Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 81 of 120
Found at i:23613674 original size:15 final size:16
Alignment explanation
Indices: 23613645--23613676 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23613635 CTAGCCCCTA
23613645 TTTATTAGTTAAAAAT
1 TTTATTAGTTAAAAAT
23613661 TTTATTAGTTAAAAAT
1 TTTATTAGTTAAAAAT
23613677 ATGGGTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
TTTATTAGTTAAAAAT
Found at i:23613821 original size:41 final size:42
Alignment explanation
Indices: 23613776--23613862 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 42
23613766 GTTTTGTGAG
*
23613776 AAAATACTTTCACTTGAAAATGTTTTCAGAGT-AT-TGTTAGA
1 AAAATACTTTCAATTGAAAATGTTTTCA-AGTGATGTGTTAGA
* * * * *
23613817 AAAATGCTTTTAATTGAAAGTTTTTTCAATTGATGTGTTAGA
1 AAAATACTTTCAATTGAAAATGTTTTCAAGTGATGTGTTAGA
23613859 AAAA
1 AAAA
23613863 AAATTTAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 2 0.05
41 25 0.66
42 11 0.29
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (42 bp):
AAAATACTTTCAATTGAAAATGTTTTCAAGTGATGTGTTAGA
Found at i:23627454 original size:218 final size:218
Alignment explanation
Indices: 23627076--23627516 Score: 882
Period size: 218 Copynumber: 2.0 Consensus size: 218
23627066 AAATGAAAGA
23627076 GAAACAAACATAACGTTGAAATTGAAAGATAAAGCTAGGATTGAAGTACTTTTATGATATATAAG
1 GAAACAAACATAACGTTGAAATTGAAAGATAAAGCTAGGATTGAAGTACTTTTATGATATATAAG
23627141 GCTAATGCCTGAGAAGTAAATGTTCATCAGCATCAAAGCCTTCATCTTCATAAGAGTTCTTCGTA
66 GCTAATGCCTGAGAAGTAAATGTTCATCAGCATCAAAGCCTTCATCTTCATAAGAGTTCTTCGTA
23627206 GATAAAGATGACATGTTAGCTAGGCTCTTCAGAAAAACATTAAATCTAGACATCAAAATGCATCC
131 GATAAAGATGACATGTTAGCTAGGCTCTTCAGAAAAACATTAAATCTAGACATCAAAATGCATCC
23627271 CCATAGTTACTACCATAAGCTAC
196 CCATAGTTACTACCATAAGCTAC
23627294 GAAACAAACATAACGTTGAAATTGAAAGATAAAGCTAGGATTGAAGTACTTTTATGATATATAAG
1 GAAACAAACATAACGTTGAAATTGAAAGATAAAGCTAGGATTGAAGTACTTTTATGATATATAAG
23627359 GCTAATGCCTGAGAAGTAAATGTTCATCAGCATCAAAGCCTTCATCTTCATAAGAGTTCTTCGTA
66 GCTAATGCCTGAGAAGTAAATGTTCATCAGCATCAAAGCCTTCATCTTCATAAGAGTTCTTCGTA
23627424 GATAAAGATGACATGTTAGCTAGGCTCTTCAGAAAAACATTAAATCTAGACATCAAAATGCATCC
131 GATAAAGATGACATGTTAGCTAGGCTCTTCAGAAAAACATTAAATCTAGACATCAAAATGCATCC
23627489 CCATAGTTACTACCATAAGCTAC
196 CCATAGTTACTACCATAAGCTAC
23627512 GAAAC
1 GAAAC
23627517 CCAAGGTTTT
Statistics
Matches: 223, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
218 223 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.27
Consensus pattern (218 bp):
GAAACAAACATAACGTTGAAATTGAAAGATAAAGCTAGGATTGAAGTACTTTTATGATATATAAG
GCTAATGCCTGAGAAGTAAATGTTCATCAGCATCAAAGCCTTCATCTTCATAAGAGTTCTTCGTA
GATAAAGATGACATGTTAGCTAGGCTCTTCAGAAAAACATTAAATCTAGACATCAAAATGCATCC
CCATAGTTACTACCATAAGCTAC
Found at i:23627723 original size:21 final size:22
Alignment explanation
Indices: 23627687--23627728 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
23627677 TATATGCACC
* *
23627687 AAATTTGAAAGAGAAAGAAACA
1 AAATTTAAAAGAGAAAAAAACA
23627709 AAATTTAAAAG-GAAAAAAAC
1 AAATTTAAAAGAGAAAAAAAC
23627729 CCAAGTAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.67, C:0.05, G:0.14, T:0.14
Consensus pattern (22 bp):
AAATTTAAAAGAGAAAAAAACA
Found at i:23634536 original size:16 final size:16
Alignment explanation
Indices: 23634512--23634546 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23634502 GATCTGGGGA
*
23634512 AAAATAAAAATAAAAG
1 AAAACAAAAATAAAAG
*
23634528 AAAACAAAATTAAAAG
1 AAAACAAAAATAAAAG
23634544 AAA
1 AAA
23634547 TAGAAAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.80, C:0.03, G:0.06, T:0.11
Consensus pattern (16 bp):
AAAACAAAAATAAAAG
Found at i:23639783 original size:22 final size:20
Alignment explanation
Indices: 23639741--23639797 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 20
23639731 GATTGTCTTA
*
23639741 ATCATAATCAAAACAATAATAT
1 ATCA-AATCAAAA-AATAATAG
*
23639763 ATGAAATCAAAAAATTGAATAG
1 ATCAAATCAAAAAA-T-AATAG
*
23639785 ATCAAATGAAAAA
1 ATCAAATCAAAAA
23639798 GAAACTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 9 0.31
22 18 0.62
ACGTcount: A:0.61, C:0.09, G:0.07, T:0.23
Consensus pattern (20 bp):
ATCAAATCAAAAAATAATAG
Found at i:23642935 original size:51 final size:51
Alignment explanation
Indices: 23642867--23643160 Score: 417
Period size: 51 Copynumber: 5.7 Consensus size: 51
23642857 CATATAGAAG
* * * * * * * *
23642867 TTCATATACTCACGATGACACTGAGTCATCGGACCTATAGTTCATCATGGA
1 TTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGA
*
23642918 TTCATTTACTCACGATGACACTTAGTCATCGAACCTTTAATCCGTAAAGGA
1 TTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGA
* * * * *
23642969 TTTATTTACTTACGATTACACTTAGTCTTCGGACTTTTAATCCGTAAAGGA
1 TTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGA
* *
23643020 TTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCTTAAAAGA
1 TTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGA
23643071 TTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGA
1 TTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGA
* *
23643122 TTCATTCACTCATGATGACACTTAGTCATCGGACTCTTT
1 TTCATTTACTCACGATGACACTTAGTCATCGGAC-CTTT
23643161 CATTTATAGC
Statistics
Matches: 216, Mismatches: 26, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
51 212 0.98
52 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (51 bp):
TTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGA
Found at i:23650355 original size:6 final size:7
Alignment explanation
Indices: 23650337--23650362 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23650327 AACTAAGTGC
23650337 TAAAAAA
1 TAAAAAA
23650344 TAAAAAA
1 TAAAAAA
23650351 TAAAAAA
1 TAAAAAA
23650358 TAAAA
1 TAAAA
23650363 TCTAACTTAG
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:23656189 original size:17 final size:17
Alignment explanation
Indices: 23656167--23656201 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
23656157 TCAATTTAAA
23656167 TAAATAAATTTCTCAAC
1 TAAATAAATTTCTCAAC
*
23656184 TAAATAATTTTCTCAAC
1 TAAATAAATTTCTCAAC
23656201 T
1 T
23656202 CGATTCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATAAATTTCTCAAC
Found at i:23657619 original size:3 final size:3
Alignment explanation
Indices: 23657611--23657661 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
23657601 TTTATGTCAT
*
23657611 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC ATC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
23657659 TTC
1 TTC
23657662 ATAGTCAAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:23658315 original size:2 final size:2
Alignment explanation
Indices: 23658308--23658341 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23658298 AAAGGTCCTA
23658308 AT AT AT AT 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 AT AT AT AT
23658342 CGAATTTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23658407 original size:3 final size:3
Alignment explanation
Indices: 23658401--23658426 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23658391 TTCTCTGCTT
23658401 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
23658427 GGGAGAAAAG
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:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:23662986 original size:14 final size:13
Alignment explanation
Indices: 23662959--23662997 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
23662949 CATTTAATTT
23662959 TTATTTATTTTTTG
1 TTATTTA-TTTTTG
*
23662973 TGTGTTTATTTTTG
1 T-TATTTATTTTTG
23662987 TTATTTATTTT
1 TTATTTATTTT
23662998 CATAACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 9 0.41
14 8 0.36
15 5 0.23
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (13 bp):
TTATTTATTTTTG
Found at i:23663237 original size:11 final size:11
Alignment explanation
Indices: 23663221--23663271 Score: 50
Period size: 12 Copynumber: 4.4 Consensus size: 11
23663211 ACATGCTTGC
23663221 TTTTATTTATT
1 TTTTATTTATT
*
23663232 TTTTATGTATTT
1 TTTTATTTA-TT
23663244 TTTTATTT-TT
1 TTTTATTTATT
23663254 TATGTTATTTATAT
1 T-T-TTATTTAT-T
23663268 TTTT
1 TTTT
23663272 GCCTTCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
10 3 0.09
11 9 0.27
12 17 0.52
13 2 0.06
14 2 0.06
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:23663250 original size:19 final size:21
Alignment explanation
Indices: 23663221--23663269 Score: 75
Period size: 19 Copynumber: 2.4 Consensus size: 21
23663211 ACATGCTTGC
23663221 TTTTATTTATTTTTTATG-TA
1 TTTTATTTATTTTTTATGTTA
23663241 TTTT-TTTATTTTTTATGTTA
1 TTTTATTTATTTTTTATGTTA
23663261 TTTATATTT
1 TTT-TATTT
23663270 TTGCCTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 13 0.50
20 9 0.35
21 1 0.04
22 3 0.12
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTATTTATTTTTTATGTTA
Found at i:23663281 original size:18 final size:19
Alignment explanation
Indices: 23663225--23663308 Score: 61
Period size: 19 Copynumber: 4.7 Consensus size: 19
23663215 GCTTGCTTTT
* * *
23663225 ATTTATTTTTTATGTATTT
1 ATTTATATTTTATGCATTC
* *
23663244 TTTTATTTTTTATG--TT-
1 ATTTATATTTTATGCATTC
*
23663260 ATTTATATTTT-TGCCTTC
1 ATTTATATTTTATGCATTC
**
23663278 ATTTA-ATTTTATTTATTC
1 ATTTATATTTTATGCATTC
23663296 ATTTATATTTTAT
1 ATTTATATTTTAT
23663309 TTGTTATTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
15 2 0.04
16 9 0.17
17 9 0.17
18 14 0.26
19 20 0.37
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.70
Consensus pattern (19 bp):
ATTTATATTTTATGCATTC
Found at i:23663317 original size:18 final size:18
Alignment explanation
Indices: 23663223--23663319 Score: 67
Period size: 18 Copynumber: 5.4 Consensus size: 18
23663213 ATGCTTGCTT
* *
23663223 TTATTTATTTTTTATGTA
1 TTATTTATATTTTATTTA
* *
23663241 TT-TTTTTATTTT-TTATG
1 TTATTTATATTTTATT-TA
***
23663258 TTATTTATATTTT-TGCC
1 TTATTTATATTTTATTTA
23663275 TTCATTTA-ATTTTATTTA
1 TT-ATTTATATTTTATTTA
*
23663293 TTCATTTATATTTTATTTG
1 TT-ATTTATATTTTATTTA
23663312 TTATTTAT
1 TTATTTAT
23663320 TTGTATGCTA
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
16 1 0.02
17 18 0.29
18 32 0.52
19 11 0.18
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (18 bp):
TTATTTATATTTTATTTA
Found at i:23672591 original size:10 final size:10
Alignment explanation
Indices: 23672576--23672677 Score: 58
Period size: 10 Copynumber: 10.8 Consensus size: 10
23672566 AAATAGGATG
*
23672576 ATTTTTAATT
1 ATTTTTAATA
23672586 ATTTTT-ATA
1 ATTTTTAATA
23672595 ATTTTTAAT-
1 ATTTTTAATA
*
23672604 ATTGTTTACT-
1 ATT-TTTAATA
*
23672614 GTTTTT-AT-
1 ATTTTTAATA
* *
23672622 ATTTGTAATG
1 ATTTTTAATA
23672632 ATTTTT-ATA
1 ATTTTTAATA
*
23672641 A-ATTTAATTA
1 ATTTTTAA-TA
*
23672651 ATTTCTAA-A
1 ATTTTTAATA
*
23672660 TTTTTTAATA
1 ATTTTTAATA
23672670 ATTTTTAA
1 ATTTTTAA
23672678 ATATCATTTT
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
8 8 0.11
9 27 0.39
10 31 0.44
11 4 0.06
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:23676744 original size:9 final size:9
Alignment explanation
Indices: 23676730--23676755 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
23676720 TGAGATTCTT
23676730 TTAGGATGA
1 TTAGGATGA
23676739 TTAGGATGA
1 TTAGGATGA
23676748 TTAGGATG
1 TTAGGATG
23676756 GTCTAACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (9 bp):
TTAGGATGA
Found at i:23687897 original size:18 final size:18
Alignment explanation
Indices: 23687874--23687916 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23687864 ATTTAAGGTG
