Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 15 of 135
Found at i:6672711 original size:42 final size:44
Alignment explanation
Indices: 6672637--6672719 Score: 116
Period size: 42 Copynumber: 1.9 Consensus size: 44
6672627 TCCCTAACCT
*
6672637 ATAATGTTACCCACAAAAGCTTTTGATTTTAATATTAAAATAAA
1 ATAATGTTACCCACAAAAGCTTTTGACTTTAATATTAAAATAAA
* * *
6672681 ATAATTTTACCCA-AAATG-TTTTTACTTTAATATTAAAAT
1 ATAATGTTACCCACAAAAGCTTTTGACTTTAATATTAAAAT
6672720 TAACAACTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 19 0.54
43 4 0.11
44 12 0.34
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (44 bp):
ATAATGTTACCCACAAAAGCTTTTGACTTTAATATTAAAATAAA
Found at i:6680301 original size:39 final size:39
Alignment explanation
Indices: 6680258--6680350 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 39
6680248 TAAAACTAGA
* *
6680258 TTTAATAAAATAAGATGTTTATTATATTTAT-TTGTATTT
1 TTTAATAAAATAA-ATATTTATTATATTTATGTAGTATTT
* *
6680297 TTTAATATAATGAAATATTTATTATATTTATGGTAGTGTTT
1 TTTAATAAAAT-AAATATTTATTATATTTAT-GTAGTATTT
6680338 TTTAATATAAATA
1 TTTAATA-AAATA
6680351 CTTTTTTAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
39 26 0.58
40 2 0.04
41 14 0.31
42 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.54
Consensus pattern (39 bp):
TTTAATAAAATAAATATTTATTATATTTATGTAGTATTT
Found at i:6681496 original size:6 final size:6
Alignment explanation
Indices: 6681487--6681521 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
6681477 TCGCAGCAGC
* *
6681487 AGAAGG AGAAGG ACAAGG AGAAGG AGAAGA AGAAG
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAG
6681522 ATGTTAGCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.54, C:0.03, G:0.43, T:0.00
Consensus pattern (6 bp):
AGAAGG
Found at i:6696894 original size:3 final size:3
Alignment explanation
Indices: 6696886--6696911 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6696876 ATAAATTAAT
6696886 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
6696912 AGGGATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6698128 original size:3 final size:3
Alignment explanation
Indices: 6698120--6698153 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
6698110 GTCTACTTTG
6698120 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6698154 GCTAAATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6698436 original size:2 final size:2
Alignment explanation
Indices: 6698429--6698469 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6698419 TTTAGAGTTT
6698429 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6698470 TTGAGTTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6706293 original size:29 final size:29
Alignment explanation
Indices: 6706251--6706311 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
6706241 AGTCAGGTGT
*
6706251 CTCTAAGTCTTGGGCTATAACTTTAAGGC
1 CTCTAAGTCTTGGGCTACAACTTTAAGGC
6706280 CTCTAAGTCTTGGGCTACAACTTTAAGGC
1 CTCTAAGTCTTGGGCTACAACTTTAAGGC
6706309 CTC
1 CTC
6706312 ACTGGAAGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (29 bp):
CTCTAAGTCTTGGGCTACAACTTTAAGGC
Found at i:6719257 original size:24 final size:25
Alignment explanation
Indices: 6719210--6719257 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
6719200 GAGAAGAAAG
* * *
6719210 AAAATAGAATAAAGAAAGACAATTT
1 AAAATAGAAGAAAGAAAAAAAATTT
6719235 AAAA-AGAAGAAAGAAAAAAAATT
1 AAAATAGAAGAAAGAAAAAAAATT
6719258 ATGGAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.15
Consensus pattern (25 bp):
AAAATAGAAGAAAGAAAAAAAATTT
Found at i:6719870 original size:8 final size:8
Alignment explanation
Indices: 6719840--6719884 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
6719830 AATTCAATTT
6719840 TAATATAAA
1 TAAT-TAAA
*
6719849 TATTTAATA
1 TAATTAA-A
6719858 TAATTAAA
1 TAATTAAA
6719866 TAATTAAA
1 TAATTAAA
6719874 TAATATAAA
1 TAAT-TAAA
6719883 TA
1 TA
6719885 GTACAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 16 0.50
9 16 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATTAAA
Found at i:6719875 original size:18 final size:18
Alignment explanation
Indices: 6719840--6719939 Score: 52
Period size: 16 Copynumber: 5.8 Consensus size: 18
6719830 AATTCAATTT
*
6719840 TAATATAAATATTTAATA
1 TAATATAAATATTAAATA
6719858 TAAT-TAAATAATT-AA-A
1 TAATATAAAT-ATTAAATA
* *
6719874 TAATATAAATAGTACA-A
1 TAATATAAATATTAAATA
* * *
6719891 -AATATGAATTTTAATTTAA
1 TAATATAAATATTAA-AT-A
* *
6719910 TAATATAAATAGTATATA
1 TAATATAAATATTAAATA
6719928 TAA-ATAAA-ATTA
1 TAATATAAATATTA
6719940 TTATTATTAT
Statistics
Matches: 62, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
16 20 0.32
17 19 0.31
18 11 0.18
19 2 0.03
20 10 0.16
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (18 bp):
TAATATAAATATTAAATA
Found at i:6721333 original size:37 final size:38
Alignment explanation
Indices: 6721286--6721364 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 38
6721276 TATTTATATT
*
6721286 ATTGAATTATTTAATCATAT-T-AAATATTTATATTAAA
1 ATTGAATTA-TTAATCATATATAAAATATTCATATTAAA
* *
6721323 ATTGAATTATTAATGATATCATAAAATATTCATGTTAAA
1 ATTGAATTATTAATCATAT-ATAAAATATTCATATTAAA
6721362 ATT
1 ATT
6721365 TTATGTTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 9 0.25
37 9 0.25
38 1 0.03
39 17 0.47
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (38 bp):
ATTGAATTATTAATCATATATAAAATATTCATATTAAA
Found at i:6728596 original size:12 final size:12
Alignment explanation
Indices: 6728579--6728605 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6728569 CAATCTCCCA
6728579 TCACCACTAGTT
1 TCACCACTAGTT
6728591 TCACCACTAGTT
1 TCACCACTAGTT
6728603 TCA
1 TCA
6728606 ATCTCACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.33, G:0.07, T:0.33
Consensus pattern (12 bp):
TCACCACTAGTT
Found at i:6741309 original size:21 final size:21
Alignment explanation
Indices: 6741283--6741347 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
6741273 TAGAAAGCAC
*
6741283 AATGTCTCAAGACCTTGAAGG
1 AATGTCTCAAGACATTGAAGG
* *
6741304 AATGTCTCGAGACATT-AAGA
1 AATGTCTCAAGACATTGAAGG
* * *
6741324 ACAAGTCTCAAAACTTTGAAGG
1 A-ATGTCTCAAGACATTGAAGG
6741346 AA
1 AA
6741348 CATCTTGAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
20 4 0.12
21 26 0.76
22 4 0.12
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (21 bp):
AATGTCTCAAGACATTGAAGG
Found at i:6743196 original size:4 final size:4
Alignment explanation
Indices: 6743187--6743229 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
6743177 TGGTTTACAT
6743187 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
6743230 TAATATTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:6747054 original size:20 final size:21
Alignment explanation
Indices: 6747025--6747068 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
6747015 TTTTTTCCAA
6747025 AAAAATTTATTAAAAAATCAT
1 AAAAATTTATTAAAAAATCAT
6747046 AAAAA-TTATTAAAAAATCAT
1 AAAAATTTATTAAAAAATCAT
6747066 AAA
1 AAA
6747069 TATATATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATTTATTAAAAAATCAT
Found at i:6747096 original size:16 final size:15
Alignment explanation
Indices: 6747075--6747104 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6747065 TAAATATATA
6747075 TAATTTTTATAATTTT
1 TAATTTTTA-AATTTT
6747091 TAATTTTTAAATTT
1 TAATTTTTAAATTT
6747105 AAAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTAAATTTT
Found at i:6750081 original size:20 final size:22
Alignment explanation
Indices: 6750043--6750082 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6750033 TTTAATATTC
6750043 TTAAATTTATGTGTTTACTTCT
1 TTAAATTTATGTGTTTACTTCT
6750065 TTAAATTT-TGT-TTTACTT
1 TTAAATTTATGTGTTTACTT
6750083 ACACTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.62
Consensus pattern (22 bp):
TTAAATTTATGTGTTTACTTCT
Found at i:6758554 original size:55 final size:59
Alignment explanation
Indices: 6758434--6758595 Score: 170
Period size: 61 Copynumber: 2.8 Consensus size: 59
6758424 AGAAACTGTT
* * * *
6758434 TTTCAACATAGCAATTGATTTAAATATATAAACAATCAATTCAAAAGCAGAAGAAGTAATA
1 TTTCAACATAACAATCGATTTAAACATATAAACAATCAATTCAAAAGCAGAAGAAG--ACA
* * *
6758495 TTTCACCATAACACTCGATTTAAACATATAAACAATCAATTCAAAAG-A-AA-CAG-CA
1 TTTCAACATAACAATCGATTTAAACATATAAACAATCAATTCAAAAGCAGAAGAAGACA
* * * * *
6758550 TTTCAACATGACAATCGATTCAAACATAAAAACAATCGATTAAAAA
1 TTTCAACATAACAATCGATTTAAACATATAAACAATCAATTCAAAA
6758596 TAAGCAATAT
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
55 40 0.46
58 2 0.02
59 2 0.02
60 1 0.01
61 42 0.48
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.25
Consensus pattern (59 bp):
TTTCAACATAACAATCGATTTAAACATATAAACAATCAATTCAAAAGCAGAAGAAGACA
Found at i:6758585 original size:21 final size:20
Alignment explanation
Indices: 6758560--6758598 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6758550 TTTCAACATG
*
6758560 ACAATCGATTCAAACATAAAA
1 ACAATCGATT-AAAAATAAAA
6758581 ACAATCGATTAAAAATAA
1 ACAATCGATTAAAAATAA
6758599 GCAATATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.59, C:0.15, G:0.05, T:0.21
Consensus pattern (20 bp):
ACAATCGATTAAAAATAAAA
Found at i:6769043 original size:23 final size:24
Alignment explanation
Indices: 6768996--6769056 Score: 106
Period size: 23 Copynumber: 2.6 Consensus size: 24
6768986 TCCGATGATA
*
6768996 TAAAACCAACAAGCACTTTAAGTT
1 TAAAACCACCAAGCACTTTAAGTT
6769020 TAAAACCACCAAGCAC-TTAAGTT
1 TAAAACCACCAAGCACTTTAAGTT
6769043 TAAAACCACCAAGC
1 TAAAACCACCAAGC
6769057 TTGATAAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 21 0.58
