Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 37 of 284
Found at i:13066248 original size:11 final size:11
Alignment explanation
Indices: 13066232--13066291 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
13066222 TTATATATAC
13066232 TAATAAAATAA
1 TAATAAAATAA
13066243 TAATAAAATAA
1 TAATAAAATAA
* *
13066254 TAA-AATATCA
1 TAATAAAATAA
*
13066264 TAAAAAAATTAA
1 TAATAAAA-TAA
* *
13066276 -ATTAAAATAT
1 TAATAAAATAA
13066286 TAATAA
1 TAATAA
13066292 CTAATAATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
10 10 0.26
11 26 0.68
12 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:13066276 original size:19 final size:19
Alignment explanation
Indices: 13066233--13066277 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
13066223 TATATATACT
*
13066233 AATAAAATAATAATAAAAT
1 AATAAAATAATAATAAAAA
*
13066252 AATAAAAT-ATCATAAAAA
1 AATAAAATAATAATAAAAA
*
13066270 AATTAAAT
1 AATAAAAT
13066278 TAAAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAAAATAATAATAAAAA
Found at i:13068859 original size:27 final size:26
Alignment explanation
Indices: 13068829--13068958 Score: 145
Period size: 27 Copynumber: 4.8 Consensus size: 26
13068819 TAATACCGTT
* *
13068829 ATTTTACCATATAGGGGTATTTCAGTG
1 ATTTTACCCTAT-GGGGTATTTCAGTC
*
13068856 ATTTTACTCTATGTGGGTATTTC-GATC
1 ATTTTACCCTATG-GGGTATTTCAG-TC
**
13068883 ATTTTACCCTATGGGTGTATTTTTGTC
1 ATTTTACCCTATGGG-GTATTTCAGTC
*
13068910 ATTTTACCCTATGGGGGTATTTCAGTT
1 ATTTTACCCTAT-GGGGTATTTCAGTC
13068937 ATTTTACCCTATGGGGGTATTT
1 ATTTTACCCTAT-GGGGTATTT
13068959 TGATCTCCAT
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
26 4 0.04
27 82 0.91
28 4 0.04
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (26 bp):
ATTTTACCCTATGGGGTATTTCAGTC
Found at i:13068874 original size:54 final size:53
Alignment explanation
Indices: 13068801--13068958 Score: 147
Period size: 54 Copynumber: 2.9 Consensus size: 53
13068791 ATGTTACAGA
* ** * *
13068801 CATTTTACCATACAGGGGTAATACCGTTATTTTACCATATAGGGGTATTTCAGT
1 CATTTTACCCTATGGGGGTAATTCCGTTATTTTACCCTAT-GGGGTATTTCAGT
* * * * * **
13068855 GATTTTACTCTATGTGGGT-ATTTCGATCATTTTACCCTATGGGTGTATTTTTGT
1 CATTTTACCCTATGGGGGTAATTCCG-TTATTTTACCCTATGGG-GTATTTCAGT
* *
13068909 CATTTTACCCTATGGGGGTATTTCAGTTATTTTACCCTATGGGGGTATTT
1 CATTTTACCCTATGGGGGTAATTCCGTTATTTTACCCTAT-GGGGTATTT
13068959 TGATCTCCAT
Statistics
Matches: 81, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
53 7 0.09
54 68 0.84
55 6 0.07
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (53 bp):
CATTTTACCCTATGGGGGTAATTCCGTTATTTTACCCTATGGGGTATTTCAGT
Found at i:13068959 original size:54 final size:53
Alignment explanation
Indices: 13068825--13068959 Score: 171
Period size: 54 Copynumber: 2.5 Consensus size: 53
13068815 GGGGTAATAC
* * * * * *
13068825 CGTTATTTTACCATATAGGGGTATTTCAGTGATTTTACTCTATGTGGGTATTT
1 CGTTATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTT
* * *
13068878 CGATCATTTTACCCTATGGGTGTATTTTTGTCATTTTACCCTATGGGGGTATTT
1 CG-TTATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTT
13068932 CAGTTATTTTACCCTATGGGGGTATTTT
1 C-GTTATTTTACCCTATGGGGGTATTTT
13068960 GATCTCCATT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.03
54 66 0.96
55 1 0.01
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.47
Consensus pattern (53 bp):
CGTTATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTT
Found at i:13091751 original size:157 final size:157
Alignment explanation
Indices: 13091465--13091779 Score: 603
Period size: 157 Copynumber: 2.0 Consensus size: 157
13091455 ATCCAACCGA
13091465 ACATTTATGCCATTTTCGCATGGCTAAAAGTTTACATACCAAATTTCAACAAAACATATTAGCCT
1 ACATTTATGCCATTTTCGCATGGCTAAAAGTTTACATACCAAATTTCAACAAAACATATTAGCCT
13091530 ATACATGCCGAAATGTTCTCCTAGACCCACTAAAAAGAAGATACCAAAAGTTGCTAGCCGGTGTG
66 ATACATGCCGAAATGTTCTCCTAGACCCACTAAAAAGAAGATACCAAAAGTTGCTAGCCGGTGTG
*
13091595 ATGACTTCGATGACGGCCCGATCACGC
131 ATGACTCCGATGACGGCCCGATCACGC
13091622 ACATTTATGCCATTTTCGCATGGCTAAAAGTTTACATACCAAATTTCAACAAAACATATTAGCCT
1 ACATTTATGCCATTTTCGCATGGCTAAAAGTTTACATACCAAATTTCAACAAAACATATTAGCCT
*
13091687 ATACATGCCGAAATGTTCTCCTAGACCGACTAAAAAGAAGATACCAAAAGTTGCTAGCCGGTGTG
66 ATACATGCCGAAATGTTCTCCTAGACCCACTAAAAAGAAGATACCAAAAGTTGCTAGCCGGTGTG
*
13091752 ATGACTCCGATGACGGCCCGGTCACGC
131 ATGACTCCGATGACGGCCCGATCACGC
13091779 A
1 A
13091780 AAAAGAGACG
Statistics
Matches: 155, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (157 bp):
ACATTTATGCCATTTTCGCATGGCTAAAAGTTTACATACCAAATTTCAACAAAACATATTAGCCT
ATACATGCCGAAATGTTCTCCTAGACCCACTAAAAAGAAGATACCAAAAGTTGCTAGCCGGTGTG
ATGACTCCGATGACGGCCCGATCACGC
Found at i:13092311 original size:28 final size:28
Alignment explanation
Indices: 13092279--13092377 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
13092269 ATAGTAAGTC
*
13092279 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
13092307 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
13092335 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
13092364 CGCACACTTAGTGC
1 CGCACACTTAGTGC
13092378 AAATCTCATG
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 45 0.71
29 18 0.29
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:13104400 original size:26 final size:26
Alignment explanation
Indices: 13104370--13104420 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
13104360 CATATACTGA
*
13104370 TACTGGCAGCTTTGCTGCGATATTAT
1 TACTGGCAACTTTGCTGCGATATTAT
13104396 TACTGGCAACTTTGCTGCGATATTA
1 TACTGGCAACTTTGCTGCGATATTA
13104421 GTGTGTTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (26 bp):
TACTGGCAACTTTGCTGCGATATTAT
Found at i:13106565 original size:24 final size:24
Alignment explanation
Indices: 13106533--13106578 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13106523 GGTGTTTTGT
*
13106533 GGAGAAAATCAAGGAGAGGATTGG
1 GGAGAAAATCAAGAAGAGGATTGG
*
13106557 GGAGAAAATCAATAAGAGGATT
1 GGAGAAAATCAAGAAGAGGATT
13106579 ATGGAGAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.04, G:0.35, T:0.15
Consensus pattern (24 bp):
GGAGAAAATCAAGAAGAGGATTGG
Found at i:13106584 original size:24 final size:24
Alignment explanation
Indices: 13106532--13106585 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
13106522 GGGTGTTTTG
* *
13106532 TGGAGAAAATCAAGGAGAGGATTG
1 TGGAGAAAATCAAGAAGAGGATTA
* *
13106556 GGGAGAAAATCAATAAGAGGATTA
1 TGGAGAAAATCAAGAAGAGGATTA
13106580 TGGAGA
1 TGGAGA
13106586 GATTTTAGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.35, T:0.17
Consensus pattern (24 bp):
TGGAGAAAATCAAGAAGAGGATTA
Found at i:13112150 original size:5 final size:6
Alignment explanation
Indices: 13112133--13112160 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
13112123 TCCCATAGAC
13112133 ATAAAA ATAAAA ATAAAA ATAAAA ATAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAA
13112161 TCTACTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:13130898 original size:49 final size:49
Alignment explanation
Indices: 13130835--13131016 Score: 229
Period size: 49 Copynumber: 3.7 Consensus size: 49
13130825 CTGGTATGCA
* * *
13130835 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * * * * * *
13130884 TAGTAACCTACACTTAGTACTACACACGTGATCATAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCA-A-TTATCCGGTACACG
13130935 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
*
13130984 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC
13131017 TCACAATAGT
Statistics
Matches: 110, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 70 0.64
50 2 0.02
51 38 0.35
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:13131005 original size:100 final size:100
Alignment explanation
Indices: 13130827--13131014 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
13130817 GAAGCTATCT
* * *
13130827 GGTATGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAACC
13130892 TACACTTAGTACTACACACGTGATCATAGTTTTCG
66 TACACTTAGTACTACACACGTGATCATAGTTTTCG
* *
13130927 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAACC
* *
13130992 TGCACTTAGTACTACACATGTGA
66 TACACTTAGTACTACACACGTGA
13131015 CCTCACAATA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAACC
TACACTTAGTACTACACACGTGATCATAGTTTTCG
Found at i:13131333 original size:13 final size:15
Alignment explanation
Indices: 13131315--13131348 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
13131305 ATTCTGTACT
13131315 TATTGTATGTG-GAA
1 TATTGTATGTGTGAA
13131329 T-TTGTATGTGTGAA
1 TATTGTATGTGTGAA
13131343 TATTGT
1 TATTGT
13131349 GTGCCTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.50
14 5 0.28
15 4 0.22
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (15 bp):
TATTGTATGTGTGAA
Found at i:13135397 original size:40 final size:40
Alignment explanation
Indices: 13135314--13135499 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
13135304 TCGAATGATG
* * * *
13135314 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
13135354 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
13135394 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
13135434 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
13135475 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
13135500 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:13135506 original size:80 final size:79
Alignment explanation
Indices: 13135367--13135532 Score: 210
Period size: 80 Copynumber: 2.1 Consensus size: 79
13135357 GGACTAAGAT
* **
13135367 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCAAAGGCATTTGAACGAG-TAGCT
*
13135431 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* * *
13135447 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGATACTA-AATCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTAGCT
* *
13135511 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
13135526 CCGAAGG
1 CCGAAGG
13135533 TATGTGATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 16 0.21
80 57 0.76
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:13136596 original size:49 final size:47
Alignment explanation
Indices: 13136462--13136801 Score: 544
Period size: 49 Copynumber: 7.2 Consensus size: 47
