Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 85 of 126
Found at i:26254155 original size:30 final size:29
Alignment explanation
Indices: 26254120--26254385 Score: 273
Period size: 30 Copynumber: 8.9 Consensus size: 29
26254110 TGAAAATCAT
* * *
26254120 ATTTTAACACCCGAACTTTTCTAACATTGC
1 ATTTTAAC-CCCAAACTTTTCTAAAATTAC
* *
26254150 ATTTTAACCTCTAAACTTCTCTAAAATTAC
1 ATTTTAACC-CCAAACTTTTCTAAAATTAC
* * * *
26254180 ATTTTGACACCTAAAATTTTCCAAAATTAC
1 ATTTTAAC-CCCAAACTTTTCTAAAATTAC
*
26254210 ATTTTAACCCTTAAACTTTTCTAAAATTAC
1 ATTTTAACCC-CAAACTTTTCTAAAATTAC
*
26254240 ATTTTAACCCCTAAACTTTTCTAAAATTGC
1 ATTTTAACCCC-AAACTTTTCTAAAATTAC
* *
26254270 ATTTTGACCCCTAAACTTCTCTAAAATTAC
1 ATTTTAACCCC-AAACTTTTCTAAAATTAC
* *
26254300 ATTTTAACCCCAAACTTCTAC-AAAATCAC
1 ATTTTAACCCCAAACTT-TTCTAAAATTAC
* *
26254329 ATTTTAACCCAAAACTTTTCCAAAATTAC
1 ATTTTAACCCCAAACTTTTCTAAAATTAC
* * *
26254358 ATTTTTACCTCAAAACTTTTCCAAAATT
1 ATTTTAACC-CCAAACTTTTCTAAAATT
26254386 TTGTTTTGAC
Statistics
Matches: 204, Mismatches: 25, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
28 2 0.01
29 47 0.23
30 154 0.75
31 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (29 bp):
ATTTTAACCCCAAACTTTTCTAAAATTAC
Found at i:26254265 original size:90 final size:89
Alignment explanation
Indices: 26254120--26254385 Score: 315
Period size: 90 Copynumber: 3.0 Consensus size: 89
26254110 TGAAAATCAT
* * * * *
26254120 ATTTTAACACCCGAACTTTTCTAACATTGCATTTTAACCTCTAAACTTCTCTAAAATTACATTTT
1 ATTTTAAC-CCCAAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTT
26254185 GACACCTAAAATTTTCCAAAATTAC
65 GACACCTAAAATTTTCCAAAATTAC
* *
26254210 ATTTTAACCCTTAAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTTCTAAAATTGCATTTT
1 ATTTTAACCC-CAAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTT
* * * *
26254275 GACCCCTAAACTTCTCTAAAATTAC
65 GACACCTAAAATTTTCCAAAATTAC
* * * *
26254300 ATTTTAACCCCAAACTTCTAC-AAAATCACATTTTAA-CCCAAAACTTTTCCAAAATTACATTTT
1 ATTTTAACCCCAAACTT-TTCTAAAATTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTT
*
26254363 --TACCTCAAAACTTTTCCAAAATT
65 GACACCT-AAAA-TTTTCCAAAATT
26254386 TTGTTTTGAC
Statistics
Matches: 150, Mismatches: 22, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
86 3 0.02
87 3 0.02
88 34 0.23
89 22 0.15
90 88 0.59
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (89 bp):
ATTTTAACCCCAAACTTTTCTAAAATTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTTG
ACACCTAAAATTTTCCAAAATTAC
Found at i:26255775 original size:31 final size:28
Alignment explanation
Indices: 26255721--26255781 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 28
26255711 GTTTATTCAA
*
26255721 AAATTAAAAAAATTTGGATAAAAAAATT
1 AAATTAAAAAAATTTAGATAAAAAAATT
*
26255749 AAATTAAAAAATAAGTTTAGATAAAAAGATT
1 AAATT-AAAAA-AA-TTTAGATAAAAAAATT
26255780 AA
1 AA
26255782 GTTTATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 5 0.18
29 5 0.18
30 2 0.07
31 16 0.57
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (28 bp):
AAATTAAAAAAATTTAGATAAAAAAATT
Found at i:26257791 original size:24 final size:25
Alignment explanation
Indices: 26257759--26257809 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
26257749 AATCTAAACT
*
26257759 AACACAAGTTTGACTAAAACAAATA
1 AACACAAGTTTAACTAAAACAAATA
* *
26257784 AACA-AAGTTTAATTGAAACAAATA
1 AACACAAGTTTAACTAAAACAAATA
26257808 AA
1 AA
26257810 TAGAGTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.59, C:0.12, G:0.08, T:0.22
Consensus pattern (25 bp):
AACACAAGTTTAACTAAAACAAATA
Found at i:26259763 original size:24 final size:24
Alignment explanation
Indices: 26259736--26259781 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
26259726 AGAGTTAGAC
*
26259736 TGAAATAAATAAAGAGAGTTTAAT
1 TGAAACAAATAAAGAGAGTTTAAT
* *
26259760 TGAAACAAGTAAATAGAGTTTA
1 TGAAACAAATAAAGAGAGTTTA
26259782 TCTAGAAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.28
Consensus pattern (24 bp):
TGAAACAAATAAAGAGAGTTTAAT
Found at i:26266032 original size:40 final size:40
Alignment explanation
Indices: 26265999--26266083 Score: 143
Period size: 40 Copynumber: 2.1 Consensus size: 40
26265989 ATAAGCCTTC
*
26265999 CTTTTAATCACTCTTATGCTTTACCGAGTCATAAGTCATT
1 CTTTTAATCACTCTTATGCTCTACCGAGTCATAAGTCATT
**
26266039 CTTTTAATCACTCTTATGCTCTACCGAGTCATAAGTTTTT
1 CTTTTAATCACTCTTATGCTCTACCGAGTCATAAGTCATT
26266079 CTTTT
1 CTTTT
26266084 TAAAAAAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.46
Consensus pattern (40 bp):
CTTTTAATCACTCTTATGCTCTACCGAGTCATAAGTCATT
Found at i:26266228 original size:41 final size:40
Alignment explanation
Indices: 26266111--26266216 Score: 158
Period size: 40 Copynumber: 2.6 Consensus size: 40
26266101 CGCTCATTTT
* * * *
26266111 GAGACATGAGTTTTGCTTTAATATAATCTCATTCGCATCTC
1 GAGACATGAGTCTTCCTTTAA-ATAATCTCATTCTCATCCC
26266152 GAGACATGAGTCTTCCTTTAAATAATCTCATTCTCATCCC
1 GAGACATGAGTCTTCCTTTAAATAATCTCATTCTCATCCC
26266192 GAGACATGAGTCTTCCATTTAAATA
1 GAGACATGAGTCTTCC-TTTAAATA
26266217 TTGAGTTTCT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 33 0.55
41 27 0.45
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (40 bp):
GAGACATGAGTCTTCCTTTAAATAATCTCATTCTCATCCC
Found at i:26272779 original size:40 final size:40
Alignment explanation
Indices: 26272734--26272870 Score: 204
Period size: 40 Copynumber: 3.4 Consensus size: 40
26272724 CTTCTTAGGT
*
26272734 TCATAAGTCTTCCTTTTAATCACTCTTATGTTCTATCGAG
1 TCATAAGTCTTCCTTTTAATCACTCTTATGTTCTACCGAG
* * * *
26272774 TCATAAGTCTTCCTTCTAATCACTCTCATGCTCTACCAAG
1 TCATAAGTCTTCCTTTTAATCACTCTTATGTTCTACCGAG
*
26272814 TCATAAGTCTTCCTTTTAATCACTATTAT-TCTCTACCGAG
1 TCATAAGTCTTCCTTTTAATCACTCTTATGT-TCTACCGAG
26272854 TCATAAGTCTTCCTTTT
1 TCATAAGTCTTCCTTTT
26272871 TTAAAAAAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.23, C:0.26, G:0.08, T:0.42
Consensus pattern (40 bp):
TCATAAGTCTTCCTTTTAATCACTCTTATGTTCTACCGAG
Found at i:26273018 original size:47 final size:41
Alignment explanation
Indices: 26272900--26273003 Score: 172
Period size: 41 Copynumber: 2.5 Consensus size: 41
26272890 CGCTCATTTT
* *
26272900 GAGATATGAATCTTCCTTTAATATAATCTCATTCTCATCCC
1 GAGACATGAGTCTTCCTTTAATATAATCTCATTCTCATCCC
*
26272941 GAGACATGAGTCTTCCTTTAATATAATCTCATTCTCATCTC
1 GAGACATGAGTCTTCCTTTAATATAATCTCATTCTCATCCC
26272982 GAGACATGAGTCTTCCATTTAA
1 GAGACATGAGTCTTCC-TTTAA
26273004 ATATCAAGTT
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
41 54 0.92
42 5 0.08
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (41 bp):
GAGACATGAGTCTTCCTTTAATATAATCTCATTCTCATCCC
Found at i:26277922 original size:19 final size:19
Alignment explanation
Indices: 26277898--26277940 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
26277888 AAATATAAAT
26277898 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
26277917 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
26277936 TAAAT
1 TAAAT
26277941 CCTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:26283085 original size:19 final size:19
Alignment explanation
Indices: 26283061--26283103 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
26283051 AAACATAAAT
26283061 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
26283080 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
26283099 TAAAT
1 TAAAT
26283104 CCTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:26299583 original size:15 final size:15
Alignment explanation
Indices: 26299565--26299609 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
26299555 AAGAAGAGAA
26299565 AAGAGAAGAACAAGG
1 AAGAGAAGAACAAGG
*
26299580 AAGAGAAAAAC-AGG
1 AAGAGAAGAACAAGG
26299594 AA-A-AAGAA-AAGG
1 AAGAGAAGAACAAGG
26299606 AAGA
1 AAGA
26299610 AGATTTTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 9 0.35
13 2 0.08
14 5 0.19
15 10 0.38
ACGTcount: A:0.67, C:0.04, G:0.29, T:0.00
Consensus pattern (15 bp):
AAGAGAAGAACAAGG
Found at i:26299612 original size:12 final size:12
Alignment explanation
Indices: 26299552--26299612 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
26299542 GGTGTTGAAG
26299552 AGGAAGAAGAGAA
1 AGGAAGAAGA-AA
*
26299565 AAG-AGAAGAACA
1 AGGAAGAAGAA-A
*
26299577 AGGAAGAGAAAAA
1 AGGAAGA-AGAAA
*
26299590 CAGGAAAAAGAAA
1 -AGGAAGAAGAAA
26299603 AGGAAGAAGA
1 AGGAAGAAGA
26299613 TTTTGTGCTG
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
11 1 0.03
12 18 0.47
13 10 0.26
14 9 0.24
ACGTcount: A:0.66, C:0.03, G:0.31, T:0.00
Consensus pattern (12 bp):
AGGAAGAAGAAA
Found at i:26308755 original size:15 final size:15
Alignment explanation
Indices: 26308731--26308764 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
26308721 CATTTTTACA
*
26308731 TTTT-CTTTTATTTG
1 TTTTACTTTTACTTG
26308745 TTTTACTTTTACTTG
1 TTTTACTTTTACTTG
26308760 TTTTA
1 TTTTA
26308765 TTGTATATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTTACTTTTACTTG
Found at i:26311169 original size:24 final size:24
Alignment explanation
Indices: 26311140--26311186 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
26311130 CACTAAGTTT
26311140 GGGGGGATATTATGAAATGGAAAG
1 GGGGGGATATTATGAAATGGAAAG
26311164 GGGGGGATATTATGAAATGGAAA
1 GGGGGGATATTATGAAATGGAAA
26311187 TGCAATTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.21
Consensus pattern (24 bp):
GGGGGGATATTATGAAATGGAAAG
Found at i:26316879 original size:10 final size:10
Alignment explanation
Indices: 26316859--26316896 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
26316849 ATCTTATTTT
26316859 ATGAGTTTTGG
1 ATGA-TTTTGG
26316870 ATGATTTTGG
1 ATGATTTTGG
*
26316880 ATGATTTTGA
1 ATGATTTTGG
26316890 ATGATTT
1 ATGATTT
26316897 AATTAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 22 0.85
11 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (10 bp):
ATGATTTTGG
Found at i:26317126 original size:18 final size:18
Alignment explanation
Indices: 26317103--26317145 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
26317093 TGAAATGAGG
26317103 ATGAAAATAAGAAGAGAA
1 ATGAAAATAAGAAGAGAA
* * *
26317121 ATGAAACTAATATGAGAA
1 ATGAAAATAAGAAGAGAA
26317139 A-GAAAAT
1 ATGAAAAT
26317146 GAGATTGATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.63, C:0.02, G:0.19, T:0.16
Consensus pattern (18 bp):
ATGAAAATAAGAAGAGAA
Found at i:26343673 original size:23 final size:24
Alignment explanation
Indices: 26343645--26343696 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
26343635 TCAATTCATC
* * *
26343645 TTTTATTA-ATTTGCTCTGACATT
1 TTTTATTACATATGCACTGACAAT
26343668 TTTTATTACATATGCACTGACAAT
1 TTTTATTACATATGCACTGACAAT
26343692 TTTTA
1 TTTTA
26343697 CTCTTAACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.52
Consensus pattern (24 bp):
TTTTATTACATATGCACTGACAAT
Found at i:26365540 original size:28 final size:28
Alignment explanation
Indices: 26365507--26365568 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
26365497 AGCCTTTCTG
26365507 GCTATTCTGATATGTGGAAGGCTTTGTA
1 GCTATTCTGATATGTGGAAGGCTTTGTA
* *
26365535 GCTATTCTGATATGTGGAAGTCTTTGTG
1 GCTATTCTGATATGTGGAAGGCTTTGTA
26365563 GCTATT
1 GCTATT
26365569 TTCGTTACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.19, C:0.11, G:0.27, T:0.42
Consensus pattern (28 bp):
