Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 54 of 133
Found at i:11202887 original size:27 final size:27
Alignment explanation
Indices: 11202831--11202884 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
11202821 TTTAAATTTC
* *
11202831 ATTGGGTGCCAAATAATCTGGGCTTAA
1 ATTGGGTGCCAAATAAACTAGGCTTAA
*
11202858 ATTGGGTGTC-AATAAACTAGGCTTAA
1 ATTGGGTGCCAAATAAACTAGGCTTAA
11202884 A
1 A
11202885 ATTTCATTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (27 bp):
ATTGGGTGCCAAATAAACTAGGCTTAA
Found at i:11202892 original size:59 final size:61
Alignment explanation
Indices: 11202824--11202978 Score: 172
Period size: 60 Copynumber: 2.6 Consensus size: 61
11202814 AATTGGGTTT
* * * ** * *
11202824 AAATTTCATTGGGTGCCAAATAATCTGGGCTT-AAATTGGGTGTCAA-TAAACTAGGCTTA
1 AAATTTCATTGAGAGCCAAATAATCTAGGCTTAAAATTGAATGCCAAGTAAACTAGGCCTA
*
11202883 AAATTTCATTGAGAGCCAGATAATCTAGGCTTAAAATTGAATGCCAAGTAAACTAGGCCTA
1 AAATTTCATTGAGAGCCAAATAATCTAGGCTTAAAATTGAATGCCAAGTAAACTAGGCCTA
* * ** *
11202944 AAATTTTACTGA-AGCCAGCTAAACTAGGCTTAAAA
1 AAATTTCATTGAGAGCCAAATAATCTAGGCTTAAAA
11202979 ATTTTTTTAG
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
59 28 0.34
60 32 0.39
61 22 0.27
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.28
Consensus pattern (61 bp):
AAATTTCATTGAGAGCCAAATAATCTAGGCTTAAAATTGAATGCCAAGTAAACTAGGCCTA
Found at i:11203029 original size:61 final size:58
Alignment explanation
Indices: 11202963--11203165 Score: 183
Period size: 61 Copynumber: 3.3 Consensus size: 58
11202953 TGAAGCCAGC
* *
11202963 TAAACTAGGCTTAAAAATTTTTTTAGTGTCAGATAAATTGGGCTTACAATTAGGTGCCAAG
1 TAAACTAGGCTT-AAAATTTTTTTAGAG-CAGATAAATTGGGCTTAAAATT-GGTGCCAAG
* * * * * *
11203024 TAAACTTA-GCTTAAAATTTCATTAAGAGCCAAATAATTTGGGCTTAAAATTGGGTGCTAGG
1 TAAAC-TAGGCTTAAAATTT-TTTTAGAG-CAGATAAATTGGGCTTAAAATT-GGTGCCAAG
** * * **
11203085 TAAACTAGGCTTAAAATTTCCTTGGAAGCTAGATAAACTAAGCTTAAAATTGGATGCCAAG
1 TAAACTAGGCTTAAAATTTTTTTAG-AGC-AGATAAATTGGGCTTAAAATTGG-TGCCAAG
11203146 TAAACTAGGCTTAAAATTTT
1 TAAACTAGGCTTAAAATTTT
11203166 ATTGGGGGCC
Statistics
Matches: 114, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
60 14 0.12
61 98 0.86
62 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (58 bp):
TAAACTAGGCTTAAAATTTTTTTAGAGCAGATAAATTGGGCTTAAAATTGGTGCCAAG
Found at i:11203132 original size:215 final size:213
Alignment explanation
Indices: 11202824--11203228 Score: 564
Period size: 215 Copynumber: 1.9 Consensus size: 213
11202814 AATTGGGTTT
** *
11202824 AAATTTCATTGGGTGCCAAATAATCTGGGCTTAAATTGGGTGTCAATAAACTAGGCTTAAAATTT
1 AAATTTCATTAAGAGCCAAATAATCTGGGCTTAAATTGGGTGTCAATAAACTAGGCTTAAAATTT
* *
11202889 CATTGAGAGCCAGATAATCTAGGCTTAAAATTGAATGCCAAGTAAACTAGGCCTAAAATTTTACT
66 CATTGAGAGCCAGATAAACTAAGCTTAAAATTGAATGCCAAGTAAACTAGGCCTAAAATTTTACT
* ** * * *
11202954 -GAAGCCAGCTAAACTAGGCTTAAAAATTTTTTTAGTGTCAGATAAATTGGGCTTACAATTAGGT
131 GGAAGCCAACTAAACTAAACTTAAAAA-TTTTTTAGTATCAGATAAACTGGGCTTAAAATTAGGT
11203018 GCCAAGTAAACTTAGCTTA
195 GCCAAGTAAACTTAGCTTA
* *
11203037 AAATTTCATTAAGAGCCAAATAATTTGGGCTTAAAATTGGGTG-CTAGGTAAACTAGGCTTAAAA
1 AAATTTCATTAAGAGCCAAATAATCTGGGCTT-AAATTGGGTGTC-A-ATAAACTAGGCTTAAAA
* * * *
11203101 TTTCCTTG-GAAGCTAGATAAACTAAGCTTAAAATTGGATGCCAAGTAAACTAGGCTTAAAATTT
63 TTTCATTGAG-AGCCAGATAAACTAAGCTTAAAATTGAATGCCAAGTAAACTAGGCCTAAAATTT
* **
11203165 TATTGGGGGCCAACTAAACTAAACTTAAAAATTTTTTAGTATCAGATAAACTGGGCTTAAAATT
127 TACTGGAAGCCAACTAAACTAAACTTAAAAATTTTTTAGTATCAGATAAACTGGGCTTAAAATT
11203229 GGGTATTAGG
Statistics
Matches: 167, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
213 29 0.17
214 12 0.07
215 105 0.63
216 21 0.13
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (213 bp):
AAATTTCATTAAGAGCCAAATAATCTGGGCTTAAATTGGGTGTCAATAAACTAGGCTTAAAATTT
CATTGAGAGCCAGATAAACTAAGCTTAAAATTGAATGCCAAGTAAACTAGGCCTAAAATTTTACT
GGAAGCCAACTAAACTAAACTTAAAAATTTTTTAGTATCAGATAAACTGGGCTTAAAATTAGGTG
CCAAGTAAACTTAGCTTA
Found at i:11203183 original size:61 final size:59
Alignment explanation
Indices: 11203004--11203194 Score: 177
Period size: 61 Copynumber: 3.1 Consensus size: 59
11202994 GATAAATTGG
* ** ** **
11203004 GCTTACAATTAGGTGCCAAGTAAACTTA-GCTTAAAATTTCATTAAGAGCCAAATAATTTGG
1 GCTTAAAATT-GGTGCCAAGTAAAC-TAGGCTTAAAATTTCATTGGGAGCC-AATAAACTAA
* * * * *
11203065 GCTTAAAATTGGGTGCTAGGTAAACTAGGCTTAAAATTTCCTTGGAAGCTAGATAAACTAA
1 GCTTAAAATT-GGTGCCAAGTAAACTAGGCTTAAAATTTCATTGGGAGCCA-ATAAACTAA
* *
11203126 GCTTAAAATTGGATGCCAAGTAAACTAGGCTTAAAATTTTATTGGGGGCCAACTAAACTAA
1 GCTTAAAATTGG-TGCCAAGTAAACTAGGCTTAAAATTTCATTGGGAGCCAA-TAAACTAA
*
11203187 ACTTAAAA
1 GCTTAAAA
11203195 ATTTTTTAGT
Statistics
Matches: 105, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
60 6 0.06
61 99 0.94
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (59 bp):
GCTTAAAATTGGTGCCAAGTAAACTAGGCTTAAAATTTCATTGGGAGCCAATAAACTAA
Found at i:11203483 original size:22 final size:22
Alignment explanation
Indices: 11203458--11203504 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
11203448 TTAGGTTATT
11203458 GTGCCAGCTAAACTGGCCTTAC
1 GTGCCAGCTAAACTGGCCTTAC
* *
11203480 GTGCTAGCTAAACTGGGCTTAC
1 GTGCCAGCTAAACTGGCCTTAC
11203502 GTG
1 GTG
11203505 TCTATTGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.26
Consensus pattern (22 bp):
GTGCCAGCTAAACTGGCCTTAC
Found at i:11205728 original size:21 final size:21
Alignment explanation
Indices: 11205702--11205748 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
11205692 AAAACTTTCC
*
11205702 TTTTT-CTCATTTTTGTCTTTT
1 TTTTTCCT-ATTTTTGCCTTTT
*
11205723 TTTTTCCTTTTTTTGCCTTTT
1 TTTTTCCTATTTTTGCCTTTT
11205744 TTTTT
1 TTTTT
11205749 TAAAGGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (21 bp):
TTTTTCCTATTTTTGCCTTTT
Found at i:11207411 original size:20 final size:20
Alignment explanation
Indices: 11207386--11207430 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
11207376 CATTATGTTG
*
11207386 AATGAAT-ACATAAATGGATA
1 AATGAATGA-ATAAATGCATA
*
11207406 AATGAATGAATGAATGCATA
1 AATGAATGAATAAATGCATA
11207426 AATGA
1 AATGA
11207431 CAAAGCTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.53, C:0.04, G:0.18, T:0.24
Consensus pattern (20 bp):
AATGAATGAATAAATGCATA
Found at i:11210975 original size:22 final size:22
Alignment explanation
Indices: 11210934--11210976 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11210924 TTTGGTTTAA
*
11210934 GTTTTAAGGGTTTAAGGGTTTG
1 GTTTTAAGGGTTTAAAGGTTTG
11210956 GTTTTAA-GGTTTAAAAGGTTT
1 GTTTTAAGGGTTT-AAAGGTTT
11210977 TACAGTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (22 bp):
GTTTTAAGGGTTTAAAGGTTTG
Found at i:11211084 original size:9 final size:9
Alignment explanation
Indices: 11211071--11211125 Score: 53
Period size: 8 Copynumber: 6.4 Consensus size: 9
11211061 AGTTTCAAAT
11211071 GTTTTAAGG
1 GTTTTAAGG
*
11211080 ATTTT-AGG
1 GTTTTAAGG
* *
11211088 GTTTGAAAG
1 GTTTTAAGG
*
11211097 ATTTT-AGG
1 GTTTTAAGG
11211105 GTTTTAAGG
1 GTTTTAAGG
11211114 GTTTT-AGG
1 GTTTTAAGG
11211122 GTTT
1 GTTT
11211126 CAAAGGTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
8 19 0.53
9 17 0.47
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (9 bp):
GTTTTAAGG
Found at i:11211103 original size:107 final size:106
Alignment explanation
Indices: 11210981--11211221 Score: 335
Period size: 107 Copynumber: 2.3 Consensus size: 106
11210971 AGGTTTTACA
* * * * * *
11210981 GTTTGAAAGACTTTAGGGTATTAAAGGTTTTTGGGTTTCGAGGGTTTAGGATTTAGAGGTTTAGG
1 GTTTGAAAGATTTTAGGGTTTTAAAGGTTTTAGGGTTTCAAAGGTTTAGGATTTAGA-GTATAGG
* *
11211046 GTATAGAAATCTTAGAGTTTCAAATGTTTTAAGGATTTTAGG
65 ATATAGAAATCTTAGAGTTTCAAAGGTTTTAAGGATTTTAGG
*
11211088 GTTTGAAAGATTTTAGGGTTTTAAGGGTTTTAGGGTTTCAAAGGTTTAGGATTTAGAGTATAGGA
1 GTTTGAAAGATTTTAGGGTTTTAAAGGTTTTAGGGTTTCAAAGGTTTAGGATTTAGAGTATAGGA
* *
11211153 TATAGAAATCTTAGGGTTTCAAGGGTTTTAAGGATTTTAGG
66 TATAGAAATCTTAGAGTTTCAAAGGTTTTAAGGATTTTAGG
*
11211194 GTTTTG--A-ATTTTAAGGTTTTAAAGGTTT
1 G-TTTGAAAGATTTTAGGGTTTTAAAGGTTT
11211222 AGATTTTAAG
Statistics
Matches: 120, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
104 19 0.16
105 1 0.01
106 45 0.38
107 55 0.46
ACGTcount: A:0.27, C:0.03, G:0.28, T:0.41
Consensus pattern (106 bp):
GTTTGAAAGATTTTAGGGTTTTAAAGGTTTTAGGGTTTCAAAGGTTTAGGATTTAGAGTATAGGA
TATAGAAATCTTAGAGTTTCAAAGGTTTTAAGGATTTTAGG
Found at i:11211133 original size:17 final size:17
Alignment explanation
Indices: 11211076--11211134 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
11211066 CAAATGTTTT
*
11211076 AAGGATTTTAGGGTTTGA
1 AAGG-TTTTAGGGTTTCA
* *
11211094 AAGATTTTAGGGTTTTA
1 AAGGTTTTAGGGTTTCA
*
11211111 AGGGTTTTAGGGTTTCA
1 AAGGTTTTAGGGTTTCA
11211128 AAGGTTT
1 AAGGTTT
11211135 AGGATTTAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
17 32 0.91
18 3 0.09
ACGTcount: A:0.25, C:0.02, G:0.31, T:0.42
Consensus pattern (17 bp):
AAGGTTTTAGGGTTTCA
Found at i:11211227 original size:23 final size:23
Alignment explanation
Indices: 11211178--11211251 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 23
11211168 GTTTCAAGGG
* *
11211178 TTTTAAGGATTTT-AGGGTTTTGAA
1 TTTTAAGG-TTTTAAAGGTTTAG-A
11211202 TTTTAAGGTTTTAAAGGTTTAGA
1 TTTTAAGGTTTTAAAGGTTTAGA
* *
11211225 TTTTAAGGGTTTTACA-GTTTGGA
1 TTTTAA-GGTTTTAAAGGTTTAGA
11211248 TTTT
1 TTTT
11211252 TGGGTTTGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 21 0.48
24 23 0.52
ACGTcount: A:0.24, C:0.01, G:0.23, T:0.51
Consensus pattern (23 bp):
TTTTAAGGTTTTAAAGGTTTAGA
Found at i:11211252 original size:24 final size:23
Alignment explanation
Indices: 11211178--11211251 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
11211168 GTTTCAAGGG
* ** *
11211178 TTTTAAGGATTTTAGGGTTTTGAA
1 TTTTAAGGGTTTTAAAGTTTAG-A
11211202 TTTTAA-GGTTTTAAAGGTTTAGA
1 TTTTAAGGGTTTTAAA-GTTTAGA
* *
11211225 TTTTAAGGGTTTTACAGTTTGGA
1 TTTTAAGGGTTTTAAAGTTTAGA
11211248 TTTT
1 TTTT
11211252 TGGGTTTGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
23 23 0.55
24 19 0.45
ACGTcount: A:0.24, C:0.01, G:0.23, T:0.51
Consensus pattern (23 bp):
TTTTAAGGGTTTTAAAGTTTAGA
Found at i:11211453 original size:23 final size:22
Alignment explanation
Indices: 11211404--11211484 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 22
11211394 ATTTCAAGAG