23687874 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
23687892 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
23687910 TAATTAA
1 TAATTAA
23687917 AAACCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:23707402 original size:8 final size:8
Alignment explanation
Indices: 23707389--23707425 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
23707379 CTCGGAGTTT
23707389 GAGGGAGA
1 GAGGGAGA
23707397 GAGGGAGA
1 GAGGGAGA
23707405 GAGGGAGA
1 GAGGGAGA
*
23707413 GAGAGAAGA
1 GAG-GGAGA
23707422 GAGG
1 GAGG
23707426 ATGCTCTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (8 bp):
GAGGGAGA
Found at i:23707605 original size:22 final size:24
Alignment explanation
Indices: 23707568--23707612 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
23707558 TAGAATAATG
*
23707568 TTTATATTTATTAAA-TAATATAT
1 TTTATATTTATGAAATTAATATAT
23707591 TTTAT-TTTATGAAATTAATATA
1 TTTATATTTATGAAATTAATATA
23707613 AATAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTATATTTATGAAATTAATATAT
Found at i:23708414 original size:23 final size:22
Alignment explanation
Indices: 23708388--23708441 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
23708378 TTTGAATTTG
23708388 AAATGAAATTGA-AGTGAAAATAA
1 AAATGAAA-TGATA-TGAAAATAA
* *
23708411 AAATGTGAATGATATGAAAATGA
1 AAATG-AAATGATATGAAAATAA
23708434 AAATGAAA
1 AAATGAAA
23708442 ATAGAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 21 0.81
24 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (22 bp):
AAATGAAATGATATGAAAATAA
Found at i:23709586 original size:18 final size:17
Alignment explanation
Indices: 23709563--23709620 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
23709553 TTGAATTCAT
23709563 TTTAAATTTATTTTAAAA
1 TTTAAATTTATTTT-AAA
* *
23709581 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
**
23709598 TTTAAATTTATTACAAA
1 TTTAAATTTATTTTAAA
23709615 TTTAAA
1 TTTAAA
23709621 AGGAAAGCCC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 21 0.62
18 13 0.38
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:23710083 original size:3 final size:3
Alignment explanation
Indices: 23710077--23710110 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
23710067 AATGCAACAG
*
23710077 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
23710111 CTTAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:23711073 original size:29 final size:32
Alignment explanation
Indices: 23711005--23711115 Score: 112
Period size: 30 Copynumber: 3.7 Consensus size: 32
23710995 GGAGGTCCCT
* * *
23711005 AAACTATCCAAAAATTA-TATTTTTGA-CCTCG
1 AAACT-TCCAAAAATTACCATTTTTAACCCTCA
*
23711036 AAAGTTCCAAAAATTACCA-TTTT-ACCCTC-
1 AAACTTCCAAAAATTACCATTTTTAACCCTCA
23711065 AAACTTCCAAAAATT-CCATTTTTAACCC-CA
1 AAACTTCCAAAAATTACCATTTTTAACCCTCA
*
23711095 AAACTTGC-AAAATTACCATTT
1 AAACTTCCAAAAATTACCATTT
23711116 GACCCCCGGA
Statistics
Matches: 70, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
28 3 0.04
29 26 0.37
30 36 0.51
31 5 0.07
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (32 bp):
AAACTTCCAAAAATTACCATTTTTAACCCTCA
Found at i:23711106 original size:59 final size:58
Alignment explanation
Indices: 23711001--23711120 Score: 143
Period size: 59 Copynumber: 2.1 Consensus size: 58
23710991 CTCTGGAGGT
* * * * * *
23711001 CCCTAAACTATCCAAAAATTATATTTTTGACCTCGAAAGTTCCAAAAATTACCATTTTA
1 CCCTAAACTATCCAAAAATTACATTTTTAACCCCAAAACTTCC-AAAATTACCATTTGA
* *
23711060 CCCTCAAACT-TCCAAAAATTCCATTTTTAACCCCAAAACTTGCAAAATTACCATTTGA
1 CCCT-AAACTATCCAAAAATTACATTTTTAACCCCAAAACTTCCAAAATTACCATTTGA
23711118 CCC
1 CCC
23711121 CCGGATGTCC
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
58 17 0.33
59 30 0.58
60 5 0.10
ACGTcount: A:0.38, C:0.28, G:0.04, T:0.31
Consensus pattern (58 bp):
CCCTAAACTATCCAAAAATTACATTTTTAACCCCAAAACTTCCAAAATTACCATTTGA
Found at i:23711122 original size:29 final size:29
Alignment explanation
Indices: 23711005--23711122 Score: 98
Period size: 29 Copynumber: 4.0 Consensus size: 29
23710995 GGAGGTCCCT
* * *
23711005 AAACTATCCAAAAATTA-TATTTTTGACCTCG
1 AAACT-TCCAAAAATTACCA-TTTT-ACCCCC
* *
23711036 AAAGTTCCAAAAATTACCATTTTACCCTC
1 AAACTTCCAAAAATTACCATTTTACCCCC
*
23711065 AAACTTCCAAAAATT-CCATTTTTAACCCCA
1 AAACTTCCAAAAATTACCA-TTTT-ACCCCC
* *
23711095 AAACTTGC-AAAATTACCATTTGACCCCC
1 AAACTTCCAAAAATTACCATTTTACCCCC
23711123 GGATGTCCAA
Statistics
Matches: 72, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
28 8 0.11
29 30 0.42
30 29 0.40
31 5 0.07
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (29 bp):
AAACTTCCAAAAATTACCATTTTACCCCC
Found at i:23721608 original size:206 final size:206
Alignment explanation
Indices: 23721082--23721675 Score: 958
Period size: 205 Copynumber: 2.9 Consensus size: 206
23721072 ATGCGAACAG
* * * *
23721082 ATCTTTGAACCCCAACTTCTTGATGAGATACTGAGAGGCAGAG-CGAAGTAATAAAATGGTTAGC
1 ATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAG-GTCGAAGCAATAAAATGGTTAGC
* * *
23721146 TTCCTGATGAGATACTGAAAAGTGTACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCGGATT
65 TTCCTGATGAGATACTGAAAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATT
* *
23721211 GAAACAAGCGATGCGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCT
130 GAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCT
*
23721276 CGATGTGAGCAA
195 CGACGTGAGCAA
23721288 ATCTTCGAA-CCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCT
1 ATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCT
23721352 TCCTGATGAGATACTGAAAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTG
66 TCCTGATGAGATACTGAAAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTG
* * * *
23721417 AAACAAGTTATGCGGTCATCTTCCTAATGAGATACTGAGAAAAAGACCAAATCAAACCCACGCTG
131 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTC
23721482 GACGTGAGCAA
196 GACGTGAGCAA
* * *
23721493 ATCTTCGAACCCCAACTTCCCGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAATGGTTGGCT
1 ATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCT
* *
23721558 TCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGGTGAGATACAGAGAAGCGAATTG
66 TCCTGATGAGATACTGAAAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTG
* ** *
23721623 AAATAAGTGATATGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATC
131 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATC
23721676 CCTAAATCCT
Statistics
Matches: 360, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
204 1 0.00
205 190 0.53
206 169 0.47
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (206 bp):
ATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCT
TCCTGATGAGATACTGAAAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTG
AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTC
GACGTGAGCAA
Found at i:23722082 original size:18 final size:17
Alignment explanation
Indices: 23722059--23722116 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
23722049 TTGAATTCAT
23722059 TTTAAATTTATTTTAAAA
1 TTTAAATTTATTTT-AAA
* *
23722077 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
* **
23722094 TTTAAAATTATTACAAA
1 TTTAAATTTATTTTAAA
23722111 TTTAAA
1 TTTAAA
23722117 AGGAAAGCCC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
17 20 0.61
18 13 0.39
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:23722580 original size:3 final size:3
Alignment explanation
Indices: 23722574--23722622 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
23722564 AATGCAACAG
23722574 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23722622 T
1 T
23722623 CTTAATTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:23723574 original size:28 final size:30
Alignment explanation
Indices: 23723505--23723707 Score: 199
Period size: 30 Copynumber: 6.9 Consensus size: 30
23723495 CTCTGGAGGT
*
23723505 CCCTAAACTATCCAAAAATTCCATTTTTGAC
1 CCCTAAACT-TCCAAAAATTCCATTTTTAAC
*
23723536 CCCAAAACTTCC-AAAATTACCA-TTTT-AC
1 CCCTAAACTTCCAAAAATT-CCATTTTTAAC
23723564 CCCTAAACTTCCAAAAATTCCATTTTTAA-
1 CCCTAAACTTCCAAAAATTCCATTTTTAAC
* *
23723593 CCTTAAAACTTCCAAAAATT--AATTTTAAC
1 CCCT-AAACTTCCAAAAATTCCATTTTTAAC
* **
23723622 CCCCAAACTTCCAAAAATTTTATTTTTAAC
1 CCCTAAACTTCCAAAAATTCCATTTTTAAC
* *
23723652 CCCGAAACTTGCAAAAATTACCA-TTTT-AC
1 CCCTAAACTTCCAAAAATT-CCATTTTTAAC
**
23723681 CCCCGAA-TGTCCAAAAATTCCATTTTT
1 CCCTAAACT-TCCAAAAATTCCATTTTT
23723708 GATCTCGATT
Statistics
Matches: 147, Mismatches: 14, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
28 42 0.29
29 45 0.31
30 51 0.35
31 9 0.06
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.33
Consensus pattern (30 bp):
CCCTAAACTTCCAAAAATTCCATTTTTAAC
Found at i:23723601 original size:58 final size:59
Alignment explanation
Indices: 23723509--23723707 Score: 246
Period size: 58 Copynumber: 3.4 Consensus size: 59
23723499 GGAGGTCCCT
* *
23723509 AAACTATCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAATTACCATTTTACCCCT
1 AAACTATCCAAAAATTCCATTTTTAACCCCAAAACTTCCAAAATTACCATTTTACCCCC
**
23723568 AAACT-TCCAAAAATTCCATTTTTAACCTTAAAACTTCCAAAAATTA--ATTTTAACCCCC
1 AAACTATCCAAAAATTCCATTTTTAACCCCAAAACTTCC-AAAATTACCATTTT-ACCCCC
** * *
23723626 AAACT-TCCAAAAATTTTATTTTTAACCCCGAAACTTGCAAAAATTACCATTTTACCCCC
1 AAACTATCCAAAAATTCCATTTTTAACCCCAAAACTT-CCAAAATTACCATTTTACCCCC
* *
23723685 GAA-TGTCCAAAAATTCCATTTTT
1 AAACTATCCAAAAATTCCATTTTT
23723708 GATCTCGATT
Statistics
Matches: 121, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
57 5 0.04
58 74 0.61
59 37 0.31
60 5 0.04
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.33
Consensus pattern (59 bp):
AAACTATCCAAAAATTCCATTTTTAACCCCAAAACTTCCAAAATTACCATTTTACCCCC
Found at i:23723727 original size:59 final size:58
Alignment explanation
Indices: 23723544--23723825 Score: 179
Period size: 59 Copynumber: 4.8 Consensus size: 58
23723534 ACCCCAAAAC
** ***
23723544 TTCC-AAAATTACCATTTTACCCCTAAACT-TCCAAAAATTCCATTTTTAAC-CTTAAAAC
1 TTCCAAAAATTACCATTTTACCCCCGAA-TGTCC-AAAATTCCATTTTTAACTC-TAACTT
* ** * *
23723602 TTCCAAAAATTA--ATTTTAACCCCCAAACT-TCCAAAAATTTTATTTTTAACCCCGAAAC--
1 TTCCAAAAATTACCATTTT-ACCCCCGAA-TGTCC-AAAATTCCATTTTTAA-CTC-TAACTT
* * * *
23723660 TTGCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCATTTTTGA-TCTCGATTT
1 TTCCAAAAATTACCATTTTACCCCCGAATGTCC-AAAATTCCATTTTTAACTCT-AACTT
* * * * *
23723719 TTCTAAAAATTACCGTTTTACCCTCAAATGTCTAAAATGT-CATTTTTAACTCTAACTT
1 TTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAAT-TCCATTTTTAACTCTAACTT
* * *
23723777 TTCCCAAAATTACCATTTTTGCCCCCGAAAGTCCAAAATTACCATTTTT
1 TTCCAAAAATTACCA-TTTTACCCCCGAATGTCCAAAATT-CCATTTTT
23723826 CCTCCGAGCA
Statistics
Matches: 177, Mismatches: 32, Indels: 28
0.75 0.14 0.12
Matches are distributed among these distances:
57 7 0.04
58 73 0.41
59 82 0.46
60 15 0.08
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.36
Consensus pattern (58 bp):
TTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAATTCCATTTTTAACTCTAACTT
Found at i:23723756 original size:117 final size:115
Alignment explanation
Indices: 23723509--23723825 Score: 270
Period size: 117 Copynumber: 2.7 Consensus size: 115
23723499 GGAGGTCCCT
* **
23723509 AAACTATCCAAAAAT-TCCATTTTTGACCCCAAAACTTCCAAAATTACCATTTTACCCCTAAACT
1 AAACT-TCCAAAAATGT-CATTTTTAACCCC-AAACTTCCAAAATTACCATTTTACCCCCGAA-T
*
23723573 -TCCAAAAATTCCATTTTTAACCTTAAAACTTCCAAAAATTAATTTTAACCCCC
62 GTCCAAAAATTCCATTTTTAACCTCAAAACTTCCAAAAATTAATTTTAACCCCC
* * *
