Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 200 of 322
Found at i:65685791 original size:18 final size:18
Alignment explanation
Indices: 65685770--65685804 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
65685760 GTGTAGCTAA
65685770 GTCCTGACTGTCAGCTTT
1 GTCCTGACTGTCAGCTTT
65685788 GTCCTGACTGTCAGCTT
1 GTCCTGACTGTCAGCTT
65685805 ATGTGAGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.29, G:0.23, T:0.37
Consensus pattern (18 bp):
GTCCTGACTGTCAGCTTT
Found at i:65688698 original size:37 final size:37
Alignment explanation
Indices: 65688617--65688698 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
65688607 TGTGAGTACG
* * *
65688617 TGTAAGACCATAGCTGGGCTATGGCATCGTAATGACA
1 TGTAAGACAATAGCTGGGCTATGGCATCATAATCACA
* * * *
65688654 TGAAAGACAATAGCTGGGCTATGGCATTATGATCCCA
1 TGTAAGACAATAGCTGGGCTATGGCATCATAATCACA
65688691 TGTAAGAC
1 TGTAAGAC
65688699 CATGTCTAGG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (37 bp):
TGTAAGACAATAGCTGGGCTATGGCATCATAATCACA
Found at i:65688741 original size:48 final size:48
Alignment explanation
Indices: 65688683--65688813 Score: 190
Period size: 48 Copynumber: 2.7 Consensus size: 48
65688673 TATGGCATTA
*
65688683 TGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* * * *
65688731 TGATCCCATGTAAGACCATATCTGGGAAATGGCCTTGGCATCGTTATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
** *
65688779 TGATTTCGTGTAAGACCATGTCTGGGACATGGCAT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCAT
65688814 CCATACGAGA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
Found at i:65692697 original size:202 final size:202
Alignment explanation
Indices: 65692351--65692755 Score: 810
Period size: 202 Copynumber: 2.0 Consensus size: 202
65692341 GTTTGATAGT
65692351 AAGATTTAACCTTCGGCGACCTCCAACTCGAGCTAACATCTGCGACACTATAGGAAAAAGGAAAG
1 AAGATTTAACCTTCGGCGACCTCCAACTCGAGCTAACATCTGCGACACTATAGGAAAAAGGAAAG
65692416 GAAGGGAGTAAGCATTATAGCTTAGTAAGTAAGTATATAAATATTAATAAAAAATACATTATCAT
66 GAAGGGAGTAAGCATTATAGCTTAGTAAGTAAGTATATAAATATTAATAAAAAATACATTATCAT
65692481 ACTTTAAACAAAGTCATAATATGTTCCCGAAATATTACCATCACAAACACACATACTTTCACTAT
131 ACTTTAAACAAAGTCATAATATGTTCCCGAAATATTACCATCACAAACACACATACTTTCACTAT
65692546 TACAATC
196 TACAATC
65692553 AAGATTTAACCTTCGGCGACCTCCAACTCGAGCTAACATCTGCGACACTATAGGAAAAAGGAAAG
1 AAGATTTAACCTTCGGCGACCTCCAACTCGAGCTAACATCTGCGACACTATAGGAAAAAGGAAAG
65692618 GAAGGGAGTAAGCATTATAGCTTAGTAAGTAAGTATATAAATATTAATAAAAAATACATTATCAT
66 GAAGGGAGTAAGCATTATAGCTTAGTAAGTAAGTATATAAATATTAATAAAAAATACATTATCAT
65692683 ACTTTAAACAAAGTCATAATATGTTCCCGAAATATTACCATCACAAACACACATACTTTCACTAT
131 ACTTTAAACAAAGTCATAATATGTTCCCGAAATATTACCATCACAAACACACATACTTTCACTAT
65692748 TACAATC
196 TACAATC
65692755 A
1 A
65692756 TAAACAGGTT
Statistics
Matches: 203, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
202 203 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (202 bp):
AAGATTTAACCTTCGGCGACCTCCAACTCGAGCTAACATCTGCGACACTATAGGAAAAAGGAAAG
GAAGGGAGTAAGCATTATAGCTTAGTAAGTAAGTATATAAATATTAATAAAAAATACATTATCAT
ACTTTAAACAAAGTCATAATATGTTCCCGAAATATTACCATCACAAACACACATACTTTCACTAT
TACAATC
Found at i:65693794 original size:64 final size:63
Alignment explanation
Indices: 65693615--65693866 Score: 222
Period size: 68 Copynumber: 3.9 Consensus size: 63
65693605 CATAATTTTG
* * * *
65693615 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAG-T-CAGTTTATCTCGTA
1 GCTCTCTTGT-CACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATCTCGTA
* * * * * *
65693678 GCTCTCTTGTCACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATATCCCGT
1 GCTCTCTTGTCACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATCTCGT
65693743 A
63 A
*
65693744 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTC-ACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-A--TCTC
65693809 GTA
61 GTA
* * * ** *
65693812 GCTCTCTTGTACACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTACATA
65693867 CCATCTGTAT
Statistics
Matches: 154, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
62 9 0.06
63 10 0.06
64 28 0.18
65 23 0.15
66 22 0.14
67 12 0.08
68 49 0.32
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (63 bp):
GCTCTCTTGTCACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCTCGTA
Found at i:65694365 original size:30 final size:30
Alignment explanation
Indices: 65694331--65694391 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
65694321 TCCTTAACTC
65694331 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
65694361 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
65694391 A
1 A
65694392 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:65695854 original size:173 final size:173
Alignment explanation
Indices: 65695565--65695910 Score: 692
Period size: 173 Copynumber: 2.0 Consensus size: 173
65695555 ACTCGGTATG
65695565 GCCTCTATCTTAATTGAAAACTATTTCCAATTCTCACATTTGCTTTCACTTTTTTTAACCAAAAA
1 GCCTCTATCTTAATTGAAAACTATTTCCAATTCTCACATTTGCTTTCACTTTTTTTAACCAAAAA
65695630 CTCTGCATTCAGCTATTAATACAACTCAATCATTATTCTTCTATCTAATTTTGTCATTACTAAAT
66 CTCTGCATTCAGCTATTAATACAACTCAATCATTATTCTTCTATCTAATTTTGTCATTACTAAAT
65695695 CCACATTATCTCATTCACAATCAAAATTTATTTTTTTAAAAAA
131 CCACATTATCTCATTCACAATCAAAATTTATTTTTTTAAAAAA
65695738 GCCTCTATCTTAATTGAAAACTATTTCCAATTCTCACATTTGCTTTCACTTTTTTTAACCAAAAA
1 GCCTCTATCTTAATTGAAAACTATTTCCAATTCTCACATTTGCTTTCACTTTTTTTAACCAAAAA
65695803 CTCTGCATTCAGCTATTAATACAACTCAATCATTATTCTTCTATCTAATTTTGTCATTACTAAAT
66 CTCTGCATTCAGCTATTAATACAACTCAATCATTATTCTTCTATCTAATTTTGTCATTACTAAAT
65695868 CCACATTATCTCATTCACAATCAAAATTTATTTTTTTAAAAAA
131 CCACATTATCTCATTCACAATCAAAATTTATTTTTTTAAAAAA
65695911 ATCCAGCAAT
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 173 1.00
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.42
Consensus pattern (173 bp):
GCCTCTATCTTAATTGAAAACTATTTCCAATTCTCACATTTGCTTTCACTTTTTTTAACCAAAAA
CTCTGCATTCAGCTATTAATACAACTCAATCATTATTCTTCTATCTAATTTTGTCATTACTAAAT
CCACATTATCTCATTCACAATCAAAATTTATTTTTTTAAAAAA
Found at i:65700099 original size:250 final size:250
Alignment explanation
Indices: 65699652--65700149 Score: 978
Period size: 250 Copynumber: 2.0 Consensus size: 250
65699642 ATGATATGAT
*
65699652 GAGATTGAGAATGTAAGTATGTAAGCTGAGTAGCATTTTATTATTATGCAATTATTATTATTAGT
1 GAGATAGAGAATGTAAGTATGTAAGCTGAGTAGCATTTTATTATTATGCAATTATTATTATTAGT
65699717 ATTGTTATTATTGAGTTATGCGACTAACCTTGAGAATTTGAGCAAGTATGTTTTAGCTATAACTT
66 ATTGTTATTATTGAGTTATGCGACTAACCTTGAGAATTTGAGCAAGTATGTTTTAGCTATAACTT
65699782 GACAAGACATTGATATCTCAAGTCCATGGTTGTACATGGCAATTAAGGAAGAATTGACTAAAAAA
131 GACAAGACATTGATATCTCAAGTCCATGGTTGTACATGGCAATTAAGGAAGAATTGACTAAAAAA
65699847 AGACCATGTTTGGAACATGACATTTGGTAAGACAAGGATACCATGTAAGACCAAA
196 AGACCATGTTTGGAACATGACATTTGGTAAGACAAGGATACCATGTAAGACCAAA
*
65699902 GAGATAGAGAATGTAAGTATGTAAGTTGAGTAGCATTTTATTATTATGCAATTATTATTATTAGT
1 GAGATAGAGAATGTAAGTATGTAAGCTGAGTAGCATTTTATTATTATGCAATTATTATTATTAGT
65699967 ATTGTTATTATTGAGTTATGCGACTAACCTTGAGAATTTGAGCAAGTATGTTTTAGCTATAACTT
66 ATTGTTATTATTGAGTTATGCGACTAACCTTGAGAATTTGAGCAAGTATGTTTTAGCTATAACTT
65700032 GACAAGACATTGATATCTCAAGTCCATGGTTGTACATGGCAATTAAGGAAGAATTGACTAAAAAA
131 GACAAGACATTGATATCTCAAGTCCATGGTTGTACATGGCAATTAAGGAAGAATTGACTAAAAAA
65700097 AGACCATGTTTGGAACATGACATTTGGTAAGACAAGGATACCATGTAAGACCA
196 AGACCATGTTTGGAACATGACATTTGGTAAGACAAGGATACCATGTAAGACCA
65700150 TGTTTGGAAC
Statistics
Matches: 246, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
250 246 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (250 bp):
GAGATAGAGAATGTAAGTATGTAAGCTGAGTAGCATTTTATTATTATGCAATTATTATTATTAGT
ATTGTTATTATTGAGTTATGCGACTAACCTTGAGAATTTGAGCAAGTATGTTTTAGCTATAACTT
GACAAGACATTGATATCTCAAGTCCATGGTTGTACATGGCAATTAAGGAAGAATTGACTAAAAAA
AGACCATGTTTGGAACATGACATTTGGTAAGACAAGGATACCATGTAAGACCAAA
Found at i:65700147 original size:47 final size:47
