Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 152 of 318
Found at i:47410217 original size:15 final size:15
Alignment explanation
Indices: 47410188--47410272 Score: 93
Period size: 15 Copynumber: 5.6 Consensus size: 15
47410178 AATTGAACCC
*
47410188 CTTTTCTTCCTTTTTT
1 CTTTT-TTCTTTTTTT
47410204 CTTTTTT-TCTTTTTT
1 CTTTTTTCT-TTTTTT
47410219 CTTTTTTCTTTTTTT
1 CTTTTTTCTTTTTTT
*
47410234 CTTTTTTCCTTTTTT
1 CTTTTTTCTTTTTTT
**
47410249 CTTCTTTTCTTCCTTT
1 CTT-TTTTCTTTTTTT
47410265 -TTTTTTCT
1 CTTTTTTCT
47410273 GTTGGGCTGC
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
14 6 0.10
15 40 0.66
16 15 0.25
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
CTTTTTTCTTTTTTT
Found at i:47410225 original size:22 final size:23
Alignment explanation
Indices: 47410188--47410259 Score: 119
Period size: 22 Copynumber: 3.1 Consensus size: 23
47410178 AATTGAACCC
47410188 CTTTTCTTCCTTTTTTCTTTTTTT
1 CTTTT-TTCCTTTTTTCTTTTTTT
47410212 CTTTTTT-CTTTTTTCTTTTTTT
1 CTTTTTTCCTTTTTTCTTTTTTT
*
47410234 CTTTTTTCCTTTTTTCTTCTTTT
1 CTTTTTTCCTTTTTTCTTTTTTT
47410257 CTT
1 CTT
47410260 CCTTTTTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
22 22 0.48
23 19 0.41
24 5 0.11
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (23 bp):
CTTTTTTCCTTTTTTCTTTTTTT
Found at i:47410260 original size:8 final size:7
Alignment explanation
Indices: 47410197--47410272 Score: 91
Period size: 8 Copynumber: 10.3 Consensus size: 7
47410187 CCTTTTCTTC
47410197 CTTTTTT
1 CTTTTTT
47410204 CTTTTTTT
1 C-TTTTTT
47410212 CTTTTTT
1 CTTTTTT
47410219 CTTTTTT
1 CTTTTTT
47410226 CTTTTTTT
1 C-TTTTTT
47410234 CTTTTTT
1 CTTTTTT
47410241 CCTTTTTT
1 -CTTTTTT
47410249 CTTCTTTT
1 CTT-TTTT
*
47410257 CTTCCTTT
1 CTT-TTTT
47410265 -TTTTTT
1 CTTTTTT
47410271 CT
1 CT
47410273 GTTGGGCTGC
Statistics
Matches: 62, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
6 3 0.05
7 27 0.44
8 32 0.52
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
CTTTTTT
Found at i:47410268 original size:22 final size:22
Alignment explanation
Indices: 47410188--47410272 Score: 81
Period size: 22 Copynumber: 4.0 Consensus size: 22
47410178 AATTGAACCC
*
47410188 CTTTTCTTCCTTTTTTCTTTTTTT
1 CTTTT-TTCC-TTTTTCTTTTCTT
* *
47410212 CTTTTTTCTTTTTTCTTTTTTT
1 CTTTTTTCCTTTTTCTTTTCTT
47410234 CTTTTTTCC---TT-TTTTCTT
1 CTTTTTTCCTTTTTCTTTTCTT
47410252 CTTTTCTTCCTTTTT-TTTTCT
1 CTTTT-TTCCTTTTTCTTTTCT
47410273 GTTGGGCTGC
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
18 11 0.20
19 6 0.11
22 29 0.54
23 3 0.06
24 5 0.09
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (22 bp):
CTTTTTTCCTTTTTCTTTTCTT
Found at i:47410558 original size:3 final size:3
Alignment explanation
Indices: 47410552--47410608 Score: 55
Period size: 3 Copynumber: 18.0 Consensus size: 3
47410542 TCTTTTTTTT
47410552 TTC TTC TTTC TTC -TC TCTC TTTC TTTC TTC TTC TTC TTC TTCC TTC
1 TTC TTC -TTC TTC TTC T-TC -TTC -TTC TTC TTC TTC TTC TT-C TTC
47410598 TT- TTC TTC TTC
1 TTC TTC TTC TTC
47410609 AAAATCGAGC
Statistics
Matches: 48, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
2 4 0.08
3 29 0.60
4 14 0.29
5 1 0.02
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:47410582 original size:27 final size:25
Alignment explanation
Indices: 47410542--47410608 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 25
47410532 AATTTTTTTT
* *
47410542 TCTTTTTTTTTTCTTCTTTCTTCTCTC
1 TCTTTCTTTCTTCTTC-TTCTTCT-TC
47410569 TCTTTCTTTCTTCTTCTTCTTCTTC
1 TCTTTCTTTCTTCTTCTTCTTCTTC
47410594 -C-TTCTTTTCTTCTTC
1 TCTTTC-TTTCTTCTTC
47410609 AAAATCGAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
23 3 0.08
24 11 0.30
25 2 0.05
26 7 0.19
27 14 0.38
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (25 bp):
TCTTTCTTTCTTCTTCTTCTTCTTC
Found at i:47410608 original size:24 final size:24
Alignment explanation
Indices: 47410550--47410608 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
47410540 TTTCTTTTTT
*
47410550 TTTTCTTCTTTCTTCTCTCTCTTTC
1 TTTTCTTC-TTCTTCTCTCTCCTTC
47410575 -TTTCTTCTTCTTCT-TCTTCCTTC
1 TTTTCTTCTTCTTCTCTC-TCCTTC
47410598 TTTTCTTCTTC
1 TTTTCTTCTTC
47410609 AAAATCGAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 2 0.06
23 12 0.39
24 17 0.55
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTTCTTCTTCTTCTCTCTCCTTC
Found at i:47411002 original size:29 final size:29
Alignment explanation
Indices: 47410969--47411085 Score: 103
Period size: 30 Copynumber: 3.9 Consensus size: 29
47410959 TGTAATTTTT
*
47410969 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* *
47410998 TGAAAGTTTAGGGGTCT-AAATGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
47411028 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
47411057 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
47411086 TTATTTTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
29 14 0.19
30 58 0.78
31 2 0.03
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:47411021 original size:30 final size:30
Alignment explanation
Indices: 47410984--47411085 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
47410974 ATTTAGGATT
*
47410984 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
47411014 TAAATGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
47411044 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
47411074 AAAATGCAATTT
1 AAAATGAAATTT
47411086 TTATTTTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
29 2 0.03
30 62 0.97
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:47411064 original size:60 final size:59
Alignment explanation
Indices: 47410950--47411085 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 59
47410940 CAAAACTTCT
* ** * *
47410950 GGGG-CTAAATGTAATTTTTAGAAAATTTAGGATTAAAATGAAATTTAATGAAAGTTTA
1 GGGGTCTAAATGAAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTA
* *
47411008 GGGGTCTAAATGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTA
1 GGGGTCTAAATGAAATTTAAAGAAAATTT-AGGATCAAAATGAAATTTAAGG-AAAGTTTA
* *
47411068 GGGGTCAAAATGCAATTT
1 GGGGTCTAAATGAAATTT
47411086 TTATTTTTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 4 0.06
59 22 0.33
60 40 0.61
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.32
Consensus pattern (59 bp):
GGGGTCTAAATGAAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTA
Found at i:47411440 original size:55 final size:55
Alignment explanation
Indices: 47411356--47411572 Score: 315
Period size: 54 Copynumber: 4.1 Consensus size: 55
47411346 CACGTGAGCC
* *
47411356 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AA
*
47411411 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAG--A---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAA
* *
47411462 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
47411516 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
47411570 AAG
1 AAG
47411573 TAGAAATTGA
Statistics
Matches: 149, Mismatches: 6, Indels: 15
0.88 0.04 0.09
Matches are distributed among these distances:
50 14 0.09
51 34 0.23
52 1 0.01
53 17 0.11
54 39 0.26
55 32 0.21
56 6 0.04
57 6 0.04
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:47411570 original size:14 final size:14
Alignment explanation
Indices: 47411551--47411585 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
47411541 TGAGTTGATT
47411551 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
47411565 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
47411579 TTGAAAA
1 TTGAAAA
47411586 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:47411914 original size:90 final size:87
Alignment explanation
Indices: 47411679--47411931 Score: 300
Period size: 90 Copynumber: 2.9 Consensus size: 87
47411669 AACAGAAATT
* * * *
47411679 AAAAACAGAATTTGAAAAGACCTTAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
47411744 TTGA-TTTGAAAAGTAGAATTAG
65 TTGATTTTGAAAAGTAGAATTAA
* * * *
47411766 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
*
47411829 TTGATTTTGAGAAGCATAG-ATTGAA
65 TTGATTTTGAAAAG--TAGAATT-AA
* *
47411854 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCATCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
47411918 GTTGATTTTGAAAA
64 GTTGATTTTGAAAA
47411932 CAAAAATTAA
Statistics
Matches: 140, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
86 8 0.06
87 25 0.18
88 28 0.20
90 40 0.29
92 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTGAAAAGTAGAATTAA
Found at i:47412260 original size:192 final size:192
Alignment explanation
Indices: 47411890--47412694 Score: 1477
Period size: 192 Copynumber: 4.2 Consensus size: 192
47411880 CATGTGAGCC
* *
47411890 GAGGCTCAACTCATCTCTTGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
47411954 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
* *
47412019 ACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAAAAAATTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
47412082 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
47412147 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
** *
47412212 ACTCGTTTCTCGCAATATGAGTTGATTTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
47412274 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
* *
47412339 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATGCCTCGGCGTGCCCCGAGGTTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
47412404 ACTCACTTCTCGTAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
47412466 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
47412531 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
47412596 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
* *
47412658 GAGGCTCAACTCATCTCTCGTAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
47412695 CCTTGGAAAG
Statistics
Matches: 595, Mismatches: 17, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
192 480 0.81
193 115 0.19
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (192 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:47420716 original size:873 final size:873
Alignment explanation
Indices: 47419031--47420752 Score: 3345
Period size: 873 Copynumber: 2.0 Consensus size: 873
47419021 TCGCACGACT
47419031 GAATGTCGTGCCCAACAATCCCATGAAAATTGCAAAAACTTTGACCTTCTTCTCCAAAAACTCTA
1 GAATGTCGTGCCCAACAATCCCATGAAAATTGCAAAAACTTTGACCTTCTTCTCCAAAAACTCTA
47419096 TCAGAGTGACAGAGCAATCCTTTCTTAACTAATACCTCCCAGATTTTCTGCAGAGGCGTCCTTAT
66 TCAGAGTGACAGAGCAATCCTTTCTTAACTAATACCTCCCAGATTTTCTGCAGAGGCGTCCTTAT
47419161 TTCTGCCACACATCTTCTGACCTTCCATTCATCCTCTTTCCCCACTGTGCTCACATTCCCTTCGG
131 TTCTGCCACACATCTTCTGACCTTCCATTCATCCTCTTTCCCCACTGTGCTCACATTCCCTTCGG
47419226 TATGGTTAGGGAACGGGTTCCCCGTGGCGTTACTAGCACTATCAAATCGTAGGATACCCGCGTCA
196 TATGGTTAGGGAACGGGTTCCCCGTGGCGTTACTAGCACTATCAAATCGTAGGATACCCGCGTCA
*
47419291 ATGAGTCTTTGAACTCTCCTTTTGAAAGCGAGACAGTTCTCAATAGAGTGCCCTTGGTTCCCTGC
261 ATGAGTCCTTGAACTCTCCTTTTGAAAGCGAGACAGTTCTCAATAGAGTGCCCTTGGTTCCCTGC
47419356 GTGGTATGCACAACTAGCGTTTGGATCGTACCACTTTGGGTATGGAGGTTTAAGGGGTGCCATGT
326 GTGGTATGCACAACTAGCGTTTGGATCGTACCACTTTGGGTATGGAGGTTTAAGGGGTGCCATGT
*
47419421 AATGGGGAGAAATTAACTATTTTTCTAAAAGTTTTGGGTATAATTCCCCATACGACACAGGGATG
