Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 169 of 253
Found at i:54959730 original size:58 final size:58
Alignment explanation
Indices: 54959666--54959791 Score: 234
Period size: 58 Copynumber: 2.2 Consensus size: 58
54959656 TACCTCCACG
54959666 ATTAACCCTTTGTAAACCCCTTTGAGCCTAACAAGTCATTCCTTGTATTACCCTCAAT
1 ATTAACCCTTTGTAAACCCCTTTGAGCCTAACAAGTCATTCCTTGTATTACCCTCAAT
* *
54959724 ATTAACCCTTTGTATACCTCTTTGAGCCTAACAAGTCATTCCTTGTATTACCCTCAAT
1 ATTAACCCTTTGTAAACCCCTTTGAGCCTAACAAGTCATTCCTTGTATTACCCTCAAT
54959782 ATTAACCCTT
1 ATTAACCCTT
54959792 AACCCATTAT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 66 1.00
ACGTcount: A:0.27, C:0.29, G:0.08, T:0.37
Consensus pattern (58 bp):
ATTAACCCTTTGTAAACCCCTTTGAGCCTAACAAGTCATTCCTTGTATTACCCTCAAT
Found at i:54966604 original size:7 final size:6
Alignment explanation
Indices: 54966557--54966603 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
54966547 ATAATTTAAT
* *
54966557 AAATAA AAATAA AAATCTAA AACTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
54966604 ACATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:54966637 original size:9 final size:9
Alignment explanation
Indices: 54966623--54966708 Score: 118
Period size: 9 Copynumber: 9.6 Consensus size: 9
54966613 TTTATACAAA
54966623 TAATTCGGT
1 TAATTCGGT
54966632 TAATTCGGT
1 TAATTCGGT
* *
54966641 TAATTTGGG
1 TAATTCGGT
*
54966650 TAATTCGGA
1 TAATTCGGT
*
54966659 TAATTCAGT
1 TAATTCGGT
54966668 TAATTCGGT
1 TAATTCGGT
*
54966677 TAATTCGAT
1 TAATTCGGT
*
54966686 TAACTCGGT
1 TAATTCGGT
54966695 TAATTCGGT
1 TAATTCGGT
54966704 TAATT
1 TAATT
54966709 TTATACTTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:54974170 original size:9 final size:9
Alignment explanation
Indices: 54974151--54974228 Score: 50
Period size: 9 Copynumber: 8.7 Consensus size: 9
54974141 ATAAGTATAA
*
54974151 AATTAACCG
1 AATTAATCG
*
54974160 AATTGATCG
1 AATTAATCG
54974169 AATTAATCG
1 AATTAATCG
*
54974178 AATT-ACCAG
1 AATTAATC-G
* **
54974187 AGTTACCCG
1 AATTAATCG
** *
54974196 AATTACCCA
1 AATTAATCG
*
54974205 AATTAACCG
1 AATTAATCG
54974214 AATTAATCG
1 AATTAATCG
54974223 AATTAA
1 AATTAA
54974229 CTGAATTATT
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
8 2 0.04
9 52 0.93
10 2 0.04
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (9 bp):
AATTAATCG
Found at i:54974174 original size:18 final size:17
Alignment explanation
Indices: 54974151--54974236 Score: 73
Period size: 18 Copynumber: 4.8 Consensus size: 17
54974141 ATAAGTATAA
*
54974151 AATTAACCGAATTGATCG
1 AATTAACCGAATT-ACCG
*
54974169 AATTAATCGAATTACCAG
1 AATTAACCGAATTACC-G
* * *
54974187 AGTTACCCGAATTACCCA
1 AATTAACCGAATTA-CCG
*
54974205 AATTAACCGAATTAATCG
1 AATTAACCGAATT-ACCG
*
54974223 AATTAACTGAATTA
1 AATTAACCGAATTA
54974237 TTTGTATAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
17 3 0.06
18 48 0.89
19 3 0.06
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (17 bp):
AATTAACCGAATTACCG
Found at i:54974181 original size:27 final size:25
Alignment explanation
Indices: 54974151--54974236 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 25
54974141 ATAAGTATAA
54974151 AATTAACCGAATTGATCGAATTAATCG
1 AATTAACCGAATT-ATCGAATTAA-CG
* * * *
54974178 AATT-ACCAGAGTTACCCGAATTACCCA
1 AATTAACC-GAATTA-TCGAATTA-ACG
54974205 AATTAACCGAATTAATCGAATTAACTG
1 AATTAACCGAATT-ATCGAATTAAC-G
54974232 AATTA
1 AATTA
54974237 TTTGTATAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
26 5 0.11
27 36 0.80
28 4 0.09
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (25 bp):
AATTAACCGAATTATCGAATTAACG
Found at i:54974267 original size:6 final size:6
Alignment explanation
Indices: 54974256--54974282 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
54974246 AATTATATGT
54974256 TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
54974283 ATTAAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:54983555 original size:21 final size:20
Alignment explanation
Indices: 54983531--54983576 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
54983521 GCATCTCCAT
*
54983531 TTTTCTTCTTCTCCTTTTTTC
1 TTTTCTTCTTCTCC-TTCTTC
54983552 TTTTCTTCTTCTCCTTCTTC
1 TTTTCTTCTTCTCCTTCTTC
54983572 TTTTC
1 TTTTC
54983577 CTTTGACCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTCTTCTTCTCCTTCTTC
Found at i:54983560 original size:18 final size:16
Alignment explanation
Indices: 54983524--54983557 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
54983514 ACTTCAAGCA
54983524 TCTCCATTTTTCTTCT
1 TCTCCATTTTTCTTCT
*
54983540 TCTCCTTTTTTCTT-T
1 TCTCCATTTTTCTTCT
54983555 TCT
1 TCT
54983558 TCTTCTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (16 bp):
TCTCCATTTTTCTTCT
Found at i:54987759 original size:17 final size:17
Alignment explanation
Indices: 54987723--54987761 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
54987713 ACCTCGCAGT
* *
54987723 TTTGGTGAGCTCATAGA
1 TTTGGTGAGCTCACACA
*
54987740 TTTGGTGAGCTCGCACA
1 TTTGGTGAGCTCACACA
54987757 TTTGG
1 TTTGG
54987762 AGAGTTTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.36
Consensus pattern (17 bp):
TTTGGTGAGCTCACACA
Found at i:54992761 original size:20 final size:19
Alignment explanation
Indices: 54992722--54992766 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
54992712 AACTCTTTTT
* **
54992722 TCTTTCTAATTTGAGGAGC
1 TCTTTCTAACTTGAAAAGC
54992741 TCGTTTCTAACTTGAAAAGC
1 TC-TTTCTAACTTGAAAAGC
54992761 TCTTTC
1 TCTTTC
54992767 GGCATGCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (19 bp):
TCTTTCTAACTTGAAAAGC
Found at i:55010042 original size:30 final size:30
Alignment explanation
Indices: 55010008--55010074 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
55009998 CTATCTATTT
*
55010008 TTAATTTATGCTATTGTACTATTATATTAA
1 TTAATTTATGCTATTATACTATTATATTAA
55010038 TTAATTTATGCTATTATACTATTATATTAA
1 TTAATTTATGCTATTATACTATTATATTAA
55010068 TTAATTT
1 TTAATTT
55010075 TTAATTTAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (30 bp):
TTAATTTATGCTATTATACTATTATATTAA
Found at i:55014684 original size:6 final size:7
Alignment explanation
Indices: 55014667--55014691 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
55014657 AGGGCTGTGT
55014667 TTTTTTC
1 TTTTTTC
55014674 TTTTTTC
1 TTTTTTC
55014681 TTTTTTC
1 TTTTTTC
55014688 TTTT
1 TTTT
55014692 CCCACATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:55019484 original size:50 final size:50
Alignment explanation
Indices: 55019401--55019577 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
55019391 CCATGGCAAC
*
55019401 AAGTGATAAGTGATAGCTTCGGCTACTCTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
55019451 AAGTGATAAGTAATAGCTTCGACTACACATATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
55019501 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
55019551 GAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
55019578 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 90 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:55019591 original size:31 final size:31
Alignment explanation
Indices: 55019553--55019700 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
55019543 ACAAATGAGA
55019553 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
**
55019584 AGTGAAAAGTGGTAGCTTCTACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
55019615 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
55019646 AGTGAAAA-TGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
55019676 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
55019701 AAGTGACAAG
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
30 28 0.26
31 79 0.74
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:55019688 original size:61 final size:62
Alignment explanation
Indices: 55019553--55019700 Score: 235
Period size: 61 Copynumber: 2.4 Consensus size: 62
55019543 ACAAATGAGA
* * *
55019553 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAAGTGGTAGCTTCTACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTAATCAGTGAAAAGTGGTAGCTCCGACTACCTGATC
* *
55019615 AGTGAAAAGTGGTAGCTCCGGCTACCTAATCAGTGAAAA-TGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTAATCAGTGAAAAGTGGTAGCTCCGACTACCTGATC
*
55019676 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
55019701 AAGTGACAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
61 42 0.53
62 37 0.47
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (62 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTAATCAGTGAAAAGTGGTAGCTCCGACTACCTGATC
Found at i:55019788 original size:47 final size:46
Alignment explanation
Indices: 55019718--55019889 Score: 148
Period size: 47 Copynumber: 3.7 Consensus size: 46
55019708 AAGTGATTTC
* * *
55019718 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * * *
55019764 CTGTATAAGACCATATCTGAGATATGACATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * * * * *
55019811 CGTGTAAGACCATAGCTGGGCTATGGCAT-TGATACATGATATGTGATTA
1 CGTATAAGACCATATCTGGGATATGGCATCAG-T-GA-GATATATGA-TA
* * *
55019860 CGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
55019890 GATATATAAA
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.01
46 25 0.24
47 40 0.38
48 9 0.09
49 30 0.29
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:55019857 original size:48 final size:49
Alignment explanation
Indices: 55019800--55019893 Score: 172
Period size: 49 Copynumber: 1.9 Consensus size: 49
