Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 195 of 295
Found at i:62286700 original size:54 final size:54
Alignment explanation
Indices: 62286660--62286883 Score: 247
Period size: 54 Copynumber: 4.1 Consensus size: 54
62286650 ATTACCGTTT
*
62286660 TACCCTCAATTTATAAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTATAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
* * * ***
62286714 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTTTGAAATTACCAAAA
1 TACCCTC-AATTTATAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
* ** *
62286768 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA-CAGAAA
1 TACCCTCAATTTATAAAATTACCAAAATACCATTGGTTTACAAAATTACCA-AAA
* * * *
62286822 TACCCTTAACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTAAAA
1 TACCCTCAA-TTTAT-AAAATTACCA-AAATACCATTGGTTTACAAAATTACCAAAA
62286878 TACCCT
1 TACCCT
62286884 TGGCTTGTAG
Statistics
Matches: 143, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
53 3 0.02
54 96 0.67
55 6 0.04
56 37 0.26
57 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTATAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
Found at i:62286718 original size:81 final size:81
Alignment explanation
Indices: 62286392--62286883 Score: 274
Period size: 81 Copynumber: 6.0 Consensus size: 81
62286382 ACCACTTTAT
* * * * * ****
62286392 CCTCGATTTATATAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
1 CCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCAAAATACCCTCGATTTAC
* ****
62286457 AGAATTACCGTTTTAC
66 AAAATTACCAAAATAC
* * * ***
62286473 CCTCGATTTATAGAATTACTGTTTTACCCCTCAATTTATAGAATTACCATTTTACCCTCGATTTA
1 CCTCGATTTACAGAATTACCGTTTTA-CCCTCAATTTATAAAATTACCAAAATACCCTCGATTTA
* * ***
62286538 TAAAATTATCATTTTAC
65 CAAAATTACCAAAATAC
* * * * * *** *
62286555 CCTCGATTTATAGAATTATCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTAC
1 CCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCAAAATACCCTCGATTTAC
****
62286620 AAAATTACCGTTTTAC
66 AAAATTACCAAAATAC
* * * *
62286636 CCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACTAAAATACCATTGGTTTAC
1 CCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCAAAATACCCTCGATTTAC
62286701 AAAATTACCAAAATACC
66 AAAATTACCAAAATA-C
* * **** ** * * *
62286718 CCTAGTTTGTA-A-AATTACCAAAATACCACT-GGTTTTTGAAATTACCAAAATACCCTCAATTT
1 CCTCGATT-TACAGAATTACCGTTTTACC-CTCAATTTATAAAATTACCAAAATACCCTCGATTT
**
62286780 GTAAAATTACCAAAATAC
64 ACAAAATTACCAAAATAC
* * *** * * * * * *
62286798 CC-CTGATTTACAAAATTACAGAAATACCCTTAACTTTCTAAAAATTA-TAGAAATACCATTGGT
1 CCTC-GATTTACAGAATTACCGTTTTACCCTCAA-TTTAT-AAAATTACCA-AAATACCCTCGAT
*
62286861 TTACAAAATTACTAAAATAC
62 TTACAAAATTACCAAAATAC
62286881 CCT
1 CCT
62286884 TGGCTTGTAG
Statistics
Matches: 332, Mismatches: 67, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
79 2 0.01
80 9 0.03
81 198 0.60
82 87 0.26
83 36 0.11
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (81 bp):
CCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCAAAATACCCTCGATTTAC
AAAATTACCAAAATAC
Found at i:62286878 original size:27 final size:27
Alignment explanation
Indices: 62286669--62286886 Score: 156
Period size: 27 Copynumber: 8.0 Consensus size: 27
62286659 TTACCCTCAA
* * *
62286669 TTTATAAAATTACTAAAATACCATTGG
1 TTTACAAAATTACCAAAATACCCTTGG
* *
62286696 TTTACAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCTTGG
**
62286723 TTTGTAAAATTACCAAAATACCAC-TGG
1 TTTACAAAATTACCAAAATACC-CTTGG
*** ***
62286750 TTTTTGAAATTACCAAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTTGG
** * *
62286777 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACCAAAATACCCTTGG
**
62286804 TTTACAAAATTA-CAGAAATACCCTTAAC
1 TTTACAAAATTACCA-AAATACCCTT-GG
* *
62286832 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACCA-AAATACCCTTGG
*
62286860 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
62286887 CTTGTAGATT
Statistics
Matches: 155, Mismatches: 28, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.02
27 124 0.80
28 9 0.06
29 19 0.12
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGG
Found at i:62287855 original size:25 final size:25
Alignment explanation
Indices: 62287818--62287886 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
62287808 AGGAAGTGCT
62287818 AAAGGGCTTTGCCCCAGTTTACC-G
1 AAAGGGCTTTGCCCCAGTTTACCAG
* *
62287842 AAAAGGGCTCTGCCCCAGTTTATCAG
1 -AAAGGGCTTTGCCCCAGTTTACCAG
*
62287868 AAAGGGTTTTGCCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
62287887 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 38 0.97
26 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTACCAG
Found at i:62288096 original size:42 final size:42
Alignment explanation
Indices: 62288033--62288122 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
62288023 TACTCCCCAG
* ** * **
62288033 ATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTGAA
1 ATGGGCTTGCATACATCCATTGACATTACATACGATATTGAA
62288075 ATGGGCTTGCATACATCCATTGACATTACATACGATATTGAA
1 ATGGGCTTGCATACATCCATTGACATTACATACGATATTGAA
62288117 ATGGGC
1 ATGGGC
62288123 CTAAGTGCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (42 bp):
ATGGGCTTGCATACATCCATTGACATTACATACGATATTGAA
Found at i:62288186 original size:31 final size:31
Alignment explanation
Indices: 62288146--62288224 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
62288136 CGTTTACAGT
*
62288146 AAAA-GCTTCGGCCTAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGATATGATTTATG
62288176 AAAAGGCTTCGGCCCAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGATATGATTTATG
62288207 AAAAGGCTTCGGCCCAGT
1 AAAAGGCTTCGGCCCAGT
62288225 AACTGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 4 0.09
31 43 0.91
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTGATATGATTTATG
Found at i:62291347 original size:5 final size:5
Alignment explanation
Indices: 62291337--62291370 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
62291327 AAAATTAAAA
* *
62291337 TATAT TATAT TATTT TATAT TATTT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
62291371 AATAAATAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TATAT
Found at i:62291354 original size:10 final size:10
Alignment explanation
Indices: 62291341--62291369 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
62291331 TTAAAATATA
62291341 TTATATTATT
1 TTATATTATT
62291351 TTATATTATT
1 TTATATTATT
62291361 TTATATTAT
1 TTATATTAT
62291370 AAATAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATATTATT
Found at i:62291594 original size:22 final size:22
Alignment explanation
Indices: 62291569--62291610 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
62291559 GAAACAGGGG
62291569 AAAGAAAGAAGAAAA-AGAAAGA
1 AAAGAAA-AAGAAAAGAGAAAGA
62291591 AAAGAAAAAGAAAAGAGAAA
1 AAAGAAAAAGAAAAGAGAAA
62291611 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAGAAAAGAGAAAGA
Found at i:62291597 original size:15 final size:13
Alignment explanation
Indices: 62291569--62291603 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
62291559 GAAACAGGGG
62291569 AAAGAAAGAAGAA
1 AAAGAAAGAAGAA
62291582 AAAGAAAGAAAAGAA
1 AAAGAAAG--AAGAA
62291597 AAAGAAA
1 AAAGAAA
62291604 AGAGAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.40
15 12 0.60
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAGAA
Found at i:62296894 original size:25 final size:25
Alignment explanation
Indices: 62296866--62296917 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
62296856 AACGAGGTGT
62296866 TTGCTAAGAGTATTATTGACCCAGA
1 TTGCTAAGAGTATTATTGACCCAGA
62296891 TTGCTAAGAGTATTATTGACCCAGA
1 TTGCTAAGAGTATTATTGACCCAGA
62296916 TT
1 TT
62296918 TGAATAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (25 bp):
TTGCTAAGAGTATTATTGACCCAGA
Found at i:62316131 original size:50 final size:50
Alignment explanation
Indices: 62316056--62316246 Score: 292
Period size: 50 Copynumber: 3.8 Consensus size: 50
62316046 TTGTGAGAAT
62316056 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
* * * * *
62316106 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAGCTTCGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTC
*
62316157 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
* * *
62316207 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
62316247 GAGCTTCAGT
Statistics
Matches: 125, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
50 81 0.65
51 44 0.35
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
Found at i:62316138 original size:26 final size:26
Alignment explanation
Indices: 62316058--62316140 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
62316048 GTGAGAATAC
62316058 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
* * * *
62316084 A--CGT-GTACCAGATTGTTAGG-TCAC-
1 ATGTGTAGTACTA-AGTG-CAGGCT-ACT
62316108 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
62316134 ATGTGTA
1 ATGTGTA
62316141 CCTGATAGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 16
0.63 0.12 0.25
Matches are distributed among these distances:
23 5 0.12
24 7 0.17
25 10 0.24
26 14 0.34
27 5 0.12
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGCAGGCTACT
Found at i:62316231 original size:101 final size:101
Alignment explanation
Indices: 62316056--62316253 Score: 351
Period size: 101 Copynumber: 2.0 Consensus size: 101
62316046 TTGTGAGAAT
*
62316056 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTA
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTA
* * *