GCTATTCTGATATGTGGAAGGCTTTGTA
Found at i:26377222 original size:28 final size:25
Alignment explanation
Indices: 26377167--26377222 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 25
26377157 CTATAAAAAT
*
26377167 ATTAATATTATTTAAATTATAATAA
1 ATTAATATTATTTAAATCATAATAA
*
26377192 ATTAATATTAATGTTCAAATCATAATGA
1 ATTAATATT-AT-TT-AAATCATAATAA
26377220 ATT
1 ATT
26377223 TTTTATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 9 0.35
26 2 0.08
27 2 0.08
28 13 0.50
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (25 bp):
ATTAATATTATTTAAATCATAATAA
Found at i:26384393 original size:20 final size:20
Alignment explanation
Indices: 26384355--26384416 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
26384345 ATTTTGAAAT
**
26384355 TTTGGTTCAAAATTAGGTAA
1 TTTGGTTCAAAATCGGGTAA
26384375 TTTGGTTCAAAATCGGGTAA
1 TTTGGTTCAAAATCGGGTAA
*** *
26384395 TTCAATTCGAAATCGGGTAA
1 TTTGGTTCAAAATCGGGTAA
26384415 TT
1 TT
26384417 AACCAATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (20 bp):
TTTGGTTCAAAATCGGGTAA
Found at i:26385304 original size:17 final size:17
Alignment explanation
Indices: 26385251--26385310 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
26385241 TATAAATGTG
* *
26385251 TATACATTTTAATCCAT
1 TATATATTTTAATCTAT
* *
26385268 TATATATTGT-ATATA-
1 TATATATTTTAATCTAT
*
26385283 AATATATTTTAATCTAT
1 TATATATTTTAATCTAT
26385300 TATATAATTTT
1 TATAT-ATTTT
26385311 TATTCTTGCA
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
15 8 0.25
16 7 0.22
17 12 0.38
18 5 0.16
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (17 bp):
TATATATTTTAATCTAT
Found at i:26392423 original size:27 final size:29
Alignment explanation
Indices: 26392393--26392466 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
26392383 CCAATTTTTT
*
26392393 TTCAA-TTTTAAAGGG-GCCAAAAAAATG
1 TTCAACTTTTAAAGGGTGCAAAAAAAATG
* *
26392420 TTCAACTTTTAAGGGGTGCAAAAAAAATT
1 TTCAACTTTTAAAGGGTGCAAAAAAAATG
*
26392449 TTACCAATTTTTAAAGGG
1 TT--CAACTTTTAAAGGG
26392467 CTTAAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
27 5 0.13
28 9 0.24
29 12 0.32
31 12 0.32
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.31
Consensus pattern (29 bp):
TTCAACTTTTAAAGGGTGCAAAAAAAATG
Found at i:26394573 original size:3 final size:3
Alignment explanation
Indices: 26394560--26394596 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
26394550 GTGTCGATGA
*
26394560 TTC TT- TTC TTC TTC TTC TTC CTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
26394597 ATCTCTGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:26397550 original size:32 final size:33
Alignment explanation
Indices: 26397514--26397590 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 33
26397504 ATTTGAGTTA
* *
26397514 TATTAATTA-CATTTATT-TTTCAGATTTTATTC
1 TATTAATTATAATTTATTGTTTAAG-TTTTATTC
*
26397546 TATT-ATTATAATTTATTGTTTAAGTTTTATTT
1 TATTAATTATAATTTATTGTTTAAGTTTTATTC
26397578 TATT-ATTATAATT
1 TATTAATTATAATT
26397591 CACGAGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
31 4 0.10
32 31 0.77
33 5 0.12
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (33 bp):
TATTAATTATAATTTATTGTTTAAGTTTTATTC
Found at i:26399768 original size:125 final size:123
Alignment explanation
Indices: 26399541--26399779 Score: 334
Period size: 125 Copynumber: 1.9 Consensus size: 123
26399531 TAAAAAAAAA
* * * *
26399541 TTGCGTCTATAATATATTTATATATACTTAATTTTTGCTTAGCTAATAATATAAATTATATTGAG
1 TTGCGTCTATAATATATTTATATACACTTAATTTTTGCTTAGCGAATAATATAAATTATATTAAA
* * * * * *
26399606 CTTTTATCTGGTGAAGTAAACCGAAGTGGTTGGCCTCATCTAGTGGCGGTAAAATAGG
66 ATTTTATCTCGTGAAGTAAACCCAAGTGATTCGCCTCATCAAGTGGCGGTAAAATAGG
* *
26399664 TTGCGTGTATAATATATTTATATGTACACTTAATTTTTGCTTAGCGAATAGTATAAATTATATTA
1 TTGCGTCTATAATATATTTATA--TACACTTAATTTTTGCTTAGCGAATAATATAAATTATATTA
* *
26399729 AAATTTTATCTCGTGAAGTAAACCCAAGTGATTCTCCTCATCAATTGGCGG
64 AAATTTTATCTCGTGAAGTAAACCCAAGTGATTCGCCTCATCAAGTGGCGG
26399780 AGCATAATAG
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 21 0.21
125 79 0.79
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (123 bp):
TTGCGTCTATAATATATTTATATACACTTAATTTTTGCTTAGCGAATAATATAAATTATATTAAA
ATTTTATCTCGTGAAGTAAACCCAAGTGATTCGCCTCATCAAGTGGCGGTAAAATAGG
Found at i:26400420 original size:16 final size:17
Alignment explanation
Indices: 26400392--26400435 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
26400382 CTAAAATGAT
26400392 AAATTTT-TAATTTA-A
1 AAATTTTATAATTTATA
*
26400407 ATATTTTATAATTTATA
1 AAATTTTATAATTTATA
26400424 AAATTTTA-AATT
1 AAATTTTATAATT
26400436 ACTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 11 0.44
17 8 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AAATTTTATAATTTATA
Found at i:26401171 original size:19 final size:19
Alignment explanation
Indices: 26401147--26401187 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
26401137 GGTTAAGGGT
26401147 GTTCACCACTTCAGGTATG
1 GTTCACCACTTCAGGTATG
26401166 GTTCACCACTTCAGGTATG
1 GTTCACCACTTCAGGTATG
26401185 GTT
1 GTT
26401188 TGAGTTCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (19 bp):
GTTCACCACTTCAGGTATG
Found at i:26401635 original size:59 final size:58
Alignment explanation
Indices: 26401484--26401644 Score: 153
Period size: 59 Copynumber: 2.7 Consensus size: 58
26401474 TTAATATAAT
* * * * *
26401484 ATTTGGTACCTAAAATTTTTTTTACTGAATTTGATACCTGAACTTGACACTTTTTCTTA
1 ATTTGGTACCT-AAATTTTTTTGACTCAATTTGGTACCTAAACTTGACACTTTTTCCTA
* * * * *
26401543 ATTTGATACCTAAATTTTTTTGGGACCCCATTTGGTATCTAAACTTGGCA-TTTTTCCTA
1 ATTTGGTACCTAAATTTTTTT--GACTCAATTTGGTACCTAAACTTGACACTTTTTCCTA
* * *
26401602 ATTTGGTGCCTAAACTTTTTTTAGATTCAATTTGGTACTTAAA
1 ATTTGGTACCTAAA-TTTTTTT-GACTCAATTTGGTACCTAAA
26401645 TTTATTAAAT
Statistics
Matches: 81, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
58 10 0.12
59 45 0.56
60 26 0.32
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (58 bp):
ATTTGGTACCTAAATTTTTTTGACTCAATTTGGTACCTAAACTTGACACTTTTTCCTA
Found at i:26401890 original size:29 final size:30
Alignment explanation
Indices: 26401844--26401936 Score: 111
Period size: 30 Copynumber: 3.1 Consensus size: 30
26401834 ACCCTAAAAG
*
26401844 GTTTAAGTACCAACTTAAAAAAA-TGAT-AA
1 GTTTAAGTACCAAATTAAAAAAAGTG-TCAA
*
26401873 GTTTAAGTACTAAATTAAGAAAAAGTGTCAA
1 GTTTAAGTACCAAATTAA-AAAAAGTGTCAA
*
26401904 GTTTGAA-TACCAAATTAAAAAAAATGTCAA
1 GTTT-AAGTACCAAATTAAAAAAAGTGTCAA
26401934 GTT
1 GTT
26401937 CAAATAGCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
29 16 0.29
30 20 0.36
31 18 0.32
32 2 0.04
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (30 bp):
GTTTAAGTACCAAATTAAAAAAAGTGTCAA
Found at i:26401932 original size:30 final size:30
Alignment explanation
Indices: 26401844--26401936 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 30
26401834 ACCCTAAAAG
*
26401844 GTTTAAGTACCAACTT-AAAAAAATGAT-AA
1 GTTTAAGTACCAAATTAAAAAAAATG-TCAA
* *
26401873 GTTTAAGTACTAAATTAAGAAAAAGTGTCAA
1 GTTTAAGTACCAAATTAA-AAAAAATGTCAA
26401904 GTTTGAA-TACCAAATTAAAAAAAATGTCAA
1 GTTT-AAGTACCAAATTAAAAAAAATGTCAA
26401934 GTT
1 GTT
26401937 CAAATAGCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
29 14 0.25
30 16 0.29
31 23 0.42
32 2 0.04
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (30 bp):
GTTTAAGTACCAAATTAAAAAAAATGTCAA
Found at i:26401948 original size:30 final size:31
Alignment explanation
Indices: 26401861--26401948 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 31
26401851 TACCAACTTA
* * *
26401861 AAAAAATGAT-AAGTTTAAGTACTAAATTAAG
1 AAAAAATG-TCAAGTTCAAATACCAAATTAAG
* **
26401892 AAAAAGTGTCAAGTTTGAATACCAAATTAA-
1 AAAAAATGTCAAGTTCAAATACCAAATTAAG
*
26401922 AAAAAATGTCAAGTTCAAATAGCAAAT
1 AAAAAATGTCAAGTTCAAATACCAAAT
26401949 GTTATATTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
30 24 0.50
31 24 0.50
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.26
Consensus pattern (31 bp):
AAAAAATGTCAAGTTCAAATACCAAATTAAG
Found at i:26402783 original size:57 final size:57
Alignment explanation
Indices: 26402690--26402876 Score: 200
Period size: 57 Copynumber: 3.2 Consensus size: 57
26402680 CAGTATCTGG
* * *
26402690 TAAAAAATCAATTTTTTTTGTGTTGGCCATTGCATGGCCGACACCCCCTTTTTGTCAGA
1 TAAAAAAT-AATTTTTTTGGTG-TGGCCATTGCATGGTCGACACCCCTTTTTTGTCAGA
** * *
26402749 TAAAAAAT-ATTTTTTTGGTGTCGGCCA-TGTCATGGTCGACACTCTATTTTTTATCTGA
1 TAAAAAATAATTTTTTTGGTGT-GGCCATTG-CATGGTCGACAC-CCCTTTTTTGTCAGA
* * *
26402807 -AAAAAATCAATTTTTTTGGTGTTGACATTGCATGGTCGACACCCCTTTTTTGTTAGA
1 TAAAAAAT-AATTTTTTTGGTGTGGCCATTGCATGGTCGACACCCCTTTTTTGTCAGA
*
26402864 TAAAAAAAAATTT
1 TAAAAAATAATTT
26402877 GGTGTTGGCC
Statistics
Matches: 106, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
56 3 0.03
57 49 0.46
58 31 0.29
59 23 0.22
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (57 bp):
TAAAAAATAATTTTTTTGGTGTGGCCATTGCATGGTCGACACCCCTTTTTTGTCAGA
Found at i:26402965 original size:99 final size:98
Alignment explanation
Indices: 26402798--26403079 Score: 311
Period size: 99 Copynumber: 2.8 Consensus size: 98
26402788 CACTCTATTT
* *
26402798 TTTATCTGA-AAAAAATCAATTTTTTTGGTGTTGACATTGCATGGTCGACACCCCTTTTTTGTTA
1 TTTATCTGATAAAAAATCAATTTTTTT-GTGTTGCCATTGCATGGTCGACACCCC-TTTTTGTCA
* *
26402862 GATAAAAAAAAATTTGGTGTTGGCCATAC-CCCTA
64 GATAAAAAAAAATTTGGTGTCGGCCATACTACCTA
26402896 TTTATCTGATAAAAAATCAATTTTTTTGTGTTGGCCATTGCATGGTCGACACCTCCTTTTTGTCA
1 TTTATCTGATAAAAAATCAATTTTTTTGTGTT-GCCATTGCATGGTCGACACC-CCTTTTTGTCA
**** * * *
26402961 GAT-AAAATTTTTTTTGTGTCGGCCATGCTACCTT
64 GATAAAAAAAAATTTGGTGTCGGCCATACTACCTA
* *
26402995 TTTATCTGATAAAAAAATTCAAATTTTTTGTGTTAGCCA-TGCATTGGTCGACACCACTATTGGT
1 TTTATCTGAT-AAAAAA-TCAATTTTTTTGTGTT-GCCATTGCA-TGGTCGACACCCCT-TT--T
26403059 TGTCAGATAAAAAAATAATTT
59 TGTCAGATAAAAAAA-AATTT
26403080 TTTTTGTGTT
Statistics
Matches: 154, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
98 32 0.21
99 60 0.39
100 14 0.09
101 32 0.21
103 9 0.06
104 4 0.03
105 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (98 bp):
TTTATCTGATAAAAAATCAATTTTTTTGTGTTGCCATTGCATGGTCGACACCCCTTTTTGTCAGA
TAAAAAAAAATTTGGTGTCGGCCATACTACCTA
Found at i:26407634 original size:61 final size:59
Alignment explanation
Indices: 26407558--26407934 Score: 342
Period size: 60 Copynumber: 6.5 Consensus size: 59
26407548 AGAAATGAGG
* *
26407558 AAAAGTTGGTGTCGGCCAATGC-ATGGTCAACACAAAAAAAATTAAATTTTTTTATCAGATA
1 AAAAGGTGGTGTCGGCC-ATGCAATGGCCAACAC-AAAAAAATT-AATTTTTTTATCAGATA
* * * *
26407619 AAAAGGTGGTGTCGGCCATGCAATGACCAACACCAAAAAATTTGATTTTTTTATCAAATA
1 AAAAGGTGGTGTCGGCCATGCAATGGCCAACA-CAAAAAAATTAATTTTTTTATCAGATA
*
26407679 AAAATGTGGTGTCGGCCA-GCAATGGCCAACACAAAAAAATTAATTTTTTTATCAGAT-
1 AAAAGGTGGTGTCGGCCATGCAATGGCCAACACAAAAAAATTAATTTTTTTATCAGATA
* * * *
26407736 --AA-GTAG-G--GG-C-T---ATGGCCAACACTAAAAAAAAT-A-TTTTTTATCTGACA
1 AAAAGGTGGTGTCGGCCATGCAATGGCCAACAC-AAAAAAATTAATTTTTTTATCAGATA
* * * *
26407783 AAAAGGGGGTGTCGGCCATGCAATGGCCAACGCCAAAAAAATTGATTTTTTTATTAGATA
1 AAAAGGTGGTGTCGGCCATGCAATGGCCAAC-ACAAAAAAATTAATTTTTTTATCAGATA
* * * * *
26407843 AAAAGGTGATTTCGGCCATGCAATGGCAAATACAAAAAAAAATTAA-TTTTTTATTAGATA
1 AAAAGGTGGTGTCGGCCATGCAATGGC-CA-ACACAAAAAAATTAATTTTTTTATCAGATA
