Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 93 of 250
Found at i:30141958 original size:19 final size:18
Alignment explanation
Indices: 30141936--30141989 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
30141926 TAAAAATGAA
*
30141936 AAAAAGTACAAAAATATTT
1 AAAAAGTA-AAAAATAATT
*
30141955 AAAAATTAAAAAATAATT
1 AAAAAGTAAAAAATAATT
30141973 AAGGAAA-TAAAAAATAA
1 AA--AAAGTAAAAAATAA
30141990 AAAATTACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 11 0.35
19 17 0.55
20 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (18 bp):
AAAAAGTAAAAAATAATT
Found at i:30142015 original size:18 final size:18
Alignment explanation
Indices: 30141935--30142029 Score: 72
Period size: 18 Copynumber: 5.3 Consensus size: 18
30141925 TTAAAAATGA
*
30141935 AAAAAAGTACAAAAATATT
1 AAAAAATTACAAAAA-ATT
* *
30141954 TAAAAATTAAAAAATAATT
1 AAAAAATTACAAAA-AATT
*
30141973 AAGGAAA-T--AAAAAA-T
1 AA-AAAATTACAAAAAATT
30141988 AAAAAATTACAAAAAATT
1 AAAAAATTACAAAAAATT
* * *
30142006 AAAAATTTACTAAAATTT
1 AAAAAATTACAAAAAATT
30142024 AAAAAA
1 AAAAAA
30142030 AAAATAGAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
14 3 0.05
15 4 0.07
16 2 0.03
17 10 0.17
18 21 0.35
19 16 0.27
20 4 0.07
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAAAATTACAAAAAATT
Found at i:30144075 original size:50 final size:49
Alignment explanation
Indices: 30143963--30144138 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 49
30143953 TGAGGTCGCA
* *** * *
30143963 TGTGTAGTATTAAGTGCAGGCTACTATACGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
* **
30144014 TGTGTGGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
30144064 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
30144113 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
30144139 TACGTACCAG
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 31 0.29
50 42 0.40
51 28 0.26
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:30144143 original size:101 final size:100
Alignment explanation
Indices: 30143952--30144138 Score: 243
Period size: 101 Copynumber: 1.9 Consensus size: 100
30143942 ATGATCTATT
* * * *
30143952 GTGAGGTCGCATGTGTAGTATTAAGTGCAGGCTACTATACGTACCCGAAAACTGTGATCACGTGT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCC-AAAACTGTGATCACATGT
*
30144017 GTGGTACTAAGTGCAGGCTACTACGTGTATTAGATG
65 GTAGTACTAAGTGCAGGCTACTACGTGTATTAGATG
* ** * * *
30144053 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AGACTGTTGGTCGCATGT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCAAAACTG-TGATCACATGT
30144116 GTAGTACTAAGTGCAGGCTACTA
65 GTAGTACTAAGTGCAGGCTACTA
30144139 TACGTACCAG
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
98 5 0.07
99 30 0.41
100 2 0.03
101 37 0.50
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (100 bp):
GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCAAAACTGTGATCACATGTG
TAGTACTAAGTGCAGGCTACTACGTGTATTAGATG
Found at i:30145764 original size:129 final size:130
Alignment explanation
Indices: 30145533--30145787 Score: 415
Period size: 129 Copynumber: 2.0 Consensus size: 130
30145523 ATTTAGAAAA
30145533 CATGAGTGAAATTCTAAAGGAACATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACG
1 CATGAGTGAAATTCTAAAGGAACATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACG
* * *
30145598 ATAGGGCACGATTCCCCGAATTCCCAAACATCGAACGTTGCCTTCGTTTTAAAGAGTTTTTGAAG
66 ATAGGACACGATTCCCCGAATTCCCAAACATCGAACGTTGCCTTCATTTTAAAGAATTTTTGAAG
*
30145663 CATGAGTGAAATT-TCAAAGGAATATTCGATTATTTTGAACAAAC-GGAAATTGCAACCCAGCAC
1 CATGAGTGAAATTCT-AAAGGAACATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
* * **
30145726 GATTGGACATGATTCTTCGAATTCCCAAACATCGAACGTTGCCTTCATTTTAAAGAATTTTT
65 GATAGGACACGATTCCCCGAATTCCCAAACATCGAACGTTGCCTTCATTTTAAAGAATTTTT
30145788 AAATGAATAA
Statistics
Matches: 116, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
129 75 0.65
130 41 0.35
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (130 bp):
CATGAGTGAAATTCTAAAGGAACATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACG
ATAGGACACGATTCCCCGAATTCCCAAACATCGAACGTTGCCTTCATTTTAAAGAATTTTTGAAG
Found at i:30148441 original size:14 final size:14
Alignment explanation
Indices: 30148424--30148453 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30148414 TAACTTCAGT
*
30148424 CTGCTCTACTGCAA
1 CTGCTCCACTGCAA
30148438 CTGCTCCACTGCAA
1 CTGCTCCACTGCAA
30148452 CT
1 CT
30148454 TTAGGGAGAT
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:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (14 bp):
CTGCTCCACTGCAA
Found at i:30148542 original size:44 final size:44
Alignment explanation
Indices: 30148438--30148555 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 44
30148428 TCTACTGCAA
* *
30148438 CTGCTCCACTGCAACTTTAGGGAGATATGGTTCGTGTATTTTAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTCGTGTATTTTAT
* *
30148482 CTTGCTCTAC-GACAACTTCAGAGAGATAAGGATT-GTG-ATTTTGAT
1 C-TGCTCCACTG-CAACTTCAGGGAGATAAGG-TTCGTGTATTTT-AT
30148527 CTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAG
30148556 ATCTGCTAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
44 31 0.49
45 30 0.48
46 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGTTCGTGTATTTTAT
Found at i:30148672 original size:88 final size:88
Alignment explanation
Indices: 30148521--30148914 Score: 425
Period size: 89 Copynumber: 4.4 Consensus size: 88
30148511 GGATTGTGAT
* * ** * * *
30148521 TTTGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAATCTT-TGTCCTGTTACCCTAC
1 TTTGATTTGCTCCACTACTGCTT-AGGGAGACAAGATCTAC-AATCTTCAG-CCTGTTACCCTAC
*
30148585 TACTTAGGGGGTTAAGGCTCAATGTC
63 TACTTAGGGGGTTAAGGCTCACTGTC
* * *
30148611 TTCGCTTTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCGGCCTGTTACCCTACTAC
1 TTTGATTTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTAC
*
30148676 TTAGGGGGTTAAGGCTCACTGTG
66 TTAGGGGGTTAAGGCTCACTGTC
* * * *
30148699 TTTGATCTGTTCCACT-GTAGCTTCAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACT
1 TTTGATTTGCTCCACTACT-GCTT-AGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACT
* *
30148763 ACTTAGGGGGTTAAGACTTACT-TC
64 ACTTAGGGGGTTAAGGCTCACTGTC
* * ** * *
30148787 TTTGATTTGCTCTACTACTGTTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTATTAC
1 TTTGATTTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTAC
** *
30148852 TTAGGGGGGTTAAGGCTTGCCGTC
66 TTA-GGGGGTTAAGGCTCACTGTC
* * **
30148876 TTTGATCTGTTCCACTACAACTTCAGGGAGACAAGATCT
1 TTTGATTTGCTCCACTACTGCTT-AGGGAGACAAGATCT
30148915 GTGAATTCAC
Statistics
Matches: 259, Mismatches: 38, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
87 43 0.17
88 90 0.35
89 94 0.36
90 32 0.12
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (88 bp):
TTTGATTTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTAC
TTAGGGGGTTAAGGCTCACTGTC
Found at i:30148868 original size:177 final size:178
Alignment explanation
Indices: 30148521--30148915 Score: 544
Period size: 177 Copynumber: 2.2 Consensus size: 178
30148511 GGATTGTGAT
* * * *
30148521 TTTGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAATCTTTGTCCTGTTACCCTACT
1 TTTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGATAATCTTAGTCCTGTTACCCTACT
* *
30148586 ACTTAGGGGGTTAAGGCTCAATGTCTTCGCTTTGCTCCACTACTGCTTAGGGAGACAAGATCTAC
66 ACTTAGGGGGTTAAGACTCAATGTCTTCGATTTGCTCCACTACTGCTTAGGGAGACAAGATCTAC
* * *
30148651 AATCTTCGGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTG
131 AATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACCGTC
* *
30148699 TTTGATCTGTTCCACTGTAGCTTCAGGGAGACAAGATCT-ATAATCTTCAG-CCTGTTACCCTAC
1 TTTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGATAATCTT-AGTCCTGTTACCCTAC
* * * * * *
30148762 TACTTAGGGGGTTAAGACTTACT-TCTTTGATTTGCTCTACTACTGTTTAGGGAGACAAGATCTG
65 TACTTAGGGGGTTAAGACTCAATGTCTTCGATTTGCTCCACTACTGCTTAGGGAGACAAGATCTA
* * * **
30148826 TAATTTTCAGCCTGTTACCCTATTACTTAGGGGGGTTAAGGCTTGCCGTC
130 CAATCTTCAGCCTGTTACCCTACTACTTA-GGGGGTTAAGGCTCACCGTC
*
30148876 TTTGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTG
1 TTTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTG
30148916 TGAATTCACC
Statistics
Matches: 189, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
176 61 0.32
177 92 0.49
178 36 0.19
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (178 bp):
TTTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGATAATCTTAGTCCTGTTACCCTACT
ACTTAGGGGGTTAAGACTCAATGTCTTCGATTTGCTCCACTACTGCTTAGGGAGACAAGATCTAC
AATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACCGTC
Found at i:30152215 original size:16 final size:17
Alignment explanation
Indices: 30152185--30152217 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
30152175 GTGGTGGAGA
30152185 TGACTCTTGTATGGATT
1 TGACTCTTGTATGGATT
*
30152202 TGACT-TTGTCTGGATT
1 TGACTCTTGTATGGATT
30152218 GATCTGAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.15, C:0.12, G:0.24, T:0.48
Consensus pattern (17 bp):
TGACTCTTGTATGGATT
Found at i:30160772 original size:130 final size:128
Alignment explanation
Indices: 30160510--30160754 Score: 325
Period size: 130 Copynumber: 1.9 Consensus size: 128
30160500 GAACATTCTA
* * *
30160510 TTATTTTGAACAAATGGGAAATTGCAACCCAGCACGGTAGGGCACAATTCTCCGAATTCCCAAAC
1 TTATTTTGAACAAACGGGAAATTGCAACCCAGCACGATAGGGCACAATTCCCCGAATTCCCAAAC
* * * * * **
30160575 ATCGACCGTTGCCTTCGTTTTAAAGAGTTTTTGAAGCATGAGTGAAATTTCAAAAGAATATTCGG
66 ATCGAACGTTGCCTTCATTTTAAAGAATTTTTGAA-CATGAAT-AAATTTAAAAAGAATAAACGG
* * *
30160640 TTATTTTGAACAAACGGGAAATTGCAATCCAGCACGATTGGGCACGATTCCCCGAATTCCCAAAC
1 TTATTTTGAACAAACGGGAAATTGCAACCCAGCACGATAGGGCACAATTCCCCGAATTCCCAAAC
30160705 ATCGAACGTTGCCTTCATTTTAAAGAATTTTT-AA-ATGAAT-AATTATAAAA
66 ATCGAACGTTGCCTTCATTTTAAAGAATTTTTGAACATGAATAAATT-TAAAA