13136452 CGCTTTGGTT
13136462 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
13136509 GCCGA--TG-TG-ATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
* *
13136552 GCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATG
*
13136601 GCCGATGTGATGAATGTGAAAGAGTATATATATGTGATAAGGCCTAATG
1 GCCGATGTGATGAATGTG-AA-AGTGTATATATGTGATAAGGCCTAATG
13136650 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
*
13136697 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGACCTAATG
1 GCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATG
* *
13136746 GCTGATGTGATGAATGTAAAAGTGTATATATGTGATAAGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
13136793 GCCGATGTG
1 GCCGATGTG
13136802 TAGGTTACGG
Statistics
Matches: 272, Mismatches: 11, Indels: 20
0.90 0.04 0.07
Matches are distributed among these distances:
43 38 0.14
44 2 0.01
45 4 0.01
46 2 0.01
47 96 0.35
48 2 0.01
49 123 0.45
50 2 0.01
51 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
Found at i:13136694 original size:96 final size:96
Alignment explanation
Indices: 13136462--13136801 Score: 557
Period size: 96 Copynumber: 3.6 Consensus size: 96
13136452 CGCTTTGGTT
13136462 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA--TG-TG-ATGTG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
13136523 -AA-AGTGTATATATGTGATAAGGCCTAATG
66 AAAGAGTATATATATGTGATAAGGCCTAATG
* *
13136552 GCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATG
1 GCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
13136617 TGAAAGAGTATATATATGTGATAAGGCCTAATG
64 TGAAAGAGTATATATATGTGATAAGGCCTAATG
13136650 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
13136715 AAAGTGTATATATATGTGATAAGACCTAATG
66 AAAGAGTATATATATGTGATAAGGCCTAATG
* *
13136746 GCTGATGTGATGAATGTAAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
13136802 TAGGTTACGG
Statistics
Matches: 233, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
90 23 0.10
92 27 0.12
94 2 0.01
95 2 0.01
96 128 0.55
97 2 0.01
98 49 0.21
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
AAAGAGTATATATATGTGATAAGGCCTAATG
Found at i:13137706 original size:37 final size:37
Alignment explanation
Indices: 13137650--13137728 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
13137640 CCGAGCTCTA
* * * *
13137650 AAGACCTGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
13137687 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
13137724 AAGAC
1 AAGAC
13137729 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:13140477 original size:49 final size:49
Alignment explanation
Indices: 13140405--13140501 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
13140395 GAATCCAGAA
13140405 ACCGTTCTGGCCCTGTCCCACGAGAACCTGATTATCTCTTAACATACTG
1 ACCGTTCTGGCCCTGTCCCACGAGAACCTGATTATCTCTTAACATACTG
*
13140454 ACCGTTCTGGCCCTGTCCCACGAGAACCTTATTATCTCTTAACATACT
1 ACCGTTCTGGCCCTGTCCCACGAGAACCTGATTATCTCTTAACATACT
13140502 ATCCATATGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (49 bp):
ACCGTTCTGGCCCTGTCCCACGAGAACCTGATTATCTCTTAACATACTG
Found at i:13141606 original size:28 final size:27
Alignment explanation
Indices: 13141542--13141693 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
13141532 TTATTAAGTC
* *
13141542 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
13141569 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
13141597 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
13141624 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
13141652 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
13141679 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13141694 GCACAATGTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:13141626 original size:55 final size:55
Alignment explanation
Indices: 13141542--13141718 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
13141532 TTATTAAGTC
* * *
13141542 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
13141597 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
13141652 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATGTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAAT-CAAACT
13141708 CGCACACTTAG
1 CGCACACTTAG
13141719 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 94 0.86
56 15 0.14
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:13145799 original size:27 final size:27
Alignment explanation
Indices: 13145761--13145964 Score: 264
Period size: 27 Copynumber: 7.6 Consensus size: 27
13145751 TAAATATAGG
*
13145761 ATTACTGTTTTACCCTCGATTTACAAA
1 ATTACTATTTTACCCTCGATTTACAAA
* *
13145788 ATTACTATTTTACCCTCGATTTATAGA
1 ATTACTATTTTACCCTCGATTTACAAA
* * *
13145815 ATTACCATTTTACCCTCGATTGACAGA
1 ATTACTATTTTACCCTCGATTTACAAA
* *
13145842 ATTATTGTTTTACCCTCGATTTACAAA
1 ATTACTATTTTACCCTCGATTTACAAA
13145869 ATTACTATTTTACCCTCGATTTACAAA
1 ATTACTATTTTACCCTCGATTTACAAA
* * * *
13145896 ATTATTATTTTACACTCGATTTATAGA
1 ATTACTATTTTACCCTCGATTTACAAA
** *
13145923 ATTACCGTTTTACCCTCGATTTATAAA
1 ATTACTATTTTACCCTCGATTTACAAA
*
13145950 ATTACCATTTTACCC
1 ATTACTATTTTACCC
13145965 CTAGGGTCTT
Statistics
Matches: 154, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 154 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (27 bp):
ATTACTATTTTACCCTCGATTTACAAA
Found at i:13145906 original size:81 final size:81
Alignment explanation
Indices: 13145761--13145964 Score: 309
Period size: 81 Copynumber: 2.5 Consensus size: 81
13145751 TAAATATAGG
* *
13145761 ATTACTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTATAGAATTACCATTTT
1 ATTACTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTT
*
13145826 ACCCTCGATTGACAGA
66 ACACTCGATTGACAGA
* **
13145842 ATTATTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTATTATTTT
1 ATTACTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTT
* *
13145907 ACACTCGATTTATAGA
66 ACACTCGATTGACAGA
* * *
13145923 ATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTACCC
1 ATTACTGTTTTACCCTCGATTTACAAAATTACTATTTTACCC
13145965 CTAGGGTCTT
Statistics
Matches: 111, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 111 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (81 bp):
ATTACTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTT
ACACTCGATTGACAGA
Found at i:13146499 original size:6 final size:6
Alignment explanation
Indices: 13146468--13146540 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
13146458 TTGCATTCAC
* *
13146468 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
13146517 -TCACCTA ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCT
13146541 CATTTTGTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 3 0.06
6 43 0.81
7 5 0.09
8 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:13146503 original size:31 final size:31
Alignment explanation
Indices: 13146468--13146540 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
13146458 TTGCATTCAC
* * *
13146468 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
*
13146499 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
13146530 ATTCTGATTCT
1 ATTCTGATTCT
13146541 CATTTTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:13148560 original size:27 final size:27
Alignment explanation
Indices: 13148501--13148614 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 27
13148491 TTTAGTTTAC
** * *
13148501 AAAATTACTAAAATACCCC-CAGTTGT
1 AAAATTACCCAAATACCCCTGATTTGT
*
13148527 AAAATTA-CCAAAGTACCCCTGATTTAT
1 AAAATTACCCAAA-TACCCCTGATTTGT
*
13148554 AAAATTACCCAAATA-TCCTCGATTTGT
1 AAAATTACCCAAATACCCCT-GATTTGT
* * * *
13148581 AAAATTATCGAAATACCCTTAATTTGT
1 AAAATTACCCAAATACCCCTGATTTGT
13148608 AAAATTA
1 AAAATTA
13148615 TTGAAATACC
Statistics
Matches: 71, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
25 3 0.04
26 16 0.23
27 45 0.63
28 7 0.10
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTACCCAAATACCCCTGATTTGT
Found at i:13148598 original size:54 final size:54
Alignment explanation
Indices: 13148496--13148669 Score: 156
Period size: 54 Copynumber: 3.2 Consensus size: 54
13148486 AATACTTTAG
* ** * * *
13148496 TTTACAAAATTACTAAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCTGA
1 TTTATAAAATTACCCAAATACCCTCAACTTGTAAAATTATCAAAGTACCCCTGA
* * * * *
13148549 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAA-TACCCTTAA
1 TTTATAAAATTACCCAAATACCCTCAACTTGTAAAATTATC-AAAGTACCCCTGA
* ***
13148603 TTTGTAAAATTATTGAAATACCCTCAACTTGTAAAATTATCAAAGTA-CCCTCGA
1 TTTATAAAATTACCCAAATACCCTCAACTTGTAAAATTATCAAAGTACCCCT-GA
* *
13148657 ATTACAAAATTAC
1 TTTATAAAATTAC
13148670 TATTTTACCC
Statistics
Matches: 95, Mismatches: 22, Indels: 7
0.77 0.18 0.06
Matches are distributed among these distances:
53 25 0.26
54 67 0.71
55 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (54 bp):
TTTATAAAATTACCCAAATACCCTCAACTTGTAAAATTATCAAAGTACCCCTGA
Found at i:13148615 original size:27 final size:27
Alignment explanation
Indices: 13148523--13148659 Score: 127
Period size: 27 Copynumber: 5.0 Consensus size: 27
13148513 ATACCCCCAG
*
13148523 TTGTAAAATTA-CCAAAGTACCC-CTGAT
1 TTGTAAAATTATCCAAA-TACCCTC-AAT
* * * *
13148550 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTATCCAAATACCCTCAAT
* *
13148577 TTGTAAAATTATCGAAATACCCTTAAT
1 TTGTAAAATTATCCAAATACCCTCAAT
** *
13148604 TTGTAAAATTATTGAAATACCCTCAAC
1 TTGTAAAATTATCCAAATACCCTCAAT
13148631 TTGTAAAATTAT-CAAAGTACCCTCGAAT
1 TTGTAAAATTATCCAAA-TACCCTC-AAT
13148659 T
1 T
13148660 ACAAAATTAC
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.03
27 81 0.87
28 9 0.10
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (27 bp):
TTGTAAAATTATCCAAATACCCTCAAT
Found at i:13148678 original size:27 final size:27
Alignment explanation
Indices: 13148648--13149138 Score: 635
Period size: 27 Copynumber: 18.2 Consensus size: 27
13148638 ATTATCAAAG
* *
13148648 TACCCTCGAATTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
13148675 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * **
13148702 TACCCTCAATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
13148729 TACCCTCGATTTACAGAATTATCT-TTT
1 TACCCTCGATTTACAGAATTA-CTATTT
