Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 72 of 335
Found at i:24578071 original size:6 final size:6
Alignment explanation
Indices: 24578062--24578260 Score: 89
Period size: 6 Copynumber: 32.7 Consensus size: 6
24578052 TTCGGTTTCA
* *
24578062 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTT ATTTCG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
*** ** * * * * *
24578110 ATTACA ATTTTG AAACACTCACTA ATTCTG ATTTAG ATTTAG ATTTTA
1 ATTTTG ATTTTG ----A-T-TTTG ATTTTG ATTTTG ATTTTG ATTTTG
* * * * * * * * * *
24578158 ATTTCG ATTTCG ATTTAG ATTTCG ATCTCG ATTTAG AATTAG AATTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* * **
24578206 ATTTTG ATTTTG ATTTGG ATTTTG ATTTAG -GGTT- ATTTTG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
24578252 ATTTT- ATTT
1 ATTTTG ATTT
24578261 GTTATTAATG
Statistics
Matches: 148, Mismatches: 37, Indels: 17
0.73 0.18 0.08
Matches are distributed among these distances:
5 7 0.05
6 136 0.92
7 1 0.01
8 1 0.01
10 1 0.01
11 1 0.01
12 1 0.01
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.55
Consensus pattern (6 bp):
ATTTTG
Found at i:24578765 original size:15 final size:15
Alignment explanation
Indices: 24578740--24578785 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
24578730 TGAAGAAAAC
24578740 ATGTCTAGTAGTGAT
1 ATGTCTAGTAGTGAT
* *
24578755 GTGTCTGGTAGTGAT
1 ATGTCTAGTAGTGAT
24578770 ATGTCTAGTAGTGAT
1 ATGTCTAGTAGTGAT
24578785 A
1 A
24578786 GTGATGCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.24, C:0.07, G:0.30, T:0.39
Consensus pattern (15 bp):
ATGTCTAGTAGTGAT
Found at i:24580492 original size:40 final size:40
Alignment explanation
Indices: 24580437--24580579 Score: 232
Period size: 40 Copynumber: 3.5 Consensus size: 40
24580427 TTAGTAAATG
* * *
24580437 TTTTTTAATATGCATGCACTGATTGTTGGCGTGTTGACTA
1 TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGCCTA
24580477 TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGCCTA
1 TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGCCTA
*
24580517 TTTTTTAATATGCATGCAGTGATTGTTGATGTGTTGCCTA
1 TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGCCTA
*
24580557 TTTTTTTAATATGTATGCAGTGA
1 -TTTTTTAATATGCATGCAGTGA
24580580 CTATTTTTTT
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 76 0.78
41 21 0.22
ACGTcount: A:0.20, C:0.10, G:0.22, T:0.48
Consensus pattern (40 bp):
TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGCCTA
Found at i:24581043 original size:20 final size:20
Alignment explanation
Indices: 24581018--24581058 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
24581008 AGGGGCACAC
24581018 GCCCGTGTAGCCTGGGACAT
1 GCCCGTGTAGCCTGGGACAT
*
24581038 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTAGCCTGGGACAT
24581058 G
1 G
24581059 GCCATGAGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.29, G:0.39, T:0.20
Consensus pattern (20 bp):
GCCCGTGTAGCCTGGGACAT
Found at i:24584504 original size:38 final size:38
Alignment explanation
Indices: 24584453--24584576 Score: 153
Period size: 38 Copynumber: 3.3 Consensus size: 38
24584443 GTTAGCCATG
*
24584453 TATACCAGCAACCATGTATAACATTTATTAAGCAACAA
1 TATACCAGCAACCATGTATAACATATATTAAGCAACAA
* *
24584491 TATACCAGCAACCATGTATAACATATGTTAAGCAACAG
1 TATACCAGCAACCATGTATAACATATATTAAGCAACAA
* * * *
24584529 TATACCAGTAGCCATGTATACCA-ACA-TAAGCAACAA
1 TATACCAGCAACCATGTATAACATATATTAAGCAACAA
* *
24584565 TTTACTAGCAAC
1 TATACCAGCAAC
24584577 AAAATTACAA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
36 17 0.23
37 1 0.01
38 55 0.75
ACGTcount: A:0.43, C:0.23, G:0.10, T:0.24
Consensus pattern (38 bp):
TATACCAGCAACCATGTATAACATATATTAAGCAACAA
Found at i:24585598 original size:39 final size:40
Alignment explanation
Indices: 24585549--24585796 Score: 121
Period size: 41 Copynumber: 6.1 Consensus size: 40
24585539 GCAAAAAATT
24585549 TAAAATACAGAGCAATAGCGGCGTTTTACAAAAAAAC-CC-C
1 TAAAA-ACAGAGCAATAGCGGCGTTTTA-AAAAAAACGCCAC
* * ***
24585589 TAAAAACAGAGCATTAGCGGCGCTTTAGGTAAAACGCCAC
1 TAAAAACAGAGCAATAGCGGCGTTTTAAAAAAAACGCCAC
* * * *
24585629 TAAAAACCAGAGCAGTAGCGGCGCTTTT-GATAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCG-TTTTAAAAAAAACGCCAC
* * * *** *
24585670 TAAAAACCAGACCATTAGTGGCGCTTTT-GGTAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCG-TTTTAAAAAAAACGCCAC
* * * *** *
24585711 TAAAACCAGGGCATTAGCGGCGCTTTT-GGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCG-TTTTAAAAAAAACGCCAC
* * ** *
24585751 TAAAAACCAGGGCATTAGCGGCGCTTTT-AGTAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCG-TTTTAAAAAAAACGCCAC
24585792 TAAAA
1 TAAAA
24585797 GTCATATAAC
Statistics
Matches: 184, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
38 5 0.03
39 22 0.12
40 48 0.26
41 106 0.58
42 3 0.02
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.19
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGTTTTAAAAAAAACGCCAC
Found at i:24585648 original size:41 final size:41
Alignment explanation
Indices: 24585581--24585796 Score: 323
Period size: 41 Copynumber: 5.4 Consensus size: 41
24585571 GTTTTACAAA
*
24585581 AAAAC-CC-CTAAAAA-CAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* * *
24585619 AAAACGCCACTAAAAACCAGAGCAGTAGCGGCGCTTTTGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
24585660 AAAACGCCGCTAAAAACCAGACCATTAGTGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
*
24585701 AAAACGCCGCT-AAAACCAGGGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
24585741 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTAGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
24585782 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
24585797 GTCATATAAC
Statistics
Matches: 162, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
38 5 0.03
39 2 0.01
40 44 0.27
41 111 0.69
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:24585737 original size:81 final size:81
Alignment explanation
Indices: 24585581--24585796 Score: 321
Period size: 81 Copynumber: 2.7 Consensus size: 81
24585571 GTTTTACAAA
* *
24585581 AAAAC-CC-CTAAAAA-CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCT-AAAACCAGAGCA
24585643 GTAGCGGCGCTTTTGAT
65 GTAGCGGCGCTTTTGAT
* * * *
24585660 AAAACGCCGCTAAAAACCAGACCATTAGTGGCGCTTTTGGTAAAACGCCGCTAAAACCAGGGCAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAACCAGAGCAG
*
24585725 TAGCGGCGCTTTTGGT
66 TAGCGGCGCTTTTGAT
* *
24585741 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTAGTAAAACGCCGCTAAAA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
24585797 GTCATATAAC
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 5 0.04
80 2 0.02
81 85 0.69
82 31 0.25
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.19
Consensus pattern (81 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAACCAGAGCAG
TAGCGGCGCTTTTGAT
Found at i:24586006 original size:33 final size:33
Alignment explanation
Indices: 24585968--24586031 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
24585958 GTTTAAGGTT
24585968 TATGGTTTAAGATATATGATTTAGGGTTTAAAC
1 TATGGTTTAAGATATATGATTTAGGGTTTAAAC
*
24586001 TATGGTTTAAGATATATGGTTTAGGGTTTAA
1 TATGGTTTAAGATATATGATTTAGGGTTTAA
24586032 GGTTTAGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (33 bp):
TATGGTTTAAGATATATGATTTAGGGTTTAAAC
Found at i:24586514 original size:8 final size:8
Alignment explanation
Indices: 24586501--24586529 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
24586491 TTATGTTTAG
24586501 TATATTAT
1 TATATTAT
24586509 TATATTAT
1 TATATTAT
24586517 TATATTAT
1 TATATTAT
24586525 TATAT
1 TATAT
24586530 AATAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:24587861 original size:15 final size:15
Alignment explanation
Indices: 24587841--24587897 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
24587831 CGATAAATTT
24587841 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
24587856 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
24587871 ATTGAATTTATATTG
1 ATTGAATTTATATTG
24587886 ATTGAA-TTATAT
1 ATTGAATTTATAT
24587898 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:24588317 original size:21 final size:21
Alignment explanation
Indices: 24588267--24588375 Score: 119
Period size: 21 Copynumber: 5.1 Consensus size: 21
24588257 GGCTTTATCG
* *
24588267 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
24588288 ATTTCAGGCACCTCATGTGTCGT
1 A--TCAGGCACCTCATGTGTCGT
*
24588311 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* *
24588332 ATCAGACACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* * * *
24588353 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
24588374 AT
1 AT
24588376 ACTGATCAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
21 56 0.75
23 19 0.25
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:24589018 original size:53 final size:53
Alignment explanation
Indices: 24588938--24589043 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
24588928 ATGGTAAGTA
24588938 GTTGAAATTTATCTATGAATAAATAATTGCATAATTGTAATTGTTATTATGAT
1 GTTGAAATTTATCTATGAATAAATAATTGCATAATTGTAATTGTTATTATGAT
24588991 GTTGAAATTTATCTATGAATAAATAATTGCATAATTGTAATTGTTATTATGAT
1 GTTGAAATTTATCTATGAATAAATAATTGCATAATTGTAATTGTTATTATGAT
24589044 CTTAAGTATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.45
Consensus pattern (53 bp):
GTTGAAATTTATCTATGAATAAATAATTGCATAATTGTAATTGTTATTATGAT
Found at i:24593491 original size:19 final size:19
Alignment explanation
Indices: 24593468--24593514 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
24593458 ATTTAATCTA
*
24593468 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
