 TATGAA
1 TATGAA
952378 ACCCTCGACT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (22 bp):
TATGAATATGTCCCGAAGGACC
Found at i:956922 original size:21 final size:20
Alignment explanation
Indices: 956873--956936 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 20
956863 CATATGAAAT
*
956873 TTGTCCCGAAGGACCTGTGAA
1 TTGTCCCGAA-GACCTATGAA
* *
956894 TATGTCCCAAATGACCTATGAG
1 T-TGTCCCGAA-GACCTATGAA
956916 TTGTCCCGGAAGACCTATGAA
1 TTGTCCC-GAAGACCTATGAA
956937 ACCCTCGACT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 16 0.46
22 19 0.54
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (20 bp):
TTGTCCCGAAGACCTATGAA
Found at i:961060 original size:21 final size:22
Alignment explanation
Indices: 961034--961075 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
961024 AAGGAAAGGT
*
961034 AGTATCGGCAC-TCCTTTAATG
1 AGTATCGACACTTCCTTTAATG
*
961055 AGTATCGATACTTCCTTTAAT
1 AGTATCGACACTTCCTTTAAT
961076 ATTTTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (22 bp):
AGTATCGACACTTCCTTTAATG
Found at i:961633 original size:25 final size:25
Alignment explanation
Indices: 961605--961654 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
961595 AAAACTCCAA
961605 CTTTTTCATTCTTGAAATTGAATTT
1 CTTTTTCATTCTTGAAATTGAATTT
961630 CTTTTTCATTCTTGAAATTGAATTT
1 CTTTTTCATTCTTGAAATTGAATTT
961655 TTCAATCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (25 bp):
CTTTTTCATTCTTGAAATTGAATTT
Found at i:965355 original size:16 final size:16
Alignment explanation
Indices: 965334--965366 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
965324 TAATAAATAA
965334 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
965350 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
965366 A
1 A
965367 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:966352 original size:24 final size:24
Alignment explanation
Indices: 966315--966377 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
966305 TCACTCCAGT
**
966315 GAACATAAATGAAC-AAGCATAAAC
1 GAACATAACCGAACGAA-CATAAAC
*
966339 GAACATAACCGAACGAATATAAAC
1 GAACATAACCGAACGAACATAAAC
966363 GAACATAACCGAACG
1 GAACATAACCGAACG
966378 TTCACGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 33 0.94
25 2 0.06
ACGTcount: A:0.54, C:0.21, G:0.14, T:0.11
Consensus pattern (24 bp):
GAACATAACCGAACGAACATAAAC
Found at i:967176 original size:204 final size:204
Alignment explanation
Indices: 966810--967217 Score: 725
Period size: 204 Copynumber: 2.0 Consensus size: 204
966800 TTGAGCTTTA
966810 CTTCGACTCAGCACTGAAACCAAGTCTTGAAAGCTTGGAATGTTTTGGCTCGTTGGCAAATCAGC
1 CTTCGACTCAGCACTGAAACCAAGTCTTGAAAGCTTGGAATGTTTTGGCTCGTTGGCAAATCAGC
966875 ACTCAGTTAATTGAAATTGAGTCCAGGCCTCACGTTACCCTTTCTCAAGCCCTTTTCTCGACCCT
66 ACTCAGTTAATTGAAATTGAGTCCAGGCCTCACGTTACCCTTTCTCAAGCCCTTTTCTCGACCCT
*
966940 GCCAGGCTTGAATATGTGTATAATCATTTGTTTCAAAGTAA-AAACTTTACCTCTATC-TTCTCC
131 GCCAGGCTTGAATATGTGTAAAATCATTTGTTTCAAAGTAAGAAACTTTACCTCTATCTTTCTCC
967003 TCCATTGGG
196 TCCATTGGG
967012 CTTCGACTCAGCACTTGAAAACCAAGTCTTGAAAGCTTGGAATGTTTTGGCTCGTTGGCAAATCA
1 CTTCGACTCAGCAC-TG-AAACCAAGTCTTGAAAGCTTGGAATGTTTTGGCTCGTTGGCAAATCA
967077 GCACTCAGTTAATTGAAATTGAGTCCAGGCCTCACGTTACCCTTTTCTCAAGCCCTTTTCTCGA-
64 GCACTCAGTTAATTGAAATTGAGTCCAGGCCTCACGTTACCC-TTTCTCAAGCCCTTTTCTCGAC
* *
967141 CCTG-CAGGCTTGAATCTGTTGTAAAATCATTTGTTTCAAAGTAAGAACCTTTACCTCTATCTTT
128 CCTGCCAGGCTTGAATATG-TGTAAAATCATTTGTTTCAAAGTAAGAAACTTTACCTCTATCTTT
967205 CTCCTCCATTGGG
192 CTCCTCCATTGGG
967218 ACTTTCCCAA
Statistics
Matches: 197, Mismatches: 3, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
202 14 0.07
203 15 0.08
204 117 0.59
205 36 0.18
206 15 0.08
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (204 bp):
CTTCGACTCAGCACTGAAACCAAGTCTTGAAAGCTTGGAATGTTTTGGCTCGTTGGCAAATCAGC
ACTCAGTTAATTGAAATTGAGTCCAGGCCTCACGTTACCCTTTCTCAAGCCCTTTTCTCGACCCT
GCCAGGCTTGAATATGTGTAAAATCATTTGTTTCAAAGTAAGAAACTTTACCTCTATCTTTCTCC
TCCATTGGG
Found at i:972265 original size:24 final size:24
Alignment explanation
Indices: 972235--972283 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
972225 TCCATTAAAA
972235 CCTAAAATTTGAGCTCAATTGAAG
1 CCTAAAATTTGAGCTCAATTGAAG
972259 CCTAAAATTTGAGCTCAATTGAAG
1 CCTAAAATTTGAGCTCAATTGAAG
972283 C
1 C
972284 GAAAGAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (24 bp):
CCTAAAATTTGAGCTCAATTGAAG
Found at i:975623 original size:27 final size:28
Alignment explanation
Indices: 975559--975629 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
975549 GTTAATTTAC
* *
975559 TAATAATTTAATATAAATAATGACTAATT
1 TAAT-ATTTAATATTAATAATGACTAATA
* *
975588 TAATA-TTAATATTAATAAT-TCTAGTA
