Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 39 of 167
Found at i:11914764 original size:25 final size:21
Alignment explanation
Indices: 11914711--11914769 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 21
11914701 ATTCAGCTTG
11914711 GAAGAGCTTACTGTTAGCTCA
1 GAAGAGCTTACTGTTAGCTCA
11914732 -ATAGAGCTTACTGTTATCAGCTCA
1 GA-AGAGCTTACTG-T-T-AGCTCA
11914756 TGAAGAGCTTACTG
1 -GAAGAGCTTACTG
11914770 GCCATGTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 1 0.03
21 11 0.34
22 1 0.03
23 1 0.03
24 6 0.19
25 11 0.34
26 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (21 bp):
GAAGAGCTTACTGTTAGCTCA
Found at i:11922158 original size:27 final size:27
Alignment explanation
Indices: 11922128--11922200 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
11922118 TGTCTTGATT
11922128 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
11922155 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTCAAGC
*
11922187 TTGTTGGATATTGA
1 TTGTTAGATATTGA
11922201 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.36
32 25 0.64
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:11922180 original size:32 final size:32
Alignment explanation
Indices: 11922141--11922201 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
11922131 TTAGATATTG
11922141 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
* *
11922173 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTCAAGCTTGTTAGATATTGAA
11922202 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATGTTTCAAGCTTGTTAGATATTGAATTT
Found at i:11926829 original size:22 final size:22
Alignment explanation
Indices: 11926801--11926849 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
11926791 CAATATTGTT
11926801 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTGTAATATTA
11926823 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTGTAATATTA
11926845 GTTAT
1 GTTAT
11926850 GCACTTGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.47
Consensus pattern (22 bp):
GTTATCATGTGGTGTAATATTA
Found at i:11926862 original size:22 final size:22
Alignment explanation
Indices: 11926801--11926912 Score: 86
Period size: 22 Copynumber: 5.0 Consensus size: 22
11926791 CAATATTGTT
*
11926801 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTATAATATTA
*
11926823 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTATAATATTA
* *
11926845 GTTATGCACT-TGG-ATAATGTTGTT
1 GTTAT-CA-TGTGGTATAAT-AT-TA
* *
11926869 GTTATCATGTGGTGTAATACTA
1 GTTATCATGTGGTATAATATTA
* *
11926891 ATTATGCATTTGG-ATAATATTA
1 GTTAT-CATGTGGTATAATATTA
11926913 TTAATTTCTA
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
22 44 0.61
23 17 0.24
24 11 0.15
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (22 bp):
GTTATCATGTGGTATAATATTA
Found at i:11926872 original size:68 final size:68
Alignment explanation
Indices: 11926761--11926887 Score: 227
Period size: 68 Copynumber: 1.9 Consensus size: 68
11926751 GATACTTTTA
11926761 ATGTAGTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATATTAGTT
1 ATGTAGTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATATTAGTT
11926826 ATC
66 ATC
* * *
11926829 ATGTGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATA
1 ATGTAGTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATA
11926888 CTAATTATGC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.44
Consensus pattern (68 bp):
ATGTAGTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATATTAGTT
ATC
Found at i:11926909 original size:68 final size:68
Alignment explanation
Indices: 11926769--11926912 Score: 218
Period size: 68 Copynumber: 2.1 Consensus size: 68
11926759 TAATGTAGTG
* *
11926769 TAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATATTAGTTATCATGTG
1 TAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATCATGTG
*
11926834 GTG
66 GTA
* * *
11926837 TAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTATGCATTT
1 TAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTAT-CATGT
11926902 GG-A
65 GGTA
11926905 TAATATTA
1 TAATATTA
11926913 TTAATTTCTA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
68 63 0.91
69 6 0.09
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.44
Consensus pattern (68 bp):
TAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATCATGTG
GTA
Found at i:11927339 original size:15 final size:14
Alignment explanation
Indices: 11927307--11927362 Score: 94
Period size: 14 Copynumber: 3.9 Consensus size: 14
11927297 CCAAAAAAGT
11927307 AAATCATTTTCCAG
1 AAATCATTTTCCAG
11927321 AAATCATTTTCCAAG
1 AAATCATTTTCC-AG
*
11927336 AAATTATTTTCCAG
1 AAATCATTTTCCAG
11927350 AAATCATTTTCCA
1 AAATCATTTTCCA
11927363 AAAAATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
14 26 0.67
15 13 0.33
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:11927344 original size:29 final size:28
Alignment explanation
Indices: 11927307--11927373 Score: 107
Period size: 29 Copynumber: 2.4 Consensus size: 28
11927297 CCAAAAAAGT
*
11927307 AAATCATTTTCCAGAAATCATTTTCCAA
1 AAATTATTTTCCAGAAATCATTTTCCAA
11927335 GAAATTATTTTCCAGAAATCATTTTCCAA
1 -AAATTATTTTCCAGAAATCATTTTCCAA
*
11927364 AAAATATTTT
1 AAATTATTTT
11927374 ACATGCAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 9 0.25
29 27 0.75
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.39
Consensus pattern (28 bp):
AAATTATTTTCCAGAAATCATTTTCCAA
Found at i:11933695 original size:26 final size:26
Alignment explanation
Indices: 11933666--11933877 Score: 361
Period size: 26 Copynumber: 8.2 Consensus size: 26
11933656 TGATACAAAT
11933666 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
11933692 TGATAATGGGTTAGATAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11933718 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11933744 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11933770 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11933796 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11933822 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11933848 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11933874 TGAT
1 TGAT
11933878 GGGCATTTCA
Statistics
Matches: 173, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 173 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11935557 original size:54 final size:54
Alignment explanation
Indices: 11935475--11935614 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 54
11935465 GGAAGCGTCT
11935475 TGGTGGCTATGCCACAATTATCTGATCTGGTGCCTCTACCACATATATCTATCC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGCCTCTACCACATATATCTATCC
* * * * *
11935529 TGGTGGCTATGCCATAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGCCTCTACCACATATATCTATCC
*
11935583 TGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTG
11935615 ACTTCGTCAC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 6 0.08
54 72 0.92
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGCCTCTACCACATATATCTATCC
Found at i:11935610 original size:32 final size:27
Alignment explanation
Indices: 11935475--11935614 Score: 162
Period size: 27 Copynumber: 5.2 Consensus size: 27
11935465 GGAAGCGTCT
*
11935475 TGGTGGCTATGCCACA-ATTATCTGATC
1 TGGTGGCTCTGCCACATA-TATCTGATC
* *
11935502 TGGTGCCTCTACCACATATATCT-ATCC
1 TGGTGGCTCTGCCACATATATCTGAT-C
* *
11935529 TGGTGGCTATGCCATA-ATTATCTGATC
1 TGGTGGCTCTGCCACATA-TATCTGATC
*
11935556 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACATATATCTGATC
11935583 TGGTGGCTCTGCCACA-ATATCTGTATC
1 TGGTGGCTCTGCCACATATATCTG-ATC
11935610 TGGTG
1 TGGTG
11935615 ACTTCGTCAC
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
26 10 0.10
27 82 0.85
28 4 0.04
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
TGGTGGCTCTGCCACATATATCTGATC
Found at i:11935625 original size:27 final size:27
Alignment explanation
Indices: 11935475--11935632 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
11935465 GGAAGCGTCT
*
11935475 TGGTGGCTATGCCACAATTATCTG-ATC
1 TGGTGGCTCTGCCACAA-TATCTGTATC
* *
11935502 TGGTGCCTCTACCACATATATC--TATCC
1 TGGTGGCTCTGCCACA-ATATCTGTAT-C
* *
11935529 TGGTGGCTATGCCATAATTATCTG-ATC
1 TGGTGGCTCTGCCACAA-TATCTGTATC
11935556 TGGTGGCTCTGCCACATATATCTGT-TC
1 TGGTGGCTCTGCCACA-ATATCTGTATC
11935583 TGGTGGCTCTGCCACAATATCTGTATC
1 TGGTGGCTCTGCCACAATATCTGTATC
* *
11935610 TGGTGACT-TCGTCACAATATCTG
1 TGGTGGCTCT-GCCACAATATCTG
11935633 GCAGCCTCGC
Statistics
Matches: 110, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
26 12 0.11
27 94 0.85
28 4 0.04
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATATCTGTATC
Found at i:11937317 original size:15 final size:16
Alignment explanation
Indices: 11937299--11937330 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11937289 TTAATAGCGT
11937299 AAATATT-ACCATATC
1 AAATATTAACCATATC
11937314 AAATATTAACCATATC
1 AAATATTAACCATATC
11937330 A
1 A
11937331 TGAGAAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATATTAACCATATC
Found at i:11954753 original size:22 final size:22
Alignment explanation
Indices: 11954712--11954788 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 22
11954702 TAGCTCGTAT
* *
11954712 GAGCTTACTATTTTATCTCATTA
1 GAGCTTACT-GTTTAGCTCATTA
*
11954735 GAGCTTACTGTTTAGCTCAATA
1 GAGCTTACTGTTTAGCTCATTA
*
11954757 GAGCTTACTGTTATAGCTCATGAA
1 GAGCTTACTGTT-TAGCTCAT-TA
11954781 GAGCTTAC
1 GAGCTTAC
11954789 AGGCCATGTC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
22 22 0.47
23 16 0.34
24 9 0.19
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (22 bp):
GAGCTTACTGTTTAGCTCATTA
Found at i:11957457 original size:37 final size:36
Alignment explanation
Indices: 11957358--11957461 Score: 102
Period size: 37 Copynumber: 2.8 Consensus size: 36
11957348 ACTCCTTATT
* * *
11957358 TTGGCGTGTTATCAGGTTGATTAGCTCTAATAAGCA
1 TTGGCGTGTTATCAGGTGGATTAGCTCTTAGAAGCA
* * * *
11957394 TCTGGCGTGTT-TACAGTTGGACTAGCTCTTCGGAGCAA
1 T-TGGCGTGTTAT-CAGGTGGATTAGCTCTTAGAAGC-A
*
11957432 TTGGCGTGTTATCGGGTGGATTAGCTCTTA
1 TTGGCGTGTTATCAGGTGGATTAGCTCTTA
11957462 TGAGCTTCTA
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
36 2 0.04
37 48 0.91
38 3 0.06
ACGTcount: A:0.19, C:0.16, G:0.29, T:0.36
Consensus pattern (36 bp):
TTGGCGTGTTATCAGGTGGATTAGCTCTTAGAAGCA
Found at i:11964091 original size:105 final size:105
Alignment explanation
Indices: 11963813--11964091 Score: 414
Period size: 105 Copynumber: 2.7 Consensus size: 105
11963803 ATCCATGGAA
* * * * * * *
11963813 AAGTTATGACACGTAGGTATGGTATTGGCCATACTGAGCTATGACACGTAGATATGGTATTATCT
1 AAGTTGTGAAACGTAGGTATGGTATTGTCCATACTGAGCTATGAAACATAGGTATGGTATTATCC
*
11963878 ATACCGAGCTATAATACGTAGGTATGATATTTCCCATACC
66 ATACCAAGCTATAATACGTAGGTATGATATTTCCCATACC
* * *
11963918 GAGTTGTGAAACGTAGGTATGGTATTGTCCATTCTGAGCTATGAAACATAGGTATGGTATTATTC
1 AAGTTGTGAAACGTAGGTATGGTATTGTCCATACTGAGCTATGAAACATAGGTATGGTATTATCC
* *
11963983 ATACCAAGCTATAATCCGTAGGTATGGTATTTCCCATACC
66 ATACCAAGCTATAATACGTAGGTATGATATTTCCCATACC
* * *
11964023 AAGTTGTGAAACGTAGGTATGGTATTGTCCATACTGAGCTATGAAACTTAGGTTTGGTATTAACC
1 AAGTTGTGAAACGTAGGTATGGTATTGTCCATACTGAGCTATGAAACATAGGTATGGTATTATCC
11964088 ATAC
66 ATAC
11964092 TAACTTGTGA
Statistics
Matches: 155, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 155 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (105 bp):
AAGTTGTGAAACGTAGGTATGGTATTGTCCATACTGAGCTATGAAACATAGGTATGGTATTATCC
ATACCAAGCTATAATACGTAGGTATGATATTTCCCATACC
Found at i:11964092 original size:35 final size:35
Alignment explanation
Indices: 11963817--11964091 Score: 261
Period size: 35 Copynumber: 7.9 Consensus size: 35
11963807 ATGGAAAAGT
* ** *
11963817 TATGACACGTAGGTATGGTATTGGCCATACTGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACCGAGC
* * *
11963852 TATGACACGTAGATATGGTATTATCTATACCGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACCGAGC
* *
11963887 TAT-AATACGTAGGTATGATATT-TCCCATACCGAGT
1 TATGAA-ACGTAGGTATGGTATTAT-CCATACCGAGC
* * * *
11963922 TGTGAAACGTAGGTATGGTATTGTCCATTCTGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACCGAGC
* * *
11963957 TATGAAACATAGGTATGGTATTATTCATACCAAGC
1 TATGAAACGTAGGTATGGTATTATCCATACCGAGC
* * *
11963992 TAT-AATCCGTAGGTATGGTATT-TCCCATACCAAGT
1 TATGAA-ACGTAGGTATGGTATTAT-CCATACCGAGC
* * *
11964027 TGTGAAACGTAGGTATGGTATTGTCCATACTGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACCGAGC
* * *
11964062 TATGAAACTTAGGTTTGGTATTAACCATAC