24593486 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
24593506 ATTTTTATT
1 ATTTTTATT
24593515 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:24593830 original size:43 final size:42
Alignment explanation
Indices: 24593782--24593901 Score: 186
Period size: 43 Copynumber: 2.8 Consensus size: 42
24593772 TTTTATGACC
*
24593782 TTTAGCGGCGTTTATGGGAAAAGCGACGCTAAAGGTCGCGGCT
1 TTTAGCGGCGTTTGTGGGAAAAGCG-CGCTAAAGGTCGCGGCT
* *
24593825 TTTAGCGGCGTTTGTGAGAAAAGTGCAGCTAAAGGTCGCGGCT
1 TTTAGCGGCGTTTGTGGGAAAAGCGC-GCTAAAGGTCGCGGCT
24593868 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCG-CGCTAAAG
24593902 ATCATGACCT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
42 1 0.01
43 68 0.97
44 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.35, T:0.24
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCGCTAAAGGTCGCGGCT
Found at i:24593915 original size:43 final size:43
Alignment explanation
Indices: 24593778--24593923 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 43
24593768 AAAATTTTAT
* * *
24593778 GACCTTTAGCGGCGTTTATGGGAAAAGCGACGCTAAAGGTCGC
1 GACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAC
* * * * * *
24593821 GGCTTTTAGCGGCGTTTGTGAGAAAAGTGCAGCTAAAGGTCGC
1 GACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAC
* * * *
24593864 GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAT
1 GACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAC
*
24593907 GACCTTTAGCGACGTTT
1 GACCTTTAGCGGCGTTT
24593924 TTTGTGGCGC
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (43 bp):
GACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAC
Found at i:24596428 original size:2 final size:2
Alignment explanation
Indices: 24596421--24596458 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
24596411 TCATTCATAA
24596421 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24596459 TAACTTTTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24597950 original size:31 final size:31
Alignment explanation
Indices: 24597915--24598048 Score: 115
Period size: 31 Copynumber: 4.1 Consensus size: 31
24597905 ATTTAATGTA
* *
24597915 TAAATATATATGTAAAATTTTAATTGTGGTT
1 TAAATATACATGTAAAAATTTAATTGTGGTT
* * *
24597946 TAAATATACATTTAAAAATTTAATTTTGATTTAATGTA
1 TAAATATACATGTAAAAATTTAA--TTG---T--GGTT
* *
24597984 TAAATATATATGTAAAATTTTAATTGTGGTT
1 TAAATATACATGTAAAAATTTAATTGTGGTT
* * *
24598015 TAAATATACATTTAAAAATTTAATTTTGATT
1 TAAATATACATGTAAAAATTTAATTGTGGTT
24598046 TAA
1 TAA
24598049 TCATACACAT
Statistics
Matches: 81, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
31 51 0.63
33 4 0.05
36 4 0.05
38 22 0.27
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (31 bp):
TAAATATACATGTAAAAATTTAATTGTGGTT
Found at i:24597974 original size:69 final size:69
Alignment explanation
Indices: 24597898--24598049 Score: 304
Period size: 69 Copynumber: 2.2 Consensus size: 69
24597888 ATTATATATG
24597898 AATTTTGATTTAATGTATAAATATATATGTAAAATTTTAATTGTGGTTTAAATATACATTTAAAA
1 AATTTTGATTTAATGTATAAATATATATGTAAAATTTTAATTGTGGTTTAAATATACATTTAAAA
24597963 ATTT
66 ATTT
24597967 AATTTTGATTTAATGTATAAATATATATGTAAAATTTTAATTGTGGTTTAAATATACATTTAAAA
1 AATTTTGATTTAATGTATAAATATATATGTAAAATTTTAATTGTGGTTTAAATATACATTTAAAA
24598032 ATTT
66 ATTT
24598036 AATTTTGATTTAAT
1 AATTTTGATTTAAT
24598050 CATACACATT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 83 1.00
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (69 bp):
AATTTTGATTTAATGTATAAATATATATGTAAAATTTTAATTGTGGTTTAAATATACATTTAAAA
ATTT
Found at i:24598055 original size:31 final size:31
Alignment explanation
Indices: 24597984--24598065 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
24597974 ATTTAATGTA
* * * *
24597984 TAAATATATATGTAAAATTTTAATTGTGGTT
1 TAAATATACATTTAAAAATTTAATTGTGATT
*
24598015 TAAATATACATTTAAAAATTTAATTTTGATT
1 TAAATATACATTTAAAAATTTAATTGTGATT
*
24598046 TAATCATACACATTTAAAAA
1 TAA--ATATACATTTAAAAA
24598066 AATAAATATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 29 0.67
33 14 0.33
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (31 bp):
TAAATATACATTTAAAAATTTAATTGTGATT
Found at i:24599540 original size:3 final size:3
Alignment explanation
Indices: 24599532--24599562 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
24599522 TAGTTTCTCT
*
24599532 TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
24599563 GAAGAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:24600250 original size:4 final size:4
Alignment explanation
Indices: 24600241--24600289 Score: 89
Period size: 4 Copynumber: 12.2 Consensus size: 4
24600231 TTGGACATAC
*
24600241 GTAT GTAT GTAT GTAT GTAT GTAT TTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
24600289 G
1 G
24600290 AGATATATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
GTAT
Found at i:24601280 original size:2 final size:2
Alignment explanation
Indices: 24601273--24601300 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24601263 TTTGGCCTTT
24601273 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24601301 ATAATAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24603394 original size:131 final size:130
Alignment explanation
Indices: 24603061--24603596 Score: 535
Period size: 132 Copynumber: 4.1 Consensus size: 130
24603051 TTTTTTAGAG
* * * *
24603061 TTTTTAAGAAACATGAGG-GAAATTCTAAAGGGGATGTTCGATTATTTTAAACTAAC-AGGAAAT
1 TTTTTAA-AAACAT-AGGTGAAATTCTAAA-GGGA-CTTCGATTACTTTGAACAAACGA-GAAAT
* * * * * ** *
24603124 TGCAAACCAGCATGATAGGGTACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTG
61 TGCAACCCAGCACGATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTA
*
24603189 GA-GA
126 AAGGA
* * * * *
24603193 GTTTTTAGAAAACATAAGTGAAATTCAAAAGGGACCTTCAACTATTTTGAACAAACGAGAAATT-
1 -TTTTTA-AAAACATAGGTGAAATTCTAAAGGGA-CTTCGATTACTTTGAACAAACGAGAAATTG
* * *
24603257 CTAACCCAGCACGATAGGGCATGATTCCGCGAATTGTCAAATATTGAACATCGCCTTCG-TTTAA
63 C-AACCCAGCACGATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAA
24603321 AGGA
127 AGGA
* *
24603325 TTTTTAAAAGACATAGGTGAAATTCTAAAGGGACATTCGATTACTTTGAGCAAACGAGAAATTAC
1 TTTTTAAAA-ACATAGGTGAAATTCTAAAGGGAC-TTCGATTACTTTGAACAAACGAGAAATTGC
* * * * * *
24603390 AACCCAACAC-ATTATGGCACGATCCCGCGAATTGCCAAGTATCGAATATCGCCTCCGTTTTAAA
64 AACCCAGCACGA-TAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAA
24603454 GGA
128 GGA
* * ** *
24603457 TTTATAAAAGACATGGGTGAAATTCTAAAGGGATCTTCGATTACTTTGGGCAAATGAGAAATTGC
1 TTTTTAAAA-ACATAGGTGAAATTCTAAAGGGA-CTTCGATTACTTTGAACAAACGAGAAATTGC
* * * * *
24603522 AACCCAGCACGTTAGGGCACGATTCCTCGAATTGCCAAATATTGGATATCGCCTTCGTTTTAAAG
64 AACCCAGCACGATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAG
*
24603587 AA
129 GA
*
24603589 TTCTTAAA
1 TTTTTAAA
24603597 TAATTGTGAA
Statistics
Matches: 339, Mismatches: 52, Indels: 25
0.81 0.12 0.06
Matches are distributed among these distances:
130 5 0.01
131 102 0.30
132 207 0.61
133 24 0.07
134 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (130 bp):
TTTTTAAAAACATAGGTGAAATTCTAAAGGGACTTCGATTACTTTGAACAAACGAGAAATTGCAA
CCCAGCACGATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGGA
Found at i:24604813 original size:2 final size:2
Alignment explanation
Indices: 24604765--24604798 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
24604755 TAAAACATGT
24604765 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24604799 GTTTAAGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24610046 original size:20 final size:20
Alignment explanation
Indices: 24610021--24610060 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24610011 AATATGGGTA
* *
24610021 AATTATATAGATATTCATTT
1 AATTATATAAAAATTCATTT
24610041 AATTATATAAAAATTCATTT
1 AATTATATAAAAATTCATTT
24610061 TAGGCAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (20 bp):
AATTATATAAAAATTCATTT
Found at i:24611445 original size:12 final size:13
Alignment explanation
Indices: 24611428--24611456 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
24611418 GTTAAGATTG
24611428 ATTTAATAT-TTA
1 ATTTAATATATTA
24611440 ATTTAATATATTA
1 ATTTAATATATTA
24611453 ATTT
1 ATTT
24611457 TGATTTGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTAATATATTA
Found at i:24611488 original size:30 final size:31
Alignment explanation
Indices: 24611452--24611517 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
24611442 TTAATATATT
24611452 AATTTTGATT-TGGTGT-AATTGTACACATTA
1 AATTTTGATTATGGT-TCAATTGTACACATTA
* *
24611482 AATTTTGATTATGGTTCAATTGTATACATTT
1 AATTTTGATTATGGTTCAATTGTACACATTA
24611513 AATTT
1 AATTT
24611518 AATAAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 11 0.34
31 21 0.66
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.50
Consensus pattern (31 bp):
AATTTTGATTATGGTTCAATTGTACACATTA
Found at i:24615871 original size:36 final size:36
Alignment explanation
Indices: 24615786--24615859 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
24615776 TTAAATTTAA
24615786 ATTCAAAATATAAATAAATGTAATAAACTTTAAAAC
1 ATTCAAAATATAAATAAATGTAATAAACTTTAAAAC
24615822 ATTCAAAATATAAATAAATGTAATAAACTTTAAAAC
1 ATTCAAAATATAAATAAATGTAATAAACTTTAAAAC
24615858 AT
1 AT
24615860 AGTATCAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (36 bp):
ATTCAAAATATAAATAAATGTAATAAACTTTAAAAC
Found at i:24621284 original size:42 final size:42
Alignment explanation
Indices: 24621201--24621286 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 42
24621191 GAAGCTAAAT
*
24621201 TAGATCCAAAAAACTATGCTTGCAAGGAAAATAGTGTTTGTA
1 TAGATCCAAAAAACTATGCTTGCAAGGAAAATACTGTTTGTA
* *
24621243 TAGATCCAGAAAATTATAG-TTGCAAGGAAAATACTAG-TTGTA