1 TAATATTTAATATTAATAATGACTAATA
975614 TAATATTTAATATTAA
1 TAATATTTAATATTAA
975630 AACTATATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 9 0.24
27 23 0.62
28 1 0.03
29 4 0.11
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (28 bp):
TAATATTTAATATTAATAATGACTAATA
Found at i:976947 original size:3 final size:3
Alignment explanation
Indices: 976933--976996 Score: 53
Period size: 3 Copynumber: 21.0 Consensus size: 3
976923 TGTAATATTT
* *
976933 ATA ATT ATA ATA AT- ATA TATA ATTA AT- ATA ATA ATA ATA ATA A-C
1 ATA ATA ATA ATA ATA ATA -ATA A-TA ATA ATA ATA ATA ATA ATA ATA
976977 ATA TATA ATTA ATA ATA ATA
1 ATA -ATA A-TA ATA ATA ATA
976997 TATTATTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
2 5 0.10
3 33 0.66
4 12 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:976973 original size:30 final size:31
Alignment explanation
Indices: 976933--976996 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
976923 TGTAATATTT
* *
976933 ATAATTATAATAATATATATAATTAAT-ATA
1 ATAATAATAATAACATATATAATTAATAATA
976963 ATAATAATAATAACATATATAATTAATAATA
1 ATAATAATAATAACATATATAATTAATAATA
976994 ATA
1 ATA
976997 TATTATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.81
31 6 0.19
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (31 bp):
ATAATAATAATAACATATATAATTAATAATA
Found at i:976989 original size:19 final size:19
Alignment explanation
Indices: 976958--976999 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
976948 TATATAATTA
976958 ATATAATAATAATAATAAC
1 ATATAATAATAATAATAAC
*
976977 ATAT-ATAATTAATAATAAT
1 ATATAATAA-TAATAATAAC
976996 ATAT
1 ATAT
977000 TATTATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATAATAATAATAATAAC
Found at i:990644 original size:20 final size:20
Alignment explanation
Indices: 990619--990666 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
990609 CTAAATCTTT
* *
990619 TTTCAAAATTTCATTTTGAC
1 TTTCAAAAGTCCATTTTGAC
*
990639 TTTC-AAAGTCCATTTTTAC
1 TTTCAAAAGTCCATTTTGAC
990658 TTTCAAAAG
1 TTTCAAAAG
990667 AAAATTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (20 bp):
TTTCAAAAGTCCATTTTGAC
Found at i:992006 original size:20 final size:20
Alignment explanation
Indices: 991983--992046 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
991973 CAAGGGATTA
*
991983 ATCATTTTTCAAGGGGATCG
1 ATCATTTTTCAAAGGGATCG
*
992003 ATCATTTGGTCAAAGGGATCG
1 ATCATTT-TTCAAAGGGATCG
* * * *
992024 ATCCTTTTGCTAAGGAATCG
1 ATCATTTTTCAAAGGGATCG
992044 ATC
1 ATC
992047 CTTTGAGCCA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (20 bp):
ATCATTTTTCAAAGGGATCG
Found at i:992020 original size:21 final size:20
Alignment explanation
Indices: 991968--992026 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
991958 AAACTAATTG
* **
991968 TTGTCCAAGGGATTAATCAT
1 TTGTCAAAGGGATCGATCAT
* *
991988 TTTTCAAGGGGATCGATCAT
1 TTGTCAAAGGGATCGATCAT
992008 TTGGTCAAAGGGATCGATC
1 TT-GTCAAAGGGATCGATC
992027 CTTTTGCTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (20 bp):
TTGTCAAAGGGATCGATCAT
Found at i:992190 original size:20 final size:20
Alignment explanation
Indices: 992165--992215 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
992155 TTTTGTTTGC
*
992165 ACTTTGAATTATTTTTGAAG
1 ACTTTGAATAATTTTTGAAG
992185 ACTTTGAATAATTTTTGAAG
1 ACTTTGAATAATTTTTGAAG
992205 ACTTTGAATAA
1 ACTTTGAATAA
992216 ATTCAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (20 bp):
ACTTTGAATAATTTTTGAAG
Found at i:993558 original size:24 final size:24
Alignment explanation
Indices: 993531--993592 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
993521 GATCAGAATC
* *
993531 CAGACCAGAAATCAGCACAAAATT
1 CAGATCAGAAATCAGAACAAAATT
* *
993555 CAGATCAGAAATCATAACAGAATT
1 CAGATCAGAAATCAGAACAAAATT
*
993579 CAAATCAGAAATCA
1 CAGATCAGAAATCA
993593 AATAAAACAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.52, C:0.21, G:0.11, T:0.16
Consensus pattern (24 bp):
CAGATCAGAAATCAGAACAAAATT
Found at i:993575 original size:12 final size:12
Alignment explanation
Indices: 993558--993595 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
993548 CAAAATTCAG
993558 ATCAGAAATCATA
1 ATCAGAAATCA-A
*
993571 A-CAGAATTCAA
1 ATCAGAAATCAA
993582 ATCAGAAATCAA
1 ATCAGAAATCAA
993594 AT
1 AT
993596 AAAACATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 2 0.09
12 19 0.86
13 1 0.05
ACGTcount: A:0.55, C:0.16, G:0.08, T:0.21
Consensus pattern (12 bp):
ATCAGAAATCAA
Found at i:993576 original size:36 final size:36
Alignment explanation
Indices: 993500--993582 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
993490 ACGGAGATAT
* * *