Alignment explanation
Indices: 65700096--65700199 Score: 190
Period size: 47 Copynumber: 2.2 Consensus size: 47
65700086 TGACTAAAAA
65700096 AAGACCATGTTTGGAACATGACATTTGGTAAGACAAGGATACCATGT
1 AAGACCATGTTTGGAACATGACATTTGGTAAGACAAGGATACCATGT
* *
65700143 AAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATACCATGT
1 AAGACCATGTTTGGAACATGACATTTGGTAAGACAAGGATACCATGT
65700190 AAGACCATGT
1 AAGACCATGT
65700200 CAAGACATGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
AAGACCATGTTTGGAACATGACATTTGGTAAGACAAGGATACCATGT
Found at i:65700502 original size:56 final size:55
Alignment explanation
Indices: 65700379--65700705 Score: 358
Period size: 54 Copynumber: 6.0 Consensus size: 55
65700369 AGATAAGGAT
* * * *
65700379 ATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGG-AAAAGAA
1 ATCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAAGGTA
* * *
65700433 ATCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTACTATAAGGCAAAGGTC
1 ATCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGCAAAGGTA
** * * * *
65700489 CCCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGG-AAAAGAA
1 ATCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAAGGTA
* * *
65700543 ATCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTACTATAAGGCAAAGGTC
1 ATCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGCAAAGGTA
** * *
65700599 CCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC-AAGG-A
1 ATCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAAGGTA
* * * * * *
65700651 TATCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCAAAAAGGAAAAGGT
1 -ATCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAAGGT
65700706 TCTCGAGTAA
Statistics
Matches: 226, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
53 37 0.16
54 84 0.37
55 29 0.13
56 76 0.34
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (55 bp):
ATCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAAGGTA
Found at i:65700574 original size:110 final size:110
Alignment explanation
Indices: 65700381--65700690 Score: 541
Period size: 110 Copynumber: 2.8 Consensus size: 110
65700371 ATAAGGATAT
65700381 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAAGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAAGAAATCATGTAAGACC
65700446 ATGTCAAGACATGGCATTGGTGAGTTACTATAAGGCAAAGGTCCC
66 ATGTCAAGACATGGCATTGGTGAGTTACTATAAGGCAAAGGTCCC
65700491 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAAGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAAGAAATCATGTAAGACC
65700556 ATGTCAAGACATGGCATTGGTGAGTTACTATAAGGCAAAGGTCCC
66 ATGTCAAGACATGGCATTGGTGAGTTACTATAAGGCAAAGGTCCC
* * * * * *
65700601 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATATCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAAGAAATCATGTAAGACC
* *
65700665 ATGTCAAGACATGGCAATGGTAAGTT
66 ATGTCAAGACATGGCATTGGTGAGTT
65700691 CAAAAAGGAA
Statistics
Matches: 192, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
109 46 0.24
110 146 0.76
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAAGAAATCATGTAAGACC
ATGTCAAGACATGGCATTGGTGAGTTACTATAAGGCAAAGGTCCC
Found at i:65708303 original size:51 final size:51
Alignment explanation
Indices: 65708238--65708411 Score: 190
Period size: 51 Copynumber: 3.4 Consensus size: 51
65708228 ATAGGCCGCA
* *
65708238 TGTGTAGTACTAAGTGCAAGCTACTATGCATATCCGTTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCCGTTAACTTCGATCACG
* * * * * ** * *
65708289 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGAT-GGTT-AAGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCCGTTAACTTCGA-TCACG
* *
65708339 TGTGTAGTACTAAGTGCAGGATACTATGCGTAGCCGTTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCCGTTAACTTCGATCACG
* *
65708390 TGTGCAGTACTAAGTGTAGGCT
1 TGTGTAGTACTAAGTGCAGGCT
65708412 GCTACGTGTA
Statistics
Matches: 95, Mismatches: 25, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