62316121 AGTGCAGGCTACTATGTGTACCTGATAGCTTCGATC
66 AGTGCAGGCTACTATGCGTACCAGAGAGCTTCGATC
*
62316157 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTCGCATGTGTAGTACTA
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTA
62316222 AGTGCAGGCTACTATGCGTACCAGAGAGCTTC
66 AGTGCAGGCTACTATGCGTACCAGAGAGCTTC
62316254 AGTTATAAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (101 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTA
AGTGCAGGCTACTATGCGTACCAGAGAGCTTCGATC
Found at i:62316281 original size:101 final size:101
Alignment explanation
Indices: 62316062--62316281 Score: 289
Period size: 101 Copynumber: 2.2 Consensus size: 101
62316052 GAATACATGT
* * *
62316062 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCA
1 GTAGTAATAAGTACAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCA
* * * * *
62316127 GGCTACTATGTGTACCTGATAGCTTCGATCACATGT
66 GGCTACTATGCGTACCAGAGAGCTTCGATCACAAGG
* * *
62316163 GTAGTACTAAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCA
1 GTAGTAATAAGTACAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCA
* *
62316228 GGCTACTATGCGTACCAGAGAGCTTC-AGTTATAAGG
66 GGCTACTATGCGTACCAGAGAGCTTCGA-TCACAAGG
* *
62316264 GTGGTAATATGTACAGGC
1 GTAGTAATAAGTACAGGC
62316282 CACCTTCCAA
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
100 1 0.01
101 104 0.99
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (101 bp):
GTAGTAATAAGTACAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCA
GGCTACTATGCGTACCAGAGAGCTTCGATCACAAGG
Found at i:62318842 original size:47 final size:47
Alignment explanation
Indices: 62318779--62319354 Score: 956
Period size: 47 Copynumber: 12.3 Consensus size: 47
62318769 CCCTTCGGGA
* *
62318779 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
62318826 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
62318873 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
62318920 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
62318967 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
62319014 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * **
62319061 CTTATCACATATACACACTTTCACATTCATCACGTTGGCCACCCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
62319108 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
62319155 CTTATCACATATATACACTTTCACATT-ATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
62319201 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
62319248 CTTATCACATATACACACTTTCACATTCATCACGTTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
62319295 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
62319342 CTTATCACATATA
1 CTTATCACATATA
62319355 CATATCTTGT
Statistics
Matches: 491, Mismatches: 37, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
46 45 0.09
47 446 0.91
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:62319164 original size:22 final size:22
Alignment explanation
Indices: 62319136--62319210 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
62319126 TTTCACATTC
62319136 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
62319158 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
*
62319182 ATCACATTGGCCACTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
62319204 ATCACAT
1 ATCACAT
62319211 ATATACACTT
Statistics
Matches: 38, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
21 3 0.08
22 18 0.47
23 2 0.05
24 11 0.29
25 4 0.11
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:62329796 original size:17 final size:18
Alignment explanation
Indices: 62329762--62329809 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
62329752 AAATTTGTAC
* *
62329762 ATTATAATATTATTTTTT
1 ATTATAATAATATCTTTT
62329780 ATTA-AATAATATCTTTT
1 ATTATAATAATATCTTTT
*
62329797 ATTTTAA-AATATC
1 ATTATAATAATATC
62329810 ACACCCAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTATAATAATATCTTTT
Found at i:62331181 original size:23 final size:23
Alignment explanation
Indices: 62331151--62331202 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
62331141 ACGACCCGAT
62331151 TTTTAGTGGTACCA-AAAAAAAAG
1 TTTTAGTGGTA-CAGAAAAAAAAG
**
62331174 TTTTAGTGGTACAGAAAAAATGG
1 TTTTAGTGGTACAGAAAAAAAAG
62331197 TTTTAG
1 TTTTAG
62331203 AACCTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (23 bp):
TTTTAGTGGTACAGAAAAAAAAG
Found at i:62335466 original size:17 final size:17
Alignment explanation
Indices: 62335446--62335537 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
62335436 ATTTTAATAG
62335446 ATTTAATATTAAATTTA
1 ATTTAATATTAAATTTA
62335463 ATTTAATACTT--ATCTTA
1 ATTTAATA-TTAAAT-TTA
* **
62335480 A--TAGTATTTTA-TTA
1 ATTTAATATTAAATTTA
*
62335494 ATTTAATAATAAAGTGATT-
1 ATTTAATATTAAA-T--TTA
62335513 ATCTTAATATTAAATTTA
1 AT-TTAATATTAAATTTA
62335531 ATTTAAT
1 ATTTAAT
62335538 GTTTATCTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 24
0.66 0.07 0.28
Matches are distributed among these distances:
14 6 0.11
15 4 0.07
16 9 0.16
17 19 0.33
18 4 0.07
19 3 0.05
20 12 0.21
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
ATTTAATATTAAATTTA
Found at i:62335993 original size:13 final size:13
Alignment explanation
Indices: 62335926--62335992 Score: 98
Period size: 13 Copynumber: 5.2 Consensus size: 13
62335916 AGAAGACTAC
* *
62335926 TCGGTTGAAGCAT
1 TCGGTCGAAGCGT
62335939 TCGGTCGAAGCGT
1 TCGGTCGAAGCGT
62335952 TCGGTCGAAGCGT
1 TCGGTCGAAGCGT
62335965 TCGGTCGAAGCGT
1 TCGGTCGAAGCGT
* *
62335978 TCAGTTGAAGCGT
1 TCGGTCGAAGCGT
62335991 TC
1 TC
62335993 ATCCTAGACG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.27
Consensus pattern (13 bp):
TCGGTCGAAGCGT
Found at i:62336426 original size:13 final size:13
Alignment explanation
Indices: 62336408--62336433 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62336398 GACAATCACA
62336408 TATATATTTAAAT
1 TATATATTTAAAT
62336421 TATATATTTAAAT
1 TATATATTTAAAT
62336434 GATAAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATTTAAAT
Found at i:62339087 original size:21 final size:21
Alignment explanation
Indices: 62339058--62339106 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
62339048 AATATCTATG
62339058 AAATGTTAGTAACGTGGTATTA
1 AAAT-TTAGTAACGTGGTATTA
*
62339080 AAATTTAGTAATGTGGTATTA
1 AAATTTAGTAACGTGGTATTA
62339101 AAATTT
1 AAATTT
62339107 CGTTAGGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (21 bp):
AAATTTAGTAACGTGGTATTA
Found at i:62341616 original size:23 final size:23
Alignment explanation
Indices: 62341590--62341634 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
62341580 TGGGTATGTG
*
62341590 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
62341613 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
62341635 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:62344351 original size:27 final size:27
Alignment explanation
Indices: 62344303--62344407 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
62344293 GCGAGGCTGC
* *
62344303 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
62344330 CAGATATTGTCGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
62344356 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
62344383 TAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
62344408 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 8 0.12
27 55 0.83
28 3 0.05
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:62346063 original size:26 final size:26
Alignment explanation
Indices: 62346028--62346135 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
62346018 TGAAATGCCC
*
62346028 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
62346054 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
62346080 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
62346106 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
62346132 ATCA
1 ATCA
62346136 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:62350632 original size:17 final size:17
Alignment explanation
Indices: 62350606--62350638 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62350596 TTATTATAAT
*
62350606 TGTGTGTATATATTATG
1 TGTGTATATATATTATG
62350623 TGTGTATATATATTAT
1 TGTGTATATATATTAT
62350639 ATGCATATCA
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:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (17 bp):
TGTGTATATATATTATG
Found at i:62371619 original size:16 final size:18
Alignment explanation
Indices: 62371600--62371632 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
62371590 CATATGAATT
62371600 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
62371616 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
62371633 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:62372261 original size:43 final size:43
Alignment explanation
Indices: 62372199--62372305 Score: 162
Period size: 43 Copynumber: 2.5 Consensus size: 43
62372189 TTGAACTCAT
* *
62372199 TCACCGGCATTA-CGCCTGCTAGGCTCGAAGCCCAATATTAAC
1 TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCAATATTAAC
* *
62372241 TCACTGGCATTATAGCCTGCTAGGTTCGAAGCCCGATATTAAC
1 TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCAATATTAAC
*
62372284 TCACTAGCATTATAGCCTGCTA
1 TCACTGGCATTATAGCCTGCTA
62372306 ATCAACAAGT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
42 11 0.19
43 48 0.81
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCAATATTAAC
Found at i:62386131 original size:56 final size:56
Alignment explanation
Indices: 62386045--62386220 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