993500 CAGAAATCAAAACAGAATTTAGATCAGAATCCAGAC
1 CAGAAATCAAAACAAAATTCAGATCAGAATCCAGAA
** *
993536 CAGAAATCAGCACAAAATTCAGATCAGAAAT-CATAA
1 CAGAAATCAAAACAAAATTCAGATCAG-AATCCAGAA
*
993572 CAGAATTCAAA
1 CAGAAATCAAA
993583 TCAGAAATCA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
36 34 0.92
37 3 0.08
ACGTcount: A:0.52, C:0.19, G:0.12, T:0.17
Consensus pattern (36 bp):
CAGAAATCAAAACAAAATTCAGATCAGAATCCAGAA
Found at i:999054 original size:23 final size:23
Alignment explanation
Indices: 999025--999088 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
999015 CCAATGTTCG
*
999025 ACTTATTTTCTATAGCATTCTTT
1 ACTTATTTTCTATAGCATTCCTT
* * *
999048 ACTTATTTTCCACAACATTCCTT
1 ACTTATTTTCTATAGCATTCCTT
999071 AC-TATTTGT-TATAGCATT
1 ACTTATTT-TCTATAGCATT
999089 TTACTCCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
22 11 0.33
23 22 0.67
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (23 bp):
ACTTATTTTCTATAGCATTCCTT
Found at i:1006889 original size:81 final size:81
Alignment explanation
Indices: 1006772--1007307 Score: 716
Period size: 81 Copynumber: 6.6 Consensus size: 81
1006762 CATTTAACTT
* * * * **
1006772 TTCATCTAACTTGAATGATTGACA-CTTTCCTGCCAAATACACAATTAGGCCATTTATCTTTTAC
1 TTCATCTAACTGGCATAATTGACACCTTT-CTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
1006836 TCAACGGTCTTTAACCA
65 TCAACGGTCTTTAACCA
* * *
1006853 TTCATCTAACTGGCATAATTGAAACCTTTCTACCAAATGCACAGCTGGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
1006918 CAACGGCCTTTAACCA
66 CAACGGTCTTTAACCA
* * * * *
1006934 TTCATCTAACTAGAATAATTGGCACCTTTATGCCAAATGCACAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
***
1006999 CAACGGTCTTTAATTG
66 CAACGGTCTTTAACCA
* * *
1007015 TTCATCTAACTAGCATAATTGACACCTTTATGCCAAATACACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
1007080 CAACGGTCTTAAACCG
66 CAACGGTCTTTAACCA
* * * *
1007096 TTCATCTAACAGACATAATTGACACCTTTCTGCCAAATGCATAGCTAGGCCATTTATATTTTAC-
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
** * *
1007160 CAACTATCTTTAATCG
66 CAACGGTCTTTAACCA
* * *
1007176 TTCATCTAACTGGCATAATTGACACTTTTCTTCCAAATGCACAGCTAGGCCATTTATCTTTTTCT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
1007241 CAACGGTCTTTAATCA
66 CAACGGTCTTTAACCA
* *
1007257 TTCATCTAACTGGCATAAGTGACACCTTTCTGTCAAATGCACAGCTAGGCC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCC
1007308 TCAAAGTCAC
Statistics
Matches: 399, Mismatches: 54, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
80 69 0.17
81 326 0.82
82 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
CAACGGTCTTTAACCA
Found at i:1007710 original size:55 final size:55
Alignment explanation
Indices: 1007584--1007796 Score: 302
Period size: 55 Copynumber: 3.9 Consensus size: 55
1007574 ACATATATTT
* * *
1007584 CCCATACGGAAATTCATACACTTAGTATGGATTTCTTAG-TTTGCACGCATAGTG
1 CCCATACAGAAATTCATACACTTAGTATGGATTTCTTAGTTTTGCACTCAAAGTG
* * *
1007638 CCCATACGGAAATTCATACTCTTAGTATGGATTTCTTAGTTTTGCACTCAAAGTA
1 CCCATACAGAAATTCATACACTTAGTATGGATTTCTTAGTTTTGCACTCAAAGTG
* * *
1007693 CCCATACAGAAAATCATACACTTAGTACGAATTTCTTAGTTTTGCACTCAAAGTG
1 CCCATACAGAAATTCATACACTTAGTATGGATTTCTTAGTTTTGCACTCAAAGTG
* *
1007748 CCCATACATAAATTCATACACTTAGTATGGATTTATTAAGTTTTTGCAC
1 CCCATACAGAAATTCATACACTTAGTATGGATTTCTT-AG-TTTTGCAC
1007797 ACTTAATGCC
Statistics
Matches: 141, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
54 38 0.27
55 93 0.66
56 2 0.01
57 8 0.06
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (55 bp):
CCCATACAGAAATTCATACACTTAGTATGGATTTCTTAGTTTTGCACTCAAAGTG
Found at i:1012263 original size:81 final size:81
Alignment explanation
Indices: 1012175--1012659 Score: 666
Period size: 81 Copynumber: 6.0 Consensus size: 81
1012165 AAGTTAGGGA
* * * *
1012175 ATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTCACACATTTCTTCCA
1 ATTTATCTTTTACTCAACGGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCA
*
1012240 AATGCACAACTAGGTC
66 AATGCACAACTAGGCC
* * *
1012256 ATTTATCTTTCACTCAACAGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTACCA
1 ATTTATCTTTTACTCAACGGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCA
* * *
1012321 AATGCATAGCTATGCC
66 AATGCACAACTAGGCC
* * *
1012337 ATTTATCTTTTACTCAACGGTCTTTAACTATTCATCTAACTGACATATTTGACACCTTTCTGCCA
1 ATTTATCTTTTACTCAACGGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCA
1012402 AATGCACAACTAGGCC
66 AATGCACAACTAGGCC
* * * * * * *
1012418 ATTTATCTTTTACTCAACGTTCTTTAACTATTTATCTAACTGACATAATTGTCATCTTTCTTCCA
1 ATTTATCTTTTACTCAACGGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCA
* * * *
1012483 AATACATAGCTAGGTC
66 AATGCACAACTAGGCC
* *