* *
13148756 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
13148783 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
13148810 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
13148837 TACCCTCGATTGATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
13148864 TACCCTCGATTGATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
13148891 TACCCTC-ATTTTATAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACTATTT
* **
13148918 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
13148945 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * * **
13148972 TGCCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
13148999 TACCCTCGATTGACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
13149026 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
13149053 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
13149080 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
13149107 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
13149134 TACCC
1 TACCC
13149139 CTAGGGTCTT
Statistics
Matches: 415, Mismatches: 45, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
26 3 0.01
27 410 0.99
28 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:13149494 original size:26 final size:27
Alignment explanation
Indices: 13149465--13149524 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
13149455 CCACATATAT
*
13149465 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
13149491 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
13149518 ATATCTG
1 ATATCTG
13149525 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:13149680 original size:31 final size:31
Alignment explanation
Indices: 13149642--13149714 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
13149632 ATTGCATTCC
* *
13149642 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
* *
13149673 ATTCTGATTCTGATTCTGTCGCCTGATTCTA
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
*
13149704 ATTCTTATTCT
1 ATTCTGATTCT
13149715 CATTTTGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTA
Found at i:13149684 original size:6 final size:6
Alignment explanation
Indices: 13149642--13149735 Score: 50
Period size: 6 Copynumber: 15.3 Consensus size: 6
13149632 ATTGCATTCC
* * *
13149642 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
13149691 -TCGCCTG ATTCTA ATTCTT ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
13149736 AATGTTTCCT
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
5 4 0.06
6 53 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:13152706 original size:39 final size:39
Alignment explanation
Indices: 13152652--13152767 Score: 205
Period size: 39 Copynumber: 3.0 Consensus size: 39
13152642 TTCAGTGATG
13152652 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
13152691 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
13152730 TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
13152768 ATATGTCTGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:13152791 original size:78 final size:78
Alignment explanation
Indices: 13152652--13152795 Score: 191
Period size: 78 Copynumber: 1.8 Consensus size: 78
13152642 TTCAGTGATG
* * * * **
13152652 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
13152717 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* * *
13152730 TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCTGGGC-TAAAGTCCCGCAGG
1 TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
13152794 CT
65 CT
13152796 TCGAGCTGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
77 4 0.07
78 52 0.93
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (78 bp):
TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:13160658 original size:94 final size:92
Alignment explanation
Indices: 13160465--13160677 Score: 250
Period size: 94 Copynumber: 2.3 Consensus size: 92
13160455 TGATATGTGT
* * * *
13160465 GCTAGTGTAAGACATGTCTGGGACATGCATCATACAGTATGAGAGCCACTGTAAGACATTTTTGG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCATACAGGACGAGAGCCACTGTAAGACATGTTTGA
*
13160530 GACATGCACCGGCCTCGAGATATTTAA
66 GACATGCACCGGCCTCGAGATATTCAA
* * * * *
13160557 GCCAGTGTAAGACATTTCTGGGACATGCATCA-GCATTGAGACGAGAGCTAGTGTAAGACATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCATACA--G-GACGAGAGCCACTGTAAGACATGTT
* *
13160621 TGAGACATGCATCGGCCTCGTGAT-TTACAA
63 TGAGACATGCACCGGCCTCGAGATATT-CAA
* *
13160651 GCTAGTGTAAAACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
13160678 GCGTCAGCTT
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
91 2 0.02
92 30 0.30
93 3 0.03
94 66 0.65
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCATACAGGACGAGAGCCACTGTAAGACATGTTTGA
GACATGCACCGGCCTCGAGATATTCAA
Found at i:13160758 original size:49 final size:49
Alignment explanation
Indices: 13160701--13160820 Score: 145
Period size: 49 Copynumber: 2.4 Consensus size: 49
13160691 GTGTGTCAGT
*
13160701 GTAAGACCTATCTAGGACATGGCATCGACACT-GATAGATGAGAA-CCAGA
1 GTAAGACCTGTCTAGGACATGGCATCGAC-CTCGATAGATGA-AAGCCAGA
* * * * *
13160750 GTAAGACCTGTCTGGGACATGGCATCGGCCTCGCTATATGAAAGCCAGT
1 GTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAAGCCAGA
13160799 GTAAGACCATGTCTAGGACATG
1 GTAAGACC-TGTCTAGGACATG
13160821 ATGTTAGCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
48 4 0.07
49 45 0.74
50 12 0.20
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.21
Consensus pattern (49 bp):
GTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAAGCCAGA
Found at i:13168147 original size:48 final size:46
Alignment explanation
Indices: 13168041--13168393 Score: 195
Period size: 48 Copynumber: 7.5 Consensus size: 46
13168031 TGTGTGCTAA
** *
13168041 TGTAAGACATGTCTGGGACATGCATTAGCCAT--AG-TATGAGAGACAG
1 TGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGATAT-A-AGCCAG
*
13168087 TGTAAGACATGTCTGAGACATGCATCGGCCTCGAGATATTTAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATA--TAAGCCAG
* * * *
13168135 TGTAAGACATGTCTGGGACATGCATCGGCGTTGAGACA-AGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA-AGCCAG
* * *
13168181 TGTAAGTCATGCCTGGGACATGCATCGGCCTC-ACGATATACAAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATAT--AAGCCAG
* * * * * * * *
13168229 TGTAAGACCTGTTTGGGACATGGCGTCAG-CTTGTTG-TGT--GTCAG
1 TGTAAGACATGTCTGGGACAT-GCATCGGCCTCG-AGATATAAGCCAG
* * * * *
13168273 TGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAGATGAGAGCCAG
1 TGTAAGACATGTCTGGGACAT-GCATCGGC-CTCGAGATAT-A-AGCCAG
* * * * * *
13168322 TATAAGACCTGTCTAGGACATAGCATCGGTCTCGCTATATAAAAGCCAG
1 TGTAAGACATGTCTGGGACAT-GCATCGGCCTCG--AGATATAAGCCAG
13168371 TGTAAGACCATGTCTGGGACATG
1 TGTAAGA-CATGTCTGGGACATG
13168394 GCGTCGGCAT
Statistics
Matches: 236, Mismatches: 47, Indels: 45
0.72 0.14 0.14
Matches are distributed among these distances:
44 27 0.11
45 5 0.02
46 64 0.27
47 2 0.01
48 69 0.29
49 51 0.22
50 14 0.06
51 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAGCCAG
Found at i:13168201 original size:94 final size:94
Alignment explanation
Indices: 13168041--13168250 Score: 246
Period size: 94 Copynumber: 2.2 Consensus size: 94
13168031 TGTGTGCTAA
* ** *
13168041 TGTAAGACATGTCTGGGACATGCATTAGCCATAGTATGAGAGACAGTGTAAGACATGTCTGAGAC
1 TGTAAGACATGTCTGGGACATGCATCAGCCATAGTACAAGAGACAGTGTAAGACATGCCTGAGAC
**
13168106 ATGCATCGGCCTCGA-GATATTTAAGCCAG
66 ATGCATCGGCCTC-ACGATATACAAGCCAG
* ** * *
13168135 TGTAAGACATGTCTGGGACATGCATCGGCGTTGAG-ACAAGAG-CTAGTGTAAGTCATGCCTGGG
1 TGTAAGACATGTCTGGGACATGCATCAGCCAT-AGTACAAGAGAC-AGTGTAAGACATGCCTGAG
*
13168198 ACATGCATCGGCCTCACGATATACAAGCTAG
64 ACATGCATCGGCCTCACGATATACAAGCCAG
* *
13168229 TGTAAGACCTGTTTGGGACATG
1 TGTAAGACATGTCTGGGACATG
13168251 GCGTCAGCTT
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
93 2 0.02
94 95 0.96
95 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCATAGTACAAGAGACAGTGTAAGACATGCCTGAGAC
ATGCATCGGCCTCACGATATACAAGCCAG
Found at i:13171997 original size:6 final size:6
Alignment explanation
Indices: 13171986--13172010 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13171976 CTAGTAATCT
13171986 TGAAAC TGAAAC TGAAAC TGAAAC T
1 TGAAAC TGAAAC TGAAAC TGAAAC T
13172011 AGTAATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
TGAAAC
Found at i:13175986 original size:20 final size:20
Alignment explanation
Indices: 13175944--13176016 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
13175934 AAATATATCA
*
13175944 ATTTTGAAATTTTTGTAAA-T
1 ATTTTG-AATTTTTGAAAATT
*
13175964 ATTTTGAATTTTTAAAAATT
1 ATTTTGAATTTTTGAAAATT
**
13175984 ATTTT-ATAACTTTGAAAATT
1 ATTTTGA-ATTTTTGAAAATT
13176004 ATTTTGAATTTTT
1 ATTTTGAATTTTT
13176017 TTGAAATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 11 0.26
20 31 0.72
21 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:13182603 original size:20 final size:20
Alignment explanation
Indices: 13182578--13182616 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13182568 ATGAATAATA
*
13182578 ATAATACAAAGACATAGAAT
1 ATAATACAAAAACATAGAAT
13182598 ATAATACAAAAACATAGAA
1 ATAATACAAAAACATAGAA
13182617 CTTAAAACAA
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:0.64, C:0.10, G:0.08, T:0.18
Consensus pattern (20 bp):
ATAATACAAAAACATAGAAT
Found at i:13182626 original size:20 final size:20
Alignment explanation
Indices: 13182578--13182627 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
13182568 ATGAATAATA
* *
13182578 ATAATACAAAGACATAGAAT
1 ATAAAACAAAAACATAGAAT
*
13182598 ATAATACAAAAACATAGAACT
1 ATAAAACAAAAACATAGAA-T
13182619 -TAAAACAAA
1 ATAAAACAAA
13182628 TTAATGCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.64, C:0.12, G:0.06, T:0.18
Consensus pattern (20 bp):
ATAAAACAAAAACATAGAAT
Found at i:13183057 original size:28 final size:29
Alignment explanation
Indices: 13183025--13183079 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
13183015 GGGTTTTGTT
*
13183025 AAAATAATTTAAGGTTTAAA-TTTTTTAA
1 AAAATAAATTAAGGTTTAAAGTTTTTTAA
*
13183053 AAAATAAATTAGGGTTTAAAGTTTTTT
1 AAAATAAATTAAGGTTTAAAGTTTTTT
13183080 TTTAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.45