1 TATGAAACGTAGGTATGGTATTATCCATAC
11964092 TAACTTGTGA
Statistics
Matches: 196, Mismatches: 36, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
34 5 0.03
35 185 0.94
36 6 0.03
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (35 bp):
TATGAAACGTAGGTATGGTATTATCCATACCGAGC
Found at i:11985221 original size:27 final size:27
Alignment explanation
Indices: 11985167--11985226 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
11985157 AAGTCTGCAT
*
11985167 AATAAAGGAAAAAAAATGATAAAAAG-
1 AATAAAGGAAAAAAAAAGATAAAAAGA
* * *
11985193 AATAAAGTAAAAAATAAAGATTAAGAGA
1 AATAAAGGAAAAAA-AAAGATAAAAAGA
11985221 AATAAA
1 AATAAA
11985227 TCATATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 13 0.46
27 9 0.32
28 6 0.21
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (27 bp):
AATAAAGGAAAAAAAAAGATAAAAAGA
Found at i:11986556 original size:24 final size:24
Alignment explanation
Indices: 11986509--11986558 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
11986499 TGTTTTAGGG
11986509 TTAGGGTTTAATTATTTAGGGTTT
1 TTAGGGTTTAATTATTTAGGGTTT
*
11986533 TTAGGGTTTAATGT-TTTAGTGTTT
1 TTAGGGTTTAAT-TATTTAGGGTTT
11986557 TT
1 TT
11986559 TTAAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (24 bp):
TTAGGGTTTAATTATTTAGGGTTT
Found at i:11990442 original size:18 final size:18
Alignment explanation
Indices: 11990416--11990458 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
11990406 AATTGGGAAA
*
11990416 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGTT
*
11990434 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGTT
11990452 AGGATAC
1 AGGATAC
11990459 GCACCTGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATAAAAGGGTT
Found at i:11992276 original size:22 final size:21
Alignment explanation
Indices: 11992244--11992290 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
11992234 ATAGAGCTTT
11992244 TTTG-CAAAAATT-AGAGACAA
1 TTTGACAAAAATTGAGAGA-AA
11992264 CTTTGACAAAAATTGAGAGAAA
1 -TTTGACAAAAATTGAGAGAAA
11992286 TTTGA
1 TTTGA
11992291 GAGAATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (21 bp):
TTTGACAAAAATTGAGAGAAA
Found at i:11993533 original size:23 final size:23
Alignment explanation
Indices: 11993506--11993549 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
11993496 TAAACATTCA
11993506 TTTTCATATTTCACATTAAACGC
1 TTTTCATATTTCACATTAAACGC
11993529 TTTTCATATTTCACATTAAAC
1 TTTTCATATTTCACATTAAAC
11993550 ACCTTTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.02, T:0.45
Consensus pattern (23 bp):
TTTTCATATTTCACATTAAACGC
Found at i:12000800 original size:18 final size:18
Alignment explanation
Indices: 12000777--12000815 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
12000767 ACTTTTTAAA
12000777 TAATTTATTAAAACTTTT
1 TAATTTATTAAAACTTTT
* *
12000795 TAATTTTTTAAAATTTTT
1 TAATTTATTAAAACTTTT
12000813 TAA
1 TAA
12000816 AAGTTAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TAATTTATTAAAACTTTT
Found at i:12005917 original size:20 final size:20
Alignment explanation
Indices: 12005892--12005932 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
12005882 TGGGAGAGTC
12005892 AGTCATAAGTCTTTGAAAGG
1 AGTCATAAGTCTTTGAAAGG
12005912 AGTCATAAGTCTTTGAAAGG
1 AGTCATAAGTCTTTGAAAGG
12005932 A
1 A
12005933 CTAGTGTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (20 bp):
AGTCATAAGTCTTTGAAAGG
Found at i:12007390 original size:31 final size:29
Alignment explanation
Indices: 12007325--12007391 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
12007315 TTAACACTCG
*** *
12007325 GTGACTAAAATGTAACATTTCAAACATAA
1 GTGACTAAAATGTAACATGAAAAACAGAA
*
12007354 ATGACTAAAATGTAACATGAGAAAAACAGAA
1 GTGACTAAAATGTAACAT--GAAAAACAGAA
12007385 GTGACTA
1 GTGACTA
12007392 TTTTGAAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 17 0.57
31 13 0.43
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (29 bp):
GTGACTAAAATGTAACATGAAAAACAGAA
Found at i:12013135 original size:14 final size:14
Alignment explanation
Indices: 12013116--12013151 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
12013106 TTAAATTTTG
*
12013116 TAATATAATAAATT
1 TAATATAATAAAGT
12013130 TAATATAATAAAGT
1 TAATATAATAAAGT
12013144 TAAT-TAAT
1 TAATATAAT
12013152 GATTCAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
TAATATAATAAAGT
Found at i:12014357 original size:25 final size:25
Alignment explanation
Indices: 12014325--12014377 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
12014315 ATTTTTGATC
12014325 TATTTGCATATTAAATTTGTTCCCT
1 TATTTGCATATTAAATTTGTTCCCT
*
12014350 TATTTGCATATTAGATTTGTTCCCT
1 TATTTGCATATTAAATTTGTTCCCT
12014375 TAT
1 TAT
12014378 GAAATTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.15, G:0.09, T:0.53
Consensus pattern (25 bp):
TATTTGCATATTAAATTTGTTCCCT
Found at i:12023816 original size:24 final size:24
Alignment explanation
Indices: 12023786--12023839 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
12023776 TATGAAATGA
12023786 ATATTTTTA-AAAATAATCAAAATT
1 ATATTTTTATAAAATAAT-AAAATT
*
12023810 -TATTTTTATCAAATAATAAAATT
1 ATATTTTTATAAAATAATAAAATT
12023833 ATATTTT
1 ATATTTT
12023840 ATACTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
ATATTTTTATAAAATAATAAAATT
Found at i:12025503 original size:25 final size:23
Alignment explanation
Indices: 12025463--12025519 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
12025453 ATAATAATGC
* *
12025463 ATAATGAATGATATAACTATAATA
1 ATAATG-ATGATATAACGATAACA
*
12025487 ATAATGATGAGTAATAAGGATAACA
1 ATAATGATGA-T-ATAACGATAACA
12025512 ATAATGAT
1 ATAATGAT
12025520 CATAATACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.14
24 7 0.25
25 17 0.61
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.30
Consensus pattern (23 bp):
ATAATGATGATATAACGATAACA
Found at i:12039938 original size:44 final size:43
Alignment explanation
Indices: 12039739--12039973 Score: 208
Period size: 44 Copynumber: 5.4 Consensus size: 43
12039729 ATCGTGGCAG
** *
12039739 ATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGTCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-ACAA
* * * * *
12039783 ACCTTATCTCCTTAAAGTTGTAGTGGAGTAGATTGAAGTTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TACAA
* * * * *
12039827 ATCTTATCTTCCT-AAGGGTGCAATGGATCAGATTAAAGT---A
1 ATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGTACAA
* * * *
12039867 ACCTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAAGCTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TACAA
* *
12039911 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCGACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TACAA
* *
12039955 ATCTTATATCTCTGAAGTT
1 ATCTTATCTCCCTGAAGTT
12039974 TTAGTGGGTC
Statistics
Matches: 152, Mismatches: 32, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
40 27 0.18
41 3 0.02
43 3 0.02
44 118 0.78
45 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTACAA
Found at i:12039943 original size:84 final size:85
Alignment explanation
Indices: 12039739--12039944 Score: 263
Period size: 84 Copynumber: 2.4 Consensus size: 85
12039729 ATCGTGGCAG
*
12039739 ATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGTCACAAACCTTATCTCCTTAAAGTTGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGT---AAACCTTATCTCCTTAAAGTTGT
* *
12039804 AGTGGAGTAGATTGAAGTTACAA
63 AGTGGAGCAGATTGAAGCTACAA
* * * * *
12039827 ATCTTATCTTCCT-AAGGGTGCAATGGATCAGATTAAAGT-AACCTTATCTCCTTGAAGTTGTAG
1 ATCTTATCTCCCTGAA-GTTGCAGTGGAACAGATTAAAGTAAACCTTATCTCCTTAAAGTTGTAG
*
12039890 TGGAGCAGGTTGAAGCTACAA
65 TGGAGCAGATTGAAGCTACAA
* *
12039911 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATT
12039945 GAAGCGACAA
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
84 67 0.66
85 2 0.02
87 2 0.02
88 31 0.30
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (85 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGTAAACCTTATCTCCTTAAAGTTGTAGT
GGAGCAGATTGAAGCTACAA
Found at i:12039980 original size:44 final size:44
Alignment explanation
Indices: 12039869--12039988 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 44
12039859 TTAAAGTAAC
* * * * *
12039869 CTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAAGCTACAAAT
1 CTTATATCCCTGAAGTTATAGTGGAGCAGATTGAAGCGACAAAT
* *
12039913 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCGACAAAT
1 CTTATATCCCTGAAGTTATAGTGGAGCAGATTGAAGCGACAAAT
* *
12039957 CTTATATCTCTGAAGTTTTAGTGG-GTCAGATT
1 CTTATATCCCTGAAGTTATAGTGGAG-CAGATT
12039989 AAATCTACCA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
43 1 0.02
44 65 0.98
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (44 bp):
CTTATATCCCTGAAGTTATAGTGGAGCAGATTGAAGCGACAAAT
Found at i:12040382 original size:26 final size:26
Alignment explanation
Indices: 12040353--12040461 Score: 200
Period size: 26 Copynumber: 4.2 Consensus size: 26
12040343 TGATACAAAT
12040353 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12040379 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12040405 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12040431 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12040457 TGATA
1 TGATA
12040462 GGAATTTCAT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12042038 original size:22 final size:21
Alignment explanation
Indices: 12042011--12042051 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
12042001 CATGTTTGAC
12042011 TGTTGTTATTTA-CTGCATGCCA
1 TGTTGTT-TTTATCTG-ATGCCA
12042033 TGTTGTTTTTATCTGATGC
1 TGTTGTTTTTATCTGATGC
12042052 ATGAGATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.51
Consensus pattern (21 bp):
TGTTGTTTTTATCTGATGCCA
Found at i:12043251 original size:44 final size:44
Alignment explanation
Indices: 12043139--12044179 Score: 217
Period size: 45 Copynumber: 22.1 Consensus size: 44
12043129 AGCTACAAGT
* *
12043139 TACAAATCTTATCTCTCTGAAGATACAGTGGAGCAGATTAAAG-
1 TACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * *
12043182 -A-GAA-CATTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGC
1 TACAAATC-TTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * * *
12043224 TACAAATCTCATCTCCCTGAAGCTGCAGTGGAGTAGATTAAAGA
1 TACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * *
12043268 TAACAAATTTTATTTCCCTGAAGTTACAGTGGAACAAATTAAAGC
1 T-ACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * *
12043313 TACAAGCTATAAATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAA-C
1 T---A-C---AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAGC
* * * ** * ** *
12043364 GATAAGTCTTATAC-CTTTGAAGTTGCAGTAGG-TTAGATTAAATC
1 TACAAATCTTAT-CTCCCTGAAGTTACAGT-GGAGCAGATTAAAGC
* *
12043408 TACCATAGCAAGTCTTATCTCCCTAAAGTTACAGTGGAACAGATTAAAGCTAC
1 TA-C--A--AA-TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAG---C
* * ** *
12043461 AAGTTACAAATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGCAGA
1 ----TACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
** * * * * * *
12043509 TAGTGAATCTTATCTCCATGATGTTGCAGTGGAGTAGATTGAAGA
1 TA-CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * *
12043554 TAGCGAATCTTA-CTCCCCTAAAGTTGCAGTGGAACAGATTAAAGC
1 TA-CAAATCTTATCT-CCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * * * *
12043599 TACAAGTTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAGA
1 TAC-------AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * * * ** *
12043650 TAGCGAATCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGC
1 TA-CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * * * *
12043695 TACAAGTTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAGA
1 TAC-------AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * * * ** *
12043746 TAGCGAATCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGC
1 TA-CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * * * *
12043791 TACAAGTTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAGA
1 TAC-------AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * * * ** *
12043842 TAGCGAATCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGC
1 TA-CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * * * *
12043887 TACAAGTTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAGA
1 TAC-------AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * * * ** *
12043938 TAGCGAATCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGC
1 TA-CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * * * *
12043983 TACAAGTTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAGA
1 TAC-------AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * * * ** *
12044034 TAGCGAATCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGC
1 TA-CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * *
12044079 TACAAGTTATAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGA
1 TAC-------AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
* * * * * *
12044130 TAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTGAAGT
1 TA-CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
12044175 TACAA
1 TACAA
12044180 GTTACAAACC
Statistics
Matches: 728, Mismatches: 188, Indels: 163
0.67 0.17 0.15
Matches are distributed among these distances:
40 1 0.00
41 33 0.05
42 1 0.00
43 4 0.01
44 74 0.10
45 309 0.42
47 3 0.00
48 2 0.00
49 4 0.01
50 25 0.03
51 254 0.35
52 13 0.02
53 1 0.00
54 1 0.00
56 1 0.00
57 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (44 bp):
TACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC
Found at i:12043317 original size:89 final size:85
Alignment explanation
Indices: 12043139--12043317 Score: 223
Period size: 85 Copynumber: 2.1 Consensus size: 85
12043129 AGCTACAAGT
* *
12043139 TACAAATCTTATCTCTCTGAAGATACAGTGGAGCAGATTAAAGAGAACATTATCTCCCTGAAGTT
1 TACAAATCTCATCTCCCTGAAGATACAGTGGAGCAGATTAAAGAGAACATTATCTCCCTGAAGTT
* * **
12043204 GCAGTGGAGCGGATTAAAGC
66 ACAGTGGAACAAATTAAAGC
* * * * *
12043224 TACAAATCTCATCTCCCTGAAGCTGCAGTGGAGTAGATTAAAGATAACAAATTTTATTTCCCTGA
1 TACAAATCTCATCTCCCTGAAGATACAGTGGAGCAGATTAAAGAGAAC--A--TTATCTCCCTGA
12043289 AGTTACAGTGGAACAAATTAAAGC
62 AGTTACAGTGGAACAAATTAAAGC
12043313 TACAA
1 TACAA
12043318 GCTATAAATC
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
85 42 0.53
87 1 0.01
89 36 0.46
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (85 bp):
TACAAATCTCATCTCCCTGAAGATACAGTGGAGCAGATTAAAGAGAACATTATCTCCCTGAAGTT
ACAGTGGAACAAATTAAAGC
Found at i:12043358 original size:96 final size:96
Alignment explanation
Indices: 12043110--12044223 Score: 1101
Period size: 96 Copynumber: 11.7 Consensus size: 96
12043100 GGGTGCTACA
** * * * *
12043110 TTGCAGTGGAATAGGCTAAAGCTACAAGTTACAAATCTTATCTCTCTGAAGATACAGTGGAGCAG
1 TTGCAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGCTGCAGTGGAGCAG
* *
12043175 ATT--A-A-AGAGAA-CATTATCTCCCTGAAG
66 ATTGAAGATAGCGAATC-TTATTTCCCTGAAG
*** * *
12043202 TTGCAGTGGAGCGGATTAAAGCTAC-------AAATCTCATCTCCCTGAAGCTGCAGTGGAGTAG
1 TTGCAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGCTGCAGTGGAGCAG
* * * *
12043260 ATTAAAGATAACAAATTTTATTTCCCTGAAG
66 ATTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * * * * *
12043291 TTACAGTGGAACAAATTAAAGCTACAAGCTATAAATCTTATCTTCCTGAAGTTGCAGTGAAGCAG
1 TTGCAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGCTGCAGTGGAGCAG
* * *
12043356 ATTGAAACGATA---AGTCTTA-TACCTTTGAAG
66 ATTG-AA-GATAGCGAATCTTATTTCC-CTGAAG
* * * * * * * * *
12043386 TTGCAGTAGG-TTAGATTAAATCTACCA--TAGCAAGTCTTATCTCCCTAAAGTTACAGTGGAAC
1 TTGCAGT-GGAATAGATTAAAGCTACAAGTTA-TAAATCTTATCTCCCTGAAGCTGCAGTGGAGC
* * * * *
12043448 AGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGATG
64 AGATTGAAG--A-TAG---CGAATCTTATTTCCCTGAAG
** * * * * * *
12043487 TTGCAGTGGAGCAGATT---G---C-AGATAGTGAATCTTATCTCCATGATGTTGCAGTGGAGTA
1 TTGCAGTGGAATAGATTAAAGCTACAAGTTA-TAAATCTTATCTCCCTGAAGCTGCAGTGGAGCA
* * *
12043545 GATTGAAGATAGCGAATCTTACTCCCCTAAAG
65 GATTGAAGATAGCGAATCTTATTTCCCTGAAG
* * *
12043577 TTGCAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAA
1 TTGCAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGCTGCAGTGGAGCAG
*
12043642 ATTGAAGATAGCGAATCTTATTTTCCTGAAG
66 ATTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * *
12043673 TTGCAGTAGAATATATTAAAGCTACAAGTTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAA
1 TTGCAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGCTGCAGTGGAGCAG
*
12043738 ATTGAAGATAGCGAATCTTATTTTCCTGAAG
66 ATTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * *
12043769 TTGCAGTAGAATATATTAAAGCTACAAGTTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAA
1 TTGCAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGCTGCAGTGGAGCAG
*
12043834 ATTGAAGATAGCGAATCTTATTTTCCTGAAG
66 ATTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * *
12043865 TTGCAGTAGAATATATTAAAGCTACAAGTTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAA
1 TTGCAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGCTGCAGTGGAGCAG
*
12043930 ATTGAAGATAGCGAATCTTATTTTCCTGAAG
66 ATTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * *
12043961 TTGCAGTAGAATATATTAAAGCTACAAGTTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAA
1 TTGCAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGCTGCAGTGGAGCAG
*
12044026 ATTGAAGATAGCGAATCTTATTTTCCTGAAG
66 ATTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * *
12044057 TTGCAGTAGAATATATTAAAGCTACAAGTTATAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAG
1 TTGCAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGCTGCAGTGGAGCAG
* *
12044122 ATTGAAGATAGCAAATCTTATTTCTCTGAAG
66 ATTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * * * * * * * *
12044153 TTGCAGTGGAACAGATTGAAGTTACAAGTTACAAACCTTATCTTCCTAAAGTTGCAGCGGAGTAG
1 TTGCAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGCTGCAGTGGAGCAG
12044218 ATTGAA
66 ATTGAA
12044224 ACTACAATTC
Statistics
Matches: 885, Mismatches: 100, Indels: 70
0.84 0.09 0.07
Matches are distributed among these distances:
85 31 0.04
87 1 0.00
88 1 0.00
89 37 0.04
90 30 0.03
92 21 0.02
93 7 0.01
94 36 0.04
95 30 0.03
96 655 0.74
97 6 0.01
98 4 0.00
100 2 0.00
101 22 0.02
102 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (96 bp):
TTGCAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGCTGCAGTGGAGCAG
ATTGAAGATAGCGAATCTTATTTCCCTGAAG
Found at i:12043533 original size:45 final size:45
Alignment explanation
Indices: 12043469--12044173 Score: 335
Period size: 45 Copynumber: 14.9 Consensus size: 45
12043459 ACAAGTTACA
* *
12043469 AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGCAGATAGTG
1 AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGCG
* *
12043514 AATCTTATCTCCATGATGTTGCAGTGGAGTAGATTGAAGATAGCG
1 AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGCG
* * * * *
12043559 AATCTTA-CTCCCCTAAAGTTGCAGTGGAACAGATTAAAGCTA-CAAG
1 AATCTTATCT-CCCTGATGTTGCAGTGGAGCAGATTGAAGATAGC--G
* *
12043605 TTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAGATAGCG
1 -----AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGCG
* * * * ** * * *
12043655 AATCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGCTA-CAAG
1 AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGC--G
* *
12043701 TTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAGATAGCG
1 -----AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGCG
* * * * ** * * *
12043751 AATCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGCTA-CAAG
1 AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGC--G
* *
12043797 TTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAGATAGCG
1 -----AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGCG
* * * * ** * * *
12043847 AATCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGCTA-CAAG
1 AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGC--G
* *
12043893 TTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAGATAGCG
1 -----AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGCG
* * * * ** * * *
12043943 AATCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGCTA-CAAG
1 AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGC--G
* *
12043989 TTATAAATCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAGATAGCG
1 -----AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGCG
* * * * ** * * *
12044039 AATCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGCTA-CAAG
1 AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGC--G
* * *
12044085 TTATAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCA
1 -----AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGCG
* * * *
12044135 AATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTGAAG
1 AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAG
12044174 TTACAAGTTA
Statistics
Matches: 488, Mismatches: 122, Indels: 100
0.69 0.17 0.14
Matches are distributed among these distances:
44 8 0.02
45 268 0.55
46 6 0.01
50 5 0.01
51 193 0.40
52 8 0.02
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (45 bp):
AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGCG
Found at i:12044220 original size:51 final size:50
Alignment explanation
Indices: 12043420--12044223 Score: 290
Period size: 45 Copynumber: 16.7 Consensus size: 50
12043410 CCATAGCAAG
* * *
12043420 TCTTATCTCCCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGTTACAAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAAG-TACAAGTTACAAA
* * * * * * *
12043471 TCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGCAG-A-TAG-T--GAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAAGTACAAGTTACAAA
* * ** * *
12043516 TCTTATC-TCCATGATGTTGCAGTGGAGTAGATTGAAG-A-TAG---CGAA
1 TCTTATCTTCC-TAAAGTTGCAGTGGAACAGATTGAAGTACAAGTTACAAA
* * *
12043561 TCTTA-CTCCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATAAA
1 TCTTATCT-TCCTAAAGTTGCAGTGGAACAGATTGAAG-TACAAGTTACAAA
* * * * * * * *
12043612 TCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAG-A-TAG---CGAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAAGTACAAGTTACAAA
* * * * * * *
12043657 TCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGCTACAAGTTATAAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAAG-TACAAGTTACAAA
* * * * * * * *
12043708 TCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAG-A-TAG---CGAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAAGTACAAGTTACAAA
* * * * * * *
12043753 TCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGCTACAAGTTATAAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAAG-TACAAGTTACAAA
* * * * * * * *
12043804 TCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAG-A-TAG---CGAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAAGTACAAGTTACAAA
* * * * * * *
12043849 TCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGCTACAAGTTATAAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAAG-TACAAGTTACAAA
* * * * * * * *
12043900 TCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAG-A-TAG---CGAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAAGTACAAGTTACAAA
* * * * * * *
12043945 TCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGCTACAAGTTATAAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAAG-TACAAGTTACAAA
* * * * * * * *
12043996 TCTTATCTCCCTGATGCTGCAGTGGAGCAAATTGAAG-A-TAG---CGAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAAGTACAAGTTACAAA
* * * * * * *
12044041 TCTTATTTTCCTGAAGTTGCAGTAGAATATATTAAAGCTACAAGTTATAAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAAG-TACAAGTTACAAA
* * *
12044092 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-A-TAG---CAAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAAGTACAAGTTACAAA
*
12044137 TCTTAT-TTCTCTGAAGTTGCAGTGGAACAGATTGAAGTTACAAGTTACAAA
1 TCTTATCTTC-CTAAAGTTGCAGTGGAACAGATTGAAG-TACAAGTTACAAA
* * **
12044188 CCTTATCTTCCTAAAGTTGCAGCGGAGTAGATTGAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAA
12044224 ACTACAATTC
Statistics
Matches: 548, Mismatches: 156, Indels: 98
0.68 0.19 0.12
Matches are distributed among these distances:
44 5 0.01
45 250 0.46
46 2 0.00
47 8 0.01
48 28 0.05
49 7 0.01
51 243 0.44
52 5 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (50 bp):
TCTTATCTTCCTAAAGTTGCAGTGGAACAGATTGAAGTACAAGTTACAAA
Found at i:12045773 original size:26 final size:26
Alignment explanation
Indices: 12045727--12045776 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
12045717 TATTATTTTA
* *
12045727 TTATTTTATTTATTATTTGTTTGCCT
1 TTATTTTATTTATCATATGTTTGCCT
12045753 TTATTTTATTT-TCATAATGTTTGC
1 TTATTTTATTTATCAT-ATGTTTGC
12045777 ACTTCCATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 18 0.86
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.66
Consensus pattern (26 bp):
TTATTTTATTTATCATATGTTTGCCT
Found at i:12048806 original size:10 final size:10
