Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 120 of 352
Found at i:38475897 original size:19 final size:19
Alignment explanation
Indices: 38475873--38475935 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
38475863 CACATACGTG
*
38475873 CCCCTGTTGTACTTTGGTA
1 CCCCTGTTGTACTTTAGTA
* * * *
38475892 CCCCTGAATGCAC-ATACGTG
1 CCCCTG-TTGTACTTTA-GTA
38475912 CCCCTGTTGTACTTTAGTA
1 CCCCTGTTGTACTTTAGTA
38475931 CCCCT
1 CCCCT
38475936 AAACGCAAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.16, C:0.33, G:0.17, T:0.33
Consensus pattern (19 bp):
CCCCTGTTGTACTTTAGTA
Found at i:38475917 original size:20 final size:20
Alignment explanation
Indices: 38475857--38475917 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
38475847 TCAGTACCCA
38475857 TGAATGCACATACGTGCCCC
1 TGAATGCACATACGTGCCCC
* * * ** *
38475877 TG-TTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCC
38475896 TGAATGCACATACGTGCCCC
1 TGAATGCACATACGTGCCCC
38475916 TG
1 TG
38475918 TTGTACTTTA
Statistics
Matches: 28, Mismatches: 12, Indels: 2
0.67 0.29 0.05
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.20, C:0.31, G:0.21, T:0.28
Consensus pattern (20 bp):
TGAATGCACATACGTGCCCC
Found at i:38475963 original size:117 final size:117
Alignment explanation
Indices: 38475757--38476011 Score: 393
Period size: 117 Copynumber: 2.2 Consensus size: 117
38475747 TATAATTATA
* * * * *
38475757 CCCTGTTGTACTTCGATACCCTTGAATGCACATACGTGCCCTTGTTGTACTTCGGTACCCCTAAA
1 CCCTGTTGTACTTTGGTACCCCTGAATGCACATACGTGCCCCTGTTGTACTTCAGTACCCCTAAA
* *
38475822 CGCACATACGTGCCCCTCTTGTACTTCAGTACCCATGAATGCACATACGTGC
66 CGCAAATACGTGCCCCTATTGTACTTCAGTACCCATGAATGCACATACGTGC
*
38475874 CCCTGTTGTACTTTGGTACCCCTGAATGCACATACGTGCCCCTGTTGTACTTTAGTACCCCTAAA
1 CCCTGTTGTACTTTGGTACCCCTGAATGCACATACGTGCCCCTGTTGTACTTCAGTACCCCTAAA
* ** * *
38475939 CGCAAATACGTTCCCCTATTGTACTTTGGTACCCCTGAATGCACATATGTGC
66 CGCAAATACGTGCCCCTATTGTACTTCAGTACCCATGAATGCACATACGTGC
38475991 CCCTGTTGTACTTTGGTACCC
1 CCCTGTTGTACTTTGGTACCC
38476012 ATGATTCACA
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
117 125 1.00
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.31
Consensus pattern (117 bp):
CCCTGTTGTACTTTGGTACCCCTGAATGCACATACGTGCCCCTGTTGTACTTCAGTACCCCTAAA
CGCAAATACGTGCCCCTATTGTACTTCAGTACCCATGAATGCACATACGTGC
Found at i:38476287 original size:2 final size:2
Alignment explanation
Indices: 38476280--38476312 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
38476270 TGTGGCTATA
*
38476280 TG TG TG TG TG TG TG TG TG TG TG TG TG CG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
38476313 CTAGTTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:38481167 original size:39 final size:39
Alignment explanation
Indices: 38481124--38481354 Score: 295
Period size: 39 Copynumber: 5.9 Consensus size: 39
38481114 GTGAGATATC
*
38481124 TATCCGGGCTAATTCCCGAAGGCATTTGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTA
* *
38481163 TATCCGGGCTAAGTCTCGAAGGCATTTGTGCTGGTGCTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTA
* * *
38481202 TATCTGAGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTA
* *
38481241 TACCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTA
* * *
38481280 TACCCGGGCTAAGTCCCGAAGGCA-TTGTGTTGGTATTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTA
* * * *
38481318 TATCCAGGCTTAAAGTCCCGCATGC-TTTGTGGTGGTG
1 TATCCGGGC-T-AAGTCCCGAAGGCATTTGTGCTGGTG
38481355 ATTGAATTTG
Statistics
Matches: 169, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 18 0.11
39 131 0.78
40 20 0.12
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTA
Found at i:38485730 original size:20 final size:20
Alignment explanation
Indices: 38485705--38485742 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38485695 GTCACATATA
38485705 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
38485725 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
38485743 TAGTTCCTAG
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:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:38496056 original size:25 final size:24
Alignment explanation
Indices: 38496028--38496081 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
38496018 GTACATGTAT
38496028 GCTCAAACGAGCTGAGAATCGGTAA
1 GCTCAAACGAGCTGA-AATCGGTAA
** *
38496053 GCTCTCACGAGCTGAAATTGGTAA
1 GCTCAAACGAGCTGAAATCGGTAA
38496077 GCTCA
1 GCTCA
38496082 TATGATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.20
Consensus pattern (24 bp):
GCTCAAACGAGCTGAAATCGGTAA
Found at i:38496080 original size:24 final size:25
Alignment explanation
Indices: 38496034--38496080 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
38496024 GTATGCTCAA
38496034 ACGAGCTGAGAATCGGTAAGCTCTC
1 ACGAGCTGAGAATCGGTAAGCTCTC
*
38496059 ACGAGCTGA-AATTGGTAAGCTC
1 ACGAGCTGAGAATCGGTAAGCTC
38496081 ATATGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (25 bp):
ACGAGCTGAGAATCGGTAAGCTCTC
Found at i:38499877 original size:21 final size:22
Alignment explanation
Indices: 38499824--38499879 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
38499814 GTGCAGGGCT
*
38499824 CACACGCCCGTGTAGTCCAAGG
1 CACACGCCCGTGTAGACCAAGG
* * *
38499846 GACATGCCCGTGT-GACCATGG
1 CACACGCCCGTGTAGACCAAGG
38499867 CACACGCCCGTGT
1 CACACGCCCGTGT
38499880 TAGAGGTTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.16
Consensus pattern (22 bp):
CACACGCCCGTGTAGACCAAGG
Found at i:38504036 original size:43 final size:44
Alignment explanation
Indices: 38503965--38504099 Score: 175
Period size: 43 Copynumber: 3.1 Consensus size: 44
38503955 TATCGAAATG
* *
38503965 TGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
38504009 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
38504052 T-ATTATTCAAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATTC-GGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
38504097 TGA
1 TGA
38504100 AATGTTATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.01
43 36 0.47
44 7 0.09
45 32 0.42
46 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:38504081 original size:45 final size:43
Alignment explanation
Indices: 38503982--38504099 Score: 157
Period size: 45 Copynumber: 2.7 Consensus size: 43
38503972 CGGGCTTCGG
* *
38503982 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCAGCCTTTGA
* * *
38504025 GCTTAGTAGGCTATGATGCCGGTGAAAT-ATTATTCAAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TC-AGCCTTTGA
38504070 GCCTAGCAGGCTATAATGCCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
38504100 AATGTTATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
42 1 0.02
43 27 0.43
44 2 0.03
45 32 0.51
46 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCAGCCTTTGA
Found at i:38505217 original size:27 final size:27
Alignment explanation
Indices: 38505187--38505464 Score: 294
Period size: 27 Copynumber: 10.3 Consensus size: 27
38505177 CCAAAGTACT
*
38505187 CTCGATTTATAAAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* *
38505214 CTCGATTTACAGAAATACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
*
38505241 CTCAATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* **
38505268 CTC-AGTTTACAGAATTATTGTTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
**
38505295 CTCGATTTATAGAATTATAGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* * * ***
38505322 CTCAATTTGTAAAATTATTATTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
38505349 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
**
38505376 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
38505403 CTCGATTTATAGAA-TAGCCGTTTTACC
1 CTCGATTTATAGAATTA-CCGTTTTACC
* ** *
38505430 CTC-AGTTTACAGAATTATTGTTTTACT
1 CTCGA-TTTATAGAATTACCGTTTTACC
*
38505457 CTCAATTT
1 CTCGATTT
38505465 GCAAAATTAC
Statistics
Matches: 213, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.02
27 203 0.95
28 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.42
Consensus pattern (27 bp):
CTCGATTTATAGAATTACCGTTTTACC
Found at i:38505249 original size:54 final size:54
Alignment explanation
Indices: 38505187--38505464 Score: 371
Period size: 54 Copynumber: 5.1 Consensus size: 54
38505177 CCAAAGTACT
* * **
38505187 CTCGATTTATAAAATTACCGTTTTACCCTC-GATTTACAGAAATACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACCCTCAG-TTTACAGAATTATTGTTTTACC
*
38505241 CTCAATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTATTGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTATTGTTTTACC
** * ** * *
38505295 CTCGATTTATAGAATTATAGTTTTACCCTCAATTTGTAAAATTATTATTTTACC
1 CTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTATTGTTTTACC
* * *
38505349 CTCGATTTATAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTATTTTACC
1 CTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTATTGTTTTACC
*
38505403 CTCGATTTATAGAA-TAGCCGTTTTACCCTCAGTTTACAGAATTATTGTTTTACT
1 CTCGATTTATAGAATTA-CCGTTTTACCCTCAGTTTACAGAATTATTGTTTTACC
*
38505457 CTCAATTT
1 CTCGATTT
38505465 GCAAAATTAC
Statistics
Matches: 198, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
53 2 0.01
54 195 0.98
55 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.42
Consensus pattern (54 bp):
CTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTATTGTTTTACC
Found at i:38505543 original size:27 final size:27
Alignment explanation
Indices: 38505492--38505568 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
38505482 CCCTCGATCA
38505492 ATAAAATTACCAAAATACCCCTGGTTT
1 ATAAAATTACCAAAATACCCCTGGTTT
* *
38505519 GTAAAATTACCAAAATACCCTTGGTTT
1 ATAAAATTACCAAAATACCCCTGGTTT
* * * *
38505546 ACAAAATTATCGAAAGACCCCTG
1 ATAAAATTACCAAAATACCCCTG
38505569 TAGGGTAGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.27
Consensus pattern (27 bp):
ATAAAATTACCAAAATACCCCTGGTTT
Found at i:38505580 original size:27 final size:27
Alignment explanation
Indices: 38505550--38505780 Score: 336
Period size: 27 Copynumber: 8.6 Consensus size: 27
38505540 TGGTTTACAA
*
38505550 AATTATCGAAAGACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
38505577 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * *
38505604 AATTACCAAAATACCCCTGTATGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
38505631 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
38505658 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
38505685 AATTATCGCAATACCCCCGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
38505712 AATTATCAAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * *
38505739 AAATACCGAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
38505766 AATTACCGAGATACC
1 AATTATCGAAATACC
38505781 TTTGTGGGGT
Statistics
Matches: 182, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 182 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:38505590 original size:81 final size:82
Alignment explanation
Indices: 38505496--38505772 Score: 276
Period size: 81 Copynumber: 3.4 Consensus size: 82
38505486 CGATCAATAA
* ** * *
38505496 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCTTGGT-TTACAAAATTATCGA
1 AATTACCGAAATACCCCTGGTAGGGTAAAATTACCAAAATACCCCT-GTATGACAAAATTATCGA
38505559 AAGACCCCTGTAGGGTAG
65 AAGACCCCTGTAGGGTAG
* * ** *
38505577 AATTATCGAAATACCCCT-GTAGGGTAGAATTACCAAAATACCCCTGTATGGTAGAATTATCGAA
1 AATTACCGAAATACCCCTGGTAGGGTAAAATTACCAAAATACCCCTGTATGACAAAATTATCGAA
*
38505641 ATACCCCTGTAGGGTAG
66 AGACCCCTGTAGGGTAG
* * ** * * ** * *
38505658 AATTACCGAAATACCCCT-GTAGGGTAGAATTATCGCAATACCCCCGTAGGGTAGAATTATCAAA
1 AATTACCGAAATACCCCTGGTAGGGTAAAATTACCAAAATACCCCTGTATGACAAAATTATCGAA
* *
38505722 ATACCCTTGTAGGGTAG
66 AGACCCCTGTAGGGTAG
* * *
38505739 AAATACCGAAATACCCCT-ATAGGGTAGAATTACC
1 AATTACCGAAATACCCCTGGTAGGGTAAAATTACC
38505773 GAGATACCTT
Statistics
Matches: 172, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 4 0.02
81 168 0.98
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (82 bp):
AATTACCGAAATACCCCTGGTAGGGTAAAATTACCAAAATACCCCTGTATGACAAAATTATCGAA
AGACCCCTGTAGGGTAG
Found at i:38506036 original size:27 final size:26
Alignment explanation
Indices: 38505998--38506080 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
38505988 TGGAGGAAGC
*
38505998 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
38506025 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
38506051 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
38506078 GTT
1 GTT
38506081 GATCGATCGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:38506202 original size:22 final size:22
Alignment explanation
Indices: 38506177--38506226 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
38506167 AAAGGCTCTA
*
38506177 TGCCAACCTAAATATGGCTTTG
1 TGCCAACCTAAATATGGCTTCG
* * * *
38506199 TGCCATCTTGACTATGGCTTCG
1 TGCCAACCTAAATATGGCTTCG
38506221 TGCCAA
1 TGCCAA
38506227 ACGTATTTAC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (22 bp):
TGCCAACCTAAATATGGCTTCG
Found at i:38506413 original size:27 final size:27
Alignment explanation
Indices: 38506383--38506464 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
38506373 TATTCTATTA
* *
38506383 GGTGGCTTTGCCACATTATCTG-ATTCT
1 GGTGGCTCTGCCACAATATCTGTA-TCT
38506410 GGTGGCTCTGCCACAATATCTGTATCT
1 GGTGGCTCTGCCACAATATCTGTATCT
* * * *
38506437 GGTGACTCTGTCACGATATTTGT-TCT
1 GGTGGCTCTGCCACAATATCTGTATCT
38506463 GG
1 GG
38506465 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.10
27 42 0.88
28 1 0.02
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTGTATCT
Found at i:38506591 original size:6 final size:6
Alignment explanation
Indices: 38506582--38506707 Score: 134
Period size: 6 Copynumber: 20.8 Consensus size: 6
38506572 TTGCATTCAC
* * *
38506582 ATTCTG ATTCTG ATTCTG ATTCT- ATTACTA ATACTG ATTCTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* *
38506630 ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
38506679 ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
38506708 CATTTTGGTT
Statistics
Matches: 102, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
5 8 0.08
6 85 0.83
7 8 0.08
8 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:38507453 original size:38 final size:39
Alignment explanation
Indices: 38507437--38507645 Score: 293
Period size: 38 Copynumber: 5.5 Consensus size: 39
38507427 GCAGGCTATA
* *
38507437 TGCTGGAATTATATCCGGGTTAAA-TCCCGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATTCTCGCAGGCTTCG
38507475 TGCTGGTATTATATCCGGGTTAAA-TCTCGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATTCTCGCAGGCTTCG
*
38507513 TGCTGGTATTATATCTGGGTTAAA-TCTCGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATTCTCGCAGGCTTCG
* * *
38507551 TGCTGGTAATATATCTGGGTT-AATTCTCGCAGGCTTCA
1 TGCTGGTATTATATCCGGGTTAAATTCTCGCAGGCTTCG
* * *
38507589 TGCTGGTATTATATCCGGGTTAAA-TCCCGCAGGCCTAG
1 TGCTGGTATTATATCCGGGTTAAATTCTCGCAGGCTTCG
*
38507627 TGCTGGTATTATATTCGGG
1 TGCTGGTATTATATCCGGG
38507646 CCTTTGAGCC
Statistics
Matches: 157, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
37 2 0.01
38 153 0.97
39 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (39 bp):
TGCTGGTATTATATCCGGGTTAAATTCTCGCAGGCTTCG
Found at i:38507536 original size:76 final size:76
Alignment explanation
Indices: 38507426--38507645 Score: 334
Period size: 76 Copynumber: 2.9 Consensus size: 76
38507416 GCTTAAAGAC
*
38507426 CGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGCAGGCT-TCATGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
38507490 CGGGTTAAATCT
65 CGGGTTAAATCT
* * * * *
38507502 CGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATCTCGCAGGCTTCGTGCTGGTAATATATCT
1 CGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
*
38507567 GGGTTAATTCT
66 GGGTTAAATCT
* * *
38507578 CGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATTC
1 CGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
38507643 GGG
66 GGG
38507646 CCTTTGAGCC
Statistics
Matches: 128, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
75 1 0.01
76 127 0.99
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (76 bp):
CGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
GGGTTAAATCT
Found at i:38507688 original size:45 final size:45
Alignment explanation
Indices: 38507638--38507767 Score: 199
Period size: 45 Copynumber: 2.9 Consensus size: 45
38507628 GCTGGTATTA
* *
38507638 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
* *
38507683 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGATGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
*
38507728 TAATCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGATGA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGATGA
38507768 AATGATAATT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
44 4 0.05
45 74 0.95
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
Found at i:38509383 original size:20 final size:20
Alignment explanation
Indices: 38509360--38509397 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38509350 TGTATTCATA
* *
38509360 AAATTTTAGAATTTTTCACC
1 AAATTTTACAACTTTTCACC
38509380 AAATTTTACAACTTTTCA
1 AAATTTTACAACTTTTCA
38509398 TTTTAGTCCT
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:0.37, C:0.16, G:0.03, T:0.45
Consensus pattern (20 bp):
AAATTTTACAACTTTTCACC
Found at i:38529180 original size:42 final size:41
Alignment explanation
Indices: 38529133--38529214 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 41
38529123 CTGAGGCTTG
*
38529133 GTGCGAAGTTCACTA-AATCCGGTTA-AGTCCCGAAGGCATTTT
1 GTGCG-AGTT-ACTATAA-CCGGCTATAGTCCCGAAGGCATTTT
* *
38529175 GTGCGAGTTACTATAACGGGCTATGGTCCCGAAGGCATTT
1 GTGCGAGTTACTATAACCGGCTATAGTCCCGAAGGCATTT
38529215 GAACGAGTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
40 9 0.26
41 21 0.60
42 5 0.14
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (41 bp):
GTGCGAGTTACTATAACCGGCTATAGTCCCGAAGGCATTTT
Found at i:38542364 original size:30 final size:30
Alignment explanation
Indices: 38542323--38542384 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
38542313 TGTTACCAGA
* *
38542323 CCGTGTGTCACACACGGTCTAGACATACGT
1 CCGTATGTCACACACGGTCTAAACATACGT
38542353 CCGTATGTCACACACGGTCTAAACATACGT
1 CCGTATGTCACACACGGTCTAAACATACGT
38542383 CC
1 CC
38542385 TTGTGTCTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (30 bp):
CCGTATGTCACACACGGTCTAAACATACGT
Found at i:38545375 original size:79 final size:81
Alignment explanation
Indices: 38545209--38545390 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
38545199 CGAATGATGT
* * *
38545209 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
*
38545273 GTGCGAGTTACTAATT
66 GTGCGAGTTACTAATA
* * * **
38545289 CCAGGCTAAG-CCTGAAGGCATTGGTGC-GAGTCACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCATT
38545351 TGTGCGAGTTACT-ATAA
65 TGTGCGAGTTACTAAT-A
*
38545368 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
38545391 TGAACGAGTA
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.66
80 26 0.30
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATA
Found at i:38545399 original size:40 final size:39
Alignment explanation
Indices: 38545209--38545392 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
38545199 CGAATGATGT
* * *
38545209 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
38545249 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* * * *
38545289 CCAGGCTAAG-CCTGAAGGCATTGGTGCGAGTCACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38545327 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38545368 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
38545393 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.26
40 79 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38545414 original size:79 final size:78
Alignment explanation
Indices: 38545209--38545425 Score: 219
Period size: 79 Copynumber: 2.7 Consensus size: 78
38545199 CGAATGATGT
* *
38545209 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
38545272 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* * * *
38545289 CCAGGCTAAG-CCTGAAGGCATTGGTGCGAGTCA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-AGCTATATCC-GGTTAAGT-CCGAAGGCATTT
38545352 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
38545368 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
38545426 TACGTGATTC
Statistics
