Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 133 of 356
Found at i:42603412 original size:42 final size:43
Alignment explanation
Indices: 42603312--42603430 Score: 143
Period size: 42 Copynumber: 2.8 Consensus size: 43
42603302 GACAAGTACA
* * **
42603312 ATGCCGACGTCCCAGACGTGGTCTTACATGTAATTCAGTATCG
1 ATGCCGATGTCCCAGACATGGTCTTACATGTAAAACAGTATCG
** *
42603355 ATGCCTCTGTCCCAGACATGGTCTTATATG-AAAACAG-ATACG
1 ATGCCGATGTCCCAGACATGGTCTTACATGTAAAACAGTAT-CG
*
42603397 ATGCCGATGTCCCAGACATGGTCTTACACGTAAA
1 ATGCCGATGTCCCAGACATGGTCTTACATGTAAA
42603431 TTTCAAATCG
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.03
42 33 0.52
43 28 0.44
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACATGGTCTTACATGTAAAACAGTATCG
Found at i:42603467 original size:86 final size:85
Alignment explanation
Indices: 42603312--42603468 Score: 217
Period size: 86 Copynumber: 1.8 Consensus size: 85
42603302 GACAAGTACA
* * * * * *
42603312 ATGCCGACGTCCCAGACGTGGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCAGACATGGT
1 ATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAGAATCGATGCCACTGTCCCAGACACGAT
42603377 CTTATATGAAAACAGATACG
66 CTTATATGAAAACAGATACG
* *
42603397 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATTTCA-AATCGATGCCAGTGTCCCAGACACG
1 ATGCCGACGTCCCAGACATGGTCTTACACGT-AA-TTCAGAATCGATGCCACTGTCCCAGACACG
42603461 ATCTTATA
64 ATCTTATA
42603469 CGATAATTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 28 0.45
86 30 0.48
87 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (85 bp):
ATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAGAATCGATGCCACTGTCCCAGACACGAT
CTTATATGAAAACAGATACG
Found at i:42613059 original size:49 final size:49
Alignment explanation
Indices: 42613002--42613799 Score: 1285
Period size: 49 Copynumber: 16.5 Consensus size: 49
42612992 TTATTCATTG
* * * *
42613002 GAAAGTGTATATATTTGTGATAAGGCCTAATAGCCAATGTGACGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
42613051 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
42613100 GAAAGTG--TATATATGTGGTAAGGCCGAATGGCCCATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
42613147 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
42613196 GAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
42613245 GAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
42613294 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
42613343 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
42613392 GAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
42613441 GAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
42613490 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
42613539 GAAAGTG--TATATATGTGACAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
42613586 GAAAGTGTATATATATGTGATAAGGCCTAATGGACGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
42613635 GAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
42613682 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * *
42613731 GAAAGTG--TATATATGTGA-CAGGGCTGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGT
42613778 GAAAGTGTATA-A-ATGTGATAAG
1 GAAAGTGTATATATATGTGATAAG
42613800 TCCCGAAGGG
Statistics
Matches: 698, Mismatches: 41, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
46 5 0.01
47 173 0.25
48 3 0.00
49 517 0.74
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:42615423 original size:21 final size:20
Alignment explanation
Indices: 42615399--42615438 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
42615389 TGGGCTTTGA
42615399 AGAACACGAAGAAACTATCAC
1 AGAA-ACGAAGAAACTATCAC
* *
42615420 AGAAACGTAGAAATTATCA
1 AGAAACGAAGAAACTATCA
42615439 AAAACGGACG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.15
Consensus pattern (20 bp):
AGAAACGAAGAAACTATCAC
Found at i:42618196 original size:20 final size:20
Alignment explanation
Indices: 42618130--42618196 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
42618120 ATTTTGATAA
* *
42618130 ACATGGTATGTATTATATGC
1 ACATGATATGTATGATATGC
*
42618150 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
42618170 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
42618190 ACGTGAT
1 ACATGAT
42618197 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:42618278 original size:24 final size:24
Alignment explanation
Indices: 42618246--42618399 Score: 263
Period size: 24 Copynumber: 6.4 Consensus size: 24
42618236 GAGGAAGTGC
42618246 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
42618270 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
42618294 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
42618318 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
42618342 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
42618366 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
42618390 AAAAGAGGCT
1 AAAAG-GGCT
42618400 AGGCCTCTAG
Statistics
Matches: 122, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
24 118 0.97
25 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:42620802 original size:40 final size:40
Alignment explanation
Indices: 42620758--42620833 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
42620748 CGGCTAATAA
42620758 TGGCAC-TTAGTGTGCGATTTG-GAATAGCTTCGGCTAAATG
1 TGGCACATT-GTGTGCGATTTGTG-ATAGCTTCGGCTAAATG
*
42620798 TGGCACATTGTGTGCGTTTTGTGATAGCTTCGGCTA
1 TGGCACATTGTGTGCGATTTGTGATAGCTTCGGCTA
42620834 TATATATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
40 30 0.91
41 3 0.09
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.36
Consensus pattern (40 bp):
TGGCACATTGTGTGCGATTTGTGATAGCTTCGGCTAAATG
Found at i:42622356 original size:31 final size:31
Alignment explanation
Indices: 42622318--42622381 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
42622308 CCTTTTCATA
42622318 TTTCATATTTCATAACACTGGGCCGAAGACT
1 TTTCATATTTCATAACACTGGGCCGAAGACT
* * *
42622349 TTTCATATTTCATAACATTTGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGACT
42622380 TT
1 TT
42622382 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGACT
Found at i:42622619 original size:25 final size:24
Alignment explanation
Indices: 42622595--42622672 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 24
42622585 GACCTACCCT
42622595 CTTTTAAT-AACTGGGGCAAAGCC
1 CTTTTAATAAACTGGGGCAAAGCC
** **
42622618 CTTTCCATAAACTTGGGAAAAAGCC
1 CTTTTAATAAAC-TGGGGCAAAGCC
42622643 CTTTTAATAAACTGGGGCAAAAGCC
1 CTTTTAATAAACTGGGGC-AAAGCC
42622668 CTTTT
1 CTTTT
42622673 CGGTAAAGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
23 6 0.14
24 7 0.16
25 31 0.70
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (24 bp):
CTTTTAATAAACTGGGGCAAAGCC
Found at i:42622679 original size:26 final size:25
Alignment explanation
Indices: 42622595--42622697 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 25
42622585 GACCTACCCT
42622595 CTTTT-AAT-AACTGGGGCAAAGCC
1 CTTTTCAATAAACTGGGGCAAAGCC
* **
42622618 C-TTTCCATAAACTTGGGAAAAAGCC
1 CTTTTCAATAAAC-TGGGGCAAAGCC
42622643 CTTTT-AATAAACTGGGGCAAAAGCC
1 CTTTTCAATAAACTGGGGC-AAAGCC
** * * *
42622668 CTTTTCGGTAAAGTGGAGCATAGCC
1 CTTTTCAATAAACTGGGGCAAAGCC
42622693 CTTTT
1 CTTTT
42622698 TGCACTCCCT
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
22 3 0.05
23 3 0.05
24 7 0.11
25 38 0.60
26 12 0.19
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (25 bp):
CTTTTCAATAAACTGGGGCAAAGCC
Found at i:42630442 original size:31 final size:31
Alignment explanation
Indices: 42630407--42630470 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
42630397 CCTTTTCATA
42630407 TTTCATATTTCATAACACTAGGCCAAAGCCT
1 TTTCATATTTCATAACACTAGGCCAAAGCCT
*
42630438 TTTCATATTTCATAACACTGGGCCAAAGCCT
1 TTTCATATTTCATAACACTAGGCCAAAGCCT
42630469 TT
1 TT
42630471 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCAAAGCCT
Found at i:42630735 original size:25 final size:25
Alignment explanation
Indices: 42630696--42630769 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
42630686 TTTAATAACT
*
42630696 GGGGC-AAATCCCTTTCGATAAACC
1 GGGGCAAAAGCCCTTTCGATAAACC
* ** *
42630720 GTGGCAAAAGCCCTTTTAATAAACT
1 GGGGCAAAAGCCCTTTCGATAAACC
* *
42630745 GGGGCAGAAGCCCTTTTCGGTAAAC
1 GGGGCAAAAGCCC-TTTCGATAAAC
42630770 TAGGGCATAA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 4 0.11
25 26 0.68
26 8 0.21
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (25 bp):
GGGGCAAAAGCCCTTTCGATAAACC
Found at i:42630775 original size:26 final size:25
Alignment explanation
Indices: 42630722--42630786 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
42630712 GATAAACCGT
*
42630722 GGCAAAAGCCCTTTTAATAAACTGG
1 GGCAAAAGCCCTTTTAATAAACTAG
* **
42630747 GGCAGAAGCCCTTTTCGGTAAACTAG
1 GGCAAAAGCCCTTTT-AATAAACTAG
*
42630773 GGCATAA-CCCTTTT
1 GGCAAAAGCCCTTTT
42630787 TACACTTCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 21 0.62
26 13 0.38
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (25 bp):
GGCAAAAGCCCTTTTAATAAACTAG
Found at i:42630788 original size:51 final size:48
Alignment explanation
Indices: 42630685--42630786 Score: 118
Period size: 51 Copynumber: 2.1 Consensus size: 48
42630675 GCCTAGCCTA
* *
42630685 TTTTAATAACTGGGGCAAATCCCTTTCGATAAACCGTGGCAAAAGCCC
1 TTTTAATAACTGGGGCAAAGCCCTTTCGATAAACAGTGGCAAAAGCCC
* *
42630733 TTTTAATAAACTGGGGCAGAAGCCCTTTTCGGTAAACTAG-GGCATAA-CCC
1 TTTTAAT-AACTGGGGCA-AAGCCC-TTTCGATAAAC-AGTGGCAAAAGCCC
42630783 TTTT
1 TTTT
42630787 TACACTTCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
48 7 0.15
49 10 0.22
50 12 0.26
51 16 0.35
52 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (48 bp):
TTTTAATAACTGGGGCAAAGCCCTTTCGATAAACAGTGGCAAAAGCCC
Found at i:42630856 original size:9 final size:9
Alignment explanation
Indices: 42630842--42630898 Score: 69
Period size: 9 Copynumber: 5.9 Consensus size: 9
42630832 ACATCATGTG
42630842 CATATCATA
1 CATATCATA
42630851 CATATCATGTA
1 CATATCA--TA
42630862 CATATCATA
1 CATATCATA
42630871 CATATCATA
1 CATATCATA
*
42630880 TGCATATTATA
1 --CATATCATA
42630891 CATATCAT
1 CATATCAT
42630899 GTGCATATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 25 0.60
11 17 0.40
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.37
Consensus pattern (9 bp):
CATATCATA
Found at i:42630857 original size:20 final size:20
Alignment explanation
Indices: 42630834--42630920 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
42630824 TTATGAATAC
42630834 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
42630854 ATCATGTACATATCATACAT
1 ATCATGTGCATATCATACAT
* *
42630874 ATCATATGCATATTATACAT
1 ATCATGTGCATATCATACAT
42630894 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
42630914 ATCATGT
1 ATCATGT
42630921 ATATCAAAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:42630863 original size:11 final size:11
Alignment explanation
Indices: 42630834--42630921 Score: 66
Period size: 9 Copynumber: 8.7 Consensus size: 11
42630824 TTATGAATAC
*
42630834 ATCATGTGCAT
1 ATCATGTACAT
42630845 ATCA--TACAT
1 ATCATGTACAT
42630854 ATCATGTACAT
1 ATCATGTACAT
42630865 ATCA--TACAT
1 ATCATGTACAT
* *
42630874 ATCATATGCAT
1 ATCATGTACAT
*
42630885 AT--TATACAT
1 ATCATGTACAT
*
42630894 ATCATGTGCAT
1 ATCATGTACAT
*
42630905 ATCATAT-CA-
1 ATCATGTACAT
42630914 ATCATGTA
1 ATCATGTA
42630922 TATCAAAACC
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
9 31 0.49
10 2 0.03
11 30 0.48
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:42634192 original size:50 final size:49
Alignment explanation
Indices: 42634121--42634305 Score: 228
Period size: 50 Copynumber: 3.7 Consensus size: 49
42634111 TGAATACACA
* *
42634121 TGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTTAAGTCGCATG
* * * *
42634171 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATG-TTAAGTCGCATG
* * *
42634221 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTTGA-TCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTTAAGTCGCATG
* * *
42634270 TGTAGTATTAAGTGCAGGCTACTATGCGTATCAGAT
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
42634306 ATCTTCAGCT
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.01
49 37 0.32
50 75 0.65
51 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTTAAGTCGCATG
Found at i:42634293 original size:99 final size:100
Alignment explanation
Indices: 42634121--42634305 Score: 282
Period size: 99 Copynumber: 1.9 Consensus size: 100
42634111 TGAATACACA
* * *
42634121 TGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCATGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACTAAGTGC
*
42634186 AGGCTACTACGTGTATCAGATGATGAGGTCACGTG
66 AGGCTACTACGCGTATCAGATGATGAGGTCACGTG
* * * *
42634221 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTTGA-TCGCATGTGTAGTATTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACTAAGTGC
*
42634285 AGGCTACTATGCGTATCAGAT
66 AGGCTACTACGCGTATCAGAT
42634306 ATCTTCAGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
99 40 0.53
100 36 0.47
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (100 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACTAAGTGC
AGGCTACTACGCGTATCAGATGATGAGGTCACGTG
Found at i:42646649 original size:52 final size:52
Alignment explanation
Indices: 42646571--42646677 Score: 178
Period size: 52 Copynumber: 2.1 Consensus size: 52
42646561 TTGATAAAGT
* *
42646571 ATGCAAGAAATGTCCTTTGATAGTTAGAGGTCAGTGTTTTCCAATCGATTTG
1 ATGCAAGAAATGTCCTTTGATAGTTAGAGGTCAGTGTTTTCCAACCGATTGG
* *
42646623 ATGCAATAAATGTCCTTTGATAGTTAGAGGTCATTGTTTTCCAACCGATTGG
1 ATGCAAGAAATGTCCTTTGATAGTTAGAGGTCAGTGTTTTCCAACCGATTGG
42646675 ATG
1 ATG
42646678 TTGTTACCAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.36
Consensus pattern (52 bp):
ATGCAAGAAATGTCCTTTGATAGTTAGAGGTCAGTGTTTTCCAACCGATTGG
Found at i:42653509 original size:12 final size:12
Alignment explanation
Indices: 42653439--42653502 Score: 94
Period size: 12 Copynumber: 5.3 Consensus size: 12
42653429 GGATATTCGT
*
42653439 AATTTTGAATTA
1 AATTGTGAATTA
*
42653451 AATATGT-TATTA
1 AAT-TGTGAATTA
42653463 AATTGTGAATTA
1 AATTGTGAATTA
42653475 AATTGTGAATTA
1 AATTGTGAATTA
42653487 AATTGTGAATTA
1 AATTGTGAATTA
42653499 AATT
1 AATT
42653503 TGTAATTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
11 3 0.06
12 42 0.89
13 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (12 bp):
AATTGTGAATTA
Found at i:42659224 original size:40 final size:40
Alignment explanation
Indices: 42659144--42659368 Score: 294
Period size: 40 Copynumber: 5.6 Consensus size: 40
42659134 AACCCAAGTA
* ** *
42659144 CCTTCGGGATTTAG-CCGGATATAG-CAACTCCCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
42659183 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42659223 CCTTCGGGACTTAGCCCGGGTATA-TCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATG
*
42659266 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
42659306 CCTTCGGGACTTAGCCCGAATATGGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42659346 CCTTTGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42659369 CATCCGAATA
Statistics
Matches: 165, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 14 0.08
40 113 0.68
41 1 0.01
43 35 0.21
44 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42659272 original size:83 final size:82
Alignment explanation
Indices: 42659144--42659368 Score: 309
Period size: 83 Copynumber: 2.8 Consensus size: 82
42659134 AACCCAAGTA
* * * *
42659144 CCTTCGGGATTTAG-CCGGATATAGCAACT-CC-CACACATGCCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATATCAACTACCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
42659206 AGTCACTAGCACAAATG
66 AGTCACTAGCACAAATG
* *
42659223 CCTTCGGGACTTAGCCCGGGTATATCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATATCAACTAC-CGCACAAATGCCTTCGGGACTTAGCCCGGATA
42659288 TAGTCACTAGCACAAATG
65 TAGTCACTAGCACAAATG
* * *
42659306 CCTTCGGGACTTAGCCCGAATATGGTC-ACTA--GCACAAATGCCTTTGGGACTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATAT-ATCAACTACCGCACAAATGCCTTCGGGACTTAGCCCGGATA
42659368 T
65 T
42659369 CATCCGAATA
Statistics
Matches: 130, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
79 13 0.10
80 43 0.33
81 1 0.01
82 1 0.01
83 70 0.54
84 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (82 bp):
CCTTCGGGACTTAGCCCGGATATATCAACTACCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
AGTCACTAGCACAAATG
Found at i:42677704 original size:623 final size:619
Alignment explanation
Indices: 42677701--42680307 Score: 3796
Period size: 616 Copynumber: 4.3 Consensus size: 619
42677691 ATTGATATAC
* * *
42677701 ATAATCATAAGGAAACAAACATATATATTTTATACTACAAACTTACCTCGACAAATATAGTTTTA
1 ATAATCATAAGGAAACAAACATATATATTATATACTACAAACTTTCCTCGACAAATATAGTTGTA
* *
42677766 AAAATGAAGCAGTCGACTAATCTGACACATTAGCTTTTCCTCGGTTTAAATCCGTTTGGTTCGTT
66 AAAATGAAGCAGCCGACTAATCTGACACATTAGCTTTTCCTCGGTTTAGATCCGTTTGGTTCGTT
*
42677831 TCTTGATCACGCATGTAAAAACTCCATGACC-AGAGCTTCTTCCTCTCTGTTATTCGGTTTGCAA
131 TCTTGATCATGCATGTAAAAACTCCATGACCGA-AGCTTCTTCCTCTCTGTTATTCGGTTTGCAA
* *
42677895 AATACCAAATTAGAGGAGATGATAACATTTTTGTCTTTTAGTTTGTTTTAATTTCCATTTGATTA
195 AATAGCAAATTAGAGGAGATGATAACATTTTTGTCTGTTAGTTTGTTTTAATTTCCATTTG-TTA
* * *
42677960 CAAATTTACAATTTTCCCTTAAAAAATCAAATTTCTTGCATTTAATCGCCCAAAA-CATCCACTC
259 CAAATTTACAATTTTCCCTAAAAAAATCAAATTTCATGCATTTAATCACCCAAAACCATCCACTC
* *
42678024 AAACTTCTTTTGGTGCATTTACCATTTAAGTCC-ATCAGTTTGATAATCCATAATAAATTGACCC
324 AAAGTTCATTTGGTGCATTTACCATTTAAGTCCAAT-AGTTTGATAATCCATAATAAATTGACCC
42678088 CTTTACCTAATAGAAATCTA-TTTTGCACCTTTTTCAATTTAGTGATTTTTACTTAATTAATTAT
388 CTTTACCTAATAGAAATCTATTTTTGCACCTTTTTCAATTTAGTGATTTTTACTTAATTAATTAT
* * * * *
42678152 CTGTGCACATATTATTAATCTGTTAGAGTCATTTCAAAATTGTG-AACCACAAGATTTGCCATGA
453 CTGTACACATAATATAAATCTGTTACA-TCATTTCAAAATTGTGAAACCACAAGATTTGCCACGA
*
42678216 CCAAATATTCATTTTCCATTTGTACTTAATTCCAACATTTAAGAATTTACAAGCAAACGATGAAA
517 CCAAATATTCATTTTCCATTTGTACTTAATTCCAACATTTAATAATTTACAAGCAAAC-ATGAAA
*
42678281 TTTTCACATTAATTATAATTTAACTAACTATTGATATAC
581 TTTTCACATTAATTATAATTTAACTAACAATTGATATAC
*
42678320 ATAATCAT-A-G--ACAAACATAT-TATTATAT-CTACAAAC-TTAC-CGAC-AATATAGTTGT-
1 ATAATCATAAGGAAACAAACATATATATTATATACTACAAACTTTCCTCGACAAATATAGTTGTA
* *
42678375 --AATGAAGCAGCCGACTAAT-TGACA-ATT-GCTTTT-CTC-GTTTA-ATCTGGTT--TTCGTT
66 AAAATGAAGCAGCCGACTAATCTGACACATTAGCTTTTCCTCGGTTTAGATCCGTTTGGTTCGTT
*
42678430 TCTTGATCATGCATGT----ACT-C-T-ACC--AGACTTCTTCCTCTCTGTTATTCAG-TTG--A
131 TCTTGATCATGCATGTAAAAACTCCATGACCGAAG-CTTCTTCCTCTCTGTTATTCGGTTTGCAA
*
42678483 AAT---AAATT--AGGAGATGAT-AC-TTTTTGTCT-TTTGTTTGTTTT-ATTT-CA-TTGTT-C
195 AATAGCAAATTAGAGGAGATGATAACATTTTTGTCTGTTAGTTTGTTTTAATTTCCATTTGTTAC
* *
42678536 --ATTTAC-ATTTT-CCT-TAAAAATCAAA-TTCTTGCATTTAATCACCC-AAACCATCCACTCA
260 AAATTTACAATTTTCCCTAAAAAAATCAAATTTCATGCATTTAATCACCCAAAACCATCCACTCA
* *
42678594 AAGTTCATTTGGTGCATTTACCATTTAAGTCCATTAGTTTGATAATCCATAATAAATTGGCCCCT
325 AAGTTCATTTGGTGCATTTACCATTTAAGTCCAATAGTTTGATAATCCATAATAAATTGACCCCT
* ** * * *
42678659 TTACCTAATAGAAATCTATTTTGGCTGCTTTTACAATTTACTGATTTTTACTTAATTAATTATTT
390 TTACCTAATAGAAATCTATTTTTGCACCTTTTTCAATTTAGTGATTTTTACTTAATTAATTATCT
* *
42678724 GTACACATAATATAAATCTGTTACATTCATTTCAAAATTGTGAAGCCACAAGATTTACCACGACC
455 GTACACATAATATAAATCTGTTACA-TCATTTCAAAATTGTGAAACCACAAGATTTGCCACGACC
* * * *
42678789 -AATATTCAATTTCCATTTGTACTTACTTCCAACATTTAATAAATTACAAGCAAACAAAGAAA-T
519 AAATATTCATTTTCCATTTGTACTTAATTCCAACATTTAATAATTTACAAGCAAAC-ATGAAATT
* * *
42678852 TTAACATTAATTATAATTTAACTAACTATTGATGTAC
583 TTCACATTAATTATAATTTAACTAACAATTGATATAC
* * *
42678889 ATAATCAAAAGGAATCAAACA-ATATA-TATATACTACAAAC-TTCCTCGACAAATATAGTTCTA
1 ATAATCATAAGGAAACAAACATATATATTATATACTACAAACTTTCCTCGACAAATATAGTTGTA
* *
42678951 AAAATGAAGCAGCCGACTAATCTGACATATTAGCTTTTCCTC-GTTTAGATCCGTTTGGTTCATT
66 AAAATGAAGCAGCCGACTAATCTGACACATTAGCTTTTCCTCGGTTTAGATCCGTTTGGTTCGTT
* *
42679015 TCTGGATCATGCATGT-AAAACTACATGACCGACAGCTTCTTCCTCTCTGTTATTCGGTTTGC-A
131 TCTTGATCATGCATGTAAAAACTCCATGACCGA-AGCTTCTTCCTCTCTGTTATTCGGTTTGCAA
* *
42679078 AATAGCAAATTAGAGGAGATGATAACATTTTTGTCTGTTGGTTTGTTTTATTTTCCATTTAGTTA
195 AATAGCAAATTAGAGGAGATGATAACATTTTTGTCTGTTAGTTTGTTTTAATTTCCATTT-GTTA
*
42679143 CAAATTTACAATTTTTCCCAAAAAAAAATCAAATTTCATGCATTTAATCACCCAAAACCATCCAC
259 CAAATTTACAA-TTTTCCC-TAAAAAAATCAAATTTCATGCATTTAATCACCCAAAACCATCCAC
* *
42679208 TCAAAGTTCATTTGGTGCATTTACCATTTAAGTCCAATAGTTTGATAATCCATATTAAGTTGACC
322 TCAAAGTTCATTTGGTGCATTTACCATTTAAGTCCAATAGTTTGATAATCCATAATAAATTGACC
* *
42679273 CCTTTAGCTAATAGAAATCTATTTTTGCACCTTTTT-AATTTAGTGATTTTTAGTTAATTAATTA
387 CCTTTACCTAATAGAAATCTATTTTTGCACCTTTTTCAATTTAGTGATTTTTACTTAATTAATTA
*
42679337 TCTGTACACATAATATAAATCTGTTACATCCCTTTCAAAATTGTGAAACCACAAGATTTGCCACG
452 TCTGTACACATAATATAAATCTGTTACAT-CATTTCAAAATTGTGAAACCACAAGATTTGCCACG
*
42679402 ACCAAATATTCATTTTCCGTTTGTACTTAATTCCAACATTTAATAATTTACAAGCAAACATTGAA
516 ACCAAATATTCATTTTCCATTTGTACTTAATTCCAACATTTAATAATTTACAAGCAAACA-TGAA
42679467 ATTTTCACATTAATTATAATTTAACTAACAATTGATATAC
580 ATTTTCACATTAATTATAATTTAACTAACAATTGATATAC
*
42679507 ATAATCATAAGGAAACAAACATATATATTATATACTACAAACTTACCTCGACAAATATAGTTGTA
1 ATAATCATAAGGAAACAAACATATATATTATATACTACAAACTTTCCTCGACAAATATAGTTGTA
* *
42679572 AAAATGATGCAGCCGACTAATCTGAGACATTAGCTTTTCCTCGGTTTAGATCCGTTTGGTTCGTT
66 AAAATGAAGCAGCCGACTAATCTGACACATTAGCTTTTCCTCGGTTTAGATCCGTTTGGTTCGTT
*
42679637 TCTTGATCATGAATGTAAAAACTCCATGACCGGAAGCTTCTTCCTCTCTGTTATTCGGTTTGCAA
131 TCTTGATCATGCATGTAAAAACTCCATGACC-GAAGCTTCTTCCTCTCTGTTATTCGGTTTGCAA
* *
42679702 AATACCAAATTAGAGGAGATGATAACATTTTTGTCTTTTAGTTTGTTTTAATTTCCATTTGGTTA
195 AATAGCAAATTAGAGGAGATGATAACATTTTTGTCTGTTAGTTTGTTTTAATTTCCATTT-GTTA
*
42679767 CAAATTTACAATTTTCCCTTAAAAAATC-AATTTC-TAGCATTTAATCACCCAAAACCATCCACT
259 CAAATTTACAATTTTCCCTAAAAAAATCAAATTTCAT-GCATTTAATCACCCAAAACCATCCACT
* *
42679830 C-AAGTTCATTTGGTGCATTTCCCATTTAAGTCCATTAGTTTGATAATCCATAATAAATTGACCC
323 CAAAGTTCATTTGGTGCATTTACCATTTAAGTCCAATAGTTTGATAATCCATAATAAATTGACCC
*
42679894 CTTTACCTAATAGAAATCTA-TTTTGCACCTTTCTCAATTTAGTGA-TTTTACTTAATTAATTAT
388 CTTTACCTAATAGAAATCTATTTTTGCACCTTTTTCAATTTAGTGATTTTTACTTAATTAATTAT
*
42679957 CTGTACACATAATACT-AATCTGTTACAGTCATTTC-AAATTGTGAAACCACAAGATTTGCCATG
453 CTGTACACATAATA-TAAATCTGTTACA-TCATTTCAAAATTGTGAAACCACAAGATTTGCCACG
* * *
42680020 ACCAAATATTTATTCTCCATTTGTACTTAATTCCAACATTTAAGAA-TTACAAGC-AACAATGAA
516 ACCAAATATTCATTTTCCATTTGTACTTAATTCCAACATTTAATAATTTACAAGCAAAC-ATGAA
42680083 ATTTTCACATTAATTATAATTTAACTAACAATTGATATAC
580 ATTTTCACATTAATTATAATTTAACTAACAATTGATATAC
*
42680123 ATAATCATAAGGAAACAAACATATATATTATATACTACAAACTTACCTCGACAAATATAGTTGTA
1 ATAATCATAAGGAAACAAACATATATATTATATACTACAAACTTTCCTCGACAAATATAGTTGTA
* * * *
42680188 AAAATGATGCAGCCGACTAATCTGACACATTAGCTTTTCCTCGGTTTAAATCTGGTTGGTTCGTT
66 AAAATGAAGCAGCCGACTAATCTGACACATTAGCTTTTCCTCGGTTTAGATCCGTTTGGTTCGTT
42680253 TCTTGATCATGCATGTAAAAACTCCATGACCAGAAGCTTCTTCCTCTCTGTTATT
131 TCTTGATCATGCATGTAAAAACTCCATGACC-GAAGCTTCTTCCTCTCTGTTATT
42680308 GTACACCCGA
Statistics
Matches: 1804, Mismatches: 112, Indels: 147
0.87 0.05 0.07
Matches are distributed among these distances:
568 3 0.00
569 148 0.08
570 145 0.08
571 23 0.01
572 12 0.01
573 25 0.01
574 4 0.00
575 11 0.01
576 2 0.00
577 3 0.00
578 21 0.01
579 9 0.00
580 14 0.01
581 15 0.01
582 10 0.01
583 16 0.01
585 25 0.01
588 7 0.00
589 1 0.00
590 6 0.00
591 24 0.01
592 3 0.00
593 22 0.01
594 6 0.00
595 7 0.00
598 5 0.00
599 21 0.01
600 10 0.01
601 8 0.00
602 14 0.01
603 14 0.01
604 9 0.00
605 5 0.00
606 7 0.00
607 21 0.01
608 1 0.00
610 16 0.01
611 5 0.00
612 6 0.00
613 10 0.01
614 7 0.00
615 21 0.01
616 333 0.18
617 168 0.09
618 124 0.07
619 73 0.04
620 105 0.06
621 93 0.05
622 43 0.02
623 49 0.03
624 74 0.04
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (619 bp):