55019790 ACATCAGTGA
*
55019800 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGGCATTGATACAT
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATACAT
55019848 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATA
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATA
55019894 TATAAATATG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 11 0.25
49 33 0.75
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (49 bp):
GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATACAT
Found at i:55019952 original size:31 final size:31
Alignment explanation
Indices: 55019914--55020022 Score: 146
Period size: 31 Copynumber: 3.5 Consensus size: 31
55019904 TGTAAGACCA
* * *
55019914 TGGTAGCTTCTGCTACCTGATTAGTGAAAAG
1 TGGTAGCTCCGGCTACCTGATCAGTGAAAAG
* *
55019945 TGGTAGCTCCGGCTACCTAATCAGTGAAAAA
1 TGGTAGCTCCGGCTACCTGATCAGTGAAAAG
*
55019976 TGGTAGCTCCGGCTACCTGATCAGTGAATAG
1 TGGTAGCTCCGGCTACCTGATCAGTGAAAAG
* *
55020007 TAGTAGCTTCGGCTAC
1 TGGTAGCTCCGGCTAC
55020023 AAGTGACAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (31 bp):
TGGTAGCTCCGGCTACCTGATCAGTGAAAAG
Found at i:55020110 original size:47 final size:46
Alignment explanation
Indices: 55020040--55020254 Score: 154
Period size: 47 Copynumber: 4.7 Consensus size: 46
55020030 AAGTGATTTC
* * *
55020040 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * * *
55020086 CTGTATAAGACCATATCTGAGATATGACATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * * * * *
55020133 CGTGTAAGACCATAGCTGGGCTATGGCAT-TGATACATGATATGTGATTA
1 CGTATAAGACCATATCTGGGATATGGCATCAG-T-GA-GATATATGA-TA
* * *
55020182 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-ATA
* * * *
55020224 TGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CGTATAAGACCATATCTGGGATATGGCATCA
55020255 TTATGTAAAG
Statistics
Matches: 144, Mismatches: 17, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
42 38 0.26
43 1 0.01
45 1 0.01
46 25 0.17
47 40 0.28
48 9 0.06
49 30 0.21
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:55020177 original size:322 final size:321
Alignment explanation
Indices: 55019593--55020236 Score: 1243
Period size: 322 Copynumber: 2.0 Consensus size: 321
55019583 CAGTGAAAAG
55019593 TGGTAGCTTCTACTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTAATCAGTGAAAATGGT
1 TGGTAGCTTCTACTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTAATCAGTGAAAATGGT
*
55019658 AGCTCCGGCTACCTGATCAGTGAATAGTGGTAGCTTCGGCTACAAGTGACAAGTGATTTCCGTAT
66 AGCTCCGGCTACCTGATCAGTGAATAGTAGTAGCTTCGGCTACAAGTGACAAGTGATTTCCGTAT
55019723 AAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTATAAGACCATATCTGAGATA
131 AAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTATAAGACCATATCTGAGATA
55019788 TGACATCAGTGAGATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATTGATACATGATAT
196 TGACATCAGTGAGATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATTGATACATGATAT
55019853 GTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATAAATATGTGTAAGACCA
261 GTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATAAATATGTGTAAGACCA
* *
55019914 TGGTAGCTTCTGCTACCTGATTAGTGAAAAGTGGTAGCTCCGGCTACCTAATCAGTGAAAAATGG
1 TGGTAGCTTCTACTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTAATCAGTG-AAAATGG
55019979 TAGCTCCGGCTACCTGATCAGTGAATAGTAGTAGCTTCGGCTACAAGTGACAAGTGATTTCCGTA
65 TAGCTCCGGCTACCTGATCAGTGAATAGTAGTAGCTTCGGCTACAAGTGACAAGTGATTTCCGTA
55020044 TAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTATAAGACCATATCTGAGAT
130 TAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTATAAGACCATATCTGAGAT
55020109 ATGACATCAGTGAGATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATTGATACATGATA
195 ATGACATCAGTGAGATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATTGATACATGATA
*
55020174 TGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTGTAAGACCA
260 TGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATAAATATGTGTAAGACCA
55020236 T
1 T
55020237 AGCTGGGCTA
Statistics
Matches: 318, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
321 55 0.17
322 263 0.83
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (321 bp):
TGGTAGCTTCTACTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTAATCAGTGAAAATGGT
AGCTCCGGCTACCTGATCAGTGAATAGTAGTAGCTTCGGCTACAAGTGACAAGTGATTTCCGTAT
AAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTATAAGACCATATCTGAGATA
TGACATCAGTGAGATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATTGATACATGATAT
GTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATAAATATGTGTAAGACCA
Found at i:55020193 original size:49 final size:48
Alignment explanation
Indices: 55020122--55020253 Score: 195
Period size: 49 Copynumber: 2.9 Consensus size: 48
55020112 ACATCAGTGA
*
55020122 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATTGATACAT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATACAT
*
55020170 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGGCATCGATACAT
55020219 GA-A--T-A-T-GTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATC
55020254 ATTATGTAAA
Statistics
Matches: 81, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
42 29 0.36
44 1 0.01
45 1 0.01
46 1 0.01
48 12 0.15
49 37 0.46
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATACAT
Found at i:55020229 original size:42 final size:42
Alignment explanation
Indices: 55020183--55020297 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 42
55020173 ATGTGATTAC
*
55020183 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATG-AATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGAT-TATGAAAGAT
55020225 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTAAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATG-AAAGAT
* **
55020267 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
55020298 GAAAATAAAG
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
40 4 0.06
41 2 0.03
42 59 0.89
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATGAAAGAT
Found at i:55023657 original size:31 final size:30
Alignment explanation
Indices: 55023617--55023679 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
55023607 AAACGCCGCT
* **
55023617 AAAGGTCATGAAATTTAAAAAAAAATATTAA
1 AAAGATCATGAAAAATAAAAAAAAA-ATTAA
*
55023648 AAAGATCATGAAAAATATAAAAAAAATTAA
1 AAAGATCATGAAAAATAAAAAAAAAATTAA
55023678 AA
1 AA
55023680 TTCATTATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (30 bp):
AAAGATCATGAAAAATAAAAAAAAAATTAA
Found at i:55026557 original size:30 final size:30
Alignment explanation
Indices: 55026523--55026583 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
55026513 TCCTTAACTC
55026523 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
55026553 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
55026583 A
1 A
55026584 GGCTCGAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:55032120 original size:26 final size:26
Alignment explanation
Indices: 55032085--55032194 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
55032075 TGATACAAAT
55032085 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
55032111 TAATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
55032137 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
55032163 TGATAATGGGCTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
55032189 TGATAA
1 TGATAA
55032195 GAATTTCTTG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:55035371 original size:14 final size:14
Alignment explanation
Indices: 55035351--55035395 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
55035341 CACTAAAAAT
55035351 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* *
55035365 TACACCCTAAACTA
1 TAAACCCTAAACCA
*
55035379 TAAACCCTAAACTA
1 TAAACCCTAAACCA
55035393 TAA
1 TAA
55035396 TGATAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:55035866 original size:21 final size:22
Alignment explanation
Indices: 55035841--55035884 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
55035831 ACTTCAACCC
*
55035841 TAATCCTTAAACCC-TAAATCA
1 TAATCCCTAAACCCATAAATCA
*
55035862 TAATCCCTAAACCCATAATTCA
1 TAATCCCTAAACCCATAAATCA
55035884 T
1 T
55035885 CATAAACCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.30
Consensus pattern (22 bp):
TAATCCCTAAACCCATAAATCA
Found at i:55036228 original size:41 final size:41
Alignment explanation
Indices: 55036171--55036348 Score: 286
Period size: 41 Copynumber: 4.4 Consensus size: 41
55036161 GTTATATGAC
*
55036171 TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
** *
55036212 TTTTAGTAGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
55036253 TTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
55036294 TTTTAGCGGCATTTTACCTAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
55036334 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
55036349 TTGTAAAACG
Statistics
Matches: 125, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
40 16 0.13
41 109 0.87
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:55036373 original size:40 final size:42
Alignment explanation
Indices: 55036171--55036372 Score: 247
Period size: 41 Copynumber: 5.0 Consensus size: 42
55036161 GTTATATGAC
55036171 TTTTAGCGGCG-TTTTACTAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTACTAAAAGCGCCGCTAATGCTCTGGT
** * *
55036212 TTTTAGTAGTG-TTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTACTAAAAGCGCCGCTAATGCTCTGGT
* *
55036253 TTTTAGCGGCG-TTTTACCAAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTACTAAAAGCGCCGCTAATGCTCTGGT