49 1 0.01
50 37 0.39
51 56 0.59
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCCGTTAACTTCGATCACG
Found at i:65708364 original size:50 final size:50
Alignment explanation
Indices: 65708181--65708515 Score: 260
Period size: 50 Copynumber: 6.7 Consensus size: 50
65708171 ATCCGTTGTG
* * *
65708181 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATA
1 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
* * * * * * * ** * * **
65708231 GGCCGCATGTGTAGTACTAAGTGCAAGCTACTATGCATATCCGTTAACTT-
1 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGAT-GGTTA
*
65708281 CGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
1 AG-TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
* * * * * * * * **
65708332 AGTCATGTGTGTAGTACTAAGTGCAGGATACTATGCGTAGCCGTTAACTT-
1 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGAT-GGTTA
* * *
65708382 CGATCACGTGTGCAGTACTAAGTGTAGGCTGCTACGTGTATCAGATGGTTA
1 AG-TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
* * * * * *
65708433 AGTCACGCGTGTAGTACTAAGTGTAGGATACTACATGTACCAGATTGATA
1 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
* * * *
65708483 GGTCACTTGTGTAGTACTTAGTGCAGGCTACTA
1 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTA
65708516 TGCGTACTAG
Statistics
Matches: 212, Mismatches: 67, Indels: 12
0.73 0.23 0.04
Matches are distributed among these distances:
50 141 0.67
51 71 0.33
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
Found at i:65708364 original size:101 final size:101
Alignment explanation
Indices: 65708183--65708465 Score: 422
Period size: 101 Copynumber: 2.8 Consensus size: 101
65708173 CCGTTGTGAG
* * * * * * *
65708183 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGCCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
* * *
65708248 TAAGTGCAAGCTACTATGCATATCCGTTAACTTCGA
66 TAAGTGCAGGATACTATGCATAGCCGTTAACTTCGA
*
65708284 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCATGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
*
65708349 TAAGTGCAGGATACTATGCGTAGCCGTTAACTTCGA
66 TAAGTGCAGGATACTATGCATAGCCGTTAACTTCGA
* * *
65708385 TCACGTGTGCAGTACTAAGTGTAGGCTGCTACGTGTATCAGATGGTTAAGTCACGCGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
*
65708450 TAAGTGTAGGATACTA
66 TAAGTGCAGGATACTA
65708466 CATGTACCAG
Statistics
Matches: 165, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 165 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
TAAGTGCAGGATACTATGCATAGCCGTTAACTTCGA
Found at i:65708744 original size:15 final size:15
Alignment explanation
Indices: 65708726--65708756 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
65708716 AGAATGGAGT
65708726 AAGTGAAATTATGTA
1 AAGTGAAATTATGTA
*
65708741 AAGTGAAATTTTGTA
1 AAGTGAAATTATGTA
65708756 A
1 A
65708757 TAAAATAATT
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:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
AAGTGAAATTATGTA
Found at i:65710313 original size:50 final size:49
Alignment explanation
Indices: 65710238--65710379 Score: 185
Period size: 50 Copynumber: 2.9 Consensus size: 49
65710228 ATAATTTAGA
65710238 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGT-AGG
* * * * *
65710288 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTTTACCGGATTGTTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAGG
* * * * *
65710337 TCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
65710380 AGCTTCGGCT
Statistics
Matches: 79, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 37 0.47
50 42 0.53
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAGG
Found at i:65714624 original size:40 final size:40
Alignment explanation
Indices: 65714530--65714674 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
65714520 TACTCGAATG
*
65714530 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
65714571 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