30160755 CTAGCTTAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
125 4 0.04
126 4 0.04
127 5 0.05
129 2 0.02
130 88 0.85
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (128 bp):
TTATTTTGAACAAACGGGAAATTGCAACCCAGCACGATAGGGCACAATTCCCCGAATTCCCAAAC
ATCGAACGTTGCCTTCATTTTAAAGAATTTTTGAACATGAATAAATTTAAAAAGAATAAACGG
Found at i:30162236 original size:78 final size:78
Alignment explanation
Indices: 30162101--30162257 Score: 269
Period size: 78 Copynumber: 2.0 Consensus size: 78
30162091 GCAATGTGCG
* *
30162101 ATTAAATGCTTATGCAAATGAGGGGGACTTAACGCGCAATTACCCCTCTCCGTAGAAACGCGCGG
1 ATTAAATGCTTATGCAAATGAGGGGGACTTAACGCACAATTACCCCTCTCCGCAGAAACGCGCGG
30162166 ATCCCAGGGGTAA
66 ATCCCAGGGGTAA
* * *
30162179 ATTAAATGCTTATGGAAATGAGGGGGACTTAATGCACAATTACCCCTCTCTGCAGAAACGCGCGG
1 ATTAAATGCTTATGCAAATGAGGGGGACTTAACGCACAATTACCCCTCTCCGCAGAAACGCGCGG
30162244 ATCCCAGGGGTAA
66 ATCCCAGGGGTAA
30162257 A
1 A
30162258 GAACCGGATC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (78 bp):
ATTAAATGCTTATGCAAATGAGGGGGACTTAACGCACAATTACCCCTCTCCGCAGAAACGCGCGG
ATCCCAGGGGTAA
Found at i:30166797 original size:5 final size:5
Alignment explanation
Indices: 30166787--30166811 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
30166777 CCTGTTATTG
30166787 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
30166812 TGCCAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:30169105 original size:38 final size:38
Alignment explanation
Indices: 30169049--30169125 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
30169039 TTCCTTATCT
*
30169049 ATTTATGGACTACACATTGAGGACAATGTGTCAACTAA
1 ATTTATGGACTACACATTGAAGACAATGTGTCAACTAA
* *
30169087 ATTTATGGGCTACGCATTGAAGACAATGTGTCAACTAA
1 ATTTATGGACTACACATTGAAGACAATGTGTCAACTAA
30169125 A
1 A
30169126 GTGTGGGGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (38 bp):
ATTTATGGACTACACATTGAAGACAATGTGTCAACTAA
Found at i:30170554 original size:21 final size:20
Alignment explanation
Indices: 30170506--30170554 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
30170496 ATCTAAAATT
* *
30170506 AATTAAACAATAATCCAGAA
1 AATTAAAAAATAATCCAAAA
*
30170526 AATCTAAAAAATATTTCCAAAA
1 AAT-TAAAAAATA-ATCCAAAA
30170548 AATTAAA
1 AATTAAA
30170555 TTTAAAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 12 0.50
22 9 0.38
ACGTcount: A:0.61, C:0.12, G:0.02, T:0.24
Consensus pattern (20 bp):
AATTAAAAAATAATCCAAAA
Found at i:30172954 original size:130 final size:130
Alignment explanation
Indices: 30172721--30172983 Score: 517
Period size: 130 Copynumber: 2.0 Consensus size: 130
30172711 ATTGCTATAC
30172721 TAACTTACTAAGCTTTATAGCTTACTTTGTTAATTTTCCATGTTTTATAGTGAAACTAAAGCTAG
1 TAACTTACTAAGCTTTATAGCTTACTTTGTTAATTTTCCATGTTTTATAGTGAAACTAAAGCTAG
*
30172786 CTCAGATTCGGGGACCGTCGGAGACTTCATCACACTATCCAACTATCACTTGGTAACTTTGAACT
66 CTCAGATTCGGGGACCGTCGGAGACTTCATCACACTATCCAACTATCACTTGGAAACTTTGAACT
30172851 TAACTTACTAAGCTTTATAGCTTACTTTGTTAATTTTCCATGTTTTATAGTGAAACTAAAGCTAG
1 TAACTTACTAAGCTTTATAGCTTACTTTGTTAATTTTCCATGTTTTATAGTGAAACTAAAGCTAG
30172916 CTCAGATTCGGGGACCGTCGGAGACTTCATCACACTATCCAACTATCACTTGGAAACTTTGAACT
66 CTCAGATTCGGGGACCGTCGGAGACTTCATCACACTATCCAACTATCACTTGGAAACTTTGAACT
30172981 TAA
1 TAA
30172984 GTATTTTCGG
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 132 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (130 bp):
TAACTTACTAAGCTTTATAGCTTACTTTGTTAATTTTCCATGTTTTATAGTGAAACTAAAGCTAG
CTCAGATTCGGGGACCGTCGGAGACTTCATCACACTATCCAACTATCACTTGGAAACTTTGAACT
Found at i:30190407 original size:23 final size:24
Alignment explanation
Indices: 30190363--30190409 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
30190353 TCCCGTTATT
* *
30190363 TGGCTCTTTGTGAGCTTCCTGATA
1 TGGCTCTCTGTGAACTTCCTGATA
30190387 TGGCTCTCT-TGAACTTCCTGATA
1 TGGCTCTCTGTGAACTTCCTGATA
30190410 GATGGCTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.40
Consensus pattern (24 bp):
TGGCTCTCTGTGAACTTCCTGATA
Found at i:30193625 original size:47 final size:47
Alignment explanation
Indices: 30193574--30193827 Score: 400
Period size: 47 Copynumber: 5.4 Consensus size: 47
30193564 TTGTGATGTG
*
30193574 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
30193621 AGTGTATATATGTGATAAGGCCGAATGACCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
30193668 AGTGTATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
30193715 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
30193762 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
30193809 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
30193828 TCCCGAAGGG
Statistics
Matches: 190, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 190 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:30194002 original size:37 final size:37
Alignment explanation
Indices: 30193946--30194024 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
30193936 CTGAGCTCTA
* * *
30193946 AAGACCCGATGACTACGTGTGGGGATT-TCGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTAT-GTCCGGGT
*
30193983 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30194020 AAGAC
1 AAGAC
30194025 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30195523 original size:25 final size:25
Alignment explanation
Indices: 30195495--30195542 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
30195485 CATATTTCGT
30195495 TAAGTGATTT-TTGGTAAAAATGTCA
1 TAAG-GATTTATTGGTAAAAATGTCA
* *
30195520 TAAGGATTTATTTGTGAAAATGT
1 TAAGGATTTATTGGTAAAAATGT
30195543 GAAAATGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (25 bp):
TAAGGATTTATTGGTAAAAATGTCA
Found at i:30196105 original size:43 final size:43
Alignment explanation
Indices: 30196050--30196206 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
30196040 TTAACAAGAC
* *
30196050 GTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATATT
1 GTGATTACGTGTAAGACCATATCTGGGACATTGGCATCATATT
* * *
30196093 GCGATTACGTGTAAGACCATATTTGGGACATTGGCATCGT-TAT
1 GTGATTACGTGTAAGACCATATCTGGGACATTGGCATCATAT-T
* * * * *
30196136 GTGATTTCGTGTAAGACCATGTCTAGAACATTGGCATTGATA-T
1 GTGATTACGTGTAAGACCATATCTGGGACATTGGCA-TCATATT
* *
30196179 GTGATAACATGTAAGACCATATCTGGGA
1 GTGATTACGTGTAAGACCATATCTGGGA
30196207 TATGACATTG
Statistics
Matches: 92, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 89 0.97
44 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGATTACGTGTAAGACCATATCTGGGACATTGGCATCATATT
Found at i:30210204 original size:100 final size:100
Alignment explanation
Indices: 30210031--30210230 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
30210021 GACAAAGAGG
30210031 AAGAAGTTTTTTTCTTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAGTTTTT
1 AAGAAGTTTTTTTCTTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAGTTTTT
30210096 TTTTCATTTATAGGTGCCAAAAAGGGATAATTTAT
66 TTTTCATTTATAGGTGCCAAAAAGGGATAATTTAT
30210131 AAGAAGTTTTTTTCTTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAGTTTTT
1 AAGAAGTTTTTTTCTTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAGTTTTT
30210196 TTTTCATTTATAGGTGCCAAAAAGGGATAATTTAT
66 TTTTCATTTATAGGTGCCAAAAAGGGATAATTTAT
30210231 TCCCACCCCC
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (100 bp):
AAGAAGTTTTTTTCTTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAGTTTTT
TTTTCATTTATAGGTGCCAAAAAGGGATAATTTAT
Found at i:30210593 original size:21 final size:19
Alignment explanation
Indices: 30210569--30210628 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 19
30210559 ACTTGTATAA
30210569 TTTTTATTTATTCTTATTTC
1 TTTTTATTTATT-TTATTTC
*
30210589 GTTTTTATTTATTTTTATGTC
1 -TTTTTATTTA-TTTTATTTC
30210610 TATTTATATTTATTTTATT
1 T-TTT-TATTTATTTTATT
30210629 ATTATTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.74
22 8 0.24
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.73
Consensus pattern (19 bp):
TTTTTATTTATTTTATTTC
Found at i:30210598 original size:11 final size:10
Alignment explanation
Indices: 30210568--30210638 Score: 65
Period size: 10 Copynumber: 7.0 Consensus size: 10
30210558 CACTTGTATA
30210568 ATTTTTATTT
1 ATTTTTATTT
*
30210578 ATTCTTATTT
1 ATTTTTATTT
*
30210588 CGTTTTTATTT
1 -ATTTTTATTT
30210599 ATTTTTATGTCT
1 ATTTTTAT-T-T
*
30210611 ATTTATATTT
1 ATTTTTATTT
30210621 A-TTTTA-TT
1 ATTTTTATTT
*
30210629 ATTATTATTT
1 ATTTTTATTT
30210639 TTACACATTC
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 8 0.16
10 20 0.41
11 10 0.20
12 8 0.16
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:30210598 original size:27 final size:26
Alignment explanation
Indices: 30210568--30210638 Score: 60
Period size: 27 Copynumber: 2.8 Consensus size: 26
30210558 CACTTGTATA
* *
30210568 ATTTTTATTTATTCTTATTTCGTTTTT
1 ATTTTTATTTATTCTTATTT-ATATTT
30210595 ATTTATT-TTTATGTC-TATTTATATTT
1 ATTT-TTATTTAT-TCTTATTTATATTT
*
30210621 A-TTTTA-TTATTATTATTT
1 ATTTTTATTTATTCTTATTT
30210639 TTACACATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
23 1 0.03
24 11 0.30
25 2 0.05
26 5 0.14
27 14 0.38
28 4 0.11
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (26 bp):
ATTTTTATTTATTCTTATTTATATTT
Found at i:30219931 original size:28 final size:28
Alignment explanation
Indices: 30219890--30219946 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
30219880 GTAATCAAGA
30219890 AAATGCATGCATTTCATTTTACGAGCCT
1 AAATGCATGCATTTCATTTTACGAGCCT
*
30219918 AAATGCATGTATTTCATTTTACGAGCCT
1 AAATGCATGCATTTCATTTTACGAGCCT
30219946 A
1 A
30219947 GGGACTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (28 bp):
AAATGCATGCATTTCATTTTACGAGCCT
Found at i:30220495 original size:43 final size:48
Alignment explanation
Indices: 30220442--30220570 Score: 160
Period size: 43 Copynumber: 2.7 Consensus size: 48
30220432 ATGTAGTATC
30220442 CGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA-GCA-T-C-T
