Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 266 of 328
Found at i:79496546 original size:21 final size:22
Alignment explanation
Indices: 79496520--79496565 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
79496510 AATTAGCCAA
* *
79496520 TTTTTT-ATTTTATTTTTATAT
1 TTTTTTAATTTAATTTTTAGAT
79496541 TTTTTTAATTTAATTTTTAGAT
1 TTTTTTAATTTAATTTTTAGAT
79496563 TTT
1 TTT
79496566 AAATTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTTTAATTTAATTTTTAGAT
Found at i:79499540 original size:17 final size:18
Alignment explanation
Indices: 79499504--79499542 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
79499494 TCTCCTCCAC
* *
79499504 TTCTTCTTTTCTGTTTTT
1 TTCTTCTTTTCTCTTCTT
79499522 TTCTTC-TTTCTCTTCTT
1 TTCTTCTTTTCTCTTCTT
79499539 TTCT
1 TTCT
79499543 GTTTTCTGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.74
Consensus pattern (18 bp):
TTCTTCTTTTCTCTTCTT
Found at i:79500966 original size:26 final size:26
Alignment explanation
Indices: 79500913--79500968 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
79500903 ACTGTCATGG
* **
79500913 TTTTAGTTTATGATTACTGGTTTTAT
1 TTTTAGTTTATGATTACTAGTTAAAT
**
79500939 TTTTAGTTTATTTTTACTAGTTAAAT
1 TTTTAGTTTATGATTACTAGTTAAAT
79500965 TTTT
1 TTTT
79500969 GGGTTGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.04, G:0.11, T:0.64
Consensus pattern (26 bp):
TTTTAGTTTATGATTACTAGTTAAAT
Found at i:79503354 original size:5 final size:5
Alignment explanation
Indices: 79503344--79503432 Score: 58
Period size: 5 Copynumber: 17.2 Consensus size: 5
79503334 TTATTATTTA
* *
79503344 TTATT TTATT TTATT TTTTCT TTCTT TTATT TTATTT TTAGTAT TTATT
1 TTATT TTATT TTATT TTAT-T TTATT TTATT TTA-TT TTA-T-T TTATT
* * *
79503393 CTACTT ATTA-T TTATC TTATT TTA-T TT-TG TTATT TTATT T
1 TTA-TT -TTATT TTATT TTATT TTATT TTATT TTATT TTATT T
79503433 AGCTTGATTA
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
4 8 0.12
5 39 0.59
6 13 0.20
7 6 0.09
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:79503358 original size:13 final size:13
Alignment explanation
Indices: 79503340--79503432 Score: 68
Period size: 13 Copynumber: 7.2 Consensus size: 13
79503330 CTATTTATTA
79503340 TTTATTATTTTAT
1 TTTATTATTTTAT
*
79503353 TTTATT-TTTTCT
1 TTTATTATTTTAT
*
79503365 TTCTTTTATTTTATT
1 TT-TATTATTTTA-T
*
79503380 TTTAGTA-TTTAT
1 TTTATTATTTTAT
*
79503392 TCTACTTA--TTAT
1 TTTA-TTATTTTAT
*
79503404 TTATCTTATTTTAT
1 TT-TATTATTTTAT
*
79503418 TTTGTTATTTTAT
1 TTTATTATTTTAT
79503431 TT
1 TT
79503433 AGCTTGATTA
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
12 19 0.30
13 28 0.44
14 13 0.21
15 3 0.05
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:79503394 original size:26 final size:24
Alignment explanation
Indices: 79503333--79503432 Score: 66
Period size: 21 Copynumber: 4.1 Consensus size: 24
79503323 ATTTACCCTA
*
79503333 TTTATTATTTATTATTTTATTTTAT
1 TTTA-TATTTATTCTTTTATTTTAT
*
79503358 TTT-T-TCT-TTCTTTTATTTTATT
1 TTTATATTTATTCTTTTATTTTA-T
*
79503380 TTTAGTATTTATTCTACTTATTATTTAT
1 TTTA-TATTTATTCT-TTTA-T-TTTAT
*
79503408 CTTAT-TTTATT-TTGTTATTTTAT
1 TTTATATTTATTCTT-TTATTTTAT
79503431 TT
1 TT
79503433 AGCTTGATTA
Statistics
Matches: 59, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
21 12 0.20
22 6 0.10
23 7 0.12
24 2 0.03
25 9 0.15
26 10 0.17
27 4 0.07
28 5 0.08
29 4 0.07
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTATATTTATTCTTTTATTTTAT
Found at i:79511572 original size:32 final size:32
Alignment explanation
Indices: 79511534--79511604 Score: 117
Period size: 31 Copynumber: 2.2 Consensus size: 32
79511524 ATTGTAAAAT
* *
79511534 TTAAAAAAATATAGAGACTAAAATTAA-CCAA
1 TTAAAAAAATATAGAAACTAAAATTAATCAAA
79511565 TTAAAAAAATATAGAAACTAAAATTAATCAAA
1 TTAAAAAAATATAGAAACTAAAATTAATCAAA
79511597 TTAAAAAA
1 TTAAAAAA
79511605 TAATTATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
31 26 0.70
32 11 0.30
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (32 bp):
TTAAAAAAATATAGAAACTAAAATTAATCAAA
Found at i:79512617 original size:14 final size:14
Alignment explanation
Indices: 79512598--79512628 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
79512588 AATCGTGTAA
79512598 TAATTTTTAAATTT
1 TAATTTTTAAATTT
*
79512612 TAATTTTTTAATTT
1 TAATTTTTAAATTT
79512626 TAA
1 TAA
79512629 AAATTGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TAATTTTTAAATTT
Found at i:79517594 original size:42 final size:42
Alignment explanation
Indices: 79517535--79517690 Score: 147
Period size: 42 Copynumber: 3.7 Consensus size: 42
79517525 AGCTCATAGA
*
79517535 ATGCCAAC-GTCCCAGACAAGGTCTTA-ATGTAATCAAATATCT
1 ATGCC-ACTGTCCCAGACAAGGTCTTACATGTAATCAAATA-CG
* * *
79517577 ATGCCACTGTCCCAGACAAGGTCTTACACGAAATCATATACG
1 ATGCCACTGTCCCAGACAAGGTCTTACATGTAATCAAATACG
* * *
79517619 ATGTCAATGTCCCAGACATGGTCTTACATGTAAATCTCAAAT-CG
1 ATGCCACTGTCCCAGACAAGGTCTTACATGT-AA--TCAAATACG
* * **
79517663 ATGCCAATGTCCTAGACGTGGTCTTACA
1 ATGCCACTGTCCCAGACAAGGTCTTACA
79517691 CAAAATCACA
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.02
42 50 0.52
43 12 0.12
44 27 0.28
45 5 0.05
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACAAGGTCTTACATGTAATCAAATACG
Found at i:79517687 original size:86 final size:84
Alignment explanation
Indices: 79517543--79517698 Score: 206
Period size: 86 Copynumber: 1.8 Consensus size: 84
79517533 GAATGCCAAC
* * *
79517543 GTCCCAGACAAGGTCTTAATGTAATCAAATATCTATGCCACTGTCCCAGACAAGGTCTTACACGA
1 GTCCCAGACAAGGTCTTAATGTAATCAAATATCGATGCCAATGTCCCAGACAAGGTCTTACACAA
79517608 AATCATATACGATGTCAAT
66 AATCATATACGATGTCAAT
* * * **
79517627 GTCCCAGACATGGTCTTACATGTAAATCTCAA-ATCGATGCCAATGTCCTAGACGTGGTCTTACA
1 GTCCCAGACAAGGTCTTA-ATGT-AATC-AAATATCGATGCCAATGTCCCAGACAAGGTCTTACA
79517691 CAAAATCA
63 CAAAATCA
79517699 CATATCGAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 17 0.28
85 4 0.07
86 38 0.62
87 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (84 bp):
GTCCCAGACAAGGTCTTAATGTAATCAAATATCGATGCCAATGTCCCAGACAAGGTCTTACACAA
AATCATATACGATGTCAAT
Found at i:79528927 original size:44 final size:42
Alignment explanation
Indices: 79528866--79529030 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 42
79528856 TTTCGATATG
* * *
79528866 TGATTTCATGTAAGACCACGTCTGGGACGTTGTCATCG-ATT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
* *
79528907 TGAGATTTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATT
1 T--GATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
* * * *
79528952 TGATTTCGTGTAAGACC-CTGTCTGGGATAGTGGCATTGATAGT
1 TGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATT
* * * *
79528995 TGATTACATGTAAGACCAAGTCTGGGACGTTGGCAT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
79529031 TGTAGAGCCT
Statistics
Matches: 100, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 26 0.26
43 42 0.42
44 27 0.27
45 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
Found at i:79535092 original size:7 final size:7
Alignment explanation
Indices: 79535080--79535107 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
79535070 ATTATGTTAA
79535080 AAAATTT
1 AAAATTT
79535087 AAAATTT
1 AAAATTT
79535094 AAAATTT
1 AAAATTT
79535101 AAAATTT
1 AAAATTT
79535108 CCTTATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAAATTT
Found at i:79535182 original size:24 final size:25
Alignment explanation
Indices: 79535137--79535184 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
79535127 TTTTTTTTAG
*
79535137 AATTTTATAACTTTTTAAAAATATA
1 AATTTTATAAATTTTTAAAAATATA
*
79535162 AATTTTA-AAATTTTTATAAATAT
1 AATTTTATAAATTTTTAAAAATAT
79535185 TTTGAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
AATTTTATAAATTTTTAAAAATATA
Found at i:79535225 original size:19 final size:19
Alignment explanation
Indices: 79535162--79535225 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 19
79535152 TAAAAATATA
79535162 AATTTTAAAATTTTTATAAAT
1 AATTTT-AAATTTTTA-AAAT
*
79535183 -ATTTTGAA-TTTTAAGAAT
1 AATTTTAAATTTTTAA-AAT
*
79535201 -ATTTTTAATTTTTAAAAT
1 AATTTTAAATTTTTAAAAT
79535219 AAATTTT
1 -AATTTT
79535226 TAAAAATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 1 0.03
18 18 0.49
19 8 0.22
20 10 0.27
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
AATTTTAAATTTTTAAAAT
Found at i:79535228 original size:20 final size:18
Alignment explanation
Indices: 79535170--79535219 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
79535160 TAAATTTTAA
*
79535170 AATTTTTATAAATATTTTG
1 AATTTTTA-AAATATTTTT
79535189 AA-TTTTAAGAATATTTTT
1 AATTTTTAA-AATATTTTT
79535207 AATTTTTAAAATA
1 AATTTTTAAAATA
79535220 AATTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 1 0.04
18 19 0.68
19 8 0.29
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
AATTTTTAAAATATTTTT
Found at i:79535820 original size:44 final size:47
Alignment explanation
Indices: 79535734--79535823 Score: 114
Period size: 44 Copynumber: 2.0 Consensus size: 47
79535724 GGACTGTAAT
*
79535734 AAATAAGAATTGTAATTAGTAATTTAATTATTTGATTCAATGGAATG
1 AAATAAGAATTGTAATTAGTAATTTAATTATTTAATTCAATGGAATG
* * * *
79535781 AAAT-AGAATTGTCA-TAGTATTTTTA-TATTTAATTGAATGGAAT
1 AAATAAGAATTGTAATTAGTAATTTAATTATTTAATTCAATGGAAT
79535824 AGGTGTTGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
44 16 0.42
45 9 0.24
46 9 0.24
47 4 0.11
