Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 112 of 279
Found at i:35376869 original size:27 final size:24
Alignment explanation
Indices: 35376817--35376897 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
35376807 ATAAATGGGG
35376817 TTTAAAATAAGGTATATAAAATAA
1 TTTAAAATAAGGTATATAAAATAA
*
35376841 TTTTAAAATAA-GTAATATATAAGTCAA
1 -TTTAAAATAAGGT-ATATA-AAAT-AA
* *
35376868 TTTAAAATAA--TATATAACA-AG
1 TTTAAAATAAGGTATATAAAATAA
35376889 TTTAAAATA
1 TTTAAAATA
35376898 TATAATAGGT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
21 10 0.20
23 1 0.02
24 7 0.14
25 16 0.33
26 13 0.27
27 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (24 bp):
TTTAAAATAAGGTATATAAAATAA
Found at i:35376900 original size:20 final size:21
Alignment explanation
Indices: 35376853--35376901 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
35376843 TTAAAATAAG
35376853 TAATATATAAGTCAATTTAAAA
1 TAATATATAAG-CAATTTAAAA
35376875 TAATATATAA-CAAGTTTAAAA
1 TAATATATAAGCAA-TTTAAAA
35376896 T-ATATA
1 TAATATA
35376902 ATAGGTAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.31
21 8 0.31
22 10 0.38
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
TAATATATAAGCAATTTAAAA
Found at i:35391632 original size:4 final size:4
Alignment explanation
Indices: 35391623--35391669 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
35391613 AAGAGTGAAG
* * **
35391623 AAAT AAAT AAAT GAAT GAAT GTAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
35391670 ATAGAACAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:35394978 original size:43 final size:43
Alignment explanation
Indices: 35394893--35395044 Score: 196
Period size: 43 Copynumber: 3.4 Consensus size: 43
35394883 TATATTGTAC
* *
35394893 ATTGGCACTAAGTGTGCGAGACTGAGATAGCTTTGGCTAAATAT
1 ATTGGCACTAAGTGTGCGAGAC-CAGATAGCTTCGGCTAAATAT
*
35394937 ATTGGCACTAAGTGTGCGAGACCAGATAGCTTCGGCTAAATAC
1 ATTGGCACTAAGTGTGCGAGACCAGATAGCTTCGGCTAAATAT
* * *
35394980 ATTGGCACTAAGTGTGTGAGATCAGATAACTTCGGCTATATACATAT
1 ATTGGCACTAAGTGTGCGAGACCAGATAGCTTCGGC--TA-A-ATAT
*
35395027 ATTGGCACTTAGTGTGCG
1 ATTGGCACTAAGTGTGCG
35395045 TGATTGAGAT
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
43 51 0.54
44 22 0.23
45 2 0.02
46 1 0.01
47 19 0.20
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (43 bp):
ATTGGCACTAAGTGTGCGAGACCAGATAGCTTCGGCTAAATAT
Found at i:35397898 original size:4 final size:4
Alignment explanation
Indices: 35397867--35397931 Score: 55
Period size: 4 Copynumber: 17.0 Consensus size: 4
35397857 TGATTTTTTC
* * *
35397867 TAAA TAAA -AAA TAAA GAAA GAAA T-AA TAAA TAAA TAGA -AAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
* * *
35397912 CAAA CAAA CAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA
35397932 ACAATTTGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
3 8 0.15
4 44 0.85
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (4 bp):
TAAA
Found at i:35397908 original size:30 final size:31
Alignment explanation
Indices: 35397867--35397931 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
35397857 TGATTTTTTC
* * *
35397867 TAAATAAAAAATAAAGAAAGAAA-TAATAAA
1 TAAATAAAAAATAAACAAACAAACAAATAAA
*
35397897 TAAATAGAAAATAAACAAACAAACAAATAAA
1 TAAATAAAAAATAAACAAACAAACAAATAAA
35397928 TAAA
1 TAAA
35397932 ACAATTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (31 bp):
TAAATAAAAAATAAACAAACAAACAAATAAA
Found at i:35407688 original size:49 final size:49
Alignment explanation
Indices: 35407615--35407712 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
35407605 AGTCTTTTTT
35407615 AAAAATTCACATCAACGATCAAATTTATTAATACAGCTAATTATTTGGA
1 AAAAATTCACATCAACGATCAAATTTATTAATACAGCTAATTATTTGGA
* *
35407664 AAAAATTCACATCAACTATTAAATTTATTAATACAGCTAATTATTTGGA
1 AAAAATTCACATCAACGATCAAATTTATTAATACAGCTAATTATTTGGA
35407713 CTAACTAATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (49 bp):
AAAAATTCACATCAACGATCAAATTTATTAATACAGCTAATTATTTGGA
Found at i:35416398 original size:29 final size:29
Alignment explanation
Indices: 35416356--35416414 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
35416346 TTTATTTACG
35416356 GGTTGGGAGTTAGGAAAGTACTATAGATA
1 GGTTGGGAGTTAGGAAAGTACTATAGATA
*
35416385 GGTTGGGAGTTAGGAAAGTGCTATAGATA
1 GGTTGGGAGTTAGGAAAGTACTATAGATA
35416414 G
1 G
35416415 TTTTAGATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.37, T:0.27
Consensus pattern (29 bp):
GGTTGGGAGTTAGGAAAGTACTATAGATA
Found at i:35416666 original size:26 final size:27
Alignment explanation
Indices: 35416620--35416672 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
35416610 TTTCTATCAA
*
35416620 TTTTTATTATTAAATTCAAATTTAATT
1 TTTTTATTATTAAATTCAAATTAAATT
35416647 TTTTTATTATTTAAA-T-AAATTAAATT
1 TTTTTATTA-TTAAATTCAAATTAAATT
35416673 CGAACTAGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 10 0.42
28 5 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTTATTATTAAATTCAAATTAAATT
Found at i:35418582 original size:6 final size:6
Alignment explanation
Indices: 35418571--35418611 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
35418561 CCTATAGAGT
* * *
35418571 CTGAGC CTGAGC CTTAGC CTTAGC CTTAGC CTGAGC CTGAG
1 CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAG
35418612 ACTACTACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.17, C:0.32, G:0.27, T:0.24
Consensus pattern (6 bp):
CTGAGC
Found at i:35418595 original size:12 final size:12
Alignment explanation
Indices: 35418574--35418608 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
35418564 ATAGAGTCTG
35418574 AGCCTGAGCCTT
1 AGCCTGAGCCTT
*
35418586 AGCCTTAGCCTT
1 AGCCTGAGCCTT
35418598 AGCCTGAGCCT
1 AGCCTGAGCCT
35418609 GAGACTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.17, C:0.34, G:0.23, T:0.26
Consensus pattern (12 bp):
AGCCTGAGCCTT
Found at i:35423742 original size:2 final size:2
Alignment explanation
Indices: 35423735--35423760 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35423725 TTCAAGGCTT
35423735 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
35423761 AACGTGAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:35424253 original size:19 final size:21
Alignment explanation
Indices: 35424217--35424256 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
35424207 TAAAATTTTA
35424217 AAAGTTAAAAAATCATTAAATT
1 AAAGTTAAAAAA-CATTAAATT
35424239 AAAG-TAAAAAA-ATTAAAT
1 AAAGTTAAAAAACATTAAAT
35424257 CAATTGAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (21 bp):
AAAGTTAAAAAACATTAAATT
Found at i:35424279 original size:14 final size:14
Alignment explanation
Indices: 35424260--35424291 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
35424250 ATTAAATCAA
*
35424260 TTGAGATATTCATC
1 TTGAGACATTCATC
35424274 TTGAGACATTCATC
1 TTGAGACATTCATC
35424288 TTGA
1 TTGA
35424292 TATGAAGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (14 bp):
TTGAGACATTCATC
Found at i:35428912 original size:48 final size:48
Alignment explanation
Indices: 35428856--35428952 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
35428846 AAAGGATATA
35428856 TGGCAGTTAAACTTGACATGAGCAAAGCCTTGATAGGGTTGAGTGGGG
1 TGGCAGTTAAACTTGACATGAGCAAAGCCTTGATAGGGTTGAGTGGGG
*
35428904 TGGCAGTTAAACTTGACATGAGCAAAGCCTTGATAGGGTTGGGTGGGG
1 TGGCAGTTAAACTTGACATGAGCAAAGCCTTGATAGGGTTGAGTGGGG
35428952 T
1 T
35428953 TTTCTTAAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.26, C:0.12, G:0.36, T:0.26
Consensus pattern (48 bp):
TGGCAGTTAAACTTGACATGAGCAAAGCCTTGATAGGGTTGAGTGGGG
Found at i:35431967 original size:21 final size:20
Alignment explanation
Indices: 35431925--35431968 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
35431915 AAACTTATTT
*
35431925 TTACATACCAAATATTAAAA
1 TTACATACCAAAAATTAAAA
* *
35431945 TTACATCCCAAAAAATTATAA
1 TTACATACC-AAAAATTAAAA
35431966 TTA
1 TTA
35431969 TTAAAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (20 bp):
TTACATACCAAAAATTAAAA
Found at i:35433263 original size:38 final size:39
Alignment explanation
Indices: 35433198--35433297 Score: 157
Period size: 38 Copynumber: 2.5 Consensus size: 39
35433188 CTTAATACTC
*
35433198 TTATTTTCATTTTTTTCTTTTATATTATTTATCTCCCTCT
1 TTATTTTC-TTTTTTTCTTTTACATTATTTATCTCCCTCT
35433238 TTA-TTTCTTTTTTTCTTTTACATTATTTATCTCCCTCT
1 TTATTTTCTTTTTTTCTTTTACATTATTTATCTCCCTCT
35433276 TTATTTTTCTATTTTTTCTTTT
1 TTA-TTTTCT-TTTTTTCTTTT
35433298 TTCTTCCTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
38 33 0.59
39 4 0.07
40 8 0.14
41 11 0.20
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (39 bp):
TTATTTTCTTTTTTTCTTTTACATTATTTATCTCCCTCT
Found at i:35434522 original size:20 final size:21