ATAATCATAAGGAAACAAACATATATATTATATACTACAAACTTTCCTCGACAAATATAGTTGTA
AAAATGAAGCAGCCGACTAATCTGACACATTAGCTTTTCCTCGGTTTAGATCCGTTTGGTTCGTT
TCTTGATCATGCATGTAAAAACTCCATGACCGAAGCTTCTTCCTCTCTGTTATTCGGTTTGCAAA
ATAGCAAATTAGAGGAGATGATAACATTTTTGTCTGTTAGTTTGTTTTAATTTCCATTTGTTACA
AATTTACAATTTTCCCTAAAAAAATCAAATTTCATGCATTTAATCACCCAAAACCATCCACTCAA
AGTTCATTTGGTGCATTTACCATTTAAGTCCAATAGTTTGATAATCCATAATAAATTGACCCCTT
TACCTAATAGAAATCTATTTTTGCACCTTTTTCAATTTAGTGATTTTTACTTAATTAATTATCTG
TACACATAATATAAATCTGTTACATCATTTCAAAATTGTGAAACCACAAGATTTGCCACGACCAA
ATATTCATTTTCCATTTGTACTTAATTCCAACATTTAATAATTTACAAGCAAACATGAAATTTTC
ACATTAATTATAATTTAACTAACAATTGATATAC
Found at i:42680171 original size:616 final size:620
Alignment explanation
Indices: 42676289--42680307 Score: 6053
Period size: 623 Copynumber: 6.6 Consensus size: 620
42676279 AGTATTTTTA
*
42676289 TTAATTAATTATC-GTACACATAATATTAATCTG-TACAGTCATTTCAAAA-TGTG-AACCACAA
1 TTAATTAATTATCTGTACACATAATATAAATCTGTTACAGTCATTTCAAAATTGTGAAACCACAA
*
42676350 GATTTGCCATGA-CAAATATTCATTTCCATTTGTACTTAATTCCAACATTTAAGAATTTACAAGC
66 GATTTGCCACGACCAAATATTCATTTCCATTTGTACTTAATTCCAACATTTAAGAATTTACAAGC
42676414 AAAC-ATGAAATTTTCACATTAATTATAA-TTAACTAACAATTGATATA-ATAATCATAAGGAAA
131 AAACAATGAAATTTTCACATTAATTATAATTTAACTAACAATTGATATACATAATCATAAGGAAA
42676476 CAAACATATATATTATATACTACAAACTTACCTCGACAAATATAGTTGTAAAAATGAAGCAGCCG
196 CAAACATATATATTATATACTACAAACTTACCTCGACAAATATAGTTGTAAAAATGAAGCAGCCG
* *
42676541 ACTAATCTGACACATTAGCTTTT-CTC-GTTTAAATCTGGTTGG-TCGTTTCTTGATCATGCATG
261 ACTAATCTGACACATTAGCTTTTCCTCGGTTTAAATCCGTTTGGTTCGTTTCTTGATCATGCATG
* *
42676603 TAAAAACTCCATGACCGGAAGCTTCTTCCTCTCTGTTATTCAGTTTGCAAAATAGCAAATTAGAG
326 TAAAAACTCCATGACCAGAAGCTTCTTCCTCTCTGTTATTCGGTTTGC-AAATAGCAAATTAGAG
*
42676668 GAGATGATAACATTTTTGTCTTTTAGTTTGTTTTAATTTCCATTTGATTACAAATTTACAATTTT
390 GAGATGATAACATTTTTGTCTTTTAGTTTGTTTTAATTTCCATTTGGTTACAAATTTACAATTTT
*
42676733 TCCCTTAAAAAATCAAATTTCTTGCATTTAATCACCCAAAACCATCCACTCAAAGTTCATTTGGT
455 TCCCTTAAAAAATCAAATTTCTAGCATTTAATCACCCAAAACCATCCACTCAAAGTTCATTTGGT
*
42676798 GCA-TTACCATTTAAGTCCATTAGTTTGATAATCCATAATAAATTG-GCCCTTTACCTAATAGAA
520 GCATTTACCATTTAAGTCCATTAGTTTGATAATCCATAATAAATTGACCCCTTTACCTAATAGAA
* ** *
42676861 ATCTATTTGGCTGCTTTTACAATTTACTGATTTTTAC
585 ATCTATTTTGCACCTTTT-CAATTTAGTGATTTTTAC
* * *
42676898 TTAATTAATTATTTGTACACATAATATAAATCTGTTACATTCATTTCAAAATTGTGAAGCCACAA
1 TTAATTAATTATCTGTACACATAATATAAATCTGTTACAGTCATTTCAAAATTGTGAAACCACAA
* * * *
42676963 GATTTACCACGACCAAATATTCAATTTCCATTTGTACTTACTTCCAACATTTAATAAATTACAAG
66 GATTTGCCACGACCAAATATTC-ATTTCCATTTGTACTTAATTCCAACATTTAAGAATTTACAAG
* * * *
42677028 CAAACAA-GAAATTTTAACATTAATTATAATTTAACTAACTATTGATGTACATAATCAAAAGGAA
130 CAAACAATGAAATTTTCACATTAATTATAATTTAACTAACAATTGATATACATAATCATAAGGAA
* * *
42677092 TCAAACATATATATTATATACTACAAACTTTCCTCGACAAATATAGTTCTAAAAATGAAGCAGCC
195 ACAAACATATATATTATATACTACAAACTTACCTCGACAAATATAGTTGTAAAAATGAAGCAGCC
* * *
42677157 GACTAATCTGACACATTAGCTTTTCCTCGGTTTAGATCCGTTTGGTTCATTTCTGGATCATGCAT
260 GACTAATCTGACACATTAGCTTTTCCTCGGTTTAAATCCGTTTGGTTCGTTTCTTGATCATGCAT
*
42677222 GTAAAAACTACATGACC-GACAGCTTCTTCCTCTCTGTTATTCGGTTTGCAAATAGCAAATTAGA
325 GTAAAAACTCCATGACCAGA-AGCTTCTTCCTCTCTGTTATTCGGTTTGCAAATAGCAAATTAGA
* * * * * * *
42677286 GCAGATGATAACATTTTTGTCTGTTGGTTTGTTTCATTTTCCATTTAGTTACAAATTTGCAATTT
389 GGAGATGATAACATTTTTGTCTTTTAGTTTGTTTTAATTTCCATTTGGTTACAAATTTACAATTT
**
42677351 TTCCCCAAAAAAAATCAAATTTC-ATGCATTTAATCACCCAAAACCATCCACTCAAAGTTCATTT
454 TT-CCCTTAAAAAATCAAATTTCTA-GCATTTAATCACCCAAAACCATCCACTCAAAGTTCATTT
* * *
42677415 GGTGCATTTACCATTTAAGTCCAATAGTTTGATAATCCATATTAAATTGACCCCTTTAGCTAATA
517 GGTGCATTTACCATTTAAGTCCATTAGTTTGATAATCCATAATAAATTGACCCCTTTACCTAATA
* *
42677480 GAAATCTATTTTTGCACCTTTTTTAATTTAGTGATTTTTAG
582 GAAATCTA-TTTTGCACC-TTTTCAATTTAGTGATTTTTAC
*
42677521 TTAATTAATTATCTGTACACATAATATAAATCTGTTACA-TCCCTTTCAAAATTGTGAAACCACA
1 TTAATTAATTATCTGTACACATAATATAAATCTGTTACAGT-CATTTCAAAATTGTGAAACCACA
* * *
42677585 AGATTTTCCACGACC-AATATTCATTTTCCGTTTGTACTTAATTCCAACATTTAATAATTTACAA
65 AGATTTGCCACGACCAAATATTCA-TTTCCATTTGTACTTAATTCCAACATTTAAGAATTTACAA
*
42677649 GCAAACATTGAAATTTTCACATTAATTATAATTTAACTAACAATTGATATACATAATCATAAGGA
129 GCAAACAATGAAATTTTCACATTAATTATAATTTAACTAACAATTGATATACATAATCATAAGGA
* * *
42677714 AACAAACATATATATTTTATACTACAAACTTACCTCGACAAATATAGTTTTAAAAATGAAGCAGT
194 AACAAACATATATATTATATACTACAAACTTACCTCGACAAATATAGTTGTAAAAATGAAGCAGC
*
42677779 CGACTAATCTGACACATTAGCTTTTCCTCGGTTTAAATCCGTTTGGTTCGTTTCTTGATCACGCA
259 CGACTAATCTGACACATTAGCTTTTCCTCGGTTTAAATCCGTTTGGTTCGTTTCTTGATCATGCA
*
42677844 TGTAAAAACTCCATGACCAG-AGCTTCTTCCTCTCTGTTATTCGGTTTGCAAAATACCAAATTAG
324 TGTAAAAACTCCATGACCAGAAGCTTCTTCCTCTCTGTTATTCGGTTTGC-AAATAGCAAATTAG
*
42677908 AGGAGATGATAACATTTTTGTCTTTTAGTTTGTTTTAATTTCCATTTGATTACAAATTTACAA-T
388 AGGAGATGATAACATTTTTGTCTTTTAGTTTGTTTTAATTTCCATTTGGTTACAAATTTACAATT
* * * *
42677972 TTTCCCTTAAAAAATCAAATTTCTTGCATTTAATCGCCCAAAA-CATCCACTCAAACTTCTTTTG
453 TTTCCCTTAAAAAATCAAATTTCTAGCATTTAATCACCCAAAACCATCCACTCAAAGTTCATTTG
*
42678036 GTGCATTTACCATTTAAGTCCATCAGTTTGATAATCCATAATAAATTGACCCCTTTACCTAATAG
518 GTGCATTTACCATTTAAGTCCATTAGTTTGATAATCCATAATAAATTGACCCCTTTACCTAATAG
42678101 AAATCTATTTTGCACCTTTTTCAATTTAGTGATTTTTAC
583 AAATCTATTTTGCACC-TTTTCAATTTAGTGATTTTTAC
* * * *
42678140 TTAATTAATTATCTGTGCACATATTATTAATCTGTTAGAGTCATTTCAAAATTGTG-AACCACAA
1 TTAATTAATTATCTGTACACATAATATAAATCTGTTACAGTCATTTCAAAATTGTGAAACCACAA
*
42678204 GATTTGCCATGACCAAATATTCATTTTCCATTTGTACTTAATTCCAACATTTAAGAATTTACAAG
66 GATTTGCCACGACCAAATATTCA-TTTCCATTTGTACTTAATTCCAACATTTAAGAATTTACAAG
* *
42678269 CAAACGATGAAATTTTCACATTAATTATAATTTAACTAACTATTGATATACATAATCAT-A-G--
130 CAAACAATGAAATTTTCACATTAATTATAATTTAACTAACAATTGATATACATAATCATAAGGAA
42678330 ACAAACATAT-TATTATAT-CTACAAACTTA-C-CGAC-AATATAGTTGT---AATGAAGCAGCC
195 ACAAACATATATATTATATACTACAAACTTACCTCGACAAATATAGTTGTAAAAATGAAGCAGCC
* *
42678387 GACTAAT-TGACA-ATT-GCTTTT-CTC-GTTT-AATCTGGTT--TTCGTTTCTTGATCATGCAT
260 GACTAATCTGACACATTAGCTTTTCCTCGGTTTAAATCCGTTTGGTTCGTTTCTTGATCATGCAT
*
42678444 GT----ACT-C-T-ACCAG-A-CTTCTTCCTCTCTGTTATTCAG-TTG-AAAT---AAATT--AG
325 GTAAAAACTCCATGACCAGAAGCTTCTTCCTCTCTGTTATTCGGTTTGCAAATAGCAAATTAGAG
42678493 GAGATGAT-AC-TTTTTGTCTTTT-GTTTGTTTT-ATTT-CA-TT-GTT-C--ATTTAC-A-TTT
390 GAGATGATAACATTTTTGTCTTTTAGTTTGTTTTAATTTCCATTTGGTTACAAATTTACAATTTT
*
42678546 T-CCTT-AAAAATCAAA-TTCTTGCATTTAATCACCC-AAACCATCCACTCAAAGTTCATTTGGT
455 TCCCTTAAAAAATCAAATTTCTAGCATTTAATCACCCAAAACCATCCACTCAAAGTTCATTTGGT
*
42678607 GCATTTACCATTTAAGTCCATTAGTTTGATAATCCATAATAAATTGGCCCCTTTACCTAATAGAA
520 GCATTTACCATTTAAGTCCATTAGTTTGATAATCCATAATAAATTGACCCCTTTACCTAATAGAA
** *
42678672 ATCTATTTTGGCTGCTTTTACAATTTACTGATTTTTAC
585 ATCTATTTT-GCACCTTTT-CAATTTAGTGATTTTTAC
* * *
42678710 TTAATTAATTATTTGTACACATAATATAAATCTGTTACATTCATTTCAAAATTGTGAAGCCACAA
1 TTAATTAATTATCTGTACACATAATATAAATCTGTTACAGTCATTTCAAAATTGTGAAACCACAA
* * * *
42678775 GATTTACCACGACC-AATATTCAATTTCCATTTGTACTTACTTCCAACATTTAATAAATTACAAG
66 GATTTGCCACGACCAAATATTC-ATTTCCATTTGTACTTAATTCCAACATTTAAGAATTTACAAG
* * * * *
42678839 CAAACAAAGAAA-TTTAACATTAATTATAATTTAACTAACTATTGATGTACATAATCAAAAGGAA
130 CAAACAATGAAATTTTCACATTAATTATAATTTAACTAACAATTGATATACATAATCATAAGGAA
* *
42678903 TCAAACA-ATATA-TATATACTACAAACTT-CCTCGACAAATATAGTTCTAAAAATGAAGCAGCC
195 ACAAACATATATATTATATACTACAAACTTACCTCGACAAATATAGTTGTAAAAATGAAGCAGCC
* * * *
42678965 GACTAATCTGACATATTAGCTTTTCCTC-GTTTAGATCCGTTTGGTTCATTTCTGGATCATGCAT
260 GACTAATCTGACACATTAGCTTTTCCTCGGTTTAAATCCGTTTGGTTCGTTTCTTGATCATGCAT
*
42679029 GT-AAAACTACATGACC-GACAGCTTCTTCCTCTCTGTTATTCGGTTTGCAAATAGCAAATTAGA
325 GTAAAAACTCCATGACCAGA-AGCTTCTTCCTCTCTGTTATTCGGTTTGCAAATAGCAAATTAGA
* * * *
42679092 GGAGATGATAACATTTTTGTCTGTTGGTTTGTTTTATTTTCCATTTAGTTACAAATTTACAATTT
389 GGAGATGATAACATTTTTGTCTTTTAGTTTGTTTTAATTTCCATTTGGTTACAAATTTACAATTT
**
42679157 TTCCCAAAAAAAAATCAAATTTC-ATGCATTTAATCACCCAAAACCATCCACTCAAAGTTCATTT
454 TTCCC-TTAAAAAATCAAATTTCTA-GCATTTAATCACCCAAAACCATCCACTCAAAGTTCATTT
* * * *
42679221 GGTGCATTTACCATTTAAGTCCAATAGTTTGATAATCCATATTAAGTTGACCCCTTTAGCTAATA
517 GGTGCATTTACCATTTAAGTCCATTAGTTTGATAATCCATAATAAATTGACCCCTTTACCTAATA
* *
42679286 GAAATCTATTTTTGCACCTTTTTAATTTAGTGATTTTTAG
582 GAAATCTA-TTTTGCACCTTTTCAATTTAGTGATTTTTAC
*
42679326 TTAATTAATTATCTGTACACATAATATAAATCTGTTACA-TCCCTTTCAAAATTGTGAAACCACA
1 TTAATTAATTATCTGTACACATAATATAAATCTGTTACAGT-CATTTCAAAATTGTGAAACCACA
* *
42679390 AGATTTGCCACGACCAAATATTCATTTTCCGTTTGTACTTAATTCCAACATTTAATAATTTACAA
65 AGATTTGCCACGACCAAATATTCA-TTTCCATTTGTACTTAATTCCAACATTTAAGAATTTACAA
*
42679455 GCAAACATTGAAATTTTCACATTAATTATAATTTAACTAACAATTGATATACATAATCATAAGGA
129 GCAAACAATGAAATTTTCACATTAATTATAATTTAACTAACAATTGATATACATAATCATAAGGA
*
42679520 AACAAACATATATATTATATACTACAAACTTACCTCGACAAATATAGTTGTAAAAATGATGCAGC
194 AACAAACATATATATTATATACTACAAACTTACCTCGACAAATATAGTTGTAAAAATGAAGCAGC
* * *
42679585 CGACTAATCTGAGACATTAGCTTTTCCTCGGTTTAGATCCGTTTGGTTCGTTTCTTGATCATGAA
259 CGACTAATCTGACACATTAGCTTTTCCTCGGTTTAAATCCGTTTGGTTCGTTTCTTGATCATGCA
* *
42679650 TGTAAAAACTCCATGACCGGAAGCTTCTTCCTCTCTGTTATTCGGTTTGCAAAATACCAAATTAG
324 TGTAAAAACTCCATGACCAGAAGCTTCTTCCTCTCTGTTATTCGGTTTGC-AAATAGCAAATTAG
42679715 AGGAGATGATAACATTTTTGTCTTTTAGTTTGTTTTAATTTCCATTTGGTTACAAATTTACAA-T
388 AGGAGATGATAACATTTTTGTCTTTTAGTTTGTTTTAATTTCCATTTGGTTACAAATTTACAATT
42679779 TTTCCCTTAAAAAATC-AATTTCTAGCATTTAATCACCCAAAACCATCCACTC-AAGTTCATTTG
453 TTTCCCTTAAAAAATCAAATTTCTAGCATTTAATCACCCAAAACCATCCACTCAAAGTTCATTTG
*
42679842 GTGCATTTCCCATTTAAGTCCATTAGTTTGATAATCCATAATAAATTGACCCCTTTACCTAATAG
518 GTGCATTTACCATTTAAGTCCATTAGTTTGATAATCCATAATAAATTGACCCCTTTACCTAATAG
42679907 AAATCTATTTTGCACCTTTCTCAATTTAGTGA-TTTTAC
583 AAATCTATTTTGCACCTTT-TCAATTTAGTGATTTTTAC
42679945 TTAATTAATTATCTGTACACATAATACT-AATCTGTTACAGTCATTTC-AAATTGTGAAACCACA
1 TTAATTAATTATCTGTACACATAATA-TAAATCTGTTACAGTCATTTCAAAATTGTGAAACCACA
* *
42680008 AGATTTGCCATGACCAAATATTTATTCTCCATTTGTACTTAATTCCAACATTTAAGAA-TTACAA
65 AGATTTGCCACGACCAAATATTCATT-TCCATTTGTACTTAATTCCAACATTTAAGAATTTACAA
42680072 GC-AACAATGAAATTTTCACATTAATTATAATTTAACTAACAATTGATATACATAATCATAAGGA
129 GCAAACAATGAAATTTTCACATTAATTATAATTTAACTAACAATTGATATACATAATCATAAGGA
*
42680136 AACAAACATATATATTATATACTACAAACTTACCTCGACAAATATAGTTGTAAAAATGATGCAGC
194 AACAAACATATATATTATATACTACAAACTTACCTCGACAAATATAGTTGTAAAAATGAAGCAGC
* *
42680201 CGACTAATCTGACACATTAGCTTTTCCTCGGTTTAAATCTGGTTGGTTCGTTTCTTGATCATGCA
259 CGACTAATCTGACACATTAGCTTTTCCTCGGTTTAAATCCGTTTGGTTCGTTTCTTGATCATGCA
42680266 TGTAAAAACTCCATGACCAGAAGCTTCTTCCTCTCTGTTATT
324 TGTAAAAACTCCATGACCAGAAGCTTCTTCCTCTCTGTTATT
42680308 GTACACCCGA
Statistics
Matches: 3105, Mismatches: 203, Indels: 197
0.89 0.06 0.06
Matches are distributed among these distances:
568 3 0.00
569 158 0.05
570 136 0.04
571 25 0.01
572 12 0.00
573 25 0.01
574 4 0.00
575 11 0.00
576 2 0.00
577 2 0.00
578 21 0.01
579 9 0.00
580 12 0.00
581 18 0.01
582 9 0.00
583 16 0.01
585 25 0.01
588 7 0.00
589 1 0.00
590 5 0.00
591 24 0.01
592 7 0.00
593 22 0.01
594 4 0.00
595 7 0.00
598 5 0.00
599 21 0.01
600 10 0.00
601 9 0.00
602 15 0.00
603 12 0.00
604 9 0.00
605 5 0.00
606 7 0.00
607 21 0.01
608 1 0.00
609 12 0.00
610 35 0.01
611 20 0.01
612 9 0.00
613 30 0.01
614 16 0.01
615 86 0.03
616 351 0.11
617 264 0.09
618 149 0.05
619 336 0.11
620 319 0.10
621 168 0.05
622 150 0.05
623 401 0.13
624 79 0.03
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.37
Consensus pattern (620 bp):
TTAATTAATTATCTGTACACATAATATAAATCTGTTACAGTCATTTCAAAATTGTGAAACCACAA
GATTTGCCACGACCAAATATTCATTTCCATTTGTACTTAATTCCAACATTTAAGAATTTACAAGC
AAACAATGAAATTTTCACATTAATTATAATTTAACTAACAATTGATATACATAATCATAAGGAAA
CAAACATATATATTATATACTACAAACTTACCTCGACAAATATAGTTGTAAAAATGAAGCAGCCG
ACTAATCTGACACATTAGCTTTTCCTCGGTTTAAATCCGTTTGGTTCGTTTCTTGATCATGCATG
TAAAAACTCCATGACCAGAAGCTTCTTCCTCTCTGTTATTCGGTTTGCAAATAGCAAATTAGAGG