Consensus pattern (29 bp):
AAAATAAATTAAGGTTTAAAGTTTTTTAA
Found at i:13183175 original size:34 final size:33
Alignment explanation
Indices: 13183078--13183173 Score: 129
Period size: 34 Copynumber: 2.8 Consensus size: 33
13183068 TTAAAGTTTT
* *
13183078 TTTTTAAAAATTAATTAAATTAGGTTTTAGGGA
1 TTTTAAAAAATTAATTAAATTAGGTTTTAGAGA
* *
13183111 TTTTAAATAAATAAATTAAATTAGGTTTTAGAGC
1 TTTTAAA-AAATTAATTAAATTAGGTTTTAGAGA
13183145 TTTTAAGAAAATTAATTAAATTAAGGTTT
1 TTTTAA-AAAATTAATTAAATT-AGGTTT
13183174 AGCTTTTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
33 6 0.11
34 42 0.76
35 7 0.13
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.44
Consensus pattern (33 bp):
TTTTAAAAAATTAATTAAATTAGGTTTTAGAGA
Found at i:13183508 original size:125 final size:125
Alignment explanation
Indices: 13183247--13183638 Score: 540
Period size: 124 Copynumber: 3.1 Consensus size: 125
13183237 ATTTTGTTTT
* * * * * *
13183247 TTTTTCTATAGTAGTTTCAGAATAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAA-ATAGTGTCAAAA
* * * * * *
13183312 ACGCTTCAAGCAGGGATGCACTGTTAGTAAAATTACCGAAAAAAGCTCCCACGT-AGACGCTC
65 ATGCTTCAAGCA-GGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGAG-TGCTC
*
13183374 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAATAGTTTCAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAATAGTGTCAAAAA
* *
13183439 TGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAATGCTCTCACGTGAGTGCTT
66 TGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGAGTGCTC
*
13183499 TTTTTCTACAGTAGTTCCTG-AAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTGTCAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAATAGTGTCAAAAA
* * * *
13183563 TGCTTCAAGCAAGATGCACTGTCAACAAAATTACT-AAAAAAACTCTCACATGTA-TGCTC
66 TGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTG-AGTGCTC
13183622 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
13183639 TTGTTTGGCC
Statistics
Matches: 240, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
123 35 0.15
124 76 0.32
125 59 0.25
126 23 0.10
127 47 0.20
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAATAGTGTCAAAAA
TGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGAGTGCTC
Found at i:13186986 original size:46 final size:45
Alignment explanation
Indices: 13186844--13187056 Score: 191
Period size: 46 Copynumber: 4.6 Consensus size: 45
13186834 TGTGAGCTAC
* *
13186844 TGTAAGACATGTTTGGGACATGCATCGGC-CACATTATGAGAGCCAG
1 TGTAAGACATGTTTGGGACATGCATCGGCTC-GA-GATGAGAGCCAG
* * * * *
13186890 TGTAAGACCCTGTTTGGAACATGGCATCGGCATTGAGATGAGTGCTAG
1 TGTAAGA-CATGTTTGGGACAT-GCATCGGC-TCGAGATGAGAGCCAG
*
13186938 TGTAAGACATGTTTGGGATATGCATCGGTCTCGAGATGTA-AGCCAG
1 TGTAAGACATGTTTGGGACATGCATCGG-CTCGAGATG-AGAGCCAG
* * *
13186984 TGTAAGACATGTCTGGGACATGCATCGGCTACGAGAT--GTGTCAG
1 TGTAAGACATGTTTGGGACATGCATCGGCT-CGAGATGAGAGCCAG
* *
13187028 TGTAAGACCATGTCTGGGATATGGCATCG
1 TGTAAGA-CATGTTTGGGACAT-GCATCG
13187057 ACACAGATAT
Statistics
Matches: 139, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 63 0.45
47 25 0.18
48 24 0.17
49 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (45 bp):
TGTAAGACATGTTTGGGACATGCATCGGCTCGAGATGAGAGCCAG
Found at i:13191221 original size:35 final size:34
Alignment explanation
Indices: 13191145--13191250 Score: 122
Period size: 35 Copynumber: 3.0 Consensus size: 34
13191135 ACTTGGCTAC
* * *
13191145 ATGTGATGTTTTATTGAACTTCTTATTTGACCAT
1 ATGTGATGATTTATTGAACTTGTTATTTGGCCAT
* *
13191179 ATATGATGATTTATTGAACTTGTATATTCGGCCAT
1 ATGTGATGATTTATTGAACTTGT-TATTTGGCCAT
* *
13191214 ATGTGATGATATAATGAACCTTGTGTATTTGGCCAT
1 ATGTGATGATTTATTGAA-CTTGT-TATTTGGCCAT
13191250 A
1 A
13191251 CAAGTAAGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 20 0.33
35 24 0.40
36 16 0.27
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.43
Consensus pattern (34 bp):
ATGTGATGATTTATTGAACTTGTTATTTGGCCAT
Found at i:13198455 original size:21 final size:21
Alignment explanation
Indices: 13198431--13198496 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 21
13198421 TGAGGTTGCC
13198431 GTATGGGTTAAATCAACCTTA
1 GTATGGGTTAAATCAACCTTA
*
13198452 GTATTAGGTAGTTAAA--AA-TTTA
1 GTA-T-GG--GTTAAATCAACCTTA
13198474 --ATGGGTTAAATCAACCTTA
1 GTATGGGTTAAATCAACCTTA
13198493 GTAT
1 GTAT
13198497 TAGGCAGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 18
0.63 0.04 0.33
Matches are distributed among these distances:
16 6 0.18
18 4 0.12
19 4 0.12
20 1 0.03
21 5 0.15
22 4 0.12
23 4 0.12
25 6 0.18
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (21 bp):
GTATGGGTTAAATCAACCTTA
Found at i:13198478 original size:41 final size:41
Alignment explanation
Indices: 13198433--13198515 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
13198423 AGGTTGCCGT
*
13198433 ATGGGTTAAATCAACCTTAGTATTAGGTAGTTAAAAATTTA
1 ATGGGTTAAATCAACCTTAGTATTAGGCAGTTAAAAATTTA
13198474 ATGGGTTAAATCAACCTTAGTATTAGGCAGTTAAAAATTTA
1 ATGGGTTAAATCAACCTTAGTATTAGGCAGTTAAAAATTTA
13198515 A
1 A
13198516 GTTAGTTGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (41 bp):
ATGGGTTAAATCAACCTTAGTATTAGGCAGTTAAAAATTTA
Found at i:13202211 original size:34 final size:35
Alignment explanation
Indices: 13202147--13202275 Score: 118
Period size: 35 Copynumber: 3.7 Consensus size: 35
13202137 AGTTGATCTA
* * * * *
13202147 AATGACCTTGTATACTT-GGCTACATGTGATGTTTT
1 AATGAACTTGTATA-TTCGGCCATATATGATGATTT
*
13202182 ATTGAACTTGT-TATTCGGCCATATATGATGATTT
1 AATGAACTTGTATATTCGGCCATATATGATGATTT
* * * *
13202216 AGTGAACTTGTATATTCGGACATATGTGATGATAT
1 AATGAACTTGTATATTCGGCCATATATGATGATTT
* *
13202251 AATGAACCTTGTGTATTTGGCCATA
1 AATGAA-CTTGTATATTCGGCCATA
13202276 CAAGTAAGTA
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
33 2 0.03
34 26 0.34
35 34 0.44
36 15 0.19
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.40
Consensus pattern (35 bp):
AATGAACTTGTATATTCGGCCATATATGATGATTT
Found at i:13202821 original size:36 final size:36
Alignment explanation
Indices: 13202781--13202853 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
13202771 CGACCTTGAA
*
13202781 TATGTAAAACTTAAGCCAT-ATGAAAATGGCTTAATC
1 TATGTAAAACTTAAGCCATGA-GAAAATAGCTTAATC
*
13202817 TATGTATAACTTAAGCCATGAGAAAATAGCTTAATC
1 TATGTAAAACTTAAGCCATGAGAAAATAGCTTAATC
13202853 T
1 T
13202854 CCATGATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (36 bp):
TATGTAAAACTTAAGCCATGAGAAAATAGCTTAATC
Found at i:13204322 original size:43 final size:43
Alignment explanation
Indices: 13204140--13204324 Score: 221
Period size: 43 Copynumber: 4.3 Consensus size: 43
13204130 CATAAAAGAT
* * * **
13204140 CATGACTTTTAACGGCGTTTGTGGGGGAAGCACCGTTAAAATT
1 CATGGCTTTTAGCGGCGTTTGTGGGGGAAGCACCGCTAAAAGC
* *
13204183 CATGGCTTATAGCGGCGTTTGTGGGGGAAG-AGCCGCTAAAAGT
1 CATGGCTTTTAGCGGCGTTTGTGGGGGAAGCA-CCGCTAAAAGC
* * *
13204226 CATGGATTTTAGCGGCGTTTGTGGTGGAAGCGCCGCTAAAAGTC
1 CATGGCTTTTAGCGGCGTTTGTGGGGGAAGCACCGCTAAAAG-C
* * *
13204270 C-TCGTTTTTAGCGGCGTTTGTGGGGGAAGCACCGCTAAAGGC
1 CATGGCTTTTAGCGGCGTTTGTGGGGGAAGCACCGCTAAAAGC
13204312 CATGGCTTTTAGC
1 CATGGCTTTTAGC
13204325 ATGAAATCCA
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
42 3 0.02
43 117 0.97
44 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (43 bp):
CATGGCTTTTAGCGGCGTTTGTGGGGGAAGCACCGCTAAAAGC
Found at i:13205067 original size:13 final size:14
Alignment explanation
Indices: 13205041--13205069 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13205031 ACTAACGACG
13205041 AATTAAACCATTAT
1 AATTAAACCATTAT
13205055 AATTAAA-CATTAT
1 AATTAAACCATTAT
13205068 AA
1 AA
13205070 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:13210159 original size:36 final size:36
Alignment explanation
Indices: 13210119--13210271 Score: 175
Period size: 36 Copynumber: 4.1 Consensus size: 36
13210109 AAGTAAGTTT
* * *
13210119 TGTAAGTTATATAAGTTATGTTATGATATACATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTA
*
13210155 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTA
13210191 TGT-A-TTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTA
* *
13210225 TGTATTATGTAAGGTATATAAGTTATTATATGATATATATTTA
1 TGTA--A-GT----TATGTAAGTTATGATATGATATATATTTA
13210268 TGTA
1 TGTA
13210272 TTTTGTAAGG
Statistics
Matches: 101, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
34 32 0.32
35 1 0.01
36 35 0.35
37 1 0.01
39 1 0.01
43 31 0.31
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.48
Consensus pattern (36 bp):
TGTAAGTTATGTAAGTTATGATATGATATATATTTA
Found at i:13210205 original size:34 final size:34
Alignment explanation
Indices: 13210125--13210237 Score: 172
Period size: 34 Copynumber: 3.3 Consensus size: 34
13210115 GTTTTGTAAG
* * *
13210125 TTATATAAGTTATGTTATGATATACATTTATGTAA
1 TTATGTAAGTTATGATATGATATATATTTATGT-A
*
13210160 GGTATGTAAGTTATGATATGATATATATTTATGTA
1 -TTATGTAAGTTATGATATGATATATATTTATGTA
13210195 TTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGATATGATATATATTTATGTA
13210229 TTATGTAAG
1 TTATGTAAG
13210238 GTATATAAGT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
34 42 0.58
35 1 0.01
36 29 0.40
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.48
Consensus pattern (34 bp):
TTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:13210226 original size:52 final size:47
Alignment explanation
Indices: 13210183--13210323 Score: 146
Period size: 43 Copynumber: 3.0 Consensus size: 47
13210173 TGATATGATA
*
13210183 TATATTTATGTATTATGTAAGTTATGATATGATATATATTTATGTAT
1 TATATATATGTATTATGTAAGTTATGATATGATATATATTTATGTAT
* * *
13210230 TATGTA-AGGTA-TA--TAAGTTATTATATGATATATATTTATGTAT
1 TATATATATGTATTATGTAAGTTATGATATGATATATATTTATGTAT
* * *
13210273 TTTGTAAGGTATATAAGTTATGTAAGTTATGATATGATATATATTTATGTA
1 TATAT-A--TATGT-A-TTATGTAAGTTATGATATGATATATATTTATGTA
13210324 AGTTATTATA
Statistics
Matches: 77, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
43 33 0.43
44 1 0.01
45 2 0.03
46 4 0.05
47 6 0.08
48 1 0.01
50 2 0.03
52 28 0.36
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (47 bp):
TATATATATGTATTATGTAAGTTATGATATGATATATATTTATGTAT
Found at i:13210250 original size:43 final size:43
Alignment explanation