62386035 ACAAGGGATG
*
62386045 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
62386101 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
62386157 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
62386213 ATGGGCAA
1 ATGGGCAA
62386221 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:62387461 original size:40 final size:40
Alignment explanation
Indices: 62387351--62387535 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
62387341 TAGAATGATG
* * * * *
62387351 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
62387391 TCCGGACTAAGAT-TCGAAGGC-TTGGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62387430 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
62387470 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * **
62387511 -CCGGGCTATGTTTCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
62387536 AATGAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 22 0.18
40 98 0.79
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62387489 original size:79 final size:80
Alignment explanation
Indices: 62387353--62387507 Score: 190
Period size: 79 Copynumber: 1.9 Consensus size: 80
62387343 GAATGATGTC
* *
62387353 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATTCGAAGGC-TTGGT
1 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTGGT
62387417 GCGAGTTACTAAATT
66 GCGAGTTACTAAATT
* * * * ** *
62387432 CGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTG
62387495 GTGCGAGTTACTA
64 GTGCGAGTTACTA
62387508 TAACCGGGCT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.02
79 41 0.64
80 22 0.34
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTGGT
GCGAGTTACTAAATT
Found at i:62394095 original size:56 final size:56
Alignment explanation
Indices: 62394009--62394184 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
62393999 ACAAGGGATG
*
62394009 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
62394065 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
62394121 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
62394177 ATGGGCAA
1 ATGGGCAA
62394185 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:62395410 original size:40 final size:40
Alignment explanation
Indices: 62395313--62395498 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
62395303 TCGAATGATG
* * * * *
62395313 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* ** *
62395353 TTCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
62395393 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62395433 TCCGAGTGAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
62395474 -CCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
62395499 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 114 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62401084 original size:28 final size:28
Alignment explanation
Indices: 62401043--62401102 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
62401033 CGAATTCCTT
62401043 GACCTGTTACAAAGTCATAATCATGTCA
1 GACCTGTTACAAAGTCATAATCATGTCA
*
62401071 GACCTGTTATAAAGTCATAATCATGTCA
1 GACCTGTTACAAAGTCATAATCATGTCA
62401099 -ACCT
1 GACCT
62401103 CAGTAATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (28 bp):
GACCTGTTACAAAGTCATAATCATGTCA
Found at i:62401610 original size:17 final size:17
Alignment explanation
Indices: 62401588--62401636 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
62401578 TTTAAAATTT
62401588 ATAAAAAATATTTAAAA
1 ATAAAAAATATTTAAAA
62401605 ATAAAAAATA---AAAA
1 ATAAAAAATATTTAAAA
62401619 ATAAAAAAT-TATTAAAA
1 ATAAAAAATAT-TTAAAA
62401636 A
1 A
62401637 AATTCAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 13 0.46
17 15 0.54
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAAAATATTTAAAA
Found at i:62401613 original size:7 final size:7
Alignment explanation
Indices: 62401601--62401627 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
62401591 AAAAATATTT
62401601 AAAAATA
1 AAAAATA
62401608 AAAAATA
1 AAAAATA
62401615 AAAAATA
1 AAAAATA
62401622 AAAAAT
1 AAAAAT
62401628 TATTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:62404741 original size:33 final size:33
Alignment explanation
Indices: 62404704--62404771 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
62404694 GAGTGCAAAG
62404704 ATAGAACATTATAGAAACTATTGAGTTAAATCA
1 ATAGAACATTATAGAAACTATTGAGTTAAATCA
62404737 ATAGAACATTATAGAAACTATTGAGTTAAATCA
1 ATAGAACATTATAGAAACTATTGAGTTAAATCA
62404770 AT
1 AT
62404772 CTTACAACTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.31
Consensus pattern (33 bp):
ATAGAACATTATAGAAACTATTGAGTTAAATCA
Found at i:62405939 original size:6 final size:6
Alignment explanation
Indices: 62405930--62405963 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
62405920 ATTCAAATAC
*
62405930 AGATTG AGATTG AGATTG AGTTTG AGATTG AGAT
1 AGATTG AGATTG AGATTG AGATTG AGATTG AGAT
62405964 CAAATGAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (6 bp):
AGATTG
Found at i:62409251 original size:13 final size:13
Alignment explanation
Indices: 62409233--62409258 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62409223 ATGAAGTGTT
62409233 GAAGATCAAGCTG
1 GAAGATCAAGCTG
62409246 GAAGATCAAGCTG
1 GAAGATCAAGCTG
62409259 CTATATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.15
Consensus pattern (13 bp):
GAAGATCAAGCTG
Found at i:62413989 original size:12 final size:12
Alignment explanation
Indices: 62413972--62414033 Score: 56
Period size: 12 Copynumber: 5.0 Consensus size: 12
62413962 ATATAGTAAT
62413972 ATAAATCATATA
1 ATAAATCATATA
*
62413984 ATAAATAATATA
1 ATAAATCATATA
*
62413996 A-AAATATATATA
1 ATAAAT-CATATA
62414008 ATAAAATCTATATA
1 AT-AAATC-ATATA
62414022 ATATAAT-ATATA
1 ATA-AATCATATA
62414034 TAAGAAAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
11 4 0.10
12 23 0.55
13 1 0.02
14 14 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAAATCATATA
Found at i:62414003 original size:8 final size:9
Alignment explanation
Indices: 62413968--62414036 Score: 52
Period size: 9 Copynumber: 7.3 Consensus size: 9
62413958 AAATATATAG
62413968 TAATATAAA
1 TAATATAAA
62413977 TCATATAATAAA
1 T-A-AT-ATAAA
62413989 TAATATAAA
1 TAATATAAA
*
62413998 -AATATATA
1 TAATATAAA
62414006 TAATA-AAA
1 TAATATAAA
*
62414014 TCTATATAATA
1 T-AATATAA-A
*
62414025 TAATATATA
1 TAATATAAA
62414034 TAA
1 TAA
62414037 GAAAGATACA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
8 10 0.21
9 17 0.35
10 10 0.21
11 5 0.10
12 6 0.12
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (9 bp):
TAATATAAA
Found at i:62414006 original size:24 final size:28
Alignment explanation
Indices: 62413938--62414036 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 28
62413928 AAATAAAGTG
* *
62413938 TATAATATAATTTACA-AATAAAAT-ATA
1 TATAATATAATATATATAATAAAATCA-A
62413965 TAGTAATATAA-ATCATATAAT-AAAT-AA
1 TA-TAATATAATAT-ATATAATAAAATCAA
*
62413992 TATAA-A-AATATATATAATAAAATCTA
1 TATAATATAATATATATAATAAAATCAA
62414018 TATAATATAATATATATAA
1 TATAATATAATATATATAA
62414037 GAAAGATACA
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
24 9 0.15
25 7 0.11
26 9 0.15
27 7 0.11
28 26 0.43
29 3 0.05
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (28 bp):
TATAATATAATATATATAATAAAATCAA
Found at i:62414076 original size:14 final size:14
Alignment explanation
Indices: 62413954--62414075 Score: 87
Period size: 14 Copynumber: 8.8 Consensus size: 14
62413944 ATAATTTACA
62413954 AATAAAATATATAGT
1 AATAAAATATATA-T
*
62413969 AATATAAAT-CATAT
1 AATA-AAATATATAT
62413983 AAT-AAATA-ATAT
1 AATAAAATATATAT
62413995 -A-AAAATATATAT
1 AATAAAATATATAT
*
62414007 AATAAAATCTATAT
1 AATAAAATATATAT
*
62414021 AATATAATATATAT
1 AATAAAATATATAT
* *
62414035 AAGAAAGATACAT-T
1 AATAAA-ATATATAT
*
62414049 -ATAAGGAATAATAGAT
1 AATAA--AAT-ATATAT
62414065 AATAAAATATA
1 AATAAAATATA
62414076 GTATGTGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
11 6 0.07
12 12 0.14
13 4 0.05
14 36 0.42
15 18 0.21
16 5 0.06
17 4 0.05
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (14 bp):
AATAAAATATATAT
Found at i:62414131 original size:16 final size:16
Alignment explanation
Indices: 62414110--62414149 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
62414100 AAATATAATG
* *
62414110 AAATATGAAATAATAA
1 AAATATAAAAAAATAA
62414126 AAATATAAAAAAATAA
1 AAATATAAAAAAATAA
*
62414142 TAATATAA
1 AAATATAA
62414150 TAAGTACTTT
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:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (16 bp):
AAATATAAAAAAATAA
Found at i:62414265 original size:29 final size:31
Alignment explanation
Indices: 62414228--62414287 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
62414218 TATATAACAG
62414228 AATAGATATAATAAATAAT-AAAAATAATAT
1 AATAGATATAATAAATAATAAAAAATAATAT
*
62414258 AATA-ATATAATAGATAATAAAAAATAATAT
1 AATAGATATAATAAATAATAAAAAATAATAT
62414288 GTACTATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (31 bp):
AATAGATATAATAAATAATAAAAAATAATAT
Found at i:62419226 original size:6 final size:6
Alignment explanation
Indices: 62419215--62419243 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
62419205 GATGCTCCCA
62419215 AAATGG AAATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG
62419244 ATTCATTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:62419990 original size:87 final size:87
Alignment explanation
Indices: 62419844--62420017 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