1012499 ATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGTATAATTGACACCTTTCTGCCA
1 ATTTATCTTTTACTCAACGGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCA
1012564 AATGCACAACTAGG-C
66 AATGCACAACTAGGCC
* * * ** *
1012579 ATTTATCTTTTGCTCAAAGGTCTTTTACTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCT
1 ATTTATCTTTTACTCAACGGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCA
1012644 AATGCACAACTAGGCC
66 AATGCACAACTAGGCC
1012660 TCAAAGGCAC
Statistics
Matches: 356, Mismatches: 47, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
80 74 0.21
81 282 0.79
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (81 bp):
ATTTATCTTTTACTCAACGGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCA
AATGCACAACTAGGCC
Found at i:1013061 original size:55 final size:55
Alignment explanation
Indices: 1012940--1013150 Score: 286
Period size: 55 Copynumber: 3.8 Consensus size: 55
1012930 ATATATATCA
* * *
1012940 CATACGGAAATTCATACACTTAGTAT-AGATTTATTAG-TTTGCACAT-ATAGTGCC
1 CATACAGAAATTCATACACTTAGTATGA-ATTTCTTAGTTTTGCAC-TCAAAGTGCC
* *
1012994 CATACGGAAATTCATACACTTAGTATGAATTTCTTGGTTTTGCACTCAAAGTGCC
1 CATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACTCAAAGTGCC
*
1013049 CATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGTACTCAAAGTGCC
1 CATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACTCAAAGTGCC
*
1013104 CATACATAAATTCATACACTTAGTATCG-ATTTCTTAAGTTTTTGCAC
1 CATACAGAAATTCATACACTTAGTAT-GAATTTCTT-AG-TTTTGCAC
1013151 ACTTAGTGAC
Statistics
Matches: 143, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
54 34 0.24
55 99 0.69
56 3 0.02
57 7 0.05
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (55 bp):
CATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACTCAAAGTGCC
Found at i:1013541 original size:19 final size:21
Alignment explanation
Indices: 1013501--1013554 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
1013491 TACCCCCACC
1013501 ATGGTATCGATACTACTATATT
1 ATGGTATCGATACTAC-ATATT
1013523 ATGGTATCGATACT-C-TATT
1 ATGGTATCGATACTACATATT
* *
1013542 ACGGTACCGATAC
1 ATGGTATCGATAC
1013555 CATTTTTGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 15 0.50
21 1 0.03
22 14 0.47
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (21 bp):
ATGGTATCGATACTACATATT
Found at i:1013762 original size:48 final size:48
Alignment explanation
Indices: 1013691--1013785 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
1013681 TAGTATCGAT
*
1013691 ATTGTTCTATCAGTACCGATACTTGTGCCCAGAATTTCTAATTTTCAA
1 ATTGTTCTATCAGTACCGATACTTGTGCCCAGAATTTCCAATTTTCAA
*
1013739 ATTGTTCTATCAGTATCGATACTTGTGCCCAGAATTTCCAATTTTCA
1 ATTGTTCTATCAGTACCGATACTTGTGCCCAGAATTTCCAATTTTCA
1013786 GCCTGATTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (48 bp):
ATTGTTCTATCAGTACCGATACTTGTGCCCAGAATTTCCAATTTTCAA
Found at i:1016684 original size:21 final size:21
Alignment explanation
Indices: 1016677--1016746 Score: 122
Period size: 21 Copynumber: 3.3 Consensus size: 21
1016667 AAAGTTTAGG
1016677 TACTAAAACTGATAGTTTAAA
1 TACTAAAACTGATAGTTTAAA
*
1016698 TACTAAAACTGATAGTTTAAG
1 TACTAAAACTGATAGTTTAAA
*
1016719 TACTAAAACTGATAGTTTAGA
1 TACTAAAACTGATAGTTTAAA
1016740 TACTAAA
1 TACTAAA
1016747 TGTGTAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (21 bp):
TACTAAAACTGATAGTTTAAA
Found at i:1025310 original size:18 final size:18
Alignment explanation
Indices: 1025269--1025306 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1025259 TTATTTTTAC
*
1025269 TTTAATTGCTTTTACTTA
1 TTTAATCGCTTTTACTTA
1025287 TTTAATCGCTTTTA-TTA
1 TTTAATCGCTTTTACTTA
1025304 TTT
1 TTT
1025307 TAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.21, C:0.11, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTAATCGCTTTTACTTA
Found at i:1037536 original size:20 final size:21
Alignment explanation
Indices: 1037511--1037570 Score: 77
Period size: 20 Copynumber: 2.8 Consensus size: 21
1037501 TTTGGTGCAG
*
1037511 AGGGAATCGATTCCCCCTTT-
1 AGGGAACCGATTCCCCCTTTA
*
1037531 AGGGAACCAATTCCCCCTTTGA
1 AGGGAACCGATTCCCCCTTT-A
1037553 AGGGGAACCGATTCCCCC
1 A-GGGAACCGATTCCCCC
1037571 CACAGGGGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 15 0.44
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (21 bp):
AGGGAACCGATTCCCCCTTTA
Found at i:1037579 original size:21 final size:21
Alignment explanation
Indices: 1037553--1037592 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1037543 CCCCCTTTGA
*
1037553 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
1037574 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
1037593 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:1050352 original size:50 final size:50
