Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 88 of 230
Found at i:24578857 original size:15 final size:14
Alignment explanation
Indices: 24578828--24578861 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
24578818 ATTTTAGTTG
*
24578828 ATAAAGAAAATAAA
1 ATAAACAAAATAAA
24578842 ATAAACAAATATAAA
1 ATAAACAAA-ATAAA
24578857 ATAAA
1 ATAAA
24578862 ATAAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (14 bp):
ATAAACAAAATAAA
Found at i:24580833 original size:20 final size:20
Alignment explanation
Indices: 24580778--24580840 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
24580768 GCTTGTACAG
* *
24580778 GTTTGCACTTCGGTGCTTCT
1 GTTTGCACTTTGGTGCCTCT
* *
24580798 GATTGCA-TATTTGTGCCTCT
1 GTTTGCACT-TTGGTGCCTCT
24580818 GTTTGCACTTTGGTGCCTCT
1 GTTTGCACTTTGGTGCCTCT
24580838 GTT
1 GTT
24580841 AAGTGTCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.08, C:0.22, G:0.24, T:0.46
Consensus pattern (20 bp):
GTTTGCACTTTGGTGCCTCT
Found at i:24584366 original size:22 final size:23
Alignment explanation
Indices: 24584341--24584396 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 23
24584331 AAAATAATTA
24584341 AAATTCAATATGTTAATTA-TTT
1 AAATTCAATATGTTAATTATTTT
*
24584363 AAATT-AA-AT-TTTATTATTTT
1 AAATTCAATATGTTAATTATTTT
24584383 ATAATTCAAATATG
1 A-AATTC-AATATG
24584397 AATTTTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 9
0.73 0.03 0.24
Matches are distributed among these distances:
19 6 0.22
20 6 0.22
21 6 0.22
22 5 0.19
23 2 0.07
24 2 0.07
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (23 bp):
AAATTCAATATGTTAATTATTTT
Found at i:24586347 original size:3 final size:3
Alignment explanation
Indices: 24586339--24586406 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
24586329 CTCTGTGGGA
*
24586339 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
24586387 TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TC
24586407 GAGATCCTCG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:24590840 original size:24 final size:24
Alignment explanation
Indices: 24590813--24590861 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
24590803 TTTCTCTCGA
24590813 TTTCAC-CTCAGACACTCTTTTCTT
1 TTTCACTCTC-GACACTCTTTTCTT
* *
24590837 TTTCACTCTCGACATTTTTTTCTT
1 TTTCACTCTCGACACTCTTTTCTT
24590861 T
1 T
24590862 CTCTTTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.14, C:0.29, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTCACTCTCGACACTCTTTTCTT
Found at i:24594096 original size:19 final size:19
Alignment explanation
Indices: 24594072--24594109 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
24594062 ATCGAAAGTT
24594072 TTATTTAATTTA-TATTTTA
1 TTATTT-ATTTACTATTTTA
24594091 TTATTTATTTACTATTTTA
1 TTATTTATTTACTATTTTA
24594110 CCCTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTATTTACTATTTTA
Found at i:24596176 original size:15 final size:14
Alignment explanation
Indices: 24596149--24596206 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
24596139 AAAAACATAA
*
24596149 TTTTCCTTGAATTT
1 TTTTCCATGAATTT
24596163 TTTTCTCATGAATTT
1 TTTTC-CATGAATTT
*
24596178 TTTTCCACGAATTT
1 TTTTCCATGAATTT
24596192 TTTT--A-GAATTT
1 TTTTCCATGAATTT
24596203 TTTT
1 TTTT
24596207 AGAATCTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
11 10 0.24
12 1 0.02
14 17 0.41
15 13 0.32
ACGTcount: A:0.19, C:0.12, G:0.07, T:0.62
Consensus pattern (14 bp):
TTTTCCATGAATTT
Found at i:24596205 original size:10 final size:11
Alignment explanation
Indices: 24596172--24596211 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
24596162 TTTTTCTCAT
24596172 GAATTTTTTTCCA
1 GAATTTTTTT--A
24596185 CGAATTTTTTTA
1 -GAATTTTTTTA
24596197 GAATTTTTTTA
1 GAATTTTTTTA
24596208 GAAT
1 GAAT
24596212 CTCAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 15 0.58
12 1 0.04
14 10 0.38
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (11 bp):
GAATTTTTTTA
Found at i:24608287 original size:14 final size:14
Alignment explanation
Indices: 24608270--24608311 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
24608260 ATCGAAATTC
24608270 ACATTAATTTTTCA
1 ACATTAATTTTTCA
*
24608284 ACATTAATTTTCCA
1 ACATTAATTTTTCA
24608298 A-ATTAATTTTTCA
1 ACATTAATTTTTCA
24608311 A
1 A
24608312 GAAAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (14 bp):
ACATTAATTTTTCA
Found at i:24613718 original size:36 final size:36
Alignment explanation
Indices: 24613677--24613745 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
24613667 CAATCCAACC
*
24613677 AAACACAATAGATGCTCACACGAGCCAATCCCTTTA
1 AAACACAACAGATGCTCACACGAGCCAATCCCTTTA
*
24613713 AAACACACCAGATGCTCACACGAGCCAATCCCT
1 AAACACAACAGATGCTCACACGAGCCAATCCCT
24613746 CCAACACACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.38, C:0.35, G:0.12, T:0.16
Consensus pattern (36 bp):
AAACACAACAGATGCTCACACGAGCCAATCCCTTTA
Found at i:24623037 original size:9 final size:9
Alignment explanation
Indices: 24623019--24623138 Score: 82
Period size: 9 Copynumber: 13.0 Consensus size: 9
24623009 AAAAACATAA
*
24623019 TTTATTATT
1 TTTATAATT
24623028 TTTATAA-T
1 TTTATAATT
*
24623036 TTTATTATT
1 TTTATAATT
* *
24623045 TATTATGACT
1 T-TTATAATT
* *
24623055 TTAATTAACT
1 TTTA-TAATT
24623065 TTTAT-ATT
1 TTTATAATT
*
24623073 TTTATAAAT
1 TTTATAATT
24623082 TTTATAATT
1 TTTATAATT
*
24623091 TTAATTAATT
1 TTTA-TAATT
*
24623101 TTTAATGATT
1 TTT-ATAATT
24623111 TTTATAATT
1 TTTATAATT
* *
24623120 TTTTTATGTT
1 TTTATA-ATT
24623130 TTTATAATT
1 TTTATAATT
24623139 CTAGGATGAA
Statistics
Matches: 86, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
8 14 0.16
9 36 0.42
10 35 0.41
11 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (9 bp):
TTTATAATT
Found at i:24623041 original size:17 final size:17
Alignment explanation
Indices: 24623015--24623104 Score: 74
Period size: 17 Copynumber: 5.1 Consensus size: 17
24623005 GAAAAAAAAC
24623015 ATAA-TTTATTATTTTT
1 ATAATTTTATTATTTTT
24623031 ATAATTTTATTATTTATT
1 ATAATTTTATTATTT-TT
* * *
24623049 ATGACTTTAATTAACTTTT
1 AT-AATTTTATT-ATTTTT
* * *
24623068 ATATTTTTATAAATTTT
1 ATAATTTTATTATTTTT
24623085 ATAATTTTAATTAATTTTT
1 ATAATTTT-ATT-ATTTTT
24623104 A
1 A
24623105 ATGATTTTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
16 4 0.07
17 22 0.38
18 12 0.21
19 17 0.29
20 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (17 bp):
ATAATTTTATTATTTTT
Found at i:24623094 original size:36 final size:36
Alignment explanation
Indices: 24623027--24623122 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 36
24623017 AATTTATTAT
* * *
24623027 TTTTATAATTTTATTATTTATTATGACTTTAATTAAC
1 TTTTATATTTTTATAATTT-TTATAACTTTAATTAAC
* * *
24623064 TTTTATATTTTTATAAATTTTATAATTTTAATTAAT
1 TTTTATATTTTTATAATTTTTATAACTTTAATTAAC
24623100 TTTTAATGATTTTTATAATTTTT
1 TTTT-AT-ATTTTTATAATTTTT
24623123 TTATGTTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
36 18 0.36
37 18 0.36
38 14 0.28
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (36 bp):
TTTTATATTTTTATAATTTTTATAACTTTAATTAAC
Found at i:24623118 original size:19 final size:18
Alignment explanation
Indices: 24623019--24623138 Score: 84
Period size: 19 Copynumber: 6.5 Consensus size: 18
24623009 AAAAACATAA
* *
24623019 TTTATTATTTTTAT-AAT
1 TTTATAATTTTTATGATT
* *
24623036 TTTATTATTTATTATGACT
1 TTTATAATTT-TTATGATT
* *
24623055 TTAATTAACTTTTAT-ATT
1 TTTA-TAATTTTTATGATT
* *
24623073 TTTATAAATTTTATAATT
1 TTTATAATTTTTATGATT
*
24623091 TTAATTAATTTTTAATGATT
1 TTTA-TAATTTTT-ATGATT
24623111 TTTATAATTTTTTTATG-TT
1 TTTATAA--TTTTTATGATT
24623130 TTTATAATT
1 TTTATAATT
24623139 CTAGGATGAA
Statistics
Matches: 84, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
17 21 0.25
18 15 0.18
19 28 0.33
20 15 0.18
21 5 0.06
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTATAATTTTTATGATT
Found at i:24623131 original size:29 final size:29
Alignment explanation
Indices: 24623064--24623133 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
24623054 TTTAATTAAC
24623064 TTTTATATTTTT-ATAAATTTTATAATTT
1 TTTTATATTTTTAATAAATTTTATAATTT
* * *
24623092 TAATTA-ATTTTTAATGATTTTTATAATTT
1 T-TTTATATTTTTAATAAATTTTATAATTT
*
24623121 TTTTATGTTTTTA
1 TTTTATATTTTTA
24623134 TAATTCTAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (29 bp):
TTTTATATTTTTAATAAATTTTATAATTT
Found at i:24628969 original size:63 final size:63
Alignment explanation
Indices: 24628900--24629053 Score: 202
Period size: 63 Copynumber: 2.4 Consensus size: 63
24628890 CAAACAGAGG
* * *
24628900 GTTACACTGCCTGGACACACGCTTGTGTCC-CGACCTGTGTGACACAAAGACAATGAACAGTGA
1 GTTACACGGCCTAGACACACGCTCGTGTCCTCGACC-GTGTGACACAAAGACAATGAACAGTGA
* * * *
24628963 GTTACACGGCCTAGACATACGCTCGTGTCCTGGTCCGTGTGACACTAAGACAATGAACAGTGA
1 GTTACACGGCCTAGACACACGCTCGTGTCCTCGACCGTGTGACACAAAGACAATGAACAGTGA
* * *
24629026 GTTACATGGCCTAGAAACACGCCCGTGT
1 GTTACACGGCCTAGACACACGCTCGTGT
24629054 GAACCCTGCA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 76 0.96
64 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (63 bp):
GTTACACGGCCTAGACACACGCTCGTGTCCTCGACCGTGTGACACAAAGACAATGAACAGTGA
Found at i:24629670 original size:17 final size:18
Alignment explanation
Indices: 24629646--24629690 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
24629636 GAAGCAGAAG
* *
24629646 AAGAAAAAAGAAATGGGA
1 AAGAAAAAAGAAAAGGAA
24629664 AAGAAAAAAGAAAAGGAA
1 AAGAAAAAAGAAAAGGAA
24629682 AAGAAAAAA
1 AAGAAAAAA
24629691 ATGAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (18 bp):
AAGAAAAAAGAAAAGGAA
Found at i:24631849 original size:24 final size:23
Alignment explanation