62419834 CTATCGATTT
62419844 CTCTTAAATAAGAGAGAATTTTCGTTTTCACTCCAAATAAAAGAGAGAATGTTTTTCTAGTTCTA
1 CTCTTAAATAAGAGAGAATTTTCGTTTTCACTCCAAATAAAAGAGAGAATGTTTTTCTAGTTCTA
62419909 TGTTTTGATTCAATTCGTTCGA
66 TGTTTTGATTCAATTCGTTCGA
62419931 CTCTTAAATAAGAGAGAATTTTCGTTTTCACTCCAAATAAAAGAGAGAATGTTTTTCTAGTTCTA
1 CTCTTAAATAAGAGAGAATTTTCGTTTTCACTCCAAATAAAAGAGAGAATGTTTTTCTAGTTCTA
62419996 TGTTTTGATTCAATTCGTTCGA
66 TGTTTTGATTCAATTCGTTCGA
62420018 GCCCACACTT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (87 bp):
CTCTTAAATAAGAGAGAATTTTCGTTTTCACTCCAAATAAAAGAGAGAATGTTTTTCTAGTTCTA
TGTTTTGATTCAATTCGTTCGA
Found at i:62436681 original size:21 final size:21
Alignment explanation
Indices: 62436639--62436699 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
62436629 TATCTGAGTG
*
62436639 TGTTGATTGTAGTTCCAC-TGT
1 TGTTGATTGTAATTCC-CTTGT
62436660 TGTTGATTGTAATTCCCTTGT
1 TGTTGATTGTAATTCCCTTGT
*
62436681 T-TTGGATTATAATTTCCCT
1 TGTT-GATTGTAA-TTCCCT
62436700 AAGTAGATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 3 0.09
21 26 0.74
22 6 0.17
ACGTcount: A:0.16, C:0.15, G:0.18, T:0.51
Consensus pattern (21 bp):
TGTTGATTGTAATTCCCTTGT
Found at i:62439063 original size:35 final size:35
Alignment explanation
Indices: 62439024--62439094 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
62439014 TGGAATTAAC
* *
62439024 TCATGTAACGACATTAATTCAAATAGATAAAAAAA
1 TCATGTAACGACATTAATGCAAATAAATAAAAAAA
62439059 TCATGTAACGACATTAATGCAAATAAATAAAAAAA
1 TCATGTAACGACATTAATGCAAATAAATAAAAAAA
62439094 T
1 T
62439095 TAAGGATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.25
Consensus pattern (35 bp):
TCATGTAACGACATTAATGCAAATAAATAAAAAAA
Found at i:62440911 original size:49 final size:50
Alignment explanation
Indices: 62440768--62441055 Score: 167
Period size: 49 Copynumber: 5.9 Consensus size: 50
62440758 TTCTTAACAT
*
62440768 ATGAGGGGAAGGCTTTACG-AAAGATAATAAAATGG-CCTTGCTCCTAAACTC
1 ATGAGGGGAAGGC-TTACGAAAAG-TAATAATATGGTCC-TGCTCCTAAACTC
* **
62440819 ATGA-GGGAAGGCTTAC-AAGAAGTAATAATATGCTTTTGCTCCTAAA-TGC
1 ATGAGGGGAAGGCTTACGAA-AAGTAATAATATGGTCCTGCTCCTAAACT-C
* * *
62440868 ATGAGGGGAA-ACTTACGAAAAGTAATAATATGGTCCTGGTCCTAAACAC
1 ATGAGGGGAAGGCTTACGAAAAGTAATAATATGGTCCTGCTCCTAAACTC
* * * * ** *
62440917 AT-TGGGG-ATGTTTATCG-AAAGTAATAATATGGCCCTATTTC-AAGACTC
1 ATGAGGGGAAGGCTTA-CGAAAAGTAATAATATGGTCCTGCTCCTAA-ACTC
* * * *
62440965 TTTA-GGGAAGGCTTACGAGAAA-TGATAATATGG-CCTTGCTTCC-AAACGC
1 ATGAGGGGAAGGCTTACGA-AAAGTAATAATATGGTCC-TGC-TCCTAAACTC
* * * *
62441014 AT-AGAGGGAA-CCTTACAAAAAGTAATAATATGATCCTTCTCC
1 ATGAG-GGGAAGGCTTACGAAAAGTAATAATATGGTCCTGCTCC
62441056 CAAATACTTG
Statistics
Matches: 184, Mismatches: 33, Indels: 43
0.71 0.13 0.17
Matches are distributed among these distances:
47 3 0.02
48 46 0.25
49 99 0.54
50 32 0.17
51 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (50 bp):
ATGAGGGGAAGGCTTACGAAAAGTAATAATATGGTCCTGCTCCTAAACTC
Found at i:62443215 original size:23 final size:23
Alignment explanation
Indices: 62443186--62443266 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 23
62443176 AAAGATAGTT
62443186 TTTTCCACTTTAGGATACCTTAG
1 TTTTCCACTTTAGGATACCTTAG
*
62443209 TTTTCCATCTTGAAGGACTCTACTCATT--
1 TTTTCCA-CTT-TAGGA---TAC-C-TTAG
62443237 TTTTCCACTTTAGGATACCTTAG
1 TTTTCCACTTTAGGATACCTTAG
62443260 TTTTCCA
1 TTTTCCA
62443267 TCTTGAAGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
21 2 0.04
22 1 0.02
23 17 0.36
24 3 0.06
25 4 0.09
26 4 0.09
27 3 0.06
28 10 0.21
29 1 0.02
30 2 0.04
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.44
Consensus pattern (23 bp):
TTTTCCACTTTAGGATACCTTAG
Found at i:62443260 original size:51 final size:51
Alignment explanation
Indices: 62443184--62443280 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
62443174 GCAAAGATAG
62443184 TTTTTTCCACTTTAGGATACCTTAGTTTTCCATCTTGAAGGACTCTACTCA
1 TTTTTTCCACTTTAGGATACCTTAGTTTTCCATCTTGAAGGACTCTACTCA
*
62443235 TTTTTTCCACTTTAGGATACCTTAGTTTTCCATCTTGAAGTACTCT
1 TTTTTTCCACTTTAGGATACCTTAGTTTTCCATCTTGAAGGACTCT
62443281 GGTCACATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (51 bp):
TTTTTTCCACTTTAGGATACCTTAGTTTTCCATCTTGAAGGACTCTACTCA
Found at i:62447332 original size:43 final size:43
Alignment explanation
Indices: 62447255--62447438 Score: 215
Period size: 43 Copynumber: 4.3 Consensus size: 43
62447245 AGTTTGGAAT
** * * *
62447255 TTCGCCAATGGGCGAATTGCATGAAGTCTACTATTATATAGTA
1 TTCGCCAATGGGAAAATTGTATAAAGTCTGCTATTATATAGTA
* * * *
62447298 TTCGCCAATGAGAAAATTATATAAAGTTTTCTATTATATAGTA
1 TTCGCCAATGGGAAAATTGTATAAAGTCTGCTATTATATAGTA
*
62447341 TTCACCAATGGGAAAATTGTATAAAGTCTGCTATTATATAGTA
1 TTCGCCAATGGGAAAATTGTATAAAGTCTGCTATTATATAGTA
* * * * * *
62447384 TTGGCCAACGGGCAAATTGTATAAAGTCTGCTTTTGTATGGTA
1 TTCGCCAATGGGAAAATTGTATAAAGTCTGCTATTATATAGTA
*
62447427 TTGGCCAATGGG
1 TTCGCCAATGGG
62447439 TGAACTAAGT
Statistics
Matches: 120, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 120 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (43 bp):
TTCGCCAATGGGAAAATTGTATAAAGTCTGCTATTATATAGTA
Found at i:62450155 original size:46 final size:46
Alignment explanation
Indices: 62450088--62450260 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
62450078 AACCCGCCCC
* * * *
62450088 TAAGTGAACTCAGACTCAACTCAATGAGCTCGGACGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
62450134 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
62450182 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
62450227 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62450261 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.28
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:62450252 original size:93 final size:93
Alignment explanation
Indices: 62450093--62450263 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
62450083 GCCCCTAAGT
* * *
62450093 GAACTCAGACTCAACTCAATGAGCTCGGACGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62450158 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
62450186 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62450251 CGAGTTCGGATGC
66 CGAGTTCGGATGC
62450264 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:62464526 original size:40 final size:40
Alignment explanation
Indices: 62464467--62464734 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
62464457 GAGCATTGGA
*
62464467 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
62464507 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
62464547 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
62464587 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
62464627 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
62464667 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
62464707 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
62464735 ATGTGTTTGC
Statistics
Matches: 219, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:62472281 original size:28 final size:28
Alignment explanation
Indices: 62472248--62472375 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
62472238 ATAGTAAGTC
*
62472248 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62472276 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
62472305 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
62472333 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
62472362 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62472376 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:62472338 original size:57 final size:57
Alignment explanation
Indices: 62472247--62472375 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
62472237 TATAGTAAGT
*
62472247 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
62472304 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
62472361 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
62472376 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:62477562 original size:47 final size:47
Alignment explanation
Indices: 62477504--62477710 Score: 315
Period size: 47 Copynumber: 4.4 Consensus size: 47
62477494 CAGCCAAGAC
62477504 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
62477551 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
62477598 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
62477645 AGAGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
62477692 AGCGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
62477711 TCCCGAAGGG
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 147 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:62477885 original size:37 final size:37
Alignment explanation
Indices: 62477829--62477907 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
62477819 CCGAGCTCTA
* *
62477829 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
62477866 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
62477903 AAGAC
1 AAGAC
62477908 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62479888 original size:15 final size:16
Alignment explanation
Indices: 62479847--62479889 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
62479837 AAAAACATTA
*
62479847 TATAATAACAAATCAAC
1 TATAA-AACAAAACAAC
62479864 TATAAAACAAAACAA-
1 TATAAAACAAAACAAC
*
62479879 TATAACACAAA
1 TATAAAACAAA
62479890 TATATCATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 9 0.38
17 5 0.21
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.19
Consensus pattern (16 bp):
TATAAAACAAAACAAC
Found at i:62492193 original size:20 final size:20