AGATGATAACATTTTTGTCTTTTAGTTTGTTTTAATTTCCATTTGGTTACAAATTTACAATTTTT
CCCTTAAAAAATCAAATTTCTAGCATTTAATCACCCAAAACCATCCACTCAAAGTTCATTTGGTG
CATTTACCATTTAAGTCCATTAGTTTGATAATCCATAATAAATTGACCCCTTTACCTAATAGAAA
TCTATTTTGCACCTTTTCAATTTAGTGATTTTTAC
Found at i:42681736 original size:40 final size:40
Alignment explanation
Indices: 42681688--42681871 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 40
42681678 TCCTCGTTCA
* * * *
42681688 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
42681728 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* *
42681768 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* ** * * * *
42681808 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACG
* *
42681848 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
42681872 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.02
40 112 0.91
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:42681880 original size:41 final size:41
Alignment explanation
Indices: 42681803--42681880 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
42681793 TTAGTATCTC
* * *
42681803 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
42681844 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
42681881 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:42688919 original size:15 final size:16
Alignment explanation
Indices: 42688893--42688922 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42688883 CATCCAACTA
42688893 TATACATCATAAACAT
1 TATACATCATAAACAT
42688909 TATAC-TCATAAACA
1 TATACATCATAAACA
42688923 CATGTCTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TATACATCATAAACAT
Found at i:42689552 original size:40 final size:40
Alignment explanation
Indices: 42689504--42689634 Score: 190
Period size: 40 Copynumber: 3.3 Consensus size: 40
42689494 TCCTCGTTCA
* * * *
42689504 AATGCCTTCGGGACATAGCCCGGTTTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42689544 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
42689584 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
42689624 AAGGCCTTCGG
1 AATGCCTTCGG
42689635 ATCTTAGTCC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:42689647 original size:40 final size:39
Alignment explanation
Indices: 42689502--42689686 Score: 169
Period size: 40 Copynumber: 4.7 Consensus size: 39
42689492 GCTCCTCGTT
* * * *
42689502 CAAATGCCTTCGGGACATAGCCCGGTTTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAA-TACTCGCA
*
42689542 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAAT-ACTCGCA
* *
42689582 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATA-CTCGCA
* ** * * *
42689622 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAAT-AC-TCGCA
*
42689663 CAAA-GCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42689687 CACATTCAAT
Statistics
Matches: 126, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 14 0.11
40 103 0.82
41 9 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATACTCGCA
Found at i:42697247 original size:40 final size:40
Alignment explanation
Indices: 42697169--42697349 Score: 242
Period size: 40 Copynumber: 4.5 Consensus size: 40
42697159 ACCCAAGTAT
* *
42697169 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
42697208 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
42697248 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
42697288 CTTCAGGACTTAGGCCGG-TAATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGAT-ATAGTCACTAGCACAAATGC
42697328 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
42697350 CATCCGAATA
Statistics
Matches: 124, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
39 12 0.10
40 110 0.89
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:42704731 original size:37 final size:37
Alignment explanation
Indices: 42704671--42704745 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
42704661 TCAAAACATG
* * *
42704671 CCAAATGCTCATAAAATCTAATCCAACCAATATCACA
1 CCAAATGCTCATAAAAGCAAATCCAACCAATAACACA
* * *
42704708 CCAAATGCTCATGAGAGCAAATCCAACCGATAACACA
1 CCAAATGCTCATAAAAGCAAATCCAACCAATAACACA
42704745 C
1 C
42704746 ATCGGCACTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.44, C:0.31, G:0.08, T:0.17
Consensus pattern (37 bp):
CCAAATGCTCATAAAAGCAAATCCAACCAATAACACA
Found at i:42706280 original size:21 final size:20
Alignment explanation
Indices: 42706256--42706301 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
42706246 CGAAATGCAA
42706256 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
42706277 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
42706297 T-AACC
1 TCAACC
42706302 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:42706893 original size:10 final size:10
Alignment explanation
Indices: 42706875--42706927 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
42706865 TAATTCTGTC
* *
42706875 AAAAATAATG
1 AAAATTAATT
42706885 AAAATTAATT
1 AAAATTAATT
*
42706895 AAAATTTATTAT
1 AAAA-TTAAT-T
42706907 AAAATTAATT
1 AAAATTAATT
*
42706917 AAAATTCATT
1 AAAATTAATT
42706927 A
1 A
42706928 TGTTAATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 23 0.64
11 8 0.22
12 5 0.14
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (10 bp):
AAAATTAATT
Found at i:42706938 original size:22 final size:22
Alignment explanation
Indices: 42706885--42706928 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
42706875 AAAAATAATG
*
42706885 AAAATTAATTAAAATTTATTAT
1 AAAATTAATTAAAATTCATTAT
42706907 AAAATTAATTAAAATTCATTAT
1 AAAATTAATTAAAATTCATTAT
42706929 GTTAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTAATTAAAATTCATTAT
Found at i:42715778 original size:5 final size:5
Alignment explanation
Indices: 42715768--42715792 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
42715758 TTTAGCCGAC
42715768 TCTCT TCTCT TCTCT TCTCT TCTCT
1 TCTCT TCTCT TCTCT TCTCT TCTCT
42715793 CCCTCTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
TCTCT
Found at i:42717487 original size:49 final size:48
Alignment explanation
Indices: 42717415--42717639 Score: 272
Period size: 49 Copynumber: 4.5 Consensus size: 48
42717405 CTGATACGCA
*
42717415 TAGTAGCCTACACTTAGTACTACACATGTGATCAACAATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCAACAATT-GGTACACG
*
42717464 TAGTAGCCTGCAGTTAGTACTACACATGTGATCAACAATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCAACAATT-GGTACACG
* * *
42717513 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-ATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGATC-AA--CAATTG-GTACACG
* * * *
42717564 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-TCAACAAT-TGGTACACG
* *
42717614 TAGTAGCCTACAGTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
42717640 CGTGTTTTCA
Statistics
Matches: 154, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
49 79 0.51
50 32 0.21
51 41 0.27
52 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGATCAACAATTGGTACACG
Found at i:42724949 original size:50 final size:48
Alignment explanation
Indices: 42724886--42725072 Score: 196
Period size: 50 Copynumber: 3.8 Consensus size: 48
42724876 CGAAGCTATC
* * *
42724886 TGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCAT
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAATCAT
* * *
42724935 CGGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCAT
1 -TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAA-TCAT
* * * *
42724986 TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-CAGT
1 TGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC-TAATCA-T
*
42725036 ATGATACACGTAGTAGCCTACACTTAGTACTACACAC
1 -TGATACACGTAGTAGCCTGCACTTAGTACTACACAC
42725073 ATCCATTCAC
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
49 2 0.02
50 71 0.61
51 43 0.37
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (48 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAATCAT
Found at i:42725050 original size:101 final size:101
Alignment explanation
Indices: 42724889--42725071 Score: 287
Period size: 101 Copynumber: 1.8 Consensus size: 101
42724879 AGCTATCTGA
* * *
42724889 TACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCATCGGATACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCTCAACATAGGATACACGTAGTAGCCT
*
42724954 GCACTTAGTACTACACATGTGATCGAAGTCATTGAG
66 ACACTTAGTACTACACATGTGATCGAAGTCATTGAG
* * *
42724990 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CTTAACAGTATGATACACGTAGTAGCC
1 TACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCTCAACA-TAGGATACACGTAGTAGCC
42725054 TACACTTAGTACTACACA
65 TACACTTAGTACTACACA
42725072 CATCCATTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
100 5 0.07
101 69 0.93
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCTCAACATAGGATACACGTAGTAGCCT
ACACTTAGTACTACACATGTGATCGAAGTCATTGAG
Found at i:42727961 original size:17 final size:17
Alignment explanation
Indices: 42727939--42727973 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
42727929 ATTCCCTTAT
*
42727939 TCAAGATTAAGTTGCAA
1 TCAAGATTAAGCTGCAA
42727956 TCAAGATTAAGCTGCAA
1 TCAAGATTAAGCTGCAA
42727973 T
1 T
42727974 TTTTGTCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (17 bp):
TCAAGATTAAGCTGCAA
Found at i:42731999 original size:46 final size:46
Alignment explanation
Indices: 42731949--42732121 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
42731939 TGGTTGAGCA
*
42731949 TCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
42731995 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
42732040 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
42732088 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
42732122 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42732105 original size:93 final size:93
Alignment explanation
Indices: 42731946--42732116 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
42731936 GGATGGTTGA
* *
42731946 GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
42732011 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
42732039 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
42732104 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
42732117 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:42732383 original size:19 final size:20
Alignment explanation
Indices: 42732346--42732383 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
42732336 ATAAGGTGGT
42732346 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
42732366 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
42732384 TGGTGGTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:42735246 original size:26 final size:26
Alignment explanation
Indices: 42735170--42735236 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 26
42735160 CCAACACACC
*
42735170 AATATTGCAGCAAAGTTGCCAGTAGT
1 AATATTGCAGCAAAGTTGCCAGTAAT
*
42735196 AATATTGCAGCAAAGTTGGCAGTAAT
1 AATATTGCAGCAAAGTTGCCAGTAAT
*
42735222 AATATTACAGCAAAG
1 AATATTGCAGCAAAG
42735237 CTGTTAGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.25
Consensus pattern (26 bp):
AATATTGCAGCAAAGTTGCCAGTAAT
Found at i:42740786 original size:56 final size:56
Alignment explanation
Indices: 42740700--42740816 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 56
42740690 AGGGATGATA
42740700 GGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATG
1 GGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATG
*
42740756 GGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATG
1 GGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATG
42740812 GGCAA
1 GGCAA
42740817 TAAACTAATA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.22
Consensus pattern (56 bp):
GGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATG
Found at i:42742048 original size:39 final size:40
Alignment explanation
Indices: 42741940--42742163 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