24 15 0.42
ACGTcount: A:0.46, C:0.26, G:0.08, T:0.20
Consensus pattern (24 bp):
TAAAACCACCAAGCACTTTAAGTT
Found at i:6774798 original size:4 final size:4
Alignment explanation
Indices: 6774789--6774813 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6774779 TGTGCCCAAT
6774789 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
6774814 CCCTTCTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:6776060 original size:17 final size:18
Alignment explanation
Indices: 6776013--6776061 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
6776003 AAAATTTTGA
6776013 AGAAGTACAAAAAATTAAG
1 AGAA-TACAAAAAATTAAG
* *
6776032 AGAATACCAAAAATTATG
1 AGAATACAAAAAATTAAG
*
6776050 A-AATATAAAAAA
1 AGAATACAAAAAA
6776062 AATGAGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 9 0.35
18 13 0.50
19 4 0.15
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.18
Consensus pattern (18 bp):
AGAATACAAAAAATTAAG
Found at i:6784908 original size:16 final size:16
Alignment explanation
Indices: 6784885--6784929 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
6784875 ATTAATAATC
6784885 AAAATGTAATAATTTG
1 AAAATGTAATAATTTG
*
6784901 ATAATGTAA-AATTTG
1 AAAATGTAATAATTTG
6784916 AAAAT-TGAATAATT
1 AAAATGT-AATAATT
6784930 ATAACTTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 12 0.48
16 12 0.48
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (16 bp):
AAAATGTAATAATTTG
Found at i:6786311 original size:24 final size:24
Alignment explanation
Indices: 6786283--6786345 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
6786273 AGAAATAATC
6786283 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
* * *
6786307 TTTCAATTAAATTTTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
* *
6786331 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
6786346 TATTACTCTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTATTTG
Found at i:6788298 original size:24 final size:24
Alignment explanation
Indices: 6788270--6788332 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
6788260 AGAAATAATC
6788270 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
* *
6788294 TTTCAATTAAACTTTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
* *
6788318 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
6788333 TATTCCTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.52
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTATTTG
Found at i:6799920 original size:2 final size:2
Alignment explanation
Indices: 6799913--6799938 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6799903 GTTTGCAGTA
6799913 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6799939 GTATGTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6801552 original size:2 final size:2
Alignment explanation
Indices: 6801545--6801571 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6801535 CCATGAAGAT
6801545 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6801572 TTATGCTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6809323 original size:22 final size:23
Alignment explanation
Indices: 6809263--6809325 Score: 58
Period size: 25 Copynumber: 2.6 Consensus size: 23
6809253 TCACGTTTAT
*
6809263 ATTTTTTAACATAT-TTACATCGTA
1 ATTTTTTAA-ATATATTA-ATCATA
6809287 ATTATTTCTATAATATATT-ATCATA
1 ATT-TTT-TA-AATATATTAATCATA
6809312 ATTTTTTAAATATA
1 ATTTTTTAAATATA
6809326 GTCATACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
22 6 0.18
23 2 0.06
24 6 0.18
25 11 0.32
26 6 0.18
27 3 0.09
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTTTTAAATATATTAATCATA
Found at i:6811334 original size:13 final size:13
Alignment explanation
Indices: 6811316--6811345 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6811306 ATTGCTAAAA
6811316 AATAATATCCCAT
1 AATAATATCCCAT
*
6811329 AATAATATCCTAT
1 AATAATATCCCAT
6811342 AATA
1 AATA
6811346 TTCTATTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (13 bp):
AATAATATCCCAT
Found at i:6811399 original size:56 final size:56
Alignment explanation
Indices: 6811303--6811457 Score: 179
Period size: 56 Copynumber: 2.8 Consensus size: 56
6811293 ACGTAGAAAT
* * * * * *
6811303 CAAATTGCTAAAAAATAATATCCCATAATAATATCCTATAATATTCTATTAAG-AAC
1 CAAATTACTAAAAGATAATATCTCATAATAATATCTTATAATATCCCATT-AGTAAC
* *
6811359 CAATTTACTAAAAGATAATATCTCATAATAATATCTTATAATATCCCATTAGTAAT
1 CAAATTACTAAAAGATAATATCTCATAATAATATCTTATAATATCCCATTAGTAAC
* * * *
6811415 TAAATTGCTAAAAGATAATATCTCATAATAGTAT-TTATCATAT
1 CAAATTACTAAAAGATAATATCTCATAATAATATCTTATAATAT
6811458 AATCTCTCAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
55 10 0.12
56 75 0.88
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.36
Consensus pattern (56 bp):
CAAATTACTAAAAGATAATATCTCATAATAATATCTTATAATATCCCATTAGTAAC
Found at i:6811526 original size:33 final size:33
Alignment explanation
Indices: 6811456--6811529 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
6811446 TATTTATCAT
* * *
6811456 ATAATCTCTCATTAAAAATCAAATTGCTAAGAA
1 ATAATATCTCATTAAAAATCAAATTACCAAGAA
*
6811489 ATAATATCTCATTAAAAATTAAATTACCAA-AA
1 ATAATATCTCATTAAAAATCAAATTACCAAGAA
6811521 GATAATATC
1 -ATAATATC
6811530 GCATAATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 2 0.06
33 34 0.94
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (33 bp):
ATAATATCTCATTAAAAATCAAATTACCAAGAA
Found at i:6814839 original size:13 final size:11
Alignment explanation
Indices: 6814807--6814849 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
6814797 CCATTTTCTA
*
6814807 AATAAAATAAT
1 AATAAAATATT
6814818 AAT-AAATATTT
1 AATAAAATA-TT
6814829 AAGTAAAATATT
1 AA-TAAAATATT
6814841 AATAAAATA
1 AATAAAATA
6814850 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 5 0.18
13 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
AATAAAATATT
Found at i:6820582 original size:6 final size:6
Alignment explanation
Indices: 6820573--6820613 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
6820563 TTGGTAGCAG
* *
6820573 TGGGAG TGGGAG TGGGAC TGGGAC TGGGAC TGGGAC TGGGA
1 TGGGAC TGGGAC TGGGAC TGGGAC TGGGAC TGGGAC TGGGA
6820614 GAGCAAGATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.10, G:0.56, T:0.17
Consensus pattern (6 bp):
TGGGAC
Found at i:6822173 original size:17 final size:18
Alignment explanation
Indices: 6822153--6822188 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
6822143 TTCTCATTAA
6822153 TTTA-TTTTATATAAATT
1 TTTAGTTTTATATAAATT
6822170 TTTATGTTTTATATAAATT
1 TTTA-GTTTTATATAAATT
6822189 CTCATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
19 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTAGTTTTATATAAATT
Found at i:6823267 original size:22 final size:23
Alignment explanation
Indices: 6823239--6823281 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
6823229 AAATGAAAAT
*
6823239 TATT-AAATGAAAAAGGAAAAGA
1 TATTAAAATGAAAAAAGAAAAGA
6823261 TATTAAAATGAAAAAAGAAAA
1 TATTAAAATGAAAAAAGAAAA
6823282 AAAAACATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (23 bp):
TATTAAAATGAAAAAAGAAAAGA
Found at i:6824162 original size:18 final size:18
Alignment explanation
Indices: 6824131--6824183 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
6824121 ATTGAGATAA
6824131 AAATAAATTT--TTAATT
1 AAATAAATTTAATTAATT
6824147 AAATAAATTTAATTAATT
1 AAATAAATTTAATTAATT
*
6824165 AAA-AATTTTAAATTAATT
1 AAATAAATTT-AATTAATT
6824183 A
1 A
6824184 CACCTTCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 10 0.30
17 5 0.15
18 18 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATAAATTTAATTAATT
Found at i:6824249 original size:18 final size:17
Alignment explanation
Indices: 6824226--6824271 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
6824216 TTTTTTTTAG
6824226 TTTTAATTAATTTAAATT
1 TTTTAATTAA-TTAAATT
*
6824244 TTTTAATTAATTAAGTT
1 TTTTAATTAATTAAATT
6824261 TATTTAATTAA
1 T-TTTAATTAA
6824272 AAACCTATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTAATTAATTAAATT
Found at i:6824531 original size:28 final size:27
Alignment explanation
Indices: 6824496--6824551 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
6824486 CCCTTATAGT
*
6824496 TATAATCACAACTGAAGACATAAATAA
1 TATAATCACAACTGAAAACATAAATAA
*
6824523 TATATATCACAACTGAAAATATAAATAA
1 TATA-ATCACAACTGAAAACATAAATAA
6824551 T
1 T
6824552 CAAAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.27
Consensus pattern (27 bp):
TATAATCACAACTGAAAACATAAATAA
Found at i:6827271 original size:2 final size:2
Alignment explanation
Indices: 6827260--6827289 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6827250 TGAAGCAAGA
6827260 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6827290 CACGCCGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6827735 original size:6 final size:6
Alignment explanation
Indices: 6827724--6827761 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
6827714 AACCGCACAT
6827724 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC AT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC AT
6827762 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:6834466 original size:20 final size:19
Alignment explanation
Indices: 6834404--6834468 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
6834394 AATATAATTT
6834404 TTTTTAATATTTTCTT-ATCA
1 TTTTTAATATTTT-TTCAT-A
*
6834424 TTTTTAATAATTTTTTCGTA
1 TTTTTAAT-ATTTTTTCATA
*
6834444 TTTTTCATATTTTTTCATAA
1 TTTTTAATATTTTTTCAT-A
6834464 TTTTT
1 TTTTT