1 TAGATCCAAAAAACTAT-GCTTGCAAGGAAAATACT-GTTTGTA
24621285 TA
1 TA
24621287 AACCCTGGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
42 37 0.95
43 2 0.05
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (42 bp):
TAGATCCAAAAAACTATGCTTGCAAGGAAAATACTGTTTGTA
Found at i:24623723 original size:17 final size:17
Alignment explanation
Indices: 24623703--24623742 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
24623693 GAAATATTTT
24623703 AATATAATTTAATATAA
1 AATATAATTTAATATAA
24623720 AATAT--TTTAATATAA
1 AATATAATTTAATATAA
24623735 AA-ATAATT
1 AATATAATT
24623743 ATATTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.10
15 12 0.57
16 2 0.10
17 5 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATAATTTAATATAA
Found at i:24623792 original size:11 final size:10
Alignment explanation
Indices: 24623739--24623805 Score: 59
Period size: 11 Copynumber: 6.6 Consensus size: 10
24623729 ATATAAAAAT
24623739 AATTATATTAA
1 AATTATATT-A
*
24623750 AAATACTATTA
1 AATTA-TATTA
24623761 AATTATA-T-
1 AATTATATTA
24623769 -ATTATTATTA
1 AATTA-TATTA
24623779 AATTATATTA
1 AATTATATTA
*
24623789 AAATATGATTA
1 AATTAT-ATTA
24623800 AATTAT
1 AATTAT
24623806 TTATTTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
7 4 0.09
8 2 0.04
9 2 0.04
10 12 0.26
11 22 0.48
12 4 0.09
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (10 bp):
AATTATATTA
Found at i:24623802 original size:39 final size:41
Alignment explanation
Indices: 24623739--24623824 Score: 115
Period size: 40 Copynumber: 2.1 Consensus size: 41
24623729 ATATAAAAAT
24623739 AATTATATTAAAAATACTATTAAATTATATA-TTATTATTA
1 AATTATATTAAAAATACTATTAAATTATATATTTATTATTA
* *
24623779 AATTATATT-AAAATA-TGATTAAATTATTTATTTTTTATTA
1 AATTATATTAAAAATACT-ATTAAATTATATATTTATTATTA
*
24623819 ACTTAT
1 AATTAT
24623825 TTTTAATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 18 0.44
40 22 0.54
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.51
Consensus pattern (41 bp):
AATTATATTAAAAATACTATTAAATTATATATTTATTATTA
Found at i:24624043 original size:16 final size:16
Alignment explanation
Indices: 24624022--24624061 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
24624012 TGAATTACTG
* *
24624022 ATTACAGCTCTATTCC
1 ATTACAACTATATTCC
*
24624038 ATTACAACTATATTTC
1 ATTACAACTATATTCC
24624054 ATTACAAC
1 ATTACAAC
24624062 GAACCAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTACAACTATATTCC
Found at i:24624526 original size:21 final size:20
Alignment explanation
Indices: 24624492--24624530 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
24624482 AGGGTTTTTT
24624492 TTTTGGTTAATTTACAAATAA
1 TTTTGGTTAATTTA-AAATAA
**
24624513 TTTTGGTTTTTTTAAAAT
1 TTTTGGTTAATTTAAAAT
24624531 GAAACAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (20 bp):
TTTTGGTTAATTTAAAATAA
Found at i:24624978 original size:30 final size:27
Alignment explanation
Indices: 24624915--24624979 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
24624905 TTTTTTATTT
*
24624915 ATATTATAAAAATATTATTTAATTAAA
1 ATATTATAAAAATATTATTAAATTAAA
* *
24624942 ATATTATAAATTATATTAATTAAAGTTAAG
1 ATATTATAAA-AATATT-ATTAAA-TTAAA
24624972 ATATTATA
1 ATATTATA
24624980 TTATAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 5 0.16
29 5 0.16
30 12 0.38
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
ATATTATAAAAATATTATTAAATTAAA
Found at i:24625176 original size:9 final size:9
Alignment explanation
Indices: 24625131--24625178 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
24625121 TATTAGAGTG
24625131 TATT-ATTA
1 TATTAATTA
24625139 TTATTAATT-
1 -TATTAATTA
24625148 TATTAATT-
1 TATTAATTA
24625156 TA-TAATTTA
1 TATTAA-TTA
24625165 TATTAATTA
1 TATTAATTA
24625174 TATTA
1 TATTA
24625179 TGAGATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
7 3 0.09
8 12 0.34
9 14 0.40
10 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TATTAATTA
Found at i:24625379 original size:31 final size:31
Alignment explanation
Indices: 24625341--24625413 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
24625331 ATTGGAAAAT
* * *
24625341 AGATATTTATTAATTATTATTATTAAGTTA-A
1 AGATATTTATTAATTA-AATAATTAAATTATA
24625372 AGATATTTATTAATTAAATAATTAAATTATA
1 AGATATTTATTAATTAAATAATTAAATTATA
*
24625403 AGATTTTTATT
1 AGATATTTATT
24625414 TGATAAACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 10 0.27
31 27 0.73
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (31 bp):
AGATATTTATTAATTAAATAATTAAATTATA
Found at i:24626105 original size:23 final size:22
Alignment explanation
Indices: 24626078--24626140 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
24626068 TTTGCCAATT
24626078 AGGCACTTTATGTGTCGTATTTC
1 AGGCAC-TTATGTGTCGTATTTC
**
24626101 AGGCACCTCGTGTGTCG--TTTC
1 AGGCA-CTTATGTGTCGTATTTC
24626122 AGGCACTTATGTGTCGTAT
1 AGGCACTTATGTGTCGTAT
24626141 ACTGATCAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 9 0.27
21 9 0.27
22 1 0.03
23 13 0.39
24 1 0.03
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.38
Consensus pattern (22 bp):
AGGCACTTATGTGTCGTATTTC
Found at i:24627672 original size:20 final size:20
Alignment explanation
Indices: 24627634--24627673 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
24627624 ACGCGTGTGA
*
24627634 AAATTATGTATTTAGAATAT
1 AAATTATGTATTTAAAATAT
24627654 AAATT-TGTATTTAAAA-AT
1 AAATTATGTATTTAAAATAT
24627672 AA
1 AA
24627674 CATACAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (20 bp):
AAATTATGTATTTAAAATAT
Found at i:24636924 original size:8 final size:8
Alignment explanation
Indices: 24636906--24636955 Score: 55
Period size: 9 Copynumber: 5.8 Consensus size: 8
24636896 ATTATTAGAG
24636906 TTTATTAAT
1 TTTA-TAAT
24636915 TTTATAATT
1 TTTATAA-T
*
24636924 TATTATATT
1 T-TTATAAT
24636933 TTTATAAT
1 TTTATAAT
24636941 TTTAATAAT
1 TTT-ATAAT
24636950 TTTATA
1 TTTATA
24636956 TAAATTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
8 15 0.42
9 16 0.44
10 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTATAAT
Found at i:24636942 original size:9 final size:9
Alignment explanation
Indices: 24636914--24636974 Score: 63
Period size: 9 Copynumber: 6.7 Consensus size: 9
24636904 AGTTTATTAA
24636914 TTTTATAAT
1 TTTTATAAT
24636923 TTATTAT-AT
1 TT-TTATAAT
24636932 TTTTATAAT
1 TTTTATAAT
*
24636941 TTTAATAAT
1 TTTTATAAT
*
24636950 TTTATATAAA
1 TTT-TATAAT
24636960 TTTTA-ACAT
1 TTTTATA-AT
24636969 TTTTAT
1 TTTTAT
24636975 TATATTTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
8 5 0.12
9 27 0.63
10 11 0.26
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:24636963 original size:11 final size:10
Alignment explanation
Indices: 24636906--24636964 Score: 51
Period size: 9 Copynumber: 6.4 Consensus size: 10
24636896 ATTATTAGAG
24636906 TTTAT-TAA-
1 TTTATATAAT
24636914 TTT-TATAA-
1 TTTATATAAT
24636922 TTTAT-TATAT
1 TTTATATA-AT
24636932 TTT-TATAAT
1 TTTATATAAT
24636941 TTTA-ATAAT
1 TTTATATAAT
24636950 TTTATATAAAT
1 TTTATAT-AAT
24636961 TTTA
1 TTTA
24636965 ACATTTTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
7 1 0.02
8 11 0.26
9 17 0.40
10 7 0.16
11 7 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTATATAAT
Found at i:24636981 original size:19 final size:18
Alignment explanation
Indices: 24636930--24636982 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
24636920 AATTTATTAT
*
24636930 ATTTTTA-TAATTTTAATA
1 ATTTTTATTAATTTTAA-C
*
24636948 ATTTTATATAAATTTTAAC
1 ATTTT-TATTAATTTTAAC
24636967 ATTTTTATTATATTTT
1 ATTTTTATTA-ATTTT
24636983 TCTGTTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 9 0.31
19 12 0.41
20 8 0.28
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTTATTAATTTTAAC
Found at i:24637137 original size:31 final size:31
Alignment explanation
Indices: 24637102--24637168 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
24637092 GACGAAAATT
** *
24637102 ATTAACAAGAAAATTTTAATTGATTATTTTA
1 ATTAACAAGAAAAACTTAATTAATTATTTTA
* *
24637133 ATTAACTATAAAAACTTAATTAATTATTTTA
1 ATTAACAAGAAAAACTTAATTAATTATTTTA
24637164 ATTAA
1 ATTAA
24637169 TAACAATGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (31 bp):
ATTAACAAGAAAAACTTAATTAATTATTTTA
Found at i:24638821 original size:3 final size:3
Alignment explanation
Indices: 24638813--24638867 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
24638803 TATTTTAATT
* *
24638813 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24638861 TTTA TTA
1 -TTA TTA
24638868 GTGTATAGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:24639169 original size:15 final size:15
Alignment explanation
Indices: 24639150--24639185 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24639140 ATTATCTCTA
24639150 ATATATGTATATATT
1 ATATATGTATATATT
* *
24639165 GTATATGTTTATATT
1 ATATATGTATATATT
24639180 ATATAT
1 ATATAT
24639186 ATATTATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
ATATATGTATATATT
Found at i:24645616 original size:16 final size:16
Alignment explanation
Indices: 24645586--24645633 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
24645576 GAAAATTAAT
24645586 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
24645601 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
24645618 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
24645633 A
1 A
24645634 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:24645632 original size:11 final size:11
Alignment explanation
Indices: 24645577--24645647 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
24645567 ATAGCTTAAG
*
24645577 AAAATTAATAT
1 AAAATTAAAAT
24645588 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