Matches: 113, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
78 3 0.03
79 66 0.58
80 44 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:38547757 original size:20 final size:20
Alignment explanation
Indices: 38547732--38547771 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
38547722 CTACATACTT
38547732 TTATTAATGGTCTAATTACC
1 TTATTAATGGTCTAATTACC
38547752 TTATTAATGGTCTAATTACC
1 TTATTAATGGTCTAATTACC
38547772 ATATGGGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (20 bp):
TTATTAATGGTCTAATTACC
Found at i:38548659 original size:23 final size:23
Alignment explanation
Indices: 38548624--38548670 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
38548614 TTAATAATAG
* *
38548624 TGGTATAATTATTATATTAATCCT
1 TGGTATAAATATTAT-TTAACCCT
38548648 TGGT-TAAATATTATTTAACCCT
1 TGGTATAAATATTATTTAACCCT
38548670 T
1 T
38548671 TTAACTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 9 0.43
24 4 0.19
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.49
Consensus pattern (23 bp):
TGGTATAAATATTATTTAACCCT
Found at i:38551418 original size:15 final size:14
Alignment explanation
Indices: 38551386--38551427 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
38551376 TAGTCATGCA
*
38551386 TCTTTCTTCTCTTT
1 TCTTTCTTCTCTTC
38551400 TCTTTCTTACTCTTC
1 TCTTTCTT-CTCTTC
*
38551415 TCTTTCTTTTCTT
1 TCTTTCTTCTCTT
38551428 TCCTATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (14 bp):
TCTTTCTTCTCTTC
Found at i:38552649 original size:41 final size:41
Alignment explanation
Indices: 38552604--38552690 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
38552594 ACTTGCAGAT
38552604 ACCACCATATTTAGATTGTATAAAAGTTGATTATTCACTCA
1 ACCACCATATTTAGATTGTATAAAAGTTGATTATTCACTCA
*
38552645 ACCACCATATTTTGATTGTATAAAAGTTGATTATTCACTCA
1 ACCACCATATTTAGATTGTATAAAAGTTGATTATTCACTCA
38552686 ACCAC
1 ACCAC
38552691 AGTGTTCGCG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (41 bp):
ACCACCATATTTAGATTGTATAAAAGTTGATTATTCACTCA
Found at i:38552887 original size:41 final size:41
Alignment explanation
Indices: 38552842--38552971 Score: 142
Period size: 41 Copynumber: 3.1 Consensus size: 41
38552832 CTTTTGTCCC
38552842 TTTCAAAGTCACACCATTGTTGTCCCTTTCTTCTTCATTTT
1 TTTCAAAGTCACACCATTGTTGTCCCTTTCTTCTTCATTTT
* * * * *
38552883 TTTC-AAGTTCAGCAGCC-CTGTTTTGCACCCTTCTT-TT-GTTCT
1 TTTCAAAG-TCA-CA-CCATTGTTGT-C-CCTTTCTTCTTCATTTT
38552925 TTTCAAAGTCACACCATTGTTGTCCCTTTCTTCTTCATTTT
1 TTTCAAAGTCACACCATTGTTGTCCCTTTCTTCTTCATTTT
38552966 TTTCAA
1 TTTCAA
38552972 GTTCAACAGC
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
39 7 0.10
40 8 0.11
41 23 0.33
42 17 0.24
43 8 0.11
44 7 0.10
ACGTcount: A:0.16, C:0.27, G:0.09, T:0.48
Consensus pattern (41 bp):
TTTCAAAGTCACACCATTGTTGTCCCTTTCTTCTTCATTTT
Found at i:38552957 original size:83 final size:83
Alignment explanation
Indices: 38552818--38552989 Score: 299
Period size: 83 Copynumber: 2.1 Consensus size: 83
38552808 CCCTACAAAT
**
38552818 TGTTTTGCACTGTTCTTTTGTCCCTTTCAAAGTCACACCATTGTTGTCCCTTTCTTCTTCATTTT
1 TGTTTTGCACCCTTCTTTTGTCCCTTTCAAAGTCACACCATTGTTGTCCCTTTCTTCTTCATTTT
*
38552883 TTTCAAGTTCAGCAGCCC
66 TTTCAAGTTCAACAGCCC
* *
38552901 TGTTTTGCACCCTTCTTTTGTTCTTTTCAAAGTCACACCATTGTTGTCCCTTTCTTCTTCATTTT
1 TGTTTTGCACCCTTCTTTTGTCCCTTTCAAAGTCACACCATTGTTGTCCCTTTCTTCTTCATTTT
38552966 TTTCAAGTTCAACAGCCC
66 TTTCAAGTTCAACAGCCC
38552984 TGTTTT
1 TGTTTT
38552990 TGTAAGCCTT
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.15, C:0.27, G:0.11, T:0.48
Consensus pattern (83 bp):
TGTTTTGCACCCTTCTTTTGTCCCTTTCAAAGTCACACCATTGTTGTCCCTTTCTTCTTCATTTT
TTTCAAGTTCAACAGCCC
Found at i:38552958 original size:42 final size:42
Alignment explanation
Indices: 38552830--38552959 Score: 112
Period size: 42 Copynumber: 3.1 Consensus size: 42
38552820 TTTTGCACTG
* *
38552830 TTCTTTTGTCCCTTTCAAAGTCACACCATTGTTGTCCCTTTC
1 TTCTTTTGTTCTTTTCAAAGTCACACCATTGTTGTCCCTTTC
* * *
38552872 TTCTTCAT-TT-TTTTC-AAGTTCAGCAGCC-CTGTTTTGCACC---C
1 TTCTT-TTGTTCTTTTCAAAG-TCA-CA-CCATTGTTGT-C-CCTTTC
38552913 TTCTTTTGTTCTTTTCAAAGTCACACCATTGTTGTCCCTTTC
1 TTCTTTTGTTCTTTTCAAAGTCACACCATTGTTGTCCCTTTC
38552955 TTCTT
1 TTCTT
38552960 CATTTTTTTC
Statistics
Matches: 67, Mismatches: 8, Indels: 26
0.66 0.08 0.26
Matches are distributed among these distances:
39 2 0.03
40 7 0.10
41 22 0.33
42 27 0.40
43 7 0.10
44 2 0.03
ACGTcount: A:0.14, C:0.28, G:0.10, T:0.48
Consensus pattern (42 bp):
TTCTTTTGTTCTTTTCAAAGTCACACCATTGTTGTCCCTTTC
Found at i:38558110 original size:55 final size:55
Alignment explanation
Indices: 38558043--38558154 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
38558033 CCCCAAAGGA
*
38558043 ATTAAATTAATTTCTTAGTCATCTTGAGAAAATACATTTAATGTGGATAGTATTC
1 ATTAAATTAATTTCTTAGTCATCTTGAGAAAATACATTTAATGTAGATAGTATTC
*
38558098 ATTAAATTAATTTCTTAGTCATCTTGAGAAAATACATTTACTGTAGATAGTATTC
1 ATTAAATTAATTTCTTAGTCATCTTGAGAAAATACATTTAATGTAGATAGTATTC
38558153 AT
1 AT
38558155 GCAATCTATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (55 bp):
ATTAAATTAATTTCTTAGTCATCTTGAGAAAATACATTTAATGTAGATAGTATTC
Found at i:38570491 original size:38 final size:38
Alignment explanation
Indices: 38570449--38570523 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
38570439 CTCAATCATA
*
38570449 TAAACAGTAATTCATTC-GATAACAGTAACTCATCCATT
1 TAAACAGTAATTCATCCAGATAACAGTAACTC-TCCATT
* * *
38570487 TAAACAGTACTTCATCCATATAACAGTAATTCTCCAT
1 TAAACAGTAATTCATCCAGATAACAGTAACTCTCCAT
38570524 ATAACACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 20 0.62
39 12 0.38
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.32
Consensus pattern (38 bp):
TAAACAGTAATTCATCCAGATAACAGTAACTCTCCATT
Found at i:38570524 original size:18 final size:19
Alignment explanation
Indices: 38570445--38570529 Score: 93
Period size: 18 Copynumber: 4.5 Consensus size: 19
38570435 CACTCTCAAT
*
38570445 CATATAAACAGTAATTCATT
1 CATAT-AACAGTAATTCATC
* *
38570465 C-GATAACAGTAACTCATC
1 CATATAACAGTAATTCATC
* *
38570483 CATTTAAACAGTACTTCATC
1 CATAT-AACAGTAATTCATC
38570503 CATATAACAGTAATTC-TC
1 CATATAACAGTAATTCATC
38570521 CATATAACA
1 CATATAACA
38570530 CATAGCTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
18 24 0.44
19 13 0.24
20 17 0.31
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (19 bp):
CATATAACAGTAATTCATC
Found at i:38570729 original size:23 final size:24
Alignment explanation
Indices: 38570700--38570754 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
38570690 TGATGGACTA
** *
38570700 TAAGCTCTATTAAGCTGA-AACAG
1 TAAGCTCTAGCAAACTGAGAACAG
*
38570723 TAAGCTCTGGCAAACTGAGAACAG
1 TAAGCTCTAGCAAACTGAGAACAG
38570747 TAAGCTCT
1 TAAGCTCT
38570755 TGCGAGCTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (24 bp):
TAAGCTCTAGCAAACTGAGAACAG
Found at i:38570764 original size:24 final size:23
Alignment explanation
Indices: 38570711--38570764 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
38570701 AAGCTCTATT
38570711 AAGCTGAAACAGTAAGCTCTGGC
1 AAGCTGAAACAGTAAGCTCTGGC
* *
38570734 AAACTGAGAACAGTAAGCTCTTGC
1 AAGCTGA-AACAGTAAGCTCTGGC
*
38570758 GAGCTGA
1 AAGCTGA
38570765 TATATCGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (23 bp):
AAGCTGAAACAGTAAGCTCTGGC
Found at i:38585741 original size:15 final size:15
Alignment explanation
Indices: 38585721--38585751 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
38585711 TGGTATGACC
38585721 TCATGAGAAATTGAG
1 TCATGAGAAATTGAG
38585736 TCATGAGAAATTGAG
1 TCATGAGAAATTGAG
38585751 T
1 T
38585752 GGTCTGAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (15 bp):
TCATGAGAAATTGAG
Found at i:38587468 original size:19 final size:19
Alignment explanation
Indices: 38587428--38587485 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
38587418 TTTGATAATT
* *
38587428 GTAACTCATCCATTTAAACA
1 GTAATTCATCCATAT-AACA
*
38587448 GTACTTCATCCATATAACA
1 GTAATTCATCCATATAACA
*
38587467 GTAATTCATCTATATAACA
1 GTAATTCATCCATATAACA
38587486 TATAGCTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 21 0.64
20 12 0.36
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (19 bp):
GTAATTCATCCATATAACA
Found at i:38587737 original size:26 final size:24
Alignment explanation
Indices: 38587654--38587748 Score: 95
Period size: 24 Copynumber: 3.9 Consensus size: 24
38587644 GAGTTGATGG
* *
38587654 ACAGTAAGCTC-TATTGAGCT-AAA
1 ACAGTAAGCTCTTA-CGAGCTGATA
* *
38587677 ACAGTAAGCTCTGACAAGCTGATA
1 ACAGTAAGCTCTTACGAGCTGATA
38587701 ACAGTAAGCTCTTACGAGCTGATA
1 ACAGTAAGCTCTTACGAGCTGATA
* *
38587725 TATCGGTAAGCTCATACGAGCTGA
1 -A-CAGTAAGCTCTTACGAGCTGA
38587749 GGTGAGTCCG
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
23 15 0.25
24 25 0.42
25 1 0.02
26 19 0.32
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (24 bp):
ACAGTAAGCTCTTACGAGCTGATA
Found at i:38589688 original size:60 final size:60
Alignment explanation
Indices: 38589574--38589688 Score: 133
Period size: 60 Copynumber: 1.9 Consensus size: 60
38589564 TTGTACAAAC
** * ****
38589574 TATTTTTATATTGTTTTATTTAATAAAATAAAAGTTGTTTTGAATATTTTAATAGTAAAT
1 TATTTTTATATTGTCCTATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAGTAAAT
**
38589634 TATTTTTATATTTGTCCTATTTAAT-AAATAGTAGTTCTTTTGAATAAGGCAATAG
1 TATTTTTATA-TTGTCCTATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAG
38589689 GAATAATGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
60 33 0.73
61 12 0.27
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.50
Consensus pattern (60 bp):
TATTTTTATATTGTCCTATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAGTAAAT
Found at i:38589694 original size:14 final size:14
Alignment explanation
Indices: 38589675--38589713 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
38589665 TAGTTCTTTT
*
38589675 GAATAAGGCAATAG
1 GAATAATGCAATAG
38589689 GAATAATGCAATAG
1 GAATAATGCAATAG
38589703 GAATAATGCAA
1 GAATAATGCAA
38589714 CGTAGTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.51, C:0.08, G:0.23, T:0.18
Consensus pattern (14 bp):
GAATAATGCAATAG
Found at i:38591804 original size:40 final size:41
Alignment explanation
Indices: 38591760--38591935 Score: 252