Alignment explanation
Indices: 1050253--1050353 Score: 114
Period size: 50 Copynumber: 2.0 Consensus size: 50
1050243 TGTAAATATA
* * * * **
1050253 TACATCTTCTAATAACTTGGTACTTACAAATGAACACATGTTTACACTGG
1 TACATCTCCTAATAACTTGATACTTAAAAATAAACACATAATTACACTGG
* *
1050303 TACATCTCCTAATATCTTGATA-TCTAAAAATAAACACATAATTATACTGG
1 TACATCTCCTAATAACTTGATACT-TAAAAATAAACACATAATTACACTGG
1050353 T
1 T
1050354 GTAAGTATGT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
49 1 0.02
50 41 0.98
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (50 bp):
TACATCTCCTAATAACTTGATACTTAAAAATAAACACATAATTACACTGG
Found at i:1050443 original size:20 final size:21
Alignment explanation
Indices: 1050407--1050445 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1050397 AATTAAGTTC
1050407 AATGAATTTTAAGATTTTACA
1 AATGAATTTTAAGATTTTACA
1050428 AATG-ATTTTACA-ATTTTA
1 AATGAATTTTA-AGATTTTA
1050446 TATTCGATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (21 bp):
AATGAATTTTAAGATTTTACA
Found at i:1050808 original size:64 final size:65
Alignment explanation
Indices: 1050690--1050816 Score: 195
Period size: 64 Copynumber: 2.0 Consensus size: 65
1050680 GATGCAATCT
* *
1050690 CCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTTGATGCATCGATGCACAAG
1 CCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTTCATGCATCGATGCACAAG
**
1050755 CCATGCATCGATGCA-TCAGGCTATTTTTC-AAACATCGAATGCATTTCATGCATCGATGCACA
1 CCATGCATCGATGCACTCAGAATA-TTTTCAAAACATCGAATGCATTTCATGCATCGATGCACA
1050817 CTTGGTGCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
64 37 0.65
65 20 0.35
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (65 bp):
CCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTTCATGCATCGATGCACAAG
Found at i:1056636 original size:20 final size:21
Alignment explanation
Indices: 1056607--1056662 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
1056597 TTTGCGTTTC
*
1056607 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
1056627 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
1056649 ATGCATCGATGCAT
1 ATGCATCGATGCAT
1056663 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:1058232 original size:21 final size:21
Alignment explanation
Indices: 1058190--1058233 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1058180 ACCCCGGGAG
*
1058190 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
1058211 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
1058232 CT
1 CT
1058234 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:1059288 original size:19 final size:19
Alignment explanation
Indices: 1059264--1059302 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1059254 TCGAATGCAT
*
1059264 TCCATGCACCGATGCACTC
1 TCCATGAACCGATGCACTC
*
1059283 TCCATGAATCGATGCACTC
1 TCCATGAACCGATGCACTC
1059302 T
1 T
1059303 GAATATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.36, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGAACCGATGCACTC
Found at i:1059402 original size:64 final size:65
Alignment explanation
Indices: 1059250--1059410 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
1059240 GAATTAATTG
* * *** *
1059250 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGAATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGAATCGATGCACTCAGAATATTTTCAA
* * **
1059315 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGAATCGATGCACTCAGAATA-TTTTCA
1059378 A
65 A
1059379 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
1059411 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 37 0.44
65 47 0.56
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGAATCGATGCACTCAGAATATTTTCAA
Found at i:1059425 original size:64 final size:64
Alignment explanation
Indices: 1059250--1059430 Score: 211
Period size: 64 Copynumber: 2.8 Consensus size: 64
1059240 GAATTAATTG
* * * * *
1059250 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGAATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAA
* ** **
1059315 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAA
*** *
1059379 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
1059431 AGTGTTCCAA
Statistics
Matches: 98, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 51 0.52
65 47 0.48
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:1060220 original size:2 final size:2
Alignment explanation
Indices: 1060213--1060253 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1060203 AAGTTTTATT
1060213 TA 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 TA T
1060254 TCTATGAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1060973 original size:18 final size:18
