Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 100 of 196
Found at i:29792456 original size:17 final size:20
Alignment explanation
Indices: 29792425--29792466 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
29792415 TTATTATCTT
29792425 GATTGTTTTTATTTG-AAAA
1 GATTGTTTTTATTTGCAAAA
29792444 GATT-TTTTT-TTTGCAAAA
1 GATTGTTTTTATTTGCAAAA
*
29792462 CATTG
1 GATTG
29792467 AAGATCAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 4 0.20
18 12 0.60
19 4 0.20
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (20 bp):
GATTGTTTTTATTTGCAAAA
Found at i:29800770 original size:26 final size:26
Alignment explanation
Indices: 29800727--29800787 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
29800717 AACACATCAG
*
29800727 GAAAGAAAGCCTTGGTGGCGTAATAT
1 GAAAGAAAGACTTGGTGGCGTAATAT
* * *
29800753 GAAAGAAAGATTTTGTGGCTTAATAT
1 GAAAGAAAGACTTGGTGGCGTAATAT
29800779 GAAAGAAAG
1 GAAAGAAAG
29800788 CCTTTATGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.41, C:0.07, G:0.28, T:0.25
Consensus pattern (26 bp):
GAAAGAAAGACTTGGTGGCGTAATAT
Found at i:29802699 original size:22 final size:22
Alignment explanation
Indices: 29802659--29802701 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
29802649 ACACCAAAAC
* **
29802659 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCCTTTAGCGGCACTTTTTT
29802681 AGGCCTTTAGCGGCACTTTTT
1 AGGCCTTTAGCGGCACTTTTT
29802702 AGCACCGCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCACTTTTTT
Found at i:29802937 original size:43 final size:43
Alignment explanation
Indices: 29802889--29803114 Score: 217
Period size: 43 Copynumber: 5.3 Consensus size: 43
29802879 GTTTTTTCTA
* *
29802889 AAACGCCGC-AATAGACCCTAATCTATAGCGGCGCTTTGACTAC
1 AAACGCCGCTAA-AGACCCTAATCTTTAGCGGCGCTTTGACCAC
* * * * * ** *
29802932 AAACGCCACTAAAGAACCTAATCTTTAACGGTGTTTTCCCCTC
1 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTGACCAC
* * * *
29802975 AAACGCCGC-AATAGACCCTGATCTATAGCGACGCTTCGACCAC
1 AAACGCCGCTAA-AGACCCTAATCTTTAGCGGCGCTTTGACCAC
* *
29803018 AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTT--CCAC
1 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTGACCAC
* * * *
29803059 AAACGTCGCTAAAGACCCTTATCTTTAGCGGTGCTTTGACCAA
1 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTGACCAC
*
29803102 AAACGCCACTAAA
1 AAACGCCGCTAAA
29803115 TGCCAACACC
Statistics
Matches: 142, Mismatches: 36, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
41 36 0.25
42 2 0.01
43 100 0.70
44 4 0.03
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTGACCAC
Found at i:29802944 original size:85 final size:86
Alignment explanation
Indices: 29802850--29803114 Score: 232
Period size: 86 Copynumber: 3.1 Consensus size: 86
29802840 TTGGGAGAAG
* * ** * **
29802850 CGCCGCTAAAGATCAGGGTCTTTAGCAGTGTTTT-TTCTAAAACGCCGCAATAGACCCTAATCTA
1 CGCCACTAAAGAACAGAATCTTTAACAGTGTTTTCCCCTAAAACGCCGCAATAGACCCTAATCTA
* * *
29802914 TAGCGGCGCTTTGACTACAAA
66 TAGCGACGCTTCGACCACAAA
** * * *
29802935 CGCCACTAAAGAACCTAATCTTTAACGGTGTTTTCCCCTCAAACGCCGCAATAGACCCTGATCTA
1 CGCCACTAAAGAACAGAATCTTTAACAGTGTTTTCCCCTAAAACGCCGCAATAGACCCTAATCTA
29803000 TAGCGACGCTTCGACCACAAA
66 TAGCGACGCTTCGACCACAAA
** * * * * * * *
29803021 CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCAC--AAACGTCGCTAA-AGACCCTTATCT
1 CGCCACTAAAGAACAGAATCTTTAACAGTGTTTTCCCCTAAAACGCCGC-AATAGACCCTAATCT
* ** * *
29803083 TTAGCGGTGCTTTGACCAAAAA
65 ATAGCGACGCTTCGACCACAAA
29803105 CGCCACTAAA
1 CGCCACTAAA
29803115 TGCCAACACC
Statistics
Matches: 152, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
84 46 0.30
85 28 0.18
86 78 0.51
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (86 bp):
CGCCACTAAAGAACAGAATCTTTAACAGTGTTTTCCCCTAAAACGCCGCAATAGACCCTAATCTA
TAGCGACGCTTCGACCACAAA
Found at i:29803112 original size:84 final size:85
Alignment explanation
Indices: 29802889--29803114 Score: 303
Period size: 86 Copynumber: 2.7 Consensus size: 85
29802879 GTTTTTTCTA
*
29802889 AAACGCCGCAATAGACCCTAATCTATAGCGGCGCTTTGACTACAAACGCCACTAAAGAACCTAAT
1 AAACGCCGCAATAGACCCTAATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAAT
* * *
29802954 CTTTAACGGTGTTTTCCCCTC
66 CTTTAACGGCGCTTT-CCCAC
* * *
29802975 AAACGCCGCAATAGACCCTGATCTATAGCGACGCTTCGACCACAAACGCCACTAAAGAACCTAAT
1 AAACGCCGCAATAGACCCTAATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAAT
*
29803040 CTTTAGCGGCGCTTT-CCAC
66 CTTTAACGGCGCTTTCCCAC
* * * * *
29803059 AAACGTCGCTAA-AGACCCTTATCTTTAGCGGTGCTTTGACCAAAAACGCCACTAAA
1 AAACGCCGC-AATAGACCCTAATCTATAGCGGCGCTTTGACCACAAACGCCACTAAA
29803115 TGCCAACACC
Statistics
Matches: 124, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
84 49 0.40
85 2 0.02
86 73 0.59
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (85 bp):
AAACGCCGCAATAGACCCTAATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAAT
CTTTAACGGCGCTTTCCCAC
Found at i:29803493 original size:21 final size:21
Alignment explanation
Indices: 29803467--29803579 Score: 118
Period size: 21 Copynumber: 5.4 Consensus size: 21
29803457 TTTGACGCTG
29803467 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
29803488 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
29803509 CTCTGCTTCCCTCGCTACAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
29803530 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
29803551 CTTTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
29803572 ATCTGCTT
1 CTCTGCTT
29803580 TAAGCTGCTG
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 78 1.00
ACGTcount: A:0.05, C:0.42, G:0.17, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:29803634 original size:66 final size:66
Alignment explanation
Indices: 29803555--29803690 Score: 177
Period size: 66 Copynumber: 2.1 Consensus size: 66
29803545 TGCCGCCTTT
* *
29803555 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCTTA-CTTTCGTTGAACC
1 GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACC
29803618 TCA
64 TCA
* * * *
29803621 GCTTCTCTCGCTGCTGCATCTGCTTTTAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
1 GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
*
29803686 T
66 A
29803687 GCTT
1 GCTT
29803691 TAAGTTGTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
65 1 0.02
66 56 0.92
67 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.43
Consensus pattern (66 bp):
GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
A
Found at i:29808967 original size:9 final size:9
Alignment explanation
Indices: 29808931--29809099 Score: 71
Period size: 9 Copynumber: 20.0 Consensus size: 9
29808921 AATTGCACGG
29808931 GTAAGTTAT
1 GTAAGTTAT
*
29808940 GT-A-TTGT
1 GTAAGTTAT
*
29808947 GTAAGCTAT
1 GTAAGTTAT
*
29808956 GTAAGTTGT
1 GTAAGTTAT
29808965 GT-A-TTAT
1 GTAAGTTAT
29808972 GTAAGTTAT
1 GTAAGTTAT
29808981 -T-A-TTAT
1 GTAAGTTAT
29808987 GCTTTAAGTTAT
1 G---TAAGTTAT
*
29808999 GTAAGTAAT
1 GTAAGTTAT
29809008 GT-A-TTAT
1 GTAAGTTAT
*
29809015 GTAAGTTGT
1 GTAAGTTAT
*
29809024 GT-A-TAAT
1 GTAAGTTAT
*
29809031 GTTAGTTAT
1 GTAAGTTAT
**
29809040 CAAAGTTAT
1 GTAAGTTAT
29809049 GT-A-TTAT
1 GTAAGTTAT
***
29809056 GTGTTTCTAT
1 GTAAGT-TAT
*
29809066 TTAAGTTAT
1 GTAAGTTAT
*
29809075 GTAAGTTGT
1 GTAAGTTAT
29809084 GT-A-TTAT
1 GTAAGTTAT
29809091 GTAAGTTAT
1 GTAAGTTAT
29809100 TAAAAATTGA
Statistics
Matches: 116, Mismatches: 25, Indels: 38
0.65 0.14 0.21
Matches are distributed among these distances:
6 4 0.03
7 31 0.27
8 12 0.10
9 57 0.49
10 6 0.05
11 1 0.01
12 5 0.04
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:29808972 original size:16 final size:16
Alignment explanation
Indices: 29808953--29809039 Score: 69
Period size: 16 Copynumber: 5.8 Consensus size: 16
29808943 TTGTGTAAGC
*
29808953 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
29808969 TATGTAAGTTAT-TAT
1 TATGTAAGTTATGTAT
*
29808984 TATGCT---TTAAG--T
1 TATG-TAAGTTATGTAT
*
29808996 TATGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
*
29809012 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* *
29809028 AATGTTAGTTAT
1 TATGTAAGTTAT
29809040 CAAAGTTATG
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
11 1 0.02
12 5 0.09
13 3 0.05
14 3 0.05
15 7 0.13
16 36 0.65
ACGTcount: A:0.30, C:0.01, G:0.20, T:0.49
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:29809084 original size:26 final size:25
Alignment explanation
Indices: 29808991--29809099 Score: 82
Period size: 25 Copynumber: 4.3 Consensus size: 25
29808981 TATTATGCTT
*
29808991 TAAGTTATGTAAGTA-ATGTATTATG
1 TAAGTTATGT-AGTATGTGTATTATG
* *
29809016 TAAGTTGTGTA-TAATGT-TAGTTATC
1 TAAGTTATGTAGT-ATGTGTA-TTATG
* * * *
29809041 AAAGTTATGTATTATGTGTTTCTATT
1 TAAGTTATGTAGTATGTGTAT-TATG
29809067 TAAGTTATGTAAGT-TGTGTATTATG
1 TAAGTTATGT-AGTATGTGTATTATG
29809092 TAAGTTAT
1 TAAGTTAT
29809100 TAAAAATTGA
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
23 1 0.02
24 4 0.06
25 39 0.59
26 20 0.30
27 2 0.03
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (25 bp):
TAAGTTATGTAGTATGTGTATTATG
Found at i:29809194 original size:27 final size:27
Alignment explanation
Indices: 29809156--29809211 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
29809146 TATATTAAAA
29809156 ATATAGGTTTTAATATTTAAAAATAAC
1 ATATAGGTTTTAATATTTAAAAATAAC
29809183 ATATAGGTTTTAATATTTAAAAATAAC
1 ATATAGGTTTTAATATTTAAAAATAAC
29809210 AT
1 AT
29809212 TTACAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (27 bp):
ATATAGGTTTTAATATTTAAAAATAAC
Found at i:29809317 original size:121 final size:121
Alignment explanation
Indices: 29809183--29809406 Score: 405
Period size: 121 Copynumber: 1.9 Consensus size: 121
29809173 TAAAAATAAC
*
29809183 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATT-TCT
1 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTGAC-
29809247 AATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
65 AATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
* *
29809304 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTGTTTTTAAAATTATAAAATTTATTGACA
1 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTGACA
29809369 ATAAAATTGAAATATAGGTTATATATCCATACCATATA
66 ATAAAATTGAAATATAGGTTATATATCCATACCATATA
29809407 GCTAAATTTT
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
121 98 0.99
122 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.41
Consensus pattern (121 bp):
ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTGACA
ATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
Found at i:29809437 original size:121 final size:119
Alignment explanation
Indices: 29809191--29809437 Score: 329
Period size: 121 Copynumber: 2.0 Consensus size: 119
29809181 ACATATAGGT
*
29809191 TTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTTCTAATAAAATT
1 TTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTACTAATAAAATT
* * ***
29809256 GAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAAATATAGGT
66 GAAATATAGGTTATATATCCATACCATATA--GGCTAATATATTAAAAATATAAAA
* *
29809312 TTTAATATTTAAAAATAACATTTACAATTGTTTTTAAAATTATAAAATTTATTGAC-AATAAAAT
1 TTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATT-ACTAATAAAAT
*
