Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 122 of 316
Found at i:38699579 original size:17 final size:17
Alignment explanation
Indices: 38699554--38699608 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
38699544 TCTCTTTTCA
*
38699554 TTCTCTTTTTTTGAATT
1 TTCTTTTTTTTTGAATT
* *
38699571 TTCTTTTTTTTTTCATTT
1 TTC-TTTTTTTTTGAATT
* *
38699589 TTCTTTTCTTTTGTATT
1 TTCTTTTTTTTTGAATT
38699606 TTC
1 TTC
38699609 GCTCTTTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.07, C:0.13, G:0.04, T:0.76
Consensus pattern (17 bp):
TTCTTTTTTTTTGAATT
Found at i:38699582 original size:18 final size:18
Alignment explanation
Indices: 38699559--38699600 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
38699549 TTTCATTCTC
*
38699559 TTTTTTTGAATTTTCTTT
1 TTTTTTTCAATTTTCTTT
*
38699577 TTTTTTTCATTTTTCTTT
1 TTTTTTTCAATTTTCTTT
38699595 TCTTTT
1 T-TTTT
38699601 GTATTTTCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.07, C:0.10, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTTTTCAATTTTCTTT
Found at i:38703036 original size:47 final size:48
Alignment explanation
Indices: 38702967--38703083 Score: 209
Period size: 47 Copynumber: 2.4 Consensus size: 48
38702957 TATGAAATGA
38702967 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATG
38703014 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATG
*
38703063 TGATAGGGCCTAATGGCCGAT
1 TGATAAGGCCTAATGGCCGAT
38703084 ATATGTGATA
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
47 39 0.58
49 28 0.42
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (48 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATG
Found at i:38703088 original size:26 final size:26
Alignment explanation
Indices: 38703056--38703109 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
38703046 GAAAGTGTAT
38703056 ATATATGTGATAGGGCCTAATGGCCG
1 ATATATGTGATAGGGCCTAATGGCCG
38703082 ATATATGTGATAGGGCCTAATGGCCG
1 ATATATGTGATAGGGCCTAATGGCCG
38703108 AT
1 AT
38703110 GTGATGAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (26 bp):
ATATATGTGATAGGGCCTAATGGCCG
Found at i:38703089 original size:75 final size:75
Alignment explanation
Indices: 38703007--38703158 Score: 295
Period size: 75 Copynumber: 2.0 Consensus size: 75
38702997 GTGAAAGTGT
38703007 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
38703072 CTAATGGCCG
66 CTAATGGCCG
*
38703082 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
38703147 CTAATGGCCG
66 CTAATGGCCG
38703157 AT
1 AT
38703159 GTAATGAATG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (75 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
CTAATGGCCG
Found at i:38703199 original size:47 final size:47
Alignment explanation
Indices: 38703082--38703428 Score: 532
Period size: 47 Copynumber: 7.3 Consensus size: 47
38703072 CTAATGGCCG
*
38703082 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
* *
38703131 ATATATGTGATAGGGCCTAATGGCCGATGTAATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
38703178 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
38703225 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
38703272 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
38703319 ATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
* * * * * * *
38703368 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
38703415 ATAAATGTGATAAG
1 ATATATGTGATAAG
38703429 TCCCGAAGGG
Statistics
Matches: 277, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
47 194 0.70
49 83 0.30
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:38703337 original size:141 final size:142
Alignment explanation
Indices: 38703082--38703426 Score: 557
Period size: 143 Copynumber: 2.4 Consensus size: 142
38703072 CTAATGGCCG
38703082 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
1 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAGGGC
38703147 CTAATGGCCGATGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
64 CTAATGGCCGATGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
38703212 AATGTGAAAGTG-T
129 AATGTGAAAGTGAT
*
38703225 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCT
1 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCT
* *
38703290 AATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAA
66 AATGGCCGATGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
38703355 TGTGGAAGTGTAT
131 TGTGAAAGTG-AT
* * * * * * *
38703368 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
38703427 AGTCCCGAAG
Statistics
Matches: 188, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
141 91 0.48
143 97 0.52
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (142 bp):
ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCT
AATGGCCGATGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGAT
Found at i:38703599 original size:37 final size:37
Alignment explanation
Indices: 38703547--38703625 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
38703537 CCGAGCTCTA
* * * * *
38703547 AAGACCTGATGACTTCGTGTGGGGATTTTGTCTGGGT
1 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
38703584 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
38703621 AAGAC
1 AAGAC
38703626 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (37 bp):
AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
Found at i:38706529 original size:21 final size:21
Alignment explanation
Indices: 38706503--38706565 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
38706493 TTGGTATTTG
38706503 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
38706524 GGAATTGGTATGAAATTGTAT
1 GGAATTGGTACGAAATGGTAT
* *
38706545 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
38706566 ACGGTTCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 21 0.60
22 14 0.40
ACGTcount: A:0.30, C:0.03, G:0.32, T:0.35
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:38706534 original size:11 final size:11
Alignment explanation
Indices: 38706503--38706565 Score: 51
Period size: 10 Copynumber: 5.9 Consensus size: 11
38706493 TTGGTATTTG
38706503 GGAATTGGTA-
1 GGAATTGGTAT
* *
38706513 CGAAATGGTAT
1 GGAATTGGTAT
38706524 GGAATTGGTAT
1 GGAATTGGTAT
*
38706535 GAAATT-GTAT
1 GGAATTGGTAT
*
38706545 GGTATTTGGTA-
1 GG-AATTGGTAT
*
38706556 CGAATTGGTA
1 GGAATTGGTA
38706566 ACGGTTCAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
10 20 0.49
11 18 0.44
12 3 0.07
ACGTcount: A:0.30, C:0.03, G:0.32, T:0.35
Consensus pattern (11 bp):
GGAATTGGTAT
Found at i:38712844 original size:27 final size:27
Alignment explanation
Indices: 38712767--38712877 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
38712757 GCATGGATGG
* * *
38712767 CAGAACAGATAA-TGTGACAGAGTCAC
1 CAGAACAGAAAATTGTGGCAGAGCCAC
* * *
38712793 CAGATATAGATAATCGTGGCAGAGCCAC
1 CAGA-ACAGAAAATTGTGGCAGAGCCAC
38712821 CAGAACA-AAAATATGTGGCAGAGCCAC
1 CAGAACAGAAAAT-TGTGGCAGAGCCAC
* * *
38712848 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGAACAGAAAATTGTGGCAGAGCCAC
38712875 CAG
1 CAG
38712878 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 8 0.11
27 44 0.62
28 19 0.27
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (27 bp):
CAGAACAGAAAATTGTGGCAGAGCCAC
Found at i:38715394 original size:15 final size:15
Alignment explanation
Indices: 38715370--38715402 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
38715360 CATGTAAGAC
38715370 CATGTCAAGACATGG
1 CATGTCAAGACATGG
*
38715385 CATGTTAAGACATGG
1 CATGTCAAGACATGG
38715400 CAT
1 CAT
38715403 TGATAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (15 bp):
CATGTCAAGACATGG
Found at i:38715507 original size:53 final size:55
Alignment explanation
Indices: 38715391--38715521 Score: 151
Period size: 53 Copynumber: 2.4 Consensus size: 55
38715381 ATGGCATGTT
* *
38715391 AAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTCCCATGTAAGACCATGCC
1 AAGACATGGCATTGGTAAGTTTCTATAAGGCAAAGGTACCATGTAAGACCATGCC
* * * *
38715446 AAGGCATGGCATTGGTGAG-TTC-ATAAGGC-AAGGATACCATGTAAGACTATGTC
1 AAGACATGGCATTGGTAAGTTTCTATAAGGCAAAGG-TACCATGTAAGACCATGCC
* * *
38715499 GAGACATGGCAATGGTAAATTTC
1 AAGACATGGCATTGGTAAGTTTC
38715522 AAAAGGATAC
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
52 4 0.06
53 37 0.59
54 6 0.10
55 16 0.25
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (55 bp):
AAGACATGGCATTGGTAAGTTTCTATAAGGCAAAGGTACCATGTAAGACCATGCC
Found at i:38715779 original size:16 final size:16
Alignment explanation
Indices: 38715758--38715788 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38715748 ATAAATTTGA
38715758 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
38715774 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
38715789 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:38717950 original size:40 final size:40
Alignment explanation
Indices: 38717798--38717943 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
38717788 TTGAATGATG
* * * * *
38717798 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
38717838 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38717878 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38717919 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38717944 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 79 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38723382 original size:22 final size:22
Alignment explanation
Indices: 38723354--38723404 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
38723344 ATGAAATACG
38723354 AATGTGCCATGATTTATTGTTA
1 AATGTGCCATGATTTATTGTTA
38723376 AATGTGCCATGATTTATTGTTA
1 AATGTGCCATGATTTATTGTTA
38723398 AATGTGC
1 AATGTGC
38723405 ATGGTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (22 bp):
AATGTGCCATGATTTATTGTTA
Found at i:38723559 original size:79 final size:81
Alignment explanation
Indices: 38723423--38723607 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
38723413 TTGAATGATG
* *
38723423 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
38723487 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