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.42
Consensus pattern (47 bp):
AAATAAGAATTGTAATTAGTAATTTAATTATTTAATTCAATGGAATG
Found at i:79536000 original size:61 final size:60
Alignment explanation
Indices: 79535922--79536096 Score: 182
Period size: 61 Copynumber: 2.9 Consensus size: 60
79535912 ATTGTTATTA
79535922 AATTTTAACA-AGATTATTATTAAATATATTTTAATAAAAATAATAATAAATAATTTAAT-C
1 AATTTTAACATA-ATTATTATTAAATATATTTTAATAAAAATAATAAT-AATAATTTAATAC
* * *
79535982 ATATTTTAACATAATTATTATTAAATACAATTTAAT-GAAATAAT-AT-ATAATTTAATAAC
1 A-ATTTTAACATAATTATTATTAAATATATTTTAATAAAAATAATAATAATAATTTAAT-AC
* * *
79536041 AATTTTAATATAATTATTATTAAA-ATATGAATTAATAAAAAATCATAATATATAAT
1 AATTTTAACATAATTATTATTAAATATAT--TTTAAT-AAAAATAATAATA-ATAAT
79536097 ATTATAAAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
57 12 0.13
58 22 0.23
59 9 0.09
60 8 0.08
61 36 0.38
62 3 0.03
64 5 0.05
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (60 bp):
AATTTTAACATAATTATTATTAAATATATTTTAATAAAAATAATAATAATAATTTAATAC
Found at i:79548745 original size:19 final size:19
Alignment explanation
Indices: 79548713--79548775 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
79548703 CCAAATTACT
**
79548713 TTAAAATATGTAAATATAA
1 TTAAAATAAATAAATATAA
*
79548732 TGT-AAATAAATAAATAAAA
1 T-TAAAATAAATAAATATAA
79548751 TTAAAATAAAT-AATATAA
1 TTAAAATAAATAAATATAA
*
79548769 TAAAAAT
1 TTAAAAT
79548776 GATATTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
18 13 0.35
19 23 0.62
20 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
TTAAAATAAATAAATATAA
Found at i:79549544 original size:22 final size:21
Alignment explanation
Indices: 79549516--79549565 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
79549506 AATTATCAAA
79549516 AAATATTATTT-TACAAGATAAT
1 AAATATTATTTATA-AA-ATAAT
79549538 AAATATT-TTTATAAAATAAT
1 AAATATTATTTATAAAATAAT
79549558 -AATATTAT
1 AAATATTAT
79549566 AAGTAATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 6 0.23
20 6 0.23
21 5 0.19
22 9 0.35
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
AAATATTATTTATAAAATAAT
Found at i:79554510 original size:18 final size:18
Alignment explanation
Indices: 79554487--79554521 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
79554477 ATTTTTAAAT
*
79554487 TATGGGCCCACATGCCCC
1 TATGGGCCCACACGCCCC
79554505 TATGGGCCCACACGCCC
1 TATGGGCCCACACGCCC
79554522 TGACCCACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.14
Consensus pattern (18 bp):
TATGGGCCCACACGCCCC
Found at i:79556305 original size:27 final size:27
Alignment explanation
Indices: 79556253--79556306 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
79556243 AAATTTGTAC
* * *
79556253 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
79556280 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
79556307 GCTTTTGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:79563482 original size:27 final size:27
Alignment explanation
Indices: 79563444--79563539 Score: 165
Period size: 27 Copynumber: 3.6 Consensus size: 27
79563434 AAATTTGTAC
79563444 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
* *
79563471 AGCACTAAGTGTGTGAGCTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
*
79563498 AGCACTAAGTGTACGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
79563525 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
79563540 GACTCACTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATAT
Found at i:79563551 original size:54 final size:54
Alignment explanation
Indices: 79563444--79563551 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
79563434 AAATTTGTAC
* * * *
79563444 AGCACTAAGTGTGCGAGTTGATTATATAGCACTAAGTGTGTGAGCTGATTATAT
1 AGCACTAAGTGTACGAGTTGATTATATAGCACTAAGTGTGGGAGCTCACTATAT
79563498 AGCACTAAGTGTACGAGTTGATTATATAGCACTAAGTGTGCGGA-CTCACTATAT
1 AGCACTAAGTGTACGAGTTGATTATATAGCACTAAGTGTG-GGAGCTCACTATAT
79563552 GCTTTTGCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 47 0.96
55 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTACGAGTTGATTATATAGCACTAAGTGTGGGAGCTCACTATAT
Found at i:79569305 original size:15 final size:15
Alignment explanation
Indices: 79569271--79569305 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
79569261 ATCTCAAAGA
*
79569271 AATCCCAGTTCAGAC
1 AATCCCAGTTCAAAC
*
79569286 GATCCCAGTTCAAAC
1 AATCCCAGTTCAAAC
79569301 AATCC
1 AATCC
79569306 GGCTCCGTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.20
Consensus pattern (15 bp):
AATCCCAGTTCAAAC
Found at i:79571366 original size:21 final size:22
Alignment explanation
Indices: 79571321--79571374 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
79571311 TGTAGGACTC
*
79571321 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
**
79571343 ACACGCCCGTGT-GACCCTGGG
1 ACACGCCCGTGTGGACCAAGGG
*
79571364 ACATGCCCGTG
1 ACACGCCCGTG
79571375 CTACAGGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.17, C:0.35, G:0.33, T:0.15
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCAAGGG
Found at i:79573195 original size:19 final size:20
Alignment explanation
Indices: 79573167--79573206 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
79573157 AGCACATGTA
79573167 TTCATAAAA-TTCAAAATTT
1 TTCATAAAATTTCAAAATTT
* *
79573186 TTCATCAAATTTCACAATTT
1 TTCATAAAATTTCAAAATTT
79573206 T
1 T
79573207 ACATTTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (20 bp):
TTCATAAAATTTCAAAATTT
Found at i:79575824 original size:43 final size:42
Alignment explanation
Indices: 79575757--79575872 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 42
79575747 GGAGATTACT
* * *
79575757 TGTAAAACCATGTCTGGGATATTGGCATTGTAT-TGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATATG-AATT-CG
* *
79575800 TGTTAGACCATGTCT-GGAGCATTGGTATCAT-TATATGAATTCG
1 TGTAAGACCATGTCTGGGA-CATTGGCAT--TGTATATGAATTCG
79575843 TGTAAGACCATGTCTGGGACATTGGCATTG
1 TGTAAGACCATGTCTGGGACATTGGCATTG
79575873 ATTTGAGATA
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
41 1 0.02
42 3 0.05
43 44 0.73
44 9 0.15
45 3 0.05
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATATGAATTCG
Found at i:79579619 original size:389 final size:388
Alignment explanation
Indices: 79578902--79579657 Score: 915
Period size: 389 Copynumber: 1.9 Consensus size: 388
79578892 AAGGGGGAGT
* * * *
79578902 TGTAATAGCTCGTTTTTAGGTTAATCGGAACAGTGGTTTCGGGACCGCAATCTAAAGTCAAAATA
1 TGTAATAGCCCGTTTTTAGGTTAATCAGAACAGTGGTTTCGAGACCACAATCTAAAGTCAAAATA
* * *
79578967 TTTATTTTATTATTTTATTAAGGTTTACAGTATGATAGAATGTTTCGTGTGAAAATTTTGTAAAG
66 TTTATTTTATTATTTTATTAAGGTTTACAGTATGATAGAATGATTCATGTGAAAATTTCGTAAAG
* *
79579032 AAATTTTATCATTTGAATGGTTAATTCGGTAAAAAAGACTAAATCGCGTTAAGCGTAAAAGTTGA
131 AAATTTTACCATTTGAATGGTTAATTCGGTAAAAAAGACTAAATCGCGTAAAGCGTAAAAGTTGA
* * * * * * * *
79579097 ATTCTATAAGTTAAAGGTATTAAATGGCTATGAAATTAAATAATGGGAGTCCTTAAGTGGTAGTT
196 ATTCTATAAGTGAAAGGAATCAAATAGCTAAGAAATGAAATAATGGGAGTACTTAAGTGGTAGAT
* * * * * * * *
79579162 ATCCCATAAATTTTGATAGTGGAATTCTATGCCTTGGTATTGTTGAAATTTATGATGCTATTAAA
261 ATACCAT-AATTTTAATAGTGGAATACTATGACATGGTATAGATGAAATTTATAATGCTATTAAA
* *
79579227 GGTTAGTTTTGTAAATTGGTTAATAAAGATTA-AATAAATAAAATCAAAGTCATTATTTTGTATA
325 GGTTAGTTTAGTAAAATGGTTAATAAAG-TTATAATAAATAAAATCAAAGTCATTATTTTGTATA
* * *
79579291 TGTAATATCCCGTTTTTAGGGTTAATCAGAATAGTGGTTTCGAGACCACAAT-TCGAAGTCAAAA
1 TGTAATAGCCCGTTTTTA-GGTTAATCAGAACAGTGGTTTCGAGACCACAATCT-AAAGTCAAAA
79579355 TATTTATTTTATTATTTTATTAAGGTTTACAGTATGATAGAAT-ATTCATGTGAAAATTTCGTAA
64 TATTTATTTTATTATTTTATTAAGGTTTACAGTATGATAGAATGATTCATGTGAAAATTTCGTAA
* * *
79579419 AGAAATTTTACCGTTTGAGTGGTTAATTCGGTAAAAATGACTAAATCGCAG-AAAGCGTAAAAGT
129 AGAAATTTTACCATTTGAATGGTTAATTCGGTAAAAAAGACTAAATCGC-GTAAAGCGTAAAAGT
* * * *
79579483 TGAATTCTATAAGTGAAATGAATCAATTAGCTAAAGAAATGAAATGAT-GG-GTACTTGCA-TGG
193 TGAATTCTATAAGTGAAAGGAATCAAATAGCT-AAGAAATGAAATAATGGGAGTACTT-AAGTGG
* * *
79579545 TAGATATACCAT-TTTTATAATGAGTGG-ATAACTTTGGACAT-GTATAAGATG-GATCTT-TAA
256 TAGATATACCATAATTT-TAAT-AGTGGAAT-ACTAT-GACATGGTAT-AGATGAAAT-TTATAA
* * *
79579605 TGTTAGTTAAAGGTTAGTTTAGTAAAATGGTTATTAAAGTTATAATAGATAAA
315 TGCTA-TTAAAGGTTAGTTTAGTAAAATGGTTAATAAAGTTATAATAAATAAA
79579658 TAAAATAAAA
Statistics
Matches: 311, Mismatches: 43, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
386 3 0.01
387 5 0.02
388 41 0.13
389 168 0.54
390 94 0.30
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (388 bp):
TGTAATAGCCCGTTTTTAGGTTAATCAGAACAGTGGTTTCGAGACCACAATCTAAAGTCAAAATA
TTTATTTTATTATTTTATTAAGGTTTACAGTATGATAGAATGATTCATGTGAAAATTTCGTAAAG
AAATTTTACCATTTGAATGGTTAATTCGGTAAAAAAGACTAAATCGCGTAAAGCGTAAAAGTTGA
ATTCTATAAGTGAAAGGAATCAAATAGCTAAGAAATGAAATAATGGGAGTACTTAAGTGGTAGAT
ATACCATAATTTTAATAGTGGAATACTATGACATGGTATAGATGAAATTTATAATGCTATTAAAG
GTTAGTTTAGTAAAATGGTTAATAAAGTTATAATAAATAAAATCAAAGTCATTATTTTGTATA
Found at i:79580630 original size:43 final size:44
Alignment explanation
Indices: 79580546--79580662 Score: 107
Period size: 43 Copynumber: 2.7 Consensus size: 44
79580536 GATGTCATTA
* * * * * *
79580546 CATGTAAGACCATGTCTAGAACATTGGCATTG-TATTATGATTAT
1 CATGTAAGACCCTGTCTGGGACAGTGACATCGTTATTATGATT-T
* * *
79580590 -GTGTAAGACCAC-GTTTGGGACATTGACATCGTTATT-TGATTT
1 CATGTAAGACC-CTGTCTGGGACAGTGACATCGTTATTATGATTT
79580632 CATGTAAGACCCTGTCTGGGACAGTGACATC
1 CATGTAAGACCCTGTCTGGGACAGTGACATC