Indices: 24631817--24631868 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
24631807 TACGACAAAT
*
24631817 GAAAAGAAACA-GAAGAAGAAAAAA
1 GAAAAGAAAAATG-AGAA-AAAAAA
*
24631841 GAAATGAAAAATGAGAAAAAAAA
1 GAAAAGAAAAATGAGAAAAAAAA
24631864 GAAAA
1 GAAAA
24631869 AATAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 10 0.42
24 13 0.54
25 1 0.04
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (23 bp):
GAAAAGAAAAATGAGAAAAAAAA
Found at i:24631875 original size:24 final size:24
Alignment explanation
Indices: 24631830--24631876 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
24631820 AAGAAACAGA
**
24631830 AGAAGAAAAAAGAAATGAAAAATG
1 AGAAGAAAAAAGAAAAAAAAAATG
24631854 AGAA-AAAAAAGAAAAAATAAAAT
1 AGAAGAAAAAAGAAAAAA-AAAAT
24631877 AAAATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.09
Consensus pattern (24 bp):
AGAAGAAAAAAGAAAAAAAAAATG
Found at i:24638814 original size:40 final size:40
Alignment explanation
Indices: 24638731--24638952 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
24638721 TTGAATGCTG
* * * * * *
24638731 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
24638771 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
**
24638811 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
24638851 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
24638891 TCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
24638930 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
24638953 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
38 21 0.13
39 13 0.08
40 118 0.74
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:24661109 original size:80 final size:79
Alignment explanation
Indices: 24660949--24661171 Score: 214
Period size: 80 Copynumber: 2.8 Consensus size: 79
24660939 TTGAATGCTG
* * * ** * * * * *
24660949 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
24661013 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* * * * *
24661029 TCCGGGTTAAGTCTCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* **
24661094 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * *
24661109 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
24661172 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
79 35 0.30
80 77 0.66
81 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:24661153 original size:39 final size:40
Alignment explanation
Indices: 24661002--24661171 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
24660992 GGACTAAGAT
* * *
24661002 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
24661042 TCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
24661082 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
24661122 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
24661161 CCGAAGGCATT
1 CCGAAGGCATT
24661172 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 33 0.29
40 79 0.71
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:24661191 original size:79 final size:80
Alignment explanation
Indices: 24661024--24661206 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
24661014 GTGCGAGATA
* * * * *
24661024 CTAAATCCGGGTTAAGTCTCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
24661089 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
24661104 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
24661168 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
24661183 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
24661207 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.54
80 25 0.29
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:24669255 original size:33 final size:33
Alignment explanation
Indices: 24669213--24669367 Score: 240
Period size: 33 Copynumber: 4.7 Consensus size: 33
24669203 ATGCACGTGT
* *
24669213 GCCTTGCCCGTGTGGGCCAACACGCCTAGATTG
1 GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
* *
24669246 GCCTTGCCCGTGTGGGTCCACAAGCCCAGATTG
1 GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
24669279 GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
1 GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
* *
24669312 GCCTTGCCTGTGTGGGCCCACATGCCCAGATTG
1 GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
*
24669345 GCCTTGCCCGTGT-GACCCACACG
1 GCCTTGCCCGTGTGGGCCCACACG
24669368 ATCTGGCCCA
Statistics
Matches: 111, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
32 8 0.07
33 103 0.93
ACGTcount: A:0.14, C:0.36, G:0.30, T:0.21
Consensus pattern (33 bp):
GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
Found at i:24672530 original size:34 final size:34
Alignment explanation
Indices: 24672458--24672550 Score: 98
Period size: 35 Copynumber: 2.7 Consensus size: 34
24672448 GCATAATATA
* * *
24672458 TAGGGTTACATGACTTATAGGCTTCGCATGTACC
1 TAGGGTTACATGGCATATAGGCTTCGCAGGTACC
*
24672492 TAGGGTTCACATGGCATATAGGCTT-GCAGGTACT
1 TAGGGTT-ACATGGCATATAGGCTTCGCAGGTACC
* *
24672526 TAGGGTTTGCATGGTCATGTAGGCT
1 TAGGG-TTACATGG-CATATAGGCT
24672551 CACATTCCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
34 24 0.48
35 26 0.52
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (34 bp):
TAGGGTTACATGGCATATAGGCTTCGCAGGTACC
Found at i:24685402 original size:40 final size:40
Alignment explanation
Indices: 24685346--24685515 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 40
24685336 GGACTAAGAT
* * *
24685346 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
24685386 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* ** *
24685426 CCGAAGGCATTCGTGAGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
24685466 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
24685505 CCGAAGGCATT
1 CCGAAGGCATT
24685516 TGAACGAGGA
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
39 32 0.29
40 79 0.71
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:24685515 original size:79 final size:80
Alignment explanation
Indices: 24685369--24685515 Score: 215
Period size: 79 Copynumber: 1.9 Consensus size: 80
24685359 TGCGAGATAC
* * * *
24685369 TAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
24685434 ATTCGTGAGAGTTGT
66 ATTCGTGAGAGTTGT
* * * *
24685449 TAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
24685513 ATT
66 ATT
24685516 TGAACGAGGA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 35 0.59
80 24 0.41
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (80 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGTGAGAGTTGT
Found at i:24685535 original size:79 final size:79
Alignment explanation
Indices: 24685368--24685550 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 79
24685358 GTGCGAGATA
* * * *
24685368 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
**
24685433 CATTCGTGAGAGTTG
66 CATTC-TGAGAGGAG
* * * * *
24685448 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
24685512 CATT-TGAACGAGGAG
66 CATTCTG-A-GAGGAG
* *
24685527 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
24685551 TACGTGATTT
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
77 2 0.02
78 15 0.17
79 45 0.52
80 24 0.28
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (79 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCTGAGAGGAG
Found at i:24693300 original size:39 final size:40
Alignment explanation
Indices: 24693245--24693413 Score: 207
Period size: 39 Copynumber: 4.3 Consensus size: 40
24693235 GGACTAAGAT
* * *
24693245 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGT-
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
24693284 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
24693324 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
24693364 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
24693403 CCGAAGGCATT
1 CCGAAGGCATT
24693414 TGAACGAGGA
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 66 0.58
40 47 0.42
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:24693351 original size:79 final size:79
Alignment explanation
Indices: 24693245--24693413 Score: 214
Period size: 79 Copynumber: 2.1 Consensus size: 79
24693235 GGACTAAGAT
* * * *
24693245 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGT-CCGAGGGCATTCGTGCGAGTTATTA
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTA
* *
24693309 AAGCCGGGTTAAGTC
65 AAACCGGGCTAAGTC
* ** * *
24693324 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAA
*
24693389 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
24693403 CCGAAGGCATT
1 CCGAAGGCATT
24693414 TGAACGAGGA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
79 67 0.87
80 10 0.13
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAA
AACCGGGCTAAGTC
Found at i:24693433 original size:79 final size:80
Alignment explanation
Indices: 24693267--24693448 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
24693257 GTGCGAGATA
* * * *
24693267 CTAAATCCGGGTTAAGT-CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
24693331 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
24693346 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
24693410 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
24693425 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
24693449 TACGTGATTT
Statistics
Matches: 85, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
78 14 0.16
79 61 0.72
80 10 0.12
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:24701525 original size:33 final size:33
Alignment explanation
Indices: 24701483--24701637 Score: 240
Period size: 33 Copynumber: 4.7 Consensus size: 33
24701473 ATGCACGTGT
* *
24701483 GCCTTGCCCGTGTGGGCCAACACGCCTAGATTG
1 GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
* *