38723502 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
38723564 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
38723582 GCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38723608 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:38723621 original size:40 final size:40
Alignment explanation
Indices: 38723423--38723626 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
38723413 TTGAATGATG
* * *
38723423 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
* *
38723463 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
*
38723502 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
38723542 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
38723582 GCCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
38723622 TCCGG
1 TCCGG
38723627 TTAAATTCCG
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
39 37 0.26
40 95 0.68
41 8 0.06
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:38723629 original size:79 final size:79
Alignment explanation
Indices: 38723476--38723640 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
38723466 GGACTAAGAT
* * **
38723476 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATGCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
38723541 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
38723555 CCGAAGGCAATTGTGCGAGTTACT-ATAGCCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-GCCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
38723618 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
38723634 CCGAAGG
1 CCGAAGG
38723641 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATGCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:38742540 original size:16 final size:16
Alignment explanation
Indices: 38742519--38742551 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
38742509 ACAGCTCCAA
38742519 GCCCACTATGGTTGGG
1 GCCCACTATGGTTGGG
38742535 GCCCACTATGGTTGGG
1 GCCCACTATGGTTGGG
38742551 G
1 G
38742552 ATTACCTACG
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:0.12, C:0.24, G:0.39, T:0.24
Consensus pattern (16 bp):
GCCCACTATGGTTGGG
Found at i:38742896 original size:27 final size:27
Alignment explanation
Indices: 38742848--38743060 Score: 226
Period size: 27 Copynumber: 7.9 Consensus size: 27
38742838 GCGAGGCTGC
* *
38742848 CAGATATTGTGAGGA-AGTCACCAGATA
1 CAGATATTGTG-GCAGAGCCACCAGATA
38742875 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
38742901 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
38742928 CAGATAATTGTGGC-GTAGCCACCAG-GA
1 CAGAT-ATTGTGGCAG-AGCCACCAGATA
*
38742955 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
38742982 TAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
38743009 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
38743036 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
38743061 GACGCTTCCT
Statistics
Matches: 159, Mismatches: 13, Indels: 28
0.80 0.06 0.14
Matches are distributed among these distances:
26 15 0.09
27 137 0.86
28 7 0.04
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:38742938 original size:54 final size:54
Alignment explanation
Indices: 38742866--38743063 Score: 319
Period size: 54 Copynumber: 3.7 Consensus size: 54
38742856 GTGAGGAAGT
*
38742866 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGCCACCAGGACAGATATATGTGGCAGAGC
38742920 CACCAGATCAGATAATTGTGGC-GTAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCAG-AGCCACCAGGACAGATATATGTGGCAGAGC
* * *
38742974 CACTAGATTAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAGGACAGATATATGTGGCAGAGC
*
38743028 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAGGAC
38743064 GCTTCCTCCA
Statistics
Matches: 135, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
53 6 0.04
54 129 0.96
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCAGAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:38743765 original size:26 final size:26
Alignment explanation
Indices: 38743734--38743789 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
38743724 TGAAATGTCC
38743734 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38743760 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38743786 ATCA
1 ATCA
38743790 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:38758806 original size:25 final size:25
Alignment explanation
Indices: 38758774--38758821 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
38758764 TTATAATATG
* *
38758774 AAAATGACCGTTTTACCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38758799 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38758822 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38758887 original size:20 final size:20
Alignment explanation
Indices: 38758858--38758904 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
38758848 ATTTTGATAA
*
38758858 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
38758878 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38758898 ACATGAT
1 ACATGAT
38758905 GTATTCGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38759050 original size:23 final size:24
Alignment explanation
Indices: 38758954--38759070 Score: 152
Period size: 23 Copynumber: 5.0 Consensus size: 24
38758944 GAGGAAGTGA
* *
38758954 AAAAGGGCTTATGTCCCACTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
38758978 -AAAGGCCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38759001 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38759024 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
38759047 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
38759071 ATGATTAAGC
Statistics
Matches: 84, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
23 61 0.73
24 15 0.18
25 8 0.10
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:38759299 original size:31 final size:31
Alignment explanation
Indices: 38759264--38759327 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
38759254 CGTTTACAGT
38759264 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
38759295 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
38759326 AA
1 AA
38759328 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:38760258 original size:28 final size:27
Alignment explanation
Indices: 38760164--38760273 Score: 132
Period size: 27 Copynumber: 4.0 Consensus size: 27
38760154 TGGCTGCTAG
* *
38760164 AACAGATATTGTGACAGAGTCACCAGA
1 AACAGATATTGTGGCAGAGCCACCAGA
* * *
38760191 TACAAATACTGTGGCAGAGCCACCAG-
1 AACAGATATTGTGGCAGAGCCACCAGA
*
38760217 AACAGATATCTGTGGCATAGCCACCAGA
1 AACAGATAT-TGTGGCAGAGCCACCAGA
*
38760245 AACAGATAATTGTGGCATAGCCACCAGA
1 AACAGAT-ATTGTGGCAGAGCCACCAGA
38760273 A
1 A
38760274 CGCTTCCTCC
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
26 6 0.08
27 37 0.52
28 26 0.37
29 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (27 bp):
AACAGATATTGTGGCAGAGCCACCAGA
Found at i:38760436 original size:26 final size:28
Alignment explanation
Indices: 38760378--38760439 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
38760368 AAATTAACCC
*
38760378 TAGGGGTATAATGGTCATTTTGCATACT
1 TAGGGGTATAATGGTCAATTTGCATACT
38760406 TAGGGGTATAATGGT-AATTT-CATACT
1 TAGGGGTATAATGGTCAATTTGCATACT
38760432 TAGGGGTA
1 TAGGGGTA
38760440 GTTTAGTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 14 0.42
27 4 0.12
28 15 0.45
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.37
Consensus pattern (28 bp):
TAGGGGTATAATGGTCAATTTGCATACT
Found at i:38764886 original size:47 final size:47
Alignment explanation
Indices: 38764807--38765119 Score: 509
Period size: 47 Copynumber: 6.6 Consensus size: 47
38764797 TATTTGAATA
38764807 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
38764856 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
38764903 AATGTGAAAGTGTATATATGTGATAAGGCCTAACGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
38764950 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
38764999 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
38765046 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
38765093 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
38765120 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 12, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
47 192 0.77
49 58 0.23
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:38764919 original size:96 final size:94
Alignment explanation
Indices: 38764807--38765119 Score: 509
Period size: 96 Copynumber: 3.3 Consensus size: 94
38764797 TATTTGAATA
38764807 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
38764872 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
38764903 AATGTGAAAGTGTATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
38764968 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
38764999 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
38765064 TGTGACAGGGCCGAGTGGCCAACGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* *
38765093 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
38765120 TCCCGAAGGG
Statistics
Matches: 205, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
94 100 0.49
96 105 0.51
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:38764971 original size:143 final size:143
Alignment explanation
Indices: 38764807--38765119 Score: 540
Period size: 143 Copynumber: 2.2 Consensus size: 143
38764797 TATTTGAATA
38764807 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
38764872 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAC
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAAC
* *
38764937 GGCCGATGTGATG
131 GGCCAACGTGATG
38764950 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* **
38765015 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAAC
38765080 GGCCAACGTGATG
131 GGCCAACGTGATG
*
38765093 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
38765120 TCCCGAAGGG
Statistics
Matches: 162, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 10 0.06
142 1 0.01
143 151 0.93
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAAC
GGCCAACGTGATG
Found at i:38771352 original size:13 final size:13
Alignment explanation
Indices: 38771334--38771358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38771324 ATTGAAAGAG
38771334 TTAGATTGATTGT
1 TTAGATTGATTGT
38771347 TTAGATTGATTG
1 TTAGATTGATTG
38771359 CCTACTGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (13 bp):
TTAGATTGATTGT
Found at i:38772047 original size:20 final size:19
Alignment explanation
Indices: 38771997--38772051 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
38771987 ATTTTCCAAC
*
38771997 TTAGTTTAATTAATAGTTAAA
1 TTAG-TTAATTAA-ACTTAAA
*
38772018 TTAGTATAATTAAACTTTAA
1 TTAGT-TAATTAAACTTAAA
38772038 TTAAGTTAATTAAA
1 TT-AGTTAATTAAA
38772052 TAATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (19 bp):
TTAGTTAATTAAACTTAAA
Found at i:38776111 original size:50 final size:49
Alignment explanation
Indices: 38775998--38776129 Score: 185
Period size: 50 Copynumber: 2.7 Consensus size: 49
38775988 ATCTGGTACG
* * **
38775998 CGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACA
1 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACA
* *
38776047 CGTAGTAGCTTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACA
1 CGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACA
38776097 CGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 CGTAGTAGCCTGCACTTAGTACTACACACGTGA
38776130 TCACAGTTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
49 30 0.41
50 40 0.54
51 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (49 bp):
CGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACA
Found at i:38776183 original size:101 final size:99
Alignment explanation
Indices: 38775998--38776186 Score: 254
Period size: 101 Copynumber: 1.9 Consensus size: 99
38775988 ATCTGGTACG
* * * *
38775998 CGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCTTGCACT
1 CGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACT
*
38776063 TAGTACTACACACGTGACCTCACCATCTAATACA
66 TAGTACTACACACGCGACCTCACCATCTAATACA
* * * *
38776097 CGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTGCGCATAGTAGCCTGC
1 CGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGC
*
38776161 ACTTAGTACTACACATGCGACCTCAC
63 ACTTAGTACTACACACGCGACCTCAC
38776187 AATAGATCAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
98 4 0.05
99 32 0.42
101 41 0.53
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (99 bp):
CGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACT
TAGTACTACACACGCGACCTCACCATCTAATACA
Found at i:38778368 original size:15 final size:15
Alignment explanation
Indices: 38778321--38778376 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
38778311 CAAGAAAACT
38778321 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
38778336 -AGATAGAA-AAACCCA
1 GA-ATA-AAGAAATCCA
38778351 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
38778366 GAATAAAGAAA
1 GAATAAAGAAA
38778377 CCCAAGATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 3 0.09
15 29 0.83
16 3 0.09
ACGTcount: A:0.62, C:0.12, G:0.14, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:38781441 original size:49 final size:50
Alignment explanation
Indices: 38781368--38781570 Score: 203
Period size: 49 Copynumber: 4.1 Consensus size: 50
38781358 AGCCGAAGCT
* *
38781368 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACC-AACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCTAACA
* ** * *
38781417 ATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACATGTGACCTCACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCTAACA
** * * ***
38781467 ATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTG-ATCATAGTT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA--TGCAACCTAACA
* * * * *
38781518 TTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTCACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCTAACA
38781568 ATC
1 ATC
38781571 AATCATTCGT
Statistics
Matches: 120, Mismatches: 30, Indels: 7
0.76 0.19 0.04
Matches are distributed among these distances:
49 42 0.35
50 42 0.35
51 34 0.28
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCTAACA
Found at i:38781493 original size:50 final size:49
Alignment explanation
Indices: 38781380--38781509 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 49
38781370 CTGGTACGCA
** **
38781380 TAGTAGCCTGCACTTAGTACTACACATGCAACCAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTAATACACG
* * *
38781429 TAGTAGCTTGCACTTAGTACTACACATGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AACAATCTAATACACG
*
38781479 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA
38781510 TCATAGTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 30 0.42
50 41 0.58
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTAATACACG
Found at i:38781896 original size:14 final size:16
Alignment explanation
Indices: 38781864--38781901 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
38781854 ATTTACATAA
*
38781864 CATATATCACATATTT
1 CATATATCACATATGT
38781880 CATATATCAC-T-TGT
1 CATATATCACATATGT
38781894 CATATATC
1 CATATATC
38781902 TTCATTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.42
Consensus pattern (16 bp):
CATATATCACATATGT
Found at i:38783310 original size:22 final size:23
Alignment explanation
Indices: 38783233--38783357 Score: 173
Period size: 22 Copynumber: 5.4 Consensus size: 23
38783223 AGATATGGCA
*
38783233 AGTAAGCTCTTTTTGAGCTGATAAC
1 AGTAAGCTC-TATTGAGCTGA-AAC
*
38783258 AGTAAGCTCTATTAAGCTGAAAAC
1 AGTAAGCTCTATTGAGCTG-AAAC
*
38783282 AGTAAGCTCTATTGAGCT-AAAG
1 AGTAAGCTCTATTGAGCTGAAAC
38783304 AGTAAGCTCTATTGAGCT-AAAC
1 AGTAAGCTCTATTGAGCTGAAAC
*
38783326 AGTAAGCTCTAATGAGCTGAAAC
1 AGTAAGCTCTATTGAGCTGAAAC
38783349 AGTAAGCTC
1 AGTAAGCTC
38783358 ATACGAGCTA
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
22 41 0.45
23 13 0.14
24 28 0.30
25 10 0.11
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (23 bp):
AGTAAGCTCTATTGAGCTGAAAC
Found at i:38785888 original size:50 final size:50
Alignment explanation
Indices: 38785769--38786062 Score: 306
Period size: 50 Copynumber: 5.8 Consensus size: 50
38785759 ATTGTGAGAA
* * ** * *
38785769 CACATATGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTT-TTAGGC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--TACCA-GATTGTTAGGT
* * *
38785821 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTCGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
* * * * * *
38785871 CGCATGTGTAGTACTAAGTGCTGGCTACTATGCGTATCC-GATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATTG-TTAGGT
* * ** * *
38785922 CACGTGTGTAGTACTAAGTGTAGGCTACTACATGTA-TATGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA-GATTGTTAGGT
38785972 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
* *
38786022 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
38786063 GAGCTTCAGT
Statistics
Matches: 201, Mismatches: 35, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
49 3 0.01
50 127 0.63
51 41 0.20
52 30 0.15
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
Found at i:38785947 original size:101 final size:100
Alignment explanation
Indices: 38785821--38786062 Score: 308
Period size: 101 Copynumber: 2.4 Consensus size: 100
38785811 GGTTTTAGGC
* * *
38785821 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTCGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTACT
* *
38785886 AAGTGCTGGCTACTATGCGTATCC-GATAGCTTCGAT
66 AAGTGCAGGCTACTATGCGTA-CCAGATAG-TTAGAT
* * *
38785922 CACGTGTGTAGTACTAAGTGTAGGCTACTACATGTA-TATGATGGTTAGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GATGGTTAGGTCACATGTGTAGTAC
* * *
38785986 TAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
65 TAAGTGCAGGCTACTATGCGTACCAGATAGTTAGAT
* * * *
38786022 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
38786063 GAGCTTCAGT
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
100 39 0.32
101 81 0.68
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (100 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAGTTAGAT
Found at i:38799587 original size:80 final size:79
Alignment explanation
Indices: 38799370--38799588 Score: 305
Period size: 79 Copynumber: 2.8 Consensus size: 79
38799360 CTAGACCCCT
* * *
38799370 TAGTTGGTTAAATGACTGAAATACCCCTACATGGTAAATTGATTGTTTTGCC-CTTATGTTGCAA
1 TAGTTGGTAAAATGACTGAAATGCCCCTACATGGTAAATTGATTGTTTTGCCTC-TATGTGGCAA
* *
38799434 AATGATTATTTTCCC
65 AATAACTATTTTCCC
* * *
38799449 TAGTTGGTAAAATGACTGAAATGCCCCTACATTGTAAATTGATTGTTTTTCCTGTATGTGGCAAA
1 TAGTTGGTAAAATGACTGAAATGCCCCTACATGGTAAATTGATTGTTTTGCCTCTATGTGGCAAA
*
38799514 ATAACTGTTTTGCCC
66 ATAACTATTTT-CCC
* * *
38799529 TAGTTGGTAAAATGACTGAAATGCCCCTACATGGTAAATTAACTATTTTGCCTCTATGTG
1 TAGTTGGTAAAATGACTGAAATGCCCCTACATGGTAAATTGATTGTTTTGCCTCTATGTG
38799589 ATAGATGTTT
Statistics
Matches: 123, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
79 66 0.54
80 57 0.46
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (79 bp):
TAGTTGGTAAAATGACTGAAATGCCCCTACATGGTAAATTGATTGTTTTGCCTCTATGTGGCAAA
ATAACTATTTTCCC
Found at i:38799938 original size:18 final size:18
Alignment explanation
Indices: 38799915--38799963 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
38799905 TTGCATACTG
*
38799915 TTTACTGTTACTGCATTA
1 TTTACTGTTACTGCACTA
* *
38799933 TTTACTGTTATTGCACTG
1 TTTACTGTTACTGCACTA
*
38799951 TTTGCTGTTACTG
1 TTTACTGTTACTG
38799964 TAATGGGCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (18 bp):
TTTACTGTTACTGCACTA
Found at i:38800563 original size:52 final size:52
Alignment explanation
Indices: 38800500--38800605 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
38800490 GCCATGTTCA
*
38800500 TAATCTTTCTTCTTGACCGAAACTTAATAAAAATAAAGAAATAAAAGAAATC
1 TAATCTTTCTTCTTGACCCAAACTTAATAAAAATAAAGAAATAAAAGAAATC
38800552 TAATCTTTCTTCTTGACCCAAACTTAATAAAAATAAAGAAATAAAAGAAATC
1 TAATCTTTCTTCTTGACCCAAACTTAATAAAAATAAAGAAATAAAAGAAATC
38800604 TA
1 TA
38800606 GGGTTCGACC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (52 bp):