Alignment explanation
Indices: 62492165--62492203 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62492155 TGTGAAACTT
*
62492165 ATTGGTGAATATTTTATATA
1 ATTGATGAATATTTTATATA
62492185 ATTGATGAATATTTTATAT
1 ATTGATGAATATTTTATAT
62492204 TGCAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (20 bp):
ATTGATGAATATTTTATATA
Found at i:62497014 original size:212 final size:211
Alignment explanation
Indices: 62496647--62497065 Score: 687
Period size: 212 Copynumber: 2.0 Consensus size: 211
62496637 CACTAGAGGA
* * *
62496647 CATGGAGGGAAAAGCGTCAATTCAACAAGGGCTCAAGCAAATTTGACAAAAATTAGTCACCTAAG
1 CATGGAGGGAAAAGAGTCAAGTCAACAAGGGCTCAAGCAAATCTGACAAAAATTAGTCACCTAAG
*
62496712 GAGACAACTTCTACTAAGATTTTTTCTTTTGATGAAAACCAACATCTCAAGCATCTCCTGCCTCA
66 GAGACAACTTCTACTAAGATTTTTTCTTTTGATGAAAACCAACATCTCAAGCATCTACTGCCTCA
62496777 AATTGACACTTTCTCTAGTGCAACATCCAACTTTGTGAAGTCTAACTTTGGATTTTGATACCCAA
131 AATTGACAC-TTCTCTAGTGCAACATCCAACTTTGTGAAGTCTAACTTTGGATTTTGATACCCAA
*
62496842 ATTTTATTGGGTTCGGG
195 ATATTATTGGGTTCGGG
**
62496859 CATGGAGGGAAAAGAGTCAAGTCAACAAGGGCTCAAGCAAATCTGACAAAAATTATAGTCATTTA
1 CATGGAGGGAAAAGAGTCAAGTCAACAAGGGCTCAAGCAAATCTGACAAAAA-T-TAGTCACCTA
* * * *
62496924 AGGAGACAACTTCTACTAAGATTTTTTCTTTTGGTGAAATCCAACATCTCAAGCATCTATTGTCT
64 AGGAGACAACTTCTACTAAGATTTTTTCTTTTGATGAAAACCAACATCTCAAGCATCTACTGCCT
**
62496989 CAAATTGACAC-TCTCTAGTGCAACATCCAACTTTGTGGCGTCTAACTTTGGATTTTGATACCCA
129 CAAATTGACACTTCTCTAGTGCAACATCCAACTTTGTGAAGTCTAACTTTGGATTTTGATACCCA
62497053 AATATTATTGGGT
194 AATATTATTGGGT
62497066 CCTTTGGCAT
Statistics
Matches: 192, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
212 112 0.58
213 1 0.01
214 79 0.41
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (211 bp):
CATGGAGGGAAAAGAGTCAAGTCAACAAGGGCTCAAGCAAATCTGACAAAAATTAGTCACCTAAG
GAGACAACTTCTACTAAGATTTTTTCTTTTGATGAAAACCAACATCTCAAGCATCTACTGCCTCA
AATTGACACTTCTCTAGTGCAACATCCAACTTTGTGAAGTCTAACTTTGGATTTTGATACCCAAA
TATTATTGGGTTCGGG
Found at i:62497611 original size:15 final size:15
Alignment explanation
Indices: 62497573--62497613 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
62497563 CTTTTGTTCA
62497573 AATCTTGTTGTAGAT
1 AATCTTGTTGTAGAT
*
62497588 AAT-TGTGTTGTGGAT
1 AATCT-TGTTGTAGAT
62497603 AATCTTGTTGT
1 AATCTTGTTGT
62497614 TTATTGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.22, C:0.05, G:0.24, T:0.49
Consensus pattern (15 bp):
AATCTTGTTGTAGAT
Found at i:62499136 original size:3 final size:3
Alignment explanation
Indices: 62499128--62499152 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
62499118 ATATTAAGAG
62499128 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
62499153 TAGGAAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:62508758 original size:3 final size:3
Alignment explanation
Indices: 62508750--62508806 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
62508740 TAGATTTCAA
* **
62508750 TAT TAT TAT TAT TAT TAT TAT TGT GGT T-T TACT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
*
62508794 CAT TAT TAT TAT T
1 TAT TAT TAT TAT T
62508807 CACTATATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
2 4 0.09
3 39 0.85
4 3 0.07
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:62510073 original size:38 final size:38
Alignment explanation
Indices: 62510022--62510100 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
62510012 TTCACCTCCG
*
62510022 TATAGGATAGTGGATCGCTTCCTGGATACATCTATACC
1 TATAGGATAGTGGATCGCTTCCGGGATACATCTATACC
62510060 TATAGGATAGTGGATCGCTTCCGGGATACATCTATACC
1 TATAGGATAGTGGATCGCTTCCGGGATACATCTATACC
62510098 TAT
1 TAT
62510101 GTCTTTGTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (38 bp):
TATAGGATAGTGGATCGCTTCCGGGATACATCTATACC
Found at i:62511255 original size:19 final size:18
Alignment explanation
Indices: 62511231--62511274 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
62511221 ACCTTTTTTC
*
62511231 TGCATTCATCCCATGCATT
1 TGCATTCATCCCAT-CATA
*
62511250 TGCATTTCATCGCATCATA
1 TGCA-TTCATCCCATCATA
62511269 TGCATT
1 TGCATT
62511275 AAGTCTCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 11 0.50
20 9 0.41
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.39
Consensus pattern (18 bp):
TGCATTCATCCCATCATA
Found at i:62519681 original size:95 final size:95
Alignment explanation
Indices: 62519509--62519682 Score: 215
Period size: 95 Copynumber: 1.8 Consensus size: 95
62519499 CATAATAAGT
* * **
62519509 CTTATCTCCCTAAAGTTGCAGTGGACCAGATTAAAGATAGCGAATCTTATTTCCCTAAAATTGCA
1 CTTATCTCCCTAAAGTTGCAGTGGACCAGATTAAAGATAGCAAATCTCAACTCCCTAAAATTGCA
* *
62519574 GTGGAACGGATTGACATTATCATGACGAGC
66 GTAGAACAGATTGACATTATCATGACGAGC
* * * * * *
62519604 CTTATCTCCTTAAAGTTGCAGTGGAGCAGGTTAAAAGTTA-CAAATCTCAACTCCCTGAAGTTGC
1 CTTATCTCCCTAAAGTTGCAGTGGACCAGATT-AAAGATAGCAAATCTCAACTCCCTAAAATTGC
*
62519668 AGTAGAGCAGATTGA
65 AGTAGAACAGATTGA
62519683 AGTTAGATCT
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
95 59 0.91
96 6 0.09
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (95 bp):
CTTATCTCCCTAAAGTTGCAGTGGACCAGATTAAAGATAGCAAATCTCAACTCCCTAAAATTGCA
GTAGAACAGATTGACATTATCATGACGAGC
Found at i:62519846 original size:44 final size:45
Alignment explanation
Indices: 62519505--62519900 Score: 261
Period size: 45 Copynumber: 8.8 Consensus size: 45
62519495 CTACCATAAT
* * * *
62519505 AAGTCTTATCTCCCTAAAGTTGCAGTGGACCAGATTAAAGATAGC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGC
* * * * * *
62519550 GAA-TCTTATTTCCCTAAAATTGCAGTGGAACGGATTGACATTATCATGAC
1 -AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGT-T-A-G-C
* * * * * *
62519600 GAGCCTTATCTCCTTAAAGTTGCAGTGGAGCAGGTTAAAAGTTA-C
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAGTTAGC
* * * *
62519645 AAATCTCAACTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTAG-
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGC
** * * * *
62519689 -A-TCTTATCTCCCTGAAGTTGCAGTGGAATAGA-TCAGGGATAGA
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGTTAGC
* * * ** ** *
62519732 AAATCTTATCTCTCTGATGTTGCAGTAAAGCAGATACAAATTA-C
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGC
* *
62519776 AAGCCTTAACTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGC
* *
62519820 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGC
* * * * *
62519865 GAA-TCTTATTTACTTGAAGTTGCAGTAGAACAGATT
1 -AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
62519901 AAAGCTATAA
Statistics
Matches: 269, Mismatches: 66, Indels: 31
0.73 0.18 0.08
Matches are distributed among these distances:
41 2 0.01
42 30 0.11
43 1 0.00
44 80 0.30
45 113 0.42
46 7 0.03
47 1 0.00
48 2 0.01
49 3 0.01
50 29 0.11
51 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (45 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGC
Found at i:62519887 original size:45 final size:44
Alignment explanation
Indices: 62519616--62519890 Score: 150
Period size: 44 Copynumber: 6.2 Consensus size: 44
62519606 TATCTCCTTA
** * * * * * *
62519616 AAGTTGCAGTGGAGCAGGTTAAAAGTTACAAATCTCAACTCCCTG
1 AAGTTGCAGTGGAGCAGACT-GAAGATACAAGTCTTATCTACCTG
* * * * *
62519661 AAGTTGCAGTAGAGCAGATTGAAGTTA-GA-TCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGACTGAAGATACAAGTCTTATCTACCTG
** * * * *
62519703 AAGTTGCAGTGGAATAGA-TCAGGGATAGAAAATCTTATCT-CTCTG
1 AAGTTGCAGTGGAGCAGACTGA-AGATA-CAAGTCTTATCTAC-CTG
* ** * * * *
62519748 ATGTTGCAGTAAAGCAGA-T-ACAAATTACAAGCCTTAACTCCCTG
1 AAGTTGCAGTGGAGCAGACTGA-AGA-TACAAGTCTTATCTACCTG
* * *
62519792 AAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGACTGAAGATACAAGTCTTATCTACCTG
* *
62519836 AAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-TCTTATTTACTTG
1 AAGTTGCAGTGGAGCAGACTGAAGATA-C-AAGTCTTATCTACCTG
62519881 AAGTTGCAGT
1 AAGTTGCAGT
62519891 AGAACAGATT
Statistics
Matches: 182, Mismatches: 37, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.01
42 29 0.16
43 1 0.01
44 78 0.43
45 69 0.38
46 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (44 bp):
AAGTTGCAGTGGAGCAGACTGAAGATACAAGTCTTATCTACCTG
Found at i:62519887 original size:133 final size:131
Alignment explanation
Indices: 62519652--62519899 Score: 340
Period size: 133 Copynumber: 1.9 Consensus size: 131
62519642 TACAAATCTC
*
62519652 AACTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTAGATCTTATCTCCCTGAAGTTGCAGTGGAA
1 AACTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTAAATCTTATCTCCCTGAAGTTGCAGTGGAA
* * *
62519717 TAGATCAGGGATAGAAAATCTTATCTCTCTGATGTTGCAGTA-AAGCAGATACAAATTACAAGCC
66 CAGATCAGAGATAGAAAATCTTATCTCTCTGAAGTTGCAGTAGAA-CAGATACAAATTACAAGCC
62519781 TT
130 TT
*
62519783 AACTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGG
1 AACTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTA-AA-TCTTATCTCCCTGAAGTTGCAGTGG
* * ** *
62519848 AGCAGA-CTGAAGATAGCGAATCTTATTTACT-TGAAGTTGCAGTAGAACAGAT
64 AACAGATCAG-AGATAGAAAATCTTATCT-CTCTGAAGTTGCAGTAGAACAGAT
62519900 TAAAGCTATA
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
131 35 0.34
132 3 0.03
133 60 0.59
134 4 0.04
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (131 bp):
AACTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTAAATCTTATCTCCCTGAAGTTGCAGTGGAA
CAGATCAGAGATAGAAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGATACAAATTACAAGCCT
T
Found at i:62532118 original size:40 final size:40
Alignment explanation
Indices: 62532063--62532186 Score: 153
Period size: 40 Copynumber: 3.1 Consensus size: 40
62532053 ATCGAACACA
* *