24701516 GCCTTGCCCGTGTGGGTCCACAAGCCCAGATTG
1 GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
24701549 GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
1 GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
* *
24701582 GCCTTGCCTGTGTGGGCCCACATGCCCAGATTG
1 GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
*
24701615 GCCTTGCCCGTGT-GACCCACACG
1 GCCTTGCCCGTGTGGGCCCACACG
24701638 ATCTGGCCCA
Statistics
Matches: 111, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
32 8 0.07
33 103 0.93
ACGTcount: A:0.14, C:0.36, G:0.30, T:0.21
Consensus pattern (33 bp):
GCCTTGCCCGTGTGGGCCCACACGCCCAGATTG
Found at i:24704879 original size:35 final size:35
Alignment explanation
Indices: 24704827--24704936 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 35
24704817 AATATATAGA
* *
24704827 GGTTCACATGACTTATAGGCTTCGCATGTACCTAG
1 GGTTCACATGGCATATAGGCTTCGCATGTACCTAG
* *
24704862 GGTTCACATGGCATATAGGCTT-GCAGGTACTTAG
1 GGTTCACATGGCATATAGGCTTCGCATGTACCTAG
** * *
24704896 GGTTTGCATGGTCATGTAGGC-TCACAT-T-CCTAG
1 GGTTCACATGG-CATATAGGCTTCGCATGTACCTAG
24704929 GGTTCACA
1 GGTTCACA
24704937 CTAGGGGGTC
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
33 10 0.16
34 21 0.34
35 30 0.49
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (35 bp):
GGTTCACATGGCATATAGGCTTCGCATGTACCTAG
Found at i:24707813 original size:8 final size:9
Alignment explanation
Indices: 24707718--24707812 Score: 95
Period size: 9 Copynumber: 10.2 Consensus size: 9
24707708 AAGTTGTCAT
24707718 AAATTATAA
1 AAATTATAA
24707727 AAATTAT-A
1 AAATTATAA
24707735 AAATTATAA
1 AAATTATAA
24707744 AAGATTATTAA
1 AA-ATTA-TAA
24707755 AAACTTATAA
1 AAA-TTATAA
* *
24707765 ATATTACCAA
1 AAATTA-TAA
*
24707775 AACTTATAA
1 AAATTATAA
*
24707784 AAATTCTAA
1 AAATTATAA
24707793 AATATTAT-A
1 AA-ATTATAA
24707802 AAATTATAA
1 AAATTATAA
24707811 AA
1 AA
24707813 TACATGTAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
8 13 0.18
9 30 0.42
10 20 0.28
11 8 0.11
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (9 bp):
AAATTATAA
Found at i:24708376 original size:18 final size:19
Alignment explanation
Indices: 24708341--24708379 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
24708331 AGTTTATTAG
24708341 AATTTTTTACAAGTATTTAT
1 AATTTTTTACAAG-ATTTAT
*
24708361 AATTTTTTATAA-ATTTAT
1 AATTTTTTACAAGATTTAT
24708379 A
1 A
24708380 TATCATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
AATTTTTTACAAGATTTAT
Found at i:24708405 original size:29 final size:28
Alignment explanation
Indices: 24708355--24708429 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 28
24708345 TTTTACAAGT
24708355 ATTTATAATTTTTTATAAATTTATATATC
1 ATTTATAATTTTTTATAAATTT-TATATC
* *
24708384 ATTTTTAA-TTTTTAGTATATTTTATAT-
1 ATTTATAATTTTTTA-TAAATTTTATATC
*
24708411 -TTTATTA-TTTTTATAAATT
1 ATTTATAATTTTTTATAAATT
24708430 ATTTGTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 5 0.12
26 11 0.28
28 11 0.28
29 13 0.32
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (28 bp):
ATTTATAATTTTTTATAAATTTTATATC
Found at i:24708424 original size:16 final size:17
Alignment explanation
Indices: 24708384--24708425 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
24708374 TTTATATATC
24708384 ATTTTTA-ATTTTTAGT
1 ATTTTTATATTTTTAGT
*
24708400 ATATTTTATA-TTTTATT
1 AT-TTTTATATTTTTAGT
24708417 ATTTTTATA
1 ATTTTTATA
24708426 AATTATTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 13 0.57
18 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
ATTTTTATATTTTTAGT
Found at i:24709082 original size:16 final size:16
Alignment explanation
Indices: 24709040--24709082 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
24709030 TTATTTGGGA
24709040 TTGAATAATTTAAAAT
1 TTGAATAATTTAAAAT
* * **
24709056 TTTAATTATTTTGAAT
1 TTGAATAATTTAAAAT
24709072 TTGAATAATTT
1 TTGAATAATTT
24709083 CGAGTTCAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TTGAATAATTTAAAAT
Found at i:24727607 original size:14 final size:15
Alignment explanation
Indices: 24727572--24727606 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
24727562 CAAAACTAAT
24727572 ATTTTTAAAATATTC
1 ATTTTTAAAATATTC
*
24727587 ATTTTTACAATATTC
1 ATTTTTAAAATATTC
24727602 ATTTT
1 ATTTT
24727607 AAATTATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTTAAAATATTC
Found at i:24732827 original size:20 final size:20
Alignment explanation
Indices: 24732803--24732848 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
24732793 TAAAAAATAT
*
24732803 TAAAAAT-TACTAAATATTA
1 TAAAAATATTCTAAATATTA
*
24732822 TAAAAATATTGTAAATATTA
1 TAAAAATATTCTAAATATTA
24732842 TAAAAAT
1 TAAAAAT
24732849 TTAAATATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAAATATTCTAAATATTA
Found at i:24732854 original size:37 final size:39
Alignment explanation
Indices: 24732789--24732892 Score: 110
Period size: 38 Copynumber: 2.7 Consensus size: 39
24732779 AAATTTAAAC
* *
24732789 ATTGTAAAAAATATTAAAAATTACTAAATAT-TATA-AAAAT
1 ATTGTAAATATTA-TAAAAATTA-TAAATATGTA-ACAAAAT
24732829 ATTGTAAATATTATAAAAATT-TAAATATGTAACAAAAT
1 ATTGTAAATATTATAAAAATTATAAATATGTAACAAAAT
24732867 ATTAGT-AAT-TTATATAAAATTATAAA
1 ATT-GTAAATATTATA-AAAATTATAAA
24732893 AAAAATAGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
37 13 0.23
38 19 0.33
39 14 0.25
40 11 0.19
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (39 bp):
ATTGTAAATATTATAAAAATTATAAATATGTAACAAAAT
Found at i:24739719 original size:13 final size:13
Alignment explanation
Indices: 24739686--24739719 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24739676 ATATATTTGA
24739686 TTAATTTTAAAAT
1 TTAATTTTAAAAT
* *
24739699 ATATTTTTAAAAT
1 TTAATTTTAAAAT
24739712 TTAATTTT
1 TTAATTTT
24739720 TTCTGACGCG
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTAATTTTAAAAT
Found at i:24742972 original size:11 final size:11
Alignment explanation
Indices: 24742956--24742991 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
24742946 TACATAAGTC
24742956 ATAAAAATAAA
1 ATAAAAATAAA
24742967 ATAAAAATAAA
1 ATAAAAATAAA
* *
24742978 ATACATATAAA
1 ATAAAAATAAA
24742989 ATA
1 ATA
24742992 TATTCATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:24743916 original size:31 final size:29
Alignment explanation
Indices: 24743881--24743939 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
24743871 GGAGGTGGGA
*
24743881 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTT-GGGGAAAAG
* *
24743912 TGGGAGGGAGTAAAAATTTTGGGGAAAA
1 TGGGAGAGAATAAAAATTTTGGGGAAAA
24743940 ATAAAAGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.32
30 13 0.52
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.20
Consensus pattern (29 bp):
TGGGAGAGAATAAAAATTTTGGGGAAAAG
Found at i:24744168 original size:9 final size:9
Alignment explanation
Indices: 24744154--24744190 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
24744144 TATAGTTTGA
24744154 TATTCGAAT
1 TATTCGAAT
24744163 TATTCGAAT
1 TATTCGAAT
*
24744172 TATTCGAGT
1 TATTCGAAT
*
24744181 TATTGGAAT
1 TATTCGAAT
24744190 T
1 T
24744191 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:24744261 original size:9 final size:9
Alignment explanation
Indices: 24744244--24744274 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24744234 TCGAGTTGAT
24744244 TCGAATAAC
1 TCGAATAAC
*
24744253 TCGATTAAC
1 TCGAATAAC
24744262 TCGAATAAC
1 TCGAATAAC
24744271 TCGA
1 TCGA
24744275 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:24744545 original size:3 final size:3
Alignment explanation
Indices: 24744537--24744591 Score: 60
Period size: 3 Copynumber: 18.0 Consensus size: 3
24744527 ATAAGTAAGT
*
24744537 ATA ATA ATA ATA TATA AT- ATA ATA ATA A-A CTA ATA ATA ATA CAGTA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA
24744583 ATA ATA ATA
1 ATA ATA ATA
24744592 TAAATAAACA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 3 0.07
3 35 0.78
4 5 0.11
5 2 0.04
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24744564 original size:11 final size:11
Alignment explanation
Indices: 24744537--24744594 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 11
24744527 ATAAGTAAGT
24744537 ATAATAATAATA
1 ATAAT-ATAATA
24744549 TATAATATAATA
1 -ATAATATAATA
24744561 ATAA-ACTAATA
1 ATAATA-TAATA
24744572 ATAATACAGTAATA
1 ATAAT--A-TAATA
24744586 ATAATATAA
1 ATAATATAA
24744595 ATAAACAGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
10 1 0.03
11 16 0.40
12 7 0.17
13 5 0.12
14 11 0.28
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (11 bp):
ATAATATAATA
Found at i:24744574 original size:14 final size:14
Alignment explanation
Indices: 24744555--24744591 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
24744545 AATATATAAT
24744555 ATAATAATAAACTA
1 ATAATAATAAACTA
* *
24744569 ATAATAATACAGTA
1 ATAATAATAAACTA
24744583 ATAATAATA
1 ATAATAATA
24744592 TAAATAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (14 bp):
ATAATAATAAACTA
Found at i:24744594 original size:22 final size:22
Alignment explanation
Indices: 24744538--24744619 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
24744528 TAAGTAAGTA
* *
24744538 TAATAATAATAT-ATAATATAA
1 TAATAATAATATAATAATACAG
*
24744559 TAATAA-ACTAATAATAATACAG
1 TAATAATAAT-ATAATAATACAG
24744581 TAATAATAATATAAATAA-ACAG
1 TAATAATAATAT-AATAATACAG
* *
24744603 TATTAACAATATAATAA
1 TAATAATAATATAATAA
24744620 AAAAGCTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
20 2 0.04
21 13 0.25
22 29 0.57
23 7 0.14
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (22 bp):
TAATAATAATATAATAATACAG
Found at i:24745838 original size:44 final size:43
Alignment explanation