1 CGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGATGCAGTACAT
* * * *
30220486 -GAGCTCGTTGAGTGGTCCGAGTTCATGATGGATGTGATTCATGTAACATT
1 CGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGATGCA-GT-ACA-T
30220536 CGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
1 CGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
30220571 TGTTACATGT
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
43 34 0.48
44 2 0.03
46 1 0.01
48 1 0.01
50 1 0.01
51 32 0.45
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (48 bp):
CGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGATGCAGTACAT
Found at i:30230254 original size:43 final size:43
Alignment explanation
Indices: 30230157--30230281 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
30230147 AACTAAGAAG
* * * * *
30230157 TCCGAACTCATTGAGTGGTCCGAGTTCGTGA-GGTATG-TAGCA
1 TCCGAGCTCGTTGAGAGGTCCGAGTTCATGATGG-ATGCGAGCA
*
30230199 TCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGAGCA
1 TCCGAGCTCGTTGAGAGGTCCGAGTTCATGATGGATGCGAGCA
* ** *
30230242 TTCGAGCTCGTTGAGTTGTCTGAGTTCATGATGGATGCGA
1 TCCGAGCTCGTTGAGAGGTCCGAGTTCATGATGGATGCGA
30230282 TTCATGTAAC
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 29 0.41
43 41 0.59
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGAGGTCCGAGTTCATGATGGATGCGAGCA
Found at i:30231747 original size:13 final size:13
Alignment explanation
Indices: 30231729--30231753 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30231719 GATTTGTTTA
30231729 TTAAACTAATTAT
1 TTAAACTAATTAT
30231742 TTAAACTAATTA
1 TTAAACTAATTA
30231754 ACTAATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:30234626 original size:17 final size:17
Alignment explanation
Indices: 30234606--30234648 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
30234596 AAATTGAAAT
30234606 GAAAATAAAAATCAA-AA
1 GAAAATAAAAAT-AAGAA
30234623 G-AAATAAAAATAAGAA
1 GAAAATAAAAATAAGAA
*
30234639 TAAAATAAAA
1 GAAAATAAAA
30234649 GGAAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 2 0.09
16 12 0.52
17 9 0.39
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (17 bp):
GAAAATAAAAATAAGAA
Found at i:30234633 original size:6 final size:6
Alignment explanation
Indices: 30234602--30234686 Score: 59
Period size: 6 Copynumber: 14.3 Consensus size: 6
30234592 AAGAAAATTG
* * * *
30234602 AAATGA AAATAA AAAT-C AAA-AG AAATAA AAATAA GAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
** * *
30234647 AAGGAA ATAATAA TAATAA ATAATAA GAATAA AAATAA AA
1 AAATAA A-AATAA AAATAA A-AATAA AAATAA AAATAA AA
30234687 TTAGAGGATT
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
5 10 0.17
6 42 0.70
7 8 0.13
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:30234667 original size:13 final size:13
Alignment explanation
Indices: 30234625--30234684 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
30234615 AATCAAAAGA
30234625 AATAAA-AATAAG
1 AATAAATAATAAG
30234637 AAT-AA-AATAA-
1 AATAAATAATAAG
* *
30234647 AAGGAAATAATAAT
1 AA-TAAATAATAAG
30234661 AATAAATAATAAG
1 AATAAATAATAAG
30234674 AATAAA-AATAA
1 AATAAATAATAA
30234685 AATTAGAGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
10 2 0.05
11 7 0.17
12 10 0.24
13 20 0.49
14 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (13 bp):
AATAAATAATAAG
Found at i:30236255 original size:46 final size:46
Alignment explanation
Indices: 30236205--30236380 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
30236195 TGATTGAGCA
30236205 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30236251 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30236296 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30236344 -CCTGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30236381 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30236361 original size:93 final size:93
Alignment explanation
Indices: 30236202--30236373 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
30236192 GGATGATTGA
*
30236202 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
30236267 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30236295 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
30236359 TTGAGTTCGAGTTCG
65 TTGAGTCCGAGTTCG
30236374 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30242384 original size:27 final size:27
Alignment explanation
Indices: 30242354--30242531 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30242344 ATATTGAGTC
* * * *
30242354 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30242381 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30242408 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30242436 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30242463 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30242490 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30242517 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30242532 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30242493 original size:82 final size:81
Alignment explanation
Indices: 30242375--30242530 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30242365 TGCTATATAA
* *
30242375 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30242440 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30242457 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30242521 CACTTAGTGC
65 CACTTAGTGC
30242531 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30250555 original size:27 final size:27
Alignment explanation
Indices: 30250525--30250702 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30250515 ATATTGAGTC
* * * *
30250525 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30250552 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30250579 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30250607 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30250634 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30250661 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30250688 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30250703 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30250664 original size:82 final size:81
Alignment explanation
Indices: 30250546--30250701 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30250536 TGCTATATAA
* *
30250546 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30250611 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30250628 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30250692 CACTTAGTGC
65 CACTTAGTGC
30250702 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30255478 original size:46 final size:45
Alignment explanation
Indices: 30255314--30255487 Score: 187
Period size: 45 Copynumber: 3.8 Consensus size: 45
30255304 GATTGAGCAT
*
30255314 CCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
30255358 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
30255403 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 ---CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
30255451 CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30255488 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 9, Indels: 21
0.78 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 32 0.29
46 32 0.29
47 29 0.27
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:30255479 original size:93 final size:92
Alignment explanation
Indices: 30255310--30255480 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 92
30255300 GGATGATTGA
*
30255310 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGTCCGAACTCGTTGAGTT
30255375 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
30255402 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGTCC-GAACTCGTTGAG
30255466 TTGAGTCCGAGTTCG
64 TTGAGTCCGAGTTCG
30255481 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
92 36 0.48
93 39 0.52
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30264001 original size:40 final size:40
Alignment explanation
Indices: 30263956--30264147 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
30263946 ATAACCACAA
* * *
30263956 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
30263996 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
30264036 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
30264076 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
30264116 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
30264148 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:30264040 original size:80 final size:80
Alignment explanation
Indices: 30263927--30264146 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
30263917 ACCCAAGTTT
* * * * * * * * *
30263927 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
30263990 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
30264006 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
30264070 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
30264086 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
30264147 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:30268730 original size:13 final size:13
Alignment explanation
Indices: 30268712--30268736 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30268702 GATTTGTTTA
30268712 TTAAACTAATTAT
1 TTAAACTAATTAT
30268725 TTAAACTAATTA
1 TTAAACTAATTA
30268737 ACTAATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:30271227 original size:45 final size:45
Alignment explanation
Indices: 30271137--30271227 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
30271127 GAACCATGTG
* * * *
30271137 ATCTGAACTCATTAAGTTGTGGTTTGAGTTCATGATATATGTGAC
1 ATCTGAACTCACTAAGTTGTAGTCTGAGTTCATGATATATATGAC
* *
30271182 ATCTGATCTCACTGAGTTGTAGTCTGAGTTCATGATGA-ATATGAC
1 ATCTGAACTCACTAAGTTGTAGTCTGAGTTCATGAT-ATATATGAC
30271227 A