Alignment explanation
Indices: 35434483--35434522 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35434473 AAGAGAATGT
*
35434483 ATTTTTGTAATGCAATAATTG
1 ATTTTTGTAATGCAACAATTG
*
35434504 ATTTTTGTATTGC-ACAATT
1 ATTTTTGTAATGCAACAATT
35434523 AGGCATTGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.50
Consensus pattern (21 bp):
ATTTTTGTAATGCAACAATTG
Found at i:35434723 original size:5 final size:5
Alignment explanation
Indices: 35434713--35434740 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
35434703 ACGAACCTCC
35434713 CCCTT CCCTT CCCTT CCCTT CCCTT CCC
1 CCCTT CCCTT CCCTT CCCTT CCCTT CCC
35434741 ACCAATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (5 bp):
CCCTT
Found at i:35444520 original size:20 final size:20
Alignment explanation
Indices: 35444495--35444535 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
35444485 AAGAAGAAAG
*
35444495 TAAGAGAAATGCTACAACTC
1 TAAGAGAAATGCTAAAACTC
35444515 TAAGAGAAATGCTAAAACTC
1 TAAGAGAAATGCTAAAACTC
35444535 T
1 T
35444536 CCACCATGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (20 bp):
TAAGAGAAATGCTAAAACTC
Found at i:35452875 original size:17 final size:17
Alignment explanation
Indices: 35452841--35452875 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
35452831 AACTTGAGCC
* *
35452841 TTTATTTATTTATTCAT
1 TTTATTTATGTATCCAT
35452858 TTTATTTATGTATCCAT
1 TTTATTTATGTATCCAT
35452875 T
1 T
35452876 ATCGGAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTATTTATGTATCCAT
Found at i:35455058 original size:15 final size:15
Alignment explanation
Indices: 35455026--35455059 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
35455016 TTTATTTTTG
* *
35455026 TTATTTTTGCTTGTA
1 TTATTTTTGCTCGCA
35455041 TTATTTTTGCTCGCA
1 TTATTTTTGCTCGCA
35455056 TTAT
1 TTAT
35455060 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.62
Consensus pattern (15 bp):
TTATTTTTGCTCGCA
Found at i:35456173 original size:16 final size:17
Alignment explanation
Indices: 35456142--35456174 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35456132 TTCATAAGTA
35456142 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
35456159 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
35456175 ACTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:35456486 original size:45 final size:46
Alignment explanation
Indices: 35456435--35456581 Score: 118
Period size: 46 Copynumber: 3.2 Consensus size: 46
35456425 TCTCCCATCC
* * *
35456435 ACGGTCTTATTTATCTT-TGACATGATGCCATAGTGTCTTTCAACT
1 ACGGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAACT
* * * * *
35456480 ACGGTCTTACTCATTTTCTGTCATGCTGCCATGGTATCTTTCAACC
1 ACGGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAACT
** * * * * * *
35456526 ATTGTCTTATTCAT-TTCCCGTCATGTTGCCATGGTATCTTTCAACC
1 ACGGTCTTACTCATCTT-CTGACATGATGCCATAGTATCTTTCAACT
*
35456572 ATGGTCTTAC
1 ACGGTCTTAC
35456582 ACATTTCATT
Statistics
Matches: 85, Mismatches: 15, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
45 16 0.19
46 69 0.81
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
ACGGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAACT
Found at i:35456520 original size:46 final size:46
Alignment explanation
Indices: 35456455--35456588 Score: 169
Period size: 46 Copynumber: 2.9 Consensus size: 46
35456445 TTATCTTTGA
* * * * * *
35456455 CATGATGCCATAGTGTCTTTCAACTACGGTCTTACTCATTTTCTGT
1 CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGT
* * *
35456501 CATGCTGCCATGGTATCTTTCAACCATTGTCTTATTCATTTCCCGT
1 CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGT
* *
35456547 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
35456589 ATTTCAAAGA
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGATGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGT
Found at i:35463025 original size:9 final size:9
Alignment explanation
Indices: 35463008--35463044 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
35462998 TGAGTTTTCG
35463008 AATTCGAAT
1 AATTCGAAT
*
35463017 AACTCGAAT
1 AATTCGAAT
35463026 AATTCGAAT
1 AATTCGAAT
35463035 AATTCGAAT
1 AATTCGAAT
35463044 A
1 A
35463045 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:35485158 original size:30 final size:29
Alignment explanation
Indices: 35485101--35485158 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
35485091 CCTTTTTACT
* *
35485101 TTTCCCTCAAAACTTTTACTCCTTCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTCCCAC
*
35485130 TTTCCCCCCAAACTTTTACTCCCCTCCCA
1 TTTCCCCCAAAACTTTTACT-CCCTCCCA
35485159 TCCCAACCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.19, C:0.47, G:0.00, T:0.34
Consensus pattern (29 bp):
TTTCCCCCAAAACTTTTACTCCCTCCCAC
Found at i:35485531 original size:17 final size:17
Alignment explanation
Indices: 35485511--35485557 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
35485501 CACATTTTAT
*
35485511 ATTATTTATATTATTGA
1 ATTATTTATATTATCGA
35485528 ATTATTTAGTCA-TATCGA
1 ATTATTTA-T-ATTATCGA
35485546 A-TATTTATATTA
1 ATTATTTATATTA
35485558 AAATTGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.12
17 14 0.54
18 7 0.27
19 1 0.04
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTATTTATATTATCGA
Found at i:35487524 original size:49 final size:49
Alignment explanation
Indices: 35487434--35487529 Score: 111
Period size: 49 Copynumber: 2.0 Consensus size: 49
35487424 GTCGCATTGC
* * * * *
35487434 AACTTGGGTTCCCAAATGACAGTGGTTATACGGTCACGAGTTGAAGTAT
1 AACTAGGGCTCCCAAATGACAGTAGTTATACGATCACGAGTTCAAGTAT
* * * *
35487483 AACTAGGGCTCCCAATTGACGGTAGTTATGCGATCATGAGTTCAAGT
1 AACTAGGGCTCCCAAATGACAGTAGTTATACGATCACGAGTTCAAGT
35487530 TTTATGCCAC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (49 bp):
AACTAGGGCTCCCAAATGACAGTAGTTATACGATCACGAGTTCAAGTAT
Found at i:35489562 original size:21 final size:21
Alignment explanation
Indices: 35489536--35489579 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
35489526 AATGAAAGTT
35489536 AAACAATATTTATATTGTATG
1 AAACAATATTTATATTGTATG
35489557 AAACAATATTTATATTGTATG
1 AAACAATATTTATATTGTATG
35489578 AA
1 AA
35489580 CTTGCTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (21 bp):
AAACAATATTTATATTGTATG
Found at i:35490399 original size:15 final size:15
Alignment explanation
Indices: 35490379--35490408 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35490369 CCGTGTACCA
*
35490379 TGATCAACTTTCTAT
1 TGATCAACTTCCTAT
35490394 TGATCAACTTCCTAT
1 TGATCAACTTCCTAT
35490409 CAAATAACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (15 bp):
TGATCAACTTCCTAT
Found at i:35502560 original size:158 final size:158
Alignment explanation
Indices: 35502272--35502597 Score: 510
Period size: 158 Copynumber: 2.1 Consensus size: 158
35502262 TTAGAATATA
* * * *
35502272 ATTCATTTTTATTAAGTAAAGCTAAAAATCAATATAAGATAATTTTGATGTAATTCCATAAGAGC
1 ATTCATATTTATAAAGTAAAACTAAAAATCAACATAAGATAATTTTGATGTAATTCCATAAGAGC
* * * * * * *
35502337 CTTGATATAATCCAATGCCTTTAAATATGGAGAGTGATCTTACTTGATCTTCAAGTAACCATTTT
66 CTCGATATAATCCAATACCTTTAAACATGAAAAATGATCTTACTTGATCATCAAGTAACCATTTT
35502402 TCAAGTTTTCAACCTTAACTCAATTGGT
131 TCAAGTTTTCAACCTTAACTCAATTGGT
35502430 ATTCATATTTATAAAGTAAAACTAAAAATCAACATAAGATAATTTTGATGTAATTCCATAAGAGC
1 ATTCATATTTATAAAGTAAAACTAAAAATCAACATAAGATAATTTTGATGTAATTCCATAAGAGC
* *
35502495 CTCGATATAATCCAATACCTTTGAACATGAAAAATGA-CTCTACTTGTTCATCAAGTAACCATTT
66 CTCGATATAATCCAATACCTTTAAACATGAAAAATGATCT-TACTTGATCATCAAGTAACCATTT
35502559 TTCAAGTTTTCAACCTTAACTCAATTGGT
130 TTCAAGTTTTCAACCTTAACTCAATTGGT
*
35502588 CTTCATATTT
1 ATTCATATTT
35502598 TGAATTTTAA
Statistics
Matches: 153, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
157 2 0.01
158 151 0.99
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (158 bp):
ATTCATATTTATAAAGTAAAACTAAAAATCAACATAAGATAATTTTGATGTAATTCCATAAGAGC
CTCGATATAATCCAATACCTTTAAACATGAAAAATGATCTTACTTGATCATCAAGTAACCATTTT
TCAAGTTTTCAACCTTAACTCAATTGGT
Found at i:35504372 original size:9 final size:9
Alignment explanation
Indices: 35504358--35504384 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
35504348 CTGAAATTTG
35504358 TCACGGGCC
1 TCACGGGCC
35504367 TCACGGGCC
1 TCACGGGCC
35504376 TCACGGGCC
1 TCACGGGCC
35504385 CCATCCCCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.44, G:0.33, T:0.11
Consensus pattern (9 bp):
TCACGGGCC
Found at i:35505284 original size:22 final size:23
Alignment explanation
Indices: 35505252--35505308 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
35505242 AGATGGGGGG
*
35505252 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATTGTATTTTGAGGAGAGA
*