Indices: 24745772--24746064 Score: 174
Period size: 44 Copynumber: 6.8 Consensus size: 43
24745762 CTAGTCTACT
24745772 CCACTGCAACTTC-GGGAAGATAAGACTTGTAGCTTCAATCTGCC
1 CCACTGCAACTTCAGGG-AGATAAGACTT-TAGCTTCAATCTGCC
* * *
24745816 CCACTGCAACTTCAGGGGGATAAGA-TTT-GCTTTTTCAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTTAGC---TTCAATCTGCC
* * * ** * *
24745860 CCTCTGTAACTTCAAGGAGATAAGAC--TAAATGCGATCTG-C
1 CCACTGCAACTTCAGGGAGATAAGACTTTAGCTTCAATCTGCC
* * * * * * ** *
24745900 CCTCTGCAACTTTAGAGAGATAAGATTTTTTA-TTTTAATCCACT
1 CCACTGCAACTTCAGGGAGATAAGA--CTTTAGCTTCAATCTGCC
* * * * *
24745944 CCACCGCAACCTCAGGGAGATAAGACTATTGGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACT-TTAGCTTCAATCTGCC
* *
24745988 CCACTGCAACTTCAGGGAGATAAGA-TTCACCATCTTCAATCTGCC
1 CCACTGCAACTTCAGGGAGATAAGACTT---TAGCTTCAATCTGCC
*
24746033 CCACTGCAACTTCAGGGGGATAAGA-TTT-GCTT
1 CCACTGCAACTTCAGGGAGATAAGACTTTAGCTT
24746065 TCTCAGTCTG
Statistics
Matches: 188, Mismatches: 45, Indels: 35
0.70 0.17 0.13
Matches are distributed among these distances:
40 21 0.11
41 11 0.06
42 3 0.02
43 10 0.05
44 104 0.55
45 39 0.21
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGAGATAAGACTTTAGCTTCAATCTGCC
Found at i:24746227 original size:100 final size:100
Alignment explanation
Indices: 24746116--24746377 Score: 452
Period size: 100 Copynumber: 2.6 Consensus size: 100
24746106 GTCGTTATGA
* * * *
24746116 CTTCAATCTGTTCCGCTGCACCGCCAGAGAAGTAAGATCCGCCATTGTGGCTTCAATATTTTTAA
1 CTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATATTTTTAA
*
24746181 TTGCAATGTCGGGGGAACCAGATCCGCCCTCGTAG
66 TTGCAATGTCGGGGGAACCAGATCCGCCATCGTAG
* *
24746216 CTTCAATCTGTTCCACTATACCGCCAGGGAAGTAAGATCCGTCGTTGTGGCTTCAATATTTTTAA
1 CTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATATTTTTAA
*
24746281 TTGCAATGTCGGGGGAACCAGATTCGCCATCGTAG
66 TTGCAATGTCGGGGGAACCAGATCCGCCATCGTAG
24746316 CTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATATTTT
1 CTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATATTTT
24746378 CCATTGTAAT
Statistics
Matches: 152, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 152 1.00
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (100 bp):
CTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATATTTTTAA
TTGCAATGTCGGGGGAACCAGATCCGCCATCGTAG
Found at i:24746369 original size:50 final size:50
Alignment explanation
Indices: 24746116--24746372 Score: 158
Period size: 50 Copynumber: 5.1 Consensus size: 50
24746106 GTCGTTATGA
* *
24746116 CTTCAATCTGTTCCGCTGCACCGCCAGAGAAGTAAGATCCGCCATTGTGG
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATCCGCCATTGTGG
* * ** * ** ** ** * * *
24746166 CTTCAATATTTTTAATTGCAATGTCGGGGGAA-CCAGATCCGCCCTCGTAG
1 CTTCAATCTGTTCCACTGCACCG-CCAGGGAAGTAAGATCCGCCATTGTGG
** * *
24746216 CTTCAATCTGTTCCACTATACCGCCAGGGAAGTAAGATCCGTCGTTGTGG
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATCCGCCATTGTGG
* * ** * ** ** ** * * *
24746266 CTTCAATATTTTTAATTGCAATGTCGGGGGAA-CCAGATTCGCCATCGTAG
1 CTTCAATCTGTTCCACTGCACCG-CCAGGGAAGTAAGATCCGCCATTGTGG
* *
24746316 CTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATCCGCCATTGTGG
24746366 CTTCAAT
1 CTTCAAT
24746373 ATTTTCCATT
Statistics
Matches: 136, Mismatches: 67, Indels: 8
0.64 0.32 0.04
Matches are distributed among these distances:
49 12 0.09
50 113 0.83
51 11 0.08
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (50 bp):
CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATCCGCCATTGTGG
Found at i:24747293 original size:16 final size:16
Alignment explanation
Indices: 24747272--24747304 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
24747262 AAAGTCTTAA
24747272 TTTAGACTCTTCATTC
1 TTTAGACTCTTCATTC
24747288 TTTAGACTCTTCATTC
1 TTTAGACTCTTCATTC
24747304 T
1 T
24747305 CAGATTTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.52
Consensus pattern (16 bp):
TTTAGACTCTTCATTC
Found at i:24747999 original size:16 final size:15
Alignment explanation
Indices: 24747961--24748025 Score: 80
Period size: 15 Copynumber: 4.3 Consensus size: 15
24747951 TATTTTCCAA
24747961 TTTTGATTTT--TTT
1 TTTTGATTTTGATTT
24747974 ATTTTGATTTTGATTT
1 -TTTTGATTTTGATTT
24747990 TTTCTGATTTTTGATTT
1 TTT-TGA-TTTTGATTT
*
24748007 TTTTAATTTTGATTT
1 TTTTGATTTTGATTT
24748022 TTTT
1 TTTT
24748026 ATATTTTTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.22
15 16 0.35
16 8 0.17
17 12 0.26
ACGTcount: A:0.14, C:0.02, G:0.09, T:0.75
Consensus pattern (15 bp):
TTTTGATTTTGATTT
Found at i:24748031 original size:16 final size:16
Alignment explanation
Indices: 24747960--24748032 Score: 78
Period size: 15 Copynumber: 4.3 Consensus size: 16
24747950 TTATTTTCCA
24747960 ATTTTGATTTTTTTATTTT
1 ATTTTGATTTTTTTA---T
24747979 GATTTTGATTTTTTCTGAT
1 -ATTTTGATTTTTT-T-AT
24747998 -TTTTGATTTTTTTA-
1 ATTTTGATTTTTTTAT
24748012 ATTTTGATTTTTTTAT
1 ATTTTGATTTTTTTAT
24748028 ATTTT
1 ATTTT
24748033 TCTTTGATTG
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
15 15 0.31
16 6 0.12
17 12 0.24
19 1 0.02
20 13 0.27
21 1 0.02
22 1 0.02
ACGTcount: A:0.16, C:0.01, G:0.08, T:0.74
Consensus pattern (16 bp):
ATTTTGATTTTTTTAT
Found at i:24748857 original size:25 final size:25
Alignment explanation
Indices: 24748807--24748872 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
24748797 AAGAAAATCC
*
24748807 AAAAGAATGAAAGAATAATTATTCA
1 AAAAGAATGAAAGAATAATTACTCA
*
24748832 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
24748857 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
24748873 TGAATTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 3 0.08
25 23 0.64
26 5 0.14
27 5 0.14
ACGTcount: A:0.58, C:0.06, G:0.17, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:24752987 original size:12 final size:10
Alignment explanation
Indices: 24752969--24753039 Score: 58
Period size: 11 Copynumber: 6.8 Consensus size: 10
24752959 GCATATACGC
24752969 ATATATAAGTA
1 ATATATAA-TA
24752980 AGTATATAATA
1 A-TATATAATA
24752991 ATATATAAT-
1 ATATATAATA
24753000 ATA-ATAATA
1 ATATATAATA
24753009 A-ACTAATAATA
1 ATA-T-ATAATA
*
24753020 ATACAGTAATA
1 ATATA-TAATA
24753031 ATAATATAA
1 AT-ATATAA
24753040 ATAAACAGTA
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
8 6 0.12
9 4 0.08
10 9 0.18
11 21 0.42
12 10 0.20
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (10 bp):
ATATATAATA
Found at i:24752993 original size:3 final size:3
Alignment explanation
Indices: 24752985--24753036 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
24752975 AAGTAAGTAT
*
24752985 ATA ATA ATA TATA AT- ATA ATA ATA A-A CTA ATA ATA ATA CAGTA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA
24753031 ATA ATA
1 ATA ATA
24753037 TAAATAAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 3 0.07
3 32 0.76
4 5 0.12
5 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24752994 original size:22 final size:21
Alignment explanation
Indices: 24752969--24753060 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 21
24752959 GCATATACGC
24752969 ATATATAAGTA-AGTATATAATA
1 ATATATAA-TACAGTA-ATAATA
* *
24752991 ATATATAATATAATAATAAACTA
1 ATATATAATACAGTAAT-AA-TA
24753014 ATA-ATAATACAGTAATAATA
1 ATATATAATACAGTAATAATA
* *
24753034 ATATA-AATAAACAGTATTAACA
1 ATATATAAT--ACAGTAATAATA
24753056 ATATA
1 ATATA
24753061 ATAAAAGCTA
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
20 8 0.14
21 7 0.12
22 39 0.66
23 5 0.08
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (21 bp):
ATATATAATACAGTAATAATA
Found at i:24753006 original size:8 final size:8
Alignment explanation
Indices: 24752983--24753039 Score: 55
Period size: 8 Copynumber: 6.8 Consensus size: 8
24752973 ATAAGTAAGT
24752983 ATATAATA
1 ATATAATA
24752991 ATAT-ATA
1 ATATAATA
24752998 ATATAATA
1 ATATAATA
24753006 ATA-AACTA
1 ATATAA-TA
24753014 ATAATAATA
1 AT-ATAATA
24753023 CAGTAATAATA
1 -A-T-ATAATA
24753034 ATATAA
1 ATATAA
24753040 ATAAACAGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
7 9 0.21
8 18 0.42
9 4 0.09
10 4 0.09
11 8 0.19
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (8 bp):
ATATAATA
Found at i:24753015 original size:11 final size:13
Alignment explanation
Indices: 24752985--24753036 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
24752975 AAGTAAGTAT
24752985 ATAATAATATATA-
1 ATAATAATA-ATAC
*
24752998 AT-ATAATAATAA
1 ATAATAATAATAC
24753010 ACTAATAATAATAC
1 A-TAATAATAATAC
24753024 AGTAATAATAATA
1 A-TAATAATAATA
24753037 TAAATAAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 3 0.09
12 7 0.21
13 3 0.09
14 21 0.62
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (13 bp):
ATAATAATAATAC
Found at i:24753019 original size:14 final size:14
Alignment explanation
Indices: 24753000--24753036 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
24752990 AATATATAAT
24753000 ATAATAATAAACTA
1 ATAATAATAAACTA
* *
24753014 ATAATAATACAGTA
1 ATAATAATAAACTA
24753028 ATAATAATA
1 ATAATAATA
24753037 TAAATAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (14 bp):
ATAATAATAAACTA
Found at i:24754322 original size:30 final size:31
Alignment explanation
Indices: 24754255--24754331 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
24754245 TGAATCAATG
* *
24754255 TTAAAGTTTTATGTATACATTTGAACCATAA
1 TTAAAGTTTCATGTATACAATTGAACCATAA
* * *
24754286 TTAAAGTTTCATGTGTTCAATTGAACCA-AC
1 TTAAAGTTTCATGTATACAATTGAACCATAA
24754316 TTAAAG-TTCATGTATA
1 TTAAAGTTTCATGTATA
24754332 ATTTTGAGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 8 0.21
30 7 0.18
31 24 0.62
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (31 bp):
TTAAAGTTTCATGTATACAATTGAACCATAA