62532063 CCAAACAAAAACTCATAAGAGTTTATCCAACCGAAATACG
1 CCAAACAAAAGCTCATAAGAGTTGATCCAACCGAAATACG
* * *
62532103 CCAAACAAAAGCTCATAAGAGCTGGTCCACCCGAAATACG
1 CCAAACAAAAGCTCATAAGAGTTGATCCAACCGAAATACG
* * *
62532143 CC-AACAGAAGCTCATAAAAGTTGATCC-ACCCAAATCACG
1 CCAAACAAAAGCTCATAAGAGTTGATCCAACCGAAAT-ACG
62532182 CCAAA
1 CCAAA
62532187 TAGAAAGTAT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
38 6 0.08
39 26 0.37
40 39 0.55
ACGTcount: A:0.44, C:0.29, G:0.13, T:0.15
Consensus pattern (40 bp):
CCAAACAAAAGCTCATAAGAGTTGATCCAACCGAAATACG
Found at i:62535360 original size:57 final size:57
Alignment explanation
Indices: 62535272--62535404 Score: 223
Period size: 57 Copynumber: 2.3 Consensus size: 57
62535262 TCAATAGTTG
*
62535272 AAAGATGTTATGGCATCAAGTAATGATTTGACAGTAGAATGAGTAAGTCTATAGCTA
1 AAAGATGTTATGGCATCAAGTAATGATTTGACAGTAGAATGAGTAAGTCCATAGCTA
*
62535329 AAAGATGTTATGGCATCAAGTGATGATTTGACAGTAGAATGAGTAAGTCCATAGCTA
1 AAAGATGTTATGGCATCAAGTAATGATTTGACAGTAGAATGAGTAAGTCCATAGCTA
*
62535386 AAAGA-GACTATGGCATCAA
1 AAAGATG-TTATGGCATCAA
62535405 AGATTGTCCG
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
56 1 0.01
57 71 0.99
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (57 bp):
AAAGATGTTATGGCATCAAGTAATGATTTGACAGTAGAATGAGTAAGTCCATAGCTA
Found at i:62547413 original size:21 final size:23
Alignment explanation
Indices: 62547389--62547437 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
62547379 AACCAAATTC
62547389 TTAA-TAATTAAAAA-TATTGCA
1 TTAATTAATTAAAAATTATTGCA
**
62547410 TTAATTTCTTTAAAAATTATTGCA
1 TTAA-TTAATTAAAAATTATTGCA
62547434 TTAA
1 TTAA
62547438 AATGGACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 4 0.17
23 8 0.35
24 11 0.48
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (23 bp):
TTAATTAATTAAAAATTATTGCA
Found at i:62547545 original size:36 final size:36
Alignment explanation
Indices: 62547499--62547578 Score: 153
Period size: 36 Copynumber: 2.2 Consensus size: 36
62547489 TTAACTGTAG
62547499 TTAA-GACTTGTTTAAGAATTTCATTCCATTTAAGA
1 TTAAGGACTTGTTTAAGAATTTCATTCCATTTAAGA
62547534 TTAAGGACTTGTTTAAGAATTTCATTCCATTTAAGA
1 TTAAGGACTTGTTTAAGAATTTCATTCCATTTAAGA
62547570 TTAAGGACT
1 TTAAGGACT
62547579 ACATAAATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 4 0.09
36 40 0.91
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (36 bp):
TTAAGGACTTGTTTAAGAATTTCATTCCATTTAAGA
Found at i:62550191 original size:3 final size:3
Alignment explanation
Indices: 62550185--62550215 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
62550175 CCTATTATTT
*
62550185 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
62550216 GAAGTTCTCT
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:62551836 original size:23 final size:21
Alignment explanation
Indices: 62551806--62551849 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
62551796 AAATTAAATC
62551806 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC--AATCATATCT
*
62551829 TCTAAGATTGCAATCATATCT
1 TCTAAGATTACAATCATATCT
62551850 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
23 10 0.50
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (21 bp):
TCTAAGATTACAATCATATCT
Found at i:62551852 original size:18 final size:19
Alignment explanation
Indices: 62551829--62551864 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
62551819 AATCATATCT
62551829 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
62551847 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
62551865 TAAAGATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:62551872 original size:17 final size:18
Alignment explanation
Indices: 62551832--62551872 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
62551822 CATATCTTCT
*
62551832 AAGATTGCAATCATATCT
1 AAGATTGCAATCATATCA
62551850 AAGATTGCATATCAT-T-A
1 AAGATTGCA-ATCATATCA
62551867 AAGATT
1 AAGATT
62551873 ATATTTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 5 0.24
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (18 bp):
AAGATTGCAATCATATCA
Found at i:62552275 original size:45 final size:45
Alignment explanation
Indices: 62552219--62552412 Score: 246
Period size: 45 Copynumber: 4.3 Consensus size: 45
62552209 CGATATTTGC
*
62552219 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* *
62552264 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* * * *
62552309 T-TCTTCAATCTGCTCCCTGTCTAATACAGAAATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* * * ** *
62552353 TATCTCCAATTTGCTCCATGTCTAATACAGAGACACCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* *
62552398 CATCTTGGATCTGCT
1 TATCTTCGATCTGCT
62552413 TCGATGTAAA
Statistics
Matches: 130, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 40 0.31
45 90 0.69
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
Found at i:62552346 original size:89 final size:89
Alignment explanation
Indices: 62552227--62552396 Score: 250
Period size: 89 Copynumber: 1.9 Consensus size: 89
62552217 GCTATCTTTG
* * * *
62552227 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAAACGCCAAATCTGTTATCTCCAATCTGCTCCACGTCTAATAC
**
62552292 AGAGATGCCAAATCTGCTTCTTCA
66 AGAGACACCAAATCTGCTTCTTCA
* * * *
62552316 ATCTGCTCCCTGTCTAATACAGAAATGCCAAATCTGTTATCTCCAATTTGCTCCATGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAAACGCCAAATCTGTTATCTCCAATCTGCTCCACGTCTAATAC
62552381 AGAGACACCAAATCTG
66 AGAGACACCAAATCTG
62552397 TCATCTTGGA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAGAAACGCCAAATCTGTTATCTCCAATCTGCTCCACGTCTAATAC
AGAGACACCAAATCTGCTTCTTCA
Found at i:62552566 original size:78 final size:78
Alignment explanation
Indices: 62552426--62552719 Score: 414
Period size: 78 Copynumber: 3.8 Consensus size: 78
62552416 ATGTAAACAC
*
62552426 ATGAAGGTCAGATCTGCTATGTCTTCGGTCTGCTCAT-CGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC-TCCGTCTAATACAGAGATGCCAAATCATC
*
62552490 TTGAATCTGCTTCA
65 TTGGATCTGCTTCA
* *
62552504 AT-AAGGGTCCA-ATCTGTTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGAAGCCAAATCAT
1 ATGAA-GGT-CAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCAT
62552567 CTTGGATCTGCTTCA
64 CTTGGATCTGCTTCA
* * * * *
62552582 ATGAAGGTTAGATCTGCTGTGTCTTCGATCTGCTCCCCATCTAATACAAAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
*
62552647 TGGATTTGCTTCA
66 TGGATCTGCTTCA
* * **
62552660 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCTCCGTCGAATATGGAGATGCCAAAT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAAT
62552720 TTATTTTTTT
Statistics
Matches: 190, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
77 4 0.02
78 182 0.96
79 4 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:62561748 original size:36 final size:36
Alignment explanation
Indices: 62561670--62561760 Score: 139
Period size: 35 Copynumber: 2.5 Consensus size: 36
62561660 AATCGTATCT
*
62561670 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAAATTGCAATCATA
62561707 TCTAAGATTG-TATCATATCTAAAATTGCATATCATA
1 TCTAAGATTGATATCATATCTAAAATTGCA-ATCATA
62561743 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
62561761 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 18 0.36
36 16 0.32
37 10 0.20
38 6 0.12
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAAATTGCAATCATA
Found at i:62561768 original size:17 final size:19
Alignment explanation
Indices: 62561670--62561760 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
62561660 AATCGTATCT
62561670 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
62561689 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
62561707 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
62561724 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
62561743 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
62561761 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:62570074 original size:25 final size:25
Alignment explanation
Indices: 62570046--62570124 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
62570036 GTAATGACCG
62570046 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
62570071 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
62570093 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
62570118 ATGTGAT
1 ATGTGAT
62570125 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:62570097 original size:38 final size:40
Alignment explanation
Indices: 62570053--62570284 Score: 160
Period size: 49 Copynumber: 5.0 Consensus size: 40
62570043 CCGATGTGAT
62570053 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-----G
62570098 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 --GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-----G
62570145 ATGAATGTGAAAGTGTATATATATGTGAT-AGGACCTAATGGCCGATGTG
1 --GAATGTGAAAGTG--TATATATGTGATAAGG-CCTAATGGCC-----G
62570194 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 --GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC-----G
62570243 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 --GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62570285 ATGTGATGAA
Statistics
Matches: 181, Mismatches: 0, Indels: 13
0.93 0.00 0.07
Matches are distributed among these distances:
42 1 0.01
47 86 0.48
48 3 0.02
49 88 0.49
50 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (40 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:62570185 original size:49 final size:47
Alignment explanation
Indices: 62570037--62570366 Score: 527
Period size: 47 Copynumber: 6.9 Consensus size: 47