42741930 TCGAATGATG
* * * * *
42741940 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
42741980 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42742020 TCCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42742059 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42742099 TCCGGGTTAAGTCCCGAAGGCATTT-TGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
42742139 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42742164 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 66 0.42
40 85 0.54
41 7 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42742077 original size:79 final size:80
Alignment explanation
Indices: 42741940--42742163 Score: 269
Period size: 79 Copynumber: 2.8 Consensus size: 80
42741930 TCGAATGATG
* * * * *
42741940 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*
42742003 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
* *
42742020 TCCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
42742084 GTGTGAGTTACTAAA
66 GTGCGAGATACTAAA
* * *
42742099 TCCGGGTTAAGTCCCGAAGGCATT-TTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
42742162 TG
65 TG
42742164 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 93 0.74
80 31 0.25
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:42748710 original size:56 final size:56
Alignment explanation
Indices: 42748624--42748743 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
42748614 ACAAGGGATG
42748624 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
42748680 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
42748736 ATGGGCAA
1 ATGGGCAA
42748744 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:42750106 original size:40 final size:40
Alignment explanation
Indices: 42749868--42750092 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
42749858 TCGAATGATG
* * * *
42749868 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
42749908 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42749948 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42749987 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42750027 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
42750068 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42750093 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42750114 original size:119 final size:119
Alignment explanation
Indices: 42749868--42750125 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
42749858 TCGAATGATG
* *
42749868 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
42749933 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
42749987 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
42750050 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
42750107 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
42750126 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:42755736 original size:27 final size:27
Alignment explanation
Indices: 42755697--42755778 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
42755687 GAAAGCGTCT
42755697 TGGTGGCTATGCCACAATTATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGTTC
* *
42755724 TGGTGGCTCTGCCACAAATATCTGTATC
1 TGGTGGCTATGCCACAATTATCTGT-TC
* * *
42755752 TGGTGACTAAGTCAC-ATTATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGTTC
42755778 T
1 T
42755779 AGCAGCCATG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 3 0.06
27 31 0.66
28 13 0.28
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (27 bp):
TGGTGGCTATGCCACAATTATCTGTTC
Found at i:42765337 original size:36 final size:36
Alignment explanation
Indices: 42765267--42765340 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
42765257 GAAGGAGCGC
* *
42765267 ATCAGTCAAAATAGATCCAAAAAGCTATTGAACTGA
1 ATCAGTCAAAATAGATCCAAAAAGCTACTAAACTGA
* * * *
42765303 ATCAGTCAGAATAGATCTAAAAGGCTGCTAAACTGA
1 ATCAGTCAAAATAGATCCAAAAAGCTACTAAACTGA
42765339 AT
1 AT
42765341 AGAGTTTACT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (36 bp):
ATCAGTCAAAATAGATCCAAAAAGCTACTAAACTGA
Found at i:42766106 original size:26 final size:28
Alignment explanation
Indices: 42766073--42766127 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
42766063 AAATTATTAA
42766073 AATTTTGC-ATCAAATTGTTAAG-TTAT
1 AATTTTGCAATCAAATTGTTAAGCTTAT
* *
42766099 AATTTTGCAATTAATTTGTTAAGCTTAT
1 AATTTTGCAATCAAATTGTTAAGCTTAT
42766127 A
1 A
42766128 TAGTCCCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.32
27 12 0.48
28 5 0.20
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (28 bp):
AATTTTGCAATCAAATTGTTAAGCTTAT
Found at i:42766530 original size:31 final size:31
Alignment explanation
Indices: 42766495--42766588 Score: 179
Period size: 31 Copynumber: 3.0 Consensus size: 31
42766485 GACCACATTG
42766495 ATATATCATAAGAAAAGTACCAAGAGGTGCT
1 ATATATCATAAGAAAAGTACCAAGAGGTGCT
*
42766526 ATATATCATAAGAAAAGTAACAAGAGGTGCT
1 ATATATCATAAGAAAAGTACCAAGAGGTGCT
42766557 ATATATCATAAGAAAAGTACCAAGAGGTGCT
1 ATATATCATAAGAAAAGTACCAAGAGGTGCT
42766588 A
1 A
42766589 AGTTCGGTGT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (31 bp):
ATATATCATAAGAAAAGTACCAAGAGGTGCT
Found at i:42771557 original size:40 final size:40
Alignment explanation
Indices: 42771485--42771699 Score: 373
Period size: 40 Copynumber: 5.4 Consensus size: 40
42771475 AACCCAAGTA
*
42771485 CCTTCGGGATTTAG-CCGGATATAG-CAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
42771524 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42771564 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42771603 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42771643 CCTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42771683 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
42771700 AGATGTCATC
Statistics
Matches: 168, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 52 0.31
40 115 0.68
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42771616 original size:79 final size:80
Alignment explanation
Indices: 42771485--42771699 Score: 373
Period size: 79 Copynumber: 2.7 Consensus size: 80
42771475 AACCCAAGTA
*
42771485 CCTTCGGGATTTAG-CCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
42771548 GTCAATAGCACAAATG
65 GTCAATAGCACAAATG
42771564 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
42771628 TCACTAGCACAAATG
66 TCAATAGCACAAATG
*
42771643 CCTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
42771700 AGATGTCATC
Statistics
Matches: 130, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
79 90 0.69
80 39 0.30
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAATG
Found at i:42773997 original size:27 final size:27
Alignment explanation
Indices: 42773898--42773989 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
42773888 CCTTAATCGA
*
42773898 TAAAATGACTGTTTTTCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
42773925 TAAAATGACTGTTTTGCCCATATGTGA
1 TAAAATGACTGTTTTGCCCTTATGAGG
42773952 TAAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
42773979 TAAAACGACTG
1 TAAAATGACTG
42773990 AAATGCCCCT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:42774015 original size:54 final size:54
Alignment explanation
Indices: 42773896--42774029 Score: 151
Period size: 54 Copynumber: 2.5 Consensus size: 54
42773886 ACCCTTAATC
* * *** **
42773896 GATAAAATGACTGTTTTTCCCTTATGAGGTAAAATGACTGTTTTGCCCATATGT
1 GATAAAATGACTGTTTTACCCTTATGAGGTAAAACGACTGAAATGCCCATACAT
* *
42773950 GATAAAATGACTGTTTTGCCCTTATGAGGTAAAACGACTGAAATGCCCCTACAT
1 GATAAAATGACTGTTTTACCCTTATGAGGTAAAACGACTGAAATGCCCATACAT
* * * *
42774004 GGTAAATTGACTATTTTACCCCTATG
1 GATAAAATGACTGTTTTACCCTTATG
42774030 TGAGGTTTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (54 bp):
GATAAAATGACTGTTTTACCCTTATGAGGTAAAACGACTGAAATGCCCATACAT
Found at i:42776083 original size:27 final size:27
Alignment explanation
Indices: 42775959--42776091 Score: 115
Period size: 27 Copynumber: 5.0 Consensus size: 27
42775949 CCTTAATCGA
* * * * *
42775959 TAAAATGATTGTTTGGCTCTTATGAGG
1 TAAAATGACTGTTTTGCCCCTATGTGG
*
42775986 TAAAATGACTGTTTTACCCCTATGTGG
1 TAAAATGACTGTTTTGCCCCTATGTGG
* * *
42776013 TAAAATGACTATTTTGCCCTTATGCGG
1 TAAAATGACTGTTTTGCCCCTATGTGG
* *** **
42776040 T-AAATGATTGAAATGCCCCTACATGG
1 TAAAATGACTGTTTTGCCCCTATGTGG
*
42776066 TAAATTGACTGTTTTGCCCCTATGTG
1 TAAAATGACTGTTTTGCCCCTATGTG
42776092 AGGTATTTAT
Statistics
Matches: 79, Mismatches: 26, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
26 17 0.22
27 62 0.78
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCCTATGTGG
Found at i:42787686 original size:48 final size:49
Alignment explanation
Indices: 42787614--42787712 Score: 182
Period size: 48 Copynumber: 2.0 Consensus size: 49
42787604 TCAGAGTTAG
42787614 TTTCAAAATGTTTGATTTGTCAACAAGTAAAGGCTAAACACCAAGTACC
1 TTTCAAAATGTTTGATTTGTCAACAAGTAAAGGCTAAACACCAAGTACC
*
42787663 TTTC-AAATGTTTGATTTGTCAACAAGTAAAGGCTGAACACCAAGTACC
1 TTTCAAAATGTTTGATTTGTCAACAAGTAAAGGCTAAACACCAAGTACC
42787711 TT
1 TT
42787713 CGGGTATACT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 45 0.92
49 4 0.08
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (49 bp):
TTTCAAAATGTTTGATTTGTCAACAAGTAAAGGCTAAACACCAAGTACC
Found at i:42790068 original size:19 final size:20
Alignment explanation
Indices: 42790046--42790084 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
42790036 GTCATACTTA
42790046 TTAGCCACA-ATT-CATTCAT
1 TTAG-CACATATTCCATTCAT
42790065 TTAGCACATATTCCATTCAT
1 TTAGCACATATTCCATTCAT
42790085 CTCACATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAGCACATATTCCATTCAT
Found at i:42791124 original size:25 final size:25
Alignment explanation
Indices: 42791096--42791149 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
42791086 TTCAATATCC
* *
42791096 ATAACACTAATTGCATACTCATGGA
1 ATAACACCAATTCCATACTCATGGA
42791121 ATAACACCAATTCCATACTCATGGA
1 ATAACACCAATTCCATACTCATGGA
42791146 ATAA
1 ATAA
42791150 TCAAAGCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (25 bp):
ATAACACCAATTCCATACTCATGGA
Found at i:42796179 original size:40 final size:40
Alignment explanation
Indices: 42796120--42796307 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
42796110 GAGCATTGGA
* *
42796120 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
42796160 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
42796200 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
42796240 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
42796280 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
42796308 ATGTGTTTGC
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:42799681 original size:93 final size:93
Alignment explanation
Indices: 42799569--42799740 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
42799559 CGCCCATAAG
*
42799569 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
42799633 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACAAGTTCGGATGCCTAGTTACATCTCA
*
42799662 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42799727 ACAAGTTCGGATGC
66 ACAAGTTCGGATGC
42799741 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:42799735 original size:46 final size:46
Alignment explanation
Indices: 42799562--42799737 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
42799552 TGTAACCCGC
* *
42799562 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
42799608 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
42799658 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
42799701 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
42799738 TGCTCAATCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:42821485 original size:26 final size:25
Alignment explanation
Indices: 42821455--42821517 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
42821445 AAATATTCTC
*
42821455 TAAATTAATAAATATTAATTTATCGA
1 TAAATTAATAAAAATTAATTTATC-A
*