* *
11211404 TTTTAAGGATTTTAGATTTTCGAA
1 TTTTAAGG-TTTTAGAGTTTAG-A
11211428 TTTTAAGGTTTTAAGAGTTTAGA
1 TTTTAAGGTTTT-AGAGTTTAGA
* * *
11211451 TTTTAAGGGCTTTACAGTTTGGA
1 TTTTAA-GGTTTTAGAGTTTAGA
*
11211474 TTTTAGGGTTT
1 TTTTAAGGTTT
11211485 GAAAGATTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
22 4 0.08
23 24 0.50
24 20 0.42
ACGTcount: A:0.25, C:0.04, G:0.22, T:0.49
Consensus pattern (22 bp):
TTTTAAGGTTTTAGAGTTTAGA
Found at i:11212047 original size:26 final size:27
Alignment explanation
Indices: 11212018--11212068 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
11212008 TTATTATAAA
11212018 TTTTATAACTATTAT-TTTATTTTATT
1 TTTTATAACTATTATATTTATTTTATT
* * *
11212044 TTTTATCATTATTATATTTGTTTTA
1 TTTTATAACTATTATATTTATTTTA
11212069 CATGTCCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTTATAACTATTATATTTATTTTATT
Found at i:11214292 original size:19 final size:19
Alignment explanation
Indices: 11214270--11214312 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
11214260 TGAATAGTTC
* *
11214270 TTAAATTATAT-TGAAATGT
1 TTAAATGATATCTAAAAT-T
11214289 TTAAATGATATCTAAAATT
1 TTAAATGATATCTAAAATT
11214308 TTAAA
1 TTAAA
11214313 ATATTTAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (19 bp):
TTAAATGATATCTAAAATT
Found at i:11215175 original size:15 final size:15
Alignment explanation
Indices: 11215155--11215185 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11215145 AATGATCTTA
*
11215155 ATTTGAAATTGAATG
1 ATTTGAAATCGAATG
11215170 ATTTGAAATCGAATG
1 ATTTGAAATCGAATG
11215185 A
1 A
11215186 CCTGAAAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (15 bp):
ATTTGAAATCGAATG
Found at i:11215724 original size:28 final size:27
Alignment explanation
Indices: 11215693--11215745 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
11215683 TGTTTCGATT
* *
11215693 TTTTGTCCTTTTCTTTCTTTATTCTTCC
1 TTTTCTCCTTTTCTCTCTTT-TTCTTCC
*
11215721 TTTTCTCTTTTTCTCTCTTTTTCTT
1 TTTTCTCCTTTTCTCTCTTTTTCTT
11215746 TATTTGAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.72
Consensus pattern (27 bp):
TTTTCTCCTTTTCTCTCTTTTTCTTCC
Found at i:11215742 original size:18 final size:18
Alignment explanation
Indices: 11215698--11215749 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
11215688 CGATTTTTTG
11215698 TCCTTTTCTTTCTTTATTCT
1 TCCTTTTC--TCTTTATTCT
11215718 TCCTTTTCTCTTT-TTC-
1 TCCTTTTCTCTTTATTCT
11215734 TCTCTTTT-TCTTTATT
1 TC-CTTTTCTCTTTATT
11215750 TGAATAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.23
17 10 0.33
18 5 0.17
20 8 0.27
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (18 bp):
TCCTTTTCTCTTTATTCT
Found at i:11215956 original size:23 final size:22
Alignment explanation
Indices: 11215917--11215968 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
11215907 GTTTTTTCAT
11215917 TTTTCATTTTTTCTCTTCTCTC
1 TTTTCATTTTTTCTCTTCTCTC
*
11215939 TTTTCA-CTTTTCT-TTCT-T-
1 TTTTCATTTTTTCTCTTCTCTC
*
11215957 TTTTCTTTTTTT
1 TTTTCATTTTTT
11215969 TTTCCTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 5 0.19
19 5 0.19
20 4 0.15
21 6 0.23
22 6 0.23
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTCATTTTTTCTCTTCTCTC
Found at i:11215964 original size:16 final size:16
Alignment explanation
Indices: 11215918--11215965 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
11215908 TTTTTTCATT
*
11215918 TTTCATTTTTTCTCTTC
1 TTTC-TTTTTTCTTTTC
* **
11215935 TCTCTTTTCACTTTTC
1 TTTCTTTTTTCTTTTC
11215951 TTTCTTTTTTCTTTT
1 TTTCTTTTTTCTTTT
11215966 TTTTTTCCTT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 21 0.88
17 3 0.12
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTCTTTTTTCTTTTC
Found at i:11215978 original size:29 final size:30
Alignment explanation
Indices: 11215894--11215985 Score: 82
Period size: 29 Copynumber: 3.1 Consensus size: 30
11215884 TTAAATTATA
* *
11215894 TTTTTTGCTTCTTGTTTTTTCATTTTTCATT-
1 TTTTTT-CTTCTT-TTTTTTCCTTTTTCTTTC
* * *
11215925 TTTTCTCTTCTCTCTTTTCAC-TTTTCTTTC
1 TTTTTTCTTCTTTTTTTTC-CTTTTTCTTTC
*
11215955 TTTTTTCTT-TTTTTTTTCCTTTTTCTCTC
1 TTTTTTCTTCTTTTTTTTCCTTTTTCTTTC
11215984 TT
1 TT
11215986 GTCGAAAAGA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
28 1 0.02
29 30 0.61
30 13 0.27
31 5 0.10
ACGTcount: A:0.03, C:0.21, G:0.02, T:0.74
Consensus pattern (30 bp):
TTTTTTCTTCTTTTTTTTCCTTTTTCTTTC
Found at i:11216171 original size:16 final size:14
Alignment explanation
Indices: 11216150--11216199 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 14
11216140 TTATAAAAAG
11216150 AAAGAAAACAAATGAA
1 AAAGAAAA-AAAT-AA
11216166 AAAGAAAGAAAATAA
1 AAAGAAA-AAAATAA
11216181 AATAGAAAAATAATAA
1 AA-AGAAAAA-AATAA
11216197 AAA
1 AAA
11216200 TATTTTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 7 0.23
16 23 0.74
17 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (14 bp):
AAAGAAAAAAATAA
Found at i:11218337 original size:64 final size:62
Alignment explanation
Indices: 11218269--11218398 Score: 134
Period size: 64 Copynumber: 2.1 Consensus size: 62
11218259 TTGAAAGTGT
* ** * * *
11218269 TTTTTTGTAAAAAATGCCTTGAATAATCCCCTCATTAAAAATGGATAGGGGATTATTGAAGGCA
1 TTTTTAGTAAAAAACACCTTGAATAATCCCCTCATAAAAAAT--AAAAGGGATTATTGAAGGCA
* * * ** *
11218333 TTTTTAGTAGACAACACTTTGAATAATCCTTTCATAAAAAATAAAAGTGATTATTGAAGGCA
1 TTTTTAGTAAAAAACACCTTGAATAATCCCCTCATAAAAAATAAAAGGGATTATTGAAGGCA
11218395 TTTT
1 TTTT
11218399 CCGCAAAAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
62 21 0.39
64 33 0.61
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (62 bp):
TTTTTAGTAAAAAACACCTTGAATAATCCCCTCATAAAAAATAAAAGGGATTATTGAAGGCA
Found at i:11218534 original size:62 final size:63
Alignment explanation
Indices: 11218468--11218611 Score: 197
Period size: 62 Copynumber: 2.3 Consensus size: 63
11218458 TTTTTGGTCA
* * * *
11218468 AAAAAATGCCTTCAATAATCCCT-TTC-ATTTTTTATGAGAGGATTATTGAAGGCGTTT-TGTGT
1 AAAAAATGCCTTAAATAATCCCTCTCCAATTTTTTATGAGA-GATTATTGAAGGCATTTCAG-GT
*
11218530 AAAAAATGCCTTTAATAAT-CCTCTCCAATTTTTTATGAGAGATTATTGAAGGCATTTCAGGT
1 AAAAAATGCCTTAAATAATCCCTCTCCAATTTTTTATGAGAGATTATTGAAGGCATTTCAGGT
11218592 AAAAAATGCCTTAAATAATC
1 AAAAAATGCCTTAAATAATC
11218612 TACTCATAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
61 3 0.04
62 56 0.77
63 14 0.19
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.37
Consensus pattern (63 bp):
AAAAAATGCCTTAAATAATCCCTCTCCAATTTTTTATGAGAGATTATTGAAGGCATTTCAGGT
Found at i:11218636 original size:62 final size:61
Alignment explanation
Indices: 11218508--11218738 Score: 173
Period size: 62 Copynumber: 3.7 Consensus size: 61
11218498 TTTATGAGAG
* * * **** * *
11218508 GATTATTGAAGGCGTTT-TGTGTAAAAAATGCCTTTAATAATCCTCTC-CAATTTTTTATGAGA
1 GATTATTGAAGGCATTTCTG-GTAAAAAATGCCTTCAATAAT--TCTCATAAAAAATTATAAAA
* *
11218570 GATTATTGAAGGCATTTCAGGTAAAAAATGCCTTAAATAATCTACTCATAAAAAA-TA-AAAA
1 GATTATTGAAGGCATTTCTGGTAAAAAATGCCTTCAATAAT-T-CTCATAAAAAATTATAAAA
** ** * *
11218631 CGATTATTGAAGATATTTTCTGCAAAAAAATACCTTCAATAATTCTCTTAAAAAATTATAAAA
1 -GATTATTGAAGGCA-TTTCTGGTAAAAAATGCCTTCAATAATTCTCATAAAAAATTATAAAA
* * * * *
11218694 GATTATTAAAGGCATTTTTGGTTAAAAACGCCTTCAATAAATCTC
1 GATTATTGAAGGCATTTCTGGTAAAAAATGCCTTCAATAATTCTC
11218739 CTTATCAATA
Statistics
Matches: 134, Mismatches: 28, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
61 38 0.28
62 67 0.50
63 29 0.22
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (61 bp):
GATTATTGAAGGCATTTCTGGTAAAAAATGCCTTCAATAATTCTCATAAAAAATTATAAAA
Found at i:11218748 original size:16 final size:16
Alignment explanation
Indices: 11218727--11218767 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
11218717 AAAAACGCCT
11218727 TCAATAAATCTCCTTA
1 TCAATAAATCTCCTTA
*
11218743 TCAATAAATCTCGTTA
1 TCAATAAATCTCCTTA
11218759 TCAATAAAT
1 TCAATAAAT
11218768 TTACCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (16 bp):
TCAATAAATCTCCTTA
Found at i:11219144 original size:62 final size:61
Alignment explanation
Indices: 11219042--11219170 Score: 147
Period size: 62 Copynumber: 2.1 Consensus size: 61
11219032 ATTGAAGGCG
*
11219042 TTTTTTATCAAAAATACCTTCAATAATCTCCTATAATTTTTT-AGGAGAATTATTGAAGATAT
1 TTTTTTATCAAAAATACCTTCAATAATCTCCTAT-ATTTTTTGAGGAG-ATTATTCAAGATAT
* * * *
11219104 TTTTTTA-CAGAAAATACCTTTAATAATTACTTCTAT-TTTTTTGAGTAGATTATTCAAGGTAT
1 TTTTTTATCA-AAAATACCTTCAATAA-T-CTCCTATATTTTTTGAGGAGATTATTCAAGATAT
11219166 TTTTT
1 TTTTT
11219171 GCTTGAAACG
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
61 2 0.03
62 45 0.78
63 5 0.09
64 6 0.10
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.48
Consensus pattern (61 bp):
TTTTTTATCAAAAATACCTTCAATAATCTCCTATATTTTTTGAGGAGATTATTCAAGATAT
Found at i:11224637 original size:2 final size:2
Alignment explanation
Indices: 11224630--11224656 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11224620 TACATACATG
11224630 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11224657 GAGTAGGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11230844 original size:36 final size:37
Alignment explanation
Indices: 11230770--11230852 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 37
11230760 TTCCTTGTTG
* *
11230770 TTTAAA-TTTC-TATTTTAATTTTAATTTTTATGCAA
1 TTTAAATTTTCATATTTGAATTTTAATTTTGATGCAA
*
11230805 TTTAAATTTTCATATTTGAA-TTTACTTTTGATGCAA
1 TTTAAATTTTCATATTTGAATTTTAATTTTGATGCAA
*
11230841 TTT-ATTTTTCAT
1 TTTAAATTTTCAT
11230853 GCACTTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 14 0.33
36 21 0.50
37 7 0.17
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (37 bp):
TTTAAATTTTCATATTTGAATTTTAATTTTGATGCAA
Found at i:11233346 original size:2 final size:2
Alignment explanation
Indices: 11233299--11233327 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11233289 ATCCACGTAA
11233299 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11233328 AACAACACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11235731 original size:29 final size:27
Alignment explanation
Indices: 11235671--11235746 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 27
11235661 TGTAAGTATT
*
11235671 ATATTA-ATTAATAAATTTATAATTTAA
1 ATATTATATTAA-AAATTTTTAATTTAA
*
11235698 CTATTATATTAAAAATTTTTAAATTTTAA
1 ATATTATATTAAAAATTTTT-AA-TTTAA