Indices: 13210200--13210294 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
13210190 ATGTATTATG
13210200 TAAGTTATGATATGATATATATTTATGTATTATGTAAGGTATA
1 TAAGTTATGATATGATATATATTTATGTATTATGTAAGGTATA
* *
13210243 TAAGTTATTATATGATATATATTTATGTATTTTGTAAGGTATA
1 TAAGTTATGATATGATATATATTTATGTATTATGTAAGGTATA
13210286 TAAGTTATG
1 TAAGTTATG
13210295 TAAGTTATGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (43 bp):
TAAGTTATGATATGATATATATTTATGTATTATGTAAGGTATA
Found at i:13210255 original size:34 final size:34
Alignment explanation
Indices: 13210125--13210255 Score: 129
Period size: 34 Copynumber: 3.8 Consensus size: 34
13210115 GTTTTGTAAG
* * * * *
13210125 TTATATAAGTTATGTTATGATATACATTTATGTAA
1 TTATGTAAGGTATGATAAGATATATATTTATGT-A
* * *
13210160 GGTATGTAAGTTATGATATGATATATATTTATGTA
1 -TTATGTAAGGTATGATAAGATATATATTTATGTA
* *
13210195 TTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGGTATGATAAGATATATATTTATGTA
*
13210229 TTATGTAAGGTAT-ATAAGTTATTATAT
1 TTATGTAAGGTATGATAAGATA-TATAT
13210256 GATATATATT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
33 6 0.07
34 50 0.58
35 1 0.01
36 29 0.34
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (34 bp):
TTATGTAAGGTATGATAAGATATATATTTATGTA
Found at i:13210303 original size:77 final size:77
Alignment explanation
Indices: 13210116--13210346 Score: 266
Period size: 77 Copynumber: 2.9 Consensus size: 77
13210106 GTTAAGTAAG
* * ** *
13210116 TTTTGTAAGTTATATAAGTTATGTTATGATATACATTTATGTAAGGTATGTAAGTTATGATATGA
1 TTTTGTAAGTTATATAAGTTATG-TAAGTTATGTA-TTATGTAAGGTATGTAAGTTATTATATGA
13210181 TATATATTTATGTA
64 TATATATTTATGTA
* * * * * *
13210195 TTATGTAAGTTATGATATGATATAT-ATTTATGTATTATGTAAGGTATATAAGTTATTATATGAT
1 TTTTGTAAGTTAT-ATAAGTTATGTAAGTTATGTATTATGTAAGGTATGTAAGTTATTATATGAT
13210259 ATATATTTATGTA
65 ATATATTTATGTA
* * * **
13210272 TTTTGTAAGGTATATAAGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATTATATGA
1 TTTTGTAAGTTATATAAGTTATGTAAGTTATG-TATTATGTA-AGGTATGTAAGTTATTATATGA
13210337 TATATATTTA
64 TATATATTTA
13210347 ACATTAAGAT
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
76 8 0.06
77 58 0.46
78 11 0.09
79 42 0.33
80 7 0.06
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.49
Consensus pattern (77 bp):
TTTTGTAAGTTATATAAGTTATGTAAGTTATGTATTATGTAAGGTATGTAAGTTATTATATGATA
TATATTTATGTA
Found at i:13210668 original size:170 final size:167
Alignment explanation
Indices: 13210374--13210748 Score: 646
Period size: 170 Copynumber: 2.2 Consensus size: 167
13210364 ATTTCCCTTT
* *
13210374 AAAAAATTACTTTAATTAAATAAAATTTAAATAAATTAATCCAAAATATGTAATTTAAGAGAAAT
1 AAAAAATTATTTTAATTAAATAATATTTAAATAAATTAATCCAAAATATGTAATTTAAGAGAAAT
13210439 TGTGTATAAAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATAAAAAATAAATAA
66 TGTGTATAAAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATAAAAAATAAATAA
13210504 TAAAAATAAAATTTGACGATGTGGAAAATCACATATGGAA
131 TAAAAATAAAATTTGACGATGTGGAAAAT--CATATGG-A
13210544 AATAAAATTTATTTTAATTAAATAATATTTAAATAAATTAATCCAAAATATGTAATTTAA-A-AA
1 AA-AAAA-TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAAATATGTAATTTAAGAGAA
* *
13210607 ATTGTGTATAAAAAGTTGAAAATCGTATAAGATGAAATGTTAACTTTGTTCCATAAAAAATAAAT
64 ATTGTGTATAAAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATAAAAAATAAAT
*
13210672 AATAAAAATAAAATTTGATGATGTGGAAAATCATATGGA
129 AATAAAAATAAAATTTGACGATGTGGAAAATCATATGGA
13210711 AAAAAATTATTTTAATTAAATAATATTTAAATAAATTA
1 AAAAAATTATTTTAATTAAATAATATTTAAATAAATTA
13210749 TTTTAATTAA
Statistics
Matches: 198, Mismatches: 5, Indels: 9
0.93 0.02 0.04
Matches are distributed among these distances:
165 32 0.16
166 4 0.02
167 3 0.02
168 7 0.04
170 97 0.49
171 5 0.03
172 50 0.25
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (167 bp):
AAAAAATTATTTTAATTAAATAATATTTAAATAAATTAATCCAAAATATGTAATTTAAGAGAAAT
TGTGTATAAAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATAAAAAATAAATAA
TAAAAATAAAATTTGACGATGTGGAAAATCATATGGA
Found at i:13210731 original size:29 final size:29
Alignment explanation
Indices: 13210699--13210765 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
13210689 ATGATGTGGA
*
13210699 AAATCATATGGAAAAAAATTATTTTAATT
1 AAATAATATGGAAAAAAATTATTTTAATT
** *
13210728 AAATAATATTTAAATAAATTATTTTAATT
1 AAATAATATGGAAAAAAATTATTTTAATT
13210757 AAATAATAT
1 AAATAATAT
13210766 TTAAATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATAATATGGAAAAAAATTATTTTAATT
Found at i:13210745 original size:15 final size:15
Alignment explanation
Indices: 13210721--13210775 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
13210711 AAAAAATTAT
*
13210721 TTTAATTAAATAATA
1 TTTAAATAAATAATA
*
13210736 TTTAAATAAATTAT-
1 TTTAAATAAATAATA
*
13210750 TTTAATTAAATAATA
1 TTTAAATAAATAATA
13210765 TTTAAATAAAT
1 TTTAAATAAAT
13210776 TAATCCAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAAATAAATAATA
Found at i:13210766 original size:29 final size:29
Alignment explanation
Indices: 13210714--13210777 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
13210704 ATATGGAAAA
13210714 AAATTATTTTAATTAAATAATATTTAAAT
1 AAATTATTTTAATTAAATAATATTTAAAT
13210743 AAATTATTTTAATTAAATAATATTTAAAT
1 AAATTATTTTAATTAAATAATATTTAAAT
13210772 AAATTA
1 AAATTA
13210778 ATCCAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
AAATTATTTTAATTAAATAATATTTAAAT
Found at i:13211101 original size:24 final size:24
Alignment explanation
Indices: 13211058--13211104 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
13211048 TTAACTTAAA
*
13211058 TGATAAAACGAAAGATAATATTTG
1 TGATAAAACGAAAGAGAATATTTG
* *
13211082 TGATAAAACGGACGAGAATATTT
1 TGATAAAACGAAAGAGAATATTT
13211105 CAATAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (24 bp):
TGATAAAACGAAAGAGAATATTTG
Found at i:13213927 original size:7 final size:7
Alignment explanation
Indices: 13213897--13214014 Score: 51
Period size: 7 Copynumber: 16.3 Consensus size: 7
13213887 GAGGTTATGA
13213897 TAGGGTT
1 TAGGGTT
*
13213904 TGGGGTT
1 TAGGGTT
13213911 TAAGGG-T
1 T-AGGGTT
13213918 TAGGGTT
1 TAGGGTT
*
13213925 TAGTGTT
1 TAGGGTT
*
13213932 T-GGATTTT
1 TAGG--GTT
13213940 TAAGGGTT
1 T-AGGGTT
* *
13213948 TATGATT
1 TAGGGTT
* *
13213955 TAAGATT
1 TAGGGTT
13213962 TAGGGTT
1 TAGGGTT
* *
13213969 TACGGTG
1 TAGGGTT
*
13213976 TAGGGGT
1 TAGGGTT
13213983 TAGGGTT
1 TAGGGTT
**
13213990 TATTGTT
1 TAGGGTT
*
13213997 TAGAGTTT
1 TAG-GGTT
13214005 TAAGGGTT
1 T-AGGGTT
13214013 TA
1 TA
13214015 TGATTTGAGA
Statistics
Matches: 80, Mismatches: 23, Indels: 16
0.67 0.19 0.13
Matches are distributed among these distances:
6 5 0.06
7 55 0.69
8 16 0.20
9 2 0.03
10 2 0.03
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.45
Consensus pattern (7 bp):
TAGGGTT
Found at i:13213970 original size:58 final size:60
Alignment explanation
Indices: 13213906--13214032 Score: 159
Period size: 65 Copynumber: 2.1 Consensus size: 60
13213896 ATAGGGTTTG
* *
13213906 GGGTTTA-A-GGGTTAGGGTTTAGTGTTTGGATTTTTAAGGGTTTATGATTTAAGATTTA
1 GGGTTTAGAGGGGTTAGGGTTTAGTGTTTAGAGTTTTAAGGGTTTATGATTTAAGATTTA
* *
13213964 GGGTTTACGGTGTAGGGGTTAGGGTTTATTGTTTAGAGTTTTAAGGGTTTATGATTTGAGATTTA
1 GGGTTTA----G-AGGGGTTAGGGTTTAGTGTTTAGAGTTTTAAGGGTTTATGATTTAAGATTTA
13214029 GGGT
1 GGGT
13214033 CTGATGTTGA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
58 7 0.12
64 1 0.02
65 50 0.86
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.45
Consensus pattern (60 bp):
GGGTTTAGAGGGGTTAGGGTTTAGTGTTTAGAGTTTTAAGGGTTTATGATTTAAGATTTA
Found at i:13214650 original size:15 final size:15
Alignment explanation
Indices: 13214630--13214666 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
13214620 CCCCAACCTT
*
13214630 TAAACCTATAATCCC
1 TAAACCTATAATCCA
*
13214645 TAAACCCATAATCCA
1 TAAACCTATAATCCA
13214660 TAAACCT
1 TAAACCT
13214667 TAAAATAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAACCTATAATCCA
Found at i:13215012 original size:136 final size:133
Alignment explanation
Indices: 13214752--13215005 Score: 321
Period size: 136 Copynumber: 1.9 Consensus size: 133
13214742 GTCGTTCTGT
*
13214752 TTAATCTTTTAACGGCGTTTATATATCGACCTATAGCGGCACTTTCTTGAAAACGCCGCTAATAC
1 TTAATCTTTTAACGGCGTTTATATATCGACCTATAGCGGCACTTTCTAGAAAACGCCGCTAATAC
* ** * *
13214817 TCGACCTATTGCGGCGTTTTTAAGAAAGTGCCGCTAATGCCACTGTAGCTCAAAATAAACCACGT
66 TCGACCTATTGCGGCATTTTTAAGAAAGCACCGCTAATGCCACGGAAGCTCAAAATAAACCACGT
13214882 GGC
131 GGC
* * *
13214885 TTAATCTTTTAGCGGCGTTTTTTATAGGTCGACCTATAGCGGCGCTTTTCTAG-AAACGCCGCTA
1 TTAATCTTTTAACGGCG-TTTATATA--TCGACCTATAGCGGCAC-TTTCTAGAAAACGCCGCTA
* * * * * * *
13214949 ATGCTCGATCTTTTGTGGCATTTTTAGGGAAGCACTGCTAATGCCACGGAAGCTCAA
62 ATACTCGACCTATTGCGGCATTTTTAAGAAAGCACCGCTAATGCCACGGAAGCTCAA
13215006 CTTAAACGAC
Statistics
Matches: 101, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
133 16 0.16
134 7 0.07
136 72 0.71
137 6 0.06
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (133 bp):
TTAATCTTTTAACGGCGTTTATATATCGACCTATAGCGGCACTTTCTAGAAAACGCCGCTAATAC
TCGACCTATTGCGGCATTTTTAAGAAAGCACCGCTAATGCCACGGAAGCTCAAAATAAACCACGT
GGC
Found at i:13215136 original size:114 final size:114
Alignment explanation
Indices: 13214938--13215149 Score: 302
Period size: 114 Copynumber: 1.9 Consensus size: 114
13214928 GCTTTTCTAG
* * * *
13214938 AAACGCCGCTAATGCTCGATCTTTTGTGGCATTTTTAGGGAAGCACTGCTAATGCCACGGAAGCT
1 AAACCCCGCTAATGCTCGATATATTGTGGCATTTTTAGGAAAGCACTGCTAATGCCACGGAAGCT
*
13215003 CAACTTAAACGACGTCGTTCAGCT-TAATCTTTTGGCAGCGCTCTCCTAA
66 CAACTTAAACGACGACGTTCAGCTGT-ATCTTTTGGCAGCGCTCTCCTAA
* **
13215052 AAACCCCGCTAATTCTCGATATATTGTGGCATTTTTAGGAAAGTGCTGCTAATGCCACGGAAGCT
1 AAACCCCGCTAATGCTCGATATATTGTGGCATTTTTAGGAAAGCACTGCTAATGCCACGGAAGCT
* *
13215117 CAA-TATAAATGACGACGTTCGGCTGTATCTTTT
66 CAACT-TAAACGACGACGTTCAGCTGTATCTTTT
13215150 AGCTGCATTT
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
113 1 0.01
114 84 0.98
115 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (114 bp):
AAACCCCGCTAATGCTCGATATATTGTGGCATTTTTAGGAAAGCACTGCTAATGCCACGGAAGCT
CAACTTAAACGACGACGTTCAGCTGTATCTTTTGGCAGCGCTCTCCTAA
Found at i:13219004 original size:140 final size:140