Found at i:24758607 original size:43 final size:43
Alignment explanation
Indices: 24758558--24758825 Score: 392
Period size: 43 Copynumber: 6.2 Consensus size: 43
24758548 CGGAAAAAAT
* *
24758558 GCCGCTAAAGACAAAGACCTTTAGCGGCGCTTCTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
24758601 ACCGCTAAAGACCAAGACCTTTAGCGGCGCTTATACCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
*
24758644 GCCGCTAAAGACCAAGACCTTTAGTGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
24758687 GCCGTTAAAGACCAAGTCCTTTAGCGGCGCTTTTTCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
24758730 GCCGCTAAAGACTAAGACCTTTAGCGGCGCTTTTCCCAAAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* **
24758773 GCCGCTAAAGATCAAGACCTTTAGCGGCGCTTTTTATCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTTCCCACAAAC
*
24758817 GGCGCTAAA
1 GCCGCTAAA
24758826 AACATAATAT
Statistics
Matches: 201, Mismatches: 23, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
43 183 0.91
44 18 0.09
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.21
Consensus pattern (43 bp):
GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:24759274 original size:37 final size:37
Alignment explanation
Indices: 24759224--24759299 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
24759214 TTTATCAAAC
24759224 TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
1 TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
24759261 TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
1 TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
24759298 TA
1 TA
24759300 CAATAGAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.25
Consensus pattern (37 bp):
TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
Found at i:24762670 original size:129 final size:128
Alignment explanation
Indices: 24762436--24762755 Score: 577
Period size: 128 Copynumber: 2.5 Consensus size: 128
24762426 AGGGGGGGGT
* * *
24762436 AGGGAATTTTAAAAAATGGTGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTGCTATT
1 AGGGAATTTAAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTT-TTATT
* *
24762501 TCTTATCTATTGCGGCGTTTTTTACACAAACGCCGCAAAAAATTATTTTATTTGGAATAAAACG
65 GCTTATCTATTGCGGCGTTTTATACACAAACGCCGCAAAAAATTATTTTATTTGGAATAAAACG
*
24762565 AGGGAATTTAAAAAAATGGCGTTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATTG
1 AGGGAATTTAAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATTG
24762630 CTTATCTATTGCGGCGTTTTATACACAAACGCCGCAAAAAATTATTTTATTTGGAATAAAACG
66 CTTATCTATTGCGGCGTTTTATACACAAACGCCGCAAAAAATTATTTTATTTGGAATAAAACG
24762693 AGGGAATTTAAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTAT
1 AGGGAATTTAAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTAT
24762756 AAAAACGCCG
Statistics
Matches: 184, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
128 128 0.70
129 56 0.30
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (128 bp):
AGGGAATTTAAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATTG
CTTATCTATTGCGGCGTTTTATACACAAACGCCGCAAAAAATTATTTTATTTGGAATAAAACG
Found at i:24762850 original size:128 final size:124
Alignment explanation
Indices: 24762528--24762948 Score: 455
Period size: 128 Copynumber: 3.3 Consensus size: 124
24762518 TTTTTTACAC
* *
24762528 AAACGCCGCAAAAAATTATTTTATTTGGAATAAAACGAGGGAATTTAAAAAAATGGCGTTATTTT
1 AAACGCCGCAAAAAATTATTTTATTTGGAATAAAACGACGGAATTTAAAAAAATGGCGCTATTTT
** ** *
24762593 TTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATTGCTTATCTATTGCGGCGT-TT--T-ATAC
66 TTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTA-----TA-AAAACGCCGC-TATTGCTCAT-C
*
24762654 AC
123 AA
*
24762656 AAACGCCGCAAAAAATTATTTTATTTGGAATAAAACGAGGGAATTTAAAAAAATGGCGCTATTTT
1 AAACGCCGCAAAAAATTATTTTATTTGGAATAAAACGACGGAATTTAAAAAAATGGCGCTATTTT
24762721 TTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTCATCAA
66 TTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTCATCAA
* ** *
24762780 AAACGCCGCAAAAAATTATTTTATTTGGAATAAAACGACACTGTTTTGCTATATAAAATGGCGCT
1 AAACGCCGCAAAAAATTATTTTATTTGGAATAAAACG--ACGGAATT--TA-AAAAAATGGCGCT
*
24762845 A--TTTTTAAAA-TAAA-ATTATTTTTGTGGCGTTTTTTA-AAAAACGCCGCTATTGCTTACCTT
61 ATTTTTTTAAAAGTAAATTTTA-TTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGC-T--C--
* *
24762905 TTGAA
120 ATCAA
*
24762910 AAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGAC
1 AAACGCCGCAAAAAATTATTTTATTTGGAATAAAACGAC
24762949 ACTGTTTTGT
Statistics
Matches: 262, Mismatches: 16, Indels: 30
0.85 0.05 0.10
Matches are distributed among these distances:
121 1 0.00
122 7 0.03
123 2 0.01
124 40 0.15
125 22 0.08
126 26 0.10
127 9 0.03
128 103 0.39
129 13 0.05
130 39 0.15
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (124 bp):
AAACGCCGCAAAAAATTATTTTATTTGGAATAAAACGACGGAATTTAAAAAAATGGCGCTATTTT
TTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTCATCAA
Found at i:24763971 original size:40 final size:40
Alignment explanation
Indices: 24763885--24763971 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
24763875 TAATCTAAAT
* * * *
24763885 CCTAAATCCTAAACCCTAACTCGACCCTAAATCTCTAATC
1 CCTAAACCCTAAACCCTAACCCGACCCGAAATCTCTAACC
** *
24763925 TTTAAACCCTAAACCCTAACCCGACCCCGAATTC-CTAACC
1 CCTAAACCCTAAACCCTAACCCGA-CCCGAAATCTCTAACC
24763965 CCTAAAC
1 CCTAAAC
24763972 ATTATTTAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
40 30 0.81
41 7 0.19
ACGTcount: A:0.34, C:0.40, G:0.03, T:0.22
Consensus pattern (40 bp):
CCTAAACCCTAAACCCTAACCCGACCCGAAATCTCTAACC
Found at i:24765082 original size:38 final size:38
Alignment explanation
Indices: 24765034--24765148 Score: 104
Period size: 40 Copynumber: 2.9 Consensus size: 38
24765024 TGGTGCTTTA
*
24765034 AAAAAACGCCGCTAATGCTTATTTTTAGCGGCGTTTCC
1 AAAAAGCGCCGCTAATGCTTATTTTTAGCGGCGTTTCC
* * * ** * **
24765072 AAAAAGCGCCGCTAGTTCTCGACCTTGAGCGGCGTTTTT
1 AAAAAGCGCCGCTAATGCT-TATTTTTAGCGGCGTTTCC
* *
24765111 ATAGAAGCGCCGCTAATGCTTATTTTTTAGTGGCGTTT
1 A-AAAAGCGCCGCTAATGCTTA-TTTTTAGCGGCGTTT
24765149 TTTGTCCAAA
Statistics
Matches: 57, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
38 16 0.28
39 15 0.26
40 26 0.46
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.33
Consensus pattern (38 bp):
AAAAAGCGCCGCTAATGCTTATTTTTAGCGGCGTTTCC
Found at i:24765979 original size:33 final size:33
Alignment explanation
Indices: 24765919--24765981 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
24765909 AAACATTAAA
**
24765919 AATTATTTAAAATAAAAAAAATTGTAAAAAGTG
1 AATTATTTAAAATAAAAAAAAGCGTAAAAAGTG
* * *
24765952 AATTTTTTAAAATATAGAAAAGCGTAAAAA
1 AATTATTTAAAATAAAAAAAAGCGTAAAAA
24765982 ATTATAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.30
Consensus pattern (33 bp):
AATTATTTAAAATAAAAAAAAGCGTAAAAAGTG
Found at i:24766074 original size:17 final size:16
Alignment explanation
Indices: 24765979--24766085 Score: 54
Period size: 18 Copynumber: 5.8 Consensus size: 16
24765969 AAAAGCGTAA
24765979 AAAATTATAAAAATAT
1 AAAATTATAAAAATAT
*
24765995 AGAAAATTACAAATAATATT
1 --AAAATTATAAA-AATA-T
24766015 ATTACAATTATTCAAAAATAAT
1 A--A-AATTA-T-AAAAAT-AT
*
24766037 ATAGAATTATAAAAAGAAT
1 A-A-AATTATAAAAA-TAT
24766056 AAAATTATATAAAATAT
1 AAAATTATA-AAAATAT
24766073 AACAA-TATAAAAA
1 AA-AATTATAAAAA
24766086 ATGTTTACAA
Statistics
Matches: 73, Mismatches: 5, Indels: 24
0.72 0.05 0.24
Matches are distributed among these distances:
16 4 0.05
17 15 0.21
18 18 0.25
19 12 0.16
20 3 0.04
21 12 0.16
22 5 0.07
23 4 0.05
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.30
Consensus pattern (16 bp):
AAAATTATAAAAATAT
Found at i:24766086 original size:17 final size:17
Alignment explanation
Indices: 24765979--24766087 Score: 60
Period size: 17 Copynumber: 5.9 Consensus size: 17
24765969 AAAAGCGTAA
*
24765979 AAAATTATAAAAATATAG
1 AAAATTATAAAAA-ATAT
*
24765997 AAAATTACAAATAATATTATT
1 AAAATTATAAA-AA-A-TA-T
*
24766018 ACAATTATTCAAAAATAATAT
1 AAAATTA-T--AAAA-AATAT
*
24766039 AGAATTATAAAAAGA-AT
1 AAAATTATAAAAA-ATAT
*
24766056 AAAATTATATAAAATAT
1 AAAATTATAAAAAATAT
24766073 AACAA-TATAAAAAAT
1 AA-AATTATAAAAAAT
24766088 GTTTACAATT
Statistics
Matches: 73, Mismatches: 8, Indels: 21
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.01
17 27 0.37
18 17 0.23
19 4 0.05
20 3 0.04
21 13 0.18
22 2 0.03
23 2 0.03
24 4 0.05
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (17 bp):
AAAATTATAAAAAATAT
Found at i:24774782 original size:41 final size:41
Alignment explanation
Indices: 24774734--24774851 Score: 146
Period size: 41 Copynumber: 2.9 Consensus size: 41
24774724 TGATTGAATG
* * * *
24774734 TTTCAGACTTTATGTCTAGCAGGTTTGATGCTGGTGAAATA
1 TTTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTGAAACA
24774775 TTTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTGAAACA
1 TTTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTGAAACA
* * * * * *
24774816 ATTCGGACTATAAGTCTAGCAGGCTAAAAGCCGGTG
1 TTTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTG
24774852 TACTGAACAG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (41 bp):
TTTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTGAAACA
Found at i:24775045 original size:31 final size:30
Alignment explanation
Indices: 24775004--24775107 Score: 77
Period size: 31 Copynumber: 3.3 Consensus size: 30
24774994 GGCATATATA
*
24775004 TATATGCATTCAGCTATTTATGTTTAAAGTG
1 TATATACATTC-GCTATTTATGTTTAAAGTG
* * * *
24775035 TATATACATTCGGTGATAATAT-TTGTTATGTG
1 TATATACATTCGCT-AT-TTATGTT-TAAAGTG
* *
24775067 TATA-AGCATTCGGCTATTCATGTTTAAAGTT
1 TATATA-CATTC-GCTATTTATGTTTAAAGTG
24775098 TATATACATT
1 TATATACATT
24775108 TGATGATAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
30 2 0.04