*
26407903 AATAAGG-GGTGTCGGCTATAGC-ATGGCCAACA
1 AA-AAGGTGGTGTCGGCCAT-GCAATGGCCAACA
26407935 TTAAAATTTT
Statistics
Matches: 260, Mismatches: 33, Indels: 49
0.76 0.10 0.14
Matches are distributed among these distances:
46 11 0.04
47 12 0.05
48 8 0.03
49 2 0.01
50 3 0.01
51 3 0.01
53 3 0.01
54 4 0.02
55 3 0.01
58 43 0.17
59 15 0.06
60 101 0.39
61 49 0.19
62 3 0.01
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (59 bp):
AAAAGGTGGTGTCGGCCATGCAATGGCCAACACAAAAAAATTAATTTTTTTATCAGATA
Found at i:26408968 original size:26 final size:25
Alignment explanation
Indices: 26408931--26408982 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
26408921 GAACTTGACA
*
26408931 TTTTTCCTAATTTGGTACTTAAATT
1 TTTTTCCCAATTTGGTACTTAAATT
*
26408956 TTTTTACCCAATTTGGTACTTGAATT
1 TTTTT-CCCAATTTGGTACTTAAATT
26408982 T
1 T
26408983 GACATATTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.54
Consensus pattern (25 bp):
TTTTTCCCAATTTGGTACTTAAATT
Found at i:26408985 original size:56 final size:56
Alignment explanation
Indices: 26408910--26409090 Score: 179
Period size: 57 Copynumber: 3.1 Consensus size: 56
26408900 TTAATATAAT
*
26408910 ATTTGGTATCTGAACTTGACATTTTTCCTAATTTGGTACTTAAATTTTTTT-ACCCA
1 ATTTGGTATCTGAACTTGACATTTTT-CTAATTTGGTACCTAAATTTTTTTAACCCA
* *
26408966 ATTTGGTA-CTTGAATTTGACATATTCTT-TAAATTTGGTACCTAAACTTTTTTTAACCTA
1 ATTTGGTATC-TGAACTTGACAT-TT-TTCT-AATTTGGTACCTAAA-TTTTTTTAACCCA
** * * * **
26409025 ATTTAATATCTGAACTTGACTTTTTTCTAATTTTGTACCTAAGCTTTTTTTAGATTCA
1 ATTTGGTATCTGAACTTGACATTTTTCTAATTTGGTACCTAA-ATTTTTTTA-ACCCA
26409083 ATTTGGTA
1 ATTTGGTA
26409091 CTTCAATTTA
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
55 1 0.01
56 20 0.20
57 39 0.39
58 20 0.20
59 20 0.20
60 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.10, T:0.49
Consensus pattern (56 bp):
ATTTGGTATCTGAACTTGACATTTTTCTAATTTGGTACCTAAATTTTTTTAACCCA
Found at i:26409382 original size:31 final size:29
Alignment explanation
Indices: 26409302--26409410 Score: 107
Period size: 31 Copynumber: 3.8 Consensus size: 29
26409292 CATCAAAAAG
*
26409302 TTTAAGTATCAACTTAAAAAAATGTCAAA
1 TTTAAGTATCAAATTAAAAAAATGTCAAA
* * **
26409331 TTTAGGTACCAGGTTAAAAAAAAGTGTCAAA
1 TTTAAGTATCAAATT-AAAAAAA-TGTCAAA
*
26409362 TTTAAGTATCAAATTGAAAAAAA---AAAA
1 TTTAAGTATCAAATT-AAAAAAATGTCAAA
*
26409389 TTTAAGTACCAAATTAAAAAAA
1 TTTAAGTATCAAATTAAAAAAA
26409411 AAATCAAGTT
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.10
27 17 0.25
29 11 0.16
30 7 0.10
31 25 0.37
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (29 bp):
TTTAAGTATCAAATTAAAAAAATGTCAAA
Found at i:26409391 original size:27 final size:26
Alignment explanation
Indices: 26409359--26409413 Score: 92
Period size: 27 Copynumber: 2.1 Consensus size: 26
26409349 AAAAAGTGTC
*
26409359 AAATTTAAGTATCAAATTGAAAAAAAA
1 AAATTTAAGTACCAAATT-AAAAAAAA
26409386 AAATTTAAGTACCAAATTAAAAAAAA
1 AAATTTAAGTACCAAATTAAAAAAAA
26409412 AA
1 AA
26409414 TCAAGTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (26 bp):
AAATTTAAGTACCAAATTAAAAAAAA
Found at i:26409422 original size:29 final size:27
Alignment explanation
Indices: 26409363--26409423 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
26409353 AGTGTCAAAT
* * *
26409363 TTAAGTATCAAATTGAAAAAAAAAAAT
1 TTAAGTACCAAATTAAAAAAAAAAAAG
26409390 TTAAGTACCAAATTAAAAAAAAAATCAAG
1 TTAAGTACCAAATTAAAAAAAAAA--AAG
26409419 TTAAG
1 TTAAG
26409424 ATATTAAGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 22 0.76
29 7 0.24
ACGTcount: A:0.61, C:0.07, G:0.08, T:0.25
Consensus pattern (27 bp):
TTAAGTACCAAATTAAAAAAAAAAAAG
Found at i:26420792 original size:104 final size:106
Alignment explanation
Indices: 26420551--26420792 Score: 267
Period size: 109 Copynumber: 2.3 Consensus size: 106
26420541 TTTAAATGAA
* * * *
26420551 ATATTCGATTACTTAGGTTCAAGTCAAAATCATACCCAACACGTTAGGGCACAAATTTTCGAGTC
1 ATATTCAATTACTTAGGTTCAAG-AAAAATCATACCCAACACGTTAGGGCACAAATTCTCGACTC
* * *
26420616 CCCTAAAATAACAGAATATTGAGCATTAATTGGTTTCAAATAGG
65 CCCTAAAATAAAAGAACATT-AGCATCAATT-GTTTCAAATAGG
* * * *
26420660 ATATTCAATTATTTAGGTTCAAAGAAAAATTATACCTAACACGTTAGGGTAC-AATTCCTCGACT
1 ATATTCAATTACTTAGGTTC-AAGAAAAATCATACCCAACACGTTAGGGCACAAATT-CTCGACT
* * * *
26420724 TCCCTAAAATAAAAGAACATT-GCCTCGATT-TTT-GAATAGG
64 CCCCTAAAATAAAAGAACATTAGCATCAATTGTTTCAAATAGG
26420764 ATATTCAATTACTTAGGTTCGAAGAAAAA
1 ATATTCAATTACTTAGGTTC-AAGAAAAA
26420793 ATTGTACCCA
Statistics
Matches: 114, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
104 33 0.29
105 3 0.03
107 6 0.05
108 4 0.04
109 65 0.57
110 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (106 bp):
ATATTCAATTACTTAGGTTCAAGAAAAATCATACCCAACACGTTAGGGCACAAATTCTCGACTCC
CCTAAAATAAAAGAACATTAGCATCAATTGTTTCAAATAGG
Found at i:26421378 original size:30 final size:29
Alignment explanation
Indices: 26421209--26421377 Score: 162
Period size: 30 Copynumber: 5.7 Consensus size: 29
26421199 AAGGAAAAAT
*
26421209 GGGGTCAAAAATGAAATTTTGGAAAGTTTA
1 GGGGTCAAAAAT-AATTTTTGGAAAGTTTA
*
26421239 GGGGTCAAAATATAA-TTTTGGAAAGCTT-
1 GGGGTCAAAA-ATAATTTTTGGAAAGTTTA
*
26421267 GGGAGTCAAAACATAATTTTTGAAAAGTTTA
1 GGG-GTCAAAA-ATAATTTTTGGAAAGTTTA
** ** *
26421298 GGAATCAAATTTGAATTATTGGAAAGTTTA
1 GGGGTCAAAAAT-AATTTTTGGAAAGTTTA
* *
26421328 GGGGTTAAATAATAATTTTTAGAAAGTTTA
1 GGGGTCAAA-AATAATTTTTGGAAAGTTTA
*
26421358 TGGGTCAAAACATAATTTTT
1 GGGGTCAAAA-ATAATTTTT
26421378 AAATAAAATA
Statistics
Matches: 113, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
28 3 0.03
29 25 0.22
30 80 0.71
31 5 0.04
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (29 bp):
GGGGTCAAAAATAATTTTTGGAAAGTTTA
Found at i:26423463 original size:46 final size:49
Alignment explanation
Indices: 26423380--26423470 Score: 152
Period size: 46 Copynumber: 1.9 Consensus size: 49
26423370 TGCAAAAAAA
26423380 AAATTCTCAAAAAGAAAACACTAATATATAATACACATTTATTTTGTGT
1 AAATTCTCAAAAAGAAAACACTAATATATAATACACATTTATTTTGTGT
*
26423429 AAATTCT-AAAAA-AAAA-ACTCATATATAATACACATTTATTTT
1 AAATTCTCAAAAAGAAAACACTAATATATAATACACATTTATTTT
26423471 CTAGAATGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
46 25 0.61
47 4 0.10
48 5 0.12
49 7 0.17
ACGTcount: A:0.49, C:0.12, G:0.03, T:0.35
Consensus pattern (49 bp):
AAATTCTCAAAAAGAAAACACTAATATATAATACACATTTATTTTGTGT
Found at i:26430576 original size:13 final size:13
Alignment explanation
Indices: 26430558--26430583 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26430548 ATAACCATCC
26430558 CTTCAGCAAGAAT
1 CTTCAGCAAGAAT
26430571 CTTCAGCAAGAAT
1 CTTCAGCAAGAAT
26430584 GTCGTGAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (13 bp):
CTTCAGCAAGAAT
Found at i:26438777 original size:22 final size:22
Alignment explanation
Indices: 26438740--26438783 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
26438730 TTATTTTTTA
26438740 ATTTTTTTAAATATTT-ATATT
1 ATTTTTTTAAATATTTAATATT
*
26438761 ATTTTATTTTAATATTTAATATT
1 ATTTT-TTTAAATATTTAATATT
26438784 TAATAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
ATTTTTTTAAATATTTAATATT
Found at i:26438807 original size:30 final size:28
Alignment explanation
Indices: 26438731--26438808 Score: 81
Period size: 30 Copynumber: 2.8 Consensus size: 28
26438721 CCATTCATAT
*
26438731 TATTTTTTA-ATTTTT-TTAAATATTTA
1 TATTTTTTATATTTTTATTTAATATTTA
*
26438757 TATTATTTTAT-TTTAATATTTAATATTTAA
1 TATT-TTTTATATTT-TTATTTAATATTT-A
26438787 TAATTTTTTATATTTTTATTTA
1 T-ATTTTTTATATTTTTATTTA
26438809 TTGAATTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
26 4 0.10
27 8 0.19
28 1 0.02
29 9 0.21
30 14 0.33
31 6 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (28 bp):
TATTTTTTATATTTTTATTTAATATTTA
Found at i:26440140 original size:19 final size:20
Alignment explanation
Indices: 26440105--26440164 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 20
26440095 ATAATAAAAA
*
26440105 TAATA-TTATAATTTAAAT-T
1 TAATATTTATAA-ATAAATAT
26440124 TAATATTTATAAATAAATAAT
1 TAATATTTATAAATAAAT-AT
26440145 TAAATTATTTATAAA-AAATA
1 T-AA-TATTTATAAATAAATA
26440165 AAGTTAACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 10 0.29
20 6 0.17
21 3 0.09
22 6 0.17
23 10 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATATTTATAAATAAATAT
Found at i:26457672 original size:17 final size:18
Alignment explanation
Indices: 26457650--26457690 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
26457640 TTAGTTTTCA
26457650 TGCATTCTT-ATTGTGC-C
1 TGCATTCTTAATTGT-CAC
26457667 TGCATT-TTAATTGTCAC
1 TGCATTCTTAATTGTCAC
26457684 TGCATTC
1 TGCATTC
26457691 CTTTTAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (18 bp):
TGCATTCTTAATTGTCAC
Found at i:26458073 original size:193 final size:189
Alignment explanation
Indices: 26457741--26458100 Score: 477
Period size: 193 Copynumber: 1.9 Consensus size: 189
26457731 TGTATAACTG
* * * *
26457741 TTCCCTAACAATGCTGCTCACACGAGTTGTCAAGAGTATGCATAAAGCATAGTCCCAGCCATCGT
1 TTCCCTAACAATGCTGCTCACACGAGCTGTCAAGAATATGCATAAAGCATAATCCCAGCCATCAT
*
26457806 AGGGCCTATAATCCATTTAGAATCCATATCTCTTTCCCGAGTCACGATGCTACTCACACGAGCTA
66 AGGGCCTATAATCCATTTAGAATCCATATCTCTTTCCCGACTCACGATGCTACTCACACGAGCTA
* *
26457871 TCTAGGACTCGTAACATATGCAGTACCTCAGCCATCGATATGATATCTGTGCATATAAC
131 TCAAGGACTCGTAACAAATGCAGTACCTCAGCCATCGATATGATATCTGTGCATATAAC
** * * * * *
26457930 TTCCCTAATGATGTTGCTCACACGAGCTGTCAAGAATATGCACTTATGCATAAATCTCAGCTATC
1 TTCCCTAACAATGCTGCTCACACGAGCTGTCAAGAATATGCA-TAAAGCAT-AATCCCAGCCATC
* * * * * * * *
26457995 ATAGGGCCTGTAATCCATTCTTGGATTCTTTTCTCATTTCCTGACTCACGATGCTGCTCACACGA
64 ATAGGGCCTATAATCCATT-TAGAATCCATATCTC-TTTCCCGACTCACGATGCTACTCACACGA
*
26458060 GCTATCAAGGACTCGTAACAAATGCGGTACCTCAGCCATCG
127 GCTATCAAGGACTCGTAACAAATGCAGTACCTCAGCCATCG
26458101 CGTCAGTTTC
Statistics
Matches: 144, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
189 37 0.26
190 6 0.04
191 27 0.19
192 10 0.07
193 64 0.44
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (189 bp):
TTCCCTAACAATGCTGCTCACACGAGCTGTCAAGAATATGCATAAAGCATAATCCCAGCCATCAT
AGGGCCTATAATCCATTTAGAATCCATATCTCTTTCCCGACTCACGATGCTACTCACACGAGCTA
TCAAGGACTCGTAACAAATGCAGTACCTCAGCCATCGATATGATATCTGTGCATATAAC
Found at i:26460367 original size:56 final size:56
Alignment explanation
Indices: 26460305--26460418 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
26460295 GTCTATAATA
26460305 CATTTCTCACATATTATGCATACACAGTTTCTATTTGAAGTCTATCAAAATATCAT
1 CATTTCTCACATATTATGCATACACAGTTTCTATTTGAAGTCTATCAAAATATCAT
26460361 CATTTCTCACATATTATGCATACACAGTTTCTATTTGAAGTCTATCAAAATATCAT
1 CATTTCTCACATATTATGCATACACAGTTTCTATTTGAAGTCTATCAAAATATCAT
26460417 CA
1 CA
26460419 ATAATCATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (56 bp):
CATTTCTCACATATTATGCATACACAGTTTCTATTTGAAGTCTATCAAAATATCAT
Found at i:26466009 original size:193 final size:192
Alignment explanation
Indices: 26465683--26466051 Score: 632
Period size: 193 Copynumber: 1.9 Consensus size: 192
26465673 CCCGAATAGA
* *
26465683 AAAAAAAGTGGGCAAAATACAATCCCAAATCAAGCAAGGAAGAAAGGAAAAAGTGGGGGAATCAA
1 AAAAAAAGTGGGCAAAATACAAGCCCAAATCAAGCAAGGAAGAAAGGAAAAAGTGGGCGAATCAA
*
26465748 AACACCCCAAACCCTAAAATAACTTTTTTTACCTTTCATCGTTTTCCCTAAATCCCCAAAAAACA