79580663 AATATGTGAT
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
42 2 0.03
43 53 0.90
44 4 0.07
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (44 bp):
CATGTAAGACCCTGTCTGGGACAGTGACATCGTTATTATGATTT
Found at i:79580679 original size:43 final size:43
Alignment explanation
Indices: 79580591--79580695 Score: 113
Period size: 43 Copynumber: 2.4 Consensus size: 43
79580581 TATGATTATG
* * ** * **
79580591 TGTAAGACCAC-GTTTGGGACATTGACATCGTTATTTGATTTCA
1 TGTAAGACC-CTGTCTGGGACAGTGACATCAATATGTGATAACA
79580634 TGTAAGACCCTGTCTGGGACAGTGACATCAATATGTGATAACA
1 TGTAAGACCCTGTCTGGGACAGTGACATCAATATGTGATAACA
* *
79580677 TGTAAGACCATATCTGGGA
1 TGTAAGACCCTGTCTGGGA
79580696 TATGGCATTG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.02
43 51 0.98
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (43 bp):
TGTAAGACCCTGTCTGGGACAGTGACATCAATATGTGATAACA
Found at i:79581853 original size:21 final size:21
Alignment explanation
Indices: 79581823--79581862 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
79581813 ATGGTTTAAG
79581823 ATGAAATGGCATGATTTGTAT
1 ATGAAATGGCATGATTTGTAT
* *
79581844 ATGAATTGGCATGTTTTGT
1 ATGAAATGGCATGATTTGT
79581863 TTGCCTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.25, T:0.42
Consensus pattern (21 bp):
ATGAAATGGCATGATTTGTAT
Found at i:79583334 original size:43 final size:45
Alignment explanation
Indices: 79583286--79583451 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 45
79583276 GCCGGGACAA
* *
79583286 GATTACAG-GTAAAACCATGTCTGGGATATTGGCATTGTAT-TGT
1 GATTACAGTGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
* * *
79583329 GATTAC-GTGTAAGACCATGTCTGGGACATTGGTATCGT-TATAT
1 GATTACAGTGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
** * *
79583372 GATT-TTGTGTATGACCATGTCTGGGACATTGGCATTG-ATATGA
1 GATTACAGTGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
* * * *
79583415 GATAACA-TGTAAGACCATATCTAGGATA-TGGCATTGT
1 GATTACAGTGTAAGACCATGTCTGGGACATTGGCATTGT
79583452 TTGAGCTTTA
Statistics
Matches: 99, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
42 10 0.10
43 89 0.90
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (45 bp):
GATTACAGTGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
Found at i:79589956 original size:42 final size:42
Alignment explanation
Indices: 79589878--79589958 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
79589868 GTACAAGTTT
* **
79589878 CACACAGCCAAGACACACGCCCGTGTTCTAGGCCGTGTAGTA
1 CACACAACCAAGACACACGCCCGTGTTCTACCCCGTGTAGTA
* *
79589920 CACACAACTAAGACACACGCCCGTG-TCTTTCCCCGTGTA
1 CACACAACCAAGACACACGCCCGTGTTC-TACCCCGTGTA
79589959 CTCAATTCTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 31 0.94
ACGTcount: A:0.26, C:0.36, G:0.20, T:0.19
Consensus pattern (42 bp):
CACACAACCAAGACACACGCCCGTGTTCTACCCCGTGTAGTA
Found at i:79590798 original size:46 final size:46
Alignment explanation
Indices: 79590733--79591006 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
79590723 TTATCTTTGA
* * * * *
79590733 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
*
79590779 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
79590825 CATGTTGCCATGGTATCTTTCAACCATGGCCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
79590871 CATGTTGCCATGGTATCTGTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
79590917 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* **
79590963 CATGTTGCCATGGTATCTTTCAACCATGGTTTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
79591007 TTCAGAAAAC
Statistics
Matches: 208, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 204 0.98
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:79594847 original size:40 final size:39
Alignment explanation
Indices: 79594736--79594885 Score: 140
Period size: 40 Copynumber: 3.8 Consensus size: 39
79594726 TTAATCACGT
* * *
79594736 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
79594776 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
79594816 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
79594856 GCATATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATGCCTTCGGGTCTTAGCCCGGATAT
79594886 CATTCAATTT
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
38 13 0.14
39 11 0.12
40 67 0.74
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:79602717 original size:40 final size:40
Alignment explanation
Indices: 79602672--79602838 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
79602662 CGGAATATAA
79602672 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
79602712 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
79602752 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
79602792 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
79602831 CCGGATAT
1 CCGGATAT
79602839 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:79602822 original size:80 final size:79
Alignment explanation
Indices: 79602688--79602838 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
79602678 ATAATCACGT
*
79602688 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
79602753 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
79602768 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
79602831 CCGGATAT
64 CCGGATAT
79602839 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:79609407 original size:40 final size:40
Alignment explanation
Indices: 79609348--79609555 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
79609338 CAATTGAATG
* * * *
79609348 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
79609388 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
79609428 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
79609468 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
79609508 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
79609548 ATATCCGG
1 ATATCCGG
79609556 TTGTTTTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:79609486 original size:80 final size:80
Alignment explanation
Indices: 79609349--79609555 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
79609339 AATTGAATGA
* * ** * * *
79609349 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
79609414 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
79609427 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
79609492 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
79609509 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
79609556 TTGTTTTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:79613195 original size:41 final size:41
Alignment explanation
Indices: 79613138--79613229 Score: 166
Period size: 41 Copynumber: 2.2 Consensus size: 41
79613128 TTTTTTTTAG
79613138 AAAACGCTTCCAACTGGAAGCCTTTTCAAGTGATATGCAGA
1 AAAACGCTTCCAACTGGAAGCCTTTTCAAGTGATATGCAGA
* *
79613179 AAAACGCTTCCGACTGGAAGCCTTTTCCAGTGATATGCAGA
1 AAAACGCTTCCAACTGGAAGCCTTTTCAAGTGATATGCAGA
79613220 AAAACGCTTC
1 AAAACGCTTC
79613230 TAGCAGAAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (41 bp):
AAAACGCTTCCAACTGGAAGCCTTTTCAAGTGATATGCAGA
Found at i:79613506 original size:23 final size:23
Alignment explanation
Indices: 79613462--79613506 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
79613452 TTAAGTTCAC
* *
79613462 TATTTTTTTTTCTCTCTCAATTT
1 TATTTTTTTTTCTATCTAAATTT
79613485 TATTTATTTTTT-TATCTAAATT
1 TATTT-TTTTTTCTATCTAAATT
79613507 ATCTTAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTTTTTTTTCTATCTAAATTT
Found at i:79614864 original size:46 final size:45
Alignment explanation
Indices: 79614743--79615048 Score: 368
Period size: 45 Copynumber: 6.8 Consensus size: 45
79614733 TTGGCTTGAA
* *
79614743 AAATGAATAAAACCATAGTTGAAAGACACTATGGCACTATATCAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCAG
**
79614788 AAATGAATAAGACCATAGTTGAAAGACACTATTACACTATACCAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCAG
* * * *
79614833 AAAACGAAAAAGACCATAGTTGAAA-AGCACTATGGCATTATACTAG
1 -AAATGAATAAGACCATAGTTGAAAGA-CACTATGGCACTATACCAG
*
79614879 AAATGAATAAGACTATAGTTGAAAGACACTATGGCACTATACC-G
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCAG
* * * *
79614923 TAAAATAAATAAGACAAGAGTTGAAAGACACTATGGCACTATGCCAG
1 --AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCAG
** *
79614970 AAATGAATAAGACCATAGTTGAAAGACACTATGGCA-TCATGTCGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACT-ATACCAG
* *
79615015 AAATAAATAAGACCAT-GTTTGAAAGACGCTATGG
1 AAATGAATAAGACCATAG-TTGAAAGACACTATGG
79615049 AATCCTTGAA
Statistics
Matches: 227, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
44 3 0.01
45 146 0.64
46 77 0.34
47 1 0.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (45 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCAG
Found at i:79615003 original size:91 final size:91
Alignment explanation
Indices: 79614759--79615005 Score: 356
Period size: 91 Copynumber: 2.7 Consensus size: 91
79614749 ATAAAACCAT
* **
79614759 AGTTGAAAGACACTATGGCACTATATCAGAAATGAATAAGACCATAGTTGAAAGACACTATTACA
1 AGTTGAAAGACACTATGGCACTATACCAGAAATGAATAAGACCATAGTTGAAAGACACTATGGCA
* *
79614824 CTATACCAGAAAACGAAAAAGACCAT
66 CTATACCAGAAAACGAAAAAGACAAG
* * *
79614850 AGTTGAAA-AGCACTATGGCATTATACTAGAAATGAATAAGACTATAGTTGAAAGACACTATGGC
1 AGTTGAAAGA-CACTATGGCACTATACCAGAAATGAATAAGACCATAGTTGAAAGACACTATGGC
*