TAATCTTTCTTCTTGACCCAAACTTAATAAAAATAAAGAAATAAAAGAAATC
Found at i:38803196 original size:20 final size:20
Alignment explanation
Indices: 38803173--38803210 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38803163 ATGTGTTATA
*
38803173 TGTTCTGTATATGTATAAAT
1 TGTTCTGTATATATATAAAT
*
38803193 TGTTTTGTATATATATAA
1 TGTTCTGTATATATATAA
38803211 TTTTTGGATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.53
Consensus pattern (20 bp):
TGTTCTGTATATATATAAAT
Found at i:38807414 original size:40 final size:40
Alignment explanation
Indices: 38807313--38807457 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
38807303 TATTCGAATG
* *
38807313 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGATAAGTCCCGAAGGCATTTGTGCT-AGCGACT
38807354 ATATCC-GGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGA-TAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
38807394 ATATCCGGGATAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGATAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
38807434 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGATAAGTCCCGAAGGC
38807458 CTTGTACGAG
Statistics
Matches: 93, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 29 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGATAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:38809693 original size:27 final size:27
Alignment explanation
Indices: 38809654--38809784 Score: 88
Period size: 27 Copynumber: 4.9 Consensus size: 27
38809644 ATACCCCTAC
38809654 ATGG-AAAATTGACTGTTTTGCCCTTAT
1 ATGGCAAAA-TGACTGTTTTGCCCTTAT
*
38809681 ATGGCAAAATGACTATTTT-CGCC-TAT
1 ATGGCAAAATGACTGTTTTGC-CCTTAT
* ** *** *
38809707 TTGATAAAATGACTGAAATGCCCTTAC
1 ATGGCAAAATGACTGTTTTGCCCTTAT
* * * *
38809734 ATGGTAAATTGACTATTTTGACCTTAT
1 ATGGCAAAATGACTGTTTTGCCCTTAT
* * *
38809761 GTGGCAAAATAACTGTTTAGCCCT
1 ATGGCAAAATGACTGTTTTGCCCT
38809785 AGTTGGTAAA
Statistics
Matches: 75, Mismatches: 25, Indels: 8
0.69 0.23 0.07
Matches are distributed among these distances:
26 18 0.24
27 53 0.71
28 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (27 bp):
ATGGCAAAATGACTGTTTTGCCCTTAT
Found at i:38809766 original size:80 final size:80
Alignment explanation
Indices: 38809621--38809843 Score: 277
Period size: 80 Copynumber: 2.8 Consensus size: 80
38809611 TACCTAGACC
* * * * * *
38809621 CCCTAGTTGGTAAAATGAGTAAAATACCCCTACATGGAAAATTGACTGTTTTGCCCTTATATGGC
1 CCCTAGTTGGTAAAATGACTGAAATGCCCCTACATGGTAAATTGACTGTTTTGACCTTATGTGGC
* * *
38809686 AAAATGACTATTT-T
66 AAAATAACTGTTTAG
* * * *
38809700 CGCCTATTTGATAAAATGACTGAAATGCCCTTACATGGTAAATTGACTATTTTGACCTTATGTGG
1 C-CCTAGTTGGTAAAATGACTGAAATGCCCCTACATGGTAAATTGACTGTTTTGACCTTATGTGG
38809765 CAAAATAACTGTTTAG
65 CAAAATAACTGTTTAG
* * * *
38809781 CCCTAGTTGGTAAAATGATTGAAATGCCCCTACATGGTAAATTAACTGTTTTGTCCCTATGTG
1 CCCTAGTTGGTAAAATGACTGAAATGCCCCTACATGGTAAATTGACTGTTTTGACCTTATGTG
38809844 ATATACATTT
Statistics
Matches: 121, Mismatches: 21, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
79 1 0.01
80 119 0.98
81 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (80 bp):
CCCTAGTTGGTAAAATGACTGAAATGCCCCTACATGGTAAATTGACTGTTTTGACCTTATGTGGC
AAAATAACTGTTTAG
Found at i:38812349 original size:27 final size:27
Alignment explanation
Indices: 38812318--38812495 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38812308 TAAATTGTAC
38812318 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
38812345 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38812371 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38812399 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38812427 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38812454 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38812481 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38812496 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38812432 original size:82 final size:81
Alignment explanation
Indices: 38812319--38812474 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38812309 AAATTGTACA
* *
38812319 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
38812383 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38812400 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
38812465 TGCGAGTTGA
65 TGCGAATTGA
38812475 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38812486 original size:82 final size:81
Alignment explanation
Indices: 38812315--38812495 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
38812305 GATTAAATTG
* *
38812315 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38812380 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38812396 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38812460 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38812478 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38812496 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38814344 original size:14 final size:14
Alignment explanation
Indices: 38814325--38814353 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38814315 TATGCTTAGC
38814325 ATATAACTTAAACA
1 ATATAACTTAAACA
38814339 ATATAACTTAAACA
1 ATATAACTTAAACA
38814353 A
1 A
38814354 AGGTAAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (14 bp):
ATATAACTTAAACA
Found at i:38814801 original size:21 final size:22
Alignment explanation
Indices: 38814763--38814811 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
38814753 TGTTACACAG
*
38814763 GTGTGTCCTATGATCACACAAGC
1 GTGTGTCC-ATGACCACACAAGC
*
38814786 GTGTGTCC-TGACCACACAGGC
1 GTGTGTCCATGACCACACAAGC
38814807 GTGTG
1 GTGTG
38814812 GGCCCTGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 16 0.67
23 8 0.33
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (22 bp):
GTGTGTCCATGACCACACAAGC
Found at i:38819003 original size:34 final size:34
Alignment explanation
Indices: 38818925--38818995 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
38818915 ACGGGGCTTT
* *
38818925 ACATCTGCCATTGTCACAGCTGCACCGTTGCGTC
1 ACATCTGCCATTGTCACAGCCGCACCGATGCGTC
* *
38818959 ATATCTGCCATTGTCGCAGCCGCACC-AT-CGTC
1 ACATCTGCCATTGTCACAGCCGCACCGATGCGTC
38818991 ACATC
1 ACATC
38818996 GTTGCCATCG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 8 0.25
33 1 0.03
34 23 0.72
ACGTcount: A:0.20, C:0.37, G:0.18, T:0.25
Consensus pattern (34 bp):
ACATCTGCCATTGTCACAGCCGCACCGATGCGTC
Found at i:38819963 original size:50 final size:51
Alignment explanation
Indices: 38819889--38820015 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 51
38819879 TTGATAGTAT
* * *
38819889 ATCTGCGATT-TTAGGTGGCTTGACCATAATATTCTGTATATGGCAG-TTG
1 ATCTGCAATTATTTGGTGGCTTGACCATAATATTCTATATATGGCAGCTTG
* * * *
38819938 ATCTGCAATTATTTGGTGGCTTGACCACAATATTCTATTTTTGGTAGCTTG
1 ATCTGCAATTATTTGGTGGCTTGACCATAATATTCTATATATGGCAGCTTG
* *
38819989 A-CTGCAA-TATCTGGTGGCTTGTCCATA
1 ATCTGCAATTATTTGGTGGCTTGACCATA
38820016 TTTTTGGTGT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
49 26 0.39
50 36 0.55
51 4 0.06
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (51 bp):
ATCTGCAATTATTTGGTGGCTTGACCATAATATTCTATATATGGCAGCTTG
Found at i:38820383 original size:7 final size:7
Alignment explanation
Indices: 38820369--38820398 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
38820359 TTGGGACTTT
38820369 ATTTTGG
1 ATTTTGG
*
38820376 ACTTTGG
1 ATTTTGG
38820383 ATTTTGG
1 ATTTTGG
38820390 ATTTTGG
1 ATTTTGG
38820397 AT
1 AT
38820399 CGTTTTTGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.17, C:0.03, G:0.27, T:0.53
Consensus pattern (7 bp):
ATTTTGG
Found at i:38824836 original size:27 final size:26
Alignment explanation
Indices: 38824741--38824855 Score: 86
Period size: 27 Copynumber: 4.3 Consensus size: 26
38824731 TGGAGGAAGC
* *
38824741 GTTCTAGTGGCTTTGCCACAAATATCT
1 GTTCTAGTGACTCTGCCAC-AATATCT
* ** * * *
38824768 GATCCGGTGGCTCTACCAAAAATATCT
1 GTTCTAGTGACTCTGCC-ACAATATCT
* * *
38824795 GTTTCTGGTGGCTCTGCCACAATTTCT
1 G-TTCTAGTGACTCTGCCACAATATCT
*
38824822 GTATCTAGTGACTCTGTCACAATATCT
1 GT-TCTAGTGACTCTGCCACAATATCT
38824849 GTTCTAG
1 GTTCTAG
38824856 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
26 6 0.09
27 50 0.71
28 14 0.20
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (26 bp):
GTTCTAGTGACTCTGCCACAATATCT
Found at i:38832596 original size:27 final size:27
Alignment explanation
Indices: 38832558--38832697 Score: 176
Period size: 27 Copynumber: 5.2 Consensus size: 27
38832548 GAGGAAGCGT
*
38832558 TCTGGTGGCTCTGCTACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
38832585 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
38832612 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * *
38832640 TCTGGTGGTTGTGCCAC-AATATTTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * *
38832667 TCTGGTGACTCTGTCAC-AATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
38832693 TCTGG
1 TCTGG
38832698 CAGCTATTCT
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.05
27 80 0.80
28 15 0.15
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:38840615 original size:31 final size:31
Alignment explanation
Indices: 38840580--38840656 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
38840570 ACACGACATT
*
38840580 AGACACGCCTGTGTGTCGAGGCCGTGACACA
1 AGACACGCCAGTGTGTCGAGGCCGTGACACA
* * * *
38840611 AGACAGGCCCGTATGTCTAGGCCGTGACACA
1 AGACACGCCAGTGTGTCGAGGCCGTGACACA
38840642 AGACACGCCAGTGTG
1 AGACACGCCAGTGTG
38840657 CTTTGGCCGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.25, C:0.29, G:0.31, T:0.16
Consensus pattern (31 bp):
AGACACGCCAGTGTGTCGAGGCCGTGACACA
Found at i:38857056 original size:27 final size:27
Alignment explanation
Indices: 38857026--38857203 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
38857016 ATATTGAGTC
* *
38857026 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
38857053 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
38857080 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
38857108 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
38857135 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