1 A
30271228 CATGTTTTGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 38 0.97
46 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (45 bp):
ATCTGAACTCACTAAGTTGTAGTCTGAGTTCATGATATATATGAC
Found at i:30277876 original size:21 final size:22
Alignment explanation
Indices: 30277850--30277893 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
30277840 TTGGATTATT
30277850 AATTAGAT-GTCCTTAAATAGC
1 AATTAGATAGTCCTTAAATAGC
30277871 AATTAGATGAAGTCCTTAAATAG
1 AATTAGAT--AGTCCTTAAATAG
30277894 GAAAAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
24 12 0.60
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (22 bp):
AATTAGATAGTCCTTAAATAGC
Found at i:30278918 original size:45 final size:45
Alignment explanation
Indices: 30278861--30278951 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
30278851 GAACCATGTG
* *
30278861 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
1 ATCTGAACTCATTCAGTTGTGGTCTAAGTTCATGATATATATGAC
* * *
30278906 ATCTGAGCTCATTCAGTTGTGGTCTGAGTTCATGATGTATATGAC
1 ATCTGAACTCATTCAGTTGTGGTCTAAGTTCATGATATATATGAC
30278951 A
1 A
30278952 CATGTTTTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.37
Consensus pattern (45 bp):
ATCTGAACTCATTCAGTTGTGGTCTAAGTTCATGATATATATGAC
Found at i:30279599 original size:148 final size:150
Alignment explanation
Indices: 30279290--30279591 Score: 402
Period size: 148 Copynumber: 2.0 Consensus size: 150
30279280 GTTTCAATTT
* * *
30279290 TTTTTAAAAAAAT--AGAAAGTTTAGATTTTAATAAATAAAAATCTGTTTTTTTTAGTCATTTTA
1 TTTTT-AAAAAATGGAGAAAATTTAGATTTTAATAAATAAAAA-CTATTTTTTTAAGTCATTTTA
*
30279353 AATGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAAAAGCTT
64 AAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAAAAGCTT
*
30279418 TAATATTTAAGAAAATAGTGGA
129 TAATATTTAAGAAAATAATGGA
30279440 TTTTTAAAAAATGGAGAAAATTTAGATTTTGAA-AAATAAAAA-TATTTTTTTAAGTCATTTTAA
1 TTTTTAAAAAATGGAGAAAATTTAGATTTT-AATAAATAAAAACTATTTTTTTAAGTCATTTTAA
* * ** * *
30279503 AGGAAAGTTT-AAATTTTTAAACAAAGTTTTGATTTTTTTTTAACTATTTTGAAAT-AAGGTTTT
65 AGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAAAAGCTTT
* *
30279566 TATTTTTAAGAAAAGTAAT-GA
130 AATATTTAAGAAAA-TAATGGA
30279587 TTTTT
1 TTTTT
30279592 TTCAAAATAA
Statistics
Matches: 135, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
147 25 0.19
148 44 0.33
149 35 0.26
150 5 0.04
151 24 0.18
152 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (150 bp):
TTTTTAAAAAATGGAGAAAATTTAGATTTTAATAAATAAAAACTATTTTTTTAAGTCATTTTAAA
GGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAAAAGCTTTA
ATATTTAAGAAAATAATGGA
Found at i:30284679 original size:27 final size:27
Alignment explanation
Indices: 30284638--30284707 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
30284628 AAACATACAT
*
30284638 CACATAGGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
* * * *
30284665 CATATAAGGGCAAAATATTCATTTTAC
1 CACATAAGGGCAAAACAGTCATCTTAC
30284692 CACATAAGGGCAAAAC
1 CACATAAGGGCAAAAC
30284708 GATTATTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.21
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATCTTAC
Found at i:30284715 original size:27 final size:26
Alignment explanation
Indices: 30284638--30284717 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
30284628 AAACATACAT
* * *
30284638 CACATAGGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACA-TTATTTTAC
* *
30284665 CATATAAGGGCAAAATATTCATTTTAC
1 CACATAAGGGCAAAACATT-ATTTTAC
30284692 CACATAAGGGCAAAACGATTATTTTA
1 CACATAAGGGCAAAAC-ATTATTTTA
30284718 TCAATTTGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.02
27 40 0.91
28 3 0.07
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (26 bp):
CACATAAGGGCAAAACATTATTTTAC
Found at i:30288718 original size:40 final size:40
Alignment explanation
Indices: 30288656--30288913 Score: 308
Period size: 40 Copynumber: 6.5 Consensus size: 40
30288646 CAGATGATAA
* * * *
30288656 CCGGGCTAAGTCCCGAAAGCATTTGTGCTAG-TGGCTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCT-ACTATA-T
* *
30288696 TCAGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
* *
30288736 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGCTACTTTAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
* *
30288776 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
* *
30288816 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
* * *
30288856 CCGGGCTATGTCCCGAAGGTATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTA-CTATAT
* *
30288896 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
30288914 TACTTGGCTT
Statistics
Matches: 191, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 15 0.08
40 174 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
Found at i:30295089 original size:92 final size:93
Alignment explanation
Indices: 30294919--30295089 Score: 290
Period size: 92 Copynumber: 1.8 Consensus size: 93
30294909 GGATGGTTGA
* * *
30294919 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCGAACTCGTTGAGT
30294984 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
30295012 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTCAT-GATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCGAACTCGTTGAGT
30295076 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
30295090 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 37 0.51
93 36 0.49
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30298398 original size:17 final size:17
Alignment explanation
Indices: 30298353--30298392 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
30298343 TTACTTGTTG
* *
30298353 AAAAACAAAAGAGAAAAG
1 AAAAAGAAAA-AGAAAAC
30298371 AAAAAGAAAAAGAAAAC
1 AAAAAGAAAAAGAAAAC
30298388 AAAAA
1 AAAAA
30298393 ATAAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAGAAAAC
Found at i:30298845 original size:21 final size:21
Alignment explanation
Indices: 30298819--30298859 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30298809 CTTGGACTTA
30298819 ATTATT-TATTTTTGATTTATT
1 ATTATTGTATTTTTG-TTTATT
*
30298840 ATTATTGTTTTTTTGTTTAT
1 ATTATTGTATTTTTGTTTAT
30298860 AACGGGCCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (21 bp):
ATTATTGTATTTTTGTTTATT
Found at i:30303066 original size:37 final size:36
Alignment explanation
Indices: 30303014--30303126 Score: 99
Period size: 37 Copynumber: 3.1 Consensus size: 36
30303004 ATTCCAAAAA
*
30303014 TAATATTATTTTAATAGTTTAATATTAAATTAAATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAAATT
* *
30303050 TAATACTTATCTTAATAGTATT-TTATT-AATTTAATGT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAAAT-T
*
30303087 TAACGTGATTATCTTAATA-TTTAAT-TTAATTTAATATT
1 TAA--T-ATTATCTTAATAGTTTAATATTAAATTAA-ATT
30303125 TA
1 TA
30303127 TCTATATTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
36 12 0.19
37 24 0.39
38 11 0.18
39 14 0.23
40 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAAATT
Found at i:30307723 original size:16 final size:16
Alignment explanation
Indices: 30307702--30307742 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
30307692 ATAATATATT
30307702 ATTAATTAATAAAATA
1 ATTAATTAATAAAATA
30307718 ATTAATCT-ATAAAATA
1 ATTAAT-TAATAAAATA
*
30307734 ATGAATTAA
1 ATTAATTAA
30307743 GCCAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (16 bp):
ATTAATTAATAAAATA
Found at i:30311834 original size:21 final size:21
Alignment explanation
Indices: 30311808--30311851 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
30311798 AATCATACAT
30311808 TACATCACATAATACATTACC
1 TACATCACATAATACATTACC
30311829 TACATCACATAATACATTACC
1 TACATCACATAATACATTACC
30311850 TA
1 TA
30311852 AACCCTTCCA
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:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (21 bp):
TACATCACATAATACATTACC
Found at i:30317210 original size:18 final size:20
Alignment explanation
Indices: 30317187--30317226 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
30317177 TGTGGGTAGG
30317187 CCGTGTGG-TCA-CACACGC
1 CCGTGTGGCTCAGCACACGC
*
30317205 CCGTGTGGCTCAGGACACGC
1 CCGTGTGGCTCAGCACACGC
30317225 CC
1 CC
30317227 ATGTACTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 3 0.16
20 8 0.42
ACGTcount: A:0.15, C:0.40, G:0.30, T:0.15
Consensus pattern (20 bp):
CCGTGTGGCTCAGCACACGC
Found at i:30318983 original size:25 final size:25
Alignment explanation
Indices: 30318949--30318997 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
30318939 CATTAATTAT
*
30318949 ATATATTTACCATACATGCAATATA
1 ATATACTTACCATACATGCAATATA
30318974 ATATACTTACCATACATGCAATAT
1 ATATACTTACCATACATGCAATAT
30318998 CAAGTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATACTTACCATACATGCAATATA
Found at i:30320176 original size:29 final size:29
Alignment explanation
Indices: 30320136--30320195 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
30320126 TTTATTTCAT
*
30320136 AATTTAACCCCTCAATTTACACTTTT-CTC
1 AATTTAACCCCT-AATATACACTTTTACTC
* *
30320165 AATTTAATCCCTAATATACATTTTTACTC
1 AATTTAACCCCTAATATACACTTTTACTC
30320194 AA
1 AA
30320196 AGTCACTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (29 bp):
AATTTAACCCCTAATATACACTTTTACTC
Found at i:30326304 original size:29 final size:30
Alignment explanation
Indices: 30326232--30326305 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 30
30326222 TTTTTAGTGA
* * *
30326232 AAATGTAAAATAGGGATTAAATTGAGAAAT
1 AAATGAAAAATATGGATTAAAATGAGAAAT
*
30326262 --ATTAAAAATTTATGG-TTAAAATGAGAAAT
1 AAATGAAAAA--TATGGATTAAAATGAGAAAT
30326291 AAATGAAAAATATGG
1 AAATGAAAAATATGG
30326306 GCTCCTAGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
28 6 0.17
29 18 0.51
30 4 0.11
31 7 0.20
ACGTcount: A:0.54, C:0.00, G:0.18, T:0.28
Consensus pattern (30 bp):
AAATGAAAAATATGGATTAAAATGAGAAAT