Alignment explanation
Indices: 1060950--1060985 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1060940 CTATCAAATC
* *
1060950 ATTAAAATTATTTATTTA
1 ATTAAAAATAATTATTTA
1060968 ATTAAAAATAATTATTTA
1 ATTAAAAATAATTATTTA
1060986 TGTTAGAGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTAAAAATAATTATTTA
Found at i:1062238 original size:39 final size:42
Alignment explanation
Indices: 1062169--1062263 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 42
1062159 GTTTCATCTT
1062169 TAGAGTAGAGATAGAGATGTTATAGAGTAGAGATAGAGATGTTA
1 TAGAGTAGAGATAGAGATGTTAT--AGTAGAGATAGAGATGTTA
*
1062213 TAGAGTAGAGATAGAGATG-T-T-GTAGAGATAGAGATGTTG
1 TAGAGTAGAGATAGAGATGTTATAGTAGAGATAGAGATGTTA
*
1062252 TGGAGTAGAGAT
1 TAGAGTAGAGAT
1062264 GAGGGTTGGA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
39 28 0.57
42 1 0.02
43 1 0.02
44 19 0.39
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.27
Consensus pattern (42 bp):
TAGAGTAGAGATAGAGATGTTATAGTAGAGATAGAGATGTTA
Found at i:1062239 original size:17 final size:17
Alignment explanation
Indices: 1062217--1062264 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
1062207 ATGTTATAGA
1062217 GTAGAGATAGAGATGTT
1 GTAGAGATAGAGATGTT
1062234 GTAGAGATAGAGATGTT
1 GTAGAGATAGAGATGTT
*
1062251 GTGGAG-TAGAGATG
1 GTAGAGATAGAGATG
1062265 AGGGTTGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 8 0.27
17 22 0.73
ACGTcount: A:0.33, C:0.00, G:0.40, T:0.27
Consensus pattern (17 bp):
GTAGAGATAGAGATGTT
Found at i:1062263 original size:22 final size:22
Alignment explanation
Indices: 1062169--1062247 Score: 140
Period size: 22 Copynumber: 3.5 Consensus size: 22
1062159 GTTTCATCTT
1062169 TAGAGTAGAGATAGAGATGTTA
1 TAGAGTAGAGATAGAGATGTTA
1062191 TAGAGTAGAGATAGAGATGTTA
1 TAGAGTAGAGATAGAGATGTTA
*
1062213 TAGAGTAGAGATAGAGATGTTG
1 TAGAGTAGAGATAGAGATGTTA
1062235 TAGAGATAGAGAT
1 TAGAG-TAGAGAT
1062248 GTTGTGGAGT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 48 0.87
23 7 0.13
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TAGAGTAGAGATAGAGATGTTA
Found at i:1065845 original size:21 final size:21
Alignment explanation
Indices: 1065819--1065867 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
1065809 TATCTTAAGA
1065819 TTATCTTGGATAACCTTCACT
1 TTATCTTGGATAACCTTCACT
*
1065840 TTATCTTGGATAAGCTTCACT
1 TTATCTTGGATAACCTTCACT
1065861 TTATCTT
1 TTATCTT
1065868 CAATTTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.47
Consensus pattern (21 bp):
TTATCTTGGATAACCTTCACT
Found at i:1072248 original size:22 final size:22
Alignment explanation
Indices: 1072222--1072267 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
1072212 CATATAAAAT
*
1072222 ATACAGAGGTCCTTCGGGACAA
1 ATACAGAGGTCCTTCAGGACAA
*
1072244 ATACATAGGTCCTTCAGGACAA
1 ATACAGAGGTCCTTCAGGACAA
1072266 AT
1 AT
1072268 TTCATATGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (22 bp):
ATACAGAGGTCCTTCAGGACAA
Found at i:1073026 original size:21 final size:21
Alignment explanation
Indices: 1073000--1073040 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1072990 TGAATAGTAT
*
1073000 TGTAGCAGC-GCATCGGTACAC
1 TGTAGCA-CTGCATCGATACAC
1073021 TGTAGCACTGCATCGATACA
1 TGTAGCACTGCATCGATACA
1073041 GAATTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (21 bp):
TGTAGCACTGCATCGATACAC
Found at i:1073089 original size:21 final size:21
Alignment explanation
Indices: 1073063--1073103 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1073053 GATGTTTTTG
1073063 TGCATCGGTACACTATAGCAA
1 TGCATCGGTACACTATAGCAA
*
1073084 TGCATCGGTACACTGTAGCA
1 TGCATCGGTACACTATAGCA
1073104 CTGTTCATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (21 bp):
TGCATCGGTACACTATAGCAA
Found at i:1080466 original size:117 final size:117
Alignment explanation
Indices: 1080231--1080458 Score: 271
Period size: 117 Copynumber: 1.9 Consensus size: 117
1080221 TTTACTGTGG
* * *
1080231 AAGGGTTCAGAATGAGAATAACTCGTCCAATGAGAAAGAAAAAGTTCTTAATGAGAAGAACTTGT
1 AAGGGTTCAGAATGAGAAGAACTCATCCAATGAGAAAGAAAAAGTTCATAA-GAGAAGAACTTGT
* * *
1080296 TCAAACTTTGCTCAAATCTATCACAAAAGGAGGTGGGTCAATATTTCCAATGA
65 TCAAACTTTGCTCAAATCCATCACAAAAAGAGGTGGATCAATATTTCCAATGA
* * ** *
1080349 AAGGGTTCATAATGAGAAGGACTCATCCAGATGAGGGAGAAAAAGTTCATAA-ACGAA-AGCTTG
1 AAGGGTTCAGAATGAGAAGAACTCATCCA-ATGAGAAAGAAAAAGTTCATAAGA-GAAGAACTTG
* * * * *
1080412 TTCGACCTTTTCTCAAATCCATCATAAAAAGAGGTTGATCAATATTT
64 TTCAAACTTTGCTCAAATCCATCACAAAAAGAGGTGGATCAATATTT
1080459 TCGATGAAGA
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
117 45 0.49
118 28 0.30
119 19 0.21