66 AACACCCCAAACCCTAAAATAACTTTTTTTACCTTTCATCGTTTTCCCCAAATCCCCAAAAAACA
*
26465813 CTCTCACCTTCTTCAAGTCGCCACCATCGCAGTTCGAATTCCTTGTCGCCGTAGAAAAAAAG
131 CTCTCACCTTCTTCAAGTAGCCACCATCGCAGTTCGAATTCCTTGTCGCCGTAGAAAAAAAG
*
26465875 AAAAAAAGTGGGCAAAATACAAGCCCAAATCGAGCAAGGAAGAAAGGAAAAAG-GCAGGCGAATC
1 AAAAAAAGTGGGCAAAATACAAGCCCAAATCAAGCAAGGAAGAAAGGAAAAAGTG--GGCGAATC
* *
26465939 AAAACACCCCAAACCTTAAAATAACTTTTTTTACCTTTCATTGTTTTCCCCAAATCCCCAAAAAA
64 AAAACACCCCAAACCCTAAAATAACTTTTTTTACCTTTCATCGTTTTCCCCAAATCCCCAAAAAA
* *
26466004 CACTCTCACCTTCTTCAAGTAGCCACCATCGTAGTTTGAATTCCTTGT
129 CACTCTCACCTTCTTCAAGTAGCCACCATCGCAGTTCGAATTCCTTGT
26466052 TACCGTCCGA
Statistics
Matches: 166, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
191 1 0.01
192 51 0.31
193 114 0.69
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (192 bp):
AAAAAAAGTGGGCAAAATACAAGCCCAAATCAAGCAAGGAAGAAAGGAAAAAGTGGGCGAATCAA
AACACCCCAAACCCTAAAATAACTTTTTTTACCTTTCATCGTTTTCCCCAAATCCCCAAAAAACA
CTCTCACCTTCTTCAAGTAGCCACCATCGCAGTTCGAATTCCTTGTCGCCGTAGAAAAAAAG
Found at i:26470192 original size:14 final size:15
Alignment explanation
Indices: 26470169--26470206 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
26470159 GCAAGGTTTG
*
26470169 TTTTACTTTATTT-A
1 TTTTATTTTATTTCA
*
26470183 TTTTATTTTATTTCG
1 TTTTATTTTATTTCA
26470198 TTTTATTTT
1 TTTTATTTT
26470207 TAGTTTCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTATTTTATTTCA
Found at i:26476857 original size:21 final size:21
Alignment explanation
Indices: 26476831--26476884 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
26476821 ATAGTGCAAT
* **
26476831 CTTCTACCGAAACTTGTGTCA
1 CTTCTACAGAAACAAGTGTCA
*
26476852 CTTCTACAGAAACAAGTGTGA
1 CTTCTACAGAAACAAGTGTCA
*
26476873 CTTCTACTGAAA
1 CTTCTACAGAAA
26476885 TAACTCATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (21 bp):
CTTCTACAGAAACAAGTGTCA
Found at i:26477601 original size:25 final size:25
Alignment explanation
Indices: 26477561--26477644 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 25
26477551 TAGCTCTGAT
*
26477561 GAGCCTAGACAAAATAACACTCTTAC
1 GAGCC-AGACAAAATAACGCTCTTAC
* *
26477587 GAGCCAGACAGAATATCGCTCTTAC
1 GAGCCAGACAAAATAACGCTCTTAC
* * *
26477612 AAGCTAGAATCAAAATTACGCTCTTAC
1 GAGCCAG-A-CAAAATAACGCTCTTAC
26477639 GAGCCA
1 GAGCCA
26477645 AAATCAGAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
25 22 0.48
26 6 0.13
27 18 0.39
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.20
Consensus pattern (25 bp):
GAGCCAGACAAAATAACGCTCTTAC
Found at i:26477649 original size:27 final size:27
Alignment explanation
Indices: 26477570--26477655 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
26477560 TGAGCCTAGA
* * *
26477570 CAAAATAACACTCTTACGAGCC-AGA-
1 CAAAATTACGCTCTTACGAGCCAAAAT
* * * *
26477595 CAGAA-TATCGCTCTTACAAGCTAGAAT
1 CAAAATTA-CGCTCTTACGAGCCAAAAT
26477622 CAAAATTACGCTCTTACGAGCCAAAAT
1 CAAAATTACGCTCTTACGAGCCAAAAT
*
26477649 CAGAATT
1 CAAAATT
26477656 TGCCTTCGTC
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
24 1 0.02
25 15 0.33
26 1 0.02
27 26 0.58
28 2 0.04
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.22
Consensus pattern (27 bp):
CAAAATTACGCTCTTACGAGCCAAAAT
Found at i:26483122 original size:16 final size:15
Alignment explanation
Indices: 26483097--26483127 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
26483087 TAATATTATT
26483097 TTAATAAATTTAATA
1 TTAATAAATTTAATA
26483112 TTAATTAAATTTAATA
1 TTAA-TAAATTTAATA
26483128 CTTATTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAATAAATTTAATA
Found at i:26487978 original size:96 final size:96
Alignment explanation
Indices: 26487812--26487996 Score: 214
Period size: 96 Copynumber: 1.9 Consensus size: 96
26487802 AAAAAGTATG
* * * * *
26487812 TTCGATTATCTCGTTTTGAAAAAAGTCGCACCTAGTAAGTTTAGGTACAAATTTTCAGAATCAGA
1 TTCGATTATCTCGATTTGAAAAAAATCGCACCTAGTAAGTTAAGGCACAAATTTTCAGAAACAGA
*
26487877 GAT-AAAGAAACATTGCCTCGATTTAAGGATA
66 AATAAAAG-AACATTGCCTCGATTTAAGGATA
** ** *
26487908 TTCGATTAT-TCTGATTTGAAGAAAAATCGTGCCTAGTAAGTTAAGGCACGGATTTTCA-AAACC
1 TTCGATTATCTC-GATTTGAA-AAAAATCGCACCTAGTAAGTTAAGGCACAAATTTTCAGAAACA
*
26487971 GAAATAAAAGAATATTGCCTCGATTT
64 GAAATAAAAGAACATTGCCTCGATTT
26487997 TAAAGCTTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
95 2 0.03
96 38 0.51
97 34 0.46
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (96 bp):
TTCGATTATCTCGATTTGAAAAAAATCGCACCTAGTAAGTTAAGGCACAAATTTTCAGAAACAGA
AATAAAAGAACATTGCCTCGATTTAAGGATA
Found at i:26488244 original size:29 final size:30
Alignment explanation
Indices: 26488226--26488332 Score: 87
Period size: 29 Copynumber: 3.6 Consensus size: 30
26488216 TGGATACCTG
*
26488226 GGGGTAAAATGGTAA-TTTTGGACACTCGA
1 GGGGAAAAATGGTAATTTTTGGACACTCGA
* * *
26488255 GGGGAAAAATGGTAATTTTGGGAAAGTTC-A
1 GGGGAAAAATGGTAATTTTTGGACA-CTCGA
* * * *
26488285 GGGTCAAAAATGG-AATTTTTAGATATTC-A
1 GGG-GAAAAATGGTAATTTTTGGACACTCGA
*
26488314 GGGGTAAAATGGTAATTTT
1 GGGGAAAAATGGTAATTTT
26488333 CAAAAGTTTC
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.11
29 27 0.42
30 20 0.31
31 10 0.16
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.31
Consensus pattern (30 bp):
GGGGAAAAATGGTAATTTTTGGACACTCGA
Found at i:26488382 original size:29 final size:29
Alignment explanation
Indices: 26488227--26488443 Score: 153
Period size: 30 Copynumber: 7.3 Consensus size: 29
26488217 GGATACCTGG
* *
26488227 GGGT-AAAATGGTAATTTTGGACA-CTCGA
1 GGGTAAAAATGG-AATTTTGGAAAGTTCGA
*
26488255 GGGGAAAAATGGTAATTTTGGGAAAGTTC-A
1 GGGTAAAAATGG-AATTTT-GGAAAGTTCGA
* *
26488285 GGGTCAAAAATGGAATTTTTAGATA-TTC-A
1 GGGT-AAAAATGGAA-TTTTGGAAAGTTCGA
**
26488314 GGGGT-AAAATGGTAATTTTCAAAAGTTTCGA
1 -GGGTAAAAATGG-AATTTTGGAAAG-TTCGA
26488345 -GGTCAAAAATGGAATTTTGGAAAGTTCGA
1 GGGT-AAAAATGGAATTTTGGAAAGTTCGA
* ** *
26488374 GGGTAAAAATGTAATTTTCAAAAAGTTTGA
1 GGGTAAAAATGGAATTTT-GGAAAGTTCGA
*
26488404 -GGTCAAAAATGGAATTTTGGAAAAGTTCAA
1 GGGT-AAAAATGGAATTTTGG-AAAGTTCGA
*
26488434 GGGTCAAAAT
1 GGGTAAAAAT
26488444 ATGATTTCTG
Statistics
Matches: 151, Mismatches: 21, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
28 16 0.11
29 44 0.29
30 66 0.44
31 25 0.17
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.29
Consensus pattern (29 bp):
GGGTAAAAATGGAATTTTGGAAAGTTCGA
Found at i:26488422 original size:59 final size:58
Alignment explanation
Indices: 26488231--26488426 Score: 220
Period size: 59 Copynumber: 3.3 Consensus size: 58
26488221 ACCTGGGGGT
* * * ** *
26488231 AAAATGGTAATTTTGGACACTCGAGGGGAAAAATGGTAATTTTGGGAAAG-TTCAGGGTCA
1 AAAATGG-AATTTTGGAAATTCGAGGGTAAAAATGGTAATTTT-CAAAAGTTTGA-GGTCA
* *
26488291 AAAATGGAATTTTTAGATATTC-AGGGGT-AAAATGGTAATTTTCAAAAGTTTCGAGGTCA
1 AAAATGGAA-TTTTGGAAATTCGA-GGGTAAAAATGGTAATTTTCAAAAGTTT-GAGGTCA
26488350 AAAATGGAATTTTGGAAAGTTCGAGGGTAAAAAT-GTAATTTTCAAAAAGTTTGAGGTCA
1 AAAATGGAATTTTGGAAA-TTCGAGGGTAAAAATGGTAATTTTC-AAAAGTTTGAGGTCA
26488409 AAAATGGAATTTTGGAAA
1 AAAATGGAATTTTGGAAA
26488427 AGTTCAAGGG
Statistics
Matches: 119, Mismatches: 9, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
58 11 0.09
59 74 0.62
60 34 0.29
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (58 bp):
AAAATGGAATTTTGGAAATTCGAGGGTAAAAATGGTAATTTTCAAAAGTTTGAGGTCA
Found at i:26488443 original size:30 final size:31
Alignment explanation
Indices: 26488251--26488442 Score: 165
Period size: 30 Copynumber: 6.4 Consensus size: 31
26488241 TTTTGGACAC
* *
26488251 TCGAGGG-GAAAAATGGTAATTTTGGGAAAGT
1 TCGAGGGTCAAAAATGG-AATTTTGGAAAAGT
* *
26488282 TC-AGGGTCAAAAATGGAATTTT-TAGATA-T
1 TCGAGGGTCAAAAATGGAATTTTGGA-AAAGT
*
26488311 TC-AGGGGT--AAAATGGTAATTTT-CAAAAGTT
1 TCGA-GGGTCAAAAATGG-AATTTTGGAAAAG-T
26488341 TCGA-GGTCAAAAATGGAATTTTGG-AAAGT
1 TCGAGGGTCAAAAATGGAATTTTGGAAAAGT
* **
26488370 TCGAGGGT-AAAAATGTAATTTTCAAAAAGT
1 TCGAGGGTCAAAAATGGAATTTTGGAAAAGT
*
26488400 TTGA-GGTCAAAAATGGAATTTTGGAAAAGT
1 TCGAGGGTCAAAAATGGAATTTTGGAAAAGT
*
26488430 TCAAGGGTCAAAA
1 TCGAGGGTCAAAA
26488443 TATGATTTCT
Statistics
Matches: 131, Mismatches: 16, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
28 9 0.07
29 35 0.27
30 61 0.47
31 26 0.20
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (31 bp):
TCGAGGGTCAAAAATGGAATTTTGGAAAAGT
Found at i:26488461 original size:60 final size:60
Alignment explanation
Indices: 26488286--26488450 Score: 203
Period size: 59 Copynumber: 2.8 Consensus size: 60
26488276 GAAAGTTCAG
* * * *
26488286 GGTCAAAAATGGAATTTTTAGATA-TTCAGGGGT-AAAATGGTAATTTTC-AAAAGTTTCGA
1 GGTCAAAAATGGAA-TTTTGGAAAGTTCAAGGGTAAAAAT-ATAATTTTCAAAAAGTTTCGA
* *
26488345 GGTCAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAAATGTAATTTTCAAAAAGTTT-GA
1 GGTCAAAAATGGAATTTTGGAAAGTTCAAGGGTAAAAATATAATTTTCAAAAAGTTTCGA
* *
26488404 GGTCAAAAATGGAATTTTGGAAAAGTTCAAGGGTCAAAATATGATTT
1 GGTCAAAAATGGAATTTTGG-AAAGTTCAAGGGTAAAAATATAATTT
26488451 CTGAACAGTT
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
58 7 0.07
59 52 0.55
60 35 0.37
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (60 bp):
GGTCAAAAATGGAATTTTGGAAAGTTCAAGGGTAAAAATATAATTTTCAAAAAGTTTCGA
Found at i:26490285 original size:6 final size:6
Alignment explanation
Indices: 26490276--26490373 Score: 53
Period size: 6 Copynumber: 17.0 Consensus size: 6
26490266 TTTGGAAAAT
* * * * * *
26490276 TTTAAA TTT-AA TTTTAA TTTAAA -ATAAA TTTAAA CTCAAA -ATAAG
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * *
26490321 TTTAAA TTTAAA ATAAAA TTTAAA CTTAAA --TAAA TTAAAAA TTCAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
26490368 TTTAAA
1 TTTAAA
26490374 ATTGGGCTTC
Statistics
Matches: 68, Mismatches: 18, Indels: 12
0.69 0.18 0.12
Matches are distributed among these distances:
4 4 0.06
5 11 0.16
6 48 0.71
7 5 0.07
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:26490305 original size:17 final size:17
Alignment explanation
Indices: 26490294--26490356 Score: 83
Period size: 17 Copynumber: 3.7 Consensus size: 17
26490284 TAATTTTAAT
26490294 TTAAAATAAATTTAAAC
1 TTAAAATAAATTTAAAC
* * *
26490311 TCAAAATAAGTTTAAAT
1 TTAAAATAAATTTAAAC
26490328 TTAAAATAAAATTTAAAC
1 TTAAAAT-AAATTTAAAC
26490346 TT-AAATAAATT
1 TTAAAATAAATT
26490357 AAAAATTCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
16 5 0.13
17 24 0.62
18 10 0.26
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (17 bp):
TTAAAATAAATTTAAAC
Found at i:26490363 original size:35 final size:34
Alignment explanation
Indices: 26490291--26490360 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
26490281 ATTTAATTTT
* *
26490291 AATTTAAAATAAATTTAAACTCAAAATAAGTTTA
1 AATTTAAAATAAATTTAAACTCAAAATAAATTAA
*
26490325 AATTTAAAATAAAATTTAAACT-TAAATAAATTAA
1 AATTTAAAAT-AAATTTAAACTCAAAATAAATTAA
26490359 AA
1 AA
26490361 ATTCAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 21 0.66
35 11 0.34
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (34 bp):
AATTTAAAATAAATTTAAACTCAAAATAAATTAA
Found at i:26495769 original size:17 final size:17
Alignment explanation
Indices: 26495748--26495790 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
26495738 TATTAATGTT
**
26495748 ATTGCATTTTTATTGTC
1 ATTGCATTTACATTGTC
* *
26495765 GTTGCATCTACATTGTC