6834469 TGTATTCCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
19 9 0.23
20 24 0.62
21 6 0.15
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTAATATTTTTTCATA
Found at i:6834488 original size:30 final size:30
Alignment explanation
Indices: 6834423--6834488 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
6834413 TTTTCTTATC
*
6834423 ATTTTTAATAATTTTTTCGTATTTTTCATA
1 ATTTTTAATAATTTTTTCGTATTTTTCAGA
* *
6834453 TTTTTTCATAATTTTTT-GTATTCCTTT-AGA
1 ATTTTTAATAATTTTTTCGTATT--TTTCAGA
6834483 ATTTTT
1 ATTTTT
6834489 GTATTCTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 5 0.17
30 22 0.73
31 3 0.10
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.65
Consensus pattern (30 bp):
ATTTTTAATAATTTTTTCGTATTTTTCAGA
Found at i:6834534 original size:37 final size:36
Alignment explanation
Indices: 6834458--6834534 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 36
6834448 TCATATTTTT
* * *
6834458 TCATAATTTTTTGTATTCCTTTAGAATTTTTGTATTC
1 TCATAATTTTTAGTATT-CTTTAGAATTTTGGTACTC
*
6834495 TCATAATTTTTAGTAATT-TTTATAATATTTGGTACTC
1 TCATAATTTTTAGT-ATTCTTTAGAAT-TTTGGTACTC
6834532 TCA
1 TCA
6834535 ATTTTTCTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
36 7 0.21
37 24 0.71
38 3 0.09
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (36 bp):
TCATAATTTTTAGTATTCTTTAGAATTTTGGTACTC
Found at i:6834751 original size:19 final size:20
Alignment explanation
Indices: 6834727--6834770 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6834717 CTATGCTTTC
*
6834727 AAAAA-TAAGTTTTGGAATG
1 AAAAATTAAGTTTTGAAATG
* *
6834746 AAAAATTAATTTTTGAAATT
1 AAAAATTAAGTTTTGAAATG
6834766 AAAAA
1 AAAAA
6834771 AAATATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (20 bp):
AAAAATTAAGTTTTGAAATG
Found at i:6834793 original size:25 final size:24
Alignment explanation
Indices: 6834746--6834794 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
6834736 TTTTGGAATG
*
6834746 AAAAATTAATTTTTGAAATTAAAA
1 AAAAATTAATTTTTGAAACTAAAA
**
6834770 AAAATATTAATTTTTGGTACTAAAA
1 AAAA-ATTAATTTTTGAAACTAAAA
6834795 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (24 bp):
AAAAATTAATTTTTGAAACTAAAA
Found at i:6835598 original size:23 final size:23
Alignment explanation
Indices: 6835553--6835598 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6835543 GATTATGTCG
* *
6835553 ATTCTTGAATTATAGTTTGATTT
1 ATTCTTGAATTATAGTATAATTT
6835576 ATTCTTGAATTATAAG-ATAATTT
1 ATTCTTGAATTAT-AGTATAATTT
6835599 CATAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.52
Consensus pattern (23 bp):
ATTCTTGAATTATAGTATAATTT
Found at i:6841309 original size:20 final size:21
Alignment explanation
Indices: 6841284--6841324 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6841274 TTTTAACATT
6841284 AATAATAATATTAA-ATTTTA
1 AATAATAATATTAATATTTTA
* *
6841304 AATAATATTTTTAATATTTTA
1 AATAATAATATTAATATTTTA
6841325 TTGAAATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATAATAATATTAATATTTTA
Found at i:6841370 original size:19 final size:20
Alignment explanation
Indices: 6841342--6841380 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6841332 TTGCATATTA
*
6841342 ATATTTCAA-TAATAAATAT
1 ATATTGCAATTAATAAATAT
*
6841361 ATATTGCAATTTATAAATAT
1 ATATTGCAATTAATAAATAT
6841381 TTTATAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (20 bp):
ATATTGCAATTAATAAATAT
Found at i:6841428 original size:23 final size:23
Alignment explanation
Indices: 6841372--6841428 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
6841362 TATTGCAATT
6841372 TATAAATATTTTATAATATAAAA
1 TATAAATATTTTATAATATAAAA
* * *
6841395 GATGAAGATTTTAATAATAT-AAA
1 TATAAATATTTT-ATAATATAAAA
6841418 TATAAATATTT
1 TATAAATATTT
6841429 GTTTAAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (23 bp):
TATAAATATTTTATAATATAAAA
Found at i:6853468 original size:23 final size:23
Alignment explanation
Indices: 6853416--6853504 Score: 101
Period size: 23 Copynumber: 3.8 Consensus size: 23
6853406 TCATTAACAT
* *
6853416 TGTTCGTGAACATGTTCGATTATA
1 TGTTCATGAACATATTCGATTA-A
6853440 TGTTCATGAACATATTC-ATTTAA
1 TGTTCATGAACATATTCGA-TTAA
*
6853463 TGTTCATGAACATGTTCGATTAA
1 TGTTCATGAACATATTCGATTAA
*
6853486 -GTTAAATGAACATATTCGA
1 TGTT-CATGAACATATTCGA
6853505 GAACATTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
22 3 0.05
23 35 0.61
24 19 0.33
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (23 bp):
TGTTCATGAACATATTCGATTAA
Found at i:6853477 original size:12 final size:12
Alignment explanation
Indices: 6853405--6853479 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
6853395 TTGTTTATTA
*
6853405 TTCATTAACATTG
1 TTCATGAACA-TG
*
6853418 TTCGTGAACATG
1 TTCATGAACATG
* *
6853430 TTCGAT-TATATG
1 TTC-ATGAACATG
*
6853442 TTCATGAACATA
1 TTCATGAACATG
**
6853454 TTCATTTA-ATG
1 TTCATGAACATG
6853465 TTCATGAACATG
1 TTCATGAACATG
6853477 TTC
1 TTC
6853480 GATTAAGTTA
Statistics
Matches: 46, Mismatches: 13, Indels: 7
0.70 0.20 0.11
Matches are distributed among these distances:
11 10 0.22
12 27 0.59
13 9 0.20
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (12 bp):
TTCATGAACATG
Found at i:6861174 original size:31 final size:31
Alignment explanation
Indices: 6861139--6861198 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
6861129 TTATTTAAGG
6861139 AAATTAAATTTATTTCTTCTACTAAATTTTA
1 AAATTAAATTTATTTCTTCTACTAAATTTTA
* * * *
6861170 AAATTGAATTTTTTTTTTCTAGTAAATTT
1 AAATTAAATTTATTTCTTCTACTAAATTT
6861199 AGTTCCCTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (31 bp):
AAATTAAATTTATTTCTTCTACTAAATTTTA
Found at i:6861706 original size:95 final size:96
Alignment explanation
Indices: 6861541--6861719 Score: 342
Period size: 95 Copynumber: 1.9 Consensus size: 96
6861531 TACAACTAAT
6861541 TTAAGGTGTCAAATAGCAAATCAACTTTATAATTTTTTTATAATATATTAATTATTAGTTTACCT
1 TTAAGGTGTCAAATAGCAAATCAACTTTATAATTTTTTTATAATATATTAATTATTAGTTTACCT
*
6861606 AAAAAGTAATATAACATTTTTTTTAAAAAAA
66 AAAAAGTAATATAAAATTTTTTTTAAAAAAA
6861637 TTAAGGTGTCAAATAGCAAATCAACTTTATAA-TTTTTTATAATATATTAATTATTAGTTTACCT
1 TTAAGGTGTCAAATAGCAAATCAACTTTATAATTTTTTTATAATATATTAATTATTAGTTTACCT
6861701 AAAAAGTAATATAAAATTT
66 AAAAAGTAATATAAAATTT
6861720 AATATATAAC
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
95 50 0.61
96 32 0.39
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (96 bp):
TTAAGGTGTCAAATAGCAAATCAACTTTATAATTTTTTTATAATATATTAATTATTAGTTTACCT
AAAAAGTAATATAAAATTTTTTTTAAAAAAA
Found at i:6862343 original size:20 final size:21
Alignment explanation
Indices: 6862309--6862348 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
6862299 TTAAAATTAT
*
6862309 TTTTAAAAGTGTAAAAAAATA
1 TTTTAAAAGTATAAAAAAATA
6862330 TTTTAAAA-TATAAAAAAAT
1 TTTTAAAAGTATAAAAAAAT
6862349 GTAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
TTTTAAAAGTATAAAAAAATA
Found at i:6862387 original size:21 final size:21
Alignment explanation
Indices: 6862349--6862493 Score: 79
Period size: 23 Copynumber: 6.8 Consensus size: 21
6862339 ATAAAAAAAT
*
6862349 GTAAAAAAAACTTATAAAAATTA
1 GTAAAAAATA-TT-TAAAAATTA
6862372 GTAAAAAATATTT-AAAATT-
1 GTAAAAAATATTTAAAAATTA
* **
6862391 TTAAAATTTATTTAAAAATTTA
1 GTAAAAAATATTTAAAAA-TTA
6862413 -TAAATATATATTATTTAAAAA-TA
1 GTAAA-A-A-A-TATTTAAAAATTA
* * *
6862436 -TTAAAAGT-TATAAAAATT-
1 GTAAAAAATATTTAAAAATTA
*
6862454 GTAAAAAAAATTATAAAAATTA
1 GTAAAAAATATT-TAAAAATTA
6862476 GTAAAAAAATCATTTAAA
1 GT-AAAAAAT-ATTTAAA
6862494 GTTTAAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
18 7 0.07
19 17 0.18
20 11 0.12
21 16 0.17
22 6 0.06
23 24 0.26
24 3 0.03
25 10 0.11
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.36
Consensus pattern (21 bp):
GTAAAAAATATTTAAAAATTA
Found at i:6862395 original size:19 final size:19
Alignment explanation
Indices: 6862343--6862493 Score: 63
Period size: 21 Copynumber: 7.2 Consensus size: 19
6862333 TAAAATATAA
* *
6862343 AAAAATGTAAAAAAAACTTAT
1 AAAAATTTAAAAAATA-TT-T
6862364 AAAAATTAGTAAAAAATATTT
1 AAAAATT--TAAAAAATATTT
* **
6862385 AAAATTTTAAAATTTATTT
1 AAAAATTTAAAAAATATTT
6862404 AAAAATTTATAAATATATATTATTT
1 AAAAA-TT-TAAA-A-A-A-TATTT
* *
6862429 AAAAATATT-AAAAGT-TAT
1 AAAAAT-TTAAAAAATATTT
*
6862447 AAAAATTGTAAAAAAAATTAT
1 AAAAATT-TAAAAAATATT-T
6862468 AAAAATTAGTAAAAAAATCATTT
1 AAAAATT--T-AAAAAAT-ATTT
6862491 AAA
1 AAA
6862494 GTTTAAATTT
Statistics
Matches: 100, Mismatches: 14, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
17 1 0.01
18 9 0.09
19 19 0.19
20 3 0.03
21 26 0.26
22 6 0.06
23 20 0.20
24 5 0.05
25 11 0.11
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.35
Consensus pattern (19 bp):
AAAAATTTAAAAAATATTT
Found at i:6862471 original size:9 final size:9
Alignment explanation
Indices: 6862354--6862482 Score: 50
Period size: 9 Copynumber: 13.6 Consensus size: 9
6862344 AAAATGTAAA
6862354 AAAAACTTAT
1 AAAAA-TTAT
6862364 AAAAATTAGT
1 AAAAATTA-T
*
6862374 AAAAAATATT
1 AAAAATTA-T
* *
6862384 TAAAATTTT
1 AAAAATTAT
*
6862393 AAAATTTATTT
1 AAAAATTA--T
6862404 AAAAATT-T
1 AAAAATTAT
*
6862412 ATAAA-TAT
1 AAAAATTAT
**
6862420 ATATTATT-T
1 A-AAAATTAT
6862429 AAAAA-TATT
1 AAAAATTA-T
*
6862438 AAAAGTTAT
1 AAAAATTAT
*
6862447 AAAAATTGTAAA
1 AAAAA-T-T-AT
6862459 AAAAATTAT
1 AAAAATTAT
6862468 AAAAATTAGT
1 AAAAATTA-T
6862478 AAAAA
1 AAAAA
6862483 AATCATTTAA
Statistics
Matches: 87, Mismatches: 19, Indels: 26
0.66 0.14 0.20
Matches are distributed among these distances:
7 2 0.02
8 9 0.10
9 31 0.36
10 30 0.34
11 9 0.10
12 6 0.07