24645600 AATAA-T-AATT
1 AA-AATTAAAAT
*
24645610 AAAAAT-AAAT
1 AAAATTAAAAT
24645620 AAAATTAAAAT
1 AAAATTAAAAT
*
24645631 AAACTTAAAAT
1 AAAATTAAAAT
*
24645642 AGAATT
1 AAAATT
24645648 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:24658314 original size:53 final size:53
Alignment explanation
Indices: 24658249--24658355 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
24658239 CCAATTTCTG
24658249 TTTTAATTCATGTTTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
1 TTTTAATTCATG-TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
*
24658302 TTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGGGGTGAGTTGAGCC
1 TTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
24658355 T
1 T
24658356 CGTGACACGC
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
52 5 0.10
53 47 0.90
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (53 bp):
TTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
Found at i:24658407 original size:139 final size:136
Alignment explanation
Indices: 24658114--24658442 Score: 427
Period size: 139 Copynumber: 2.4 Consensus size: 136
24658104 GTATTTTGAT
* * * *
24658114 GTTTTATTTC-TG-TTTTCAAAAATCGATTCATATTGTGAGAGGTGAGTTGAGCCTTTTAATTTT
1 GTTTTAATTCATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTT
* * *
24658177 TTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGCTCACATGCTGAGGTATTTCCA
66 TTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTCCA
*
24658242 ATTTCT
131 ATTTCC
* *
24658248 GTTTTAATTCATGTTTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTTTAATTCA
1 GTTTTAATTCATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATT--
* *
24658312 TGTTTTCAAAAATCAACTCATATTGCAAGGGGTGAGTTGAGCCTC-G-TGACACGCTGAGGTATT
64 T-TTTT-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATT
*
24658375 TTCAATTTCC
127 TCCAATTTCC
*
24658385 GTTTTTCAAGTT-ATGCTTTTCAAAAATCAACTCATATTGCGAGACGTGAGTTGAGCCT
1 G-TTTT-AA-TTCATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
24658443 CAGGGCACGC
Statistics
Matches: 170, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
134 9 0.05
135 41 0.24
136 5 0.03
137 25 0.15
138 9 0.05
139 45 0.26
140 36 0.21
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (136 bp):
GTTTTAATTCATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTT
TTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTCCA
ATTTCC
Found at i:24658495 original size:19 final size:19
Alignment explanation
Indices: 24658460--24658496 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24658450 CGCTGAGGTA
* *
24658460 TTTTCAATTTCTGTTTTTT
1 TTTTCAATTTATATTTTTT
24658479 TTTTCAATTTATATTTTT
1 TTTTCAATTTATATTTTT
24658497 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (19 bp):
TTTTCAATTTATATTTTTT
Found at i:24658528 original size:92 final size:91
Alignment explanation
Indices: 24658314--24658569 Score: 351
Period size: 92 Copynumber: 2.8 Consensus size: 91
24658304 TTAATTCATG
* * *
24658314 TTTTCAAAAATCAACTCATATTGCAAGGGGTGAGTTGAGCCTCGTGACACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGCACGCTGAGGTATTTTCA
* *
24658379 ATTTCCG-----TTTTTCAAGTTATGC
65 ATTTCTGTTTTTTTTTTCAAGTTATAC
*
24658401 TTTTCAAAAATCAACTCATATTGCGAGACGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCA
* *
24658466 ATTTCTGTTTTTTTTTTCAATTTATAT
65 ATTTCTGTTTTTTTTTTCAAGTTATAC
*
24658493 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCGGGGCACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCA
* *
24658558 AATTCTATTTTT
65 ATTTCTGTTTTT
24658570 CCAAAATCAA
Statistics
Matches: 150, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
87 65 0.43
88 1 0.01
92 84 0.56
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (91 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAA
TTTCTGTTTTTTTTTTCAAGTTATAC
Found at i:24658598 original size:73 final size:73
Alignment explanation
Indices: 24658479--24658645 Score: 262
Period size: 73 Copynumber: 2.3 Consensus size: 73
24658469 TCTGTTTTTT
* * * *
24658479 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCGGGGCACG
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
24658544 CTGAGGTA
66 CTGAGGTA
* *
24658552 TTTTCAAATTCTATTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
24658617 CTGAGGTA
66 CTGAGGTA
* *
24658625 ATTTCAATTTCTGTTTTTCAA
1 TTTTCAATTTCTATTTTTCAA
24658646 TTTCTACTTT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 84 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (73 bp):
TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTA
Found at i:24658651 original size:87 final size:87
Alignment explanation
Indices: 24658552--24658733 Score: 310
Period size: 87 Copynumber: 2.1 Consensus size: 87
24658542 CGCTGAGGTA
* * *
24658552 TTTTCAAATTCTATTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAAATTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACG
*
24658617 CTGAGGTAATTTCAATTTCTGT
66 CTGAGGTAATTTCAATTTCTAT
*
24658639 TTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACG
1 TTTTCAAATTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACG
24658704 CTGAGGTAATTTCAATTTCTAT
66 CTGAGGTAATTTCAATTTCTAT
*
24658726 GTTTCAAA
1 TTTTCAAA
24658734 AATCAACTCA
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (87 bp):
TTTTCAAATTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACG
CTGAGGTAATTTCAATTTCTAT
Found at i:24658656 original size:14 final size:14
Alignment explanation
Indices: 24658626--24658659 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24658616 GCTGAGGTAA
**
24658626 TTTCAATTTCTGTT
1 TTTCAATTTCTACT
24658640 TTTCAATTTCTACT
1 TTTCAATTTCTACT
24658654 TTTCAA
1 TTTCAA
24658660 AAATCAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.03, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTACT
Found at i:24658739 original size:160 final size:160
Alignment explanation
Indices: 24658402--24658805 Score: 610
Period size: 160 Copynumber: 2.5 Consensus size: 160
24658392 AAGTTATGCT
*
24658402 TTTCAAAAATCAACTCATATTGCGAGACGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
* *
24658467 TTTCTGTTTTTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGGG
66 TTTCTG-----TTTTTCAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* ** * *
24658532 CCTCGGGGCACGCTGAGGTATTTTCAAATTCTATT
126 CCTCAGAACACGCTGAGGTAATTTCAAATTCTATG
* * *
24658567 TTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
*
24658632 TTTCTGTTTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 TTTCTGTTTTTCAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
24658697 GAACACGCTGAGGTAATTTCAATTTCTATG
131 GAACACGCTGAGGTAATTTCAAATTCTATG
* *
24658727 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCGGGGCACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
* *
24658792 ATTCTATTTTTCAA
66 TTTCTGTTTTTCAA
24658806 AAATTAATTC
Statistics
Matches: 219, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
160 152 0.69
165 67 0.31
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.35
Consensus pattern (160 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
TTTCTGTTTTTCAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
GAACACGCTGAGGTAATTTCAAATTCTATG
Found at i:24658759 original size:73 final size:72
Alignment explanation
Indices: 24658640--24658838 Score: 281
Period size: 73 Copynumber: 2.7 Consensus size: 72
24658630 AATTTCTGTT
24658640 TTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGC
1 TTTCAATTTCTA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGC
24658705 TGAGGTAA
65 TGAGGTAA
* * **
24658713 TTTCAATTTCTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCGGGGCACGC
1 TTTCAATTTCTAT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGC
*
24658778 TGAGGTAT
65 TGAGGTAA
* * * **
24658786 TTTCAAATTCTATTTTTCAAAAATTAATTCATATTGCGAGAAATGAGTTGAGC
1 TTTCAATTTCTA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
24658839 TCAAGATCAC
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
72 1 0.01
73 111 0.98
74 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (72 bp):
TTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCT
GAGGTAA
Found at i:24660757 original size:3 final size:3
Alignment explanation
Indices: 24660751--24660790 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
24660741 TGCTATAATT
24660751 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
24660791 GTGTATAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24661093 original size:15 final size:15
Alignment explanation
Indices: 24661074--24661109 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24661064 ATTATCTCTA
24661074 ATATATGTATATATT
1 ATATATGTATATATT
* *
24661089 GTATATGTTTATATT
1 ATATATGTATATATT
24661104 ATATAT
1 ATATAT
24661110 ATTATTTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
ATATATGTATATATT
Found at i:24661413 original size:20 final size:21
Alignment explanation
Indices: 24661368--24661413 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
24661358 TTACCAATGT
*
24661368 TAGTACATATATTTTATTATA
1 TAGTATATATATTTTATTATA
*
24661389 -CGTATATATATTTT-TTATA
1 TAGTATATATATTTTATTATA
24661408 TAGTAT
1 TAGTAT
24661414 TATTTTCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (21 bp):
TAGTATATATATTTTATTATA
Found at i:24662549 original size:2 final size:2
Alignment explanation
Indices: 24662544--24662580 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
24662534 TTTTATTTTG
24662544 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24662581 GAGATGTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24663574 original size:17 final size:18
Alignment explanation