1 ATTGCATTTACATTGTC
26495782 ATTGCATTT
1 ATTGCATTT
26495791 CCATATATAT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (17 bp):
ATTGCATTTACATTGTC
Found at i:26496145 original size:63 final size:63
Alignment explanation
Indices: 26496075--26496204 Score: 251
Period size: 63 Copynumber: 2.1 Consensus size: 63
26496065 AATTACTTCA
26496075 ATAATGAATGGATAGTGTGAATGTTTGAATCTTGAACTAACTAACAAGTTGCAACGACATTGT
1 ATAATGAATGGATAGTGTGAATGTTTGAATCTTGAACTAACTAACAAGTTGCAACGACATTGT
*
26496138 ATAATGAATGGATAGTGTGAATGTTTGAATCTTGAACTAACTAACCAGTTGCAACGACATTGT
1 ATAATGAATGGATAGTGTGAATGTTTGAATCTTGAACTAACTAACAAGTTGCAACGACATTGT
26496201 ATAA
1 ATAA
26496205 ATAAAAGACA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (63 bp):
ATAATGAATGGATAGTGTGAATGTTTGAATCTTGAACTAACTAACAAGTTGCAACGACATTGT
Found at i:26506742 original size:15 final size:16
Alignment explanation
Indices: 26506724--26506753 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26506714 TTAACTTTTT
26506724 TTATTT-ACTTTTCAG
1 TTATTTCACTTTTCAG
26506739 TTATTTCACTTTTCA
1 TTATTTCACTTTTCA
26506754 TCGTGCTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (16 bp):
TTATTTCACTTTTCAG
Found at i:26508051 original size:18 final size:18
Alignment explanation
Indices: 26508030--26508064 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26508020 CTTCGACAAA
26508030 GAAAGACAAAGAAAAAGG
1 GAAAGACAAAGAAAAAGG
* *
26508048 GAAAGAGAAAGAGAAAG
1 GAAAGACAAAGAAAAAG
26508065 AAGAACAGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.03, G:0.31, T:0.00
Consensus pattern (18 bp):
GAAAGACAAAGAAAAAGG
Found at i:26512680 original size:36 final size:36
Alignment explanation
Indices: 26512638--26512711 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
26512628 TATCAAGCAC
* * * *
26512638 ATCATATAGCTTAATTAATCAGATAATATTTACCAT
1 ATCATATAGCATAATCAATCAAATAACATTTACCAT
*
26512674 ATCATATAGCATAATCAATCAAATAACATTTATCAT
1 ATCATATAGCATAATCAATCAAATAACATTTACCAT
26512710 AT
1 AT
26512712 AACACATATC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (36 bp):
ATCATATAGCATAATCAATCAAATAACATTTACCAT
Found at i:26513029 original size:29 final size:29
Alignment explanation
Indices: 26512992--26513052 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
26512982 ATGCATATAG
* *
26512992 CATACTTAATCAAATAATATTTACCATAT
1 CATACTTAATAAAATAATATTTACCACAT
*
26513021 CATACTTAATAAAATAGTATTTACCACAT
1 CATACTTAATAAAATAATATTTACCACAT
26513050 CAT
1 CAT
26513053 GCATATCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (29 bp):
CATACTTAATAAAATAATATTTACCACAT
Found at i:26513087 original size:45 final size:45
Alignment explanation
Indices: 26513039--26513261 Score: 275
Period size: 45 Copynumber: 5.0 Consensus size: 45
26513029 ATAAAATAGT
* * * *
26513039 ATTTACCACATCATGCATATCATATAACATAATCAATCAAATAAT
1 ATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATAAA
* * * * *
26513084 ATTTAACATATCATGCATATCGTTTAGCATAATTAACCCAATAAA
1 ATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATAAA
* * *
26513129 ATTTGCCATATCATACAAATCGTATAGCATAATCAATCAAATAAA
1 ATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATAAA
* *
26513174 ATTTACCATGTCATGCATATCGTATAGCATAATCAATCAAATAAC
1 ATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATAAA
* * * * *
26513219 ATTTATCATATCATACATATCGTATATCTTAATTAATCAAATA
1 ATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATA
26513262 CTAACTTACC
Statistics
Matches: 150, Mismatches: 28, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 150 1.00
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.33
Consensus pattern (45 bp):
ATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATAAA
Found at i:26513791 original size:28 final size:28
Alignment explanation
Indices: 26513752--26514003 Score: 274
Period size: 28 Copynumber: 8.9 Consensus size: 28
26513742 AATTTTTTTT
*
26513752 GAAAATTAGTGGCAAAACTGTAAAATTTA
1 GAAAA-TAGTGGCAAAACTGTAAAATCTA
* *
26513781 GAAAATAGTGGAAAAATTGTAAAATCTA
1 GAAAATAGTGGCAAAACTGTAAAATCTA
* * *
26513809 -AAAACCAATGGCAAAACTATAAAATCTA
1 GAAAA-TAGTGGCAAAACTGTAAAATCTA
* *
26513837 GAAAATAGTGGTAAAATTGTAAAATCT-
1 GAAAATAGTGGCAAAACTGTAAAATCTA
* *
26513864 GGAAATCCAATGGCAAAACTGTAAAATCTA
1 GAAAAT--AGTGGCAAAACTGTAAAATCTA
* *
26513894 GAAAATAGTGGCAAAACTGTAAAATTTG
1 GAAAATAGTGGCAAAACTGTAAAATCTA
* *
26513922 GAAAACTAGTGGTAAAATTGTAAAATCTA
1 GAAAA-TAGTGGCAAAACTGTAAAATCTA
* * *
26513951 GAAAATAGTGGCAAAACTATTAAATCTG
1 GAAAATAGTGGCAAAACTGTAAAATCTA
* *
26513979 GAAAATAGTGACAAAACTATAAAAT
1 GAAAATAGTGGCAAAACTGTAAAAT
26514004 AGTGGCAGTT
Statistics
Matches: 185, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
27 9 0.05
28 120 0.65
29 51 0.28
30 5 0.03
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.24
Consensus pattern (28 bp):
GAAAATAGTGGCAAAACTGTAAAATCTA
Found at i:26513898 original size:57 final size:57
Alignment explanation
Indices: 26513761--26513983 Score: 304
Period size: 57 Copynumber: 3.9 Consensus size: 57
26513751 TGAAAATTAG
* * * *
26513761 TGGCAAAACTGTAAAATTTAGAAAATAGTGGAAAAATTGTAAAATCT-AAAAACCAA
1 TGGCAAAACTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAATCTGGAAAACCAA
* * * *
26513817 TGGCAAAACTATAAAATCTAGAAAATAGTGGTAAAATTGTAAAATCTGGAAATCCAA
1 TGGCAAAACTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAATCTGGAAAACCAA
* * *
26513874 TGGCAAAACTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAATTTGGAAAACTAG
1 TGGCAAAACTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAATCTGGAAAACCAA
* * * *
26513931 TGGTAAAATTGTAAAATCTAGAAAATAGTGGCAAAACTATTAAATCTGGAAAA
1 TGGCAAAACTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAATCTGGAAAA
26513984 TAGTGACAAA
Statistics
Matches: 149, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
56 44 0.30
57 105 0.70
ACGTcount: A:0.50, C:0.09, G:0.17, T:0.24
Consensus pattern (57 bp):
TGGCAAAACTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAATCTGGAAAACCAA
Found at i:26513963 original size:85 final size:84
Alignment explanation
Indices: 26513752--26514003 Score: 301
Period size: 85 Copynumber: 3.0 Consensus size: 84
26513742 AATTTTTTTT
* * * * * *
26513752 GAAAATTAGTGGCAAAACTGTAAAATTTAGAAAATAGTGGAAAAATTGTAAAATCTA-AAAACCA
1 GAAAA-TAGTGGTAAAATTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAATCTAGAAAA-TA
*
26513816 ATGGCAAAACTATAAAATCTA
64 GTGGCAAAACTATAAAATCTA
* *
26513837 GAAAATAGTGGTAAAATTGTAAAATCT-GGAAATCCAATGGCAAAACTGTAAAATCTAGAAAATA
1 GAAAATAGTGGTAAAATTGTAAAATCTAGAAAAT--AGTGGCAAAACTGTAAAATCTAGAAAATA
* * *
26513901 GTGGCAAAACTGTAAAATTTG
64 GTGGCAAAACTATAAAATCTA
* * *
26513922 GAAAACTAGTGGTAAAATTGTAAAATCTAGAAAATAGTGGCAAAACTATTAAATCTGGAAAATAG
1 GAAAA-TAGTGGTAAAATTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAATCTAGAAAATAG
*
26513987 TGACAAAACTATAAAAT
65 TGGCAAAACTATAAAAT
26514004 AGTGGCAGTT
Statistics
Matches: 143, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
83 5 0.03
84 19 0.13
85 88 0.62
86 26 0.18
87 5 0.03
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.24
Consensus pattern (84 bp):
GAAAATAGTGGTAAAATTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAATCTAGAAAATAGT
GGCAAAACTATAAAATCTA
Found at i:26520954 original size:21 final size:21
Alignment explanation
Indices: 26520930--26520975 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
26520920 TGGTTCAAAG
* *
26520930 GACAAAAAGAGGAAGCGTAAA
1 GACAAAAAGAAGAAGCATAAA
* *
26520951 GACAAGAAGAAGAAGCATAAG
1 GACAAAAAGAAGAAGCATAAA
26520972 GACA
1 GACA
26520976 GGAACGAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.11, G:0.28, T:0.04
Consensus pattern (21 bp):
GACAAAAAGAAGAAGCATAAA
Found at i:26525717 original size:39 final size:39
Alignment explanation
Indices: 26525662--26525799 Score: 192
Period size: 39 Copynumber: 3.6 Consensus size: 39
26525652 AAGTTATCAA
*
26525662 AATACAATACTAAACTGGCAGTGACACTGTAAACACTGC
1 AATACAATACTGAACTGGCAGTGACACTGTAAACACTGC
* * * *
26525701 AATACAATACTGAACTGGTAGTGACATTGTAAACACAGT
1 AATACAATACTGAACTGGCAGTGACACTGTAAACACTGC
* *
26525740 AATACAATATTGAACTAGCAGTGACAC--T-AACACTGC
1 AATACAATACTGAACTGGCAGTGACACTGTAAACACTGC
26525776 AATACAATACTGAACTGGCAGTGA
1 AATACAATACTGAACTGGCAGTGA
26525800 TGCTTTATAC
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
36 28 0.33
37 1 0.01
39 57 0.66
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (39 bp):
AATACAATACTGAACTGGCAGTGACACTGTAAACACTGC
Found at i:26526571 original size:21 final size:23
Alignment explanation
Indices: 26526519--26526572 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
26526509 TATTTAAATT
*
26526519 ATTG-TAAAATTATTGCTTAACC
1 ATTGATAAAATCATTGCTTAACC
*
26526541 ATTGAT-AAATCATTGTTTAA-C
1 ATTGATAAAATCATTGCTTAACC
26526562 ATT-ATAAAATC
1 ATTGATAAAATC
26526573 TTTTAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 2 0.07
21 9 0.32
22 16 0.57
23 1 0.04
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (23 bp):
ATTGATAAAATCATTGCTTAACC
Found at i:26527253 original size:13 final size:14
Alignment explanation
Indices: 26527235--26527270 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
26527225 TAGAACCTCG
26527235 AACCTTGAA-CTTA
1 AACCTTGAACCTTA
26527248 AACCTTGAACCTTA
1 AACCTTGAACCTTA
*
26527262 AACTTTGAA
1 AACCTTGAA
26527271 TCCCGAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (14 bp):
AACCTTGAACCTTA
Found at i:26527257 original size:20 final size:20
Alignment explanation
Indices: 26527228--26527266 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26527218 TTTTACCTAG
*
26527228 AACCTCGAACCTTGAACTTA
1 AACCTCGAACCTTAAACTTA
*
26527248 AACCTTGAACCTTAAACTT
1 AACCTCGAACCTTAAACTT
26527267 TGAATCCCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (20 bp):
AACCTCGAACCTTAAACTTA
Found at i:26528703 original size:115 final size:112
Alignment explanation
Indices: 26528489--26528702 Score: 306
Period size: 115 Copynumber: 1.9 Consensus size: 112
26528479 ACAATCATTA
*
26528489 ATTTGTTAGTTTCCAACATGCGTCACTTAGCAAATATCTAACTTACCTAAAAGTATTTGTTTTCA
1 ATTTGTTAGTTTCCAACATGCGTCACTTAGCAAATATCTAACTTACATAAAAG---TTGTTTTCA
26528554 TTTTTGGATAATATATTACTTTAAATAATATATATAATTTTTTTTTTTAT
63 TTTTTGGATAATATATTACTTTAAATAATATATATAATTTTTTTTTTTAT
** * *
26528604 ATTTGTTAGTTTCCAACATTTGTCACTTGGCAAATATCTAACTTACATAGAAG-TG-TTTCTATT
1 ATTTGTTAGTTTCCAACATGCGTCACTTAGCAAATATCTAACTTACATAAAAGTTGTTTTC-ATT
*
26528667 TTTGGGGTCAATATATTACTTTAAATAATATATATA
65 TTT-GGAT-AATATATTACTTTAAATAATATATATA
26528703 TGATTTGGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
110 4 0.04
111 8 0.09
112 3 0.03
113 27 0.30
115 48 0.53
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (112 bp):
ATTTGTTAGTTTCCAACATGCGTCACTTAGCAAATATCTAACTTACATAAAAGTTGTTTTCATTT
TTGGATAATATATTACTTTAAATAATATATATAATTTTTTTTTTTAT
Found at i:26530273 original size:17 final size:18
Alignment explanation
Indices: 26530233--26530280 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
26530223 TGGGTTTTTT
*
26530233 ATTTT-AATGTAAATGGAC
1 ATTTTAAAT-TAAATAGAC
26530251 ATTTTAAATTAAATAGA-
1 ATTTTAAATTAAATAGAC
*
26530268 ATTTTAATTTAAA
1 ATTTTAAATTAAA
26530281 ATTTTATTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 12 0.44