*
55036294 TTTTAGCGGC-ATTTTACCT-AAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTTA-CTAAAAGCGCCGCTAATGCTCTGGT
** * *
55036334 TTTTAGCGGCGTTTTTTGTAAAA-CGCTGCTATTGCTCTG
1 TTTTAGCGGCGTTTTTACTAAAAGCGCCGCTAATGCTCTG
55036373 TATTTTAAAA
Statistics
Matches: 141, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
40 26 0.18
41 114 0.81
42 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (42 bp):
TTTTAGCGGCGTTTTTACTAAAAGCGCCGCTAATGCTCTGGT
Found at i:55040459 original size:98 final size:99
Alignment explanation
Indices: 55040343--55040546 Score: 383
Period size: 98 Copynumber: 2.1 Consensus size: 99
55040333 AACGATAGAA
*
55040343 GGTAAAAAGAGAGAGCCAACTAATGCCCTAACCTCCCAAAAAAAATGAAAGATTACTACTTTAGT
1 GGTAAAAAGAGAGAGCCAACTAATGCCCTAACCTCCAAAAAAAAATGAAAGATTACTACTTTAGT
55040408 CTCCCAAGATTTATAAAATCTTAAGTTAATATAT
66 CTCCCAAGATTTATAAAATCTTAAGTTAATATAT
*
55040442 GGTAAAAA-AGAGAGCCAACTAGTGCCCTAACCTCCAAAAAAAAATGAAAGATTACTACTTTAGT
1 GGTAAAAAGAGAGAGCCAACTAATGCCCTAACCTCCAAAAAAAAATGAAAGATTACTACTTTAGT
55040506 CTCCCAAGATTTATAAAATCTTAAGTTAATATAT
66 CTCCCAAGATTTATAAAATCTTAAGTTAATATAT
55040540 GGTAAAA
1 GGTAAAA
55040547 TTATAATTTC
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
98 95 0.92
99 8 0.08
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (99 bp):
GGTAAAAAGAGAGAGCCAACTAATGCCCTAACCTCCAAAAAAAAATGAAAGATTACTACTTTAGT
CTCCCAAGATTTATAAAATCTTAAGTTAATATAT
Found at i:55043815 original size:38 final size:38
Alignment explanation
Indices: 55043728--55043852 Score: 169
Period size: 38 Copynumber: 3.3 Consensus size: 38
55043718 ATTACGAAAC
* **
55043728 ACATGTTAAGCATGCCTACTACTACTATTGAACCCCAAT
1 ACATGTTAAGCATGCCTACTGCTACTATTGAA-CTGAAT
** *
55043767 ACATGTTAAGCATATCTACTGTTACTATTGAACTGAAT
1 ACATGTTAAGCATGCCTACTGCTACTATTGAACTGAAT
* *
55043805 ACATGTTAAGCATGCCTAATGCTACTATTGAACTGAAA
1 ACATGTTAAGCATGCCTACTGCTACTATTGAACTGAAT
55043843 ACATGTTAAG
1 ACATGTTAAG
55043853 TATGTTAATT
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 47 0.63
39 28 0.37
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (38 bp):
ACATGTTAAGCATGCCTACTGCTACTATTGAACTGAAT
Found at i:55045724 original size:43 final size:44
Alignment explanation
Indices: 55045630--55045745 Score: 130
Period size: 43 Copynumber: 2.6 Consensus size: 44
55045620 TGTGTTCTCG
* * *
55045630 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGGTTACG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGA-ATATGTGGATACA
*
55045675 TCTAAGACCATGTCTGGGACAG-TGGCATCG-ATATGT-GATAGCA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGAATATGTGGATA-CA
* *
55045718 TGTAAGACCGTGTCTAGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
55045746 TGTATGACAT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
42 4 0.07
43 30 0.49
45 26 0.43
46 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGAATATGTGGATACA
Found at i:55049744 original size:32 final size:32
Alignment explanation
Indices: 55049703--55049768 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
55049693 TTAGATAATT
55049703 TTATGTTAGTTTAATTAATTCATTTTAATTTG
1 TTATGTTAGTTTAATTAATTCATTTTAATTTG
55049735 TTATGTTAGTTTAATTAATTCATTTTAATTTG
1 TTATGTTAGTTTAATTAATTCATTTTAATTTG
55049767 TT
1 TT
55049769 TTTTGTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.27, C:0.03, G:0.09, T:0.61
Consensus pattern (32 bp):
TTATGTTAGTTTAATTAATTCATTTTAATTTG
Found at i:55051156 original size:18 final size:18
Alignment explanation
Indices: 55051130--55051184 Score: 101
Period size: 18 Copynumber: 3.1 Consensus size: 18
55051120 CTTGATTGGT
*
55051130 AATAGTTTCTCGACCATA
1 AATAATTTCTCGACCATA
55051148 AATAATTTCTCGACCATA
1 AATAATTTCTCGACCATA
55051166 AATAATTTCTCGACCATA
1 AATAATTTCTCGACCATA
55051184 A
1 A
55051185 TCAGGAAAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (18 bp):
AATAATTTCTCGACCATA
Found at i:55054197 original size:41 final size:42
Alignment explanation
Indices: 55054134--55054218 Score: 154
Period size: 41 Copynumber: 2.0 Consensus size: 42
55054124 CTTTTAAGAT
55054134 CATTGTTTAATGAGGATGATAGTAAAGCCATTACTCTTATCC
1 CATTGTTTAATGAGGATGATAGTAAAGCCATTACTCTTATCC
*
55054176 CATTTTTTAATGA-GATGATAGTAAAGCCATTACTCTTATCC
1 CATTGTTTAATGAGGATGATAGTAAAGCCATTACTCTTATCC
55054217 CA
1 CA
55054219 ATTGGAAGAC
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 30 0.71
42 12 0.29
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (42 bp):
CATTGTTTAATGAGGATGATAGTAAAGCCATTACTCTTATCC
Found at i:55057860 original size:21 final size:22
Alignment explanation
Indices: 55057831--55057877 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
55057821 CAGAAGGAGT
*
55057831 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
55057853 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
55057874 GAGT
1 GAGT
55057878 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:55062522 original size:36 final size:37
Alignment explanation
Indices: 55062462--55062538 Score: 138
Period size: 36 Copynumber: 2.1 Consensus size: 37
55062452 AGATGAGATG
55062462 TATCTGACTTTCAAAGACATCCTTATCAAGCATTGGC
1 TATCTGACTTTCAAAGACATCCTTATCAAGCATTGGC
*
55062499 TATCTGACTTTC-AAGACATCCTTATCAATCATTGGC
1 TATCTGACTTTCAAAGACATCCTTATCAAGCATTGGC
55062535 TATC
1 TATC
55062539 ATCTTTCCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 27 0.69
37 12 0.31
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (37 bp):
TATCTGACTTTCAAAGACATCCTTATCAAGCATTGGC
Found at i:55065466 original size:93 final size:93
Alignment explanation
Indices: 55065358--55065529 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
55065348 GCCTATAAGC
* * *
55065358 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55065423 CGAGCTCGGATGCCTAGTTACATCTCAT
66 CGAGCTCGGATGCCTAGTTACATCTCAT
*
55065451 GAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55065516 CGAGCTCGGATGCC
66 CGAGCTCGGATGCC
55065530 AAAATATCCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAT
Found at i:55065525 original size:46 final size:46
Alignment explanation
Indices: 55065352--55065525 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
55065342 TAACCCGCCT
* *
55065352 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCC
* *
55065398 ATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCATCC
* * *
55065447 -TCA-TGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCC
55065491 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
55065526 TGCCAAAATA
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.56
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCC
Found at i:55067423 original size:13 final size:14
Alignment explanation
Indices: 55067405--55067434 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
55067395 TAATTGGTTA
55067405 TAATTAAG-TTAAT
1 TAATTAAGTTTAAT
55067418 TAATTAAGTTTAAT
1 TAATTAAGTTTAAT
55067432 TAA
1 TAA
55067435 AACTAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (14 bp):
TAATTAAGTTTAAT
Found at i:55068467 original size:19 final size:19
Alignment explanation
Indices: 55068439--55068494 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
55068429 GCACTTACGC
*
55068439 GCCAGGATGCACTTCGTGA
1 GCCAGGATGCACTTTGTGA
* * *
55068458 GCCAGTATGCGCTTTGTGC
1 GCCAGGATGCACTTTGTGA
*
55068477 GCTAGGATGCACTTTGTG
1 GCCAGGATGCACTTTGTG
55068495 TACTAGTATG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.16, C:0.23, G:0.32, T:0.29
Consensus pattern (19 bp):
GCCAGGATGCACTTTGTGA
Found at i:55068500 original size:19 final size:18
Alignment explanation
Indices: 55068442--55068509 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 18
55068432 CTTACGCGCC
* *
55068442 AGGATGCACTTCGTGAGCC
1 AGGATGCACTTTGTGA-CT
* * *
55068461 AGTATGCGCTTTGTGCGCT
1 AGGATGCACTTTGTG-ACT
55068480 AGGATGCACTTTGTGTACT
1 AGGATGCACTTTGTG-ACT
*
55068499 AGTATGCACTT
1 AGGATGCACTT
55068510 ACATGCTAGC
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (18 bp):
AGGATGCACTTTGTGACT
Found at i:55070154 original size:19 final size:20
Alignment explanation
Indices: 55070095--55070154 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 20
55070085 ATTCATGTAT
* *
55070095 AATAAATAATCATATCATTA
1 AATAAATAAACATATCAGTA
55070115 ATATAAA-AAA-ATA--AGTA
1 A-ATAAATAAACATATCAGTA
55070132 AATAAATAAACATATCA-TA
1 AATAAATAAACATATCAGTA
55070151 AATA
1 AATA
55070155 GATTTTATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 3 0.09
19 9 0.27
20 4 0.12
21 5 0.15
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (20 bp):
AATAAATAAACATATCAGTA
Found at i:55080009 original size:21 final size:21
Alignment explanation
Indices: 55079929--55080028 Score: 80
Period size: 21 Copynumber: 4.8 Consensus size: 21
55079919 TTCCTTCTTA
* *
55079929 AATTTTCAATCTTCAATCTTT
1 AATTATCAATCTTCAATTTTT
* * *
55079950 AA-TACCCATTTTCCAA-TTTT
1 AATTATCAATCTT-CAATTTTT
*
55079970 ATATTTTCAATCTTCAATTTTT
1 A-ATTATCAATCTTCAATTTTT
55079992 AATTATCAAT-TTCAAATTTTT
1 AATTATCAATCTTC-AATTTTT
* *
55080013 AATTCTCAATCCTCAA
1 AATTATCAATCTTCAA
55080029 CTATTATTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
20 13 0.21
21 35 0.57
22 13 0.21
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTATCAATCTTCAATTTTT
Found at i:55080010 original size:42 final size:42
Alignment explanation
Indices: 55079929--55080028 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
55079919 TTCCTTCTTA
* *