*
11235727 ATATTATATTAAATATTTTT
1 ATATTATATTAAAAATTTTT
11235747 TTATAATTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 12 0.29
28 7 0.17
29 23 0.55
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (27 bp):
ATATTATATTAAAAATTTTTAATTTAA
Found at i:11236507 original size:17 final size:17
Alignment explanation
Indices: 11236485--11236527 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
11236475 ATTGCGAAAA
11236485 AAAAAATTAAAAATTAT
1 AAAAAATTAAAAATTAT
* *
11236502 AAAAAATAAAAAATTCT
1 AAAAAATTAAAAATTAT
11236519 AAAATAATT
1 AAAA-AATT
11236528 TTTTAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAATTAAAAATTAT
Found at i:11236580 original size:9 final size:9
Alignment explanation
Indices: 11236566--11236617 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
11236556 AAATTCCAAC
11236566 AAAAAATTT
1 AAAAAATTT
*
11236575 AAAAAATCT
1 AAAAAATTT
*
11236584 AAAAATTTT
1 AAAAAATTT
*
11236593 AAAGACATTT
1 AAA-AAATTT
11236603 -AAAAATTAT
1 AAAAAATT-T
11236612 AAAAAA
1 AAAAAA
11236618 AATTAAGAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
8 4 0.12
9 21 0.62
10 9 0.26
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAAATTT
Found at i:11236623 original size:19 final size:19
Alignment explanation
Indices: 11236575--11236623 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
11236565 CAAAAAATTT
*
11236575 AAAAAATCTAAAAATTTTAA
1 AAAAAAT-TAAAAATTATAA
* * *
11236595 AGACATTTAAAAATTATAA
1 AAAAAATTAAAAATTATAA
11236614 AAAAAATTAA
1 AAAAAATTAA
11236624 GAAAAATCCA
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAAATTAAAAATTATAA
Found at i:11236699 original size:21 final size:20
Alignment explanation
Indices: 11236657--11236702 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
11236647 ATTTTTTTTT
*
11236657 AATTTCTAATAATTTTTCAA
1 AATTTCTAATAATTTTTAAA
11236677 AATTTCTAAAGTAA-TTTTAAA
1 AATTTCT-AA-TAATTTTTAAA
11236698 AATTT
1 AATTT
11236703 TTAGAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 13 0.57
22 3 0.13
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (20 bp):
AATTTCTAATAATTTTTAAA
Found at i:11236703 original size:9 final size:9
Alignment explanation
Indices: 11236670--11236863 Score: 95
Period size: 9 Copynumber: 20.0 Consensus size: 9
11236660 TTCTAATAAT
*
11236670 TTTTCAAAA
1 TTTTAAAAA
11236679 TTTCTAAAGTAA
1 TTT-TAAA--AA
11236691 TTTTAAAAA
1 TTTTAAAAA
11236700 TTTTTAGAAAA
1 -TTTTA-AAAA
*
11236711 -TTCAAAAA
1 TTTTAAAAA
** *
11236719 AATTATAAA
1 TTTTAAAAA
*
11236728 -TTAAAAAA
1 TTTTAAAAA
*
11236736 TTCTAAAAAA
1 TT-TTAAAAA
*
11236746 TTTAAAAAA
1 TTTTAAAAA
*
11236755 TTTAAAAAA
1 TTTTAAAAA
*
11236764 TTCTTAAAAC
1 TT-TTAAAAA
11236774 TTTTAAAAA
1 TTTTAAAAA
11236783 TTTTAAAAAAA
1 TTTT--AAAAA
11236794 TTTTAAAAAAA
1 TTTT--AAAAA
*
11236805 TTTAAAAAAA
1 TTT-TAAAAA
*
11236815 TTTGAAAAAA
1 TTT-TAAAAA
*
11236825 TTTGAAAAA
1 TTTTAAAAA
**
11236834 TTCCAGAAAA
1 TTTTA-AAAA
11236844 TTTTATAAAAA
1 -TTT-TAAAAA
11236855 TTTTAAAAA
1 TTTTAAAAA
11236864 CTAAAAAAGA
Statistics
Matches: 152, Mismatches: 18, Indels: 30
0.76 0.09 0.15
Matches are distributed among these distances:
8 9 0.06
9 56 0.37
10 48 0.32
11 33 0.22
12 6 0.04
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:11236720 original size:10 final size:10
Alignment explanation
Indices: 11236675--11236863 Score: 128
Period size: 10 Copynumber: 19.3 Consensus size: 10
11236665 ATAATTTTTC
11236675 AAAATTTCTAA
1 AAAATTT-TAA
*
11236686 AGTAATTTTAA
1 A-AAATTTTAA
* *
11236697 AAATTTTTAG
1 AAAATTTTAA
*
11236707 AAAA-TTCAA
1 AAAATTTTAA
*
11236716 AAAA-ATT-A
1 AAAATTTTAA
*
11236724 TAAA-T-TAA
1 AAAATTTTAA
*
11236732 AAAATTCTAA
1 AAAATTTTAA
11236742 AAAA-TTTAA
1 AAAATTTTAA
11236751 AAAA-TTTAA
1 AAAATTTTAA
11236760 AAAATTCTT-A
1 AAAATT-TTAA
*
11236770 AAACTTTT-A
1 AAAATTTTAA
11236779 AAAATTTTAAA
1 AAAATTTT-AA
11236790 AAAATTTTAAA
1 AAAATTTT-AA
*
11236801 AAAATTTAAA
1 AAAATTTTAA
*
11236811 AAAATTTGAA
1 AAAATTTTAA
*
11236821 AAAA-TTTGA
1 AAAATTTTAA
** *
11236830 AAAATTCCAG
1 AAAATTTTAA
11236840 AAAATTTTATA
1 AAAATTTTA-A
11236851 AAAATTTTAA
1 AAAATTTTAA
11236861 AAA
1 AAA
11236864 CTAAAAAAGA
Statistics
Matches: 142, Mismatches: 26, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
7 1 0.01
8 8 0.06
9 43 0.30
10 50 0.35
11 35 0.25
12 5 0.04
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.35
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:11237126 original size:18 final size:18
Alignment explanation
Indices: 11237088--11237126 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11237078 AATCTTCAAA
* * *
11237088 TTTTAATTTTTTATAATT
1 TTTTAATTTTCTAAAAAT
11237106 TTTTAATTTTCTAAAAAT
1 TTTTAATTTTCTAAAAAT
11237124 TTT
1 TTT
11237127 GAAAATTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAATTTTCTAAAAAT
Found at i:11237231 original size:26 final size:26
Alignment explanation
Indices: 11237174--11237232 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
11237164 TTTTTAAAGA
11237174 TTTTTTTCAAAAATTTTTAAATATTT
1 TTTTTTTCAAAAATTTTTAAATATTT
** *
11237200 AATTTTTCAAAAATTTTTAAA-AGTT
1 TTTTTTTCAAAAATTTTTAAATATTT
11237225 TTTTTTTC
1 TTTTTTTC
11237233 TTAATTTTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTTTTTCAAAAATTTTTAAATATTT
Found at i:11237374 original size:9 final size:9
Alignment explanation
Indices: 11237362--11237504 Score: 57
Period size: 9 Copynumber: 15.7 Consensus size: 9
11237352 GTAACTTATG
11237362 ATAATTTTT
1 ATAATTTTT
*
11237371 ATAATTTATA
1 ATAATTT-TT
* *
11237381 AAAATATTT
1 ATAATTTTT
*
11237390 CT--TTTT-
1 ATAATTTTT
11237396 ATAATTTTT
1 ATAATTTTT
*
11237405 ATAAGTTTT
1 ATAATTTTT
11237414 A-AATTTTT
1 ATAATTTTT
11237422 -TATATTTTT
1 ATA-ATTTTT
* *
11237431 CAAAAAATTTT
1 --ATAATTTTT
11237442 ATAAATTTTT
1 AT-AATTTTT
*
11237452 AAAATTGTTT
1 ATAATT-TTT
*
11237462 AAAACTTTTT
1 ATAA-TTTTT
11237472 A-AATTTTT
1 ATAATTTTT
*
11237480 TTAGTATTTTT
1 ATA--ATTTTT
*
11237491 ATATTTTTT
1 ATAATTTTT
11237500 A-AATT
1 ATAATT
11237505 AAAAGGTTTT
Statistics
Matches: 100, Mismatches: 19, Indels: 31
0.67 0.13 0.21
Matches are distributed among these distances:
6 1 0.01
7 3 0.03
8 19 0.19
9 37 0.37
10 24 0.24
11 15 0.15
12 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (9 bp):
ATAATTTTT
Found at i:11237377 original size:36 final size:34
Alignment explanation
Indices: 11237328--11237416 Score: 79
Period size: 34 Copynumber: 2.6 Consensus size: 34
11237318 ATTTTAAAAA
* * **
11237328 AATTTTCAAAATTTTTAAAGTTATGTAACTTATGAT
1 AATTTTTATAATTTTTAAAAATAT-T-ACTTATGAT
* * * *
11237364 AATTTTTATAATTTATAAAAATATTTCTTTTTAT
1 AATTTTTATAATTTTTAAAAATATTACTTATGAT
*
11237398 AATTTTTATAAGTTTTAAA
1 AATTTTTATAATTTTTAAA
11237417 TTTTTTATAT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
34 23 0.53
35 1 0.02
36 19 0.44
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (34 bp):
AATTTTTATAATTTTTAAAAATATTACTTATGAT
Found at i:11237440 original size:21 final size:20
Alignment explanation
Indices: 11237414--11237455 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
11237404 TATAAGTTTT
* *
11237414 AAATTTTTTATATTTTTCAAA
1 AAATTTTATAAATTTTT-AAA
11237435 AAATTTTATAAATTTTTAAA
1 AAATTTTATAAATTTTTAAA
11237455 A
1 A
11237456 TTGTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATTTTATAAATTTTTAAA
Found at i:11237455 original size:19 final size:19
Alignment explanation
Indices: 11237414--11237474 Score: 52
Period size: 21 Copynumber: 3.1 Consensus size: 19
11237404 TATAAGTTTT
* *
11237414 AAATTTTTTATATTTTTCAAA
1 AAATTTTATAAATTTTT--AA
11237435 AAATTTTATAAATTTTTAA
1 AAATTTTATAAATTTTTAA
*
11237454 AATTGTTTA-AAACTTTTTAA
1 AAAT-TTTATAAA-TTTTTAA
11237474 A
1 A
11237475 TTTTTTTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 8 0.23
20 12 0.34
21 15 0.43
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (19 bp):
AAATTTTATAAATTTTTAA
Found at i:11237462 original size:10 final size:9
Alignment explanation
Indices: 11237391--11237599 Score: 68
Period size: 9 Copynumber: 22.6 Consensus size: 9
11237381 AAAATATTTC
*
11237391 TTTTTATAA
1 TTTTTAAAA
*
11237400 TTTTTATAA
1 TTTTTAAAA
*
11237409 GTTTT-AAA
1 TTTTTAAAA
* *
11237417 TTTTTTATA
1 TTTTTAAAA
11237426 TTTTTCAAAAA
1 TTTTT--AAAA
*
11237437 ATTTTATAAA
1 TTTTTA-AAA
11237447 TTTTTAAAA
1 TTTTTAAAA
11237456 TTGTTTAAAA
1 TT-TTTAAAA
*
11237466 CTTTTTAAATT
1 -TTTTTAAA-A
**
11237477 TTTTTAGTA
1 TTTTTAAAA
*
11237486 TTTTT-ATA
1 TTTTTAAAA
*
11237494 TTTTTTAAA
1 TTTTTAAAA
11237503 ---TTAAAA
1 TTTTTAAAA
*
11237509 GGTTTTAGAAA
1 -TTTTTA-AAA
**
11237520 ACTTTAAAA
1 TTTTTAAAA
* *
11237529 TATTTAGAA
1 TTTTTAAAA
11237538 TTTTTAAAAA
1 TTTTT-AAAA
* ***
11237548 TTTTCATTT
1 TTTTTAAAA
*
11237557 TTTTTATAA
1 TTTTTAAAA
11237566 TTTTTAAAA
1 TTTTTAAAA
*
11237575 TATTTTGAATA
1 T-TTTT-AAAA
* *
11237586 TTTTGAATA
1 TTTTTAAAA
11237595 TTTTT
1 TTTTT
11237600 TTGAATTTTT
Statistics
Matches: 151, Mismatches: 33, Indels: 32
0.70 0.15 0.15
Matches are distributed among these distances:
6 5 0.03
8 13 0.09
9 70 0.46
10 48 0.32
11 15 0.10
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:11237618 original size:21 final size:21
Alignment explanation
Indices: 11237577--11237620 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11237567 TTTTAAAATA
*
11237577 TTTTGAATATTTTGAATATTT
1 TTTTGAATATTTTGAAAATTT
*
11237598 TTTTGAAT-TTTTATAAAATTT
1 TTTTGAATATTTT-GAAAATTT
11237619 TT
1 TT
11237621 AGATTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
TTTTGAATATTTTGAAAATTT
Found at i:11237668 original size:69 final size:68
Alignment explanation
Indices: 11237531--11237684 Score: 170
Period size: 69 Copynumber: 2.2 Consensus size: 68
11237521 CTTTAAAATA
* * ** * *
11237531 TTTAGAATTTTTAAAAATTTTCATTTTTTTTATAATTTTTAAAATATTTTGAATATTTTGAATAT
1 TTTAGAATTTTTAAAAATTTTCAATTTGTTTATAATTTGAAAAAAATTTTGAATATTTTAAATAT
11237596 TTT
66 TTT
* *
11237599 TTT-GAATTTTTATAAAATTTTTAGATTTGTTTATAATTTGAAAAAAATTTT-AGATTTTTTAAA
1 TTTAGAATTTTTA-AAAATTTTCA-ATTTGTTTATAATTTGAAAAAAATTTTGA-ATATTTTAAA
11237662 GT-TTTT
63 -TATTTT
*
11237668 TTTAGAATTTTAAAAAA
1 TTTAGAATTTTTAAAAA
11237685 AAAATTCTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
67 9 0.12
68 13 0.18