38857162 AGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
38857189 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38857204 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38862847 original size:30 final size:30
Alignment explanation
Indices: 38862813--38862872 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
38862803 ATTTAATACC
38862813 AACTTTTAAAAAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
** *
38862843 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
38862873 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTTAAAAAATTACACTTTTGCCCCTA
Found at i:38864667 original size:30 final size:30
Alignment explanation
Indices: 38864633--38864692 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
38864623 ATTTAATACC
38864633 AACTTTTAAAAAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
** *
38864663 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
38864693 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTTAAAAAATTACACTTTTGCCCCTA
Found at i:38875799 original size:24 final size:24
Alignment explanation
Indices: 38875772--38875818 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
38875762 ATCATAGAGA
38875772 GTGTACAT-TGGCACTATATGTGCG
1 GTGTA-ATATGGCACTATATGTGCG
* *
38875796 GTGTAGTATGGCACTATGTGTGC
1 GTGTAATATGGCACTATATGTGC
38875819 AGAGTTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.19, C:0.15, G:0.32, T:0.34
Consensus pattern (24 bp):
GTGTAATATGGCACTATATGTGCG
Found at i:38875833 original size:24 final size:24
Alignment explanation
Indices: 38875806--38875852 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
38875796 GTGTAGTATG
*
38875806 GCACTATGTGTGCAGAGTTGAATA
1 GCACTATGCGTGCAGAGTTGAATA
* *
38875830 GCACTATGCGTGCTGATTTGAAT
1 GCACTATGCGTGCAGAGTTGAAT
38875853 GTTAACATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.32
Consensus pattern (24 bp):
GCACTATGCGTGCAGAGTTGAATA
Found at i:38883720 original size:24 final size:24
Alignment explanation
Indices: 38883688--38883758 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
38883678 ATCATAGAAA
38883688 GTGTAGTATGGCACTATGTGTGCG
1 GTGTAGTATGGCACTATGTGTGCG
38883712 GTGTAGTATGGCACTATGTGTGCG
1 GTGTAGTATGGCACTATGTGTGCG
* * * *
38883736 GAGTTGAATAGCACTATGTGTGC
1 GTGTAGTATGGCACTATGTGTGC
38883759 TGATTTGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.20, C:0.13, G:0.35, T:0.32
Consensus pattern (24 bp):
GTGTAGTATGGCACTATGTGTGCG
Found at i:38883779 original size:26 final size:24
Alignment explanation
Indices: 38883698--38883768 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
38883688 GTGTAGTATG
* * * *
38883698 GCACTATGTGTGCGGTGTAGTATG
1 GCACTATGTGTGCGGAGTTGAATA
38883722 GCACTATGTGTGCGGAGTTGAATA
1 GCACTATGTGTGCGGAGTTGAATA
* *
38883746 GCACTATGTGTGCTGATTTGAAT
1 GCACTATGTGTGCGGAGTTGAAT
38883769 GACAACATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGGAGTTGAATA
Found at i:38889303 original size:28 final size:28
Alignment explanation
Indices: 38889263--38889332 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
38889253 ATAGTAAGTC
*
38889263 CGCACACTTAGTGCT-TAATAACCAAACT
1 CGCACACTTAGTGCTAT-ACAACCAAACT
**
38889291 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAACCAAACT
38889319 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38889333 CAATCTCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAACCAAACT
Found at i:38892518 original size:47 final size:47
Alignment explanation
Indices: 38892449--38892574 Score: 225
Period size: 47 Copynumber: 2.7 Consensus size: 47
38892439 ATGGATAAGT
*
38892449 ACCTATGCCATGGCCCGTAGCCAAATCAAGGTAACTTATCCTGGAGC
1 ACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCTGGAGC
* *
38892496 ACCTATACAATGGCCCGTAGCCAAATCAAGGTAACTTATCCTGGAGT
1 ACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCTGGAGC
38892543 ACCTATACCATGGCCCGTAGCCAAATCAAGGT
1 ACCTATACCATGGCCCGTAGCCAAATCAAGGT
38892575 TTAACTCACA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (47 bp):
ACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCTGGAGC
Found at i:38900442 original size:30 final size:30
Alignment explanation
Indices: 38900408--38900468 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
38900398 TTCCCGAGCC
*
38900408 TAGGGGAAAAAGTGTAAATATGTAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * *
38900438 TAGGGGCAAAATTGTAAATTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
38900468 T
1 T
38900469 GAGCTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.43, C:0.03, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:38901363 original size:28 final size:27
Alignment explanation
Indices: 38901331--38901415 Score: 83
Period size: 28 Copynumber: 3.3 Consensus size: 27
38901321 AACTTCGATC
38901331 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTA-TAAGTGCAGGCTACT
* *
38901359 ACGTGTATCAG-AT-AGT-TAGG-T-C-
1 ACGTGTGT-AGTATAAGTGCAGGCTACT
38901381 ACGTGTGTAGTATTAAGTGCAGGCTACT
1 ACGTGTGTAGTA-TAAGTGCAGGCTACT
38901409 ACGTGTG
1 ACGTGTG
38901416 CCGGATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
21 2 0.04
22 8 0.18
23 2 0.04
24 4 0.09
25 6 0.13
26 4 0.09
27 2 0.04
28 15 0.33
29 2 0.04
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (27 bp):
ACGTGTGTAGTATAAGTGCAGGCTACT
Found at i:38901404 original size:50 final size:50
Alignment explanation
Indices: 38901274--38901458 Score: 212
Period size: 50 Copynumber: 3.7 Consensus size: 50
38901264 TATATGTACC
* * *
38901274 TAGGTCCCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAACT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-T
* * * * *
38901325 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT
* * * *
38901375 TAGGTCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTGCCGGATAAT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT
* *
38901425 T-GGTCGCATGTGTAATACTAAGTGCAGGCTACTA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
38901459 TGCGTGTAAT
Statistics
Matches: 114, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 29 0.25
50 47 0.41
51 38 0.33
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT
Found at i:38901466 original size:101 final size:101
Alignment explanation
Indices: 38901274--38901458 Score: 248
Period size: 101 Copynumber: 1.9 Consensus size: 101
38901264 TATATGTACC
* * *
38901274 TAGGTCCCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAACTTCGATCACGTGTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAATAACTTCGATCACATGTGT
*
38901339 AGTACTAAGTGCAGGCTACTACGTGTATCAGATAGT
66 AATACTAAGTGCAGGCTACTACGTGTATCAGATAGT
* * * * ** * *
38901375 TAGGTCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTGCCGGATAA-TT-GGTCGCATGTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAATAACTTCGATCACATGTGT
38901438 AATACTAAGTGCAGGCTACTA
66 AATACTAAGTGCAGGCTACTA
38901459 TGCGTGTAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 29 0.40
100 2 0.03
101 41 0.57
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (101 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAATAACTTCGATCACATGTGT
AATACTAAGTGCAGGCTACTACGTGTATCAGATAGT
Found at i:38902310 original size:30 final size:30
Alignment explanation
Indices: 38902276--38902336 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
38902266 TTCCCGAGCC
38902276 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * *
38902306 TAGGGGCAAAATTGTAAATTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
38902336 T
1 T
38902337 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:38903264 original size:49 final size:50
Alignment explanation
Indices: 38903141--38903274 Score: 189
Period size: 50 Copynumber: 2.7 Consensus size: 50
38903131 TATATGTAGC
* * *
38903141 TAGGTCGCATGTGTAGTACTAAGTACAGGCTACTACATGTATCAGATAGT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAAT
* * * * *
38903191 TAGGTCACGTGTGTAGTACTAAGTGCTGGCTACTACGTGTACCGGATAAT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAAT
38903241 T-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
38903275 TGCGTGTAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 30 0.41
50 43 0.59
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAAT
Found at i:38904125 original size:30 final size:30
Alignment explanation
Indices: 38904091--38904151 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
38904081 TTCCCGAGCC
38904091 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * *
38904121 TAGGGGCAAAATTGTAAATTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
38904151 T
1 T
38904152 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:38904725 original size:50 final size:49
Alignment explanation
Indices: 38904667--38904796 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 49
38904657 GTAACATCGA
* *
38904667 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GG
* * *
38904717 TCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTGCCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGG
* * *
38904766 TCGCATGTGTAATACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
38904797 TGCGTGTAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 29 0.41
50 42 0.59
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGG
Found at i:38904751 original size:28 final size:27
Alignment explanation
Indices: 38904669--38904753 Score: 83
Period size: 28 Copynumber: 3.3 Consensus size: 27
38904659 AACATCGATC
38904669 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTA-TAAGTGCAGGCTACT
* *
38904697 ACGTGTATCAG-AT-AGT-TAGG-T-C-
1 ACGTGTGT-AGTATAAGTGCAGGCTACT
38904719 ACGTGTGTAGTATTAAGTGCAGGCTACT
1 ACGTGTGTAGTA-TAAGTGCAGGCTACT
38904747 ACGTGTG
1 ACGTGTG
38904754 CCGGATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
21 2 0.04
22 8 0.18
23 2 0.04
24 4 0.09
25 6 0.13
26 4 0.09
27 2 0.04
28 15 0.33
29 2 0.04
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (27 bp):
ACGTGTGTAGTATAAGTGCAGGCTACT
Found at i:38905647 original size:30 final size:30
Alignment explanation