62570027 TAGTATGGCG
*
62570037 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
62570084 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
62570131 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGACC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG-CC
62570180 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
62570229 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
62570276 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
62570323 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
62570367 TCCCGAAGGG
Statistics
Matches: 268, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
47 174 0.65
48 3 0.01
49 88 0.33
50 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:62570541 original size:37 final size:37
Alignment explanation
Indices: 62570485--62570563 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
62570475 CCGAGCTCTA
* *
62570485 AAGACCCGATGACTACGTGTGGGGATT-TTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATT-TCCGGGT
*
62570522 AAGACCCGATAACTTCGTGTGGAGATTATTTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATTTCCGGGT
62570559 AAGAC
1 AAGAC
62570564 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATTTCCGGGT
Found at i:62571632 original size:29 final size:29
Alignment explanation
Indices: 62571600--62571659 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
62571590 TAACATGTGA
*
62571600 GTTTAGATATTAGTAAGTAAATGTTAAGT
1 GTTTAGATATTAGTAAGTAAAAGTTAAGT
62571629 GTTTAGATATTAGTAAGTAAAAGTTAAGT
1 GTTTAGATATTAGTAAGTAAAAGTTAAGT
62571658 GT
1 GT
62571660 GGTTTTAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.40
Consensus pattern (29 bp):
GTTTAGATATTAGTAAGTAAAAGTTAAGT
Found at i:62573024 original size:53 final size:52
Alignment explanation
Indices: 62572890--62573028 Score: 165
Period size: 52 Copynumber: 2.7 Consensus size: 52
62572880 AATATGCTTA
* *
62572890 CGTATAAGACCATAGCTAGGCTATGGCATCGGTACAATGTGATTCGAGTTCC
1 CGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATTCGAATTCC
* **
62572942 CGTATAAGACCATAGCCGGGCTATGGCATCGGTGTAATGTGATAAT-GTAATT-C
1 CGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGAT--TCG-AATTCC
* * *
62572995 CTTATAAGACCATATCTGGGATATGGCATCGGTA
1 CGTATAAGACCATAGCTGGGCTATGGCATCGGTA
62573029 TGTTATGTGA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
52 39 0.53
53 31 0.42
54 4 0.05
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (52 bp):
CGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATTCGAATTCC
Found at i:62574123 original size:53 final size:52
Alignment explanation
Indices: 62574048--62574198 Score: 155
Period size: 51 Copynumber: 2.9 Consensus size: 52
62574038 ATAACATACT
* * * * *
62574048 GATGCCATATCCTAGATTTGGTCTTATACGGAATCACATTATCACGTCACACC
1 GATGCCATAGCCCAGCTATGGTCTTATACGGAATCACA-TATCACATCACACC
* ***
62574101 GATGCCATAGCCCAGCTATGGTCTTATACGGGAACTC-GA-ATCACATTGTACC
1 GATGCCATAGCCCAGCTATGGTCTTATAC-GGAA-TCACATATCACATCACACC
* *
62574153 GATGCTAT-GCCCAGCTATGGTCTTATACGAAATCACATATCACATC
1 GATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATATCACATC
62574199 TTTTCCGTCA
Statistics
Matches: 81, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
49 2 0.02
50 4 0.05
51 27 0.33
52 16 0.20
53 25 0.31
54 5 0.06
55 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (52 bp):
GATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATATCACATCACACC
Found at i:62580625 original size:20 final size:20
Alignment explanation
Indices: 62580600--62580640 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
62580590 TGAAAATAGG
62580600 GGGACATGCCCATGTGGCCT
1 GGGACATGCCCATGTGGCCT
* *
62580620 GGGACATGCTCGTGTGGCCT
1 GGGACATGCCCATGTGGCCT
62580640 G
1 G
62580641 CCTATGGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.39, T:0.22
Consensus pattern (20 bp):
GGGACATGCCCATGTGGCCT
Found at i:62581552 original size:52 final size:52
Alignment explanation
Indices: 62581431--62581573 Score: 164
Period size: 52 Copynumber: 2.7 Consensus size: 52
62581421 ATCACATAAC
* * *
62581431 ATACCGATGCCATATCCTAGATATGGTCTTATACGGAATTACATTATCACATT
1 ATACCGATGCCATAGCCTAGCTATGGTCTTATACGGAACTACA-TATCACATT
* * *
62581484 ACACCGATGGCATAGCCCAGCTATGGTCTTATACGGGAACT-CGA-ATCACATT
1 ATACCGATGCCATAGCCTAGCTATGGTCTTATAC-GGAACTAC-ATATCACATT
* * *
62581536 GTACCAATGCCATAGCCTAGCTATGGTCTTATAAGGAA
1 ATACCGATGCCATAGCCTAGCTATGGTCTTATACGGAA
62581574 GCACATTTGA
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
51 4 0.05
52 36 0.47
53 30 0.39
54 6 0.08
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (52 bp):
ATACCGATGCCATAGCCTAGCTATGGTCTTATACGGAACTACATATCACATT
Found at i:62584596 original size:12 final size:12
Alignment explanation
Indices: 62584579--62584603 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62584569 ATGTAAGTGA
62584579 TCTTGATGATTT
1 TCTTGATGATTT
62584591 TCTTGATGATTT
1 TCTTGATGATTT
62584603 T
1 T
62584604 TACATTTTTG
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:62584957 original size:30 final size:30
Alignment explanation
Indices: 62584923--62584980 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
62584913 TTTTTGGGCC
*
62584923 TAGGGGCAAAATGGTCATTTTGCCAAGGTA
1 TAGGGGCAAAATGGTCATTTTACCAAGGTA
62584953 TAGGGGCAAAATGGTCATTTTACCAAGG
1 TAGGGGCAAAATGGTCATTTTACCAAGG
62584981 CTGTGAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAGGTA
Found at i:62585541 original size:47 final size:46
Alignment explanation
Indices: 62585316--62585581 Score: 235
Period size: 47 Copynumber: 5.7 Consensus size: 46
62585306 TGTGTGTGCT
* * * *
62585316 AGTGTAAGACATGTCAGGGACAT-GCATCGGC-C-ACATTATGGAAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGACTCGAGA-TAT--AAGCC
* * *
62585362 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACT-GAGACGAGT--GCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATC-G-ACTCGAGA-TA-TAAGCC
*
62585410 AGTGTAAGACATGTCTGGGACAT-GCATCGACCTCAAGATATAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGA-CTCGAGATATAAGCC
* * *
62585456 AGTGTAAGACATGTTTGGGACAT-GCATCGGCTACGAGATGAT-AGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACT-CGAGAT-ATAAGCC
* *
62585502 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGACTCGAGATATAAGCC
62585549 AGTGTAAGATCATGTCTGGGACATGGCATCGAC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGAC
62585582 ACCTTACCCA
Statistics
Matches: 185, Mismatches: 19, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
44 2 0.01
45 6 0.03
46 66 0.36
47 80 0.43
48 25 0.14
49 1 0.01
50 1 0.01
51 3 0.02
52 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACTCGAGATATAAGCC
Found at i:62585568 original size:140 final size:141
Alignment explanation
Indices: 62585316--62585581 Score: 357
Period size: 140 Copynumber: 1.9 Consensus size: 141
62585306 TGTGTGTGCT
* *
62585316 AGTGTAAGACATGTCAGGGACATGCATCGGCCACATTATGGAAGCTAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCAGGGACATGCATCGGCCACATGATGGAAGCTAGTGTAAGACCATGTCTGG
* *
62585381 GACATGGCATCGGCACTGAGACGAGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACCTCA
66 GACATGGCATCGGCACTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACCTCA
62585445 AGATATAAGCC
131 AGATATAAGCC
** *
62585456 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGA-GAT-GATAG-TCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCAGGGACATGCATCGGCCAC-ATGATGGA-AGCT-AGTGTAAGACCATGTC
*
62585518 TGGGACATGGCATC-G-ACTTGAGA-TATGAGCCAGTGTAAGATCATGTCTGGGACATGGCATCG
63 TGGGACATGGCATCGGCAC-TGAGACGA-GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCG
62585580 AC
125 AC
62585582 ACCTTACCCA
Statistics
Matches: 111, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
138 3 0.03
139 21 0.19
140 78 0.70
141 9 0.08
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCAGGGACATGCATCGGCCACATGATGGAAGCTAGTGTAAGACCATGTCTGG
GACATGGCATCGGCACTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACCTCA
AGATATAAGCC
Found at i:62590041 original size:19 final size:19
Alignment explanation
Indices: 62590017--62590054 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
62590007 AATCTCACAA
62590017 AAACATAATTGAGCCAAAT
1 AAACATAATTGAGCCAAAT
*
62590036 AAACATAATTGAGCTAAAT
1 AAACATAATTGAGCCAAAT
62590055 TTTCAACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.24
Consensus pattern (19 bp):
AAACATAATTGAGCCAAAT
Found at i:62591218 original size:19 final size:20
Alignment explanation
Indices: 62591189--62591239 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
62591179 CCTTTTACTA
**
62591189 AAAAAACTAAAATTAACTTT
1 AAAAAACTAAAAAAAACTTT
*
62591209 AAAAAA-TAAAAAAAAGTTT
1 AAAAAACTAAAAAAAACTTT
*
62591228 AAAAAATTAAAA
1 AAAAAACTAAAA
62591240 GATAAATGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAACTAAAAAAAACTTT
Found at i:62591262 original size:119 final size:124
Alignment explanation
Indices: 62591110--62591345 Score: 297
Period size: 119 Copynumber: 1.9 Consensus size: 124
62591100 TTTTAGAAGG
* * * *
62591110 AAATTAAAATGATAAAATAGTTTTTCCTATAAAAACCCAAG-TAATTTTCTATAAAACCTTGATT
1 AAATTAAAATGATAAAATAGTTCTTCCTATAAAAA-CCAAGTTAATTCTCTATAAAACC-TCATG
*
62591174 TTTTTC-CTTTTACTA-AAAAAACTAAAATTAACTTTAAAAA-ATAAAA-AAAAGTTTAAA
64 CTTTTCACTTTTACTAGAAAAAACTAAAATTAACTTTAAAAAGATAAAATAAAAGTTTAAA
* * * *
62591231 AAATTAAAA-GAT-AAATGGTTCTTCCTATAAAAACCTAGTTAATTCTCTATAAAATCTCCTGCT
1 AAATTAAAATGATAAAATAGTTCTTCCTATAAAAACCAAGTTAATTCTCTATAAAACCTCATGCT
* * *
62591294 TTTCACTTTTATTAGAAAATACTAAAATTAATTTTAAAAAGATAAAATAAAA