31 29 0.53
32 22 0.40
33 2 0.04
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (30 bp):
TATATACATTCGCTATTTATGTTTAAAGTG
Found at i:24775045 original size:69 final size:67
Alignment explanation
Indices: 24774964--24775183 Score: 250
Period size: 63 Copynumber: 3.2 Consensus size: 67
24774954 TTTAAGAACA
* * *
24774964 TGTATATACATTCGGTGATAATACTTGTTAGGCATATATATATATGCATTCAGCTATTTATGTTT
1 TGTATATACATTCGGTGATAATATTTGTTA-GCATATATATATA-GCATTCGGCTATTCATGTTT
24775029 AAAG
64 AAAG
* *
24775033 TGTATATACATTCGGTGATAATATTTGTT---ATGTGTATA-AGCATTCGGCTATTCATGTTTAA
1 TGTATATACATTCGGTGATAATATTTGTTAGCATATATATATAGCATTCGGCTATTCATGTTTAA
24775094 AG
66 AG
* * * *
24775096 TTTATATACATTTGATGATAATATTTGTTAAGCATATATGTATATACACATTCGGCTATTCATGT
1 TGTATATACATTCGGTGATAATATTTGTT-AGCATATA--TATATA-GCATTCGGCTATTCATG-
*
24775161 TTTAAAT
61 TTTAAAG
*
24775168 TGTATATGCATTCGGT
1 TGTATATACATTCGGT
24775184 TTTAAGAGTT
Statistics
Matches: 126, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
63 48 0.38
64 1 0.01
65 7 0.06
67 3 0.02
69 32 0.25
70 1 0.01
71 16 0.13
72 18 0.14
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (67 bp):
TGTATATACATTCGGTGATAATATTTGTTAGCATATATATATAGCATTCGGCTATTCATGTTTAA
AG
Found at i:24778091 original size:44 final size:44
Alignment explanation
Indices: 24778043--24778558 Score: 149
Period size: 44 Copynumber: 12.0 Consensus size: 44
24778033 AAAATCCGCC
*
24778043 ATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCGACCTACTCCACTATTGCTTAGGGAGATAAGATCTGTA
* ** *
24778087 ATCTTC-ACTCTATTCCACTATTGCCCAGGGAGAT-AGAAC--TA
1 ATCTTCGAC-CTACTCCACTATTGCTTAGGGAGATAAGATCTGTA
* ** ** * * * * * **
24778128 CTGGCTTTAATGTACTCCACCGTAAT-C--GGGGAGGTAAAATCCGCC
1 AT--CTTCGACCTACTCCA-C-TATTGCTTAGGGAGATAAGATCTGTA
*
24778173 ATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCGACCTACTCCACTATTGCTTAGGGAGATAAGATCTGTA
* * * ** * * ***
24778217 ATCTTCGATCTATTCCACTGTTGCCCAGAGAGAT-AGAACTACC
1 ATCTTCGACCTACTCCACTATTGCTTAGGGAGATAAGATCTGTA
* * ** * ** * * * * **
24778260 AGCTTCAATGTACTCCACT-GTAATCAGTGAGGTAAAATCTGCC
1 ATCTTCGACCTACTCCACTATTGCTTAGGGAGATAAGATCTGTA
*
24778303 ATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCGACCTACTCCACTATTGCTTAGGGAGATAAGATCTGTA
* * ** *
24778347 ATCTTC-ACTCTATTCCACTGTTGCCCAGGGAGAT-AGAAC--TA
1 ATCTTCGAC-CTACTCCACTATTGCTTAGGGAGATAAGATCTGTA
* ** ** * * * * * **
24778388 CTGGCTTTAATGTACTCCACTGTAAT-C-GA-GGAGGTAAAATCCGCC
1 AT--CTTCGACCTACTCCAC--TATTGCTTAGGGAGATAAGATCTGTA
*
24778433 ATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGGT-
1 ATCTTCGACCTACTCCACTATTGCTTAGGGAGATAAGATCT-GTA
* * * * *
24778477 TTCTTTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TG
1 ATC-TTCGACCTACTCCACTATTGCTTAGGGAGATAAGATCTGTA
* ** *
24778519 AT-GT-GATATGCTCCACTATTGCTTAGGGAGATAAGATCTG
1 ATCTTCGACCTACTCCACTATTGCTTAGGGAGATAAGATCTG
24778559 GTTTTCTTCA
Statistics
Matches: 334, Mismatches: 106, Indels: 66
0.66 0.21 0.13
Matches are distributed among these distances:
39 1 0.00
40 29 0.09
41 15 0.04
42 23 0.07
43 102 0.31
44 152 0.46
45 12 0.04
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTTCGACCTACTCCACTATTGCTTAGGGAGATAAGATCTGTA
Found at i:24778160 original size:130 final size:130
Alignment explanation
Indices: 24777922--24778474 Score: 930
Period size: 130 Copynumber: 4.3 Consensus size: 130
24777912 TGGATGTGAT
* **
24777922 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGCTCTTCACTCTATTCCACTGTTGCCCAGGG
1 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGGG
24777987 AGATAGAACTACCAGCTTCAATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTTCGAC
66 AGATAGAACTACCAGCTTCAATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTTCGAC
*
24778052 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTATTGCCCAGGG
1 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGGG
** * *
24778117 AGATAGAACTACTGGCTTTAATGTACTCCACCGTAATCGGGGAGGTAAAATCCGCCATCTTCGAC
66 AGATAGAACTACCAGCTTCAATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTTCGAC
*
24778182 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCGA-TCTATTCCACTGTTGCCCAGA
1 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTC-ACTCTATTCCACTGTTGCCCAGG
* * *
24778246 GAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGTGAGGTAAAATCTGCCATCTTCGA
65 GAGATAGAACTACCAGCTTCAATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTTCGA
24778311 C
130 C
24778312 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGGG
1 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGGG
** * *
24778377 AGATAGAACTACTGGCTTTAATGTACTCCACTGTAATC-GAGGAGGTAAAATCCGCCATCTTCGA
66 AGATAGAACTACCAGCTTCAATGTACTCCACCGTAATCAG-GGAGGTAAAATCCGCCATCTTCGA
24778441 C
130 C
24778442 CTGCTCCACTATTGCTTAGGGAGATAAGATCTG
1 CTGCTCCACTATTGCTTAGGGAGATAAGATCTG
24778475 GTTTCTTTCG
Statistics
Matches: 397, Mismatches: 23, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
129 2 0.01
130 394 0.99
131 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (130 bp):
CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGGG
AGATAGAACTACCAGCTTCAATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTTCGAC
Found at i:24778542 original size:40 final size:42
Alignment explanation
Indices: 24778443--24778556 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 42
24778433 ATCTTCGACC
** * *
24778443 TGCTCCACTATTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTC
1 TGCTCCACTATTGCTTAGGGAGATAAGATC--GTTGATGTCGTA
*
24778487 TGCTCCACTACTGCTTAGGGAGATAAGA-C-TTGATGT-GATA
1 TGCTCCACTATTGCTTAGGGAGATAAGATCGTTGATGTCG-TA
24778527 TGCTCCACTATTGCTTAGGGAGATAAGATC
1 TGCTCCACTATTGCTTAGGGAGATAAGATC
24778557 TGGTTTTCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
39 1 0.02
40 32 0.52
41 1 0.02
43 1 0.02
44 27 0.44
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (42 bp):
TGCTCCACTATTGCTTAGGGAGATAAGATCGTTGATGTCGTA
Found at i:24778723 original size:134 final size:134
Alignment explanation
Indices: 24778563--24778957 Score: 684
Period size: 134 Copynumber: 2.9 Consensus size: 134
24778553 GATCTGGTTT
* * * *
24778563 TCTTCACTCTATTCTACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCTACTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGT
24778628 AGTCAGGGAGGTAAAATCTGCCATCTGT-GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 AGTCAGGGAGGTAAAATCTGCCATCT-TCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
24778692 TGCAA
130 TGCAA
*
24778697 TCTTCAATCTATTCCACTACCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGT
*
24778762 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATATAGGAAGGCAAGATCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
*
24778827 GTAA
131 GCAA
24778831 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGT
*
24778896 AGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCACTGCCAAATACAGGAAGGCAA
66 AGT--CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAA
24778958 TATCCGTTAT
Statistics
Matches: 248, Mismatches: 10, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
133 1 0.00
134 192 0.77
136 55 0.22
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (134 bp):
TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGT
AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
GCAA
Found at i:24783171 original size:19 final size:19
Alignment explanation
Indices: 24783124--24783171 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
24783114 CACTTTGTGA
* *
24783124 AAATCTAATGCATATGATG
1 AAATGTAATGCAAATGATG
*
24783143 CAATGTAATGCAAATGTATG
1 AAATGTAATGCAAATG-ATG
24783163 AAATG-AATG
1 AAATGTAATG
24783172 AAAAAAAGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (19 bp):
AAATGTAATGCAAATGATG
Found at i:24790305 original size:55 final size:54
Alignment explanation
Indices: 24790210--24790359 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
24790200 CTACTTTGTT
* ** * *
24790210 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
24790264 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
24790319 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
24790360 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:24790322 original size:27 final size:27
Alignment explanation
Indices: 24790182--24790359 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
24790172 TAAATTGTAC
24790182 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
24790209 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
24790235 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
24790263 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
24790291 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
24790318 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
24790345 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24790360 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:24790323 original size:82 final size:81
Alignment explanation
Indices: 24790183--24790338 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
24790173 AAATTGTACA
* * * *
24790183 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
24790248 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
24790264 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
24790327 TGTGCGAGTTGA
63 TGTGCGAATTGA
24790339 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:24806026 original size:12 final size:12
Alignment explanation
Indices: 24806011--24806041 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
24806001 TTCTTTTTTC
24806011 TTTTCAAAGGCT
1 TTTTCAAAGGCT
24806023 TTTTCAAAGGCT
1 TTTTCAAAGGCT
24806035 TTTTCAA
1 TTTTCAA