Indices: 38905613--38905673 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
38905603 TTCCCGAGCC
*
38905613 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAAGTT
* *
38905643 TAGGGGCAAAATTGTAAATTTGAAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAAGTT
38905673 T
1 T
38905674 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGAAAAAGTT
Found at i:38906610 original size:50 final size:49
Alignment explanation
Indices: 38906481--38906663 Score: 201
Period size: 50 Copynumber: 3.7 Consensus size: 49
38906471 TATGTAGCTA
* ***
38906481 GGTCGCATGTTTAGTACTAAGTGCAGGCTACTATACGTACCCA-ATAACTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-TT
* * * * *
38906531 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTT
1 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
38906581 AGG-C-CAATTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCGC-A-TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
38906631 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
38906664 TGCGTGTAAT
Statistics
Matches: 112, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
48 1 0.01
49 29 0.26
50 46 0.41
51 36 0.32
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:38907515 original size:30 final size:30
Alignment explanation
Indices: 38907481--38907541 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
38907471 TTCCCGAGCC
38907481 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* *
38907511 TAGGGGCAAAATTGTAAATTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
38907541 T
1 T
38907542 GAGTTAAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:38908324 original size:68 final size:66
Alignment explanation
Indices: 38908207--38908399 Score: 160
Period size: 68 Copynumber: 2.9 Consensus size: 66
38908197 ATACAGATAG
* * * * ** *
38908207 TATGTAGCTAGGTCACATGTATGGTGCTGGGTGCACATCATGT-GTACAAGAGAGCTACAAGACA
1 TATGTAGCTAGGTCGCATGGATGATACTATGTGCACACCATGTAG-ACAAGAGAGCTACAAGACA
38908271 TTA
65 -TA
* * **
38908274 TTATGTAGCTAGGTCGCATGGATGATACTATGTGTACACCATGTAGACAAGAGAGCT--ATGGGA
1 -TATGTAGCTAGGTCGCATGGATGATACTATGTGCACACCATGTAGACAAGAGAGCTACAAGACA
38908337 TA
65 TA
* * * *
38908339 TATGTAGCTAGGTCGCATGCG-TGATTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTAC
1 TATGTAGCTAGGTCGCATG-GATGATACTA--TG-TGCACACCATGTAGACAAGAGAGCTAC
38908400 GAGATAAATT
Statistics
Matches: 103, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
64 25 0.24
65 3 0.03
66 5 0.05
67 23 0.22
68 46 0.45
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (66 bp):
TATGTAGCTAGGTCGCATGGATGATACTATGTGCACACCATGTAGACAAGAGAGCTACAAGACAT
A
Found at i:38908356 original size:64 final size:63
Alignment explanation
Indices: 38908252--38908459 Score: 170
Period size: 67 Copynumber: 3.2 Consensus size: 63
38908242 CATCATGTGT
*
38908252 ACAAGAGAGCTACAAGACATTATTATGTAGCTAGGTCGCATGGATGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TA-TATGTAGCTAGGTCGCATGG-TGATACTATGTGTACACCATG
38908317 TAG
61 TAG
* * * * * *
38908320 ACAAGAGAGCTATGGGATATATGTAGCTAGGTCGCATGCGTGATTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATG-GTGATACTA--TG-TGTACACCATGT
38908385 AG
62 AG
* * * * * *
38908387 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGACACATGGGTGGTACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCAT-GGTGATACT-ATGTGTACACCATGTAG
38908449 TACAAGAGAGC
1 -ACAAGAGAGC
38908460 CAAACTATAT
Statistics
Matches: 114, Mismatches: 19, Indels: 19
0.75 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.17
64 26 0.23
65 3 0.03
66 20 0.18
67 33 0.29
68 12 0.11
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.23
Consensus pattern (63 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGTGATACTATGTGTACACCATGTAG
Found at i:38917959 original size:33 final size:34
Alignment explanation
Indices: 38917916--38917981 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
38917906 CATACACTAT
* *
38917916 TACTGTATAGGGCT-AAGGCCTAGACTG-TACTGA
1 TACTGAATAGGGCTCAA-GCCCAGACTGTTACTGA
38917949 TACTGAATAGGGCTCAAGCCCAGACTGTTACTG
1 TACTGAATAGGGCTCAAGCCCAGACTGTTACTG
38917982 CATGCACTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 22 0.76
34 7 0.24
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (34 bp):
TACTGAATAGGGCTCAAGCCCAGACTGTTACTGA
Found at i:38952800 original size:47 final size:47
Alignment explanation
Indices: 38952731--38952859 Score: 231
Period size: 47 Copynumber: 2.7 Consensus size: 47
38952721 TCAATGGATA
38952731 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCTGG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCTGG
* * *
38952778 AGTACCTATACAATGGCTCGTAGCCAAATCAAGGTAACTTATCTTGG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCTGG
38952825 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGT
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGT
38952860 TTAAGTCACA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 77 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCTGG
Found at i:38956469 original size:27 final size:27
Alignment explanation
Indices: 38956439--38956616 Score: 232
Period size: 27 Copynumber: 6.6 Consensus size: 27
38956429 TAAGTTGTAA
38956439 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
*
38956466 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* *
38956493 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
*
38956520 AATTATTGAAATACCCCTGT-AGGATAG
1 AATTACTGAAATACCCCTGTAAGG-TAG
* * *
38956547 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* * * *
38956574 AAATACTAAAATACACCTGTAAGGTAA
1 AATTACTGAAATACCCCTGTAAGGTAG
*
38956601 AATTACTGAGATACCC
1 AATTACTGAAATACCC
38956617 TTGTGGGGTA
Statistics
Matches: 129, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.02
27 125 0.97
28 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAAGGTAG
Found at i:38956574 original size:81 final size:80
Alignment explanation
Indices: 38956435--38956634 Score: 256
Period size: 81 Copynumber: 2.5 Consensus size: 80
38956425 TGGATAAGTT
*
38956435 GTAAAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACC
1 GTAAAATTACTGAAATACCCCTGT-AGGTAGAATTACCGAAATACCCCTGTAAGGTAGAAATACC
* * *
38956500 GAAATACCCCTGTAGG
65 AAAATACACCTGTAAG
* * * * *
38956516 GTAGAATTATTGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTAGAAATACT
1 GTAAAATTACTGAAATACCCCTGTAGG-TAGAATTACCGAAATACCCCTGTAAGGTAGAAATACC
38956581 AAAATACACCTGTAAG
65 AAAATACACCTGTAAG
* * * *
38956597 GTAAAATTACTGAGATACCCTTGTGGGGTAAAATTACC
1 GTAAAATTACTGAAATACCCCTGT-AGGTAGAATTACC
38956635 ATTTTGCCCC
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 3 0.03
81 97 0.95
82 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (80 bp):
GTAAAATTACTGAAATACCCCTGTAGGTAGAATTACCGAAATACCCCTGTAAGGTAGAAATACCA
AAATACACCTGTAAG
Found at i:38956626 original size:27 final size:27
Alignment explanation
Indices: 38956435--38956633 Score: 220
Period size: 27 Copynumber: 7.4 Consensus size: 27
38956425 TGGATAAGTT
*
38956435 GTAAAATTACTGAAATACCCCTGTAAG
1 GTAAAATTACTGAAATACCCCTGTAGG
* * *
38956462 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAAAATTACTGAAATACCCCTGTAGG
* *
38956489 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAAAATTACTGAAATACCCCTGTAGG
* *
38956516 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAAAATTACTGAAATACCCCTGTAGG
* * * *
38956543 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAAAATTACTGAAATACCCCTGTAGG
* * *
38956570 GTAGAAA-TACTAAAATACACCTGTAAG
1 GTA-AAATTACTGAAATACCCCTGTAGG
* * *
38956597 GTAAAATTACTGAGATACCCTTGTGGG
1 GTAAAATTACTGAAATACCCCTGTAGG
38956624 GTAAAATTAC
1 GTAAAATTAC
38956634 CATTTTGCCC
Statistics
Matches: 148, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 3 0.02
27 143 0.97
28 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAAAATTACTGAAATACCCCTGTAGG
Found at i:38957391 original size:31 final size:32
Alignment explanation
Indices: 38957353--38957414 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
38957343 ACCGCTGTAA
* *
38957353 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
38957384 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
38957415 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:38962987 original size:46 final size:46
Alignment explanation
Indices: 38962937--38963109 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
38962927 TGGTTGAGCA
*
38962937 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
38962983 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
38963030 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
38963076 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
38963110 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 7 0.07
46 56 0.53
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:38963086 original size:93 final size:93
Alignment explanation
Indices: 38962934--38963104 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
38962924 GGATGGTTGA
* *
38962934 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
38962999 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* *
38963027 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTGAG
*
38963091 TTGAGTCCGAGTTC
65 TTGAGTCCAAGTTC
38963105 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:38963371 original size:19 final size:20
Alignment explanation
Indices: 38963334--38963371 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38963324 ATAAGGTGGT
38963334 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
38963354 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
38963372 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:38967433 original size:23 final size:24
Alignment explanation
Indices: 38967388--38967433 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
38967378 TATATACTGA
*
38967388 TCACAAAAGTCTTAAATACTTGATG
1 TCACAAAAGACTTAAATA-TTGATG
*
38967413 TCACAAAAGACTTGAAT-TTGA
1 TCACAAAAGACTTAAATATTGA
38967434 GACAGCGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
25 15 0.79
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (24 bp):