29809376 TGAAATATAGGTTATATATCCATACCATATA-GCTAA-ATTTTTAATATATATATAAAA
65 TGAAATATAGGTTATATATCCATACCATATAGGCTAATA-TATTAA-A-A-ATATAAAA
29809433 TTTAA
1 TTTAA
29809438 GTAATGTAAT
Statistics
Matches: 112, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
117 1 0.01
118 8 0.07
119 1 0.01
120 1 0.01
121 100 0.89
122 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.41
Consensus pattern (119 bp):
TTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTACTAATAAAATT
GAAATATAGGTTATATATCCATACCATATAGGCTAATATATTAAAAATATAAAA
Found at i:29809453 original size:18 final size:18
Alignment explanation
Indices: 29809432--29809521 Score: 103
Period size: 18 Copynumber: 4.9 Consensus size: 18
29809422 TATATATAAA
29809432 ATTTAAGTAATGTAATAT
1 ATTTAAGTAATGTAATAT
29809450 ATTTAAGTAATGTAAGTTAT
1 ATTTAAGTAATGTAA--TAT
**
29809470 AAATTTTTGTAA-GTAATAT
1 --ATTTAAGTAATGTAATAT
29809489 ATTTAAGTAATGTAATAT
1 ATTTAAGTAATGTAATAT
*
29809507 ATTTTAGTAA-GTAAT
1 ATTTAAGTAATGTAAT
29809522 GTAATATATA
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
17 13 0.21
18 31 0.50
19 3 0.05
20 3 0.05
21 4 0.06
22 8 0.13
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (18 bp):
ATTTAAGTAATGTAATAT
Found at i:29809502 original size:22 final size:21
Alignment explanation
Indices: 29809438--29809530 Score: 76
Period size: 17 Copynumber: 4.6 Consensus size: 21
29809428 TAAAATTTAA
29809438 GTAATGTAATATATTTAAGTAAT
1 GTAA-GTAATATATTT-AGTAAT
* *
29809461 GTAAGTTATAAATTT--T--T
1 GTAAGTAATATATTTAGTAAT
29809478 GTAAGTAATATATTTAAGTAAT
1 GTAAGTAATATATTT-AGTAAT
29809500 GTAA-T-ATAT-TTTAGTAA-
1 GTAAGTAATATATTTAGTAAT
29809517 GTAATGTAATATAT
1 GTAA-GTAATATAT
29809531 ACTTTAATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
17 18 0.32
18 5 0.09
19 5 0.09
20 9 0.16
21 2 0.04
22 14 0.25
23 4 0.07
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (21 bp):
GTAAGTAATATATTTAGTAAT
Found at i:29809511 original size:35 final size:37
Alignment explanation
Indices: 29809431--29809521 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 37
29809421 ATATATATAA
*
29809431 AATTTAAGTAATGTAATATATTTAAGTAATGTAAGTTAT
1 AATTTTAGTAA-GTAATATATTTAAGTAATGTAAG-TAT
*
29809470 AAATTTTTGTAAGTAATATATTTAAGTAATGTAA-TAT
1 -AATTTTAGTAAGTAATATATTTAAGTAATGTAAGTAT
29809507 -ATTTTAGTAAGTAAT
1 AATTTTAGTAAGTAAT
29809522 GTAATATATA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
35 14 0.29
37 3 0.06
39 22 0.46
40 9 0.19
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (37 bp):
AATTTTAGTAAGTAATATATTTAAGTAATGTAAGTAT
Found at i:29809609 original size:13 final size:13
Alignment explanation
Indices: 29809587--29809617 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
29809577 ATTCTAGTAT
*
29809587 GTAATGTATTTAA
1 GTAATATATTTAA
29809600 GTAATATATTTAA
1 GTAATATATTTAA
29809613 GTAAT
1 GTAAT
29809618 GTAAGTTATA
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:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
GTAATATATTTAA
Found at i:29809683 original size:11 final size:11
Alignment explanation
Indices: 29809652--29809684 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
29809642 ATATATTAAT
29809652 AATTCATTGAC
1 AATTCATTGAC
29809663 -ATTCATTGAC
1 AATTCATTGAC
*
29809673 AATTCACTGAC
1 AATTCATTGAC
29809684 A
1 A
29809685 GTCAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (11 bp):
AATTCATTGAC
Found at i:29813249 original size:7 final size:7
Alignment explanation
Indices: 29813237--29813344 Score: 67
Period size: 7 Copynumber: 15.0 Consensus size: 7
29813227 ATTAATTGAC
29813237 ACCCTAA
1 ACCCTAA
29813244 ACCCTAA
1 ACCCTAA
29813251 ATCCCTAA
1 A-CCCTAA
* *
29813259 CCCCTAG
1 ACCCTAA
*
29813266 CCCCTAA
1 ACCCTAA
*
29813273 ATTCCTAA
1 A-CCCTAA
*
29813281 CCCCT-A
1 ACCCTAA
29813287 ACTCCTAA
1 AC-CCTAA
*
29813295 CCCCTAA
1 ACCCTAA
29813302 ATCCCTAA
1 A-CCCTAA
*
29813310 CCCCTAA
1 ACCCTAA
*
29813317 CCCCTAA
1 ACCCTAA
*
29813324 ACCTTATA
1 ACCCTA-A
*
29813332 TCCC-AA
1 ACCCTAA
29813338 ACCCTAA
1 ACCCTAA
29813345 TAATCATATA
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
6 6 0.08
7 50 0.64
8 22 0.28
ACGTcount: A:0.33, C:0.45, G:0.01, T:0.20
Consensus pattern (7 bp):
ACCCTAA
Found at i:29813264 original size:22 final size:22
Alignment explanation
Indices: 29813238--29813287 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
29813228 TTAATTGACA
29813238 CCCTAAACCCTAAATCCCTAAC
1 CCCTAAACCCTAAATCCCTAAC
** *
29813260 CCCTAGCCCCTAAATTCCTAAC
1 CCCTAAACCCTAAATCCCTAAC
29813282 CCCTAA
1 CCCTAA
29813288 CTCCTAACCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.46, G:0.02, T:0.20
Consensus pattern (22 bp):
CCCTAAACCCTAAATCCCTAAC
Found at i:29813272 original size:29 final size:29
Alignment explanation
Indices: 29813239--29813341 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
29813229 TAATTGACAC
* **
29813239 CCTAAA-CCCTAAATCCCTAACCCCTAGCC
1 CCTAAATCCCT-AACCCCTAACCCCTAAAC
* * *
29813268 CCTAAATTCCTAACCCCTAACTCCTAACC
1 CCTAAATCCCTAACCCCTAACCCCTAAAC
29813297 CCTAAATCCCTAACCCCTAACCCCTAAAC
1 CCTAAATCCCTAACCCCTAACCCCTAAAC
* * *
29813326 CTTATATCCCAAACCC
1 CCTAAATCCCTAACCC
29813342 TAATAATCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 60 0.95
30 3 0.05
ACGTcount: A:0.32, C:0.47, G:0.01, T:0.20
Consensus pattern (29 bp):
CCTAAATCCCTAACCCCTAACCCCTAAAC
Found at i:29813293 original size:22 final size:21
Alignment explanation
Indices: 29813238--29813312 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 21
29813228 TTAATTGACA
29813238 CCCTAAACCCTAAATCCCTAAC
1 CCCT-AACCCTAAATCCCTAAC
* *
29813260 CCCTAGCCCCTAAATTCCTAAC
1 CCCTA-ACCCTAAATCCCTAAC
* *
29813282 CCCTAACTCCT-AACCCCTAAAT
1 CCCTAAC-CCTAAATCCCT-AAC
29813304 CCCTAACCC
1 CCCTAACCC
29813313 CTAACCCCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
21 9 0.20
22 35 0.80
ACGTcount: A:0.31, C:0.48, G:0.01, T:0.20
Consensus pattern (21 bp):
CCCTAACCCTAAATCCCTAAC
Found at i:29813315 original size:22 final size:22
Alignment explanation
Indices: 29813282--29813324 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
29813272 AATTCCTAAC
*
29813282 CCCTAACTCCTAACCCCTAAAT
1 CCCTAACCCCTAACCCCTAAAT
29813304 CCCTAACCCCTAACCCCTAAA
1 CCCTAACCCCTAACCCCTAAA
29813325 CCTTATATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.19
Consensus pattern (22 bp):
CCCTAACCCCTAACCCCTAAAT
Found at i:29813340 original size:22 final size:22
Alignment explanation
Indices: 29813282--29813341 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
29813272 AATTCCTAAC
* *
29813282 CCCTAACTCCTAACCCCTAAAT
1 CCCTAACCCCAAACCCCTAAAT
*
29813304 CCCTAACCCCTAACCCCTAAA-
1 CCCTAACCCCAAACCCCTAAAT
* *
29813325 CCTTATATCCCAAACCC
1 CCCTA-ACCCCAAACCC
29813342 TAATAATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.12
22 29 0.88
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (22 bp):
CCCTAACCCCAAACCCCTAAAT
Found at i:29814887 original size:13 final size:13
Alignment explanation
Indices: 29814869--29814893 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29814859 ATTATATTTG
29814869 AAATTAATACTTA
1 AAATTAATACTTA
29814882 AAATTAATACTT
1 AAATTAATACTT
29814894 TAATTTCATT
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTAATACTTA
Found at i:29815474 original size:41 final size:41
Alignment explanation
Indices: 29815405--29815642 Score: 309
Period size: 41 Copynumber: 5.8 Consensus size: 41
29815395 TTATTATTAC
* * * * *
29815405 TAGCGGCACTTTTTTAAAAACGCCGCTAAAGGCCACAGCAA
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
* * ** *
29815446 TACCGGCGCTTCTTTAAAAACGCCGCTAAAGATCTGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
* * *
29815487 TAGCGGCGCTTCTTCAAAAACGCTGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
*
29815528 TAGCGGCGCTT-TTCAAAAATGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
29815568 TAGCGGCGCTTAC-TCAAAAACGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTT-CTTCAAAAACGCCGCTAAAGGCCAGAGCAT
* *
29815609 TAGCGGCGTTTATTCAAAAACGCCGCTAAAGGCC
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
29815643 CCAAAAACTC
Statistics
Matches: 172, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
40 36 0.21
41 136 0.79
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (41 bp):
TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
Found at i:29815575 original size:81 final size:82
Alignment explanation
Indices: 29815405--29815642 Score: 309
Period size: 81 Copynumber: 2.9 Consensus size: 82
29815395 TTATTATTAC
* * * * * * * *
29815405 TAGCGGCACTTTTTTAAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTTCTTTAAAAACGCC
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATTCAAAAACGCC
** *
29815470 GCTAAAGATCTGAGCAT
66 GCTAAAGGCCAGAGCAT
* * * *
29815487 TAGCGGCGCTTCTTCAAAAACGCTGCTAAAAGACAGAGCATTAGCGGCGCTT-TTCAAAAATGCC
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATTCAAAAACGCC
29815551 GCTAAAGGCCAGAGCAT
66 GCTAAAGGCCAGAGCAT
*
29815568 TAGCGGCGCTTAC-TCAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGTTTATTCAAAAACGC
1 TAGCGGCGCTT-CTTCAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATTCAAAAACGC
29815632 CGCTAAAGGCC
65 CGCTAAAGGCC
29815643 CCAAAAACTC
Statistics
Matches: 135, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
81 70 0.52
82 65 0.48
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (82 bp):
TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATTCAAAAACGCC
GCTAAAGGCCAGAGCAT
Found at i:29815637 original size:122 final size:123
Alignment explanation
Indices: 29815405--29815638 Score: 328
Period size: 122 Copynumber: 1.9 Consensus size: 123
29815395 TTATTATTAC
* *
29815405 TAGCGGCACTTTTTTAAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTTCTTTAAAAACGCC
1 TAGCGGCACTTTTTCAAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTTCTTCAAAAACGCC
* * * *
29815470 GCTAAAGATCTGAGCATTAGCGGCGCTTCTTCAAAAACGCTGCTAAAAGACAGAGCAT
66 GCTAAAGACCAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAAGACAGAGCAT
* * * * *
29815528 TAGCGGCGC-TTTTCAAAAATGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTAC-TCAAAAACGC
1 TAGCGGCACTTTTTCAAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTT-CTTCAAAAACGC
* *
29815591 CGCTAAAGGCCAGAGCATTAGCGGCGTTTATTCAAAAACGCCGCTAAA
65 CGCTAAAGACCAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAA
29815639 GGCCCCAAAA
Statistics
Matches: 97, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
122 88 0.91
123 9 0.09
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (123 bp):
TAGCGGCACTTTTTCAAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTTCTTCAAAAACGCC
GCTAAAGACCAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAAGACAGAGCAT
Found at i:29815750 original size:39 final size:39
Alignment explanation
Indices: 29815691--29815801 Score: 127
Period size: 39 Copynumber: 2.8 Consensus size: 39
29815681 TTTGCGGCGC
*
29815691 TTTTTAGAAAA-CGCCACTAATGCT-TATTTTTAGCGGCA
1 TTTTT-GAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCA
* ** *
29815729 TTTTTGGATAAGCGCCGCTAATGCTCTACCTTTAGCGGCG
1 TTTTT-GAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCA
* *
29815769 TTTTTTAAAAGCGCCGCTAATGCTCAATTTTTA