23723626 AAACTTCCAAAAATTTTATTTTTAACCCCGAAACTTGCAAAAATTACCATTTTACCCCCGAATGT
1 AAACTTCCAAAAATGTCATTTTTAACCCC-AAACTT-CCAAAATTACCATTTTACCCCCGAATGT
* * * *** * * *
23723691 CCAAAAATTCCATTTTTGATCTCGATTTTTCTAAAAATTACCGTTTT-ACCCTC
64 CCAAAAATTCCATTTTTAACCTCAAAACTTCCAAAAATTA--ATTTTAACCCCC
* * * *
23723744 AAA-TGT-CTAAAATGTCATTTTTAA-CTCTAACTTTTCCCAAAATTACCATTTTTGCCCCCGAA
1 AAACT-TCCAAAAATGTCATTTTTAACCCCAAAC--TT-CCAAAATTACCA-TTTTACCCCCGAA
*
23723806 AGTCC-AAAATTACCATTTTT
61 TGTCCAAAAATT-CCATTTTT
23723826 CCTCCGAGCA
Statistics
Matches: 165, Mismatches: 25, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
115 3 0.02
116 29 0.18
117 96 0.58
118 33 0.20
119 4 0.02
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (115 bp):
AAACTTCCAAAAATGTCATTTTTAACCCCAAACTTCCAAAATTACCATTTTACCCCCGAATGTCC
AAAAATTCCATTTTTAACCTCAAAACTTCCAAAAATTAATTTTAACCCCC
Found at i:23727649 original size:40 final size:40
Alignment explanation
Indices: 23727594--23727673 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
23727584 TTAACTGTTG
*
23727594 GAATACTGCTTCTTTTGAATCAATTTTTTATATGTTTAAA
1 GAATACTGCTTCTTTTGAATCAATTATTTATATGTTTAAA
*
23727634 GAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAA
1 GAATACTGCTTCTTTTGAATCAATTATTTATATGTTTAAA
23727674 TTAATTGTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.49
Consensus pattern (40 bp):
GAATACTGCTTCTTTTGAATCAATTATTTATATGTTTAAA
Found at i:23734290 original size:31 final size:31
Alignment explanation
Indices: 23734233--23734349 Score: 86
Period size: 31 Copynumber: 3.8 Consensus size: 31
23734223 ATCTACTTAA
*
23734233 AAAAAGTGTCAGGTTTAGGTACCAAATTAGG
1 AAAAAGTGTCAAGTTTAGGTACCAAATTAGG
* *
23734264 AAAAAGTTTCAAGTTT-GAGTATCAAATT-GG
1 AAAAAGTGTCAAGTTTAG-GTACCAAATTAGG
**
23734294 ACCAAAA---AAAAGTTTAGGTACCAAATTA-G
1 A--AAAAGTGTCAAGTTTAGGTACCAAATTAGG
*
23734323 -AAAAGTATGTCAAGTTCAGGTACCAAA
1 AAAAAG--TGTCAAGTTTAGGTACCAAA
23734350 CATTATATTA
Statistics
Matches: 67, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
26 4 0.06
29 16 0.24
30 5 0.07
31 38 0.57
32 4 0.06
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.26
Consensus pattern (31 bp):
AAAAAGTGTCAAGTTTAGGTACCAAATTAGG
Found at i:23737594 original size:24 final size:24
Alignment explanation
Indices: 23737549--23737594 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
23737539 GTACTAGTGC
* * *
23737549 TACTGATGCTATTGCAATAGGTGT
1 TACTGATGCTACTACAACAGGTGT
*
23737573 TACTGATGTTACTACAACAGGT
1 TACTGATGCTACTACAACAGGT
23737595 ATCAGTGCTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (24 bp):
TACTGATGCTACTACAACAGGTGT
Found at i:23740314 original size:18 final size:20
Alignment explanation
Indices: 23740293--23740337 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
23740283 AAAAAATTAA
23740293 AAAAAATACAAAAT-T-T-TT
1 AAAAAATA-AAAATATATATT
23740311 AAAAAATAAAAATATATATT
1 AAAAAATAAAAATATATATT
23740331 AAAAAAT
1 AAAAAAT
23740338 TTATTTTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.21
18 9 0.38
19 1 0.04
20 9 0.38
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAATAAAAATATATATT
Found at i:23740367 original size:22 final size:20
Alignment explanation
Indices: 23740294--23740396 Score: 67
Period size: 20 Copynumber: 5.3 Consensus size: 20
23740284 AAAAATTAAA
23740294 AAAAATACA-AAATTTTTA-
1 AAAAATACATAAATTTTTAT
* *
23740312 AAAAATA-A-AAATATATAT
1 AAAAATACATAAATTTTTAT
* **
23740330 TAAAA-A-ATTTATTTTTCGAT
1 AAAAATACATAAATTTTT--AT
*
23740350 AAAAATACATAAATTTTTTT
1 AAAAATACATAAATTTTTAT
*
23740370 AAAAATACATACAA-ATTTAT
1 AAAAATACATA-AATTTTTAT
23740390 AAAAATA
1 AAAAATA
23740397 TTTATAAATA
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
17 10 0.15
18 15 0.23
20 29 0.45
21 3 0.05
22 8 0.12
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (20 bp):
AAAAATACATAAATTTTTAT
Found at i:23740481 original size:20 final size:20
Alignment explanation
Indices: 23740452--23740500 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
23740442 ATTTATTTAT
23740452 TAAAACAATAATATTATAAA
1 TAAAACAATAATATTATAAA
*
23740472 TAAAAGAATAATATTATAAA
1 TAAAACAATAATATTATAAA
23740492 TAAAACAAT
1 TAAAACAAT
23740501 TTAAGAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (20 bp):
TAAAACAATAATATTATAAA
Found at i:23747272 original size:13 final size:13
Alignment explanation
Indices: 23747254--23747278 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23747244 ATTTTTATAG
23747254 TTTTTTAATTTTA
1 TTTTTTAATTTTA
23747267 TTTTTTAATTTT
1 TTTTTTAATTTT
23747279 TAAGAATCAA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTAATTTTA
Found at i:23752836 original size:30 final size:30
Alignment explanation
Indices: 23752722--23752974 Score: 116
Period size: 30 Copynumber: 8.5 Consensus size: 30
23752712 AAAACATGGG
23752722 GGTTAAAATGTAAT-TTATAGAAAGTTT-GA
1 GGTTAAAATGTAATGTTA-AGAAAGTTTAGA
* * * **
23752751 GGGTCAAAAGGCTATTGTGGA-AAAGTTT-GA
1 -GGTTAAAATG-TAATGTTAAGAAAGTTTAGA
* *
23752781 GGATCAAAATGAAACT-TT-AGAAAAGTTTAGA
1 GG-TTAAAATGTAA-TGTTAAG-AAAGTTTAGA
* * *
23752812 GGTCATAATGTAATGTTAAGAAAGTTTAGG
1 GGTTAAAATGTAATGTTAAGAAAGTTTAGA
* *
23752842 GGTTAAAATGTAATTTTAGGAAAGTTTA-A
1 GGTTAAAATGTAATGTTAAGAAAGTTTAGA
* * * *
23752871 GGTTAAAATGTAAT-TTTAG-GAGTGCTCGA
1 GGTTAAAATGTAATGTTAAGAAAGT-TTAGA
* * *
23752900 GGGTCAAATTGTAACT-TTGAA-AAAGTTTAGG
1 -GGTTAAAATGTAA-TGTT-AAGAAAGTTTAGA
* * *
23752931 GGTTAAAATGTAATTTTGAA-AAAATTTAGT
1 GGTTAAAATGTAATGTT-AAGAAAGTTTAGA
*
23752961 GATTAAAATGTAAT
1 GGTTAAAATGTAAT
23752975 TTTGGAAAAG
Statistics
Matches: 173, Mismatches: 34, Indels: 32
0.72 0.14 0.13
Matches are distributed among these distances:
27 3 0.02
28 5 0.03
29 21 0.12
30 124 0.72
31 15 0.09
32 5 0.03
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.34
Consensus pattern (30 bp):
GGTTAAAATGTAATGTTAAGAAAGTTTAGA
Found at i:23752836 original size:60 final size:59
Alignment explanation
Indices: 23752772--23752884 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 59
23752762 CTATTGTGGA
*
23752772 AAAGTTT-GAGGATCAAAATGAAACTTTAGAAAAGTTTAGAGGTCATAATGTAATGTTAAG
1 AAAGTTTAG-GGATCAAAATGAAACTTTAGAAAAGTTTA-AGGTCAAAATGTAATGTTAAG
* * * * * *
23752832 AAAGTTTAGGGGTTAAAATGTAATTTTAGGAAAGTTTAAGGTTAAAATGTAAT
1 AAAGTTTAGGGATCAAAATGAAACTTTAGAAAAGTTTAAGGTCAAAATGTAAT
23752885 TTTAGGAGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
59 13 0.29
60 31 0.69
61 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (59 bp):
AAAGTTTAGGGATCAAAATGAAACTTTAGAAAAGTTTAAGGTCAAAATGTAATGTTAAG
Found at i:23752941 original size:119 final size:120
Alignment explanation
Indices: 23752779--23753007 Score: 288
Period size: 119 Copynumber: 1.9 Consensus size: 120
23752769 GGAAAAGTTT
* *
23752779 GAGGATCAAAATGAAACTTTAGAAAAGTTTAGAGGTCATAATGTAATGTT-AAGAAAGTTTAGGG
1 GAGGATCAAAATGAAACTTTAGAAAAGTTTAGAGGTCAAAATGTAATGTTGAA-AAAATTTAGGG
* *
23752843 GTTAAAATGTAATTTTAGG-AAAGTT-TAAGGTTAAAAT-GTAATTTTAGGAGTGCTC
65 ATTAAAATGTAATTTT-GGAAAAGTTCGAAGGTTAAAATCG-AATTTTAGGAGTGCTC
* * * * * * *
23752898 GAGGGTCAAATTGTAACTTT-GAAAAAGTTTAGGGGTTAAAATGTAATTTTGAAAAAATTTAGTG
1 GAGGATCAAAATGAAACTTTAG-AAAAGTTTAGAGGTCAAAATGTAATGTTGAAAAAATTTAGGG
23752962 ATTAAAATGTAATTTTGGAAAAGTTCGAAGGTTAAAATCGAATTTT
65 ATTAAAATGTAATTTTGGAAAAGTTCGAAGGTTAAAATCGAATTTT
23753008 TAGAAAGTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
118 3 0.03
119 71 0.76
120 19 0.20
121 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (120 bp):
GAGGATCAAAATGAAACTTTAGAAAAGTTTAGAGGTCAAAATGTAATGTTGAAAAAATTTAGGGA
TTAAAATGTAATTTTGGAAAAGTTCGAAGGTTAAAATCGAATTTTAGGAGTGCTC
Found at i:23752997 original size:30 final size:29
Alignment explanation
Indices: 23752842--23753007 Score: 106
Period size: 30 Copynumber: 5.6 Consensus size: 29
23752832 AAAGTTTAGG
*
23752842 GGTTAAAATGTAATTTTAGG-AAAGTTTAA
1 GGTTAAAATGTAATTTT-GGAAAAGTTGAA
** * *
23752871 GGTTAAAATGTAATTTTAGG-AGTGCTCGAG
1 GGTTAAAATGTAATTTT-GGAAAAG-TTGAA
* * * * * *
23752901 GGTCAAATTGTAACTTTGAAAAAGTTTAGG
1 GGTTAAAATGTAATTTTGGAAAAGTTGA-A
* * *
23752931 GGTTAAAATGTAATTTTGAAAAAATT-TA
1 GGTTAAAATGTAATTTTGGAAAAGTTGAA
23752959 GTGATTAAAATGTAATTTTGGAAAAGTTCGAA
1 G-G-TTAAAATGTAATTTTGGAAAAGTT-GAA
23752991 GGTTAAAATCG-AATTTT
1 GGTTAAAAT-GTAATTTT
23753008 TAGAAAGTTT
Statistics
Matches: 107, Mismatches: 22, Indels: 15
0.74 0.15 0.10
Matches are distributed among these distances:
28 1 0.01
29 26 0.24
30 76 0.71
31 2 0.02
32 2 0.02
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.36
Consensus pattern (29 bp):
GGTTAAAATGTAATTTTGGAAAAGTTGAA
Found at i:23755369 original size:85 final size:85
Alignment explanation
Indices: 23755224--23755391 Score: 230
Period size: 85 Copynumber: 2.0 Consensus size: 85
23755214 TCGCTTAATT
** * * * * * *
23755224 GATTTGGTCTTCTTCTTTGTGTCTCATCAAGAAGATGACCGCTTTATTATTTTTATCCACTTCTT
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTACTTTGACCCACTT-TT
23755289 -TGTATCTCATCAGGAAGACA
65 CTGTATCTCATCAGGAAGACA
* *
23755309 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCACTTTATTGCTTTGACCCACTTTTC
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTACTTTGACCCACTTTTC
23755374 TGTATCTCATCAGGAAGA
66 TGTATCTCATCAGGAAGA
23755392 TGGGATTTGA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 2 0.03
85 70 0.97
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.40
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTACTTTGACCCACTTTTC
TGTATCTCATCAGGAAGACA
Found at i:23755779 original size:46 final size:45
Alignment explanation
Indices: 23755482--23756322 Score: 840
Period size: 46 Copynumber: 19.1 Consensus size: 45
23755472 TATCTCATCA
*
23755482 GGAAGATGGCTTCAATCTGCTCCTCTTGACTTAGGGGTAAAAGATT
1 GGAAG-TGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
** ** *
23755528 GGAAAAGTTTTCAATTTGCCCCTCTTGACTTAGGGGTAAAAGATT
1 GGAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* *
23755573 GGAAAGAT--CTTCAATCTACCCCTCTTGA-TTAGAGGTAAAAGATT
1 GG-AAG-TGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* * *
23755617 GGAA-TGGCTTCAATTTGCTCCTCTCGA-TTAGGGGTAAAAGATT
1 GGAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* * *
23755660 AGAA-T--CTTCAATCTGCCTCTCTTGA-TTAAGGGTAAAAGATT
1 GGAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
*
23755701 GGAA-TGGCTTTAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
1 GGAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* * * *
23755745 AGAATGTGGCTTCAATTTGCCCCTCTTAATTTAGGGGTAAAAGATT
1 GGAA-GTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* ** *
23755791 GGAAG-GTCTTCAATCTATCCCTCTT-AATTAGGGGTAAAAGATT
1 GGAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* *
23755834 GGAAG-GTCTTCAATCTGCCCTTCTTGACTTAGGGGTAAAAGATT
1 GGAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* *
23755878 -GAATGATGGCTTCAATCTGTCCCTCTTGACTTAGGGGTAAAAAATT
1 GGAA-G-TGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* * * **
23755924 AGAATGTGGTTTCAATTTATCCCTCTTGAC----GGGTAAAAGATT
1 GGAA-GTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* * *
23755966 GAAAG-GTCTTCAATCTGTCCCTCTTGA-TTAGGGGTAAAAGATT
1 GGAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* *
23756009 AGAA-TGGCTTCAATCTGTCCCTCTTGACTTAGGGGTAAAAGATT
1 GGAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* * * *
23756053 GGATGATGACTTCAATTTGCCCTTCTTGACTTAGGGGTAAAAGATT
1 GGAAG-TGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* * *