18 12 0.44
19 3 0.11
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (18 bp):
ATTTTAAATTAAATAGAC
Found at i:26530282 original size:18 final size:18
Alignment explanation
Indices: 26530233--26530280 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
26530223 TGGGTTTTTT
* *
26530233 ATTTTAATGTAAATGGAC
1 ATTTTAATTTAAATAGAC
*
26530251 ATTTTAAATTAAATAGA-
1 ATTTTAATTTAAATAGAC
26530268 ATTTTAATTTAAA
1 ATTTTAATTTAAA
26530281 ATTTTATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (18 bp):
ATTTTAATTTAAATAGAC
Found at i:26530897 original size:41 final size:39
Alignment explanation
Indices: 26530827--26530984 Score: 147
Period size: 41 Copynumber: 3.9 Consensus size: 39
26530817 ATGATGGTTG
* * * *
26530827 CAATCTGCCC-CATGATCAGGGTAAGAGATTGGAATGGT
1 CAATCTGCCCTCTTGATTAGGGTAAAAGATTGGAATGAT
*
26530865 CAATCTGCACCTCTTGATTAGGGGTAAAAGATTGGAATAAT
1 CAATCTGC-CCTCTTGATTA-GGGTAAAAGATTGGAATGAT
* * * * **
26530906 CAATTTGCCCTTCTCGATTAAAGGTAAAAGACTGGAATCTT
1 CAATCTGCCC-TCTTGATT-AGGGTAAAAGATTGGAATGAT
* *
26530947 TAATCTGGCCCTCTTAATTAGGGTAAAAGATTGGAATG
1 CAATCT-GCCCTCTTGATTAGGGTAAAAGATTGGAATG
26530985 TCTGCAGTTT
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
38 8 0.08
39 2 0.02
40 24 0.25
41 57 0.59
42 5 0.05
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (39 bp):
CAATCTGCCCTCTTGATTAGGGTAAAAGATTGGAATGAT
Found at i:26531224 original size:49 final size:49
Alignment explanation
Indices: 26531171--26531800 Score: 452
Period size: 49 Copynumber: 12.9 Consensus size: 49
26531161 ATATTTCTAA
* * *
26531171 GGTACCAGGTTCACCGTTGCGGTCTCAATCTTTCCCTTCAAATCTTCAT
1 GGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
* * * * **
26531220 GGTACCAGATTCGTCGTTGTGGCCTCAACCTTTCCCATCACGT-TTCAT
1 GGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
* * * * ** * *
26531268 GGTACC-GGATTCGTCGTTGCAGTCTCAATCC-TTCCCATCACGTCTTTTAA
1 GGTACCAGG-TTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCAAATC-TTCAT
* *
26531318 GGTACTAGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
1 GGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
* * * * * ** * ** *
26531367 GGTATCGGGTTTGTCGTTGCGACCTCATTCTTTCCCATCATGTCTTCTAA
1 GGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTC-AT
* * * *
26531417 GGTATCGGGTTCGTCGTTTCGGCCTCAACCTTTCCCTTCAAATCTTCAT
1 GGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
* ** * *
26531466 GGTACC-GAGTTCACCGTTTTGGCCTCAACCCTTCCCTTCAAATCTTTAT
1 GGTACCAG-GTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
* * * *
26531515 GGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCATCACAT-TTCAT
1 GGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
* * * * *
26531563 AGTACCAGATTCACCGTTGCAGCCTCAATCTTTCCCTTCAAATCTTCAT
1 GGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
** * * * * * *
26531612 AATACCGGGTTCACCGTTGTGGCCTCAACTTTTCCCATCACAT-TTCAT
1 GGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
* * * ** *
26531660 GGTA-CAGGATTCGCCATTGCAGCCTCAATCC-TTCCCATCATGTCTTCGAA
1 GGTACCAGG-TTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCAAATCTTC-AT
* * * * ** *
26531710 GGTATCGGGTTCGCTGTTGCGGCCTCAACCTTTCCCTTTATGTCTCCA-
1 GGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
* * *
26531758 GAGTACTAGATTCGCCGTTGCGGCCTCAATC-TTCCCTGTCAAA
1 G-GTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCT-TCAAA
26531801 CCTGTAAAAT
Statistics
Matches: 461, Mismatches: 102, Indels: 36
0.77 0.17 0.06
Matches are distributed among these distances:
47 4 0.01
48 119 0.26
49 225 0.49
50 108 0.23
51 5 0.01
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.33
Consensus pattern (49 bp):
GGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
Found at i:26531303 original size:97 final size:97
Alignment explanation
Indices: 26531171--26531745 Score: 519
Period size: 97 Copynumber: 5.9 Consensus size: 97
26531161 ATATTTCTAA
* * * * * * * * **
26531171 GGTACCAGG-TTCACCGTTGCGGTCTCAATCTTTCCCTTCAAATCTTCATGGTACCAGATTCGTC
1 GGTACC-GGATTCGCCGTTGCAGCCTCAATCCTTCCCATCAAATCTTCAAGGTACCGGGTTCACC
* *
26531235 GTTGTGGCCTCAACCTTTCCCATCACGTTTCAT
65 GTTGCGGCCTCAACCTTTCCCATCACATTTCAT
* * ** * **
26531268 GGTACCGGATTCGTCGTTGCAGTCTCAATCCTTCCCATCACGTCTTTTAAGGTACTAGGTTCACC
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCCTTCCCATCAAATC-TTCAAGGTACCGGGTTCACC
* *
26531333 GTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
65 GTTGCGGCCTCAACCTTTCCCATCACAT-TTCAT
* * * * * * ** * **
26531367 GGTATCGGGTTTGTCGTTGC-GACCTCATTCTTTCCCATCATGTCTTCTAAGGTATCGGGTTCGT
1 GGTACCGGATTCGCCGTTGCAG-CCTCAATCCTTCCCATCAAATCTTC-AAGGTACCGGGTTCAC
* * *
26531431 CGTTTCGGCCTCAACCTTTCCCTTCAAATCTTCAT
64 CGTTGCGGCCTCAACCTTTCCCATCACAT-TTCAT
* *** * * * *
26531466 GGTACC-GAGTTCACCGTTTTGGCCTCAACCCTTCCCTTCAAATCTTTATGGTACCGGGTTCACC
1 GGTACCGGA-TTCGCCGTTGCAGCCTCAATCCTTCCCATCAAATCTTCAAGGTACCGGGTTCACC
26531530 GTTGCGGCCTCAACCTTTCCCATCACATTTCAT
65 GTTGCGGCCTCAACCTTTCCCATCACATTTCAT
* * * * * *
26531563 AGTACCAGATTCACCGTTGCAGCCTCAATCTTTCCCTTCAAATCTTCATA-ATACCGGGTTCACC
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCCTTCCCATCAAATCTTCA-AGGTACCGGGTTCACC
* *
26531627 GTTGTGGCCTCAACTTTTCCCATCACATTTCAT
65 GTTGCGGCCTCAACCTTTCCCATCACATTTCAT
* * ** * * *
26531660 GGTACAGGATTCGCCATTGCAGCCTCAATCCTTCCCATCATGTCTTCGAAGGTATCGGGTTCGCT
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCCTTCCCATCAAATCTTC-AAGGTACCGGGTTCACC
26531725 GTTGCGGCCTCAACCTTTCCC
65 GTTGCGGCCTCAACCTTTCCC
26531746 TTTATGTCTC
Statistics
Matches: 389, Mismatches: 78, Indels: 21
0.80 0.16 0.04
Matches are distributed among these distances:
96 2 0.01
97 160 0.41
98 112 0.29
99 114 0.29
100 1 0.00
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.33
Consensus pattern (97 bp):
GGTACCGGATTCGCCGTTGCAGCCTCAATCCTTCCCATCAAATCTTCAAGGTACCGGGTTCACCG
TTGCGGCCTCAACCTTTCCCATCACATTTCAT
Found at i:26540202 original size:16 final size:16
Alignment explanation
Indices: 26540181--26540224 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
26540171 TTTAAGGAAG
26540181 AAAATGAAATTTAAAT
1 AAAATGAAATTTAAAT
26540197 AAAATGAAATTTAAAT
1 AAAATGAAATTTAAAT
26540213 AAAATGAAATTT
1 AAAATGAAATTT
26540225 GGAGGGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (16 bp):
AAAATGAAATTTAAAT
Found at i:26542547 original size:114 final size:113
Alignment explanation
Indices: 26542335--26542546 Score: 290
Period size: 114 Copynumber: 1.9 Consensus size: 113
26542325 ACAATCATTA
* *
26542335 ATTTGTTAGTTTCCAACATGTGTCACTTAGCAAATATCTAGCTTACCTAAAAATATTTGTTTTCA
1 ATTTGTTAGTTTCCAACATGTGTCACTTAGCAAATATCTAACTTACCT-AAAATATGTGTTTTCA
*
26542400 TTTTTGGATCAATATATTATTTTAAATAATATATATAATTTTTTTTCAT
65 TTTTTGGATCAATATATTATTTAAAATAATATATATAATTTTTTTTCAT
* * *
26542449 ATTTGTTAGTTTCCAACATTTGTCACTTGGCAAATATCTAACTTACCT-AGA-A-GTG-TTTCTA
1 ATTTGTTAGTTTCCAACATGTGTCACTTAGCAAATATCTAACTTACCTAAAATATGTGTTTTC-A
* *
26542510 TTTTTGGGTCAATATATTACTTT-AAATACTATATATA
65 TTTTTGGATCAATATATTA-TTTAAAATAATATATATA
26542547 TGATTTGGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
109 4 0.04
110 34 0.38
111 4 0.04
112 2 0.02
114 45 0.51
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (113 bp):
ATTTGTTAGTTTCCAACATGTGTCACTTAGCAAATATCTAACTTACCTAAAATATGTGTTTTCAT
TTTTGGATCAATATATTATTTAAAATAATATATATAATTTTTTTTCAT
Found at i:26544507 original size:18 final size:21
Alignment explanation
Indices: 26544475--26544518 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
26544465 AGAAATACAA
*
26544475 ATTTTAGAATTTTTATAAA-T
1 ATTTTAGAATTTTTAAAAATT
26544495 ATTTT-GAA-TTTTAAAAATT
1 ATTTTAGAATTTTTAAAAATT
26544514 ATTTT
1 ATTTT
26544519 CAAAATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 9 0.41
20 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTTAGAATTTTTAAAAATT
Found at i:26553003 original size:17 final size:19
Alignment explanation
Indices: 26552966--26553007 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
26552956 TCAACGCAAC
26552966 ATAAAACTTTTTAAAATAT
1 ATAAAACTTTTTAAAATAT
26552985 ATAAAA-TTTTTAAAA-AT
1 ATAAAACTTTTTAAAATAT
26553002 ATAAAA
1 ATAAAA
26553008 AAGTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.35
18 9 0.39
19 6 0.26
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAACTTTTTAAAATAT
Found at i:26553009 original size:19 final size:18
Alignment explanation
Indices: 26552968--26553009 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
26552958 AACGCAACAT
*
26552968 AAAACTTTTTAAAATATA
1 AAAAATTTTTAAAATATA
*
26552986 TAAAATTTTTAAAAATATA
1 AAAAATTTTT-AAAATATA
26553005 AAAAA
1 AAAAA
26553010 GTAAAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATTTTTAAAATATA
Found at i:26555457 original size:27 final size:27
Alignment explanation
Indices: 26555419--26555471 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
26555409 CCGAGATCCC
*
26555419 ATAATACGGTAGCTGATCATATGGTCT
1 ATAATACGGTAGCTAATCATATGGTCT
26555446 ATAATACGGTAGCTAATCATATGGTC
1 ATAATACGGTAGCTAATCATATGGTC
26555472 GAGTGTATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (27 bp):
ATAATACGGTAGCTAATCATATGGTCT
Found at i:26557913 original size:2 final size:2
Alignment explanation
Indices: 26557906--26557944 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
26557896 TGGTCCCTTT
26557906 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
26557945 TTCCCTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:26561824 original size:27 final size:24
Alignment explanation
Indices: 26561769--26561824 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 24
26561759 TTTTAATTTA
26561769 ATTTA-AAATTATTTTTTAGTAAT
1 ATTTATAAATTATTTTTTAGTAAT
26561792 -TATTATAAATTATTTTTTTAGCTTAAT
1 AT-TTATAAATTA-TTTTTTAG--TAAT
26561819 ATTTAT
1 ATTTAT
26561825 GTGATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
22 1 0.04
23 3 0.11
24 6 0.22
25 8 0.30
27 8 0.30
28 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (24 bp):
ATTTATAAATTATTTTTTAGTAAT
Found at i:26561842 original size:145 final size:140
Alignment explanation
Indices: 26561545--26561905 Score: 438
Period size: 145 Copynumber: 2.6 Consensus size: 140
26561535 TTTAGTTTAA
* * * *
26561545 TGTTAT-AATTTTTT-TAGTAGAGTAGATTAAAAGGAAAAAACTAAAAGAGAGGTAAATTTTGTT
1 TGTTATAAATTTTTTATAGTAG-GTAGATTAAAGGGAAGAAA-TAAAAGAAAGGTAAATGTT-TT
* * *
26561608 GTTGTTTTTAATTTATTTTAAAGGTATTTTGTTAGTAATTATTATAAAATATTTTTTTAGTTTAA
63 GTTGTTTTTAATTTAATTTAAAAGTATTTTGTTAGTAATTATTATAAAATATTTTTTTAGCTTAA
*
26561673 TGTTTATGTGATT
128 TATTTATGTGATT
26561686 TGTTATAAATTTTTTTGTATAGTAGGGTAGATTAAAGGGAAGAAAGTTAAAAGAAAGGTAAATGT
1 TGTTATAAA--TTTTT-TATAGTA-GGTAGATTAAAGGGAAGAAA--TAAAAGAAAGGTAAATGT
* *
26561751 TTTGTTGTTTTTAATTTAATTTAAAATTATTTT-TTAGTAATTATTATAAATTATTTTTTTAGCT
60 TTTGTTGTTTTTAATTTAATTTAAAAGTATTTTGTTAGTAATTATTATAAAATATTTTTTTAGCT
26561815 TAATATTTATGTGATT
125 TAATATTTATGTGATT
* * *
26561831 TTTTATTAATTTTTTAT-TTA-GTAGATTAAAGGG-AG--A-AAAAGAAAGGT-AA-GTTTTGTT
1 TGTTATAAATTTTTTATAGTAGGTAGATTAAAGGGAAGAAATAAAAGAAAGGTAAATGTTTTGTT
*
26561888 GTTTTTATTTTAATTTAA
66 GTTTTTAATTTAATTTAA
26561906 TTTTGTTAGT
Statistics
Matches: 198, Mismatches: 15, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