Period size: 40 Copynumber: 4.4 Consensus size: 41
38591750 CACTCGAATA
* *
38591760 CCTTCGGGACATAGCCCGGATA-TAGAAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
*
38591800 CCTTCGGGACTTAGCCC-GAAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
*
38591840 CCTTCGGGACTTAGCCCGGATA-TGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
* * * *
38591880 CCTTCGTGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
38591920 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
38591936 TGGTTATCAT
Statistics
Matches: 122, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 4 0.03
40 115 0.94
41 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.21
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
Found at i:38591855 original size:80 final size:80
Alignment explanation
Indices: 38591760--38591935 Score: 280
Period size: 80 Copynumber: 2.2 Consensus size: 80
38591750 CACTCGAATA
*
38591760 CCTTCGGGACATAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
*
38591825 TAACTCGCACAAATG
66 TAACTAGCACAAATG
* * * *
38591840 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATGCCTTCGTGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
* *
38591905 TCACTAGCGCAAATG
66 TAACTAGCACAAATG
38591920 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
38591936 TGGTTATCAT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 88 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.21
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
TAACTAGCACAAATG
Found at i:38604559 original size:9 final size:9
Alignment explanation
Indices: 38604545--38604580 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
38604535 GAGATCTATA
*
38604545 AAACAGAGG
1 AAACAGAGT
38604554 AAACAGAGT
1 AAACAGAGT
38604563 AAACAGAGT
1 AAACAGAGT
38604572 AAACAGAGT
1 AAACAGAGT
38604581 TGTTGTATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.56, C:0.11, G:0.25, T:0.08
Consensus pattern (9 bp):
AAACAGAGT
Found at i:38605225 original size:47 final size:47
Alignment explanation
Indices: 38605154--38605687 Score: 897
Period size: 47 Copynumber: 11.3 Consensus size: 47
38605144 CCCTTCGGGA
* * * * * *
38605154 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38605201 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38605248 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38605295 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38605342 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38605389 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38605436 CTTATCACATATATACACTTTCACATTCACCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38605483 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38605530 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38605579 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38605626 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38605675 CTTATCACATATA
1 CTTATCACATATA
38605688 CTATCATGTA
Statistics
Matches: 464, Mismatches: 19, Indels: 8
0.95 0.04 0.02
Matches are distributed among these distances:
47 372 0.80
49 92 0.20
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38621823 original size:11 final size:11
Alignment explanation
Indices: 38621807--38621832 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
38621797 ACTTGAACAG
38621807 AAATAAAAATA
1 AAATAAAAATA
38621818 AAATAAAAATA
1 AAATAAAAATA
38621829 AAAT
1 AAAT
38621833 TACATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:38628409 original size:55 final size:55
Alignment explanation
Indices: 38628266--38628435 Score: 270
Period size: 56 Copynumber: 3.1 Consensus size: 55
38628256 GAAGTAGAAT
*
38628266 TTTTTTTTATCATTTTAAGGTCTATGGCATGATTGAATGATTGTGTGAAAATTTA
1 TTTTTTTTATCATTTTAAGGTCTATGGCATGATTGCATGATTGTGTGAAAATTTA
* *
38628321 TTTATTTTTATCCTTTTAAGGTTTA-GGACATGATTGCATGATTGTGTGAAAATTTA
1 TTT-TTTTTATCATTTTAAGGTCTATGG-CATGATTGCATGATTGTGTGAAAATTTA
*
38628377 TTTTTTTTATCATTTTAAGGTCTATGGCATGATTGCATGATTATGTGAAAATTTCA
1 TTTTTTTTATCATTTTAAGGTCTATGGCATGATTGCATGATTGTGTGAAAATTT-A
38628433 TTT
1 TTT
38628436 AGAAATTTTA
Statistics
Matches: 105, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
55 50 0.48
56 55 0.52
ACGTcount: A:0.26, C:0.07, G:0.17, T:0.49
Consensus pattern (55 bp):
TTTTTTTTATCATTTTAAGGTCTATGGCATGATTGCATGATTGTGTGAAAATTTA
Found at i:38629617 original size:50 final size:50
Alignment explanation
Indices: 38629509--38629699 Score: 224
Period size: 50 Copynumber: 3.8 Consensus size: 50
38629499 TGAGAACACA
* * *
38629509 TGTGTAGAACTATGTGCAGGCTACTATGTGTTA--AGATGGTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTG-TACCAGATAG--TTAGGTCACG
* ** *
38629560 TGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATAGTTAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACG
* * * *
38629610 TGTGTAGTATTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACG
* *
38629660 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
38629700 CTTCGGTTAC
Statistics
Matches: 118, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
50 88 0.75
51 25 0.21
52 5 0.04
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACG
Found at i:38629683 original size:100 final size:100
Alignment explanation
Indices: 38629505--38629699 Score: 275
Period size: 100 Copynumber: 1.9 Consensus size: 100
38629495 ATTGTGAGAA
*
38629505 CACATGTGTAGAACTATGTGCAGGCTACTATGTGTTAAGATGGTTTTAGGTCACGTGTGTAGTAC
1 CACATGTGTAGAACTAAGTGCAGGCTACTATGTGTTAAGATGG-TTTAGGTCACGTGTGTAGTAC
*
38629570 TAAGTGCAAGCTACTACATGTACCAGATAGTTAGGT
65 TAAGTGCAAGCTACTACACGTACCAGATAGTTAGGT
* * * *
38629606 CACATGTGTAGTATTAAGTGCAGGCTACTATGTGTATCAGATGG-TTAGGTCATGTGTGTAGTAC
1 CACATGTGTAGAACTAAGTGCAGGCTACTATGTGT-TAAGATGGTTTAGGTCACGTGTGTAGTAC
* * **
38629670 TAAGTGTAGGCTACTATGCGTACCAGATAG
65 TAAGTGCAAGCTACTACACGTACCAGATAG
38629700 CTTCGGTTAC
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
100 44 0.53
101 32 0.39
102 7 0.08
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (100 bp):
CACATGTGTAGAACTAAGTGCAGGCTACTATGTGTTAAGATGGTTTAGGTCACGTGTGTAGTACT
AAGTGCAAGCTACTACACGTACCAGATAGTTAGGT
Found at i:38629918 original size:16 final size:15
Alignment explanation
Indices: 38629897--38629926 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
38629887 GAATGGAGTA
38629897 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
38629913 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
38629927 TAAAATTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:38634179 original size:125 final size:126
Alignment explanation
Indices: 38633838--38634339 Score: 604
Period size: 126 Copynumber: 4.0 Consensus size: 126
38633828 GCCAAGCAGG
* * * * *
38633838 AACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGTTGACAATGCATCC
1 AACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATAC
* ** * * * *
38633903 TCCTTGAAGCATTTTTAACACTACCTCTTCAGAACTGTCTTCTCAAAGTTAGTTTTTCAGA
66 TGCTTGAAGCATTTTTAACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGA
*
38633964 AACTATTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATTA
1 AACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCA-TA
* * * * * *
38634029 -TGCTTGAAGCATTTTTTACGCTATTTTTCCAGAACCATCTTCTCAAAATTATTTTTTTAGG
65 CTGCTTGAAGCATTTTTAACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGA
* * * * *
38634090 AACTACCGTAGAAAAAGAGCGTCCATGTAGGAG-TTTTTTCAGTACTTTTACTGACAGTGCATAC
1 AACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATAC
* * * *
38634154 TACTTGAAGCGTTTTTAACATTATTTTTTCAGAATCGTCTTCTC--AATTATTTTTTCAGA
66 TGCTTGAAGCATTTTTAACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGA
* ** * * *
38634213 AACTTCTGTATTAAAAGAGCGT-CATGTGGGAGC-TTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATAC
* * * *
38634276 TGCTTGAAGCATTTTTATCACTATTTTTTCAAAACCGTCTTCTCAATATAATTTTTTCA-A
66 TGCTTGAAGCATTTTTAACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGA
38634336 AACT
1 AACT
38634340 CAACCCTAAA
Statistics
Matches: 321, Mismatches: 50, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
122 75 0.23
123 36 0.11
124 13 0.04
125 63 0.20
126 133 0.41
127 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (126 bp):
AACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATAC
TGCTTGAAGCATTTTTAACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGA
Found at i:38634431 original size:34 final size:33
Alignment explanation
Indices: 38634393--38634487 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 33
38634383 TTATTTTAAA
38634393 AAAAATCTTAAACCCTAATTTAATTAATTTTCTT
1 AAAAA-CTTAAACCCTAATTTAATTAATTTTCTT
*
38634427 AAAAACTCTAAACCC----TTAATTAATTTACTT
1 AAAAACT-TAAACCCTAATTTAATTAATTTTCTT
* * *
38634457 AAAACCCCTAAAACCTAATTTAATTAATTTT
1 AAAA-ACTTAAACCCTAATTTAATTAATTTT
38634488 TTTTTAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
30 24 0.48
31 1 0.02
33 2 0.04
34 23 0.46
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (33 bp):
AAAAACTTAAACCCTAATTTAATTAATTTTCTT
Found at i:38637293 original size:94 final size:94
Alignment explanation
Indices: 38637132--38637304 Score: 276
Period size: 94 Copynumber: 1.8 Consensus size: 94
38637122 TTGTTTGTGG
*
38637132 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCACATAATGAGAGCCAGTGTAAGACCATGTC
38637197 TGGGACATGGCATCGGCATTGAGACGAGA
66 TGGGACATGGCATCGGCATTGAGACGAGA
* ** * *
38637226 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTGCGA-AATGATAGTCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCAC-ATAATGAGAGCCAGTGTAAGACCATGT
38637290 CTGGGACATGGCATC
65 CTGGGACATGGCATC
38637305 AACTTGAGAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
94 71 0.99
95 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAACCACATAATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATTGAGACGAGA
Found at i:38637330 original size:47 final size:47
Alignment explanation
Indices: 38637135--38637352 Score: 191
Period size: 47 Copynumber: 4.7 Consensus size: 47
38637125 TTTGTGGGCT
* * *
38637135 AGTGTAAGA-CATGTCTGGGACAT-GCATCAAC-CACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACTGAGACTAT--GAGCC