391 AATGGGGAGAAATTAACTATTTTTCTAAAAGTTTTGGGTACAATTCCCCATACGACACAGGGATG
47419486 GGGGTAAATTGCGGTCTCTCGGGATTAGGCCTTGATGGTCTTGGTTCGTTTCTGGGTTGGCTTTG
456 GGGGTAAATTGCGGTCTCTCGGGATTAGGCCTTGATGGTCTTGGTTCGTTTCTGGGTTGGCTTTG
47419551 GGCGGGTACCGTGTTTTGTGGGAAAGTGGTGACGGGTCTTTGGTTGTTCGTGGCGTATACGGGGC
521 GGCGGGTACCGTGTTTTGTGGGAAAGTGGTGACGGGTCTTTGGTTGTTCGTGGCGTATACGGGGC
*
47419616 AGGACGGATGTGGTGCTTGGTAATAAGGGGTTTGAGGGGGATAATAGAAATTCGAGGGTGGATAA
586 AGGACGAATGTGGTGCTTGGTAATAAGGGGTTTGAGGGGGATAATAGAAATTCGAGGGTGGATAA
47419681 TCTCGAGGTCGGGGTTGATTAGGATACGAATTGGGAATGTAACGACTCCCAGTTCCCACCATGAG
651 TCTCGAGGTCGGGGTTGATTAGGATACGAATTGGGAATGTAACGACTCCCAGTTCCCACCATGAG
47419746 GGCTTCTGGCTCTTTCTTCCTTAAGGGTGCTGCTTTTCTTGAGCCTTCTAATCCTTCCATTCTAC
716 GGCTTCTGGCTCTTTCTTCCTTAAGGGTGCTGCTTTTCTTGAGCCTTCTAATCCTTCCATTCTAC
47419811 CGCTCTTGACGGCATTCTCTATGAGTTCACCGGATATTACAATATCCGCGAAATCTTTCGTGGCA
781 CGCTCTTGACGGCATTCTCTATGAGTTCACCGGATATTACAATATCCGCGAAATCTTTCGTGGCA
47419876 CTTCTCCAAAAACTTTATCAGAGTGACA
846 CTTCTCCAAAAACTTTATCAGAGTGACA
47419904 GAATGTCGTGCCCAACAATCCCATGAAAATTGCAAAAACTTTGACCTTCTTCTCCAAAAACTCTA
1 GAATGTCGTGCCCAACAATCCCATGAAAATTGCAAAAACTTTGACCTTCTTCTCCAAAAACTCTA
47419969 TCAGAGTGACAGAGCAATCCTTTCTTAACTAATACCTCCCAGATTTTCTGCAGAGGCGTCCTTAT
66 TCAGAGTGACAGAGCAATCCTTTCTTAACTAATACCTCCCAGATTTTCTGCAGAGGCGTCCTTAT
47420034 TTCTGCCACACATCTTCTGACCTTCCATTCATCCTCTTTCCCCACTGTGCTCACATTCCCTTCGG
131 TTCTGCCACACATCTTCTGACCTTCCATTCATCCTCTTTCCCCACTGTGCTCACATTCCCTTCGG
* * *
47420099 TATGGTTAGGGAACGGGTTCCTCGTGGCGTTACTAGCACTATCGAATCGTAGGATACCTGCGTCA
196 TATGGTTAGGGAACGGGTTCCCCGTGGCGTTACTAGCACTATCAAATCGTAGGATACCCGCGTCA
47420164 ATGAGTCCTTGAACTCTCCTTTTGAAAGCGAGACAGTTCTCAATAGAGTGCCCTTGGTTCCCTGC
261 ATGAGTCCTTGAACTCTCCTTTTGAAAGCGAGACAGTTCTCAATAGAGTGCCCTTGGTTCCCTGC
47420229 GTGGTATGCACAACTAGCGTTTGGATCGTACCACTTTGGGTATGGAGGTTTAAGGGGTGCCATGT
326 GTGGTATGCACAACTAGCGTTTGGATCGTACCACTTTGGGTATGGAGGTTTAAGGGGTGCCATGT
* * *
47420294 AATGGGGAGAAATTAGCTGTTTTTCTAAAAGTTTTGGGTACAATTCCCCATACGACATAGGGATG
391 AATGGGGAGAAATTAACTATTTTTCTAAAAGTTTTGGGTACAATTCCCCATACGACACAGGGATG
47420359 GGGGTAAATTGCGGTCTCTCGGGATTAGGCCTTGATGGTCTTGGTTCGTTTCTGGGTTGGCTTTG
456 GGGGTAAATTGCGGTCTCTCGGGATTAGGCCTTGATGGTCTTGGTTCGTTTCTGGGTTGGCTTTG
47420424 GGCGGGTACCGTGTTTTGTGGGAAAGTGGTGACGGGTCTTTGGTTGTTCGTGGCGTATACGGGGC
521 GGCGGGTACCGTGTTTTGTGGGAAAGTGGTGACGGGTCTTTGGTTGTTCGTGGCGTATACGGGGC
* *
47420489 AGGACGAATGTGGTGCTTGGTAATAAGGGGTTTGAGGGGGATAATGGAAATTTGAGGGTGGATAA
586 AGGACGAATGTGGTGCTTGGTAATAAGGGGTTTGAGGGGGATAATAGAAATTCGAGGGTGGATAA
47420554 TCTCGAGGTCGGGGTTGATTAGGATACGAATTGGGAATGTAACGACTCCCAGTTCCCACCATGAG
651 TCTCGAGGTCGGGGTTGATTAGGATACGAATTGGGAATGTAACGACTCCCAGTTCCCACCATGAG
47420619 GGCTTCTGGCTCTTTCTTCCTTAAGGGTGCTGCTTTTCTTGAGCCTTCTAATCCTTCCATTCTAC
716 GGCTTCTGGCTCTTTCTTCCTTAAGGGTGCTGCTTTTCTTGAGCCTTCTAATCCTTCCATTCTAC
47420684 CGCTCTTGACGGCATTCTCTATGAGTTCACCGGATATTACAATATCCGCGAAATCTTTCGTGGCA
781 CGCTCTTGACGGCATTCTCTATGAGTTCACCGGATATTACAATATCCGCGAAATCTTTCGTGGCA
47420749 CTTC
846 CTTC
47420753 CCACTAATTT
Statistics
Matches: 838, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
873 838 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (873 bp):
GAATGTCGTGCCCAACAATCCCATGAAAATTGCAAAAACTTTGACCTTCTTCTCCAAAAACTCTA
TCAGAGTGACAGAGCAATCCTTTCTTAACTAATACCTCCCAGATTTTCTGCAGAGGCGTCCTTAT
TTCTGCCACACATCTTCTGACCTTCCATTCATCCTCTTTCCCCACTGTGCTCACATTCCCTTCGG
TATGGTTAGGGAACGGGTTCCCCGTGGCGTTACTAGCACTATCAAATCGTAGGATACCCGCGTCA
ATGAGTCCTTGAACTCTCCTTTTGAAAGCGAGACAGTTCTCAATAGAGTGCCCTTGGTTCCCTGC
GTGGTATGCACAACTAGCGTTTGGATCGTACCACTTTGGGTATGGAGGTTTAAGGGGTGCCATGT
AATGGGGAGAAATTAACTATTTTTCTAAAAGTTTTGGGTACAATTCCCCATACGACACAGGGATG
GGGGTAAATTGCGGTCTCTCGGGATTAGGCCTTGATGGTCTTGGTTCGTTTCTGGGTTGGCTTTG
GGCGGGTACCGTGTTTTGTGGGAAAGTGGTGACGGGTCTTTGGTTGTTCGTGGCGTATACGGGGC
AGGACGAATGTGGTGCTTGGTAATAAGGGGTTTGAGGGGGATAATAGAAATTCGAGGGTGGATAA
TCTCGAGGTCGGGGTTGATTAGGATACGAATTGGGAATGTAACGACTCCCAGTTCCCACCATGAG
GGCTTCTGGCTCTTTCTTCCTTAAGGGTGCTGCTTTTCTTGAGCCTTCTAATCCTTCCATTCTAC
CGCTCTTGACGGCATTCTCTATGAGTTCACCGGATATTACAATATCCGCGAAATCTTTCGTGGCA
CTTCTCCAAAAACTTTATCAGAGTGACA
Found at i:47425359 original size:17 final size:16
Alignment explanation
Indices: 47425307--47425411 Score: 68
Period size: 17 Copynumber: 6.2 Consensus size: 16
47425297 ACACAATTTC
*
47425307 TTTAAAA-ACGAGAAT
1 TTTAAAACACGAAAAT
*
47425322 TTTAGAAACATGAAAATT
1 TTTA-AAACACGAAAA-T
*
47425340 TTTAAAACACGACAACT
1 TTTAAAACACGA-AAAT
* *
47425357 TTTGAAGCACGAGAAATT
1 TTTAAAACACGA-AAA-T
* *
47425375 TATTCAAAACACAAAAAA
1 T-TT-AAAACACGAAAAT
*
47425393 TTTAAAACACGAACAT
1 TTTAAAACACGAAAAT
47425409 TTT
1 TTT
47425412 TTGAAACAAT
Statistics
Matches: 68, Mismatches: 15, Indels: 13
0.71 0.16 0.14
Matches are distributed among these distances:
15 4 0.06
16 16 0.24
17 27 0.40
18 10 0.15
19 5 0.07
20 6 0.09
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.28
Consensus pattern (16 bp):
TTTAAAACACGAAAAT
Found at i:47425589 original size:53 final size:53
Alignment explanation
Indices: 47425536--47425663 Score: 145
Period size: 53 Copynumber: 2.4 Consensus size: 53
47425526 ATACGCGAAT
* *
47425536 TTTTTTGAAAAC-CTAATTTTTTTG-AAGCGCGAAAATTCGTGAAACATGAGAA
1 TTTTTTGAAAACAC-AATTTTTTTGAAAACACGAAAATTCGTGAAACATGAGAA
* ** ** *
47425588 -TTGTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAACATGAAAA
1 TTTTTTGAAAACAC-AATTTTTTTGAAAACACGAAAATTCGTGAAACATGAGAA
47425641 TTTTTTGAAAACACAATTTTTTT
1 TTTTTTGAAAACACAATTTTTTT
47425664 TTTTGATCAT
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
51 10 0.16
52 9 0.15
53 30 0.49
54 12 0.20
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (53 bp):
TTTTTTGAAAACACAATTTTTTTGAAAACACGAAAATTCGTGAAACATGAGAA
Found at i:47425614 original size:35 final size:34
Alignment explanation
Indices: 47425432--47425650 Score: 120
Period size: 35 Copynumber: 6.3 Consensus size: 34
47425422 TTTTATTTTT
* * * *
47425432 ATTTTT-AAACAAGAAAAATTTTTAAAACACGAGA
1 ATTTTTGAAACACG-AAAATTGTTGAAACACGAAA
* * * *
47425466 ATTTTAGAGACACGAAAATTCTTAAAACACGAAA
1 ATTTTTGAAACACGAAAATTGTTGAAACACGAAA
* * * *
47425500 ATTTTTGAGAACACGACAATT-TTAAAATACGCGAAT
1 ATTTTTGA-AACACGAAAATTGTT-GAA-ACACGAAA
* * ** * * *
47425536 TTTTTTGAAA-ACCTAATTTTTTTGAAGCGCGAAA
1 ATTTTTGAAACA-CGAAAATTGTTGAAACACGAAA
** * *
47425570 ATTCGTGAAACATGAGAATTGTTGAAAACACGAAA
1 ATTTTTGAAACACGAAAATTGTTG-AAACACGAAA
* *
47425605 ATTTTTGAAAACACGAAAATTTTTGAAACATGAAA
1 ATTTTTG-AAACACGAAAATTGTTGAAACACGAAA
47425640 ATTTTTTGAAA
1 A-TTTTTGAAA
47425651 ACACAATTTT
Statistics
Matches: 140, Mismatches: 35, Indels: 19
0.72 0.18 0.10
Matches are distributed among these distances:
34 52 0.37
35 53 0.38
36 35 0.25
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (34 bp):
ATTTTTGAAACACGAAAATTGTTGAAACACGAAA
Found at i:47425661 original size:17 final size:18
Alignment explanation
Indices: 47425446--47425968 Score: 165
Period size: 17 Copynumber: 28.7 Consensus size: 18
47425436 TTAAACAAGA
47425446 AAAATTTTT-AAAACACG
1 AAAATTTTTGAAAACACG
* * *
47425463 AGAATTTTAG-AGACACG
1 AAAATTTTTGAAAACACG
*
47425480 AAAATTCTT-AAAACACG
1 AAAATTTTTGAAAACACG
*
47425497 AAAATTTTTGAGAACACG
1 AAAATTTTTGAAAACACG
* * *
47425515 ACAA-TTTTAAAATACGCG
1 AAAATTTTTGAAA-ACACG
** *
47425533 AATTTTTTTGAAAAC-CT
1 AAAATTTTTGAAAACACG
** * *
47425550 AATTTTTTTG-AAGCGCG
1 AAAATTTTTGAAAACACG
** *
47425567 AAAATTCGTG-AAACATG
1 AAAATTTTTGAAAACACG
* *
47425584 AGAATTGTTGAAAACACG
1 AAAATTTTTGAAAACACG
47425602 AAAATTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
*
47425620 AAAATTTTTG-AAACATG
1 AAAATTTTTGAAAACACG
47425637 AAAATTTTTTGAAAACAC-
1 AAAA-TTTTTGAAAACACG
** *** * *
47425655 AATTTTTTTTTTTGATCATG
1 AA--AATTTTTGAAAACACG
* **
47425675 GAAATTTTTGAAAACGTG
1 AAAATTTTTGAAAACACG
47425693 AAAATTTTTG-AAACACG
1 AAAATTTTTGAAAACACG
* *
47425710 AAAGTTTTTTTTTAAAAAGAACACG
1 AAA----ATTTTT--GAA-AACACG
*
47425735 AAAATTTTTTTTTGAACACGA-G
1 AAAA----TTTTTGAAAAC-ACG
*
47425757 AAAATTTTTTGAAAACATG
1 AAAA-TTTTTGAAAACACG
*
47425776 AAAAATTTTG-AAACACCG
1 AAAATTTTTGAAAACA-CG
*
47425794 -AAA-TCTTGAAAACACG
1 AAAATTTTTGAAAACACG
* *
47425810 AAGATTTTTGGAAACA--
1 AAAATTTTTGAAAACACG
** * *
47425826 ATTATTATTTAAAAAAAAAACG
1 AAAATT-TTT---GAAAACACG
*
47425848 AAAATTTATG-AAACAC-
1 AAAATTTTTGAAAACACG
* *
47425864 AAGATTTTTTAAAAAAAAACAC-
1 AA-AATTTTT----GAAAACACG
* *
47425886 AAAAATTTTCAAAACACTG
1 AAAATTTTTGAAAACAC-G
47425905 -AAA-TTTTGAAAACACG
1 AAAATTTTTGAAAACACG
**
47425921 AGGATTTTT-AAAACACG
1 AAAATTTTTGAAAACACG
*
47425938 CAAAA-TTTTGGAAACACG
1 -AAAATTTTTGAAAACACG
47425956 AAAATTTTTGAAA
1 AAAATTTTTGAAA
47425969 TACGAAATTA
Statistics
Matches: 369, Mismatches: 88, Indels: 97
0.67 0.16 0.18
Matches are distributed among these distances:
16 16 0.04
17 149 0.40
18 114 0.31
19 36 0.10
20 5 0.01
21 12 0.03
22 19 0.05
23 3 0.01
24 1 0.00
25 14 0.04
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (18 bp):
AAAATTTTTGAAAACACG
Found at i:47425784 original size:19 final size:19
Alignment explanation
Indices: 47425743--47425788 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
47425733 CGAAAATTTT
* *
47425743 TTTTTGAACACGAGAAAAT
1 TTTTTGAAAACGAGAAAAA
47425762 TTTTTGAAAAC-ATGAAAAA
1 TTTTTGAAAACGA-GAAAAA
47425781 -TTTTGAAA
1 TTTTTGAAA
47425789 CACCGAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.35
Consensus pattern (19 bp):
TTTTTGAAAACGAGAAAAA
Found at i:47425894 original size:22 final size:22
Alignment explanation
Indices: 47425858--47425899 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
47425848 AAAATTTATG
* * *
47425858 AAACACAAGATTTTTTAAAAAA
1 AAACACAAAAATTTTCAAAAAA
47425880 AAACACAAAAATTTTCAAAA
1 AAACACAAAAATTTTCAAAA
47425900 CACTGAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.24
Consensus pattern (22 bp):
AAACACAAAAATTTTCAAAAAA
Found at i:47425963 original size:35 final size:34
Alignment explanation
Indices: 47425879--47425977 Score: 103
Period size: 35 Copynumber: 2.9 Consensus size: 34
47425869 TTTTTAAAAA
* *
47425879 AAAACACAAAAATTTTCAAAACACTGAAATTTTG
1 AAAACACGAAAATTTTTAAAACACTGAAATTTTG
**
47425913 AAAACACGAGGATTTTTAAAACAC-GCAAAATTTTG
1 AAAACACGAAAATTTTTAAAACACTG--AAATTTTG
* * *
47425948 GAAACACGAAAATTTTTGAAATAC-GAAATT
1 AAAACACGAAAATTTTTAAAACACTGAAATT
47425978 ATTTTTTTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
33 6 0.11
34 20 0.37
35 28 0.52
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.26
Consensus pattern (34 bp):
AAAACACGAAAATTTTTAAAACACTGAAATTTTG
Found at i:47425982 original size:18 final size:19
Alignment explanation
Indices: 47425931--47425982 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
47425921 AGGATTTTTA
*
47425931 AAACACGCAAA-ATTTTGG
1 AAACACGAAAATATTTTGG
47425949 AAACACGAAAAT-TTTT-G
1 AAACACGAAAATATTTTGG
* *
47425966 AAATACGAAATTATTTT
1 AAACACGAAAATATTTT
47425983 TTTAAAACGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (19 bp):
AAACACGAAAATATTTTGG
Found at i:47426016 original size:19 final size:18
Alignment explanation
Indices: 47425925--47426016 Score: 53
Period size: 17 Copynumber: 4.9 Consensus size: 18
47425915 AACACGAGGA
* *