Indices: 24663541--24663574 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24663531 TTAAATATTT
24663541 TTTAAAAAATATTAATTA
1 TTTAAAAAATATTAATTA
*
24663559 TTTATAAAAT-TTAATT
1 TTTAAAAAATATTAATT
24663575 TGAAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAAAAATATTAATTA
Found at i:24663655 original size:17 final size:19
Alignment explanation
Indices: 24663619--24663675 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
24663609 TAACCATTGC
24663619 AAATTTAAATATATAAAAT
1 AAATTTAAATATATAAAAT
*
24663638 AAATTTCAATA-A-AAAAT
1 AAATTTAAATATATAAAAT
* *
24663655 -AATTT-TATATATAATAT
1 AAATTTAAATATATAAAAT
24663672 AAAT
1 AAAT
24663676 ATTACACAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 3 0.09
16 6 0.19
17 9 0.28
18 4 0.12
19 10 0.31
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATTTAAATATATAAAAT
Found at i:24663883 original size:5 final size:5
Alignment explanation
Indices: 24663867--24663896 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
24663857 AAATTACTAA
24663867 GCCCG AGCCCG GCCCG GCCCG GCCCG GCCC
1 GCCCG -GCCCG GCCCG GCCCG GCCCG GCCC
24663897 ATATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.03, C:0.60, G:0.37, T:0.00
Consensus pattern (5 bp):
GCCCG
Found at i:24663964 original size:26 final size:24
Alignment explanation
Indices: 24663923--24663981 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
24663913 TTATTTTATT
*
24663923 AAATAAA-AAATTTAAAAATATAA
1 AAATAAATATATTTAAAAATATAA
*
24663946 TAAATCAAATATATTTAAAAATATTA
1 -AAAT-AAATATATTTAAAAATATAA
24663972 AAATAAATAT
1 AAATAAATAT
24663982 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.32
25 7 0.23
26 14 0.45
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATAAATATATTTAAAAATATAA
Found at i:24663979 original size:12 final size:12
Alignment explanation
Indices: 24663964--24663992 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
24663954 ATATATTTAA
24663964 AAATATTAAAAT
1 AAATATTAAAAT
24663976 AAATATTAAAAT
1 AAATATTAAAAT
24663988 AAATA
1 AAATA
24663993 AAAATAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATATTAAAAT
Found at i:24663994 original size:21 final size:20
Alignment explanation
Indices: 24663944--24663995 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
24663934 TTAAAAATAT
* *
24663944 AATAAATCAAATATATTTAA
1 AATAAATAAAATAAATTTAA
*
24663964 AA-ATATTAAAATAAATATTAA
1 AATA-AATAAAATAAAT-TTAA
24663985 AATAAATAAAA
1 AATAAATAAAA
24663996 ATAATACTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 1 0.04
20 11 0.44
21 12 0.48
22 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAAATAAAATAAATTTAA
Found at i:24664062 original size:44 final size:42
Alignment explanation
Indices: 24663976--24664100 Score: 105
Period size: 44 Copynumber: 2.9 Consensus size: 42
24663966 ATATTAAAAT
* * * *
24663976 AAATATTAAAATAAATAAAAATAATACTAAAACAA-T-TCTTAA
1 AAATA-TAAAATAATTAAAAATAA-AATAAAAAAATTATATTAA
* *
24664018 AACA-ATACAAA-AATTAACAATATAATAAAAAATAGTTATATTAA
1 AA-ATATA-AAATAATTAAAAATAAAATAAAAAA-A-TTATATTAA
*
24664062 AAATTTAAAATAATTAAAAATAAAATAAAAAAATTATAT
1 AAATATAAAATAATTAAAAATAAAATAAAAAAATTATAT
24664101 ATTAATATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
40 7 0.11
41 12 0.18
42 12 0.18
43 7 0.11
44 28 0.42
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.29
Consensus pattern (42 bp):
AAATATAAAATAATTAAAAATAAAATAAAAAAATTATATTAA
Found at i:24664087 original size:15 final size:16
Alignment explanation
Indices: 24664057--24664097 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
24664047 AAATAGTTAT
24664057 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
24664074 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
24664089 A--AAAAATTA
1 ATTAAAAATTA
24664098 TATATTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 5 0.22
14 2 0.09
15 8 0.35
17 8 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:24665862 original size:21 final size:20
Alignment explanation
Indices: 24665837--24665898 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
24665827 TTTCTTTCAG
*
24665837 ATTTTAAGTTTTGAGTTTTA
1 ATTTTAAGTTTTGAATTTTA
*
24665857 TATTTTAGGTTTTTGAATTTTA
1 -ATTTTAAG-TTTTGAATTTTA
* *
24665879 AATTTAGAGTTTTAAATTTT
1 ATTTTA-AGTTTTGAATTTT
24665899 TTTATATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 22 0.65
22 12 0.35
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (20 bp):
ATTTTAAGTTTTGAATTTTA
Found at i:24665877 original size:22 final size:21
Alignment explanation
Indices: 24665837--24665891 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
24665827 TTTCTTTCAG
* *
24665837 ATTTTAAG-TTTTGAGTTTTA
1 ATTTTAGGTTTTTGAATTTTA
24665857 TATTTTAGGTTTTTGAATTTTA
1 -ATTTTAGGTTTTTGAATTTTA
*
24665879 AATTTAGAGTTTT
1 ATTTTAG-GTTTT
24665892 AAATTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (21 bp):
ATTTTAGGTTTTTGAATTTTA
Found at i:24666330 original size:6 final size:6
Alignment explanation
Indices: 24666319--24666351 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
24666309 ACATTCTTAT
24666319 ATTTTG ATTTTG ATTTT- ATTTTG ATTTT- ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
24666352 CATCTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (6 bp):
ATTTTG
Found at i:24666340 original size:17 final size:16
Alignment explanation
Indices: 24666318--24666351 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
24666308 AACATTCTTA
24666318 TATTTTGATTTTGATTT
1 TATTTTGATTTT-ATTT
24666335 TATTTTGATTTTATTT
1 TATTTTGATTTTATTT
24666351 T
1 T
24666352 CATCTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (16 bp):
TATTTTGATTTTATTT
Found at i:24666341 original size:11 final size:11
Alignment explanation
Indices: 24666319--24666361 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
24666309 ACATTCTTAT
24666319 ATTTTGATTTTG
1 ATTTT-ATTTTG
24666331 ATTTTATTTTG
1 ATTTTATTTTG
*
24666342 ATTTTATTTTC
1 ATTTTATTTTG
*
24666353 ATCTTATTT
1 ATTTTATTT
24666362 ATTTTAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 24 0.83
12 5 0.17
ACGTcount: A:0.19, C:0.05, G:0.07, T:0.70
Consensus pattern (11 bp):
ATTTTATTTTG
Found at i:24666621 original size:22 final size:23
Alignment explanation
Indices: 24666588--24666638 Score: 54
Period size: 22 Copynumber: 2.2 Consensus size: 23
24666578 TATTTCTTTA
24666588 AAATTCATAAATATA-AT-AAATT
1 AAATTCATAAAT-TACATAAAATT
24666610 AAATT-ATAAAATTACATAAAATT
1 AAATTCAT-AAATTACATAAAATT
24666633 ATAATT
1 A-AATT
24666639 TTGATTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 4 0.16
22 11 0.44
23 6 0.24
24 4 0.16
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATTCATAAATTACATAAAATT
Found at i:24668092 original size:43 final size:43
Alignment explanation
Indices: 24667993--24668196 Score: 360
Period size: 42 Copynumber: 4.8 Consensus size: 43
24667983 TTTATTGGAA
*
24667993 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTT-TGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
24668035 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
24668078 AAAAGCGCCGCTAAA-GTCAAGGCTTTTAGCGGCGTTTGT-GG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
24668119 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
24668162 TAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
24668197 CTTTTTTTAC
Statistics
Matches: 156, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
41 17 0.11
42 85 0.54
43 54 0.35
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:24668306 original size:31 final size:31
Alignment explanation
Indices: 24668271--24668351 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
24668261 CTTCCTGCAT
* *
24668271 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
24668302 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
24668333 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
24668352 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:24668600 original size:21 final size:21
Alignment explanation
Indices: 24668576--24668621 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
24668566 GCTCGTGCCT
*
24668576 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
24668597 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
24668618 CTGC
1 CTGC
24668622 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:24674272 original size:9 final size:9
Alignment explanation
Indices: 24674258--24674510 Score: 179
Period size: 9 Copynumber: 27.6 Consensus size: 9
24674248 TATTTAAGTA
24674258 TTATGTAAG
1 TTATGTAAG
*
24674267 TTATGTAAT
1 TTATGTAAG
*
24674276 TTATGATATG
1 TTATG-TAAG
* * *
24674286 ATATAT-AT
1 TTATGTAAG
*
24674294 TTATGTAAA
1 TTATGTAAG
* *
24674303 TTATAT-AT
1 TTATGTAAG
*
24674311 TTATCTAAG
1 TTATGTAAG
*
24674320 TTATATAAG
1 TTATGTAAG
24674329 TTATGTAAG
1 TTATGTAAG
*
24674338 TTATGTAAA
1 TTATGTAAG
*
24674347 TTATGATATAAAA
1 TTATG---T-AAG
*
24674360 TATATTTAAG
1 T-TATGTAAG
24674370 TATTATGTAAG
1 --TTATGTAAG
24674381 TTATGTAAG
1 TTATGTAAG
* *
24674390 TTATAT-AT
1 TTATGTAAG
*
24674398 TTATCTAAG
1 TTATGTAAG
*
24674407 TTATCTAAG
1 TTATGTAAG
*
24674416 TTATATAAG
1 TTATGTAAG
*
24674425 TTATGTATG
1 TTATGTAAG
*
24674434 TTATATAAG
1 TTATGTAAG
24674443 TTATGTAAG
1 TTATGTAAG
*
24674452 TTATGTATG
1 TTATGTAAG
*
24674461 TTATATAAG
1 TTATGTAAG
24674470 TTATGTAAG
1 TTATGTAAG
* *
24674479 TTATATATG
1 TTATGTAAG
*
24674488 TTATATAAG
1 TTATGTAAG
*
24674497 TTATGTAAA
1 TTATGTAAG
24674506 TTATG
1 TTATG
24674511 ATATCAAATA
Statistics
Matches: 194, Mismatches: 39, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
8 16 0.08
9 154 0.79
10 7 0.04
11 8 0.04