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (9 bp):
AAAAATTAT
Found at i:6862573 original size:21 final size:23
Alignment explanation
Indices: 6862543--6862589 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
6862533 TAAAAATATT
6862543 AAAAGTTATAAAAATT-GTAAAA
1 AAAAGTTATAAAAATTAGTAAAA
6862565 AAAAG-TATAAAAATTAGTAAAA
1 AAAAGTTATAAAAATTAGTAAAA
6862587 AAA
1 AAA
6862590 TCATTTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (23 bp):
AAAAGTTATAAAAATTAGTAAAA
Found at i:6862641 original size:106 final size:106
Alignment explanation
Indices: 6862342--6862684 Score: 543
Period size: 105 Copynumber: 3.2 Consensus size: 106
6862332 TTAAAATATA
* *
6862342 AAAAAATGTAAAAAAAACTTATAAAAATTAGT-AAAAAAT-ATTTAAAATTTTAAAATTTA-TTT
1 AAAAATTGTAAAAAAAA-TTATAAAAATTAGTAAAAAAATCATTT-AAAGTTTAAAATTTATTTT
*
6862404 AAAAATTTATAAATATATATTATTTAAAAATATTAAAAGTTAT
64 AAAAATCTATAAATATATATTATTTAAAAATATTAAAAGTTAT
*
6862447 AAAAATTGTAAAAAAAATTATAAAAATTAGTAAAAAAATCATTTAAAGTTT-AAATTTTTTTTAA
1 AAAAATTGTAAAAAAAATTATAAAAATTAGTAAAAAAATCATTTAAAGTTTAAAATTTATTTTAA
6862511 AAATCTATAAATATATATTATTTAAAAATATTAAAAGTTAT
66 AAATCTATAAATATATATTATTTAAAAATATTAAAAGTTAT
*
6862552 AAAAATTGTAAAAAAAAGTATAAAAATTAGTAAAAAAATCATTTGAAA-TTTAAAATTTATTTTA
1 AAAAATTGTAAAAAAAATTATAAAAATTAGTAAAAAAATCATTT-AAAGTTTAAAATTTATTTTA
* *
6862616 AAAATCTATAAATATATATTATTTAAAAATATTAAAATTTTCT
65 AAAATCTATAAATATATATTATTTAAAAATATTAAAA-GTTAT
*
6862659 AAAAATTGTAAAAGAAATTATAAAAA
1 AAAAATTGTAAAAAAAATTATAAAAA
6862685 ATCTTAAGAT
Statistics
Matches: 222, Mismatches: 10, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
104 20 0.09
105 120 0.54
106 55 0.25
107 27 0.12
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (106 bp):
AAAAATTGTAAAAAAAATTATAAAAATTAGTAAAAAAATCATTTAAAGTTTAAAATTTATTTTAA
AAATCTATAAATATATATTATTTAAAAATATTAAAAGTTAT
Found at i:6863294 original size:28 final size:28
Alignment explanation
Indices: 6863255--6863332 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
6863245 AAAGTTACAG
*
6863255 TTTTTAT-GAATTTTAAAAATATTTT-TAA
1 TTTTTATAAAATTTTAAAAA-ATTTTAT-A
6863283 TTTTT-TAAAATTTTAAATAAATTTTATA
1 TTTTTATAAAATTTTAAA-AAATTTTATA
* *
6863311 TTTTTATATATTTTTAAAAAAT
1 TTTTTATAAAATTTTAAAAAAT
6863333 AGAGCAGTGC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
27 1 0.02
28 29 0.67
29 13 0.30
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (28 bp):
TTTTTATAAAATTTTAAAAAATTTTATA
Found at i:6869132 original size:31 final size:31
Alignment explanation
Indices: 6869090--6869160 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
6869080 TAGTTTATAT
* * *
6869090 TTTTATAATTTTTAAAAAAATTAAATTA-ATA
1 TTTTATCATTTTTAAAAAAATCAAAGTACA-A
*
6869121 TTTTATCA-TTTTAAAAGAATCAAAGTACAA
1 TTTTATCATTTTTAAAAAAATCAAAGTACAA
6869151 TTTTATCATT
1 TTTTATCATT
6869161 AAAATTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
30 25 0.74
31 9 0.26
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (31 bp):
TTTTATCATTTTTAAAAAAATCAAAGTACAA
Found at i:6869175 original size:9 final size:9
Alignment explanation
Indices: 6869161--6869185 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6869151 TTTTATCATT
6869161 AAAATTTTA
1 AAAATTTTA
6869170 AAAATTTTA
1 AAAATTTTA
6869179 AAAATTT
1 AAAATTT
6869186 AAATGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AAAATTTTA
Found at i:6877191 original size:6 final size:7
Alignment explanation
Indices: 6877173--6877198 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6877163 GCCACCAAAT
6877173 ATTTTTA
1 ATTTTTA
6877180 ATTTTTA
1 ATTTTTA
6877187 ATTTTTA
1 ATTTTTA
6877194 ATTTT
1 ATTTT
6877199 GTCATTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTA
Found at i:6877825 original size:16 final size:16
Alignment explanation
Indices: 6877785--6877828 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
6877775 AATATTAAAT
6877785 TTAATTTAATA-TTTA
1 TTAATTTAATATTTTA
*
6877800 -TATATATAATATTTTA
1 TTA-ATTTAATATTTTA
6877816 TTAATTTAATATT
1 TTAATTTAATATT
6877829 AACATGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 2 0.08
15 7 0.29
16 13 0.54
17 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAATTTAATATTTTA
Found at i:6878483 original size:15 final size:15
Alignment explanation
Indices: 6878463--6878492 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6878453 GTCACGTGTT
6878463 TTTTTTTAAATTTAA
1 TTTTTTTAAATTTAA
*
6878478 TTTTTTTATATTTAA
1 TTTTTTTAAATTTAA
6878493 CTATACTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTTTAAATTTAA
Found at i:6887607 original size:27 final size:27
Alignment explanation
Indices: 6887575--6887636 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
6887565 TGGAGTTGTT
6887575 GTCGTGCCCGGTGTTGTTGGTGTTAAG
1 GTCGTGCCCGGTGTTGTTGGTGTTAAG
6887602 GTCGTGCCCGGTGTTGTTGGTGTTAAG
1 GTCGTGCCCGGTGTTGTTGGTGTTAAG
6887629 GTCGTGCC
1 GTCGTGCC
6887637 TCCACCACTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.06, C:0.18, G:0.40, T:0.35
Consensus pattern (27 bp):
GTCGTGCCCGGTGTTGTTGGTGTTAAG
Found at i:6892553 original size:60 final size:59
Alignment explanation
Indices: 6892378--6892627 Score: 256
Period size: 60 Copynumber: 4.2 Consensus size: 59
6892368 TAGCCATTGC
* * *
6892378 ATGGCCGACACCTCCTATTTTAAAAAAAAAATTTAAAATTTTTTCGTGTTGGCCATCAA
1 ATGGCCGACACCTCCTATTTCAAAAAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAA
* *** ** * *
6892437 ATGGCCGACACCCCCT-TTTCTTGAAAAAAATTTGCA-TTTTTGGGTGTTGGTCATCAA
1 ATGGCCGACACCTCCTATTTCAAAAAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAA
* *
6892494 ATGGCCGACACCTTCTATTCTCAAGAAAAAAAATTTTAATTTTTTTGGTGTT-GCCATCAA
1 ATGGCCGACACCTCCTATT-TCAA-AAAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAA
* * * * *
6892554 ATGACCGACACC-CTTTTTTCTCGAATAAAAAAATTCCAAATTTTTTTGGTGTTGGCCATCAA
1 ATGGCCGACACCTC-CTATT-TC-AAAAAAAAAATT-TAAATTTTTTTGGTGTTGGCCATCAA
6892616 ATGGCCGACACC
1 ATGGCCGACACC
6892628 AACTTTTCCT
Statistics
Matches: 156, Mismatches: 27, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
57 32 0.21
58 16 0.10
59 17 0.11
60 44 0.28
61 28 0.18
62 19 0.12
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (59 bp):
ATGGCCGACACCTCCTATTTCAAAAAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAA
Found at i:6892616 original size:62 final size:62
Alignment explanation
Indices: 6892378--6892627 Score: 238
Period size: 59 Copynumber: 4.2 Consensus size: 62
6892368 TAGCCATTGC
* * * * *
6892378 ATGGCCGACA-CCTCCTATT-TTAA-AAAAAAAATTTAAAATTTTTTCGTGTTGGCCATCAA
1 ATGGCCGACACCCTTCTATTCTCAAGAAAAAAAATTCAAATTTTTTTGGTGTTGGCCATCAA
* ** * * *
6892437 ATGGCCGACACCC-CCT-TT-TCTTGAAAAAAATTTGC--A-TTTTTGGGTGTTGGTCATCAA
1 ATGGCCGACACCCTTCTATTCTCAAGAAAAAAAATT-CAAATTTTTTTGGTGTTGGCCATCAA
**
6892494 ATGGCCGACA-CCTTCTATTCTCAAGAAAAAAAATTTTAATTTTTTTGGTGTT-GCCATCAA
1 ATGGCCGACACCCTTCTATTCTCAAGAAAAAAAATTCAAATTTTTTTGGTGTTGGCCATCAA
* * *
6892554 ATGACCGACACCCTT-TTTTCTCGAA-TAAAAAAATTCCAAATTTTTTTGGTGTTGGCCATCAA
1 ATGGCCGACACCCTTCTATTCTC-AAGAAAAAAAATT-CAAATTTTTTTGGTGTTGGCCATCAA
6892616 ATGGCCGACACC
1 ATGGCCGACACC
6892628 AACTTTTCCT
Statistics
Matches: 157, Mismatches: 21, Indels: 23
0.78 0.10 0.11
Matches are distributed among these distances:
56 2 0.01
57 30 0.19
58 6 0.04
59 34 0.22
60 34 0.22
61 32 0.20
62 19 0.12
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (62 bp):
ATGGCCGACACCCTTCTATTCTCAAGAAAAAAAATTCAAATTTTTTTGGTGTTGGCCATCAA
Found at i:6892635 original size:62 final size:61
Alignment explanation
Indices: 6892378--6892635 Score: 232
Period size: 57 Copynumber: 4.3 Consensus size: 61
6892368 TAGCCATTGC
* * *
6892378 ATGGCCGACACC-TCCTATTT-T-AA-AAAAAAAATTTAAAATTTTTTCGTGTTGGCCATCAA
1 ATGGCCGACACCAT-CT-TTTCTCAAGAAAAAAAATTCAAATTTTTTTGGTGTTGGCCATCAA
** * * * *
6892437 ATGGCCGACACCCCCTTTTCT--TGAAAAAAATTTGC--A-TTTTTGGGTGTTGGTCATCAA
1 ATGGCCGACACCATCTTTTCTCAAGAAAAAAAATT-CAAATTTTTTTGGTGTTGGCCATCAA
* * **
6892494 ATGGCCGACACCTTCTATTCTCAAGAAAAAAAATTTTAATTTTTTTGGTGTT-GCCATCAA
1 ATGGCCGACACCATCTTTTCTCAAGAAAAAAAATTCAAATTTTTTTGGTGTTGGCCATCAA
* * * *
6892554 ATGACCGACACCCTTTTTTCTCGAA-TAAAAAAATTCCAAATTTTTTTGGTGTTGGCCATCAA
1 ATGGCCGACACCATCTTTTCTC-AAGAAAAAAAATT-CAAATTTTTTTGGTGTTGGCCATCAA
*
6892616 ATGGCCGACACCAACTTTTC
1 ATGGCCGACACCATCTTTTC
6892636 CTCATTCTCT
Statistics
Matches: 161, Mismatches: 26, Indels: 21
0.77 0.12 0.10
Matches are distributed among these distances:
57 36 0.22
58 4 0.02
59 34 0.21
60 35 0.22
61 28 0.17
62 24 0.15
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.34
Consensus pattern (61 bp):
ATGGCCGACACCATCTTTTCTCAAGAAAAAAAATTCAAATTTTTTTGGTGTTGGCCATCAA
Found at i:6893073 original size:102 final size:102
Alignment explanation
Indices: 6892897--6893100 Score: 381
Period size: 102 Copynumber: 2.0 Consensus size: 102
6892887 CACTATTGAG
*
6892897 TAAAATACTATATGTATATGATATAGTTGCCACTAAATTTAACTATGTGGTATAACCGTAAAGGT
1 TAAAATACTATATGTATATGATATAGTTGCCACTAAATTTAACCATGTGGTATAACCGTAAAGGT
6892962 TATGCTATCAAAGGTCGGTTAACGGAATTCTGTCATC
66 TATGCTATCAAAGGTCGGTTAACGGAATTCTGTCATC
**
6892999 TAAAATACTATATGTATATGATATAGTTGCTGCTAAATTTAACCATGTGGTATAACCGTAAAGGT
1 TAAAATACTATATGTATATGATATAGTTGCCACTAAATTTAACCATGTGGTATAACCGTAAAGGT
6893064 TATGCTATCAAAGGTCGGTTAACGGAATTCTGTCATC
66 TATGCTATCAAAGGTCGGTTAACGGAATTCTGTCATC
6893101 GAACGGCCGA
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 99 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (102 bp):
TAAAATACTATATGTATATGATATAGTTGCCACTAAATTTAACCATGTGGTATAACCGTAAAGGT