35505274 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATTGTATTTTGAGGAGAGA
**
35505297 AGAGATTGTATT
1 ATCGATTGTATT
35505309 AGAAGGGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.35
Consensus pattern (23 bp):
ATCGATTGTATTTTGAGGAGAGA
Found at i:35505303 original size:23 final size:22
Alignment explanation
Indices: 35505259--35505308 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
35505249 GGGATCGATG
**
35505259 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
35505281 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
35505304 GTATT
1 GTATT
35505309 AGAAGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:35505559 original size:54 final size:54
Alignment explanation
Indices: 35505477--35505589 Score: 199
Period size: 54 Copynumber: 2.1 Consensus size: 54
35505467 TATAAAAAAA
*
35505477 GGGAAAGAAGGAAGGATCTTACCGGTGTTCAATTTTCCAACATCGTGGACGACT
1 GGGAAAGAAGGAAGGATCTTACCGGTGTTCAATTTTCCAACATCGTGGACGACC
* *
35505531 GGGAAAGAGGGAAGGATCTTACCGGTGTTCAGTTTTCCAACATCGTGGACGACC
1 GGGAAAGAAGGAAGGATCTTACCGGTGTTCAATTTTCCAACATCGTGGACGACC
35505585 GGGAA
1 GGGAA
35505590 GCCACCGCCG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (54 bp):
GGGAAAGAAGGAAGGATCTTACCGGTGTTCAATTTTCCAACATCGTGGACGACC
Found at i:35506037 original size:39 final size:39
Alignment explanation
Indices: 35505967--35506078 Score: 179
Period size: 39 Copynumber: 2.8 Consensus size: 39
35505957 ATAAAGTATG
35505967 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATA
* *
35506007 GTTTTAATTAATAATAAAACAAAATAGTATGAGGGAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
* *
35506046 GTTTTAATTAATAATAAAACAAAGTAGCATGGG
1 GTTTTAATTAATAATAAAACAAAATAGTATGGG
35506079 AGGAGTGGAA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 52 0.78
40 15 0.22
ACGTcount: A:0.48, C:0.04, G:0.18, T:0.30
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
Found at i:35510545 original size:15 final size:15
Alignment explanation
Indices: 35510525--35510555 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35510515 TTTACTTTCT
35510525 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
35510540 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
35510555 A
1 A
35510556 AAATCTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:35521308 original size:18 final size:18
Alignment explanation
Indices: 35521285--35521329 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
35521275 ATTTCCTAGC
*
35521285 TTATTTGTTATTA-TCTTT
1 TTATTTGTTATTATTC-AT
35521303 TTATTTGTT-TTATTCAT
1 TTATTTGTTATTATTCAT
35521320 TTATTTGTTA
1 TTATTTGTTA
35521330 CCTCGAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.71
Consensus pattern (18 bp):
TTATTTGTTATTATTCAT
Found at i:35524994 original size:42 final size:42
Alignment explanation
Indices: 35524947--35525028 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
35524937 TAGTCTCTCC
35524947 CTGTTTTGTTTTAGGA-GGAGAGAATCTCCATTGTATAATCCG
1 CTGTTTTGTTTTAGGATGG-GAGAATCTCCATTGTATAATCCG
35524989 CTGTTTTGTTTTAGGATGGGAGAATCTCCATTGTATAATC
1 CTGTTTTGTTTTAGGATGGGAGAATCTCCATTGTATAATC
35525029 GAGCAGAGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 37 0.95
43 2 0.05
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (42 bp):
CTGTTTTGTTTTAGGATGGGAGAATCTCCATTGTATAATCCG
Found at i:35525697 original size:6 final size:6
Alignment explanation
Indices: 35525686--35525710 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35525676 GTCTTCTGTC
35525686 TTGTAG TTGTAG TTGTAG TTGTAG T
1 TTGTAG TTGTAG TTGTAG TTGTAG T
35525711 CGTACACCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (6 bp):
TTGTAG
Found at i:35535932 original size:3 final size:3
Alignment explanation
Indices: 35535892--35535916 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
35535882 TTCAAAACAA
35535892 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
35535917 CACTTTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:35537026 original size:26 final size:26
Alignment explanation
Indices: 35536990--35537042 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
35536980 GGGAGAACCT
35536990 ATGAAAATTGGGTGAAATTTCAGGAG
1 ATGAAAATTGGGTGAAATTTCAGGAG
*
35537016 ATGAAAATTGGGTGAAATTTCATGAG
1 ATGAAAATTGGGTGAAATTTCAGGAG
35537042 A
1 A
35537043 AATATATCTA
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:0.40, C:0.04, G:0.28, T:0.28
Consensus pattern (26 bp):
ATGAAAATTGGGTGAAATTTCAGGAG
Found at i:35539635 original size:3 final size:3
Alignment explanation
Indices: 35539627--35539671 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
35539617 TATTCCAATT
35539627 TTA TTA TTA TTA TTA TTA TTA TT- TT- TTA TT- TTA TT- TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35539670 TT
1 TT
35539672 TCTTTTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 10 0.26
3 28 0.74
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (3 bp):
TTA
Found at i:35539638 original size:6 final size:5
Alignment explanation
Indices: 35539624--35539672 Score: 53
Period size: 5 Copynumber: 8.8 Consensus size: 5
35539614 AAGTATTCCA
35539624 ATTTT ATTATT ATTATT ATTATT ATTTTTT ATTTT ATTTT ATTTT ATTT
1 ATTTT ATT-TT ATT-TT ATT-TT A--TTTT ATTTT ATTTT ATTTT ATTT
35539673 CTTTTTTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
5 21 0.51
6 15 0.37
7 3 0.07
8 2 0.05
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:35540468 original size:6 final size:6
Alignment explanation
Indices: 35540457--35540487 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
35540447 ACAAATCCGA
*
35540457 AACAGT AACAGT AACAGT AACGGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
35540488 TTCGACACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:35540527 original size:12 final size:12
Alignment explanation
Indices: 35540510--35540534 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35540500 AGTGTCGAAT
35540510 CGGTAACAGTAA
1 CGGTAACAGTAA
35540522 CGGTAACAGTAA
1 CGGTAACAGTAA
35540534 C
1 C
35540535 AATAGTCAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:35541813 original size:32 final size:32
Alignment explanation
Indices: 35541775--35541842 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
35541765 AATTAAACTT
35541775 TTACCCTTATTCAATTTAATCCTTTTTACTAA
1 TTACCCTTATTCAATTTAATCCTTTTTACTAA
35541807 TTACCCTTATTCAATTTAATCCTTTTTACTAA
1 TTACCCTTATTCAATTTAATCCTTTTTACTAA
35541839 TTAC
1 TTAC
35541843 TCTAAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (32 bp):
TTACCCTTATTCAATTTAATCCTTTTTACTAA
Found at i:35542462 original size:38 final size:38
Alignment explanation
Indices: 35542414--35542497 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
35542404 GGCACGAAGG
* * *
35542414 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
35542452 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
35542490 CCCGAATA
1 CCCGAATA
35542498 CACATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:35551125 original size:96 final size:96
Alignment explanation
Indices: 35550961--35551194 Score: 319
Period size: 96 Copynumber: 2.4 Consensus size: 96
35550951 TAGGGTAAAT
* * * *
35550961 TGCCGATACCAGGTCCCAGACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATGTTGAGGCCGATGCCATGTCCC
* **
35551026 AGACATGGTCGTACATTAGCT-CTAGTC-TCAA
66 AGACATGGTCGTACACTAG-TAC-ACACATCAA
* *
35551057 TGCCGATGCCATGTCCCAGGCATAGTCTTACACTGGCTCTCATGTTGTGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATGTTGAGGCCGATGCCATGTCCC
*
35551122 AGACATGGTCTTACACTAGTACACACATCAA
66 AGACATGGTCGTACACTAGTACACACATCAA
* * *
35551153 TGCCAATGCCATGTCCCAGACATTGTCTTACATTGGCTCTCA
1 TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCA
35551195 CAACATCACC
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
95 3 0.02
96 119 0.98
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (96 bp):
TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATGTTGAGGCCGATGCCATGTCCC
AGACATGGTCGTACACTAGTACACACATCAA
Found at i:35551290 original size:144 final size:143
Alignment explanation
Indices: 35550973--35551295 Score: 373
Period size: 144 Copynumber: 2.2 Consensus size: 143
35550963 CCGATACCAG
* * ** *
35550973 GTCCCAGACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCCAGACATGGTCGT
1 GTCCCAGACATGGTCTTACACTGGCACACATATCAAGGCCAATGCCATGTCCCAGACATGGTCGT
* * ** * * *
35551038 ACATTAGCTCTAGTCTCAATGCCGATGCCATGTCCCAGGCATAGTCTTACACTGGCTCTCATGTT
66 ACATTAGCTCTAG-CACAATACCGATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCATATC
*
35551103 GTGGCCGATGCCAT
130 GTGGCCGACGCCAT
* * * * * *
35551117 GTCCCAGACATGGTCTTACACTAGTACACACATCAATGCCAATGCCATGTCCCAGACATTGTCTT