66 TTTCACTTTTACTAGAAAAAACTAAAATTAACTTTAAAAAGATAAAATAAAA
62591346 TAAATTTTCT
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
118 11 0.11
119 42 0.43
120 26 0.27
121 15 0.15
122 4 0.04
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (124 bp):
AAATTAAAATGATAAAATAGTTCTTCCTATAAAAACCAAGTTAATTCTCTATAAAACCTCATGCT
TTTCACTTTTACTAGAAAAAACTAAAATTAACTTTAAAAAGATAAAATAAAAGTTTAAA
Found at i:62591468 original size:25 final size:25
Alignment explanation
Indices: 62591429--62591482 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
62591419 TTACTTGAAG
62591429 AAAACTAAATTAATTATAAAAAC-T
1 AAAACTAAATTAATTATAAAAACAT
*
62591453 AAAACTAAAATTAATTTTAAAAACAT
1 AAAACT-AAATTAATTATAAAAACAT
62591479 AAAA
1 AAAA
62591483 AAAATGACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 6 0.22
25 16 0.59
26 5 0.19
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (25 bp):
AAAACTAAATTAATTATAAAAACAT
Found at i:62592078 original size:24 final size:24
Alignment explanation
Indices: 62592030--62592079 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
62592020 TAAAATTTTC
*
62592030 AATATTTTAAAATACAATTAGTTA
1 AATATTTTAAAATACAATTAATTA
62592054 AATATGTTTAAAA-A-AATTAAATTA
1 AATAT-TTTAAAATACAATT-AATTA
62592078 AA
1 AA
62592080 ATAAATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 4 0.17
24 12 0.52
25 7 0.30
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (24 bp):
AATATTTTAAAATACAATTAATTA
Found at i:62592202 original size:11 final size:11
Alignment explanation
Indices: 62592175--62592208 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
62592165 ATAAGTCTAA
62592175 ATGTTTAAAA-
1 ATGTTTAAAAT
*
62592185 GTGTTTAAAAT
1 ATGTTTAAAAT
62592196 ATGTTTAAAAT
1 ATGTTTAAAAT
62592207 AT
1 AT
62592209 ATTATAGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (11 bp):
ATGTTTAAAAT
Found at i:62593533 original size:31 final size:31
Alignment explanation
Indices: 62593496--62593555 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
62593486 TTTAATTTAA
62593496 TCAATTTTAGTTCCTT-TACTTTGTGAATTGG
1 TCAATTTTAG-TCCTTATACTTTGTGAATTGG
*
62593527 TCAATTTTAGTCCTTATACTTTTTGAATT
1 TCAATTTTAGTCCTTATACTTTGTGAATT
62593556 TTGAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.22, C:0.13, G:0.12, T:0.53
Consensus pattern (31 bp):
TCAATTTTAGTCCTTATACTTTGTGAATTGG
Found at i:62593564 original size:31 final size:30
Alignment explanation
Indices: 62593498--62593569 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
62593488 TAATTTAATC
*
62593498 AATTTTAGTTCCTTTACTTTGTGAATTGGTC
1 AATTTTAG-TCCTTTACTTTGTGAATTGGTA
* *
62593529 AATTTTAGTCCTTATACTTTTTGAATT-TTGA
1 AATTTTAGTCCTT-TACTTTGTGAATTGGT-A
62593560 AATTTTAGTC
1 AATTTTAGTC
62593570 TTGTTCCAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 6 0.17
31 30 0.83
ACGTcount: A:0.24, C:0.11, G:0.12, T:0.53
Consensus pattern (30 bp):
AATTTTAGTCCTTTACTTTGTGAATTGGTA
Found at i:62595932 original size:24 final size:24
Alignment explanation
Indices: 62595905--62595956 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
62595895 TTAGTAAGTC
*
62595905 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
62595929 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
62595953 AAAT
1 AAAT
62595957 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:62597902 original size:24 final size:24
Alignment explanation
Indices: 62597875--62597926 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
62597865 TTAGTAAGTC
*
62597875 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
62597899 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
62597923 AAAT
1 AAAT
62597927 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:62604994 original size:19 final size:19
Alignment explanation
Indices: 62604957--62604995 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
62604947 TAGTACGAAA
*
62604957 AACCAAATTAAAATTAATT
1 AACCAAATTAAAATAAATT
*
62604976 AACCAAATTAACATAAATT
1 AACCAAATTAAAATAAATT
62604995 A
1 A
62604996 TCTAAACTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (19 bp):
AACCAAATTAAAATAAATT
Found at i:62611241 original size:40 final size:40
Alignment explanation
Indices: 62611186--62611374 Score: 342
Period size: 40 Copynumber: 4.7 Consensus size: 40
62611176 GTTCGGATTG
62611186 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
62611226 ATAACCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
62611266 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
62611306 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
62611346 ATAACCAGGCTAAGTCTCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
62611375 AGCTAGTAGC
Statistics
Matches: 143, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:62615329 original size:14 final size:14
Alignment explanation
Indices: 62615310--62615343 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
62615300 TTTCTTTCCA
62615310 AACAAACAA-AAAGG
1 AACAAACAATAAA-G
62615324 AACAAACAATAAAG
1 AACAAACAATAAAG
62615338 AACAAA
1 AACAAA
62615344 AGGCCCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.74, C:0.15, G:0.09, T:0.03
Consensus pattern (14 bp):
AACAAACAATAAAG
Found at i:62618093 original size:19 final size:19
Alignment explanation
Indices: 62618071--62618114 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
62618061 AAATAATCTA
* *
62618071 ACACGATTCCACTACTCAG
1 ACACAATTCCACTAATCAG
62618090 ACACAATTCCACTAATCAG
1 ACACAATTCCACTAATCAG
*
62618109 ATACAA
1 ACACAA
62618115 CCATTGAGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.32, G:0.07, T:0.20
Consensus pattern (19 bp):
ACACAATTCCACTAATCAG
Found at i:62620237 original size:47 final size:46
Alignment explanation
Indices: 62620184--62620352 Score: 184
Period size: 47 Copynumber: 3.6 Consensus size: 46
62620174 TTTTAGCATT
*
62620184 CGAACTCGTTGAGTTTAGTCCGAGTTCGTGAGATGAAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGAAACTAGGCA-C
* * *
62620231 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC-C
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-AAACTAGGCAC
* * *
62620277 CGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGTAC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGAAACTAGGCAC
*
62620323 TCGAACTCGTTGAGTTGAGTCTGAGTTCGT
1 -CGAACTCGTTGAGTTGAGTCCGAGTTCGT
62620353 TTATGGGAGG
Statistics
Matches: 102, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 28 0.27
47 53 0.52
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGAAACTAGGCAC
Found at i:62624613 original size:19 final size:18
Alignment explanation
Indices: 62624562--62624613 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
62624552 ATCAAGGATC
*
62624562 AATTTGAAACAAAACAGAA
1 AATTTGGAA-AAAACAGAA
* *
62624581 AATTTTAGAGAAAACATGAA
1 AA-TTTGGAAAAAACA-GAA
62624601 AATTTGGAAAAAA
1 AATTTGGAAAAAA
62624614 ATGGTCACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.21
Consensus pattern (18 bp):
AATTTGGAAAAAACAGAA
Found at i:62624614 original size:20 final size:18
Alignment explanation
Indices: 62624562--62624614 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
62624552 ATCAAGGATC
62624562 AATTTGAAACAAAACAGAA
1 AATTTGAAA-AAAACAGAA
* *
62624581 AATTTTAGAGAAAACATGAA
1 AATTTGA-AAAAAACA-GAA
62624601 AATTTGGAAAAAAA
1 AATTT-GAAAAAAA
62624615 TGGTCACATG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 12 0.44
20 14 0.52
21 1 0.04
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.21
Consensus pattern (18 bp):
AATTTGAAAAAAACAGAA
Found at i:62625206 original size:47 final size:46
Alignment explanation
Indices: 62625109--62625216 Score: 117
Period size: 47 Copynumber: 2.3 Consensus size: 46
62625099 GATTCAGTAA
* * * *
62625109 TTAATATGTCTTAAGTTAATTAATATGTTCTAATTAGTTCAGCTAT
1 TTAATATGTCTTAAGTTAATTAATATGTTCTAATTAATACAACTAC
** * *
62625155 TTAATATGTCTTAAGTTTGTTTAATTTGTTCTAGTTAATACAACTAC
1 TTAATATGTCTTAAG-TTAATTAATATGTTCTAATTAATACAACTAC
* *
62625202 TTAATGTGTCATAAG
1 TTAATATGTCTTAAG
62625217 CTTAGACAAT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 15 0.29
47 36 0.71
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (46 bp):
TTAATATGTCTTAAGTTAATTAATATGTTCTAATTAATACAACTAC
Found at i:62632339 original size:3 final size:3
Alignment explanation
Indices: 62632331--62632389 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
62632321 GAAGCCAAGA
62632331 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
62632379 AAT AAT AAT AA
1 AAT AAT AAT AA
62632390 AATCTACTCC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:62635661 original size:14 final size:16
Alignment explanation
Indices: 62635642--62635678 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
62635632 TTGAAAAGAG
62635642 TTATTA-GA-TTAATA
1 TTATTACGAGTTAATA
62635656 TTATTACTGAGTTAATA
1 TTATTAC-GAGTTAATA
62635673 TTATTA
1 TTATTA
62635679 TGGGACAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 6 0.30
16 2 0.10
17 12 0.60
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (16 bp):
TTATTACGAGTTAATA
Found at i:62642596 original size:20 final size:19
Alignment explanation
Indices: 62642573--62642624 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
62642563 GAAATACGAA
62642573 AAAAAATAAAAATAGA-TTT
1 AAAAAATAAAAATA-ACTTT
**
62642592 GAAAATGTAAAAATAACTTT
1 -AAAAAATAAAAATAACTTT
62642612 AAGAAAATAAAAA
1 AA-AAAATAAAAA
62642625 AAATGGATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (19 bp):
AAAAAATAAAAATAACTTT
Done.