131 25 0.13
132 2 0.01
133 11 0.06
136 1 0.01
138 2 0.01
139 13 0.07
141 8 0.04
142 5 0.03
143 5 0.03
144 5 0.03
145 52 0.26
146 51 0.26
147 18 0.09
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.49
Consensus pattern (140 bp):
TGTTATAAATTTTTTATAGTAGGTAGATTAAAGGGAAGAAATAAAAGAAAGGTAAATGTTTTGTT
GTTTTTAATTTAATTTAAAAGTATTTTGTTAGTAATTATTATAAAATATTTTTTTAGCTTAATAT
TTATGTGATT
Found at i:26562489 original size:29 final size:29
Alignment explanation
Indices: 26562431--26562506 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 29
26562421 TGCAAGTGAG
*
26562431 TAATTATTATAAATTATTTGTTTTATTTT
1 TAATTATTATAAATTATTTATTTTATTTT
26562460 TAATTATTATAAAGTTATTTATTTTATTTT
1 TAATTATTATAAA-TTATTTATTTTATTTT
26562490 TAATTATTAT-AATTATT
1 TAATTATTATAAATTATT
26562507 ATTATAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
28 5 0.11
29 15 0.33
30 25 0.56
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (29 bp):
TAATTATTATAAATTATTTATTTTATTTT
Found at i:26565905 original size:230 final size:230
Alignment explanation
Indices: 26565496--26565953 Score: 853
Period size: 230 Copynumber: 2.0 Consensus size: 230
26565486 TATAATATAA
26565496 CATTAAGTCTTTAAACATACCTTTCCATTGACCTTTTCTTATCCGTCGAACCTTTTTTTAATAAC
1 CATTAAGTCTTTAAACATACCTTTCCATTGACCTTTTCTTATCCGTCGAACCTTTTTTTAATAAC
26565561 ATCGAATACTCGAAATCCCTTGTCATTTACTTTAATCCTTAAATCGACCTACGGTGCTGCTGGCA
66 ATCGAATACTCGAAATCCCTTGTCATTTACTTTAATCCTTAAATCGACCTACGGTGCTGCTGGCA
*
26565626 TAAGCTTCAGAGTATCCGCAACACATGCACGATCTCAAGCCATCGTAATAGTCTGTTTCATCAAT
131 AAAGCTTCAGAGTATCCGCAACACATGCACGATCTCAAGCCATCGTAATAGTCTGTTTCATCAAT
*
26565691 ACATAGTACTTGTTAAGTGTTCATCGGCACGAATC
196 ACATAGTACTTGCTAAGTGTTCATCGGCACGAATC
* *
26565726 CATTAGGTCTTTAAACATACCTTTCCATTGACCTTTTCTTATTCGTCGAACCTTTTTTTAATAAC
1 CATTAAGTCTTTAAACATACCTTTCCATTGACCTTTTCTTATCCGTCGAACCTTTTTTTAATAAC
*
26565791 ATCGGATACTCGAAATCCCTTGTCATTTACTTTAATCCTTAAATCGACCTACGGTGCTGCTGGCA
66 ATCGAATACTCGAAATCCCTTGTCATTTACTTTAATCCTTAAATCGACCTACGGTGCTGCTGGCA
* *
26565856 AAAGCTTCAGAGTATCTGCAACACATGCAGGATCTCAAGCCATCGTAATAGTCTGTTTCATCAAT
131 AAAGCTTCAGAGTATCCGCAACACATGCACGATCTCAAGCCATCGTAATAGTCTGTTTCATCAAT
26565921 ACATAGTACTTGCTAAGTGTTCATCGGCACGAA
196 ACATAGTACTTGCTAAGTGTTCATCGGCACGAA
26565954 GCCTACTAAA
Statistics
Matches: 221, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
230 221 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (230 bp):
CATTAAGTCTTTAAACATACCTTTCCATTGACCTTTTCTTATCCGTCGAACCTTTTTTTAATAAC
ATCGAATACTCGAAATCCCTTGTCATTTACTTTAATCCTTAAATCGACCTACGGTGCTGCTGGCA
AAAGCTTCAGAGTATCCGCAACACATGCACGATCTCAAGCCATCGTAATAGTCTGTTTCATCAAT
ACATAGTACTTGCTAAGTGTTCATCGGCACGAATC
Found at i:26569227 original size:8 final size:8
Alignment explanation
Indices: 26569214--26569257 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
26569204 AATATATTTC
26569214 TTTTCTTT
1 TTTTCTTT
26569222 TTTTCTTT
1 TTTTCTTT
26569230 TTTTC-TT
1 TTTTCTTT
*
26569237 ATTTCTTT
1 TTTTCTTT
26569245 TTTTCTTT
1 TTTTCTTT
26569253 CTTTT
1 -TTTT
26569258 TGTGAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
7 6 0.19
8 22 0.69
9 4 0.12
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTCTTT
Found at i:26569241 original size:15 final size:15
Alignment explanation
Indices: 26569208--26569251 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
26569198 CATGGCAATA
*
26569208 TATTTCTTTTCTT-T
1 TATTTCTTTTTTTCT
26569222 T-TTTCTTTTTTTCT
1 TATTTCTTTTTTTCT
26569236 TATTTCTTTTTTTCT
1 TATTTCTTTTTTTCT
26569251 T
1 T
26569252 TCTTTTTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 10 0.37
14 3 0.11
15 14 0.52
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (15 bp):
TATTTCTTTTTTTCT
Found at i:26569881 original size:18 final size:17
Alignment explanation
Indices: 26569851--26569889 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
26569841 AAATGTACTA
*
26569851 ACAAATGAAATGCAGTG
1 ACAAATGAAATGCAATG
26569868 ACAAATGAAAATGCAATG
1 ACAAATG-AAATGCAATG
26569886 ACAA
1 ACAA
26569890 CTAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.54, C:0.13, G:0.18, T:0.15
Consensus pattern (17 bp):
ACAAATGAAATGCAATG
Found at i:26579753 original size:6 final size:6
Alignment explanation
Indices: 26579733--26579826 Score: 72
Period size: 6 Copynumber: 16.3 Consensus size: 6
26579723 CCCACTTTCT
* **
26579733 TTTAAA TTT-AT TTTAAA TTTAAA TTT-GT TTTAAA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * ** *
26579778 TTTAAG TTTAAG TTTATT TTTAAA TTTAAA ATT--A TTATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
26579825 TT
1 TT
26579827 AATAAAAGTC
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
4 2 0.03
5 13 0.19
6 51 0.74
7 3 0.04
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:26579755 original size:17 final size:17
Alignment explanation
Indices: 26579733--26579826 Score: 125
Period size: 17 Copynumber: 5.5 Consensus size: 17
26579723 CCCACTTTCT
26579733 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
26579750 TTTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
* *
26579767 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
*
26579784 TTTAAGTTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
* *
26579802 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
26579819 TTTAAATT
1 TTTAAATT
26579827 AATAAAAGTC
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
17 52 0.80
18 13 0.20
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:26579779 original size:11 final size:11
Alignment explanation
Indices: 26579733--26579828 Score: 61
Period size: 11 Copynumber: 8.5 Consensus size: 11
26579723 CCCACTTTCT
*
26579733 TTTAAATTTAT
1 TTTAAATTTAA
26579744 TTTAAATTTAAA
1 TTTAAATTT-AA
**
26579756 TTT-GTTTTAAA
1 TTTAAATTT-AA
26579767 TTTAAATTTAA
1 TTTAAATTTAA
*
26579778 TTTAAGTTTAA
1 TTTAAATTTAA
**
26579789 GTTTATTTTTAAA
1 -TTTAAATTT-AA
*
26579802 TTTAAAATT-A
1 TTTAAATTTAA
26579812 TTATAAATTTAA
1 TT-TAAATTTAA
*
26579824 ATTAA
1 TTTAA
26579829 TAAAAGTCCA
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
10 3 0.05
11 39 0.59
12 22 0.33
13 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:26579787 original size:23 final size:24
Alignment explanation
Indices: 26579744--26579806 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
26579734 TTAAATTTAT
26579744 TTTAAATTTAAATTT--GTTTTAAA
1 TTTAAATTTAAATTTAAG-TTTAAA
*
26579767 TTTAAATTT-AATTTAAGTTTAAG
1 TTTAAATTTAAATTTAAGTTTAAA
**
26579790 TTTATTTTTAAATTTAA
1 TTTAAATTTAAATTTAA
26579807 AATTATTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 5 0.15
23 21 0.62
24 8 0.24
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (24 bp):
TTTAAATTTAAATTTAAGTTTAAA
Found at i:26579900 original size:12 final size:13
Alignment explanation
Indices: 26579876--26579904 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
26579866 AATTGAGCCT
26579876 AATTACAAGCCCA
1 AATTACAAGCCCA
26579889 AATTACAA-CCCA
1 AATTACAAGCCCA
26579901 AATT
1 AATT
26579905 GGGGCCCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.48, C:0.28, G:0.03, T:0.21
Consensus pattern (13 bp):
AATTACAAGCCCA
Found at i:26581678 original size:29 final size:30
Alignment explanation
Indices: 26581576--26581869 Score: 194
Period size: 30 Copynumber: 9.9 Consensus size: 30
26581566 CCTAGGAGGT
* * * * *
26581576 CCCTAAGCTATCCAAAAATCATATTTTGAC
1 CCCTAAACTTTCCAAAAATTACATTTTAAC
* *
26581606 CCCTAAAGTTTTCAAAAATTACATTTTAAC
1 CCCTAAACTTTCCAAAAATTACATTTTAAC
* *
26581636 CCCTAAACTTTCCAAAAGTTACATTTTCAC
1 CCCTAAACTTTCCAAAAATTACATTTTAAC
* *
26581666 CCCCAAAC-TTCCAAAAATTACATTTTTGA-
1 CCCTAAACTTTCCAAAAATTACA-TTTTAAC
* * * **
26581695 CTCAAAACTTTCCAAAAATCACATTTTTGC
1 CCCTAAACTTTCCAAAAATTACATTTTAAC
* *
26581725 CCCTAAAC-TTCCAAAAATTATATTTTTGA-
1 CCCTAAACTTTCCAAAAATTACA-TTTTAAC
* * **
26581754 CCCGAAACTTTCC-AAAATCACATTTTTGC
1 CCCTAAACTTTCCAAAAATTACATTTTAAC
*
26581783 CCTTAAA-TTTCCAAAAATTACTATTTT-AC
1 CCCTAAACTTTCCAAAAATTAC-ATTTTAAC
* * * * *
26581812 CCTTGAA-TGTCTAAAAA-TACCATATTTGA-
1 CCCTAAACTTTCCAAAAATTA-CAT-TTTAAC
* *
26581841 CCTTAAACTTTCTAAAAATTACCATTTTA
1 CCCTAAACTTTCCAAAAATTA-CATTTTA
26581870 CCCTCGAATG
Statistics
Matches: 211, Mismatches: 40, Indels: 26
0.76 0.14 0.09
Matches are distributed among these distances:
28 13 0.06
29 86 0.41
30 106 0.50
31 6 0.03
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (30 bp):
CCCTAAACTTTCCAAAAATTACATTTTAAC
Found at i:26581703 original size:59 final size:58
Alignment explanation
Indices: 26581590--26581809 Score: 246
Period size: 59 Copynumber: 3.7 Consensus size: 58
26581580 AAGCTATCCA
* * * * *
26581590 AAAATCATA-TTTTGACCCCTAAAGTTTTCAAAAATTACA-TTTTAACCCCTAAACTTTCC
1 AAAATCACATTTTTG-CCCCTAAA-CTTCCAAAAATTACATTTTTGA-CCCAAAACTTTCC
* ** * *
26581649 AAAAGTTACATTTTCACCCCCAAACTTCCAAAAATTACATTTTTGACTCAAAACTTTCC
1 AAAA-TCACATTTTTGCCCCTAAACTTCCAAAAATTACATTTTTGACCCAAAACTTTCC
* *
26581708 AAAAATCACATTTTTGCCCCTAAACTTCCAAAAATTATATTTTTGACCCGAAACTTTCC
1 -AAAATCACATTTTTGCCCCTAAACTTCCAAAAATTACATTTTTGACCCAAAACTTTCC
* *
26581767 AAAATCACATTTTTGCCCTTAAATTTCCAAAAATTACTATTTT
1 AAAATCACATTTTTGCCCCTAAACTTCCAAAAATTAC-ATTTT
26581810 ACCCTTGAAT
Statistics
Matches: 136, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
58 34 0.25
59 80 0.59
60 19 0.14
61 3 0.02
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (58 bp):
AAAATCACATTTTTGCCCCTAAACTTCCAAAAATTACATTTTTGACCCAAAACTTTCC
Found at i:26581860 original size:59 final size:58
Alignment explanation
Indices: 26581774--26582073 Score: 312
Period size: 59 Copynumber: 5.1 Consensus size: 58
26581764 TCCAAAATCA
* * * * * * *
26581774 CATTTTTGCCCTTAAATTTCCAAAAATTACTATTTTACCCTTGAATGTCTAAAAATAC
1 CATTTTTGACCTCAAATTTCTAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTC
* *
26581832 CATATTTGACCTTAAACTTTCTAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTC
1 CATTTTTGACCTCAAA-TTTCTAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTC
* * * * * *
26581891 TATTTTTTACCTCGAATTTTTCAAAAATTACCATTTTACCCTTGAATGTCTAAAAATTC
1 CATTTTTGACCTCAAATTTCT-AAAAATTACCATTTTACCCTCGAATGTCCAAAAATTC
* * * * * *
26581950 CATTTTTGATCTCGAACTTTTTGAAAATTACCATTTTACCCCCGAATGCCCAAAAATTC
1 CATTTTTGACCTC-AAATTTCTAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTC
* * * ** * *
26582009 TATTTTTGACCCTGAAATTTCCAAAAACCACCATTTTACCCTCGAATGTCCCAAAATTA
1 CATTTTTGA-CCTCAAATTTCTAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTC
26582068 CATTTT
1 CATTTT
26582074 CCCCCGAGTG
Statistics
Matches: 199, Mismatches: 39, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
58 18 0.09
59 173 0.87
60 8 0.04
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (58 bp):
CATTTTTGACCTCAAATTTCTAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTC
Found at i:26581887 original size:29 final size:29
Alignment explanation
Indices: 26581792--26582137 Score: 228
Period size: 29 Copynumber: 11.9 Consensus size: 29
26581782 CCCTTAAATT
* *
26581792 TCCAAAAATTACTATTTTACCCTTGAATG
1 TCCAAAAATTACCATTTTACCCTCGAATG
* ** *
26581821 TCTAAAAA-TACCATATTTGA-CCTTAAACTT
1 TCCAAAAATTACCAT-TTT-ACCCTCGAA-TG
*
26581851 TCTAAAAATTACCATTTTACCCTCGAATG