* * * *
38637181 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC--AACTGAGACTATGAGCC
* * * *
38637229 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTGCGA-AATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACTGAGACTATG--AGCC
38637275 AGTGTAAGACCATGTCTGGGACATGGCATCAACTTGAGA-TATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAAC-TGAGACTATGAGCC
** *
38637322 AGCATAAGACCATGTCTAGGACATGGCATCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCA
38637353 GCACCTTACC
Statistics
Matches: 141, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 6 0.04
46 25 0.18
47 73 0.52
48 25 0.18
49 7 0.05
50 1 0.01
51 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAACTGAGACTATGAGCC
Found at i:38637336 original size:94 final size:94
Alignment explanation
Indices: 38637139--38637352 Score: 254
Period size: 94 Copynumber: 2.3 Consensus size: 94
38637129 TGGGCTAGTG
*
38637139 TAAGACATGTCTGGGACATGCATCAACCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACA
1 TAAGACATGTCTGGGACATGCATCAACCACATAATGAGAGCCAGTGTAAGACCATGTCTGGGACA
** * **
38637204 TGGCATCGGCATTGAGACGAGAGCTAGTG
66 TGGCATCAACATTGAGACGAGAGCCAGCA
* ** * *
38637233 TAAGACATGTCTGGGACATGCATCGACTGCGA-AATGATAGTCAGTGTAAGACCATGTCTGGGAC
1 TAAGACATGTCTGGGACATGCATCAACCAC-ATAATGAGAGCCAGTGTAAGACCATGTCTGGGAC
*
38637297 ATGGCATCAAC-TTGAGA-TATGAGCCAGCA
65 ATGGCATCAACATTGAGACGA-GAGCCAGCA
*
38637326 TAAGACCATGTCTAGGACATGGCATCA
1 TAAGA-CATGTCTGGGACAT-GCATCA
38637353 GCACCTTACC
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
92 1 0.01
93 17 0.17
94 78 0.76
95 6 0.06
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (94 bp):
TAAGACATGTCTGGGACATGCATCAACCACATAATGAGAGCCAGTGTAAGACCATGTCTGGGACA
TGGCATCAACATTGAGACGAGAGCCAGCA
Found at i:38646140 original size:30 final size:30
Alignment explanation
Indices: 38646104--38646163 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
38646094 GAGAGCTAGT
38646104 GTAAGACCATGTCTGGGACATGGCATCAGC
1 GTAAGACCATGTCTGGGACATGGCATCAGC
38646134 GTAAGACCATGTCTGGGACATGGCATCAGC
1 GTAAGACCATGTCTGGGACATGGCATCAGC
38646164 ATTGAGACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (30 bp):
GTAAGACCATGTCTGGGACATGGCATCAGC
Found at i:38646216 original size:45 final size:47
Alignment explanation
Indices: 38646134--38646299 Score: 175
Period size: 46 Copynumber: 3.6 Consensus size: 47
38646124 TGGCATCAGC
* *
38646134 GTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGACGA-AGCTAGT
*
38646182 GTAAGA-CAT-TCTGGGACAT-GCATCAGCCTCGAGACGTAAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGACG-AAGCTAGT
* * * *
38646227 GTAAGA-CATGTCTAGGACAT-GCATC-GGCTACGAGATGATAG-TCAAT
1 GTAAGACCATGTCTGGGACATGGCATCAGCCT-CGAGACGA-AGCT-AGT
38646273 GTAAGACCATGTCTGGGACATGGCATC
1 GTAAGACCATGTCTGGGACATGGCATC
38646300 GACTTGAGAT
Statistics
Matches: 102, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
45 34 0.33
46 41 0.40
47 16 0.16
48 11 0.11
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (47 bp):
GTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGACGAAGCTAGT
Found at i:38646245 original size:46 final size:47
Alignment explanation
Indices: 38646134--38646345 Score: 195
Period size: 47 Copynumber: 4.6 Consensus size: 47
38646124 TGGCATCAGC
* * * *
38646134 GTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATC-GCCTCGAGACGAGAGCCAAT
*
38646182 GTAAGA-CAT-TCTGGGACAT-GCATCAGCCTCGAGACGTA-AGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATC-GCCTCGAGACG-AGAGCCAAT
* * * * *
38646227 GTAAGA-CATGTCTAGGACAT-GCATCGGCTACGAGATGATAGTCAAT
1 GTAAGACCATGTCTGGGACATGGCATCGCCT-CGAGACGAGAGCCAAT
* * *
38646273 GTAAGACCATGTCTGGGACATGGCATCGACTTGAGA-TATGAGCCAAT
1 GTAAGACCATGTCTGGGACATGGCATCGCCTCGAGACGA-GAGCCAAT
* *
38646320 GTAAGACCATGTCTAGGATATGGCAT
1 GTAAGACCATGTCTGGGACATGGCAT
38646346 TGGTACCTTA
Statistics
Matches: 141, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
45 34 0.24
46 43 0.30
47 50 0.35
48 14 0.10
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
GTAAGACCATGTCTGGGACATGGCATCGCCTCGAGACGAGAGCCAAT
Found at i:38658338 original size:27 final size:28
Alignment explanation
Indices: 38658254--38658351 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
38658244 CATGAGATTG
* * * *
38658254 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
38658283 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
38658311 GCACTAAGTGTGTGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
38658338 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
38658352 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:38658362 original size:27 final size:27
Alignment explanation
Indices: 38658282--38658364 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
38658272 TAAATTGTAC
* * *
38658282 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGGGA-CTTGAATATAT
* * *
38658310 AGCACTAAGTGTGTGAGTTGATTATAT
1 AGCACTAAGTGTGGGACTTGAATATAT
*
38658337 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTG-GGACTTGAATATAT
38658364 A
1 A
38658365 TTTTTGAATC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 29 0.60
28 19 0.40
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGGGACTTGAATATAT
Found at i:38661922 original size:39 final size:39
Alignment explanation
Indices: 38661868--38661993 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
38661858 GATATTGATG
*
38661868 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
38661907 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
38661946 TATATCCGGACTTAAGGTCCGCAGGCTACGTACTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
38661985 TATGTCCGG
1 TATATCCGG
38661994 GCTAAAGTCC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:38662007 original size:39 final size:39
Alignment explanation
Indices: 38661868--38662011 Score: 146
Period size: 39 Copynumber: 3.7 Consensus size: 39
38661858 GATATTGATG
* ** * * *
38661868 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTACTGGAAA
** * * *
38661907 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTACTGGAAA
*
38661946 TATATCCGGACTTAAGGTCCGCAGGCTACGTACTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTACTGGAAA
* *
38661985 TATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAAGT-CCGCAGGCT
38662012 TCGAGCTGGT
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
38 5 0.05
39 91 0.95
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTACTGGAAA
Found at i:38662007 original size:78 final size:78
Alignment explanation
Indices: 38661868--38662011 Score: 191
Period size: 78 Copynumber: 1.8 Consensus size: 78
38661858 GATATTGATG
* * * * **
38661868 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCAGACTTAAGGTCCGCAGGCTACGTACTGGAAATATATCCGGACTTAAAGTCCGCAGGC
38661933 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* * *
38661946 TATATCCGGACTTAAGGTCCGCAGGCTACGTACTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCAGACTTAAGGTCCGCAGGCTACGTACTGGAAATATATCCGGACTTAAAGT-CCGCAGG
38662010 CT
65 CT
38662012 TCGAGCTGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
77 4 0.07
78 52 0.93
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (78 bp):
TATATCCAGACTTAAGGTCCGCAGGCTACGTACTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:38662020 original size:78 final size:78
Alignment explanation
Indices: 38661868--38662031 Score: 190
Period size: 78 Copynumber: 2.1 Consensus size: 78
38661858 GATATTGATG
* * * * * **
38661868 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTACTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
38661933 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* *
38661946 TATATCCGGACTTAAGGTCCGCAGGCTACGTACTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTACTGGAAATATATCCGGACTTAAAGT-CCGCAGG
*
38662010 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
38662024 TATA-CCGG
1 TATATCCGG
38662032 GTTTAAATTC
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 9 0.12
78 64 0.88
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTACTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:38677001 original size:21 final size:20
Alignment explanation
Indices: 38676959--38677047 Score: 58
Period size: 21 Copynumber: 4.4 Consensus size: 20
38676949 ATTTTTGATA
**
38676959 AGGAAGTTACTGCTGCAAAAG
1 AGGAAGTTGTTGCTG-AAAAG
38676980 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTTGTTGCTGAA-AAG
* * *
38677001 AAGAA--T-TTACTGAAAATA
1 AGGAAGTTGTTGCTGAAAA-G
*
38677019 AGAAAGTTGTTGCTGAAGAAG
1 AGGAAGTTGTTGCTGAA-AAG
*
38677040 AAGAAGTT
1 AGGAAGTT
38677048 ACTGAAAATA
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
17 2 0.04
18 10 0.20
19 1 0.02
20 3 0.06
21 33 0.65
22 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.28, T:0.24
Consensus pattern (20 bp):
AGGAAGTTGTTGCTGAAAAG
Found at i:38677003 original size:18 final size:18
Alignment explanation
Indices: 38676977--38677042 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
38676967 ACTGCTGCAA
*
38676977 AAGAGGAAGTTGTTGCTG
1 AAGAAGAAGTTGTTGCTG
* *
38676995 AAGAAGAAGAAT-TTACTG
1 AAGAAGAAG-TTGTTGCTG
*
38677013 AAAATAAGAAAGTTGTTGCTG
1 --AAGAAG-AAGTTGTTGCTG
38677034 AAGAAGAAG
1 AAGAAGAAG
38677043 AAGTTACTGA
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
18 16 0.44
19 6 0.17
20 6 0.17
21 8 0.22
ACGTcount: A:0.44, C:0.05, G:0.29, T:0.23
Consensus pattern (18 bp):
AAGAAGAAGTTGTTGCTG
Found at i:38677027 original size:39 final size:39
Alignment explanation
Indices: 38676983--38677063 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
38676973 GCAAAAGAGG
*
38676983 AAGTTGTTGCTGAAGAAGAAGAATTTACTGAAAATAAGA
1 AAGTTGTTGCTGAAGAAGAAGAAGTTACTGAAAATAAGA
38677022 AAGTTGTTGCTGAAGAAGAAGAAGTTACTGAAAATAAGA
1 AAGTTGTTGCTGAAGAAGAAGAAGTTACTGAAAATAAGA
38677061 AAG
1 AAG
38677064 AAAAAGAAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.47, C:0.05, G:0.25, T:0.23
Consensus pattern (39 bp):
AAGTTGTTGCTGAAGAAGAAGAAGTTACTGAAAATAAGA
Found at i:38677064 original size:21 final size:21
Alignment explanation
Indices: 38677001--38677065 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