1 TTTTTGAAAAGCGCCGCTAATGCTCTATTTTTA
29815802 ATGGCGTTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
38 9 0.15
39 35 0.58
40 16 0.27
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (39 bp):
TTTTTGAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCA
Found at i:29815808 original size:39 final size:39
Alignment explanation
Indices: 29815738--29815813 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
29815728 ATTTTTGGAT
* *
29815738 AAGCGCCGCTAATGCTCTACCTTTAGCGGCGTTTTTTAA
1 AAGCGCCGCTAATGCTCAACCTTTAACGGCGTTTTTTAA
** *
29815777 AAGCGCCGCTAATGCTCAATTTTTAATGGCGTTTTTT
1 AAGCGCCGCTAATGCTCAACCTTTAACGGCGTTTTTT
29815814 GTCCAAACGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (39 bp):
AAGCGCCGCTAATGCTCAACCTTTAACGGCGTTTTTTAA
Found at i:29815835 original size:12 final size:12
Alignment explanation
Indices: 29815818--29815843 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29815808 TTTTTTGTCC
29815818 AAACGCTGCTAA
1 AAACGCTGCTAA
29815830 AAACGCTGCTAA
1 AAACGCTGCTAA
29815842 AA
1 AA
29815844 GCCTGTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (12 bp):
AAACGCTGCTAA
Found at i:29817895 original size:31 final size:31
Alignment explanation
Indices: 29817860--29817930 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
29817850 GTCCTAGTGA
* *
29817860 ACTATCTACTT-TGTGTTTACTGTCCCAACAG
1 ACTATCT-CTTCTATGTTTACTATCCCAACAG
29817891 ACTATCTCTTCTATGTTTACTATCCCAACAG
1 ACTATCTCTTCTATGTTTACTATCCCAACAG
29817922 ACTATCTCT
1 ACTATCTCT
29817931 ATGGATGCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 3 0.08
31 34 0.92
ACGTcount: A:0.24, C:0.28, G:0.08, T:0.39
Consensus pattern (31 bp):
ACTATCTCTTCTATGTTTACTATCCCAACAG
Found at i:29819006 original size:9 final size:9
Alignment explanation
Indices: 29818992--29819016 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
29818982 AAGTAACATT
29818992 ACCATTTGG
1 ACCATTTGG
29819001 ACCATTTGG
1 ACCATTTGG
29819010 ACCATTT
1 ACCATTT
29819017 CTCACATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (9 bp):
ACCATTTGG
Found at i:29823968 original size:26 final size:27
Alignment explanation
Indices: 29823909--29823992 Score: 82
Period size: 26 Copynumber: 3.1 Consensus size: 27
29823899 TTCACTTATA
*
29823909 ATAAATTTTATATA-TTTTTATAATTT
1 ATAAATTTTATATATTTTTTATAACTT
* ** *
29823935 CTCTATTTTGTATATTTTTTATAA-TT
1 ATAAATTTTATATATTTTTTATAACTT
*
29823961 ATAAATTTTAAATATATTTTCTATAACTT
1 ATAAATTTT--ATATATTTTTTATAACTT
29823990 ATA
1 ATA
29823993 TATATAAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
26 18 0.40
27 9 0.20
28 13 0.29
29 5 0.11
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (27 bp):
ATAAATTTTATATATTTTTTATAACTT
Found at i:29824000 original size:28 final size:28
Alignment explanation
Indices: 29823945--29824002 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
29823935 CTCTATTTTG
* *
29823945 TATATTTTTTATAATTATAAATTTTAAA
1 TATATTTTCTATAATTATAAATTATAAA
*
29823973 TATATTTTCTATAACTTATATA-TATAAA
1 TATATTTTCTATAA-TTATAAATTATAAA
29824001 TA
1 TA
29824003 ATGATATCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (28 bp):
TATATTTTCTATAATTATAAATTATAAA
Found at i:29825789 original size:29 final size:29
Alignment explanation
Indices: 29825723--29825792 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
29825713 ATTTCGTATA
*
29825723 TTTAAAATTTA-ATTTATTTATTTTTATT
1 TTTAAAATTTAGATTTATTTATTTTTAAT
* *
29825751 TTTATGAATTTAGCTTTATATT-TTTTTAAT
1 TTTA-AAATTTAGATTTAT-TTATTTTTAAT
29825781 TTTAAAATTTAG
1 TTTAAAATTTAG
29825793 GTACAATTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 4 0.11
29 13 0.37
30 16 0.46
31 2 0.06
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (29 bp):
TTTAAAATTTAGATTTATTTATTTTTAAT
Found at i:29828050 original size:29 final size:28
Alignment explanation
Indices: 29828014--29828091 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
29828004 TCATGAGATT
29828014 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
29828044 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
29828071 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
29828092 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:29828355 original size:173 final size:175
Alignment explanation
Indices: 29828044--29828371 Score: 561
Period size: 174 Copynumber: 1.9 Consensus size: 175
29828034 AAATTGTACA
* *
29828044 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
29828109 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
29828174 TTTTGGACAGCGG-AAAAGGTAAGTGTACGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAAGGTAAGTGTACGAACTTGAAATGCATG
* * * **
29828218 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACGTTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
29828283 TGTGC-AACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
29828347 TTTTGGACAGCGGAAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAAGGTAAGT
29828372 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
173 70 0.49
174 74 0.51
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (175 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAAGGTAAGTGTACGAACTTGAAATGCATG
Found at i:29834432 original size:45 final size:44
Alignment explanation
Indices: 29834333--29834447 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 44
29834323 TATACACCTA
* * * * * *
29834333 AAATGATTAAGACCATAGCTGAAAAATGTTATGGCATCATGATT
1 AAATGAGTAAGACTATAGTTGAAAGATGCTATGGCATCATGATG
*
29834377 AAGATAAGTAAGACTATAGTTGAAAGATGCTATGGCATCATGATGG
1 AA-ATGAGTAAGACTATAGTTGAAAGATGCTATGGCATCATGAT-G
*
29834423 AAATGAGTAAGA-TCATGGTTGAAAG
1 AAATGAGTAAGACT-ATAGTTGAAAG
29834448 TCGTTAAGAC
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
44 3 0.05
45 54 0.92
46 2 0.03
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (44 bp):
AAATGAGTAAGACTATAGTTGAAAGATGCTATGGCATCATGATG
Found at i:29836178 original size:52 final size:51
Alignment explanation
Indices: 29836100--29836228 Score: 179
Period size: 51 Copynumber: 2.5 Consensus size: 51
29836090 ACTAGTGACT
*
29836100 CAAGTATGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGG-TCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGCT-A
* * *
29836152 CAAGTGTGGTACTTTGTGAAGGCCACTTTTTGAAGAAGGTAGCTTTGGCTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGCTA
* *
29836203 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
29836229 CGGGTATCCG
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
51 36 0.52
52 33 0.48
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGCTA
Found at i:29842930 original size:18 final size:20
Alignment explanation
Indices: 29842895--29842933 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
29842885 TGTTCAAAAA
29842895 TTTAATGATTATATTTAATT
1 TTTAATGATTATATTTAATT
*
29842915 TTTAATTATT-TA-TTAATT
1 TTTAATGATTATATTTAATT
29842933 T
1 T
29842934 ATCCATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTAATGATTATATTTAATT
Found at i:29844802 original size:9 final size:9
Alignment explanation
Indices: 29844788--29844835 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
29844778 TAAAAATTAC
29844788 TTTTAATAA
1 TTTTAATAA
29844797 TTTTAA-AA
1 TTTTAATAA
29844805 TATTT-ATAA
1 T-TTTAATAA
29844814 TTCTTAATGAA
1 TT-TTAAT-AA
29844825 TTTTAATAA
1 TTTTAATAA
29844834 TT
1 TT
29844836 CTCTCTCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
8 5 0.15
9 18 0.53
10 7 0.21
11 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (9 bp):
TTTTAATAA
Found at i:29844833 original size:20 final size:18
Alignment explanation
Indices: 29844788--29844837 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
29844778 TAAAAATTAC
29844788 TTTTAATAATT-TTAAAA
1 TTTTAATAATTCTTAAAA
29844805 TATTT-ATAATTCTTAATGAA
1 T-TTTAATAATTCTTAA--AA
29844825 TTTTAATAATTCT
1 TTTTAATAATTCT
29844838 CTCTCTCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.25
18 7 0.25
19 3 0.11
20 11 0.39
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (18 bp):
TTTTAATAATTCTTAAAA
Found at i:29845882 original size:29 final size:28
Alignment explanation
Indices: 29845852--29845905 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
29845842 AGGCCGTTTT
29845852 TTTTTTAA-ATTTACCGAAATGGGCCGG
1 TTTTTTAATATTTACCGAAATGGGCCGG
*
29845879 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAA-TATTTACCGAAATGGGCC
29845906 ATTTTCCGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 8 0.33
29 16 0.67
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (28 bp):
TTTTTTAATATTTACCGAAATGGGCCGG
Found at i:29848540 original size:21 final size:21
Alignment explanation
Indices: 29848514--29848554 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29848504 TACGTGTTTA
*
29848514 GTCAAACTTATTATGGGTGAC
1 GTCAAACTTACTATGGGTGAC
*
29848535 GTCAAAGTTACTATGGGTGA
1 GTCAAACTTACTATGGGTGA
29848555 AATGATGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (21 bp):
GTCAAACTTACTATGGGTGAC
Found at i:29853422 original size:40 final size:41
Alignment explanation
Indices: 29853351--29853429 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 41
29853341 ATGTTTTGAG
* *
29853351 TTGCATATACGTGACCTTATTTGTACTTTGGTACCCCTGAA
1 TTGCACATACGTGACCCTATTTGTACTTTGGTACCCCTGAA
*
29853392 TTGCACATACGTGCCCCTA-TTGTACTTTGGTACCCCTG
1 TTGCACATACGTGACCCTATTTGTACTTTGGTACCCCTG
29853430 GATACACTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 19 0.54
41 16 0.46
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.37
Consensus pattern (41 bp):
TTGCACATACGTGACCCTATTTGTACTTTGGTACCCCTGAA
Found at i:29853427 original size:19 final size:20
Alignment explanation
Indices: 29853371--29853428 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
29853361 GTGACCTTAT
29853371 TTGTACTTTGGTACCCCTGAA
1 TTGTACTTTGGTACCCCT-AA
* * ** *
29853392 TTGCACATACGTGCCCCT-A
1 TTGTACTTTGGTACCCCTAA
29853411 TTGTACTTTGGTACCCCT
1 TTGTACTTTGGTACCCCT
29853429 GGATACACTT
Statistics
Matches: 27, Mismatches: 10, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
19 14 0.52
21 13 0.48
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.36
Consensus pattern (20 bp):
TTGTACTTTGGTACCCCTAA
Found at i:29860696 original size:41 final size:41
Alignment explanation
Indices: 29860648--29860866 Score: 239
Period size: 41 Copynumber: 5.4 Consensus size: 41
29860638 AATATTGTAC
* *
29860648 ATTGCACATATGTGCCCCTGTTTGTACTTCGGTACTCCTAA
1 ATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGA
* *
29860689 ACTGCACATATGTGCCCCT-TTTGTACTTCGGTACCCCTAA
1 ATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGA
* * * *
29860729 ATTGCACATACGTTCCCCTGTTTGTGCTTCGATACCCCTGA
1 ATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGA
* * * * * *
29860770 ATTACAGATACGTGCCCCTGTTTATTCTACGGTACCCCTGA
1 ATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGA
* *
29860811 ATTACACATATGTG-CCCT-TAGTGTACTTCGGTACCCCTGA
1 ATTGCACATATGTGCCCCTGT-TTGTACTTCGGTACCCCTGA
* *
29860851 A-TGCACTTTTGTGCCC
1 ATTGCACATATGTGCCC
29860867 TAGTTTACAC
Statistics
Matches: 151, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 10 0.07
40 59 0.39
41 82 0.54