47425925 TTTTTAAAACACGCAAA-A
1 TTTTTGAAACACG-AAATT
* *
47425943 TTTTGGAAACACGAAA-A
1 TTTTTGAAACACGAAATT
*
47425960 TTTTTGAAATACGAAATTATT
1 TTTTTGAAACACG-AA--ATT
* *
47425981 TTTTTAAAACGCGGAAATT
1 TTTTTGAAACAC-GAAATT
47426000 TCTTTTGAAACACGAAA
1 T-TTTTGAAACACGAAA
47426017 ACTCTTGAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
17 15 0.26
18 13 0.22
19 8 0.14
20 10 0.17
21 11 0.19
22 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (18 bp):
TTTTTGAAACACGAAATT
Found at i:47426610 original size:8 final size:8
Alignment explanation
Indices: 47426586--47426663 Score: 86
Period size: 8 Copynumber: 9.2 Consensus size: 8
47426576 ATTGAACCCC
47426586 CTTTTTCTT
1 CTTTTT-TT
*
47426595 CCTTTTTT
1 CTTTTTTT
47426603 CTTTTTTT
1 CTTTTTTT
47426611 C-TTTTTT
1 CTTTTTTT
47426618 CTTTTTTT
1 CTTTTTTT
*
47426626 CTTTTTTC
1 CTTTTTTT
47426634 CTTTTTTCTT
1 C-TTTTT-TT
47426644 CTTTTTCTT
1 CTTTTT-TT
47426653 CCTTTTTTT
1 -CTTTTTTT
47426662 CT
1 CT
47426664 GCTGGGCTGC
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
7 7 0.11
8 26 0.43
9 20 0.33
10 8 0.13
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
CTTTTTTT
Found at i:47426616 original size:15 final size:15
Alignment explanation
Indices: 47426586--47426648 Score: 90
Period size: 15 Copynumber: 4.0 Consensus size: 15
47426576 ATTGAACCCC
47426586 CTTTTTCTTCCTTTTTT
1 CTTTTT-TT-CTTTTTT
47426603 CTTTTTTTCTTTTTT
1 CTTTTTTTCTTTTTT
47426618 CTTTTTTTCTTTTTT
1 CTTTTTTTCTTTTTT
*
47426633 CCTTTTTTCTTCTTTT
1 CTTTTTTTCTT-TTTT
47426649 TCTTCCTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
15 32 0.73
16 6 0.14
17 6 0.14
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
CTTTTTTTCTTTTTT
Found at i:47426627 original size:23 final size:23
Alignment explanation
Indices: 47426588--47426652 Score: 94
Period size: 23 Copynumber: 2.7 Consensus size: 23
47426578 TGAACCCCCT
* *
47426588 TTTTCTTCCTTTTTTCTTTTTTTC
1 TTTT-TTCTTTTTTTCTTTTTTCC
47426612 TTTTTTCTTTTTTTCTTTTTTCC
1 TTTTTTCTTTTTTTCTTTTTTCC
47426635 TTTTTTCTTCTTTTTCTT
1 TTTTTTCTT-TTTTTCTT
47426653 CCTTTTTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 26 0.68
24 12 0.32
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTTCTTTTTTTCTTTTTTCC
Found at i:47426948 original size:3 final size:3
Alignment explanation
Indices: 47426942--47427003 Score: 79
Period size: 3 Copynumber: 19.0 Consensus size: 3
47426932 TTTCTTTTTT
47426942 TTC TTC TTTC TTC TTC TCTC TTTC TTTC TTC TTC TTC TTC TTC TTCC
1 TTC TTC -TTC TTC TTC T-TC -TTC -TTC TTC TTC TTC TTC TTC TT-C
47426989 TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC
47427004 AAAACCGAGC
Statistics
Matches: 55, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 40 0.73
4 14 0.25
5 1 0.02
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:47426970 original size:22 final size:19
Alignment explanation
Indices: 47426942--47427003 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
47426932 TTTCTTTTTT
47426942 TTCTTCTTTCTTCTTC-TC
1 TTCTTCTTTCTTCTTCTTC
47426960 -TCTTTCTTTCTTCTTCTTC
1 TTC-TTCTTTCTTCTTCTTC
*
47426979 TTCTTCTTCCTTCTTCTTC
1 TTCTTCTTTCTTCTTCTTC
47426998 TTCTTC
1 TTCTTC
47427004 AAAACCGAGC
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
17 2 0.05
18 13 0.32
19 23 0.57
20 2 0.05
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (19 bp):
TTCTTCTTTCTTCTTCTTC
Found at i:47427396 original size:29 final size:29
Alignment explanation
Indices: 47427363--47427479 Score: 103
Period size: 30 Copynumber: 3.9 Consensus size: 29
47427353 TGTAATTTTT
*
47427363 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* *
47427392 TGAAAGTTTAGGGGTCT-AAATGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
47427422 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
47427451 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
47427480 TTATTTTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
29 14 0.19
30 58 0.78
31 2 0.03
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:47427415 original size:30 final size:30
Alignment explanation
Indices: 47427378--47427479 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
47427368 ATTTAGGATT
*
47427378 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
47427408 TAAATGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
47427438 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
47427468 AAAATGCAATTT
1 AAAATGAAATTT
47427480 TTATTTTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
29 2 0.03
30 62 0.97
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:47427458 original size:60 final size:59
Alignment explanation
Indices: 47427344--47427479 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 59
47427334 CAAAACTTCT
* ** * *
47427344 GGGG-CTAAATGTAATTTTTAGAAAATTTAGGATTAAAATGAAATTTAATGAAAGTTTA
1 GGGGTCTAAATGAAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTA
* *
47427402 GGGGTCTAAATGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTA
1 GGGGTCTAAATGAAATTTAAAGAAAATTT-AGGATCAAAATGAAATTTAAGG-AAAGTTTA
* *
47427462 GGGGTCAAAATGCAATTT
1 GGGGTCTAAATGAAATTT
47427480 TTATTTTTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 4 0.06
59 22 0.33
60 40 0.61
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.32
Consensus pattern (59 bp):
GGGGTCTAAATGAAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTA
Found at i:47427927 original size:22 final size:22
Alignment explanation
Indices: 47427882--47427943 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
47427872 TTGTACGGGA
* *
47427882 TTGCGCTTTGGTGCCTC--TAT
1 TTGCACTTCGGTGCCTCTGTAT
47427902 TTGCACTTCGGTGCCTCTGTAT
1 TTGCACTTCGGTGCCTCTGTAT
*
47427924 TTGCACTACGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
47427944 TAGCATTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 15 0.41
22 22 0.59
ACGTcount: A:0.08, C:0.27, G:0.24, T:0.40
Consensus pattern (22 bp):
TTGCACTTCGGTGCCTCTGTAT
Found at i:47429062 original size:27 final size:28
Alignment explanation
Indices: 47429032--47429085 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
47429022 TGAAATTCAT
*
47429032 ACTTTAATTA-TAAAATAATT-AATTTTC
1 ACTTAAATTATTAAAAT-ATTGAATTTTC
47429059 ACTTAAATTATTAAAATATTGAATTTT
1 ACTTAAATTATTAAAATATTGAATTTT
47429086 AATCATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (28 bp):
ACTTAAATTATTAAAATATTGAATTTTC
Found at i:47445038 original size:21 final size:20
Alignment explanation
Indices: 47445013--47445052 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
47445003 CTAGGGTTTG
47445013 TTTTTCATTTTGATTGATTTT
1 TTTTTCATTTTGA-TGATTTT
**
47445034 TTTTTGTTTTTGATGATTT
1 TTTTTCATTTTGATGATTT
47445053 GTCCAAGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.03, G:0.12, T:0.72
Consensus pattern (20 bp):
TTTTTCATTTTGATGATTTT
Found at i:47447741 original size:13 final size:12
Alignment explanation
Indices: 47447721--47447754 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
47447711 GACAAGATAT
47447721 TCTTTAAATTAC
1 TCTTTAAATTAC
*
47447733 TCTTTTAAATTAT
1 TC-TTTAAATTAC
47447746 TCTTTAAAT
1 TCTTTAAAT
47447755 AACATAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (12 bp):
TCTTTAAATTAC
Found at i:47447751 original size:12 final size:12
Alignment explanation
Indices: 47447718--47447754 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
47447708 TGAGACAAGA
47447718 TATTCTTTAAAT
1 TATTCTTTAAAT
*
47447730 TACTCTTTTAAAT
1 TATTC-TTTAAAT
47447743 TATTCTTTAAAT
1 TATTCTTTAAAT
47447755 AACATAGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:47448224 original size:16 final size:16
Alignment explanation
Indices: 47448203--47448274 Score: 81
Period size: 16 Copynumber: 4.5 Consensus size: 16
47448193 AATTAAATTG
*
47448203 CTATTATAGTTCTATT
1 CTATTACAGTTCTATT
**
47448219 CTATTACAACTCTATT
1 CTATTACAGTTCTATT
*
47448235 CCATTACAGTTCTATT
1 CTATTACAGTTCTATT
**
47448251 CTATTACAGCCCTATT
1 CTATTACAGTTCTATT
*
47448267 CCATTACA
1 CTATTACA
47448275 TTGAACCAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.04, T:0.43
Consensus pattern (16 bp):
CTATTACAGTTCTATT
Found at i:47448251 original size:32 final size:32
Alignment explanation
Indices: 47448205--47448274 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
47448195 TTAAATTGCT
* *
47448205 ATTATAGTTCTATTCTATTACAACTCTATTCC
1 ATTACAGTTCTATTCTATTACAACCCTATTCC
*
47448237 ATTACAGTTCTATTCTATTACAGCCCTATTCC
1 ATTACAGTTCTATTCTATTACAACCCTATTCC
47448269 ATTACA
1 ATTACA
47448275 TTGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.29, C:0.24, G:0.04, T:0.43
Consensus pattern (32 bp):
ATTACAGTTCTATTCTATTACAACCCTATTCC
Found at i:47452072 original size:44 final size:41
Alignment explanation
Indices: 47451934--47452091 Score: 140
Period size: 42 Copynumber: 3.7 Consensus size: 41
47451924 TACAACGCTA
* * * *
47451934 ACGTCCCAGACGTAGTC-TACATGTAATCAAATATCGATGCC-
1 ACGTCCCAGACATGGTCTTACACGAAATC-AA-ATCGATGCCG
* * *
47451975 ACTGTCCCAGACAGGGTCTTACATGAAATCAAATACGATGCTG
1 AC-GTCCCAGACATGGTCTTACACGAAATCAAAT-CGATGCCG
* * *
47452018 ATGTCTCAGACATGGTCTTATACGTAAACCTCAAATCGATGCCG
1 ACGTCCCAGACATGGTCTTACACG-AAA--TCAAATCGATGCCG
*
47452062 ACGTCCCAGACGTGGTCTTACACGAAATCA
1 ACGTCCCAGACATGGTCTTACACGAAATCA
47452092 CATATCGAAA
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
41 7 0.07
42 38 0.40
43 17 0.18
44 27 0.28
45 6 0.06
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (41 bp):
ACGTCCCAGACATGGTCTTACACGAAATCAAATCGATGCCG
Found at i:47461111 original size:14 final size:14
Alignment explanation
Indices: 47461075--47461113 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
47461065 TTGTTTCACT
*
47461075 GAAAATGACTTCCA
1 GAAAATGATTTCCA
**
47461089 GAAAATGATTTCTG
1 GAAAATGATTTCCA
47461103 GAAAATGATTT
1 GAAAATGATTT
47461114 AATTTTCTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCA
Found at i:47461491 original size:86 final size:88
Alignment explanation
Indices: 47461377--47461550 Score: 298
Period size: 87 Copynumber: 2.0 Consensus size: 88
47461367 CACATGACTA
47461377 CTAAGTGAGTATTTTTTTATTTAAAAATATGACATCAACAAAATTGAC-AAAAAAAACGATGTCA
1 CTAAGTGAGTATTTTTTTATTTAAAAATATGACATCAACAAAATTGACAAAAAAAAACGATGTCA
47461441 ACAATCAGACTTAATTTTCAAAT
66 ACAATCAGACTTAATTTTCAAAT
*
47461464 CTAAGTGAGTA-TTTTTTATTTAAAAATATGATATCAACAAAATTGACAAAAAAAAACGATGTCA
1 CTAAGTGAGTATTTTTTTATTTAAAAATATGACATCAACAAAATTGACAAAAAAAAACGATGTCA
** *
47461528 ACAATTGGACTTAATTTTTAAAT
66 ACAATCAGACTTAATTTTCAAAT
47461551 TTGAAAAGTA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
86 35 0.43
87 47 0.57
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (88 bp):
CTAAGTGAGTATTTTTTTATTTAAAAATATGACATCAACAAAATTGACAAAAAAAAACGATGTCA
ACAATCAGACTTAATTTTCAAAT
Found at i:47461681 original size:15 final size:15
Alignment explanation
Indices: 47461661--47461712 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
47461651 ACTACAAAAC
47461661 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
47461676 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
47461695 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
47461710 ATT
1 ATT