38676991 GCTGAAGAAG
*
38677001 AAGAATTTACTGAAAATAAGA
1 AAGAAGTTACTGAAAATAAGA
** * *
38677022 AAGTTGTTGCTG--AAGAAG-
1 AAGAAGTTACTGAAAATAAGA
38677040 AAGAAGTTACTGAAAATAAGA
1 AAGAAGTTACTGAAAATAAGA
38677061 AAGAA
1 AAGAA
38677066 AAAGAAGAAG
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 9 0.28
19 5 0.16
20 5 0.16
21 13 0.41
ACGTcount: A:0.52, C:0.05, G:0.22, T:0.22
Consensus pattern (21 bp):
AAGAAGTTACTGAAAATAAGA
Found at i:38677076 original size:39 final size:39
Alignment explanation
Indices: 38676994--38677079 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
38676984 AGTTGTTGCT
* ***** **
38676994 GAAGAAGAAGAATTTACTGAAAATAAGAAAGTTGTTGCT
1 GAAGAAGAAGAAGTTACTGAAAATAAGAAAGAAAAAGAA
38677033 GAAGAAGAAGAAGTTACTGAAAATAAGAAAGAAAAAGAA
1 GAAGAAGAAGAAGTTACTGAAAATAAGAAAGAAAAAGAA
38677072 GAAGAAGA
1 GAAGAAGA
38677080 TTATGTTGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.56, C:0.03, G:0.24, T:0.16
Consensus pattern (39 bp):
GAAGAAGAAGAAGTTACTGAAAATAAGAAAGAAAAAGAA
Found at i:38682738 original size:36 final size:36
Alignment explanation
Indices: 38682633--38682756 Score: 144
Period size: 36 Copynumber: 3.4 Consensus size: 36
38682623 TCCCTGTTTT
*
38682633 GTGTGATTTCGATTGGACTAGCTCTT-TAGAGCCAT-TG
1 GTGTG-TTTCGGTTGGACTAGCTCTTAT-GAG-CATCTG
* * *
38682670 GTGTGTTATCGGGTGGACCAGCTATTATGAGCATCTG
1 GTGTGTT-TCGGTTGGACTAGCTCTTATGAGCATCTG
* *
38682707 GTGTGTTTCGGTTGGATTAGCTCTTATGAGCATCTA
1 GTGTGTTTCGGTTGGACTAGCTCTTATGAGCATCTG
38682743 GTGTGTTTCGGTTG
1 GTGTGTTTCGGTTG
38682757 TTATATCGAT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
36 43 0.57
37 31 0.41
38 1 0.01
ACGTcount: A:0.16, C:0.15, G:0.31, T:0.39
Consensus pattern (36 bp):
GTGTGTTTCGGTTGGACTAGCTCTTATGAGCATCTG
Found at i:38685883 original size:46 final size:46
Alignment explanation
Indices: 38685801--38685917 Score: 148
Period size: 46 Copynumber: 2.5 Consensus size: 46
38685791 AAGTCGACTC
*
38685801 CATGTCCCACACATGGTCTTACACTGACTATCATCTCGTAG-CCGATG
1 CATGTCCCAAACAT-GTCTTACACTGACTATCATCTCG-AGCCCGATG
* *
38685848 CATGTCCCAAACATGTCTTACACTGGCT-TACATCTCGAGCCCGTTG
1 CATGTCCCAAACATGTCTTACACTGACTAT-CATCTCGAGCCCGATG
* *
38685894 CATGTCCCAGACATGCCTTACACT
1 CATGTCCCAAACATGTCTTACACT
38685918 AGCCCTCGTC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
45 3 0.05
46 47 0.75
47 13 0.21
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.27
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTGACTATCATCTCGAGCCCGATG
Found at i:38686410 original size:29 final size:30
Alignment explanation
Indices: 38686350--38686415 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
38686340 ATTCACTTCT
* *
38686350 TTGGTAAAATGACCATTTTGCCCCTAGACC
1 TTGGAAAAATGACCATTTTACCCCTAGACC
* *
38686380 TTGGAAAAATGACTATTTTACCCTTAG-CC
1 TTGGAAAAATGACCATTTTACCCCTAGACC
38686409 TT-GAAAA
1 TTGGAAAA
38686416 TCGATTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 5 0.16
29 4 0.12
30 23 0.72
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (30 bp):
TTGGAAAAATGACCATTTTACCCCTAGACC
Found at i:38689241 original size:80 final size:80
Alignment explanation
Indices: 38689108--38689269 Score: 324
Period size: 80 Copynumber: 2.0 Consensus size: 80
38689098 AAATAGAGGG
38689108 AACCATGAGGAGAGTAAGGGTACCTTTCTTGGCTGATCCCTTTCGCTGTATGGCGTGCTCGTTTG
1 AACCATGAGGAGAGTAAGGGTACCTTTCTTGGCTGATCCCTTTCGCTGTATGGCGTGCTCGTTTG
38689173 GGTTGGGCGTCGGCT
66 GGTTGGGCGTCGGCT
38689188 AACCATGAGGAGAGTAAGGGTACCTTTCTTGGCTGATCCCTTTCGCTGTATGGCGTGCTCGTTTG
1 AACCATGAGGAGAGTAAGGGTACCTTTCTTGGCTGATCCCTTTCGCTGTATGGCGTGCTCGTTTG
38689253 GGTTGGGCGTCGGCT
66 GGTTGGGCGTCGGCT
38689268 AA
1 AA
38689270 GAGTGCTCAG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.31
Consensus pattern (80 bp):
AACCATGAGGAGAGTAAGGGTACCTTTCTTGGCTGATCCCTTTCGCTGTATGGCGTGCTCGTTTG
GGTTGGGCGTCGGCT
Found at i:38689612 original size:27 final size:27
Alignment explanation
Indices: 38689582--38689644 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
38689572 TACTGAAATG
* *
38689582 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
38689609 CCCTC-AGTTTATAAAATTACCATTTTA
1 CCCTCGA-TTTATAAAATTACCATTTTA
38689636 CCCTCGATT
1 CCCTCGATT
38689645 GTGAAATTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 1 0.03
27 30 0.94
28 1 0.03
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:38689666 original size:27 final size:26
Alignment explanation
Indices: 38689636--38689805 Score: 128
Period size: 27 Copynumber: 6.3 Consensus size: 26
38689626 TACCATTTTA
* *
38689636 CCCTCGATTGTGAAATTACTAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* *
38689663 CCCTG-TAGGATAGAATTACCAAAATAC
1 CCCTGAT-TG-TAAAATTACCAAAATAC
*
38689690 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* * *
38689717 CCTTAGTTTGTAAAATTACCGAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* * * *
38689744 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCT-GATTGTAAAATTACCAAAATAC
* *
38689770 CCCTCAATTTCTAAAATTACCAAAATAC
1 CCCT-GA-TTGTAAAATTACCAAAATAC
38689798 CCCTGATT
1 CCCTGATT
38689806 TACAAAATTA
Statistics
Matches: 117, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
25 1 0.01
26 7 0.06
27 102 0.87
28 6 0.05
29 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (26 bp):
CCCTGATTGTAAAATTACCAAAATAC
Found at i:38689717 original size:54 final size:54
Alignment explanation
Indices: 38689643--38689798 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 54
38689633 TTACCCTCGA
* * *
38689643 TTGTGAAATTACTAAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCAAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* * ** * *
38689697 TTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* * ***
38689751 TTGTGAAATTACCGAAATA-CCCTCAATTTCTAAAATTACCAAAATACC
1 TTGTGAAATTACCAAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
38689799 CCTGATTTAC
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 3 0.04
54 79 0.93
55 3 0.04
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:38689806 original size:27 final size:28
Alignment explanation
Indices: 38689676--38689840 Score: 146
Period size: 27 Copynumber: 6.1 Consensus size: 28
38689666 TGTAGGATAG
*
38689676 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGAGTTTCTAA
* *
38689703 AATTACCAAAATA-CCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTGAGTTTCTAA
* * * *
38689730 AATTACCGAAATACCACTG-GTTTGTGA
1 AATTACCAAAATACCCCTGAGTTTCTAA
* * *
38689757 AATTACCGAAATA-CCCTCAATTTCTAA
1 AATTACCAAAATACCCCTGAGTTTCTAA
38689784 AATTACCAAAATACCCCTGA-TTTAC-AA
1 AATTACCAAAATACCCCTGAGTTT-CTAA
* * *
38689811 AATTA-TAGAAATACCCTTGACTTTCTAA
1 AATTACCA-AAATACCCCTGAGTTTCTAA
38689839 AA
1 AA
38689841 ATTATAGAAA
Statistics
Matches: 117, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
26 8 0.07
27 93 0.79
28 16 0.14
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (28 bp):
AATTACCAAAATACCCCTGAGTTTCTAA
Found at i:38689813 original size:81 final size:81
Alignment explanation
Indices: 38689676--38689825 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
38689666 TGTAGGATAG
* * * ** *
38689676 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTCTAAAATTACCAAAATACCCTGAGTTTACAAAATTACAGAAA
38689741 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
* *
38689757 AATTACCGAAATA-CCCTCAATTTCTAAAATTACCAAAATACCCCTGA-TTTACAAAATTATAGA
1 AATTACCAAAATACCCCT-AATTTCTAAAATTACCAAAATA-CCCTGAGTTTACAAAATTACAGA
38689820 AATACC
64 AATACC
38689826 CTTGACTTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 4 0.07
81 50 0.85
82 5 0.08
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTCTAAAATTACCAAAATACCCTGAGTTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:38689814 original size:54 final size:54
Alignment explanation
Indices: 38689676--38689883 Score: 177
Period size: 54 Copynumber: 3.8 Consensus size: 54
38689666 TGTAGGATAG
* ** * * * *
38689676 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCACTGA-TTTACAAAATTACCGAAATACCCTCAATTTCTAA
* * ***
38689730 AATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTCTAA
1 AATTACCAAAATACCACTGATTTACAAAATTACCGAAATACCCTCAATTTCTAA
* ** * *
38689784 AATTACCAAAATACCCCTGATTTACAAAATTATAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCACTGATTTACAAAATTACCGAAATACCC-TCAATTTCT-AA
* * * *
38689840 AATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 AATTACCA-AAATACCACTGATTTACAAAATTACCGAAATACCCT
38689884 TAGTTTGTAG
Statistics
Matches: 126, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
54 80 0.63
55 9 0.07
56 37 0.29
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCACTGATTTACAAAATTACCGAAATACCCTCAATTTCTAA
Found at i:38689877 original size:27 final size:26
Alignment explanation
Indices: 38689676--38689889 Score: 124
Period size: 27 Copynumber: 7.9 Consensus size: 26
38689666 TGTAGGATAG
* * * *
38689676 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTGGTTT-CAA
* * *
38689703 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCGAAATACCCTTGGTTT-CAA
**
38689730 AATTACCGAAATACCAC-TGGTTTGTGA
1 AATTACCGAAATACC-CTTGGTTT-CAA
***
38689757 AATTACCGAAATACCCTCAATTTCTAA
1 AATTACCGAAATACCCTTGGTTTC-AA
* * *
38689784 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCGAAATACCCTTGGTTT-CAA
** *
38689811 AATTATAGAAATACCCTTGACTTTCTAAA
1 AATTACCGAAATACCCTTG-GTTTC--AA
** *
38689840 AATTATAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTTGGTTT-CAA
* *
38689867 AATTACTGAAATACCCTTAGTTT
1 AATTACCGAAATACCCTTGGTTT
38689890 GTAGATTTAC
Statistics
Matches: 155, Mismatches: 24, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
26 1 0.01
27 125 0.81
28 8 0.05
29 21 0.14
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (26 bp):
AATTACCGAAATACCCTTGGTTTCAA
Found at i:38690000 original size:27 final size:25
Alignment explanation
Indices: 38689970--38690022 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 25
38689960 GCCCCTGTAG
*
38689970 GGTAAAGTGACCGTAATAC-CCTTATAT
1 GGTAAAATGA-CG-AATACGCCTT-TAT
38689997 GGTAAAATGACGAATACGCCTTTAT
1 GGTAAAATGACGAATACGCCTTTAT
38690022 G
1 G
38690023 TTCCATATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 9 0.38