TATGCTATCAAAGGTCGGTTAACGGAATTCTGTCATC
Found at i:6895966 original size:30 final size:30
Alignment explanation
Indices: 6895932--6895988 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
6895922 TTCTTATAGA
6895932 ATTCATTTTGAGGTGTTAGAGAGCATAGGG
1 ATTCATTTTGAGGTGTTAGAGAGCATAGGG
6895962 ATTCATTTTGAGGTGTTAGAGAGCATA
1 ATTCATTTTGAGGTGTTAGAGAGCATA
6895989 AGGACTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (30 bp):
ATTCATTTTGAGGTGTTAGAGAGCATAGGG
Found at i:6897232 original size:23 final size:23
Alignment explanation
Indices: 6897201--6897298 Score: 126
Period size: 23 Copynumber: 4.2 Consensus size: 23
6897191 ACACTAGCGC
*
6897201 GCTCTCTGATTAGCACTATGTGT
1 GCTCTCTGATTAGCACTGTGTGT
*
6897224 GCTATCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
6897247 GCTCTCTGTTTAGCAC-GTTTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
6897270 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
6897295 GCTC
1 GCTC
6897299 AGTACTTTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
22 3 0.05
23 45 0.70
25 13 0.20
26 3 0.05
ACGTcount: A:0.13, C:0.22, G:0.23, T:0.41
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:6897332 original size:23 final size:23
Alignment explanation
Indices: 6897302--6897391 Score: 87
Period size: 23 Copynumber: 3.9 Consensus size: 23
6897292 TGTGCTCAGT
6897302 ACTTTGTGTACTCTCTGTTTAGC
1 ACTTTGTGTACTCTCTGTTTAGC
*
6897325 ACTTTGTGTGCTCTCTGTTGCCTAGC
1 ACTTTGTGTACTCTCTGTT---TAGC
* *
6897351 ACTTATGTG--CTCTCTGTTCAGT
1 ACTT-TGTGTACTCTCTGTTTAGC
*
6897373 ACTTCG-GTACTCTCTGTTT
1 ACTTTGTGTACTCTCTGTTT
6897392 GTTCCGTTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 15 0.27
23 18 0.32
25 9 0.16
26 8 0.14
27 4 0.07
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (23 bp):
ACTTTGTGTACTCTCTGTTTAGC
Found at i:6897360 original size:64 final size:64
Alignment explanation
Indices: 6897242--6897362 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
6897232 ATTAGCACTG
* * *
6897242 TGTGTGCTCTCTGTTTAGCACGTTTCGTGCTCTCTGTTATTAGCACTGTGTGTGCTCAGTACTT
1 TGTGTACTCTCTGTTTAGCACGTTTCGTGCTCTCTGTTACTAGCACTGTATGTGCTCAGTACTT
* *
6897306 TGTGTACTCTCTGTTTAGCAC-TTTGTGTGCTCTCTGTTGCCTAGCACT-TATGTGCTC
1 TGTGTACTCTCTGTTTAGCACGTTT-CGTGCTCTCTGTT-ACTAGCACTGTATGTGCTC
6897363 TCTGTTCAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
63 3 0.06
64 40 0.80
65 7 0.14
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.44
Consensus pattern (64 bp):
TGTGTACTCTCTGTTTAGCACGTTTCGTGCTCTCTGTTACTAGCACTGTATGTGCTCAGTACTT
Found at i:6898426 original size:25 final size:24
Alignment explanation
Indices: 6898389--6898463 Score: 84
Period size: 23 Copynumber: 3.2 Consensus size: 24
6898379 ACACTAGCGC
6898389 GCTCTCTGT-TTAGCA-TGTCTCGT
1 GCTCTCTGTATTAGCACTGTCT-GT
*
6898412 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-TATTAGCACTGTCTGT
* *
6898437 GCTCTCTG-ATTAGCACTTTGTGT
1 GCTCTCTGTATTAGCACTGTCTGT
6898460 GCTC
1 GCTC
6898464 AGTACTTTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
23 26 0.55
24 1 0.02
25 16 0.34
26 4 0.09
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.43
Consensus pattern (24 bp):
GCTCTCTGTATTAGCACTGTCTGT
Found at i:6899788 original size:62 final size:61
Alignment explanation
Indices: 6899719--6900188 Score: 489
Period size: 62 Copynumber: 7.8 Consensus size: 61
6899709 AGGAGAAATT
* *
6899719 GGTGTCGGCCATTTGATGCCCAACACCAAAAAAATTTGGAATTTTTTTATTCGAGAAAAGGG
1 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTGAAATTTTTTT-TTCGAGAAAAGGG
* * *
6899781 GGTGTCGGCCATTTGATGACCAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAATAGGG
1 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTGAAATTTTTTTTTCGAGAAAAGGG
* * * *
6899842 GGTGTCGACCATTTGATGGCTAACACC-CAAAAA--TGTAA--TTTTTTTCGAGAAAAGGG
1 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTGAAATTTTTTTTTCGAGAAAAGGG
* * ** * *
6899898 GGTGTCGGCCATTTGATAGCCAAGATGAAAAAATTTTGAAATTTTTTTCTCGAGAAAAAGGG
1 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTGAAATTTTTTTTTCGAG-AAAAGGG
* * * *
6899960 AGTGTCGTCCATTTGATAGCCAACACCAAAAAAATTTG-AATTCTTTTTTCTCGAGAATAGGG
1 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTGAAATT-TTTTTT-TCGAGAAAAGGG
* * * *
6900022 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAAATT-AAATTTTTTTTTTGTGAAATAGGA
1 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTGAAATTTTTTTTTCGAGAAA-AGGG
* *** * * *
6900083 GTTGTCGGCCATGCAATGGCCAATACC-CAAAAA--TGTAA--TTTTTTTCGAGAAAAGGG
1 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTGAAATTTTTTTTTCGAGAAAAGGG
* * * * *
6900139 AGTGTCGGCCATTTGGTGGGCAACACCAAAAAATTTTG-ATTTTTTTTTTC
1 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTGAAATTTTTTTTTC
6900189 AAACAGGCAT
Statistics
Matches: 334, Mismatches: 58, Indels: 34
0.78 0.14 0.08
Matches are distributed among these distances:
56 59 0.18
57 20 0.06
58 6 0.02
59 8 0.02
60 23 0.07
61 80 0.24
62 133 0.40
63 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (61 bp):
GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTGAAATTTTTTTTTCGAGAAAAGGG
Found at i:6899936 original size:117 final size:117
Alignment explanation
Indices: 6899719--6900186 Score: 481
Period size: 117 Copynumber: 3.9 Consensus size: 117
6899709 AGGAGAAATT
* * * *
6899719 GGTGTCGGCCATTTGATGCCCAACACCAAAAAAATTTGGAATTTTTTTATTCGAGAAAAGGGGGT
1 GGTGTCGACCATTTGATGGCCAACACC-CAAAAA--TGTAA--TTTTT-TTCGAGAAAAGGGGGT
6899784 GTCGGCCATTTGATGACCAACACCAAAAAAATTTGAAATTTTTTTCTCGAG-AATAGGG
60 GTCGGCCATTTGATG-CCAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAAATAGGG
*
6899842 GGTGTCGACCATTTGATGGCTAACACCCAAAAATGTAATTTTTTTCGAGAAAAGGGGGTGTCGGC
1 GGTGTCGACCATTTGATGGCCAACACCCAAAAATGTAATTTTTTTCGAGAAAAGGGGGTGTCGGC
* ** * *
6899907 CATTTGATAGCCAAGATGAAAAAATTTTGAAATTTTTTTCTCGAGAAAAAGGG
66 CATTTGAT-GCCAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAAATAGGG
* * * * * *
6899960 AGTGTCGTCCATTTGATAGCCAACACCAAAAAAATTTGAATTCTTTTTTCTCGAGAATAGGGGGT
1 GGTGTCGACCATTTGATGGCCAACACC-CAAAAATGT-AA---TTTTTT-TCGAGAAAAGGGGGT
* * * * *
6900025 GTCGGCCATTTGATGGCCAACACCAAAAAAAATT-AAATTTTTTTTTTGTGAAATAGGA
60 GTCGGCCATTTGAT-GCCAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAAATAGGG
* * *** * *
6900083 GTTGTCGGCCATGCAATGGCCAATACCCAAAAATGTAATTTTTTTCGAGAAAAGGGAGTGTCGGC
1 GGTGTCGACCATTTGATGGCCAACACCCAAAAATGTAATTTTTTTCGAGAAAAGGGGGTGTCGGC
* * * **
6900148 CATTTGGTGGGCAACACCAAAAAATTTTGATTTTTTTTT
66 CATTTGAT-GCCAACACCAAAAAAATTTGAAATTTTTTT
6900187 TCAAACAGGC
Statistics
Matches: 290, Mismatches: 46, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
117 104 0.36
118 49 0.17
119 7 0.02
120 6 0.02
121 2 0.01
122 12 0.04
123 68 0.23
124 42 0.14
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (117 bp):
GGTGTCGACCATTTGATGGCCAACACCCAAAAATGTAATTTTTTTCGAGAAAAGGGGGTGTCGGC
CATTTGATGCCAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAAATAGGG
Found at i:6900053 original size:179 final size:179
Alignment explanation
Indices: 6899719--6900186 Score: 515
Period size: 179 Copynumber: 2.6 Consensus size: 179
6899709 AGGAGAAATT
* * *
6899719 GGTGTCGGCCATTTGATGCCCAACACCAAAAAAATTTGGAATTTTTTTATTCGAGAAAAGGGGGT
1 GGTGTCGGCCATTTGATGCCCAACACCAAAAAAATTTGAAATTTTTTTACTCGAGAAAAGGGAGT
6899784 GTCGGCCATTTGATGACCAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAATAGGGGGTGTCG
66 GTCGGCCATTTGATGACCAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAATAGGGGGTGTCG
*
6899849 ACCATTTGATGGCTAACACCCAAAAATGTAATTTTTTTCGAGAAAAGGG
131 ACCATTTGATGGCCAACACCCAAAAATGTAATTTTTTTCGAGAAAAGGG
* ** *
6899898 GGTGTCGGCCATTTGATAG-CCAAGATGAAAAAATTTTGAAATTTTTTT-CTCGAGAAAAAGGGA
1 GGTGTCGGCCATTTGAT-GCCCAACACCAAAAAAATTTGAAATTTTTTTACTCGAG-AAAAGGGA
* *
6899961 GTGTCGTCCATTTGAT-AGCCAACACCAAAAAAATTTGAATTCTTTTTTCTCGAGAATAGGGGGT
64 GTGTCGGCCATTTGATGA-CCAACACCAAAAAAATTTGAAAT-TTTTTTCTCGAGAATAGGGGGT
* * * * *
6900025 GTCGGCCATTTGATGGCCAACACCAAAAAAAAT-TAAATTTTTTTTTTGTGAAATAGGA
127 GTCGACCATTTGATGGCCAACACC--CAAAAATGT-AA--TTTTTTTCGAGAAA-AGGG
* *** * * * *
6900083 GTTGTCGGCCATGCAATGGCCAATACC-CAAAAA--TGTAA-TTTTTT--TCGAGAAAAGGGAGT
1 GGTGTCGGCCATTTGATGCCCAACACCAAAAAAATTTGAAATTTTTTTACTCGAGAAAAGGGAGT
* ** * **
6900142 GTCGGCCATTTGGTGGGCAACACCAAAAAATTTTGATTTTTTTTT
66 GTCGGCCATTTGATGACCAACACCAAAAAAATTTGAAATTTTTTT
6900187 TCAAACAGGC
Statistics
Matches: 246, Mismatches: 31, Indels: 25
0.81 0.10 0.08
Matches are distributed among these distances:
178 12 0.05
179 127 0.52
180 50 0.20
181 7 0.03
182 12 0.05
184 17 0.07
185 21 0.09
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (179 bp):
GGTGTCGGCCATTTGATGCCCAACACCAAAAAAATTTGAAATTTTTTTACTCGAGAAAAGGGAGT
GTCGGCCATTTGATGACCAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAATAGGGGGTGTCG
ACCATTTGATGGCCAACACCCAAAAATGTAATTTTTTTCGAGAAAAGGG
Found at i:6900150 original size:241 final size:241
Alignment explanation
Indices: 6899720--6900153 Score: 660
Period size: 241 Copynumber: 1.8 Consensus size: 241
6899710 GGAGAAATTG
6899720 GTGTCGGCCATTTGATGCCCAACACCAAAAAAATTTGGAATTTTTTTATTCGAGAAAAGGGGGTG
1 GTGTCGGCCATTTGATGCCCAACACCAAAAAAATTTGGAATTTTTTTATTCGAGAAAAGGGGGTG
* *
6899785 TCGGCCATTTGATGACCAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAATAGGGGGTGTCGA
66 TCGGCCATTTGATGACCAACACCAAAAAAAATTGAAATTTTTTTCTCGAGAATAGGAGGTGTCGA
*** * *
6899850 CCATTTGATGGCTAACACCCAAAAATGTAATTTTTTTCGAGAAAAGGGGGTGTCGGCCATTTGAT
131 CCATGCAATGGCCAACACCCAAAAATGTAATTTTTTTCGAGAAAAGGGAGTGTCGGCCATTTGAT