Found at i:30334893 original size:51 final size:51
Alignment explanation
Indices: 30334812--30334979 Score: 282
Period size: 51 Copynumber: 3.3 Consensus size: 51
30334802 ACTTCTGATC
* *
30334812 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
30334863 AGTGACAAATGATAAGTGGTAACTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
30334914 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTAATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
30334965 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
30334980 ATGTGATCAG
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 108 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:30338512 original size:80 final size:80
Alignment explanation
Indices: 30338379--30338634 Score: 385
Period size: 80 Copynumber: 3.2 Consensus size: 80
30338369 GATGATAACG
* *
30338379 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
30338444 CGAGTTACTA-ATTCC
66 CGAGTTACTATA-TCC
*
30338459 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
30338524 CGAGTTACTATATCC
66 CGAGTTACTATATCC
** *
30338539 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGT
30338603 GCGAG-TAGCTATATCC
65 GCGAGTTA-CTATATCC
* *
30338619 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
30338635 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
79 18 0.11
80 145 0.88
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTACTATATCC
Found at i:30338620 original size:40 final size:40
Alignment explanation
Indices: 30338379--30338608 Score: 374
Period size: 40 Copynumber: 5.8 Consensus size: 40
30338369 GATGATAACG
* *
30338379 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
30338419 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
30338459 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
30338499 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
**
30338539 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
30338579 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
30338609 AGCTATATCC
Statistics
Matches: 180, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.01
40 178 0.99
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:30345382 original size:48 final size:48
Alignment explanation
Indices: 30345270--30345732 Score: 722
Period size: 48 Copynumber: 9.8 Consensus size: 48
30345260 TGTTACAACA
* *
30345270 TTCACATTAGCCATTCGGCTTTACTACATATACATATC-TAC--ATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
30345315 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
30345363 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
30345411 TTCACATTAGCCATTCGGCTTTACCACATATACATAT--CTCATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
30345457 TTCACATTAGCCATTCGGCTTTACCACATA-ACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
30345504 TTCACATTCGTCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
30345552 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
30345600 TTCACATTCGTCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
30345648 TTCACATTAGCCATTCGGCCTTACCACATACACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
30345696 TTCACATTAGCCATTCGGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
30345733 TTATCTTGTA
Statistics
Matches: 382, Mismatches: 30, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
45 42 0.11
46 40 0.10
47 34 0.09
48 266 0.70
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:30345588 original size:189 final size:191
Alignment explanation
Indices: 30345270--30345732 Score: 738
Period size: 189 Copynumber: 2.4 Consensus size: 191
30345260 TGTTACAACA
* *
30345270 TTCACATTAGCCATTCGGCTTTACTACATATACATA--TC-TACATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATACACATATCTCATACATATTTCACATTCGCCATTCG
30345332 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
*
30345397 TATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT-CTCATATAT
131 TATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATACACATATAT
*
30345457 TTCACATTAGCCATTCGGCTTTACCACATA-ACATATCTCATACATATTTCACATTCGTCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATACACATATCTCATACATATTTCACATTCGCCATTCG
30345521 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
* * * *
30345586 TATCTCATATATATTTCACATTCGTCATTCGGCTTTACCACATATACATATCACACATATAT
131 TATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT-ACACATATAT
* * * * *
30345648 TTCACATTAGCCATTCGGCCTTACCACATACACATATCACACATATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATACACATATCTCATACATATTTCACATTCGCCATTCG
* * *
30345713 GCTTCACCACACATATATAT
66 GCTTTACCACATATACATAT
30345733 TTATCTTGTA
Statistics
Matches: 254, Mismatches: 16, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
186 5 0.02
187 29 0.11
188 2 0.01
189 135 0.53
191 37 0.15
192 46 0.18
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (191 bp):
TTCACATTAGCCATTCGGCTTTACCACATACACATATCTCATACATATTTCACATTCGCCATTCG
GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
TATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATACACATATAT
Found at i:30350915 original size:80 final size:80
Alignment explanation
Indices: 30350782--30351037 Score: 385
Period size: 80 Copynumber: 3.2 Consensus size: 80
30350772 GATGATAACG
* *
30350782 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
30350847 CGAGTTACTA-ATTCC
66 CGAGTTACTATA-TCC
*
30350862 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
30350927 CGAGTTACTATATCC
66 CGAGTTACTATATCC
** *
30350942 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGT
30351006 GCGAG-TAGCTATATCC
65 GCGAGTTA-CTATATCC
* *
30351022 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
30351038 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
79 18 0.11
80 145 0.88
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTACTATATCC
Found at i:30351023 original size:40 final size:40
Alignment explanation
Indices: 30350782--30351011 Score: 374
Period size: 40 Copynumber: 5.8 Consensus size: 40
30350772 GATGATAACG
* *
30350782 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
30350822 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
30350862 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
30350902 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
**
30350942 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
30350982 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
30351012 AGCTATATCC
Statistics
Matches: 180, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.01
40 178 0.99
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:30354625 original size:12 final size:12
Alignment explanation
Indices: 30354608--30354634 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30354598 TCAAGCCCGA
30354608 ATTCTTCTTTCT
1 ATTCTTCTTTCT
30354620 ATTCTTCTTTCT
1 ATTCTTCTTTCT
30354632 ATT
1 ATT
30354635 TCTGTCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTCTTCTTTCT
Found at i:30355665 original size:34 final size:33
Alignment explanation
Indices: 30355599--30355665 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
30355589 GCATATCTAA
**
30355599 TATTGAACTGAAATGGACTAAGGCCCGGACTGC
1 TATTGAACTGAAATGGACTAAGGCCCAAACTGC
* *
30355632 TATTGAAACTGAAATGGGCTTAGGCCCAAACTGC
1 TATTG-AACTGAAATGGACTAAGGCCCAAACTGC
30355666 ATTTGACTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 5 0.17
34 24 0.83
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.22
Consensus pattern (33 bp):
TATTGAACTGAAATGGACTAAGGCCCAAACTGC
Found at i:30360255 original size:30 final size:30
Alignment explanation
Indices: 30360216--30360280 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
30360206 TTTCTAATCC
*
30360216 TTAAAATTAATCGTCAGATAGATTTAG-AT
1 TTAAAATTAATCATCAGATAGATTTAGAAT
*
30360245 TTAAACATTAATCATCAGATATATTTAGAAT
1 TTAAA-ATTAATCATCAGATAGATTTAGAAT
30360276 TTAAA
1 TTAAA
30360281 TTATGTTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 5 0.16
30 20 0.62
31 7 0.22
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (30 bp):
TTAAAATTAATCATCAGATAGATTTAGAAT
Found at i:30360380 original size:32 final size:31
Alignment explanation
Indices: 30360342--30360404 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
30360332 CTAATCAATT
30360342 TTTTTAAAAAAAATTAATAATCTAAATAAAAA
1 TTTTT-AAAAAAATTAATAATCTAAATAAAAA
* * * *
30360374 TTTTTAAATAATTTAATTATTTAAATAAAAA
1 TTTTTAAAAAAATTAATAATCTAAATAAAAA
30360405 ATTTCAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (31 bp):
TTTTTAAAAAAATTAATAATCTAAATAAAAA
Found at i:30360383 original size:14 final size:14
Alignment explanation
Indices: 30360364--30360422 Score: 55
Period size: 14 Copynumber: 4.0 Consensus size: 14
30360354 ATTAATAATC
30360364 TAAATAAAAATTTT
1 TAAATAAAAATTTT
*
30360378 TAAATAATTTAATTATT
1 TAAATAA--AAATT-TT
*
30360395 TAAATAAAAAATTT
1 TAAATAAAAATTTT
* *
30360409 CAAATAATAATTTT
1 TAAATAAAAATTTT
30360423 AGTATGCTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
14 20 0.56
15 3 0.08
16 4 0.11
17 9 0.25
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAATAAAAATTTT
Found at i:30360399 original size:31 final size:31
Alignment explanation
Indices: 30360355--30360416 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
30360345 TTAAAAAAAA
* *
30360355 TTAATAATCTAAATAAAAATTTTTAAATAAT
1 TTAATAATCTAAATAAAAAATTTCAAATAAT
* *
30360386 TTAATTATTTAAATAAAAAATTTCAAATAAT
1 TTAATAATCTAAATAAAAAATTTCAAATAAT
30360417 AATTTTAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (31 bp):
TTAATAATCTAAATAAAAAATTTCAAATAAT
Found at i:30363714 original size:30 final size:30
Alignment explanation
Indices: 30363675--30363731 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
30363665 TTTTATAAAT
30363675 AATTAATA-TTTATT-ACTTAAAAATATTTAA