47461713 AATATTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:47461833 original size:22 final size:22
Alignment explanation
Indices: 47461793--47461848 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
47461783 AATAAAATTG
*
47461793 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
47461813 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
47461835 TATTAATAATTTAT
1 AAATAATAAATTAT
47461849 TATAGGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:47462994 original size:21 final size:21
Alignment explanation
Indices: 47462946--47462995 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
47462936 TTGACATCCA
47462946 TATCGATA-TTGAAGCCTAGG
1 TATCGATACTTGAAGCCTAGG
*
47462966 TA-CTGATACTT-AGGCCTAAGG
1 TATC-GATACTTGAAGCCT-AGG
47462987 TATCGATAC
1 TATCGATAC
47462996 CTTCATCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 1 0.04
20 11 0.44
21 12 0.48
22 1 0.04
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (21 bp):
TATCGATACTTGAAGCCTAGG
Found at i:47464277 original size:29 final size:30
Alignment explanation
Indices: 47464230--47464286 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 30
47464220 CCCACGCCGT
*
47464230 TTTTCTTTTTGCTCTAATC-CT-GTCTCTA
1 TTTTCTTTTTGCTCCAATCTCTAGTCTCTA
*
47464258 TTTTCTTTTTGTTACCAATCTCTAGTCTC
1 TTTTCTTTTTGCT-CCAATCTCTAGTCTC
47464287 CACTGTCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 12 0.50
29 5 0.21
30 2 0.08
31 5 0.21
ACGTcount: A:0.12, C:0.25, G:0.07, T:0.56
Consensus pattern (30 bp):
TTTTCTTTTTGCTCCAATCTCTAGTCTCTA
Found at i:47466618 original size:26 final size:26
Alignment explanation
Indices: 47466589--47466696 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
47466579 TGGTACAAAT
*
47466589 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
47466615 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
47466641 TGATAATGGGTTAGGTAAATGTTTCG
1 TGATAATGGGTTAGGTAAATGTTCCA
47466667 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47466693 TGAT
1 TGAT
47466697 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:47467566 original size:42 final size:42
Alignment explanation
Indices: 47467518--47467599 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
47467508 TGGATAGAAT
47467518 ATATATGAGTCTATTTTCAGGGAAAATTAACGGCACTTGAAG
1 ATATATGAGTCTATTTTCAGGGAAAATTAACGGCACTTGAAG
47467560 ATATATGAGTCTATTTTCAGGGAAAATTAACGGCACTTGA
1 ATATATGAGTCTATTTTCAGGGAAAATTAACGGCACTTGA
47467600 TTTGGAGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (42 bp):
ATATATGAGTCTATTTTCAGGGAAAATTAACGGCACTTGAAG
Found at i:47468251 original size:26 final size:26
Alignment explanation
Indices: 47468222--47468274 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
47468212 TTTACAGTTT
47468222 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
47468248 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
47468274 T
1 T
47468275 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:47481787 original size:22 final size:21
Alignment explanation
Indices: 47481746--47481789 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
47481736 TAAAACCATA
*
47481746 CAGGCGTGTGCGATTCTGGGC
1 CAGGCGTGTGCAATTCTGGGC
47481767 CAGGCCGTGTGCCAATT-TGGGC
1 CAGG-CGTGTG-CAATTCTGGGC
47481789 C
1 C
47481790 GTATGGGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.11, C:0.27, G:0.39, T:0.23
Consensus pattern (21 bp):
CAGGCGTGTGCAATTCTGGGC
Found at i:47484598 original size:43 final size:44
Alignment explanation
Indices: 47484503--47484665 Score: 156
Period size: 43 Copynumber: 3.8 Consensus size: 44
47484493 ACTAAGATGT
* * * * *
47484503 GATTACATGTAAGACCATTTCTGGGACATT-GCTAT-TTTATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGC-ATCGTTAATGC
47484546 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATGC
* * * * *
47484589 GATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCGAT-ATGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATGC
* * * *
47484632 GATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAT
47484666 TGTATGAGCT
Statistics
Matches: 101, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 8 0.08
43 87 0.86
44 6 0.06
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (44 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATGC
Found at i:47486649 original size:20 final size:20
Alignment explanation
Indices: 47486626--47486715 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
47486616 CAAGGGTAAT
* **
47486626 GTATCGATACTTTGAATAAA
1 GTATAGATACTTTGAGCAAA
* * *
47486646 GTATAAATAAC-TAGACCAAA
1 GTATAGAT-ACTTTGAGCAAA
*
47486666 GTATAGATACTTTTAGCAAA
1 GTATAGATACTTTGAGCAAA
*
47486686 GTATAGATACTTTGAGTAAA
1 GTATAGATACTTTGAGCAAA
* *
47486706 CTATCGATAC
1 GTATAGATAC
47486716 CTTGGATATT
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
19 2 0.04
20 51 0.93
21 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (20 bp):
GTATAGATACTTTGAGCAAA
Found at i:47489027 original size:32 final size:33
Alignment explanation
Indices: 47488991--47489054 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
47488981 ACACAATCTT
*
47488991 TTTTATTTATT-AAGG-CT-TAATATTTTGATTTA
1 TTTTA-TTATTCAAGGACTGTAATACTTT-ATTTA
47489023 TTTTATTATTCAAGGACTGTAATACTTTATTT
1 TTTTATTATTCAAGGACTGTAATACTTTATTT
47489055 TTAAACTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 5 0.18
32 9 0.32
33 6 0.21
34 8 0.29
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.56
Consensus pattern (33 bp):
TTTTATTATTCAAGGACTGTAATACTTTATTTA
Found at i:47507841 original size:39 final size:41
Alignment explanation
Indices: 47507772--47507850 Score: 94
Period size: 39 Copynumber: 2.0 Consensus size: 41
47507762 TCCTTCTTTT
47507772 CTTTCCCTTTTTCTTCTTACTTTCTCTTC-TTGTTTCATTC
1 CTTTCCCTTTTTCTTCTTACTTTCTCTTCTTTGTTTCATTC
* *
47507812 CTTT-CCTTTTTCTT-TTTCTTT-TCAATTCTTTTTTTCATT
1 CTTTCCCTTTTTCTTCTTACTTTCTC--TTCTTTGTTTCATT
47507851 TATTCTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
37 2 0.06
38 6 0.18
39 13 0.38
40 13 0.38
ACGTcount: A:0.06, C:0.25, G:0.01, T:0.67
Consensus pattern (41 bp):
CTTTCCCTTTTTCTTCTTACTTTCTCTTCTTTGTTTCATTC
Found at i:47514752 original size:25 final size:25
Alignment explanation
Indices: 47514686--47514752 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
47514676 TCTTTGTGAA
* ** *
47514686 CTTCCTGATT-ATGACTCTTATGAG
1 CTTCCTGATTAATGGCTCGGATAAG
*
47514710 CTTCCTG-TTATATAGCTCGGATAAG
1 CTTCCTGATTA-ATGGCTCGGATAAG
47514735 CTTCCTGATTAATGGCTC
1 CTTCCTGATTAATGGCTC
47514753 TTTGTGAGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 2 0.06
24 7 0.21
25 22 0.65
26 3 0.09
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (25 bp):
CTTCCTGATTAATGGCTCGGATAAG
Found at i:47514766 original size:26 final size:26
Alignment explanation
Indices: 47514632--47514777 Score: 81
Period size: 26 Copynumber: 5.8 Consensus size: 26
47514622 TGGCTATCCG
* **
47514632 GAGC-TCCTGATTAAAGGCTCTTCAT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* * ****
47514657 AAGCTTTCTGATTAAAATTTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* * *
47514683 GAACTTCCTGATT-ATGACTC-TTAT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* *
47514707 GAGCTTCCTG-TTATATAGCTC--GGAT
1 GAGCTTCCTGATTA-ATGGCTCTTTG-T
*
47514732 AAGCTTCCTGATTAATGGCTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
47514758 GAGCTTCCTG-TTATATGGCT
1 GAGCTTCCTGATTA-ATGGCT
47514778 TGAGAGAGGA
Statistics
Matches: 89, Mismatches: 24, Indels: 15
0.70 0.19 0.12
Matches are distributed among these distances:
23 2 0.02
24 12 0.13
25 30 0.34
26 44 0.49
27 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.40
Consensus pattern (26 bp):
GAGCTTCCTGATTAATGGCTCTTTGT
Found at i:47523164 original size:29 final size:29
Alignment explanation
Indices: 47523117--47523173 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
47523107 TTATAATTGG
*
47523117 AATTGACAACTTAAAAATGAAATGAAATT
1 AATTGACAACTAAAAAATGAAATGAAATT
*
47523146 AATTGACAA-TAAAATAATGTAATGAAAT
1 AATTGACAACTAAAA-AATGAAATGAAAT
47523174 AAGTTATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.56, C:0.05, G:0.11, T:0.28
Consensus pattern (29 bp):
AATTGACAACTAAAAAATGAAATGAAATT
Found at i:47531697 original size:55 final size:53
Alignment explanation
Indices: 47531630--47531769 Score: 163
Period size: 53 Copynumber: 2.6 Consensus size: 53
47531620 GCAAGGAAAT
* *
47531630 CATGTAAGACCATGTCAAGACATGGCATTGATAGACTACTATAAGGCAAAGATCC
1 CATGTAAGACCATGTCAAGACATGGCAATGAT-GACTAC-ATAAGGCAAAGATAC
* * * * * *
47531685 CATGTAAGACCATGCCAAGTCATGGCAATGGTGAGTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCAATGATGACTACATAAGGCAAAGATAC
* * *
47531738 CACGTAAGACCATGTAAAGACATGGAAATGAT
1 CATGTAAGACCATGTCAAGACATGGCAATGAT
47531770 AATTTTAAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 39 0.55
54 4 0.06
55 28 0.39
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCAATGATGACTACATAAGGCAAAGATAC
Found at i:47537579 original size:54 final size:54
Alignment explanation
Indices: 47537495--47537687 Score: 208
Period size: 55 Copynumber: 3.6 Consensus size: 54
47537485 TAGGGTTTAC
* * * *
47537495 GGATACCAAGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTACAAGACAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGACAA
* * * *
47537549 GGATATCATGTAAGACCATGTCAAAACATGGCATTGATAAACTACTATAAGACAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCATTGAT-AAGTTCTATAAGACAA
* * * * * * * *
47537604 AGATCCCATGTAAGACCATGTCAAGTCATAGCAATGGTGAGTTC-ATAAGGCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGACAA
* *
47537657 GGATGCCACGTAAGACCATGTCAAGACATGG
1 GGATACCATGTAAGACCATGTCAAGACATGG
47537688 AAATGGTAAG
Statistics
Matches: 113, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 34 0.30
54 36 0.32
55 43 0.38
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (54 bp):
GGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGACAA
Found at i:47537676 original size:53 final size:53
Alignment explanation
Indices: 47537595--47537699 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
47537585 ATAAACTACT
* * * *
47537595 ATAAGACAAAGATCCCATGTAAGACCATGTCAAGTCATAGCAATGGTGAGTTC
1 ATAAGACAAAGATCCCACGTAAGACCATGTCAAGACATAGAAATGGTAAGTTC
* * * *
47537648 ATAAGGCAAGGATGCCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 ATAAGACAAAGATCCCACGTAAGACCATGTCAAGACATAGAAATGGTAAGTT
47537700 TAAAAAGGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
ATAAGACAAAGATCCCACGTAAGACCATGTCAAGACATAGAAATGGTAAGTTC
Found at i:47542329 original size:43 final size:43
Alignment explanation
Indices: 47542257--47542533 Score: 227
Period size: 43 Copynumber: 6.4 Consensus size: 43
47542247 GTAGGTTATA
** * * * *
47542257 CTTCGGTTTATCCAATGATGAACTTTGTGTGCCAATATAGATT
1 CTTCGGTTTATCTGATGATGCACTGTGTGTGCCAGTATAGATG
* *
47542300 CTTCAGTTTATCTGATGATGCACTGTGTGTGCCAGTA-ACTATG
1 CTTCGGTTTATCTGATGATGCACTGTGTGTGCCAGTATA-GATG
* * * *
47542343 CTTTGGTTTAATC-GATGACGCAATGTGTGTGCCAGTATAGTTG
1 CTTCGGTTT-ATCTGATGATGCACTGTGTGTGCCAGTATAGATG
* * * * * *
47542386 CTTTGATTTATCAGATGATGCA-TAGTGTGTACCAATACAGATG
1 CTTCGGTTTATCTGATGATGCACT-GTGTGTGCCAGTATAGATG