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (117 bp):
AAGGGTTCAGAATGAGAAGAACTCATCCAATGAGAAAGAAAAAGTTCATAAGAGAAGAACTTGTT
CAAACTTTGCTCAAATCCATCACAAAAAGAGGTGGATCAATATTTCCAATGA
Found at i:1080521 original size:77 final size:78
Alignment explanation
Indices: 1080408--1080569 Score: 213
Period size: 77 Copynumber: 2.1 Consensus size: 78
1080398 TAAACGAAAG
* * * *
1080408 CTTGTTCGACCTTTTCTCAAATCCATCATAAAAAGAGGTTGATCAAT-ATTTTCGA-TGAAGAAA
1 CTTGTTCAACCTTATCTC-AATCCATCACAAAAAGAGGTGGATC-ATCATTTTC-ATTGAAGAAA
1080471 TTCATAATGAAAAGAA
63 TTCATAATGAAAAGAA
* *
1080487 CTTGTTCAACCTTATCTC-ATCCATCACAGAAAGAGGTGGATCATCATTTTCATTGAAGAAGTTC
1 CTTGTTCAACCTTATCTCAATCCATCACAAAAAGAGGTGGATCATCATTTTCATTGAAGAAATTC
*
1080551 ATAATGAGAAGAA
66 ATAATGAAAAGAA
1080564 CTTGTT
1 CTTGTT
1080570 ATAACTTTGC
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
76 3 0.04
77 55 0.74
79 16 0.22
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (78 bp):
CTTGTTCAACCTTATCTCAATCCATCACAAAAAGAGGTGGATCATCATTTTCATTGAAGAAATTC
ATAATGAAAAGAA
Found at i:1082491 original size:10 final size:11
Alignment explanation
Indices: 1082476--1082504 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1082466 AACTACTTAC
1082476 TTTTATTTTA-
1 TTTTATTTTAT
1082486 TTTTATTTTAT
1 TTTTATTTTAT
1082497 TTTTATTT
1 TTTTATTT
1082505 CTAATGCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:1083060 original size:31 final size:31
Alignment explanation
Indices: 1083022--1083091 Score: 140
Period size: 31 Copynumber: 2.3 Consensus size: 31
1083012 ATTTTTATAT
1083022 AGGGAATCTATGGGAAAGTCTCTCTATTACA
1 AGGGAATCTATGGGAAAGTCTCTCTATTACA
1083053 AGGGAATCTATGGGAAAGTCTCTCTATTACA
1 AGGGAATCTATGGGAAAGTCTCTCTATTACA
1083084 AGGGAATC
1 AGGGAATC
1083092 ACATTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (31 bp):
AGGGAATCTATGGGAAAGTCTCTCTATTACA
Found at i:1093051 original size:826 final size:822
Alignment explanation
Indices: 1091463--1093111 Score: 2821
Period size: 826 Copynumber: 2.0 Consensus size: 822
1091453 ACTATCACCT
1091463 GGCCAAGGAATATGTGGTCGCGAATATATTGAGTAGGAAATCAATGTCAGAATTGTGGGCTTTAT
1 GGCCAAGGAATATGTGGTCGCGAATATATTGAGTAGGAAATCAATGTCAGAATTGTGGGCTTTAT
*
1091528 TAGCACGTCTGATCTTCTCTAGAGATGATAGTCTTTTAGTTGAGTTTTGAGTGGAGCAAGAGTTA
66 TAGCACGTCTGATCTTCTCTAGAGATGATAGTCTTTTAGCTGAGTTTTGAGTGGAGCAAGAGTTA
* * * * * *
1091593 GTAAGCATATTTAAAAGTTTGTACAGTTTTGATAATCCATTGAGGGGTAGTGTAGAGTAGGTCCA
131 GTAAGCATATTTAAAAGGTTGTACAGTTCTGACAATCCATCGAGGGGTAGTGTAGAATAGGTACA
1091658 TCAAGGTGAGGCATCGGGTTTTATGTTGAGAGATAGGGATGTGTTGTTCTTAAAGATCATTTATG
196 TCAAGGTGAGGCATCGGGTTTTATGTTGAGAGATAGGGATGTGTTGTTCTTAAAGATCATTTATG
* * * *
1091723 TATACGTACAAATCAACAGTTACATAGTAAAATCCTCCATCAGGCATACTAAAGTCCACTTTTAG
261 TATACCTACAAATCAACAGTTACATAGTAAAATCCTCCATAAGGCACACTAAAGTCCACTTTCAG
* * * *
1091788 TCCACCTAGGTAGTAATAAGATGTATCAAGAGCTCAGACAGTTATATTGATGTCATGCATGAAAA
326 TCCACCTAGGTAGTAATAAGATGTACCAAGAGATCAGACAGTTATATTGATGCCATGCATAAAAA
* * *
1091853 TAAGTATATGAGTTTATCTCTAGGTGCTTATTGTGTCTGTAAGTCAAAGTGGAATATTAAGTTCA
391 TAAGTATATGAGTTTATCTCTAGGTGCTTATTGTGTCAGTAAGTCAAACTGGAATATCAAGTTCA
1091918 TTCAGGGTTACTTCTACCCATTCAAATACCATAGTGGAAATAGGATAGGGTGATCATGGACTTCG
456 TTCAGGGTTACTTCTACCCATTCAAATACCATAGTGGAAATAGGATAGGGTGATCATGGACTTCG
1091983 TGATTGGGTTATCAATGACTAAAAAGAGACATGACACAATATGGGTTATAATAGACCAGTTAACC
521 TGATTGGGTTATCAATGACTAAAAAGAGACATGACACAATATGGGTTATAATAGACCAGTTAACC
1092048 AAGTCATCTCATTTCCTTCTAGTTCGGATGGACTACACCTTGGAGACGCTAGCTCAATTGTAGAT
586 AAGTCATCTCATTTCCTTCTAGTTCGGATGGACTACACCTTGGAGACGCTAGCTCAATTGTAGAT
* * * *
1092113 TCGTTAAATAGTGAGGTTGTATGAGGTACCAAATTCAATCATATCTGATAGATATTTATGTTTCA
651 TAGTTAAATAGTGAGGTTGCACGAGGTACCAAATTCAATCATATCTGATAGATATTTACGTTTCA
* *
1092178 ATTCTCAATTTTGAAAAGTTCTTTATGATTTGTTAGACACCAAATTACACTTTAACATCGCCTTC
716 ATTATCAATTTTGAAAAGTGCTTTATGATTTGTTAGACACCAAATTACACTTTAACATCGCCTTC
1092243 CATCCTTAAACGGATGACCAGTCAAAGTGAATCATTCAAATTC
781 CATCCTTAAAC-GATGACCAGTCAAAGTGAATCATTCAAATTC
** * * *
1092286 GGCCAAGGAATATGTGGTCGCGGGTGTATTGAGTAGGAAATCAATGTTAGAATTGTGGGCTTTGT
1 GGCCAAGGAATATGTGGTCGCGAATATATTGAGTAGGAAATCAATGTCAGAATTGTGGGCTTTAT
*
1092351 TAGCACGTCTGATCTTCTCTAGAGATGATAGTCTTTTGGCTGAGTTTTGAGTGGAGCAAGAGTTA
66 TAGCACGTCTGATCTTCTCTAGAGATGATAGTCTTTTAGCTGAGTTTTGAGTGGAGCAAGAGTTA
** *
1092416 GTAAGCATATTTAAAAGGTTGTACAGTTCTGACAATTGATCGAGGGGTTGTGTAGAATAGGTACA
131 GTAAGCATATTTAAAAGGTTGTACAGTTCTGACAATCCATCGAGGGGTAGTGTAGAATAGGTACA
* * * *
1092481 TCGAGGTGAGGCATTGGGTTTTATGTTGAGAGATAGGGATGTTTTGTTCTTTAAGGATCATTTAT
196 TCAAGGTGAGGCATCGGGTTTTATGTTGAGAGATAGGGATGTGTTGTTC-TTAAAGATCATTTAT
*
1092546 GTATACCTACAAATCAACAGTTACATAGTAAAATCCTCCATAAGGCACACTACAGTCCACTTTCA