42821481 TAAATTAATAAAAAATTCATTTATCA
1 TAAATTAAT-AAAAATTAATTTATCA
*
42821507 TAAACTAATAA
1 TAAATTAATAA
42821518 CCTCGATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.06
26 18 0.55
27 13 0.39
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (25 bp):
TAAATTAATAAAAATTAATTTATCA
Found at i:42823577 original size:28 final size:25
Alignment explanation
Indices: 42823546--42823621 Score: 62
Period size: 28 Copynumber: 2.8 Consensus size: 25
42823536 AATTTTAAGC
42823546 ATTATATTAAATTATTTAAACACTATTT
1 ATTATATTAAATT-TTTAAA-A-TATTT
* *
42823574 ATTATTTTTAAAATTTTAAAATATTT
1 ATTA-TATTAAATTTTTAAAATATTT
*
42823600 CATGTATAATTAAATTTATAAA
1 -AT-TAT-ATTAAATTTTTAAA
42823622 TAATATATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
26 5 0.13
27 4 0.10
28 23 0.59
29 7 0.18
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (25 bp):
ATTATATTAAATTTTTAAAATATTT
Found at i:42823642 original size:16 final size:16
Alignment explanation
Indices: 42823623--42823695 Score: 53
Period size: 17 Copynumber: 4.3 Consensus size: 16
42823613 ATTTATAAAT
42823623 AATATATTAATTATTA
1 AATATATTAATTATTA
*
42823639 AATATATTTAA-AATTAA
1 AATATA-TTAATTATT-A
42823656 AATATATT--TTATGTA
1 AATATATTAATTAT-TA
42823671 TAATTATATTAAATTATTTA
1 -AA-TATATT-AATTA-TTA
42823691 AATAT
1 AATAT
42823696 TATTTGATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
15 3 0.07
16 14 0.31
17 17 0.38
18 3 0.07
19 2 0.04
20 5 0.11
21 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (16 bp):
AATATATTAATTATTA
Found at i:42823725 original size:34 final size:34
Alignment explanation
Indices: 42823636--42823725 Score: 78
Period size: 34 Copynumber: 2.6 Consensus size: 34
42823626 ATATTAATTA
* * * *
42823636 TTAAATATATTTAAAA-TTAAAATATATTTTATG
1 TTAATTATTTTTAAAATTTTAAATATATTTGATG
* *
42823669 TATAATTA-TATTAAATTATTTAAATATTATTTGAT-
1 T-TAATTATTTTTAAAAT-TTTAAATA-TATTTGATG
42823704 TTAATTATTTTTAAAATTTTAA
1 TTAATTATTTTTAAAATTTTAA
42823726 CATCATATCT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
33 6 0.14
34 16 0.36
35 15 0.34
36 7 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (34 bp):
TTAATTATTTTTAAAATTTTAAATATATTTGATG
Found at i:42824107 original size:13 final size:13
Alignment explanation
Indices: 42824089--42824118 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
42824079 TGGTATTATA
42824089 TAAATGAGTAACC
1 TAAATGAGTAACC
42824102 TAAATGAGTAACC
1 TAAATGAGTAACC
42824115 TAAA
1 TAAA
42824119 GTAGATACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (13 bp):
TAAATGAGTAACC
Found at i:42826232 original size:19 final size:19
Alignment explanation
Indices: 42826208--42826248 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
42826198 AATAATTACA
*
42826208 TTTGATTCATTCTAAATCC
1 TTTGATTCATTATAAATCC
42826227 TTTGATTCATTATAAATCC
1 TTTGATTCATTATAAATCC
42826246 TTT
1 TTT
42826249 TATTGAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTGATTCATTATAAATCC
Found at i:42836961 original size:15 final size:16
Alignment explanation
Indices: 42836932--42836961 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42836922 CAAACATGCT
42836932 TTAACACATTATCAAA
1 TTAACACATTATCAAA
42836948 TTAACACA-TATCAA
1 TTAACACATTATCAA
42836962 CAAGGCACCG
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:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:42843382 original size:27 final size:27
Alignment explanation
Indices: 42843351--42843528 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
42843341 TAAATTGTAC
42843351 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
42843378 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
42843404 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
42843432 GGCACTAAGCGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
42843460 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
42843487 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
42843514 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42843529 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:42843465 original size:82 final size:81
Alignment explanation
Indices: 42843352--42843507 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
42843342 AAATTGTACA
* * *
42843352 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGCGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
42843416 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
42843433 GCACTAAGCGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGCGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
42843498 TGCGAGTTGA
65 TGCGAATTGA
42843508 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGCGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:42843519 original size:82 final size:81
Alignment explanation
Indices: 42843348--42843528 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
42843338 GATTAAATTG
* *
42843348 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
42843413 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
42843429 TGCGGCACTAAGCGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
42843493 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
42843511 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
42843529 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:42848075 original size:27 final size:27
Alignment explanation
Indices: 42848040--42848217 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
42848030 TAAATTGTAC
42848040 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
42848067 TGCATTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
42848093 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
42848121 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
42848149 AGCACTAAGTGTGCAATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
42848176 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
42848203 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42848218 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 103 0.82
28 22 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:42848158 original size:82 final size:81
Alignment explanation
Indices: 42848041--42848196 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 81
42848031 AAATTGTACA
* * *
42848041 GCACTAAGTGTGCGATTTGACTATGTTGCATTAAGTGTGCGAA-ATGAATATG-ATGCACTAAGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGC-AATATGAATACGTA-GCACTAAGT
42848104 GTGCGAATTGACCATGCG
64 GTGCGAATTGACCATGCG
* *
42848122 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCAATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCAATATGAATACGTAGCACTAAGTG
*
42848187 TGCGAGTTGA
65 TGCGAATTGA
42848197 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
81 17 0.26
82 48 0.73
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAATATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:42848208 original size:82 final size:81
Alignment explanation
Indices: 42848037--42848217 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
42848027 GATTAAATTG
* * *
42848037 TACAGCACTAAGTGTGCGATTTGACTATGTTGCATTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
42848102 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
42848118 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGC-AATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAA-ATGAATACGAT-GCAC
* **
42848181 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
42848200 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
42848218 GACTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:42854295 original size:27 final size:27
Alignment explanation
Indices: 42854265--42854441 Score: 201
Period size: 27 Copynumber: 6.5 Consensus size: 27
42854255 AAATTGTACA
42854265 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
** * *
42854292 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
42854319 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
42854346 GCACTAAGTGTGCGAGTTTGACTATGTT
1 GCACTAAGTGTGCGA-TTTGACTATGTT
* * *
42854374 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGATTTGACTATGTT
* * * *
42854401 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTT
*
42854428 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
42854442 GACTCAATAT
Statistics
Matches: 129, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:42854377 original size:82 final size:81
Alignment explanation
Indices: 42854265--42854420 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
42854255 AAATTGTACA
*
42854265 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
42854329 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
42854346 GCACTAAGTGTGCGAGTTTGACTATGTTGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTTGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
42854411 TGCGAGTTGA
65 TGCGAATTGA
42854421 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:42854432 original size:82 final size:81
Alignment explanation
Indices: 42854261--42854441 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
42854251 GATTAAATTG
*
42854261 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATACGATGCACTAA
42854326 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
42854342 TGCGGCACTAAGTGTGCGAGTTTGACTATGTTGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTTGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
42854406 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
42854424 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
42854442 GACTCAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:42863829 original size:29 final size:29
Alignment explanation
Indices: 42863770--42863843 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
42863760 GTTGTGAGAT
* *
42863770 TGGCACTAGGTGTGCGAACTTGAAATGCA
1 TGGCACTAAGTGTGCGAACTTGAAATACA
* *
42863799 TGGCACTAAGTGTGCG-AGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAACTTGAAA-TACA
*
42863828 TGGAACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
42863844 CGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.15
29 33 0.85
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTGAAATACA
Found at i:42866013 original size:58 final size:57
Alignment explanation
Indices: 42865867--42866014 Score: 158
Period size: 57 Copynumber: 2.6 Consensus size: 57
42865857 GTATAACAGA
* * * *
42865867 ATTACCAGTCCAGACTAAGTCCTTTATATAACATATGCTCAGAGGGGCTCGATTAGG
1 ATTACCAGTCCAGGCTAAATCCTTTCTATAACATATGCTCAGAGGGGCTCGATCAGG
* * * *
42865924 ATTACCAGTCCAGGCTAAATCCTAATC-ATAACGTATGCTCAAGAGGTG-TTGTATCAGG
1 ATTACCAGTCCAGGCTAAATCCT-TTCTATAACATATGCTC-AGAGGGGCTCG-ATCAGG
*
42865982 ATTATCCA-TCCGGGCTAAATCCTTTCTATAACA
1 ATTA-CCAGTCCAGGCTAAATCCTTTCTATAACA
42866015 AGGTTAATGG
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
57 37 0.49
58 35 0.47
59 3 0.04
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (57 bp):
ATTACCAGTCCAGGCTAAATCCTTTCTATAACATATGCTCAGAGGGGCTCGATCAGG
Found at i:42869357 original size:40 final size:40
Alignment explanation
Indices: 42869204--42869389 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
42869194 TTGAATGATG
* * * *
42869204 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
42869244 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42869284 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42869324 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
42869365 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42869390 AATGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42869407 original size:80 final size:79
Alignment explanation
Indices: 42869257--42869422 Score: 194
Period size: 80 Copynumber: 2.1 Consensus size: 79
42869247 GGACTAAGAT
**
42869257 CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTA
*
42869322 AATCCGGGTTAAGTC
66 AATCC-GGTTAAATC
* * * *