1 GTCCCAGACATGGTCTTACACTGGCACACATATCAAGGCCAATGCCATGTCCCAGACATGGTCGT
* * *
35551182 ACATTGGCTCT--CACAACATCACCGATGCTATGTTCCAAACAT-GATCTTACACTAGCTCTCAT
66 ACATTAGCTCTAGCAC-A-AT-ACCGATGCCATGTCCCAAACATAG-TCTTACACTAGCTCTCAT
35551244 ATCGTGGCCGACGCCAT
127 ATCGTGGCCGACGCCAT
*
35551261 GTCCCAGACATGGTCTTATACTGGCACACATATCA
1 GTCCCAGACATGGTCTTACACTGGCACACATATCA
35551296 CCCAAATATC
Statistics
Matches: 149, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
141 2 0.01
142 1 0.01
143 3 0.02
144 143 0.96
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (143 bp):
GTCCCAGACATGGTCTTACACTGGCACACATATCAAGGCCAATGCCATGTCCCAGACATGGTCGT
ACATTAGCTCTAGCACAATACCGATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCATATCG
TGGCCGACGCCAT
Found at i:35551293 original size:48 final size:48
Alignment explanation
Indices: 35550962--35551295 Score: 273
Period size: 48 Copynumber: 7.0 Consensus size: 48
35550952 AGGGTAAATT
* * * *
35550962 GCCGATACCAGGTCCCAGACATGGTCTTACACTGGCTCACATGTTGA-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCATG
* * * * *
35551010 GCCGATGCCATGTCCCAGACATGGTCGTACATTAGCTCTA-GTCTCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-ACATATC-ATG
* * * * **
35551058 GCCGATGCCATGTCCCAGGCATAGTCTTACACTGGCTCTCATGTTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
* *
35551106 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TACACACATCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATATC-ATG
* * * * * * *
35551154 GCCAATGCCATGTCCCAGACATTGTCTTACATTGGCTCTCACAACATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
* * * * * * * *
35551202 ACCGATGCTATGTTCCAAACATGATCTTACACTAGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
* * *
35551250 GCCGACGCCATGTCCCAGACATGGTCTTATACTGGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
35551296 CCCAAATATC
Statistics
Matches: 221, Mismatches: 56, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
47 5 0.02
48 213 0.96
49 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
Found at i:35556726 original size:24 final size:23
Alignment explanation
Indices: 35556665--35556732 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 23
35556655 AATCTTTCTT
*
35556665 TCTTTCTTCCTCTGTTTCTGTTTC
1 TCTTTCTT-CTCTGTTTCTGTTAC
35556689 TCTTTC-TCATTCTGTTTCTGTTAC
1 TCTTTCTTC--TCTGTTTCTGTTAC
35556713 TCTTATCTTCTCTGCTTTCT
1 TCTT-TCTTCTCTG-TTTCT
35556733 ATCTATAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
22 1 0.03
23 1 0.03
24 27 0.71
25 7 0.18
26 2 0.05
ACGTcount: A:0.04, C:0.28, G:0.07, T:0.60
Consensus pattern (23 bp):
TCTTTCTTCTCTGTTTCTGTTAC
Found at i:35557289 original size:22 final size:22
Alignment explanation
Indices: 35557244--35557289 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
35557234 ATTAGCAAAT
* *
35557244 ATATTTTTTAAAAATTATAGAA
1 ATATTATTTAAAAATTATAAAA
35557266 ATATTATTTAATAAATT-TAAAA
1 ATATTATTTAA-AAATTATAAAA
35557288 AT
1 AT
35557290 TAACATGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATATTATTTAAAAATTATAAAA
Found at i:35562535 original size:46 final size:46
Alignment explanation
Indices: 35562392--35562535 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 46
35562382 CCCGCCCATA
* * *
35562392 AGTGAACTCGGACTCAACTCAGCGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTA--AACATCCC
* * * * *** *
35562440 A-CGAACTCGGACTCAACTCAACGAGTTC-GA-ACATTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAAACATCC--C
*
35562485 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAAACATCCC
35562531 AGTGA
1 AGTGA
35562536 CATGTCACTT
Statistics
Matches: 72, Mismatches: 19, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
43 4 0.06
45 3 0.04
46 32 0.44
47 26 0.36
48 7 0.10
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAAACATCCC
Found at i:35562645 original size:49 final size:49
Alignment explanation
Indices: 35562573--35562667 Score: 172
Period size: 49 Copynumber: 1.9 Consensus size: 49
35562563 TAAGGTTCAA
* *
35562573 CGGGACCTTTTTCCCAATCATGTGTTTCAACCATCTTCTACGGAATGCC
1 CGGGACCTTTTTCCCAATCATGTGTCTCAACCATCTTCTACAGAATGCC
35562622 CGGGACCTTTTTCCCAATCATGTGTCTCAACCATCTTCTACAGAAT
1 CGGGACCTTTTTCCCAATCATGTGTCTCAACCATCTTCTACAGAAT
35562668 TCCGATACCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.33
Consensus pattern (49 bp):
CGGGACCTTTTTCCCAATCATGTGTCTCAACCATCTTCTACAGAATGCC
Found at i:35590707 original size:21 final size:21
Alignment explanation
Indices: 35590681--35590721 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
35590671 AGACGAGCAA
* *
35590681 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
35590702 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
35590722 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:35596284 original size:29 final size:28
Alignment explanation
Indices: 35596230--35596300 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 28
35596220 AAAATATGCT
35596230 TTTTATACTCTTTATCTATCTGAATTTTAG
1 TTTTATACT-TTTATCTATCTGAA-TTTAG
* *
35596260 TTTTATACTTTTAT-TTTCTATAATTTAG
1 TTTTATACTTTTATCTATCT-GAATTTAG
*
35596288 TTCTTCTACTTTT
1 TT-TTATACTTTT
35596301 TGAATTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.31
29 16 0.44
30 9 0.25
ACGTcount: A:0.21, C:0.13, G:0.04, T:0.62
Consensus pattern (28 bp):
TTTTATACTTTTATCTATCTGAATTTAG
Found at i:35599022 original size:2 final size:2
Alignment explanation
Indices: 35599015--35599041 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35599005 TACGATGGCA
35599015 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
35599042 ACTAATACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35601570 original size:29 final size:29
Alignment explanation
Indices: 35601517--35601576 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
35601507 TGCTATAAGT
35601517 TTTTATACTCTTTATTTATCTGAATTTTAG
1 TTTTATACTCTTTATTTATCTGAA-TTTAG
*
35601547 TTTTATACT-TTTATTT-TTTAGAATTTAG
1 TTTTATACTCTTTATTTATCT-GAATTTAG
35601575 TT
1 TT
35601577 CCTCTACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 9 0.32
29 10 0.36
30 9 0.32
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (29 bp):
TTTTATACTCTTTATTTATCTGAATTTAG
Found at i:35605332 original size:27 final size:27
Alignment explanation
Indices: 35605274--35605333 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
35605264 TCTAGTAGGG
* *
35605274 GCGACTGGTTGAGCCTATCTGATAGGC
1 GCGACTAGTTGAGCCTATCTGATAGAC
* *
35605301 ACGACTAGTTGAGCCTGT-TAGATAGAC
1 GCGACTAGTTGAGCCTATCT-GATAGAC
35605328 GCGACT
1 GCGACT
35605334 GGTAGAGTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (27 bp):
GCGACTAGTTGAGCCTATCTGATAGAC
Found at i:35605566 original size:104 final size:104
Alignment explanation
Indices: 35605381--35606163 Score: 1432
Period size: 104 Copynumber: 7.5 Consensus size: 104
35605371 CTATATATAT
*
35605381 ATAACCTAAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATT
1 ATAA-CTAAACACTAACAATTTATATAACCTAACCATAAATTACTAACAAAATAACTATAAAATT
35605446 ATTTTTTTTTAAAATACATTACTAAAAAATCACAAAACAC
65 ATTTTTTTTTAAAATACATTACTAAAAAATCACAAAACAC
35605486 ATAACTAAACACTAACAATTTATATAACCTAACCATAAATTACTAACAAAATAACTATAAAATTA
1 ATAACTAAACACTAACAATTTATATAACCTAACCATAAATTACTAACAAAATAACTATAAAATTA
35605551 TTTTTTTTTAAAATACATTACTAAAAAATCACAAAACAC
66 TTTTTTTTTAAAATACATTACTAAAAAATCACAAAACAC
35605590 ATAACTAAACACTAACAATTTATATAACCTAACCATAAATTACTAACAAAATAACTATAAAATTA
1 ATAACTAAACACTAACAATTTATATAACCTAACCATAAATTACTAACAAAATAACTATAAAATTA
35605655 TTTTTTTTTAAAATACATTACTAAAAAATCACAAAACAC
66 TTTTTTTTTAAAATACATTACTAAAAAATCACAAAACAC
35605694 ATAACTAAACACTAACAATTTATATAACCTAACCATAAATTACTAACAAAATAACTATAAAATTA
1 ATAACTAAACACTAACAATTTATATAACCTAACCATAAATTACTAACAAAATAACTATAAAATTA
35605759 TTTTTTTTTAAAATACATTACTAAAAAATCACAAAACAC
66 TTTTTTTTTAAAATACATTACTAAAAAATCACAAAACAC
35605798 ATAACTAAACACTAACAATTTATATAACCTAACCATAAATTACTAACAAAATAACTATAAAATTA
1 ATAACTAAACACTAACAATTTATATAACCTAACCATAAATTACTAACAAAATAACTATAAAATTA
35605863 TTTTTTTTTAAAATACATTACTAAAAAATCACAAAACAC
66 TTTTTTTTTAAAATACATTACTAAAAAATCACAAAACAC
35605902 ATAACTAAACACTAACAATTTATATAACCTAACCATAAATTACTAACAAAATAACTATAAAATTA
1 ATAACTAAACACTAACAATTTATATAACCTAACCATAAATTACTAACAAAATAACTATAAAATTA
35605967 TTTTTTTTTAAAATACATTACTAAAAAATCACAAAACAC
66 TTTTTTTTTAAAATACATTACTAAAAAATCACAAAACAC
35606006 ATAACTAAACACTAACAATTTATATAACCTAACCATAAATTACTAACAAAATAACTATAAAATTA
1 ATAACTAAACACTAACAATTTATATAACCTAACCATAAATTACTAACAAAATAACTATAAAATTA
*
35606071 -TTTTTTTAAAAATTACATTACTAAAAAATCACAAAATC-C
66 TTTTTTTTTAAAA-TACATTACTAAAAAATCACAAAA-CAC
* * *
35606110 -TATACTAAACACTAACAA-TT-TGTAATCTAATCTCATAAATTATTAACAAAATAA
1 ATA-ACTAAACACTAACAATTTATATAACCTAA-C-CATAAATTACTAACAAAATAA