1 AATTAATATTTTATTCA-TT-AAAATATTTAA
*
30363705 AATTTATATTTTATTCATTAAAATATT
1 AATTAATATTTTATTCATTAAAATATT
30363732 AACAAGAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 15 0.62
31 8 0.33
32 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTAATATTTTATTCATTAAAATATTTAA
Found at i:30365329 original size:29 final size:30
Alignment explanation
Indices: 30365274--30365332 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
30365264 ATCTCAAAAT
* *
30365274 TATACATGAACTTTGATTTAATGTGCAATTG
1 TATACATGAACTTTAATTT-AGGTGCAATTG
30365305 TATACATGAACTTTAATTT-GGTGCAATT
1 TATACATGAACTTTAATTTAGGTGCAATT
30365333 ATTCAATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
31 18 0.69
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAGGTGCAATTG
Found at i:30366546 original size:1 final size:1
Alignment explanation
Indices: 30366540--30366566 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
30366530 ACTAGTGAGG
30366540 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
30366567 GCAAAATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:30368945 original size:14 final size:14
Alignment explanation
Indices: 30368928--30368974 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
30368918 ATTTAATTCA
30368928 TATTATATTTTAGT
1 TATTATATTTTAGT
* **
30368942 TATTTATATTTAAAA
1 TA-TTATATTTTAGT
30368957 TATTATATTTTAGT
1 TATTATATTTTAGT
30368971 TATT
1 TATT
30368975 TACATTATCA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (14 bp):
TATTATATTTTAGT
Found at i:30368950 original size:15 final size:15
Alignment explanation
Indices: 30368930--30368976 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
30368920 TTAATTCATA
30368930 TTATATTTTAGTTAT
1 TTATATTTTAGTTAT
* **
30368945 TTATATTTAAAATA-
1 TTATATTTTAGTTAT
30368959 TTATATTTTAGTTAT
1 TTATATTTTAGTTAT
30368974 TTA
1 TTA
30368977 CATTATCATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (15 bp):
TTATATTTTAGTTAT
Found at i:30371979 original size:13 final size:13
Alignment explanation
Indices: 30371958--30371988 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
30371948 TGTGGTGCAG
*
30371958 AGGCTTAGAAAAA
1 AGGCCTAGAAAAA
30371971 AGGCCTAGAAAAA
1 AGGCCTAGAAAAA
30371984 AGGCC
1 AGGCC
30371989 AGAGTTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.16, G:0.26, T:0.10
Consensus pattern (13 bp):
AGGCCTAGAAAAA
Found at i:30379542 original size:18 final size:17
Alignment explanation
Indices: 30379519--30379563 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
30379509 TTAAAAAAAA
*
30379519 TTATAAATTTTGTAATTT
1 TTATAAATTTT-TAAATT
30379537 TTATAAATATTTTAAATT
1 TTATAAAT-TTTTAAATT
*
30379555 TTAAAAATT
1 TTATAAATT
30379564 ATTTTGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.83
19 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTATAAATTTTTAAATT
Found at i:30379566 original size:19 final size:18
Alignment explanation
Indices: 30379535--30379573 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
30379525 ATTTTGTAAT
*
30379535 TTTTATAAATATTTTAAA
1 TTTTAAAAATATTTTAAA
*
30379553 TTTTAAAAATTATTTTGAA
1 TTTTAAAAA-TATTTTAAA
30379572 TT
1 TT
30379574 ATTTGTTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTTAAAAATATTTTAAA
Found at i:30381029 original size:62 final size:61
Alignment explanation
Indices: 30380952--30381067 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 61
30380942 TCAATTTGTA
* * *
30380952 TTAAATATTATAATTATTTAAA-TTTATTTTTTACCTAATTAATATTTA-AATACTATTTATAC
1 TTAAATATTACAATTA-TTAAACTTTA--CTTTACCAAATTAATATTTAGAATACTATTTATAC
* *
30381014 TTAAATATTGCAATTATTAAACTTTACTTTATCAAATTAATATTTAGAATACTA
1 TTAAATATTACAATTATTAAACTTTACTTTACCAAATTAATATTTAGAATACTA
30381068 CCTTGTATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
60 17 0.36
61 12 0.26
62 18 0.38
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (61 bp):
TTAAATATTACAATTATTAAACTTTACTTTACCAAATTAATATTTAGAATACTATTTATAC
Found at i:30382796 original size:10 final size:10
Alignment explanation
Indices: 30382783--30382807 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30382773 GTAAATTTTA
30382783 TTTTTATAAT
1 TTTTTATAAT
30382793 TTTTTATAAT
1 TTTTTATAAT
30382803 TTTTT
1 TTTTT
30382808 TTCTAGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:30384533 original size:3 final size:3
Alignment explanation
Indices: 30384525--30384561 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
30384515 AACAAATCAA
30384525 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
30384562 TCCAACCAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:30387855 original size:49 final size:47
Alignment explanation
Indices: 30387720--30387891 Score: 134
Period size: 49 Copynumber: 3.6 Consensus size: 47
30387710 GTTGTGTGTT
* * ** **
30387720 AGTGTAAGACCTGTCTGAGACATGGCATCAACACTGATGGATGGGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-ACATTGATATATGAAAG-C
* * *
30387769 AATGTAAGACCTGTCTGGGAC-TCGTCATCAGCCTTGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACAT-GGCATCA-CATTGATATATGAAAG-C
* * * *
30387818 AGTGTAAGACCTGTCTAGGACATGGCATCGACTTTG--ATGTGCAAGC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-ACATTGATATATGAAAGC
30387864 TAGTGTAAGACCATGTCTGGGACATGGC
1 -AGTGTAAGACC-TGTCTGGGACATGGC
30387892 GTCGGTATCT
Statistics
Matches: 100, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
46 1 0.01
47 18 0.18
48 16 0.16
49 63 0.63
50 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCACATTGATATATGAAAGC
Found at i:30391051 original size:26 final size:26
Alignment explanation
Indices: 30391021--30391072 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
30391011 CACCGCTGAA
*
30391021 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
30391047 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
30391073 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:30391220 original size:105 final size:105
Alignment explanation
Indices: 30390989--30391360 Score: 624
Period size: 105 Copynumber: 3.6 Consensus size: 105
30390979 TAACCGTTAT
* * **
30390989 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
30391053 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* *
30391092 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
30391156 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
30391197 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGAG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
30391262 AATCAGCACATAGCAACCCCCTTTTTACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
**
30391302 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
30391361 TTATATACAA
Statistics
Matches: 255, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
103 55 0.22
104 25 0.10
105 174 0.68
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (105 bp):
TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:30391259 original size:26 final size:27
Alignment explanation
Indices: 30391229--30391281 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
30391219 CACCAATGAA
*
30391229 TCGGG-GAATCAGCACTTAGCAACCCC
1 TCGGGAGAATCAGCACATAGCAACCCC
30391255 TCGGGAGAATCAGCACATAGCAACCCC
1 TCGGGAGAATCAGCACATAGCAACCCC
30391282 CTTTTTACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.30, C:0.34, G:0.23, T:0.13
Consensus pattern (27 bp):
TCGGGAGAATCAGCACATAGCAACCCC
Found at i:30391721 original size:29 final size:29
Alignment explanation
Indices: 30391688--30391751 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
30391678 TAATCCACCA
30391688 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
30391717 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
30391747 CCCAA
1 CCCAA
30391752 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:30391725 original size:30 final size:30
Alignment explanation
Indices: 30391695--30391751 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
30391685 CCACCCAACT
30391695 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
30391724 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
30391752 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:30396331 original size:27 final size:28
Alignment explanation
Indices: 30396301--30396357 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
30396291 ATTTTTGATG
30396301 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
30396328 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
30396357 A
1 A
30396358 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:30397398 original size:12 final size:13
Alignment explanation
Indices: 30397381--30397412 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
30397371 ACAAATGTTA
30397381 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
30397393 AGTTTTGATGCAT
1 AGTTTTGATGCAT
30397406 -GTTTTGA
1 AGTTTTGA
30397413 ATTATGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:30400607 original size:55 final size:53
Alignment explanation
Indices: 30400520--30400774 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 53
30400510 ATTAGCGTTT
* *
30400520 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAACTGGTAGGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAA-TGGTA-AGTTTCTAAGGC
* * * * *
30400575 AAGGATACCATGTAAGACTATGTCAAGACATGGCATTGGTAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAGTT--TCTAAGGC
* * * *
30400630 AAAGG-TCCCACGTAAGACCATGCCAAGGCAT--AACATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAA-A-TGGTAAGTTTC-TAAGGC
* * *
30400683 AAGGATACCATGTATGACCATGTCGAGACATGGAAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAGTTTCTAAGGC
* * *
30400732 AAGGATACCATGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAG
30400775 GTACCCGTGT
Statistics
Matches: 162, Mismatches: 28, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