** * * *
47542429 CTTCAATTTATTTGATGATACACTATGTGTGCCAGTATAGATG
1 CTTCGGTTTATCTGATGATGCACTGTGTGTGCCAGTATAGATG
* * * *
47542472 CTTCGGTTTATCTGATGATGCATTATGTGTTCCAGTATATATG
1 CTTCGGTTTATCTGATGATGCACTGTGTGTGCCAGTATAGATG
* ** *
47542515 ATTTAGTTTATCCGATGAT
1 CTTCGGTTTATCTGATGAT
47542534 AAATTGTATA
Statistics
Matches: 188, Mismatches: 40, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
42 5 0.03
43 178 0.95
44 5 0.03
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (43 bp):
CTTCGGTTTATCTGATGATGCACTGTGTGTGCCAGTATAGATG
Found at i:47542525 original size:129 final size:129
Alignment explanation
Indices: 47542282--47542533 Score: 305
Period size: 129 Copynumber: 2.0 Consensus size: 129
47542272 TGATGAACTT
* * * * * * * *
47542282 TGTGTGCCAATATAGATTCTTCAGTTTATCTGATGATGCACTGTGTGTGCCAGTAACTATGCTTT
1 TGTGTACCAATACAGATGCTTCAATTTATCTGATGATACACTATGTGTGCCAGTAACGATGCTTC
* *
47542347 GGTTTAATCGATGACGCAATGTGTGTGCCAGTATAGTTGCTTTGATTTATCAGATGATGCATAG
66 GGTTTAATCGATGACGCAATATGTGTGCCAGTATAGTTGATTTGATTTATCAGATGATGCATAG
*
47542411 TGTGTACCAATACAGATGCTTCAATTTATTTGATGATACACTATGTGTGCCAGTATA-GATGCTT
1 TGTGTACCAATACAGATGCTTCAATTTATCTGATGATACACTATGTGTGCCAGTA-ACGATGCTT
* * * *
47542475 CGGTTT-ATCTGATGATGCATTATGTGTTCCAGTATA-TATGATTT-AGTTTATCCGATGAT
65 CGGTTTAATC-GATGACGCAATATGTGTGCCAGTATAGT-TGATTTGA-TTTATCAGATGAT
47542534 AAATTGTATA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
128 5 0.05
129 98 0.94
130 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (129 bp):
TGTGTACCAATACAGATGCTTCAATTTATCTGATGATACACTATGTGTGCCAGTAACGATGCTTC
GGTTTAATCGATGACGCAATATGTGTGCCAGTATAGTTGATTTGATTTATCAGATGATGCATAG
Found at i:47553198 original size:26 final size:26
Alignment explanation
Indices: 47553163--47553219 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
47553153 ATTCATGCCA
47553163 ACATG-CATAGTATAATTTCCATATC
1 ACATGTCATAGTATAATTTCCATATC
*
47553188 ACATGTCATAGTATAATTTCCCTATC
1 ACATGTCATAGTATAATTTCCATATC
47553214 ACATGT
1 ACATGT
47553220 ACTCAATCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (26 bp):
ACATGTCATAGTATAATTTCCATATC
Found at i:47553556 original size:59 final size:59
Alignment explanation
Indices: 47553482--47553615 Score: 232
Period size: 59 Copynumber: 2.3 Consensus size: 59
47553472 GTCAGGATTA
*
47553482 CCAGTCAAGGCTAAATCTCTTTCAACGACAATTGCTATCATAAACTTGGATCTGAATTG
1 CCAGTCTAGGCTAAATCTCTTTCAACGACAATTGCTATCATAAACTTGGATCTGAATTG
* *
47553541 CTAGTCTAGGCTAAATCTCTTTCAACGACAATTGCTTTCATAAACTTGGATCTGAATTG
1 CCAGTCTAGGCTAAATCTCTTTCAACGACAATTGCTATCATAAACTTGGATCTGAATTG
*
47553600 CCAGTCTAAGCTAAAT
1 CCAGTCTAGGCTAAAT
47553616 TTAGTCCTCA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 70 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (59 bp):
CCAGTCTAGGCTAAATCTCTTTCAACGACAATTGCTATCATAAACTTGGATCTGAATTG
Found at i:47555254 original size:41 final size:40
Alignment explanation
Indices: 47555128--47555244 Score: 110
Period size: 41 Copynumber: 2.9 Consensus size: 40
47555118 CGTTAGCAGT
* * * * *
47555128 GTTTTTGCATAAACACTGCAAAAGGTTAAAACGATAGCGAT
1 GTTTTTGCATAAACGCCGCAAAAGGTTAAAACAATAGAG-C
* * * * *
47555169 GTTTTTCCCATAAACGCCTCTAAAGG-TAAAGCAAAAGCAGC
1 GTTTTT-GCATAAACGCCGCAAAAGGTTAAAACAATAG-AGC
47555210 GTTTTTGCATAAACGCCGCAAAAGGTTAAAACAAT
1 GTTTTTGCATAAACGCCGCAAAAGGTTAAAACAAT
47555245 TGTTGCGTTT
Statistics
Matches: 58, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
40 16 0.28
41 27 0.47
42 15 0.26
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (40 bp):
GTTTTTGCATAAACGCCGCAAAAGGTTAAAACAATAGAGC
Found at i:47558268 original size:12 final size:12
Alignment explanation
Indices: 47558251--47558277 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47558241 AACCAGTTCT
47558251 AAACTAGTATTA
1 AAACTAGTATTA
47558263 AAACTAGTATTA
1 AAACTAGTATTA
47558275 AAA
1 AAA
47558278 TCGAAAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (12 bp):
AAACTAGTATTA
Found at i:47558354 original size:28 final size:30
Alignment explanation
Indices: 47558323--47558431 Score: 80
Period size: 28 Copynumber: 4.0 Consensus size: 30
47558313 TAATAATTTT
* *
47558323 TTAAATTAATTAATTAATTA-ATTT-TTAA
1 TTAAATTAATTAAATAATTATATTTCATAA
*
47558351 TTAAA-TAAATAAATAATTATATTTCATAA
1 TTAAATTAATTAAATAATTATATTTCATAA
*
47558380 -T-AATTAATTAACT-ATT-T-TTT--T-A
1 TTAAATTAATTAAATAATTATATTTCATAA
* *
47558402 TT-ATTTAATTAAATAATCATATTTCATAA
1 TTAAATTAATTAAATAATTATATTTCATAA
47558431 T
1 T
47558432 AATCATAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
22 1 0.02
23 12 0.19
24 2 0.03
25 4 0.06
26 4 0.06
27 17 0.27
28 18 0.29
29 5 0.08
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (30 bp):
TTAAATTAATTAAATAATTATATTTCATAA
Found at i:47558364 original size:51 final size:51
Alignment explanation
Indices: 47558305--47558434 Score: 154
Period size: 51 Copynumber: 2.5 Consensus size: 51
47558295 TGAATAAAAT
* * *
47558305 TAAATAAATAATAATTTTTTA-AATTAATTAATTAATTAATTTTTAATTAAA
1 TAAATAAATAATAATATTTCATAA-TAATTAATTAACTAATTTTTAATTAAA
* * * **
47558356 TAAATAAATAATTATATTTCATAATAATTAATTAACTATTTTTTTATTATT
1 TAAATAAATAATAATATTTCATAATAATTAATTAACTAATTTTTAATTAAA
* *
47558407 TAATTAAATAATCATATTTCATAATAAT
1 TAAATAAATAATAATATTTCATAATAAT
47558435 CATAAAAATC
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 66 0.97
52 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (51 bp):
TAAATAAATAATAATATTTCATAATAATTAATTAACTAATTTTTAATTAAA
Found at i:47565575 original size:41 final size:41
Alignment explanation
Indices: 47565518--47565611 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
47565508 AACGGGTCCA
* *
47565518 CTAACACAAGCTGATGGTCATGATGAATCTACACGACACTG
1 CTAACACAAGCTGATGGTCATGACGAAACTACACGACACTG
* ***
47565559 CTAACACAAGCTGATGGTTATGACGAAACTACACGGTGCTG
1 CTAACACAAGCTGATGGTCATGACGAAACTACACGACACTG
*
47565600 CTCACACAAGCT
1 CTAACACAAGCT
47565612 TATGAGTATC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (41 bp):
CTAACACAAGCTGATGGTCATGACGAAACTACACGACACTG
Found at i:47572911 original size:13 final size:13
Alignment explanation
Indices: 47572893--47572917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47572883 TGTTGGTGTA
47572893 CACGGCCGTGTTG
1 CACGGCCGTGTTG
47572906 CACGGCCGTGTT
1 CACGGCCGTGTT
47572918 CTACTTCGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.36, T:0.24
Consensus pattern (13 bp):
CACGGCCGTGTTG
Found at i:47575971 original size:20 final size:20
Alignment explanation
Indices: 47575948--47575991 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
47575938 TCCTCTTGCT
47575948 CTTCCTCTGTGTTTCTTAAG
1 CTTCCTCTGTGTTTCTTAAG
47575968 CTTCCTCTGTGTTTCTTAAG
1 CTTCCTCTGTGTTTCTTAAG
47575988 CTTC
1 CTTC
47575992 ACCTTATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.09, C:0.27, G:0.14, T:0.50
Consensus pattern (20 bp):
CTTCCTCTGTGTTTCTTAAG
Found at i:47588736 original size:19 final size:19
Alignment explanation
Indices: 47588712--47588750 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
47588702 GCACACTTAG
*
47588712 TGCCTTACATAGCTGAAGC
1 TGCCTTACATAGCTAAAGC
47588731 TGCCTTACATAGCTAAAGC
1 TGCCTTACATAGCTAAAGC
47588750 T
1 T
47588751 ATCTTGGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (19 bp):
TGCCTTACATAGCTAAAGC
Found at i:47593751 original size:43 final size:43
Alignment explanation
Indices: 47593535--47593794 Score: 250
Period size: 43 Copynumber: 6.0 Consensus size: 43
47593525 TGTATGCTAA
* * * * * *
47593535 TATAAATGCTTCATTTTATCCGATGTTGCACTGTGTGTGCCAT
1 TATAGATGCTTCAGTTTATCCGATGATGTACTATGTGTGCCAG
* * * * * *
47593578 TGTATATGCTTCATTTTATCCAACGATGCACTATGTGTGCCAG
1 TATAGATGCTTCAGTTTATCCGATGATGTACTATGTGTGCCAG
* * * * *
47593621 TATAGTTGCTTCAATTTATCCCATAATGTACTATGTGTGTCAG
1 TATAGATGCTTCAGTTTATCCGATGATGTACTATGTGTGCCAG
* * * * *
47593664 TATAAATACTTCAGATTATCCGATGATATACTATGTGTGCGAG
1 TATAGATGCTTCAGTTTATCCGATGATGTACTATGTGTGCCAG
** * **
47593707 TATAGATGCTTCAGTTTATTTGATGATGCACTATGTGTGAGAG
1 TATAGATGCTTCAGTTTATCCGATGATGTACTATGTGTGCCAG
* * *
47593750 TATAGATGCTTTAGTTTATCTGATGATGTACTTTGTGTGCCAG
1 TATAGATGCTTCAGTTTATCCGATGATGTACTATGTGTGCCAG
47593793 TA
1 TA
47593795 CATGTAACAC
Statistics
Matches: 177, Mismatches: 40, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 177 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (43 bp):
TATAGATGCTTCAGTTTATCCGATGATGTACTATGTGTGCCAG
Found at i:47595563 original size:40 final size:40
Alignment explanation
Indices: 47595297--47595566 Score: 278
Period size: 40 Copynumber: 6.8 Consensus size: 40
47595287 TACTCGAATT
* * *
47595297 ATCGCACACTAAGTGCCAAAAAATAGCCGAAGCTAT-TTTA
1 ATCGCACACTAAGTGCC-ATACATAGCCGAAGCTATCTTGA
* * * *
47595337 ACCTTGCACACGAAGTGCCATACATAGCCAAAGCTATCCTGA
1 A--TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTGA
* * * * * *
47595379 ATCGCACGCTAGGTGTCATA-ATAGCCAAAACTATTTTGAA
1 ATCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTG-A
*
47595419 AT-GCACACTAAGTTCCAT-CATAGCCGAAGCTATCTTGA
1 ATCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTGA
* * * *
47595457 ATCACACACTAAGTTCCATATATAGCTGAAGCTATCTTGA
1 ATCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTGA
* *
47595497 ACCGCACACTAAGTGCCATAAATAGCCGAAGCTATCTTGA
1 ATCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTGA
* *
47595537 ATCGCACACTAAGTGCCTTACTTAGCCGAA
1 ATCGCACACTAAGTGCCATACATAGCCGAA
47595567 TTGTCAACAA
Statistics
Matches: 189, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
38 3 0.02
39 57 0.30
40 97 0.51
41 15 0.08
42 17 0.09
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
ATCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTGA
Found at i:47596889 original size:17 final size:17
Alignment explanation
Indices: 47596867--47596903 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
47596857 ACTGTGTTAG
47596867 AGTAATTACTTTAGTTT
1 AGTAATTACTTTAGTTT
47596884 AGTAATTACTTTAGTTT
1 AGTAATTACTTTAGTTT
47596901 AGT
1 AGT
47596904 CAATAAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (17 bp):
AGTAATTACTTTAGTTT
Found at i:47598188 original size:31 final size:32
Alignment explanation
Indices: 47598150--47598214 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
47598140 CCCGTTATGA
* *
47598150 GATTTTGAT-AAAAATAGATAGTTGAGGGTTT
1 GATTTTGATAAAAAATAAATAGTAGAGGGTTT
47598181 GATTTTGATAAAAAAATAAATAGTAGAGGGTTT
1 GATTTTGAT-AAAAAATAAATAGTAGAGGGTTT
47598214 G
1 G
47598215 TAGAGGATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 9 0.30
33 21 0.70
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (32 bp):
GATTTTGATAAAAAATAAATAGTAGAGGGTTT
Found at i:47599566 original size:38 final size:38
Alignment explanation
Indices: 47599505--47599611 Score: 142
Period size: 38 Copynumber: 2.8 Consensus size: 38
47599495 ATCGGCACAA
*
47599505 AGCCTACTAGGCGCTAAGCCTGAATAACACCGACACTG
1 AGCCTACTAAGCGCTAAGCCTGAATAACACCGACACTG
* * * *
47599543 AGTCTGCTAAGCGCTAAGCCTGAATAACACTGGCACTG
1 AGCCTACTAAGCGCTAAGCCTGAATAACACCGACACTG
* * *
47599581 GGCCTACTAGGCACTAAGCCTGAATAACACC
1 AGCCTACTAAGCGCTAAGCCTGAATAACACC
47599612 CAATTTGAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (38 bp):