79614914 ACTATACC-GTAAAA-TAAATAAGACAAG
65 ACTATACCAG-AAAACGAAA-AAGACAAG
*
79614941 AGTTGAAAGACACTATGGCACTATGCCAGAAATGAATAAGACCATAGTTGAAAGACACTATGGCA
1 AGTTGAAAGACACTATGGCACTATACCAGAAATGAATAAGACCATAGTTGAAAGACACTATGGCA
79615006 TCATGTCGGA
Statistics
Matches: 139, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
90 5 0.04
91 133 0.96
92 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (91 bp):
AGTTGAAAGACACTATGGCACTATACCAGAAATGAATAAGACCATAGTTGAAAGACACTATGGCA
CTATACCAGAAAACGAAAAAGACAAG
Found at i:79615018 original size:136 final size:136
Alignment explanation
Indices: 79614743--79615048 Score: 388
Period size: 136 Copynumber: 2.2 Consensus size: 136
79614733 TTGGCTTGAA
* * * * *
79614743 AAATGAATAAAACCATAGTTGAAAGACACTATGGCACTATATCAGAAATGAATAAGACCATAGTT
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCAGAAATAAATAAGACAAGAGTT
* *
79614808 GAAAGACACTATTACACTATACCAGAAAACGAAAAAGACCATAGTTGAAAAGCACTATGGCATTA
66 GAAAGACACTATGACACTATACCAGAAAACGAAAAAGACCATAGTTGAAAAGCACTATGGCATCA
79614873 TACTAG
131 TACTAG
*
79614879 AAATGAATAAGACTATAGTTGAAAGACACTATGGCACTATACC-GTAAAATAAATAAGACAAGAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCAG--AAATAAATAAGACAAGAG
* * * *
79614943 TTGAAAGACACTATGGCACTATGCCAG-AAATGAATAAGACCATAGTTG-AAAGACACTATGGCA
64 TTGAAAGACACTATGACACTATACCAGAAAACGAAAAAGACCATAGTTGAAAAG-CACTATGGCA
* *
79615006 TCAT-GTCGG
128 TCATACT-AG
* *
79615015 AAATAAATAAGACCAT-GTTTGAAAGACGCTATGG
1 AAATGAATAAGACCATAG-TTGAAAGACACTATGG
79615049 AATCCTTGAA
Statistics
Matches: 148, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
135 7 0.05
136 102 0.69
137 39 0.26
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (136 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCAGAAATAAATAAGACAAGAGTT
GAAAGACACTATGACACTATACCAGAAAACGAAAAAGACCATAGTTGAAAAGCACTATGGCATCA
TACTAG
Found at i:79615271 original size:26 final size:26
Alignment explanation
Indices: 79615224--79615290 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
79615214 TAAATGTGTG
* *
79615224 AAATGAAATGATTATACGAAAT-AGTT
1 AAATGAAATGGTTATACAAAATGA-TT
** *
79615250 GTATGAAATGGTTGTACAAAATGATT
1 AAATGAAATGGTTATACAAAATGATT
79615276 AAATGAAATGGTTAT
1 AAATGAAATGGTTAT
79615291 GTGAATTGAT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
26 31 0.97
27 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.33
Consensus pattern (26 bp):
AAATGAAATGGTTATACAAAATGATT
Found at i:79616126 original size:24 final size:24
Alignment explanation
Indices: 79616099--79616147 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
79616089 CAAATGTAAA
*
79616099 TAACCATGCTGCGCATGTTTAACT
1 TAACCATGCTGCACATGTTTAACT
*
79616123 TAACCATGTTGCACATGTTTAACT
1 TAACCATGCTGCACATGTTTAACT
79616147 T
1 T
79616148 TATAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (24 bp):
TAACCATGCTGCACATGTTTAACT
Found at i:79620502 original size:43 final size:43
Alignment explanation
Indices: 79620454--79620618 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
79620444 CAAAGCCATA
* ** * *
79620454 TCCCAGATATGGTCTTACATGTTATCACATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACATAATCACATATCGATGCCAATG
* * * * *
79620497 TCCCAGACAGGGTCTTACACAAAATTGA-TTAACGATGCCAATG
1 TCCCAGACATGGTCTTACACATAA-TCACATATCGATGCCAATG
* *
79620540 TCCCAGACATGGTCTTACACATAATCTCA-ATACAATGCCAATG
1 TCCCAGACATGGTCTTACACATAATCACATAT-CGATGCCAATG
* ** *
79620583 TCCCAAACATGGTCTTACATGTAATCACATCTCGAT
1 TCCCAGACATGGTCTTACACATAATCACATATCGAT
79620619 AACCTAATTT
Statistics
Matches: 95, Mismatches: 23, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
42 2 0.02
43 90 0.95
44 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACATAATCACATATCGATGCCAATG
Found at i:79624658 original size:7 final size:7
Alignment explanation
Indices: 79624646--79624670 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
79624636 ATTTCCCTTA
79624646 TCAGATC
1 TCAGATC
79624653 TCAGATC
1 TCAGATC
79624660 TCAGATC
1 TCAGATC
79624667 TCAG
1 TCAG
79624671 TAACCTTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (7 bp):
TCAGATC
Found at i:79628883 original size:18 final size:18
Alignment explanation
Indices: 79628862--79628910 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
79628852 TGCACATTAA
*
79628862 AAAATATAAAATAT-TTAT
1 AAAATATAAAA-ATCATAT
*
79628880 AAAATCTAAAAATCATAT
1 AAAATATAAAAATCATAT
*
79628898 AAATTATAAAAAT
1 AAAATATAAAAAT
79628911 ACAATAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATATAAAAATCATAT
Found at i:79629075 original size:20 final size:19
Alignment explanation
Indices: 79629032--79629068 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
79629022 TAGTATAAAA
79629032 ATTTTAATATTATGTTTAC
1 ATTTTAATATTATGTTTAC
79629051 ATTTTCAATATTAT-TTTA
1 ATTTT-AATATTATGTTTA
79629069 TTATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTTTAATATTATGTTTAC
Found at i:79629134 original size:19 final size:20
Alignment explanation
Indices: 79629100--79629137 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
79629090 TTTTAAAAAA
*
79629100 TTATAGTTTTTTATAATTTT
1 TTATAGTTTTTAATAATTTT
79629120 TTATA-TTTTTAATAATTT
1 TTATAGTTTTTAATAATTT
79629138 AATTTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TTATAGTTTTTAATAATTTT
Found at i:79629137 original size:10 final size:10
Alignment explanation
Indices: 79629100--79629137 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
79629090 TTTTAAAAAA
*
79629100 TTATAGTTTT
1 TTATAATTTT
79629110 TTATAATTTT
1 TTATAATTTT
79629120 TTAT-ATTTT
1 TTATAATTTT
*
79629129 TAATAATTT
1 TTATAATTT
79629138 AATTTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (10 bp):
TTATAATTTT
Found at i:79629239 original size:24 final size:23
Alignment explanation
Indices: 79629195--79629239 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
79629185 CTTTTCCATT
*
79629195 ATTTTATTTTTTAGTTTTTTACA
1 ATTTTATTTTTTAGTATTTTACA
79629218 ATTTATATTTTTCTAG-ATTTTA
1 ATTT-TATTTTT-TAGTATTTTA
79629240 TATATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 12 0.63
25 3 0.16
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (23 bp):
ATTTTATTTTTTAGTATTTTACA
Found at i:79631442 original size:3 final size:3
Alignment explanation
Indices: 79631406--79631450 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
79631396 TAGAGAGGGG
* * * *
79631406 TTA TTG TTA TTA TTG TTA TTG TTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
79631451 AAGTTTTCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:79638619 original size:23 final size:24
Alignment explanation
Indices: 79638582--79638628 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
79638572 GGTTGATAAT
*
79638582 TAAATTTAATTAAAAAATAAAAAC
1 TAAATTTAATAAAAAAATAAAAAC
*
79638606 TAAA-TTAATAAAAAAATATAAAC
1 TAAATTTAATAAAAAAATAAAAAC
79638629 GTTAAAGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (24 bp):
TAAATTTAATAAAAAAATAAAAAC
Found at i:79647686 original size:27 final size:28
Alignment explanation
Indices: 79647610--79647686 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
79647600 AAATTGCTGT
* *
79647610 TTAATTAGTAAAAATATTTTTAATTAAAT
1 TTAATTA-TAAAAATATTTTTAATAAAAA
*
79647639 TTAATTATAAAAATA-TATTAATAAAAA
1 TTAATTATAAAAATATTTTTAATAAAAA
*
79647666 TTAA-TATTAAAATATTTTTAA
1 TTAATTATAAAAATATTTTTAA
79647687 CAATAATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.21
27 18 0.43
28 8 0.19
29 7 0.17
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (28 bp):
TTAATTATAAAAATATTTTTAATAAAAA
Found at i:79648257 original size:22 final size:22
Alignment explanation
Indices: 79648213--79648259 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
79648203 AATAACAACA
* * *
79648213 AAATAGTAGCAATATAATGATG
1 AAATAGTAGCAAAACAATAATG
*
79648235 AAATAGTAGCAAAACAGTAATG
1 AAATAGTAGCAAAACAATAATG
79648257 AAA
1 AAA
79648260 AATTTATTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.55, C:0.06, G:0.17, T:0.21
Consensus pattern (22 bp):
AAATAGTAGCAAAACAATAATG
Found at i:79652413 original size:59 final size:62
Alignment explanation
Indices: 79652297--79652414 Score: 154
Period size: 62 Copynumber: 2.0 Consensus size: 62
79652287 AAGTGATATC
* * * **
79652297 TTAATATTAAATTTAATTTAAAGTTTATCTTGTAGATAAATATTCTATTATTTTAATAAGAA
1 TTAATATTAAATCTAATCTAAAGTTTATCTTGTAGATAAATATTATATTAACTTAATAAGAA
79652359 TTAATATTAAATCTAATCTAATA-TTTATC-T-T-GATAAATATTATATTAACTTAATAA
1 TTAATATTAAATCTAATCTAA-AGTTTATCTTGTAGATAAATATTATATTAACTTAATAA
79652415 AAAAAATGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
59 22 0.44
60 1 0.02
61 1 0.02
62 25 0.50
63 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.47
Consensus pattern (62 bp):
TTAATATTAAATCTAATCTAAAGTTTATCTTGTAGATAAATATTATATTAACTTAATAAGAA
Found at i:79655853 original size:24 final size:24
Alignment explanation
Indices: 79655826--79655873 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
79655816 GTTAATATGA
* *
79655826 ATTATGGTGTTTAGATTAAGACAT
1 ATTATGGTATTTACATTAAGACAT
79655850 ATTATGGTATTTACATTAAGACAT
1 ATTATGGTATTTACATTAAGACAT
79655874 GTGCACTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (24 bp):
ATTATGGTATTTACATTAAGACAT
Found at i:79659879 original size:20 final size:20
Alignment explanation
Indices: 79659854--79659894 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