49 38 0.23
52 7 0.04
53 36 0.22
54 10 0.06
55 67 0.41
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAGTTTCTAAGGC
Found at i:30400723 original size:108 final size:109
Alignment explanation
Indices: 30400531--30400727 Score: 283
Period size: 108 Copynumber: 1.8 Consensus size: 109
30400521 AGGATACCAT
* *
30400531 GTAAGACCATGCCAAGGCATGGAAACTGGTAGGGTTTCTAAGGCAAGGATACCATGTAAGACTAT
1 GTAAGACCATGCCAAGGCAT-GAAACTGGTAGAGTTTCTAAGGCAAGGATACCATGTAAGACCAT
* *
30400596 GTCAAGACATGGCATTGGTAAGTTACTATAAGGCAAAGGTCCCAC
65 GTCAAGACATGGAAATGGTAAGTTACTATAAGGCAAAGGTCCCAC
* *
30400641 GTAAGACCATGCCAAGGCAT-AACATTGGT-GAG-TTCATAAGGCAAGGATACCATGTATGACCA
1 GTAAGACCATGCCAAGGCATGAA-ACTGGTAGAGTTTC-TAAGGCAAGGATACCATGTAAGACCA
*
30400703 TGTCGAGACATGGAAATGGTAAGTT
64 TGTCAAGACATGGAAATGGTAAGTT
30400728 TCAAAAGGAT
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
107 3 0.04
108 50 0.64
109 5 0.06
110 20 0.26
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (109 bp):
GTAAGACCATGCCAAGGCATGAAACTGGTAGAGTTTCTAAGGCAAGGATACCATGTAAGACCATG
TCAAGACATGGAAATGGTAAGTTACTATAAGGCAAAGGTCCCAC
Found at i:30401759 original size:27 final size:27
Alignment explanation
Indices: 30401729--30401785 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
30401719 TGGATAAGTT
*
30401729 GTAGGATTACTAAAATACCCCT-GTAGG
1 GTAGGACTACTAAAATACCCCTAG-AGG
* *
30401756 GTAGGACTACTGATATACCCCTAGAGG
1 GTAGGACTACTAAAATACCCCTAGAGG
30401783 GTA
1 GTA
30401786 AAATGACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (27 bp):
GTAGGACTACTAAAATACCCCTAGAGG
Found at i:30402458 original size:27 final size:26
Alignment explanation
Indices: 30402418--30402469 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
30402408 CTCGTTGCAA
*
30402418 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
*
30402445 TCTGGTGACTTCGCCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
30402470 GCACCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:30402539 original size:26 final size:27
Alignment explanation
Indices: 30402510--30402569 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
30402500 ATATATATAT
*
30402510 ATATCTGT-TCTGGTGTCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
30402536 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
30402563 ATATCTG
1 ATATCTG
30402570 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:30409855 original size:27 final size:26
Alignment explanation
Indices: 30409803--30409862 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
30409793 ACATATGTAT
*
30409803 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
30409829 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
30409856 ATATCTG
1 ATATCTG
30409863 GTAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:30417998 original size:55 final size:53
Alignment explanation
Indices: 30417911--30418165 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
30417901 ATTAGGGTTT
* *
30417911 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTGTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTATAAGGC
* * *
30417966 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TATAAGGC
* * * * *
30418021 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTATAAGGC
* * * *
30418074 AAGGATACCATGTAAGACCATGTCGAGACAT-GACAATGGTAAGTTT-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGA-ATTGGTAAGTTTATAAGGC
* * *
30418123 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAG
30418166 GTACCCATGT
Statistics
Matches: 169, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
49 34 0.20
50 2 0.01
51 1 0.01
52 7 0.04
53 41 0.24
54 7 0.04
55 73 0.43
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTATAAGGC
Found at i:30418117 original size:108 final size:110
Alignment explanation
Indices: 30417918--30418118 Score: 316
Period size: 108 Copynumber: 1.8 Consensus size: 110
30417908 TTTAAGGATA
**
30417918 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTGTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGGATACCATGTAAGA
* *
30417983 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
* *
30418028 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-GTTCATAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGGATACCATGTAAGA
* *
30418091 CCATGTCGAGACATGACAATGGTAAGTT
66 CCATGTCAAGACATGACAATGATAAGTT
30418119 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 50 0.60
109 7 0.08
110 26 0.31
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:30418378 original size:16 final size:16
Alignment explanation
Indices: 30418357--30418387 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30418347 ATAAATTTGA
30418357 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
30418373 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
30418388 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:30424207 original size:26 final size:26
Alignment explanation
Indices: 30424171--30424230 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
30424161 TATTTTCATA
*
30424171 ATCAA-GCAATTCATAC-TATAATAATT
1 ATCAATGCAATTCAAACGTAT-AT-ATT
30424197 -TCAATGCAATTCAAACGTATATATT
1 ATCAATGCAATTCAAACGTATATATT
30424222 ATCAATGCA
1 ATCAATGCA
30424231 GTTGTATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 7 0.23
26 20 0.67
27 3 0.10
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCAATGCAATTCAAACGTATATATT
Found at i:30427783 original size:20 final size:21
Alignment explanation
Indices: 30427758--30427797 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30427748 GCTCTGGAAC
*
30427758 AGGGC-ACACGTCCGTGTAGA
1 AGGGCAACACGCCCGTGTAGA
30427778 AGGGCAACACGCCCGTGTAG
1 AGGGCAACACGCCCGTGTAG
30427798 CCATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTAGA
Found at i:30431727 original size:46 final size:44
Alignment explanation
Indices: 30431659--30431827 Score: 187
Period size: 46 Copynumber: 3.7 Consensus size: 44
30431649 TGGTATGTGT
* * *
30431659 GCCAGTGTAAGTCATGTTTGGGACATGCATCGACGACATT-ATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCG--G-CATTAACGAGA
30431705 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATT-A-ACGAGA
* * * * *
30431751 GCTAGTGTAAGACATATCTGGGATATGCATCGGTATTGAGAGGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATT-A-ACGAGA
*
30431797 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
30431828 AGGCTCGAGA
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
46 104 0.95
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTAACGAGA
Found at i:30431857 original size:48 final size:45
Alignment explanation
Indices: 30431701--30431871 Score: 189
Period size: 46 Copynumber: 3.7 Consensus size: 45
30431691 ACGACATTAT
* * * *
30431701 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGAC
1 GAGAGCTAGTGTAAGACATATCTGGGACATGCATCGGC-TTGAGAA
* * *
30431747 GAGAGCTAGTGTAAGACATATCTGGGATATGCATCGGTATTGAGAG
1 GAGAGCTAGTGTAAGACATATCTGGGACATGCATCGG-CTTGAGAA
* *
30431793 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGGCTCGAGATA
1 GAGAGCTAGTGTAAGACATATCTGGGACATGCATC-GGCTTGAGA-A
* * *
30431840 TACAAGCTAGTGTAAGACCTATCTGGGACATG
1 GA-GAGCTAGTGTAAGACATATCTGGGACATG
30431872 GCGTCAGCTT
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
46 77 0.73
47 3 0.03
48 26 0.25
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (45 bp):
GAGAGCTAGTGTAAGACATATCTGGGACATGCATCGGCTTGAGAA
Found at i:30446334 original size:27 final size:27
Alignment explanation
Indices: 30446304--30446363 Score: 104
Period size: 27 Copynumber: 2.2 Consensus size: 27
30446294 AAAAACAGTC
30446304 ATTTTACACTACAAGGGTATTT-GATTA
1 ATTTTACACTACAAGGGTATTTCGA-TA
30446331 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
30446358 ATTTTA
1 ATTTTA
30446364 TAAATTGGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:30446441 original size:81 final size:80
Alignment explanation
Indices: 30446315--30446604 Score: 314
Period size: 81 Copynumber: 3.6 Consensus size: 80
30446305 TTTTACACTA
* * * * * * * *
30446315 CAAGGGTATTTGATTAATTTTAC-ACTACAAGGGTATTTCGATAATTTTATAAATTGGGGGTGTT
1 CAAGGGTATTTCAGTAATTTTACAAAT-CGAGGGTATTTCGGTAATTTTATAAATCGAGGGTATT
*
30446379 TCAGTAATTTTAAAAAT
65 TC-GTAATTTTACAAAT
* * * * *
30446396 CGAGGGTATCTCAGTAATTTTACAAATCGAGAGTATTTCGGTAATTTTACAAATCGAGGATATTT
1 CAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTATAAATCGAGGGTATTT
30446461 CGGTAATTTTACAAAT
66 C-GTAATTTTACAAAT
* ** * *
30446477 CAAGGGTGTTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTT-TTAATCAAGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTATAAATCGAGGGTATTT
30446541 CGATAATTTTACAAAT
66 CG-TAATTTTACAAAT
* * ** *
30446557 CAAGGGTCTTTCAATAATTTTGTAAACCGAGGGTATTTCGGTAATTTT
1 CAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTT
30446605 TCAAACTAGG
Statistics
Matches: 175, Mismatches: 32, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
79 1 0.01
80 67 0.38
81 105 0.60
82 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (80 bp):
CAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTATAAATCGAGGGTATTT
CGTAATTTTACAAAT
Found at i:30446610 original size:27 final size:27
Alignment explanation
Indices: 30446317--30446609 Score: 279
Period size: 27 Copynumber: 10.9 Consensus size: 27
30446307 TTACACTACA
* * * *
30446317 AGGGTATTTGATTAATTTTAC-ACTACA
1 AGGGTATTTCAGTAATTTTACAAAT-CG
* *
30446344 AGGGTATTTC-GATAATTTTATAAATTG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * *
30446371 GGGGTGTTTCAGTAATTTTAAAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
30446398 AGGGTATCTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
30446425 AGAGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
30446452 AGGATATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