42869337 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAATGAG-TAG
1 CCGAAGGCATTTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTTA-
* *
42869399 CTATATCCGGTTAAATT
63 CTAAATCCGGTTAAATC
42869416 CCGAAGG
1 CCGAAGG
42869423 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 17 0.23
80 55 0.74
81 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTA
AATCCGGTTAAATC
Found at i:42877342 original size:40 final size:41
Alignment explanation
Indices: 42877259--42877404 Score: 167
Period size: 40 Copynumber: 3.6 Consensus size: 41
42877249 TTGAATGATG
* * * *
42877259 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGA-GTTACTATAA
*
42877299 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTA-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTATAA
* *
42877339 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
*
42877380 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42877405 AATGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
39 1 0.01
40 80 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
Found at i:42877422 original size:80 final size:80
Alignment explanation
Indices: 42877259--42877437 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 80
42877249 TTGAATGATG
* * *
42877259 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCATAACCGGACTAAGATCCGAAGGCATTT
*
42877324 GTACGAGTTACTAAA
66 GAACGAGTTACTAAA
* * * *
42877339 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* *
42877402 TTGAATGAG-TAGCTATA
64 TTGAACGAGTTA-CTAAA
* *
42877419 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
42877438 TACGTGATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
79 17 0.20
80 59 0.70
81 8 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAA
Found at i:42892387 original size:38 final size:39
Alignment explanation
Indices: 42892329--42892453 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
42892319 TTCAGTGATG
*
42892329 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTAGAAT
42892368 TATATCCGGA-TTAGGGTCCGCAGGCTATGTGCTAGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTAGAAT
* * * *
42892406 TATATTCGGACTTAAGGTCCGCAGGCTACGTGCTAGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTAGAAT
*
42892445 TATGTCCGG
1 TATATCCGG
42892454 GCTAAAGTCC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 36 0.46
39 42 0.54
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTAGAAT
Found at i:42892439 original size:39 final size:39
Alignment explanation
Indices: 42892329--42892491 Score: 179
Period size: 39 Copynumber: 4.2 Consensus size: 39
42892319 TTCAGTGATG
* * *
42892329 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTAGAAT
* *
42892368 TATATCCGGA-TTAGGGTCCGCAGGCTATGTGCTAGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTAGAAT
* *
42892406 TATATTCGGACTTAAGGTCCGCAGGCTACGTGCTAGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTAGAAT
* * * * * *
42892445 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTAGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTAGAAT
42892484 TATA-CCGG
1 TATATCCGG
42892492 GTTTAAATTC
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
38 45 0.42
39 63 0.58
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTAGAAT
Found at i:42905848 original size:30 final size:30
Alignment explanation
Indices: 42905812--42905873 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
42905802 TTCGCATACT
*
42905812 TAGTGCAAGATTCAGATCCGTAATCATTTA
1 TAGTGCAAGATTCACATCCGTAATCATTTA
42905842 TAGTGCAAGATTCACATCCGTAATCATTTA
1 TAGTGCAAGATTCACATCCGTAATCATTTA
42905872 TA
1 TA
42905874 CTCGCACACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (30 bp):
TAGTGCAAGATTCACATCCGTAATCATTTA
Found at i:42913859 original size:37 final size:37
Alignment explanation
Indices: 42913809--42913887 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
42913799 TTATTACGAA
* * *
42913809 GTCTTACCCGGACATAATCTCCACACGAAGTTATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
* *
42913846 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
42913883 GTCTT
1 GTCTT
42913888 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:42914180 original size:49 final size:49
Alignment explanation
Indices: 42914006--42914344 Score: 532
Period size: 47 Copynumber: 7.1 Consensus size: 49
42913996 CCCTTCGGGA
* * * * *
42914006 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42914053 CTTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42914100 CTTATCAC--ATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42914147 CCTATCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42914196 CTTATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42914243 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42914292 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42914341 CTTA
1 CTTA
42914345 CTATCATTTC
Statistics
Matches: 271, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 135 0.50
49 135 0.50
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42914199 original size:96 final size:96
Alignment explanation
Indices: 42914006--42914344 Score: 547
Period size: 96 Copynumber: 3.5 Consensus size: 96
42913996 CCCTTCGGGA
* * * * * * *
42914006 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
42914069 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
42914100 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
42914165 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
42914196 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
42914261 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
42914292 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
42914345 CTATCATTTC
Statistics
Matches: 226, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
94 46 0.20
96 138 0.61
98 42 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42917967 original size:40 final size:40
Alignment explanation
Indices: 42917922--42918074 Score: 225
Period size: 40 Copynumber: 3.8 Consensus size: 40
42917912 CGAATACACG
* * * *
42917922 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
42917962 ACACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
42918002 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACCAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
42918042 TCACTAGCATGAATGCTCTTCGGAACTTAGCCC
1 TCACCAGCATGAATGCTCTTCGGAACTTAGCCC
42918075 AGATTTAGTA
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
TCACCAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:42918103 original size:80 final size:80
Alignment explanation
Indices: 42917935--42918116 Score: 233
Period size: 80 Copynumber: 2.3 Consensus size: 80
42917925 CCAGCATGAT
* * *
42917935 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCCCAGATA
* **
42918000 CATCACTAGCATGAA
66 CATAACTAGCACCAA
* * * *
42918015 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCAGATT
1 TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCCCAGATA
* *
42918080 TAGTAACTCGCACCAA
66 CA-TAACTAGCACCAA
42918096 TGC-CTTCGGG-CTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
42918117 ATTAGTATCT
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
79 11 0.12
80 66 0.74
81 12 0.13
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (80 bp):
TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCCCAGATA
CATAACTAGCACCAA
Found at i:42918122 original size:39 final size:40
Alignment explanation
Indices: 42918053--42918150 Score: 126
Period size: 39 Copynumber: 2.5 Consensus size: 40
42918043 CACTAGCATG
* *
42918053 AATGCTCTTCGGAACTTAGCCCAGATTTAGTAACTCGCACC
1 AATGC-CTTCGGAACTTAGCCCAGAATTAGTAACTCGCACA
* * *
42918094 AATGCCTTCGG-GCTTAGCCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGAACTTAGCCCAGAATTAGTAACTCGCACA
*
42918133 AATGCCTTCGGATCTTAG
1 AATGCCTTCGGAACTTAG
42918151 TCCGGATATG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.68
40 11 0.22
41 5 0.10
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
AATGCCTTCGGAACTTAGCCCAGAATTAGTAACTCGCACA
Found at i:42919472 original size:37 final size:37
Alignment explanation
Indices: 42919422--42919500 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
42919412 TTATTACGAA
* * *
42919422 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
42919459 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
42919496 GTCTT
1 GTCTT
42919501 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:42919744 original size:49 final size:47
Alignment explanation
Indices: 42919619--42919812 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
42919609 CCCTTCGGGA
* * * * * *
42919619 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42919666 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42919713 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42919762 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42919809 CTTA
1 CTTA
42919813 CTATCATTTC
Statistics
Matches: 134, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
47 88 0.66
49 46 0.34
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42919794 original size:96 final size:94
Alignment explanation
Indices: 42919621--42919809 Score: 297
Period size: 96 Copynumber: 2.0 Consensus size: 94
42919611 CTTCGGGACT
* * * *
42919621 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTTGTCACATATATACACTT
1 TATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCTTATCACATATATACACTT
42919686 TCACATTCATCACATCGGCCATTAGGCCC
66 TCACATTCATCACATCGGCCATTAGGCCC
* * *
42919715 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
1 TATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCTTATCACATATATACAC
42919780 TTTCACATTCATCACATCGGCCATTAGGCC
64 TTTCACATTCATCACATCGGCCATTAGGCC
42919810 TTACTATCAT
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 8 0.09
95 1 0.01
96 77 0.90
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (94 bp):
TATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCTTATCACATATATACACTT
TCACATTCATCACATCGGCCATTAGGCCC
Found at i:42923634 original size:38 final size:38
Alignment explanation
Indices: 42923575--42923703 Score: 195
Period size: 38 Copynumber: 3.4 Consensus size: 38
42923565 GACTTTAGGC
*
42923575 CCGGATATATTTCCAGCACATAGCCTGCAGACCTCAAGT
1 CCGGATATA-TTCCAGCACATAGCCTGCGGACCTCAAGT
* *
42923614 CCAGATATATTCCAGCACATAGCCTGCGGACCTAAAGT
1 CCGGATATATTCCAGCACATAGCCTGCGGACCTCAAGT
* *
42923652 CCGGATATGTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTCCAGCACATAGCCTGCGGACCTCAAGT
*
42923690 CCGGATATGTTCCA
1 CCGGATATATTCCA
42923704 AATACCACGC
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 75 0.90
39 8 0.10
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.22
Consensus pattern (38 bp):
CCGGATATATTCCAGCACATAGCCTGCGGACCTCAAGT
Found at i:42931266 original size:37 final size:38
Alignment explanation
Indices: 42931208--42931334 Score: 168
Period size: 37 Copynumber: 3.4 Consensus size: 38
42931198 AACTTTAAGC
*
42931208 CCGGATATATTTCCAGCACATAGCCTAC-GACCTCAAGT
1 CCGGATATA-TTCCAGCACATAGCCTGCAGACCTCAAGT
* * *
42931246 CCGGATATATTCCAGTACATAGCTTGCGGACCTCAAGT
1 CCGGATATATTCCAGCACATAGCCTGCAGACCTCAAGT
* *
42931284 CCGGATATGTTCCAGCACGT-GCCTGCAGACCTCAAGT
1 CCGGATATATTCCAGCACATAGCCTGCAGACCTCAAGT
*
42931321 CCGGATATGTTCCA
1 CCGGATATATTCCA
42931335 AATACCACGC
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
37 44 0.55
38 36 0.45
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (38 bp):
CCGGATATATTCCAGCACATAGCCTGCAGACCTCAAGT
Found at i:42939644 original size:46 final size:46
Alignment explanation
Indices: 42939577--42939748 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
42939567 TGTAACCCGC
* *
42939577 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTAGGGCGTTCGCAT
* *
42939623 CCATAAGTGAACTCGGACTCAACTCAACGAGTTAGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTAGG--G-C--GTTCGCAT