35606164 ATAACTATAA
Statistics
Matches: 668, Mismatches: 5, Indels: 11
0.98 0.01 0.02
Matches are distributed among these distances:
102 8 0.01
103 16 0.02
104 639 0.96
105 5 0.01
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (104 bp):
ATAACTAAACACTAACAATTTATATAACCTAACCATAAATTACTAACAAAATAACTATAAAATTA
TTTTTTTTTAAAATACATTACTAAAAAATCACAAAACAC
Found at i:35607363 original size:33 final size:33
Alignment explanation
Indices: 35607321--35607389 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
35607311 AATTCAATAT
35607321 AAAACAGAGATTTATCGCGCTTTAATGAAAATC
1 AAAACAGAGATTTATCGCGCTTTAATGAAAATC
* *
35607354 AAAACAGAGATTTATGGCGTTTTAATGAAAATC
1 AAAACAGAGATTTATCGCGCTTTAATGAAAATC
35607387 AAA
1 AAA
35607390 CAAAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.28
Consensus pattern (33 bp):
AAAACAGAGATTTATCGCGCTTTAATGAAAATC
Found at i:35609339 original size:15 final size:15
Alignment explanation
Indices: 35609319--35609351 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
35609309 AGGTGAGCTA
35609319 AGAAAGACAGAGAAG
1 AGAAAGACAGAGAAG
35609334 AGAAAGACAGAGAAG
1 AGAAAGACAGAGAAG
35609349 AGA
1 AGA
35609352 TTGTTGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.06, G:0.33, T:0.00
Consensus pattern (15 bp):
AGAAAGACAGAGAAG
Found at i:35615014 original size:48 final size:49
Alignment explanation
Indices: 35614901--35615095 Score: 186
Period size: 48 Copynumber: 4.0 Consensus size: 49
35614891 CTGATGGCCG
* * * * *
35614901 GCACCAGAGATGTAAAAAAAAAATTTGGATGCTAG-CAAGTAGATAGCCA
1 GCACTAGAGATGTAAAAAAAAAATTTGGGTGCTGGCCAA-TAGATGGCTA
* *
35614950 GCAAC-AGATAT-TAAAAATAAAAA-TTGGGTGCTTGCCAATAGATGGCTA
1 GC-ACTAGAGATGTAAAAA-AAAAATTTGGGTGCTGGCCAATAGATGGCTA
* * * * *
35614998 GCACTAGAGATG-AAAAAAAAATTTTGGGTGCTGGCCAGTATATGAC-C
1 GCACTAGAGATGTAAAAAAAAAATTTGGGTGCTGGCCAATAGATGGCTA
35615045 GACACTAGAGATGTAAAAAAAAAAATTTTGGGTGCTGGCCAATAGATGGCT
1 G-CACTAGAGATGT-AAAAAAAAAA-TTTGGGTGCTGGCCAATAGATGGCT
35615096 GGCATTAGGT
Statistics
Matches: 119, Mismatches: 16, Indels: 19
0.77 0.10 0.12
Matches are distributed among these distances:
47 7 0.06
48 65 0.55
49 15 0.13
50 11 0.09
51 21 0.18
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.23
Consensus pattern (49 bp):
GCACTAGAGATGTAAAAAAAAAATTTGGGTGCTGGCCAATAGATGGCTA
Found at i:35615627 original size:16 final size:16
Alignment explanation
Indices: 35615618--35615669 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
35615608 TAAATAAATT
35615618 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
* * *
35615634 TGAATTGAAATGTAAA
1 TAAATTTAAATTTAAA
*
35615650 TGAAATTTGAAATTCAAA
1 T-AAATTT-AAATTTAAA
35615668 TA
1 TA
35615670 GAAGTGAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
16 14 0.52
17 5 0.19
18 8 0.30
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.37
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:35615639 original size:22 final size:22
Alignment explanation
Indices: 35615608--35615650 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
35615598 GACAAATAAA
* *
35615608 TAAATAAATTTAAATTTAAATT
1 TAAATAAATTGAAATGTAAATT
*
35615630 TAAATGAATTGAAATGTAAAT
1 TAAATAAATTGAAATGTAAAT
35615651 GAAATTTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
TAAATAAATTGAAATGTAAATT
Found at i:35616857 original size:5 final size:5
Alignment explanation
Indices: 35616847--35616878 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
35616837 CATACTGTGA
35616847 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
35616879 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:35616872 original size:9 final size:9
Alignment explanation
Indices: 35616848--35616878 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
35616838 ATACTGTGAA
35616848 AAATAAAAT
1 AAATAAAAT
35616857 AAAATAAAAT
1 -AAATAAAAT
35616867 AAATAAAAT
1 AAATAAAAT
35616876 AAA
1 AAA
35616879 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:35621309 original size:5 final size:5
Alignment explanation
Indices: 35621299--35621330 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
35621289 CAATTTGTGA
35621299 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
35621331 GAACACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:35621324 original size:9 final size:9
Alignment explanation
Indices: 35621300--35621330 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
35621290 AATTTGTGAA
35621300 AAATAAAAT
1 AAATAAAAT
35621309 AAAATAAAAT
1 -AAATAAAAT
35621319 AAATAAAAT
1 AAATAAAAT
35621328 AAA
1 AAA
35621331 GAACACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:35622946 original size:89 final size:88
Alignment explanation
Indices: 35622846--35623166 Score: 267
Period size: 90 Copynumber: 3.6 Consensus size: 88
35622836 AGTACACGAC
* **
35622846 AAATTAAATTTACAGATACAATAAAATACAAACATTCTAAAATATTAATACAAAAAAAATATAAA
1 AAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAA-ATTAATAC-ACGAAAATATAAA
*
35622911 ATTCAAACAAAA-ATAA-ATCTCACT
64 ATTCAAACAAAATATAATA-CGCACT
* * * * * * * *
35622935 AAATTATATTTAAACACT-CAACAAACTACAAACATATGGGT-AAAATTAATACACGAAAATTTT
1 AAATTAAATTTACAGA-TACAAAAAAATACAAACAT-T--CTAAAAATTAATACACGAAAATATA
* * *
35622998 AAATTCAAACTACATATAATACGGACT
62 AAATTCAAACAAAATATAATACGCACT
*
35623025 AAATTAAATTAACAGATACAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAA
1 AAATTAAATTTACAGATACAAAAAAATACAAACATTCTAA-AAATTAATACACGAAAATATAAAA
* * * * * *
35623090 ATGAAACTTTAAATCCT-AGAC-AACT
65 TTCAAAC--AAAAT-ATAATACGCACT
* * *
35623115 ACATTAAATTTACAGATATAAAAAAATACAAACATTCTAAAGAAATAATACA
1 AAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAA-AATTAATACA
35623167 ATTATTTTGA
Statistics
Matches: 186, Mismatches: 33, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
87 1 0.01
88 1 0.01
89 77 0.41
90 94 0.51
91 11 0.06
92 2 0.01
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (88 bp):
AAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAATTAATACACGAAAATATAAAAT
TCAAACAAAATATAATACGCACT
Found at i:35623678 original size:27 final size:27
Alignment explanation
Indices: 35623647--35623707 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
35623637 TACACTACGG
35623647 AAAACTCCCATCTACAATCAACTACAA
1 AAAACTCCCATCTACAATCAACTACAA
* *
35623674 AAAACTTCCATCTACAATCTACTACAA
1 AAAACTCCCATCTACAATCAACTACAA
35623701 AAAACTC
1 AAAACTC
35623708 ATTTGATGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (27 bp):
AAAACTCCCATCTACAATCAACTACAA
Found at i:35623908 original size:53 final size:51
Alignment explanation
Indices: 35623838--35624058 Score: 217
Period size: 51 Copynumber: 4.4 Consensus size: 51
35623828 AAATAATTTT
* *
35623838 TTTTTTACATCTTTGGTGCCGGCCATCTATTGGCTAGCACCCAAAAAAAATA
1 TTTTTTACATCTCTGGTGCCGGCCATCTACTGGCTAGCACCC-AAAAAAATA
* * *
35623890 TGTTTTTACATCTCTGGTGCTGGCCATCTACTGGCCAACACCC----AAA-A
1 T-TTTTTACATCTCTGGTGCCGGCCATCTACTGGCTAGCACCCAAAAAAATA
* * * * *
35623937 --TTTT-CATCTCTGGTGCCGACTATCTACTGGCAAGTACTCAAAAAAGAT-
1 TTTTTTACATCTCTGGTGCCGGCCATCTACTGGCTAGCACCCAAAAAA-ATA
* * *
35623985 TTTTTTTCATCTCTGGTGCCGGCCATCTACTGGTTAGCACCCAAAAAAATTT
1 TTTTTTACATCTCTGGTGCCGGCCATCTACTGGCTAGCACCCAAAAAAA-TA
*
35624037 TTTTTTACATCTCTGATGCCGG
1 TTTTTTACATCTCTGGTGCCGG
35624059 TCATTATATG
Statistics
Matches: 137, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
43 28 0.20
44 4 0.03
47 3 0.02
48 4 0.03
50 5 0.04
51 36 0.26
52 21 0.15
53 36 0.26
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (51 bp):
TTTTTTACATCTCTGGTGCCGGCCATCTACTGGCTAGCACCCAAAAAAATA
Found at i:35624030 original size:94 final size:97
Alignment explanation
Indices: 35623840--35624017 Score: 245
Period size: 96 Copynumber: 1.9 Consensus size: 97
35623830 ATAATTTTTT
* * * *
35623840 TTTTACATCTTTGGTGCCGGCCATCTATTGGCTAGCACCCAAAAAAAATATGTTTTTACATCTCT
1 TTTTACATCTCTGGTGCCGACCATCTACTGGCAAGCACCCAAAAAAAATATGTTTTTACATCTCT
*
35623905 GGTGCTGGCCATCTACTGGCCAACACCCAAAA
66 GGTGCCGGCCATCTACTGGCCAACACCCAAAA
* * * * *
35623937 TTTT-CATCTCTGGTGCCGACTATCTACTGGCAAGTACTCAAAAAAGAT-T-TTTTTTCATCTCT
1 TTTTACATCTCTGGTGCCGACCATCTACTGGCAAGCACCCAAAAAAAATATGTTTTTACATCTCT
35623999 GGTGCCGGCCATCTACTGG
66 GGTGCCGGCCATCTACTGG
35624018 TTAGCACCCA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
94 30 0.42
95 1 0.01
96 36 0.51
97 4 0.06
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (97 bp):
TTTTACATCTCTGGTGCCGACCATCTACTGGCAAGCACCCAAAAAAAATATGTTTTTACATCTCT
GGTGCCGGCCATCTACTGGCCAACACCCAAAA
Found at i:35624071 original size:52 final size:51
Alignment explanation
Indices: 35623937--35624077 Score: 133
Period size: 51 Copynumber: 2.7 Consensus size: 51