55079929 AATTTTCAATCTTCAATCTTTAATACCCATTTTCCAA-TTTT
1 AATTTTCAATCTTCAATCTTTAATACCCAATTTCAAATTTTT
* *
55079970 ATATTTTCAATCTTCAATTTTTAATTA-TCAATTTCAAATTTTT
1 A-ATTTTCAATCTTCAATCTTTAA-TACCCAATTTCAAATTTTT
* *
55080013 AATTCTCAATCCTCAA
1 AATTTTCAATCTTCAA
55080029 CTATTATTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.02
42 42 0.84
43 7 0.14
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (42 bp):
AATTTTCAATCTTCAATCTTTAATACCCAATTTCAAATTTTT
Found at i:55082497 original size:20 final size:19
Alignment explanation
Indices: 55082472--55082513 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
55082462 AATCAAGTTG
55082472 CGAGTTTAAAATTTACAATT
1 CGAG-TTAAAATTTACAATT
* *
55082492 CGAGTTGAATTTTACAATT
1 CGAGTTAAAATTTACAATT
55082511 CGA
1 CGA
55082514 ATAACTCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (19 bp):
CGAGTTAAAATTTACAATT
Found at i:55082570 original size:9 final size:10
Alignment explanation
Indices: 55082550--55082582 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
55082540 TTTTATATGT
*
55082550 AAAATTATAA
1 AAAATTCTAA
55082560 AAAATTC-AA
1 AAAATTCTAA
55082569 AAAATTCTAA
1 AAAATTCTAA
55082579 AAAA
1 AAAA
55082583 GATATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAATTCTAA
Found at i:55083056 original size:29 final size:29
Alignment explanation
Indices: 55083023--55083082 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
55083013 CAAGTTAACA
*
55083023 AAGGTTATGCCGTTAAGGGATAAAGCATG
1 AAGGTTATGCCATTAAGGGATAAAGCATG
* **
55083052 AAGGTTATGCTATTAAGGGATGGAGCATG
1 AAGGTTATGCCATTAAGGGATAAAGCATG
55083081 AA
1 AA
55083083 TGGGGCCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.32, T:0.25
Consensus pattern (29 bp):
AAGGTTATGCCATTAAGGGATAAAGCATG
Found at i:55083624 original size:112 final size:110
Alignment explanation
Indices: 55083482--55083700 Score: 402
Period size: 112 Copynumber: 2.0 Consensus size: 110
55083472 AACTTGGACC
*
55083482 TTGAGATGAAACACAATTTGACTTCCCAGTAGATGACTCTATACTCACATGGTAGATGAAATTTG
1 TTGAGATGAAACACAATTCGACTTCCCAGTAGATGACTCTATACTCACATGGTAGATGAAATTTG
55083547 TAGGTTACCCAGGTCCATGGCACTATCATAAATTCAAACATTCCAAG
66 TAGGTTACCCAGGTCCATGGCACTA--ATAAATTCAAACATTCCAAG
55083594 TTGAGATGAAACACAATTCGACTTCCCAGTAGATGACTCTATACTCACATGGTAGATGAAATTTG
1 TTGAGATGAAACACAATTCGACTTCCCAGTAGATGACTCTATACTCACATGGTAGATGAAATTTG
*
55083659 TAGGTTACCCAGGTCCATGGCACTAGTAAATTCAAACATTCC
66 TAGGTTACCCAGGTCCATGGCACTAATAAATTCAAACATTCC
55083701 TTAAAACTAT
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
110 16 0.15
112 89 0.85
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (110 bp):
TTGAGATGAAACACAATTCGACTTCCCAGTAGATGACTCTATACTCACATGGTAGATGAAATTTG
TAGGTTACCCAGGTCCATGGCACTAATAAATTCAAACATTCCAAG
Found at i:55085901 original size:40 final size:40
Alignment explanation
Indices: 55085831--55086008 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
55085821 AAGCCAAGTA
* * * * *
55085831 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
55085870 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55085910 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
55085950 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
55085990 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55086009 TTATCATCCA
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 13 0.10
40 113 0.90
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55087326 original size:53 final size:52
Alignment explanation
Indices: 55087251--55087375 Score: 196
Period size: 53 Copynumber: 2.4 Consensus size: 52
55087241 CTCAAAGCTC
* * *
55087251 TTTTTCCTTCCTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
1 TTTTTTCTTCTTTTTCTTTCTTCTATTCAGCCAAGAACAACATGAGAGC-TTT
55087304 TTTTTTCTTCTTTTTCTTTCTTCTATTCAGCCAAGAACAACATGAGAGCTTT
1 TTTTTTCTTCTTTTTCTTTCTTCTATTCAGCCAAGAACAACATGAGAGCTTT
*
55087356 TTTTTTCTTTCTTTTCCTTT
1 TTTTTTC-TTCTTTTTCTTT
55087376 TTTCATCATC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
52 10 0.15
53 57 0.85
ACGTcount: A:0.17, C:0.22, G:0.09, T:0.52
Consensus pattern (52 bp):
TTTTTTCTTCTTTTTCTTTCTTCTATTCAGCCAAGAACAACATGAGAGCTTT
Found at i:55088766 original size:25 final size:25
Alignment explanation
Indices: 55088738--55088785 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
55088728 ATGGAAAATA
55088738 AAGA-AAAA-AAAAAGAAAGTTAAAAG
1 AAGATAAAAGAAAAA-AAA-TTAAAAG
55088763 AAGATAAAAGAAAAAAAATTAAA
1 AAGATAAAAGAAAAAAAATTAAA
55088786 TTACTGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 9 0.43
26 7 0.33
27 5 0.24
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.10
Consensus pattern (25 bp):
AAGATAAAAGAAAAAAAATTAAAAG
Found at i:55088944 original size:31 final size:28
Alignment explanation
Indices: 55088909--55088982 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 28
55088899 AACGGCTCAA
*
55088909 TGACTAGAATGTTACAATACGATAACATAAG
1 TGACTA-AATGTAACAATAC-A-AACATAAG
* * *
55088940 TGACTAAAACGTAACATTTCAAACATAAG
1 TGACT-AAATGTAACAATACAAACATAAG
55088969 TGACTAAATGTAAC
1 TGACTAAATGTAAC
55088983 CTGAGGCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
28 8 0.22
29 13 0.35
30 1 0.03
31 14 0.38
32 1 0.03
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.26
Consensus pattern (28 bp):
TGACTAAATGTAACAATACAAACATAAG
Found at i:55092800 original size:30 final size:30
Alignment explanation
Indices: 55092766--55092826 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
55092756 TTCCTGAGTC
55092766 TAGGGGCAAAAGTGTGAA-TATGCAAAAGTT
1 TAGGGGCAAAAGTGT-AATTATGCAAAAGTT
* *
55092796 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
55092826 T
1 T
55092827 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:55093403 original size:68 final size:66
Alignment explanation
Indices: 55093317--55093500 Score: 225
Period size: 64 Copynumber: 2.8 Consensus size: 66
55093307 TAATACGGGA
* *
55093317 TGTATACCATGT-GTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTTGCATGGGTGATAC
1 TGTACACCATGTAG-ACAAGAGAGCTACGAGACA-TAT-AGGTAGCTAGGTCGCATGGGTGATAC
55093381 TATG
63 TATG
* *
55093385 TGTACACCATGTAGACAAGAGAGCTACG-G-GATATATGTAGCTAGGTCGCATGGGTGATACTAT
1 TGTACACCATGTAGACAAGAGAGCTACGAGACATATAGGTAGCTAGGTCGCATGGGTGATACTAT
55093448 G
66 G
* * * * *
55093449 TGTACACCATGTATACAAGATAGCTACGAG--ATAAATGTAGCTAGGTTGCATG
1 TGTACACCATGTAGACAAGAGAGCTACGAGACATATAGGTAGCTAGGTCGCATG
55093501 TGTGGTTCCA
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
64 74 0.70
65 4 0.04
66 1 0.01
67 1 0.01
68 25 0.24
69 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (66 bp):
TGTACACCATGTAGACAAGAGAGCTACGAGACATATAGGTAGCTAGGTCGCATGGGTGATACTAT
G
Found at i:55093442 original size:64 final size:64
Alignment explanation
Indices: 55093357--55093669 Score: 274
Period size: 67 Copynumber: 4.8 Consensus size: 64
55093347 ACATTATGAG
*
55093357 GTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATATAT
1 GTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAAAT
* * * *
55093421 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTATACAAGATAGCTACGAGATAAAT
1 GTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAAAT
* * * * * * * *
55093485 GTAGCTAGGTTGCATGTGTGGTTCCAAGTGAAGGACACCATGTAAACAAGAGAGCTATGAGG-TA
1 GTAGCTAGGTTGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACG-GGATA
55093549 AAT
62 AAT
* * * * * * * *
55093552 GTAGCTAGGTTGCATGTGTGGTTCCAGGTGAAGGACACCATGTAAACAAGAGAGCTACGAGATAA
1 GTAGCTAGGTTGCATGGGTGATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGGGAT-A
55093617 AAT
62 AAT
** * * * *
55093620 G--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATCT-GTACAAGAGAGC
1 GTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
55093670 CAAAATTATG
Statistics
Matches: 209, Mismatches: 32, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
63 18 0.09
64 77 0.37
65 4 0.02
66 25 0.12
67 79 0.38
68 6 0.03
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (64 bp):
GTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAAAT
Found at i:55093541 original size:67 final size:67
Alignment explanation
Indices: 55093388--55093617 Score: 304
Period size: 67 Copynumber: 3.5 Consensus size: 67
55093378 TACTATGTGT
* * * * * * * * *
55093388 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGT-GATACTA-TG-T
1 ACACCATGTAAACAAGAGAGCTACGAGATAAATGTAGCTAGGTTGCATGTGTGGTTCCAAGTGAA
*
55093450 GT
66 GG
* *
55093452 ACACCATGTATACAAGATAGCTACGAGATAAATGTAGCTAGGTTGCATGTGTGGTTCCAAGTGAA
1 ACACCATGTAAACAAGAGAGCTACGAGATAAATGTAGCTAGGTTGCATGTGTGGTTCCAAGTGAA
55093517 GG
66 GG
* * *
55093519 ACACCATGTAAACAAGAGAGCTATGAGGTAAATGTAGCTAGGTTGCATGTGTGGTTCCAGGTGAA
1 ACACCATGTAAACAAGAGAGCTACGAGATAAATGTAGCTAGGTTGCATGTGTGGTTCCAAGTGAA
55093584 GG
66 GG
55093586 ACACCATGTAAACAAGAGAGCTACGAGATAAA
1 ACACCATGTAAACAAGAGAGCTACGAGATAAA
55093618 ATGGCTAGGT
Statistics
Matches: 145, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
64 46 0.32
65 4 0.03
66 2 0.01
67 93 0.64
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (67 bp):
ACACCATGTAAACAAGAGAGCTACGAGATAAATGTAGCTAGGTTGCATGTGTGGTTCCAAGTGAA
GG
Found at i:55099194 original size:64 final size:64
Alignment explanation
Indices: 55099113--55099296 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
55099103 AGACATTATG
* * *
55099113 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
55099177 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
55099242 AA
63 AA
* * *