260 GTATACCTACAAATCAACAGTTACATAGTAAAATCCTCCATAAGGCACACTAAAGTCCACTTTCA
1092611 GTCCACCTAGGTAGTAATAAGATGTACCAAGAGATCAGACAGTTATATTGATGCCATGCATAAAA
325 GTCCACCTAGGTAGTAATAAGATGTACCAAGAGATCAGACAGTTATATTGATGCCATGCAT--AA
*
1092676 AAATAAGTATCTGAGTTTATCTCTAGGTGCTTATTGTGTCAGTAAGTCAAACTGGAATATCAAGT
388 AAATAAGTATATGAGTTTATCTCTAGGTGCTTATTGTGTCAGTAAGTCAAACTGGAATATCAAGT
* *
1092741 TCATTCAGGGTTACTTCTGCCCATTCAAATACCTTAGTGGAAATAGGATAGGGTGATCATGGACT
453 TCATTCAGGGTTACTTCTACCCATTCAAATACCATAGTGGAAATAGGATAGGGTGATCATGGACT
*
1092806 TCGTGATTGGGTTATCAATGACTAAAAAGAGACATGACACAATATGGGTTATAATAGACCAGTTG
518 TCGTGATTGGGTTATCAATGACTAAAAAGAGACATGACACAATATGGGTTATAATAGACCAGTTA
* * *
1092871 ACCAAGTCATCTCATTTTCTTCTAGTTTGGATGGACTACACCTTGGGGACGCTAGCTCAATTGTA
583 ACCAAGTCATCTCATTTCCTTCTAGTTCGGATGGACTACACCTTGGAGACGCTAGCTCAATTGTA
*
1092936 GATTAGTTAAATAGTGAGGTTGCACGAGGTACCAAATTCAATTATATCTGATAGATATTTACGTT
648 GATTAGTTAAATAGTGAGGTTGCACGAGGTACCAAATTCAATCATATCTGATAGATATTTACGTT
*
1093001 TCAATTATCAATTTTGAAAAGTGCTTTATGATTTGTTAGATACCAAATTACACTTTAACATCGCC
713 TCAATTATCAATTTTGAAAAGTGCTTTATGATTTGTTAGACACCAAATTACACTTTAACATCGCC
* *
1093066 TTCCATCCTTAAACGATGACCAGTCAAAGTGAGTCATTCAGATTC
778 TTCCATCCTTAAACGATGACCAGTCAAAGTGAATCATTCAAATTC
1093111 G
1 G
1093112 TAAGAATATG
Statistics
Matches: 774, Mismatches: 49, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
823 225 0.29
824 132 0.17
825 30 0.04
826 387 0.50
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (822 bp):
GGCCAAGGAATATGTGGTCGCGAATATATTGAGTAGGAAATCAATGTCAGAATTGTGGGCTTTAT
TAGCACGTCTGATCTTCTCTAGAGATGATAGTCTTTTAGCTGAGTTTTGAGTGGAGCAAGAGTTA
GTAAGCATATTTAAAAGGTTGTACAGTTCTGACAATCCATCGAGGGGTAGTGTAGAATAGGTACA
TCAAGGTGAGGCATCGGGTTTTATGTTGAGAGATAGGGATGTGTTGTTCTTAAAGATCATTTATG
TATACCTACAAATCAACAGTTACATAGTAAAATCCTCCATAAGGCACACTAAAGTCCACTTTCAG
TCCACCTAGGTAGTAATAAGATGTACCAAGAGATCAGACAGTTATATTGATGCCATGCATAAAAA
TAAGTATATGAGTTTATCTCTAGGTGCTTATTGTGTCAGTAAGTCAAACTGGAATATCAAGTTCA
TTCAGGGTTACTTCTACCCATTCAAATACCATAGTGGAAATAGGATAGGGTGATCATGGACTTCG
TGATTGGGTTATCAATGACTAAAAAGAGACATGACACAATATGGGTTATAATAGACCAGTTAACC
AAGTCATCTCATTTCCTTCTAGTTCGGATGGACTACACCTTGGAGACGCTAGCTCAATTGTAGAT
TAGTTAAATAGTGAGGTTGCACGAGGTACCAAATTCAATCATATCTGATAGATATTTACGTTTCA
ATTATCAATTTTGAAAAGTGCTTTATGATTTGTTAGACACCAAATTACACTTTAACATCGCCTTC
CATCCTTAAACGATGACCAGTCAAAGTGAATCATTCAAATTC
Found at i:1097715 original size:24 final size:24
Alignment explanation
Indices: 1097700--1097814 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
1097690 CATAATTCAC
* * *
1097700 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCAGATCAGAATCCAT
* *
1097724 GTCAAGTATCAGATCATAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
*
1097748 GTCAAGTATCATATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
1097772 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
1097796 GTCAAGTATCAGATCAGAA
1 GTCAAGTATCAGATCAGAA
1097815 ATCAAATCGA
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 2 0.02
24 78 0.95
25 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:1097759 original size:48 final size:48
Alignment explanation
Indices: 1097683--1097817 Score: 173
Period size: 48 Copynumber: 2.8 Consensus size: 48
1097673 TATATAAAAA
* * *
1097683 ATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAGGTCA-AGT
1 ATCAGATCATAATCCAAGTCAAGTATCATATCAAAATCCAGGTCAGA-T
* *
1097731 ATCAGATCATAATCCAAGTCAAGTATCATATCAGAATCCATGTCAGAT
1 ATCAGATCATAATCCAAGTCAAGTATCATATCAAAATCCAGGTCAGAT
* * *
1097779 ATCAGATCAGAATCCATGTCAAGTATCAGATCAGAAATC
1 ATCAGATCATAATCCAAGTCAAGTATCATATCA-AAATC
1097818 AAATCGAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
48 71 0.93
49 5 0.07
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.26
Consensus pattern (48 bp):
ATCAGATCATAATCCAAGTCAAGTATCATATCAAAATCCAGGTCAGAT
Found at i:1108223 original size:11 final size:12
Alignment explanation
Indices: 1108195--1108225 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1108185 GTCGATTCTG
1108195 TTTTAACTATTA
1 TTTTAACTATTA
1108207 TTTTAACTATT-
1 TTTTAACTATTA
1108218 TTTTAACT
1 TTTTAACT
1108226 CCTTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTTAACTATTA
Found at i:1116757 original size:16 final size:16
Alignment explanation
Indices: 1116736--1116784 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
1116726 GTCAAAGTTT
*
1116736 CTATTACGGATAGCTC
1 CTATTACGGATAACTC
1116752 CTATTACGGATAACTC
1 CTATTACGGATAACTC
*
1116768 TTATTACGGATAACTC
1 CTATTACGGATAACTC
1116784 C
1 C
1116785 CACTATTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (16 bp):
CTATTACGGATAACTC
Done.