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:24674368 original size:114 final size:114
Alignment explanation
Indices: 24674234--24674458 Score: 319
Period size: 114 Copynumber: 2.0 Consensus size: 114
24674224 ACTAGTTATG
* * * *
24674234 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
24674298 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 CTAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
24674348 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATCT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATCT
* * *
24674413 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTATGTA
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTA
24674459 TGTTATATAA
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.18
114 76 0.78
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATCT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:24674635 original size:15 final size:15
Alignment explanation
Indices: 24674615--24674670 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
24674605 AAGTAGCGGG
24674615 ATTAAATAATATTTA
1 ATTAAATAATATTTA
24674630 ATTAAATAATATTT-
1 ATTAAATAATATTTA
24674644 A-TAAA-AACTATTTTA
1 ATTAAATAA-TA-TTTA
24674659 ATTAAATAATAT
1 ATTAAATAATAT
24674671 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:24674875 original size:24 final size:24
Alignment explanation
Indices: 24674847--24674914 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
24674837 ACTTAAATGG
24674847 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
* *
24674871 TAAAATGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
*
24674895 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
24674915 CAATAATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.03
24 36 0.95
25 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Found at i:24675620 original size:21 final size:20
Alignment explanation
Indices: 24675594--24675649 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 20
24675584 CTCTTCATAC
24675594 TTAAGTTGAATCAAATAATAA
1 TTAAGTTGAA-CAAATAATAA
*
24675615 TTAAGTTGAAC-CA-AATAA
1 TTAAGTTGAACAAATAATAA
24675633 TTAAGTTGAACCAAATA
1 TTAAGTTGAA-CAAATA
24675650 TTTAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 15 0.50
19 2 0.07
20 2 0.07
21 11 0.37
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (20 bp):
TTAAGTTGAACAAATAATAA
Found at i:24675633 original size:18 final size:18
Alignment explanation
Indices: 24675610--24675654 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
24675600 TGAATCAAAT
24675610 AATAATTAAGTTGAACCA
1 AATAATTAAGTTGAACCA
24675628 AATAATTAAGTTGAACCA
1 AATAATTAAGTTGAACCA
*
24675646 AATATTTAA
1 AATAATTAA
24675655 AATTAATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AATAATTAAGTTGAACCA
Found at i:24679411 original size:136 final size:137
Alignment explanation
Indices: 24679179--24679452 Score: 514
Period size: 136 Copynumber: 2.0 Consensus size: 137
24679169 GCCCATTCAA
* *
24679179 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
24679244 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACATATGCAAGCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
24679308 CATTTGG
131 CATTTGG
24679315 GTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
*
24679380 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
24679445 CATTTGG
131 CATTTGG
24679452 G
1 G
24679453 GAGACTACTC
Statistics
Matches: 134, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 112 0.84
137 22 0.16
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
GTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
CATTTGG
Found at i:24681268 original size:26 final size:26
Alignment explanation
Indices: 24681232--24681367 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
24681222 CATGATATTC
24681232 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
24681258 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
24681284 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
24681310 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
24681336 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
24681362 TTATCA
1 TTATCA
24681368 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:24681949 original size:28 final size:28
Alignment explanation
Indices: 24681917--24681973 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
24681907 TTCATAACAT
24681917 TCAGAAATTGAACTTTGTACAAATCAAC
1 TCAGAAATTGAACTTTGTACAAATCAAC
*
24681945 TCAGAAATTGAACTTTGTACGAATCAAC
1 TCAGAAATTGAACTTTGTACAAATCAAC
24681973 T
1 T
24681974 AACCTTGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (28 bp):
TCAGAAATTGAACTTTGTACAAATCAAC
Found at i:24683536 original size:18 final size:18
Alignment explanation
Indices: 24683513--24683562 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
24683503 TTACACCCTA
24683513 AATATATATTATAAACTT
1 AATATATATTATAAACTT
* **
24683531 AATATATATTACAAGTTT
1 AATATATATTATAAACTT
24683549 AATATATATATATA
1 AATATATAT-TATA
24683563 TAACAAGGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (18 bp):
AATATATATTATAAACTT
Found at i:24683917 original size:41 final size:41
Alignment explanation
Indices: 24683872--24684060 Score: 274
Period size: 41 Copynumber: 4.6 Consensus size: 41
24683862 TTACTTTTTT
*
24683872 GCGGCGTTTTTGCAAAAGCGCCGCTAAAACCTATACCTATA
1 GCGGCGTTTTTGCAAAAGCGCCGCTAAAACCTCTACCTATA
* *
24683913 GCGGCGTTTTTGCAAAAGCGCCTCTAAAACATCTACCTATA
1 GCGGCGTTTTTGCAAAAGCGCCGCTAAAACCTCTACCTATA
* *
24683954 GCGACGTTTTTGCAAAAACGCCGCTAAAACCTC-ACCTATA
1 GCGGCGTTTTTGCAAAAGCGCCGCTAAAACCTCTACCTATA
* * *
24683994 GCAGCGTTTTT-AAAGAAGCGCCGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTGCAA-AAGCGCCGCTAAAACCTCTACCTATA
*
24684035 GCGGCGTTTTTCCAAAAGCGCCGCTA
1 GCGGCGTTTTTGCAAAAGCGCCGCTA
24684061 TTGTTCAGTT
Statistics
Matches: 132, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 2 0.02
40 33 0.25
41 95 0.72
42 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (41 bp):
GCGGCGTTTTTGCAAAAGCGCCGCTAAAACCTCTACCTATA
Found at i:24684021 original size:81 final size:82
Alignment explanation
Indices: 24683876--24684060 Score: 266
Period size: 81 Copynumber: 2.3 Consensus size: 82
24683866 TTTTTTGCGG
* * * *
24683876 CGTTTTTGCAAAAGCGCCGCTAAAACCTATACCTATAGCGGCGTTTTTGCAAAAGCGCCTCTAAA
1 CGTTTTTGCAAAAGCGCCGCTAAAACCTACACCTATAGCAGCGTTTTTGAAAAAGCGCCGCTAAA
*
24683941 ACATCTACCTATAGCGA
66 ACATCGACCTATAGCGA
*
24683958 CGTTTTTGCAAAAACGCCGCTAAAACCT-CACCTATAGCAGCGTTTTT-AAAGAAGCGCCGCTAA
1 CGTTTTTGCAAAAGCGCCGCTAAAACCTACACCTATAGCAGCGTTTTTGAAA-AAGCGCCGCTAA
* *
24684021 AACCTCGACCTATAGCGG
65 AACATCGACCTATAGCGA
*
24684039 CGTTTTTCCAAAAGCGCCGCTA
1 CGTTTTTGCAAAAGCGCCGCTA
24684061 TTGTTCAGTT
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
80 2 0.02
81 63 0.68
82 27 0.29
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (82 bp):
CGTTTTTGCAAAAGCGCCGCTAAAACCTACACCTATAGCAGCGTTTTTGAAAAAGCGCCGCTAAA
ACATCGACCTATAGCGA
Found at i:24684147 original size:42 final size:41
Alignment explanation
Indices: 24684033--24684167 Score: 132
Period size: 42 Copynumber: 3.3 Consensus size: 41
24684023 CCTCGACCTA
* *
24684033 TAGCGGCGTTTT--TCCAAAAGCGCCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTTGGACCAAAA-CGCCGCTATTGCTCAGTTTT
* * * *
24684073 TAGCGGAG-TTTGGGCCAAAAATGCCGCTATTGCCCAGTTTT
1 TAGCGGCGTTTTGGACC-AAAACGCCGCTATTGCTCAGTTTT
* * *
24684114 TAGCTGCGTTTTGAGATCAAAACGCCGCTATTGCTCTGTTTT
1 TAGCGGCGTTTTG-GACCAAAACGCCGCTATTGCTCAGTTTT
*
24684156 TTGCGGCGTTTT
1 TAGCGGCGTTTT
24684168 ATTGCAAACG
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
39 3 0.04
40 7 0.09
41 25 0.33
42 39 0.51
43 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.36
Consensus pattern (41 bp):
TAGCGGCGTTTTGGACCAAAACGCCGCTATTGCTCAGTTTT
Found at i:24686047 original size:137 final size:136
Alignment explanation
Indices: 24685801--24686086 Score: 491
Period size: 137 Copynumber: 2.1 Consensus size: 136
24685791 CATTGGGCCT
** *
24685801 AAGCCCATTCAGGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
24685866 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
24685931 CATATGC
130 CATATGC
*
24685938 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCTTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
24686003 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
24686068 ATATGC
131 ATATGC
*
24686074 AATCCCATTTGGG
1 AAGCCCATTTGGG
24686087 GAGACTACTC
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 21 0.15
137 120 0.85
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:24686371 original size:25 final size:27
Alignment explanation
Indices: 24686334--24686386 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
24686324 TCAAACATGC
24686334 ATTTAGGTCAATTTAACT-CTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
* *
24686360 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
24686386 A
1 A
24686387 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTACTAGGGGT
Found at i:24692094 original size:41 final size:42
Alignment explanation
Indices: 24692048--24692151 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 42
24692038 ATCCATGGTA
** *
24692048 CCAAACAGTTCTATTCTTGCCCAAAATGCCATATC-CAGCTG
1 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCTCAGCAG
* * *
24692089 CCAAACAGTTCTATTCCAGCCCAGAATGTCATATCTCTGCAG
1 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCTCAGCAG
* *
24692131 CCAAACAGTCCTATTTCAGCC
1 CCAAACAGTTCTATTCCAGCC
24692152 TTAGAATCCC
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
41 31 0.57
42 23 0.43
ACGTcount: A:0.29, C:0.33, G:0.12, T:0.26