69 41 0.57
70 9 0.12
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.56
Consensus pattern (68 bp):
TTTAGAATTTTTAAAAATTTTCAATTTGTTTATAATTTGAAAAAAATTTTGAATATTTTAAATAT
TTT
Found at i:11238410 original size:15 final size:17
Alignment explanation
Indices: 11238390--11238425 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
11238380 TCCATTTTAC
11238390 TATTAAAA-ATT-AAAA
1 TATTAAAATATTAAAAA
11238405 TATTAAAATATTAAAAA
1 TATTAAAATATTAAAAA
11238422 TATT
1 TATT
11238426 TTTATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.42
16 3 0.16
17 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TATTAAAATATTAAAAA
Found at i:11238411 original size:8 final size:8
Alignment explanation
Indices: 11238390--11238425 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
11238380 TCCATTTTAC
11238390 TATTAAAA
1 TATTAAAA
11238398 -ATTAAAA
1 TATTAAAA
11238405 TATTAAAA
1 TATTAAAA
11238413 TATTAAAAA
1 TATT-AAAA
11238422 TATT
1 TATT
11238426 TTTATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.27
8 11 0.42
9 8 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TATTAAAA
Found at i:11238477 original size:28 final size:25
Alignment explanation
Indices: 11238434--11238489 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 25
11238424 TTTTTATATT
11238434 TAAAAATATATATTAAAATACATATTAA
1 TAAAAATATATATT-AAATA-A-ATTAA
* *
11238462 TAAAAATATTTTTTAAATAAATTAA
1 TAAAAATATATATTAAATAAATTAA
11238487 TAA
1 TAA
11238490 TTTGATCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 8 0.31
26 1 0.04
27 5 0.19
28 12 0.46
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
TAAAAATATATATTAAATAAATTAA
Found at i:11241235 original size:23 final size:23
Alignment explanation
Indices: 11241208--11241257 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
11241198 TTTGCAATTG
11241208 ATTTGCTTAAAGTCTAGAAAAAA
1 ATTTGCTTAAAGTCTAGAAAAAA
*
11241231 ATTTGCTTAAGGTCTAGAAAAAA
1 ATTTGCTTAAAGTCTAGAAAAAA
11241254 ATTT
1 ATTT
11241258 CAAGTCTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (23 bp):
ATTTGCTTAAAGTCTAGAAAAAA
Found at i:11242603 original size:21 final size:21
Alignment explanation
Indices: 11242558--11242603 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
11242548 ATTATTCATT
*
11242558 TTAATTATGTTTTAATCTTCT
1 TTAATTATGTTTTAATCTTCA
11242579 TTAATTAT-TTTTCAAT-TATCA
1 TTAATTATGTTTT-AATCT-TCA
11242600 TTAA
1 TTAA
11242604 AAGTTTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (21 bp):
TTAATTATGTTTTAATCTTCA
Found at i:11244255 original size:32 final size:32
Alignment explanation
Indices: 11244219--11244280 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
11244209 TCAGCCCCCA
11244219 TAAAAAATCTCATTTTAAATGAATATAGACTC
1 TAAAAAATCTCATTTTAAATGAATATAGACTC
**
11244251 TAAAAAATCTCATTTTGGATGAATATAGAC
1 TAAAAAATCTCATTTTAAATGAATATAGAC
11244281 CCTTGAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (32 bp):
TAAAAAATCTCATTTTAAATGAATATAGACTC
Found at i:11244803 original size:145 final size:144
Alignment explanation
Indices: 11244524--11244867 Score: 445
Period size: 145 Copynumber: 2.4 Consensus size: 144
11244514 TTAAAACATA
* * * *
11244524 AAAAATCATGAAATATTATAAAATTGAGATTTGAAAAGTTTCATGAAAATTCAAGGCAAAAAAGG
1 AAAAATCATGAAATATTATAAAATTAAGATTTGAAAAATTTCATGAAAATTCAAAGCAAAAAAGA
* * * * *
11244589 TAAATTACGAGAATACCTTTATAAGATTATTTTGGTAATTTCATACTTTTCGAGGTACTGTTATA
66 TAAATTACAAAAATACCTTTATAAGAGTATTTTGATAATTTCATACTTTTCAAGGTACTGTTATA
11244654 ATTTCAAATGCACC
131 ATTTCAAATGCACC
** * * * * **
11244668 AAAAATTTTGAAATATTATGAAATTAAGATCTGAAAATTTTCATGAAAATCTGAAATTAAAAAAG
1 AAAAATCATGAAATATTATAAAATTAAGATTTGAAAAATTTCATGAAAAT-TCAAAGCAAAAAAG
* * * * * *
11244733 ATAAATTACAAAAATACCTTTATAGGGGTATTTTGATAATTTTATACTTTTCAAGTTATTGTTGT
65 ATAAATTACAAAAATACCTTTATAAGAGTATTTTGATAATTTCATACTTTTCAAGGTACTGTTAT
* *
11244798 GATTTCAAATGCATC
130 AATTTCAAATGCACC
*
11244813 AAAAATCATGAAATATTATAAAATTAAGATTTAAAAAATTTCATGAAAATTCAAA
1 AAAAATCATGAAATATTATAAAATTAAGATTTGAAAAATTTCATGAAAATTCAAA
11244868 CTCGAAAAGG
Statistics
Matches: 168, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
144 48 0.29
145 120 0.71
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.35
Consensus pattern (144 bp):
AAAAATCATGAAATATTATAAAATTAAGATTTGAAAAATTTCATGAAAATTCAAAGCAAAAAAGA
TAAATTACAAAAATACCTTTATAAGAGTATTTTGATAATTTCATACTTTTCAAGGTACTGTTATA
ATTTCAAATGCACC
Found at i:11245492 original size:37 final size:37
Alignment explanation
Indices: 11245442--11245722 Score: 252
Period size: 37 Copynumber: 7.6 Consensus size: 37
11245432 GAACAGGGAT
* *
11245442 TTTG-AACTTTGAAAATAGCTCATCCTAAATAGAGGT
1 TTTGAAACTTTGAAAATGGCTCATCCTAAATAGAGGC
* * * * *
11245478 TTTGAAATTTTGAAAATGGCTTACCTCTAGATAAAGGC
1 TTTGAAACTTTGAAAATGGCTCATC-CTAAATAGAGGC
* * * *
11245516 TTTGAAACTTTGAAGATGGATC-CCCTTAAACT-GAAGC
1 TTTGAAACTTTGAAAATGGCTCATCC-TAAA-TAGAGGC
* * *
11245553 TTTGAAACTTTGAAAAAGGCT-TTCCCTAAATAGAGGT
1 TTTGAAACTTTGAAAATGGCTCAT-CCTAAATAGAGGC
* *
11245590 TTTGAAACTTTGAAAAAGGCT-TTCCCTAAATAGAGGC
1 TTTGAAACTTTGAAAATGGCTCAT-CCTAAATAGAGGC
* *
11245627 TTTGAAACTTTGAAAATGGCTTCCT-CTAAATAGAGGT
1 TTTGAAACTTTGAAAATGGC-TCATCCTAAATAGAGGC
* *
11245664 TTTGAAACTTTGAAGATGGCTCA-CCTCAAACAGAGGC
1 TTTGAAACTTTGAAAATGGCTCATCCT-AAATAGAGGC
* *
11245701 TTTGAAACTTTTAAAAAGGCTC
1 TTTGAAACTTTGAAAATGGCTC
11245723 TTTCGTCACA
Statistics
Matches: 203, Mismatches: 31, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
36 10 0.05
37 161 0.79
38 31 0.15
39 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (37 bp):
TTTGAAACTTTGAAAATGGCTCATCCTAAATAGAGGC
Found at i:11245630 original size:74 final size:75
Alignment explanation
Indices: 11245441--11245721 Score: 283
Period size: 74 Copynumber: 3.8 Consensus size: 75
11245431 CGAACAGGGA
* * * * *
11245441 TTTTG-AACTTTGAAAATA-GCTCAT-CCTAAATAGAGGTTTTGAAATTTTGAAAATGGCTTACC
1 TTTTGAAACTTTGAAAA-AGGCT-TTCCCTAAATAGAGGCTTTGAAACTTTGAAAAAGGCTTTCC
* *
11245503 TCTAGATAAAGG
64 TCTAAATAGAGG
* * * * * *
11245515 CTTTGAAACTTTGAAGATGG-ATCCCCTTAAACT-GAAGCTTTGAAACTTTGAAAAAGGCTTTCC
1 TTTTGAAACTTTGAAAAAGGCTTTCCC-TAAA-TAGAGGCTTTGAAACTTTGAAAAAGGCTTTCC
11245578 -CTAAATAGAGG
64 TCTAAATAGAGG
*
11245589 TTTTGAAACTTTGAAAAAGGCTTTCCCTAAATAGAGGCTTTGAAACTTTGAAAATGGC-TTCCTC
1 TTTTGAAACTTTGAAAAAGGCTTTCCCTAAATAGAGGCTTTGAAACTTTGAAAAAGGCTTTCCTC
11245653 TAAATAGAGG
66 TAAATAGAGG
* * * *
11245663 TTTTGAAACTTTGAAGATGGC--TCACCTCAAACAGAGGCTTTGAAACTTTTAAAAAGGCT
1 TTTTGAAACTTTGAAAAAGGCTTTC-CCT-AAATAGAGGCTTTGAAACTTTGAAAAAGGCT
11245722 CTTTCGTCAC
Statistics
Matches: 171, Mismatches: 25, Indels: 21
0.79 0.12 0.10
Matches are distributed among these distances:
72 2 0.01
73 8 0.05
74 116 0.68
75 44 0.26
76 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (75 bp):
TTTTGAAACTTTGAAAAAGGCTTTCCCTAAATAGAGGCTTTGAAACTTTGAAAAAGGCTTTCCTC
TAAATAGAGG
Found at i:11245699 original size:111 final size:111
Alignment explanation
Indices: 11245441--11245721 Score: 329
Period size: 111 Copynumber: 2.5 Consensus size: 111
11245431 CGAACAGGGA
* * *
11245441 TTTTG-AACTTTGAAAATAGCTCATCCTAAATAGAGGTTTTGAAATTTTGAAAATGGCTTACCTC
1 TTTTGAAACTTTGAAAATGGCTCA-CCTAAATAGAGGTTTTGAAACTTTGAAAAAGGCTTACCTC
* *
11245505 TAGATAAAGGCTTTGAAACTTTGAAGATGGATCCCCTTAAACTGAAG
65 TAAATAAAGGCTTTGAAACTTTGAAAATGGATCCCCTTAAACTGAAG
* * *
11245552 CTTTGAAACTTTGAAAAAGGCTTTC-CCTAAATAGAGGTTTTGAAACTTTGAAAAAGGCTTTCC-
1 TTTTGAAACTTTGAAAATGGC--TCACCTAAATAGAGGTTTTGAAACTTTGAAAAAGGCTTACCT
* * * *
11245615 CTAAATAGAGGCTTTGAAACTTTGAAAATGGCT-TCCTCTAAA-TAGAGG
64 CTAAATAAAGGCTTTGAAACTTTGAAAATGGATCCCCT-TAAACT-GAAG
* * * *
11245663 TTTTGAAACTTTGAAGATGGCTCACCTCAAACAGAGGCTTTGAAACTTTTAAAAAGGCT
1 TTTTGAAACTTTGAAAATGGCTCACCT-AAATAGAGGTTTTGAAACTTTGAAAAAGGCT
11245722 CTTTCGTCAC
Statistics
Matches: 145, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
109 2 0.01
110 7 0.05
111 86 0.59
112 48 0.33
114 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (111 bp):
TTTTGAAACTTTGAAAATGGCTCACCTAAATAGAGGTTTTGAAACTTTGAAAAAGGCTTACCTCT
AAATAAAGGCTTTGAAACTTTGAAAATGGATCCCCTTAAACTGAAG
Found at i:11246328 original size:127 final size:126
Alignment explanation
Indices: 11245961--11246328 Score: 377
Period size: 127 Copynumber: 2.9 Consensus size: 126
11245951 ACCTGAAAGA
* * * * **
11245961 CTTAGAGATTATGCTCGAAGGTCTTAAAATCTCAAAAATCTTTGAAA-GCTCCTTTTAATAGAGG
1 CTTAGAGATTATACTCAAAGGTTTTAAAATCTCAAAAATCTTT-AAATGCTCATCGTAATAGAGG
* * ** * ** * * * *
11246025 CGTTGAAACTGTAAAAATTTAAAACATTTTATTTGGAGGTTTTAAAAATCATGGTCGGAGGT
65 CGTTGAAACTTTGAAAATTTAAAATGTTTTACTCAGAGGTCTTAAAAATTATGCTCGGACGT
* * * *
11246087 CTTAGAGATTATTCTTGAAA-GTTTTACAAATCTAAAAAATCTTTGAATGCTCATCGTAATAGA-
1 CTTAGAGATTATAC-TCAAAGGTTTTA-AAATCTCAAAAATCTTTAAATGCTCATCGTAATAGAG
* * * *
11246150 GCTGTTGAAACTTTGAAAATTTAAAATGTTTT-GTCCAGATGTCTTGAAAATTATGCTTGGACGT
64 GC-GTTGAAACTTTGAAAATTTAAAATGTTTTACT-CAGAGGTCTTAAAAATTATGCTCGGACGT
* *
11246214 TTTAGAGATTATAC-CAAGAGGTTTTATAAATCTCAAAAATCTTTAAATGCTTATCGTAATAGAG
1 CTTAGAGATTATACTCAA-AGGTTTTA-AAATCTCAAAAATCTTTAAATGCTCATCGTAATAGAG
* *
11246278 GCATTGAAACTTTGAAAATTTAAAATGTTTTACTCAAAGGTCTTAAAAATT
64 GCGTTGAAACTTTGAAAATTTAAAATGTTTTACTCAGAGGTCTTAAAAATT
11246329 GTGCCCATAG
Statistics
Matches: 198, Mismatches: 35, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
125 2 0.01
126 24 0.12
127 169 0.85
128 3 0.02
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (126 bp):
CTTAGAGATTATACTCAAAGGTTTTAAAATCTCAAAAATCTTTAAATGCTCATCGTAATAGAGGC
GTTGAAACTTTGAAAATTTAAAATGTTTTACTCAGAGGTCTTAAAAATTATGCTCGGACGT
Found at i:11247328 original size:41 final size:42
Alignment explanation
Indices: 11247249--11247328 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
11247239 CGAATGCGAA
* * *
11247249 TGATGCAAATACAAATGTCTTTTTTTGTGATGTCGATGTAAG
1 TGATACAAATACAAATGTCTTTTTTTGTGATATAGATGTAAG
*
11247291 TGATACAAATACGAATGTC-TTTTTTGTGATATAGATGT
1 TGATACAAATACAAATGTCTTTTTTTGTGATATAGATGT
11247329 GAATGCAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
41 17 0.50
42 17 0.50
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (42 bp):
TGATACAAATACAAATGTCTTTTTTTGTGATATAGATGTAAG
Found at i:11247590 original size:256 final size:251
Alignment explanation