26 6 0.25
27 9 0.38
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (25 bp):
GGTAAAATGACGAATACGCCTTTAT
Found at i:38690022 original size:25 final size:27
Alignment explanation
Indices: 38689930--38690022 Score: 70
Period size: 27 Copynumber: 3.5 Consensus size: 27
38689920 AAATGACTAA
**
38689930 AATACCCTTA-ATAGGTAAAAAAACCGT
1 AATACCCTTATAT-GGTAAAATGACCGT
* * * *
38689957 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCTTATATGGTAAAATGACCGT
38689984 AATACCCTTATATGGTAAAATGA-CG-
1 AATACCCTTATATGGTAAAATGACCGT
38690009 AATACGCCTT-TATG
1 AATAC-CCTTATATG
38690023 TTCCATATGA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
25 9 0.17
26 7 0.13
27 34 0.65
28 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
AATACCCTTATATGGTAAAATGACCGT
Found at i:38690856 original size:25 final size:24
Alignment explanation
Indices: 38690818--38690887 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
38690808 AGGAAGTGCT
*
38690818 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
38690842 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
38690867 ATAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
38690888 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:38690900 original size:24 final size:24
Alignment explanation
Indices: 38690817--38690900 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
38690807 GAGGAAGTGC
* *
38690817 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
38690842 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
38690866 CATAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
38690890 TAAAAGAGGCT
1 TAAAAG-GGCT
38690901 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:38691156 original size:31 final size:31
Alignment explanation
Indices: 38691107--38691189 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
38691097 CGCTTACAGT
38691107 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
38691137 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
38691168 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
38691190 TCGAAACTGA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.31
31 36 0.69
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:38695753 original size:21 final size:21
Alignment explanation
Indices: 38695723--38695762 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38695713 CACTTGACAT
* *
38695723 AGGGGTACACGCTCGTGTGAA
1 AGGGGCACACGCCCGTGTGAA
38695744 AGGGGCACACGCCCGTGTG
1 AGGGGCACACGCCCGTGTG
38695763 GCCAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGAA
Found at i:38696046 original size:12 final size:12
Alignment explanation
Indices: 38696029--38696058 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
38696019 AGACACATGG
38696029 CCGTGTCTCTAT
1 CCGTGTCTCTAT
*
38696041 CCGTGTCTCTGT
1 CCGTGTCTCTAT
38696053 CCGTGT
1 CCGTGT
38696059 GTTTATTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.03, C:0.33, G:0.23, T:0.40
Consensus pattern (12 bp):
CCGTGTCTCTAT
Found at i:38697114 original size:47 final size:44
Alignment explanation
Indices: 38696966--38697138 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 44
38696956 TTTCGTAGCT
* * * **
38696966 GATGCATGTCCCAGACATGTCATACACTGGCTTACGTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-T-CGTCTCAATACC
*
38697012 -ATTGCATGTCCTAGACATGTCTTACACTAGCCCTCGTCTCAATACC
1 GA-TGCATGTCCCAGACATGTCTTACACTAG--CTCGTCTCAATACC
38697058 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCAT-AATATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCGTC-TCAATA---CC
38697106 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
38697139 ACACACGAAT
Statistics
Matches: 110, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
45 7 0.06
46 55 0.50
47 29 0.26
48 19 0.17
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCGTCTCAATACC
Found at i:38701748 original size:49 final size:49
Alignment explanation
Indices: 38701649--38701750 Score: 159
Period size: 49 Copynumber: 2.1 Consensus size: 49
38701639 ACCATCCCAA
* ***
38701649 TTTCTCATGGGGCGGTCAAGGAAATCAAAGACCACAACATCTTTTGGGT
1 TTTCTCATGGGGCGGTCAAGGAAATCAAAGACCACAACATCCTCCAGGT
*
38701698 TTTCTCGTGGGGCGGTCAAGGAAATCAAAGACCACAACATCCTCCAGGT
1 TTTCTCATGGGGCGGTCAAGGAAATCAAAGACCACAACATCCTCCAGGT
38701747 TTTC
1 TTTC
38701751 AACAACCACC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (49 bp):
TTTCTCATGGGGCGGTCAAGGAAATCAAAGACCACAACATCCTCCAGGT
Found at i:38712609 original size:28 final size:28
Alignment explanation
Indices: 38712578--38712644 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
38712568 CATAGATCCG
* *
38712578 TATTTTTATTTTTATTTGATTTTTAC-TA
1 TATTTTTATTTTAATTT-ATTTTAACTTA
**
38712606 TATTTGAATTTTAATTTATTTTAACTTA
1 TATTTTTATTTTAATTTATTTTAACTTA
*
38712634 TTTTTTTATTT
1 TATTTTTATTT
38712645 CAATGTATGA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
27 7 0.23
28 24 0.77
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (28 bp):
TATTTTTATTTTAATTTATTTTAACTTA
Found at i:38712625 original size:16 final size:16
Alignment explanation
Indices: 38712588--38712626 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
38712578 TATTTTTATT
* *
38712588 TTTATTTGATTTTTAC
1 TTTATTTGAATTTTAA
*
38712604 TATATTTGAATTTTAA
1 TTTATTTGAATTTTAA
38712620 TTTATTT
1 TTTATTT
38712627 TAACTTATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (16 bp):
TTTATTTGAATTTTAA
Found at i:38714114 original size:15 final size:15
Alignment explanation
Indices: 38714084--38714116 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
38714074 ATTTTCAGTG
38714084 TTTATTCTGTGTAAA
1 TTTATTCTGTGTAAA
38714099 TTTATATCTGTG-AAA
1 TTTAT-TCTGTGTAAA
38714114 TTT
1 TTT
38714117 TCGTGCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (15 bp):
TTTATTCTGTGTAAA
Found at i:38719709 original size:44 final size:44
Alignment explanation
Indices: 38719645--38719785 Score: 132
Period size: 42 Copynumber: 3.3 Consensus size: 44
38719635 GATGTGTTAT
** *
38719645 CGTGTAAGACCACATATGGGATGTTGGCATCGAT-TTGTGATTTA
1 CGTGTAAGACCATGTATGGGAAGTTGGCATCGATATT-TGATTTA
* * *
38719689 TGTGTAAGACCATGTTTGGGACA-TTGGCATAG-TATTTGATTT-
1 CGTGTAAGACCATGTATGGGA-AGTTGGCATCGATATTTGATTTA
* *
38719731 CGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCATGTATGGGA-AGTTGGCATCGATATTTGATTTA
*
38719774 CATGTAAGACCA
1 CGTGTAAGACCA
38719786 CGCCTGAGAC
Statistics
Matches: 80, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
42 29 0.36
43 24 0.30
44 27 0.34
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (44 bp):
CGTGTAAGACCATGTATGGGAAGTTGGCATCGATATTTGATTTA
Found at i:38719768 original size:43 final size:43
Alignment explanation
Indices: 38719669--38719785 Score: 139
Period size: 42 Copynumber: 2.7 Consensus size: 43
38719659 TATGGGATGT
* * *
38719669 TGGCATCGAT-TTGTGATTTATGTGTAAGACCATGTTTGGGACAT
1 TGGCATCGATATT-TGATTT-CGTGTAAGACCATGTCTGGGACAG
* *
38719713 TGGCATAG-TATTTGATTTCGTGTAAGACCCTGTCTGGGACAG
1 TGGCATCGATATTTGATTTCGTGTAAGACCATGTCTGGGACAG
* *
38719755 TGGCATCGATATTTGATTACATGTAAGACCA
1 TGGCATCGATATTTGATTTCGTGTAAGACCA
38719786 CGCCTGAGAC
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
42 27 0.44
43 26 0.42
44 9 0.15
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.35
Consensus pattern (43 bp):
TGGCATCGATATTTGATTTCGTGTAAGACCATGTCTGGGACAG
Found at i:38719802 original size:43 final size:43
Alignment explanation
Indices: 38719645--38719803 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
38719635 GATGTGTTAT
* * *
38719645 CGTGTAAGACCACATATGGGATGTTGGCATCGAT-TTGTGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGA-TTA
* * * * * *
38719689 TGTGTAAGACCATGTTTGGGACATTGGCATAG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
38719731 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTA
* * *
38719774 CATGTAAGACCACGCCTGAGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
38719804 TGTACGAACT
Statistics
Matches: 92, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 28 0.30
43 36 0.39
44 28 0.30
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:38722356 original size:15 final size:17
Alignment explanation
Indices: 38722338--38722369 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
38722328 TAGCATGTTT
38722338 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
38722353 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
38722370 CAAGTGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:38730985 original size:18 final size:18
Alignment explanation
Indices: 38730962--38731013 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
38730952 GAAACTCTAT
38730962 ATCCTTCTGGGATTTTAA
1 ATCCTTCTGGGATTTTAA
** *
38730980 ATCCTTCTAAGAATTTAA
1 ATCCTTCTGGGATTTTAA
38730998 ATCCTT-TAGGGATTTT
1 ATCCTTCT-GGGATTTT
38731014 GATATAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.44
Consensus pattern (18 bp):
ATCCTTCTGGGATTTTAA
Found at i:38744425 original size:18 final size:18
Alignment explanation
Indices: 38744404--38744442 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
38744394 GACCAACAAT
*
38744404 AATTAAATAAATAATTAA
1 AATTAAATAAAAAATTAA
**
38744422 AATTTCATAAAAAATTAA
1 AATTAAATAAAAAATTAA
38744440 AAT
1 AAT
38744443 AAAAAATGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTAAATAAAAAATTAA
Found at i:38746925 original size:50 final size:50
Alignment explanation
Indices: 38746797--38747086 Score: 282
Period size: 50 Copynumber: 5.8 Consensus size: 50
38746787 AACTGAAGTT
* * * * *
38746797 ATCTGGTACACATAATAGCCTGCACTTAGTACTACACATACGACC-AACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAGATGACCTAACC
*
38746846 ACCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAGATGACCTAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAGATGACCTAACC
* * * * **
38746896 ATCTGATACACGTAGTGGCCTGCACTTAGTAATACACACG-TGA-TTGAAGTT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA-GATGACCT-AA-CC
* * * * *
38746947 GTCGGGTACACATAGTAGCCTGCACTTAGTACTACACATG-CGACCTAACT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA-GATGACCTAACC
* *