55099244 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
55099297 CACAATTATG
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:55099401 original size:25 final size:25
Alignment explanation
Indices: 55099367--55099416 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
55099357 TGTACAAGAA
55099367 AGCTTCGATTTTAAAGGTGGGCTGT
1 AGCTTCGATTTTAAAGGTGGGCTGT
55099392 AGCTTCGATTTTAAAGGTGGGCTGT
1 AGCTTCGATTTTAAAGGTGGGCTGT
55099417 GTGCGATACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.32, T:0.36
Consensus pattern (25 bp):
AGCTTCGATTTTAAAGGTGGGCTGT
Found at i:55103715 original size:39 final size:39
Alignment explanation
Indices: 55103626--55103886 Score: 362
Period size: 39 Copynumber: 6.6 Consensus size: 39
55103616 CAAGCCCTGT
* ** *
55103626 GGGACTTTAAGCCCGGATATAATACCAGCAC-AAACCCTGC
1 GGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTTC
* *
55103666 GGGACTTTAGCCCAGATATAACACCAACACGAATGCCTTC
1 GGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTTC
*
55103706 GGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
*
55103745 GTGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
*
55103784 GGGACTTAGCCCGGATATAACACCAGCAGGAATGCCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
* *
55103823 AGGACTTAGCCCGGATATAACACCAGCAGGAATGCCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
* **
55103862 AGGACTTAGCTTGGATATAACACCA
1 GGGACTTAGCCCGGATATAACACCA
55103887 TTATAAAGTC
Statistics
Matches: 204, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
39 186 0.91
40 18 0.09
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (39 bp):
GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
Found at i:55103992 original size:28 final size:28
Alignment explanation
Indices: 55103959--55104040 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
55103949 ATTTAATCAT
* *
55103959 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* *
55103987 TCAATATCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
55104015 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTGCCAT
55104041 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:55108758 original size:30 final size:30
Alignment explanation
Indices: 55108715--55108772 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
55108705 CATGAGTTGC
*
55108715 CACATGGGAGTGTGGCT-AGCCCATGTGGCT
1 CACACGGGAGTGT-GCTCAGCCCATGTGGCT
* *
55108745 CACACGGGTGTGTGCTCAGCCCGTGTGG
1 CACACGGGAGTGTGCTCAGCCCATGTGG
55108773 AAATGGTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.14, C:0.26, G:0.38, T:0.22
Consensus pattern (30 bp):
CACACGGGAGTGTGCTCAGCCCATGTGGCT
Found at i:55112055 original size:16 final size:18
Alignment explanation
Indices: 55112024--55112057 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
55112014 TGAACAAGAG
55112024 TCAACTAAGCAATAATAA
1 TCAACTAAGCAATAATAA
55112042 TCAA-TAAG-AATAATAA
1 TCAACTAAGCAATAATAA
55112058 ATTATAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.24
Consensus pattern (18 bp):
TCAACTAAGCAATAATAA
Found at i:55112144 original size:3 final size:3
Alignment explanation
Indices: 55112136--55112179 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
55112126 GAAATAGTGA
* *
55112136 AAT AAT AAT AAT AAT AAT AAA AAT AAA AAT AA- AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
55112180 GACCAATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:55113251 original size:18 final size:18
Alignment explanation
Indices: 55113228--55113266 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
55113218 AATTTAAAAG
*
55113228 AAATAATATGAAAT-AAAT
1 AAATAA-ATAAAATCAAAT
55113246 AAATAAATAAAATCAAAT
1 AAATAAATAAAATCAAAT
55113264 AAA
1 AAA
55113267 AATGAGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (18 bp):
AAATAAATAAAATCAAAT
Found at i:55121435 original size:30 final size:30
Alignment explanation
Indices: 55121401--55121468 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
55121391 TTTCAGAGTC
55121401 ACAAAATCTTAAACATATCTAAAACCTATA
1 ACAAAATCTTAAACATATCTAAAACCTATA
55121431 ACAAAATCTTAAACATATCTAAAACCTATA
1 ACAAAATCTTAAACATATCTAAAACCTATA
55121461 ACAAAATC
1 ACAAAATC
55121469 CAATCTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (30 bp):
ACAAAATCTTAAACATATCTAAAACCTATA
Found at i:55122122 original size:43 final size:43
Alignment explanation
Indices: 55122054--55122139 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
55122044 TAATGAGCAC
** *
55122054 CATCACTTAAGCTCGTATGGAGAGCTTTGCTAATACACAGCTT
1 CATCACTTAAGCTCACATGGAGAGCTTCGCTAATACACAGCTT
* * * *
55122097 CATCACTTAAGCTCACGTGGGGAGCTTCGCTGATACATAGCTT
1 CATCACTTAAGCTCACATGGAGAGCTTCGCTAATACACAGCTT
55122140 GTCCTTAACT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (43 bp):
CATCACTTAAGCTCACATGGAGAGCTTCGCTAATACACAGCTT
Found at i:55122232 original size:40 final size:40
Alignment explanation
Indices: 55122169--55122291 Score: 158
Period size: 40 Copynumber: 3.1 Consensus size: 40
55122159 GATTTGCTGG
*
55122169 TACACAACTTATCCATAAGCTCACAGAGGAACTTTGTTGA
1 TACAAAACTTATCCATAAGCTCACAGAGGAACTTTGTTGA
*
55122209 TACAAAAGTTATCCATAAGCTCACA-AGGGAACTTTGTTGA
1 TACAAAACTTATCCATAAGCTCACAGA-GGAACTTTGTTGA
* * * * * *
55122249 TACACAACTTATCCATAAACTCATAGGGGAGCTTTGCTGA
1 TACAAAACTTATCCATAAGCTCACAGAGGAACTTTGTTGA
55122289 TAC
1 TAC
55122292 GCAGCTTGAA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (40 bp):
TACAAAACTTATCCATAAGCTCACAGAGGAACTTTGTTGA
Found at i:55124946 original size:19 final size:19
Alignment explanation
Indices: 55124922--55124970 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
55124912 TTCCCAAGGG
55124922 AAAGAAAGGAAA-ATATAAA
1 AAAGAAAGGAAAGATA-AAA
*
55124941 AAAGAAAGCAAAGATAAAA
1 AAAGAAAGGAAAGATAAAA
55124960 AATA-AAAGGAA
1 AA-AGAAAGGAA
55124971 GAAGAAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.08
Consensus pattern (19 bp):
AAAGAAAGGAAAGATAAAA
Found at i:55124959 original size:18 final size:19
Alignment explanation
Indices: 55124922--55124975 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
55124912 TTCCCAAGGG
*
55124922 AAAGAAAGGAAAATATAAA
1 AAAGAAAGGAAAAGATAAA
*
55124941 AAAGAAA-GCAAAGATAAA
1 AAAGAAAGGAAAAGATAAA
*
55124959 AAATAAAAGGAAGAAGA
1 AAA-GAAAGGAA-AAGA
55124976 AAAGTGCGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 12 0.43
19 10 0.36
20 2 0.07
21 4 0.14
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (19 bp):
AAAGAAAGGAAAAGATAAA
Found at i:55136685 original size:31 final size:30
Alignment explanation
Indices: 55136644--55136703 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
55136634 AAATGTACCA
*
55136644 AAATTATTATAGTTTATTGTCTTTTCAAAAG
1 AAATTATTATAGTTTATTGTATTTT-AAAAG
*
55136675 AAATTGTTATAGTTTATTGTATTTTAAAA
1 AAATTATTATAGTTTATTGTATTTTAAAA
55136704 TTTTATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (30 bp):
AAATTATTATAGTTTATTGTATTTTAAAAG
Found at i:55138598 original size:22 final size:22
Alignment explanation
Indices: 55138570--55138612 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
55138560 CCTGCACATC
55138570 ACAATTGGGTTATAATAGGCCT
1 ACAATTGGGTTATAATAGGCCT
55138592 ACAATTGGGTTATAATAGGCC
1 ACAATTGGGTTATAATAGGCC
55138613 CATCCACCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (22 bp):
ACAATTGGGTTATAATAGGCCT
Found at i:55141828 original size:20 final size:22
Alignment explanation
Indices: 55141803--55141855 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
55141793 AAGTTACGTA
55141803 GGTATCGATACTACCTTT-A-T
1 GGTATCGATACTACCTTTAAGT
* *
55141823 GGTATCGATATTTCCTTTAAGT
1 GGTATCGATACTACCTTTAAGT
55141845 GGTATCGATAC
1 GGTATCGATAC
55141856 CATCTGGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 16 0.57
21 1 0.04
22 11 0.39
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (22 bp):
GGTATCGATACTACCTTTAAGT
Found at i:55142632 original size:10 final size:10
Alignment explanation
Indices: 55142614--55142645 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
55142604 ATGTATTAAC
55142614 CACATATAAT
1 CACATATAAT
*
55142624 CACAAATAAT
1 CACATATAAT
55142634 CACATATAAT
1 CACATATAAT
55142644 CA
1 CA
55142646 TATTTAGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (10 bp):
CACATATAAT
Found at i:55148104 original size:17 final size:17
Alignment explanation
Indices: 55148065--55148107 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
55148055 ACTGTCCGTT
55148065 AGGCGATACTATTCTCC
1 AGGCGATACTATTCTCC
* *
55148082 AAGCGATTCTATTCAT-C
1 AGGCGATACTATTC-TCC
55148099 AGGCGATAC
1 AGGCGATAC
55148108 AGTTCGCCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (17 bp):
AGGCGATACTATTCTCC
Found at i:55149528 original size:31 final size:31
Alignment explanation
Indices: 55149484--55149546 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 31
55149474 AGTTACAAGA
55149484 TGGTCACCTAACTATT-AATAATTT-TCTTTTT
1 TGGTCACCTAACTATTCAAT--TTTGTCTTTTT
55149515 TGGTCATCC-AACTATTCAATTTTGTCTTTTT
1 TGGTCA-CCTAACTATTCAATTTTGTCTTTTT
55149546 T
1 T
55149547 TTCAACAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
30 3 0.10
31 21 0.72
32 5 0.17
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.52
Consensus pattern (31 bp):
TGGTCACCTAACTATTCAATTTTGTCTTTTT
Found at i:55155396 original size:23 final size:23
Alignment explanation
Indices: 55155352--55155396 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
55155342 ACCGACAACA
**
55155352 CTCTCTCTCACCTTTAGTTTCAT
1 CTCTCTCTCACCTTTAAATTCAT
