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 283 of 284
Found at i:95012624 original size:54 final size:54
Alignment explanation
Indices: 95012566--95012668 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
95012556 TGGTATTTTA
* *
95012566 GTAATTTTGTAAATCAAGGGTAAAACA-GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCAAGGGTAAAA-AGGTAATTCTATAAATCGAGGGTAAAATG
**
95012620 GTAATTCTATAAATTGAGGGTAAAAAGGTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCAAGGGTAAAAAGGTAATTCTATAAATCGAGGGTA
95012669 CTTTGGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.02
54 43 0.98
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (54 bp):
GTAATTCTATAAATCAAGGGTAAAAAGGTAATTCTATAAATCGAGGGTAAAATG
Found at i:95012676 original size:27 final size:27
Alignment explanation
Indices: 95012501--95012679 Score: 126
Period size: 27 Copynumber: 6.6 Consensus size: 27
95012491 TTTACAGACT
* * *
95012501 AGGGTATTTTGGTAATTTTACT-GATCG
1 AGGGTAATTTGGTAATTCTA-TAAATCG
* * * *
95012528 AGGGTATTTTGGTAATTTTGTAAACCG
1 AGGGTAATTTGGTAATTCTATAAATCG
* * * * * *
95012555 ATGGTATTTTAGTAATTTTGTAAATCA
1 AGGGTAATTTGGTAATTCTATAAATCG
****
95012582 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAATTTGGTAATTCTATAAATCG
** *
95012609 AGGGTAAAATGGTAATTCTATAAATTG
1 AGGGTAATTTGGTAATTCTATAAATCG
***
95012636 AGGGTAAAAAGGTAATTCTATAAATCG
1 AGGGTAATTTGGTAATTCTATAAATCG
*
95012663 AGGGTACTTTGGTAATT
1 AGGGTAATTTGGTAATT
95012680 TTACAATTTG
Statistics
Matches: 127, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 1 0.01
27 126 0.99
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTATAAATCG
Found at i:95012676 original size:54 final size:54
Alignment explanation
Indices: 95012582--95012693 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
95012572 TTGTAAATCA
*
95012582 AGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATTG
1 AGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATTG
*** * *
95012636 AGGGTAAAA-AGGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAATTTG
1 AGGGTAAAACA-GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATTG
95012690 AGGG
1 AGGG
95012694 AATTTCAGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
53 1 0.02
54 50 0.98
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.31
Consensus pattern (54 bp):
AGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATTG
Found at i:95033433 original size:120 final size:120
Alignment explanation
Indices: 95033220--95033458 Score: 469
Period size: 120 Copynumber: 2.0 Consensus size: 120
95033210 CAGAGGATTA
95033220 CAGTGTCATTCTGCACTGTCTCACACAACTTTAAATATCTCATTATCGGAAATTAATTTTCTTAC
1 CAGTGTCATTCTGCACTGTCTCACACAACTTTAAATATCTCATTATCGGAAATTAATTTTCTTAC
95033285 ACGGTTTCTTTTATAAGAAACTAGACTCATTAAGATTTAATTTCATAATTTATTT
66 ACGGTTTCTTTTATAAGAAACTAGACTCATTAAGATTTAATTTCATAATTTATTT
95033340 CAGTGTCATTCTGCACTGTCTCACACAACTTTAAATATCTCATTATCGGAAATTAATTTTCTTAC
1 CAGTGTCATTCTGCACTGTCTCACACAACTTTAAATATCTCATTATCGGAAATTAATTTTCTTAC
*
95033405 ACGGTTTCTTTTATAAGAAACTAGACTCATTAAGCTTTAATTTCATAATTTATT
66 ACGGTTTCTTTTATAAGAAACTAGACTCATTAAGATTTAATTTCATAATTTATT
95033459 CAGCCTCTAA
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.41
Consensus pattern (120 bp):
CAGTGTCATTCTGCACTGTCTCACACAACTTTAAATATCTCATTATCGGAAATTAATTTTCTTAC
ACGGTTTCTTTTATAAGAAACTAGACTCATTAAGATTTAATTTCATAATTTATTT
Found at i:95034672 original size:13 final size:13
Alignment explanation
Indices: 95034654--95034678 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95034644 TACTAAATTT
95034654 TCATGGATTCAAA
1 TCATGGATTCAAA
95034667 TCATGGATTCAA
1 TCATGGATTCAA
95034679 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:95037150 original size:43 final size:43
Alignment explanation
Indices: 95037103--95037186 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
95037093 GCATTAAGCT
* * *
95037103 TGCTAGGCATGAAAGCCTGAATACATATCACCGGCACGAATCC
1 TGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAATCC
*
95037146 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAT
1 TGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAAT
95037187 GCTCTTCGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.15
Consensus pattern (43 bp):
TGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAATCC
Found at i:95037253 original size:40 final size:40
Alignment explanation
Indices: 95037174--95037494 Score: 419
Period size: 40 Copynumber: 8.0 Consensus size: 40
95037164 GAATACACAT
* * *
95037174 CACCGGCACGAATGCTCTTCGGGACTTAGCTCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
* * * *
95037214 CACTAGCATGAATGCTCTTCGAGTCTTAACCC-GAGTATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGA-TATAA
*
95037254 CACCACCACGAATGCTCTTCGGGACTTAACCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
* * *
95037294 CACTAGCACGAATGCTCTTCGGGTCTTAACCCGGGTATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
95037334 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
* * * *
95037374 CACTAGCACGAATGCTCTTTGGGTCTTAACCCGGGTATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
* * *
95037414 CACCAGCACGAGTGCTCTTCGGGACTTAACCCAGATATAG
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
* * * * *
95037454 CATCGGCACAAATGCCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
95037494 C
1 C
95037495 TCACTGAACT
Statistics
Matches: 241, Mismatches: 38, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
39 2 0.01
40 237 0.98
41 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
Found at i:95037313 original size:80 final size:80
Alignment explanation
Indices: 95037174--95037494 Score: 473
Period size: 80 Copynumber: 4.0 Consensus size: 80
95037164 GAATACACAT
* * * * *
95037174 CACCGGCACGAATGCTCTTCGGGACTTAGCTCGGATATAACACTAGCATGAATGCTCTTCGAGTC
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTAGCACGAATGCTCTTCGGGTC
*
95037239 TTAACCCGAGTATAA
66 TTAACCCGGGTATAA
*
95037254 CACCACCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTAGCACGAATGCTCTTCGGGTC
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTAGCACGAATGCTCTTCGGGTC
95037319 TTAACCCGGGTATAA
66 TTAACCCGGGTATAA
*
95037334 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTAGCACGAATGCTCTTTGGGTC
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTAGCACGAATGCTCTTCGGGTC
95037399 TTAACCCGGGTATAA
66 TTAACCCGGGTATAA
* * * * * * *
95037414 CACCAGCACGAGTGCTCTTCGGGACTTAACCCAGATATAGCA-TCGGCACAAATGCCCTTCGGGA
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAACACT-AGCACGAATGCTCTTCGGGT
* *
95037478 CTTAGCCCGGATATAA
65 CTTAACCCGGGTATAA
95037494 C
1 C
95037495 TCACTGAACT
Statistics
Matches: 221, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
79 1 0.00
80 220 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAACACTAGCACGAATGCTCTTCGGGTC
TTAACCCGGGTATAA
Found at i:95039334 original size:47 final size:47
Alignment explanation
Indices: 95039265--95039414 Score: 282
Period size: 47 Copynumber: 3.2 Consensus size: 47
95039255 TCGGGACTTA
95039265 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
95039312 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* *
95039359 TCACATATATACACTTTCACATTCATCACATAGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
95039406 TCACATATA
1 TCACATATA
95039415 CATATCTTGT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 101 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
Found at i:95041284 original size:13 final size:13
Alignment explanation
Indices: 95041266--95041290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95041256 TACTAAATTT
95041266 TCATGGATTCAAA
1 TCATGGATTCAAA
95041279 TCATGGATTCAA
1 TCATGGATTCAA
95041291 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:95052526 original size:47 final size:47
Alignment explanation
Indices: 95052463--95052851 Score: 634
Period size: 47 Copynumber: 8.3 Consensus size: 47
95052453 CCCTTCGGGA
* * *
95052463 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
95052510 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
95052557 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
95052604 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
95052651 CTTATCAAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
95052698 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
95052745 CTTGTCACATATATACACTTTCACATTCATCACATTTGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
95052792 CTTATCACATGTATACACTTTCACATTCATCTCATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
95052839 CTTATCACATATA
1 CTTATCACATATA
95052852 CATATCTTGT
Statistics
Matches: 321, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 321 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:95055974 original size:56 final size:56
Alignment explanation
Indices: 95055913--95056095 Score: 303
Period size: 56 Copynumber: 3.3 Consensus size: 56
95055903 AAACGAAATC
* * * * *
95055913 CGCACACACAGTGCCCACTGACCGATCTTGCACACGTAGTTCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGAACGATCTCGCACACATAGTGCTCGGTTAAAGAATT
*
95055969 CGCACACACAGTGTCCACTGATCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGAACGATCTCGCACACATAGTGCTCGGTTAAAGAATT
*
95056025 CGTACACACAGTGTCCACTGAACGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGAACGATCTCGCACACATAGTGCTCGGTTAAAGAATT
95056081 CGCACACACAGTGTC
1 CGCACACACAGTGTC
95056096 TCAATTAATT
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (56 bp):
CGCACACACAGTGTCCACTGAACGATCTCGCACACATAGTGCTCGGTTAAAGAATT
Found at i:95056083 original size:28 final size:28
Alignment explanation
Indices: 95055942--95056119 Score: 109
Period size: 28 Copynumber: 6.5 Consensus size: 28
95055932 GACCGATCTT
* *
95055942 GCACACGTAGTTCTCGGTTAAAGAATTC
1 GCACACATAGTGCTCGGTTAAAGAATTC
* ** * **
95055970 GCACACACAGTG-TCCACTGATCG-ATCTC
1 GCACACATAGTGCT-CGGTTAAAGAAT-TC
95055998 GCACACATAGTGCTCGGTTAAAGAATTC
1 GCACACATAGTGCTCGGTTAAAGAATTC
* * ** * *
95056026 GTACACACAGTG-TCCACTGAACG-ATCTC
1 GCACACATAGTGCT-CGGTTAAAGAAT-TC
95056054 GCACACATAGTGCTCGGTTAAAGAATTC
1 GCACACATAGTGCTCGGTTAAAGAATTC
* * **
95056082 GCACACACAGTG-TC--TCAATTAATTC
1 GCACACATAGTGCTCGGTTAAAGAATTC
95056107 GCACACATAGTGC
1 GCACACATAGTGC
95056120 CTATATTCAT
Statistics
Matches: 110, Mismatches: 31, Indels: 20
0.68 0.19 0.12
Matches are distributed among these distances:
25 19 0.17
27 8 0.07
28 77 0.70
29 6 0.05
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (28 bp):