30446479 AGGGTGTTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* ** *
30446506 AGGGTATTTTAGTAATTTT-TTAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
30446532 AGGGTATTTC-GATAATTTTACAAATCA
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * ** *
30446559 AGGGTCTTTCAATAATTTTGTAAACCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
30446586 AGGGTATTTCGGTAATTTTTCAAA
1 AGGGTATTTCAGTAATTTTACAAA
30446610 CTAGGGGTTC
Statistics
Matches: 217, Mismatches: 43, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
25 1 0.00
26 20 0.09
27 193 0.89
28 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:30447020 original size:28 final size:28
Alignment explanation
Indices: 30446947--30447020 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
30446937 TGGCCCCTTT
* * * *
30446947 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCATATGGCACATC
30446975 AGGCCCAATCACATTCATATGGCACATC
1 AGGCCCAATCACATTCATATGGCACATC
30447003 AGGCCCAATCACATTCAT
1 AGGCCCAATCACATTCAT
30447021 CCGACCCATC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCACATC
Found at i:30447030 original size:28 final size:28
Alignment explanation
Indices: 30446969--30447038 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
30446959 GTTCACATGG
* *
30446969 CCCATCAGGCCCAATCACATTCATATGG
1 CCCATCAGGCCCAATCACATTCATACGA
* *
30446997 CACATCAGGCCCAATCACATTCATCCGA
1 CCCATCAGGCCCAATCACATTCATACGA
*
30447025 CCCATCAAGCCCAA
1 CCCATCAGGCCCAA
30447039 CTAGTTCCCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.40, G:0.11, T:0.17
Consensus pattern (28 bp):
CCCATCAGGCCCAATCACATTCATACGA
Found at i:30449006 original size:29 final size:29
Alignment explanation
Indices: 30448962--30449026 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
30448952 TAAGCATACT
30448962 AAATAAATTTCACAAATAAAAAGTTAAGA
1 AAATAAATTTCACAAATAAAAAGTTAAGA
* *
30448991 AAATAAATTTCTCAAATAAAAATTTAAGA
1 AAATAAATTTCACAAATAAAAAGTTAAGA
30449020 AAATAAA
1 AAATAAA
30449027 GAGGCCTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.63, C:0.06, G:0.05, T:0.26
Consensus pattern (29 bp):
AAATAAATTTCACAAATAAAAAGTTAAGA
Found at i:30450104 original size:107 final size:108
Alignment explanation
Indices: 30449923--30450294 Score: 457
Period size: 107 Copynumber: 3.5 Consensus size: 108
30449913 TACACTACAT
* * *
30449923 GGGTATTTCGATAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATTGGGGGTGTTTCG
1 GGGTATTTCGATAATTTTACAAAT-CAAGGGTATTTCGATAATTTTACAAATTGAGGGTGTTTCA
* * *
30449987 GTGATTTTACAAATCAAGGGTATCTCGGTAATTTTACAAATCGA
65 GTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCGA
* * * *
30450031 GGGTATCTCGATAATTTTACAAAT-GAGGGTATTTCGGTAATTTTACAAATTGAGGGTGTTTTAG
1 GGGTATTTCGATAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATTGAGGGTGTTTCAG
30450095 TAATTTTACAAATCAAGGGTATTTCTA-TAATTTTAC-AATCGA
66 TAATTTTACAAATCAAGGGTATTTC-AGTAATTTTACAAATCGA
* ** ** *
30450137 GGGTATTTCGATAATTTTACAAATCAAGGGTATTTCAATAATTTTGTAAACCGAGGGTATTTCAG
1 GGGTATTTCGATAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATTGAGGGTGTTTCAG
* ** * *
30450202 AAATTTTACAAA-CTGGGGGTATTTCAGTAATTTTACAAACCGG
66 TAATTTTACAAATC-AAGGGTATTTCAGTAATTTTACAAATCGA
* * * *
30450245 GGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGGTGATTTTACAAA
1 GGGTATTTCGATAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAA
30450295 CCGGGGGTAC
Statistics
Matches: 226, Mismatches: 32, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
106 31 0.14
107 127 0.56
108 66 0.29
109 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (108 bp):
GGGTATTTCGATAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATTGAGGGTGTTTCAG
TAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCGA
Found at i:30450266 original size:27 final size:27
Alignment explanation
Indices: 30449923--30450303 Score: 398
Period size: 27 Copynumber: 14.2 Consensus size: 27
30449913 TACACTACAT
* *
30449923 GGGTATTTCGATAATTTTAC-ACTACAA
1 GGGTATTTCGATAATTTTACAAAT-CGA
* *
30449950 GGGTATTTCGATAATTTTACAAATTGG
1 GGGTATTTCGATAATTTTACAAATCGA
* * * *
30449977 GGGTGTTTCGGTGATTTTACAAATCAA
1 GGGTATTTCGATAATTTTACAAATCGA
* *
30450004 GGGTATCTCGGTAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATCGA
*
30450031 GGGTATCTCGATAATTTTACAAAT-GA
1 GGGTATTTCGATAATTTTACAAATCGA
* *
30450057 GGGTATTTCGGTAATTTTACAAATTGA
1 GGGTATTTCGATAATTTTACAAATCGA
* * *
30450084 GGGTGTTT-TAGTAATTTTACAAATCAA
1 GGGTATTTCGA-TAATTTTACAAATCGA
*
30450111 GGGTATTTCTATAATTTTAC-AATCGA
1 GGGTATTTCGATAATTTTACAAATCGA
*
30450137 GGGTATTTCGATAATTTTACAAATCAA
1 GGGTATTTCGATAATTTTACAAATCGA
* ** *
30450164 GGGTATTTCAATAATTTTGTAAACCGA
1 GGGTATTTCGATAATTTTACAAATCGA
*
30450191 GGGTATTTCAGA-AATTTTACAAA-CTGG
1 GGGTATTTC-GATAATTTTACAAATC-GA
* *
30450218 GGGTATTTC-AGTAATTTTACAAACCGG
1 GGGTATTTCGA-TAATTTTACAAATCGA
30450245 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATCGA
* * * * *
30450272 GGGTATTTTGGTGATTTTACAAACCGG
1 GGGTATTTCGATAATTTTACAAATCGA
30450299 GGGTA
1 GGGTA
30450304 CTTCAGTAAT
Statistics
Matches: 301, Mismatches: 42, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.00
26 49 0.16
27 244 0.81
28 7 0.02
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAATCGA
Found at i:30450677 original size:28 final size:28
Alignment explanation
Indices: 30450632--30450747 Score: 169
Period size: 28 Copynumber: 4.1 Consensus size: 28
30450622 CCCTTTAGGG
* * *
30450632 CCAATCTCGTTCACATGGCCCATCAGGC
1 CCAATCACATTCATATGGCCCATCAGGC
* * *
30450660 CTAATCATATTCATATGGCCCTTCAGGC
1 CCAATCACATTCATATGGCCCATCAGGC
*
30450688 CCACTCACATTCATATGGCCCATCAGGC
1 CCAATCACATTCATATGGCCCATCAGGC
30450716 CCAATCACATTCATATGGCCCATCAGGC
1 CCAATCACATTCATATGGCCCATCAGGC
30450744 CCAA
1 CCAA
30450748 CTATTTCCCA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 77 1.00
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (28 bp):
CCAATCACATTCATATGGCCCATCAGGC
Found at i:30452235 original size:42 final size:42
Alignment explanation
Indices: 30452117--30452237 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
30452107 CAGAGAACAT
* *
30452117 ATACAATGCCAACTGTCCCAGACATGGTCTTACATGTAATCAA
1 ATACGATGCCAA-TGTCCCAGACATGGTCTTACATGAAATCAA
* * * * *
30452160 ACATCGATGCCACTGTCCTAGACAGGGTCTTACATGAAATCAG
1 ATA-CGATGCCAATGTCCCAGACATGGTCTTACATGAAATCAA
* *
30452203 ATACGATGCCAATGTCCCAAACATGGTTTTACATG
1 ATACGATGCCAATGTCCCAGACATGGTCTTACATG
30452238 CAAAAAAAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 27 0.42
43 30 0.47
44 7 0.11
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACATGAAATCAA
Found at i:30452268 original size:86 final size:86
Alignment explanation
Indices: 30452117--30452279 Score: 206
Period size: 86 Copynumber: 1.9 Consensus size: 86
30452107 CAGAGAACAT
* * ** * *
30452117 ATACAATGCCAACTGTCCCAGACATGGTCTTACATGTAATCAAACATCGATGCCACTGTCCTAGA
1 ATACAATGCCAACTGTCCCAAACATGGTCTTACATGCAAAAAAAAATCGATGCCACTGTCATAGA
30452182 CAG-GGTCTTACATGAAATCAG
66 C-GTGGTCTTACATGAAATCAG
* *
30452203 ATACGATGCCAA-TGTCCCAAACATGGTTTTACATGCAAAAAAAAAGTCGATGCCAAC-GTCATA
1 ATACAATGCCAACTGTCCCAAACATGGTCTTACATGCAAAAAAAAA-TCGATGCC-ACTGTCATA
30452266 GACGTGGTCTTACA
64 GACGTGGTCTTACA
30452280 CGTAGAACAA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
85 28 0.42
86 36 0.55
87 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (86 bp):
ATACAATGCCAACTGTCCCAAACATGGTCTTACATGCAAAAAAAAATCGATGCCACTGTCATAGA
CGTGGTCTTACATGAAATCAG
Found at i:30467624 original size:66 final size:70
Alignment explanation
Indices: 30467495--30467624 Score: 160
Period size: 66 Copynumber: 1.9 Consensus size: 70
30467485 GGGATGTATC
* * *
30467495 CCATGTAGAAAAGAAAGCTACGGGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGAAAAGAAAGCTAC-GGAGAGATAAATGCAGCTAGGTCGCATGAGTGATACCAAGTGA
30467560 AGGACA
65 AGGACA
* * * *
30467566 CCATGTAGACAAGAGAGCTAC-GAGA-A-AAAT-CAGCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGAAAAGAAAGCTACGGAGAGATAAATGCAGCTAGGTCGCATGAGTGATACCAAGTG
30467625 TTCACCATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
66 24 0.46
67 4 0.08
68 1 0.02
69 4 0.08
71 19 0.37
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.18
Consensus pattern (70 bp):
CCATGTAGAAAAGAAAGCTACGGAGAGATAAATGCAGCTAGGTCGCATGAGTGATACCAAGTGAA
GGACA
Found at i:30471509 original size:35 final size:35
Alignment explanation
Indices: 30471463--30471533 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
30471453 GTTCATATGT
30471463 TAAAAATAAGCTTTAGAATAATTGTATTTAAATGC
1 TAAAAATAAGCTTTAGAATAATTGTATTTAAATGC
*
30471498 TAAAAATAAGCTTTAGAATACTTGTATTTAAATGC
1 TAAAAATAAGCTTTAGAATAATTGTATTTAAATGC
30471533 T
1 T
30471534 TTAATATAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (35 bp):
TAAAAATAAGCTTTAGAATAATTGTATTTAAATGC
Found at i:30475148 original size:16 final size:16
Alignment explanation
Indices: 30475129--30475163 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
30475119 ATTATGAATC
*
30475129 AGATATCTCCCTGTAT
1 AGATATCTCCATGTAT
30475145 AGATATCTCCATGTAT
1 AGATATCTCCATGTAT
30475161 AGA
1 AGA
30475164 GTTTCAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (16 bp):
AGATATCTCCATGTAT
Found at i:30476199 original size:47 final size:47
Alignment explanation
Indices: 30476146--30476258 Score: 208
Period size: 47 Copynumber: 2.4 Consensus size: 47
30476136 AGTGATCTCG
*
30476146 GACTCAACTCAACGATTTCGGATGCCTAGTTACATCTCACGAACTCA
1 GACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCA
*
30476193 GACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCG
1 GACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCA
30476240 GACTCAACTCAACGAGTTC
1 GACTCAACTCAACGAGTTC
30476259 AAAACTCAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (47 bp):
GACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCA
Done.