23756099 -GAAAT--CTTTAACCTGCCCCTCTTGA-TTAGGGGTAAAAGATT
1 GGAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* * * *
23756140 -GAAATGACTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATC
1 GGAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
** * * * * ** *
23756184 ATAA-TGACTTTAAT-TTCCCACTCTTAACTTAAAGGTAAAATATT
1 GGAAGTGGCTTCAATCTGCCC-CTCTTGACTTAGGGGTAAAAGATT
* *
23756228 AGATGATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
1 GGAAG-TGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
*
23756274 GGAATGTGGTTTCAATCTGCCCCTCTTGAC-TAGGGGTAAAAGATT
1 GGAA-GTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
23756319 GGAA
1 GGAA
23756323 TGACTGTAGT
Statistics
Matches: 669, Mismatches: 95, Indels: 63
0.81 0.11 0.08
Matches are distributed among these distances:
40 18 0.03
41 58 0.09
42 29 0.04
43 153 0.23
44 133 0.20
45 78 0.12
46 190 0.28
47 10 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (45 bp):
GGAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
Found at i:23755832 original size:133 final size:128
Alignment explanation
Indices: 23755483--23756322 Score: 808
Period size: 133 Copynumber: 6.4 Consensus size: 128
23755473 ATCTCATCAG
* * *
23755483 GAAGATGGCTTCAATCTGCTCCTCTTGACTTAGGGGTAAAAGATTGGAAAAGTTTTCAATTTGCC
1 GAAG-TGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGG-AAGGTCTTCAATTT--C
* * * * *
23755548 CCTCTTGACTTAGGGGTAAAAGATTGGAAAGATCTTCAATCTACCCCTCTTGATTAGAGGTAAAA
62 CCTCTT-AATTAGGGGTAAAAGATTGGAATG-GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAA
23755613 GATT
125 GATT
* * * * *
23755617 GGAA-TGGCTTCAATTTGCTCCTCTCGA-TTAGGGGTAAAAGATTAGAA--TCTTCAATCTGCCT
1 -GAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAAGGTCTTCAAT-TTCC-
* * *
23755678 CTCTTGATTAAGGGTAAAAGATTGGAATGGCTTTAATCTGCCCCTCTTGACTTAGGGGTAAAAGA
63 CTCTTAATTAGGGGTAAAAGATTGGAATGGCTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAAGA
23755743 TT
127 TT
* * *
23755745 AGAATGTGGCTTCAATTTGCCCCTCTTAATTTAGGGGTAAAAGATTGGAAGGTCTTCAATCTATC
1 -GAA-GTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAAGGTCTTCAAT-T-TC
*
23755810 CCTCTTAATTAGGGGTAAAAGATTGGAA-GGTCTTCAATCTGCCCTTCTTGACTTAGGGGTAAAA
62 CCTCTTAATTAGGGGTAAAAGATTGGAATGG-CTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAA
23755874 GATT
125 GATT
* * *
23755878 GAATGATGGCTTCAATCTGTCCCTCTTGACTTAGGGGTAAAAAATTAGAATGTGGT-TTCAATTT
1 GAA-G-TGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAA---GGTCTTCAA-TT
* * * *
23755942 ATCCCTC-T--TGACGGGTAAAAGATT-GAAAGGTCTTCAATCTGTCCCTCTTGATTAGGGGTAA
60 -TCCCTCTTAATTAGGGGTAAAAGATTGGAATGG-CTTCAATCTGCCCCTCTTGATTAGGGGTAA
23756003 AAGATT
123 AAGATT
* * *
23756009 AGAA-TGGCTTCAATCTGTCCCTCTTGACTTAGGGGTAAAAGATTGGATGATGACTTCAATTTGC
1 -GAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGA--AGGTCTTCAATTT-C
* * * *
23756073 CCTTCTTGACTTAGGGGTAAAAGATTGAAAT--CTTTAACCTGCCCCTCTTGATTAGGGGTAAAA
62 CC-TCTT-AATTAGGGGTAAAAGATTGGAATGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAA
23756136 GATT
125 GATT
* * * *** * * *
23756140 GAAATGACTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATCATAATGACTTTAATTTCCCAC
1 GAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAAGGTCTTCAATTT-CC-C
** * *
23756205 TCTTAACTTAAAGGTAAAATATTAGATGATGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAA
64 TCTTAA-TTAGGGGTAAAAGATTGGA--ATGGCTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAA
23756270 GATT
125 GATT
*
23756274 GGAATGTGGTTTCAATCTGCCCCTCTTGAC-TAGGGGTAAAAGATTGGAA
1 -GAA-GTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAA
23756323 TGACTGTAGT
Statistics
Matches: 601, Mismatches: 67, Indels: 74
0.81 0.09 0.10
Matches are distributed among these distances:
127 19 0.03
128 47 0.08
129 92 0.15
130 26 0.04
131 113 0.19
132 62 0.10
133 161 0.27
134 21 0.03
135 35 0.06
136 25 0.04
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (128 bp):
GAAGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAAGGTCTTCAATTTCCCTC
TTAATTAGGGGTAAAAGATTGGAATGGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATT
Found at i:23756022 original size:175 final size:174
Alignment explanation
Indices: 23755487--23756319 Score: 865
Period size: 175 Copynumber: 4.7 Consensus size: 174
23755477 CATCAGGAAG
* ** *
23755487 ATGGCTTCAATCTGCTCCTCTTGACTTAGGGGTAAAAGATTGGAA--AAGTTTTCAATTTGCCCC
1 ATGGCTTCAATCTGC-CCTCTTGACTTAGGGGTAAAAGATT-GAATGATGGCTTCAATCTGCCCC
* * * * *
23755550 TCTTGACTTAGGGGTAAAAGATTGGAAAGAT--CTTCAATCTACCCCTCTTGATTAGAGGTAAAA
64 TCTTGACTTAGGGGTAAAAGATTAGAATG-TGGTTTCAATCTGCCCCTCTTGA--CG-GGTAAAA
* *
23755613 GATTGGAATGG-CTTCAAT-T-TGCTCCTCTCGATTAGGGGTAAAAGATTAGA
125 GATT-GAAAGGTCTTCAATCTAT-C-CCTCTTGATTAGGGGTAAAAGATTAGA
* * *
23755663 AT--CTTCAATCTGCCTCTCTTGA-TTAAGGGTAAAAGATTGGA--ATGGCTTTAATCTGCCCCT
1 ATGGCTTCAATCTGCC-CTCTTGACTTAGGGGTAAAAGATTGAATGATGGCTTCAATCTGCCCCT
* * * *
23755723 CTTGACTTAGGGGTAAAAGATTAGAATGTGGCTTCAATTTGCCCCTCTTAATTTAGGGGTAAAAG
65 CTTGACTTAGGGGTAAAAGATTAGAATGTGGTTTCAATCTGCCCCTC----TTGACGGGTAAAAG
* * *
23755788 ATTGGAAGGTCTTCAATCTATCCCTCTTAATTAGGGGTAAAAGATTGGA
126 ATTGAAAGGTCTTCAATCTATCCCTCTTGATTAGGGGTAAAAGATTAGA
*
23755837 A-GGTCTTCAATCTGCCCTTCTTGACTTAGGGGTAAAAGATTGAATGATGGCTTCAATCTGTCCC
1 ATGG-CTTCAATCTGCCC-TCTTGACTTAGGGGTAAAAGATTGAATGATGGCTTCAATCTGCCCC
* * **
23755901 TCTTGACTTAGGGGTAAAAAATTAGAATGTGGTTTCAATTTATCCCTCTTGACGGGTAAAAGATT
64 TCTTGACTTAGGGGTAAAAGATTAGAATGTGGTTTCAATCTGCCCCTCTTGACGGGTAAAAGATT
*
23755966 GAAAGGTCTTCAATCTGTCCCTCTTGATTAGGGGTAAAAGATTAGA
129 GAAAGGTCTTCAATCTATCCCTCTTGATTAGGGGTAAAAGATTAGA
* * * *
23756012 ATGGCTTCAATCTGTCCCTCTTGACTTAGGGGTAAAAGATTGGATGATGACTTCAATTTGCCCTT
1 ATGGCTTCAATCTG-CCCTCTTGACTTAGGGGTAAAAGATTGAATGATGGCTTCAATCTGCCCCT
* * * *
23756077 CTTGACTTAGGGGTAAAAGATT-GAA-AT-CTTT-AACCTGCCCCTCTTGATTAGGGGTAAAAGA
65 CTTGACTTAGGGGTAAAAGATTAGAATGTGGTTTCAATCTGCCCCTCTTG---ACGGGTAAAAGA
* * * * *
23756138 TTGAAATGACTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATCATA
127 TTGAAAGGTCTTCAATCTATCCCTCTTGA-TTAGGGGTAAAAGATTAGA
* * * * * ** *
23756187 ATGACTTTAATTTCCCACTCTTAACTTAAAGGTAAAATATT-AGATGATGGCTTCAATCTGCCCC
1 ATGGCTTCAATCTGCC-CTCTTGACTTAGGGGTAAAAGATTGA-ATGATGGCTTCAATCTGCCCC
*
23756251 TCTTGACTTAGGGGTAAAAGATTGGAATGTGGTTTCAATCTGCCCCTCTTGACTAGGGGTAAAAG
64 TCTTGACTTAGGGGTAAAAGATTAGAATGTGGTTTCAATCTGCCCCTCTTGAC---GGGTAAAAG
23756316 ATTG
126 ATTG
23756320 GAATGACTGT
Statistics
Matches: 558, Mismatches: 67, Indels: 61
0.81 0.10 0.09
Matches are distributed among these distances:
171 12 0.02
172 45 0.08
173 35 0.06
174 102 0.18
175 223 0.40
176 30 0.05
177 21 0.04
178 3 0.01
179 87 0.16
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (174 bp):
ATGGCTTCAATCTGCCCTCTTGACTTAGGGGTAAAAGATTGAATGATGGCTTCAATCTGCCCCTC
TTGACTTAGGGGTAAAAGATTAGAATGTGGTTTCAATCTGCCCCTCTTGACGGGTAAAAGATTGA
AAGGTCTTCAATCTATCCCTCTTGATTAGGGGTAAAAGATTAGA
Found at i:23757543 original size:9 final size:9
Alignment explanation
Indices: 23757521--23757586 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
23757511 TCGACCTCTC
*
23757521 CTTTTTTTCC
1 CTTTTTTT-T
23757531 CTTTTTTTT
1 CTTTTTTTT
23757540 CTTTTTTTT
1 CTTTTTTTT
* *
23757549 -ATTTTTCT
1 CTTTTTTTT
23757557 C-TTTTTTT
1 CTTTTTTTT
23757565 CTTTTTATTT
1 CTTTTT-TTT
* *
23757575 ATTTATTTT
1 CTTTTTTTT
23757584 CTT
1 CTT
23757587 CATCGAATCC
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
8 13 0.28
9 18 0.39
10 15 0.33
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:23757544 original size:8 final size:8
Alignment explanation
Indices: 23757533--23757570 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
23757523 TTTTTTCCCT
23757533 TTTTTTTC
1 TTTTTTTC
23757541 TTTTTTT-
1 TTTTTTTC
23757548 TATTTTTCTC
1 T-TTTTT-TC
23757558 TTTTTTTC
1 TTTTTTTC
23757566 TTTTT
1 TTTTT
23757571 ATTTATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 1 0.04
8 19 0.70
9 6 0.22
10 1 0.04
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:23757553 original size:26 final size:26
Alignment explanation
Indices: 23757524--23757578 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
23757514 ACCTCTCCTT
23757524 TTTTTCCCTTTTTTTTCTTTTT-TTTA
1 TTTTTCCC-TTTTTTTCTTTTTATTTA
*
23757550 TTTTTCTCTTTTTTTCTTTTTATTTA
1 TTTTTCCCTTTTTTTCTTTTTATTTA
23757576 TTT
1 TTT
23757579 ATTTTCTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTCCCTTTTTTTCTTTTTATTTA
Found at i:23757555 original size:15 final size:15
Alignment explanation
Indices: 23757535--23757583 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 15
23757525 TTTTCCCTTT
23757535 TTTTTCTTTTTTTTA
1 TTTTTCTTTTTTTTA
*
23757550 TTTTTCTCTTTTTTTC
1 TTTTTCT-TTTTTTTA
* *
23757566 TTTTT-ATTTATTTA
1 TTTTTCTTTTTTTTA
23757580 TTTT
1 TTTT
23757584 CTTCATCGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 10 0.34
15 7 0.24
16 12 0.41
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTCTTTTTTTTA
Found at i:23757583 original size:22 final size:23
Alignment explanation
Indices: 23757536--23757586 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
23757526 TTTCCCTTTT
*
23757536 TTTTCTTT-TTTTTATTTTTCTC
1 TTTTCTTTCTTTTTATTTTTCTA
23757558 TTTT-TTTCTTTTTATTTATT-TA
1 TTTTCTTTCTTTTTATTT-TTCTA
23757580 TTTTCTT
1 TTTTCTT
23757587 CATCGAATCC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 3 0.12
22 18 0.72
23 4 0.16
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTCTTTCTTTTTATTTTTCTA
Found at i:23761645 original size:30 final size:30
Alignment explanation
Indices: 23761609--23761800 Score: 124
Period size: 30 Copynumber: 6.4 Consensus size: 30
23761599 AAAATTCGTA
*
23761609 GGTCAAAATGTATTTTTTGGAAAGTTTAGG
1 GGTCAAAATGTAATTTTTGGAAAGTTTAGG
* *
23761639 GGTCAAAATGCT-A-TTGTGGAAAAGGTT-GG
1 GGTCAAAATG-TAATTTTTGG-AAAGTTTAGG
* * * * *
23761668 GATCAAAATGCAA-CTTTGGAAAATTTGGG
1 GGTCAAAATGTAATTTTTGGAAAGTTTAGG
* * ** *
23761697 GCGTTATAATGTAATTTTAAGAAAGTTTAAG
1 G-GTCAAAATGTAATTTTTGGAAAGTTTAGG
* *
23761728 GGTTAAAATGTAATTTTAGGAAAGTTT-GAG
1 GGTCAAAATGTAATTTTTGGAAAGTTTAG-G
* * ** *
23761758 GGTCAAAATATAATTTTGGGAGTGTTCAGG
1 GGTCAAAATGTAATTTTTGGAAAGTTTAGG
*
23761788 GGTTAAAATGTAA
1 GGTCAAAATGTAA
23761801 CTTTAGAGTT
Statistics
Matches: 124, Mismatches: 30, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
28 5 0.04
29 24 0.19
30 82 0.66
31 13 0.10
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.34
Consensus pattern (30 bp):
GGTCAAAATGTAATTTTTGGAAAGTTTAGG
Found at i:23761687 original size:29 final size:29
Alignment explanation
Indices: 23761624--23761690 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
23761614 AAATGTATTT
* * *
23761624 TTTGG-AAAGTTTAGGGGTCAAAATGCTA
1 TTTGGAAAAGGTTAGGGATCAAAATGCAA
23761652 TTGTGGAAAAGGTT-GGGATCAAAATGCAA
1 TT-TGGAAAAGGTTAGGGATCAAAATGCAA
23761681 CTTTGGAAAA
1 -TTTGGAAAA
23761691 TTTGGGGCGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 2 0.06
29 23 0.70
30 8 0.24
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.28
Consensus pattern (29 bp):
TTTGGAAAAGGTTAGGGATCAAAATGCAA
Found at i:23761835 original size:29 final size:30
Alignment explanation
Indices: 23761802--23761860 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
23761792 AAAATGTAAC
* * *
23761802 TTTAGAG-TTAAAATGCAATTTTGGAAAAG
1 TTTAGAGATCAAAATACAATTTTAGAAAAG
*
23761831 TTTAGGGATCAAAATACAATTTTAGAAAAG
1 TTTAGAGATCAAAATACAATTTTAGAAAAG