79659844 AGTCACTATC
79659854 TTGTTTCTGGCCATTTCTCT
1 TTGTTTCTGGCCATTTCTCT
79659874 TTGTTTCTGGCCATTTCTCT
1 TTGTTTCTGGCCATTTCTCT
79659894 T
1 T
79659895 ACTCTGGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.05, C:0.24, G:0.15, T:0.56
Consensus pattern (20 bp):
TTGTTTCTGGCCATTTCTCT
Found at i:79661924 original size:12 final size:12
Alignment explanation
Indices: 79661901--79661932 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
79661891 GTTGATAAAG
79661901 AAAATAAAATAAT
1 AAAAT-AAATAAT
79661914 AAAATAAATAAT
1 AAAATAAATAAT
79661926 AAAATAA
1 AAAATAA
79661933 TAACAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:79666347 original size:58 final size:58
Alignment explanation
Indices: 79666195--79666354 Score: 167
Period size: 58 Copynumber: 2.8 Consensus size: 58
79666185 AATTTAAGCC
* *** * * ** * *
79666195 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * * *
79666253 TGCACACATAGTGTCGTATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
79666311 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
79666355 AATCTCGTCA
Statistics
Matches: 81, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
58 81 1.00
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:79666355 original size:29 final size:29
Alignment explanation
Indices: 79666224--79666355 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
79666214 CCTTCGAGCT
** * * *
79666224 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * * *
79666253 TGCACACATAGTGTCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
79666282 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
79666311 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
79666340 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
79666356 ATCTCGTCAC
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 92 1.00
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:79674166 original size:58 final size:58
Alignment explanation
Indices: 79674014--79674173 Score: 167
Period size: 58 Copynumber: 2.8 Consensus size: 58
79674004 AATTTAAGCC
* *** * * ** * *
79674014 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * * *
79674072 TGCACACATAGTGTCGTATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
79674130 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
79674174 AATCTCGTCA
Statistics
Matches: 81, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
58 81 1.00
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:79674174 original size:29 final size:29
Alignment explanation
Indices: 79674043--79674174 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
79674033 CCTTCGAGCT
** * * *
79674043 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * * *
79674072 TGCACACATAGTGTCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
79674101 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
79674130 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
79674159 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
79674175 ATCTCGTCAC
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 92 1.00
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:79677820 original size:23 final size:23
Alignment explanation
Indices: 79677793--79677919 Score: 107
Period size: 25 Copynumber: 5.3 Consensus size: 23
79677783 ATAGCTTATA
*
79677793 AGAGCTTAATGTTTCAGCTCATT
1 AGAGCTTAATGTTTCAGCTCAAT
* * *
79677816 GGAGCTTACTGATTCAGCTCGAA-
1 AGAGCTTAATGTTTCAGCTC-AAT
*
79677839 AGAGCTTACTG-TTCAGCTCAAT
1 AGAGCTTAATGTTTCAGCTCAAT
*
79677861 AGAGCTTATCATTTTTCAGCTCAAT
1 AGAGCTTA--ATGTTTCAGCTCAAT
*
79677886 AGAGCTTACTAT-TTATCAGCTCAGT
1 AGAGCTTA--ATGTT-TCAGCTCAAT
79677911 AAGAGCTTA
1 -AGAGCTTA
79677920 CCGACATGTC
Statistics
Matches: 87, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
21 2 0.02
22 16 0.18
23 27 0.31
24 4 0.05
25 30 0.34
26 8 0.09
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (23 bp):
AGAGCTTAATGTTTCAGCTCAAT
Found at i:79677856 original size:22 final size:22
Alignment explanation
Indices: 79677793--79677895 Score: 109
Period size: 23 Copynumber: 4.5 Consensus size: 22
79677783 ATAGCTTATA
* *
79677793 AGAGCTTAATGTTTCAGCTCATT
1 AGAGCTTACTG-TTCAGCTCAAT
*
79677816 GGAGCTTACTGATTCAGCTCGAA-
1 AGAGCTTACTG-TTCAGCTC-AAT
79677839 AGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
*
79677861 AGAGCTTATCATTTTTCAGCTCAAT
1 AGAGCTTA-C--TGTTCAGCTCAAT
79677886 AGAGCTTACT
1 AGAGCTTACT
79677896 ATTTATCAGC
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
21 2 0.03
22 17 0.25
23 28 0.41
24 2 0.03
25 20 0.29
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:79677858 original size:45 final size:47
Alignment explanation
Indices: 79677792--79677919 Score: 127
Period size: 47 Copynumber: 2.7 Consensus size: 47
79677782 CATAGCTTAT
* * *
79677792 AAGAGCTTAATGTTTCAGCTCATTGGAGCTTA-C-TGATTCAGCTCGA
1 AAGAGCTTACTGTTTCAGCTCAATAGAGCTTATCATGATTCAGCTC-A
**
79677838 AAGAGCTTACTG-TTCAGCTCAATAGAGCTTATCATTTTTCAGCTCA
1 AAGAGCTTACTGTTTCAGCTCAATAGAGCTTATCATGATTCAGCTCA
* *
79677884 ATAGAGCTTACTATTTATCAGCTCAGTAAGAGCTTA
1 A-AGAGCTTACT-GTT-TCAGCTCAAT-AGAGCTTA
79677920 CCGACATGTC
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
45 17 0.25
46 14 0.21
47 19 0.28
49 1 0.01
50 9 0.13
51 8 0.12
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (47 bp):
AAGAGCTTACTGTTTCAGCTCAATAGAGCTTATCATGATTCAGCTCA
Found at i:79681035 original size:25 final size:25
Alignment explanation
Indices: 79681007--79681057 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
79680997 GAATTTGATA
79681007 TGATTCTGGGTATGGATTGGCTGAC
1 TGATTCTGGGTATGGATTGGCTGAC
79681032 TGATTCTGGGTATGGATTGGCTGAC
1 TGATTCTGGGTATGGATTGGCTGAC
79681057 T
1 T
79681058 ATGCACGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.12, G:0.35, T:0.37
Consensus pattern (25 bp):
TGATTCTGGGTATGGATTGGCTGAC
Found at i:79685391 original size:23 final size:23
Alignment explanation
Indices: 79685356--79685490 Score: 134
Period size: 23 Copynumber: 5.7 Consensus size: 23
79685346 AACTCACCAT
79685356 AGCTC-ATAAGAGCTTACTGTTTC
1 AGCTCAAT-AGAGCTTACTGTTTC
* * * *
79685379 AGCTCATTGGAGCTTACCGATTC
1 AGCTCAATAGAGCTTACTGTTTC
79685402 AGCTCGAA-AGAGCTTACTG-TTC
1 AGCTC-AATAGAGCTTACTGTTTC
79685424 AGCTCAATAGAGCTTATCAT-TTTC
1 AGCTCAATAGAGCTTA-C-TGTTTC
79685448 AGCTCAATAGAGCTTACTGTTTATC
1 AGCTCAATAGAGCTTACTG-TT-TC
*
79685473 AGCTCAGTAAGAGCTTAC
1 AGCTCAAT-AGAGCTTAC
79685491 CGACCATGTC
Statistics
Matches: 94, Mismatches: 8, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
21 2 0.02
22 17 0.18
23 33 0.35
24 24 0.26
25 9 0.10
26 9 0.10
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACTGTTTC
Found at i:79687887 original size:21 final size:21
Alignment explanation
Indices: 79687861--79687901 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
79687851 TCTAGAAGCA
79687861 ATTTGCATGAAATTGCTTTAG
1 ATTTGCATGAAATTGCTTTAG
79687882 ATTTGCATGAAATTGCTTTA
1 ATTTGCATGAAATTGCTTTA
79687902 TATTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (21 bp):
ATTTGCATGAAATTGCTTTAG
Found at i:79697544 original size:23 final size:25
Alignment explanation
Indices: 79697500--79697546 Score: 71
Period size: 23 Copynumber: 1.9 Consensus size: 25
79697490 ACATATTTTC
79697500 TCAAAATTTTACTAGGGGTAAAATTG
1 TCAAAATTTTA-TAGGGGTAAAATTG
79697526 TCAAAATTTT-T-GGGGTAAAAT
1 TCAAAATTTTATAGGGGTAAAAT
79697547 AAGGATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
24 1 0.05
26 10 0.48
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.36
Consensus pattern (25 bp):
TCAAAATTTTATAGGGGTAAAATTG
Found at i:79704294 original size:49 final size:51
Alignment explanation
Indices: 79704172--79704304 Score: 162
Period size: 49 Copynumber: 2.6 Consensus size: 51
79704162 AACCATCTGA
* * * *
79704172 TACACATAGTAGCCTGCATTTAGTACTACACACGTGATCGAAGTTATCGGG
1 TACACATAGTAGCCTGCACTTAGTACTACACACGCGATCGAAGTAATCCGG
* * * *
79704223 TACGCATAGTAGCCTGCGCTTAGTACTACACATGCGA-CTAA-TAATCCGG
1 TACACATAGTAGCCTGCACTTAGTACTACACACGCGATCGAAGTAATCCGG
**
79704272 TACATGTAGTAGCCTGCACTTAGTACTACACAC
1 TACACATAGTAGCCTGCACTTAGTACTACACAC
79704305 ATGACCTCAC
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
49 34 0.49
50 3 0.04
51 32 0.46
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (51 bp):
TACACATAGTAGCCTGCACTTAGTACTACACACGCGATCGAAGTAATCCGG
Found at i:79716601 original size:40 final size:40
Alignment explanation
Indices: 79716556--79716707 Score: 152
Period size: 40 Copynumber: 3.9 Consensus size: 40
79716546 CGGATACGAT
*
79716556 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* * *
79716596 TTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCTAC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* * *
79716636 TAGCACAATTGCCTTCGGG-CTTA-ACCGGATAT-A-AA-
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* * *
79716671 TTTCAGCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 TTGCA-CA-AA-TGCCTTCGGGTCTTAGCCCGGATAT
79716708 CATTCATTTC
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
35 3 0.03
36 3 0.03
37 1 0.01
38 17 0.18
39 8 0.09
40 60 0.65
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (40 bp):
TTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
Found at i:79724549 original size:40 final size:40
Alignment explanation