55155375 CTCTCCTCTC-CCTTTAAATTCA
1 CTCT-CTCTCACCTTTAAATTCA
55155397 GACATCAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.16, C:0.38, G:0.02, T:0.44
Consensus pattern (23 bp):
CTCTCTCTCACCTTTAAATTCAT
Found at i:55163703 original size:25 final size:25
Alignment explanation
Indices: 55163675--55163733 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
55163665 GGATGTTACA
55163675 TTCTCAGCTCG-TCAAAGCTTACTGT
1 TTCTCAGCTCGAT-AAAGCTTACTGT
* *
55163700 TTCT-AGTTCGATAGAGCTTACTGT
1 TTCTCAGCTCGATAAAGCTTACTGT
*
55163724 TTATCAGCTC
1 TTCTCAGCTC
55163734 AGGAGGAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 19 0.68
25 9 0.32
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (25 bp):
TTCTCAGCTCGATAAAGCTTACTGT
Found at i:55181898 original size:12 final size:12
Alignment explanation
Indices: 55181881--55181910 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
55181871 TACAAGATTG
55181881 ACACGGCCTAGT
1 ACACGGCCTAGT
*
55181893 ACACGGCCTGGT
1 ACACGGCCTAGT
55181905 ACACGG
1 ACACGG
55181911 GTGTGTATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.33, G:0.30, T:0.13
Consensus pattern (12 bp):
ACACGGCCTAGT
Found at i:55188770 original size:35 final size:36
Alignment explanation
Indices: 55188704--55188773 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 36
55188694 CTTACATGCA
* * * * *
55188704 TGGCCGAATATACAAAGTTCACTATATCATCACATG
1 TGGCCAAATATACAAAGTTAAATAAAACATCACATG
55188740 TGGCCAAATATA-AAAGTTAAATAAAACATCACAT
1 TGGCCAAATATACAAAGTTAAATAAAACATCACAT
55188774 ATGACCTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 18 0.62
36 11 0.38
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (36 bp):
TGGCCAAATATACAAAGTTAAATAAAACATCACATG
Found at i:55188877 original size:35 final size:35
Alignment explanation
Indices: 55188838--55188951 Score: 160
Period size: 35 Copynumber: 3.3 Consensus size: 35
55188828 CAAGATAACT
*
55188838 TCACATATAATCGAATATACAAGTTCAATATAAGC
1 TCACATGTAATCGAATATACAAGTTCAATATAAGC
*
55188873 TCACATGTAATC-AA-ATACTTAAGTTCAATATAACC
1 TCACATGTAATCGAATATAC--AAGTTCAATATAAGC
**
55188908 TCACATGTAGCCGAATATACAAGTTCAATATAAGC
1 TCACATGTAATCGAATATACAAGTTCAATATAAGC
55188943 TCACATGTA
1 TCACATGTA
55188952 CTTATCTATG
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
33 4 0.06
34 2 0.03
35 58 0.83
36 2 0.03
37 4 0.06
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (35 bp):
TCACATGTAATCGAATATACAAGTTCAATATAAGC
Found at i:55197973 original size:39 final size:39
Alignment explanation
Indices: 55197844--55197975 Score: 167
Period size: 39 Copynumber: 3.4 Consensus size: 39
55197834 TGTATGAGAT
*
55197844 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATAC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* * *
55197883 AGGAAAAATATCCGGACATGAGATCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* * * **
55197922 TAGAAATATATCCAGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
55197961 TGGAAA-AGTATCCGG
1 TGGAAATA-TATCCGG
55197976 GTTAAAGACC
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 1 0.01
39 77 0.99
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:55197989 original size:78 final size:77
Alignment explanation
Indices: 55197846--55198001 Score: 188
Period size: 78 Copynumber: 2.0 Consensus size: 77
55197836 TATGAGATTG
* * * *
55197846 GAAATATATCCGGACATGAGGTCCGCAGGCTATATACAGGAAAAATATCCGGACATGAGATCCGC
1 GAAATATATCCAGACATGAGGTCCGCAGGCTACATACAGGAAAAATATCCGGACATAAGACCCGC
55197911 AGGCTATATGCTA
66 AGGCT-TATGCTA
* * * * * **
55197924 GAAATATATCCAGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAGTATCCGG-GTTAAAGACCCG
1 GAAATATATCCAGACATGAGGTCCGCAGGCTACATACAGGAAAAATATCCGGACAT-AAGACCCG
55197988 CAGGCTTATGCTA
65 CAGGCTTATGCTA
55198001 G
1 G
55198002 TAATGTATTC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
77 9 0.14
78 57 0.86
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (77 bp):
GAAATATATCCAGACATGAGGTCCGCAGGCTACATACAGGAAAAATATCCGGACATAAGACCCGC
AGGCTTATGCTA
Found at i:55198195 original size:2 final size:2
Alignment explanation
Indices: 55198190--55198217 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
55198180 GATATATATA
55198190 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
55198218 AATGAATTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:55202082 original size:42 final size:43
Alignment explanation
Indices: 55202004--55202154 Score: 128
Period size: 42 Copynumber: 3.5 Consensus size: 43
55201994 TCCCGGATGT
* * * *
55202004 GGTCTTACATGTAATTCAG-TATCGATGCCTTTGTCCCAGACAG
1 GGTCTTACACGAAATTCAGATA-CGATGCCTATGTCCCAGACAC
* *
55202047 GGTCTTACACGAAATT-AGATACGATGCCTATGTCCCAAACAT
1 GGTCTTACACGAAATTCAGATACGATGCCTATGTCCCAGACAC
* * * * * *
55202089 GGTCTTATACGTAAATCTCAAAT-CAAGGCCTGTATCCCAGACAC
1 GGTCTTACACG-AAAT-TCAGATACGATGCCTATGTCCCAGACAC
*
55202133 GGTCTTACACGATATCTCAGAT
1 GGTCTTACACGAAAT-TCAGAT
55202155 CAATGTCAAT
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 30 0.34
43 29 0.33
44 26 0.30
45 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGAAATTCAGATACGATGCCTATGTCCCAGACAC
Found at i:55208261 original size:23 final size:23
Alignment explanation
Indices: 55208231--55208278 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
55208221 TTCACCGCGG
55208231 ACAAAATTATCGTTTTACCACTA
1 ACAAAATTATCGTTTTACCACTA
*
55208254 ACAAAATTATCGTTTTACCCCTA
1 ACAAAATTATCGTTTTACCACTA
55208277 AC
1 AC
55208279 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (23 bp):
ACAAAATTATCGTTTTACCACTA
Found at i:55209383 original size:37 final size:37
Alignment explanation
Indices: 55209276--55209386 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
55209266 TAGTCCCCAC
* * *
55209276 ACGTAGTTATCGGGTCTTACCCGGACAAAATCTCCAC
1 ACGTAGTCATCGGGTCTTACCCGGACATAATCTCCAA
55209313 ACGTAGTCATCGGGTCTTACCCGGACATAATCTCCAA
1 ACGTAGTCATCGGGTCTTACCCGGACATAATCTCCAA
55209350 ACGTAGTCATCGGGTCTTACCCGGA-ATATATCTCCAA
1 ACGTAGTCATCGGGTCTTACCCGGACATA-ATCTCCAA
55209387 GTTTCATGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 3 0.04
37 67 0.96
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
ACGTAGTCATCGGGTCTTACCCGGACATAATCTCCAA
Found at i:55209573 original size:48 final size:48
Alignment explanation
Indices: 55209515--55209994 Score: 739
Period size: 48 Copynumber: 10.0 Consensus size: 48
55209505 ATATACACAC
* * *
55209515 ATCTCCTACATATTTCACATTAGCCATTCGACTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
55209563 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* ** *
55209611 ATCTAATACATATTTCATGTTATCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
55209659 ATCTCATATATATTTCTCATTAGCCATTTGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
55209707 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
55209755 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATAT--AT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
55209801 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
55209849 ATCTCATACATATTTCACACTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
55209897 ATATCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
55209945 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
55209993 AT
1 AT
55209995 ATTTATCTTG
Statistics
Matches: 390, Mismatches: 40, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
46 44 0.11
48 346 0.89
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:55209918 original size:190 final size:190
Alignment explanation
Indices: 55209521--55209992 Score: 757
Period size: 190 Copynumber: 2.5 Consensus size: 190
55209511 ACACATCTCC
*
55209521 TACATATTTCACATTAGCCATTC-GACTTTACCAAATATACATATCTCATACATATTTCACATTA
1 TACATATTTCACATTAGCCATTCGGA-TTTACCACATATACATATCTCATACATATTTCACATTA
* * *
55209585 GCCATTCGGATTTACCACATATATATATCTAATACATATTTCATGTTATCCATTCGGCTTTACCA
65 GCCATTCGGCTTTACCAC--ATATATATCTAATACATATTTCATATTAGCCATTCGGCTTTACCA
* * * * * *
55209650 CATATACATATCTCATATATATTTCTCATTAGCCATTTGGCTTTACCACATATATATATCTCA
128 CATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATATCA
*
55209713 TACATATTTCACATTAGCCATTCGGATTTACCACATATACATATCTCATATATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCACATTAG
*
55209778 CCATTCGGCTTTACCACATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACAT
66 CCATTCGGCTTTACCACATATATATCTAATACATATTTCATATTAGCCATTCGGCTTTACCACAT
*
55209843 ATACATATCTCATACATATTTCACACTAGTCATTCGGCTTTACCACATATACATATATCA
131 ATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATATCA
* * *
55209903 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCACATTAG
*
55209968 CCATTCGGCTTTACCACACATATAT
66 CCATTCGGCTTTACCACATATATAT
55209993 ATATTTATCT
Statistics
Matches: 261, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
190 183 0.70
192 76 0.29
193 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (190 bp):
TACATATTTCACATTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATATATCTAATACATATTTCATATTAGCCATTCGGCTTTACCACAT
ATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATATCA
Found at i:55236536 original size:31 final size:31
Alignment explanation
Indices: 55236498--55236572 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
55236488 ACGGTTACTA
55236498 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
55236529 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
*
55236560 CGCCGAAGCCTTT
1 GGCCGAAGCCTTT
55236573 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTG
Found at i:55236643 original size:42 final size:42
Alignment explanation
Indices: 55236597--55236687 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
55236587 GGCCCTTAGC
* ** *
55236597 CCCATTTCAATATCACATGTAATGTCAATGGATGTATGAAAG
1 CCCATTTCAATATCACATGAAATACCAATGAATGTATGAAAG
*
55236639 CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
1 CCCATTTCAATATCACATGAAATACCAATGAATGTATGAAAG
55236681 CCCATTT
1 CCCATTT
55236688 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (42 bp):
CCCATTTCAATATCACATGAAATACCAATGAATGTATGAAAG
Found at i:55237850 original size:27 final size:26
Alignment explanation
Indices: 55237802--55237857 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
55237792 GTAAATCTAC
*
55237802 AAACCAATGGTATTTCAGTAATTTTGT
1 AAACCAATGGTATTCCAGTAATTTT-T
55237829 AAACCAATGGTATTCCTA-TAATTTTT
1 AAACCAATGGTATTCC-AGTAATTTTT
55237855 AAA
1 AAA
55237858 AAAGTCAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 22 0.81
28 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (26 bp):
AAACCAATGGTATTCCAGTAATTTTT
Found at i:55237906 original size:27 final size:26
Alignment explanation
Indices: 55237866--55237962 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 26
55237856 AAAAAGTCAA
*
55237866 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTT-CAAATTAG
*
55237893 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTT-CAAATTAG
* **
55237920 GGGTATTTCGGTAATTTCTCAAACCAG
1 GGGTATTTTGGTAATTT-TCAAATTAG
*
55237947 TGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
55237963 CTATCCTACA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.02
27 57 0.97
28 1 0.02
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTCAAATTAG
Found at i:55238013 original size:26 final size:25
Alignment explanation
Indices: 55237984--55238069 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 25
55237974 GAGTATTTCA
55237984 GTAATTTCACAATCAAGGGTAAAACG
1 GTAATTTCA-AATCAAGGGTAAAACG
* *
55238010 GTAATTTTGTAAA-CTAAGGGTAAAATG
1 GTAA-TTT-CAAATC-AAGGGTAAAACG
*
55238037 GTAATTTTGCAAATCGAGGGTAAAACG
1 GTAA-TTT-CAAATCAAGGGTAAAACG
*
55238064 ATAATT
1 GTAATT
55238070 CTATAAATCG
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
26 7 0.14
27 41 0.82
28 2 0.04
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (25 bp):
GTAATTTCAAATCAAGGGTAAAACG
Found at i:55238077 original size:27 final size:27
Alignment explanation
Indices: 55237994--55238085 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
55237984 GTAATTTCAC
55237994 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCAAGGGTAAAACGGTAATTTTGTA
* *
55238021 AA-CTAAGGGTAAAATGGTAATTTTGCA
1 AATC-AAGGGTAAAACGGTAATTTTGTA
* * * *
55238048 AATCGAGGGTAAAACGATAATTCTATA
1 AATCAAGGGTAAAACGGTAATTTTGTA
*
55238075 AATCGAGGGTA
1 AATCAAGGGTA
55238086 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.02
27 53 0.96
28 1 0.02
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCAAGGGTAAAACGGTAATTTTGTA
Found at i:55238084 original size:54 final size:54
Alignment explanation
Indices: 55237984--55238112 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 54
55237974 GAGTATTTCA
* * * * *
55237984 GTAATTTCAC-AATCAAGGGTAAAACGGTAATTTTGTAAACTAAGGGTAAAATG
1 GTAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAACTAAGGGTAAAATG
* * ***
55238037 GTAATTTTGCAAATCGAGGGTAAAACGATAATTCTATAAA-TCGAGGGTACTTTG
1 GTAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAACT-AAGGGTAAAATG
*
55238091 GTAATTTTACAAGTCGAGGGTA
1 GTAATTTTACAAATCGAGGGTA
55238113 TTTCAATAAT
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
53 9 0.15
54 53 0.85
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.30
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAACTAAGGGTAAAATG
Found at i:55239892 original size:94 final size:92
Alignment explanation
Indices: 55239723--55239945 Score: 265
Period size: 94 Copynumber: 2.4 Consensus size: 92
55239713 ATATTTGTGT
* * *
55239723 GCTAGTGTAAGAGATGTTTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTTTGGGACATGCATTGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
55239788 TGAGAAATGGCATCAGTA-TTGAGAC-GAGA
66 TGAGAAATGGCATC-G-ACTT-A-ACGGAGA
* *
55239817 GCTAGTGTAAGACATGTTTGGGACATGCATTGGCCTC-TTGATGTA-AGTCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTTTGGGACATGCATTGGCCACATT-ATG-AGAGCCAGTGTAAGACCATG
* *
55239880 TCTGGGACATGGCATCGACTTAACGTGAGA
64 TCTGAGAAATGGCATCGACTTAACG-GAGA
*
55239910 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGC
1 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATTGGC
55239946 ATTATACCCT
Statistics
Matches: 114, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
91 2 0.02
92 2 0.02
93 21 0.18
94 80 0.70
95 9 0.08
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATTGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
TGAGAAATGGCATCGACTTAACGGAGA
Found at i:55248684 original size:20 final size:20
Alignment explanation
Indices: 55248626--55248678 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
55248616 TGGTCCGCAA
*
55248626 GCCCATTGGGCCCAATTTTG
1 GCCCATCGGGCCCAATTTTG
55248646 GCCCATCGGGCCCAATTTTG
1 GCCCATCGGGCCCAATTTTG
*
55248666 GCCCATCTGGCCC
1 GCCCATCGGGCCC
55248679 CTTTTTCCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.38, G:0.25, T:0.25
Consensus pattern (20 bp):
GCCCATCGGGCCCAATTTTG
Found at i:55261197 original size:46 final size:46
Alignment explanation
Indices: 55261022--55261197 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
55261012 TGTAACCCGC
* ** * * * *
55261022 CCATAAGCGAACTCAAACTCAACTCAATGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
*
55261068 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTAG---CAT
* * *
55261118 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
*
55261161 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
55261198 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 66 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
Found at i:55263475 original size:15 final size:15
Alignment explanation
Indices: 55263418--55263497 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
55263408 CAAAGATAAC
*
55263418 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
55263432 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* * *
55263447 GAGAAACCCGGAATA
1 AAGAAATCCAGAATA
*
55263462 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
*
55263477 AA-AAGATCCAGGATA
1 AAGAA-ATCCAGAATA
55263492 AAGAAA
1 AAGAAA
55263498 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
14 11 0.22
15 37 0.73
16 3 0.06
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:55265660 original size:39 final size:40
Alignment explanation
Indices: 55265576--55265842 Score: 357
Period size: 39 Copynumber: 6.8 Consensus size: 40
55265566 CATTTGAATG
* * *
55265576 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
55265616 TTATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
55265655 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * * *
55265694 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
55265733 TTAT-CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
55265772 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
55265812 ATA-CCCGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
55265843 TTGTGGTTAT
Statistics
Matches: 202, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
38 27 0.13
39 105 0.52
40 70 0.35
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:55265787 original size:117 final size:117
Alignment explanation
Indices: 55265580--55265862 Score: 453
Period size: 117 Copynumber: 2.4 Consensus size: 117
55265570 TGAATGATAT
* * * *
55265580 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCGAAGGCATTTGT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGA-TTTAT-CGGGCTAAGACCGAAGGCATTTGT
55265645 GCGAGTTGATATATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGCTATAC
64 GCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
55265698 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTATCGGGCTAAGACCCGAAGGCATTTGTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTATCGGGCTAAGA-CCGAAGGCATTTGTG
55265763 CGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
65 CGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
* * *
55265816 CC-GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGGCTAA
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT-TATCGGGCTAA
55265863 ATTCGAAGAA
Statistics
Matches: 155, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
116 10 0.06
117 75 0.48
118 70 0.45
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (117 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTATCGGGCTAAGACCGAAGGCATTTGTGC
GAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
Found at i:55273995 original size:40 final size:40
Alignment explanation
Indices: 55273819--55274107 Score: 342
Period size: 40 Copynumber: 7.3 Consensus size: 40
55273809 CATTTGAATG
* * *
55273819 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
55273859 TTATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
55273898 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * *
55273937 ATA-CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
55273976 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
55274016 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * ** *