6899915 AGCCAAGATGAAAAAATTTTGAAATTTTTTTCTCGAGAAAAAGGGA
196 AGCCAAGATGAAAAAATTTTGAAATTTTTTTCTCGAGAAAAAGGGA
* *
6899961 GTGTCGTCCATTTGATAG-CCAACACCAAAAAAATTT-GAATTCTTTTT-TCTCGAGAATAGGGG
1 GTGTCGGCCATTTGAT-GCCCAACACCAAAAAAATTTGGAATT-TTTTTAT-TCGAGAAAAGGGG
* * * * *
6900023 GTGTCGGCCATTTGATGGCCAACACCAAAAAAAATT-AAATTTTTTTTTTGTGAAATAGGAGTTG
63 GTGTCGGCCATTTGATGACCAACACCAAAAAAAATTGAAATTTTTTTCTCGAG-AATAGGAGGTG
* *
6900087 TCGGCCATGCAATGGCCAATACCCAAAAATGTAATTTTTTTCGAGAAAAGGGAGTGTCGGCCATT
127 TCGACCATGCAATGGCCAACACCCAAAAATGTAATTTTTTTCGAGAAAAGGGAGTGTCGGCCATT
6900152 TG
192 TG
6900154 GTGGGCAACA
Statistics
Matches: 173, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
240 19 0.11
241 153 0.88
242 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (241 bp):
GTGTCGGCCATTTGATGCCCAACACCAAAAAAATTTGGAATTTTTTTATTCGAGAAAAGGGGGTG
TCGGCCATTTGATGACCAACACCAAAAAAAATTGAAATTTTTTTCTCGAGAATAGGAGGTGTCGA
CCATGCAATGGCCAACACCCAAAAATGTAATTTTTTTCGAGAAAAGGGAGTGTCGGCCATTTGAT
AGCCAAGATGAAAAAATTTTGAAATTTTTTTCTCGAGAAAAAGGGA
Found at i:6902379 original size:16 final size:17
Alignment explanation
Indices: 6902360--6902401 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
6902350 AGTTTGGTTT
6902360 TTTATTTTAAAAAA-TA
1 TTTATTTTAAAAAAGTA
6902376 TTTATAATTTAAAAAAGTA
1 TTTAT--TTTAAAAAAGTA
*
6902395 ATTATTT
1 TTTATTT
6902402 AAACCAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 5 0.23
17 2 0.09
18 9 0.41
19 6 0.27
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TTTATTTTAAAAAAGTA
Found at i:6903435 original size:23 final size:23
Alignment explanation
Indices: 6903390--6903442 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
6903380 TTTAATAAAA
*
6903390 AATATTTTATAGTATAAACTATG
1 AATATTTTATAGCATAAACTATG
*
6903413 AATATTTTAATTGCATAAA-TATG
1 AATATTTT-ATAGCATAAACTATG
*
6903436 AGTATTT
1 AATATTT
6903443 GTTTAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (23 bp):
AATATTTTATAGCATAAACTATG
Found at i:6937943 original size:46 final size:46
Alignment explanation
Indices: 6937875--6937990 Score: 162
Period size: 46 Copynumber: 2.5 Consensus size: 46
6937865 CTAGCGCGCG
* *
6937875 CTCTGTTTAGCAC-GTCTCGTGCTCTCTGATTAGAACTATGTGTGCT
1 CTCTGTTTAGCACTGTGT-GTGCTCTCTGATTAGAACTATGTGTACT
* * *
6937921 CTCTGATTAGCACTGTGTGTGCTCTCTGATTAGTACTTTGTGTACT
1 CTCTGTTTAGCACTGTGTGTGCTCTCTGATTAGAACTATGTGTACT
*
6937967 CTTTGTTTAGCACTGTGTGTGCTC
1 CTCTGTTTAGCACTGTGTGTGCTC
6937991 GCTGCTGCCC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 59 0.95
47 3 0.05
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.42
Consensus pattern (46 bp):
CTCTGTTTAGCACTGTGTGTGCTCTCTGATTAGAACTATGTGTACT
Found at i:6937962 original size:23 final size:23
Alignment explanation
Indices: 6937875--6937990 Score: 135
Period size: 23 Copynumber: 5.0 Consensus size: 23
6937865 CTAGCGCGCG
* *
6937875 CTCTGTTTAGCAC-GTCTCGTGCT
1 CTCTGATTAGCACTGTGT-GTGCT
* *
6937898 CTCTGATTAGAACTATGTGTGCT
1 CTCTGATTAGCACTGTGTGTGCT
6937921 CTCTGATTAGCACTGTGTGTGCT
1 CTCTGATTAGCACTGTGTGTGCT
* * *
6937944 CTCTGATTAGTACTTTGTGTACT
1 CTCTGATTAGCACTGTGTGTGCT
* *
6937967 CTTTGTTTAGCACTGTGTGTGCT
1 CTCTGATTAGCACTGTGTGTGCT
6937990 C
1 C
6937991 GCTGCTGCCC
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
23 76 0.97
24 2 0.03
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.42
Consensus pattern (23 bp):
CTCTGATTAGCACTGTGTGTGCT
Found at i:6937989 original size:69 final size:68
Alignment explanation
Indices: 6937896--6938043 Score: 174
Period size: 69 Copynumber: 2.1 Consensus size: 68
6937886 ACGTCTCGTG
* ** *
6937896 CTCTCTGATTAGAACTATGTGTGCT-CT-CTGATTAGCACTGTGTGTGCTCTCTGATTAGTACTT
1 CTCTCTGTTTAGAACTATGTGTGCTCCTGCTGACCAGCACT-TATGTGCTCTCTG-TTAGTACTT
6937959 TGTGTA
64 TG-GTA
* * * *
6937965 CTCTTTGTTTAGCACTGTGTGTGCTCGCTGCTGCCCAGCACTTATGTGCTCTCTGTTAGTACTTT
1 CTCTCTGTTTAGAACTATGTGTGCTC-CTGCTGACCAGCACTTATGTGCTCTCTGTTAGTACTTT
6938030 GGTA
65 GGTA
6938034 CTCTCTGTTT
1 CTCTCTGTTT
6938044 GTTCCGTATA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
69 33 0.49
70 11 0.16
71 14 0.21
72 9 0.13
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.43
Consensus pattern (68 bp):
CTCTCTGTTTAGAACTATGTGTGCTCCTGCTGACCAGCACTTATGTGCTCTCTGTTAGTACTTTG
GTA
Found at i:6941579 original size:24 final size:22
Alignment explanation
Indices: 6941543--6941600 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
6941533 CTTCTCTTTG
* *
6941543 TGCTTCCTCTTTCACCTTTTCTGC
1 TGCTTCTTTTTTC-CCTTTTCT-C
*
6941567 TGCTTCTTTTTT-CTTTTTCTC
1 TGCTTCTTTTTTCCCTTTTCTC
*
6941588 TTCTTCTTTTTTC
1 TGCTTCTTTTTTC
6941601 TCAGCTTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 12 0.41
22 7 0.24
24 10 0.34
ACGTcount: A:0.02, C:0.29, G:0.05, T:0.64
Consensus pattern (22 bp):
TGCTTCTTTTTTCCCTTTTCTC
Found at i:6941582 original size:21 final size:20
Alignment explanation
Indices: 6941558--6941601 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
6941548 CCTCTTTCAC
6941558 CTTTTCTGCTGCTTCTTTTTT
1 CTTTTCT-CTGCTTCTTTTTT
*
6941579 CTTTTTCTCTTCTTCTTTTTT
1 C-TTTTCTCTGCTTCTTTTTT
6941600 CT
1 CT
6941602 CAGCTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 14 0.67
22 6 0.29
ACGTcount: A:0.00, C:0.25, G:0.05, T:0.70
Consensus pattern (20 bp):
CTTTTCTCTGCTTCTTTTTT
Found at i:6941599 original size:15 final size:15
Alignment explanation
Indices: 6941580--6941613 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6941570 TTCTTTTTTC
**
6941580 TTTTTCTCTTCTTCT
1 TTTTTCTCAGCTTCT
6941595 TTTTTCTCAGCTTCT
1 TTTTTCTCAGCTTCT
6941610 TTTT
1 TTTT
6941614 GTTTCTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.71
Consensus pattern (15 bp):
TTTTTCTCAGCTTCT
Found at i:6944121 original size:21 final size:20
Alignment explanation
Indices: 6944089--6944128 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6944079 TCCACAAACC
*
6944089 AAGAAGATAATTTAGAAAGA
1 AAGAAGAGAATTTAGAAAGA
6944109 AAGAGAGAGAATTTAGAAAG
1 AAGA-AGAGAATTTAGAAAG
6944129 CTATAAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.17
Consensus pattern (20 bp):
AAGAAGAGAATTTAGAAAGA
Found at i:6950742 original size:15 final size:14
Alignment explanation
Indices: 6950714--6950754 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 14
6950704 TATCATTATC
6950714 AAACTAACCGTTAA
1 AAACTAACCGTTAA
*
6950728 AAATTAACACGTTAA
1 AAACTAAC-CGTTAA
6950743 AAACTAACCGTT
1 AAACTAACCGTT
6950755 GAGATATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (14 bp):
AAACTAACCGTTAA
Found at i:6950921 original size:19 final size:19
Alignment explanation
Indices: 6950878--6950921 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6950868 TTATTTTAAA
*
6950878 ATAAAAAATATATAAAATT
1 ATAAAAAATATATAAAAAT
*
6950897 ACAAAAACA-ATATAAAAAT
1 ATAAAAA-ATATATAAAAAT
6950916 ATAAAA
1 ATAAAA
6950922 GATCACTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (19 bp):
ATAAAAAATATATAAAAAT
Found at i:6952661 original size:10 final size:11
Alignment explanation
Indices: 6952641--6952728 Score: 61
Period size: 11 Copynumber: 7.7 Consensus size: 11
6952631 TGTCACCGTT
*
6952641 TTATTTCACTA
1 TTATTTTACTA
6952652 -TATTTTACTA
1 TTATTTTACTA
*
6952662 TTATTTTATTA
1 TTATTTTACTA
*
6952673 TTATTATTTAAATA
1 TTA-T-TTT-ACTA
* * *
6952687 TTATATAATTA
1 TTATTTTACTA
*
6952698 TTATTTTATTA
1 TTATTTTACTA
*
6952709 TTAGTTTTATTA
1 TTA-TTTTACTA
6952721 TTATTTTA
1 TTATTTTA
6952729 AAGATATTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
10 9 0.14
11 32 0.50
12 13 0.20
13 4 0.06
14 6 0.09
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (11 bp):
TTATTTTACTA
Found at i:6952668 original size:11 final size:11
Alignment explanation
Indices: 6952652--6952728 Score: 82
Period size: 11 Copynumber: 6.6 Consensus size: 11
6952642 TATTTCACTA
*
6952652 TATTTTACTAT
1 TATTTTATTAT
6952663 TATTTTATTAT
1 TATTTTATTAT
*
6952674 TATTATTTAAATAT
1 TA-T-TTT-ATTAT
* *
6952688 TATATAATTAT
1 TATTTTATTAT
6952699 TATTTTATTAT
1 TATTTTATTAT
6952710 TAGTTTTATTAT
1 TA-TTTTATTAT
6952722 TATTTTA
1 TATTTTA
6952729 AAGATATTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
11 32 0.58
12 13 0.24
13 4 0.07
14 6 0.11
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:6952673 original size:3 final size:3
Alignment explanation
Indices: 6952660--6952725 Score: 61
Period size: 3 Copynumber: 23.3 Consensus size: 3
6952650 TATATTTTAC
* * *
6952660 TAT TAT T-T TAT TAT TAT TAT T-T AAA TAT TA- TAT AAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6952704 TAT TAT TAGT T-T TAT TAT TAT T
1 TAT TAT TA-T TAT TAT TAT TAT T
6952726 TTAAAGATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 9 0.18
3 40 0.78
4 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6952688 original size:22 final size:22
Alignment explanation
Indices: 6952663--6952745 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 22
6952653 ATTTTACTAT
6952663 TATTTTATTATTATTATTTAAA
1 TATTTTATTATTATTATTTAAA
* * * *
6952685 TATTATATAATTATTATTTTAT
1 TATTTTATTATTATTATTTAAA
6952707 TATTAGTT-TTATTATTATTTTAAA
1 TATT--TTATTATTATTA-TTTAAA
*
6952731 GATATTTATTTATTA
1 TAT-TTTA-TTATTA
6952746 AATTGTATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
22 22 0.48
23 10 0.22
24 7 0.15
25 7 0.15
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TATTTTATTATTATTATTTAAA
Found at i:6954807 original size:29 final size:32
Alignment explanation
Indices: 6954740--6954807 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 32