35623927 ACACCCAAAA
* * * * ** * *
35623937 TTTTCATCTCTGGTGCCGACTATCTACTGGCAAGTACTCAAAAAAGATTTT
1 TTTTCATCTCTGATGCCGGCCATCTAATGGTTAGCACCCAAAAAAGATTTT
* *
35623988 TTTTCATCTCTGGTGCCGGCCATCTACTGGTTAGCACCCAAAAAA-ATTTTT
1 TTTTCATCTCTGATGCCGGCCATCTAATGGTTAGCACCCAAAAAAGA-TTTT
* *
35624039 TTTTACATCTCTGATGCCGGTCAT-TATATGGTTTGCACC
1 TTTT-CATCTCTGATGCCGGCCATCTA-ATGGTTAGCACC
35624078 TAATTTTTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
50 1 0.01
51 49 0.64
52 27 0.35
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (51 bp):
TTTTCATCTCTGATGCCGGCCATCTAATGGTTAGCACCCAAAAAAGATTTT
Found at i:35625248 original size:48 final size:47
Alignment explanation
Indices: 35625191--35625325 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 47
35625181 CTAAAAAAAA
*
35625191 TTTTACATCTCTGGTGCCGCTCATCTATTGGCCAGCACCCCAAATTTT
1 TTTTTCATCTCTGGTGCCGC-CATCTATTGGCCAGCACCCCAAATTTT
* * * * *
35625239 TTTTTCATCTCTGGTGTCGACCATCTACTGGCTAACA-TCCAAATTTT
1 TTTTTCATCTCTGGTGCCG-CCATCTATTGGCCAGCACCCCAAATTTT
* * * *
35625286 TGTTTTCATATTTGGTGTCGGCCATCTATTAGCCAGCACC
1 T-TTTTCATCTCTGGTG-CCGCCATCTATTGGCCAGCACC
35625326 TAAAAAAAAA
Statistics
Matches: 68, Mismatches: 15, Indels: 7
0.76 0.17 0.08
Matches are distributed among these distances:
47 10 0.15
48 56 0.82
49 2 0.03
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.38
Consensus pattern (47 bp):
TTTTTCATCTCTGGTGCCGCCATCTATTGGCCAGCACCCCAAATTTT
Found at i:35627219 original size:34 final size:32
Alignment explanation
Indices: 35627129--35627234 Score: 88
Period size: 34 Copynumber: 3.2 Consensus size: 32
35627119 GGGTTTTCTT
* * *
35627129 AAAA-TAATTGAATTATGTTTTAGGGGTTTTAA
1 AAAATTAATTAAATTATGATTTA-GAGTTTTAA
* * *
35627161 ATAAATAAATTAAATTAGGGTTTAGAGTTGTTAA
1 A-AAATTAATTAAATTATGATTTAGAGTT-TTAA
**
35627195 GAAAATTAATTAAATTATGATTTAGTTTTTTAA
1 -AAAATTAATTAAATTATGATTTAGAGTTTTAA
35627228 AATAATT
1 AA-AATT
35627235 TTGTGTTTAG
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
32 3 0.05
33 15 0.25
34 40 0.68
35 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.43
Consensus pattern (32 bp):
AAAATTAATTAAATTATGATTTAGAGTTTTAA
Found at i:35627630 original size:127 final size:126
Alignment explanation
Indices: 35627304--35627795 Score: 566
Period size: 126 Copynumber: 3.9 Consensus size: 126
35627294 GATAGTTCTT
** * *
35627304 TAAAAAATAATTTTGAGAAGACCTTTCTAAA-AATATAATGTCAAAAACGCTTCAAGCAGGATGC
1 TAAAAAATAATTTTGAGAAGACGATTCTAAACAA-ATAGTGTCAAAAACGCTTTAAGCAGGATGC
* * * * *
35627368 ACTGTCAGCAAAATT-ACTGAAAAAAGCTCCCATGTGGACGCTTTTTTTCTACGGTA-ATTCC
65 ACTATCAGCAAAATTGA-TGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTTCC
* * * * * *
35627429 TAAAAAAATAATCTTGAGAAGACTATTTTGAACAAATAGTGTAAAAAACGCTTTAAGTAGGATGC
1 T-AAAAAATAATTTTGAGAAGACGATTCTAAACAAATAGTGTCAAAAACGCTTTAAGCAGGATGC
* * **
35627494 ACTGTCAGCAAAATT-ACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTGCAGTAGTTTTT
65 ACTATCAGCAAAATTGA-TGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTTCC
* * * * *
35627556 TAAAAAAATAATTTTGAGAAGATGGTTCTAAATAAATGGTGTCAAAAATG-TTTCAAGCAGGATG
1 T-AAAAAATAATTTTGAGAAGACGATTCTAAACAAATAGTGTCAAAAACGCTTT-AAGCAGGATG
* *
35627620 CACTATCAGCAAAATTGATAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAATAG-TTCC
64 CACTATCAGCAAAATTGATGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTTCC
* * * *
35627682 TGAAAAATAATTTTGAGAAGACGATTTTGAACAAATGGTGT-AAAAACGCTTTAAGCAGGATGCA
1 TAAAAAATAATTTTGAGAAGACGATTCTAAACAAATAGTGTCAAAAACGCTTTAAGCAGGATGCA
* * * **
35627746 CTATAAACAAAATTGATGAAAAAAGCTCCCAGGTGGATACTCTTTTTCTA
66 CTATCAGCAAAATTGATGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTA
35627796 TAGTGTTCCT
Statistics
Matches: 315, Mismatches: 46, Indels: 13
0.84 0.12 0.03
Matches are distributed among these distances:
124 62 0.20
125 38 0.12
126 109 0.35
127 105 0.33
128 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TAAAAAATAATTTTGAGAAGACGATTCTAAACAAATAGTGTCAAAAACGCTTTAAGCAGGATGCA
CTATCAGCAAAATTGATGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTTCC
Found at i:35630203 original size:21 final size:20
Alignment explanation
Indices: 35630154--35630200 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
35630144 GCTTCTGACA
* * *
35630154 GGGGTTGTGGTTGCTCTGGT
1 GGGGTTGTGGTTCCTCCGGC
35630174 GAGGGTTGTGGTTCCTCCGGC
1 G-GGGTTGTGGTTCCTCCGGC
35630195 GGGGTT
1 GGGGTT
35630201 TGTAGTTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.02, C:0.15, G:0.49, T:0.34
Consensus pattern (20 bp):
GGGGTTGTGGTTCCTCCGGC
Found at i:35630474 original size:18 final size:18
Alignment explanation
Indices: 35630448--35630490 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
35630438 GACTGGGAAA
* *
35630448 AGGAAACATATAAGGATT
1 AGGATACATATAAGGACT
*
35630466 AGGATACATATAAGGGCT
1 AGGATACATATAAGGACT
35630484 AGGATAC
1 AGGATAC
35630491 GCACCTAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGACT
Found at i:35630830 original size:13 final size:14
Alignment explanation
Indices: 35630812--35630840 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35630802 TACCGACTAA
35630812 TTCGT-AGTCGATT
1 TTCGTAAGTCGATT
35630825 TTCGTAAGTCGATT
1 TTCGTAAGTCGATT
35630839 TT
1 TT
35630841 GTACTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (14 bp):
TTCGTAAGTCGATT
Found at i:35631973 original size:24 final size:22
Alignment explanation
Indices: 35631929--35631969 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
35631919 AAAGACAAAT
35631929 GTATAGTAAATAAAATATACAA
1 GTATAGTAAATAAAATATACAA
35631951 GTATA-TAAATAAAA-ATACA
1 GTATAGTAAATAAAATATACA
35631970 TACATTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (22 bp):
GTATAGTAAATAAAATATACAA
Found at i:35632043 original size:22 final size:22
Alignment explanation
Indices: 35631997--35632043 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
35631987 TATTAGATAT
**
35631997 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
35632019 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
35632041 TAA
1 TAA
35632044 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:35634661 original size:46 final size:45
Alignment explanation
Indices: 35634609--35634778 Score: 198
Period size: 46 Copynumber: 3.7 Consensus size: 45
35634599 GATCTTTGAA
* *
35634609 ATGAAATGTGTAAGACAATCATTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCAT-ATTGAAAGATACCATGGCAACCTGAC
* *
35634655 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCAT-ATTGAAAGATACCATGGCAACCTGAC
** * *
35634701 ATGAAATGAATAAGACCATAGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGTGTAAGACCATA-TTGAAAGATACCATGGCAACCTGAC
* *
35634747 A-GAAAACGAGTAAGACCATAGTTGAAAGATAC
1 ATG-AAATGTGTAAGACCATA-TTGAAAGATAC
35634779 TATGACATCA
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
45 1 0.01
46 109 0.99
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (45 bp):
ATGAAATGTGTAAGACCATATTGAAAGATACCATGGCAACCTGAC
Found at i:35636088 original size:25 final size:24
Alignment explanation
Indices: 35636039--35636090 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
35636029 CTGTTATAAA
* *
35636039 AAAATTATAAAATAAAAATTAATT
1 AAAATTACAAAATAAAAAATAATT
35636063 AAAATTACATAAATAAAAAA-ATATT
1 AAAATTACA-AAATAAAAAATA-ATT
35636088 AAA
1 AAA
35636091 TAATTTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAATTACAAAATAAAAAATAATT
Found at i:35636293 original size:20 final size:21
Alignment explanation
Indices: 35636268--35636316 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
35636258 TAAAGAGAGC
*
35636268 TTTGAGA-AATTTAGGGATAA
1 TTTGAGAGAATTTAGGGAGAA
**
35636288 TTTGAGAGCTTTTAGGGAGAA
1 TTTGAGAGAATTTAGGGAGAA
35636309 TTTGAGAG
1 TTTGAGAG
35636317 CGTTTTTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.35
Consensus pattern (21 bp):
TTTGAGAGAATTTAGGGAGAA
Found at i:35636303 original size:21 final size:22
Alignment explanation
Indices: 35636277--35636322 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
35636267 CTTTGAGAAA
*
35636277 TTTAGGGATAATTTGAGAGC-T
1 TTTAGGGAGAATTTGAGAGCGT
35636298 TTTAGGGAGAATTTGAGAGCGT
1 TTTAGGGAGAATTTGAGAGCGT
35636320 TTT
1 TTT
35636323 TGAAGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.39
Consensus pattern (22 bp):
TTTAGGGAGAATTTGAGAGCGT
Found at i:35636329 original size:21 final size:21
Alignment explanation
Indices: 35636277--35636332 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
35636267 CTTTGAGAAA
* *
35636277 TTTAGGGATAATTTGAGAGCT
1 TTTAGGAAGAATTTGAGAGCT
*
35636298 TTTAGGGAGAATTTGAGAGCGT
1 TTTAGGAAGAATTTGAGAGC-T
*
35636320 TTT-TGAAGAATTT
1 TTTAGGAAGAATTT