Alignment explanation
Indices: 12048793--12048823 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
12048783 GATTAAAAAA
12048793 AGAAAAGAAT
1 AGAAAAGAAT
*
12048803 AGAATAGAAT
1 AGAAAAGAAT
12048813 AGAAAAGAAT
1 AGAAAAGAAT
12048823 A
1 A
12048824 AGAACCAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.13
Consensus pattern (10 bp):
AGAAAAGAAT
Found at i:12049280 original size:14 final size:15
Alignment explanation
Indices: 12049261--12049289 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12049251 GTTTCCATTT
12049261 TCTTTCT-TCTTCCC
1 TCTTTCTCTCTTCCC
12049275 TCTTTCTCTCTTCCC
1 TCTTTCTCTCTTCCC
12049290 ATGCAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTCTCTCTTCCC
Found at i:12055604 original size:24 final size:23
Alignment explanation
Indices: 12055577--12055702 Score: 110
Period size: 24 Copynumber: 5.3 Consensus size: 23
12055567 TTACTAGATA
12055577 TGCGGATTTAAGTGGCACTATGTG
1 TGCGGATTTAA-TGGCACTATGTG
* *
12055601 TGCGTATTTGTATGGCACTATGTG
1 TGCGGATTT-AATGGCACTATGTG
* * *
12055625 AGCGTATTTGTATGGCACTATGTG
1 TGCGGATTT-AATGGCACTATGTG
* *
12055649 TGCGTATATGTAA-GGCACTATGTC
1 TGCGGAT-T-TAATGGCACTATGTG
* *
12055673 TGCGGAATTATTTGGCACTATGTG
1 TGCGGATTTA-ATGGCACTATGTG
12055697 TGCGGA
1 TGCGGA
12055703 GTTGAATCGT
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
22 2 0.02
23 1 0.01
24 80 0.92
25 3 0.03
26 1 0.01
ACGTcount: A:0.21, C:0.13, G:0.30, T:0.36
Consensus pattern (23 bp):
TGCGGATTTAATGGCACTATGTG
Found at i:12055666 original size:48 final size:48
Alignment explanation
Indices: 12055589--12055700 Score: 152
Period size: 48 Copynumber: 2.3 Consensus size: 48
12055579 CGGATTTAAG
* * * * * *
12055589 TGGCACTATGTGTGCGTATTTGTATGGCACTATGTGAGCGTATTTGTA
1 TGGCACTATGTGTGCGTATATGTAAGGCACTATGTCAGCGGAATTATA
* *
12055637 TGGCACTATGTGTGCGTATATGTAAGGCACTATGTCTGCGGAATTATT
1 TGGCACTATGTGTGCGTATATGTAAGGCACTATGTCAGCGGAATTATA
12055685 TGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
12055701 GAGTTGAATC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.20, C:0.14, G:0.29, T:0.37
Consensus pattern (48 bp):
TGGCACTATGTGTGCGTATATGTAAGGCACTATGTCAGCGGAATTATA
Found at i:12067885 original size:43 final size:44
Alignment explanation
Indices: 12067806--12067964 Score: 150
Period size: 44 Copynumber: 3.7 Consensus size: 44
12067796 AGCTCGTACA
* * *
12067806 ATGCCAAC-ATCCCAAAACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACTGTCCC-AAACATGGTCTTACATGAAATCAAATATCG
*
12067850 ATGCC-ACTGTCCCAAACATGGTCTTACATGAAATCAAATA-AG
1 ATGCCAACTGTCCCAAACATGGTCTTACATGAAATCAAATATCG
* * * *
12067892 ATGCCGA-TGTCTCAGACATGGTCTTACACGTAAATCATAAT-TCG
1 ATGCCAACTGTCCCAAACATGGTCTTACATG-AAATCA-AATATCG
* * *
12067936 ATGCCAAC-GTCCTATACGTGGTCTTACAT
1 ATGCCAACTGTCCCAAACATGGTCTTACAT
12067965 AAAAACACAT
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
42 26 0.27
43 34 0.36
44 35 0.37
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (44 bp):
ATGCCAACTGTCCCAAACATGGTCTTACATGAAATCAAATATCG
Found at i:12067911 original size:42 final size:43
Alignment explanation
Indices: 12067815--12067964 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 43
12067805 AATGCCAACA
* * *
12067815 TCCCAAAACGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCC-AAACATGGTCTTACATGAAATCAAATATAGATGCCACTG
12067859 TCCCAAACATGGTCTTACATGAAATCAAATA-AGATGCCGA-TG
1 TCCCAAACATGGTCTTACATGAAATCAAATATAGATGCC-ACTG
* * * *
12067901 TCTCAGACATGGTCTTACACGTAAATCATAAT-TCGATGCCAAC-G
1 TCCCAAACATGGTCTTACATG-AAATCA-AATATAGATGCC-ACTG
* * *
12067945 TCCTATACGTGGTCTTACAT
1 TCCCAAACATGGTCTTACAT
12067965 AAAAACACAT
Statistics
Matches: 88, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
42 26 0.30
43 32 0.36
44 30 0.34
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
TCCCAAACATGGTCTTACATGAAATCAAATATAGATGCCACTG
Found at i:12069269 original size:29 final size:29
Alignment explanation
Indices: 12069212--12069270 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
12069202 CGATGTCGCT
* *
12069212 TGACAGCGTCCCTCCACCTGGGCATTGCC
1 TGACAGCATCCCTCCACCTGGGCAGTGCC
* *
12069241 TGACAGCATCCCTCTACCTGGGCGGTGCC
1 TGACAGCATCCCTCCACCTGGGCAGTGCC
12069270 T
1 T
12069271 AACAAGTCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.14, C:0.39, G:0.25, T:0.22
Consensus pattern (29 bp):
TGACAGCATCCCTCCACCTGGGCAGTGCC
Found at i:12072657 original size:21 final size:21
Alignment explanation
Indices: 12072631--12072673 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
12072621 ACACCGTTAA
*
12072631 TGAATTACTAAACCAATCAAT
1 TGAATTACTAAACCAACCAAT
12072652 TGAATTACTAAACCAACCAAT
1 TGAATTACTAAACCAACCAAT
12072673 T
1 T
12072674 AAAAATCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.21, G:0.05, T:0.28
Consensus pattern (21 bp):
TGAATTACTAAACCAACCAAT
Found at i:12076175 original size:30 final size:30
Alignment explanation
Indices: 12076129--12076222 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
12076119 TTTTATTATG
*
12076129 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
12076160 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
12076190 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12076220 CCA
1 CCA
12076223 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:12076184 original size:15 final size:15
Alignment explanation
Indices: 12076139--12076216 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
12076129 CCAATATCTC
12076139 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
12076154 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
12076169 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
12076184 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
12076199 GATACCCATATCTTT
1 GATACCCATATCTTT
12076214 GAT
1 GAT
12076217 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:12080842 original size:30 final size:30
Alignment explanation
Indices: 12080792--12081665 Score: 1694
Period size: 30 Copynumber: 29.1 Consensus size: 30
12080782 TTTTATTATG
* *
12080792 CCAATATCTCGATACTCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
12080823 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12080853 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12080883 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12080913 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12080943 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12080973 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081003 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081033 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081063 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081093 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081123 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081153 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081183 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081213 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081243 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081273 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081303 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081333 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081363 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081393 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081423 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081453 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081483 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081513 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081543 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081573 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081603 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
12081633 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12081663 CCA
1 CCA
12081666 TAAATATGGA
Statistics
Matches: 837, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
30 830 0.99
31 7 0.01
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:12084148 original size:126 final size:126
Alignment explanation
Indices: 12083920--12084176 Score: 370
Period size: 126 Copynumber: 2.0 Consensus size: 126
12083910 ACACGGCCAG
* * * * *
12083920 GACACACGCCCGTGTCTCTGCCCGTATGCTCAATTTTGAGCATTCTGTTTCTTAAATTTTAAGAT
1 GACACACGCCCGTGTCTCTGCCCGTATGCTCAATTCTAAGCATTATGTTTCTCAAATTTTAAAAT
* * * * *
12083985 GCAAGTGACATACAACCAAACCACATGCCCGTACGCATGGTCGTGTGTCACACACAGTTGA
66 GCAAGGGACACACAACCAAACCACACGCCCGTACGCATAGCCGTGTGTCACACACAGTTGA
* * *
12084046 GACACACGCCCGTGTCTCTGCCGGTGTGCTTAATTCTAAGCATTATGTTTCTCAAATTTTAAAAT
1 GACACACGCCCGTGTCTCTGCCCGTATGCTCAATTCTAAGCATTATGTTTCTCAAATTTTAAAAT
* * *
12084111 GCAAGGGACACACAGCCAAACCACACGCCCGTGCGCATAGCCGTGTGTCACACACGGTTGA
66 GCAAGGGACACACAACCAAACCACACGCCCGTACGCATAGCCGTGTGTCACACACAGTTGA
12084172 GACAC
1 GACAC
12084177 GCACCAGTAT
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
126 115 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (126 bp):
GACACACGCCCGTGTCTCTGCCCGTATGCTCAATTCTAAGCATTATGTTTCTCAAATTTTAAAAT
GCAAGGGACACACAACCAAACCACACGCCCGTACGCATAGCCGTGTGTCACACACAGTTGA
Found at i:12086495 original size:13 final size:13
Alignment explanation
Indices: 12086465--12086489 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12086455 TAATATATTT
12086465 ATTAATTAAAAAC
1 ATTAATTAAAAAC
12086478 ATTAATTAAAAA
1 ATTAATTAAAAA
12086490 TTTTAAAACA
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:12088958 original size:9 final size:9
Alignment explanation
Indices: 12088946--12088975 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
12088936 AAAATATATC
12088946 AAAAATAAA
1 AAAAATAAA
12088955 AAAAAT-AA
1 AAAAATAAA
12088963 AAAAATAAA
1 AAAAATAAA
12088972 AAAA
1 AAAA
12088976 TTACCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAATAAA
Found at i:12088964 original size:8 final size:8
Alignment explanation
Indices: 12088946--12088976 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
12088936 AAAATATATC
12088946 AAAAATAAA
1 AAAAAT-AA
12088955 AAAAATAA
1 AAAAATAA
12088963 AAAAATAA
1 AAAAATAA
12088971 AAAAAT
1 AAAAAT
12088977 TACCTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.73
9 6 0.27
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAATAA
Found at i:12089507 original size:3 final size:3
Alignment explanation
Indices: 12089495--12089756 Score: 105
Period size: 3 Copynumber: 88.0 Consensus size: 3
12089485 TTATTTCAGC
* *
12089495 TAT T-T TAT TAT TA- AAT TAAT TAAT T-T TAT TAT TAT T-T AAT TAAT
1 TAT TAT TAT TAT TAT TAT T-AT T-AT TAT TAT TAT TAT TAT TAT T-AT
* * *
12089539 TAAT T-T TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAG TAG
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * * * * *
12089584 TAG TAG TAG TAG TAG TAG TAG TAT TCT TAT CAT TCT TAT TAT CAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
12089632 CT-T TAC TAT TAT TAT TAT T-G TAT TGT TAT TAT TAT TTT CTAT T-T
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * * *
12089676 TAT TAT TAT T-G TAT TAT TTT TAT TAT CAT CAT TAT TA- TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
12089721 AAT CAAT TAAT TAAA TAT TAT TAT TAC TAT TAT TAT
1 TAT -TAT T-AT T-AT TAT TAT TAT TAT TAT TAT TAT
12089757 ATTTCTCTTC
Statistics
Matches: 205, Mismatches: 37, Indels: 34
0.74 0.13 0.12
Matches are distributed among these distances:
2 16 0.08
3 163 0.80
4 26 0.13
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:12089660 original size:11 final size:11
Alignment explanation
Indices: 12089641--12089701 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
12089631 TCTTTACTAT
12089641 TATTATTATTG
1 TATTATTATTG
* *
12089652 TATTGTTATTAT
1 TATTATTATT-G
* *
12089664 TATTTTCTATTT
1 TATTAT-TATTG
12089676 TATTATTATTG
1 TATTATTATTG
12089687 TATTATT-TT-
1 TATTATTATTG
12089696 TATTAT
1 TATTAT
12089702 CATCATTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
9 6 0.14
10 2 0.05
11 20 0.47
12 11 0.26
13 4 0.09
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.69
Consensus pattern (11 bp):
TATTATTATTG
Found at i:12089709 original size:26 final size:26
Alignment explanation
Indices: 12089661--12089719 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
12089651 GTATTGTTAT
* * *
12089661 TATTATTTTCTATTTTATTATTATTG
1 TATTATTTTCTATTTCATCATTATTA