6954730 TTAGTTTGAA
*
6954740 TATATATAAACAAATTTTAAACATTAAAATAT
1 TATATATTAACAAATTTTAAACATTAAAATAT
* * *
6954772 AAT-TATTAA-AAA-TTTAAATA-TATAATAT
1 TATATATTAACAAATTTTAAACATTAAAATAT
6954800 TATATATT
1 TATATATT
6954808 TGAAATATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
28 9 0.30
29 11 0.37
30 3 0.10
31 5 0.17
32 2 0.07
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (32 bp):
TATATATTAACAAATTTTAAACATTAAAATAT
Found at i:6954813 original size:23 final size:23
Alignment explanation
Indices: 6954763--6954815 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
6954753 ATTTTAAACA
6954763 TTAAA-ATATAATTATTAAAAAT
1 TTAAATATATAATTATTAAAAAT
* *
6954785 TTAAATATATAA-TATTATATAT
1 TTAAATATATAATTATTAAAAAT
6954807 TTGAAATAT
1 TT-AAATAT
6954816 TGAAATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TTAAATATATAATTATTAAAAAT
Found at i:6960746 original size:18 final size:19
Alignment explanation
Indices: 6960725--6960769 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
6960715 CACTTCAGCT
*
6960725 TCAGCTTCACCTT-CACCC
1 TCAGCTTCACATTGCACCC
6960743 TCAGGC-TC-CATTGCACCC
1 TCA-GCTTCACATTGCACCC
6960761 TCAGCTTCA
1 TCAGCTTCA
6960770 TCCTATATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
17 5 0.23
18 15 0.68
19 2 0.09
ACGTcount: A:0.18, C:0.44, G:0.11, T:0.27
Consensus pattern (19 bp):
TCAGCTTCACATTGCACCC
Found at i:6961720 original size:24 final size:24
Alignment explanation
Indices: 6961680--6961725 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
6961670 CTCGTGTCGC
*
6961680 TTCTCCTCTCCCATCGCTCTTCTT
1 TTCTCCTCTCCCATCGCCCTTCTT
*
6961704 TTCTCCTTCTCTC-TCGCCCTTC
1 TTCTCC-TCTCCCATCGCCCTTC
6961726 GATTGAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.02, C:0.48, G:0.04, T:0.46
Consensus pattern (24 bp):
TTCTCCTCTCCCATCGCCCTTCTT
Found at i:6961818 original size:12 final size:14
Alignment explanation
Indices: 6961791--6961825 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
6961781 GTTTTGCTCA
6961791 ATTTTTGCGTTTTT
1 ATTTTTGCGTTTTT
6961805 ATTTTTG-G-TTTT
1 ATTTTTGCGTTTTT
6961817 ATTTTTGCG
1 ATTTTTGCG
6961826 GGCCTGCGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 11 0.55
13 2 0.10
14 7 0.35
ACGTcount: A:0.09, C:0.06, G:0.17, T:0.69
Consensus pattern (14 bp):
ATTTTTGCGTTTTT
Found at i:6962945 original size:18 final size:19
Alignment explanation
Indices: 6962919--6962954 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6962909 ATTTTTTTTC
*
6962919 AAAATTTATG-TTTATTAA
1 AAAAATTATGATTTATTAA
6962937 AAAAATTATGATTTATTA
1 AAAAATTATGATTTATTA
6962955 CGTTTACATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (19 bp):
AAAAATTATGATTTATTAA
Found at i:6974164 original size:15 final size:16
Alignment explanation
Indices: 6974136--6974167 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
6974126 TACGTCTAAT
6974136 ATTTGTTAAAACTACG
1 ATTTGTTAAAACTACG
6974152 ATTTGTT-AAACTACG
1 ATTTGTTAAAACTACG
6974167 A
1 A
6974168 GAGTAGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (16 bp):
ATTTGTTAAAACTACG
Found at i:6976753 original size:16 final size:17
Alignment explanation
Indices: 6976732--6976765 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6976722 AGGGCATTGG
6976732 ACTGGTT-GACTCGGGA
1 ACTGGTTGGACTCGGGA
*
6976748 ACTGGTTGGACTGGGGA
1 ACTGGTTGGACTCGGGA
6976765 A
1 A
6976766 AAACCGGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.21, C:0.15, G:0.41, T:0.24
Consensus pattern (17 bp):
ACTGGTTGGACTCGGGA
Found at i:6978633 original size:19 final size:21
Alignment explanation
Indices: 6978606--6978644 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
6978596 CAATTTATTT
6978606 TTATATTTG-A-TTAATATAA
1 TTATATTTGTATTTAATATAA
*
6978625 TTATTTTTGTATTTAATATA
1 TTATATTTGTATTTAATATA
6978645 TAAACATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
TTATATTTGTATTTAATATAA
Found at i:6979493 original size:18 final size:19
Alignment explanation
Indices: 6979470--6979506 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6979460 TTTTACCTCA
6979470 TTTTCTTCCTTTT-TTTTC
1 TTTTCTTCCTTTTCTTTTC
*
6979488 TTTTCTTCTTTTTCTTTTC
1 TTTTCTTCCTTTTCTTTTC
6979507 CCTATCCTAG
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:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCTTCCTTTTCTTTTC
Found at i:6981007 original size:7 final size:7
Alignment explanation
Indices: 6980995--6981046 Score: 65
Period size: 7 Copynumber: 7.6 Consensus size: 7
6980985 CCAATGTAGG
6980995 AAAAAGA
1 AAAAAGA
6981002 AAAAAG-
1 AAAAAGA
6981008 AAAAAG-
1 AAAAAGA
6981014 -AAAAGA
1 AAAAAGA
6981020 AATAAAGA
1 AA-AAAGA
6981028 AGAAAAGA
1 A-AAAAGA
6981036 AAAAAGA
1 AAAAAGA
6981043 AAAA
1 AAAA
6981047 GAGATACAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.12
6 6 0.15
7 17 0.41
8 12 0.29
9 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:6981012 original size:8 final size:8
Alignment explanation
Indices: 6980995--6981046 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
6980985 CCAATGTAGG
6980995 AAAAAGAA
1 AAAAAGAA
*
6981003 AAAAGAAAA
1 AAAA-AGAA
6981012 AGAAAAGAA
1 A-AAAAGAA
*
6981021 ATAAAGAA
1 AAAAAGAA
*
6981029 GAAAAG-A
1 AAAAAGAA
6981036 AAAAAGAA
1 AAAAAGAA
6981044 AAA
1 AAA
6981047 GAGATACAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
7 6 0.17
8 18 0.51
9 8 0.23
10 3 0.09
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (8 bp):
AAAAAGAA
Found at i:6981032 original size:16 final size:15
Alignment explanation
Indices: 6980996--6981043 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 15
6980986 CAATGTAGGA
6980996 AAAAGAAAAAAGAAAAAG
1 AAAAGAAAAAAG---AAG
6981014 AAAAGAAATAAAGAAG
1 AAAAGAAA-AAAGAAG
6981030 AAAAGAAAAAAGAA
1 AAAAGAAAAAAGAA
6981044 AAAGAGATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.21
16 11 0.38
18 8 0.28
19 4 0.14
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAAGAAG
Found at i:6981881 original size:20 final size:20
Alignment explanation
Indices: 6981856--6981893 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6981846 CTAGATCTCC
6981856 GAATTCTGAACTTCGAATTT
1 GAATTCTGAACTTCGAATTT
6981876 GAATTCTGAACTTCGAAT
1 GAATTCTGAACTTCGAAT
6981894 ATCAACCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (20 bp):
GAATTCTGAACTTCGAATTT
Found at i:6986923 original size:370 final size:371
Alignment explanation
Indices: 6986123--6987235 Score: 2063
Period size: 370 Copynumber: 3.0 Consensus size: 371
6986113 AAGAATTACG
* * *
6986123 ATAACACGGACATAAATATTCGAATTATTGATATTTCTAATGCTCAAGTTAGGAAATTATCCTTA
1 ATAACACGGACATAAATGTTCGAATTACTGATATTTCTAATGCTCAAGTTAGGAAATTACCCTTA
6986188 AATGAATATTTTGTAAACTCTATGTTTGATTACTTAAAGTATTAGGCATTTTAGTGCCTCTTTTT
66 AATGAATATTTTGTAAACTCTATGTTTGATTACTTAAAGTATTAGGCATTTTAGTGCCTCTTTTT
6986253 CTATCAAAAAAATGATTTAGCTGACTTAATCAACTTATTTGGTTAAACTAGTTTCGATTAATTCA
131 CTATCAAAAAAATGATTTAGCTGACTTAATCAACTTATTTGGTTAAACTAGTTTCGATTAATTCA
6986318 ATTTTTTTAAATTAGATTAATTGAAGGTTTTGGTTTAATCATTTGTTTATCTATTATTAAAATTT
196 ATTTTTTTAAATTAGATTAATTGAAGGTTTTGGTTTAATCATTTGTTTATCTATTATTAAAATTT
*
6986383 ATATAATTTAATATCAATCAACTTAATCAATATATATATATATATTAATTATTTAAATATATTTA
261 ATATAATCTAATATCAATCAACTTAATCAATATATATATATATATTAATTATTTAAATATATTTA
6986448 TAATAAGAAAATAAATTATACTAAAATCATTTTAAAAATATAATTT
326 TAATAAGAAAATAAATTATACTAAAATCATTTTAAAAATATAATTT
6986494 ATAACACGGACATAAATGTTCGAATTACTGATATTTCTAATGCTCAAGTTAGGAAATTACCCTTA
1 ATAACACGGACATAAATGTTCGAATTACTGATATTTCTAATGCTCAAGTTAGGAAATTACCCTTA
6986559 AATGAATATTTTGTAAACTCTATGTTTGATTACTTAAAGTATTAGGCATTTTAGTGCCTCTTTTT
66 AATGAATATTTTGTAAACTCTATGTTTGATTACTTAAAGTATTAGGCATTTTAGTGCCTCTTTTT
6986624 CTATCAAAAAAATGATTTAGCTGACTTAATCAACTTATTTGGTTAAACTAGTTTCGATTAATTCA
131 CTATCAAAAAAATGATTTAGCTGACTTAATCAACTTATTTGGTTAAACTAGTTTCGATTAATTCA
6986689 ATTTTTTTAAATTAGATTAATTGAAGGTTTTGG-TTAATCATTTGTTTATCTATTATTAAAATTT
196 ATTTTTTTAAATTAGATTAATTGAAGGTTTTGGTTTAATCATTTGTTTATCTATTATTAAAATTT
6986753 ATATAATCTAATATCAATCAACTTAATCAATATATATATATATATTAATTATTTAAATATATTTA
261 ATATAATCTAATATCAATCAACTTAATCAATATATATATATATATTAATTATTTAAATATATTTA
6986818 TAATAAGAAAATAAATTATACTAAAATCATTTTAAAAATATAATTT
326 TAATAAGAAAATAAATTATACTAAAATCATTTTAAAAATATAATTT
6986864 ATAACACGGACATAAATGTTCGAATTACTGATATTTCTAATGCTCAAGTTAGGAAATTACCCTTA
1 ATAACACGGACATAAATGTTCGAATTACTGATATTTCTAATGCTCAAGTTAGGAAATTACCCTTA
6986929 AATGAATATTTTGTAAACTCTATGTTTGATTACTTAAAGTATTAGGCATTTTAGTGCCTCTTTTT
66 AATGAATATTTTGTAAACTCTATGTTTGATTACTTAAAGTATTAGGCATTTTAGTGCCTCTTTTT
* * *
6986994 CTATCAAAAAAATGATTTTGCTGACTTAATCAACTTATTCGGTTAAATTAGTTTCGATTAATTCA
131 CTATCAAAAAAATGATTTAGCTGACTTAATCAACTTATTTGGTTAAACTAGTTTCGATTAATTCA
* *
6987059 ATTTTTTT-AATTAGATTAATTAAAGGTTTTGGTTTAGTCATTTGTTTATCTATTATTAAAATTT
196 ATTTTTTTAAATTAGATTAATTGAAGGTTTTGGTTTAATCATTTGTTTATCTATTATTAAAATTT
6987123 ATATAATCT-A-ATCAATCAACTTAATCAATATATATATATATATATATTAATTATTTAAATATA
261 ATATAATCTAATATCAATCAACTTAATC---A-ATATATATATATATATTAATTATTTAAATATA
* *
6987186 TTTATAATAAGGAAATAAATTATACTAGAATCATTTTAAAAATATAATTT
322 TTTATAATAAGAAAATAAATTATACTAAAATCATTTTAAAAATATAATTT
6987236 TTAGGCACAA
Statistics
Matches: 726, Mismatches: 11, Indels: 9
0.97 0.01 0.01
Matches are distributed among these distances:
368 16 0.02
369 24 0.03
370 380 0.52
371 226 0.31
372 80 0.11
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.43
Consensus pattern (371 bp):
ATAACACGGACATAAATGTTCGAATTACTGATATTTCTAATGCTCAAGTTAGGAAATTACCCTTA
AATGAATATTTTGTAAACTCTATGTTTGATTACTTAAAGTATTAGGCATTTTAGTGCCTCTTTTT