35636333 TGAAGAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.39
Consensus pattern (21 bp):
TTTAGGAAGAATTTGAGAGCT
Found at i:35639550 original size:22 final size:22
Alignment explanation
Indices: 35639516--35639558 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
35639506 TATTTAGATA
35639516 ATAATAATAAAA-TAGTAGCAAT
1 ATAATAATAAAATTA-TAGCAAT
* *
35639538 ATAATAGTGAAATTATAGCAA
1 ATAATAATAAAATTATAGCAA
35639559 AATGAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.28
Consensus pattern (22 bp):
ATAATAATAAAATTATAGCAAT
Found at i:35655778 original size:14 final size:15
Alignment explanation
Indices: 35655761--35655789 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35655751 TCACGAAAAT
35655761 TTCACACAT-ATAAA
1 TTCACACATAATAAA
35655775 TTCACACATAATAAA
1 TTCACACATAATAAA
35655790 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:35660712 original size:25 final size:25
Alignment explanation
Indices: 35660684--35660736 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
35660674 GCATTACCAA
*
35660684 TCAAAATACAACTCAGAACAGACGT
1 TCAAAATACAACTCAGAACAGACAT
35660709 TCAAAATACAACTCAGAACAGACAT
1 TCAAAATACAACTCAGAACAGACAT
35660734 TCA
1 TCA
35660737 TTTCAATGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.49, C:0.25, G:0.09, T:0.17
Consensus pattern (25 bp):
TCAAAATACAACTCAGAACAGACAT
Found at i:35662774 original size:43 final size:43
Alignment explanation
Indices: 35662614--35662781 Score: 173
Period size: 43 Copynumber: 4.0 Consensus size: 43
35662604 ATATCATACA
* * *
35662614 ATGCCAACGTCCCAGACGTGGTCTTACATGCT-ATCATATAGCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATATCG
** * *
35662657 ATGCCATTGTCCCAGATAG-GGTCTTACACG-AATCAAATA-CG
1 ATGCCAACGTCCCAGA-CGTGGTCTTACACGTAATCACATATCG
* * * *
35662698 ATGCCAATGTCCCAGGCATGGTCATACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
35662741 ATGCCAACGTCCCATACGTGGTCTTACATGTAATCACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
35662782 TGAAAATCCT
Statistics
Matches: 103, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 26 0.25
42 15 0.15
43 61 0.59
44 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:35663910 original size:14 final size:15
Alignment explanation
Indices: 35663893--35663921 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35663883 TCACGAAAAT
35663893 TTCACACAT-ATAAA
1 TTCACACATAATAAA
35663907 TTCACACATAATAAA
1 TTCACACATAATAAA
35663922 CAAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:35669551 original size:20 final size:20
Alignment explanation
Indices: 35669526--35669566 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
35669516 TATGGTTTAC
35669526 TAAGCTTTTAAAGTTTACTT
1 TAAGCTTTTAAAGTTTACTT
35669546 TAAGCTTTTAAAGTTTACTT
1 TAAGCTTTTAAAGTTTACTT
35669566 T
1 T
35669567 GAGTGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (20 bp):
TAAGCTTTTAAAGTTTACTT
Found at i:35676146 original size:20 final size:20
Alignment explanation
Indices: 35676121--35676160 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
35676111 ACTTTTATAT
35676121 TTTTAC-TTTTAAGAATTTAA
1 TTTTACTTTTTAA-AATTTAA
35676141 TTTTACTTTTTAAAATTTAA
1 TTTTACTTTTTAAAATTTAA
35676161 GCTCATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTACTTTTTAAAATTTAA
Found at i:35677115 original size:29 final size:29
Alignment explanation
Indices: 35677073--35677130 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
35677063 CACTCGATCA
35677073 CTTTAGCTTGTATTTGAGTGATTAAATCT
1 CTTTAGCTTGTATTTGAGTGATTAAATCT
35677102 CTTTAGCTTGTATTTGAGTGATTAAATCT
1 CTTTAGCTTGTATTTGAGTGATTAAATCT
35677131 TTATTGTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.48
Consensus pattern (29 bp):
CTTTAGCTTGTATTTGAGTGATTAAATCT
Found at i:35682253 original size:28 final size:28
Alignment explanation
Indices: 35682222--35682311 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
35682212 TAACCCAATA
35682222 AAATAGTTACATGTGAAAATAATAAAAT
1 AAATAGTTACATGTGAAAATAATAAAAT
* * *
35682250 AAATAAATCATACA--TGAAATTAAAAAAAT
1 AAAT-AGT--TACATGTGAAAATAATAAAAT
*
35682279 AAATAGTTACATGTGAATATAATAAAAT
1 AAATAGTTACATGTGAAAATAATAAAAT
35682307 AAATA
1 AAATA
35682312 AATCATACAT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
26 4 0.08
28 23 0.46
29 19 0.38
31 4 0.08
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (28 bp):
AAATAGTTACATGTGAAAATAATAAAAT
Found at i:35682284 original size:57 final size:57
Alignment explanation
Indices: 35682222--35682333 Score: 215
Period size: 57 Copynumber: 2.0 Consensus size: 57
35682212 TAACCCAATA
35682222 AAATAGTTACATGTGAAAATAATAAAATAAATAAATCATACATGAAATTAAAAAAAT
1 AAATAGTTACATGTGAAAATAATAAAATAAATAAATCATACATGAAATTAAAAAAAT
*
35682279 AAATAGTTACATGTGAATATAATAAAATAAATAAATCATACATGAAATTAAAAAA
1 AAATAGTTACATGTGAAAATAATAAAATAAATAAATCATACATGAAATTAAAAAA
35682334 TAACTCTTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (57 bp):
AAATAGTTACATGTGAAAATAATAAAATAAATAAATCATACATGAAATTAAAAAAAT
Found at i:35682333 original size:28 final size:29
Alignment explanation
Indices: 35682235--35682336 Score: 122
Period size: 29 Copynumber: 3.6 Consensus size: 29
35682225 TAGTTACATG
*
35682235 TGAAAATAATAAAATAAATAAATCATACA
1 TGAAATTAATAAAATAAATAAATCATACA
* *
35682264 TGAAATTAAAAAAATAAAT-AGT--TACA
1 TGAAATTAATAAAATAAATAAATCATACA
*
35682290 TGTGAATATAATAAAATAAATAAATCATACA
1 TG-AAAT-TAATAAAATAAATAAATCATACA
35682321 TGAAATTAA-AAAATAA
1 TGAAATTAATAAAATAA
35682337 CTCTTAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
26 6 0.10
27 3 0.05
28 21 0.34
29 22 0.36
30 3 0.05
31 6 0.10
ACGTcount: A:0.63, C:0.05, G:0.06, T:0.26
Consensus pattern (29 bp):
TGAAATTAATAAAATAAATAAATCATACA
Found at i:35683837 original size:26 final size:29
Alignment explanation
Indices: 35683806--35683858 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
35683796 TTTATTTTTT
35683806 AATTATAAT-T-TA-TTAATTTTATAATA
1 AATTATAATATATATTTAATTTTATAATA
35683832 AATTATAATATATATTTAATTTTATAA
1 AATTATAATATATATTTAATTTTATAA
35683859 ATATCTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 9 0.38
27 1 0.04
28 2 0.08
29 12 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
AATTATAATATATATTTAATTTTATAATA
Found at i:35683889 original size:34 final size:35
Alignment explanation
Indices: 35683844--35683912 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
35683834 TTATAATATA
* *
35683844 TATTTAATTTTATAA-ATATCTTTGTTTTAAATTTT
1 TATTTAATTTTATAATATATATTTGGTTT-AATTTT
35683879 TATTT-ATTTTATAATATATATTTGGTTTAATTTT
1 TATTTAATTTTATAATATATATTTGGTTTAATTTT
35683913 GCCAAAACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 15 0.48
35 16 0.52
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (35 bp):
TATTTAATTTTATAATATATATTTGGTTTAATTTT
Found at i:35683907 original size:18 final size:18
Alignment explanation
Indices: 35683834--35683901 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
35683824 TTATAATAAA
35683834 TTATAATATATATTTAATT
1 TTATAATATATATTT-ATT
* *
35683853 TTATAA-ATATCTTTGTT
1 TTATAATATATATTTATT
* *
35683870 TTA-AATTTTTATTTATT
1 TTATAATATATATTTATT
35683887 TTATAATATATATTT
1 TTATAATATATATTT
35683902 GGTTTAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
16 2 0.05
17 15 0.38
18 16 0.41
19 6 0.15
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (18 bp):
TTATAATATATATTTATT
Found at i:35687602 original size:29 final size:27
Alignment explanation
Indices: 35687570--35687645 Score: 111
Period size: 26 Copynumber: 2.8 Consensus size: 27
35687560 TTTTTATCAA
*
35687570 TATTTTGTTTTTGTAATTGATACATTATT
1 TATTTTGTTATTGT--TTGATACATTATT
35687599 TATTTTGTTATTG-TTGATACATTATT
1 TATTTTGTTATTGTTTGATACATTATT
35687625 TATTTTGTTATTG-TTGATACA
1 TATTTTGTTATTGTTTGATACA
35687646 CAATATCAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
26 34 0.74
29 12 0.26
ACGTcount: A:0.24, C:0.04, G:0.12, T:0.61
Consensus pattern (27 bp):
TATTTTGTTATTGTTTGATACATTATT
Found at i:35687622 original size:26 final size:26
Alignment explanation
Indices: 35687586--35687645 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
35687576 GTTTTTGTAA
35687586 TTGATACATTATTTATTTTGTTATTG
1 TTGATACATTATTTATTTTGTTATTG
35687612 TTGATACATTATTTATTTTGTTATTG
1 TTGATACATTATTTATTTTGTTATTG
35687638 TTGATACA
1 TTGATACA
35687646 CAATATCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.58
Consensus pattern (26 bp):
TTGATACATTATTTATTTTGTTATTG
Found at i:35688155 original size:20 final size:21
Alignment explanation
Indices: 35688116--35688155 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35688106 CAAAATATTC
*
35688116 GAAAATTTTCATATATGATAG