TCACAAAAGACTTAAATATTGATG
Found at i:38970430 original size:46 final size:46
Alignment explanation
Indices: 38970380--38970549 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
38970370 TTGAGCATCT
*
38970380 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * * * *
38970426 GAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCC
* *
38970473 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
*
38970518 CAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
38970550 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 7 0.07
46 53 0.52
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
Found at i:38970526 original size:93 final size:93
Alignment explanation
Indices: 38970374--38970544 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
38970364 GGATGGTTGA
* * *
38970374 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
38970439 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* *
38970467 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTGAG
*
38970531 TTGAGTCCGAGTTC
65 TTGAGTCCAAGTTC
38970545 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:38970811 original size:19 final size:20
Alignment explanation
Indices: 38970774--38970811 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38970764 ATAAGGTGGT
38970774 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
38970794 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
38970812 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:38972715 original size:47 final size:47
Alignment explanation
Indices: 38972637--38973138 Score: 779
Period size: 47 Copynumber: 10.6 Consensus size: 47
38972627 CCCTTCGGGA
* * * * * *
38972637 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38972684 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38972731 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38972778 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38972827 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38972874 CTTATCACATATATACACTTTCAGATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38972921 CTTATCACATATATATACACTTTCACATTGATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38972970 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38973017 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38973066 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38973113 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
38973139 CACAATTATC
Statistics
Matches: 419, Mismatches: 30, Indels: 12
0.91 0.07 0.03
Matches are distributed among these distances:
47 285 0.68
49 134 0.32
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38972834 original size:96 final size:94
Alignment explanation
Indices: 38972637--38973138 Score: 797
Period size: 96 Copynumber: 5.3 Consensus size: 94
38972627 CCCTTCGGGA
* * * * * *
38972637 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
38972702 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
38972731 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
38972796 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
38972827 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
38972892 TTTCAGATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
38972921 CTTATCACATATATATACACTTTCACATTGATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
38972986 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
38973017 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
38973082 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
38973113 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
38973139 CACAATTATC
Statistics
Matches: 383, Mismatches: 21, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
94 108 0.28
96 275 0.72
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:38972906 original size:143 final size:143
Alignment explanation
Indices: 38972637--38973138 Score: 789
Period size: 143 Copynumber: 3.5 Consensus size: 143
38972627 CCCTTCGGGA
* * * * * *
38972637 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCC-CTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC-ATCACATATATA
38972699 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
38972764 ATCGGCCATTAGGC
130 ATCGGCCATTAGGC
38972778 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
*
38972843 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCAGATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
38972908 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* * * *
38972921 CTTATCACATATATATACACTTTCACATTGATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
*
38972986 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* *
38973051 CATTGGCCATTCGGC
129 CATCGGCCATTAGGC
* *
38973066 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
*
38973129 ACATTCACAT
66 ACTTTCACAT
38973139 CACAATTATC
Statistics
Matches: 336, Mismatches: 20, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 280 0.83
144 1 0.00
145 44 0.13
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:38980788 original size:93 final size:93
Alignment explanation
Indices: 38980629--38980800 Score: 276
Period size: 93 Copynumber: 1.8 Consensus size: 93
38980619 AGGATATTTG
*
38980629 GGCATCCGAACTCATTGAGTTGAGTTCTGGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTTCTGGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
38980694 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
38980722 GGCATCCGACCTCATTGAGTTGAG-TCTGAGTTCACTTATGGATGCGAACG-CCTGAGCTTGTTG
1 GGCATCCGAACTCATTGAGTTGAGTTCTG-GTTCACTTATGGATGCGAACGTCC-GAACTCGTTG
38980785 AGTTGAGTCCGAGTTC
64 AGTTGAGTCCGAGTTC
38980801 ACTTATGGGT
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 6 0.08
93 67 0.92
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTTCTGGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:38982230 original size:64 final size:64
Alignment explanation
Indices: 38982064--38982236 Score: 177
Period size: 68 Copynumber: 2.6 Consensus size: 64
38982054 GGGGCGTTAC
* * * **
38982064 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTTTACAAGAGAGCTACA
1 AGATA-TATGTAGCTAGGTCACATGTGT-GTACTAAGTGCACACCATGTAGACAAGAGAGCTAC-
38982129 AG
63 AG
* * * * *
38982131 ACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAC
1 AGA-TAT-ATGTAGCTAGGTCACATGTGTG-TACTAAGTGCACACCATGTAGACAAGAGAGCTAC
38982196 -G
63 AG
*
38982197 GGATATATGTAGCTAGGTCACATGTGTAGTACTAAGTGCA
1 AGATATATGTAGCTAGGTCACATGTGT-GTACTAAGTGCA
38982237 GGCTACTATG
Statistics
Matches: 86, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
64 28 0.33
65 4 0.05
66 2 0.02
67 4 0.05
68 48 0.56
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGTGTGTACTAAGTGCACACCATGTAGACAAGAGAGCTACAG
Found at i:38982279 original size:51 final size:49
Alignment explanation
Indices: 38982212--38982402 Score: 213
Period size: 50 Copynumber: 3.8 Consensus size: 49
38982202 TATGTAGCTA
*
38982212 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAATAA-TT
* * ** * *
38982262 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTA-TCAGATAGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCA-ATAATT
* * ***
38982312 AGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACTGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAATAATT
* *
38982362 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
38982403 AGATAGTTTG
Statistics
Matches: 118, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 36 0.31
50 44 0.37
51 38 0.32
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAATAATT
Found at i:38982409 original size:99 final size:101
Alignment explanation
Indices: 38982210--38982410 Score: 271
Period size: 101 Copynumber: 2.0 Consensus size: 101
38982200 TATATGTAGC
* * *
38982210 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAACTTCGATCACGTGTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGCGTACCCAATAACTTCGATCACATGTGT
* *
38982275 AGTACTAAGTGCAGGCTACTACATGTATCAGATAGT
66 AGTACTAAGTGCAGGCTACTACACGTACCAGATAGT
* *** * *
38982311 TAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACTGGATAA-TT-GGTCGCATGTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGCGTACCCAATAACTTCGATCACATGTGT
**
38982374 AGTACTAAGTGCAGGCTACTATGCGTACCAGATAGT
66 AGTACTAAGTGCAGGCTACTACACGTACCAGATAGT
38982410 T
1 T
38982411 TGGCTACATA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 42 0.48
100 2 0.02
101 43 0.49
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (101 bp):
TAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGCGTACCCAATAACTTCGATCACATGTGT
AGTACTAAGTGCAGGCTACTACACGTACCAGATAGT
Found at i:38986834 original size:39 final size:40
Alignment explanation
Indices: 38986630--38986852 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
38986620 TTGAATGCTG
* * * * * *
38986630 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
38986670 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
38986710 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
38986750 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
38986790 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * *
38986829 ACCGGGCTATGTCCCGAGGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38986853 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 34 0.21
40 118 0.74
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:38986872 original size:79 final size:80
Alignment explanation
Indices: 38986705--38986887 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
38986695 GTGCGAGATA
* * *
38986705 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
38986770 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
38986785 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAGGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
38986849 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
38986864 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
38986888 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:38994261 original size:39 final size:40