12089687 TATTATTTT-TATTATCATCATTATTA
1 TATTATTTTCTATT-TCATCATTATTA
12089713 TATTATT
1 TATTATT
12089720 AAATCAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (26 bp):
TATTATTTTCTATTTCATCATTATTA
Found at i:12089711 original size:32 final size:33
Alignment explanation
Indices: 12089637--12089713 Score: 93
Period size: 35 Copynumber: 2.3 Consensus size: 33
12089627 ATTGTCTTTA
* **
12089637 CTATTATTATTATTGTATTGTTATTATTATTTT
1 CTATTATTATTATTGTATTATTATTATTATCAT
*
12089670 CTATTTTATTATTATTGTATTATTTTTATTATCAT
1 CTA--TTATTATTATTGTATTATTATTATTATCAT
12089705 C-ATTATTAT
1 CTATTATTAT
12089714 ATTATTAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 7 0.18
33 3 0.08
34 1 0.03
35 27 0.71
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (33 bp):
CTATTATTATTATTGTATTATTATTATTATCAT
Found at i:12089719 original size:29 final size:26
Alignment explanation
Indices: 12089658--12089720 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 26
12089648 ATTGTATTGT
12089658 TATTATTATTTTCTATTTTATTATTA
1 TATTATTATTTTCTATTTTATTATTA
12089684 T-TGTATTATTTT-TATTATCATCATTATTA
1 TAT-TATTATTTTCTATT-T--T-ATTATTA
12089713 TATTATTA
1 TATTATTA
12089721 AATCAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
25 5 0.16
26 11 0.35
28 1 0.03
29 13 0.42
30 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (26 bp):
TATTATTATTTTCTATTTTATTATTA
Found at i:12092845 original size:29 final size:30
Alignment explanation
Indices: 12092798--12092865 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
12092788 TGGCCCAAGA
* *
12092798 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
12092828 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
12092858 GCAAATAT
1 GTAAATAT
12092866 TTTAAGAGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:12095347 original size:46 final size:46
Alignment explanation
Indices: 12095293--12095565 Score: 368
Period size: 46 Copynumber: 5.9 Consensus size: 46
12095283 GTGTGCTCTC
* *
12095293 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
12095339 TAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
12095385 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
12095431 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
12095477 TGATATGTAATGAATAAGACCATGGTTGAAAGATACCATTGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
12095523 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
12095566 TCATTTCAAA
Statistics
Matches: 204, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 203 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:12095872 original size:16 final size:17
Alignment explanation
Indices: 12095851--12095883 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12095841 ATGATGGAGC
12095851 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
12095867 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
12095884 TATACTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:12102541 original size:46 final size:46
Alignment explanation
Indices: 12101626--12102589 Score: 1360
Period size: 46 Copynumber: 21.0 Consensus size: 46
12101616 AGTGTGCTCT
** *
12101626 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12101672 CTGATATGAAATGTGTAAGACCATTGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
12101718 CTTATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12101764 CTGATATGAAATGTGTAAGACCATTGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
12101810 CTTATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12101856 CTGATATGAAATGTGTAAGACCATTGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
12101902 CTTATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12101948 CTGATATGAAATGTGTAAGACCATTGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
12101994 CTTATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12102040 CTGATATGAAATGTGTAAGACCATTGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
12102086 CTTATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12102132 CTGATATGAAATGTGTAAGACCATTGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
12102178 CTTATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12102224 CTGATATGAAATGTGTAAGACCATTGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
12102270 CTTATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
12102316 CTGATATGAAATGTGTAAGACCATTGTTGAAAGATA--AGTGTGC-TC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCA-TG-GCAAC
** *
12102361 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGC
1 -CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12102408 CTGATATGAAATGTGTAAGACCATTGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12102454 CTTATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
12102500 GTGATATGAAATGAACAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
12102546 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
12102590 TCATGTTAAA
Statistics
Matches: 813, Mismatches: 98, Indels: 14
0.88 0.11 0.02
Matches are distributed among these distances:
44 1 0.00
45 4 0.00
46 804 0.99
47 3 0.00
48 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:12102589 original size:92 final size:92
Alignment explanation
Indices: 12101629--12102579 Score: 1694
Period size: 92 Copynumber: 10.3 Consensus size: 92
12101619 GTGCTCTCTG
12101629 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
12101694 ATTGTTGAAAGATACCATGGCAACCTT
66 ATTGTTGAAAGATACCATGGCAACCTT
12101721 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
12101786 ATTGTTGAAAGATACCATGGCAACCTT
66 ATTGTTGAAAGATACCATGGCAACCTT
12101813 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
12101878 ATTGTTGAAAGATACCATGGCAACCTT
66 ATTGTTGAAAGATACCATGGCAACCTT
12101905 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
12101970 ATTGTTGAAAGATACCATGGCAACCTT
66 ATTGTTGAAAGATACCATGGCAACCTT
12101997 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
12102062 ATTGTTGAAAGATACCATGGCAACCTT
66 ATTGTTGAAAGATACCATGGCAACCTT
12102089 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
12102154 ATTGTTGAAAGATACCATGGCAACCTT
66 ATTGTTGAAAGATACCATGGCAACCTT
12102181 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
12102246 ATTGTTGAAAGATACCATGGCAACCTT
66 ATTGTTGAAAGATACCATGGCAACCTT
12102273 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
* *
12102338 ATTGTTGAAAGATA--AGTGTGC-TCTCTG
66 ATTGTTGAAAGATACCA-TG-GCAAC-CTT
12102365 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
12102430 ATTGTTGAAAGATACCATGGCAACCTT
66 ATTGTTGAAAGATACCATGGCAACCTT
** * * *** *
12102457 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAGATC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
* * *
12102522 ATGGTTGAAAGATACCATGGCAACATG
66 ATTGTTGAAAGATACCATGGCAACCTT
* * *
12102549 ACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATATG-AAATGTGTAAGACCATGGTTGAAAGA
12102580 CACTATGGCA
Statistics
Matches: 834, Mismatches: 18, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
90 1 0.00
91 4 0.00
92 825 0.99
93 3 0.00
94 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (92 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGATAGCCTGATATGAAATGTGTAAGACC
ATTGTTGAAAGATACCATGGCAACCTT
Found at i:12102841 original size:17 final size:16
Alignment explanation
Indices: 12102809--12102842 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12102799 AATGATGGAG
*
12102809 AATGAAATATTGATAT
1 AATGAAATAATGATAT
12102825 AATGAAATGAATGATAT
1 AATGAAAT-AATGATAT
12102842 A
1 A
12102843 TGCTTATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (16 bp):
AATGAAATAATGATAT
Found at i:12108936 original size:93 final size:93
Alignment explanation
Indices: 12108821--12108991 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
12108811 GCCCATAAGT
* *
12108821 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
12108886 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
12108914 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
12108979 CGAGTTCGGATGC
66 CGAGCTCGGATGC
12108992 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:12108988 original size:46 final size:46
Alignment explanation
Indices: 12108813--12108988 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
12108803 TGTAACCCGC
* * *
12108813 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
12108859 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
12108909 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
12108952 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
12108989 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 65 0.59
47 28 0.25
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:12110459 original size:44 final size:44
Alignment explanation
Indices: 12110312--12110753 Score: 189
Period size: 44 Copynumber: 9.8 Consensus size: 44
12110302 AAATTACAAG
* * * **
12110312 TCTTATCTCCCTGAAATTGCAGTAGAGCAGACTGAATATAGTGAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-TGAA
* * * * *
12110357 TCTTTTCTCTCTGAAGTTACAGTAAAGTAGATTAAAGCTATGAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATGAA
* * *
12110401 TATTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTAT-AA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATGAA
* * * * * * **
12110444 GTCTTTTCTCCCTGAAGTTGAAGTGGAGCA-CTCTGAAGATAACAAA
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT-TAAAGCT-ATGAA
* * * * * * *
12110490 TCTTATATCTCTGACA-TTGCGGTGGAACATATTAAAGCTACAAATTACAAA
1 TCTTATCTCCCTGA-AGTTGCAGTAGAGCAGATTAAAGCT----A-T--GAA
* * * * *
12110541 TCTCATCTCCTTGAAGTAGCAGTAGAGCAGATTGAAGTTAT-AGA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATGA-A
* * ** * * * *
12110585 TCTTATCTCCTTGTAGTTGCAGTAGAATAGATTGAAGATAGCGAC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-TGAA
* * * *
12110630 TCTTATCTCCCTAAAGTTACAAG-AGAGCAGATTGAAGCTATTAA
1 TCTTATCTCCCTGAAGTTGC-AGTAGAGCAGATTAAAGCTATGAA
* * * * **
12110674 TCCTATCCCCCTGAAGTTGCAGTGGAGCGGATTAAAGC-AACATA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATGA-A
* *
12110718 TCCTATAC-CTCTGAAGTTGCAGTAG-GTCAGATTAAA
1 TCTTAT-CTCCCTGAAGTTGCAGTAGAG-CAGATTAAA
12110754 TCCACTATAA
Statistics
Matches: 300, Mismatches: 76, Indels: 43
0.72 0.18 0.10
Matches are distributed among these distances:
43 9 0.03
44 162 0.54
45 88 0.29
46 8 0.03
47 1 0.00
48 2 0.01
50 1 0.00
51 29 0.10
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATGAA
Found at i:12112150 original size:3 final size:3
Alignment explanation
Indices: 12112138--12112309 Score: 83
Period size: 3 Copynumber: 58.0 Consensus size: 3
12112128 TTATTTCAGC
* *
12112138 TAT T-T TAT TAT TA- AAT TAAT TAAT T-T TAA TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT T-AT TAT TAT TAT TAT TAT TAT TAT
* * * * *
12112182 TAT TGT CT-T TAC TAT TAT TAT TAT T-G TAT TGT TAT TAT TAT TTT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * **
12112226 CTAT T-T TAT TAT TAT T-G TAT TAT TAT TAT CAT CGT TAT TA- TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
12112269 TAT TA- AAT CAAT TAAT TAAA TAT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT -TAT T-AT T-AT TAT TAT TAT TAT TAT TAT TAT
12112310 ATTTCTCTTT
Statistics
Matches: 130, Mismatches: 25, Indels: 28
0.71 0.14 0.15
Matches are distributed among these distances:
2 13 0.10
3 98 0.75
4 19 0.15
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:12112216 original size:11 final size:11
Alignment explanation
Indices: 12112167--12112252 Score: 63
Period size: 11 Copynumber: 7.9 Consensus size: 11
12112157 TTAATTTTAA
12112167 TATTATTA-T-
1 TATTATTATTG
12112176 TATTATTATTG
1 TATTATTATTG
* *
12112187 TCTTTACTA-T-
1 T-ATTATTATTG
12112197 TATTATTATTG
1 TATTATTATTG
* *
12112208 TATTGTTATTAT
1 TATTATTATT-G
* *
12112220 TATTTTCTATTT
1 TATTAT-TATTG
12112232 TATTATTATTG
1 TATTATTATTG
12112243 TATTATTATT
1 TATTATTATT
12112253 ATCATCGTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
9 13 0.21
10 3 0.05
11 25 0.41
12 16 0.26
13 4 0.07
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTATTG
Found at i:12112216 original size:14 final size:14
Alignment explanation
Indices: 12112197--12112254 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
12112187 TCTTTACTAT
12112197 TATTATTATTGTATTG
1 TATTATTA-T-TATTG
*
12112213 TTATTATTATT-TTC
1 -TATTATTATTATTG
12112227 TATTTTATTATTATTG
1 TA--TTATTATTATTG