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.34
Consensus pattern (41 bp):
ATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGA
Found at i:29860849 original size:81 final size:80
Alignment explanation
Indices: 29860652--29860852 Score: 215
Period size: 81 Copynumber: 2.5 Consensus size: 80
29860642 TTGTACATTG
* * * * * * *
29860652 CACATATGTGCCCCTGTTTGTACTTCGGTACTCCTAAACTGCACATATGTGCCCCTTTTGTACTT
1 CACATATGTG-CCCTGTTTGTACTTCGGTACCCCTGAATTACACATACGTGCCCCTTTTATACTA
*
29860717 CGGTACCCCTAAATTG
65 CGGTACCCCTAAATTA
* * * * * *
29860733 CACATACGTTCCCCTGTTTGTGCTTCGATACCCCTGAATTACAGATACGTGCCCCTGTTTATTCT
1 CACATATG-TGCCCTGTTTGTACTTCGGTACCCCTGAATTACACATACGTGCCCCT-TTTATACT
*
29860798 ACGGTACCCCTGAATTA
64 ACGGTACCCCTAAATTA
*
29860815 CACATATGTGCCCT-TAGTGTACTTCGGTACCCCTGAAT
1 CACATATGTGCCCTGT-TTGTACTTCGGTACCCCTGAAT
29860853 GCACTTTTGT
Statistics
Matches: 97, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
80 1 0.01
81 68 0.70
82 28 0.29
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.33
Consensus pattern (80 bp):
CACATATGTGCCCTGTTTGTACTTCGGTACCCCTGAATTACACATACGTGCCCCTTTTATACTAC
GGTACCCCTAAATTA
Found at i:29863591 original size:26 final size:25
Alignment explanation
Indices: 29863562--29863613 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
29863552 GTTTGCTCGA
*
29863562 TTATTCTTGTAATTGCCATT-GCATTT
1 TTATTATTGT-ATTGCC-TTAGCATTT
*
29863588 TTATTATTGTTTTGCCTTAGCATTT
1 TTATTATTGTATTGCCTTAGCATTT
29863613 T
1 T
29863614 CCAATATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.09
25 12 0.52
26 9 0.39
ACGTcount: A:0.17, C:0.13, G:0.12, T:0.58
Consensus pattern (25 bp):
TTATTATTGTATTGCCTTAGCATTT
Found at i:29870435 original size:24 final size:25
Alignment explanation
Indices: 29870408--29870466 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
29870398 TCATTTCATC
*
29870408 AAAAATTGATTAAACAATAA-TCTG
1 AAAAATTGATTAAAAAATAATTCTG
* *
29870432 AAAAATT-TTTAAAAAATAATTTTG
1 AAAAATTGATTAAAAAATAATTCTG
*
29870456 AAAATTTGATT
1 AAAAATTGATT
29870467 TTAAAGATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 10 0.36
24 16 0.57
25 2 0.07
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (25 bp):
AAAAATTGATTAAAAAATAATTCTG
Found at i:29874469 original size:24 final size:24
Alignment explanation
Indices: 29874442--29874491 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
29874432 TGCCAAGGAG
* *
29874442 CCCACTCAAGCTACTACTGAAGCA
1 CCCACTCAACCTACTACCGAAGCA
*
29874466 CCCACTCAACCTACTACCGAGGCA
1 CCCACTCAACCTACTACCGAAGCA
29874490 CC
1 CC
29874492 TACTTAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.44, G:0.12, T:0.14
Consensus pattern (24 bp):
CCCACTCAACCTACTACCGAAGCA
Found at i:29876860 original size:25 final size:25
Alignment explanation
Indices: 29876832--29876898 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
29876822 TCATATGAGT
* *
29876832 TGTAAATTGGTATGCTCACTCGAGC
1 TGTAAATCGGTATGCTCACACGAGC
* *
29876857 TGTAGATCGGTATGCTCTCACGAGC
1 TGTAAATCGGTATGCTCACACGAGC
* *
29876882 TATTAATCGGTATGCTC
1 TGTAAATCGGTATGCTC
29876899 TCACAAGTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (25 bp):
TGTAAATCGGTATGCTCACACGAGC
Found at i:29876899 original size:25 final size:25
Alignment explanation
Indices: 29876840--29876912 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
29876830 GTTGTAAATT
* *
29876840 GGTATGCTCACTCGAGCTGTAGATC
1 GGTATGCTCTCACGAGCTGTAGATC
*
29876865 GGTATGCTCTCACGAGCTATTA-ATC
1 GGTATGCTCTCACGAGCT-GTAGATC
* *
29876890 GGTATGCTCTCACAAGTTGTAGA
1 GGTATGCTCTCACGAGCTGTAGA
29876913 GTATTCGCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.05
25 36 0.90
26 2 0.05
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (25 bp):
GGTATGCTCTCACGAGCTGTAGATC
Found at i:29877069 original size:17 final size:17
Alignment explanation
Indices: 29877044--29877076 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29877034 CAATCATGTA
*
29877044 AATTTATAATAATTCAC
1 AATTCATAATAATTCAC
29877061 AATTCATAATAATTCA
1 AATTCATAATAATTCA
29877077 ATATAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTCATAATAATTCAC
Found at i:29881808 original size:32 final size:32
Alignment explanation
Indices: 29881767--29881831 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
29881757 GTCAACAGTG
29881767 TAGAAATCATCGAAAACCCTTTTACAAATCTC
1 TAGAAATCATCGAAAACCCTTTTACAAATCTC
*
29881799 TAGAAATCATCGAAAACCCTTTTACACATCTC
1 TAGAAATCATCGAAAACCCTTTTACAAATCTC
29881831 T
1 T
29881832 GATAATACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.29
Consensus pattern (32 bp):
TAGAAATCATCGAAAACCCTTTTACAAATCTC
Found at i:29888710 original size:27 final size:27
Alignment explanation
Indices: 29888655--29889093 Score: 502
Period size: 27 Copynumber: 16.3 Consensus size: 27
29888645 CCCCAAAATA
*
29888655 GGTAAAATGACCAAAATA-CCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
29888681 GGTAGAATAACCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
29888708 GGTAAAATGACCAAAATACCCACATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * * *
29888735 GGTAGAATGGCTGAAATACTCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
29888762 GGTAAAATAACTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * *
29888789 AGTAAAATGTCTGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * *
29888816 GGTAAAATAACTGAAACACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
29888843 GGTAGAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
29888870 GGTAAAATGATCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
29888897 GGTAGAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
29888924 GGTAGAATGATCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
29888951 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * **
29888978 GGTAAAATAACCAAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
29889005 GGTAAAATGACCAAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
29889032 AGTAGAATGACCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
29889059 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
29889086 GGTAAAAT
1 GGTAAAAT
29889094 AACTGTTATA
Statistics
Matches: 356, Mismatches: 56, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
26 15 0.04
27 341 0.96
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:29892620 original size:51 final size:49
Alignment explanation
Indices: 29892495--29892669 Score: 217
Period size: 51 Copynumber: 3.5 Consensus size: 49
29892485 GATGGTCATG
* * *
29892495 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-G-TTGGTCACA
* * * *
29892545 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TT-GGTCACA
*
29892596 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT--TGGTCACA
29892647 TGTGTAGTACTATGTGCAGGCTA
1 TGTGTAGTACTATGTGCAGGCTA
29892670 TTATGTGAAC
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
50 37 0.34
51 70 0.65
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTGGTCACA
Found at i:29895869 original size:75 final size:73
Alignment explanation
Indices: 29895784--29896006 Score: 329
Period size: 75 Copynumber: 3.0 Consensus size: 73
29895774 ATGAAAATTA
*
29895784 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTTCATTTGTCTTCTCTATTAATAAAG
1 ATATTCTTTTGGAAAGAATATAATTC-TTTTTCTAACTTTTCATTTGTCTTCTCTATTAATAAGG
29895849 GAATAATCAT
65 GAATAATC-T
*
29895859 ATATTCTTTTGGAAAGAATATAATTTCTTTTTCTAACTATTCATTTGTCTTCTCTATTAATAAGG
1 ATATTCTTTTGGAAAGAATATAA-TTCTTTTTCTAACTTTTCATTTGTCTTCTCTATTAATAAGG
29895924 GAATAATTCT
65 GAATAA-TCT
* * * * * *
29895934 ATATTTTTTTGAAAAGAATATAAATTTTTTTTCTAAATTTCCATTTATCTTCTCTATTAATAAGG
1 ATATTCTTTTGGAAAGAATAT-AATTCTTTTTCTAACTTTTCATTTGTCTTCTCTATTAATAAGG
29895999 GAATAATC
65 GAATAATC
29896007 CTGTTTTTCC
Statistics
Matches: 136, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
74 2 0.01
75 127 0.93
76 7 0.05
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (73 bp):
ATATTCTTTTGGAAAGAATATAATTCTTTTTCTAACTTTTCATTTGTCTTCTCTATTAATAAGGG
AATAATCT
Found at i:29896666 original size:20 final size:20
Alignment explanation
Indices: 29896641--29896678 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
29896631 GATAAAAAAT
29896641 TATATT-TTTTTATGAATAAG
1 TATATTATTTTTAT-AATAAG
29896661 TATATTATTTTTATAATA
1 TATATTATTTTTATAATA
29896679 TATAGCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TATATTATTTTTATAATAAG
Found at i:29902188 original size:22 final size:25
Alignment explanation
Indices: 29902162--29902215 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
29902152 TTATAAATTC
29902162 AATTTAAAAG-ATA-TAAT-ACAAT
1 AATTTAAAAGTATATTAATAACAAT
*
29902184 AATTT-CAAGTATATTTAATAACAAT
1 AATTTAAAAGTATA-TTAATAACAAT
29902209 AATTTAA
1 AATTTAA
29902216 TCATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
24 4 0.16
25 10 0.40
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (25 bp):
AATTTAAAAGTATATTAATAACAAT
Found at i:29927673 original size:39 final size:37
Alignment explanation
Indices: 29927621--29927748 Score: 148
Period size: 39 Copynumber: 3.3 Consensus size: 37
29927611 GGACTAAGAT
29927621 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAGCC
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAG-C
* *
29927660 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGT
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTT-AGC
* * * *
29927699 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGT
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTT-AGC
29927738 CCGAAGGCATT
1 CCGAAGGCATT
29927749 GTGAAAGTTA
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
39 75 0.94
40 5 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (37 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAGC
Found at i:29927715 original size:78 final size:76
Alignment explanation
Indices: 29927614--29927785 Score: 186
Period size: 78 Copynumber: 2.2 Consensus size: 76
29927604 TATATCCGGA
* * **
29927614 CTAAGATCCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTT-AGCCCCGAAGGCCTTTGTGCG
1 CTAAG-TCCGAAGGCATTCGTGCGAGATATCAAA-TCCGGGTTAAG-CCCGAAGG-CATTGTGAA
*
29927677 AGATACTAAATCCGGG
62 AGATACTAAA-ACGGG
* * * * *
29927693 TTAAGTCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTGTGAAAGTT
1 CTAAGTCCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCGAAGGCATTGTGAAAGAT
29927758 ACTAAAACGGG
66 ACTAAAACGGG
*
29927769 CTATGTCCGAAGGCATT
1 CTAAGTCCGAAGGCATT
29927786 TGAACGAGGA
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
76 19 0.24
77 15 0.19
78 36 0.46
79 9 0.11
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (76 bp):
CTAAGTCCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCGAAGGCATTGTGAAAGAT
ACTAAAACGGG
Found at i:29935197 original size:39 final size:39
Alignment explanation
Indices: 29935145--29935315 Score: 211
Period size: 39 Copynumber: 4.3 Consensus size: 39
29935135 GGACTAAGAT
29935145 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
*
29935184 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * *
29935224 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
29935264 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