AGCCTACTAAGCGCTAAGCCTGAATAACACCGACACTG
Found at i:47603699 original size:29 final size:27
Alignment explanation
Indices: 47603681--47603750 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
47603671 ATATTAAGTC
47603681 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
47603708 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
47603736 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
47603751 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:47603744 original size:28 final size:28
Alignment explanation
Indices: 47603681--47603775 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
47603671 ATATTAAGTC
*
47603681 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
47603708 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
47603736 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
47603765 CGCACACTTAG
1 CGCACACTTAG
47603776 CGCCAATCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:47609487 original size:37 final size:37
Alignment explanation
Indices: 47609437--47609515 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47609427 TTATTACGAA
* * *
47609437 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
47609474 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
47609511 GTCTT
1 GTCTT
47609516 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:47609721 original size:47 final size:47
Alignment explanation
Indices: 47609634--47610081 Score: 653
Period size: 47 Copynumber: 9.4 Consensus size: 47
47609624 CCTTTCGGGA
* * * * * * * *
47609634 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47609681 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47609728 CTTATCACATATATACACTTTCACATTCATCACCTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47609775 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47609822 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47609869 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47609916 CTTATTACAGATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
47609967 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47610016 CTTATTACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47610063 CTTATCACATATATACACT
1 CTTATCACATATATACACT
47610082 CTCTTGGCTG
Statistics
Matches: 374, Mismatches: 23, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 276 0.74
48 1 0.00
49 58 0.16
50 1 0.00
51 38 0.10
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47613000 original size:40 final size:40
Alignment explanation
Indices: 47612923--47613099 Score: 148
Period size: 40 Copynumber: 4.5 Consensus size: 40
47612913 CCAGCATGAT
* * * * * **
47612923 TGCTCTTCGGGACCTAGCCCGGACATAACACCGGCACGAA
1 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
* * *
47612963 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCAC---
1 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
** * *
47613000 -GCTCTTCGGAACTTAACCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
* * *
47613039 TGCCCCT-GGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGG-CTTAGCCCGGATACATCACTAGCACGAA
*
47613079 TGCTCTTCGGGACTTAGCCCG
1 TGCTCTTCGGGGCTTAGCCCG
47613100 AATTTAGTAA
Statistics
Matches: 108, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
36 29 0.27
39 2 0.02
40 74 0.69
41 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
Found at i:47613181 original size:40 final size:41
Alignment explanation
Indices: 47613003--47613181 Score: 129
Period size: 40 Copynumber: 4.5 Consensus size: 41
47612993 CTAGCACGCT
* * * **
47613003 CTTCGGAACTTAACCCGGATACA-TCAC-TAGCATGAATGCC
1 CTTCGGGACTTAGCCCGGATATAGTCACTTAGCACCAATG-C
* * * **
47613043 CCTGGGGACTTAGCCCGGATACA-TCAC-TAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTTAGCACCAATGC
* * * *
47613082 TCTTCGGGACTTAGCCCGAATTTAGTAACTT-GCACCAATGT
1 -CTTCGGGACTTAGCCCGGATATAGTCACTTAGCACCAATGC
* * *
47613123 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTTAGCACCAATGC
47613163 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
47613182 CATCATTCGA
Statistics
Matches: 112, Mismatches: 21, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
39 4 0.04
40 91 0.81
41 16 0.14
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTTAGCACCAATGC
Found at i:47613530 original size:29 final size:29
Alignment explanation
Indices: 47613496--47613567 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
47613486 ATCAACCACG
* *
47613496 CACACTTAGTGCCATGTACTTT-AAACTCA
1 CACACTTAGTGCCATGCA-TTTCAAACCCA
* *
47613525 CACACTTAGTGCCATGCATTTCAAGCCCG
1 CACACTTAGTGCCATGCATTTCAAACCCA
47613554 CACACTTAGTGCCA
1 CACACTTAGTGCCA
47613568 ATCTCACAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATGCATTTCAAACCCA
Found at i:47615526 original size:37 final size:37
Alignment explanation
Indices: 47615476--47615554 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
47615466 TTATTACGAA
* * *
47615476 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
**
47615513 GTCTTACCCGGACAAAATCCCCACACGTGGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
47615550 GTCTT
1 GTCTT
47615555 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:47615760 original size:47 final size:47
Alignment explanation
Indices: 47615673--47616075 Score: 563
Period size: 47 Copynumber: 8.4 Consensus size: 47
47615663 CCTTTCGGGA
* * * * * * * *
47615673 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47615720 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47615767 CTTATCACATATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47615814 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47615861 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47615908 CTTATTACAGATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
47615959 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47616010 CTTATTACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47616057 CTTATCACATATATACACT
1 CTTATCACATATATACACT
47616076 CTCTTGGCTG
Statistics
Matches: 328, Mismatches: 22, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 230 0.70
48 1 0.00
49 10 0.03
50 1 0.00
51 86 0.26
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47619123 original size:40 final size:40
Alignment explanation
Indices: 47618915--47619177 Score: 273
Period size: 40 Copynumber: 6.6 Consensus size: 40
47618905 CCAGCATGAT
* * * * *
47618915 TGCTCTTCGGGACCTAGCCCGGACATAACACCAGAACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
47618955 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
47618995 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
47619035 TGCTCCTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
47619075 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
47619116 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
47619156 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
47619178 CATCATTCGA
Statistics
Matches: 188, Mismatches: 30, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
39 3 0.02
40 165 0.88
41 20 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:47619617 original size:42 final size:43
Alignment explanation
Indices: 47619519--47619617 Score: 191
Period size: 43 Copynumber: 2.3 Consensus size: 43
47619509 ACTTTAAACT
47619519 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
1 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
47619562 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTA-TGCC
1 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
47619604 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47619618 TGAAAACCAA
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 18 0.32
43 38 0.68
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.22
Consensus pattern (43 bp):
CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
Found at i:47621488 original size:35 final size:36
Alignment explanation
Indices: 47621442--47621517 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 36
47621432 TTATTACGAA
* * *
47621442 GTCTTACCCGGACATAATCTCCACACG-AATTATCG
1 GTCTTACCCGGACAAAATCCCCACACGTAATCATCG
*
47621477 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCG
1 GTCTTACCCGGACAAAATCCCCACACGTAATCATCG
47621513 GTCTT
1 GTCTT
47621518 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 25 0.69
36 11 0.31
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (36 bp):
GTCTTACCCGGACAAAATCCCCACACGTAATCATCG
Found at i:47621721 original size:47 final size:47
Alignment explanation
Indices: 47621634--47622074 Score: 624
Period size: 47 Copynumber: 9.4 Consensus size: 47
47621624 CCTTTCGGGA
* * * * * * * *
47621634 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47621681 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47621728 CTTATCACATATATACACTTTCACATTCATCAC-TCGG-CATTA-G-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47621771 CTTATCAC--ATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47621816 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47621863 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47621910 CTTATTACAGATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
47621961 CTTATCACATATACTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATA-TACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47622009 CTTATTACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47622056 CTTATCACATATATACACT
1 CTTATCACATATATACACT
47622075 CTCTTGGCTG
Statistics
Matches: 363, Mismatches: 20, Indels: 22
0.90 0.05 0.05
Matches are distributed among these distances:
41 23 0.06
42 4 0.01
43 12 0.03
44 2 0.01
45 13 0.04
46 4 0.01
47 209 0.58
48 46 0.13
49 11 0.03
50 1 0.00
51 38 0.10
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47621878 original size:135 final size:138
Alignment explanation
Indices: 47621634--47622068 Score: 606
Period size: 135 Copynumber: 3.1 Consensus size: 138
47621624 CCTTTCGGGA
* * * * * * *
47621634 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGCCTTGTCACATATATACAC
1 CTTATCACA--TATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACAC
47621699 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC-TC
64 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
47621763 GGCATTA-G-
129 GGCATTAGGC
* *
47621771 CTTATCACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTT
1 CTTATCACATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTT
* * *
47621836 TCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGG
66 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
47621901 CTATTAGGC
131 C-ATTAGGC
* *
47621910 CTTATTACAGATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAC
1 CTTA-T-C--ACAT--ATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATA-
* *
47621975 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATACATACACTTTCACATTCATC
59 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
47622040 ACATCGGCCATTAGGC
124 ACATCGG-CATTAGGC
47622056 CTTATCACATATA
1 CTTATCACATATA
47622069 TACACTCTCT
Statistics
Matches: 264, Mismatches: 22, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
135 104 0.39
136 5 0.02
137 13 0.05
138 1 0.00
139 4 0.02