GCACACATAGTGCTCGGTTAAAGAATTC
Found at i:95056345 original size:40 final size:40
Alignment explanation
Indices: 95056301--95056403 Score: 188
Period size: 40 Copynumber: 2.6 Consensus size: 40
95056291 CACATCATCG
*
95056301 GCACGAATGCCCTTCGGGACTTAGCCCAGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCAGATGTAACACCA
*
95056341 GCACGAATGCTCTTCGGGACTTAGCTCAGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCAGATGTAACACCA
95056381 GCACGAATGCTCTTCGGGACTTA
1 GCACGAATGCTCTTCGGGACTTA
95056404 ACCCGGATCA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAGCCCAGATGTAACACCA
Found at i:95056516 original size:38 final size:38
Alignment explanation
Indices: 95056469--95056581 Score: 127
Period size: 38 Copynumber: 3.0 Consensus size: 38
95056459 GAATTTTAAT
*
95056469 CCGGACATAATCTCTGCACATAGCCATCGGATCTTTAC
1 CCGGACATAATCTCTACACATAGCCATCGGATCTTTAC
* * * * *
95056507 CCGGGCATAATCTCCACATATAGTCATCGGGTCTTTAC
1 CCGGACATAATCTCTACACATAGCCATCGGATCTTTAC
* ** * *
95056545 CCGGACACAATCTCTACTTATAGTCATCGGGTCTTTA
1 CCGGACATAATCTCTACACATAGCCATCGGATCTTTA
95056582 AGCCCGGATT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (38 bp):
CCGGACATAATCTCTACACATAGCCATCGGATCTTTAC
Found at i:95070576 original size:39 final size:40
Alignment explanation
Indices: 95070459--95070643 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
95070449 GCTCCTCGTT
*
95070459 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
95070499 CAAATGCCTTCGGGACTTAACCCGGATTTAGCAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
95070539 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
95070578 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
95070619 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
95070644 CATCATTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:95070603 original size:79 final size:82
Alignment explanation
Indices: 95070459--95070643 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 82
95070449 GCTCCTCGTT
* *
95070459 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
95070523 GATTTAG-CAAC-TCGCA
66 GATATAGTC-ACTTAGCA
* **
95070539 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
95070601 GGATATGGTCACTTAGCC
65 GGATATAGTCACTTAGCA
95070619 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
95070644 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATAGTCACTTAGCA
Found at i:95072153 original size:42 final size:43
Alignment explanation
Indices: 95072103--95072191 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 43
95072093 AACTCCGAAA
* *
95072103 ATTTTACTTTCATCGAGCTTGGTCCAAAACAATGGTGTACGG-
1 ATTTTACTTTCACCGAGCTCGGTCCAAAACAATGGTGTACGGC
*
95072145 ATTTTACTTTCACCGAGCTCGGTCCAAAATAATGGTGTACGGC
1 ATTTTACTTTCACCGAGCTCGGTCCAAAACAATGGTGTACGGC
95072188 ATTT
1 ATTT
95072192 ACGACCGTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
42 39 0.91
43 4 0.09
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (43 bp):
ATTTTACTTTCACCGAGCTCGGTCCAAAACAATGGTGTACGGC
Found at i:95073624 original size:272 final size:270
Alignment explanation
Indices: 95073130--95073671 Score: 967
Period size: 272 Copynumber: 2.0 Consensus size: 270
95073120 CTGGCTTAAG
95073130 GCGTCCGCAACCATATTAGCCTTTCCCGGGTGGTAATCAATGACAAGCTCGTAATCTTTCAACAA
1 GCGTCCGCAACCATATTAGCCTTTCCCGGGTGGTAATCAATGACAAGCTCGTAATCTTTCAACAA
*
95073195 CTCAAGCCAACGTCTTTGTCGCAGATTTAAGTCTCTTTGAGTCATCAAATTTTTGAGACTTTTGT
66 CTCAAGCCAACGTCTTTGTCGCAGATTTAAGTCTCTTTGAGTCATCAAATATTTGAGACTTTTGT
* * * *
95073260 GATCCGAAAATACATGGCACTTCTCACCAAATAAGTAATGTCGCCATGTTTTTAAAGCAAATACG
131 GATCCGAAAATACATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAAAGCAAATACG
* * *
95073325 ATGGCAGCTAGTTCAAGATCCTGGGTCGGATAATTTTTTTCTCATGTGGCTTTAATTGTCTCGAC
196 ATGGCAGCTAGTTCAAGATCATGGGTCGGATAA--TTTCTCTCATGTGGCTTCAATTGTCTCGAC
95073390 GCACAGGCCACC
259 GCACAGGCCACC
95073402 GCGTCCGCAACCATATTAGCCTTTCCCGGGTGGTAATCAATGACAAGCTCGTAATCTTTCAACAA
1 GCGTCCGCAACCATATTAGCCTTTCCCGGGTGGTAATCAATGACAAGCTCGTAATCTTTCAACAA
95073467 CTCAAGCCAACGTCTTTGTCGCAGATTTAAGTCTCTTTGAGTCATCAAATATTTGAGACTTTTGT
66 CTCAAGCCAACGTCTTTGTCGCAGATTTAAGTCTCTTTGAGTCATCAAATATTTGAGACTTTTGT
*
95073532 GATCCGAAAATACATGGCACTTTTCACCAAACAAATAATGTCGCCATATTTTCAAAGCAAATACG
131 GATCCGAAAATACATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAAAGCAAATACG
* *
95073597 ATGGCAGCTAGTTCGAGATCATGGGTCGGATAATTTCTCTCGTGTGGCTTCAATTGTCTCGACGC
196 ATGGCAGCTAGTTCAAGATCATGGGTCGGATAATTTCTCTCATGTGGCTTCAATTGTCTCGACGC
95073662 ACAGGCCACC
261 ACAGGCCACC
95073672 ACTCGACCTT
Statistics
Matches: 259, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
270 39 0.15
272 220 0.85
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (270 bp):
GCGTCCGCAACCATATTAGCCTTTCCCGGGTGGTAATCAATGACAAGCTCGTAATCTTTCAACAA
CTCAAGCCAACGTCTTTGTCGCAGATTTAAGTCTCTTTGAGTCATCAAATATTTGAGACTTTTGT
GATCCGAAAATACATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAAAGCAAATACG
ATGGCAGCTAGTTCAAGATCATGGGTCGGATAATTTCTCTCATGTGGCTTCAATTGTCTCGACGC
ACAGGCCACC
Found at i:95074822 original size:20 final size:20
Alignment explanation
Indices: 95074797--95074838 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
95074787 ATATGCAAGG
95074797 TATGCTTCGCACCCTCTTCT
1 TATGCTTCGCACCCTCTTCT
95074817 TATGCTTCGCACCCTCTTCT
1 TATGCTTCGCACCCTCTTCT
95074837 TA
1 TA
95074839 CATATTTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.12, C:0.38, G:0.10, T:0.40
Consensus pattern (20 bp):
TATGCTTCGCACCCTCTTCT
Found at i:95078577 original size:28 final size:28
Alignment explanation
Indices: 95078537--95079026 Score: 946
Period size: 28 Copynumber: 17.5 Consensus size: 28
95078527 TAAATTGTAC
95078537 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
95078565 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
95078593 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
95078621 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
95078649 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
95078677 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
95078705 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
95078733 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
95078761 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
95078789 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
95078817 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
95078845 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
95078873 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
95078901 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
95078929 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
95078957 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
95078985 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
95079012 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
95079027 GACTTAATAT
Statistics
Matches: 460, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
27 24 0.05
28 436 0.95
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.35
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:95081412 original size:12 final size:12
Alignment explanation
Indices: 95081395--95081420 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
95081385 CATACCTGGG
95081395 AATTACCCGTTA
1 AATTACCCGTTA
95081407 AATTACCCGTTA
1 AATTACCCGTTA
95081419 AA
1 AA
95081421 AGATACTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (12 bp):
AATTACCCGTTA
Found at i:95083308 original size:79 final size:81
Alignment explanation
Indices: 95083172--95083356 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
95083162 TTGAATGATG
*
95083172 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
95083236 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
95083251 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
95083313 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
95083331 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
95083357 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:95083370 original size:40 final size:40
Alignment explanation
Indices: 95083173--95083356 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
95083163 TGAATGATGT
* * * *
95083173 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
95083213 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
95083253 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
95083291 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
95083332 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
95083357 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:95083378 original size:79 final size:79
Alignment explanation
Indices: 95083173--95083389 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
95083163 TGAATGATGT
** * * * **
95083173 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
95083236 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
95083253 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
95083318 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
95083332 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
95083390 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:95086647 original size:93 final size:93
Alignment explanation
Indices: 95086488--95086673 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
95086478 TTGAGTCTAC
95086488 GGACTTGGAGGGGATGCCAGCTGTAATATCAGCAATGTTGGCCCAGAAATATGTAAGAAAAGGGT
1 GGACTTGGAGGGGATGCCAGCTGTAATATCAGCAATGTTGGCCCAGAAATATGTAAGAAAAGGGT
95086553 GCGAAACATACCTTGCGTATGTACTTGA
66 GCGAAACATACCTTGCGTATGTACTTGA
95086581 GGACTTGGAGGGGATGCCAGCTGTAATATCAGCAATGTTGGCCCAGAAATATGTAAGAAAAGGGT
1 GGACTTGGAGGGGATGCCAGCTGTAATATCAGCAATGTTGGCCCAGAAATATGTAAGAAAAGGGT
95086646 GCGAAACATACCTTGCGTATGTACTTGA
66 GCGAAACATACCTTGCGTATGTACTTGA
95086674 TGACAAAGAA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (93 bp):
GGACTTGGAGGGGATGCCAGCTGTAATATCAGCAATGTTGGCCCAGAAATATGTAAGAAAAGGGT
GCGAAACATACCTTGCGTATGTACTTGA
Found at i:95088775 original size:62 final size:62
Alignment explanation
Indices: 95088678--95088799 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 62
95088668 TTGTGAGATT
*
95088678 ACACGGGGTACCTATTTCTATCGTGTCGGATAGAGATCCGAGATTTACCTCACGATTTTGGA
1 ACACGGGGTACCTATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCACGATTTTGGA
*
95088740 ACACGGGGTACCTATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCGCGATTTTG
1 ACACGGGGTACCTATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCACGATTTTG
95088800 AAGGAAATTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (62 bp):
ACACGGGGTACCTATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCACGATTTTGGA
Found at i:95091362 original size:39 final size:40
Alignment explanation
Indices: 95091267--95091489 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
95091257 TTGAATGATG
*
95091267 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
95091305 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
95091346 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
95091385 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
95091424 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
95091463 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
95091490 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:95091453 original size:79 final size:81
Alignment explanation
Indices: 95091267--95091489 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
95091257 TTGAATGATG
* * *
95091267 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
95091328 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
95091346 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
95091408 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
95091424 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
95091488 TG
66 TG
95091490 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:95091511 original size:79 final size:79
Alignment explanation
Indices: 95091267--95091522 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
95091257 TTGAATGATG
* * * *
95091267 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
95091328 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
95091346 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
95091410 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
95091424 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
95091488 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
95091504 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
95091523 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:95094042 original size:11 final size:11
Alignment explanation
Indices: 95094026--95094057 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
95094016 AAGTGTAGAC
95094026 AATAAAAATAT
1 AATAAAAATAT
95094037 AATAAAAATAT
1 AATAAAAATAT
95094048 AATAAAAATA
1 AATAAAAATA
95094058 ATTTTTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AATAAAAATAT
Found at i:95098671 original size:43 final size:43
Alignment explanation
Indices: 95098623--95098777 Score: 256
Period size: 43 Copynumber: 3.6 Consensus size: 43
95098613 CCGGCATTAC
*
95098623 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
95098666 GCCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
95098709 GCCTGCTAGGCACGAAGGCCCGAATACACATTACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
95098752 GCCTGCTAGGCATGAAGGCCTGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
95098778 TAATACCAGT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 104 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:95098755 original size:86 final size:86
Alignment explanation
Indices: 95098610--95098777 Score: 291
Period size: 86 Copynumber: 2.0 Consensus size: 86
95098600 ACATATCATT
* * *
95098610 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAAGCCTGCTAG
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
95098675 GCATGAAGGCCCGAATACACA
66 GCATGAAGGCCCGAATACACA
*
95098696 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATTACCGGCACGAAGCCTGCTAG
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
*
95098761 GCATGAAGGCCTGAATA
66 GCATGAAGGCCCGAATA
95098778 TAATACCAGT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 77 1.00
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (86 bp):
TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
GCATGAAGGCCCGAATACACA
Found at i:95098823 original size:38 final size:38
Alignment explanation
Indices: 95098770--95098877 Score: 135
Period size: 38 Copynumber: 2.8 Consensus size: 38
95098760 GGCATGAAGG
* * * * *
95098770 CCTGAATATAATACCAGTACTAGGCCTGCGGGATTTAT
1 CCTGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
95098808 CCTGGATATACTACCAGCACGAAGCCTGCGGGATTTAA
1 CCTGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* **
95098846 CCCGGATATTTTACCAGCACGAAGCCTGCGGG
1 CCTGGATATAATACCAGCACGAAGCCTGCGGG
95098878 TCTTTAAACC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (38 bp):
CCTGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:95103301 original size:39 final size:39
Alignment explanation
Indices: 95103239--95103437 Score: 290
Period size: 39 Copynumber: 5.1 Consensus size: 39
95103229 AATTATATTA
* * *
95103239 CCAGCACAAAGCCTGCGGGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* * *
95103278 CCTGCACGAAGCCAACGGGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
*
95103317 CCAGCACGAAGCCTACGAGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* *
95103356 CCAGCATGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* * *
95103395 CCAGCACAAAGCCTATGGGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
95103434 CCAG
1 CCAG
95103438 TATCTTGCAT
Statistics
Matches: 144, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 144 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
Found at i:95106271 original size:29 final size:29
Alignment explanation
Indices: 95106223--95106347 Score: 117
Period size: 29 Copynumber: 4.3 Consensus size: 29
95106213 GATCTCATTT
* *
95106223 CACACACTTAGTGCCCCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
* *
95106254 CACACACAGTGCCTCAACAATCGATGTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
**** * *
95106283 CACACACAGTG-CTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
* *
95106311 CACACACAGTGCCTCAACAACCTATCTGG
1 CACACACAGTGCCTCAACAACCGATCTCG
95106340 CACACACA
1 CACACACA
95106348 ATGCTCGGTT
Statistics
Matches: 73, Mismatches: 20, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
28 20 0.27
29 46 0.63
31 7 0.10
ACGTcount: A:0.30, C:0.37, G:0.16, T:0.17
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:95106319 original size:57 final size:57
Alignment explanation
Indices: 95106253--95106381 Score: 204
Period size: 57 Copynumber: 2.3 Consensus size: 57
95106243 AACCGATCTT
* * *
95106253 GCACACACAGTGCCTCAACAATCGATGTCGCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCCTCAACAACCGATCTCGCACACACAATGCTCGGTTACGGAACTC
* * *
95106310 GCACACACAGTGCCTCAACAACCTATCTGGCACACACAATGCTCGGTTACTGAACTC
1 GCACACACAGTGCCTCAACAACCGATCTCGCACACACAATGCTCGGTTACGGAACTC
95106367 GCACACACAGTGCCT
1 GCACACACAGTGCCT
95106382 ATGTTCACTT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 66 1.00
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.18
Consensus pattern (57 bp):
GCACACACAGTGCCTCAACAACCGATCTCGCACACACAATGCTCGGTTACGGAACTC
Found at i:95106320 original size:28 final size:28
Alignment explanation
Indices: 95106280--95106379 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
95106270 ACAATCGATG
*
95106280 TCGCACACACAGTGCTCGGTTACGGAAC
1 TCGCACACACAGTGCTCGGTTACCGAAC
**** * *
95106308 TCGCACACACAGTGCCTCAACAACCTATC
1 TCGCACACACAGTG-CTCGGTTACCGAAC
* * *
95106337 TGGCACACACAATGCTCGGTTACTGAAC
1 TCGCACACACAGTGCTCGGTTACCGAAC
95106365 TCGCACACACAGTGC
1 TCGCACACACAGTGC
95106380 CTATGTTCAC
Statistics
Matches: 53, Mismatches: 18, Indels: 2
0.73 0.25 0.03
Matches are distributed among these distances:
28 34 0.64
29 19 0.36
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.18
Consensus pattern (28 bp):
TCGCACACACAGTGCTCGGTTACCGAAC
Found at i:95110319 original size:58 final size:58
Alignment explanation
Indices: 95110253--95110372 Score: 204
Period size: 58 Copynumber: 2.1 Consensus size: 58
95110243 ATGCAAATTT
*
95110253 TAAAATAAAATTTCATGCCAACCAAATTCATGCATTCAAAACATAGATAAATAATAAA
1 TAAAATAAAATTTCACGCCAACCAAATTCATGCATTCAAAACATAGATAAATAATAAA
* * *
95110311 TAAAATAAAATTTCACGCCAACCAAATTTATGTATTTAAAACATAGATAAATAATAAA
1 TAAAATAAAATTTCACGCCAACCAAATTCATGCATTCAAAACATAGATAAATAATAAA
95110369 TAAA
1 TAAA
95110373 TAATAAATTG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (58 bp):
TAAAATAAAATTTCACGCCAACCAAATTCATGCATTCAAAACATAGATAAATAATAAA
Found at i:95114536 original size:42 final size:42
Alignment explanation
Indices: 95114426--95114537 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 42
95114416 TATCATACTA
* *
95114426 ATGCCATACCCCAGATATGGTCTTGCATATAATCTCGTATCG
1 ATGCCATACCCCAGATATGGTCTTACATATAATCTCATATCG
* * *
95114468 ATGCCAATAGCCCAGCTATGGTCTTACATGA-AGTCTCATATCG
1 ATGCC-ATACCCCAGATATGGTCTTACAT-ATAATCTCATATCG
* *
95114511 ATGCCATATCCCAAATATGGTCTTACA
1 ATGCCATACCCCAGATATGGTCTTACA
95114538 CGTAATCTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 24 0.40
43 35 0.58
44 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATACCCCAGATATGGTCTTACATATAATCTCATATCG
Found at i:95117843 original size:44 final size:48
Alignment explanation
Indices: 95117665--95117887 Score: 192
Period size: 50 Copynumber: 4.7 Consensus size: 48
95117655 GGTAAGGTGT
* * * * ** * * *
95117665 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTATTATTCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACTCGTCGCAATGC
*
95117714 CGATGCCATGTCCCAGACATGGTCTTACACT-A-GCTC-TCGCATATCCGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCGTCGCA-A----TGC
*
95117764 AGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-TCGC-A-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACAC-TCGTCGCAATGC
* * *
95117810 TGAT-TCATGTCCCAGACAT-GTCTTACACTGACACTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCGTCGCAATGC
*
95117856 CGATGCCATGTCCTAGACATGGTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
95117888 GCTCTCATAA
Statistics
Matches: 144, Mismatches: 17, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
43 2 0.01
44 18 0.12
45 18 0.12
46 12 0.08
47 13 0.09
48 11 0.08
49 29 0.20
50 32 0.22
51 2 0.01
52 1 0.01
53 6 0.04
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCGTCGCAATGC
Found at i:95117923 original size:94 final size:93
Alignment explanation
Indices: 95117665--95117935 Score: 269
Period size: 94 Copynumber: 2.8 Consensus size: 93
95117655 GGTAAGGTGT
* * * *
95117665 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTATTATTCTCGAGGCCGATGCCATGTCCCAG