Alignment explanation
Indices: 13218752--13219007 Score: 338
Period size: 140 Copynumber: 1.8 Consensus size: 140
13218742 GCCAATGCCG
* * * *
13218752 TGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATTCCATGTCCTAGACATGGTCTT
1 TGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAATAGATGCCATGTCCTAGACATGGTCTT
* **
13218817 ACATTGACTATCATCTTGTAGCCCATGCATGTCCCAGACATGTCTTACACTGGCTTATGCCTCGA
66 ACACTGACTATCATAATGTAGCCCATGCATGTCCCAGACATGTCTTACACTGGCTTATGCCTCGA
13218882 GGCCGATGCA
131 GGCCGATGCA
* *
13218892 TGTCCCAGACAT-GTCTTACACTAGC-CCTCGTCTCAATATAGATGCCATGT-CTCAGACATGGT
1 TGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-ATAGATGCCATGTCCT-AGACATGGT
* * * * *
13218954 CTTACACTGGCTCTCATAATGTGGCCGATGCATGTCTCAGACATGTCTTACACT
63 CTTACACTGACTATCATAATGTAGCCCATGCATGTCCCAGACATGTCTTACACT
13219008 AGCTCACACA
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
138 2 0.02
139 20 0.20
140 77 0.78
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (140 bp):
TGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAATAGATGCCATGTCCTAGACATGGTCTT
ACACTGACTATCATAATGTAGCCCATGCATGTCCCAGACATGTCTTACACTGGCTTATGCCTCGA
GGCCGATGCA
Found at i:13226459 original size:46 final size:47
Alignment explanation
Indices: 13226363--13226487 Score: 123
Period size: 46 Copynumber: 2.7 Consensus size: 47
13226353 TATCTCAAGT
* * * * *
13226363 CGATGCCATGTCCCAGACATGTCTTACACTGGCTTACGCTTCGAGGC
1 CGATGACATGTCCCAGACATGTCTTACACTGCCCTACGCTTCAAGAC
*
13226410 CGAT-ACATGTCCCAGACATGTCTTACACTAGCCCT-CG-TCTCAATAC
1 CGATGACATGTCCCAGACATGTCTTACACT-GCCCTACGCT-TCAAGAC
*
13226456 CGATGCCATGTCCC-GAACATGGTCTTACACTG
1 CGATGACATGTCCCAG-ACAT-GTCTTACACTG
13226488 GCTCTCATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
45 1 0.02
46 35 0.53
47 20 0.30
48 10 0.15
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.26
Consensus pattern (47 bp):
CGATGACATGTCCCAGACATGTCTTACACTGCCCTACGCTTCAAGAC
Found at i:13228959 original size:20 final size:21
Alignment explanation
Indices: 13228918--13228966 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
13228908 AAAATAGTTT
* **
13228918 TAAA-AAAATAATGATATTAA
1 TAAATAAAATAATAATAAAAA
13228938 T-AATAAAATAATAATAAAAA
1 TAAATAAAATAATAATAAAAA
13228958 TAAATAAAA
1 TAAATAAAA
13228967 AAACTAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 15 0.62
21 7 0.29
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAATAAAATAATAATAAAAA
Found at i:13234115 original size:48 final size:48
Alignment explanation
Indices: 13234059--13234284 Score: 171
Period size: 48 Copynumber: 4.8 Consensus size: 48
13234049 CACATGGTAG
* * *
13234059 GATGCCAATGCCATATCCCGGATAAGGTCTTACATGGGATCACTTATC
1 GATGCCAATGCCATGTCCCAGACAAGGTCTTACATGGGATCACTTATC
* * * * *
13234107 GATGCCAATGCCATGTCCTAGACATGGTCTTGCATGGGATC-GTAGATC
1 GATGCCAATGCCATGTCCCAGACAAGGTCTTACATGGGATCACT-TATC
* * * *
13234155 GATGGCAATGTCATGTCTCAGACATA-GTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACA-AGGTCTTACATGGGATCACTTATC
* * * ** * * *
13234203 GATGCCGAT---A-G-CCCA-ACTATGGTCTTACACGAAATTACATATT
1 GATGCCAATGCCATGTCCCAGAC-AAGGTCTTACATGGGATCACTTATC
* *
13234246 GATGCCAAAGCCATGTCCCAGACAGGGTCTTACATGGGA
1 GATGCCAATGCCATGTCCCAGACAAGGTCTTACATGGGA
13234285 CCGTACATAA
Statistics
Matches: 135, Mismatches: 32, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
42 2 0.01
43 28 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 2 0.01
48 98 0.73
49 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACAAGGTCTTACATGGGATCACTTATC
Found at i:13237369 original size:22 final size:22
Alignment explanation
Indices: 13237344--13237387 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
13237334 GGTCCCGATA
13237344 TCTATCATTTCTGATCGTGATC
1 TCTATCATTTCTGATCGTGATC
13237366 TCTATCATTTCTGATCGTGATC
1 TCTATCATTTCTGATCGTGATC
13237388 CAAGGTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (22 bp):
TCTATCATTTCTGATCGTGATC
Found at i:13239484 original size:44 final size:44
Alignment explanation
Indices: 13239398--13239520 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 44
13239388 CTCGTACAAC
* * **
13239398 GCCAACGTCCCAGACGTGGCCTTACATGT-AATCACATGTCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAATCACAAATCGAT
* *
13239441 GCC-ACTGTCCCAGACATGGTCTTATACGTAAATCACAAATCGAT
1 GCCAAC-GTCCCAGACGTGGTCTTACACGTAAATCACAAATCGAT
*
13239485 GCCAACGTCCCAGATGTGGTCTTACACG-AAATCACA
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAATCACA
13239521 TATTAGAATC
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 2 0.03
43 30 0.44
44 34 0.50
45 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (44 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAAATCACAAATCGAT
Found at i:13240432 original size:20 final size:18
Alignment explanation
Indices: 13240393--13240428 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13240383 CATTTCATGT
*
13240393 TTATTATATTTAATTACA
1 TTATAATATTTAATTACA
13240411 TTATAATATATTAATTAC
1 TTATAATAT-TTAATTAC
13240429 CATTTTAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATAATATTTAATTACA
Found at i:13240437 original size:20 final size:20
Alignment explanation
Indices: 13240392--13240437 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
13240382 CCATTTCATG
*
13240392 TTTATTATATTTAATTACAT
1 TTTAATATATTTAATTACAT
*
13240412 TATAATATA-TTAATTACCAT
1 TTTAATATATTTAATTA-CAT
13240432 TTTAAT
1 TTTAAT
13240438 CTTATAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAATATATTTAATTACAT
Found at i:13242751 original size:35 final size:35
Alignment explanation
Indices: 13242685--13242832 Score: 156
Period size: 35 Copynumber: 4.2 Consensus size: 35
13242675 ACTCTCTGTT
** *
13242685 TTGGTGTGTTTCATATGGATTAGATCTTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
* * * *
13242720 TTGGTGTGTTTTGGATGGTTTAGCTCGTATGAGAA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
* * *
13242755 TTGGCGTGTTTCGGATGG-TT-TCATTTATATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGC-TCT-TATGAGCA
*
13242790 TTGGTGTGTTTCGGATGGATTAACTCTTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
13242825 TTTGGTGT
1 -TTGGTGT
13242833 TTTTTGTTTG
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
33 1 0.01
34 3 0.03
35 76 0.83
36 11 0.12
37 1 0.01
ACGTcount: A:0.18, C:0.09, G:0.30, T:0.43
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
Found at i:13245275 original size:29 final size:29
Alignment explanation
Indices: 13245243--13245304 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
13245233 GCAAGTTATA
13245243 CTGATTTAGCTTTGGGCCATGCATATCAG
1 CTGATTTAGCTTTGGGCCATGCATATCAG
** *
13245272 CTGATTTTTCTTTGGGCCATGCATATCGG
1 CTGATTTAGCTTTGGGCCATGCATATCAG
13245301 CTGA
1 CTGA
13245305 CAGCCCTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (29 bp):
CTGATTTAGCTTTGGGCCATGCATATCAG
Found at i:13251162 original size:27 final size:28
Alignment explanation
Indices: 13251078--13251175 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
13251068 CATGAGATTG
* * * *
13251078 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
13251107 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
13251135 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
13251162 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
13251176 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:13251186 original size:27 final size:27
Alignment explanation
Indices: 13251106--13251188 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
13251096 TAAATTGTAC
* *
13251106 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
13251134 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
13251161 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
13251188 A
1 A
13251189 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:13251189 original size:29 final size:27
Alignment explanation
Indices: 13251078--13251189 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
13251068 CATGAGATTG
** * *
13251078 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
13251107 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
13251135 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
13251162 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
13251190 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:13254731 original size:39 final size:39
Alignment explanation
Indices: 13254677--13254797 Score: 197
Period size: 39 Copynumber: 3.1 Consensus size: 39
13254667 TGATGTGTAC
13254677 CCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATAT
1 CCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATAT
13254716 CCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATAT
1 CCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATAT
* * * * *
13254755 CTGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGT
1 CCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATAT
13254794 CCGG
1 CCGG
13254798 GCTAAAGTCC
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.26
Consensus pattern (39 bp):
CCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATAT
Found at i:13254811 original size:39 final size:39
Alignment explanation
Indices: 13254677--13254831 Score: 186
Period size: 39 Copynumber: 4.0 Consensus size: 39
13254667 TGATGTGTAC
* *
13254677 CCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATAT
1 CCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTATAT
* *
13254716 CCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATAT
1 CCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTATAT
* * *
13254755 CTGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGT
1 CCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTATAT
* * * * *
13254794 CCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTATTATA
1 CCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAATTATA
13254832 CTGGGTTTAA
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 5 0.05
39 97 0.95
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.26
Consensus pattern (39 bp):
CCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTATAT
Found at i:13254850 original size:78 final size:78
Alignment explanation
Indices: 13254679--13254862 Score: 187
Period size: 78 Copynumber: 2.4 Consensus size: 78
13254669 ATGTGTACCC
** * ** *
13254679 GGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCTATGTGC
1 GGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAGC
13254744 TGGAATTATATCT
66 TGGAATTATATCT
* * * *
13254757 GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGGCT-TCGA
1 GGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGGCTAT-GA
*
13254820 GCTGGTATTATA-CT
64 GCTGGAATTATATCT
** *
13254834 GGGTTTAAATTCCCGCAGGCT-TGTGCTGG
1 GGACTTAAAGT-CCGCAGGCTATGTGCTGG
13254863 TAATTGGTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
77 21 0.24
78 68 0.76
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (78 bp):
GGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAGC
TGGAATTATATCT
Found at i:13258775 original size:68 final size:68
Alignment explanation
Indices: 13258733--13258886 Score: 272
Period size: 68 Copynumber: 2.3 Consensus size: 68
13258723 TATATAGTAT
*
13258733 CTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAACTACGTGAGAGATAAATG
1 CTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATAAATG
13258798 TAG
66 TAG
13258801 CTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATAAATG
1 CTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATAAATG
*
13258866 CAG
66 TAG
* *
13258869 CTAGGTCGCATGAGTGAT
1 CTAGGTCACATGTGTGAT
13258887 TCCAAGTGAA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 82 1.00
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (68 bp):
CTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATAAATG
TAG
Found at i:13258960 original size:66 final size:67
Alignment explanation
Indices: 13258763--13258960 Score: 183
Period size: 68 Copynumber: 2.9 Consensus size: 67
13258753 GGGATGTATC
* * * *
13258763 CCATGTAGACAAGAGAACTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
13258825 TGTATC-
62 AGGA-CA
*
13258831 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGCAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
13258896 AGGACA
62 AGGACA
* *
13258902 CCATGTAGACAAGAGAGCTAC-GAGATAAAT-AGGCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAATGA-GCTAGGTCGCATGAGTGATACCAAGTG
13258961 TTCACCATGT
Statistics
Matches: 114, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
65 1 0.01
66 24 0.21
67 9 0.08
68 52 0.46
69 1 0.01
70 1 0.01
71 26 0.23
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:13261780 original size:47 final size:47
Alignment explanation
Indices: 13261721--13261850 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
13261711 GTGCTAATAA
* * * ** *
13261721 TACCTTGATTTGGCCACGGGCCATGATATAGGTATTTTGTG-AGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCG-GAAGAAGT
* *
13261768 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCCGGAATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGAAGAAGT
*
13261815 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
13261851 TATCGATTGT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 1 0.01
47 71 0.99
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGAAGAAGT
Found at i:13264480 original size:31 final size:31
Alignment explanation
Indices: 13264437--13264508 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
13264427 ACTTTAATGG
*
13264437 GTGACT-AGTTTGTTACTTTTCGATAACGTTA
1 GTGACTGAGTTTGTTACTTTTCGA-AAAGTTA
* * *
13264468 GTGACTGA-TTTGTTATTTTTCTAAAATTTA
1 GTGACTGAGTTTGTTACTTTTCGAAAAGTTA
13264498 GTGACTGAGTT
1 GTGACTGAGTT
13264509 GAAAGTTGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 13 0.37
31 21 0.60
32 1 0.03
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.47
Consensus pattern (31 bp):
GTGACTGAGTTTGTTACTTTTCGAAAAGTTA
Found at i:13265086 original size:8 final size:8
Alignment explanation
Indices: 13265073--13265121 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
13265063 AAAATTTAAG
13265073 TTTAATAA
1 TTTAATAA
13265081 TTTAATAA
1 TTTAATAA
13265089 TTGT-ATAA
1 TT-TAATAA
* *
13265097 TATAGTAA
1 TTTAATAA
13265105 TTTAATAA
1 TTTAATAA
*
13265113 TATAATAA
1 TTTAATAA
13265121 T
1 T
13265122 CCAAATATAG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
7 1 0.03
8 32 0.94
9 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (8 bp):
TTTAATAA
Found at i:13265105 original size:16 final size:16
Alignment explanation
Indices: 13265073--13265121 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
13265063 AAAATTTAAG
*
13265073 TTTAATAATTTAATAA
1 TTTAATAATATAATAA
*
13265089 TTGT-ATAATATAGTAA
1 TT-TAATAATATAATAA
13265105 TTTAATAATATAATAA
1 TTTAATAATATAATAA
13265121 T
1 T
13265122 CCAAATATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 1 0.04
16 26 0.93
17 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
TTTAATAATATAATAA
Found at i:13266910 original size:53 final size:53
Alignment explanation
Indices: 13266756--13266921 Score: 201
Period size: 53 Copynumber: 3.1 Consensus size: 53
13266746 GACGAAAAAT
* * * **
13266756 ATGTGATAA-GTGCCCCCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
*
13266808 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGACATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * * *
13266861 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTAGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
13266915 TATGTGA
1 -ATGTGA
13266922 ACCGTGTAAG
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
52 10 0.10
53 82 0.83
54 1 0.01
55 6 0.06
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:13277494 original size:11 final size:12
Alignment explanation
Indices: 13277469--13277497 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13277459 GGTTCATTAT
13277469 GAAGAAAAAAGA
1 GAAGAAAAAAGA
13277481 GAAGAAAAAA-A
1 GAAGAAAAAAGA
13277492 GAAGAA
1 GAAGAA
13277498 GAGAGAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
GAAGAAAAAAGA
Found at i:13277497 original size:14 final size:13
Alignment explanation
Indices: 13277469--13277528 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
13277459 GGTTCATTAT
13277469 GAAG-AAAAAAGA
1 GAAGAAAAAAAGA
13277481 GAAGAAAAAAAGAA
1 GAAGAAAAAAAG-A
* *
13277495 GAAGAGAGAAAGA
1 GAAGAAAAAAAGA
* * *
13277508 G-ATAAAAGAATA
1 GAAGAAAAAAAGA
13277520 GAAGAAAAA
1 GAAGAAAAA
13277529 GAATTAAACA
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
12 11 0.31
13 14 0.39
14 11 0.31
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (13 bp):
GAAGAAAAAAAGA
Found at i:13284108 original size:26 final size:26
Alignment explanation
Indices: 13284072--13284138 Score: 125
Period size: 26 Copynumber: 2.6 Consensus size: 26
13284062 AATTCTCCAC
*
13284072 AGCTAGTGTGAGCAAGCCTATTTTAA
1 AGCTCGTGTGAGCAAGCCTATTTTAA
13284098 AGCTCGTGTGAGCAAGCCTATTTTAA
1 AGCTCGTGTGAGCAAGCCTATTTTAA
13284124 AGCTCGTGTGAGCAA
1 AGCTCGTGTGAGCAA
13284139 TAATGTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (26 bp):
AGCTCGTGTGAGCAAGCCTATTTTAA
Found at i:13290068 original size:5 final size:5
Alignment explanation
Indices: 13290058--13290082 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13290048 GACTTACTGA
13290058 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
13290083 GAAGAACACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:13294536 original size:20 final size:20
Alignment explanation
Indices: 13294511--13294597 Score: 158
Period size: 20 Copynumber: 4.3 Consensus size: 20
13294501 GTTTTGATAT
13294511 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
13294531 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
13294551 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
13294571 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
13294591 ACATGAT
1 ACATGAT
13294598 GTATTCATAA
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
20 64 0.97
21 2 0.03
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:13294538 original size:11 final size:11
Alignment explanation
Indices: 13294522--13294597 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
13294512 CATGATTGAT
13294522 ATGATATGCAC
1 ATGATATGCAC
*
13294533 ATGATATG--T
1 ATGATATGCAC
13294542 ATGATATGCAC
1 ATGATATGCAC
*
13294553 ATGATATG--T
1 ATGATATGCAC
13294562 ATGATATGCAC
1 ATGATATGCAC
*
13294573 ATGATATG--T
1 ATGATATGCAC
13294582 ATGATATGCAC
1 ATGATATGCAC
13294593 ATGAT
1 ATGAT
13294598 GTATTCATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:13294545 original size:9 final size:9
Alignment explanation
Indices: 13294533--13294589 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
13294523 TGATATGCAC
13294533 ATGATATGT
1 ATGATATGT
*
13294542 ATGATATGCAC
1 ATGATATG--T
13294553 ATGATATGT
1 ATGATATGT
*
13294562 ATGATATGCAC
1 ATGATATG--T
13294573 ATGATATGT
1 ATGATATGT
13294582 ATGATATG
1 ATGATATG
13294590 CACATGATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.60
11 16 0.40
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (9 bp):
ATGATATGT
Found at i:13294927 original size:31 final size:31
Alignment explanation
Indices: 13294889--13294979 Score: 103
Period size: 38 Copynumber: 2.7 Consensus size: 31
13294879 CGTTTACAAT
13294889 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
13294920 AAAGGCTTCGGCCCAGTGTTACGAAATATGAAATATGA
1 AAAGGCTTCGGCCCA--G-T----AATATGAAATATGA
*
13294958 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTAATATG
13294980 CTGAGATGGA
Statistics
Matches: 52, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
30 5 0.10
31 15 0.29
33 1 0.02
34 1 0.02
35 1 0.02
36 1 0.02
38 28 0.54
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:13304021 original size:29 final size:29
Alignment explanation
Indices: 13303988--13304086 Score: 128
Period size: 29 Copynumber: 3.4 Consensus size: 29
13303978 TGAATATGAC
13303988 TGGGCCTAATGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
13304017 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
13304046 TGGGCCTAAAGGGGCCATATGAATATGA-T
1 TGGGCCT-AATGGGCCATATAAATGTGATT
*
13304075 TGGGCATAATGG
1 TGGGCCTAATGG