140 4 0.02
141 1 0.00
142 3 0.01
143 3 0.01
144 1 0.00
145 46 0.17
146 78 0.30
147 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (138 bp):
CTTATCACATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTT
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
CATTAGGC
Found at i:47622044 original size:146 final size:145
Alignment explanation
Indices: 47621781--47622072 Score: 476
Period size: 146 Copynumber: 2.0 Consensus size: 145
47621771 CTTATCACAT
* *
47621781 ATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
* * * *
47621846 CACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCC
66 CACATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
47621911 TTATTACAGATATAC
131 TTATCACAGATATAC
*
47621926 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACTACACTTTCACATTCA
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATA-TACACTTTCACATTCA
* *
47621991 TCACATCGGCCATTAGGCCTTATTACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
65 TCACATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47622056 CTTATCACATATATAC
130 CTTATCACAGATATAC
47622072 A
1 A
47622073 CTCTCTTGGC
Statistics
Matches: 135, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
145 45 0.33
146 90 0.67
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (145 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
CACATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGGCCATTAGGCC
TTATCACAGATATAC
Found at i:47624988 original size:40 final size:40
Alignment explanation
Indices: 47624911--47625087 Score: 148
Period size: 40 Copynumber: 4.5 Consensus size: 40
47624901 CCAGCATGAT
* * * * * **
47624911 TGCTCTTCGGGACCTAGCCCGGACATAACACCGGCACGAA
1 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
* * *
47624951 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCAC---
1 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
** * *
47624988 -GCTCTTCGGAACTTAACCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
* * *
47625027 TGCCCCT-GGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGG-CTTAGCCCGGATACATCACTAGCACGAA
*
47625067 TGCTCTTCGGGACTTAGCCCG
1 TGCTCTTCGGGGCTTAGCCCG
47625088 AATTTAGTAA
Statistics
Matches: 108, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
36 29 0.27
39 2 0.02
40 74 0.69
41 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
Found at i:47625169 original size:40 final size:41
Alignment explanation
Indices: 47624991--47625169 Score: 129
Period size: 40 Copynumber: 4.5 Consensus size: 41
47624981 CTAGCACGCT
* * * **
47624991 CTTCGGAACTTAACCCGGATACA-TCAC-TAGCATGAATGCC
1 CTTCGGGACTTAGCCCGGATATAGTCACTTAGCACCAATG-C
* * * **
47625031 CCTGGGGACTTAGCCCGGATACA-TCAC-TAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTTAGCACCAATGC
* * * *
47625070 TCTTCGGGACTTAGCCCGAATTTAGTAACTT-GCACCAATGT
1 -CTTCGGGACTTAGCCCGGATATAGTCACTTAGCACCAATGC
* * *
47625111 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTTAGCACCAATGC
47625151 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
47625170 CATCATTCGA
Statistics
Matches: 112, Mismatches: 21, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
39 4 0.04
40 91 0.81
41 16 0.14
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTTAGCACCAATGC
Found at i:47625518 original size:29 final size:29
Alignment explanation
Indices: 47625484--47625555 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
47625474 ATCAACCACG
* *
47625484 CACACTTAGTGCCATGTACTTT-AAACTCA
1 CACACTTAGTGCCATGCA-TTTCAAACCCA
* *
47625513 CACACTTAGTGCCATGCATTTCAAGCCCG
1 CACACTTAGTGCCATGCATTTCAAACCCA
47625542 CACACTTAGTGCCA
1 CACACTTAGTGCCA
47625556 ATCTCACAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATGCATTTCAAACCCA
Found at i:47627511 original size:37 final size:37
Alignment explanation
Indices: 47627461--47627539 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
47627451 TTATTACGAA
* * *
47627461 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
**
47627498 GTCTTACCCGGACAAAATCCCCACACGTGGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
47627535 GTCTT
1 GTCTT
47627540 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:47627744 original size:47 final size:47
Alignment explanation
Indices: 47627657--47628059 Score: 563
Period size: 47 Copynumber: 8.4 Consensus size: 47
47627647 GCCTTCGGGA
* * * * * * * *
47627657 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47627704 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47627751 CTTATCACATATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47627798 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47627845 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47627892 CTTATTACAGATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
47627943 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47627994 CTTATTACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47628041 CTTATCACATATATACACT
1 CTTATCACATATATACACT
47628060 CTCTTGGCTG
Statistics
Matches: 328, Mismatches: 22, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 230 0.70
48 1 0.00
49 10 0.03
50 1 0.00
51 86 0.26
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47631106 original size:40 final size:40
Alignment explanation
Indices: 47630898--47631160 Score: 273
Period size: 40 Copynumber: 6.6 Consensus size: 40
47630888 CCAGCATGAT
* * * * *
47630898 TGCTCTTCGGGACCTAGCCCGGACATAACACCAGAACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
47630938 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
47630978 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
47631018 TGCTCCTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
47631058 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
47631099 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
47631139 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
47631161 CATCATTCGA
Statistics
Matches: 188, Mismatches: 30, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
39 3 0.02
40 165 0.88
41 20 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:47631563 original size:43 final size:43
Alignment explanation
Indices: 47631502--47631601 Score: 200
Period size: 43 Copynumber: 2.3 Consensus size: 43
47631492 ACTTTAAACT
47631502 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
1 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
47631545 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
1 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
47631588 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47631602 TGAAAACCAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
Found at i:47633519 original size:37 final size:37
Alignment explanation
Indices: 47633469--47633547 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47633459 TTATTACGAA
* * *
47633469 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
47633506 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
47633543 GTCTT
1 GTCTT
47633548 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:47633753 original size:47 final size:47
Alignment explanation
Indices: 47633666--47634164 Score: 683
Period size: 47 Copynumber: 10.4 Consensus size: 47
47633656 CCTTTCGGGA
* * * * * * * *
47633666 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47633713 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47633760 CTTATCACATATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * **
47633807 CTTATCACACATATACACTTTCACATTCATCACGTCGGTTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47633854 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47633901 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47633948 CTTATTACAGATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47633999 CTTATCACATATATACATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
47634050 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47634099 CTTATTACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47634146 CTTATTACATATATACACT
1 CTTATCACATATATACACT
47634165 CTCTTGGCTG
Statistics
Matches: 421, Mismatches: 25, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
47 276 0.66
48 1 0.00
49 57 0.14
50 1 0.00
51 86 0.20
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47636881 original size:24 final size:24
Alignment explanation
Indices: 47636854--47636899 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
47636844 TGATTCTTGA
47636854 GTTTTGACAGCAGCAAATCGTAGG
1 GTTTTGACAGCAGCAAATCGTAGG
47636878 GTTTTGACAGCAGCAAATCGTA
1 GTTTTGACAGCAGCAAATCGTA
47636900 CTGTTTCGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (24 bp):
GTTTTGACAGCAGCAAATCGTAGG
Found at i:47636905 original size:24 final size:24
Alignment explanation
Indices: 47636854--47636905 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
47636844 TGATTCTTGA
*
47636854 GTTTTGACAGCAGCAAATCGTAGG
1 GTTTTGACAGCAGCAAATCGTACG
*
47636878 GTTTTGACAGCAGCAAATCGTACT
1 GTTTTGACAGCAGCAAATCGTACG
47636902 GTTT
1 GTTT
47636906 CGTCGCTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (24 bp):
GTTTTGACAGCAGCAAATCGTACG
Found at i:47647897 original size:46 final size:46
Alignment explanation
Indices: 47647830--47648005 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
47647820 TGTAACCCGC
* *
47647830 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
47647876 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GAC--GTTCGCAT
* * *
47647926 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
47647969 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47648006 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 4 0.04
43 5 0.05
44 2 0.02
46 61 0.56
47 25 0.23
49 2 0.02
50 5 0.05
51 5 0.05
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:47647951 original size:93 final size:93
Alignment explanation
Indices: 47647839--47648009 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
47647829 CCCATAAGCG
* *
47647839 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
47647904 GAGCTCAGATGCCTAGTTACATCTCACA
66 GAGCTCAGATGCCTAGTTACATCTCACA
* *
47647932 AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
1 AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
* *
47647997 GAGTTCGGATGCC
66 GAGCTCAGATGCC
47648010 CAAATATCCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCAGATGCCTAGTTACATCTCACA
Found at i:47650452 original size:30 final size:29
Alignment explanation
Indices: 47650407--47650495 Score: 97
Period size: 30 Copynumber: 3.0 Consensus size: 29
47650397 CAAAGATAAC
47650407 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAAACCGAATAAAGAAATCCAAGATA
* * *
47650436 GAGAAACCCGGAATAAAGAAATCCAAAATA
1 AAGAAAACC-GAATAAAGAAATCCAAGATA
* * * *
47650466 AAGAGATCCAGTATAAAGAAACCCAAGATA
1 AAGAAAACC-GAATAAAGAAATCCAAGATA
47650496 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
29 7 0.14
30 42 0.86
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.11
Consensus pattern (29 bp):
AAGAAAACCGAATAAAGAAATCCAAGATA
Found at i:47650455 original size:15 final size:14
Alignment explanation
Indices: 47650407--47650486 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