Indices: 11246935--11247737 Score: 888
Period size: 256 Copynumber: 3.2 Consensus size: 251
11246925 ATATGAAATT
* * * * * **
11246935 TTTTTTATGATGTAGATGT-AAGGCAAATGTCTTTCACATGATGCACATACAAGTATGAATGTGA
1 TTTTTTGTGATGTAGATGTGAATGCAAATGTCTTTCTCATGATGCACACACAAGTACGAATGCAA
* * * * * * *
11246999 GTGATAC-AATGA-GAATTTTTTTTTTTGTGATGTAGATGCAAGTG---CAAATGCGAATGCCTT
66 ATGATGCAAAT-ACAAATATCTTTTTTTGTGATGTAGATGCAAGTGATACAAATACGAATGTCTT
* * * *
11247059 TTTTGTGATATAGATGTGAATGCACATGTCTTTCTCATGATGTACATGCAAGTATGATTGTGAA-
130 TTTTGTGATATAGATGTGAATGCAAATGTCTTTCTTATGATGCACATGCAAGTATGAATGT-AAG
* * * * *
11247123 TGATGCAAATGCAAATAGCC-TTTTTTATGATGCAAATGTAAGTGATACAAATACGAATGTC
194 TGATGCAAATGCAAATA-CCTTTTTTTATGATACAGATGCAAGTG---CAAATGCAAATGTC
* * ** ** *
11247184 TTTTCT-TGATGTAAATGTGAATGCATGTGTCTTTCTCATGATGCACATGCAAGTACGAATGCGA
1 TTTTTTGTGATGTAGATGTGAATGCAAATGTCTTTCTCATGATGCACACACAAGTACGAATGCAA
* * *
11247248 ATGATGCAAATACAAATGTCTTTTTTTGTGATGTCGATGTAAGTGATACAAATACGAATGTCTTT
66 ATGATGCAAATACAAATATCTTTTTTTGTGATGTAGATGCAAGTGATACAAATACGAATGTCTTT
***
11247313 TTTGTGATATAGATGTGAATGCAAATGTCTTTCTTATGATGCACACATAAGTATGAATGTAAGTG
131 TTTGTGATATAGATGTGAATGCAAATGTCTTTCTTATGATGCACATGCAAGTATGAATGTAAGTG
** * *
11247378 ATGCAAATGCAAAT-TTTTTTTTTGTGATACAGATACAAGTGCAAATGCAAATGTC
196 ATGCAAATGCAAATACCTTTTTTTATGATACAGATGCAAGTGCAAATGCAAATGTC
* * * *
11247433 TTTTTTGTGATGTAGATGTGAATGCACATGTCTTTCTCATGATGCACACATAAGTATGATTGCAA
1 TTTTTTGTGATGTAGATGTGAATGCAAATGTCTTTCTCATGATGCACACACAAGTACGAATGC-A
* * *
11247498 ATGATGCAGATGCAAATGCAAATATCTTTTTTTGTGATGTTGATACAAGTGATACAAATACGAAT
65 A--AT---GATGCAAATACAAATATCTTTTTTTGTGATGTAGATGCAAGTGATACAAATACGAAT
* * * * * *
11247563 ATCTTTTTTGTGATGTAGATATGAATGCAAATATCTTTCTTATAATGCACATGCAAGTATGAATA
125 GTCTTTTTTGTGATATAGATGTGAATGCAAATGTCTTTCTTATGATGCACATGCAAGTATGAATG
** * *
11247628 CGAGTGATGCAAATGCAAATACCTTTTCTTATGATACAGATGCAAGTGCCAATGCAAATGTC
190 TAAGTGATGCAAATGCAAATACCTTTTTTTATGATACAGATGCAAGTGCAAATGCAAATGTC
*
11247690 TTTTTTGTGATGTAGATGTGAATGTAAAAATGTCTTTCTCATGATGCA
1 TTTTTTGTGATGTAGATGTGAATG--CAAATGTCTTTCTCATGATGCA
11247738 AATGCAAATG
Statistics
Matches: 468, Mismatches: 68, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
248 11 0.02
249 66 0.14
250 78 0.17
251 1 0.00
252 21 0.04
253 86 0.18
256 126 0.27
257 59 0.13
259 20 0.04
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (251 bp):
TTTTTTGTGATGTAGATGTGAATGCAAATGTCTTTCTCATGATGCACACACAAGTACGAATGCAA
ATGATGCAAATACAAATATCTTTTTTTGTGATGTAGATGCAAGTGATACAAATACGAATGTCTTT
TTTGTGATATAGATGTGAATGCAAATGTCTTTCTTATGATGCACATGCAAGTATGAATGTAAGTG
ATGCAAATGCAAATACCTTTTTTTATGATACAGATGCAAGTGCAAATGCAAATGTC
Found at i:11249504 original size:123 final size:122
Alignment explanation
Indices: 11249336--11249607 Score: 334
Period size: 123 Copynumber: 2.2 Consensus size: 122
11249326 TTCTCACCTC
* *
11249336 TTTTTTCTTTTTGTTTTATTTTTTTTAAAACATTTGACTTTATCTTTAGCAATCAA-TTTCTTGA
1 TTTTTT-TTTTTTTTTTATTTTTTTTAAAACATTTGACTTCATCTTTAGCAATCAACTTTCTTGA
* * *
11249400 ATTCTATTTTTCTAAAGATTCATTCACATTTTGCCCCAAACTTTCATGTTCGAGGTAG-A
65 A-TCTATTTTTCTAAAGATTCATTCACATTTTACCCCAAACTCTCATCTTCGAGGT-GCA
**
11249459 TGTTTTTTTTTTTTTTT-TTTTCTTTTTTAACATTTGACTTCATCTTTAGCAATCAACTTTCTTG
1 T-TTTTTTTTTTTTTTTATTTT-TTTTAAAACATTTGACTTCATCTTTAGCAATCAACTTTCTTG
* * * * **
11249523 AATCTATTTTTTTAAAGTTTCATTCACTTTTTACCTCGGACTCTCATCTTCGAGGTGCA
64 AATCTATTTTTCTAAAGATTCATTCACATTTTACCCCAAACTCTCATCTTCGAGGTGCA
**
11249582 TTTTTTTTCTTTTTTTGCTTTTTTTT
1 TTTTTTTT-TTTTTTTTATTTTTTTT
11249608 CTTTCTTTTT
Statistics
Matches: 129, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
122 12 0.09
123 99 0.77
124 18 0.14
ACGTcount: A:0.19, C:0.16, G:0.08, T:0.56
Consensus pattern (122 bp):
TTTTTTTTTTTTTTTTATTTTTTTTAAAACATTTGACTTCATCTTTAGCAATCAACTTTCTTGAA
TCTATTTTTCTAAAGATTCATTCACATTTTACCCCAAACTCTCATCTTCGAGGTGCA
Found at i:11249596 original size:9 final size:9
Alignment explanation
Indices: 11249582--11249617 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
11249572 TCGAGGTGCA
11249582 TTTTTTTTC
1 TTTTTTTTC
*
11249591 TTTTTTTGC
1 TTTTTTTTC
11249600 TTTTTTTTC
1 TTTTTTTTC
11249609 TTTCTTTTT
1 TTT-TTTTT
11249618 TTGAAACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 19 0.79
10 5 0.21
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:11259409 original size:145 final size:145
Alignment explanation
Indices: 11259124--11259480 Score: 375
Period size: 145 Copynumber: 2.5 Consensus size: 145
11259114 TGCTCATTTT
* * * * ** * *
11259124 TATGATTTTAAA-ACATAAAAAATCATGAAATATTATAAAATTGAGATCTTGAAAGTTTCATAAA
1 TATGATTTCAAATACACAAAAAATCATGAAATATTATGAAATTAAGATCTAAAAATTTTCATGAA
** * * * * * *
11259188 AATCC-ATGTTCGAGAAGGCCGAATTA-TAAGAATACCCTTATAGGGGTATTTTAGTAATTTTAC
66 AATCCGACCTT-GGGAAGGACAAATTACGAA-AATACCCTTATAGGAGTATTTTAGTAATTTCAC
* *
11259251 ATTTTTCAGGGTATTAC
129 AATCTTCAGGGTATTAC
** **
11259268 TATGATTTCAAATACAGC-AATTATCATGAAATATTATGAAATTGGGATCTAAAAAATTTT-ATG
1 TATGATTTCAAATACA-CAAAAAATCATGAAATATTATGAAATTAAGATCT-AAAAATTTTCATG
*
11259331 AAAATCCGACCTTGGGAAGGACAAATTACGAAAATACCCTTATAGGAGTATTTTGGTAATTTCAC
64 AAAATCCGACCTTGGGAAGGACAAATTACGAAAATACCCTTATAGGAGTATTTTAGTAATTTCAC
* *
11259396 ACATCTTGA-GGTATTGC
129 A-ATCTTCAGGGTATTAC
* * *
11259413 TATGATTTCGAATGCACAAAAAATCATGAAATATTATGAAATTAAGATCTGAAAATTTTCATGAA
1 TATGATTTCAAATACACAAAAAATCATGAAATATTATGAAATTAAGATCTAAAAATTTTCATGAA
11259478 AAT
66 AAT
11259481 TCGAGCTCGA
Statistics
Matches: 175, Mismatches: 30, Indels: 15
0.80 0.14 0.07
Matches are distributed among these distances:
144 20 0.11
145 140 0.80
146 15 0.09
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (145 bp):
TATGATTTCAAATACACAAAAAATCATGAAATATTATGAAATTAAGATCTAAAAATTTTCATGAA
AATCCGACCTTGGGAAGGACAAATTACGAAAATACCCTTATAGGAGTATTTTAGTAATTTCACAA
TCTTCAGGGTATTAC
Found at i:11262754 original size:64 final size:64
Alignment explanation
Indices: 11262681--11262809 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 64
11262671 ATCTATAGTA
* * * *
11262681 ATTAGATTATTGTGTTTGGTAAGTATTCAGTAATTTTATGCGGCAATGATCTTAGGTCACCGAT
1 ATTAGATTATTATGTTTGATAAGTATTCAGTAATTTTATGCGACAATAATCTTAGGTCACCGAT
* *
11262745 ATTAGATTATTATGTTTGATAAGTATTCAGTGATTTTATGCGACAATAATCTTGGGTCACCGAT
1 ATTAGATTATTATGTTTGATAAGTATTCAGTAATTTTATGCGACAATAATCTTAGGTCACCGAT
11262809 A
1 A
11262810 GTTATTAGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (64 bp):
ATTAGATTATTATGTTTGATAAGTATTCAGTAATTTTATGCGACAATAATCTTAGGTCACCGAT
Found at i:11270096 original size:18 final size:17
Alignment explanation
Indices: 11270073--11270107 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11270063 TTCATGATTG
*
11270073 CTTTAATGTGATTAATAT
1 CTTTAATG-GATGAATAT
11270091 CTTTAATGGATGAATAT
1 CTTTAATGGATGAATAT
11270108 TTATTTAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (17 bp):
CTTTAATGGATGAATAT
Found at i:11277110 original size:17 final size:18
Alignment explanation
Indices: 11277084--11277121 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11277074 TATATATATT
*
11277084 TATATGTGC-TTAATAGA
1 TATATATGCTTTAATAGA
*
11277101 TATATATGCTTTAATATA
1 TATATATGCTTTAATAGA
11277119 TAT
1 TAT
11277122 GTATATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (18 bp):
TATATATGCTTTAATAGA
Found at i:11290525 original size:49 final size:48
Alignment explanation
Indices: 11290388--11290727 Score: 279
Period size: 49 Copynumber: 6.8 Consensus size: 48
11290378 TAAAATGAAT
* * *
11290388 TTTTAAAGTTGTTAAACCTCTACTGAGATGAGCCTTTTTCAAGATAAAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAG-CTTTTTCAAGATAAAA
* * * *
11290437 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCCTTTTCAAAATAAAA
1 -TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATAAAA
* * * *
11290486 TTTTAAAGTTGTCGAGCTTTTACTGATAGGAGCTTTTTTCAAGATAAAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGC-TTTTTCAAGATAAAA
* * * * * *
11290535 TTTTAAAAATTGTCGAACTTCTGCTGAGAGGAGCTTTTTCAAGATAGAA
1 TTTT-AAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATAAAA
* * * ** *
11290584 TTTTAAAAGTTGTTGAGCCTCTGCTAAAAGGAGCCTTTTTTTTTTTTGAGATAAAT
1 TTTT-AAAGTTGTTGAGCCTCTACTGAGAGGAG-C------TTTTTCAAGATAAAA
* **
11290640 TTTTAAATTTGTTGAGCC-CCGCTGAGAGGAGCTTTTTCAAGATAAGAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATAA-AA
* * *
11290688 -TTTAAAGTTATTGAACCTCTACTAAGAGGAGTCTTTTTCA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAG-CTTTTTCA
11290728 GCTTTTAAAA
Statistics
Matches: 234, Mismatches: 44, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
47 25 0.11
48 38 0.16
49 80 0.34
50 52 0.22
53 1 0.00
54 10 0.04
55 13 0.06
56 15 0.06
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (48 bp):
TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATAAAA
Found at i:11291229 original size:25 final size:25
Alignment explanation
Indices: 11291169--11291232 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
11291159 TTACATTAAT
*
11291169 ATTGAAAAATATTAAAAAATACAAAA
1 ATTGAAAAA-AATAAAAAATACAAAA
** * *
11291195 AAAGAGAAAAATACAAAATACAAAA
1 ATTGAAAAAAATAAAAAATACAAAA
11291220 ATTGAAAAAAATA
1 ATTGAAAAAAATA
11291233 GGAAAAAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
25 24 0.80
26 6 0.20
ACGTcount: A:0.72, C:0.05, G:0.06, T:0.17
Consensus pattern (25 bp):
ATTGAAAAAAATAAAAAATACAAAA
Found at i:11291237 original size:11 final size:11
Alignment explanation
Indices: 11291223--11291250 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
11291213 TACAAAAATT
11291223 GAAAAAAATAG
1 GAAAAAAATAG
11291234 GAAAAAAATAG
1 GAAAAAAATAG
11291245 GAAAAA
1 GAAAAA
11291251 GAAAACCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (11 bp):
GAAAAAAATAG
Found at i:11298854 original size:35 final size:36
Alignment explanation
Indices: 11298823--11298963 Score: 131
Period size: 35 Copynumber: 4.1 Consensus size: 36
11298813 TTATAAATGG
11298823 TATTATATTAATAAA-AATATTATATTAATAAATAA
1 TATTATATTAATAAATAATATTATATTAATAAATAA
* *
11298858 TATTATATTAGTAAATATTATTATATTAATAAAT-A
1 TATTATATTAATAAATAATATTATATTAATAAATAA
* * *
11298893 -A-TATATTATATAATATTATAATATATTCATAAATAA
1 TATTATATTA-ATAA-ATAATATTATATTAATAAATAA
*
11298929 -AATACTATTAAT--AT-A-A-TATATTAATAAATAA