Indices: 79724490--79724658 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
79724480 CGGGACTTTA
* * *
79724490 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
79724530 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
79724570 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
79724610 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
79724650 CCCGGATAT
1 CCCGGATAT
79724659 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:79730709 original size:2 final size:2
Alignment explanation
Indices: 79730696--79730739 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
79730686 ACTTTACTAC
*
79730696 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79730738 AT
1 AT
79730740 TAACTCTCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:79735748 original size:22 final size:20
Alignment explanation
Indices: 79735708--79735748 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
79735698 CATGTCTCAA
*
79735708 TTTTTGAAAGTGTTGATGAT
1 TTTTTGAAAGTATTGATGAT
79735728 TTTTTGAAATGTCATTGATGA
1 TTTTTGAAA-GT-ATTGATGA
79735749 GTGCTTGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (20 bp):
TTTTTGAAAGTATTGATGAT
Found at i:79736428 original size:43 final size:43
Alignment explanation
Indices: 79736380--79736516 Score: 125
Period size: 43 Copynumber: 3.2 Consensus size: 43
79736370 CGTGATTACA
* **
79736380 TGTAAGACCATGTCTGAGACATTGGAATT-ATATTATGAATAA-G
1 TGTAAGACCATGTCTGGGACAGAGGAATTGATA-TATG-ATAACG
* * *
79736423 TGTAAGACCCTGTCTGGGACAGAGGCATTGATATGTGATAACG
1 TGTAAGACCATGTCTGGGACAGAGGAATTGATATATGATAACG
* * * * * *
79736466 TGTAAGACCTTGTCTGGGACAAAGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGGGACAGAGGAATTGATATATGATAACG
*
79736509 CGTAAGAC
1 TGTAAGAC
79736517 TATATATGGG
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
42 4 0.05
43 74 0.91
44 3 0.04
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGAGGAATTGATATATGATAACG
Found at i:79736527 original size:43 final size:43
Alignment explanation
Indices: 79736437--79736527 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
79736427 AGACCCTGTC
* * ** * *
79736437 TGGGACAGAGGCATTGATATGTGATAACGTGTAAGACCTTGTC
1 TGGGACAAAGGCATCGATATGTGATAACACGTAAGACCTTATA
79736480 TGGGACAAAGGCATCGATATGTGATAACACGTAAGA-CTATATA
1 TGGGACAAAGGCATCGATATGTGATAACACGTAAGACCT-TATA
79736523 TGGGA
1 TGGGA
79736528 TATGGCATTG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 2 0.05
43 39 0.95
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (43 bp):
TGGGACAAAGGCATCGATATGTGATAACACGTAAGACCTTATA
Found at i:79741524 original size:32 final size:32
Alignment explanation
Indices: 79741460--79741607 Score: 118
Period size: 32 Copynumber: 4.6 Consensus size: 32
79741450 CAATGGCCCT
* * ** * *
79741460 TTCCTTTTCCAGTTGTACACTTAAGGTGTACA
1 TTCCTTTTCAAGTGGTACACACAAAGTATACA
79741492 TTCCTTTTCAAGTGGTACACACAAAGTATACA
1 TTCCTTTTCAAGTGGTACACACAAAGTATACA
* ** * *
79741524 TTTCCTCTTCATTTGGTATACACAAAGTATACC
1 -TTCCTTTTCAAGTGGTACACACAAAGTATACA
* * *
79741557 TAACCTTTCCAAGT-GTACACACAAAGTGTACA
1 T-TCCTTTTCAAGTGGTACACACAAAGTATACA
* *
79741589 TAACCTTTTCAAGTTGTAC
1 T-TCCTTTTCAAGTGGTAC
79741608 CACTTAGGTA
Statistics
Matches: 93, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
32 55 0.59
33 38 0.41
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (32 bp):
TTCCTTTTCAAGTGGTACACACAAAGTATACA
Found at i:79743559 original size:43 final size:43
Alignment explanation
Indices: 79743511--79743626 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
79743501 TGTGATTACA
*
79743511 TGTAAGACCATGTCTAGGACATTGGCATTG-TATT-ATGAATACG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTTATTCA--AATACG
* * **
79743554 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTCAATTTTG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTTATTCAAATACG
**
79743597 TGTAAGACCATGTCTAGGACAGAGGCATCG
1 TGTAAGACCATGTCTAGGACATTGGCATCG
79743627 ATATGTGATA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 58 0.92
44 4 0.06
45 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTTATTCAAATACG
Found at i:79749219 original size:24 final size:24
Alignment explanation
Indices: 79749187--79749239 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
79749177 TGGTTGATAC
*
79749187 TAATTCAGTTAACTATTTAAATAA
1 TAATACAGTTAACTATTTAAATAA
79749211 TAATACAGTTAACTATTTAAATAA
1 TAATACAGTTAACTATTTAAATAA
79749235 TAATA
1 TAATA
79749240 TATATTATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.40
Consensus pattern (24 bp):
TAATACAGTTAACTATTTAAATAA
Found at i:79760220 original size:2 final size:2
Alignment explanation
Indices: 79760213--79760238 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
79760203 TTATAACATC
79760213 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
79760239 CCCTAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79762677 original size:34 final size:34
Alignment explanation
Indices: 79762634--79762699 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
79762624 TAGACACATG
*
79762634 GAAAACATTATGAATTTTGTCAAGCTCTGGTGTA
1 GAAAACATTATGAATTCTGTCAAGCTCTGGTGTA
79762668 GAAAACATTATGAATTCTGTCAAGCTCTGGTG
1 GAAAACATTATGAATTCTGTCAAGCTCTGGTG
79762700 GTAATGTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (34 bp):
GAAAACATTATGAATTCTGTCAAGCTCTGGTGTA
Found at i:79763129 original size:42 final size:43
Alignment explanation
Indices: 79763037--79763190 Score: 238
Period size: 43 Copynumber: 3.6 Consensus size: 43
79763027 AAAAAAAGGT
* * *
79763037 CGCTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGC
1 CGCTAAAGGTCAAGGCTTTTAGCGGCATTTATGGGAGAAGCGC
79763080 CGCTAAAGGTCAAGGCTTTTAGCGGCATTTAT-GGAGAAGCGC
1 CGCTAAAGGTCAAGGCTTTTAGCGGCATTTATGGGAGAAGCGC
* * *
79763122 CGCTAAAGGTCAAGGCGTTTAGCGGCATTTTTGGGAAAAGCGC
1 CGCTAAAGGTCAAGGCTTTTAGCGGCATTTATGGGAGAAGCGC
*
79763165 CGCTAAAGGTTAAGGCTTTTAGCGGC
1 CGCTAAAGGTCAAGGCTTTTAGCGGC
79763191 GCTTTTTCTA
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
42 40 0.39
43 62 0.61
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (43 bp):
CGCTAAAGGTCAAGGCTTTTAGCGGCATTTATGGGAGAAGCGC
Found at i:79763209 original size:43 final size:42
Alignment explanation
Indices: 79763037--79763213 Score: 203
Period size: 43 Copynumber: 4.1 Consensus size: 42
79763027 AAAAAAAGGT
* * * *
79763037 CGCTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGC
1 CGCTAAAGGTCAAGGCTTTTAGCGGCATTT-TTGGAGAAACGC
* *
79763080 CGCTAAAGGTCAAGGCTTTTAGCGGCATTTATGGAGAAGCGC
1 CGCTAAAGGTCAAGGCTTTTAGCGGCATTTTTGGAGAAACGC
*
79763122 CGCTAAAGGTCAAGGCGTTTAGCGGCATTTTTGG-GAAAAGCGC
1 CGCTAAAGGTCAAGGCTTTTAGCGGCATTTTTGGAG-AAA-CGC
* * ** *
79763165 CGCTAAAGGTTAAGGCTTTTAGCGGCGCTTTTTCTACAAACGC
1 CGCTAAAGGTCAAGGCTTTTAGCGGC-ATTTTTGGAGAAACGC
79763208 CGCTAA
1 CGCTAA
79763214 TTTTGGTAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
41 1 0.01
42 44 0.38
43 64 0.55
44 8 0.07
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (42 bp):
CGCTAAAGGTCAAGGCTTTTAGCGGCATTTTTGGAGAAACGC
Found at i:79764264 original size:16 final size:16
Alignment explanation
Indices: 79764243--79764281 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
79764233 AGAATATTAT
*
79764243 TTAATAATAGAAAGTA
1 TTAATAATAGAAAGAA
* *
79764259 TTAATATTTGAAAGAA
1 TTAATAATAGAAAGAA
79764275 TTAATAA
1 TTAATAA
79764282 ATTCATAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (16 bp):
TTAATAATAGAAAGAA
Found at i:79769218 original size:9 final size:9
Alignment explanation
Indices: 79769204--79769331 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
79769194 ATGTATTAGT
79769204 TAAGTTATG
1 TAAGTTATG
79769213 TAAGTTGTTATG
1 TAA---GTTATG
*
79769225 TACGTTATG
1 TAAGTTATG
*
79769234 TGAGTTATG
1 TAAGTTATG
*
79769243 TAAATTATG
1 TAAGTTATG
79769252 TAAGTTATG
1 TAAGTTATG
*
79769261 TGAGTTATG
1 TAAGTTATG
79769270 TAAGTTGTTATG
1 TAA---GTTATG
*
79769282 TAAATTATG
1 TAAGTTATG
*
79769291 TAAGTTATA
1 TAAGTTATG
*
79769300 TGAGTTATG
1 TAAGTTATG
79769309 TAAGTTATG
1 TAAGTTATG
* *
79769318 TAATTTATT
1 TAAGTTATG
79769327 TAAGT
1 TAAGT
79769332 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:79769331 original size:57 final size:57
Alignment explanation
Indices: 79769204--79769331 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
79769194 ATGTATTAGT
** * *
79769204 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
79769261 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
79769318 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
79769332 AATGATCAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:79770102 original size:240 final size:241
Alignment explanation
Indices: 79769453--79770366 Score: 1697
Period size: 240 Copynumber: 3.8 Consensus size: 241
79769443 ATATAGTAAC
*
79769453 TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGAAGGATCCATTATATCTTACAGCTCG
1 TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
*
79769518 ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTGAAAAAAGG
66 ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAGG
* *
79769583 TTGGAGAGAAAGTCAGCTATTGTTATAATTTTAATGGACAAGCAAGCTACGTGGTAATAAATATT
131 TTGGAGAGAAAGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATATT
79769648 CAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAAT
196 CAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAAT
79769694 TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
1 TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
*
79769759 ATATAAGGCAACCCGTTAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAGG
66 ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAGG
*
79769824 TTGGAGAGAAAGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATATT
131 TTGGAGAGAAAGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATATT
79769889 CAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAAT
196 CAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAAT
79769935 TTTTTAAGATTCATCATACGTGGCGTTGTTACACCT-GGGAGGATCCATTATATCTTACAGCTCG
1 TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
*
79769999 ATATAAGGCAACCTGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAGG
66 ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAGG
*
79770064 TTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATATT
131 TTGGAGAGAAAGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATATT
79770129 CAATAGTAAATGAGCTCGATAGAAC-TTTTTCAAGTCTTTTTGAAT
196 CAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAAT
* *
79770174 TTTTTAAGATTCATCATACGTGGTGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGATCG
1 TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
79770239 ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAGG
66 ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAGG
*
79770304 TTGGAGAGAAGGTCAGCTATATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
131 TTGGAGAGAAAGTCAGC--TATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
79770367 ATTAATTCAT
Statistics
Matches: 657, Mismatches: 13, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
239 55 0.08
240 287 0.44
241 271 0.41
242 44 0.07
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (241 bp):
TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAGG
TTGGAGAGAAAGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATATT
CAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAAT
Found at i:79772083 original size:18 final size:18
Alignment explanation
Indices: 79772060--79772094 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
79772050 TGATGGAAAT
79772060 AAGTATACCAAATTCATG
1 AAGTATACCAAATTCATG
79772078 AAGTATACCAAATTCAT
1 AAGTATACCAAATTCAT
79772095 CACATTTGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.29
Consensus pattern (18 bp):
AAGTATACCAAATTCATG
Found at i:79773534 original size:11 final size:11
Alignment explanation
Indices: 79773520--79773569 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
79773510 AATATTTTAA
79773520 AAATTCTTGAC
1 AAATTCTTGAC
* *
79773531 AAATTATTTTGTC
1 AAA-T-TCTTGAC
79773544 AAATTCTTGAC
1 AAATTCTTGAC
79773555 AAATTCTTGAC
1 AAATTCTTGAC
79773566 AAAT
1 AAAT
79773570 ATACAAGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 23 0.70
12 2 0.06
13 8 0.24
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATTCTTGAC
Found at i:79773969 original size:18 final size:19
Alignment explanation
Indices: 79773948--79773983 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
79773938 TTTGAAATTC
79773948 TTCATCTCT-CAATTCTAT
1 TTCATCTCTGCAATTCTAT
*
79773966 TTCATCTTTGCAATTCTA
1 TTCATCTCTGCAATTCTA
79773984 CAGAAAGAAG
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:0.22, C:0.25, G:0.03, T:0.50
Consensus pattern (19 bp):
TTCATCTCTGCAATTCTAT
Found at i:79774625 original size:40 final size:41
Alignment explanation
Indices: 79774581--79774666 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
79774571 AAAAGCATCG
** *
79774581 CTAATTCTC-AGTTTTT-GCGGCGTTTTTTATGAAAGCGCCA
1 CTAATTCTCTA-TTTTTAGCGGCGTTTTTTACAAAAACGCCA
*
79774621 CTAATTCTCTATTTTTAGTGGCGTTTTTTACAAAAACGCCA
1 CTAATTCTCTATTTTTAGCGGCGTTTTTTACAAAAACGCCA
79774662 CTAAT
1 CTAAT
79774667 GCATTTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
40 14 0.35
41 26 0.65
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (41 bp):
CTAATTCTCTATTTTTAGCGGCGTTTTTTACAAAAACGCCA
Found at i:79775721 original size:41 final size:43
Alignment explanation
Indices: 79775639--79775724 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
79775629 GATAACAAAC
* *
79775639 CCGGCCCATACCATTAACTTAATATATATACTATACCATTGAA
1 CCGGCCCAAACCATAAACTTAATATATATACTATACCATTGAA
* * *
79775682 CCGGCCTAAACCATAAACTTAA-A-ATATATTCTACCATTGAA
1 CCGGCCCAAACCATAAACTTAATATATATACTATACCATTGAA
79775723 CC
1 CC
79775725 CTAAACCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 18 0.47
42 1 0.03
43 19 0.50
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.28
Consensus pattern (43 bp):
CCGGCCCAAACCATAAACTTAATATATATACTATACCATTGAA
Found at i:79775934 original size:21 final size:21
Alignment explanation
Indices: 79775910--79775970 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
79775900 TGGATTAGTG
* * *
79775910 TTTATGGTTTATGTTTTAAAA
1 TTTAGGGTTTAAGGTTTAAAA
*
79775931 TTTAGGGTTTAAGGTTTAATA
1 TTTAGGGTTTAAGGTTTAAAA
* *
79775952 TTTAAGATTTAAGGGTTTA
1 TTTAGGGTTTAA-GGTTTA
79775971 CAGAAAGCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 27 0.82
22 6 0.18
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.51
Consensus pattern (21 bp):
TTTAGGGTTTAAGGTTTAAAA
Found at i:79776317 original size:41 final size:41
Alignment explanation
Indices: 79776271--79776510 Score: 313
Period size: 41 Copynumber: 5.9 Consensus size: 41
79776261 TGTTTGGACC
* *
79776271 AAAAACACCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
1 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTTGGAT
*
79776312 AAAAACGCCACAATTGATCAGTTTTTAGTGGCGTTTTGGAT
1 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTTGGAT
* * *
79776353 AAAAATGCCACAATTGATCAGTTTTTAGTGGCGTTTGGGAT
1 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTTGGAT
* **
79776394 AAAAATGCCGCAATTGATCAGTTTTTAGTGGCG-TTTGGCG
1 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTTGGAT
* * * **
79776434 AAAAACGCCGCTA-TGACCAATTTTTAGTGGCGTTTTGGCC
1 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTTGGAT
* * *
79776474 AAAAACGCTGCTATTGACCAGTTTTTAGTGGCGTTTT
1 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTT
79776511 TGGCAGTTTA
Statistics
Matches: 181, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 17 0.09
40 33 0.18
41 131 0.72
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (41 bp):
AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTTGGAT
Found at i:79782676 original size:40 final size:39
Alignment explanation
Indices: 79782511--79782694 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
79782501 AAATTGAATG
* * *
79782511 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
79782551 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
79782591 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
79782631 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
79782670 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
79782695 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:79782719 original size:80 final size:81
Alignment explanation
Indices: 79782551--79782739 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
79782541 GCTGGAAATT
* * * *
79782551 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
79782616 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
79782632 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
79782695 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
79782711 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
79782740 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:79790805 original size:40 final size:39
Alignment explanation
Indices: 79790640--79790823 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
79790630 AAATTGAATG
* * *
79790640 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
79790680 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
79790720 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
79790760 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
79790799 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
79790824 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:79790848 original size:80 final size:81
Alignment explanation
Indices: 79790680--79790868 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
79790670 GCTGGAAATT
* * * *
79790680 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
79790745 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
79790761 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
79790824 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
79790840 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
79790869 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:79795696 original size:2 final size:2
Alignment explanation
Indices: 79795689--79795722 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
79795679 TTATAACCTC
79795689 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79795723 CTAAATATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79798028 original size:9 final size:9
Alignment explanation
Indices: 79797973--79798029 Score: 53
Period size: 9 Copynumber: 6.4 Consensus size: 9
79797963 TTTGGTTAAA
*
79797973 AATTAACAG
1 AATTAACCG
**
79797982 AATTAAAAG