CTATCAAAAAAATGATTTAGCTGACTTAATCAACTTATTTGGTTAAACTAGTTTCGATTAATTCA
ATTTTTTTAAATTAGATTAATTGAAGGTTTTGGTTTAATCATTTGTTTATCTATTATTAAAATTT
ATATAATCTAATATCAATCAACTTAATCAATATATATATATATATTAATTATTTAAATATATTTA
TAATAAGAAAATAAATTATACTAAAATCATTTTAAAAATATAATTT
Found at i:6988746 original size:84 final size:81
Alignment explanation
Indices: 6988650--6988902 Score: 251
Period size: 84 Copynumber: 3.0 Consensus size: 81
6988640 TTGCGCTCCC
* * *
6988650 AAAAATAAAAAAATTTCATTTTAAGCCTCTTATAAATAGAAAAATTATAAATCAATATATAGTGA
1 AAAAATAAAAAAATTTCA-TTTAATCCTCTTATAAATA-AAAAATTATAAATTAATATATAAT-A
*
6988715 AATTATACTTTGG-CCCTCT
63 AATTATAATTTGGCCCCT-T
* * * * *
6988734 CAAAATGAAAAAAGTTCAATTCAATCCTCTTATAAATAAAGAGATTATAAATTAATATATAATAA
1 AAAAATAAAAAAATTTC-ATTTAATCCTCTTATAAATAAA-AAATTATAAATTAATATATAAT-A
* **
6988799 AATTACAATTTAACCCCTT
63 AATTATAATTTGGCCCCTT
*
6988818 AAAAATAAAAAAATTT-ATTTAATCC-CTTCAGAAATAATAAAATTATAAATTAATATATAATAA
1 AAAAATAAAAAAATTTCATTTAATCCTCTT-ATAAATAA-AAAATTATAAATTAATATATAATAA
* * *
6988881 ACTTATATTTTGGTCCATT
64 A-TTATAATTTGGCCCCTT
6988900 AAA
1 AAA
6988903 CAAATTATAA
Statistics
Matches: 138, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
81 6 0.04
82 50 0.36
83 3 0.02
84 74 0.54
85 5 0.04
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.34
Consensus pattern (81 bp):
AAAAATAAAAAAATTTCATTTAATCCTCTTATAAATAAAAAATTATAAATTAATATATAATAAAT
TATAATTTGGCCCCTT
Found at i:6988837 original size:28 final size:29
Alignment explanation
Indices: 6988806--6988861 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
6988796 TAAAATTACA
6988806 ATTTAACCCCTT-AAAAATAAAAAAATTT
1 ATTTAACCCCTTCAAAAATAAAAAAATTT
* * *
6988834 ATTTAATCCCTTCAGAAATAATAAAATT
1 ATTTAACCCCTTCAAAAATAAAAAAATT
6988862 ATAAATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (29 bp):
ATTTAACCCCTTCAAAAATAAAAAAATTT
Found at i:6988863 original size:28 final size:27
Alignment explanation
Indices: 6988792--6988863 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 27
6988782 AAATTAATAT
6988792 ATAATAAAATTACAATTTAACCCCTTAAAA
1 ATAATAAAATT---ATTTAACCCCTTAAAA
* * *
6988822 ATAAAAAAATTTATTTAATCCCTTCAGAA
1 ATAATAAAA-TTATTTAACCCCTT-AAAA
6988851 ATAATAAAATTAT
1 ATAATAAAATTAT
6988864 AAATTAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 15 0.42
29 11 0.31
30 8 0.22
31 2 0.06
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.33
Consensus pattern (27 bp):
ATAATAAAATTATTTAACCCCTTAAAA
Found at i:6991369 original size:4 final size:4
Alignment explanation
Indices: 6991360--6991396 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
6991350 GGCACCAGAG
*
6991360 AAGA AAGA AAGA AAAA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
6991397 GGAGAGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:6993210 original size:16 final size:15
Alignment explanation
Indices: 6993189--6993231 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
6993179 TTTATAATAA
6993189 TAATAATATTTTTAAT
1 TAATAATATTTTT-AT
*
6993205 TAATAATAGTATTTAT
1 TAATAATA-TTTTTAT
6993221 TAATAATATTT
1 TAATAATATTT
6993232 AAAAAAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 18 0.75
17 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
TAATAATATTTTTAT
Found at i:6993210 original size:19 final size:18
Alignment explanation
Indices: 6993176--6993228 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
6993166 AGTATTAAAG
*
6993176 ATATTTATAATAATAATA
1 ATATTTTTAATAATAATA
6993194 ATATTTTTAATTAATAATA
1 ATATTTTTAA-TAATAATA
*
6993213 GTATTTATTAATAATA
1 ATATTT-TTAATAATA
6993229 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 9 0.29
19 18 0.58
20 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATTTTTAATAATAATA
Found at i:6994424 original size:162 final size:162
Alignment explanation
Indices: 6994032--6994695 Score: 1159
Period size: 162 Copynumber: 4.1 Consensus size: 162
6994022 TTCACTTTTC
6994032 AATTTAGTCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCACTTTTTAGTTTATTTAT
1 AATTTAGTCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCACTTTTTAGTTTATTTAT
*
6994097 GTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAACCCTTAAATCAACTTTTATTTAATTA
66 GTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTA
6994162 C-AAATTGGCCCAAGAATTTTTCAAGATTTAT
131 CAAAATTGGCCCAAGAATTTTTCAAGATTTAT
** *
6994193 AATTTTCTCCTTTGACTGTTTGACTGCACCAGAGGTCGCCACGTGTCACTTTTTAGTTTATTTAT
1 AATTTAGTCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCACTTTTTAGTTTATTTAT
*
6994258 GTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAATTTTTATTTAATTA
66 GTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTA
*
6994323 CAAAATTGGCCCAAGAATTTTTTAAGATTTAT
131 CAAAATTGGCCCAAGAATTTTTCAAGATTTAT
6994355 AATTTAGTCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCACTTTTTAGTTTATTTAT
1 AATTTAGTCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCACTTTTTAGTTTATTTAT
*
6994420 GTATCTAGTCTCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTA
66 GTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTA
6994485 CAAAATTGGCCCAAGAATTTTTCAAGATTTAT
131 CAAAATTGGCCCAAGAATTTTTCAAGATTTAT
*
6994517 AATTTAGTCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCACTTTTTGGTTTATTTAT
1 AATTTAGTCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCACTTTTTAGTTTATTTAT
* * **
6994582 GTATCTAGTCCCTGTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCTTAATTA
66 GTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTA
* * *
6994647 CAAAATTGGTCCGAGAATTTTTCAAGATTTAC
131 CAAAATTGGCCCAAGAATTTTTCAAGATTTAT
* **
6994679 AAATTCCTCCTTTGACT
1 AATTTAGTCCTTTGACT
6994696 TCTGGATGCC
Statistics
Matches: 478, Mismatches: 24, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
161 126 0.26
162 352 0.74
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.44
Consensus pattern (162 bp):
AATTTAGTCCTTTGACTGTTTGACTGCACCAGAGGCCGCCACGTGTCACTTTTTAGTTTATTTAT
GTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTA
CAAAATTGGCCCAAGAATTTTTCAAGATTTAT
Found at i:6994832 original size:30 final size:31
Alignment explanation
Indices: 6994769--6994960 Score: 128
Period size: 29 Copynumber: 6.5 Consensus size: 31
6994759 GGACTGTTTG
*
6994769 AAAATTACCA-TTTTACCCCCGAACTTT--CC
1 AAAATTACCATTTTTAACCCCG-ACTTTCACC
6994798 AAAATT-CCATTTTTAACCCCGA-TTTCACC
1 AAAATTACCATTTTTAACCCCGACTTTCACC
*
6994827 AAAAATTACCA-TTTTACCCCCGAACTTT--CC
1 -AAAATTACCATTTTTAACCCCG-ACTTTCACC
* *
6994857 AAAATT-CCATTTTTTTAA-CCCTAGTTTCACC
1 AAAATTACCA--TTTTTAACCCCGACTTTCACC
*
6994888 AAAATTACCA-TTTT-ACCCTCAAACTTT--CC
1 AAAATTACCATTTTTAACCC-C-GACTTTCACC
** *
6994917 AAAATT-TGATATTTAACCCCGA-TTTCACC
1 AAAATTACCATTTTTAACCCCGACTTTCACC
6994946 AAAATTCACCATTTT
1 AAAATT-ACCATTTT
6994961 ACCCCTTAAA
Statistics
Matches: 127, Mismatches: 14, Indels: 42
0.69 0.08 0.23
Matches are distributed among these distances:
27 6 0.05
28 10 0.08
29 54 0.43
30 26 0.20
31 25 0.20
32 6 0.05
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (31 bp):
AAAATTACCATTTTTAACCCCGACTTTCACC
Found at i:6994990 original size:119 final size:119
Alignment explanation
Indices: 6994769--6994990 Score: 347
Period size: 119 Copynumber: 1.9 Consensus size: 119
6994759 GGACTGTTTG
* *
6994769 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATATTTAACCCCGATTTCACCAAAAATT
* *
6994834 ACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTTTAACCCTAGTTTCACC
66 ACCATTTTACCCCCAAACCTTCCAAAATTCCATTTTTTTAACCCTAGTTTCACC
* **
6994888 AAAATTACCATTTTACCCTCAAACTTTCCAAAATTTGATATTTAACCCCGATTTCACC-AAAATT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATATTTAACCCCGATTTCACCAAAAATT
*
6994952 CACCATTTTACCCCTTAAACCTTCCAAAATTCCATTTTT
66 -ACCATTTTACCCC-CAAACCTTCCAAAATTCCATTTTT
6994991 AGCCCCGGTT
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
118 6 0.06
119 66 0.71
120 21 0.23
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.35
Consensus pattern (119 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATATTTAACCCCGATTTCACCAAAAATT
ACCATTTTACCCCCAAACCTTCCAAAATTCCATTTTTTTAACCCTAGTTTCACC
Found at i:6995008 original size:60 final size:58
Alignment explanation
Indices: 6994769--6994997 Score: 307
Period size: 60 Copynumber: 3.9 Consensus size: 58
6994759 GGACTGTTTG
*
6994769 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* *
6994827 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTTTAA-CCCTAGTTTCACC
1 -AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCA--TTTTTAACCCCGA-TTTCACC
* ** *
6994888 AAAATTACCATTTTACCCTCAAACTTTCCAAAATTTGATATTTAACCCCGATTTCACC
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * *
6994946 AAAATTCACCATTTTACCCCTTAAACCTTCCAAAATTCCATTTTTAGCCCCG
1 AAAATT-ACCATTTTACCCC-CAAACTTTCCAAAATTCCATTTTTAACCCCG
6994998 GTTTTTCCAA
Statistics
Matches: 150, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
58 19 0.13
59 54 0.36
60 63 0.42
61 14 0.09
ACGTcount: A:0.32, C:0.31, G:0.03, T:0.34
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:6995046 original size:38 final size:38
Alignment explanation
Indices: 6994973--6995046 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
6994963 CCCTTAAACC
* **
6994973 TTCCAAAATTCCATTTTTAGCCCCGGTTTTTCCAAAGT
1 TTCCAAAATTCCATTTTTAACCCCGGTTTAACCAAAGT
*
6995011 TTCCAAAATTCTATTTTTAACCCCGGTTTAACCAAA
1 TTCCAAAATTCCATTTTTAACCCCGGTTTAACCAAA
6995047 AATTACCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (38 bp):
TTCCAAAATTCCATTTTTAACCCCGGTTTAACCAAAGT
Done.