47650397 CAAAGATAAC
*
47650407 AAGAAAACCGAATA
1 AAGAAATCCGAATA
*
47650421 AAGAAATCCAAGATA
1 AAGAAATCCGA-ATA
* *
47650436 GAGAAACCCGGAATA
1 AAGAAATCC-GAATA
*
47650451 AAGAAATCCAAAATA
1 AAGAAATCC-GAATA
* *
47650466 AAGAGATCCAGTATA
1 AAGAAATCC-GAATA
47650481 AAGAAA
1 AAGAAA
47650487 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
14 9 0.18
15 41 0.80
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (14 bp):
AAGAAATCCGAATA
Found at i:47653475 original size:46 final size:46
Alignment explanation
Indices: 47653408--47653581 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
47653398 TGTAACCCGC
47653408 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
47653454 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * *
47653504 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
47653547 CCATAAGTG-ACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
47653582 ATGCCCAAAT
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 28 0.26
46 36 0.33
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:47653527 original size:93 final size:92
Alignment explanation
Indices: 47653415--47653586 Score: 299
Period size: 93 Copynumber: 1.9 Consensus size: 92
47653405 CGCCCATAAG
* *
47653415 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTG-ACTCGGACTCAACTCA
47653480 ACGAGCTCGGATGCCTAGTTACATCTCA
65 ACGAGCTCGGATGCCTAGTTACATCTCA
*
47653508 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGACTCGGACTCAACTCAA
*
47653573 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
47653587 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 30 0.40
93 45 0.60
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCA
Found at i:47653601 original size:45 final size:44
Alignment explanation
Indices: 47653459--47653602 Score: 121
Period size: 45 Copynumber: 3.1 Consensus size: 44
47653449 CGCATCCATA
* * *
47653459 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTG-ACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
47653507 ACG-AACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 A-GTGACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
47653552 AGTGACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
47653597 AGTGAC
1 AGTGAC
47653603 ATGTCACTTG
Statistics
Matches: 76, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
43 4 0.05
44 1 0.01
45 37 0.49
47 32 0.42
48 1 0.01
49 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (44 bp):
AGTGACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:47658117 original size:50 final size:49
Alignment explanation
Indices: 47658004--47658229 Score: 222
Period size: 50 Copynumber: 4.5 Consensus size: 49
47657994 CTTATACGCA
* *
47658004 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGATACACG
* * ** *
47658053 TAGTAACCTGCACTTAATACTACACATGTGACCTCGCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AACAATCTGATACACG
* * * * *
47658103 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTC-AT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA--CAATCTGA-TACACG
* * * * * *
47658154 TAGTAGCCTGTACTTAGTACTACACATGCGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC-CAACAATCTGATACACG
47658204 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
47658230 CGTGTATTCA
Statistics
Matches: 143, Mismatches: 26, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
49 31 0.22
50 73 0.51
51 38 0.27
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGATACACG
Found at i:47665126 original size:50 final size:50
Alignment explanation
Indices: 47665014--47665240 Score: 217
Period size: 50 Copynumber: 4.5 Consensus size: 50
47665004 CTAATACGCA
* * * *
47665014 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCTGGTAGACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACG
* * *
47665063 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACG
* * * * ** * *
47665113 TAGTAGCCTGCACTTAGTACTACAGACGTGATCAAAGTTAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-CCATCTGA-TACACG
* * ** * *
47665164 TAGTAGCCAGCACTTAGTACTACACATGCGAGTTAA-CAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCA-TCTGATACACG
47665214 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
47665241 ATGTATTCAC
Statistics
Matches: 144, Mismatches: 29, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
49 32 0.22
50 76 0.53
51 36 0.25
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACG
Found at i:47672169 original size:50 final size:50
Alignment explanation
Indices: 47671944--47672170 Score: 237
Period size: 50 Copynumber: 4.5 Consensus size: 50
47671934 TAATACGCAC
* ** *
47671944 AGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATCCGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTATGGTACACAT
* * * * * * *
47671993 AGTAGCCTACACTTAGTACTACACACGTGACCTCACCA-TCTGATACACGT
1 AGTAGCCTGCACTTAGTACTACACATGCGA-CTCAACAGTATGGTACACAT
* * * *
47672043 AGTAGCCTGCACTTAGTACTACACACGTGA-TCGA-AGTCATTGAGTACGCAT
1 AGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGT-A-TG-GTACACAT
* *
47672094 AGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACATAT
1 AGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTATGGTACACAT
47672144 AGTAGCCTGCACTTAGTACTACACATG
1 AGTAGCCTGCACTTAGTACTACACATG
47672171 TGTATTCACA
Statistics
Matches: 151, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 27 0.18
50 75 0.50
51 39 0.26
52 3 0.02
53 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
AGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTATGGTACACAT
Found at i:47674338 original size:6 final size:6
Alignment explanation
Indices: 47674329--47674379 Score: 57
Period size: 6 Copynumber: 7.8 Consensus size: 6
47674319 AAAAAAGTCT
*
47674329 ATAAAA ATAAAA ATAAACAAA ATAAAA ATAAAA ACTAATA ATAAAA ATAAA
1 ATAAAA ATAAAA AT--A-AAA ATAAAA ATAAAA A-TAAAA ATAAAA ATAAA
47674380 TAGACTCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 27 0.69
7 6 0.15
8 1 0.03
9 5 0.13
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:47685597 original size:18 final size:18
Alignment explanation
Indices: 47685554--47685588 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47685544 ATAGAGCAGG
47685554 AATAATAACAAGAATAAA
1 AATAATAACAAGAATAAA
*
47685572 AATAATAATAAGAATAA
1 AATAATAACAAGAATAA
47685589 TGATAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.20
Consensus pattern (18 bp):
AATAATAACAAGAATAAA
Found at i:47692079 original size:50 final size:50
Alignment explanation
Indices: 47692008--47692254 Score: 289
Period size: 50 Copynumber: 4.9 Consensus size: 50
47691998 TAAGACAGTT
* * *
47692008 TTAGGTCACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATTG
1 TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * *
47692058 TTAGGTCGCATATGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATAG
1 TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * *
47692108 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATTG
1 TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* *
47692158 ATT-GGTCACATATGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTC
1 -TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * ** * *
47692208 ATAGGTCGCATGTGTAGTACTAAGTGCAATCTACTATGCGTACCAGA
1 TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
47692255 GAGCTTCGGT
Statistics
Matches: 166, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 1 0.01
50 163 0.98
51 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:47692134 original size:100 final size:100
Alignment explanation
Indices: 47691962--47692235 Score: 325
Period size: 100 Copynumber: 2.7 Consensus size: 100
47691952 ATTGTGAGAA
* * ** * * * *
47691962 CACATGTGTAGTACTATGCCCAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTGTAGTA
1 CACATATGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATAG--TTAGGTCACGTGTGTAGTA
47692027 CTAAGTGCAGGATACTACGTGTACCAGATTG-TTAGGT
64 CTAAGTGCAGGATACTACGTGTACCAGATTGATT-GGT
*
47692064 CGCATATGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATAGTTAGGTCACGTGTGTAGTACT
1 CACATATGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATAGTTAGGTCACGTGTGTAGTACT
* * *
47692129 AAGTGCAGGCTACTACGTGTATCGGATTGATTGGT
66 AAGTGCAGGATACTACGTGTACCAGATTGATTGGT
* ** * *** * *
47692164 CACATATGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTCATAGGTCGCATGTGTAGTACT
1 CACATATGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATAGTTAGGTCACGTGTGTAGTACT
47692229 AAGTGCA
66 AAGTGCA
47692236 ATCTACTATG
Statistics
Matches: 149, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
100 112 0.75
101 2 0.01
102 35 0.23
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (100 bp):
CACATATGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATAGTTAGGTCACGTGTGTAGTACT
AAGTGCAGGATACTACGTGTACCAGATTGATTGGT
Found at i:47692479 original size:17 final size:18
Alignment explanation
Indices: 47692457--47692491 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
47692447 ATGGAGTAAG
47692457 TGAAATTATGTAA-AAAA
1 TGAAATTATGTAATAAAA
*
47692474 TGAAATTTTGTAATAAAA
1 TGAAATTATGTAATAAAA
47692492 CAATTTTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (18 bp):
TGAAATTATGTAATAAAA
Found at i:47693116 original size:180 final size:180
Alignment explanation
Indices: 47692814--47693143 Score: 507
Period size: 180 Copynumber: 1.8 Consensus size: 180
47692804 TCCGATATCT
*
47692814 GTACCATGAGATAAATAAATTTTAGTGAAGAAAGATTAGAACTGTTAGACAGTGAAACAAGGGTA
1 GTACCATGAGATAAATAAATTTTAGTGAAGAAAGATCAGAACTGTTAGACAGTGAAACAAGGGTA
** * * * *
47692879 TTTTTAATGAATAAATTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAATAATA
66 ACTTTAATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAATA
47692944 TATGCGAATCTAGTTTCTGGAAAAATTAGCGGTTCTTAATTTTGAGTCTC
131 TATGCGAATCTAGTTTCTGGAAAAATTAGCGGTTCTTAATTTTGAGTCTC
* ** * * * *
47692994 GTACCATGAGATAAATAATTTTTAGTGAAGAGCGGTCGGAACTGTTAGATAGTGAAACAGGGGTA
1 GTACCATGAGATAAATAAATTTTAGTGAAGAAAGATCAGAACTGTTAGACAGTGAAACAAGGGTA
*
47693059 ACTTTAATGAATAAACTATACTAATTGGCTAAACCAGAAATTCTAAAAATTTTATGGTAAGAATA
66 ACTTTAATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAATA
* *
47693124 TATGTGAGTCTAGTTTCTGG
131 TATGCGAATCTAGTTTCTGG
47693144 GATTAACGGA
Statistics
Matches: 133, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
180 133 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (180 bp):
GTACCATGAGATAAATAAATTTTAGTGAAGAAAGATCAGAACTGTTAGACAGTGAAACAAGGGTA
ACTTTAATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAATA
TATGCGAATCTAGTTTCTGGAAAAATTAGCGGTTCTTAATTTTGAGTCTC
Found at i:47703545 original size:23 final size:24
Alignment explanation
Indices: 47703518--47703570 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
47703508 CCAGCTAAGC
*
47703518 TTCCCGATA-GACTCT-TTATGAGT
1 TTCCCGAAATGACTCTGTT-TGAGT
*
47703541 TTCCCGAAATGGCTCTGTTTGAGT
1 TTCCCGAAATGACTCTGTTTGAGT
47703565 TTCCCG
1 TTCCCG
47703571 TTACAAGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 8 0.31
24 16 0.62
25 2 0.08
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (24 bp):
TTCCCGAAATGACTCTGTTTGAGT
Done.