Consensus pattern (42 bp):
CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCTCAGCAG
Found at i:24693136 original size:118 final size:118
Alignment explanation
Indices: 24692928--24693158 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
24692918 TGTTTTCCAT
* *
24692928 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
24692993 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
**
24693046 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
24693111 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
24693159 ACCGGAAATA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:24693289 original size:1 final size:1
Alignment explanation
Indices: 24693283--24693324 Score: 57
Period size: 1 Copynumber: 42.0 Consensus size: 1
24693273 TAATAAATTT
* * *
24693283 AAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAGAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24693325 TAAGTACTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:24693301 original size:13 final size:13
Alignment explanation
Indices: 24693283--24693324 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
24693273 TAATAAATTT
24693283 AAAAAAAAA-AAA
1 AAAAAAAAAGAAA
24693295 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
*
24693308 AAAAAAGAAGAAA
1 AAAAAAAAAGAAA
24693321 AAAA
1 AAAA
24693325 TAAGTACTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:24695061 original size:26 final size:26
Alignment explanation
Indices: 24695025--24695134 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
24695015 CATGAAATTC
24695025 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
24695051 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
24695077 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
24695103 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
24695129 TTATCA
1 TTATCA
24695135 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:24696869 original size:25 final size:26
Alignment explanation
Indices: 24696823--24696874 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
24696813 TTTTCTTCTT
24696823 TTTTTTTCTTCTTTCGAATCTCTTTTTC
1 TTTTTTTCTTCTTTC--ATCTCTTTTTC
*
24696851 TTTTTTTCTTTTTTC-TCTCTTTTT
1 TTTTTTTCTTCTTTCATCTCTTTTT
24696875 ATATACATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 9 0.39
28 14 0.61
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (26 bp):
TTTTTTTCTTCTTTCATCTCTTTTTC
Found at i:24697590 original size:15 final size:14
Alignment explanation
Indices: 24697562--24697616 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
24697552 TTAGCTTTAA
24697562 ATATTATTCA-TGTT
1 ATATTATT-ATTGTT
24697576 ATATATATTATTGTT
1 ATAT-TATTATTGTT
* *
24697591 ATCACTATTATTTTT
1 AT-ATTATTATTGTT
24697606 ATATTATTATT
1 ATATTATTATT
24697617 ATATTATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 13 0.37
15 21 0.60
16 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (14 bp):
ATATTATTATTGTT
Found at i:24697912 original size:16 final size:17
Alignment explanation
Indices: 24697891--24697931 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
24697881 TATATATTTT
24697891 TATATTATCTTATGT-A-
1 TATATTATCTTA-GTAAC
24697907 TATATTATCTTAGTAAC
1 TATATTATCTTAGTAAC
24697924 TATATTAT
1 TATATTAT
24697932 GTATGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 13 0.57
17 8 0.35
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (17 bp):
TATATTATCTTAGTAAC
Found at i:24697940 original size:28 final size:25
Alignment explanation
Indices: 24697800--24698012 Score: 137
Period size: 23 Copynumber: 8.7 Consensus size: 25
24697790 TTCTAATATA
* *
24697800 TATATATATTGTATATGTTTTT-ATA-
1 TATAT-TA-TGTATATATTTTTAACAC
*
24697825 TATATTATGTATATATTTTTAATA-
1 TATATTATGTATATATTTTTAACAC
*
24697849 T-TATTA-GTTATATATTTTT-ATAC
1 TATATTATG-TATATATTTTTAACAC
* *
24697872 TAT-TTCATGTATATATTTTT-ATAT
1 TATATT-ATGTATATATTTTTAACAC
*
24697896 TATCTTATGTATATATTATCTTAGTA-AC
1 TATATTATGTATATATT-T-TTA--ACAC
*
24697924 TATATTATGTATGTATTTTTAACAC
1 TATATTATGTATATATTTTTAACAC
* * *
24697949 TATATTATGTACATACTTTTAATA-
1 TATATTATGTATATATTTTTAACAC
* * *
24697973 T-TATTATGTATTTATCTTTAATA-
1 TATATTATGTATATATTTTTAACAC
24697996 TATA-TATGTATATATTT
1 TATATTATGTATATATTT
24698013 ATGTAGTATT
Statistics
Matches: 159, Mismatches: 15, Indels: 30
0.78 0.07 0.15
Matches are distributed among these distances:
22 4 0.03
23 61 0.38
24 40 0.25
25 31 0.19
26 5 0.03
27 1 0.01
28 16 0.10
29 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.57
Consensus pattern (25 bp):
TATATTATGTATATATTTTTAACAC
Found at i:24698004 original size:99 final size:99
Alignment explanation
Indices: 24697825--24698011 Score: 222
Period size: 99 Copynumber: 1.9 Consensus size: 99
24697815 TGTTTTTATA
* * *
24697825 TATATTATGTATATATTTTTAATATTATTAGTTATATATTTTTATACTATTTCATGTATATATTT
1 TATATTATGTATATATTTTTAACATTATTAGTTACATACTTTTATACTATTTCATGTATATATTT
* *
24697890 TTATATTATCTTATGTATATATTATCTTAGTAAC
66 TAATATTATCATATGTATATATTATCTTAGTAAC
* * *
24697924 TATATTATGTATGTATTTTTAACACTATATTA-TGTACATACTTTTA-A-TATTATTATGTATTT
1 TATATTATGTATATATTTTTAACA-T-TATTAGT-TACATACTTTTATACTATT-TCATGTATAT
24697986 ATCTTTAATA-TAT-ATATGTATATATT
62 AT-TTTAATATTATCATATGTATATATT
24698012 TATGTAGTAT
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
99 38 0.51
100 16 0.21
101 21 0.28
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (99 bp):
TATATTATGTATATATTTTTAACATTATTAGTTACATACTTTTATACTATTTCATGTATATATTT
TAATATTATCATATGTATATATTATCTTAGTAAC
Found at i:24698095 original size:50 final size:50
Alignment explanation
Indices: 24697999--24698095 Score: 119
Period size: 50 Copynumber: 1.9 Consensus size: 50
24697989 TTTAATATAT
* * *
24697999 ATATGTATATATTTATGTAGTATTATTAATAGTCATTTTTTTTATTTCTA
1 ATATGTATATATTTATGTAATATTATTAATAGTCATTATTTATATTTCTA
24698049 ATATGTATATA-TTATGTAAATATT-TTAATACTGT-ATTATTTATATTT
1 ATATGTATATATTTATGT-AATATTATTAATA--GTCATTATTTATATTT
24698096 TTTTTCTTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
49 12 0.29
50 27 0.66
51 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (50 bp):
ATATGTATATATTTATGTAATATTATTAATAGTCATTATTTATATTTCTA
Found at i:24698171 original size:25 final size:25
Alignment explanation
Indices: 24698137--24698184 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
24698127 TTTTAAATAA
**
24698137 CTATATTATGTATGTATTTTTAACG
1 CTATATTATGTACATATTTTTAACG
24698162 CTATATTATGTACATATTTTTAA
1 CTATATTATGTACATATTTTTAA
24698185 TACTATGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (25 bp):
CTATATTATGTACATATTTTTAACG
Found at i:24698190 original size:25 final size:25
Alignment explanation
Indices: 24698126--24698190 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
24698116 ATGTATATGT
**
24698126 TTTTTAAATAACTATATTATGTATGTA
1 TTTTT-AAT-ACTATATTATGTACATA
**
24698153 TTTTTAACGCTATATTATGTACATA
1 TTTTTAATACTATATTATGTACATA
24698178 TTTTTAATACTAT
1 TTTTTAATACTAT
24698191 GTTTATACTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 25 0.78
26 2 0.06
27 5 0.16
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (25 bp):
TTTTTAATACTATATTATGTACATA
Found at i:24708680 original size:25 final size:24
Alignment explanation
Indices: 24708651--24708708 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 24
24708641 CCCCTTCTCC
24708651 CCTTTATGTCATGACTTCTCCGTGG
1 CCTTTAT-TCATGACTTCTCCGTGG
24708676 CCTTTTTCTATTCATGACTTCTCCGTGG
1 CC---TT-TATTCATGACTTCTCCGTGG
24708704 CCTTT
1 CCTTT
24708709 TTCTATGCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
24 1 0.03
25 4 0.14
28 21 0.72
29 3 0.10
ACGTcount: A:0.10, C:0.29, G:0.16, T:0.45
Consensus pattern (24 bp):
CCTTTATTCATGACTTCTCCGTGG
Found at i:24708691 original size:28 final size:28
Alignment explanation
Indices: 24708659--24708714 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
24708649 CCCCTTTATG
24708659 TCATGACTTCTCCGTGGCCTTTTTCTAT
1 TCATGACTTCTCCGTGGCCTTTTTCTAT
24708687 TCATGACTTCTCCGTGGCCTTTTTCTAT
1 TCATGACTTCTCCGTGGCCTTTTTCTAT
24708715 GCGGGGCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.11, C:0.29, G:0.14, T:0.46
Consensus pattern (28 bp):
TCATGACTTCTCCGTGGCCTTTTTCTAT
Found at i:24710493 original size:14 final size:14
Alignment explanation
Indices: 24710474--24710509 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
24710464 TGCTGAGGTA
24710474 TTTTCAAATTTTGT
1 TTTTCAAATTTTGT
24710488 TTTTCAAATTTTGT
1 TTTTCAAATTTTGT
24710502 TTTTCAAA
1 TTTTCAAA
24710510 AAAATTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.61
Consensus pattern (14 bp):
TTTTCAAATTTTGT
Found at i:24710522 original size:91 final size:91
Alignment explanation
Indices: 24710400--24710659 Score: 358
Period size: 91 Copynumber: 2.9 Consensus size: 91
24710390 TACTCTGATG
*
24710400 TTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTAGGGTCAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGTCAC
24710463 ATGCTGAGGTATTTTCAAATTT-TGT
66 ATGCTGAGGTATTTTCAAATTTCTGT
* * *
24710488 TTTTCAAATTT-TGTTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTT
1 TTTTC-AATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGTC
*
24710552 ACATG-TCGATGTATTTTC-AATTTCTGT
64 ACATGCT-GAGGTATTTTCAAATTTCTGT
24710579 TTTTCAATTTCTG--TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGGTCA
**
24710641 CACACTGAGGTATTTTCAA
65 CATGCTGAGGTATTTTCAA
24710660 TTCCTATTTT
Statistics
Matches: 151, Mismatches: 11, Indels: 19
0.83 0.06 0.10
Matches are distributed among these distances:
88 57 0.38
89 14 0.09
90 16 0.11
91 64 0.42
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (91 bp):
TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGTCAC
ATGCTGAGGTATTTTCAAATTTCTGT
Found at i:24710584 original size:14 final size:14
Alignment explanation
Indices: 24710565--24710594 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24710555 TGTCGATGTA
24710565 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
24710579 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
24710593 TT
1 TT
24710595 CAAAAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:24710705 original size:164 final size:164
Alignment explanation
Indices: 24710516--24711204 Score: 987
Period size: 164 Copynumber: 4.3 Consensus size: 164
24710506 CAAAAAAATT
* * * * * *
24710516 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATGTCGATGTATTTTCAATTTCTGTTT
1 AACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTGTTT
24710581 TTCAATTTCTGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACA
66 TTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACA
24710645 CTGAGGTATTTTCAATTCCTATTTTCTAAAAAGTC
131 CTGAGGTATTTTCAATTCCTATTTT-TAAAAAGTC
24710680 AACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCACACGCCGAGG-----T--A-------TT
1 AACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTGTTT
* * *
24710731 TTCAATTTCTGTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCAGACA
66 TTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACA
* *
24710796 CTGAGGTATTTTCAATTCCTGTTTTTTAAAAGTC
131 CTGAGGTATTTTCAATTCCTATTTTTAAAAAGTC
* * * *
24710830 AACTCGTATTGCGAAAGGCGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAATTTCTGTTT
1 AACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTGTTT
*
24710895 TTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
66 TTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACA
24710960 CTGAGGTATTTTCAATTCCTATTTTT-AAAAGTC
131 CTGAGGTATTTTCAATTCCTATTTTTAAAAAGTC
* * * *
24710993 AACTCGTATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACACCGGGGTATTTTCAATTTCTGTTT
1 AACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTGTTT
* *
24711058 TTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
66 TTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACA
* * * * *
24711123 CTGAGATATTTTTAATTCATGTTTTTTAAAAGTC
131 CTGAGGTATTTTCAATTCCTATTTTTAAAAAGTC
* * *
24711157 AACTCGTATTGCGAGAGGCGAGATGAGCCTCAGATCACACGCCGAGGT
1 AACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCACACGCCGAGGT
24711205 CATACACTGA
Statistics
Matches: 471, Mismatches: 38, Indels: 32
0.87 0.07 0.06
Matches are distributed among these distances:
150 68 0.14
151 70 0.15
155 1 0.00
157 2 0.00
159 1 0.00
163 150 0.32
164 179 0.38
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (164 bp):
AACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTGTTT
TTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACA
CTGAGGTATTTTCAATTCCTATTTTTAAAAAGTC
Found at i:24710791 original size:75 final size:75
Alignment explanation
Indices: 24710579--24711057 Score: 408
Period size: 75 Copynumber: 6.2 Consensus size: 75
24710569 CAATTTCTGT
*
24710579 TTTTCAATTTCTGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
1 TTTTCAATTTCTGTTTCTAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
* *
24710643 CACTGAGGTA
66 CGCCGAGGTA
* * * * *
24710653 TTTTCAATTCCTATTTTCTAAAAAGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTTCT-GTTTCTAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
24710718 ACGCCGAGGTA
65 ACGCCGAGGTA
* * * * *
24710729 TTTTCAATTTCTGTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCAGA
1 TTTTCAATTTCTGTTTCTAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
* *
24710794 CACTGAGGTA
66 CGCCGAGGTA
* * * * * * * *
24710804 TTTTCAATTCCTGTTTTTTAAAAGTCAACTCGTATTGCGAAAGGCGAGTTGAGCCTCGGGTTACA
1 TTTTCAATTTCTGTTTCTAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
* *
24710869 TGTCGAGGTA
66 CGCCGAGGTA
* * *** * *
24710879 TTTTCAATTTCTGTTTTTCAATTTCTGTTTCAAAA--AAATCAACTCATATTGCGAGAGGTGAGT
1 TTTTCAATTTCTGTTTCT-AA----------AAAATCAACTC-A-T-ATTGCGAGAG--GCGAGT
*
24710942 TGAGCCTCAGGTCACACGCTGAGGTA
50 TGAGCCTCAGGTCACACGCCGAGGTA
* * * * * *
24710968 TTTTCAATTCCTATTT-TTAAAAGTCAACTCGTATTGCAAGAGGCGAGTTGAGCCTCAGGTCACA
1 TTTTCAATTTCTGTTTCTAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
* *
24711032 CACCGGGGTA
66 CGCCGAGGTA
24711042 TTTTCAATTTCTGTTT
1 TTTTCAATTTCTGTTT
24711058 TTCAATTTAT
Statistics
Matches: 315, Mismatches: 70, Indels: 40
0.74 0.16 0.09
Matches are distributed among these distances:
74 53 0.17
75 131 0.42
76 68 0.22
77 4 0.01
79 4 0.01
84 4 0.01
86 4 0.01
87 6 0.02
88 1 0.00
89 40 0.13
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTCTAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
CGCCGAGGTA
Found at i:24710898 original size:14 final size:14
Alignment explanation
Indices: 24710879--24710908 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24710869 TGTCGAGGTA
24710879 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
24710893 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
24710907 TT
1 TT
24710909 CAAAAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:24710966 original size:89 final size:89
Alignment explanation
Indices: 24710804--24710985 Score: 231
Period size: 89 Copynumber: 2.0 Consensus size: 89
24710794 CACTGAGGTA
*** * * * *
24710804 TTTTCAATTCCTGTTTTTTAAAAGTCAACTCGTATTGCGAAAGGCGAGTTGAGCCTCGGGTTACA
1 TTTTCAATTCCTGTTTCAAAAAAATCAACTCATATTGCGAAAGGCGAGTTGAGCCTCAGGTCACA
* * *
24710869 TGTCGAGGTATTTTCAATTTCTGT
66 CGTCGAGGTATTTTCAATTCCTAT
* * *
24710893 TTTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
1 TTTTCAATTCCTGTTTCAAAAAAATCAACTCATATTGCGAAAGGCGAGTTGAGCCTCAGGTCACA
24710958 CG-CTGAGGTATTTTCAATTCCTAT
66 CGTC-GAGGTATTTTCAATTCCTAT
24710982 TTTT
1 TTTT
24710986 AAAAGTCAAC
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 1 0.01
89 78 0.99
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (89 bp):
TTTTCAATTCCTGTTTCAAAAAAATCAACTCATATTGCGAAAGGCGAGTTGAGCCTCAGGTCACA
CGTCGAGGTATTTTCAATTCCTAT
Found at i:24711016 original size:74 final size:74
Alignment explanation
Indices: 24710912--24711059 Score: 215
Period size: 74 Copynumber: 2.0 Consensus size: 74
24710902 TCTGTTTCAA
* * * *
24710912 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACACCGAGGTATTTTCAATT
24710977 CCTATTTTT
66 CCTATTTTT
* * *
24710986 AAAAGTCAACTCGTATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACACCGGGGTATTTTCAATT
1 AAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACACCGAGGTATTTTCAATT
* *
24711051 TCTGTTTTT
66 CCTATTTTT
24711060 CAATTTATGT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACACCGAGGTATTTTCAATT
CCTATTTTT
Found at i:24711061 original size:14 final size:14
Alignment explanation
Indices: 24711042--24711071 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24711032 CACCGGGGTA
*
24711042 TTTTCAATTTCTGT
1 TTTTCAATTTATGT
24711056 TTTTCAATTTATGT
1 TTTTCAATTTATGT
24711070 TT
1 TT
24711072 CAAAAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:24711073 original size:163 final size:164
Alignment explanation
Indices: 24710729--24711204 Score: 758
Period size: 163 Copynumber: 2.9 Consensus size: 164
24710719 CGCCGAGGTA
* * *
24710729 TTTTCAATTTCTGTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCAGA
1 TTTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
*
24710794 CACTGAGGTATTTTCAATTCCTGTTTTTTAAAAGTCAACTCGTATTGCGAA-AGGCGAGTTGAGC
66 CGCTGAGGTATTTTCAATTCCTGTTTTTTAAAAGTCAACTCGTATTGC-AAGAGGCGAGTTGAGC
* * ***
24710858 CTCGGGTTACATGTCGAGGTATTTTCAATTTCTGT
130 CTCAGGTCACACACCGAGGTATTTTCAATTTCTGT
24710893 TTTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
1 TTTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
*
24710958 CGCTGAGGTATTTTCAATTCCT-ATTTTTAAAAGTCAACTCGTATTGCAAGAGGCGAGTTGAGCC
66 CGCTGAGGTATTTTCAATTCCTGTTTTTTAAAAGTCAACTCGTATTGCAAGAGGCGAGTTGAGCC
*
24711022 TCAGGTCACACACCGGGGTATTTTCAATTTCTGT
131 TCAGGTCACACACCGAGGTATTTTCAATTTCTGT
*
24711056 TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
1 TTTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
* * * * *
24711121 CGCTGAGATATTTTTAATTCATGTTTTTTAAAAGTCAACTCGTATTGCGAGAGGCGAGATGAGCC
66 CGCTGAGGTATTTTCAATTCCTGTTTTTTAAAAGTCAACTCGTATTGCAAGAGGCGAGTTGAGCC
* *
24711186 TCAGATCACACGCCGAGGT
131 TCAGGTCACACACCGAGGT
24711205 CATACACTGA
Statistics
Matches: 289, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
162 2 0.01
163 149 0.52
164 138 0.48
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (164 bp):
TTTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
CGCTGAGGTATTTTCAATTCCTGTTTTTTAAAAGTCAACTCGTATTGCAAGAGGCGAGTTGAGCC
TCAGGTCACACACCGAGGTATTTTCAATTTCTGT
Found at i:24711146 original size:89 final size:89
Alignment explanation
Indices: 24710986--24711148 Score: 229
Period size: 89 Copynumber: 1.8 Consensus size: 89
24710976 TCCTATTTTT
* * * *
24710986 AAAAGTCAACTCGTATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACACCGGGGTATTTTCAATT
1 AAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACACCGAGATATTTTCAATT
24711051 TCTGTTTTTCAATTTATGTTTCAA
66 TCTGTTTTTCAATTTATGTTTCAA
* * * * *
24711075 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGATATTTTTAA-T
1 AAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACACCGAGATATTTTCAATT
24711139 TCATGTTTTT
66 TC-TGTTTTT
24711149 TAAAAGTCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
88 3 0.05
89 61 0.95
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (89 bp):
AAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACACCGAGATATTTTCAATT
TCTGTTTTTCAATTTATGTTTCAA
Done.