23761861 CTCGGGGGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.32
Consensus pattern (30 bp):
TTTAGAGATCAAAATACAATTTTAGAAAAG
Found at i:23761874 original size:79 final size:79
Alignment explanation
Indices: 23761729--23761879 Score: 189
Period size: 79 Copynumber: 1.9 Consensus size: 79
23761719 AAGTTTAAGG
* * * * ** * *
23761729 GTTAAAATGTAATTTTAGGAAAGTTTGAGGGTCAAAATATAATTTTGGGAGTGTTCAGGGGTTAA
1 GTTAAAATGCAATTTTAGGAAAGTTTGAGGGTCAAAATACAATTTTAGAAAAGCTCAGGGGCTAA
23761794 AATGTAACTTTAGA
66 AATGTAACTTTAGA
*
23761808 GTTAAAATGCAATTTT-GGAAAAGTTT-AGGGATCAAAATACAATTTTAGAAAAGCTCGGGGGCT
1 GTTAAAATGCAATTTTAGG-AAAGTTTGAGGG-TCAAAATACAATTTTAGAAAAGCTCAGGGGCT
23761871 AAAATGTAA
64 AAAATGTAA
23761880 TTAAGGAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
78 6 0.10
79 55 0.90
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (79 bp):
GTTAAAATGCAATTTTAGGAAAGTTTGAGGGTCAAAATACAATTTTAGAAAAGCTCAGGGGCTAA
AATGTAACTTTAGA
Found at i:23765539 original size:29 final size:28
Alignment explanation
Indices: 23765461--23765631 Score: 157
Period size: 29 Copynumber: 5.8 Consensus size: 28
23765451 TGGACATTCA
*
23765461 AGGGTAAAATGGTAATTTTTGAAAGTTTTG
1 AGGGTAAAAT-GTAATTTTTGGAAG-TTTG
* ** *
23765491 AGGTTAAAATCAAGAATTTTGGAAGTTTG
1 AGGGTAAAATGTA-ATTTTTGGAAGTTTG
23765520 AGGGTAAGAATGTAATTTTTGGAAGTTTCG
1 AGGGTAA-AATGTAATTTTTGGAAGTTT-G
*
23765550 A-GGTCAAAAATGGAATTTTTGGAAGTTTG
1 AGGGT--AAAATGTAATTTTTGGAAGTTTG
* *
23765579 AGGGTAAAAATATAATTTTTGGAAGTTTT
1 AGGGT-AAAATGTAATTTTTGGAAGTTTG
*
23765608 AGGGTCAAATATATAA-TTTTGGAA
1 AGGGT-AAA-ATGTAATTTTTGGAA
23765632 AAGTTTAGGG
Statistics
Matches: 120, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
29 66 0.55
30 52 0.43
31 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (28 bp):
AGGGTAAAATGTAATTTTTGGAAGTTTG
Found at i:23765569 original size:30 final size:29
Alignment explanation
Indices: 23765440--23765612 Score: 158
Period size: 29 Copynumber: 5.9 Consensus size: 29
23765430 ATGTAGTTGT
**
23765440 AATGGAATTTTTGGACA-TTCAAGGGT-AA
1 AATGGAATTTTTGGA-AGTTTGAGGGTAAA
* *
23765468 AATGGTAATTTTTGAAAGTTTTGA-GGTTAA
1 AATGG-AATTTTTGGAAG-TTTGAGGGTAAA
* *
23765498 AATCAAGAA-TTTTGGAAGTTTGAGGGTAAG
1 AAT--GGAATTTTTGGAAGTTTGAGGGTAAA
*
23765528 AATGTAATTTTTGGAAGTTTCGA-GGTCAAA
1 AATGGAATTTTTGGAAGTTT-GAGGGT-AAA
23765558 AATGGAATTTTTGGAAGTTTGAGGGTAAA
1 AATGGAATTTTTGGAAGTTTGAGGGTAAA
** *
23765587 AATATAATTTTTGGAAGTTTTAGGGT
1 AATGGAATTTTTGGAAGTTTGAGGGT
23765613 CAAATATATA
Statistics
Matches: 120, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
28 8 0.07
29 60 0.50
30 49 0.41
31 2 0.02
32 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (29 bp):
AATGGAATTTTTGGAAGTTTGAGGGTAAA
Found at i:23765614 original size:59 final size:59
Alignment explanation
Indices: 23765440--23765616 Score: 202
Period size: 59 Copynumber: 3.0 Consensus size: 59
23765430 ATGTAGTTGT
** * *
23765440 AATGGAATTTTTGGACA-TTCAAGGGT-AAAATGGTAATTTTTGAAAGTTTTGAGGT-TAA
1 AATGGAATTTTTGGA-AGTTTGAGGGTAAAAAT-GTAATTTTTGGAAGTTTTGAGGTCAAA
* * *
23765498 AATCAAGAA-TTTTGGAAGTTTGAGGGTAAGAATGTAATTTTTGGAAGTTTCGAGGTCAAA
1 AAT--GGAATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGGAAGTTTTGAGGTCAAA
*
23765558 AATGGAATTTTTGGAAGTTTGAGGGTAAAAATATAATTTTTGGAAGTTTT-AGGGTCAAA
1 AATGGAATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGGAAGTTTTGA-GGTCAAA
23765617 TATATAATTT
Statistics
Matches: 101, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
58 8 0.08
59 81 0.80
60 12 0.12
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.36
Consensus pattern (59 bp):
AATGGAATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGGAAGTTTTGAGGTCAAA
Found at i:23765624 original size:30 final size:29
Alignment explanation
Indices: 23765473--23765631 Score: 137
Period size: 30 Copynumber: 5.4 Consensus size: 29
23765463 GGTAAAATGG
* *
23765473 TAATTTTTGAAAGTTTT-GAGGTTAAAATCA
1 TAATTTTTGGAAGTTTTAG-GGTAAAAAT-A
* * * *
23765503 -AGAATTTTGGAAGTTTGAGGGTAAGAATG
1 TA-ATTTTTGGAAGTTTTAGGGTAAAAATA
* *
23765532 TAATTTTTGGAAG-TTTCGAGGTCAAAAATG
1 TAATTTTTGGAAGTTTTAG-GGT-AAAAATA
* *
23765562 GAATTTTTGGAAGTTTGAGGGTAAAAATA
1 TAATTTTTGGAAGTTTTAGGGTAAAAATA
*
23765591 TAATTTTTGGAAGTTTTAGGGTCAAATATA
1 TAATTTTTGGAAGTTTTAGGGT-AAAAATA
23765621 TAA-TTTTGGAA
1 TAATTTTTGGAA
23765632 AAGTTTAGGG
Statistics
Matches: 105, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
28 3 0.03
29 48 0.46
30 50 0.48
31 4 0.04
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (29 bp):
TAATTTTTGGAAGTTTTAGGGTAAAAATA
Found at i:23766699 original size:19 final size:19
Alignment explanation
Indices: 23766675--23766739 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
23766665 AACTTTTATT
*
23766675 TTATTATTATTACTAATTA
1 TTATTATTATTAATAATTA
* *
23766694 TTATTATTATTTAAAATAGTTG
1 TTATTATTA-TT--AATAATTA
23766716 TTATTATTATTAATAATTA
1 TTATTATTATTAATAATTA
23766735 TTATT
1 TTATT
23766740 GATATAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 20 0.53
20 2 0.05
21 2 0.05
22 14 0.37
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (19 bp):
TTATTATTATTAATAATTA
Found at i:23767444 original size:17 final size:17
Alignment explanation
Indices: 23767419--23767496 Score: 86
Period size: 17 Copynumber: 4.6 Consensus size: 17
23767409 ATGAATTTTT
* *
23767419 AATTCAAAATAAATTCA
1 AATTTAAAATAAATTTA
23767436 AATTTAAAATAAATTTA
1 AATTTAAAATAAATTTA
* * *
23767453 AACTCT-ACATGAATTTA
1 AA-TTTAAAATAAATTTA
*
23767470 AATTTAAAATAAATTAA
1 AATTTAAAATAAATTTA
23767487 AATTTAAAAT
1 AATTTAAAAT
23767497 TAAAAGTTGG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
16 2 0.04
17 46 0.92
18 2 0.04
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.36
Consensus pattern (17 bp):
AATTTAAAATAAATTTA
Found at i:23768162 original size:17 final size:18
Alignment explanation
Indices: 23768120--23768167 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
23768110 AATTACATAG
*
23768120 TTATAAAATTTATATTTG
1 TTATAAAATTTATATTTA
*
23768138 TTAAAAAATATTA-A-TTA
1 TTATAAAAT-TTATATTTA
23768155 TTATAAAATTTAT
1 TTATAAAATTTAT
23768168 GTCGTTGCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 3 0.12
17 10 0.40
18 9 0.36
19 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TTATAAAATTTATATTTA
Found at i:23776326 original size:27 final size:27
Alignment explanation
Indices: 23776287--23776352 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
23776277 GTAAAAATAC
* * *
23776287 AATTTCATTATTTTGAGGTCAAAGTAT
1 AATTTTATCATTTTGAAGTCAAAGTAT
23776314 AATTTTATCATTTTGAAGTCAAAGTAT
1 AATTTTATCATTTTGAAGTCAAAGTAT
23776341 AATTTTATCATT
1 AATTTTATCATT
23776353 ATTAATTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.47
Consensus pattern (27 bp):
AATTTTATCATTTTGAAGTCAAAGTAT
Found at i:23787186 original size:2 final size:2
Alignment explanation
Indices: 23787179--23787221 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
23787169 CAGTTTTCAT
23787179 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
23787221 T
1 T
23787222 ATTCTCTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:23792002 original size:17 final size:17
Alignment explanation
Indices: 23791980--23792014 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
23791970 CGTTTGAAAA
23791980 TAAAACGCCGCAAAAGG
1 TAAAACGCCGCAAAAGG
*
23791997 TAAAACGCCGCTAAAGG
1 TAAAACGCCGCAAAAGG
23792014 T
1 T
23792015 CGGAACATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.11
Consensus pattern (17 bp):
TAAAACGCCGCAAAAGG
Found at i:23792065 original size:41 final size:40
Alignment explanation
Indices: 23791998--23792256 Score: 216
Period size: 41 Copynumber: 6.3 Consensus size: 40
23791988 CGCAAAAGGT
* * *
23791998 AAAA-CGCCGCTAAAGGTCGGAACATTAGCGGCATTTATA
1 AAAAGCGCCGCTAAAAGTCGGAGCATTAGCGGCGTTTATA
* * *
23792037 CAAAAGCGCCGCTAAAAGTCAGAGCATTAGCGACGTTTATGG
1 -AAAAGCGCCGCTAAAAGTCGGAGCATTAGCGGCGTTTAT-A
* * * * ** * *
23792079 GAAAGTGCTGCTAAAAGTCAGAAAATTAGTGACGTTTATA
1 AAAAGCGCCGCTAAAAGTCGGAGCATTAGCGGCGTTTATA
* * * *
23792119 GAGAAGCGCCGCTAAAGGTCGGAGCAGTAGCGGCATTTATGA
1 -AAAAGCGCCGCTAAAAGTCGGAGCATTAGCGGCGTTTAT-A
* * * *
23792161 AGAAGCGCTGCTGAAGGTCGGAGCATTAGCGGCGTTTATGA
1 AAAAGCGCCGCTAAAAGTCGGAGCATTAGCGGCGTTTAT-A
* *
23792202 AAAAGTGCCGCTAAAAATCGGAGCATTAGCGGCGTTT-TA
1 AAAAGCGCCGCTAAAAGTCGGAGCATTAGCGGCGTTTATA
*
23792241 CAATAAACGCCGCTAA
1 -AA-AAGCGCCGCTAA
23792257 TTTTCATTTT
Statistics
Matches: 176, Mismatches: 37, Indels: 11
0.79 0.17 0.05
Matches are distributed among these distances:
39 1 0.01
40 7 0.04
41 167 0.95
42 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (40 bp):
AAAAGCGCCGCTAAAAGTCGGAGCATTAGCGGCGTTTATA
Found at i:23792238 original size:123 final size:123
Alignment explanation
Indices: 23792002--23792238 Score: 305
Period size: 123 Copynumber: 1.9 Consensus size: 123
23791992 AAAGGTAAAA
*
23792002 CGCCGCTAAAGGTCGGAACATTAGCGGCATTTATACAAAAGCGCCGCTAAAAGTCAGAGCATTAG
1 CGCCGCTAAAGGTCGGAACAGTAGCGGCATTTATACAAAAGCGCCGCTAAAAGTCAGAGCATTAG
** * * *
23792067 CGACGTTTATGGGAAAGTGCTGCTAAAAGTCAGAAAATTAGTGACGTTTATAGAGAAG
66 CGACGTTTATGAAAAAGTGCCGCTAAAAATCAGAAAATTAGCGACGTTTATAGAGAAG
* * * * * *
23792125 CGCCGCTAAAGGTCGGAGCAGTAGCGGCATTTATGA-AGAAGCGCTGCTGAAGGTCGGAGCATTA
1 CGCCGCTAAAGGTCGGAACAGTAGCGGCATTTAT-ACAAAAGCGCCGCTAAAAGTCAGAGCATTA
* * ** *
23792189 GCGGCGTTTATGAAAAAGTGCCGCTAAAAATCGGAGCATTAGCGGCGTTT
65 GCGACGTTTATGAAAAAGTGCCGCTAAAAATCAGAAAATTAGCGACGTTT
23792239 TACAATAAAC
Statistics
Matches: 96, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
123 95 0.99
124 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (123 bp):
CGCCGCTAAAGGTCGGAACAGTAGCGGCATTTATACAAAAGCGCCGCTAAAAGTCAGAGCATTAG
CGACGTTTATGAAAAAGTGCCGCTAAAAATCAGAAAATTAGCGACGTTTATAGAGAAG
Found at i:23792769 original size:40 final size:40
Alignment explanation
Indices: 23792725--23792804 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
23792715 TGGGAAAATT
23792725 CTATTATTTGTCCCTAAATTTTAATGAAAATTTCATTTCG
1 CTATTATTTGTCCCTAAATTTTAATGAAAATTTCATTTCG
23792765 CTATTATTTGTCCCTAAATTTTAATGAAAATTTCATTTCG
1 CTATTATTTGTCCCTAAATTTTAATGAAAATTTCATTTCG
23792805 ATCACTCAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (40 bp):
CTATTATTTGTCCCTAAATTTTAATGAAAATTTCATTTCG
Found at i:23794176 original size:58 final size:58
Alignment explanation
Indices: 23793975--23794517 Score: 625
Period size: 58 Copynumber: 9.4 Consensus size: 58
23793965 TTAGATACCC
* * * * *
23793975 GGGGGCAAAATGGTAATTTTAGTTGGAATT-GGGTTAAAAATGGGATTTTAGAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTAGAAGTTT
* *
23794032 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGGATTTTAGAAGCTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTAGAAGTTT
* * * * *
23794089 GGGAGCAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAGTTTTTAGAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGG-GATTTTAGAAGTTT
* * * *
23794148 GGGGGTAAAATGGTAA-TTTTGGTAAAATTAGGGTT-AAAATGGGATTTTAAAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTT-AGAAGTTT
* * *
23794205 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTAGAAGTTT
* * * *
23794262 GAGGGAAAAATGGTAA-TTTTGGTAAAATCGGGGTTAAAAATGGGATTTTAGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTAG-AAGTTT
* * * *
23794320 AGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTT-AAAATAGAATTTTGGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTAG-AAGTTT