12112243 TATTATTATTAT
1 TATTATTATTAT
12112255 CATCGTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 2 0.06
14 12 0.33
15 9 0.25
16 5 0.14
17 8 0.22
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (14 bp):
TATTATTATTATTG
Found at i:12112220 original size:38 final size:35
Alignment explanation
Indices: 12112170--12112254 Score: 116
Period size: 35 Copynumber: 2.3 Consensus size: 35
12112160 ATTTTAATAT
*
12112170 TATTATTATTATTATTGTCTTTACTATTATTATTATTG
1 TATTATTATTATTATT-T-TCTA-TATTATTATTATTG
* *
12112208 TATTGTTATTATTATTTTCTATTTTATTATTATTG
1 TATTATTATTATTATTTTCTATATTATTATTATTG
12112243 TATTATTATTAT
1 TATTATTATTAT
12112255 CATCGTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
35 24 0.56
36 3 0.07
37 1 0.02
38 15 0.35
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.66
Consensus pattern (35 bp):
TATTATTATTATTATTTTCTATATTATTATTATTG
Found at i:12113939 original size:19 final size:18
Alignment explanation
Indices: 12113902--12113940 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
12113892 ACAAATCGAG
*
12113902 TTATTCGAATTAATCAAA
1 TTATTCGAATCAATCAAA
*
12113920 TTATTCGAGTCAACTCAAA
1 TTATTCGAATCAA-TCAAA
12113939 TT
1 TT
12113941 TTTTTTCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (18 bp):
TTATTCGAATCAATCAAA
Found at i:12114285 original size:78 final size:77
Alignment explanation
Indices: 12114162--12114315 Score: 204
Period size: 78 Copynumber: 2.0 Consensus size: 77
12114152 AAAATCATTT
* * **
12114162 CCCCCCGAAATTTTACTCTCCCATTTACTCCCCCCTCAAAATTTTACT-TCCTCAATCCTGAAAA
1 CCCCCCCAAATTTTACTCTCCCATTTACTCCCCCCTCAAAATTTTACTCT-CTCAACCCCCAAAA
*
12114226 CTTTTTATTTTCC
65 CTTATTATTTTCC
* *
12114239 CCCCCCCAAATTTTACTCTCCCCATTTACTTTCCTCC-CAAAATTTTACTCTCTCAACCCCCAAA
1 CCCCCCCAAATTTTACTCT-CCCATTTAC-TCCCCCCTCAAAATTTTACTCTCTCAACCCCCAAA
12114303 ACTTATTATTTTC
64 ACTTATTATTTTC
12114316 TCCCTAAACT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
77 18 0.27
78 43 0.64
79 6 0.09
ACGTcount: A:0.24, C:0.38, G:0.01, T:0.37
Consensus pattern (77 bp):
CCCCCCCAAATTTTACTCTCCCATTTACTCCCCCCTCAAAATTTTACTCTCTCAACCCCCAAAAC
TTATTATTTTCC
Found at i:12114776 original size:18 final size:19
Alignment explanation
Indices: 12114747--12114783 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
12114737 AAAGTTAATA
*
12114747 ACAAATTTGATTATGGTGG
1 ACAAATTTGATTACGGTGG
12114766 ACAAA-TTGATTACGGTGG
1 ACAAATTTGATTACGGTGG
12114784 GTGATAGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.32
Consensus pattern (19 bp):
ACAAATTTGATTACGGTGG
Found at i:12119689 original size:32 final size:32
Alignment explanation
Indices: 12119648--12119711 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
12119638 GAAAGATTAA
12119648 AATCCTCTATGTTCTTTTTGTTCCTTTTGAGC
1 AATCCTCTATGTTCTTTTTGTTCCTTTTGAGC
12119680 AATCCTCTATGTTCTTTTTGTTCCTTTTGAGC
1 AATCCTCTATGTTCTTTTTGTTCCTTTTGAGC
12119712 CAGGAGGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.12, C:0.22, G:0.12, T:0.53
Consensus pattern (32 bp):
AATCCTCTATGTTCTTTTTGTTCCTTTTGAGC
Found at i:12122539 original size:21 final size:21
Alignment explanation
Indices: 12122515--12122556 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
12122505 TTCCAAGAGA
12122515 ACTCTTCAAGCATCTCAAAAT
1 ACTCTTCAAGCATCTCAAAAT
12122536 ACTCTTCAAGCATCTCAAAAT
1 ACTCTTCAAGCATCTCAAAAT
12122557 TTGAAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.29
Consensus pattern (21 bp):
ACTCTTCAAGCATCTCAAAAT
Found at i:12129489 original size:34 final size:32
Alignment explanation
Indices: 12129430--12129497 Score: 75
Period size: 34 Copynumber: 2.0 Consensus size: 32
12129420 TTTCATCATC
* *
12129430 AAACACAAAAATCATCAAGCTTTCAACAATGTCA
1 AAACACAAAAATCATCAA-CATTCAAAAAT-TCA
12129464 AAACACAAAATCATCATCAA-ATTCAAAAATTCA
1 AAACACAAAA--ATCATCAACATTCAAAAATTCA
12129497 A
1 A
12129498 GCATGGGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
33 4 0.13
34 18 0.60
36 8 0.27
ACGTcount: A:0.54, C:0.22, G:0.03, T:0.21
Consensus pattern (32 bp):
AAACACAAAAATCATCAACATTCAAAAATTCA
Found at i:12138736 original size:164 final size:164
Alignment explanation
Indices: 12138465--12138794 Score: 651
Period size: 164 Copynumber: 2.0 Consensus size: 164
12138455 TGTCATTCAG
12138465 CTTGTGAGATGTTAGCTGAAAAGAAAGATGAAACACCTTTGTCCCTTGAGTCATTGTACTCTCGG
1 CTTGTGAGATGTTAGCTGAAAAGAAAGATGAAACACCTTTGTCCCTTGAGTCATTGTACTCTCGG
12138530 TAGTTGTTTCAAAGGTAGAACTTTCTTCCTCTGTTTGATTATTGGATCTCTTATCTCCAGTGAAG
66 TAGTTGTTTCAAAGGTAGAACTTTCTTCCTCTGTTTGATTATTGGATCTCTTATCTCCAGTGAAG
*
12138595 GTTGTTTTAACCATGATGTTATTAGAGTTTTAAC
131 GTTGTTTTAACCATGATGTTATTAGAGATTTAAC
12138629 CTTGTGAGATGTTAGCTGAAAAGAAAGATGAAACACCTTTGTCCCTTGAGTCATTGTACTCTCGG
1 CTTGTGAGATGTTAGCTGAAAAGAAAGATGAAACACCTTTGTCCCTTGAGTCATTGTACTCTCGG
12138694 TAGTTGTTTCAAAGGTAGAACTTTCTTCCTCTGTTTGATTATTGGATCTCTTATCTCCAGTGAAG
66 TAGTTGTTTCAAAGGTAGAACTTTCTTCCTCTGTTTGATTATTGGATCTCTTATCTCCAGTGAAG
12138759 GTTGTTTTAACCATGATGTTATTAGAGATTTAAC
131 GTTGTTTTAACCATGATGTTATTAGAGATTTAAC
12138793 CT
1 CT
12138795 AGCTCAGATG
Statistics
Matches: 165, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 165 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (164 bp):
CTTGTGAGATGTTAGCTGAAAAGAAAGATGAAACACCTTTGTCCCTTGAGTCATTGTACTCTCGG
TAGTTGTTTCAAAGGTAGAACTTTCTTCCTCTGTTTGATTATTGGATCTCTTATCTCCAGTGAAG
GTTGTTTTAACCATGATGTTATTAGAGATTTAAC
Found at i:12138989 original size:19 final size:19
Alignment explanation
Indices: 12138965--12139010 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
12138955 AGAATATCTC
*
12138965 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTAACTAAA
12138984 TAAGATTTATCTAACTAAA
1 TAAGATTTATCTAACTAAA
12139003 TAA-ATTTA
1 TAAGATTTA
12139011 AAATATATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (19 bp):
TAAGATTTATCTAACTAAA
Found at i:12145150 original size:16 final size:18
Alignment explanation
Indices: 12145124--12145156 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12145114 CATATTTCAT
12145124 AAATAAAATTT-TATAAA
1 AAATAAAATTTATATAAA
12145141 AAAT-AAATTTATATAA
1 AAATAAAATTTATATAA
12145157 TTTAACCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATAAAATTTATATAAA
Found at i:12150171 original size:16 final size:16
Alignment explanation
Indices: 12150150--12150181 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12150140 GAGTTACCGA
*
12150150 TTCATTTATCAGATAT
1 TTCATTAATCAGATAT
12150166 TTCATTAATCAGATAT
1 TTCATTAATCAGATAT
12150182 CTTTTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (16 bp):
TTCATTAATCAGATAT
Found at i:12155923 original size:14 final size:13
Alignment explanation
Indices: 12155897--12155921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12155887 GTTGTGTCTT
12155897 TTTTATTTTTTTA
1 TTTTATTTTTTTA
12155910 TTTTATTTTTTT
1 TTTTATTTTTTT
12155922 TACCCAAATG
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:12158393 original size:16 final size:18
Alignment explanation
Indices: 12158357--12158393 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
12158347 TCAACAACAA
*
12158357 TAAATAACAAAACAATGC
1 TAAATAACAAAACAATAC
12158375 TAAATAA-AAAAC-ATAC
1 TAAATAACAAAACAATAC
12158391 TAA
1 TAA
12158394 CAAACATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.65, C:0.14, G:0.03, T:0.19
Consensus pattern (18 bp):
TAAATAACAAAACAATAC
Found at i:12168753 original size:39 final size:40
Alignment explanation
Indices: 12168710--12168814 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
12168700 TTCCATTATG
12168710 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
12168749 CTATTATACCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
12168794 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
12168815 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:12168808 original size:45 final size:44
Alignment explanation
Indices: 12168708--12168817 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
12168698 TTTTCCATTA
12168708 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
12168747 TACTATTATACCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
12168792 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
12168818 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:12168847 original size:16 final size:16
Alignment explanation
Indices: 12168798--12168849 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
12168788 GATTTGCTAT
* *
12168798 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
12168814 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
12168830 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
12168846 TACA
1 TACA
12168850 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:12173457 original size:34 final size:33
Alignment explanation
Indices: 12173416--12173494 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 33
12173406 AGGTAAAAAG
12173416 TTATATTTATATATTTATTTTAACATAAATAAT
1 TTATATTTATATATTTATTTTAACATAAATAAT
* * * *
12173449 TATATATTTATCTGTTTATTTTAATATAACTAAT
1 T-TATATTTATATATTTATTTTAACATAAATAAT
12173483 TT-TATTTATATA
1 TTATATTTATATA
12173495 AACTAATACT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
32 8 0.21
33 2 0.05
34 29 0.74
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (33 bp):
TTATATTTATATATTTATTTTAACATAAATAAT
Found at i:12173486 original size:20 final size:19
Alignment explanation
Indices: 12173463--12173501 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
12173453 TATTTATCTG
12173463 TTTATTT-TAATATAACTAAT
1 TTTATTTAT-ATA-AACTAAT
12173483 TTTATTTATATAAACTAAT
1 TTTATTTATATAAACTAAT
12173502 ACTTTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 10 0.56
21 1 0.06
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTATTTATATAAACTAAT
Found at i:12173498 original size:19 final size:20
Alignment explanation
Indices: 12173463--12173501 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
12173453 TATTTATCTG
12173463 TTTATTTTAATATAACTAAT
1 TTTATTTTAATATAACTAAT
12173483 TTTA-TTT-ATATAAACTAAT
1 TTTATTTTAATAT-AACTAAT
12173502 ACTTTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTATTTTAATATAACTAAT
Found at i:12174469 original size:42 final size:43
Alignment explanation
Indices: 12174409--12174493 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 43
12174399 GCAGCATTTA
12174409 CAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 CAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
12174452 CAAAAA-AAATGCCGCTAAAGATTATGTTCTTTAGCGGCGCTT
1 CAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
12174494 GTTTGCGGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 34 0.85
43 6 0.15
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (43 bp):
CAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:12174668 original size:85 final size:85
Alignment explanation
Indices: 12174571--12174769 Score: 249
Period size: 85 Copynumber: 2.3 Consensus size: 85
12174561 TTACAAAAAT
* * ** * * *
12174571 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTGTGAAAAAGACGCCGCTGAAGATCATGTT
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGACACTT-CAAAAAAAACGCCACTAAAGATCATGTT
12174636 CTTTAACGACGCTTTA-TAAA
65 CTTTAACGACGCTTTATTAAA
* *
12174656 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTCAAAAAAAACGCCACTAAAGATCATGTTC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGACACTTCAAAAAAAACGCCACTAAAGATCATGTTC
* * * *
12174721 TTTAGCGGCGCTTTATTCAC
66 TTTAACGACGCTTTATTAAA
12174741 AAACGCCGCTAAAAGAA-ATGTTCTTTAGC
1 AAACGCCGCT-AAAGAACATGTTCTTTAGC
12174770 AGCGCTTTTA
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
84 37 0.38
85 56 0.57
86 5 0.05
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGCGACACTTCAAAAAAAACGCCACTAAAGATCATGTTC
TTTAACGACGCTTTATTAAA
Found at i:12174675 original size:42 final size:42
Alignment explanation
Indices: 12174571--12174786 Score: 231
Period size: 42 Copynumber: 5.1 Consensus size: 42
12174561 TTACAAAAAT
* *
12174571 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTGTGA-AAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTT-T-ATAAA
* * *
12174614 AGACGCCGCTGAAGATCATGTTCTTTAACGACGCTTTATAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTATAAA
* * * *
12174656 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTCAAAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTATAAA
* * * *