24806042 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:24806114 original size:5 final size:5
Alignment explanation
Indices: 24806091--24806149 Score: 59
Period size: 5 Copynumber: 11.4 Consensus size: 5
24806081 CTTGCCTCTC
*
24806091 TTTCT TTT-T ATTTCAT TTTCT TTT-T CTTCT CTTTCTT TTTCT TTTCT
1 TTTCT TTTCT -TTTC-T TTTCT TTTCT TTTCT -TTTC-T TTTCT TTTCT
24806138 TTTCT TTTCT TT
1 TTTCT TTTCT TT
24806150 GTTTTCTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
4 4 0.09
5 29 0.63
6 11 0.24
7 2 0.04
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTCT
Found at i:24806122 original size:31 final size:31
Alignment explanation
Indices: 24806087--24806145 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
24806077 GCCTCTTGCC
24806087 TCTCTTTCTTTTT-ATTTCATTTTCTTTTTCT
1 TCTCTTTCTTTTTCATTTC-TTTTCTTTTTCT
*
24806118 TCTCTTTCTTTTTCTTTTCTTTTCTTTT
1 TCTCTTTCTTTTTCATTTCTTTTCTTTT
24806146 CTTTGTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.76
Consensus pattern (31 bp):
TCTCTTTCTTTTTCATTTCTTTTCTTTTTCT
Found at i:24806146 original size:15 final size:14
Alignment explanation
Indices: 24806091--24806156 Score: 60
Period size: 16 Copynumber: 4.4 Consensus size: 14
24806081 CTTGCCTCTC
24806091 TTTCTTTTTATTTCAT
1 TTTCTTTTT-TTTC-T
*
24806107 TTTCTTTTTCTTCT
1 TTTCTTTTTTTTCT
24806121 CTTTCTTTTTCTTTTCT
1 -TTTC-TTTT-TTTTCT
* *
24806138 TTTCTTTTCTTTGT
1 TTTCTTTTTTTTCT
24806152 TTTCT
1 TTTCT
24806157 CTTTACAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 10 0.23
15 11 0.26
16 17 0.40
17 5 0.12
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTCTTTTTTTTCT
Found at i:24807109 original size:11 final size:11
Alignment explanation
Indices: 24807070--24807126 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
24807060 TTTTTTTAAC
*
24807070 TCGATTTTTTG
1 TCGATTTTTTT
24807081 TC-ACTTTTTTT
1 TCGA-TTTTTTT
*
24807092 TC-CTTTTTTT
1 TCGATTTTTTT
24807102 TCGATTTTTTT
1 TCGATTTTTTT
*
24807113 TTGAATTTTTTT
1 TCG-ATTTTTTT
24807125 TC
1 TC
24807127 TAAATTTCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
10 10 0.26
11 19 0.50
12 9 0.24
ACGTcount: A:0.09, C:0.12, G:0.07, T:0.72
Consensus pattern (11 bp):
TCGATTTTTTT
Found at i:24807229 original size:12 final size:13
Alignment explanation
Indices: 24807212--24807243 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
24807202 CAACTCAAAA
24807212 TTTTTTTTGA-TT
1 TTTTTTTTGACTT
24807224 TTTTTTTTGACTT
1 TTTTTTTTGACTT
24807237 TTTTTTT
1 TTTTTTT
24807244 CGTTACGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.84
Consensus pattern (13 bp):
TTTTTTTTGACTT
Found at i:24811246 original size:30 final size:30
Alignment explanation
Indices: 24811212--24811308 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
24811202 AAAACTAAAA
24811212 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
24811242 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
24811272 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
24811301 ATGAGCTA
1 -TGAGCTA
24811309 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:24812089 original size:207 final size:209
Alignment explanation
Indices: 24811726--24812149 Score: 615
Period size: 207 Copynumber: 2.0 Consensus size: 209
24811716 GGAAGGGGGA
* *
24811726 ATGATACGAGTCACAAGGGCCTTAGATGCGTATACGAAGGAAAAAGAAAATCAAGATTCACTTTC
1 ATGATACGAGTCACAAAGGCCTTAGATGCGTATACGAAGGAAAAAGAAAATCAAAATTCACTTTC
* *
24811791 TTGTTTTCAAGAAAATCAAGAAATCGAATCTTGGTCCAATTTTGCTGTTTTAAGCGATTTCAAGA
66 TTGTTTTCAAGAAAATCAAGAAATCGAATCTTGGTCCAATTTTGCTATTTTAAGCAATTTCAAGA
** *
24811856 ATCAAGATTTCAAATCTTGGAAATCTTGG-T-CCAAGAAACCGAATCTTGCAACTAAGGCGCATT
131 ATCAAGAAATCAAATCTTGCAAATCTTGGATACCAAGAAACCGAATCTTGCAACTAAGGCGCATT
*
24811919 GGATCTCAGTTACG
196 GGATATCAGTTACG
*
24811933 ATGATACGAGTCACAAAGGCCTTAGATGCGTATACGAAGGAAAACGAAAATCAAAATTCACTTTC
1 ATGATACGAGTCACAAAGGCCTTAGATGCGTATACGAAGGAAAAAGAAAATCAAAATTCACTTTC
*
24811998 TTGTTTTCAAGAAAATCAAGAAA-CTGAATCTTGGTCCAATTTTGCTATTTTGAGCAATTTCAAG
66 TTGTTTTCAAGAAAATCAAGAAATC-GAATCTTGGTCCAATTTTGCTATTTTAAGCAATTTCAAG
* *
24812062 AATCGAGAAAATCAAGAT-TT-CAAATCTTGGAAATCTTGACCCAAGAAACTGAATCTTGCAACT
130 AATCAAG-AAATCAA-ATCTTGCAAATCTTGG--A---T-A-CCAAGAAACCGAATCTTGCAACT
24812125 AAGGCGCATTGGATATCAGTTACG
186 AAGGCGCATTGGATATCAGTTACG
24812149 A
1 A
24812150 GCATTAACAA
Statistics
Matches: 193, Mismatches: 12, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
206 1 0.01
207 136 0.70
208 7 0.04
209 2 0.01
213 1 0.01
216 46 0.24
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (209 bp):
ATGATACGAGTCACAAAGGCCTTAGATGCGTATACGAAGGAAAAAGAAAATCAAAATTCACTTTC
TTGTTTTCAAGAAAATCAAGAAATCGAATCTTGGTCCAATTTTGCTATTTTAAGCAATTTCAAGA
ATCAAGAAATCAAATCTTGCAAATCTTGGATACCAAGAAACCGAATCTTGCAACTAAGGCGCATT
GGATATCAGTTACG
Found at i:24816985 original size:23 final size:22
Alignment explanation
Indices: 24816934--24816985 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
24816924 CCTCGTCTTT
*
24816934 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
24816956 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
24816979 TTCTTTT
1 TTCTTTT
24816986 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:24817000 original size:18 final size:18
Alignment explanation
Indices: 24816979--24817017 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
24816969 TTTCTTCAAC
* *
24816979 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
24816997 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
24817015 TTC
1 TTC
24817018 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:24824732 original size:24 final size:23
Alignment explanation
Indices: 24824678--24824733 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
24824668 GGATAACTAA
* *
24824678 GAAAGGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGATTTGGTAC
***
24824701 GTTTTGGTATTTGGGATTTGGTAC
1 GAAATGGTATTT-GGATTTGGTAC
24824725 GAAATGGTA
1 GAAATGGTA
24824734 ATGGTTCAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (23 bp):
GAAATGGTATTTGGATTTGGTAC
Found at i:24829281 original size:16 final size:15
Alignment explanation
Indices: 24829262--24829298 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
24829252 TTTCAAAATA
24829262 TTTTTTTTAATTATTT
1 TTTTTTTTAATT-TTT
*
24829278 TTTTTTTTGATTTTT
1 TTTTTTTTAATTTTT
24829293 TTTTTT
1 TTTTTT
24829299 GAATCTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (15 bp):
TTTTTTTTAATTTTT
Found at i:24829296 original size:13 final size:13
Alignment explanation
Indices: 24829261--24829300 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
24829251 TTTTCAAAAT
*
24829261 ATTTTTTTTAATT-
1 ATTTTTTTT-TTTG
24829274 ATTTTTTTTTTTG
1 ATTTTTTTTTTTG
24829287 ATTTTTTTTTTTG
1 ATTTTTTTTTTTG
24829300 A
1 A
24829301 ATCTACAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 2 0.08
13 23 0.92
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (13 bp):
ATTTTTTTTTTTG
Found at i:24829628 original size:24 final size:23
Alignment explanation
Indices: 24829574--24829629 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
24829564 GGATAACTAA
* *
24829574 GAAAGGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGATTTGGTAC
***
24829597 GTTTTGGTATTTGGGATTTGGTAC
1 GAAATGGTATTT-GGATTTGGTAC
24829621 GAAATGGTA
1 GAAATGGTA
24829630 ATGGTTCAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (23 bp):
GAAATGGTATTTGGATTTGGTAC
Found at i:24831483 original size:27 final size:27
Alignment explanation
Indices: 24831452--24831524 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 27
24831442 TCTTCTTCAA
24831452 CATCTTTTTCTTTTTCAATTTT-TTCT
1 CATCTTTTTCTTTTTCAATTTTCTTCT
* *
24831478 CAATCTCAATTTCTTTTTCAATTTTCTTTT
1 C-ATCT--TTTTCTTTTTCAATTTTCTTCT
* *
24831508 CTTCATTTTCTTTTTCA
1 CATCTTTTTCTTTTTCA
24831525 CTCACTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 15 0.39
29 18 0.47
30 4 0.11
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (27 bp):
CATCTTTTTCTTTTTCAATTTTCTTCT
Found at i:24831488 original size:17 final size:18
Alignment explanation
Indices: 24831466--24831499 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24831456 TTTTTCTTTT
24831466 TCAATTT-TTTCTCAATC
1 TCAATTTCTTTCTCAATC
*
24831483 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTCTCAAT
24831500 TTTCTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.56
Consensus pattern (18 bp):
TCAATTTCTTTCTCAATC
Found at i:24840832 original size:11 final size:11
Alignment explanation
Indices: 24840816--24840868 Score: 74
Period size: 10 Copynumber: 4.8 Consensus size: 11
24840806 TAGTTTCTTC
24840816 AAAAAAATTCAAA
1 AAAAAAATTC--A
24840829 AAAAAAATTCA
1 AAAAAAATTCA
24840840 AAAAAAATTC-
1 AAAAAAATTCA
24840850 AAAAAAATT-A
1 AAAAAAATTCA
24840860 AAAAAAATT
1 AAAAAAATT
24840869 TGGTTTCCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
10 18 0.46
11 11 0.28
13 10 0.26
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:24840866 original size:13 final size:13
Alignment explanation
Indices: 24840816--24840856 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
24840806 TAGTTTCTTC
24840816 AAAAAAATTCAAA
1 AAAAAAATTCAAA
24840829 AAAAAAATTC--A
1 AAAAAAATTCAAA
24840840 AAAAAAATTCAAA
1 AAAAAAATTCAAA
24840853 AAAA
1 AAAA
24840857 TTAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.42
13 15 0.58
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAAATTCAAA
Found at i:24840925 original size:14 final size:15
Alignment explanation
Indices: 24840906--24840944 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
24840896 GATATCAAGT
24840906 TGAAAAAAAA-TTCG
1 TGAAAAAAAATTTCG
24840920 TGAAAAAAAATTTCG
1 TGAAAAAAAATTTCG