Alignment explanation
Indices: 38994057--38994279 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
38994047 TTGAATGCTG
* * * * * *
38994057 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
38994097 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
38994137 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
38994177 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
38994217 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * *
38994256 ACCGGGCTATGTCCCGAGGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38994280 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 34 0.21
40 118 0.74
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:38994299 original size:79 final size:80
Alignment explanation
Indices: 38994132--38994314 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
38994122 GTGCGAGATA
* * *
38994132 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
38994197 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
38994212 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAGGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
38994276 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
38994291 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
38994315 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:39006432 original size:24 final size:24
Alignment explanation
Indices: 39006405--39006499 Score: 145
Period size: 24 Copynumber: 4.0 Consensus size: 24
39006395 CTGTCAGGGG
*
39006405 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCTGATAAGGGAT
*
39006429 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCTGATAAGGGAT
* *
39006453 AAGATTTAGGAGCTGATAAGGGAG
1 AGGATTTAGGAGCTGATAAGGGAT
*
39006477 AGGATTTAGGAGCTGATTAGGGA
1 AGGATTTAGGAGCTGATAAGGGA
39006500 GAACAGTGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.34, C:0.02, G:0.38, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGCTGATAAGGGAT
Found at i:39008008 original size:54 final size:53
Alignment explanation
Indices: 39007910--39008020 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 53
39007900 AGGAATCGTC
* * *
39007910 CTGGTGGCTATGCCACATTTATTTGATCTAGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTACCACAT-TATCTGTT
* * * **
39007964 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTACCACATTATCTGTT
39008017 CTGG
1 CTGG
39008021 CAGCAATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 12 0.24
54 37 0.76
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTACCACATTATCTGTT
Found at i:39008017 original size:26 final size:26
Alignment explanation
Indices: 39007910--39008020 Score: 114
Period size: 27 Copynumber: 4.2 Consensus size: 26
39007900 AGGAATCGTC
* * * *
39007910 CTGGTGGCTATGCCACATTTATTTGAT
1 CTGGTGACTCTGCCACA-TTATCTGTT
* * *
39007937 CTAGTGGCTCTACCACATATATCTGTT
1 CTGGTGACTCTGCCACAT-TATCTGTT
*
39007964 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGACTCTGCCAC-ATTATCTGTT
*
39007991 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGACTCTGCCACATTATCTGTT
39008017 CTGG
1 CTGG
39008021 CAGCAATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 56 0.77
28 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (26 bp):
CTGGTGACTCTGCCACATTATCTGTT
Found at i:39020658 original size:18 final size:17
Alignment explanation
Indices: 39020626--39020660 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
39020616 TTTCTAGGCT
39020626 ATGTGGGCTACATGGGC
1 ATGTGGGCTACATGGGC
*
39020643 ATGTGTGCTCACATGGGC
1 ATGTGGGCT-ACATGGGC
39020661 CCGCATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.20, G:0.37, T:0.26
Consensus pattern (17 bp):
ATGTGGGCTACATGGGC
Found at i:39040650 original size:39 final size:40
Alignment explanation
Indices: 39040550--39040734 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
39040540 TCGAATGATG
* * * * *
39040550 TCCGGGCTAAGTCCCGAAGGC-CTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
39040590 TCCGGACTAAGGT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAA-GTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
39040630 TTCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39040669 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
39040710 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39040735 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39040756 original size:79 final size:79
Alignment explanation
Indices: 39040603--39040767 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
39040593 GGACTAAGGT
** * **
39040603 CCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGCCTGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
39040668 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
39040682 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
** *
39040745 TTTATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
39040761 CCGAAGG
1 CCGAAGG
39040768 TACGTGATGC
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.67
80 22 0.31
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:39048714 original size:39 final size:40
Alignment explanation
Indices: 39048614--39048797 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
39048604 TCGAATGATG
* * * * *
39048614 TCCGGGCTAAGTCCCGAAGGC-CTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAA
* * *
39048654 TCCAGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGTGAGTTACTAAA
*
39048694 TCCGGGCTAAG-CCCGAAGGCATTGGTGT-AGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
* *
39048732 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTA-AA
* * *
39048773 -CTGGTCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39048798 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 19 0.16
39 30 0.25
40 62 0.52
41 8 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
Found at i:39048786 original size:40 final size:38
Alignment explanation
Indices: 39048667--39048797 Score: 140
Period size: 39 Copynumber: 3.3 Consensus size: 38
39048657 AGACTAAGAT
* *
39048667 CCGAAGGCATTTGTGTGAGTTACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTG-GAGTTACTAA-ACCGGTCTAAGTC
* *
39048706 CCGAAGGCATTGGTGTAGTTACTAAATCCGGGT-TAAGTC
1 CCGAAGGCATTTGTGGAGTTACTAAA-CC-GGTCTAAGTC
* *
39048745 CCGAAGGCATTTGTGCGAGTTACTATAACTGGTCTATGTC
1 CCGAAGGCATTTGTG-GAGTTACTA-AACCGGTCTAAGTC
39048785 CCGAAGGCATTTG
1 CCGAAGGCATTTG
39048798 AACGAGTAGC
Statistics
Matches: 78, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
38 15 0.19
39 34 0.44
40 27 0.35
41 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (38 bp):
CCGAAGGCATTTGTGGAGTTACTAAACCGGTCTAAGTC
Found at i:39055291 original size:96 final size:97
Alignment explanation
Indices: 39055109--39055285 Score: 211
Period size: 96 Copynumber: 1.8 Consensus size: 97
39055099 TTTTAGTTTA
*
39055109 AAGAATGATAATTATTAATATATAATTATATCCATTATAATATATATTAATTATTATCAAATTTT
1 AAGAATGATAATTATTAATATATAATTATATCCATTAAAATATATATTAATTATTATCAAATTTT
* *** *
39055174 AGGATTTTATTTGATAAGTTTTTAATGATAAT
66 AGCATAGAATTGGATAAGTTTTTAATGATAAT
*
39055206 AAGAA-GATAATCT-TTAATATATAATTATATCTATTAAAAAATATATATTAATCT-TTATC-AA
1 AAGAATGATAAT-TATTAATATATAATTATATCCATT--AAAATATATATTAAT-TATTATCAAA
39055267 -TTTAGCATAGAATTAGGAT
62 TTTTAGCATAGAATT-GGAT
39055286 TGTTTTAATC
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
96 37 0.54
97 11 0.16
98 19 0.28
99 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (97 bp):
AAGAATGATAATTATTAATATATAATTATATCCATTAAAATATATATTAATTATTATCAAATTTT
AGCATAGAATTGGATAAGTTTTTAATGATAAT
Found at i:39072806 original size:41 final size:41
Alignment explanation
Indices: 39072754--39072933 Score: 177
Period size: 41 Copynumber: 4.4 Consensus size: 41
39072744 TGATTTCAAT
*
39072754 AAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTAGTC
1 AAAACGCCACTAAAAACTGAGCAATAGCGGCATTTCTAGTC
* * *
39072795 CAAACGCCACTAAAAACTGAGCAATAGCGGCATTTTTAGTG
1 AAAACGCCACTAAAAACTGAGCAATAGCGGCATTTCTAGTC
* *
39072836 AAAACGCCGA-TAAAAACTAAGCAATAGCGGCGTTTCT-GCTC
1 AAAACGCC-ACTAAAAACTGAGCAATAGCGGCATTTCTAG-TC
* * * * * * *
39072877 AAAACGCCGC-AAAAAGATTATCTATAGCGGCATTTTTGGTC
1 AAAACGCCACTAAAAA-CTGAGCAATAGCGGCATTTCTAGTC
* *
39072918 CAAACGCCACAAAAAA
1 AAAACGCCACTAAAAA
39072934 GTTGAGCAGC
Statistics
Matches: 115, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
40 6 0.05
41 102 0.89
42 7 0.06
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (41 bp):
AAAACGCCACTAAAAACTGAGCAATAGCGGCATTTCTAGTC
Found at i:39072904 original size:82 final size:82
Alignment explanation
Indices: 39072754--39072933 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 82
39072744 TGATTTCAAT
* * *
39072754 AAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTAGTCCAAACGCCACTAAAAACTGAGCAA
1 AAAACGCCACTAAAAACTAAGCAATAGCGGCGTTTCTAGTCAAAACGCCACTAAAAAATGAGCAA
39072819 TAGCGGCATTTTTAGTG
66 TAGCGGCATTTTTAGTG
* * *
39072836 AAAACGCCGA-TAAAAACTAAGCAATAGCGGCGTTTCT-GCTCAAAACGCCGC-AAAAAGATTAT
1 AAAACGCC-ACTAAAAACTAAGCAATAGCGGCGTTTCTAG-TCAAAACGCCACTAAAAA-ATGAG
* * *
39072898 CTATAGCGGCATTTTTGGTC
63 CAATAGCGGCATTTTTAGTG
* *
39072918 CAAACGCCACAAAAAA
1 AAAACGCCACTAAAAA
39072934 GTTGAGCAGC
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
81 7 0.08
82 75 0.90
83 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (82 bp):
AAAACGCCACTAAAAACTAAGCAATAGCGGCGTTTCTAGTCAAAACGCCACTAAAAAATGAGCAA
TAGCGGCATTTTTAGTG
Found at i:39073222 original size:8 final size:7
Alignment explanation
Indices: 39073208--39073272 Score: 60
Period size: 7 Copynumber: 9.1 Consensus size: 7
39073198 ATGGCTTTCT
39073208 CTAAACC
1 CTAAACC
39073215 CTTAAACC
1 C-TAAACC
39073223 CTAAA-C
1 CTAAACC
* *
39073229 ATAGACC
1 CTAAACC
*
39073236 CTAAACA
1 CTAAACC
*
39073243 CTAATCC
1 CTAAACC
*
39073250 ATAAACC
1 CTAAACC
39073257 CTAAGACC
1 CTAA-ACC
39073265 CTAAACC
1 CTAAACC
39073272 C
1 C
39073273 CAAAAAAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
6 4 0.09
7 27 0.60
8 14 0.31
ACGTcount: A:0.43, C:0.37, G:0.03, T:0.17
Consensus pattern (7 bp):
CTAAACC
Done.