12174698 AAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTTATTCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTA-TAAA
*
12174741 AAACGCCGCTAAAAGA-AATGTTCTTTAGC-AGCGCTTTTATAAA
1 AAACGCCGCT-AAAGATCATGTTCTTTAGCGA-CGC-TTTATAAA
12174784 AAA
1 AAA
12174787 TGCCACTATT
Statistics
Matches: 145, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 74 0.51
43 61 0.42
44 9 0.06
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (42 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTATAAA
Found at i:12174785 original size:85 final size:81
Alignment explanation
Indices: 12174571--12174794 Score: 232
Period size: 85 Copynumber: 2.6 Consensus size: 81
12174561 TTACAAAAAT
* * * *
12174571 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTGTGAAAAAGACGCCGCTGAAGATCATGTT
1 AAACGCCGCTAAAGAA-ATGTTCTTTAGCG-CGCTT-T-AAAAAAACGCCACTAAAGATCATGTT
12174636 CTTTAACGACGCTTTATAAA
62 CTTTAACGACGCTTTATAAA
* * *
12174656 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTCAAAAAAAACGCCACTAAAGATCATGTTC
1 AAACGCCGCTAAAGA-AATGTTCTTTAGC-GCGCTT-TAAAAAAACGCCACTAAAGATCATGTTC
* * * *
12174721 TTTAGCGGCGCTTTATTCAC
63 TTTAACGACGCTTTA-TAAA
*
12174741 AAACGCCGCTAAAAGAAATGTTCTTTAGCAGCGCTTTTATAAAAAATGCCACTA
1 AAACGCCGCT-AAAGAAATGTTCTTTAGC-GCGC-TTTA-AAAAAACGCCACTA
12174795 TTTTTGGAAT
Statistics
Matches: 116, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
84 37 0.32
85 58 0.50
86 21 0.18
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (81 bp):
AAACGCCGCTAAAGAAATGTTCTTTAGCGCGCTTTAAAAAAACGCCACTAAAGATCATGTTCTTT
AACGACGCTTTATAAA
Found at i:12175123 original size:21 final size:21
Alignment explanation
Indices: 12175097--12175164 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
12175087 TTCTGCTTTG
* *
12175097 CTCTGCTTCTCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTCGC
*
12175118 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGTCGC
*
12175139 CGCTGCTTCCCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTCGC
12175160 CTCTG
1 CTCTG
12175165 TTTTAAGTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.01, C:0.46, G:0.21, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTCGC
Found at i:12180593 original size:9 final size:9
Alignment explanation
Indices: 12180579--12180806 Score: 204
Period size: 9 Copynumber: 25.9 Consensus size: 9
12180569 TTTTTATGTA
12180579 TTATGTAAG
1 TTATGTAAG
12180588 TTATGTACTAAG
1 TTATG---TAAG
12180600 TTATGT-A-
1 TTATGTAAG
12180607 TTATGTAAG
1 TTATGTAAG
12180616 TTATGTAAG
1 TTATGTAAG
*
12180625 TTGTGT-A-
1 TTATGTAAG
*
12180632 TTATGTGAG
1 TTATGTAAG
12180641 TTATGTAAG
1 TTATGTAAG
* *
12180650 TTATGGAAT
1 TTATGTAAG
* * *
12180659 TTGTTTAAT
1 TTATGTAAG
12180668 TTATGTAAG
1 TTATGTAAG
12180677 TTATGTAAG
1 TTATGTAAG
*
12180686 TTATGTAGG
1 TTATGTAAG
*
12180695 CTATGT-A-
1 TTATGTAAG
* *
12180702 TTATCTAAA
1 TTATGTAAG
*
12180711 TAATGTAAG
1 TTATGTAAG
*
12180720 TTA-GGAAGG
1 TTATGTAA-G
12180729 TTATGT-A-
1 TTATGTAAG
12180736 TTATGTAAG
1 TTATGTAAG
*
12180745 TTATTTAAG
1 TTATGTAAG
12180754 TTATGTAAG
1 TTATGTAAG
* *
12180763 TTATTTAAT
1 TTATGTAAG
12180772 TTATGTAAG
1 TTATGTAAG
*
12180781 TTATGTAAT
1 TTATGTAAG
12180790 TTATGTAAG
1 TTATGTAAG
12180799 TTATGTAA
1 TTATGTAA
12180807 TTAGAAATTT
Statistics
Matches: 176, Mismatches: 30, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
7 21 0.12
8 9 0.05
9 136 0.77
10 1 0.01
12 9 0.05
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:12180605 original size:28 final size:27
Alignment explanation
Indices: 12180572--12180805 Score: 140
Period size: 25 Copynumber: 8.9 Consensus size: 27
12180562 TGATATATTT
12180572 TTATGTATTATGTAAGTTATGTACTAAG
1 TTATGTATTATGTAAGTTATGTA-TAAG
12180600 TTATGTATTATGTAAGTTATG--TAAG
1 TTATGTATTATGTAAGTTATGTATAAG
* *
12180625 TTGTGTATTATGTGAGTTATG--TAAG
1 TTATGTATTATGTAAGTTATGTATAAG
* *
12180650 TTATGGAATT-TGTTTAATTTATG--TAAG
1 TTAT-GTATTATG--TAAGTTATGTATAAG
* * *
12180677 TTATGTAAGTTATGTAGGCTATGTATTA-
1 TTATGT-A-TTATGTAAGTTATGTATAAG
* * * *
12180705 TCTA--AATAATGTAAGTTA-GGA-AGG
1 T-TATGTATTATGTAAGTTATGTATAAG
12180729 TTATGTATTATGTAAGTTAT-T-TAAG
1 TTATGTATTATGTAAGTTATGTATAAG
* *
12180754 TTATGTAAGTTATTTAATTTATG--TAAG
1 TTATGT-A-TTATGTAAGTTATGTATAAG
12180781 TTATGTAATTTATGTAAGTTATGTA
1 TTATGT-A-TTATGTAAGTTATGTA
12180806 ATTAGAAATT
Statistics
Matches: 160, Mismatches: 27, Indels: 37
0.71 0.12 0.17
Matches are distributed among these distances:
23 2 0.01
24 3 0.02
25 61 0.38
26 7 0.04
27 57 0.36
28 24 0.15
29 6 0.04
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (27 bp):
TTATGTATTATGTAAGTTATGTATAAG
Found at i:12180737 original size:104 final size:104
Alignment explanation
Indices: 12180609--12180805 Score: 288
Period size: 104 Copynumber: 1.9 Consensus size: 104
12180599 GTTATGTATT
* * * * *
12180609 ATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGGAATTTGTTTAATTTATGT
1 ATGTAAGTTATGGAAGTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATTTAATTTATGT
*
12180674 AAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATA
66 AAGTTATGTAAGTTATGTAAGCTATGTATTATCTAAATA
* *
12180713 ATGTAAGTTA-GGAAGGTTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATTTAATTTATG
1 ATGTAAGTTATGGAA-GTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATTTAATTTATG
* *
12180777 TAAGTTATGTAATTTATGTAAGTTATGTA
65 TAAGTTATGTAAGTTATGTAAGCTATGTA
12180806 ATTAGAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 3 0.04
104 79 0.96
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (104 bp):
ATGTAAGTTATGGAAGTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATTTAATTTATGT
AAGTTATGTAAGTTATGTAAGCTATGTATTATCTAAATA
Found at i:12180886 original size:57 final size:57
Alignment explanation
Indices: 12180818--12180992 Score: 287
Period size: 57 Copynumber: 3.1 Consensus size: 57
12180808 TAGAAATTTT
* **
12180818 ATCTTAATATTAAACGAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
* *
12180875 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
* *
12180932 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTT
1 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
12180989 ATCT
1 ATCT
12180993 AAAATGAGAA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 109 1.00
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.46
Consensus pattern (57 bp):
ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
Found at i:12180966 original size:151 final size:151
Alignment explanation
Indices: 12180786--12181131 Score: 380
Period size: 151 Copynumber: 2.3 Consensus size: 151
12180776 GTAAGTTATG
* * * *
12180786 TAAT-TTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTAAACGAGTTATGT-AATTCA-
1 TAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTAAACAAGTTATCTAAAATCAG
* * ** * * *
12180848 AAATTTTATCT-TAATATTATATAAGTA-ATCTTAATATTATATAAGTTATGTAATTCGAAATTT
66 AAA-TTGATCTGT-A-ATTACA-AAGTAGAAATTAATATTAAACAAGTTATGTAATTAGAAATTT
12180911 GATCTTAATATTATATAAGTAATCT
127 GATCTTAATATTATATAAGTAATCT
** * *
12180936 TAATATTATATAAGTTATGTAATTCA-AAATTTTATCTTAATATTGTATAAGTTATCTAAAATGA
1 TAATATTATATAAGTTATGTAATT-AGAAATTTTATCTTAATATTAAACAAGTTATCTAAAATCA
* * * * *
12181000 GAAATTGATGTGTACTTACAAATTAGAAATTAATATTAAACGAGTTATGTAATTAGAAATTTTAT
65 GAAATTGATCTGTAATTACAAAGTAGAAATTAATATTAAACAAGTTATGTAATTAGAAATTTGAT
*
12181065 CTTAATATTATATAAGTTATCT
130 CTTAATATTATATAAGTAATCT
* ** *
12181087 TAATATTAAACGAGTTATGTAATTAGAAATTTGATCTTAATATTA
1 TAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTA
12181132 TATAAGTAAT
Statistics
Matches: 163, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
150 9 0.06
151 139 0.85
152 11 0.07
153 4 0.02
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (151 bp):
TAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTAAACAAGTTATCTAAAATCAG
AAATTGATCTGTAATTACAAAGTAGAAATTAATATTAAACAAGTTATGTAATTAGAAATTTGATC
TTAATATTATATAAGTAATCT
Found at i:12180973 original size:94 final size:94
Alignment explanation
Indices: 12180875--12181086 Score: 227
Period size: 94 Copynumber: 2.3 Consensus size: 94
12180865 TATATAAGTA
* * * * **
12180875 ATCTTAATATTATATAAGTTATGT-AATTCGA-AATTTGATCT-TAATATTATATAAGTA-ATCT
1 ATCTTAATATTATATAAGTTATCTAAAAT-GAGAAATTGATCTGT-A-ATTACA-AAGTAGAAAT
* *
12180936 TAATATTATATAAGTTATGTAATTCA-AAATTTT
62 TAATATTAAACAAGTTATGTAATT-AGAAATTTT
* * * *
12180969 ATCTTAATATTGTATAAGTTATCTAAAATGAGAAATTGATGTGTACTTACAAATTAGAAATTAAT
1 ATCTTAATATTATATAAGTTATCTAAAATGAGAAATTGATCTGTAATTACAAAGTAGAAATTAAT
*
12181034 ATTAAACGAGTTATGTAATTAGAAATTTT
66 ATTAAACAAGTTATGTAATTAGAAATTTT
12181063 ATCTTAATATTATATAAGTTATCT
1 ATCTTAATATTATATAAGTTATCT
12181087 TAATATTAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
93 5 0.05
94 81 0.82
95 12 0.12
96 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (94 bp):
ATCTTAATATTATATAAGTTATCTAAAATGAGAAATTGATCTGTAATTACAAAGTAGAAATTAAT
ATTAAACAAGTTATGTAATTAGAAATTTT
Found at i:12180992 original size:20 final size:20
Alignment explanation
Indices: 12180853--12181254 Score: 139
Period size: 20 Copynumber: 21.2 Consensus size: 20
12180843 ATTCAAAATT
12180853 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
*
12180873 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* ** *
12180893 TTAT-GT-A-ATTCGA-AAT
1 TTATCTTAATATTATATAAG
12180909 TTGATCTTAATATTATATAAG
1 TT-ATCTTAATATTATATAAG
*
12180930 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* * *
12180950 TTAT-GTAAT-TCA-A-AATT
1 TTATCTTAATATTATATAA-G
*
12180967 TTATCTTAATATTGTATAAG
1 TTATCTTAATATTATATAAG
* * *
12180987 TTATC-TAAAATGAGA-AA-
1 TTATCTTAATATTATATAAG
* * *
12181004 TTGATGTGT-A-CTTACA-AA-
1 TT-ATCT-TAATATTATATAAG
** * **
12181022 TTAGAAATTAATATTAAACGAG
1 TT--ATCTTAATATTATATAAG
* * *
12181044 TTAT-GT-A-ATTAGA-AATT
1 TTATCTTAATATTATATAA-G
12181061 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* **
12181081 TTATCTTAATATTAAACGAG
1 TTATCTTAATATTATATAAG
* * *
12181101 TTAT-GT-A-ATTAGA-AAT
1 TTATCTTAATATTATATAAG
12181117 TTGATCTTAATATTATATAAG
1 TT-ATCTTAATATTATATAAG
*
12181138 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* * *
12181158 TTAT-GTAAT-TCGATAT--T
1 TTATCTTAATAT-TATATAAG
12181175 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* *
12181195 TTAT-GTAATAATATATAAG
1 TTATCTTAATATTATATAAG
* * *
12181214 TTAT-AT-A-ATTAGA-AATT
1 TTATCTTAATATTATATAA-G
12181231 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
12181251 TTAT
1 TTAT
12181255 GAAGTGTCCT
Statistics
Matches: 277, Mismatches: 67, Indels: 76
0.66 0.16 0.18
Matches are distributed among these distances:
16 12 0.04
17 41 0.15
18 35 0.13
19 50 0.18
20 124 0.45
21 13 0.05
22 2 0.01
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:12181023 original size:114 final size:114
Alignment explanation
Indices: 12180818--12181037 Score: 268
Period size: 114 Copynumber: 1.9 Consensus size: 114
12180808 TAGAAATTTT
* *
12180818 ATCTTAATATTAAACGAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTAATCTTAAT
1 ATCTTAATATTAAACAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTAATCTTAAA
* * * **
12180883 ATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
66 ATGAGATAAGTTATGTAATTCGAAATTAGAAATTAATATTATATAAGTA
* * * *
12180932 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTTATC-TAAA
1 ATCTTAATATTAAACAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTAATCTTAAA
*
12180996 ATGAGA-AA-TTGATGTGTACTTAC-AAATTAGAAATTAATATTA
66 ATGAGATAAGTT-A--TGTAATT-CGAAATTAGAAATTAATATTA
12181038 AACGAGTTAT
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
111 2 0.02
112 3 0.03
113 7 0.08
114 77 0.86
115 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.44
Consensus pattern (114 bp):
ATCTTAATATTAAACAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTAATCTTAAA
ATGAGATAAGTTATGTAATTCGAAATTAGAAATTAATATTATATAAGTA
Found at i:12181040 original size:208 final size:208
Alignment explanation
Indices: 12180821--12181198 Score: 668
Period size: 208 Copynumber: 1.8 Consensus size: 208
12180811 AAATTTTATC
12180821 TTAATATTAAACGAGTTATGTAATTCA-AAATTTTATCTTAATATTATATAAGTAATCTTAATAT
1 TTAATATTAAACGAGTTATGTAATT-AGAAATTTTATCTTAATATTATATAAGTAATCTTAATAT
* * *
12180885 TATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAG
65 TAAACAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAG
*
12180950 TTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTTATCTAAAATGAGAAATTGATGTGTAC