1 TATTA-TATTAATAAATAATATTATATTAATAAATAA
11298960 TATT
1 TATT
11298964 GTAAACACCT
Statistics
Matches: 90, Mismatches: 9, Indels: 17
0.78 0.08 0.15
Matches are distributed among these distances:
31 14 0.16
32 3 0.03
33 8 0.09
34 6 0.07
35 31 0.34
36 19 0.21
37 4 0.04
38 5 0.06
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (36 bp):
TATTATATTAATAAATAATATTATATTAATAAATAA
Found at i:11298861 original size:18 final size:18
Alignment explanation
Indices: 11298823--11298963 Score: 131
Period size: 18 Copynumber: 8.2 Consensus size: 18
11298813 TTATAAATGG
11298823 TATTATATTAATAAA-AA
1 TATTATATTAATAAATAA
11298840 TATTATATTAATAAATAA
1 TATTATATTAATAAATAA
* *
11298858 TATTATATTAGTAAATAT
1 TATTATATTAATAAATAA
11298876 TATTATATTAATAAAT-A
1 TATTATATTAATAAATAA
*
11298893 -A-TATATTATATAATATTA
1 TATTATATTA-ATAA-ATAA
* *
11298911 TAATATATTCATAAATAA
1 TATTATATTAATAAATAA
*
11298929 -AATACTATTAAT--AT-A
1 TATTA-TATTAATAAATAA
11298944 -A-TATATTAATAAATAA
1 TATTATATTAATAAATAA
11298960 TATT
1 TATT
11298964 GTAAACACCT
Statistics
Matches: 105, Mismatches: 7, Indels: 23
0.78 0.05 0.17
Matches are distributed among these distances:
13 7 0.07
14 2 0.02
15 11 0.10
16 8 0.08
17 22 0.21
18 44 0.42
19 5 0.05
20 6 0.06
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (18 bp):
TATTATATTAATAAATAA
Found at i:11298917 original size:15 final size:15
Alignment explanation
Indices: 11298848--11298918 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
11298838 AATATTATAT
*
11298848 TAATAAATAATATTA
1 TAATATATAATATTA
*
11298863 TATTAGTA-AATATTA
1 TAATA-TATAATATTA
* *
11298878 TTATATTAATAAATAATA
1 TAATA-T-AT-AATATTA
*
11298896 TATTATATAATATTA
1 TAATATATAATATTA
11298911 TAATATAT
1 TAATATAT
11298919 TCATAAATAA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
15 28 0.67
16 4 0.10
17 1 0.02
18 9 0.21
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (15 bp):
TAATATATAATATTA
Found at i:11298918 original size:53 final size:50
Alignment explanation
Indices: 11298823--11298961 Score: 149
Period size: 53 Copynumber: 2.7 Consensus size: 50
11298813 TTATAAATGG
* *
11298823 TATTATATTAATAAAAATATTATATTAATAAATAATATTATATT-AGTAAATA
1 TATTATATTAAT--AAATAATATATTAATAAATAATAATATATTCA-TAAATA
*
11298875 TTATTATATTAATAAATAATATATTATATAATATTATAATATATTCATAAATA
1 -TATTATATTAATAAATAATATATTA-ATAA-ATAATAATATATTCATAAATA
* *
11298928 AAATACTATTAAT--ATAATATATTAATAAATAATA
1 TATTA-TATTAATAAATAATATATTAATAAATAATA
11298962 TTGTAAACAC
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
49 5 0.07
50 4 0.05
51 23 0.30
52 7 0.09
53 36 0.47
54 1 0.01
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (50 bp):
TATTATATTAATAAATAATATATTAATAAATAATAATATATTCATAAATA
Found at i:11300743 original size:7 final size:7
Alignment explanation
Indices: 11300733--11300765 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
11300723 TATAAAAAAG
11300733 ATAAATA
1 ATAAATA
11300740 ATAAATA
1 ATAAATA
11300747 ATAAATA
1 ATAAATA
11300754 ATAAAATA
1 AT-AAATA
11300762 ATAA
1 ATAA
11300766 TAAAGTCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
ATAAATA
Found at i:11300764 original size:25 final size:26
Alignment explanation
Indices: 11300666--11300778 Score: 86
Period size: 28 Copynumber: 4.2 Consensus size: 26
11300656 AAATAATTTA
11300666 AAATAATAAAATGAAATAAT-AATAAT
1 AAATAATAAAAT-AAATAATAAATAAT
* ** * *
11300692 AAAAAATTTAATGAACAATAATAAAGAAA
1 AAATAATAAAAT--A-AATAATAAATAAT
*
11300721 AATATAAAAAAGATAAATAATAAATAAT
1 AA-ATAATAAA-ATAAATAATAAATAAT
*
11300749 AAATAATAAAAT-AATAATAAAGTCAT
1 AAATAATAAAATAAATAATAAA-TAAT
11300775 AAAT
1 AAAT
11300779 GGTGATTTAT
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
25 9 0.13
26 18 0.27
27 8 0.12
28 19 0.28
29 7 0.10
30 4 0.06
31 2 0.03
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (26 bp):
AAATAATAAAATAAATAATAAATAAT
Found at i:11300776 original size:11 final size:11
Alignment explanation
Indices: 11300667--11300769 Score: 55
Period size: 11 Copynumber: 9.8 Consensus size: 11
11300657 AATAATTTAA
11300667 AATAATAAAAT
1 AATAATAAAAT
*
11300678 GA-AATAATAAT
1 AATAATAA-AAT
11300689 AATAA-AAAAT
1 AATAATAAAAT
*
11300699 -TTAATGAACAAT
1 AATAAT-AA-AAT
11300711 AATAA-AGAAA-
1 AATAATA-AAAT
11300721 AAT-ATAAAA-
1 AATAATAAAAT
*
11300730 AA-GAT-AAAT
1 AATAATAAAAT
*
11300739 AATAA-ATAAT
1 AATAATAAAAT
11300749 AAATAATAAAAT
1 -AATAATAAAAT
11300761 AATAATAAA
1 AATAATAAA
11300770 GTCATAAATG
Statistics
Matches: 71, Mismatches: 7, Indels: 28
0.67 0.07 0.26
Matches are distributed among these distances:
8 3 0.04
9 13 0.18
10 16 0.23
11 26 0.37
12 10 0.14
13 3 0.04
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.24
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:11300898 original size:116 final size:118
Alignment explanation
Indices: 11300758--11300983 Score: 325
Period size: 118 Copynumber: 1.9 Consensus size: 118
11300748 TAAATAATAA
* * *
11300758 AATAATAATAAAGTCATAAATGGTGA-TTTATT-AAAACTATTCACACAAATAAA-TTTCTAAAA
1 AATAAAAATAAAGTCACAAATGGTGATTTTATTGAAAA-TATTCACACAAAGAAATTTTCTAAAA
*
11300820 TATTCTAAAAGTGTT-AGAAATATTTTAGAATTTTTCAAGCATAAAAAAATTATT
65 TATTCTAAAAGTGTTGA-AAATATTTTAGAATTTTTCAAACATAAAAAAATTATT
* * * *
11300874 AATAAAAATAAAGTTACAAGTGGTGATTTTATTGAAAATATTCATATAAAGAAATTTTCTAAAAT
1 AATAAAAATAAAGTCACAAATGGTGATTTTATTGAAAATATTCACACAAAGAAATTTTCTAAAAT
*
11300939 ATTCTAAAAGTGTTGAAAATGTTTTAGAATTTTTCAAACATAAAA
66 ATTCTAAAAGTGTTGAAAATATTTTAGAATTTTTCAAACATAAAA
11300984 GTAACAACAA
Statistics
Matches: 97, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
116 22 0.23
117 19 0.20
118 55 0.57
119 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (118 bp):
AATAAAAATAAAGTCACAAATGGTGATTTTATTGAAAATATTCACACAAAGAAATTTTCTAAAAT
ATTCTAAAAGTGTTGAAAATATTTTAGAATTTTTCAAACATAAAAAAATTATT
Found at i:11301622 original size:15 final size:15
Alignment explanation
Indices: 11301602--11301633 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
11301592 AAATTTCAAT
11301602 ATTCAAATAATAAAA
1 ATTCAAATAATAAAA
11301617 ATTCAAATAATAAAA
1 ATTCAAATAATAAAA
11301632 AT
1 AT
11301634 AAAATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
ATTCAAATAATAAAA
Found at i:11301644 original size:15 final size:15
Alignment explanation
Indices: 11301606--11301644 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
11301596 TTCAATATTC
*
11301606 AAATAATAAAAATTC
1 AAATAATAAAAATTA
11301621 AAATAATAAAAA-TA
1 AAATAATAAAAATTA
11301635 AAATATATAA
1 AAATA-ATAA
11301645 GTAAAAGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAATAAAAATTA
Found at i:11302591 original size:16 final size:17
Alignment explanation
Indices: 11302560--11302598 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
11302550 GCCGAGTAAA
*
11302560 TATTCTATTATTTGTTT
1 TATTTTATTATTTGTTT
11302577 TATTTTATT-TTTGTTT
1 TATTTTATTATTTGTTT
*
11302593 AATTTT
1 TATTTT
11302599 CTAATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (17 bp):
TATTTTATTATTTGTTT
Found at i:11303554 original size:15 final size:15
Alignment explanation
Indices: 11303536--11303568 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
11303526 ATTCATCCAT
11303536 TATTTTTA-AAAAATA
1 TATTTTTATAAAAA-A
11303551 TATTTTTATAAAAAA
1 TATTTTTATAAAAAA
11303566 TAT
1 TAT
11303569 AATATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTTTTATAAAAAA
Found at i:11303564 original size:17 final size:16
Alignment explanation
Indices: 11303538--11303569 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11303528 TCATCCATTA
11303538 TTTTTAAAAAATATAT
1 TTTTTAAAAAATATAT
11303554 TTTTATAAAAAATATA
1 TTTT-TAAAAAATATA
11303570 ATATTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTTTAAAAAATATAT
Found at i:11304507 original size:4 final size:4
Alignment explanation
Indices: 11304498--11304535 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
11304488 AGGTTTGTAA
* *
11304498 TTAT TTAT TTAT TTGT TTAT TTAT TTAT TTAT CTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
11304536 TCATTCATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:11309477 original size:15 final size:16
Alignment explanation
Indices: 11309459--11309491 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11309449 AAGGAAAACA
*
11309459 AAATTTTGA-AAAAAT
1 AAATTTTAAGAAAAAT
11309474 AAATTTTAAGAAAAAT
1 AAATTTTAAGAAAAAT
11309490 AA
1 AA
11309492 GTGGCACCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
AAATTTTAAGAAAAAT
Found at i:11309877 original size:11 final size:11
Alignment explanation
Indices: 11309857--11309887 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11309847 TTGTAAAAGA
*
11309857 CATTTTCATTT
1 CATTTGCATTT
11309868 CATTTGCATTT
1 CATTTGCATTT
11309879 CATTTGCAT
1 CATTTGCAT
11309888 CATCATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (11 bp):
CATTTGCATTT
Found at i:11310306 original size:42 final size:41
Alignment explanation
Indices: 11310195--11310307 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 41
11310185 TAAAAGTCTA
* * *
11310195 AATTTCATCTTTTCAGTGGTGATATCCGAATGTTAAAGCTTG
1 AATTTCAT-TTTTTAGTGGTGATATCCAAAAGTTAAAGCTTG
* * *
11310237 AATTGCATTTTTTCAGTCGTGAAATCCAAAAGTTAAAGCTTG
1 AATTTCATTTTTT-AGTGGTGATATCCAAAAGTTAAAGCTTG
*
11310279 AATTTCATTTTCTTAGTGGCGATATCCAA
1 AATTTCATTTT-TTAGTGGTGATATCCAA
11310308 GGCATTTTCA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.07
42 53 0.90
43 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (41 bp):
AATTTCATTTTTTAGTGGTGATATCCAAAAGTTAAAGCTTG
Found at i:11310485 original size:57 final size:57
Alignment explanation
Indices: 11310422--11310584 Score: 179
Period size: 57 Copynumber: 2.9 Consensus size: 57
11310412 TTTGGTGGTG
* * *
11310422 ATATCCAAAGTCATTT-TCATTTTCTTGATGGTGATATTTGAGT-TTACTTTGGTTGCA
1 ATATCCAAAGTCATTTAT-ATTTTCTTGATGGTGATATTCGAGTCTT-CTTTGCTGGCA
* * ** * *
11310479 ATATCCAAACTCATTTGTATTTTCTCAATGGTGATATTCAAGTCTTTTTTGCTGGCA
1 ATATCCAAAGTCATTTATATTTTCTTGATGGTGATATTCGAGTCTTCTTTGCTGGCA
* *
11310536 ATATCCGAAGTTATTTATATTTT-TTCGATGGTGATATTCGAGTCTTCTT
1 ATATCCAAAGTCATTTATATTTTCTT-GATGGTGATATTCGAGTCTTCTT
11310585 CAATGGTGAT
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
56 1 0.01
57 83 0.95
58 3 0.03