1 TCCAAAAATTACCATTTTACCCTCGAATG
* *
26581880 TCCAAAAATT-CTATTTTTTA-CCTCGAATTT
1 TCCAAAAATTACCA--TTTTACCCTCGAA-TG
* *
26581910 TTCAAAAATTACCATTTTACCCTTGAATG
1 TCCAAAAATTACCATTTTACCCTCGAATG
* * *
26581939 TCTAAAAATT-CCATTTTTGA-TCTCGAACTT
1 TCCAAAAATTACCA-TTTT-ACCCTCGAA-TG
*** *
26581969 TTTGAAAATTACCATTTTACCCCCGAATG
1 TCCAAAAATTACCATTTTACCCTCGAATG
* * *
26581998 CCCAAAAATT-CTATTTTTGACCCT-GAAATT
1 TCCAAAAATTACCA-TTTT-ACCCTCG-AATG
**
26582028 TCCAAAAACCACCATTTTACCCTCGAATG
1 TCCAAAAATTACCATTTTACCCTCGAATG
* * *
26582057 TCCCAAAATTA-CATTTT-CCCCCGAGTG
1 TCCAAAAATTACCATTTTACCCTCGAATG
* * *
26582084 TCCAAAAATTACCATTTTGCCCCCTAAGTG
1 TCCAAAAATTACCATTTTACCCTCGAA-TG
*
26582114 TTC-AAAATTACCATTTTACCCTCG
1 TCCAAAAATTACCATTTTACCCTCG
26582138 GGCATCCGAA
Statistics
Matches: 246, Mismatches: 48, Indels: 46
0.72 0.14 0.14
Matches are distributed among these distances:
27 18 0.07
28 24 0.10
29 110 0.45
30 81 0.33
31 13 0.05
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTACCCTCGAATG
Found at i:26582063 original size:30 final size:29
Alignment explanation
Indices: 26581979--26582137 Score: 71
Period size: 30 Copynumber: 5.5 Consensus size: 29
26581969 TTTGAAAATT
* *
26581979 ACCATTTTACCCCCGAATG-CCCAAAAAT
1 ACCATTTTACCCTCGAATGTCCCAAAAAC
* * *
26582007 TCTATTTTTGACCCT-GAAAT-TTCCAAAAACC
1 ACCA-TTTT-ACCCTCG-AATGTCCCAAAAA-C
**
26582038 ACCATTTTACCCTCGAATGTCCCAAAATT
1 ACCATTTTACCCTCGAATGTCCCAAAAAC
* * *
26582067 A-CATTTT-CCCCCGAGTGT-CCAAAAATT
1 ACCATTTTACCCTCGAATGTCCCAAAAA-C
* * * * **
26582094 ACCATTTTGCCCCCTAAGTGT-TCAAAATT
1 ACCATTTTACCCTCGAA-TGTCCCAAAAAC
26582123 ACCATTTTACCCTCG
1 ACCATTTTACCCTCG
26582138 GGCATCCGAA
Statistics
Matches: 100, Mismatches: 20, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
26 6 0.06
27 11 0.11
28 14 0.14
29 33 0.33
30 34 0.34
31 2 0.02
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (29 bp):
ACCATTTTACCCTCGAATGTCCCAAAAAC
Found at i:26582065 original size:118 final size:118
Alignment explanation
Indices: 26581775--26582073 Score: 395
Period size: 118 Copynumber: 2.5 Consensus size: 118
26581765 CCAAAATCAC
* * * *
26581775 ATTTTTG-CCCTTAAATTTCCAAAAATTACTATTTTACCCTTGAATGTCTAAAAATACCATATTT
1 ATTTTTGACCCTGAAATTTCCAAAAATTACCATTTTACCCTTGAATGTCTAAAAATTCCATTTTT
* * *
26581839 GACCTTAAACTTTCTAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTCT
66 GACCTCAAACTTTCTAAAAATTACCATTTTACCCCCGAATGCCCAAAAATTCT
* * *
26581892 ATTTTTTA-CCTCGAATTTTTCAAAAATTACCATTTTACCCTTGAATGTCTAAAAATTCCATTTT
1 ATTTTTGACCCT-GAAATTTCCAAAAATTACCATTTTACCCTTGAATGTCTAAAAATTCCATTTT
* * * *
26581956 TGATCTCGAACTTTTTGAAAATTACCATTTTACCCCCGAATGCCCAAAAATTCT
65 TGACCTCAAACTTTCTAAAAATTACCATTTTACCCCCGAATGCCCAAAAATTCT
** * ** *
26582010 ATTTTTGACCCTGAAATTTCCAAAAACCACCATTTTACCCTCGAATGTCCCAAAATTACATTTT
1 ATTTTTGACCCTGAAATTTCCAAAAATTACCATTTTACCCTTGAATGTCTAAAAATTCCATTTT
26582074 CCCCCGAGTG
Statistics
Matches: 156, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
117 9 0.06
118 144 0.92
119 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (118 bp):
ATTTTTGACCCTGAAATTTCCAAAAATTACCATTTTACCCTTGAATGTCTAAAAATTCCATTTTT
GACCTCAAACTTTCTAAAAATTACCATTTTACCCCCGAATGCCCAAAAATTCT
Found at i:26582543 original size:96 final size:96
Alignment explanation
Indices: 26582374--26582565 Score: 262
Period size: 96 Copynumber: 2.0 Consensus size: 96
26582364 AAACCTTTAA
* * *
26582374 AATCGAGGCAATATTCCTTTATTTTAAGTTTTGAAAATTTGTGCCTTAACTTGCTAGGCGCGATT
1 AATCGAGGCAATATTCCTTTATTCTAAGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGACT
* *
26582439 TTTTTTCAAGTCG-GAATAATCGAATACCCTT
66 TTTCTTCAAATCGAG-ATAATCGAATACCCTT
* * * *
26582470 AATCGAGGCAATGTTTCTTTATCTCT-GGTTTTGAAAGTTTGTGCCTTAACTTACTAGGCGCGAC
1 AATCGAGGCAATATTCCTTTAT-TCTAAGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGAC
*
26582534 TTTTCTTCAAATCGAGATAATCGAATATCCTT
65 TTTTCTTCAAATCGAGATAATCGAATACCCTT
26582566 TCCCAAGGTT
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
96 81 0.96
97 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (96 bp):
AATCGAGGCAATATTCCTTTATTCTAAGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGACT
TTTCTTCAAATCGAGATAATCGAATACCCTT
Found at i:26592161 original size:11 final size:11
Alignment explanation
Indices: 26592145--26592201 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
26592135 GCCCACTTTC
26592145 TTTTAAATTTA
1 TTTTAAATTTA
26592156 TTTTAAATTTAA
1 TTTTAAATTT-A
*
26592168 ATTT-AATTTAA
1 TTTTAAATTT-A
* *
26592179 GTTTAAGTTTA
1 TTTTAAATTTA
26592190 TTTTTAAATTTA
1 -TTTTAAATTTA
26592202 AAATTATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
11 21 0.55
12 17 0.45
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:26592166 original size:6 final size:6
Alignment explanation
Indices: 26592146--26592222 Score: 63
Period size: 6 Copynumber: 13.3 Consensus size: 6
26592136 CCCACTTTCT
* * * **
26592146 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AA TTTAAG TTTAAG TTTATT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
26592192 TTTAAA TTTAAA ATT--A TTATAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA TT
26592223 AATAAAGTCT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
4 2 0.04
5 10 0.18
6 42 0.74
7 3 0.05
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:26592168 original size:17 final size:17
Alignment explanation
Indices: 26592146--26592222 Score: 100
Period size: 17 Copynumber: 4.5 Consensus size: 17
26592136 CCCACTTTCT
26592146 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
26592163 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
*
26592180 TTTAAGTTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
* *
26592198 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
26592215 TTTAAATT
1 TTTAAATT
26592223 AATAAAGTCT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
17 37 0.74
18 13 0.26
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:26593127 original size:21 final size:23
Alignment explanation
Indices: 26593101--26593145 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
26593091 TCCTGAGAAT
*
26593101 AGATTTGAACA-AAA-AAAAAGG
1 AGATTTGAAAATAAATAAAAAGG
*
26593122 AGATTTTAAAATAAATAAAAAGG
1 AGATTTGAAAATAAATAAAAAGG
26593145 A
1 A
26593146 AATAGCAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 3 0.15
23 8 0.40
ACGTcount: A:0.62, C:0.02, G:0.16, T:0.20
Consensus pattern (23 bp):
AGATTTGAAAATAAATAAAAAGG
Found at i:26594055 original size:59 final size:57
Alignment explanation
Indices: 26593989--26594204 Score: 227
Period size: 59 Copynumber: 3.7 Consensus size: 57
26593979 CCCTAAGCTA
* * * * *
26593989 TCCAAAAATCATATTTTAACCTCTAAAGTTTTCAAAAATTATATTTAACCCCTAAACTT
1 TCCAAAAATCACATTTTTACCCCTAAA-TTTCCAAAAATTATATTTAA-CCCGAAACTT
* * * * * *
26594048 TCCAAAAATTACATTTTCACCCCTAAACTTCTAAAAATTACATTTTTAACTCGAAACTT
1 TCCAAAAATCACATTTTTACCCCTAAATTTCCAAAAATT--ATATTTAACCCGAAACTT
* * * *
26594107 TTCAAAAATCACATTTTTACCGCTAAACTTCCAAAAATTATATTTTTGACCCGAAACTT
1 TCCAAAAATCACATTTTTACCCCTAAATTTCCAAAAATTATA--TTTAACCCGAAACTT
*
26594166 TCC-AAAATCACATTTTTGCCCCTAAATTTCCAAAAATTA
1 TCCAAAAATCACATTTTTACCCCTAAATTTCCAAAAATTA
26594205 CCATTTTACC
Statistics
Matches: 131, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
57 2 0.02
58 42 0.32
59 80 0.61
60 7 0.05
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.36
Consensus pattern (57 bp):
TCCAAAAATCACATTTTTACCCCTAAATTTCCAAAAATTATATTTAACCCGAAACTT
Found at i:26594231 original size:58 final size:59
Alignment explanation
Indices: 26594048--26594414 Score: 239
Period size: 58 Copynumber: 6.3 Consensus size: 59
26594038 CCCTAAACTT
* * * * * *
26594048 TCCAAAAATTACA-TTTTCACCCCTAAACTTCTAAAAATTA-CATTTTTA-ACTCGAAACTT
1 TCCAAAAATCACATTTTTGACCCCTAAATTTCCAAAAATTACCA-TTTTACCCTCG-AA-TG
* * * * *
26594107 TTCAAAAATCACATTTTT-ACCGCTAAACTTCCAAAAATTA-TATTTTTGA-CC-CGAAACTT
1 TCCAAAAATCACATTTTTGACCCCTAAATTTCCAAAAATTACCA-TTTT-ACCCTCG-AA-TG
26594166 TCC-AAAATCACATTTTTG-CCCCTAAATTTCCAAAAATTACCATTTTACCCTCGAATG
1 TCCAAAAATCACATTTTTGACCCCTAAATTTCCAAAAATTACCATTTTACCCTCGAATG
* * * *
26594223 TCCAAAAATTC-TATTTTTGACCCC-AAACTTTTCAAAAATTAGCATTTTACCC-CAAATG
1 TCCAAAAA-TCACATTTTTGACCCCTAAA-TTTCCAAAAATTACCATTTTACCCTCGAATG
* * * * ***
26594281 TCTAAAAATTC-CATTTTTGACCTCGAACTTTTTGAAAATTACCATTTTACCCTCG-A-G
1 TCCAAAAA-TCACATTTTTGACCCCTAAATTTCCAAAAATTACCATTTTACCCTCGAATG
** * **
26594338 -CGCAAAAATTTCATTTTTGACCCCAAAATTTCCAAAAACCACCATTTTACCCTC-AGATG
1 TC-CAAAAATCACATTTTTGACCCCTAAATTTCCAAAAATTACCATTTTACCCTCGA-ATG
*
26594397 TTCC-AAAATTACATTTTT
1 -TCCAAAAATCACATTTTT
26594415 CCATCGAGTG
Statistics
Matches: 255, Mismatches: 34, Indels: 38
0.78 0.10 0.12
Matches are distributed among these distances:
56 2 0.01
57 46 0.18
58 104 0.41
59 95 0.37
60 7 0.03
61 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (59 bp):
TCCAAAAATCACATTTTTGACCCCTAAATTTCCAAAAATTACCATTTTACCCTCGAATG
Found at i:26594274 original size:29 final size:29
Alignment explanation
Indices: 26594017--26594332 Score: 197
Period size: 29 Copynumber: 10.8 Consensus size: 29
26594007 ACCTCTAAAG
* *
26594017 TTTTCAAAAATTATA-TTTAACCCCTAAAC
1 TTTTCAAAAATTACATTTTTACCCC-AAAC
* *
26594046 TTTCCAAAAATTACATTTTCACCCCTAAAC
1 TTTTCAAAAATTACATTTTTACCCC-AAAC
* * *
26594076 TTCT-AAAAATTACATTTTTAACTCGAAAC
1 TTTTCAAAAATTACATTTTT-ACCCCAAAC
* *
26594105 TTTTCAAAAATCACATTTTTACCGCTAAAC
1 TTTTCAAAAATTACATTTTTACC-CCAAAC
* * *
26594135 -TTCCAAAAATTATATTTTTGACCCGAAAC
1 TTTTCAAAAATTACATTTTT-ACCCCAAAC
* * *
26594164 -TTTCCAAAATCACATTTTTGCCCCTAAA-
1 TTTTCAAAAATTACATTTTTACCCC-AAAC
* *
26594192 TTTCCAAAAATTACCA-TTTTACCCTCGAA-
1 TTTTCAAAAATTA-CATTTTTACCC-CAAAC
* *
26594221 TGTCCAAAAATT-CTATTTTTGACCCCAAAC
1 TTTTCAAAAATTAC-ATTTTT-ACCCCAAAC
26594251 TTTTCAAAAATTAGCA-TTTTACCCCAAA-
1 TTTTCAAAAATTA-CATTTTTACCCCAAAC
* * * *
26594279 -TGTCTAAAAATTCCATTTTTGACCTCGAAC
1 TTTTC-AAAAATTACATTTTT-ACCCCAAAC
**
26594309 TTTTTGAAAATTACCA-TTTTACCC
1 TTTTCAAAAATTA-CATTTTTACCC
26594333 TCGAGCGCAA
Statistics
Matches: 226, Mismatches: 40, Indels: 42
0.73 0.13 0.14
Matches are distributed among these distances:
27 6 0.03
28 15 0.07
29 128 0.57
30 71 0.31
31 5 0.02
32 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (29 bp):
TTTTCAAAAATTACATTTTTACCCCAAAC
Found at i:26594307 original size:87 final size:87
Alignment explanation
Indices: 26594136--26594297 Score: 222
Period size: 87 Copynumber: 1.9 Consensus size: 87
26594126 CCGCTAAACT
* * * *
26594136 TCCAAAAATTATATTTTTGACCCGAAACTTTCCAAAATCACATTTTTGCCCCTAAATTTCCAAAA
1 TCCAAAAATTATATTTTTGACCCCAAACTTTCAAAAATCACATTTTTACCCCTAAATGTCCAAAA
26594201 ATTACCATTTTACCCTCGAATG
66 ATTACCATTTTACCCTCGAATG
* * *
26594223 TCCAAAAATTCTATTTTTGACCCCAAACTTTTCAAAAATTAGCA-TTTTACCCC-AAATGTCTAA
1 TCCAAAAATTATATTTTTGACCCCAAAC-TTTCAAAAATCA-CATTTTTACCCCTAAATGTCCAA
26594286 AAATT-CCATTTT
64 AAATTACCATTTT
26594298 TGACCTCGAA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
86 7 0.11
87 39 0.59
88 18 0.27
89 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (87 bp):
TCCAAAAATTATATTTTTGACCCCAAACTTTCAAAAATCACATTTTTACCCCTAAATGTCCAAAA
ATTACCATTTTACCCTCGAATG
Done.