29935303 CCGAAGGCATTTG
1 CCGAAGGCATTTG
29935316 AACGAGGAGC
Statistics
Matches: 116, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
39 65 0.56
40 51 0.44
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:29935228 original size:79 final size:79
Alignment explanation
Indices: 29935092--29935315 Score: 231
Period size: 79 Copynumber: 2.8 Consensus size: 79
29935082 TTGAATGCTG
* * * * * * *
29935092 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
29935155 TTGTGCGAGATA-CAAA
63 TTGTGCGAGATATCAAA
* * *
29935171 TTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATT
* * *
29935235 CGTGCGAGTTATTAAA
64 TGTGCGAGATATCAAA
* * *
29935251 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
29935316 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 90 0.73
80 31 0.25
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:29935333 original size:79 final size:80
Alignment explanation
Indices: 29935172--29935348 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
29935162 AGATACAAAT
* * *
29935172 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
29935236 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
29935251 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
29935315 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
29935330 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
29935349 TATGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 16 0.19
79 59 0.71
80 8 0.10
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:29936785 original size:67 final size:67
Alignment explanation
Indices: 29936696--29936863 Score: 232
Period size: 67 Copynumber: 2.5 Consensus size: 67
29936686 GGGGTGTTAC
* * * *
29936696 ACCATAGCTC-AGCTATGGCAACATAGAGAGTTCGCCAAGACATTAAACATGGGGTATAATGTGT
1 ACCATAGCTCGA-CTATGACAACATAGAGAGTCCACCAAGACATTAAACATGGGGTAGAATGTGT
29936760 AAG
65 AAG
* *
29936763 ACCATAGCTCGACTATGACAACATAGAGAGTCCACTAAGACATTAAACATGGGGTAGGATGTGTA
1 ACCATAGCTCGACTATGACAACATAGAGAGTCCACCAAGACATTAAACATGGGGTAGAATGTGTA
29936828 AG
66 AG
* *
29936830 ACCATAGCTCGGCTATGACATCATATG-GAGTCCA
1 ACCATAGCTCGACTATGACAACATA-GAGAGTCCA
29936864 TTGAGGCAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
67 89 0.98
68 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (67 bp):
ACCATAGCTCGACTATGACAACATAGAGAGTCCACCAAGACATTAAACATGGGGTAGAATGTGTA
AG
Found at i:29936877 original size:67 final size:67
Alignment explanation
Indices: 29936696--29936883 Score: 218
Period size: 67 Copynumber: 2.8 Consensus size: 67
29936686 GGGGTGTTAC
* * * * * *
29936696 ACCATAGCTC-AGCTATGGCAACATAGAGAGTTCGCCAAGACATTAAACATGGGGTATAATGTGT
1 ACCATAGCTCGA-CTATGACAACATAGAGAGTCCACTAAGACAATAAACATGGGGTAGAATGTGT
29936760 AAG
65 AAG
* *
29936763 ACCATAGCTCGACTATGACAACATAGAGAGTCCACTAAGACATTAAACATGGGGTAGGATGTGTA
1 ACCATAGCTCGACTATGACAACATAGAGAGTCCACTAAGACAATAAACATGGGGTAGAATGTGTA
29936828 AG
66 AG
* * * * * *
29936830 ACCATAGCTCGGCTATGACATCATATG-GAGTCCATTGAGGCAATAAACGTGGGG
1 ACCATAGCTCGACTATGACAACATA-GAGAGTCCACTAAGACAATAAACATGGGG
29936884 GTAGTTCGCT
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
67 104 0.98
68 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.22
Consensus pattern (67 bp):
ACCATAGCTCGACTATGACAACATAGAGAGTCCACTAAGACAATAAACATGGGGTAGAATGTGTA
AG
Found at i:29973143 original size:24 final size:24
Alignment explanation
Indices: 29973116--29973168 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
29973106 TTTAAGCTCC
* * * *
29973116 ATGTTAGTGGTTACTTCTACTTTT
1 ATGTTAATGGCTACATCTACTGTT
*
29973140 ATGTGAATGGCTACATCTACTGTT
1 ATGTTAATGGCTACATCTACTGTT
29973164 ATGTT
1 ATGTT
29973169 TGATTCTATG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (24 bp):
ATGTTAATGGCTACATCTACTGTT
Found at i:29980751 original size:26 final size:24
Alignment explanation
Indices: 29980711--29980758 Score: 78
Period size: 26 Copynumber: 1.9 Consensus size: 24
29980701 AAAATCATAA
29980711 AAAATTTTCTAGGGTAAAATAGCC
1 AAAATTTTCTAGGGTAAAATAGCC
29980735 AAAATTTTGCTAGGGGTAAAATAG
1 AAAATTTT-CTA-GGGTAAAATAG
29980759 GGATGAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 8 0.36
25 3 0.14
26 11 0.50
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAATTTTCTAGGGTAAAATAGCC
Found at i:29991477 original size:25 final size:24
Alignment explanation
Indices: 29991449--29991787 Score: 259
Period size: 25 Copynumber: 14.4 Consensus size: 24
29991439 GGAGTTTAGC
29991449 GTGCTCTCTGATTATTAGCACATTA
1 GTGCTCTCTGA-TATTAGCACATTA
*
29991474 GTGCTCTCTGATTATTAGCACGTTA
1 GTGCTCTCTGA-TATTAGCACATTA
*
29991499 GTGCTCTCT-AT-TTAGCTCATCT-
1 GTGCTCTCTGATATTAGCACAT-TA
* * *
29991521 GTGGTCTCTGATATTTAGCACGTCA
1 GTGCTCTCTGATA-TTAGCACATTA
29991546 GTGCTCTCT-AT-TTAGCACATCT-
1 GTGCTCTCTGATATTAGCACAT-TA
* *
29991568 GTGCTCTCTGATATTTAGCACGTCA
1 GTGCTCTCTGATA-TTAGCACATTA
29991593 GTGCTCTCTG-T-TTAGCACATCT-
1 GTGCTCTCTGATATTAGCACAT-TA
* * * *
29991615 TTTCTCTCTGATATTTAGCACGTCA
1 GTGCTCTCTGATA-TTAGCACATTA
* * *
29991640 ATGCTCTCTGATATTTAGCACGTCA
1 GTGCTCTCTGATA-TTAGCACATTA
*
29991665 GTGCTCTCTGATATTTAGCACATCA
1 GTGCTCTCTGATA-TTAGCACATTA
29991690 GTGCTCTCTG--ATT---AC--TA
1 GTGCTCTCTGATATTAGCACATTA
29991707 GCTCGCTCTCTGATCATTAGCACATTA
1 G-T-GCTCTCTGAT-ATTAGCACATTA
* *
29991734 GTGCTCTC-CAT-TTAGCACATTT
1 GTGCTCTCTGATATTAGCACATTA
*
29991756 GTGCTCTCTG-TA-TAGCACTTTA
1 GTGCTCTCTGATATTAGCACATTA
29991778 GTGCTCTCTG
1 GTGCTCTCTG
29991788 TTTAATAGTG
Statistics
Matches: 259, Mismatches: 28, Indels: 57
0.75 0.08 0.17
Matches are distributed among these distances:
17 2 0.01
18 1 0.00
19 10 0.04
22 90 0.35
23 8 0.03
24 6 0.02
25 138 0.53
26 1 0.00
27 3 0.01
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.39
Consensus pattern (24 bp):
GTGCTCTCTGATATTAGCACATTA
Found at i:29991529 original size:47 final size:47
Alignment explanation
Indices: 29991449--29991791 Score: 346
Period size: 47 Copynumber: 7.3 Consensus size: 47
29991439 GGAGTTTAGC
*
29991449 GTGCTCTCTGATTATTAGCACAT-TAGTGCTCTCTGAT-TATTAGCACGTTA
1 GTGCTCTCT-A-T-TTAGCACATCT-GTGCTCTCTGATAT-TTAGCACGTCA
* *
29991499 GTGCTCTCTATTTAGCTCATCTGTGGTCTCTGATATTTAGCACGTCA
1 GTGCTCTCTATTTAGCACATCTGTGCTCTCTGATATTTAGCACGTCA
29991546 GTGCTCTCTATTTAGCACATCTGTGCTCTCTGATATTTAGCACGTCA
1 GTGCTCTCTATTTAGCACATCTGTGCTCTCTGATATTTAGCACGTCA
* * *
29991593 GTGCTCTCTGTTTAGCACATCTTTTCTCTCTGATATTTAGCACGTCA
1 GTGCTCTCTATTTAGCACATCTGTGCTCTCTGATATTTAGCACGTCA
* * * *
29991640 ATGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGATATTTAGCACATCA
1 GTGCTCTC---TATTTAGCACATCTGTGCTCTCTGATATTTAGCACGTCA
* * * * *
29991690 GTGCTCTCTGA-TTA-C-TAGCT-CGCTCTCTGATCA-TTAGCACATTA
1 GTGCTCTCT-ATTTAGCACATCTGTGCTCTCTGAT-ATTTAGCACGTCA
* * * *
29991734 GTGCTCTCCATTTAGCACATTTGTGCTCTCTG-TA--TAGCACTTTA
1 GTGCTCTCTATTTAGCACATCTGTGCTCTCTGATATTTAGCACGTCA
*
29991778 GTGCTCTCTGTTTA
1 GTGCTCTCTATTTA
29991792 ATAGTGCTTA
Statistics
Matches: 252, Mismatches: 30, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
43 1 0.00
44 52 0.21
45 4 0.02
46 4 0.02
47 137 0.54
48 4 0.02
49 1 0.00
50 49 0.19
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (47 bp):
GTGCTCTCTATTTAGCACATCTGTGCTCTCTGATATTTAGCACGTCA
Found at i:29991539 original size:72 final size:71
Alignment explanation
Indices: 29991449--29991701 Score: 266
Period size: 72 Copynumber: 3.5 Consensus size: 71
29991439 GGAGTTTAGC
*
29991449 GTGCTCTCTGATTATTAGCACATTAGTGCTCTCTGATTATTAGCACGTTAGTGCTCTC-TATTTA
1 GTGCTCTCTGATT-TTAGCACATCAGTGCTCTCTGA-TATTAGCACGTTAGTGCTCTCATATTTA
* * *
29991513 GCTCATCT
64 GCACGTCA
* * *
29991521 GTGGTCTCTGATATTTAGCACGTCAGTGCTCTCT-AT-TTAGCACATCT-GTGCTCTCTGATATT
1 GTGCTCTCTGAT-TTTAGCACATCAGTGCTCTCTGATATTAGCACGT-TAGTGCTCTC--ATATT
29991583 TAGCACGTCA
62 TAGCACGTCA
** * * *
29991593 GTGCTCTCTG--TTTAGCACATCTTTTCTCTCTGATATTTAGCACGTCAATGCTCTCTGATATTT
1 GTGCTCTCTGATTTTAGCACATCAGTGCTCTCTGATA-TTAGCACGTTAGTGCTCTC--ATATTT
29991656 AGCACGTCA
63 AGCACGTCA
29991665 GTGCTCTCTGATATTTAGCACATCAGTGCTCTCTGAT
1 GTGCTCTCTGAT-TTTAGCACATCAGTGCTCTCTGAT
29991702 TACTAGCTCG
Statistics
Matches: 151, Mismatches: 18, Indels: 21
0.79 0.09 0.11
Matches are distributed among these distances:
69 33 0.22
70 4 0.03
71 1 0.01
72 91 0.60
73 1 0.01
75 21 0.14
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (71 bp):
GTGCTCTCTGATTTTAGCACATCAGTGCTCTCTGATATTAGCACGTTAGTGCTCTCATATTTAGC
ACGTCA
Found at i:30011477 original size:15 final size:15
Alignment explanation
Indices: 30011457--30011499 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30011447 ATTATAATAA
*
30011457 AAATAATAAGAACA-T
1 AAATAA-AAGAAAATT
30011472 AAATAAAAGAAAATT
1 AAATAAAAGAAAATT
*
30011487 AAATAAACGAAAA
1 AAATAAAAGAAAA
30011500 GAAAGAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.72, C:0.05, G:0.07, T:0.16
Consensus pattern (15 bp):
AAATAAAAGAAAATT
Found at i:30012344 original size:18 final size:18
Alignment explanation
Indices: 30012308--30012346 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
30012298 CACACATCTC
*
30012308 TCTCTCTTTCACTCACTT
1 TCTCTCTTCCACTCACTT
* *
30012326 TCTCTCTTCCATTCCCTT
1 TCTCTCTTCCACTCACTT
30012344 TCT
1 TCT
30012347 TATTTTCCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.41, G:0.00, T:0.51
Consensus pattern (18 bp):
TCTCTCTTCCACTCACTT
Found at i:30019842 original size:12 final size:12
Alignment explanation
Indices: 30019825--30019849 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30019815 GGCTGTTATA
30019825 GAAAATATTGGT
1 GAAAATATTGGT
30019837 GAAAATATTGGT
1 GAAAATATTGGT
30019849 G
1 G
30019850 TGTTATTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (12 bp):
GAAAATATTGGT
Found at i:30023605 original size:15 final size:15
Alignment explanation
Indices: 30023585--30023613 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30023575 AAGAAGTGGC
30023585 TAGTCATAGCACCAA
1 TAGTCATAGCACCAA
30023600 TAGTCATAGCACCA
1 TAGTCATAGCACCA
30023614 GATTGACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (15 bp):
TAGTCATAGCACCAA
Found at i:30036480 original size:23 final size:23
Alignment explanation
Indices: 30036453--30036497 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
30036443 TGAGCATCGG
* *
30036453 TGTAATATCTCAAAAATTACTAC
1 TGTAATACCACAAAAATTACTAC
*
30036476 TGTAATACCACGAAAATTACTA
1 TGTAATACCACAAAAATTACTA
30036498 TAATAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (23 bp):
TGTAATACCACAAAAATTACTAC
Found at i:30043471 original size:51 final size:50
Alignment explanation
Indices: 30043342--30043481 Score: 158
Period size: 50 Copynumber: 2.8 Consensus size: 50
30043332 AAAGTGAAAG
* * * *
30043342 TGAT-GGTCACGTGTGTAGTATTATGTGCAGGCTATTATGTGTACCGGAA
1 TGATAGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAA
* *
30043391 TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAG-A
1 TGATAGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAA
* ** *
30043440 TAGTTTTTGTCACGTGTGTAGTACTATGTGCAGACTACTATG
1 T-G-ATAGGTCACGTGTGTAGTACTATGTGCAGGCTACTATG
30043482 TGAACCGAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
49 6 0.08
50 38 0.50
51 32 0.42
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (50 bp):
TGATAGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAA
Found at i:30049002 original size:45 final size:45
Alignment explanation
Indices: 30048952--30049037 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
30048942 TGAACCGAAA
* * * *
30048952 ATCATTGATTAGTACGATGGTTGCTATGTGCAGATTCCACCAGAC
1 ATCATTGATGAATAAGATGGTTGCTATGTGCAGAATCCACCAGAC
* *
30048997 ATCATTGATGAATAAGGTGGTTGCTATGTGCTGAATCCACC
1 ATCATTGATGAATAAGATGGTTGCTATGTGCAGAATCCACC
30049038 GAGTATATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
ATCATTGATGAATAAGATGGTTGCTATGTGCAGAATCCACCAGAC
Found at i:30067403 original size:51 final size:51
Alignment explanation
Indices: 30067327--30067603 Score: 437
Period size: 51 Copynumber: 5.3 Consensus size: 51
30067317 ACTTCTAATC
*
30067327 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
30067378 AGTGACAAGTGATAAGTGGCAGCTTTAGCTACACTTATCTAATCAGTAACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC---T--G-ATC-AGTGACA
30067436 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
30067487 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * *
30067538 AGTAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACC
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
30067589 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
30067604 ATATGATCTG
Statistics
Matches: 210, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
51 158 0.75
52 2 0.01
53 1 0.00
54 1 0.00
55 1 0.00
57 2 0.01
58 45 0.21
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:30067511 original size:109 final size:102
Alignment explanation
Indices: 30067327--30067603 Score: 437
Period size: 109 Copynumber: 2.6 Consensus size: 102
30067317 ACTTCTAATC
*
30067327 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACAAGTGACAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
30067392 AGTGGCAGCTTTAGCTACACTTATCTAATCAGTAACAAGTGACA
66 AGTGGCAGCTTTAGCTACACTTATC---T--G-AAC-AGTGACA
30067436 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
* *
30067501 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGCAGCTTTAGCTACACTTATCTGAACAGTGACA
* * *
30067538 AGTAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACCAGTGACAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
30067603 A
66 A
30067604 ATATGATCTG
Statistics
Matches: 162, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
102 70 0.43
103 2 0.01
104 1 0.01
106 1 0.01
109 88 0.54
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (102 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
AGTGGCAGCTTTAGCTACACTTATCTGAACAGTGACA
Found at i:30077261 original size:20 final size:19
Alignment explanation
Indices: 30077236--30077273 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
30077226 TAAATTATAC
30077236 TTTAAAATAATATTGATAAA
1 TTTAAAA-AATATTGATAAA
*
30077256 TTTAAAACATATTGATAA
1 TTTAAAAAATATTGATAA
30077274 TAAAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (19 bp):
TTTAAAAAATATTGATAAA
Found at i:30077636 original size:28 final size:28
Alignment explanation
Indices: 30077579--30077636 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
30077569 TACAAACGAA
* *
30077579 AATAATAATTTATTACATTTTAAACTAT
1 AATAATAATTTATAACATTTTAAACAAT
30077607 AATAATAAATTTA-AACATTTTTAAA-AAT
1 AATAAT-AATTTATAACA-TTTTAAACAAT
30077635 AA
1 AA
30077637 ATATTACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.41
Consensus pattern (28 bp):
AATAATAATTTATAACATTTTAAACAAT
Found at i:30077639 original size:29 final size:27
Alignment explanation
Indices: 30077578--30077639 Score: 63
Period size: 29 Copynumber: 2.2 Consensus size: 27
30077568 ATACAAACGA
* *
30077578 AAATAATAATTTATTACATTTTAAACT
1 AAATAATAATTTATAACATTTTAAAAT
30077605 ATAATAATAAATTTA-AACATTTTTAAAAAT
1 A-AATAAT-AATTTATAACA-TTTT-AAAAT
30077635 AAATA
1 AAATA
30077640 TTACAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 9 0.31
29 14 0.48
30 5 0.17
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAATAATTTATAACATTTTAAAAT
Found at i:30078684 original size:20 final size:20
Alignment explanation
Indices: 30078648--30078687 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
30078638 TAAAATTTTA
*
30078648 TATTTCCTTTTTGTTTTTCT
1 TATTTCCTTTTTATTTTTCT
30078668 TATTT-CTTTTTCATTTTTCT
1 TATTTCCTTTTT-ATTTTTCT
30078688 ACCGTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.07, C:0.15, G:0.03, T:0.75
Consensus pattern (20 bp):
TATTTCCTTTTTATTTTTCT
Found at i:30079000 original size:17 final size:18
Alignment explanation
Indices: 30078965--30079003 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
30078955 CATTTATAAA
30078965 TGGGCTTGGCTTGTATTT
1 TGGGCTTGGCTTGTATTT
30078983 TGGGTCTTGG-TT-TATTT
1 TGGG-CTTGGCTTGTATTT
30079000 TGGG
1 TGGG
30079004 GTTAGAGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 6 0.30
19 5 0.25
ACGTcount: A:0.05, C:0.08, G:0.36, T:0.51
Consensus pattern (18 bp):
TGGGCTTGGCTTGTATTT
Found at i:30084448 original size:16 final size:17
Alignment explanation
Indices: 30084429--30084462 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30084419 ATTAGAAAGA
30084429 AATATAAAAAAAT-TTT
1 AATATAAAAAAATATTT
*
30084445 AATATTAAAAAATATTT
1 AATATAAAAAAATATTT
30084462 A
1 A
30084463 TTCAACAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATATAAAAAAATATTT
Found at i:30087562 original size:28 final size:28
Alignment explanation
Indices: 30087499--30087564 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
30087489 TTCTATCTTT
*
30087499 CAAGAATTGGTTGAAGCCGTGGGTCAAA
1 CAAGAATTGGTTGAAGCAGTGGGTCAAA
* *
30087527 CAATAATTGGTTGAAGTAGTGGGTCAAA
1 CAAGAATTGGTTGAAGCAGTGGGTCAAA
*
30087555 CAGGAATTGG
1 CAAGAATTGG
30087565 AATGTGAAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.11, G:0.32, T:0.24
Consensus pattern (28 bp):
CAAGAATTGGTTGAAGCAGTGGGTCAAA
Found at i:30093062 original size:14 final size:15
Alignment explanation
Indices: 30093033--30093066 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
30093023 TTTTCTACAT
*
30093033 AATTTACATTAACAA
1 AATTTACATCAACAA
30093048 AATTTAC-TCAACAA
1 AATTTACATCAACAA
30093062 AATTT
1 AATTT
30093067 TTAAGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (15 bp):
AATTTACATCAACAA
Found at i:30093280 original size:18 final size:18
Alignment explanation
Indices: 30093259--30093295 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30093249 TTGGTTTTCG
* *
30093259 AATTCGAATAACTTGAAT
1 AATTCAAATAAATTGAAT
30093277 AATTCAAATAAATTGAAT
1 AATTCAAATAAATTGAAT
30093295 A
1 A
30093296 TCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (18 bp):
AATTCAAATAAATTGAAT
Found at i:30102356 original size:15 final size:16
Alignment explanation
Indices: 30102336--30102376 Score: 59
Period size: 14 Copynumber: 2.6 Consensus size: 16
30102326 TTAGATCCTT
30102336 TCAAAAAAAATC-AAA
1 TCAAAAAAAATCAAAA
30102351 TC-AAAAAAATCAAAA
1 TCAAAAAAAATCAAAA
30102366 TCAAAATAAAA
1 TCAAAA-AAAA
30102377 AATGAGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.39
15 7 0.30
16 3 0.13
17 4 0.17
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (16 bp):
TCAAAAAAAATCAAAA
Found at i:30102450 original size:22 final size:23
Alignment explanation
Indices: 30102368--30102459 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 23
30102358 AATCAAAATC
*
30102368 AAAATAAAAAATGAGAGAAAAAGA
1 AAAATAAAAAATGACA-AAAAAGA
* * *
30102392 AAGAAGAAAAGAAAGA-AAAAAGGA
1 AA-AATAAAA-AATGACAAAAAAGA
* * **
30102416 AAAAT-ATAGATGA-AAAAAATC
1 AAAATAAAAAATGACAAAAAAGA
30102437 AAAATAAAAAATGACAAAAAAGA
1 AAAATAAAAAATGACAAAAAAGA
30102460 GTAAAGGAAA
Statistics
Matches: 50, Mismatches: 14, Indels: 9
0.68 0.19 0.12
Matches are distributed among these distances:
21 13 0.26
22 8 0.16
23 8 0.16
24 10 0.20
25 7 0.14
26 4 0.08
ACGTcount: A:0.74, C:0.02, G:0.15, T:0.09
Consensus pattern (23 bp):
AAAATAAAAAATGACAAAAAAGA
Found at i:30104661 original size:49 final size:48
Alignment explanation
Indices: 30104608--30104957 Score: 192
Period size: 49 Copynumber: 7.1 Consensus size: 48
30104598 CCACATCGAT
* *
30104608 GAATCTTGCCTCCCCAACATTGCAGCTAAAAGATTAAATCTACAGCAGC
1 GAATCTTGCCTCCCTAACATTGCAG-TAAAAGATTAAAGCTACAGCAGC
* * ** * * * * *
30104657 GAATCTTACCT--CTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGT
1 GAATCTTGCCTCCCTAACATTGCAGT--AAAAGATTAAAGCTACAGCAGC
* *
30104705 GAATCTTGCCTCCTTGACATTGCAGTTAAAAGATTAAAGCTACAGCAGC
1 GAATCTTGCCTCCCTAACATTGCAG-TAAAAGATTAAAGCTACAGCAGC
* * ** ** ** * * * *
30104754 GAATCTTACCT--TTGGCGGTGCAGTGGAGCAGATTAAAGCCACATCGGT
1 GAATCTTGCCTCCCTAACATTGCAGT--AAAAGATTAAAGCTACAGCAGC
* *
30104802 GAATCTTGCCTCCCTGACATTGCAGTTAAAAGATTAAAGCTAGAGCAGC
1 GAATCTTGCCTCCCTAACATTGCAG-TAAAAGATTAAAGCTACAGCAGC
* * * * * * * *
30104851 GAATCTTACCTCCC-AGGCAGTGCAATGGAACAA-ATTAAAGCCACAACGGT
1 GAATCTTGCCTCCCTA-ACATTGC-A-GTAA-AAGATTAAAGCTACAGCAGC
* *
30104901 GAATCTTGCTTCCAC-GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGC
1 GAATCTTGCCTCC-CTAACATTGCAG-T-AAAAGATTAAAGCTACAGCAGC
30104951 GAATCTT
1 GAATCTT
30104958 ACTTCCCTGG
Statistics
Matches: 219, Mismatches: 64, Indels: 35
0.69 0.20 0.11
Matches are distributed among these distances:
46 2 0.01
47 17 0.08
48 53 0.24
49 73 0.33
50 68 0.31
51 6 0.03
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (48 bp):
GAATCTTGCCTCCCTAACATTGCAGTAAAAGATTAAAGCTACAGCAGC
Found at i:30104708 original size:97 final size:98
Alignment explanation
Indices: 30104482--30105095 Score: 732
Period size: 97 Copynumber: 6.2 Consensus size: 98
30104472 AGGCGATGCC
* * * *
30104482 GTGGAACAGATTAAAGCCACATTGGTGAATATTGCTTCCCCGACATTGCAGTTAAAAAGGTTAAA
1 GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCCTCCCCGACATTGCAGTTAAAAAGATTAAA
* * * *
30104547 GCCACAGCGGCGAATCCTACTTCTCTGGCGGTGCA
66 GCTACAGCAGCGAATCTTAC--CTCTAGCGGTGCA
* * * *
30104582 GTGGAGCAGATTAAAGCCACATCGATGAATCTTGCCTCCCCAACATTGCAGCT-AAAAGATTAAA
1 GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCCTCCCCGACATTGCAGTTAAAAAGATTAAA
*
30104646 TCTACAGCAGCGAATCTTACCTCTAGCGGTGCA
66 GCTACAGCAGCGAATCTTACCTCTAGCGGTGCA
**
30104679 GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCCTCCTTGACATTGCAGTT-AAAAGATTAAA
1 GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCCTCCCCGACATTGCAGTTAAAAAGATTAAA
* *
30104743 GCTACAGCAGCGAATCTTACCTTTGGCGGTGCA
66 GCTACAGCAGCGAATCTTACCTCTAGCGGTGCA
* *
30104776 GTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCCTCCCTGACATTGCAGTT-AAAAGATTAAA
1 GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCCTCCCCGACATTGCAGTTAAAAAGATTAAA
* * *
30104840 GCTAGAGCAGCGAATCTTACCTCCCAGGCAGTGCA
66 GCTACAGCAGCGAATCTTACCT-CTA-GCGGTGCA
* * * * *
30104875 ATGGAACAAATTAAAGCCACAACGGTGAATCTTGCTTCCACGACATTGCAGTTAAAAAGATTAAA
1 GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCCTCCCCGACATTGCAGTTAAAAAGATTAAA
* * * *
30104940 GCTACAGCAGCGAATCTTACTTCCCTGGTGATGACA
66 GCTACAGCAGCGAATCTTAC--CTCTAGCGGTG-CA
* * * * *
30104976 -TGGAATAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGATGAAA
1 GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCCTCCCCGACATTGCAGTTAAAAAGATTAAA
* ** * * * *
30105040 GCTACAACAATGAATCTTACTTCCCAGGCGATGTA