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (57 bp):
ATATCCAAAGTCATTTATATTTTCTTGATGGTGATATTCGAGTCTTCTTTGCTGGCA
Found at i:11310643 original size:114 final size:113
Alignment explanation
Indices: 11310397--11310643 Score: 247
Period size: 114 Copynumber: 2.2 Consensus size: 113
11310387 GCTTGGTAGC
* * ** *
11310397 GATATCTAAGCTTCTTTTGGTGGTGATATCCAAAGTCATTTTCATTTTCTTGATGGTGATATTTG
1 GATATCTAAGTTTCTTTTGCTGGCAATATCCAAAGTCATTTTCATTTTCTTGATGGTGATATTCG
* * ** * *
11310462 AGTTTACTTTGGTTGCAATATCCAAACTCATTTGTATTTTCTCAATGGT
66 AGTTTACTTTGGTTG-AATATCCAAAATCATTTGCAACTTATCAATGAT
* *
11310511 GATAT-TCAAGTCTT-TTTTGCTGGCAATATCCGAAGTTATTTAT-ATTTT-TTCGATGGTGATA
1 GATATCT-AAGT-TTCTTTTGCTGGCAATATCCAAAGTCATTT-TCATTTTCTT-GATGGTGATA
11310572 TTCGAGTCTT-CTTCAATGG-TG-ATATCCAAAATCATTTGCAACTTATCAATGAT
62 TTCGAGT-TTACTT---TGGTTGAATATCCAAAATCATTTGCAACTTATCAATGAT
11310625 GATATCTAAGTTTCTTTTG
1 GATATCTAAGTTTCTTTTG
11310644 GTGATGATAT
Statistics
Matches: 110, Mismatches: 13, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
113 5 0.05
114 94 0.85
115 6 0.05
116 2 0.02
117 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.45
Consensus pattern (113 bp):
GATATCTAAGTTTCTTTTGCTGGCAATATCCAAAGTCATTTTCATTTTCTTGATGGTGATATTCG
AGTTTACTTTGGTTGAATATCCAAAATCATTTGCAACTTATCAATGAT
Found at i:11310666 original size:24 final size:24
Alignment explanation
Indices: 11310621--11310666 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11310611 AACTTATCAA
*
11310621 TGATGATATCTAAGTTTCTTTTGG
1 TGATGATATCTAAGTTTATTTTGG
*
11310645 TGATGATATTTAAAG-TTATTTT
1 TGATGATATCT-AAGTTTATTTT
11310667 TTGACAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.52
Consensus pattern (24 bp):
TGATGATATCTAAGTTTATTTTGG
Found at i:11311611 original size:22 final size:22
Alignment explanation
Indices: 11311586--11311628 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11311576 TAAGAAACAA
*
11311586 AAAACATAAAA-AAAAATCACAC
1 AAAACA-AAAAGAAAAACCACAC
11311608 AAAACAAAAAGAAAAACCACA
1 AAAACAAAAAGAAAAACCACA
11311629 TTCCTAGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.74, C:0.19, G:0.02, T:0.05
Consensus pattern (22 bp):
AAAACAAAAAGAAAAACCACAC
Found at i:11312627 original size:18 final size:18
Alignment explanation
Indices: 11312606--11312648 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
11312596 TAAAAAAAAG
*
11312606 ATAAAAAAACCAATAATA
1 ATAAAAAAACAAATAATA
* **
11312624 ATAAATAATGAAATAATA
1 ATAAAAAAACAAATAATA
11312642 ATAAAAA
1 ATAAAAA
11312649 TTTTAATGAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (18 bp):
ATAAAAAAACAAATAATA
Found at i:11312667 original size:36 final size:36
Alignment explanation
Indices: 11312627--11312764 Score: 100
Period size: 36 Copynumber: 3.6 Consensus size: 36
11312617 AATAATAATA
*
11312627 AATAATGAAATAATAATAAAAATTTTAATGAACAAT
1 AATAAAGAAATAATAATAAAAATTTTAATGAACAAT
* * * ** **
11312663 AATAAAGAAAAATATAAAAAAAAGATAAAAAAAACCAATAAT
1 AATAAAGAAATA-ATAATAAAAA-TTTTAATGAA-C---AAT
11312705 AATAAATAATGAAATAATAATAAAAATTTTAATGAACAAT
1 AAT--A-AA-GAAATAATAATAAAAATTTTAATGAACAAT
11312745 AATAAAGAAA-AAT-ATAAAAA
1 AATAAAGAAATAATAATAAAAA
11312765 AAAAGATAAA
Statistics
Matches: 77, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
34 7 0.09
35 3 0.04
36 14 0.18
37 11 0.14
38 6 0.08
39 1 0.01
40 6 0.08
42 6 0.08
43 1 0.01
44 6 0.08
45 11 0.14
46 5 0.06
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (36 bp):
AATAAAGAAATAATAATAAAAATTTTAATGAACAAT
Found at i:11312685 original size:37 final size:39
Alignment explanation
Indices: 11312544--11312767 Score: 156
Period size: 37 Copynumber: 5.6 Consensus size: 39
11312534 AATTTAAAAA
* *
11312544 AATAAA-ATGAAATAATAATAAAAATTTTAATGAACAAT
1 AATAAAGAAGAAATAATAAAAAAAATTTTAATGAACAAT
** * **
11312582 AATAAAGAA-AAAT-ATAAAAAAAAGATAAAAAAACCAATAAT
1 AATAAAGAAGAAATAATAAAAAAAATTTTAATGAA-C---AAT
* *
11312623 AATAAATAATGAAATAATAATAAAAATTTTAATGAACAAT
1 AATAAAGAA-GAAATAATAAAAAAAATTTTAATGAACAAT
* ** **
11312663 AATAAAGAA-AAAT-ATAAAAAAAAGATAAAAAAAACCAATAAT
1 AATAAAGAAGAAATAATAAAAAAAA-TTTTAATGAA-C---AAT
* *
11312705 AATAAATAATGAAATAATAATAAAAATTTTAATGAACAAT
1 AATAAAGAA-GAAATAATAAAAAAAATTTTAATGAACAAT
11312745 AATAAAGAA-AAAT-ATAAAAAAAA
1 AATAAAGAAGAAATAATAAAAAAAA
11312768 AGATAAAAAA
Statistics
Matches: 140, Mismatches: 30, Indels: 33
0.69 0.15 0.16
Matches are distributed among these distances:
37 32 0.23
38 24 0.17
39 2 0.01
40 22 0.16
41 11 0.08
42 11 0.08
43 6 0.04
44 23 0.16
45 9 0.06
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (39 bp):
AATAAAGAAGAAATAATAAAAAAAATTTTAATGAACAAT
Found at i:11312722 original size:18 final size:17
Alignment explanation
Indices: 11312699--11312810 Score: 69
Period size: 18 Copynumber: 6.7 Consensus size: 17
11312689 AAAAAAAACC
11312699 AATAATAATAAATAATGA
1 AATAATAATAAA-AATGA
**
11312717 AATAATAATAAAAATTTT
1 AATAATAATAAAAA-TGA
*
11312735 AATGAACAATAATAAA-GA
1 AAT-AATAATAA-AAATGA
11312753 AA-AAT-ATAAAAA--A
1 AATAATAATAAAAATGA
**
11312766 AA-AGATAA-AAAAA-CC
1 AATA-ATAATAAAAATGA
11312781 AATAATAATAAATAATGA
1 AATAATAATAAA-AATGA
11312799 AATAATAATAAA
1 AATAATAATAAA
11312811 GTCACAATTG
Statistics
Matches: 75, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
13 4 0.05
14 10 0.13
15 11 0.15
16 6 0.08
17 4 0.05
18 30 0.40
19 7 0.09
20 3 0.04
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.23
Consensus pattern (17 bp):
AATAATAATAAAAATGA
Found at i:11312774 original size:46 final size:45
Alignment explanation
Indices: 11312642--11312776 Score: 144
Period size: 39 Copynumber: 3.2 Consensus size: 45
11312632 TGAAATAATA
11312642 ATAAAAATTTTAATGAACAATAATAAAGAAAAATATAAAAAAAAG
1 ATAAAAATTTTAATGAACAATAATAAAGAAAAATATAAAAAAAAG
* * * * *
11312687 ATAAAAA----AA--ACCAATAATAATA-AATAAT-GAAATAATA-
1 ATAAAAATTTTAATGAACAATAATAA-AGAAAAATATAAAAAAAAG
11312724 ATAAAAATTTTAATGAACAATAATAAAGAAAAATATAAAAAAAAAG
1 ATAAAAATTTTAATGAACAATAATAAAGAAAAATAT-AAAAAAAAG
11312770 ATAAAAA
1 ATAAAAA
11312777 AACCAATAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
37 7 0.10
38 6 0.09
39 15 0.22
40 1 0.01
41 4 0.06
42 1 0.01
43 15 0.22
45 13 0.19
46 7 0.10
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.21
Consensus pattern (45 bp):
ATAAAAATTTTAATGAACAATAATAAAGAAAAATATAAAAAAAAG
Found at i:11312850 original size:82 final size:81
Alignment explanation
Indices: 11312549--11312810 Score: 506
Period size: 82 Copynumber: 3.2 Consensus size: 81
11312539 AAAAAAATAA
11312549 AATGAAATAATAATAAAAATTTTAATGAACAATAATAAAGAAAAATATAAAAAAAAGATAAAAAA
1 AATGAAATAATAATAAAAATTTTAATGAACAATAATAAAGAAAAATATAAAAAAAAGATAAAAAA
11312614 ACCAATAATAATAAAT
66 ACCAATAATAATAAAT
11312630 AATGAAATAATAATAAAAATTTTAATGAACAATAATAAAGAAAAATATAAAAAAAAGATAAAAAA
1 AATGAAATAATAATAAAAATTTTAATGAACAATAATAAAGAAAAATATAAAAAAAAGAT-AAAAA
11312695 AACCAATAATAATAAAT
65 AACCAATAATAATAAAT
11312712 AATGAAATAATAATAAAAATTTTAATGAACAATAATAAAGAAAAATATAAAAAAAAAGATAAAAA
1 AATGAAATAATAATAAAAATTTTAATGAACAATAATAAAGAAAAATAT-AAAAAAAAGATAAAAA
11312777 AACCAATAATAATAAAT
65 AACCAATAATAATAAAT
11312794 AATGAAATAATAATAAA
1 AATGAAATAATAATAAA
11312811 GTCACAATTG
Statistics
Matches: 179, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
81 59 0.33
82 109 0.61
83 11 0.06
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.22
Consensus pattern (81 bp):
AATGAAATAATAATAAAAATTTTAATGAACAATAATAAAGAAAAATATAAAAAAAAGATAAAAAA
ACCAATAATAATAAAT
Found at i:11313013 original size:118 final size:118
Alignment explanation
Indices: 11312799--11313018 Score: 300
Period size: 118 Copynumber: 1.9 Consensus size: 118
11312789 TAAATAATGA
* * * *
11312799 AATAATAATAAAGTCACAATTGGTGATTTTATTAAAAATATTTACATAAAAAATTTTCTAAAATA
1 AATAAAAATAAAGTCACAAATGGTAATTTTATTAAAAATATTTACATAAAAAAATTTCTAAAATA
* *
11312864 TTCTTAATGTGTTAGAAATATTTTAGAAATTTTCAAGCATAAAAAAAATTATT
66 TTCTAAAAGTGTTAGAAATATTTTAGAAATTTTCAAGCATAAAAAAAATTATT
* * *
11312917 AATAAAAATAAAGTTACAAATGGTAATTTTATTGAAAATATTTATATAAAGAAAATTTCTAAAAT
1 AATAAAAATAAAGTCACAAATGGTAATTTTATTAAAAATATTTACATAAA-AAAATTTCTAAAAT
* *
11312982 ATTCTAAAAG-GATT-GAAAATGTTTTAGAATTTTTCAA
65 ATTCTAAAAGTG-TTAG-AAATATTTTAGAAATTTTCAA
11313019 ATATAAATTA
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
118 46 0.52
119 42 0.48
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (118 bp):
AATAAAAATAAAGTCACAAATGGTAATTTTATTAAAAATATTTACATAAAAAAATTTCTAAAATA
TTCTAAAAGTGTTAGAAATATTTTAGAAATTTTCAAGCATAAAAAAAATTATT
Found at i:11313973 original size:18 final size:18
Alignment explanation
Indices: 11313950--11314100 Score: 116
Period size: 18 Copynumber: 8.9 Consensus size: 18
11313940 TATTATAATC
11313950 TATTAATAAATAATATTA
1 TATTAATAAATAATATTA
11313968 TATTAATAAATAAATAATGTTA
1 TATTAATAAAT-AAT-A--TTA
11313990 TATTAATAAAT-ATATTA
1 TATTAATAAATAATATTA
11314007 TATTAATAAAT-A-A--A
1 TATTAATAAATAATATTA
11314021 TATT-AT-AAT-A-A-TA
1 TATTAATAAATAATATTA
*
11314034 TATTAGTAAATAATA-TA
1 TATTAATAAATAATATTA
11314051 TTATTAATAAATAATA-TA
1 -TATTAATAAATAATATTA
*
11314069 CTATTGAT--ATAAT-TTA
1 -TATTAATAAATAATATTA
*
11314085 TATTAATAAAAAATAT
1 TATTAATAAATAATAT
11314101 AAAGAATAAT
Statistics
Matches: 113, Mismatches: 6, Indels: 28
0.77 0.04 0.19
Matches are distributed among these distances:
12 5 0.04
13 7 0.06
14 6 0.05
15 9 0.08
16 9 0.08
17 22 0.19
18 34 0.30
19 4 0.04
20 3 0.03
22 14 0.12
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (18 bp):
TATTAATAAATAATATTA
Found at i:11313982 original size:22 final size:22
Alignment explanation
Indices: 11313954--11314078 Score: 116
Period size: 22 Copynumber: 5.8 Consensus size: 22
11313944 ATAATCTATT
11313954 AATAAATAATATTATATTAATA
1 AATAAATAATATTATATTAATA
*
11313976 AATAAATAATGTTATATTAATA
1 AATAAATAATATTATATTAATA
* * *
11313998 AATATATTATATTA-ATAAATA
1 AATAAATAATATTATATTAATA
* * *
11314019 AATATTATAATAATATATTAGTA
1 AATA-AATAATATTATATTAATA
11314042 AAT-AAT-ATA-T-TATTAATA
1 AATAAATAATATTATATTAATA
*
11314060 AATAATATACTATTGATAT
1 AATAA-ATAATATT-ATAT
11314079 AATTTATATT
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
18 10 0.12
19 2 0.02
20 5 0.06
21 14 0.17
22 41 0.49
23 8 0.10
24 3 0.04
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (22 bp):