24840935 TGAAAAAAAA
1 TGAAAAAAAA
24840945 GAAGAAGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.62, C:0.05, G:0.13, T:0.21
Consensus pattern (15 bp):
TGAAAAAAAATTTCG
Found at i:24847986 original size:40 final size:40
Alignment explanation
Indices: 24847949--24848132 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
24847939 GCTACTCGTT
*
24847949 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
24847989 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
24848029 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
24848068 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
24848109 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
24848133 ACATCATTCA
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 74 0.62
41 14 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:24848051 original size:79 final size:81
Alignment explanation
Indices: 24847916--24848133 Score: 229
Period size: 79 Copynumber: 2.8 Consensus size: 81
24847906 AAATCACGTA
** * *
24847916 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTC-GTTCAAATGCCTTCGGGACATAGCCCGG-TT
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGAAT
*
24847976 ATAGTAACTCGCACAATTG
64 -TAGTAACTCGCACAAATG
*
24847995 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCA-CACAAATGCCTTCGGG-CTTAGCCCGGAATT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGAATT
*
24848057 AGTATCTCGCACAAATG
65 AGTAACTCGCACAAATG
** * * *
24848074 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGA
24848134 CATCATTCAA
Statistics
Matches: 117, Mismatches: 13, Indels: 17
0.80 0.09 0.12
Matches are distributed among these distances:
78 3 0.03
79 67 0.57
80 47 0.40
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
GTAACTCGCACAAATG
Found at i:24851955 original size:20 final size:20
Alignment explanation
Indices: 24851908--24851955 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
24851898 AGTAAGCTCG
24851908 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
24851928 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
24851948 GTTGAGCT
1 GTTGAGCT
24851956 GGACGTTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:24857562 original size:79 final size:81
Alignment explanation
Indices: 24857451--24857635 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 81
24857441 GCTACTCGTT
* * * *
24857451 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCC
* *
24857514 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
24857531 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTATCTCACACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGG
* *
24857595 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
*
24857611 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCG-GGCTTAGCCCGGA
24857636 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 51 0.57
80 35 0.39
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:24857572 original size:39 final size:40
Alignment explanation
Indices: 24857451--24857635 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
24857441 GCTACTCGTT
*
24857451 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
24857491 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
24857531 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
24857570 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
24857611 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24857636 CATCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.63
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:24864983 original size:20 final size:20
Alignment explanation
Indices: 24864960--24865006 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
24864950 GGGTTAAGAT
*
24864960 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
24864980 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
24865000 TGAGCTG
1 TGAGCTG
24865007 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:24868596 original size:22 final size:22
Alignment explanation
Indices: 24868565--24868628 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
24868555 ACCTCTTTGA
*
24868565 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCATTTCGTACCAAAT
*
24868588 ACCATACCATTTCATA-CAAAT
1 ACCATACCATTTCGTACCAAAT
* *
24868609 TCCATACCATTTTGTACCAA
1 ACCATACCATTTCGTACCAA
24868629 TTCCCAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 18 0.51
22 13 0.37
23 4 0.11
ACGTcount: A:0.38, C:0.30, G:0.03, T:0.30
Consensus pattern (22 bp):
ACCATACCATTTCGTACCAAAT
Found at i:24871139 original size:20 final size:20
Alignment explanation
Indices: 24871083--24871139 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
24871073 AGCTCCGTTT
* *
24871083 AGCTCATTTCCAGCTCACTCG
1 AGCTCAATT-CAGCTCACTCA
* * *
24871104 AGCTCAAGTCAACTCATTCA
1 AGCTCAATTCAGCTCACTCA
24871124 AGCTCAATTCAGCTCA
1 AGCTCAATTCAGCTCA
24871140 ATCTTAACCC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.26
Consensus pattern (20 bp):
AGCTCAATTCAGCTCACTCA
Found at i:24872733 original size:10 final size:9
Alignment explanation
Indices: 24872688--24872723 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
24872678 AGAAGTGAGC
24872688 AAAAAAAGA
1 AAAAAAAGA
24872697 AAAAAAAGTA
1 AAAAAAAG-A
24872707 AAAAAAAGA
1 AAAAAAAGA
24872716 ACAAAAAA
1 A-AAAAAA
24872724 AAAGTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.40
10 15 0.60
ACGTcount: A:0.86, C:0.03, G:0.08, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:24875601 original size:20 final size:20
Alignment explanation
Indices: 24875545--24875601 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
24875535 AGCTCCGTTT
* *
24875545 AGCTCATTTCCAGCTCACTCG
1 AGCTCAATT-CAGCTCACTCA
* * *
24875566 AGCTCAAGTCAACTCATTCA
1 AGCTCAATTCAGCTCACTCA
24875586 AGCTCAATTCAGCTCA
1 AGCTCAATTCAGCTCA
24875602 ATCTTAACCC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.26
Consensus pattern (20 bp):
AGCTCAATTCAGCTCACTCA
Found at i:24879085 original size:55 final size:54
Alignment explanation
Indices: 24878990--24879139 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
24878980 CTACTTTGTT
* ** * *
24878990 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
24879044 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
24879099 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
24879140 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:24879102 original size:27 final size:27
Alignment explanation
Indices: 24878962--24879139 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
24878952 TAAATTGTAC
24878962 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
24878989 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
24879015 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
24879043 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
24879071 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
24879098 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
24879125 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24879140 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:24879103 original size:82 final size:81
Alignment explanation
Indices: 24878963--24879118 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
24878953 AAATTGTACA
* * * *
24878963 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
24879028 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
24879044 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
24879107 TGTGCGAGTTGA
63 TGTGCGAATTGA
24879119 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:24887091 original size:55 final size:54
Alignment explanation
Indices: 24886996--24887145 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
24886986 CTACTTTGTT
* ** * *
24886996 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
24887050 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
24887105 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
24887146 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:24887108 original size:27 final size:27
Alignment explanation
Indices: 24886968--24887145 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
24886958 TAAATTGTAC
24886968 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
24886995 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
24887021 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
24887049 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
24887077 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
24887104 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
24887131 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24887146 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:24887109 original size:82 final size:81
Alignment explanation
Indices: 24886969--24887124 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
24886959 AAATTGTACA
* * * *
24886969 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
24887034 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
24887050 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
24887113 TGTGCGAGTTGA
63 TGTGCGAATTGA
24887125 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:24890595 original size:10 final size:10
Alignment explanation
Indices: 24890580--24890641 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
24890570 TTTGAACCAT
*
24890580 TACCAATTCG
1 TACCAATTCA
*
24890590 TACCAAATACCA
1 TACC-AAT-TCA
*
24890602 TACCATTTCA
1 TACCAATTCA
24890612 TACCAATTCCA
1 TACCAATT-CA
* *
24890623 TACCATTTCG
1 TACCAATTCA
24890633 TACCAATTC
1 TACCAATTC
24890642 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Done.