* * *** *
23794378 GGGGGTAAAATGATAATTTTTGGTAAAAGCAGGGTTAAAAATGGGATTTTGGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTAG-AAGTTT
* * * * *
23794437 TGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATAGGA-TTTGGACAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTAGA-AGTTT
*
23794495 AGGGGTAAAATGGTAATTTTTGG
1 GGGGGTAAAATGGTAATTTTTGG
23794518 ATAGTTTAGG
Statistics
Matches: 421, Mismatches: 55, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
56 23 0.05
57 139 0.33
58 158 0.38
59 101 0.24
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.34
Consensus pattern (58 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTAGAAGTTT
Found at i:23794274 original size:173 final size:169
Alignment explanation
Indices: 23793976--23794514 Score: 647
Period size: 173 Copynumber: 3.1 Consensus size: 169
23793966 TAGATACCCG
* * * *
23793976 GGGGCAAAATGGTAATTTTAGTTGGAATTGGGTTAAAAATGGGATTTTAGAAGTTCGGGGGTAAA
1 GGGGTAAAATGGTAATTTT-GGTGAAATTGGGTT-AAAATGGGATTTTAAAAGTTCGGGGGTAAA
* * *
23794041 ATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGGATTTTAGAAGCTTGGGAGCAAAATGGTAAT
64 ATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGGATTTTGGAAGTTTGGG-GAAAAATGGTAAT
*
23794106 TTTTGGTGAAATTAGGGTTAAAAATGGAGTTTTTAGAAGTTCG
128 TTTTGGTGAAATTAGGGTTAAAAATGGAG-TTTTAGAAGTTCA
*
23794149 GGGGTAAAATGGTAATTTTGGTAAAATTAGGGTTAAAATGGGATTTTAAAAAGTTCGGGGGTAAA
1 GGGGTAAAATGGTAATTTTGGTGAAATT-GGGTTAAAATGGGATTTT-AAAAGTTCGGGGGTAAA
*
23794214 ATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAGTTTGAGGGAAAAATGGTAA-
64 ATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGGATTTTGGAAGTTTG-GGGAAAAATGGTAAT
* ** *
23794278 TTTTGGTAAAATCGGGGTTAAAAATGG-GATTTTAGAAAGTTTA
128 TTTTGGTGAAATTAGGGTTAAAAATGGAG-TTTTAG-AAGTTCA
* * * *
23794321 GGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAATAGAATTTTGGAAAGTTTGGGGGTAA
1 GGGGTAAAATGGTAA-TTTTGGTGAAATT-GGGTTAAAATGGGATTTT-AAAAGTTCGGGGGTAA
* * * * *
23794386 AATGATAATTTTTGGTAAAAGCAGGGTTAAAAATGGGATTTTGGAAAGTTTTGGGGTAAAATGGT
63 AATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGGATTTTGG-AAG-TTTGGGGAAAAATGGT
* * *
23794451 AATTTTTGGTGAAA-TCGAGGTTAAAAATAGGA--TTTGGACAGTTTA
125 AATTTTTGGTGAAATTAG-GGTTAAAAAT-GGAGTTTTAGA-AGTTCA
23794496 GGGGTAAAATGGTAATTTT
1 GGGGTAAAATGGTAATTTT
23794515 TGGATAGTTT
Statistics
Matches: 321, Mismatches: 32, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
171 7 0.02
172 63 0.20
173 162 0.50
174 21 0.07
175 42 0.13
176 24 0.07
177 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (169 bp):
GGGGTAAAATGGTAATTTTGGTGAAATTGGGTTAAAATGGGATTTTAAAAGTTCGGGGGTAAAAT
GGTAATTTTTGGTGAAATCGGGGTTAAAATGGGATTTTGGAAGTTTGGGGAAAAATGGTAATTTT
TGGTGAAATTAGGGTTAAAAATGGAGTTTTAGAAGTTCA
Found at i:23794445 original size:29 final size:28
Alignment explanation
Indices: 23794149--23794456 Score: 131
Period size: 28 Copynumber: 10.7 Consensus size: 28
23794139 TAGAAGTTCG
*
23794149 GGGGT-AAAATGGTAATTTTGGTAAA-ATT
1 GGGGTAAAAATGG-AATTTTGG-AAAGTTT
* * * ** *
23794177 AGGGTTAAAATGGGATTTTAAAAAGTTCG
1 GGGGTAAAAATGGAATTTTGGAAAGTT-T
*
23794206 GGGGT-AAAATGGTAATTTTTGGTGAAA--TC
1 GGGGTAAAAATGG-AA-TTTT-G-GAAAGTTT
*
23794235 GGGGTTAAAATGGAATTTTGG-AAGTTT
1 GGGGTAAAAATGGAATTTTGGAAAGTTT
* *
23794262 GAGGG-AAAAATGGTAATTTTGGTAAA-ATC
1 G-GGGTAAAAATGG-AATTTTGG-AAAGTTT
* *
23794291 GGGGTTAAAAATGGGATTTTAGAAAGTTT
1 GGGG-TAAAAATGGAATTTTGGAAAGTTT
23794320 AGGGGT-AAAATGGTAATTTTTGGTGAAA--TT
1 -GGGGTAAAAATGG-AA-TTTT-G-GAAAGTTT
* *
23794350 GGGGTTAAAATAGAATTTTGGAAAGTTT
1 GGGGTAAAAATGGAATTTTGGAAAGTTT
* **
23794378 GGGGGT-AAAATGATAATTTTTGGTAAAAG-CA
1 -GGGGTAAAAATG-GAA-TTTTGG--AAAGTTT
* *
23794409 GGGTTAAAAATGGGATTTTGGAAAGTTTT
1 GGGGTAAAAATGGAATTTTGGAAAG-TTT
23794438 GGGGT-AAAATGGTAATTTT
1 GGGGTAAAAATGG-AATTTT
23794457 TGGTGAAATC
Statistics
Matches: 213, Mismatches: 33, Indels: 67
0.68 0.11 0.21
Matches are distributed among these distances:
25 2 0.01
26 5 0.02
27 18 0.08
28 63 0.30
29 59 0.28
30 49 0.23
31 6 0.03
32 11 0.05
ACGTcount: A:0.35, C:0.01, G:0.30, T:0.34
Consensus pattern (28 bp):
GGGGTAAAAATGGAATTTTGGAAAGTTT
Found at i:23795453 original size:12 final size:12
Alignment explanation
Indices: 23795435--23795469 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
23795425 TGAAATATTT
23795435 ATTATTATTATC
1 ATTATTATTATC
*
23795447 GTTATTATTATC
1 ATTATTATTATC
*
23795459 ACTATTATTAT
1 ATTATTATTAT
23795470 TGTCATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:23796224 original size:6 final size:6
Alignment explanation
Indices: 23796210--23796266 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
23796200 GACTTTTTAA
* * * *
23796210 TTAATT TTAAAT TTAAAT TCAAA- TTAAAT TTAAAC TT-AAT TAAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
23796256 TTAAAC TTAAA
1 TTAAAT TTAAA
23796267 AGAAAAGTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
5 7 0.17
6 34 0.83
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:23796228 original size:17 final size:17
Alignment explanation
Indices: 23796210--23796265 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
23796200 GACTTTTTAA
23796210 TTAATTTTAAATTTAAA-
1 TTAA-TTTAAATTTAAAC
*
23796227 TTCAAATTAAATTTAAAC
1 TT-AATTTAAATTTAAAC
*
23796245 TTAATTAAAATTTAAAC
1 TTAATTTAAATTTAAAC
23796262 TTAA
1 TTAA
23796266 AAGAAAAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 30 0.88
18 4 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAATTTAAATTTAAAC
Found at i:23796259 original size:23 final size:23
Alignment explanation
Indices: 23796208--23796266 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
23796198 TAGACTTTTT
* * *
23796208 AATTAATTTTAAATTTAAATTCA
1 AATTAAATTTAAACTTAAATTAA
23796231 AATTAAATTTAAACTT-AATTAA
1 AATTAAATTTAAACTTAAATTAA
*
23796253 AATTTAAACTTAAA
1 AA-TTAAATTTAAA
23796267 AGAAAAGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTAAATTTAAACTTAAATTAA
Found at i:23796279 original size:19 final size:18
Alignment explanation
Indices: 23796235--23796285 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
23796225 AATTCAAATT
**
23796235 AAATTTAAACTT-AATTA
1 AAATTTAAACTTAAAAGA
23796252 AAATTTAAACTTAAAAGA
1 AAATTTAAACTTAAAAGA
23796270 AAAGTTTAAACTTAAA
1 AAA-TTTAAACTTAAA
23796286 CTAAATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 12 0.40
18 6 0.20
19 12 0.40
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (18 bp):
AAATTTAAACTTAAAAGA
Found at i:23796767 original size:92 final size:92
Alignment explanation
Indices: 23796610--23797458 Score: 1499
Period size: 92 Copynumber: 9.2 Consensus size: 92
23796600 AGGTTTTATT
23796610 TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATTT
1 TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATTT
*
23796675 GAAAACTCATCTTGCTCTTACTATAAC
66 GAAAATTCATCTTGCTCTTACTATAAC
23796702 TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATT-ATCATT
1 TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGA-CATT
**
23796766 TGAAAATTCATCTTATTCTTACTATAAC
65 TGAAAATTCATCTTGCTCTTACTATAAC
23796794 TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATT-ATCATT
1 TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGA-CATT
23796858 TGAAAATTCATCTTGCTCTTACTATAAC
65 TGAAAATTCATCTTGCTCTTACTATAAC
23796886 TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATTT
1 TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATTT
* *
23796951 GAAAATTGATCTTACTCTTACTATAAC
66 GAAAATTCATCTTGCTCTTACTATAAC
*
23796978 TTCAGAGAGATAAAGATTCGTTATCCAACTTTATTATAACTTCAAGAGGATAAGAATTGACATTT
1 TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATTT
23797043 GAAAATTCATCTTGCTCTTACTATAAC
66 GAAAATTCATCTTGCTCTTACTATAAC
23797070 TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATTT
1 TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATTT
23797135 GAAAATTCATCTTGCTCTTACTATAAC
66 GAAAATTCATCTTGCTCTTACTATAAC
* * *
23797162 TTTAGAGAGATAAAGATTCGCTATCCAACTTTACTATAACTTCAAGAGGATAAGAATT-ATTATT
1 TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGA-CATT
*
23797226 TGAAAATTTATCTTGCTCTTACTATAAC
65 TGAAAATTCATCTTGCTCTTACTATAAC
* *
23797254 TTCAGAGAGATAAAGATTTGTTATCCAACTTTATTATAACTTCAAGAGGATAAGAATT-ATCATT
1 TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGA-CATT
*
23797318 TGAAAATTCATCTTACTCTTACTATAAC
65 TGAAAATTCATCTTGCTCTTACTATAAC
*
23797346 TTCAAAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATTT
1 TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATTT
*
23797411 GAAAATTCATCTTGCTTTTACTATAAC
66 GAAAATTCATCTTGCTCTTACTATAAC
23797438 TTCAGAGAGATAAAGATTCGT
1 TTCAGAGAGATAAAGATTCGT
23797459 CGTCGTGGAT
Statistics
Matches: 725, Mismatches: 28, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
91 2 0.00
92 721 0.99
93 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (92 bp):
TTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATTT
GAAAATTCATCTTGCTCTTACTATAAC
Found at i:23809196 original size:58 final size:58
Alignment explanation
Indices: 23809094--23809564 Score: 497
Period size: 58 Copynumber: 8.3 Consensus size: 58
23809084 ACTTGGGGGC
* * * * *
23809094 AAAATGGTAATTTTAGTTGGAAT-TGGGTTAAAAATGGGATTTTAGAAGTTCGAGGGA
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGAAGTTCGAGGGT
*
23809151 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGAAGCTT-G-GGAGC
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGAAG-TTCGAGG-GT
* * * * *
23809209 AAAATGGTAATTTTTGGTGAAATCAGGGTTAGAAATGGGGTTTTTAGAAGTTCGAGAGC
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAAT-GGGATTTTAGAAGTTCGAGGGT
* * * *
23809268 AAAATGGTAA-TTTTGGTAAAATCGAGGTTAAAAATGGGATTCTAGAAAGTTCAAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAG-AAGTTCGAGGGT
* * *
23809326 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGAAGTTCGAGGGT
* *
23809384 ---A---T-A-TTTTGGTAAAATCGGGGTT-AAAATGGGATTTTAGAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAG-AAGTTCGAGGGT
* * * * *
23809434 AAAATGGTAATTTTTGGTAAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAG-AAGTTCGAGGGT
* * * * *
23809492 AAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAATGGGA-TTTGGACAGTTTGGGGGA
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGA-AGTTCGAGGGT
23809549 AAAATGGTAATTTTTG
1 AAAATGGTAATTTTTG
23809565 AACAGTCCAG
Statistics
Matches: 361, Mismatches: 35, Indels: 36
0.84 0.08 0.08
Matches are distributed among these distances:
49 13 0.04
50 28 0.08
51 1 0.00
52 1 0.00
53 1 0.00
55 1 0.00
56 2 0.01
57 62 0.17
58 193 0.53
59 58 0.16
60 1 0.00
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.33
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGAAGTTCGAGGGT
Found at i:23809429 original size:28 final size:28
Alignment explanation
Indices: 23809398--23809562 Score: 122
Period size: 30 Copynumber: 5.8 Consensus size: 28
23809388 TTTGGTAAAA
* * *
23809398 TCGGGGTTAAAATGGGATTTTAGAAAGT
1 TCGGGGGTAAAATGGAATTTTGGAAAGT
*
23809426 TCGGGGGTAAAATGGTAATTTTTGGTAAA-A
1 TCGGGGGTAAAATGG-AA-TTTTGG-AAAGT
*
23809456 TCGGGGTTAAAATGGAATTTTGGAAAGT
1 TCGGGGGTAAAATGGAATTTTGGAAAGT
*
23809484 TTGGGGGTAAAATGGTAATTTTTGGTGAAA--
1 TCGGGGGTAAAATGG-AA-TTTT-G-GAAAGT
* * * *
23809514 TCGAGGTTAAAATGGGA-TTTGGACAGT
1 TCGGGGGTAAAATGGAATTTTGGAAAGT
* *
23809541 TTGGGGGAAAAATGGTAATTTT
1 TCGGGGGTAAAATGG-AATTTT
23809563 TGAACAGTCC
Statistics
Matches: 107, Mismatches: 18, Indels: 23
0.72 0.12 0.16