55274056 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
55274096 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55274108 ATTCGAAGAA
Statistics
Matches: 219, Mismatches: 21, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
38 12 0.05
39 85 0.39
40 119 0.54
41 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:55278223 original size:92 final size:93
Alignment explanation
Indices: 55278112--55278283 Score: 301
Period size: 92 Copynumber: 1.9 Consensus size: 93
55278102 CGCCCATAAG
* *
55278112 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
55278177 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
55278205 CGAACTC-GACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
55278269 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
55278284 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 68 0.91
93 7 0.09
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:55278279 original size:46 final size:46
Alignment explanation
Indices: 55278105--55278279 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
55278095 TGTAACCCGC
* *
55278105 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
55278151 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
55278201 -C-TCA-CGAACTC-GACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
55278243 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
55278280 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
42 3 0.03
43 1 0.01
44 2 0.02
45 9 0.08
46 80 0.73
47 8 0.07
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:55281460 original size:50 final size:50
Alignment explanation
Indices: 55281385--55281610 Score: 217
Period size: 50 Copynumber: 4.5 Consensus size: 50
55281375 TGAATACACG
* * *
55281385 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* ** ** *
55281435 TGTGTAGTACTAAGTGTAGGCTACTATGCATACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * * * *
55281486 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * * *
55281536 TGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGACTGTTAAGTCACA
55281585 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGTAGGCTACTA
55281611 TATCAAATAG
Statistics
Matches: 145, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 33 0.23
50 70 0.48
51 33 0.23
52 3 0.02
53 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:55285752 original size:13 final size:13
Alignment explanation
Indices: 55285734--55285759 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55285724 GCTCGACAGG
55285734 GACACGCCCGTGT
1 GACACGCCCGTGT
55285747 GACACGCCCGTGT
1 GACACGCCCGTGT
55285760 ACGATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:55290354 original size:22 final size:22
Alignment explanation
Indices: 55290329--55290373 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
55290319 CAACCAAATC
55290329 AATTCAACATATTT-TCAAGATA
1 AATTCAACATATTTAT-AAGATA
*
55290351 AATTCATCATATTTATAAGATA
1 AATTCAACATATTTATAAGATA
55290373 A
1 A
55290374 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (22 bp):
AATTCAACATATTTATAAGATA
Found at i:55290379 original size:22 final size:22
Alignment explanation
Indices: 55290336--55290381 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
55290326 ATCAATTCAA
*
55290336 CATATTTTCAAGATAAATTCAT
1 CATATTTTCAAGATAAAGTCAT
*
55290358 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
55290380 CA
1 CA
55290382 CATATCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (22 bp):
CATATTTTCAAGATAAAGTCAT
Found at i:55298123 original size:22 final size:23
Alignment explanation
Indices: 55298098--55298143 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
55298088 CACATCAACC
55298098 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
55298120 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
55298143 A
1 A
55298144 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:55298149 original size:23 final size:23
Alignment explanation
Indices: 55298105--55298149 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
55298095 ACCAATTCAA
*
55298105 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
55298128 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
55298150 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:55305511 original size:13 final size:13
Alignment explanation
Indices: 55305493--55305519 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55305483 GCTCGACAGG
55305493 GACACGCCCGTGT
1 GACACGCCCGTGT
55305506 GACACGCCCGTGT
1 GACACGCCCGTGT
55305519 G
1 G
55305520 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:55306233 original size:38 final size:38
Alignment explanation
Indices: 55306182--55306475 Score: 192
Period size: 38 Copynumber: 7.0 Consensus size: 38
55306172 AATGAACAAA
*
55306182 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
55306220 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACG---------GTT-ATACATGT
* * *
55306268 AACGTGATGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
** *
55306315 AATATGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * * *
55306353 GACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* *
55306400 AACGTGGTGCTAAGTGGATATACCACGGTGAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
55306438 AACGTGGTGCTAAGTGGATATGCAACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
55306476 TAATTTGAAA
Statistics
Matches: 201, Mismatches: 28, Indels: 54
0.71 0.10 0.19
Matches are distributed among these distances:
38 90 0.45
39 2 0.01
40 7 0.03
41 4 0.02
44 4 0.02
45 6 0.03
47 56 0.28
48 32 0.16
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:55306341 original size:47 final size:47
Alignment explanation
Indices: 55306219--55306428 Score: 240
Period size: 47 Copynumber: 4.6 Consensus size: 47
55306209 GTTATACGTG
* * * *
55306219 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
1 TAACATGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* * *
55306266 GTAACGTGATGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 -TAACATGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
55306314 TAATATGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------
1 TAACATGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
55306352 TGACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACATGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
55306399 TAACGTGGTGCTAAGTGGATATACCACGGT
1 TAACATGGTGCTAAGTGGATATACCACGGT
55306429 GAAACATGTA
Statistics
Matches: 136, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
38 29 0.21
39 1 0.01
40 2 0.01
41 2 0.01
44 2 0.01
45 2 0.01
46 1 0.01
47 55 0.40
48 42 0.31
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (47 bp):
TAACATGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:55306375 original size:85 final size:85
Alignment explanation
Indices: 55306262--55306468 Score: 342
Period size: 85 Copynumber: 2.4 Consensus size: 85
55306252 ACATATTGAT
* * *
55306262 ACATGTAACGTGATGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAATATGGTGCTA
1 ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
*
55306327 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTGAA
* *
55306347 ACATGTGACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
55306412 AGTGGATATACCACGGTGAA
66 AGTGGATATACCACGGTGAA
* *
55306432 ACATGTAACGTGGTGCTAAGTGGATATGCAACGGTTA
1 ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTA
55306469 TACATGTTAA
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 113 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (85 bp):
ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
AGTGGATATACCACGGTGAA
Found at i:55311631 original size:42 final size:42
Alignment explanation
Indices: 55311565--55311646 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
55311555 GGGTTACGTG
*
55311565 TGATTTCATGTAAGACCATATCTGGGATATGGCATCGATATT
1 TGATTTCATGTAAGACCATATCTGGGACATGGCATCGATATT
** * *
55311607 TGATTTCATGTAAGACTGTGTCTGGGACATGGCATTGATA
1 TGATTTCATGTAAGACCATATCTGGGACATGGCATCGATA
55311647 CGAGATATCG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.35
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATATCTGGGACATGGCATCGATATT
Found at i:55322673 original size:14 final size:14
Alignment explanation
Indices: 55322654--55322691 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
55322644 GTTTGCCAGT
*
55322654 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
55322668 AAAATGATTTCTGG
1 AAAATGATTTCCGG
55322682 AAAATGATTT
1 AAAATGATTT
55322692 ACCTTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:55322707 original size:19 final size:20
Alignment explanation
Indices: 55322675--55322720 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
55322665 CGGAAAATGA
55322675 TTTCTGGAAAATGATTTACC
1 TTTCTGGAAAATGATTTACC
* *
55322695 TTTCTGG-AAATGATTTGCT
1 TTTCTGGAAAATGATTTACC
55322714 TTTCTGG
1 TTTCTGG
55322721 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.46
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACC
Found at i:55322822 original size:18 final size:18
Alignment explanation
Indices: 55322796--55322838 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
55322786 AAAAGTTGTT
*
55322796 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
55322814 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
55322832 TTTATAT
1 TTTATAT
55322839 TTTAAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Done.