1 AATTAACCG
*
79797991 AATTAACTG
1 AATTAACCG
79798000 AATTAACCG
1 AATTAACCG
* *
79798009 -ATCACCCG
1 AATTAACCG
79798017 AATTAACCG
1 AATTAACCG
79798026 AATT
1 AATT
79798030 GAATCACTAC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
8 6 0.15
9 33 0.85
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:79798059 original size:17 final size:17
Alignment explanation
Indices: 79798037--79798171 Score: 63
Period size: 17 Copynumber: 7.4 Consensus size: 17
79798027 ATTGAATCAC
79798037 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
79798054 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
79798074 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
* * *
79798091 TACATAAGTCTATGAATCAC
1 TACATAA-T-TA-AAAACAT
*
79798111 TACATAAATAAAAACAT
1 TACATAATTAAAAACAT
** ** *
79798128 TACATAAGTCTTTGACTCAC
1 TACATAA---TTAAAAACAT
79798148 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
79798165 TACATAA
1 TACATAA
79798172 GTCTTGAAAT
Statistics
Matches: 81, Mismatches: 28, Indels: 18
0.64 0.22 0.14
Matches are distributed among these distances:
17 42 0.52
18 3 0.04
19 2 0.02
20 34 0.42
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:79798079 original size:20 final size:20
Alignment explanation
Indices: 79798029--79798117 Score: 73
Period size: 17 Copynumber: 4.8 Consensus size: 20
79798019 TTAACCGAAT
79798029 TGAATCACTACATAA-T-TA
1 TGAATCACTACATAAGTCTA
* * * *
79798047 -AAAACATTACATAAGTCTT
1 TGAATCACTACATAAGTCTA
79798066 TGAATCACTACATAA-T-TA
1 TGAATCACTACATAAGTCTA
** *
79798084 AAAAT-ATTACATAAGTCTA
1 TGAATCACTACATAAGTCTA
79798103 TGAATCACTACATAA
1 TGAATCACTACATAA
79798118 ATAAAAACAT
Statistics
Matches: 51, Mismatches: 14, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
17 19 0.37
18 6 0.12
19 7 0.14
20 19 0.37
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (20 bp):
TGAATCACTACATAAGTCTA
Found at i:79798193 original size:37 final size:37
Alignment explanation
Indices: 79798028--79798176 Score: 262
Period size: 37 Copynumber: 4.0 Consensus size: 37
79798018 ATTAACCGAA
79798028 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
79798065 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* *
79798102 ATGAATCACTACATAAATAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
79798139 TTGACTCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
79798176 T
1 T
79798177 GAAATTAACA
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.32
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:79802089 original size:20 final size:20
Alignment explanation
Indices: 79802064--79802101 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
79802054 TTGGGTTTAC
79802064 TTTAGACTTTTAGTTTTAGT
1 TTTAGACTTTTAGTTTTAGT
* *
79802084 TTTAGATTTTTATTTTTA
1 TTTAGACTTTTAGTTTTA
79802102 TTTATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.03, G:0.11, T:0.66
Consensus pattern (20 bp):
TTTAGACTTTTAGTTTTAGT
Found at i:79805376 original size:14 final size:16
Alignment explanation
Indices: 79805356--79805391 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
79805346 TAAATTATCT
79805356 AATATAAAT-TTTAAA
1 AATATAAATATTTAAA
79805371 AA-AT-AATATTTAAA
1 AATATAAATATTTAAA
79805385 AATATAA
1 AATATAA
79805392 TTTACTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 5
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.17
14 10 0.56
15 4 0.22
16 1 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATAAATATTTAAA
Found at i:79810089 original size:14 final size:15
Alignment explanation
Indices: 79810061--79810098 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
79810051 AAGAAAAGGG
*
79810061 GGTTTGGTTGCAGAT
1 GGTTGGGTTGCAGAT
79810076 GGTTGGGTTG-AGAT
1 GGTTGGGTTGCAGAT
79810090 GGATTGGGT
1 GG-TTGGGT
79810099 GGTGGTGAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.13, C:0.03, G:0.47, T:0.37
Consensus pattern (15 bp):
GGTTGGGTTGCAGAT
Found at i:79811500 original size:35 final size:35
Alignment explanation
Indices: 79811457--79811544 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 35
79811447 ATATACTCAA
79811457 TCAGATACAGATACAGATTCAGGCATAAGCCCAT-
1 TCAGATACAGATACAGATTCAGGCATAAGCCCATC
* * * *
79811491 TACATATACAGATGCAGATTCGGGCCTAAGCCCATC
1 T-CAGATACAGATACAGATTCAGGCATAAGCCCATC
*
79811527 TCAGATATAGATACAGAT
1 TCAGATACAGATACAGAT
79811545 GTAAAAATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
34 1 0.02
35 43 0.96
36 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (35 bp):
TCAGATACAGATACAGATTCAGGCATAAGCCCATC
Found at i:79813769 original size:26 final size:27
Alignment explanation
Indices: 79813740--79813808 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 27
79813730 AGATAAATAT
*
79813740 ATTAATTTGAATATTTT-TTAAA-AAAA
1 ATTAATTT-AATATTTTAATAAAGAAAA
* *
79813766 ATT-ATTTCAAAATTTTAATAAAGTAAA
1 ATTAATTT-AATATTTTAATAAAGAAAA
*
79813793 ATCAATTTAATATTTT
1 ATTAATTTAATATTTT
79813809 CTACATTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
25 11 0.32
26 7 0.21
27 12 0.35
28 4 0.12
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (27 bp):
ATTAATTTAATATTTTAATAAAGAAAA
Found at i:79824136 original size:21 final size:22
Alignment explanation
Indices: 79824084--79824136 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
79824074 CCCGGATGCA
79824084 TATAAA-ATATATTATAAATAT
1 TATAAATATATATTATAAATAT
*
79824105 TATACAT-TATATTATAAAT-T
1 TATAAATATATATTATAAATAT
*
79824125 TTTAAATATATA
1 TATAAATATATA
79824137 AAATCCAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TATAAATATATATTATAAATAT
Found at i:79824346 original size:22 final size:22
Alignment explanation
Indices: 79824318--79824362 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
79824308 TTGGGGAATC
79824318 CCCGACTTCCTCCCAGTGAAGT
1 CCCGACTTCCTCCCAGTGAAGT
79824340 CCCGACTTCCTCCCAGTGAAGT
1 CCCGACTTCCTCCCAGTGAAGT
79824362 C
1 C
79824363 TGTTGGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.42, G:0.18, T:0.22
Consensus pattern (22 bp):
CCCGACTTCCTCCCAGTGAAGT
Found at i:79827820 original size:26 final size:22
Alignment explanation
Indices: 79827771--79827815 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
79827761 TCAACTGACA
79827771 TAGAGATGCAGTCAGTGCTGCT
1 TAGAGATGCAGTCAGTGCTGCT
79827793 TAGAGATGCAGTCAGTGCTGCT
1 TAGAGATGCAGTCAGTGCTGCT
79827815 T
1 T
79827816 CCTTACTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (22 bp):
TAGAGATGCAGTCAGTGCTGCT
Found at i:79827848 original size:1 final size:1
Alignment explanation
Indices: 79827842--79827867 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
79827832 GCACACACGC
79827842 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
79827868 CAAACTGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:79836782 original size:32 final size:31
Alignment explanation
Indices: 79836723--79836804 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 31
79836713 GGACAGTAAA
*
79836723 AGAAAAAGAAAATCAAAGAAAAAGAAAAGAATG
1 AGAAAAAGAAAA--AAAGAAAAAGAAAAGAAGG
* * *
79836756 AGAAAAAGAAAAAGAAGAAGAGGAAAAGGAGG
1 AGAAAAAGAAAAA-AAGAAAAAGAAAAGAAGG
79836788 AGAAGAAGAGAAAAAAA
1 AGAA-AA-AGAAAAAAA
79836805 ATTCTAGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
31 1 0.02
32 18 0.43
33 16 0.38
34 7 0.17
ACGTcount: A:0.71, C:0.01, G:0.26, T:0.02
Consensus pattern (31 bp):
AGAAAAAGAAAAAAAGAAAAAGAAAAGAAGG
Found at i:79836802 original size:20 final size:20
Alignment explanation
Indices: 79836737--79836802 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
79836727 AAAGAAAATC
79836737 AAAGAAAAAGAAAAGAATGAGAA
1 AAAGAAAAAG--AAGAA-GAGAA
*
79836760 AAAGAAAAAGAAGAAGAGGA
1 AAAGAAAAAGAAGAAGAGAA
* **
79836780 AAAGGAGGAGAAGAAGAGAA
1 AAAGAAAAAGAAGAAGAGAA
79836800 AAA
1 AAA
79836803 AAATTCTAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
20 23 0.61
21 5 0.13
23 10 0.26
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (20 bp):
AAAGAAAAAGAAGAAGAGAA
Found at i:79836985 original size:15 final size:15
Alignment explanation
Indices: 79836965--79836996 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
79836955 TTATCTCTAT
79836965 TTTTTCTTTTTCTTC
1 TTTTTCTTTTTCTTC
79836980 TTTTTCTTTTTCTTC
1 TTTTTCTTTTTCTTC
79836995 TT
1 TT
79836997 GTCACAGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTCTTTTTCTTC
Found at i:79837383 original size:29 final size:31
Alignment explanation
Indices: 79837323--79837384 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 31
79837313 GGAGAAGAAG
*
79837323 AAGTATAAACATATTGGGTCATTTATGCAAA
1 AAGTATAAACATATTGGGTCATTTATGAAAA
*
79837354 AAGTA-AAA-ATATTGGGTCATTTATTAAAA
1 AAGTATAAACATATTGGGTCATTTATGAAAA
79837383 AA
1 AA
79837385 TGGAAAAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 21 0.72
30 3 0.10
31 5 0.17
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (31 bp):
AAGTATAAACATATTGGGTCATTTATGAAAA
Found at i:79839197 original size:25 final size:24
Alignment explanation
Indices: 79839152--79839198 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
79839142 GATGCAATAA
**
79839152 ACCATTATTATGACTTGATTAATG
1 ACCATTATTATGACTAAATTAATG
*
79839176 ACCATTATTTTCGACTAAATTAA
1 ACCATTATTAT-GACTAAATTAA
79839199 GTAATGTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (24 bp):
ACCATTATTATGACTAAATTAATG
Done.