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATT-GC-A-GCCGA-GCCATGTCCCAG
* **
95117730 ACATGGTCTTACACTAGCTCTCGCATATCCGTGC
62 ACAT-GTCTTACACTAGCACTCG-ATATCAATGC
* * * * * * **
95117764 AGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-TCGCAGCTGATTCATGTCCCAGACA
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-TCATTGCAGCCGAGCCATGTCCCAGACA
*
95117828 TGTCTTACACT-GACACTCG-TCTCAATGC
65 TGTCTTACACTAG-CACTCGATATCAATGC
*
95117856 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGCAGCCGAGGCATGTCCCAGAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT--TGCAGCCGAGCCATGTCCCAGAC
*
95117921 ATGTTTTACACTAGC
64 ATGTCTTACACTAGC
95117936 CCACAATAAC
Statistics
Matches: 141, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
91 2 0.01
92 39 0.28
93 1 0.01
94 46 0.33
95 15 0.11
96 4 0.03
97 1 0.01
98 1 0.01
99 31 0.22
100 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (93 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATTGCAGCCGAGCCATGTCCCAGACAT
GTCTTACACTAGCACTCGATATCAATGC
Found at i:95130573 original size:19 final size:19
Alignment explanation
Indices: 95130536--95130574 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
95130526 ACATGCAGTT
* * *
95130536 ATAAAATTATATTATAAAA
1 ATAAAATAATACTAAAAAA
95130555 ATAAAATAATACTAAAAAA
1 ATAAAATAATACTAAAAAA
95130574 A
1 A
95130575 ATTTTCTCCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
ATAAAATAATACTAAAAAA
Found at i:95134516 original size:22 final size:22
Alignment explanation
Indices: 95134486--95134541 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
95134476 ATATGTTTGC
*
95134486 CACAAAGCCATAGTCAAGATGG
1 CACAGAGCCATAGTCAAGATGG
** * * *
95134508 CACAGAGCCATTTTTAGGTTGG
1 CACAGAGCCATAGTCAAGATGG
95134530 CACAGAGCCATA
1 CACAGAGCCATA
95134542 ATTAGATTAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
CACAGAGCCATAGTCAAGATGG
Found at i:95134546 original size:22 final size:22
Alignment explanation
Indices: 95134505--95134546 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
95134495 ATAGTCAAGA
**
95134505 TGGCACAGAGCCATTTTTAGGT
1 TGGCACAGAGCCATAATTAGGT
95134527 TGGCACAGAGCCATAATTAG
1 TGGCACAGAGCCATAATTAG
95134547 ATTACGCAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (22 bp):
TGGCACAGAGCCATAATTAGGT
Found at i:95134949 original size:27 final size:27
Alignment explanation
Indices: 95134919--95135047 Score: 141
Period size: 27 Copynumber: 4.8 Consensus size: 27
95134909 ACACTATAAA
* *
95134919 GGTATTTTGGTAATTTCACAAATTGAG
1 GGTATTTTAGTAATTTTACAAATTGAG
* * * **
95134946 GGTATTTCATTAATTTTATAACCTGAG
1 GGTATTTTAGTAATTTTACAAATTGAG
* * * *
95134973 GGTGTTTTAGTATTTTTTCAAATTGGG
1 GGTATTTTAGTAATTTTACAAATTGAG
* *
95135000 GGTATTTCAGTAATTTTACAAATTGGG
1 GGTATTTTAGTAATTTTACAAATTGAG
95135027 GGTATTTTAGTAATTTTACAA
1 GGTATTTTAGTAATTTTACAA
95135048 GTCAGGGGTA
Statistics
Matches: 81, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTACAAATTGAG
Found at i:95135035 original size:54 final size:54
Alignment explanation
Indices: 95134919--95135066 Score: 170
Period size: 54 Copynumber: 2.7 Consensus size: 54
95134909 ACACTATAAA
* * * * * *
95134919 GGTATTTTGGTAATTTCACAAATTGAGGGTATTTCATTAATTTTATAACCTGAG
1 GGTATTTTAGTAATTTTACAAATTGGGGGTATTTCAGTAATTTTACAAACTGAG
* * * * *
95134973 GGTGTTTTAGTATTTTTTCAAATTGGGGGTATTTCAGTAATTTTACAAATTGGG
1 GGTATTTTAGTAATTTTACAAATTGGGGGTATTTCAGTAATTTTACAAACTGAG
* **
95135027 GGTATTTTAGTAATTTTACAAGTCAGGGGTATTTCAGTAA
1 GGTATTTTAGTAATTTTACAAATTGGGGGTATTTCAGTAA
95135067 ATCGGGGGTC
Statistics
Matches: 77, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (54 bp):
GGTATTTTAGTAATTTTACAAATTGGGGGTATTTCAGTAATTTTACAAACTGAG
Found at i:95135055 original size:27 final size:27
Alignment explanation
Indices: 95134919--95135066 Score: 104
Period size: 27 Copynumber: 5.5 Consensus size: 27
95134909 ACACTATAAA
** * *
95134919 GGTATTTTGGTAATTTCACAAAT-TGAG
1 GGTATTTCAGTAATTTTACAAATCAG-G
* * * *
95134946 GGTATTTCATTAATTTTATAACCTGAGG
1 GGTATTTCAGTAATTTTACAA-ATCAGG
* * **
95134974 GTGT-TTT-AGTATTTTTTCAAATTGGG
1 G-GTATTTCAGTAATTTTACAAATCAGG
**
95135000 GGTATTTCAGTAATTTTACAAATTGGG
1 GGTATTTCAGTAATTTTACAAATCAGG
* *
95135027 GGTATTTTAGTAATTTTACAAGTCAGG
1 GGTATTTCAGTAATTTTACAAATCAGG
95135054 GGTATTTCAGTAA
1 GGTATTTCAGTAA
95135067 ATCGGGGGTC
Statistics
Matches: 95, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
25 2 0.02
26 7 0.07
27 77 0.81
28 6 0.06
29 3 0.03
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCAGG
Found at i:95139204 original size:27 final size:27
Alignment explanation
Indices: 95139164--95139316 Score: 132
Period size: 27 Copynumber: 5.7 Consensus size: 27
95139154 ACCCTATAGA
* * *
95139164 GGTA-TTCGGTAATTTCATAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* *
95139190 GGTATTTCAGTAATTTTAC-AACCTAAG
1 GGTATTTCAGTAATTTTACAAATC-GAG
* *
95139217 GGTATTTCAATAATTTTACAAATCAAG
1 GGTATTTCAGTAATTTTACAAATCGAG
** *
95139244 GGTATTTTGGTAATTTTACAAATTG-G
1 GGTATTTCAGTAATTTTACAAATCGAG
* * ** *
95139270 GGGATTTCTGTAATTTTACAAGCCGAA
1 GGTATTTCAGTAATTTTACAAATCGAG
*
95139297 GGTATTTAAGTAATTTTACA
1 GGTATTTCAGTAATTTTACA
95139317 GATCATGGGT
Statistics
Matches: 101, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
26 27 0.27
27 71 0.70
28 3 0.03
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAG
Found at i:95139249 original size:54 final size:53
Alignment explanation
Indices: 95139173--95139316 Score: 137
Period size: 53 Copynumber: 2.7 Consensus size: 53
95139163 AGGTATTCGG
* * * * * *
95139173 TAATTTCATAAATCGAGGGTATTTCAGTAATTTTACAACCTAAGGGTATTTCAA
1 TAATTTTACAAATCAAGGGTATTTAAGTAATTTTACAA-ATAAGGGGATTTCAA
** ** **
95139227 TAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATTGGGGGATTTCTG
1 TAATTTTACAAATCAAGGGTATTTAAGTAATTTTACAAATAAGGGGATTTCAA
**
95139280 TAATTTTACAAGCCGAA-GGTATTTAAGTAATTTTACA
1 TAATTTTACAAATC-AAGGGTATTTAAGTAATTTTACA
95139317 GATCATGGGT
Statistics
Matches: 74, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
53 39 0.53
54 35 0.47
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (53 bp):
TAATTTTACAAATCAAGGGTATTTAAGTAATTTTACAAATAAGGGGATTTCAA
Found at i:95139283 original size:26 final size:27
Alignment explanation
Indices: 95139227--95139290 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
95139217 GGTATTTCAA
*
95139227 TAATTTTACAAATCAAGGGTATTTTGG
1 TAATTTTACAAATCAAGGGGATTTTGG
**
95139254 TAATTTTACAAAT-TGGGGGATTTCT-G
1 TAATTTTACAAATCAAGGGGATTT-TGG
95139280 TAATTTTACAA
1 TAATTTTACAA
95139291 GCCGAAGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 19 0.58
27 14 0.42
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAATCAAGGGGATTTTGG
Found at i:95139780 original size:17 final size:19
Alignment explanation
Indices: 95139758--95139799 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
95139748 TATCCGTGTG
95139758 GGCCCACA-AG-CCAATTT
1 GGCCCACACAGCCCAATTT
*
95139775 GGCCCACACAGCCCAGTTT
1 GGCCCACACAGCCCAATTT
95139794 GGCCCA
1 GGCCCA
95139800 ACGTGGCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 2 0.09
19 12 0.55
ACGTcount: A:0.24, C:0.40, G:0.21, T:0.14
Consensus pattern (19 bp):
GGCCCACACAGCCCAATTT
Found at i:95141873 original size:16 final size:17
Alignment explanation
Indices: 95141852--95141884 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
95141842 CACATTAAAG
95141852 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
95141868 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
95141885 CTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:95142506 original size:31 final size:33
Alignment explanation
Indices: 95142452--95142516 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
95142442 TTTGGGTCAC
* * *
95142452 AACCCATAATAGAATCAATTGGGCCT-AGCCCA
1 AACCAATAACAGAATCAAGTGGGCCTAAGCCCA
95142484 AACCAATAACAGAA-CAAGTGGGCCTAAGCCCA
1 AACCAATAACAGAATCAAGTGGGCCTAAGCCCA
95142516 A
1 A
95142517 TACAGTGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 10 0.34
32 19 0.66
ACGTcount: A:0.42, C:0.28, G:0.17, T:0.14
Consensus pattern (33 bp):
AACCAATAACAGAATCAAGTGGGCCTAAGCCCA
Found at i:95143494 original size:81 final size:81
Alignment explanation
Indices: 95143338--95143503 Score: 224
Period size: 81 Copynumber: 2.0 Consensus size: 81
95143328 CTACCCTATA
* * * *
95143338 GGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTATAACCCGGGGCTATTTTA
1 GGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAACCCGGGGCTATTTCA
*
95143403 ATAACCTTACAAATTG
66 ATAACCTTACAAATCG
* * * *
95143419 GGGGTATTTCGGTAATTTTACATATCGAGGGTATTTCAATAATTTTACAAGCCGGGGGTATTTCA
1 GGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAACCCGGGGCTATTTCA
* **
95143484 GTAATTTTACAAATCG
66 ATAACCTTACAAATCG
95143500 GGGG
1 GGGG
95143504 GTCTTAATGA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (81 bp):
GGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAACCCGGGGCTATTTCA
ATAACCTTACAAATCG
Found at i:95143501 original size:27 final size:27
Alignment explanation
Indices: 95143338--95143503 Score: 163
Period size: 27 Copynumber: 6.1 Consensus size: 27
95143328 CTACCCTATA
*
95143338 GGGGTATTTTAGTAATTTTACAAATCG
1 GGGGTATTTCAGTAATTTTACAAATCG
* * **
95143365 AGGGTATTTC-GATAATTTTATAACCCG
1 GGGGTATTTCAG-TAATTTTACAAATCG
* * * ** *
95143392 GGGCTATTTTAATAACCTTACAAATTG
1 GGGGTATTTCAGTAATTTTACAAATCG
* *
95143419 GGGGTATTTCGGTAATTTTACATATCG
1 GGGGTATTTCAGTAATTTTACAAATCG
* * **
95143446 AGGGTATTTCAATAATTTTACAAGCCG
1 GGGGTATTTCAGTAATTTTACAAATCG
95143473 GGGGTATTTCAGTAATTTTACAAATCG
1 GGGGTATTTCAGTAATTTTACAAATCG
95143500 GGGG
1 GGGG
95143504 GTCTTAATGA
Statistics
Matches: 104, Mismatches: 33, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
26 1 0.01
27 103 0.99
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (27 bp):
GGGGTATTTCAGTAATTTTACAAATCG
Found at i:95146064 original size:23 final size:23
Alignment explanation
Indices: 95146032--95146091 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
95146022 GTTTAAGCCT
*
95146032 CACACACCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
95146055 CACATGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
* *
95146078 TACACGCCAGTGTG
1 CACACGCCCGTGTG
95146092 CATTGAGACA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.23, C:0.28, G:0.32, T:0.17
Consensus pattern (23 bp):
CACACGCCCGTGTGGAGGCAATG