66 GCTACAGCAGCGAATCTTACCT-CTA-GCGGTGCA
30105075 GTGGAACAGATTAAAGCCACA
1 GTGGAACAGATTAAAGCCACA
30105096 ATAGCGGATC
Statistics
Matches: 445, Mismatches: 60, Indels: 18
0.85 0.11 0.03
Matches are distributed among these distances:
97 183 0.41
99 81 0.18
100 177 0.40
101 3 0.01
102 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (98 bp):
GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCCTCCCCGACATTGCAGTTAAAAAGATTAAA
GCTACAGCAGCGAATCTTACCTCTAGCGGTGCA
Found at i:30104938 original size:50 final size:49
Alignment explanation
Indices: 30104489--30105157 Score: 244
Period size: 50 Copynumber: 13.5 Consensus size: 49
30104479 GCCGTGGAAC
** * * *
30104489 AGATTAAAGCCACATTGGTGAATATTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAGCGGCGAATCTTGCTT-CCCGACATTGCAGTGAAAA
* * * * * ** * **
30104539 AGGTTAAAGCCACAGCGGCGAATCCTACTTCTCTGGCGGTGCAGTGGAGC
1 AGATTAAAGCCACAGCGGCGAATCTTGCTTC-CCGACATTGCAGTGAAAA
* ** * *
30104589 AGATTAAAGCCACATCGATGAATCTTGCCTCCCCAACATTGCAGCT--AAA
1 AGATTAAAGCCACAGCGGCGAATCTTG-CTTCCCGACATTGCAG-TGAAAA
* * * * * ** ** * *
30104638 AGATTAAATCTACAGCAGCGAATCTTACCTCTAG-CGGTGCAGTGGAAC
1 AGATTAAAGCCACAGCGGCGAATCTTGCTTCCCGACATTGCAGTGAAAA
* * * * *
30104686 AGATTAAAGCCACATCGGTGAATCTTGCCTCCTTGACATTGCAGT-TAAA
1 AGATTAAAGCCACAGCGGCGAATCTTGCTTCC-CGACATTGCAGTGAAAA
* * * * * ** * **
30104735 AGATTAAAGCTACAGCAGCGAATCTTACCTT--TGGCGGTGCAGTGGAGC
1 AGATTAAAGCCACAGCGGCGAATCTT-GCTTCCCGACATTGCAGTGAAAA
* * * *
30104783 AGATTAAAGCCACATCGGTGAATCTTGCCTCCCTGACATTGCAGT-TAAA
1 AGATTAAAGCCACAGCGGCGAATCTTGCTTCCC-GACATTGCAGTGAAAA
* * * * * * * * *
30104832 AGATTAAAGCTAGAGCAGCGAATCTTACCTCCCAGGCAGTGCAATGGAACA
1 AGATTAAAGCCACAGCGGCGAATCTTGCTTCCC-GACATTGCAGT-GAAAA
* * *
30104883 A-ATTAAAGCCACAACGGTGAATCTTGCTTCCACGACATTGCAGTTAAAA
1 AGATTAAAGCCACAGCGGCGAATCTTGCTTCC-CGACATTGCAGTGAAAA
* * * ** * *
30104932 AGATTAAAGCTACAGCAGCGAATCTTACTTCCCTGGTGA-TGACA-TGGAAT
1 AGATTAAAGCCACAGCGGCGAATCTTGCTTCCC--GACATTG-CAGTGAAAA
** * * *
30104982 AGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAA
1 AGATTAAAGCCACAGCGGCGAATCTTGCTT-CCCGACATTGCAGTGAAAA
* * * *** * * * * *
30105032 AGATGAAAGCTACAACAATGAATCTTACTTCCCAGGCGA-TGTAGTGGAAC
1 AGATTAAAGCCACAGCGGCGAATCTTGCTTCCC-GAC-ATTGCAGTGAAAA
*** * * * * *
30105082 AGATTAAAGCCACAATAGCGGATCATGTTTCCCCGACATTTCAGTAAAAA
1 AGATTAAAGCCACAGCGGCGAATCTTGCTT-CCCGACATTGCAGTGAAAA
* **
30105132 ATATTAAAGCCACAATGGCGAATCTT
1 AGATTAAAGCCACAGCGGCGAATCTT
30105158 ACTTTCCAAA
Statistics
Matches: 436, Mismatches: 157, Indels: 52
0.68 0.24 0.08
Matches are distributed among these distances:
46 1 0.00
47 17 0.04
48 52 0.12
49 95 0.22
50 252 0.58
51 19 0.04
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (49 bp):
AGATTAAAGCCACAGCGGCGAATCTTGCTTCCCGACATTGCAGTGAAAA
Found at i:30104988 original size:100 final size:100
Alignment explanation
Indices: 30104457--30105161 Score: 786
Period size: 100 Copynumber: 7.1 Consensus size: 100
30104447 GTGAAATCAA
* * * * *
30104457 GAATCTTATCTCCCCAGGCGATGCCGTGGAACAGATTAAAGCCACATTGGTGAATATTGCTTCCC
1 GAATCTTA-CTTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCC
* * *
30104522 CGACATTGCAGTTAAAAAGGTTAAAGCCACAGCGGC
65 CGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGC
* * * * * *
30104558 GAATCCTACTTCTCTGGCGGTGCAGTGGAGCAGATTAAAGCCACATCGATGAATCTTGCCTCCCC
1 GAATCTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* * *
30104623 AACATTGCAGCT-AAAAGATTAAATCTACAGCAGC
66 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGC
* * * * **
30104657 GAATCTTAC--CTCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCCTCCTT
1 GAATCTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
30104720 GACATTGCAGTT-AAAAGATTAAAGCTACAGCAGC
66 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGC
* * *
30104754 GAATCTTACCTT---TGGCGGTGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCCTCCC
1 GAATCTTA-CTTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCC
* *
30104816 TGACATTGCAGTT-AAAAGATTAAAGCTAGAGCAGC
65 CGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGC
* * * * * *
30104851 GAATCTTACCTCCCAGGC-AGTGCAATGGAACAAATTAAAGCCACAACGGTGAATCTTGCTTCCA
1 GAATCTTACTTCCCTGGCGA-TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCC
30104915 CGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGC
65 CGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGC
* * *
30104951 GAATCTTACTTCCCTGGTGATGACA-TGGAATAGATTAAAGCCACATTGGTGAATCTTGCTTCCC
1 GAATCTTACTTCCCTGGCGATG-CAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCC
* * * **
30105015 CGACATTGTAGTTAAAAAGATGAAAGCTACAACAAT
65 CGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGC
* * * * *
30105051 GAATCTTACTTCCCAGGCGATGTAGTGGAACAGATTAAAGCCACAATAGCG-G-ATCATGTTTCC
1 GAATCTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCCAC-ATCG-GTGAATCTTGCTTCC
* * * * ***
30105114 CCGACATTTCAGTAAAAAATATTAAAGCCACAATGGC
64 CCGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGC
30105151 GAATCTTACTT
1 GAATCTTACTT
30105162 TCCAAAAGTT
Statistics
Matches: 520, Mismatches: 71, Indels: 27
0.84 0.11 0.04
Matches are distributed among these distances:
96 2 0.00
97 177 0.34
98 1 0.00
99 80 0.15
100 245 0.47
101 14 0.03
102 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (100 bp):
GAATCTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGC
Found at i:30106707 original size:17 final size:19
Alignment explanation
Indices: 30106687--30106721 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
30106677 TTTTATGCTA
30106687 ATATTAT-TT-TTATTTTT
1 ATATTATATTGTTATTTTT
30106704 ATATTATATTGTTATTTT
1 ATATTATATTGTTATTTT
30106722 ATTTAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (19 bp):
ATATTATATTGTTATTTTT
Found at i:30123106 original size:37 final size:37
Alignment explanation
Indices: 30123048--30123166 Score: 130
Period size: 37 Copynumber: 3.2 Consensus size: 37
30123038 TTCCAACTGA
*
30123048 AACACACCAATTGCTTGTAAGAGCTAATCCACCCAAT
1 AACACACCAATTGCTTATAAGAGCTAATCCACCCAAT
* * * *
30123085 AACACACCAAATGCTCATAAGAGCTAATCCACTCGAT
1 AACACACCAATTGCTTATAAGAGCTAATCCACCCAAT
* ** * * * *
30123122 CACACGTCAATTGCTTAGAACAGCTAATCCAACCAAA
1 AACACACCAATTGCTTATAAGAGCTAATCCACCCAAT
30123159 AACACACC
1 AACACACC
30123167 CAAACAGGGA
Statistics
Matches: 63, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.40, C:0.31, G:0.10, T:0.18
Consensus pattern (37 bp):
AACACACCAATTGCTTATAAGAGCTAATCCACCCAAT
Found at i:30127749 original size:21 final size:21
Alignment explanation
Indices: 30127725--30127767 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
30127715 TACCTTTCTA
* *
30127725 AAGTTAAAAGTCAAAATCATT
1 AAGTTAAAAGGCAAAACCATT
30127746 AAGTTAAAAGGCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
30127767 A
1 A
30127768 TATTGTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACCATT
Found at i:30128162 original size:22 final size:22
Alignment explanation
Indices: 30128081--30128167 Score: 72
Period size: 22 Copynumber: 3.9 Consensus size: 22
30128071 TATTGGTTAA
30128081 TAATTAAGTGACATAACTTTTGA-
1 TAATTAAGTGAC--AACTTTTGAT
* * * *
30128104 -ATTTAAGAGACAACTTGTCACT
1 TAATTAAGTGACAACTTTTGA-T
*
30128126 ATAAATAA-TGACAACTTTTGAT
1 -TAATTAAGTGACAACTTTTGAT
30128148 TAATTAAGTGACAACTTTTG
1 TAATTAAGTGACAACTTTTG
30128168 GTTACTTATA
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
20 7 0.14
21 6 0.12
22 22 0.45
23 10 0.20
24 4 0.08
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (22 bp):
TAATTAAGTGACAACTTTTGAT
Found at i:30128654 original size:18 final size:18
Alignment explanation
Indices: 30128628--30128662 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30128618 TTAGTGTTCT
*
30128628 AAATTACATAATATATAA
1 AAATAACATAATATATAA
30128646 AAATAACATAATATATA
1 AAATAACATAATATATA
30128663 GTATTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:30130090 original size:115 final size:116
Alignment explanation
Indices: 30129737--30130137 Score: 390
Period size: 114 Copynumber: 3.5 Consensus size: 116
30129727 CTTCAAGCGC
* * * *
30129737 CGCAAAATCTCTTAACCAAATCACAGCGTTTTGGTCTTGATCTATACTAGAATTAGTGGCAATTA
1 CGCAACATATCTTAACCAAAACACAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCAATTA
** * *
30129802 TGGGAATACGCCGCTAAAGCA-AGTATTAGCGAC--GCTAGGTGAAAAGT-T
66 TGACAAAACGCCGCTAAAGCATAGTATTAGCGGCGTGCTA-GTGAAAAGTGT
* * * * *
30129850 CCGCAAACA-ATCTTAACGAAAACACATCGTTTTGATCTTGATGTATATTAGAATT-GTGGCATT
1 -CGC-AACATATCTTAACCAAAACACAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCAAT
* * *
30129913 TATGACAAAACGCCGCTAAAGCATAGTCTTAGCGGCGTG-TAGTGAGAAA-CGC
64 TATGACAAAACGCCGCTAAAGCATAGTATTAGCGGCGTGCTAGTGA-AAAGTGT
* * * * ****
30129965 CGCAAAATATCTTAACCAAAACGCAGGGTTTTAGTCTTGATGTATACTAGAATTAGTGGCGCCGA
1 CGCAACATATCTTAACCAAAACACAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCAATTA
* * * *
30130030 CGATAAAACGCCACTAAAGTATAGTATTAGCGGCGTGCT-GTGAAAAGTGT
66 TGACAAAACGCCGCTAAAGCATAGTATTAGCGGCGTGCTAGTGAAAAGTGT
* * * * * *
30130080 TGCAACATATCTTAACCAATACGCAGAG-TTTGGTCTTGAGGTACACTAGAATTAGTGG
1 CGCAACATATCTTAACCAAAACACAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGG
30130138 TGCTTATTGG
Statistics
Matches: 235, Mismatches: 42, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
113 30 0.13
114 128 0.54
115 75 0.32
116 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (116 bp):
CGCAACATATCTTAACCAAAACACAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCAATTA
TGACAAAACGCCGCTAAAGCATAGTATTAGCGGCGTGCTAGTGAAAAGTGT
Found at i:30130232 original size:75 final size:75
Alignment explanation
Indices: 30130081--30130226 Score: 166
Period size: 76 Copynumber: 1.9 Consensus size: 75
30130071 GAAAAGTGTT
* * * * * **
30130081 GCAACATATCTTAACCAATACGCAGAGTTTGGTCTTGAGGTACACTAGAATTAGTGGTGCTTATT
1 GCAAAATATCTTAACCAAAACGCAGAGTTTAGTCTTGAGGTACAATAGAATTAGTGGCGCTTAAA
30130146 GGAAAGCGCC
66 GGAAAGCGCC
* * * * **
30130156 GCAAAATATCTTAACCAAAACGCAGCGTGTTAGTCTTTATGTATAATAGCGTTAGTGGCGCTTAA
1 GCAAAATATCTTAACCAAAACGCAGAGT-TTAGTCTTGAGGTACAATAGAATTAGTGGCGCTTAA
30130221 AGGAAA
65 AGGAAA
30130227 TGCCGCTAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
75 25 0.44
76 32 0.56
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (75 bp):
GCAAAATATCTTAACCAAAACGCAGAGTTTAGTCTTGAGGTACAATAGAATTAGTGGCGCTTAAA
GGAAAGCGCC
Found at i:30130319 original size:189 final size:189
Alignment explanation
Indices: 30129958--30130332 Score: 486
Period size: 189 Copynumber: 2.0 Consensus size: 189
30129948 CGTGTAGTGA
* * *
30129958 GAAACGCCGCAAAATATCTTAACCAAAACGCAGGGTTTTAGTCTTGATGTATACTAGAATTAGTG
1 GAAACGCCGCAAAATATCTTAACCAAAACGCAGCGTGTTAGTCTTGATGTATAATAGAATTAGTG
* * * * **
30130023 GCGCCGACGATAAAACGCCACTAAAGTATAGTATTAGCGGCGTGCTGTGAAAAGTGTTGCAACAT
66 GCGCCGACAAGAAAACGCCACTAAAGCATAGTATTAGCGGCGTGCTGTGAAAAGCGCCGCAACAT
* * *
30130088 ATCTTAACCAATACGCAGAGTTTGGTCTTGAGGTACACTAGAATTAGTGGTGCTTATTG
131 ATCTTAACCAAAACACAGAGTTTGGTCTTGAGGTACACTAGAATTAGTGGCGCTTATTG
* **
30130147 GAAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTGTTAGTCTTTATGTATAATAGCGTTAGT
1 GAAA-CGCCGCAAAATATCTTAACCAAAACGCAGCGTGTTAGTCTTGATGTATAATAGAATTAGT