13304087 TCAAGATACA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
28 4 0.07
29 41 0.68
30 15 0.25
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:13304075 original size:30 final size:28
Alignment explanation
Indices: 13303975--13304086 Score: 118
Period size: 29 Copynumber: 3.9 Consensus size: 28
13303965 GTGAGCATGA
*
13303975 ATATGAATATGACTGGGCCTAATGGGCC
1 ATATGAATATGATTGGGCCTAATGGGCC
* *
13304003 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATATGA-TTGGGCCTAATGGGCC
** *
13304032 ATAT-ACAGGTGATTTGGGCCTAAAGGGGCC
1 ATATGA-ATATGA-TTGGGCCT-AATGGGCC
*
13304062 ATATGAATATGATTGGGCATAATGG
1 ATATGAATATGATTGGGCCTAATGG
13304087 TCAAGATACA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
28 15 0.21
29 40 0.56
30 15 0.21
31 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.28
Consensus pattern (28 bp):
ATATGAATATGATTGGGCCTAATGGGCC
Found at i:13304096 original size:58 final size:58
Alignment explanation
Indices: 13303988--13304099 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
13303978 TGAATATGAC
* * * * *
13303988 TGGGCCTAATGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAAGGGGCCATATAAATATGATTTGGGCATAATGGGCAAGATACAGGTGATT
* *
13304046 TGGGCCTAAAGGGGCCATATGAATATGA-TTGGGCATAATGGTCAAGATACAGGT
1 TGGGCCT-AAGGGGCCATATAAATATGATTTGGGCATAATGGGCAAGATACAGGT
13304100 ATGTGAATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
58 29 0.63
59 17 0.37
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (58 bp):
TGGGCCTAAGGGGCCATATAAATATGATTTGGGCATAATGGGCAAGATACAGGTGATT
Found at i:13311881 original size:22 final size:22
Alignment explanation
Indices: 13311853--13311900 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
13311843 TCAGTGTCAC
*
13311853 GACACCACAAGACCGGTTTCGT
1 GACACCACAAGACAGGTTTCGT
*
13311875 GACACCACAAGAGAGGTTTCGT
1 GACACCACAAGACAGGTTTCGT
13311897 GACA
1 GACA
13311901 TTACCTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.17
Consensus pattern (22 bp):
GACACCACAAGACAGGTTTCGT
Found at i:13312149 original size:18 final size:19
Alignment explanation
Indices: 13312113--13312159 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
13312103 ACTTAAGATA
13312113 ATAAAAAC-TAAAAACAAT
1 ATAAAAACATAAAAACAAT
*
13312131 ATAAAAACATATAAA-AAT
1 ATAAAAACATAAAAACAAT
13312149 ACTCAAAAACA
1 A-T-AAAAACA
13312160 AACTCGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 12 0.48
19 6 0.24
20 7 0.28
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (19 bp):
ATAAAAACATAAAAACAAT
Found at i:13313204 original size:13 final size:13
Alignment explanation
Indices: 13313177--13313215 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
13313167 CAAATTCTAA
*
13313177 AATATATAAATAT
1 AATATATAAAAAT
13313190 AAGTAT-TAAAAAT
1 AA-TATATAAAAAT
13313203 AATATATAAAAAT
1 AATATATAAAAAT
13313216 TTATTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 3 0.13
13 17 0.74
14 3 0.13
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (13 bp):
AATATATAAAAAT
Found at i:13316118 original size:22 final size:24
Alignment explanation
Indices: 13316088--13316137 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
13316078 GAGTTTCGCA
*
13316088 TGATTTATAAAATGTG-AAATAT-
1 TGATATATAAAATGTGTAAATATG
* *
13316110 TGATATATATATTGTGTAAATATG
1 TGATATATAAAATGTGTAAATATG
13316134 TGAT
1 TGAT
13316138 TAGCATGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 13 0.57
23 6 0.26
24 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (24 bp):
TGATATATAAAATGTGTAAATATG
Found at i:13316240 original size:19 final size:20
Alignment explanation
Indices: 13316202--13316241 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13316192 CTCACATGCC
13316202 AAAGTGAAAAATTGATTTTT
1 AAAGTGAAAAATTGATTTTT
13316222 AAAGTG-AAAATGTGATTTTT
1 AAAGTGAAAAAT-TGATTTTT
13316242 GTGGCCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (20 bp):
AAAGTGAAAAATTGATTTTT
Found at i:13316357 original size:47 final size:46
Alignment explanation
Indices: 13316306--13316490 Score: 235
Period size: 47 Copynumber: 3.9 Consensus size: 46
13316296 GTTATTTGCG
* *
13316306 AAAGTGGTGGCTTGTCCATAGTATTATAAAGTGGAAATTTATCTGCA
1 AAAGTGGTGGCTTGTCCATAATATTATAAAGT-GAAATTTATCTACA
*
13316353 AAAGTGGTGGCTTGTCCATAATATAATAAAGTGACAATTTATCTACA
1 AAAGTGGTGGCTTGTCCATAATATTATAAAGTGA-AATTTATCTACA
* * *
13316400 AAAGTGGTAGCTTGTCCATAATGTTATTAAGTGAAAGTTTATCTACA
1 AAAGTGGTGGCTTGTCCATAATATTATAAAGTGAAA-TTTATCTACA
* * * * *
13316447 ATAGTGGTGGTTTTTCCATAATATTATTAAGTGACAGTTTATCT
1 AAAGTGGTGGCTTGTCCATAATATTATAAAGTGA-AATTTATCT
13316491 TTATTACTGT
Statistics
Matches: 122, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
46 4 0.03
47 117 0.96
48 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (46 bp):
AAAGTGGTGGCTTGTCCATAATATTATAAAGTGAAATTTATCTACA
Found at i:13318702 original size:29 final size:28
Alignment explanation
Indices: 13318614--13318725 Score: 143
Period size: 28 Copynumber: 4.0 Consensus size: 28
13318604 ACCTATATCT
*
13318614 GGCCCGTTAAGCCCAATCATATTCATAG
1 GGCCCATTAAGCCCAATCATATTCATAG
13318642 GGCCCATTAAGCCCAATCATATTCATAG
1 GGCCCATTAAGCCCAATCATATTCATAG
* * * *
13318670 GGCCCATTAGGCCCAAATCACATTTATAT
1 GGCCCATTAAGCCC-AATCATATTCATAG
* * *
13318699 GGCCCATTAGGCCCAGTCAAATTCATA
1 GGCCCATTAAGCCCAATCATATTCATA
13318726 TTCATGCTTA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
28 50 0.67
29 25 0.33
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (28 bp):
GGCCCATTAAGCCCAATCATATTCATAG
Found at i:13318704 original size:57 final size:56
Alignment explanation
Indices: 13318614--13318725 Score: 143
Period size: 57 Copynumber: 2.0 Consensus size: 56
13318604 ACCTATATCT
* * *
13318614 GGCCCGTTAAGCCCAATCATATTCATAGGGCCCATTAAGCCCAATCATATTCATAG
1 GGCCCATTAAGCCCAATCACATTCATAGGGCCCATTAAGCCCAATCAAATTCATAG
* * * * *
13318670 GGCCCATTAGGCCCAAATCACATTTATATGGCCCATTAGGCCCAGTCAAATTCATA
1 GGCCCATTAAGCCC-AATCACATTCATAGGGCCCATTAAGCCCAATCAAATTCATA
13318726 TTCATGCTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
56 12 0.26
57 35 0.74
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (56 bp):
GGCCCATTAAGCCCAATCACATTCATAGGGCCCATTAAGCCCAATCAAATTCATAG
Found at i:13318957 original size:16 final size:16
Alignment explanation
Indices: 13318936--13318987 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
13318926 TGTAGCCAAA
13318936 CTTTTGGCTTTTCGGC
1 CTTTTGGCTTTTCGGC
*
13318952 CTTTTGGCTTTTCAGC
1 CTTTTGGCTTTTCGGC
* * *
13318968 ATTTCGGCATTTCGG-
1 CTTTTGGCTTTTCGGC
13318983 CTTTT
1 CTTTT
13318988 ACCGATTCAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 3 0.10
16 26 0.90
ACGTcount: A:0.06, C:0.23, G:0.21, T:0.50
Consensus pattern (16 bp):
CTTTTGGCTTTTCGGC
Found at i:13320894 original size:28 final size:28
Alignment explanation
Indices: 13320854--13320932 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
13320844 GTAATCAAAT
* * *
13320854 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGAACTTAGTGTGCGAAATATTGAGA
*
13320882 ATGGAACTTAGTGTGCGAGATATTGAGA
1 ATGGAACTTAGTGTGCGAAATATTGAGA
** *
13320910 ATGTCACTTAGTGTGCAAAATAT
1 ATGGAACTTAGTGTGCGAAATAT
13320933 CGAATGATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGAACTTAGTGTGCGAAATATTGAGA
Found at i:13323473 original size:31 final size:31
Alignment explanation
Indices: 13323435--13323497 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
13323425 CTTTTCACAC
13323435 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
**
13323466 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
13323497 T
1 T
13323498 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:13323740 original size:23 final size:23
Alignment explanation
Indices: 13323710--13323782 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
13323700 CCTAGCCTCT
13323710 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
13323733 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
13323756 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
13323780 TTT
1 TTT
13323783 TGCACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:13323765 original size:47 final size:48
Alignment explanation
Indices: 13323689--13323782 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 48
13323679 GCTTTATCGT
*
13323689 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTA
*
13323737 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
13323783 TGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
47 31 0.72
48 12 0.28
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:13323784 original size:24 final size:24
Alignment explanation
Indices: 13323689--13323783 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
13323679 GCTTTATCGT
*
13323689 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
13323714 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
13323737 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
13323761 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
13323784 GCACTTCCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
23 23 0.35
24 31 0.47
25 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:13323858 original size:20 final size:20
Alignment explanation
Indices: 13323833--13323919 Score: 120
Period size: 20 Copynumber: 4.3 Consensus size: 20
13323823 TTATGAACAC
* *
13323833 ATCATGTGCAAATCATACAT
1 ATCATGTGCATAGCATACAT
13323853 ATCATGTGCATAGCATACAT
1 ATCATGTGCATAGCATACAT
*
13323873 GTCATGTGCATAGCATACAT
1 ATCATGTGCATAGCATACAT
* *
13323893 GTCATGTGCATATCATACAT
1 ATCATGTGCATAGCATACAT
*
13323913 ACCATGT
1 ATCATGT
13323920 TTACTAAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (20 bp):
ATCATGTGCATAGCATACAT
Found at i:13329432 original size:31 final size:31
Alignment explanation
Indices: 13329394--13329454 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
13329384 TTTCACACTC
*
13329394 CATATTTCATAACATTGGGCCAAAGCCTTTT
1 CATATTTCATAACACTGGGCCAAAGCCTTTT
** *
13329425 CATATTTCATATTACTGGGCCGAAGCCTTT
1 CATATTTCATAACACTGGGCCAAAGCCTTT
13329455 ACTGTAAACG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (31 bp):
CATATTTCATAACACTGGGCCAAAGCCTTTT
Done.