1 GAAAATTTTCATAAATGATAG
*
35688137 GAAAATTTTGA-AAATGATA
1 GAAAATTTTCATAAATGATA
35688156 TTCTTATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.35
Consensus pattern (21 bp):
GAAAATTTTCATAAATGATAG
Found at i:35694221 original size:14 final size:15
Alignment explanation
Indices: 35694202--35694237 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
35694192 ATGTTATTAC
35694202 TAATTAAATTAA-AA
1 TAATTAAATTAACAA
35694216 TAATTAAA-TAACAA
1 TAATTAAATTAACAA
35694230 T-ATTAAAT
1 TAATTAAAT
35694238 GATTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
TAATTAAATTAACAA
Found at i:35694845 original size:23 final size:23
Alignment explanation
Indices: 35694815--35694860 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
35694805 CAGGGCCATG
35694815 AAATCTCAAATAATTAAAAACTT
1 AAATCTCAAATAATTAAAAACTT
35694838 AAATCTCAAATAATTAAAAACTT
1 AAATCTCAAATAATTAAAAACTT
35694861 TTATTTTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATCTCAAATAATTAAAAACTT
Found at i:35695031 original size:19 final size:19
Alignment explanation
Indices: 35695007--35695056 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
35694997 GGTATAGAGC
* *
35695007 ACACGCCCGTGTGTTAGGG
1 ACACGCCCGTGTGCTAGGA
*
35695026 ACACGCCCGTCTGCTAGGA
1 ACACGCCCGTGTGCTAGGA
35695045 ACACGCCCGTGT
1 ACACGCCCGTGT
35695057 CCCAAACCCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.18, C:0.34, G:0.30, T:0.18
Consensus pattern (19 bp):
ACACGCCCGTGTGCTAGGA
Found at i:35703290 original size:26 final size:25
Alignment explanation
Indices: 35703256--35703317 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 25
35703246 TAGCTCTTAA
*
35703256 GAGCGTCCCGATATATGGCTCTTCGC
1 GAGCTTCCCGATATA-GGCTCTTCGC
* *
35703282 GAGCTTCCC-A-ATAGGCTCTTTGT
1 GAGCTTCCCGATATAGGCTCTTCGC
35703305 GAGCTTCCCGATA
1 GAGCTTCCCGATA
35703318 GTGCTCGCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 17 0.55
24 4 0.13
25 2 0.06
26 8 0.26
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCGATATAGGCTCTTCGC
Found at i:35703308 original size:23 final size:23
Alignment explanation
Indices: 35703272--35703323 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
35703262 CCCGATATAT
35703272 GGCTCTTCGCGAGCTTCCCAATA
1 GGCTCTTCGCGAGCTTCCCAATA
* * *
35703295 GGCTCTTTGTGAGCTTCCCGATA
1 GGCTCTTCGCGAGCTTCCCAATA
35703318 GTGCTC
1 G-GCTC
35703324 GCTTGAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.13, C:0.31, G:0.25, T:0.31
Consensus pattern (23 bp):
GGCTCTTCGCGAGCTTCCCAATA
Found at i:35703853 original size:46 final size:46
Alignment explanation
Indices: 35703789--35704144 Score: 516
Period size: 46 Copynumber: 7.7 Consensus size: 46
35703779 ATCAAATGTG
* * * * **
35703789 TAAGACCATAGTTGAAAGATACCATGACAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* * * * **
35703835 TAAGACCATGGTTAAAAGATATCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
35703881 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* *
35703927 TAAGACCATGGTTGAAAGATACCATGGCAACGTGAAATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
*
35703973 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
35704019 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* *
35704065 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAA
* * *
35704111 TAAGACCATAGTTGAAAGATACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
35704145 TCGAAGATAA
Statistics
Matches: 290, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 289 1.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
Found at i:35705078 original size:14 final size:14
Alignment explanation
Indices: 35705059--35705088 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35705049 TTATATCGAG
35705059 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
35705073 ACCAATCCAATTCA
1 ACCAATCCAAATCA
35705087 AC
1 AC
35705089 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:35711695 original size:14 final size:14
Alignment explanation
Indices: 35711676--35711705 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35711666 TTATATCGAG
35711676 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
35711690 ACCAATCCAATTCA
1 ACCAATCCAAATCA
35711704 AC
1 AC
35711706 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:35725430 original size:47 final size:49
Alignment explanation
Indices: 35725358--35725488 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 49
35725348 GTATAATACC
* * *
35725358 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-AATC-AAGTT
1 GATGCCATATCCCAAACATGGTCTTACACTGGCTCATCAAATCGAAGCT
* * * *
35725405 GATGCCATATACCAAACATGTTCTTACACTGACT-ATCGAAATCGAGGCT
1 GATGCCATATCCCAAACATGGTCTTACACTGGCTCATC-AAATCGAAGCT
* * *
35725454 GACGTCATATCCCAAACATGGTCTTACACTAGCTC
1 GATGCCATATCCCAAACATGGTCTTACACTGGCTC
35725489 TCACATATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
46 3 0.04
47 29 0.43
48 4 0.06
49 31 0.46
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
GATGCCATATCCCAAACATGGTCTTACACTGGCTCATCAAATCGAAGCT
Found at i:35725714 original size:46 final size:46
Alignment explanation
Indices: 35725463--35725717 Score: 185
Period size: 46 Copynumber: 5.5 Consensus size: 46
35725453 TGACGTCATA
* * * *
35725463 TCCCAAACATGGTCTTACACTAGCTCTCACATATTTGT-GTCGATACCATG
1 TCCCAGACAT-GTCTTACACTAGCTCT--CATA-ATGTAGCCGAT-GCATG
*
35725513 TCCCAGACATGGTCTTACACTA-C-ATC-T--TGTAGCCGATGCATG
1 TCCCAGACAT-GTCTTACACTAGCTCTCATAATGTAGCCGATGCATG
*
35725555 TCCCAGACATGTCTTACACT-GACT-TACAT-CTCG-AGGCCGATGCATG
1 TCCCAGACATGTCTTACACTAG-CTCT-CATAAT-GTA-GCCGATGCATG
* * *
35725601 TCCCAGACATGTCTTATACTAGCTCTCGTCTCAATGTA---GATACCATG
1 TCCCAGACATGTCTTACACTAGCTCTC--AT-AATGTAGCCGAT-GCATG
35725648 TCCCAGACATGGTCTTACACTAGCTCTCATAATGTAGCCGATGCATG
1 TCCCAGACAT-GTCTTACACTAGCTCTCATAATGTAGCCGATGCATG
* *
35725695 TCCCGGACTTGTCTTACACTAGC
1 TCCCAGACATGTCTTACACTAGC
35725718 ACACAAATAA
Statistics
Matches: 171, Mismatches: 13, Indels: 46
0.74 0.06 0.20
Matches are distributed among these distances:
41 10 0.06
42 19 0.11
43 6 0.04
44 1 0.01
45 9 0.05
46 52 0.30
47 28 0.16
48 21 0.12
49 2 0.01
50 23 0.13
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTAGCTCTCATAATGTAGCCGATGCATG
Found at i:35731138 original size:32 final size:32
Alignment explanation
Indices: 35731102--35731166 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
35731092 AGTACAAAAG
*
35731102 AATGGTTCACATATGCATTTCATTAAAACATT
1 AATGGTTCACATATGCATTTCATCAAAACATT
35731134 AATGGTTCACATATGCATTTCATCAAAACATT
1 AATGGTTCACATATGCATTTCATCAAAACATT
35731166 A
1 A
35731167 CATCTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.35
Consensus pattern (32 bp):
AATGGTTCACATATGCATTTCATCAAAACATT
Found at i:35736341 original size:43 final size:42
Alignment explanation
Indices: 35736275--35736385 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 42
35736265 AGCTCGTACA
* * *
35736275 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAAACGGAATCAAATA-CG
35736318 ATGCC-ACAGTCCCAGACAG-GGTCTTAAACGGAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTAAACGGAATCAAATACG
* * * * *
35736360 ATGTCGATGTCCCAGACATCGTCTTA
1 ATGCCAACGTCCCAGACGTGGTCTTA
35736386 CACATAAATC
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
42 23 0.40
43 33 0.58
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTAAACGGAATCAAATACG
Found at i:35736377 original size:42 final size:44
Alignment explanation
Indices: 35736275--35736362 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 44
35736265 AGCTCGTACA
* * *
35736275 ATGCCA-ACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCACA-GTCCCAGACAGTGGTCTTAAACGGAATCAAATATCG
35736318 ATGCCACAGTCCCAGACAG-GGTCTTAAACGGAATCAAATA-CG
1 ATGCCACAGTCCCAGACAGTGGTCTTAAACGGAATCAAATATCG
35736360 ATG
1 ATG
35736363 TCGATGTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
42 5 0.12
43 33 0.82
44 2 0.05
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (44 bp):
ATGCCACAGTCCCAGACAGTGGTCTTAAACGGAATCAAATATCG
Found at i:35743857 original size:27 final size:26
Alignment explanation
Indices: 35743820--35743930 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 26
35743810 AGCATGGCTG
* *
35743820 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
35743846 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
35743874 CCAGAACAGATATATGTGGCAGGGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
35743901 CCAGATCCGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
35743928 CCA
1 CCA
35743931 AAACGCTTCC
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.07
27 52 0.70
28 17 0.23
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Done.