38746997 ATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAGATGACCT--AACC
*** * *
38747049 ATCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
38747087 TGTGTTCTCA
Statistics
Matches: 197, Mismatches: 36, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
49 41 0.21
50 82 0.42
51 38 0.19
52 36 0.18
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAGATGACCTAACC
Found at i:38746981 original size:101 final size:101
Alignment explanation
Indices: 38746850--38747035 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 101
38746840 CCAACAACCT
* * *
38746850 GGTACACGTAGTAGCCTGCACTTAGTACTACACA-GATGACCTAACCATCTGATACACGTAGTGG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATG-CGACCTAACCATCTGATACACGTAGTAG
38746914 CCTGCACTTAGTAATACACACGTGATTGAAGTTGTCG
65 CCTGCACTTAGTAATACACACGTGATTGAAGTTGTCG
* * *
38746951 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACATGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACACGTAGTAGC
*
38747016 CTGCACTTAGTACTACACAC
66 CTGCACTTAGTAATACACAC
38747036 ATGACCTAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 76 0.99
102 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (101 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGATACACGTAGTAGC
CTGCACTTAGTAATACACACGTGATTGAAGTTGTCG
Found at i:38755165 original size:39 final size:40
Alignment explanation
Indices: 38755120--38755344 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
38755110 GCTCCTCGTT
* * * *
38755120 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
38755160 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
38755199 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
38755239 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
38755279 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
38755320 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
38755345 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.24
40 104 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:38755213 original size:40 final size:38
Alignment explanation
Indices: 38755087--38755344 Score: 200
Period size: 40 Copynumber: 6.5 Consensus size: 38
38755077 AAATCACGTA
* * *
38755087 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCG--CACAATG
* * * *
38755126 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAATG
*
38755165 CCTTCGGGACTTAACCCGGATTTAATGACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC-AATG
*
38755205 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCAC-AATG
* *
38755245 CCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCAC-AATG
** * * * *
38755285 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAATG
*
38755325 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
38755345 CAGCATTCAA
Statistics
Matches: 180, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 50 0.28
40 116 0.64
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAATG
Found at i:38755353 original size:41 final size:41
Alignment explanation
Indices: 38755276--38755353 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38755266 CTTGTATCTC
* * *
38755276 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38755317 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38755354 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38763103 original size:40 final size:39
Alignment explanation
Indices: 38763015--38763236 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
38763005 TCCTCGTTCA
* * * *
38763015 AATGCCTTC-GGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
38763053 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
38763092 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
38763132 AAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
38763172 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
38763213 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38763237 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
38 9 0.06
39 28 0.18
40 106 0.69
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:38763245 original size:41 final size:41
Alignment explanation
Indices: 38763168--38763245 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38763158 CTTGTATCTC
* * *
38763168 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38763209 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38763246 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38765168 original size:40 final size:40
Alignment explanation
Indices: 38765113--38765288 Score: 275
Period size: 40 Copynumber: 4.4 Consensus size: 40
38765103 GGATGATAAT
38765113 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
*
38765153 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
* *
38765193 CAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
* * *
38765233 CGGGCTAGGACCCGAAGGCATTTGTACGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
38765273 C-GGCTAA-ATCCCGAAG
1 CGGGCTAAGA-CCCGAAG
38765289 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 112 0.90
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
Found at i:38765557 original size:22 final size:22
Alignment explanation
Indices: 38765515--38765558 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
38765505 AAAATATGCA
* *
38765515 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
38765537 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
38765559 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:38772328 original size:40 final size:39
Alignment explanation
Indices: 38772272--38772405 Score: 198
Period size: 40 Copynumber: 3.4 Consensus size: 39
38772262 ATGATAACCG
38772272 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
*
38772311 GAGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTATCC
1 G-GCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
* * *
38772351 GGGCTAGGACCCGAAGGCATTTGTGCAAGTTGTTATATCC
1 -GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
38772391 GGCTAA-ATCCCGAAG
1 GGCTAAGA-CCCGAAG
38772406 ATACTTGGGT
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
38 1 0.01
39 13 0.15
40 71 0.83
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
Found at i:38772674 original size:22 final size:22
Alignment explanation
Indices: 38772632--38772675 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
38772622 AAAATATGCA
* *
38772632 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
38772654 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
38772676 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:38775002 original size:16 final size:15
Alignment explanation
Indices: 38774978--38775007 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
38774968 AACTGTTTTA
38774978 TTACAAATTTCACTC
1 TTACAAATTTCACTC
38774993 TTACATAATTTCACT
1 TTACA-AATTTCACT
38775008 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:38776854 original size:40 final size:40
Alignment explanation
Indices: 38776806--38776971 Score: 264
Period size: 40 Copynumber: 4.2 Consensus size: 40
38776796 GGACTAAGAT
*
38776806 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
* *
38776846 TCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
*
38776886 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
*
38776926 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTC
38776965 CCGAAGG
1 CCGAAGG
38776972 TACTTGGGTT
Statistics
Matches: 119, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 15 0.13
40 103 0.87
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
Found at i:38778340 original size:50 final size:51
Alignment explanation
Indices: 38778266--38778499 Score: 154
Period size: 50 Copynumber: 4.6 Consensus size: 51
38778256 CAATAATTCA
* * * * * *
38778266 ATACACGTAGTAGCCTGAAGTTAGTACTACACACGTGAGCT-AACCATCTG
1 ATACACATAGTAGCATGCACTTAGTACTACACACGCGACCTAAACCATCTG
* * **** *
38778316 ATACACATAGTAGCATGCACTTAGTACTACACACACGA-TTGAAGTTGTCGG
1 ATACACATAGTAGCATGCACTTAGTACTACACACGCGACCT-AAACCATCTG
* * * * *
38778367 GTACGCATAGTAG-ACTGCACTTAGTACTACACATGCCACCT-AACTATCTG
1 ATACACATAGTAGCA-TGCACTTAGTACTACACACGCGACCTAAACCATCTG
* * * * * *
38778417 GTACACGTAGTAGTC-TGTACTTAGTACTACACATGTGACCTAAAACCATCTT
1 ATACACATAGTAG-CATGCACTTAGTACTACACACGCGACCT-AAACCATCTG
* * *
38778469 AAACACATAGTAGCCTGCACATAGTACTACA
1 ATACACATAGTAGCATGCACTTAGTACTACA
38778500 TATGTGTTCT
Statistics
Matches: 141, Mismatches: 34, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
49 1 0.01
50 72 0.51
51 36 0.26
52 32 0.23
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (51 bp):
ATACACATAGTAGCATGCACTTAGTACTACACACGCGACCTAAACCATCTG
Found at i:38782958 original size:26 final size:26
Alignment explanation
Indices: 38782892--38782947 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
38782882 CATTCTGACC
* *
38782892 CACAACTGGTGTAAGTAGGCCCATTT
1 CACAACTTGTGTAAGCAGGCCCATTT
38782918 CACAACTTGTGTAAGCAGGCCCATTT
1 CACAACTTGTGTAAGCAGGCCCATTT
38782944 CACA
1 CACA
38782948 GCTCTTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (26 bp):
CACAACTTGTGTAAGCAGGCCCATTT
Found at i:38789385 original size:23 final size:23
Alignment explanation
Indices: 38789333--38789379 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
38789323 GAGGGAAAGT
*
38789333 AAAAAAATTGAAGAGAAAAGGTA
1 AAAAAAATTGAAGAGAAAAGGGA
38789356 AAAAAAATTGAAGA-AAAAGGGA
1 AAAAAAATTGAAGAGAAAAGGGA
38789378 AA
1 AA
38789380 GCAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (23 bp):
AAAAAAATTGAAGAGAAAAGGGA
Found at i:38789876 original size:40 final size:39
Alignment explanation
Indices: 38789832--38789926 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 39
38789822 TTATGAATCC
38789832 ATGAAAAGGTTGAAAAGGATGTATCCGAAAAGGATATCAA
1 ATGAAAAGGTTGAAAAGGATGTATCCGAAAAGGATAT-AA
*
38789872 ATGAAAAGGTTGAAAAGGATGTATCCGAAAAGGATATTA
1 ATGAAAAGGTTGAAAAGGATGTATCCGAAAAGGATATAA
*
38789911 ATGAAAAGGTCGAAAA
1 ATGAAAAGGTTGAAAA
38789927 AATATCAATG
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
39 16 0.30
40 37 0.70
ACGTcount: A:0.48, C:0.06, G:0.25, T:0.20
Consensus pattern (39 bp):
ATGAAAAGGTTGAAAAGGATGTATCCGAAAAGGATATAA
Done.