* * * ** *
42939673 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTTGAACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTAGGGCGTTCGCAT
*
42939716 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
42939749 TGGATGCTCA
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 57 0.56
47 25 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTAGGGCGTTCGCAT
Found at i:42939696 original size:93 final size:93
Alignment explanation
Indices: 42939584--42939755 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
42939574 CGCCCATAAG
** *
42939584 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42939649 ACGAGTTAGGATGCCTAGTTACATCTCA
66 ACGAGTTAGGATGCCTAGTTACATCTCA
* * *
42939677 CGAACTCGGACTCAACTCAATGAGTTTGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
42939742 ACGAGTTTGGATGC
66 ACGAGTTAGGATGC
42939756 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTAGGATGCCTAGTTACATCTCA
Found at i:42939771 original size:46 final size:46
Alignment explanation
Indices: 42939626--42939764 Score: 117
Period size: 47 Copynumber: 3.0 Consensus size: 46
42939616 TTCGCATCCA
*
42939626 TAAGTGAACTCGGACTCAACTCAACGAGTTAGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTC-A---ACCATC
* * * * * * *
42939674 TCA-CGAACTCGGACTCAACTCAATGAGTTTGAACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTTG--GATGCTCAACCATC
42939719 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATC
42939765 CTAGTGACAT
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 26 0.37
47 27 0.39
48 2 0.03
49 4 0.06
50 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATC
Found at i:42956965 original size:20 final size:20
Alignment explanation
Indices: 42956927--42956965 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42956917 TTGGGTCATT
* *
42956927 ATGGGCCACGTTGGGCCAAA
1 ATGGGCCACGTAGGCCCAAA
*
42956947 ATGGGCCATGTAGGCCCAA
1 ATGGGCCACGTAGGCCCAA
42956966 TGCCCACACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.33, T:0.15
Consensus pattern (20 bp):
ATGGGCCACGTAGGCCCAAA
Found at i:42957229 original size:27 final size:26
Alignment explanation
Indices: 42957212--42957409 Score: 270
Period size: 27 Copynumber: 7.3 Consensus size: 26
42957202 AAAATAACTA
42957212 TAATGACCCTGTAGGGTAAAATGACCG
1 TAAT-ACCCTGTAGGGTAAAATGACCG
*
42957239 TAATACCCTGTAGGGTAAAATGATCG
1 TAATACCCTGTAGGGTAAAATGACCG
42957265 TAATACCTCTGTAGGGTAAAATGACCG
1 TAATACC-CTGTAGGGTAAAATGACCG
* *
42957292 TAATACCCCTGTAGGATAAAATGATCG
1 TAATA-CCCTGTAGGGTAAAATGACCG
*
42957319 TAATACCCTTGTAGGGTAAAATGAGCG
1 TAATACCC-TGTAGGGTAAAATGACCG
42957346 TAATATCCCTGTAGGGTAAAATGACCG
1 TAATA-CCCTGTAGGGTAAAATGACCG
* *
42957373 TAATGGCCCTGTAGGGTAAAATAACCG
1 TAAT-ACCCTGTAGGGTAAAATGACCG
*
42957400 TGATATCCCT
1 TAATA-CCCT
42957410 ATGCGAAAAA
Statistics
Matches: 154, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
26 31 0.20
27 118 0.77
28 5 0.03
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (26 bp):
TAATACCCTGTAGGGTAAAATGACCG
Found at i:42957605 original size:27 final size:26
Alignment explanation
Indices: 42957561--42957647 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 26
42957551 ATGGAGGAAG
* *
42957561 TACTG-TATTGGTGACTATGTCACAT
1 TACTGTTACTGGTGGCTATGTCACAT
*
42957586 TCACTGTTACTGGTGGCTATGCCACAAT
1 T-ACTGTTACTGGTGGCTATGTCAC-AT
* *
42957614 TACTGATACTGGTGGCTTTGTCACACT
1 TACTGTTACTGGTGGCTATGTCACA-T
42957641 TACTGTT
1 TACTGTT
42957648 TCTGACAGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.02
26 5 0.10
27 42 0.82
28 3 0.06
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
TACTGTTACTGGTGGCTATGTCACAT
Found at i:42957758 original size:21 final size:22
Alignment explanation
Indices: 42957734--42957779 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
42957724 TATCCCCACA
*
42957734 TGGTGTGTTGGTTGG-TATGGG
1 TGGTGTGTTGATTGGATATGGG
*
42957755 TGGTGTGTTGATTGGATTTGGG
1 TGGTGTGTTGATTGGATATGGG
42957777 TGG
1 TGG
42957780 GATGCATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.07, C:0.00, G:0.50, T:0.43
Consensus pattern (22 bp):
TGGTGTGTTGATTGGATATGGG
Found at i:42957835 original size:28 final size:28
Alignment explanation
Indices: 42957803--42957865 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
42957793 ATTACACTGT
* *
42957803 ACTGTTACTATATTGGGCTTAGGCCCAC
1 ACTGTTACTATATAGGGCTAAGGCCCAC
* *
42957831 ACTGTTACTATATAGGGCTAAGGTCCAG
1 ACTGTTACTATATAGGGCTAAGGCCCAC
42957859 ACTGTTA
1 ACTGTTA
42957866 TTGCATGCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (28 bp):
ACTGTTACTATATAGGGCTAAGGCCCAC
Found at i:42970827 original size:53 final size:53
Alignment explanation
Indices: 42970747--42970949 Score: 176
Period size: 53 Copynumber: 3.8 Consensus size: 53
42970737 TTCCTTTTTA
* * ** * *
42970747 AACTCATCATTGCCATGTTTTGACATGGTCCTACGTGGTATCCTTGCCTTATG
1 AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * *
42970800 AACTCACCATTGTCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTAT-
1 AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
** * * * * * *
42970852 AGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTGG
1 AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* * *
42970906 AACAT-ACCAATGCCATGCCTTGGCATGGTCTTGCTTGGTATCCT
1 AAC-TCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCT
42970950 GAAACCCTAA
Statistics
Matches: 116, Mismatches: 31, Indels: 5
0.76 0.20 0.03
Matches are distributed among these distances:
52 39 0.34
53 43 0.37
54 33 0.28
55 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (53 bp):
AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:42973829 original size:40 final size:40
Alignment explanation
Indices: 42973739--42974081 Score: 467
Period size: 40 Copynumber: 8.6 Consensus size: 40
42973729 TTGAATGCTG
* * * * * *
42973739 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * * *
42973779 TTCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
42973819 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
42973859 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
42973899 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
42973939 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
42973979 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
42974019 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
42974058 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42974082 TGAACGAGGA
Statistics
Matches: 277, Mismatches: 23, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
39 35 0.13
40 234 0.84
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:42981860 original size:40 final size:40
Alignment explanation
Indices: 42981770--42982111 Score: 449
Period size: 40 Copynumber: 8.6 Consensus size: 40
42981760 TTGAATGCTG
* * * * * *
42981770 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * * *
42981810 TTCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
42981850 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
42981889 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
42981929 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
42981969 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
42982009 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
42982049 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
42982088 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42982112 TGAACGAGGA
Statistics
Matches: 274, Mismatches: 25, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
39 70 0.26
40 196 0.72
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:42987649 original size:33 final size:35
Alignment explanation
Indices: 42987602--42987668 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
42987592 TCTCTTTTTG
42987602 CATATCTGATACTG-TACTG-AATTGGGCTAAGGCC
1 CATATCTGATACTGTTACTGTAA-TGGGCTAAGGCC
42987636 CATA-CTGATACTGTTACTGTAATGGGCTAAGGC
1 CATATCTGATACTGTTACTGTAATGGGCTAAGGC
42987669 TCACATTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 9 0.29
34 20 0.65
35 2 0.06
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (35 bp):
CATATCTGATACTGTTACTGTAATGGGCTAAGGCC
Found at i:42987679 original size:34 final size:33
Alignment explanation
Indices: 42987607--42987679 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 33
42987597 TTTTGCATAT
*
42987607 CTGATACTGTACTGAATTGGGCTAAGGCCCATA
1 CTGATACTGTACTGAATTGGGCTAAGGCCCACA
*
42987640 CTGATACTGTTACTGTAA-TGGGCTAAGGCTCACA
1 CTGATACTG-TACTG-AATTGGGCTAAGGCCCACA
*
42987674 TTGATA
1 CTGATA
42987680 TTGCCTCTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
33 9 0.26
34 24 0.69
35 2 0.06
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (33 bp):
CTGATACTGTACTGAATTGGGCTAAGGCCCACA
Found at i:42994337 original size:29 final size:29
Alignment explanation
Indices: 42994275--42994337 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
42994265 CTTACTATGA
* * *
42994275 AAAAATTACATTTTTGGCCCTAAACTTGT
1 AAAATTTACATTTTTGCCCCTAAACTCGT
* **
42994304 CAAATTTACATTTTTGCCCCTAGGCTCGT
1 AAAATTTACATTTTTGCCCCTAAACTCGT
42994333 AAAAT
1 AAAAT
42994338 GAAATTTATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (29 bp):
AAAATTTACATTTTTGCCCCTAAACTCGT
Found at i:42996608 original size:26 final size:26
Alignment explanation
Indices: 42996578--42996630 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
42996568 ATTAGAACAA
42996578 ATCTAATAGGTATATCTCAGTATCAT
1 ATCTAATAGGTATATCTCAGTATCAT
*
42996604 ATCTAATAGGTATATCTCGGTATCAT
1 ATCTAATAGGTATATCTCAGTATCAT
42996630 A
1 A
42996631 CTCTCTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (26 bp):
ATCTAATAGGTATATCTCAGTATCAT
Found at i:42999013 original size:18 final size:18
Alignment explanation
Indices: 42998989--42999030 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
42998979 TTCCAAGCCC
42998989 CGTTTTTAATGTTCTTTA
1 CGTTTTTAATGTTCTTTA
*
42999007 TGTTTTTAATGTTCTTTA
1 CGTTTTTAATGTTCTTTA
42999025 CGTTTT
1 CGTTTT
42999031 CGGAGTCCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.10, G:0.12, T:0.64
Consensus pattern (18 bp):
CGTTTTTAATGTTCTTTA
Found at i:42999024 original size:10 final size:10
Alignment explanation
Indices: 42998993--42999024 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
42998983 AAGCCCCGTT
42998993 TTTAATGTTC
1 TTTAATGTTC
42999003 TTT-ATGTT-
1 TTTAATGTTC
42999011 TTTAATGTTC
1 TTTAATGTTC
42999021 TTTA
1 TTTA
42999025 CGTTTTCGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 3 0.15
9 10 0.50
10 7 0.35
ACGTcount: A:0.19, C:0.06, G:0.09, T:0.66
Consensus pattern (10 bp):
TTTAATGTTC
Found at i:42999385 original size:30 final size:30
Alignment explanation
Indices: 42999341--42999399 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
42999331 TCCGAGCCTT
42999341 GGGGAAAAAGTGTAAATATGTAAAAGTTTA
1 GGGGAAAAAGTGTAAATATGTAAAAGTTTA
* * *
42999371 GGGGCAAAAA-TGTAATTTTGTCAAAGTTT
1 GGGG-AAAAAGTGTAAATATGTAAAAGTTT
42999400 GGGTCAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (30 bp):
GGGGAAAAAGTGTAAATATGTAAAAGTTTA
Found at i:42999915 original size:53 final size:53
Alignment explanation
Indices: 42999737--42999943 Score: 233
Period size: 53 Copynumber: 3.8 Consensus size: 53
42999727 ATTAGGGTTT
*
42999737 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATT-GTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-G-TTCATAAGGC
* * * *
42999791 AAGGAAATCATGTAAGACCATGTCAAGACATGGAATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT-C-ATAAGGC
* * * *
42999846 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTCATAAGGC
*
42999899 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTT
42999944 TTAAAAGGAT
Statistics
Matches: 128, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
52 6 0.05
53 46 0.36
54 34 0.27
55 38 0.30
56 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTCATAAGGC
Done.