Matches are distributed among these distances:
25 3 0.03
26 1 0.01
27 17 0.16
28 34 0.32
29 9 0.08
30 35 0.33
31 4 0.04
32 4 0.04
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (28 bp):
TCGGGGGTAAAATGGAATTTTGGAAAGT
Found at i:23809467 original size:108 final size:108
Alignment explanation
Indices: 23809273--23809564 Score: 356
Period size: 108 Copynumber: 2.6 Consensus size: 108
23809263 AGAGCAAAAT
* **
23809273 GGTA-ATTTTGGTAAAATCGAGGTTAAAAATGGGATTCTAGAAAGTTCAAGGGTAAAATGGTAAT
1 GGTATATTTTGGTAAAATCGAGGTT-AAAATGGGATTTTAGAAAGTTCGGGGGTAAAATGGTAAT
*
23809337 TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGG-AAGTTCGAG
65 TTTTGGTAAAATCGAGGTT-AAAATGGAATTTTGGAAAGTTCGAG
*
23809381 GGTATATTTTGGTAAAATCGGGGTTAAAATGGGATTTTAGAAAGTTCGGGGGTAAAATGGTAATT
1 GGTATATTTTGGTAAAATCGAGGTTAAAATGGGATTTTAGAAAGTTCGGGGGTAAAATGGTAATT
* * *
23809446 TTTGGTAAAATCGGGGTTAAAATGGAATTTTGGAAAGTTTGGG
66 TTTGGTAAAATCGAGGTTAAAATGGAATTTTGGAAAGTTCGAG
* * * * *
23809489 GGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGA-TTTGGACAGTTTGGGGGAAAAA
1 GGT---A---T-A-TTTTGGTAAAATCGAGGTTAAAATGGGATTTTAGAAAGTTCGGGGGTAAAA
23809553 TGGTAATTTTTG
58 TGGTAATTTTTG
23809565 AACAGTCCAG
Statistics
Matches: 160, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
107 15 0.09
108 67 0.42
109 19 0.12
111 1 0.01
114 1 0.01
115 31 0.19
116 26 0.16
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.33
Consensus pattern (108 bp):
GGTATATTTTGGTAAAATCGAGGTTAAAATGGGATTTTAGAAAGTTCGGGGGTAAAATGGTAATT
TTTGGTAAAATCGAGGTTAAAATGGAATTTTGGAAAGTTCGAG
Found at i:23809526 original size:30 final size:30
Alignment explanation
Indices: 23809387--23809528 Score: 120
Period size: 28 Copynumber: 4.9 Consensus size: 30
23809377 CGAGGGTATA
* *
23809387 TTTTGGTAAAATCGGGGTTAAAATGG-GA-
1 TTTTGGTGAAATCGGGGTTAAAATGGTAAT
* *
23809415 TTTT--AGAAAGTTCGGGGGTAAAATGGTAAT
1 TTTTGGTGAAA--TCGGGGTTAAAATGGTAAT
*
23809445 TTTTGGTAAAATCGGGGTTAAAATGG-AA-
1 TTTTGGTGAAATCGGGGTTAAAATGGTAAT
* *
23809473 TTTT-G-GAAAGTTTGGGGGTAAAATGGTAAT
1 TTTTGGTGAAA--TCGGGGTTAAAATGGTAAT
*
23809503 TTTTGGTGAAATCGAGGTTAAAATGG
1 TTTTGGTGAAATCGGGGTTAAAATGG
23809529 GATTTGGACA
Statistics
Matches: 89, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
26 6 0.07
27 1 0.01
28 35 0.39
29 5 0.06
30 34 0.38
31 1 0.01
32 7 0.08
ACGTcount: A:0.32, C:0.03, G:0.31, T:0.34
Consensus pattern (30 bp):
TTTTGGTGAAATCGGGGTTAAAATGGTAAT
Found at i:23810669 original size:12 final size:12
Alignment explanation
Indices: 23810651--23810685 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
23810641 TGAAATCTTT
23810651 ATTATTATTATC
1 ATTATTATTATC
*
23810663 GTTATTATTATC
1 ATTATTATTATC
*
23810675 ACTATTATTAT
1 ATTATTATTAT
23810686 TGTCATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:23811437 original size:6 final size:6
Alignment explanation
Indices: 23811423--23811479 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
23811413 GACTTTTTAA
* * * *
23811423 TTAATT TTAAAT TTAAAT TCAAA- TTAAAT TTAAAC TT-AAT TAAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
23811469 TTAAAC TTAAA
1 TTAAAT TTAAA
23811480 AGAAAAGTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
5 7 0.17
6 34 0.83
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:23811441 original size:17 final size:17
Alignment explanation
Indices: 23811423--23811478 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
23811413 GACTTTTTAA
23811423 TTAATTTTAAATTTAAA-
1 TTAA-TTTAAATTTAAAC
*
23811440 TTCAAATTAAATTTAAAC
1 TT-AATTTAAATTTAAAC
*
23811458 TTAATTAAAATTTAAAC
1 TTAATTTAAATTTAAAC
23811475 TTAA
1 TTAA
23811479 AAGAAAAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 30 0.88
18 4 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAATTTAAATTTAAAC
Found at i:23811472 original size:23 final size:23
Alignment explanation
Indices: 23811421--23811479 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
23811411 TTGACTTTTT
* * *
23811421 AATTAATTTTAAATTTAAATTCA
1 AATTAAATTTAAACTTAAATTAA
23811444 AATTAAATTTAAACTT-AATTAA
1 AATTAAATTTAAACTTAAATTAA
*
23811466 AATTTAAACTTAAA
1 AA-TTAAATTTAAA
23811480 AGAAAAGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTAAATTTAAACTTAAATTAA
Found at i:23811492 original size:19 final size:18
Alignment explanation
Indices: 23811448--23811498 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
23811438 AATTCAAATT
**
23811448 AAATTTAAACTT-AATTA
1 AAATTTAAACTTAAAAGA
23811465 AAATTTAAACTTAAAAGA
1 AAATTTAAACTTAAAAGA
23811483 AAAGTTTAAACTTAAA
1 AAA-TTTAAACTTAAA
23811499 CTAAACTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 12 0.40
18 6 0.20
19 12 0.40
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (18 bp):
AAATTTAAACTTAAAAGA
Found at i:23812672 original size:41 final size:40
Alignment explanation
Indices: 23812578--23812741 Score: 193
Period size: 41 Copynumber: 4.0 Consensus size: 40
23812568 AAAATTAGAA
* * *
23812578 GTCAATCAATAGCGACGTTTATGAAAAAAAAACACCGCTAAAG
1 GTCAATCAATAGCGGCGTTTATG---GAAAAACGCCGCTAAAG
23812621 GTCAATCAATAGCGGCGTTTATGGGAAAAACGCCGCTAAAG
1 GTCAATCAATAGCGGCGTTTAT-GGAAAAACGCCGCTAAAG
* * * * * *
23812662 ATCAAACAATAACAGTGTTTATAGGAAAAACGCCACTAAAG
1 GTCAATCAATAGCGGCGTTTAT-GGAAAAACGCCGCTAAAG
*
23812703 GTCAATCAATAGCGGCGTTTATGTAAAAACGCCGCTAAA
1 GTCAATCAATAGCGGCGTTTATGGAAAAACGCCGCTAAA
23812742 TCATTTAATT
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 15 0.15
41 66 0.64
43 21 0.20
44 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (40 bp):
GTCAATCAATAGCGGCGTTTATGGAAAAACGCCGCTAAAG
Found at i:23820402 original size:17 final size:17
Alignment explanation
Indices: 23820386--23820418 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23820376 ATTTATATTA
23820386 ATTT-GTTATTCAAATT
1 ATTTAGTTATTCAAATT
*
23820402 ATTTAGTTATTCGAATT
1 ATTTAGTTATTCAAATT
23820419 GTAAAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (17 bp):
ATTTAGTTATTCAAATT
Found at i:23820704 original size:125 final size:125
Alignment explanation
Indices: 23820482--23820728 Score: 422
Period size: 125 Copynumber: 2.0 Consensus size: 125
23820472 ACTCGAATAA
* * * *
23820482 TTCGAATAACTCGAAATTCGATTTTTTTTCAAATCGAATCGAATTTTGCTCACCCTTATCCCCTA
1 TTCGAATAACTCGAAATTCAATTTTTTTTCAAATCAAATCAAATTTTGCTCACCCTTATCCCCGA
* * **
23820547 TTGATAATCACAAAGTTTTTACTAATTTCGTTCAGAGGGGATTAGTAATAGAGAAATGGG
66 TTAATAATCACAAAGTTTTTACTAATTCCGTTCAGAGGCAATTAGTAATAGAGAAATGGG
23820607 TTCGAATAACTCGAAATTCAATTTTTTTTCAAATCAAATCAAATTTTGCTCACCCTTATCCCCGA
1 TTCGAATAACTCGAAATTCAATTTTTTTTCAAATCAAATCAAATTTTGCTCACCCTTATCCCCGA
23820672 TTAATAATCACAAAGTTTTTACTAATTCCGTTCAGAGGCAATTAGTAATAGAGAAAT
66 TTAATAATCACAAAGTTTTTACTAATTCCGTTCAGAGGCAATTAGTAATAGAGAAAT
23820729 AGATTATGTA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 114 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (125 bp):
TTCGAATAACTCGAAATTCAATTTTTTTTCAAATCAAATCAAATTTTGCTCACCCTTATCCCCGA
TTAATAATCACAAAGTTTTTACTAATTCCGTTCAGAGGCAATTAGTAATAGAGAAATGGG
Found at i:23832353 original size:21 final size:21
Alignment explanation
Indices: 23832328--23832394 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
23832318 TTTAAATTTC
*
23832328 AATAAAAAATTTATCAAAAAT
1 AATAAAAAATATATCAAAAAT
23832349 AATAAATGAAA-ATATC-AAAAT
1 AATAAA--AAATATATCAAAAAT
* *
23832370 AATAAATAATATATTAAAAAT
1 AATAAAAAATATATCAAAAAT
23832391 AATA
1 AATA
23832395 TATTTTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.05
20 4 0.10
21 26 0.67
22 4 0.10
23 3 0.08
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.28
Consensus pattern (21 bp):
AATAAAAAATATATCAAAAAT
Found at i:23833530 original size:26 final size:26
Alignment explanation
Indices: 23833497--23833555 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
23833487 AATTAAATTC
23833497 AAATTTATCAAAATTTGAAATGGCTT
1 AAATTTATCAAAATTTGAAATGGCTT
23833523 AAATTTATCAAAATTTGAAATGGCTT
1 AAATTTATCAAAATTTGAAATGGCTT
23833549 AAATTTA
1 AAATTTA
23833556 AAATGATCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (26 bp):
AAATTTATCAAAATTTGAAATGGCTT
Found at i:23840985 original size:30 final size:30
Alignment explanation
Indices: 23840926--23841014 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 30
23840916 GTTTAGGGAA
*
23840926 AAAAGAAAAGAAAAGATGGATT--AATTTAAGG
1 AAAAGAAAAG-AAA-ATCGATTGGAA-TTAAGG
*
23840957 TAAA-AAAAGACAAATCGATTCGG-ATTAAGG
1 AAAAGAAAAGA-AAATCGATT-GGAATTAAGG
23840987 AAAAGAAAAGAAAATCGATTGGAATTAA
1 AAAAGAAAAGAAAATCGATTGGAATTAA
23841015 CATTTTATGG
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
29 9 0.18
30 30 0.61
31 10 0.20
ACGTcount: A:0.56, C:0.04, G:0.20, T:0.19
Consensus pattern (30 bp):
AAAAGAAAAGAAAATCGATTGGAATTAAGG
Found at i:23842474 original size:30 final size:29
Alignment explanation
Indices: 23842372--23842474 Score: 82
Period size: 30 Copynumber: 3.4 Consensus size: 29
23842362 ATCGAGGTTA
* * *
23842372 AAAATGGAATTTTAAAAAAATTTGGGGGGT
1 AAAATGGAATTTT-AGAAGATTCGGGGGGT
* ** * *
23842402 AAAATGGTAATTTTTGGTGAAATC-GGGGTT
1 AAAATGG-AATTTTAGAAG-ATTCGGGGGGT
*
23842432 AAAATGGGATTTTAGAAGATTCGGGGGGT
1 AAAATGGAATTTTAGAAGATTCGGGGGGT
23842461 AAAATGGTAATTTT
1 AAAATGG-AATTTT
23842475 TGAAAGTTTT
Statistics
Matches: 54, Mismatches: 15, Indels: 8
0.70 0.19 0.10
Matches are distributed among these distances:
28 3 0.06
29 19 0.35
30 24 0.44
31 8 0.15
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (29 bp):
AAAATGGAATTTTAGAAGATTCGGGGGGT
Found at i:23842474 original size:59 final size:61
Alignment explanation
Indices: 23842335--23842476 Score: 193
Period size: 59 Copynumber: 2.4 Consensus size: 61
23842325 TATGGATACC
* *
23842335 CGGGGGGCAAAATGGTAA--TTTGGTGTAATCGAGGTTAAAAATGGAATTTTAAAAAAATT
1 CGGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAAAATT
* * * * *
23842394 TGGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGGATTTT-AGAAGATT
1 CGGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAAAATT
23842453 CGGGGGGTAAAATGGTAATTTTTG
1 CGGGGGGTAAAATGGTAATTTTTG
23842477 AAAGTTTTGG
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
59 45 0.62
60 12 0.16
61 16 0.22
ACGTcount: A:0.33, C:0.04, G:0.32, T:0.32
Consensus pattern (61 bp):
CGGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAAAATT
Found at i:23842494 original size:30 final size:30
Alignment explanation
Indices: 23842455--23842626 Score: 222
Period size: 30 Copynumber: 5.7 Consensus size: 30
23842445 AGAAGATTCG
* *
23842455 GGGGGTAAAATGGTAATTTTTG-AAAGTTTT
1 GGGGTTAAAAT-GTAATTTTGGAAAAGTTTT
23842485 GGGGTTAAAATGTAATTTTGGAAAAG-TTT
1 GGGGTTAAAATGTAATTTTGGAAAAGTTTT
** *
23842514 AAGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTTAAAATGTAATTTTGGAAAAGTTTT
*
23842544 GGGGTTAAAATATAATTTTGGAAAAGTTTT
1 GGGGTTAAAATGTAATTTTGGAAAAGTTTT
* *
23842574 GAGGTTAAAATGTAATTTTAGAAAAGTTTT
1 GGGGTTAAAATGTAATTTTGGAAAAGTTTT
* *
23842604 GGCGTCAAAATGTAATTTCTGGA
1 GGGGTTAAAATGTAATTT-TGGA
23842627 CAATTTAAGG
Statistics
Matches: 123, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
29 35 0.28
30 85 0.69
31 3 0.02
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.38
Consensus pattern (30 bp):
GGGGTTAAAATGTAATTTTGGAAAAGTTTT
Found at i:23842503 original size:59 final size:60
Alignment explanation
Indices: 23842367--23842621 Score: 218
Period size: 59 Copynumber: 4.3 Consensus size: 60
23842357 GTGTAATCGA
* * * * * *