AATAAATAATATTATATTAATA
Found at i:11314065 original size:36 final size:35
Alignment explanation
Indices: 11313950--11314099 Score: 95
Period size: 33 Copynumber: 4.4 Consensus size: 35
11313940 TATTATAATC
* *
11313950 TATTAATAAATAATATTATATTAATAAATAA-ATA
1 TATTAATAAATAATAATATATTAGTAAATAATATA
* * *
11313984 -ATGTTAT-ATTAATAAATATATTA-T-ATTAATA-A
1 TAT-TAATAAATAAT-AATATATTAGTAAATAATATA
* *
11314016 -ATAAATATTATAATAATATATTAGTAAATAATATA
1 TATTAATA-AATAATAATATATTAGTAAATAATATA
* *
11314051 TTATTAATAAATAAT-ATACTATT-G-ATATAATTTA
1 -TATTAATAAATAATAATA-TATTAGTAAATAATATA
*
11314085 TATTAATAAAAAATA
1 TATTAATAAATAATA
11314100 TAAAGAATAA
Statistics
Matches: 90, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
31 2 0.02
32 16 0.18
33 27 0.30
34 25 0.28
35 5 0.06
36 9 0.10
37 6 0.07
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.43
Consensus pattern (35 bp):
TATTAATAAATAATAATATATTAGTAAATAATATA
Found at i:11314079 original size:44 final size:42
Alignment explanation
Indices: 11313950--11314079 Score: 151
Period size: 44 Copynumber: 3.0 Consensus size: 42
11313940 TATTATAATC
*
11313950 TATTAATAAATAATATTATATTAATAAATAA-ATA-ATGTTA
1 TATTAATAAATAATATTATATTAATAAATAATATATATGATA
*
11313990 TATTAATAAAT-ATATTATATTAATAAATAAATATTATAATAATA
1 TATTAATAAATAATATTATATTAATAAAT-AATA-TAT-ATGATA
*
11314034 TATTAGTAAATAATA-TATTATTAATAAATAATATACTATTGATA
1 TATTAATAAATAATATTA-TATTAATAAATAATATA-TA-TGATA
11314078 TA
1 TA
11314080 ATTTATATTA
Statistics
Matches: 77, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
39 17 0.22
40 13 0.17
41 1 0.01
42 2 0.03
43 3 0.04
44 27 0.35
45 14 0.18
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (42 bp):
TATTAATAAATAATATTATATTAATAAATAATATATATGATA
Found at i:11314223 original size:16 final size:15
Alignment explanation
Indices: 11314145--11314224 Score: 63
Period size: 16 Copynumber: 4.9 Consensus size: 15
11314135 TATATTAACA
*
11314145 AAATATTTTAATATT
1 AAATATTTTAATAAT
*
11314160 AAATATTATTATTAAAAT
1 AAATATT-TTA--ATAAT
11314178 ATAATTATTTTAAATAAT
1 A-AA-TATTTT-AATAAT
11314196 -AATAATTTTAATAAT
1 AAAT-ATTTTAATAAT
11314211 AAATCATTTTAATA
1 AAAT-ATTTTAATA
11314225 TACTTTAATG
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
15 14 0.26
16 22 0.42
18 8 0.15
19 4 0.08
20 5 0.09
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:11314223 original size:25 final size:26
Alignment explanation
Indices: 11314195--11314259 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
11314185 TTTTAAATAA
*
11314195 TAATAATTTTAATAATAAAT-CATTT
1 TAATAATTTTAATAATAAATAAATTT
* *
11314220 TAATATACTTTAATGATAAATAAATTT
1 TAATA-ATTTTAATAATAAATAAATTT
11314247 TAAT-ATTTTAATA
1 TAATAATTTTAATA
11314260 GTTATATTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 12 0.36
26 13 0.39
27 8 0.24
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (26 bp):
TAATAATTTTAATAATAAATAAATTT
Found at i:11314398 original size:14 final size:14
Alignment explanation
Indices: 11314375--11314428 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
11314365 CAGTAAATAT
11314375 AAAT-ATTTTTCAA
1 AAATAATTTTTCAA
11314388 AAATAATTTTT-AA
1 AAATAATTTTTCAA
* *
11314401 AGAATTATTTTTTAAA
1 A-AA-TAATTTTTCAA
11314417 AAATAATTTTTC
1 AAATAATTTTTC
11314429 TCGAAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 7 0.21
14 15 0.44
15 9 0.26
16 3 0.09
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (14 bp):
AAATAATTTTTCAA
Found at i:11314412 original size:15 final size:15
Alignment explanation
Indices: 11314380--11314427 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
11314370 AATATAAATA
*
11314380 TTTTTCAAAAATAA-
1 TTTTTAAAAAATAAT
* *
11314394 TTTTTAAAGAATTAT
1 TTTTTAAAAAATAAT
11314409 TTTTTAAAAAATAAT
1 TTTTTAAAAAATAAT
11314424 TTTT
1 TTTT
11314428 CTCGAAATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TTTTTAAAAAATAAT
Found at i:11315533 original size:6 final size:6
Alignment explanation
Indices: 11315524--11315557 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
11315514 TCCTATATAC
*
11315524 ATATAT ATATTT ATATTT ATATTT ATATTT ATAT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATAT
11315558 ATTGTGCGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
ATATTT
Found at i:11316099 original size:16 final size:17
Alignment explanation
Indices: 11316080--11316112 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11316070 TAATAATATG
11316080 TAAAA-TTAATAAAAAA
1 TAAAAGTTAATAAAAAA
11316096 TAAAATGTTAATAAAAA
1 TAAAA-GTTAATAAAAA
11316113 TGATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
TAAAAGTTAATAAAAAA
Found at i:11316538 original size:26 final size:27
Alignment explanation
Indices: 11316509--11316562 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
11316499 CTATGAATTT
*
11316509 TATATTTTAAAATTTATA-GTTTATGA
1 TATACTTTAAAATTTATACGTTTATGA
*
11316535 TATACTTTAAAATTTATACTTTTATGA
1 TATACTTTAAAATTTATACGTTTATGA
11316562 T
1 T
11316563 TAAATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (27 bp):
TATACTTTAAAATTTATACGTTTATGA
Found at i:11317103 original size:26 final size:27
Alignment explanation
Indices: 11317049--11317104 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
11317039 ATAAATGAGA
*
11317049 GAAAAAAGAGGGAAAGAAAAGAGAGAG
1 GAAAAAAGAGGGAAAGAAAAGAGAAAG
11317076 GAAAAAA-AGGGAAAG-AAAGAAGAAAG
1 GAAAAAAGAGGGAAAGAAAAG-AGAAAG
11317102 GAA
1 GAA
11317105 GAAGGGTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 16 0.59
27 7 0.26
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (27 bp):
GAAAAAAGAGGGAAAGAAAAGAGAAAG
Found at i:11317273 original size:12 final size:12
Alignment explanation
Indices: 11317256--11317286 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11317246 TAGGCCATCA
*
11317256 TTTCCCTTCCTT
1 TTTCCCTTCATT
11317268 TTTCCCTTCATT
1 TTTCCCTTCATT
11317280 TTTCCCT
1 TTTCCCT
11317287 CTCTCCTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.39, G:0.00, T:0.58
Consensus pattern (12 bp):
TTTCCCTTCATT
Found at i:11318074 original size:13 final size:13
Alignment explanation
Indices: 11318056--11318085 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11318046 TTGTTATCTC
11318056 AATTAAAAAAGAA
1 AATTAAAAAAGAA
*
11318069 AATTAATAAAGAA
1 AATTAAAAAAGAA
11318082 AATT
1 AATT
11318086 TTAGTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (13 bp):
AATTAAAAAAGAA
Found at i:11319742 original size:13 final size:13
Alignment explanation
Indices: 11319655--11319743 Score: 62
Period size: 13 Copynumber: 6.8 Consensus size: 13
11319645 TTGGATTGTG
*
11319655 TTTAGGGTTTGGGA
1 TTTAAGGTTT-GGA
11319669 TTT-AGGATTTGGA
1 TTTAAGG-TTTGGA
*
11319682 TTT-AGG-ATGGA
1 TTTAAGGTTTGGA
11319693 TTTAAGGTTTGGA
1 TTTAAGGTTTGGA
11319706 TTTGAA-GTTTGGGA
1 TTT-AAGGTTT-GGA
* *
11319720 TTT-GGAGTTTAGA
1 TTTAAG-GTTTGGA
11319733 TTTAAGGTTTG
1 TTTAAGGTTTG
11319744 ATGGGAGATT
Statistics
Matches: 60, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
11 7 0.12
12 3 0.05
13 31 0.52
14 19 0.32
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (13 bp):
TTTAAGGTTTGGA
Found at i:11321519 original size:19 final size:20
Alignment explanation
Indices: 11321483--11321521 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
11321473 CAATTTTAAC
* *
11321483 TTTGTTTGATTAATTTTGAT
1 TTTGTTTGACTAAGTTTGAT
11321503 TTTG-TTGACTAAGTTTGAT
1 TTTGTTTGACTAAGTTTGAT
11321522 CAATTTTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.59
Consensus pattern (20 bp):
TTTGTTTGACTAAGTTTGAT
Found at i:11324796 original size:29 final size:29
Alignment explanation
Indices: 11324759--11324817 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
11324749 AGTTAATAAA
*
11324759 TTTATAATTCAAGTACT-ACATTAAAAATT
1 TTTAAAATTCAAGTA-TGACATTAAAAATT
* *
11324788 TTTAAAATTCAATTATGACATTAAATATT
1 TTTAAAATTCAAGTATGACATTAAAAATT
11324817 T
1 T
11324818 CACTATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (29 bp):
TTTAAAATTCAAGTATGACATTAAAAATT
Found at i:11327002 original size:39 final size:40
Alignment explanation
Indices: 11326947--11327030 Score: 102
Period size: 39 Copynumber: 2.1 Consensus size: 40
11326937 AGGTTTTCCC
* *
11326947 TTGTTCATTTTAA-TTTTATTTTTATTTTTAATTAT-TTATT
1 TTGTTCATCTTAATTTTTA-TTTTA-TTTCAATTATCTTATT
*
11326987 TTGTT-ATCTTAATTTTTATTTTATTTCAATTTTCTTATT
1 TTGTTCATCTTAATTTTTATTTTATTTCAATTATCTTATT
11327026 TTGTT
1 TTGTT
11327031 GTTTTTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
38 8 0.21
39 21 0.54
40 10 0.26
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (40 bp):
TTGTTCATCTTAATTTTTATTTTATTTCAATTATCTTATT
Found at i:11330877 original size:10 final size:10
Alignment explanation
Indices: 11330859--11330900 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
11330849 ATGATGGACT
11330859 AAAAA-AAAG
1 AAAAACAAAG
11330868 AAAAACAAAG
1 AAAAACAAAG
*
11330878 GAAAACAAAG
1 AAAAACAAAG
*
11330888 -AAAATAAAG
1 AAAAACAAAG
11330897 AAAA
1 AAAA
11330901 TTTATTGGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 13 0.45
10 16 0.55
ACGTcount: A:0.81, C:0.05, G:0.12, T:0.02
Consensus pattern (10 bp):
AAAAACAAAG
Found at i:11331177 original size:11 final size:11
Alignment explanation
Indices: 11331163--11331201 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11331153 AAATGAAAAG
11331163 AAAAAATGAGA
1 AAAAAATGAGA
*
11331174 AAAAAATGTGCA
1 AAAAAATGAG-A
*
11331186 AAAAAAAGAGA
1 AAAAAATGAGA
11331197 AAAAA
1 AAAAA
11331202 GAAAAACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.74, C:0.03, G:0.15, T:0.08
Consensus pattern (11 bp):
AAAAAATGAGA
Found at i:11332801 original size:3 final size:3
Alignment explanation
Indices: 11332793--11332828 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
11332783 TAACCAAGTA
11332793 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11332829 GAGGAGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11333732 original size:3 final size:3
Alignment explanation
Indices: 11333724--11333758 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11333714 GTATTATGAT
11333724 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11333759 TATTATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Done.