130 TTATGTAATTCAAAATTTTATCTTAATATTATATAAGTTATCTAAAATGAGAAATTGATGTGTAC
12181015 TTACAAATTAGAAA
195 TTACAAATTAGAAA
*
12181029 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATT
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATT
*
12181094 AAACGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGT
66 AAACAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGT
* *
12181159 TATGTAATTCGATATTTTATCTTAATATTATATAAGTTAT
131 TATGTAATTCAAAATTTTATCTTAATATTATATAAGTTAT
12181199 GTAATAATAT
Statistics
Matches: 161, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
207 1 0.01
208 160 0.99
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (208 bp):
TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATT
AAACAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGT
TATGTAATTCAAAATTTTATCTTAATATTATATAAGTTATCTAAAATGAGAAATTGATGTGTACT
TACAAATTAGAAA
Found at i:12181090 original size:57 final size:57
Alignment explanation
Indices: 12181029--12181254 Score: 328
Period size: 57 Copynumber: 4.0 Consensus size: 57
12181019 AAATTAGAAA
*
12181029 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
* * *
12181086 TTAATATTAAACGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATC
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
* * * *
12181143 TTAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTAT-
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
* * * * *
12181199 GTAATAATATATAAGTTATATAATTAGAAATTTTATCTTAATATTATATAAGTTAT
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTAT
12181255 GAAGTGTCCT
Statistics
Matches: 155, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
56 51 0.33
57 104 0.67
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.46
Consensus pattern (57 bp):
TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
Found at i:12181117 original size:94 final size:94
Alignment explanation
Indices: 12180948--12181131 Score: 219
Period size: 94 Copynumber: 2.0 Consensus size: 94
12180938 ATATTATATA
* ** *
12180948 AGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTTATCTAAAATGAGAAATTGATGTGT
1 AGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTTATCTAAAATGAGAAAGAGATATGT
*
12181013 ACTTACAAATTAGAAATTAATATTAAACG
66 AATTACAAATTAGAAATTAATATTAAACG
* * * *
12181042 AGTTATGTAATT-AGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTA-AACGAGTTAT
1 AGTTATGTAATTCA-AAATTTTATCTTAATATTATATAAGTTATC-TAAAATGAGAAAGAGATAT
* * **
12181105 GTAATTAGAAATTTGATCTTAATATTA
64 GTAATTACAAATTAGAAATTAATATTA
12181132 TATAAGTAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
93 1 0.01
94 68 0.91
95 6 0.08
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.42
Consensus pattern (94 bp):
AGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTTATCTAAAATGAGAAAGAGATATGT
AATTACAAATTAGAAATTAATATTAAACG
Found at i:12181184 original size:151 final size:150
Alignment explanation
Indices: 12180875--12181203 Score: 387
Period size: 151 Copynumber: 2.2 Consensus size: 150
12180865 TATATAAGTA
*
12180875 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCTTAAT
1 ATCTTAATATTATATAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAAT
* * * * *
12180940 ATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTTATCTAAAATGAGAAAT
66 ATTAAACAAGTTATGTAATTCAAAATTTGATCTTAATATTATATAAGTAATCTAAAATGAGAAAT
*
12181005 TGATGTGTACTTACAAATTAG
131 TGA-GTGTAATTACAAATTAG
** * ** * *
12181026 AAATTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAAT
1 ATCTTAATATTATATAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAAT
* * * *
12181091 ATTAAACGAGTTATGTAATT-AGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATAT
66 ATTAAACAAGTTATGTAATTCA-AAATTTGATCTTAATATTATATAAGTAATC-TAAAATGAGA-
* **
12181155 AAGTT-A-TGTAATT-CGATATTTT
128 AA-TTGAGTGTAATTAC-AAATTAG
12181177 ATCTTAATATTATATAAGTTATGTAAT
1 ATCTTAATATTATATAAGTTATGTAAT
12181204 AATATATAAG
Statistics
Matches: 147, Mismatches: 26, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
150 2 0.01
151 133 0.90
152 7 0.05
153 3 0.02
154 2 0.01
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (150 bp):
ATCTTAATATTATATAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAAT
ATTAAACAAGTTATGTAATTCAAAATTTGATCTTAATATTATATAAGTAATCTAAAATGAGAAAT
TGAGTGTAATTACAAATTAG
Found at i:12184381 original size:22 final size:23
Alignment explanation
Indices: 12184353--12184397 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
12184343 GGGAGAATGA
12184353 GTTTT-GGGGATAACTGATGGAG
1 GTTTTGGGGGATAACTGATGGAG
12184375 GTTTTGGGGGATAACTGATGGAG
1 GTTTTGGGGGATAACTGATGGAG
12184398 AAATATCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.22, C:0.04, G:0.42, T:0.31
Consensus pattern (23 bp):
GTTTTGGGGGATAACTGATGGAG
Found at i:12184799 original size:147 final size:146
Alignment explanation
Indices: 12184471--12184940 Score: 444
Period size: 147 Copynumber: 3.2 Consensus size: 146
12184461 AAATTAACCA
* * * * *
12184471 TTTGTGGCGTTTATAAAT-AAGCGCCACTAACTATAAGTCGAAACGCAGTCGTTTCATTAACAAA
1 TTTGCGGCGTTT-TAAGTAAAGCGCCACTAACTATAAATC-AAACGCAGTCGTTTCATCAACAAT
* * * * * ** *
12184535 TAGCTCACACCTGTGGCATTTTTAAATAAACGCCACTAAT-A-ATACAGCAAAACGGCCTCGTAT
64 TAACTCAAACCTGTGGCGTTTTCAAAAAAACGCCACTAATAACATACA-CAAAACGGCAACGTTT
* *
12184598 CGATAAATGTTAAAACATT
128 CAATAAATGTTAAAACAAT
* * *
12184617 TTTGCGGCGTTTTAAGCAAAGCGCCACTAACTATAAATCAAAACGCAGTCGCTTCATCAACACTT
1 TTTGCGGCGTTTTAAGTAAAGCGCCACTAACTATAAATC-AAACGCAGTCGTTTCATCAACAATT
* * * * ** * * *
12184682 ACCTCAAACCCGTGGCGTTTTCGAAAAATCGCCACTAATAACATTTAAAAAACGGCAGCGTTTCT
65 AACTCAAACCTGTGGCGTTTTCAAAAAAACGCCACTAATAACATACACAAAACGGCAACGTTTCA
*
12184747 ATAAATGTTAGAACAAT
130 ATAAATGTTAAAACAAT
* * * * ** *
12184764 TTTGCGGTGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAATGAAGTCGTTTCCCCAACAGTT
1 TTTGCGGCGTTTTAAGTAAAGCGCCACTAACTATAA-ATCAAACGCAGTCGTTTCATCAACAATT
* * * * * *
12184829 AACTCAAGCTTGTGGCGTTTCCAAAAAAACGCCACTAATACCATACACAAAACGACAACATTTCA
65 AACTCAAACCTGTGGCGTTTTCAAAAAAACGCCACTAATAACATACACAAAACGGCAACGTTTCA
** *
12184894 ATAAA-CATAATTACAAT
130 ATAAATGTTAA-AACAAT
* *
12184911 TTTGCGGCGTTTCATGTAAAGCGCCACTAA
1 TTTGCGGCGTTTTAAGTAAAGCGCCACTAA
12184941 TAGCAACGTA
Statistics
Matches: 262, Mismatches: 57, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
145 3 0.01
146 85 0.32
147 168 0.64
148 6 0.02
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (146 bp):
TTTGCGGCGTTTTAAGTAAAGCGCCACTAACTATAAATCAAACGCAGTCGTTTCATCAACAATTA
ACTCAAACCTGTGGCGTTTTCAAAAAAACGCCACTAATAACATACACAAAACGGCAACGTTTCAA
TAAATGTTAAAACAAT
Found at i:12186391 original size:114 final size:114
Alignment explanation
Indices: 12186185--12186605 Score: 397
Period size: 114 Copynumber: 3.7 Consensus size: 114
12186175 TAATTATTTT
* * * * *
12186185 GCGGCGCTTGTTCAAAAACGCTGCTAAATCCCCCAATGCTCAGTAAAACGACATCGTTGGGCCTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAATCCCCGAATGCTCAG-AAAACGACATCGTTGGGCTTA
* * *
12186250 GGTTTTTTACGACGCTTTCC-C-GAAAACGTCGCTAAAACCCTGAGCATTA
65 GGTTTTTTGCGACGCATTCCTCAG-AAACGCCGCTAAAACCCTGAGCATTA
* * * * *
12186299 GCAGCGCTTCTCCATAAACGCCGCTAAATCCCCGAATACTCAGAGAACGGCATCGTTGGGCTTAG
1 GCGGCGCTTCTCCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGACATCGTTGGGCTTAG
* * * * *
12186364 GTTTCTTTGCGGCGC-TTCCTCAGAAACGCCGCTAAAGCACTGAACATTG
66 GTTT-TTTGCGACGCATTCCTCAGAAACGCCGCTAAAACCCTGAGCATTA
* * * * *
12186413 GCGGCGCTAC-CTCAAAAACGCCGCTAAGTCACCGAATGCTCAGAAAAC-AGCGTCGTTGAGCTT
1 GCGGCGCTTCTC-CAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGA-CATCGTTGGGCTT
* * * * * * *
12186476 AGGTTTCTTTGCGGCGCATT-CTTAAAAATGCCGTTAAATCCCTGAGCTTTA
64 AGGTTT-TTTGCGACGCATTCCTCAGAAACGCCGCTAAAACCCTGAGCATTA
* * * * ** *
12186527 GCGGCGCTTCAT-AAAAAACGCTGCTAAATCCCCGAATGCGCCGAAAACGATGTCGTTGGGCTAA
1 GCGGCGCTTC-TCCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGACATCGTTGGGCTTA
12186591 GGTTTTTTGCGACGC
65 GGTTTTTTGCGACGC
12186606 TTTATAGAAA
Statistics
Matches: 251, Mismatches: 47, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
113 37 0.15
114 210 0.84
115 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (114 bp):
GCGGCGCTTCTCCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGACATCGTTGGGCTTAG
GTTTTTTGCGACGCATTCCTCAGAAACGCCGCTAAAACCCTGAGCATTA
Found at i:12186544 original size:41 final size:40
Alignment explanation
Indices: 12186482--12186558 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 40
12186472 GCTTAGGTTT
* * *
12186482 CTTTGCGGCGCATTCTTAAAAATGCCGTTAAATCCCTGAG
1 CTTTGCGGCGCATTCTAAAAAACGCCGCTAAATCCCTGAG
*
12186522 CTTTAGCGGCGC-TTCATAAAAAACGCTGCTAAATCCC
1 CTTT-GCGGCGCATTC-TAAAAAACGCCGCTAAATCCC
12186559 CGAATGCGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
40 7 0.23
41 24 0.77
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (40 bp):
CTTTGCGGCGCATTCTAAAAAACGCCGCTAAATCCCTGAG
Found at i:12188348 original size:47 final size:47
Alignment explanation
Indices: 12188248--12188348 Score: 109
Period size: 46 Copynumber: 2.1 Consensus size: 47
12188238 TAGAAGATTT
* *
12188248 ACTGCAATTATAGTGGTTCGACCACACATATCTGTTTTGGCATGTTA
1 ACTGCAATTATAATGGTTCGACCACACATATCTGTTATGGCATGTTA
* * *
12188295 GCTGCAA-TATAATGGCTT-GACCACATATATCT-TATATGGCATTTTTA
1 ACTGCAATTATAATGG-TTCGACCACACATATCTGT-TATGGCA-TGTTA
12188342 ACTGCAA
1 ACTGCAA
12188349 CCCTAGTGGC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
45 1 0.02
46 26 0.58
47 18 0.40
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (47 bp):
ACTGCAATTATAATGGTTCGACCACACATATCTGTTATGGCATGTTA
Found at i:12189336 original size:18 final size:17
Alignment explanation
Indices: 12189315--12189360 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
12189305 TTACTTTTGT
12189315 TTTCTTTAAATATTTTA
1 TTTCTTTAAATATTTTA
*
12189332 GTTTCTTTAATATGTTTTA
1 -TTTCTTTAA-ATATTTTA
12189351 TTTCTTTAAA
1 TTTCTTTAAA
12189361 AAGATTGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 18 0.69
19 7 0.27
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (17 bp):
TTTCTTTAAATATTTTA
Found at i:12198464 original size:16 final size:15
Alignment explanation
Indices: 12198443--12198490 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
12198433 GATGTGAATA
12198443 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
12198459 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
12198474 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
12198490 A
1 A
12198491 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:12198466 original size:24 final size:24
Alignment explanation
Indices: 12198439--12198494 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
12198429 TAATGATGTG
*
12198439 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
12198463 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
12198487 AATAATAA
1 AATAATAA
12198495 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:12198473 original size:8 final size:8
Alignment explanation
Indices: 12198439--12198490 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
12198429 TAATGATGTG
*
12198439 AATAATAA
1 AATATTAA
12198447 AATATATAA
1 AATAT-TAA
12198456 AATA-TAA
1 AATATTAA
12198463 AATATTAA
1 AATATTAA
*
12198471 AATATCAA
1 AATATTAA
*
12198479 AATATTAG
1 AATATTAA
12198487 AATA
1 AATA
12198491 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:12198603 original size:30 final size:30
Alignment explanation
Indices: 12198567--12198644 Score: 147
Period size: 30 Copynumber: 2.6 Consensus size: 30
12198557 TTAGAAATAA
12198567 GGAAAAGGTGTGGCTAGTGGAGTTGGTGGT
1 GGAAAAGGTGTGGCTAGTGGAGTTGGTGGT
12198597 GGAAAAGGTGTGGCTAGTGGAGTTGGTGGT
1 GGAAAAGGTGTGGCTAGTGGAGTTGGTGGT
*
12198627 GGAAAAGGAGTGGCTAGT
1 GGAAAAGGTGTGGCTAGT
12198645 TGAGAAAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.23, C:0.04, G:0.49, T:0.24
Consensus pattern (30 bp):
GGAAAAGGTGTGGCTAGTGGAGTTGGTGGT
Found at i:12199415 original size:14 final size:14
Alignment explanation
Indices: 12199393--12199427 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
12199383 GAGTTGATTT
12199393 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
12199407 TTTAAAAACAGAAA
1 TTGAAAAACAGAAA
12199421 TTGAAAA
1 TTGAAAA
12199428 TAGCTCAGCA
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:0.63, C:0.06, G:0.11, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Done.