** * * * * *
30130212 GGCGCTTA-AAGGAAATGCCGCTAAAGCATAGTATTAGCGGCGT-TTAGTGAAAAGCGCCGTAA-
65 GGCGCCGACAAGAAAACGCCACTAAAGCATAGTATTAGCGGCGTGCT-GTGAAAAGCGCCGCAAC
* *
30130274 AGTATCTTAACCAAAACACAGAGTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTA
129 A-TATCTTAACCAAAACACAGAGTTTGGTCTTGAGGTACACTAGAATTAGTGGCGCTTA
30130333 CGCGAAGACG
Statistics
Matches: 159, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
188 2 0.01
189 97 0.61
190 60 0.38
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (189 bp):
GAAACGCCGCAAAATATCTTAACCAAAACGCAGCGTGTTAGTCTTGATGTATAATAGAATTAGTG
GCGCCGACAAGAAAACGCCACTAAAGCATAGTATTAGCGGCGTGCTGTGAAAAGCGCCGCAACAT
ATCTTAACCAAAACACAGAGTTTGGTCTTGAGGTACACTAGAATTAGTGGCGCTTATTG
Found at i:30130777 original size:25 final size:25
Alignment explanation
Indices: 30130749--30130816 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
30130739 AGGGTTGAGG
* *
30130749 TTTAAGGTTTATAGTTTATAAATGT
1 TTTAAGATTTAGAGTTTATAAATGT
* * *
30130774 TTTATGATTTAGGGTTTATATATGT
1 TTTAAGATTTAGAGTTTATAAATGT
* * *
30130799 TTTATGATTCAGGGTTTA
1 TTTAAGATTTAGAGTTTA
30130817 AGGAATATGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.26, C:0.01, G:0.19, T:0.53
Consensus pattern (25 bp):
TTTAAGATTTAGAGTTTATAAATGT
Found at i:30130893 original size:21 final size:22
Alignment explanation
Indices: 30130864--30130909 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
30130854 GCAATAGTTG
* *
30130864 GGGTCTAAGGTTTAAGTGTTTA
1 GGGTCTAAGGGTTAAGGGTTTA
*
30130886 GGGT-TAAGGGTTAGGGGTTTA
1 GGGTCTAAGGGTTAAGGGTTTA
30130907 GGG
1 GGG
30130910 GTTTATAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.02, G:0.43, T:0.35
Consensus pattern (22 bp):
GGGTCTAAGGGTTAAGGGTTTA
Found at i:30131067 original size:14 final size:15
Alignment explanation
Indices: 30131033--30131070 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
30131023 TAAGGGTCAT
*
30131033 GGTTTATGATTTATA
1 GGTTTAAGATTTATA
*
30131048 GGTTTAAGATTTA-G
1 GGTTTAAGATTTATA
30131062 GGTTTAAGA
1 GGTTTAAGA
30131071 GATAAGAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (15 bp):
GGTTTAAGATTTATA
Found at i:30131120 original size:21 final size:21
Alignment explanation
Indices: 30131094--30131156 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
30131084 ATGTCAATTT
30131094 AGGGTTAAAGGTTTAAGGTTA
1 AGGGTTAAAGGTTTAAGGTTA
* *
30131115 AGGGTTAAGGGTTTAAGAGTTT
1 AGGGTTAAAGGTTTAAG-GTTA
* * *
30131137 AGGGTAAAAAGTTTACGGTT
1 AGGGTTAAAGGTTTAAGGTT
30131157 GATGGTTTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 19 0.54
22 16 0.46
ACGTcount: A:0.32, C:0.02, G:0.33, T:0.33
Consensus pattern (21 bp):
AGGGTTAAAGGTTTAAGGTTA
Found at i:30138113 original size:21 final size:21
Alignment explanation
Indices: 30138087--30138137 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
30138077 CTACAACTTA
* *
30138087 AAGCAGGGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
* *
30138108 AAGCAGAGGCTGTAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
30138129 AAGCAGAGG
1 AAGCAGAGG
30138138 TTCAAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.49, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:30138625 original size:42 final size:42
Alignment explanation
Indices: 30138573--30138676 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
30138563 AAAACACCGT
* *
30138573 TAAAGAACATGTTCTTTAGCGACGAATATTCACAAA-CGCCAC
1 TAAAGAACATGTTCTTTAGCGACGAATAAT-AAAAATCGCCAC
* * **
30138615 TAAAGAACATGATCTTTAGCGGCGCTTAATAAAAATCGCCAC
1 TAAAGAACATGTTCTTTAGCGACGAATAATAAAAATCGCCAC
*
30138657 TAAAGATCATGTTCTTTAGC
1 TAAAGAACATGTTCTTTAGC
30138677 AGCGTTTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 4 0.08
42 49 0.92
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (42 bp):
TAAAGAACATGTTCTTTAGCGACGAATAATAAAAATCGCCAC
Found at i:30142495 original size:9 final size:10
Alignment explanation
Indices: 30142472--30142509 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
30142462 ATTAAGGTTA
30142472 GTTAATTATG
1 GTTAATTATG
30142482 GTTAATTA-G
1 GTTAATTATG
*
30142491 GTTAATTATA
1 GTTAATTATG
*
30142501 ATTAATTAT
1 GTTAATTAT
30142510 AAATTAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (10 bp):
GTTAATTATG
Found at i:30142816 original size:25 final size:26
Alignment explanation
Indices: 30142784--30142853 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 26
30142774 TTGTAAATTC
*
30142784 TCTGAAGCTAGTGTTAGCAGCATCG-
1 TCTGAAGCTAGTGTTAGCAACATCGA
* * *
30142809 TACT-AAGCTAGTGATAGCAACCTTGA
1 T-CTGAAGCTAGTGTTAGCAACATCGA
30142835 TCTGAAGCTAGTGTTAGCA
1 TCTGAAGCTAGTGTTAGCA
30142854 CCCTGAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 20 0.54
26 17 0.46
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (26 bp):
TCTGAAGCTAGTGTTAGCAACATCGA
Found at i:30143024 original size:158 final size:158
Alignment explanation
Indices: 30142722--30143026 Score: 350
Period size: 158 Copynumber: 1.9 Consensus size: 158
30142712 TTTAAAAATA
* * * ** *
30142722 AAATAGGTGTTGTGATCAGTGATTAATTCGATGGATTAAGATTCAATGTATGTTGTAAATTCTCT
1 AAATAGGTGTTATGATCAGGGATTAATTCGATGGATTAAGATCCAACATATGTTGCAAATTCTCT
* * * *
30142787 GAAGCTAGTGTTAGCAGCATCGTACTAAGCTAGTGATAGCAACCTTGATCTGAAGCTAGTGTTAG
66 AAAGCTAGTGTTAACAGCATCGAACTAAGCTAGTGATAGCAACCTTGATCCGAAGCTAGTGTTAG
*
30142852 CACCCTGAATATGTCAGCTTGTATAAAC
131 CACCCTCAATATGTCAGCTTGTATAAAC
* * * **
30142880 AAATGGGTGTTATGATCGGGGATTAATTCGAT-GACTTGAGATCCAACATATGTTGCGGATTCTC
1 AAATAGGTGTTATGATCAGGGATTAATTCGATGGA-TTAAGATCCAACATATGTTGCAAATTCTC
* *
30142944 TAAAGCTAGT-TTGAACAGCATTGAACCT-AGCTAGTGTTAGCAAACC-TGATCCGAAGCTAGTG
65 TAAAGCTAGTGTT-AACAGCATCGAA-CTAAGCTAGTGATAGC-AACCTTGATCCGAAGCTAGTG
* *
30143006 TTAGTA-GCTCAATAATGTCAG
127 TTAGCACCCTCAAT-ATGTCAG
30143027 TATATGTAAT
Statistics
Matches: 122, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
157 9 0.07
158 107 0.88
159 6 0.05
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (158 bp):
AAATAGGTGTTATGATCAGGGATTAATTCGATGGATTAAGATCCAACATATGTTGCAAATTCTCT
AAAGCTAGTGTTAACAGCATCGAACTAAGCTAGTGATAGCAACCTTGATCCGAAGCTAGTGTTAG
CACCCTCAATATGTCAGCTTGTATAAAC
Found at i:30158215 original size:43 final size:43
Alignment explanation
Indices: 30158149--30158257 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
30158139 GCGTCGCTAA
* * * *
30158149 CTTTAGCGGTGCTTTACCCACAAACGCCGCTAAAAACTAGGAC
1 CTTTAGCGGCGCTTTACCAACAAACGCCGCTAAAAACCAAGAC
* * * *
30158192 CTTTAGCGGCGCTTTGCCAACAAATGCTGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTACCAACAAACGCCGCTAAAAACCAAGAC
*
30158235 CTTTAGCGGCGCTTTTCCAACAA
1 CTTTAGCGGCGCTTTACCAACAA
30158258 CCTTCAGCGG
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTACCAACAAACGCCGCTAAAAACCAAGAC
Found at i:30158327 original size:43 final size:43
Alignment explanation
Indices: 30158293--30158379 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
30158283 CGCCGCGAGT
* * *
30158293 GACCAGGACCTTTAGTGGCGCTTTCCCCGAAAACGCCACTAAA
1 GACCAGGACCTTTAGTAGCGCTTTCCCCAAAAACGCCACGAAA
* *
30158336 GACCAGGACCTTTAGTAGCGCTTTCTCCAAAAACGCCACTAAA
1 GACCAGGACCTTTAGTAGCGCTTTCCCCAAAAACGCCACGAAA
30158379 G
1 G
30158380 GTCACGAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.20
Consensus pattern (43 bp):
GACCAGGACCTTTAGTAGCGCTTTCCCCAAAAACGCCACGAAA
Found at i:30159318 original size:23 final size:23
Alignment explanation
Indices: 30159284--30159700 Score: 242
Period size: 23 Copynumber: 18.3 Consensus size: 23
30159274 AATAGAAAGT
*
30159284 AGCACTTTAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* *
30159307 AGCGA-TAAAACA-TCTCAATTTGC
1 AGC-ACTTAAACACT-TCAATTTAC
30159330 AGCAAC-TAAACACTTCAATTTAC
1 AGC-ACTTAAACACTTCAATTTAC
30159353 AGCACTTAAACA-TATCAA-TTATC
1 AGCACTTAAACACT-TCAATTTA-C
* * * *
30159376 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
30159398 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
*
30159421 AGCAAC-TAAACACTTCAATTCAC
1 AGC-ACTTAAACACTTCAATTTAC
* * *
30159444 AGCATTTAAACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
30159467 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
30159490 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
30159512 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
30159535 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
30159558 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
30159581 AGCATTTAAACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
30159604 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * **
30159627 AACATTTATACACCACAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
30159649 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
30159672 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
30159695 AGCACT
1 AGCACT
30159701 ATCAAATTTC
Statistics
Matches: 298, Mismatches: 66, Indels: 60
0.70 0.16 0.14
Matches are distributed among these distances:
22 53 0.18
23 240 0.81
24 5 0.02
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTAC
Found at i:30159485 original size:91 final size:90
Alignment explanation
Indices: 30159284--30159487 Score: 259
Period size: 91 Copynumber: 2.2 Consensus size: 90
30159274 AATAGAAAGT
* *
30159284 AGCACTTTAACACTTCAATTTACAGCGATAAAACATCTCAATTTGCAGCAACTAAACACTTCAAT
1 AGCACTTAAACA-TTCAA-TTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAAT
* *
30159349 TTACAGCACTTAAACATATCAATTATC
64 TCACAGCACTTAAACATATAAATTATC
* * * *
30159376 AACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATT
1 AGCACTTAAACA-TTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATT
*
30159441 CACAGCATTTAAACACT-TAAATT-TGC
65 CACAGCACTTAAACA-TATAAATTAT-C
30159467 AGCACTTAAACATATCAATTA
1 AGCACTTAAACAT-TCAATTA
30159488 ACAACATTTA
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
90 1 0.01
91 81 0.84
92 14 0.15
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (90 bp):
AGCACTTAAACATTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTC
ACAGCACTTAAACATATAAATTATC
Found at i:30159498 original size:114 final size:114
Alignment explanation
Indices: 30159336--30159592 Score: 442
Period size: 114 Copynumber: 2.3 Consensus size: 114
30159326 TTGCAGCAAC
*
30159336 TAAACACTTCAATTTACAGCACTTAAACATATCAATTATCAACATTTATACACCTCAATTACAGC
1 TAAACACTTCAATTTACAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
*
30159401 GATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTCACAGCATT
66 GATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTCACAGCACT
* *
30159450 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
1 TAAACACTTCAATTTACAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
* **
30159515 GATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACT
66 GATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTCACAGCACT
*
30159564 TAAACACTTCAATTTACAGCATTTAAACA
1 TAAACACTTCAATTTACAGCACTTAAACA
30159593 CTTAAATTTG
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 133 1.00
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.29
Consensus pattern (114 bp):
TAAACACTTCAATTTACAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
GATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTCACAGCACT
Done.