Found at i:95148196 original size:16 final size:16
Alignment explanation
Indices: 95148177--95148208 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
95148167 ATGTACAAAA
95148177 ATATATATGTGTTTAT
1 ATATATATGTGTTTAT
*
95148193 ATATATGTGTGTTTAT
1 ATATATATGTGTTTAT
95148209 TTGAAGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (16 bp):
ATATATATGTGTTTAT
Found at i:95148666 original size:24 final size:24
Alignment explanation
Indices: 95148635--95148967 Score: 263
Period size: 24 Copynumber: 13.9 Consensus size: 24
95148625 GAAATGACTT
*
95148635 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* *
95148659 TGGTACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
95148683 TGGCACTATGTGTGC-AGATTTGAA
1 TGGCACTATGTGTGCGA-ATTTGAA
* * * *
95148707 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
95148732 -GGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
95148755 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
95148779 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
95148803 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
95148828 -GGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
95148851 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
95148875 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
95148899 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
** *
95148924 -GGCACTATGTGTGCG-GGTTAACA
1 TGGCACTATGTGTGCGAATTTGA-A
*
95148947 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTT
95148968 CCTTGCTTGA
Statistics
Matches: 243, Mismatches: 46, Indels: 39
0.74 0.14 0.12
Matches are distributed among these distances:
21 1 0.00
22 3 0.01
23 5 0.02
24 220 0.91
25 11 0.05
26 3 0.01
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:95148939 original size:48 final size:48
Alignment explanation
Indices: 95148636--95148939 Score: 321
Period size: 48 Copynumber: 6.3 Consensus size: 48
95148626 AAATGACTTT
** * * * ** *
95148636 GGCACTATGTGTGCTAATTTGAATGGT-ACTATGTGTGCGAATTTGTAT
1 GGCACTATGTGTGCGGATTTGAAT-GTCAATATGTATGTGAATTACTAA
*
95148684 GGCACTATGTGTGCAGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
* * * ** * *
95148732 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCG-GATTTA-TAT
1 GGCACTATGTGTGCGGATTTGAATGTCA--ATATGTATGTGAATTACTAA
95148780 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
* * * ** * *
95148828 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCG-GATTTA-TAT
1 GGCACTATGTGTGCGGATTTGAATGTCA--ATATGTATGTGAATTACTAA
95148876 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
95148924 GGCACTATGTGTGCGG
1 GGCACTATGTGTGCGG
95148940 GTTAACATGG
Statistics
Matches: 210, Mismatches: 37, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
46 14 0.07
47 12 0.06
48 160 0.76
49 10 0.05
50 14 0.07
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.36
Consensus pattern (48 bp):
GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
Found at i:95148955 original size:96 final size:96
Alignment explanation
Indices: 95148636--95148938 Score: 543
Period size: 96 Copynumber: 3.2 Consensus size: 96
95148626 AAATGACTTT
* * * * * * *
95148636 GGCACTATGTGTGCTAATTTGAATGGTACTATGTGTGCGAATTTGTATGGCACTATGTGTGCAGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
95148701 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
95148732 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
95148797 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
95148828 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
95148893 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
95148924 GGCACTATGTGTGCG
1 GGCACTATGTGTGCG
95148939 GGTTAACATG
Statistics
Matches: 200, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 200 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (96 bp):
GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
TTTGAATGTCAATATGTATGTGAATTACTAA
Found at i:95154320 original size:19 final size:20
Alignment explanation
Indices: 95154296--95154333 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
95154286 TGTGGATGCA
95154296 TCTGTTG-TGCTGATTGTAG
1 TCTGTTGTTGCTGATTGTAG
*
95154315 TCTGTTGTTGTTGATTGTA
1 TCTGTTGTTGCTGATTGTA
95154334 ATTCCCTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.11, C:0.08, G:0.29, T:0.53
Consensus pattern (20 bp):
TCTGTTGTTGCTGATTGTAG
Found at i:95155324 original size:19 final size:20
Alignment explanation
Indices: 95155300--95155337 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
95155290 TGTGGATGCA
95155300 TCTGTTG-TGCTGATTGTAG
1 TCTGTTGTTGCTGATTGTAG
*
95155319 TCTGTTGTTGTTGATTGTA
1 TCTGTTGTTGCTGATTGTA
95155338 ATTCCCTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.11, C:0.08, G:0.29, T:0.53
Consensus pattern (20 bp):
TCTGTTGTTGCTGATTGTAG
Found at i:95158684 original size:66 final size:65
Alignment explanation
Indices: 95158592--95158715 Score: 203
Period size: 66 Copynumber: 1.9 Consensus size: 65
95158582 AAATTACATT
95158592 AATTCATTATATCAACTTCTTATTCAGCTTAATAGCATTTCCTGCTATTTAGTATATTAGCAGTA
1 AATTCATTATATCAACTTCTTATTCAGCTTAATAGCATTTCCTGCTATTTAGTATATTAGCAGTA
* * * *
95158657 AATTACATTATATCCACTTTTTATTCAGTTTAATAGTATTTCCTGCTATTTAGTATATT
1 AATT-CATTATATCAACTTCTTATTCAGCTTAATAGCATTTCCTGCTATTTAGTATATT
95158716 TAATAGGATT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
65 4 0.07
66 50 0.93
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (65 bp):
AATTCATTATATCAACTTCTTATTCAGCTTAATAGCATTTCCTGCTATTTAGTATATTAGCAGTA
Found at i:95159203 original size:23 final size:23
Alignment explanation
Indices: 95159176--95159223 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
95159166 AATTTCAAGG
95159176 TCTATAGGGAGTAAACTGATGAT
1 TCTATAGGGAGTAAACTGATGAT
*
95159199 TCTATAGGGAGTAAATTGATGAT
1 TCTATAGGGAGTAAACTGATGAT
95159222 TC
1 TC
95159224 GATTTATGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.33
Consensus pattern (23 bp):
TCTATAGGGAGTAAACTGATGAT
Found at i:95159303 original size:17 final size:17
Alignment explanation
Indices: 95159270--95159312 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
95159260 AAAAATAAAG
95159270 AATAACAAATAAAAAATTA
1 AATAA-AAATAAAAAA-TA
*
95159289 ATTAAAAAT-AAAAATA
1 AATAAAAATAAAAAATA
95159305 AATAAAAA
1 AATAAAAA
95159313 AATTGCAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 9 0.41
17 5 0.23
18 4 0.18
19 4 0.18
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAAAAATAAAAAATA
Found at i:95159313 original size:18 final size:19
Alignment explanation
Indices: 95159259--95159315 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 19
95159249 AGAAAATCAC
*
95159259 AAAAAATAAAGAATAACAAAT
1 AAAAAATAAATAA-AA-AAAT
* *
95159280 AAAAAATTAAT-TAAAAAT
1 AAAAAATAAATAAAAAAAT
95159298 -AAAAATAAATAAAAAAAT
1 AAAAAATAAATAAAAAAAT
95159316 TGCAACAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 9 0.30
18 10 0.33
19 2 0.07
21 9 0.30
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAAAATAAATAAAAAAAT
Found at i:95163831 original size:21 final size:21
Alignment explanation
Indices: 95163789--95163831 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
95163779 CATATATCTG
**
95163789 TATCTGGCAGCTTGTCTGCAT
1 TATCTGGCAGCTTGTCCACAT
**
95163810 TATCTGGTGGCTTGTCCACAT
1 TATCTGGCAGCTTGTCCACAT
95163831 T
1 T
95163832 TTTTTGTGTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.40
Consensus pattern (21 bp):
TATCTGGCAGCTTGTCCACAT
Found at i:95163933 original size:21 final size:22
Alignment explanation
Indices: 95163903--95163945 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
95163893 GTAGGAACGT
*
95163903 TTTCTGAAAA-CTTTGCATTGA
1 TTTCTAAAAAGCTTTGCATTGA
*
95163924 TTTCTAAAAAGGTTTGCATTGA
1 TTTCTAAAAAGCTTTGCATTGA
95163946 CATCATCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (22 bp):
TTTCTAAAAAGCTTTGCATTGA
Found at i:95167849 original size:40 final size:39
Alignment explanation
Indices: 95167805--95167969 Score: 179
Period size: 40 Copynumber: 4.2 Consensus size: 39
95167795 ATAACTATTA
** *
95167805 CTGAATGCACATACGTGCCCATGTTTGTACTTCAATGCCC
1 CTGAATGCACATACGTGCCC-TGTTTGTACTTCGGTACCC
95167845 CTGAATGCACATACGTGGCCCTGTTTGTACTTCGGTACCC
1 CTGAATGCACATACGT-GCCCTGTTTGTACTTCGGTACCC
* ** * *
95167885 CTGAGTGCACATATATGCCCTTTTTTGTACTTTGGTACCC
1 CTGAATGCACATACGTGCCC-TGTTTGTACTTCGGTACCC
* * * *
95167925 CCGAATGCACATACGTGCCCTATTTATACCTT-GGTAACC
1 CTGAATGCACATACGTGCCCTGTTTGTA-CTTCGGTACCC
95167964 CTGAAT
1 CTGAAT
95167970 CAAATAGCAT
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
39 21 0.20
40 81 0.76
41 4 0.04
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.32
Consensus pattern (39 bp):
CTGAATGCACATACGTGCCCTGTTTGTACTTCGGTACCC
Found at i:95171581 original size:40 final size:40
Alignment explanation
Indices: 95171497--95171680 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
95171487 TTGAATGCTG
* * * *
95171497 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
95171536 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
95171577 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
95171617 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
95171657 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
95171681 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:95171634 original size:80 final size:81
Alignment explanation
Indices: 95171497--95171677 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
95171487 TTGAATGCTG
* *
95171497 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
95171561 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
95171577 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
95171638 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
95171657 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
95171678 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:95175297 original size:50 final size:50
Alignment explanation
Indices: 95175182--95175424 Score: 252
Period size: 50 Copynumber: 4.8 Consensus size: 50
95175172 TGAGAACACA
* *** *
95175182 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCGCG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGTCACG
* * * *
95175234 TGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACG
** * * * * * *
95175284 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTCGATAACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTTAGGTCACG
* * * *
95175335 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACG
* *
95175385 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAATAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
95175425 CTTCGGTTAT
Statistics
Matches: 153, Mismatches: 37, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
50 82 0.54
51 37 0.24
52 34 0.22
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACG
Found at i:95175363 original size:101 final size:101
Alignment explanation
Indices: 95175232--95175418 Score: 311
Period size: 101 Copynumber: 1.9 Consensus size: 101
95175222 TTTTAGGTCG
*
95175232 CGTGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAA
1 CGTGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAA
95175297 GTGCAGGCTACTATGCATACCCGACAACTTCGATAA
66 GTGCAGGCTACTATGCATACCCGACAACTTCGATAA
* * * * *
95175333 CGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAA
1 CGTGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAA
*
95175398 GTGCAGGCTACTATGCGTACC
66 GTGCAGGCTACTATGCATACC
95175419 AAATAGCTTC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 79 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (101 bp):
CGTGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAA
GTGCAGGCTACTATGCATACCCGACAACTTCGATAA
Found at i:95177438 original size:17 final size:17
Alignment explanation
Indices: 95177416--95177448 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
95177406 AAGGAGAACA
95177416 AATGAATCTTAAAAACG
1 AATGAATCTTAAAAACG
95177433 AATGAATCTTAAAAAC
1 AATGAATCTTAAAAAC
95177449 TTAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
AATGAATCTTAAAAACG
Found at i:95177465 original size:11 final size:11
Alignment explanation
Indices: 95177451--95177485 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
95177441 TTAAAAACTT
95177451 AATAAAATAAA
1 AATAAAATAAA
*
95177462 AATAAAA-CAA
1 AATAAAATAAA
95177472 AATAAAATAAA
1 AATAAAATAAA
95177483 AAT
1 AAT
95177486 CTAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:95177484 original size:16 final size:16
Alignment explanation
Indices: 95177454--95177483 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
95177444 AAAACTTAAT
95177454 AAAATAAAAATAAAAC
1 AAAATAAAAATAAAAC
95177470 AAAAT-AAAATAAAA
1 AAAATAAAAATAAAA
95177484 ATCTAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAATAAAAATAAAAC
Found at i:95181961 original size:14 final size:14
Alignment explanation
Indices: 95181942--95181975 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
95181932 ATTTCATTTT
**
95181942 ATATTAATTGTATA
1 ATATTAATTAAATA
95181956 ATATTAATTAAATA
1 ATATTAATTAAATA
95181970 ATATTA
1 ATATTA
95181976 TAATTGCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
ATATTAATTAAATA
Found at i:95200439 original size:17 final size:17
Alignment explanation
Indices: 95200417--95200449 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
95200407 AAGGAGAACA
95200417 AATGAATCTTAAAAACG
1 AATGAATCTTAAAAACG
95200434 AATGAATCTTAAAAAC
1 AATGAATCTTAAAAAC
95200450 TTAATAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
AATGAATCTTAAAAACG
Found at i:95221130 original size:43 final size:43
Alignment explanation
Indices: 95221015--95221165 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 43
95221005 TATCCCATAT
* * *
95221015 ATGGTCTTACATGTTATCACAT-ATCGATGCCGATAG-CCCAG-C
1 ATGGTCTTACACGTAATCACATAAT-GATGCCAAT-GTCCCAGAC
* * *
95221057 TATGGTCTTACACGAAATTA-ATTAACGATGCCAATGTCCCAGAC
1 -ATGGTCTTACACGTAATCACA-TAATGATGCCAATGTCCCAGAC
* *
95221101 ATGGTCTTACACGTAATGACATAATGATGCTAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAGAC
*
95221144 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACGTAATCACAT
95221166 CTCGTTAATC
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
42 2 0.02
43 86 0.95
44 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAGAC
Found at i:95224726 original size:112 final size:112
Alignment explanation
Indices: 95224529--95226718 Score: 4371
Period size: 112 Copynumber: 19.6 Consensus size: 112
95224519 TTTGTTTGCC
95224529 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95224594 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95224641 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95224706 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95224753 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95224818 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95224865 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95224930 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95224977 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95225042 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95225089 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95225154 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95225201 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95225266 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95225313 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95225378 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95225425 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95225490 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95225537 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95225602 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95225649 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95225714 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95225761 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95225826 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95225873 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95225938 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95225985 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95226050 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95226097 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95226162 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95226209 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95226274 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95226321 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95226386 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95226433 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
95226498 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95226545 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
*
95226610 AAGGACTTTATTAAATGATGCTCCCACTATTTTATTCAAAACAATTT
66 AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
95226657 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCAT
1 ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCAT
95226719 ATCCTCATGT
Statistics
Matches: 2077, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 2077 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (112 bp):
ATAATAAATCTACAAGAGTGAAATATGTGCATGAGTAAATTTACCAAGTTTATTATAACCATTAA
AAGGACTTTATTAAATGATGCTCCCACTACTTTATTCAAAACAATTT
Found at i:95227272 original size:13 final size:13
Alignment explanation
Indices: 95227254--95227281 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
95227244 AAAAATTGCA
95227254 AGACACCATAGCT
1 AGACACCATAGCT
95227267 AGACACCATAGCT
1 AGACACCATAGCT
95227280 AG
1 AG
95227282 GGTTTGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.29, G:0.18, T:0.14
Consensus pattern (13 bp):
AGACACCATAGCT
Found at i:95227360 original size:17 final size:18
Alignment explanation
Indices: 95227328--95227362 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
95227318 ATCCTAGCCC
*
95227328 CATTTTTAATGTTCTTTG
1 CATTTTTAAAGTTCTTTG
95227346 CATTTTTAAAG-TCTTTG
1 CATTTTTAAAGTTCTTTG
95227363 AAGCATGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (18 bp):
CATTTTTAAAGTTCTTTG
Found at i:95240810 original size:50 final size:50
Alignment explanation
Indices: 95240753--95240852 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
95240743 GCCCAAGCGA
* *
95240753 TTTGAAACTTTAACCACAAATTCAGTGAATTCAACAAATAAATTTTTAAC
1 TTTGAAACTTTAACCACAAATTCAATAAATTCAACAAATAAATTTTTAAC
* * *
95240803 TTTGAAACTTTAACTACAAATTCAATAAATTCAATAGATAAATTTTTAAC
1 TTTGAAACTTTAACCACAAATTCAATAAATTCAACAAATAAATTTTTAAC
95240853 AGACACTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (50 bp):
TTTGAAACTTTAACCACAAATTCAATAAATTCAACAAATAAATTTTTAAC
Found at i:95244719 original size:40 final size:40
Alignment explanation
Indices: 95244673--95244892 Score: 253
Period size: 40 Copynumber: 5.5 Consensus size: 40
95244663 CTTGCACAAG
** * * * * * *
95244673 GCCTTCGGGTTTTAGCCCAGATGTGGTCACTAGCATAAGT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTAGCAAAAAT
* *
95244713 GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTAGCAAAAAT
95244753 GCCTTCGGGACTTAGCCCGGATATAGTAACTAGCAAAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTAGCAAAAAT
* * * **
95244793 GCCTTCGGGACTTAGCCCGGATGTAATAACTCGCGCAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTAGCAAAAAT
* * *
95244833 GCCTTTGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAAAT
1 GCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGC-AAAAAT
95244874 GCCTTCGGGACTTAGCCCG
1 GCCTTCGGGACTTAGCCCG
95244893 ATTATCATCC
Statistics
Matches: 154, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 132 0.86
41 22 0.14
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTAACTAGCAAAAAT
Found at i:95244769 original size:80 final size:79
Alignment explanation
Indices: 95244637--95244892 Score: 304
Period size: 80 Copynumber: 3.2 Consensus size: 79
95244627 CTCAAGTAAT
* * * ** * * *
95244637 CTTCGGGATTTAG-CCGGATATAACT-ACTTGCAC-AAGGCCTTCGGGTTTTAGCCCAGATGTGG
1 CTTCGGGACTTAGCCCGGATATAA-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
95244699 TCACTAGCATAAGTGC
65 TCACTAGCA-AAATGC
*
95244715 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
95244780 AACTAGCAAAAATGC
66 CACTAGC-AAAATGC
* * *
95244795 CTTCGGGACTTAGCCCGGATGTAATAACTCGCGCAAATGCCTTTGGGACTTAGCCCGGA-ACTAG
1 CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAG
95244859 TCACTAGCGCAAAATGC
65 TCACTA--GCAAAATGC
95244876 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCG
95244893 ATTATCATCC
Statistics
Matches: 155, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
78 13 0.08
79 17 0.11
80 98 0.63
81 25 0.16
82 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCAAAATGC
Found at i:95262524 original size:15 final size:15
Alignment explanation