23842367 GGTTAAAAATGGAATTTTAAAAAAATTTGGGGGGTAAAATGGTAATTTTTGGTGAAA---TCGG
1 GGTT-AAAATGTAATTTTAGAAAAGTTTGGAGGGTAAAAT-GTAATTTTT-G-AAAAGTTTTGG
** * * *
23842428 GGTTAAAATGGGATTTTAGAAGA-TTCGGGGGGTAAAATGGTAATTTTTG-AAAGTTTTGG
1 GGTTAAAATGTAATTTTAGAAAAGTTTGGAGGGTAAAAT-GTAATTTTTGAAAAGTTTTGG
* * *
23842487 GGTTAAAATGTAATTTTGGAAAAGTTT--AAGGTCAAAATGTAATTTTGGAAAAGTTTTGG
1 GGTTAAAATGTAATTTTAGAAAAGTTTGGAGGGT-AAAATGTAATTTTTGAAAAGTTTTGG
* * * * *
23842546 GGTTAAAATATAATTTTGGAAAAGTTTTGAGGTTAAAATGTAATTTTAGAAAAGTTTTGG
1 GGTTAAAATGTAATTTTAGAAAAGTTTGGAGGGTAAAATGTAATTTTTGAAAAGTTTTGG
* *
23842606 CGTCAAAATGTAATTT
1 GGTTAAAATGTAATTT
23842622 CTGGACAATT
Statistics
Matches: 166, Mismatches: 20, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
56 3 0.02
58 13 0.08
59 87 0.52
60 56 0.34
61 7 0.04
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.36
Consensus pattern (60 bp):
GGTTAAAATGTAATTTTAGAAAAGTTTGGAGGGTAAAATGTAATTTTTGAAAAGTTTTGG
Found at i:23844302 original size:24 final size:26
Alignment explanation
Indices: 23844275--23844330 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
23844265 AGTCTTAGGC
* *
23844275 ATTGGGCC-T-ATTTGGGCCTTTGTA
1 ATTGGGCCTTAATTCGGGCCATTGTA
23844299 ATTGGGCCTTTAATTCGGGCCATTGTA
1 ATTGGGCC-TTAATTCGGGCCATTGTA
23844326 ATTGG
1 ATTGG
23844331 ACTCTGGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 8 0.30
26 1 0.04
27 18 0.67
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.39
Consensus pattern (26 bp):
ATTGGGCCTTAATTCGGGCCATTGTA
Found at i:23844305 original size:14 final size:13
Alignment explanation
Indices: 23844286--23844330 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
23844276 TTGGGCCTAT
23844286 TTGGGCCTTTGTAA
1 TTGGGCC-TTGTAA
23844300 TTGGGCCTT-TAA
1 TTGGGCCTTGTAA
23844312 TTCGGGCCATTGTAA
1 TT-GGGCC-TTGTAA
23844327 TTGG
1 TTGG
23844331 ACTCTGGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.18
13 7 0.25
14 11 0.39
15 5 0.18
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.40
Consensus pattern (13 bp):
TTGGGCCTTGTAA
Found at i:23844403 original size:17 final size:17
Alignment explanation
Indices: 23844381--23844413 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23844371 TCCAAATTTA
23844381 ACAAATTTAAATTTAAC
1 ACAAATTTAAATTTAAC
23844398 ACAAATTTAAATTTAA
1 ACAAATTTAAATTTAA
23844414 AAATTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
ACAAATTTAAATTTAAC
Found at i:23844444 original size:18 final size:18
Alignment explanation
Indices: 23844423--23844468 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
23844413 AAAATTGATT
23844423 TAAATTTAAATTT-TAAGA
1 TAAATTTAAATTTGTAA-A
*
23844441 TAAATTCAAATTTGTAAA
1 TAAATTTAAATTTGTAAA
*
23844459 TGAATTTAAA
1 TAAATTTAAA
23844469 ATTAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (18 bp):
TAAATTTAAATTTGTAAA
Found at i:23844451 original size:24 final size:24
Alignment explanation
Indices: 23844399--23844453 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
23844389 AAATTTAACA
**
23844399 CAAATTTAAATTTAAAAATTGATT
1 CAAATTTAAATTTAAAAATAAATT
* * *
23844423 TAAATTTAAATTTTAAGATAAATT
1 CAAATTTAAATTTAAAAATAAATT
23844447 CAAATTT
1 CAAATTT
23844454 GTAAATGAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (24 bp):
CAAATTTAAATTTAAAAATAAATT
Found at i:23844466 original size:42 final size:41
Alignment explanation
Indices: 23844383--23844478 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 41
23844373 CAAATTTAAC
*
23844383 AAATTTAAATTTAACACAAATTTAAATTTAAAAATTGATTT
1 AAATTTAAATTTAACACAAATTCAAATTTAAAAATTGATTT
* * **
23844424 AAATTTAAATTTTAAGATAAATTCAAATTTGTAAA-TGAATTT
1 AAATTTAAA-TTTAACACAAATTCAAATTTAAAAATTG-ATTT
*
23844466 AAAATT-AATTTAA
1 AAATTTAAATTTAA
23844479 ACCAAATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
40 5 0.11
41 13 0.28
42 29 0.62
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (41 bp):
AAATTTAAATTTAACACAAATTCAAATTTAAAAATTGATTT
Found at i:23845922 original size:20 final size:19
Alignment explanation
Indices: 23845898--23846011 Score: 93
Period size: 20 Copynumber: 5.6 Consensus size: 19
23845888 TGAATCAATA
*
23845898 TAAACAACGAAGAATCGAT
1 TAAACAACAAAGAATCGAT
* *
23845917 TCAAACAATAATGAATCGAT
1 T-AAACAACAAAGAATCGAT
* *
23845937 TAAAGAAGCAAAAAATCGATT
1 TAAACAA-CAAAGAATCGA-T
*
23845958 TAAAACAACAAATAATCGAT
1 T-AAACAACAAAGAATCGAT
*
23845978 TGAAATAAGCAAAGAATCGATT
1 T-AAACAA-CAAAGAATCGA-T
23846000 TAAAACAACAAA
1 T-AAACAACAAA
23846012 CAATTGATTT
Statistics
Matches: 75, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
19 6 0.08
20 31 0.41
21 26 0.35
22 12 0.16
ACGTcount: A:0.56, C:0.13, G:0.11, T:0.19
Consensus pattern (19 bp):
TAAACAACAAAGAATCGAT
Found at i:23845969 original size:21 final size:21
Alignment explanation
Indices: 23845945--23846021 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
23845935 ATTAAAGAAG
23845945 CAAAAAATCGATTTAAAACAA
1 CAAAAAATCGATTTAAAACAA
* * *
23845966 CAAATAATCGATTGAAATA-AG
1 CAAAAAATCGATTTAAA-ACAA
*
23845987 CAAAGAATCGATTTAAAACAA
1 CAAAAAATCGATTTAAAACAA
* *
23846008 CAAACAATTGATTT
1 CAAAAAATCGATTT
23846022 GTAACGAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.02
21 44 0.96
22 1 0.02
ACGTcount: A:0.55, C:0.13, G:0.09, T:0.23
Consensus pattern (21 bp):
CAAAAAATCGATTTAAAACAA
Found at i:23845998 original size:42 final size:41
Alignment explanation
Indices: 23845907--23846020 Score: 142
Period size: 42 Copynumber: 2.8 Consensus size: 41
23845897 ATAAACAACG
* *
23845907 AAGAATCGA-TTCAAACAA-TAATGAATCGATTAAAGAAGCA
1 AAGAATCGATTTAAAACAACAAAT-AATCGATTAAAGAAGCA
* *
23845947 AAAAATCGATTTAAAACAACAAATAATCGATTGAAATAAGCA
1 AAGAATCGATTTAAAACAACAAATAATCGATT-AAAGAAGCA
* *
23845989 AAGAATCGATTTAAAACAACAAACAATTGATT
1 AAGAATCGATTTAAAACAACAAATAATCGATT
23846021 TGTAACGAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
40 8 0.12
41 16 0.25
42 40 0.62
ACGTcount: A:0.54, C:0.12, G:0.11, T:0.22
Consensus pattern (41 bp):
AAGAATCGATTTAAAACAACAAATAATCGATTAAAGAAGCA
Found at i:23847455 original size:20 final size:19
Alignment explanation
Indices: 23847430--23847482 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
23847420 TTTTATAGTT
23847430 AAAATCATAAAAAAATATA
1 AAAATCATAAAAAAATATA
**
23847449 GAAAATCATAAAGATTATATA
1 -AAAATCATAAA-AAAATATA
*
23847470 AAAATTATAAAAA
1 AAAATCATAAAAA
23847483 TATTAAAGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 21 0.75
21 6 0.21
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (19 bp):
AAAATCATAAAAAAATATA
Found at i:23847551 original size:8 final size:9
Alignment explanation
Indices: 23847530--23847554 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23847520 AAAAGAAATA
23847530 AAAAATATT
1 AAAAATATT
23847539 AAAAATATT
1 AAAAATATT
23847548 AAAAATA
1 AAAAATA
23847555 GAATATATAT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATATT
Found at i:23852413 original size:31 final size:31
Alignment explanation
Indices: 23852378--23852481 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
23852368 TAATCACATT
*
23852378 AATATTAAATTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
** * *
23852409 AATATTAAATT-A-AATTTAATATCTCA-TTT
1 AATATTAAATTAATAAAATAATATCT-AGATA
* * *
23852438 TATATTAAGTTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
23852469 AATATTAAATTAA
1 AATATTAAATTAA
23852482 ATTTAAAATT
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
29 19 0.35
30 4 0.07
31 32 0.58
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCTAGATA
Found at i:23860232 original size:14 final size:15
Alignment explanation
Indices: 23860213--23860241 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23860203 CACCTGATAA
23860213 TTGATTTC-TCCCTT
1 TTGATTTCTTCCCTT
23860227 TTGATTTCTTCCCTT
1 TTGATTTCTTCCCTT
23860242 AATTACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.07, C:0.28, G:0.07, T:0.59
Consensus pattern (15 bp):
TTGATTTCTTCCCTT
Found at i:23862074 original size:15 final size:16
Alignment explanation
Indices: 23862049--23862081 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23862039 TAAGTTAGTG
23862049 GAAAGAGAAAAAAAAA
1 GAAAGAGAAAAAAAAA
*
23862065 GAAA-AGAAAAGAAAA
1 GAAAGAGAAAAAAAAA
23862080 GA
1 GA
23862082 GAATCAGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
GAAAGAGAAAAAAAAA
Found at i:23865916 original size:20 final size:20
Alignment explanation
Indices: 23865888--23865939 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
23865878 AATAGTATTT
23865888 TTGTAAGAAATTTGATAATAG
1 TTGTAAGAAATTTGATAAT-G
* *
23865909 TT-TAAGAAATTTGGTAATT
1 TTGTAAGAAATTTGATAATG
23865928 TTGTAAGAAATT
1 TTGTAAGAAATT
23865940 AAGTAATGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (20 bp):
TTGTAAGAAATTTGATAATG
Found at i:23865945 original size:20 final size:19
Alignment explanation
Indices: 23865880--23865946 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
23865870 AATTTTTTAA
*
23865880 TAGTATTTTTGTAAGAAAT
1 TAGTAATTTTGTAAGAAAT
* *
23865899 TTGATAATAGTT-TAAGAAATT
1 TAG-TAAT-TTTGTAAGAAA-T
*
23865920 TGGTAATTTTGTAAGAAAT
1 TAGTAATTTTGTAAGAAAT
23865939 TAAGTAAT
1 T-AGTAAT
23865947 GTTTAAGAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
19 6 0.16
20 26 0.70
21 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.43
Consensus pattern (19 bp):
TAGTAATTTTGTAAGAAAT
Found at i:23866340 original size:46 final size:46
Alignment explanation
Indices: 23866290--23866377 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
23866280 AAGCGAATTG
* * * * *
23866290 ATGATAACTATAATATTTTTCAAGTGCATAACTAGTATTACACCAC
1 ATGATAACTACAACATCTTCCAAGTGCATAACTAATATTACACCAC
23866336 ATGATAACTACAACATCTTCCAAGTGCATAACTAATATTACA
1 ATGATAACTACAACATCTTCCAAGTGCATAACTAATATTACA
23866378 AATAAGTAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (46 bp):
ATGATAACTACAACATCTTCCAAGTGCATAACTAATATTACACCAC
Found at i:23870544 original size:21 final size:20
Alignment explanation
Indices: 23870478--23870551 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 20
23870468 AAACTCTATT
* * *
23870478 AGAAATTAAGTATTTTTCTA
1 AGAAATTAAATAATTTTGTA
* *
23870498 TGAAATTCAA-AA-TTTGTA
1 AGAAATTAAATAATTTTGTA
*
23870516 AGAAATTAAGTAATTTTGTTA
1 AGAAATTAAATAATTTTG-TA
*
23870537 AGAGATTAAATAATT
1 AGAAATTAAATAATT
23870552 ACATAAGAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
18 12 0.29
19 3 0.07
20 11 0.27
21 15 0.37
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.41
Consensus pattern (20 bp):
AGAAATTAAATAATTTTGTA
Found at i:23870721 original size:23 final size:24
Alignment explanation
Indices: 23870695--23870742 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
23870685 GCATTCAATT
* * *
23870695 TTGTTTAATTACTCACTTT-CTAA
1 TTGTATAATAACTAACTTTCCTAA
23870718 TTGTATAATAACTAACTTTCCTAA
1 TTGTATAATAACTAACTTTCCTAA
23870742 T
1 T
23870743 ATCTTAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.31, C:0.17, G:0.04, T:0.48
Consensus pattern (24 bp):
TTGTATAATAACTAACTTTCCTAA
Found at i:23876703 original size:24 final size:24
Alignment explanation
Indices: 23876676--23876724 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
23876666 ACCAAGTATT
* *
23876676 TTAACCTATTTATTTTTAATAAAA
1 TTAACCTATTTACTTTAAATAAAA
**
23876700 TTAATTTATTTACTTTAAATAAAA
1 TTAACCTATTTACTTTAAATAAAA
23876724 T
1 T
23876725 AAAATCATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (24 bp):
TTAACCTATTTACTTTAAATAAAA
Done.