Indices: 95262504--95262534 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
95262494 CACTTTCTTG
95262504 AAAATATTTCAAAAA
1 AAAATATTTCAAAAA
*
95262519 AAAATATTTTAAAAA
1 AAAATATTTCAAAAA
95262534 A
1 A
95262535 TATTTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATATTTCAAAAA
Found at i:95262532 original size:12 final size:12
Alignment explanation
Indices: 95262517--95262543 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
95262507 ATATTTCAAA
95262517 AAAAAATATTTT
1 AAAAAATATTTT
95262529 AAAAAATATTTT
1 AAAAAATATTTT
95262541 AAA
1 AAA
95262544 TGATACAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAAAAATATTTT
Found at i:95263113 original size:84 final size:84
Alignment explanation
Indices: 95263022--95263192 Score: 306
Period size: 84 Copynumber: 2.0 Consensus size: 84
95263012 TATTGCCAAC
* *
95263022 AAAATCAAAATGAAGATGCAAAACCAGTTCAAATTTTAATCATCTTCTTTGGCATCAGCTAAATT
1 AAAATCAAAATGAAGATGCAAAACCAGTTCAAATTTGAACCATCTTCTTTGGCATCAGCTAAATT
95263087 ACATTACATCTATATTAAT
66 ACATTACATCTATATTAAT
* *
95263106 AAAATCAAAATGAAGATGCAAAACCAGTTCAAATTTGAACCATCTTCTTTGGCATCAGTTGAATT
1 AAAATCAAAATGAAGATGCAAAACCAGTTCAAATTTGAACCATCTTCTTTGGCATCAGCTAAATT
95263171 ACATTACATCTATATTAAT
66 ACATTACATCTATATTAAT
95263190 AAA
1 AAA
95263193 GCCTGTAACA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.32
Consensus pattern (84 bp):
AAAATCAAAATGAAGATGCAAAACCAGTTCAAATTTGAACCATCTTCTTTGGCATCAGCTAAATT
ACATTACATCTATATTAAT
Found at i:95269446 original size:48 final size:48
Alignment explanation
Indices: 95269379--95269502 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 48
95269369 ATACATTGAT
* * * * *
95269379 TTGGCTCCAGGCCATGATATTGGCACTTCGGGTGTGAGCT-TCACTGAT
1 TTGGCTTCGGGCCATGATATTGGCACTTCGAGTGTGAGATAT-ACTGAG
* *
95269427 TTGGCTAT-GGGCCATGATATTAGCACTTCGAGTGTGAGATATATTGAG
1 TTGGCT-TCGGGCCATGATATTGGCACTTCGAGTGTGAGATATACTGAG
*
95269475 TTGGCTTCGGGCCATGATTTTGGCACTT
1 TTGGCTTCGGGCCATGATATTGGCACTT
95269503 AGTGTGCGAG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
47 1 0.02
48 62 0.97
49 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.34
Consensus pattern (48 bp):
TTGGCTTCGGGCCATGATATTGGCACTTCGAGTGTGAGATATACTGAG
Found at i:95272019 original size:46 final size:46
Alignment explanation
Indices: 95271966--95272141 Score: 228
Period size: 46 Copynumber: 3.8 Consensus size: 46
95271956 TATTTGGGCA
95271966 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*** * * * * *
95272012 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ACG
*
95272059 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
95272105 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95272142 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
46 73 0.67
47 36 0.33
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:95272121 original size:93 final size:93
Alignment explanation
Indices: 95271962--95272133 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
95271952 AGGATATTTG
*
95271962 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
95272027 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
95272055 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
95272120 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
95272134 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:95275085 original size:15 final size:15
Alignment explanation
Indices: 95275065--95275133 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
95275055 GTATCTTGGG
95275065 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
95275080 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
95275095 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
95275110 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
95275125 TTTCTTTAT
1 TTTCTTTAT
95275134 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:95275134 original size:30 final size:30
Alignment explanation
Indices: 95275056--95275143 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
95275046 CATAGTATCG
* * * *
95275056 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
95275086 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
95275116 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
95275144 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:95277585 original size:46 final size:46
Alignment explanation
Indices: 95277535--95277710 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
95277525 TGGTTGAGCA
95277535 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
95277581 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
95277626 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
95277674 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95277711 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:95277691 original size:93 final size:93
Alignment explanation
Indices: 95277532--95277702 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
95277522 GGATGGTTGA
* *
95277532 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
95277597 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
95277625 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
95277690 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
95277703 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:95281994 original size:29 final size:29
Alignment explanation
Indices: 95281946--95282040 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
95281936 AAGTCTACAT
* *
95281946 ACATGCATATGGCTCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * * *
95281975 TCTTTTATATGGCCCATTAGGCCTAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
95282004 ACATTCATATGGCCCATTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
95282032 AAATTCATA
1 ACATTCATA
95282041 GTCATGCAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
28 12 0.22
29 43 0.78
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:95283737 original size:17 final size:18
Alignment explanation
Indices: 95283715--95283748 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
95283705 CACATTGAAG
95283715 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
95283732 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
95283749 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:95285039 original size:28 final size:28
Alignment explanation
Indices: 95284984--95285102 Score: 105
Period size: 28 Copynumber: 4.2 Consensus size: 28
95284974 GATCCATACT
* * * *
95284984 TATTCATTTGGTCCATTTAGGCCCAATCT
1 TATTCATATGGCCCA-TCAGGCCCAATCA
* *
95285013 TATTCATATGGCTCATCGGGCCCAATCA
1 TATTCATATGGCCCATCAGGCCCAATCA
* *
95285041 CATCCATATGGCCCATCAGGCCCAATCA
1 TATTCATATGGCCCATCAGGCCCAATCA
* * *
95285069 CT-TTCATATGGCCCGTTAGGCCCAAGCA
1 -TATTCATATGGCCCATCAGGCCCAATCA
*
95285097 CATTCA
1 TATTCA
95285103 GAGTCATGCA
Statistics
Matches: 72, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
28 60 0.83
29 12 0.17
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (28 bp):
TATTCATATGGCCCATCAGGCCCAATCA
Found at i:95287189 original size:7 final size:7
Alignment explanation
Indices: 95287177--95287305 Score: 195
Period size: 7 Copynumber: 18.0 Consensus size: 7
95287167 TCAGAGAAGT
95287177 CTAAACC
1 CTAAACC
95287184 CTAAACC
1 CTAAACC
95287191 CTAAACC
1 CTAAACC
95287198 CTAAACC
1 CTAAACC
95287205 CTAAACC
1 CTAAACC
95287212 CTAAACC
1 CTAAACC
95287219 CTAAACCCC
1 CTAAA--CC
95287228 CTAAACC
1 CTAAACC
95287235 CTAAACC
1 CTAAACC
95287242 CTAAACC
1 CTAAACC
*
95287249 ATAAACC
1 CTAAACC
*
95287256 ATAAACC
1 CTAAACC
95287263 CTAAACC
1 CTAAACC
*
95287270 CTAAAAC
1 CTAAACC
95287277 CTAAAACC
1 CT-AAACC
95287285 CTAAACC
1 CTAAACC
*
95287292 TTAAACC
1 CTAAACC
95287299 CTAAACC
1 CTAAACC
95287306 AAGTTTCTAT
Statistics
Matches: 113, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
7 100 0.88
8 6 0.05
9 7 0.06
ACGTcount: A:0.45, C:0.40, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:95293507 original size:27 final size:28
Alignment explanation
Indices: 95293477--95293533 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
95293467 ACATGAATGG
*
95293477 AATAATTAGTTCTAGTTATTA-AATATA
1 AATAATTAGTTCTAGCTATTATAATATA
*
95293504 AATAATTAGTTCTAGCTATTATACTATA
1 AATAATTAGTTCTAGCTATTATAATATA
95293532 AA
1 AA
95293534 AAAAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
AATAATTAGTTCTAGCTATTATAATATA
Found at i:95294056 original size:18 final size:18
Alignment explanation
Indices: 95294029--95294071 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
95294019 CGCATAAAAA
* *
95294029 GAAAGCAAATAAATAAAT
1 GAAAGAAAATAAACAAAT
95294047 GAAAGAAAATAAACAAAT
1 GAAAGAAAATAAACAAAT
95294065 GAAAGAA
1 GAAAGAA
95294072 GGGGGAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.70, C:0.05, G:0.14, T:0.12
Consensus pattern (18 bp):
GAAAGAAAATAAACAAAT
Found at i:95295046 original size:37 final size:37
Alignment explanation
Indices: 95294998--95295071 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
95294988 AAGAAGGAGA
*
95294998 AGAAGGAACCGAGAAGAGAGTATAAGCAACAACTGGG
1 AGAAGGAACCGAGAAGAGAATATAAGCAACAACTGGG
*
95295035 AGAAGGAACCGAGAAGAGAATATCAGCAACAACTGGG
1 AGAAGGAACCGAGAAGAGAATATAAGCAACAACTGGG
95295072 CTTATTACAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.46, C:0.15, G:0.31, T:0.08
Consensus pattern (37 bp):
AGAAGGAACCGAGAAGAGAATATAAGCAACAACTGGG
Found at i:95295783 original size:7 final size:7
Alignment explanation
Indices: 95295745--95295816 Score: 51
Period size: 7 Copynumber: 10.1 Consensus size: 7
95295735 TACATTAAAT
95295745 AATAATA
1 AATAATA
**
95295752 AATTCTA
1 AATAATA
95295759 AATATACTA
1 AATA-A-TA
95295768 AAT-ATA
1 AATAATA
95295774 AATAATA
1 AATAATA
95295781 AATAATA
1 AATAATA
*
95295788 ACTAA-A
1 AATAATA
95295794 TAATAACTA
1 -AATAA-TA
*
95295803 AAT-AGA
1 AATAATA
95295809 AATAATA
1 AATAATA
95295816 A
1 A
95295817 TATATGAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
6 10 0.20
7 31 0.62
8 3 0.06
9 6 0.12
ACGTcount: A:0.64, C:0.06, G:0.01, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:95295793 original size:11 final size:11
Alignment explanation
Indices: 95295774--95295806 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
95295764 ACTAAATATA
95295774 AATAA-TAAAT
1 AATAACTAAAT
95295784 AATAACTAAAT
1 AATAACTAAAT
95295795 AATAACTAAAT
1 AATAACTAAAT
95295806 A
1 A
95295807 GAAATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAACTAAAT
Found at i:95295803 original size:35 final size:33
Alignment explanation
Indices: 95295740--95295816 Score: 95
Period size: 35 Copynumber: 2.3 Consensus size: 33
95295730 TAACTTACAT
*
95295740 TAAATAAT-AATAAATTCTAAATATACTAAATA
1 TAAATAATAAATAAATACTAAATATACTAAATA
95295772 TAAATAATAAAT-AATAACTAAATAATAACTAAATA
1 TAAATAATAAATAAAT-ACTAAAT-AT-ACTAAATA
*
95295807 GAAATAATAA
1 TAAATAATAA
95295817 TATATGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
32 11 0.28
33 9 0.23
34 2 0.05
35 17 0.44
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (33 bp):
TAAATAATAAATAAATACTAAATATACTAAATA
Found at i:95296029 original size:31 final size:33
Alignment explanation
Indices: 95295964--95296034 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
95295954 ATGAAAAATT
*
95295964 ATTAAATTAATAATTTATTTTAATTATACTTAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
* *
95295997 ATTAAATTATTAATTT-TTCTATTTA-ACTTAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
95296028 ATTAAAT
1 ATTAAAT
95296035 ATTTTAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 13 0.37
32 7 0.20
33 15 0.43
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (33 bp):
ATTAAATTAATAATTTATTCTAATTATACTTAA
Found at i:95296051 original size:7 final size:7
Alignment explanation
Indices: 95296039--95296182 Score: 68
Period size: 7 Copynumber: 19.7 Consensus size: 7
95296029 TTAAATATTT
95296039 TAATAAA
1 TAATAAA
95296046 TAATAAA
1 TAATAAA
**
95296053 TTCTAAA
1 TAATAAA
95296060 TATACTAAA
1 TA-A-TAAA
**
95296069 TTTCTAAA
1 -TAATAAA
95296077 TATACTAAA
1 TA-A-TAAA
95296086 T-ATAAA
1 TAATAAA
*
95296092 TAATAAC
1 TAATAAA
95296099 TAA-ATAA
1 TAATA-AA
95296106 TAACTAAA
1 TAA-TAAA
95296114 T-ATAAA
1 TAATAAA
*
95296120 TTATAAA
1 TAATAAA
95296127 TAGATAATA
1 TA-ATAA-A
95296136 TAAT-AA
1 TAATAAA
95296142 TAGATAATA
1 TA-ATAA-A
95296151 TAAT-AA
1 TAATAAA
95296157 TAGATAGAA
1 TA-ATA-AA
95296166 TAAT-AA
1 TAATAAA
95296172 -AATAAA
1 TAATAAA
95296178 TAATA
1 TAATA
95296183 TAGAAATATA
Statistics
Matches: 106, Mismatches: 11, Indels: 40
0.68 0.07 0.25
Matches are distributed among these distances:
5 3 0.03
6 21 0.20
7 43 0.41
8 18 0.17
9 20 0.19
10 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (7 bp):
TAATAAA
Found at i:95296061 original size:290 final size:287
Alignment explanation
Indices: 95295533--95296063 Score: 949
Period size: 290 Copynumber: 1.8 Consensus size: 287
95295523 AGTTGCCAAA
*
95295533 ATGAAAATAAAAAAAAAATTAGAAGGGGGTCAGTCAAACTTCTGTAATCTGTAATGTAACTTGAA
1 ATGAAAATAAAAAAAAAATGAGAAGGGGGTCAGTCAAACTTCTGTAATCTGTAATGTAACTTGAA
95295598 TGAAATAAATAGAATTTGAATGATGAATGAAAAGAAAATAATAAAATCGAAATCATAATAAAAAA
66 TGAAATAAATAGAATTTGAATGATGAATGAAAAGAAAATAATAAAATCGAAATCATAATAAAAAA
95295663 AATGAAAAATTATTAAATTAATAATTTATTTTAATTATACTTAAATTAAATTATTAATTTTTCTA
131 AATGAAAAATTATTAAATTAATAATTTATTTTAATTATACTTAAATTAAATTATTAATTTTTCTA
* **
95295728 TTTAACTTACATTAAATAATAATAAATTCTAAATATACTAAATATAAATAATAAATAATAACTAA
196 TTTAACTTAAATTAAATAATAATAAATAATAAATATACTAAATATAAATAATAAATAATAACTAA
95295793 ATAATAACTAAATAGAAATAATAATAT
261 ATAATAACTAAATAGAAATAATAATAT
*
95295820 ATGAAAATAAAAAAAAAAATGAGAGGGGGGGGTCAGTCAAACTTCTGTAATCTGTAATGTAACTT
1 ATGAAAAT-AAAAAAAAAATGAGA--AGGGGGTCAGTCAAACTTCTGTAATCTGTAATGTAACTT
95295885 GAATGAAATAAATAGAATTTGAATGATGAATGAAAAGAAAATAATAAAATCGAAATCATAATAAA
63 GAATGAAATAAATAGAATTTGAATGATGAATGAAAAGAAAATAATAAAATCGAAATCATAATAAA
95295950 AAAAATGAAAAATTATTAAATTAATAATTTATTTTAATTATACTTAAATTAAATTATTAATTTTT
128 AAAAATGAAAAATTATTAAATTAATAATTTATTTTAATTATACTTAAATTAAATTATTAATTTTT
*
95296015 CTATTTAACTTAAATTAAATATTTTAATAAATAATAAAT-T-CTAAATATA
193 CTATTTAACTTAAATTAAATA--ATAATAAATAATAAATATACTAAATATA
95296064 CTAAATTTCT
Statistics
Matches: 233, Mismatches: 6, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
287 8 0.03
288 14 0.06
290 197 0.85
291 1 0.00
292 13 0.06
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (287 bp):
ATGAAAATAAAAAAAAAATGAGAAGGGGGTCAGTCAAACTTCTGTAATCTGTAATGTAACTTGAA
TGAAATAAATAGAATTTGAATGATGAATGAAAAGAAAATAATAAAATCGAAATCATAATAAAAAA
AATGAAAAATTATTAAATTAATAATTTATTTTAATTATACTTAAATTAAATTATTAATTTTTCTA
TTTAACTTAAATTAAATAATAATAAATAATAAATATACTAAATATAAATAATAAATAATAACTAA
ATAATAACTAAATAGAAATAATAATAT
Found at i:95296075 original size:17 final size:17
Alignment explanation
Indices: 95296049--95296086 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
95296039 TAATAAATAA
95296049 TAAA-TTCTAAATATAC
1 TAAATTTCTAAATATAC
95296065 TAAATTTCTAAATATAC
1 TAAATTTCTAAATATAC
95296082 TAAAT
1 TAAAT
95296087 ATAAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATTTCTAAATATAC
Found at i:95296115 original size:28 final size:28
Alignment explanation
Indices: 95296072--95296182 Score: 88
Period size: 28 Copynumber: 4.0 Consensus size: 28
95296062 TACTAAATTT
95296072 CTAAAT-AT-ACTAAATATAAATAATAA
1 CTAAATAATAACTAAATATAAATAATAA
*
95296098 CTAAATAATAACTAAATATAAATTATAA
1 CTAAATAATAACTAAATATAAATAATAA
* * * *
95296126 ATAGATAATATAATAATAGATAATATAATAA
1 CTAAATAATA-ACTAA-ATATAA-ATAATAA
*
95296157 -TAGATAGAATAA-TAAA-ATAAATAATA
1 CTA-A-ATAATAACTAAATATAAATAATA
95296183 TAGAAATATA
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
26 6 0.09
27 8 0.11
28 29 0.41
29 5 0.07
30 10 0.14
31 7 0.10
32 5 0.07
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (28 bp):
CTAAATAATAACTAAATATAAATAATAA
Found at i:95296143 original size:15 final size:15
Alignment explanation
Indices: 95296125--95296192 Score: 85
Period size: 15 Copynumber: 4.9 Consensus size: 15
95296115 ATAAATTATA
95296125 AATAGATAATATAAT
1 AATAGATAATATAAT
95296140 AATAGATAATATAAT
1 AATAGATAATATAAT
95296155 AATAGATAGA-ATAAT
1 AATAGATA-ATATAAT
95296170 AA-A-ATAA-ATAAT
1 AATAGATAATATAAT
95296182 -ATAGA-AATATA
1 AATAGATAATATA
95296193 GATTTATAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.02
12 9 0.18
13 7 0.14
14 1 0.02
15 30 0.61
16 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (15 bp):
AATAGATAATATAAT
Found at i:95296151 original size:35 final size:35
Alignment explanation
Indices: 95296072--95296172 Score: 93
Period size: 35 Copynumber: 2.8 Consensus size: 35
95296062 TACTAAATTT
*
95296072 CTAAATATACTAAATATAAATA-ATAACTAAATAATAA
1 CTAAATATA--AATTATAAATAGATAA-TAAATAATAA
95296109 CTAAATATAAATTATAAATAGATAATATAATAATAGA
1 CTAAATATAAATTATAAATAGATAATA-AATAATA-A
* *
95296146 -T-AATAT-AATAATAGATAGAATAATAAA
1 CTAAATATAAATTATAAATAG-ATAATAAA
95296173 ATAAATAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
34 12 0.21
35 23 0.40
36 12 0.21
37 10 0.18
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (35 bp):
CTAAATATAAATTATAAATAGATAATAAATAATAA
Found at i:95296153 original size:12 final size:10
Alignment explanation
Indices: 95296087--95296182 Score: 63
Period size: 11 Copynumber: 9.0 Consensus size: 10
95296077 TATACTAAAT
95296087 ATAAATAATA
1 ATAAATAATA
95296097 ACTAAATAATA
1 A-TAAATAATA
*
95296108 ACTAAATATAAATT
1 A-T-AA-AT-AATA
95296122 ATAAATAGATA
1 ATAAATA-ATA
95296133 ATATAATAATA
1 ATA-AATAATA
95296144 GATAATATAATA
1 -ATAA-ATAATA
* *
95296156 ATAGAT-AGA
1 ATAAATAATA
95296165 AT-AATAA-A
1 ATAAATAATA
95296173 ATAAATAATA
1 ATAAATAATA
95296183 TAGAAATATA
Statistics
Matches: 70, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
8 5 0.07
9 10 0.14
10 5 0.07
11 26 0.37
12 17 0.24
13 3 0.04
14 4 0.06
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (10 bp):
ATAAATAATA
Found at i:95296623 original size:22 final size:22
Alignment explanation
Indices: 95296597--95296640 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
95296587 TTATCTCTTT
95296597 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
95296619 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
95296641 AAATCGAGAG
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:0.55, C:0.05, G:0.23, T:0.18
Consensus pattern (22 bp):
TGATTGAAAAGGAGCAATAAAA
Found at i:95300537 original size:85 final size:85
Alignment explanation
Indices: 95300391--95300569 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
95300381 GGCCGGCCAT
*
95300391 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
95300456 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
95300476 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
95300541 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
95300561 GAGCATGGG
1 GAGCATGGG
95300570 CAATAAAAAA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:95310389 original size:46 final size:46
Alignment explanation
Indices: 95310301--95310395 Score: 118
Period size: 46 Copynumber: 2.1 Consensus size: 46
95310291 NNNNNNNNNN
* * * *
95310301 TATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGGA
1 TATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGGA
* * * *
95310347 TATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATGTA
1 TATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGGA
95310393 TAT
1 TAT
95310396 ATATATTGTG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (46 bp):
TATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGGA
Found at i:95311065 original size:7 final size:6
Alignment explanation
Indices: 95311031--95311073 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
95311021 TTTGCAACCC
* *
95311031 AAGGGG AAGGGG AAAGGG AAGGGG AGGGGG AAGGGGG AAGGGG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AA-GGGG AAGGGG
95311074 TGTAACAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:95313510 original size:42 final size:42
Alignment explanation
Indices: 95313451--95313530 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
95313441 GACACACGGG
*
95313451 CGTGTCTAAAGCTGTGTGAGGCACACAGCCTGTTCACATGTC
1 CGTGTCTAAAGCCGTGTGAGGCACACAGCCTGTTCACATGTC
*
95313493 CGTGTCTAAAGCCGTGTGAGGCACACGGCCTGTTCACA
1 CGTGTCTAAAGCCGTGTGAGGCACACAGCCTGTTCACA
95313531 CGGGTGTGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.24
Consensus pattern (42 bp):
CGTGTCTAAAGCCGTGTGAGGCACACAGCCTGTTCACATGTC
Found at i:95324682 original size:30 final size:30
Alignment explanation
Indices: 95324647--95324704 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
95324637 CTGAGCCTAG
*
95324647 GGGCAAAATCGTAA-TTCTGTAAAAGTTTAT
1 GGGCAAAATCGTAACTT-TGCAAAAGTTTAT
*
95324677 GGGCAAAATTGTAACTTTGCAAAAGTTT
1 GGGCAAAATCGTAACTTTGCAAAAGTTT
95324705 GAGTTAGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (30 bp):
GGGCAAAATCGTAACTTTGCAAAAGTTTAT
Done.