65714611 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
65714651 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
65714675 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:65726818 original size:11 final size:11
Alignment explanation
Indices: 65726799--65726835 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
65726789 GGTTAAAGTT
*
65726799 TTGGTTGTGAA
1 TTGGATGTGAA
65726810 TTGGATGTGAA
1 TTGGATGTGAA
65726821 TTGGATGTGAA
1 TTGGATGTGAA
65726832 TTGG
1 TTGG
65726836 TTAAGAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.41
Consensus pattern (11 bp):
TTGGATGTGAA
Found at i:65732172 original size:50 final size:48
Alignment explanation
Indices: 65732056--65732273 Score: 191
Period size: 49 Copynumber: 4.6 Consensus size: 48
65732046 ATGGGGTAGA
* * * * *
65732056 ATGCCGATTCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTG-CTCTCTATATCC
* *
65732105 AGGCCGACGCCATGTCCCCA-ACATGGTCTTACACTAGCTCTCGTATATCC
1 ATGCCGATGCCATGT-CCCAGACATGGTCTTACACT-GCTCTC-TATATCC
** * * *
65732155 ATGCCGATGCCATGTCCCAGACATGGTCTTGTACTG-ACAC-ATCT-C
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCTATATCC
*
65732200 ATAGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGT-T-TCA
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTC-TATATCC
*
65732247 ATGCCGATGCCATGTCCTAGACATGGT
1 ATGCCGATGCCATGTCCCAGACATGGT
65732274 GTTATACTAG
Statistics
Matches: 137, Mismatches: 20, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
44 8 0.06
45 18 0.13
46 20 0.15
47 16 0.12
48 4 0.03
49 36 0.26
50 35 0.26
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCTATATCC
Found at i:65741799 original size:19 final size:19
Alignment explanation
Indices: 65741765--65741803 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
65741755 AAGTTCGTAC
*
65741765 TTTGGCCCATTTTCTCTGTT
1 TTTGGCCCAGTTTCTC-GTT
65741785 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
65741803 T
1 T
65741804 CTTTCGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 6 0.33
20 8 0.44
ACGTcount: A:0.03, C:0.26, G:0.18, T:0.54
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:65742066 original size:75 final size:74
Alignment explanation
Indices: 65741943--65742093 Score: 293
Period size: 75 Copynumber: 2.0 Consensus size: 74
65741933 ACAATTTATG
65741943 AAATACCCCTACACTTAAGCATTTGCTTGTCCTCAAGCAAAATCCTCAACTCACAATCAAAATAA
1 AAATACCCCTACACTTAAGCATTTGCTTGTCCTCAAGCAAAATCCTCAACTCACAATCAAAATAA
65742008 ATTCTCCTC
66 ATTCTCCTC
65742017 NAAATACCCCTACACTTAAGCATTTGCTTGTCCTCAAGCAAAATCCTCAACTCACAATCAAAATA
1 -AAATACCCCTACACTTAAGCATTTGCTTGTCCTCAAGCAAAATCCTCAACTCACAATCAAAATA
65742082 AATTCTCCTC
65 AATTCTCCTC
65742092 AA
1 AA
65742094 CTTATAATTC
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 2 0.03
75 74 0.97
ACGTcount: A:0.37, C:0.30, G:0.05, T:0.26
Consensus pattern (74 bp):
AAATACCCCTACACTTAAGCATTTGCTTGTCCTCAAGCAAAATCCTCAACTCACAATCAAAATAA
ATTCTCCTC
Found at i:65752152 original size:15 final size:15
Alignment explanation
Indices: 65752128--65752190 Score: 83
Period size: 15 Copynumber: 4.2 Consensus size: 15
65752118 AGGAAACCGA
65752128 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
65752143 ATAGAGAAATCCAAA
1 ATAAAGAAATCCAAG
65752158 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
65752172 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
65752188 ATA
1 ATA
65752191 CGATACTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 1 0.02
15 38 0.93
16 2 0.05
ACGTcount: A:0.60, C:0.14, G:0.13, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:65767345 original size:58 final size:57
Alignment explanation
Indices: 65767267--65767375 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 57
65767257 CATTACAGAA
*
65767267 AGGATTTAGCCTGGACTGGTAATCCTGATATAATCCCTCTTGAGCATATGTTATAGAT
1 AGGATTTAGCCTGGACTGGTAATCCTGAT-TAAGCCCTCTTGAGCATATGTTATAGAT
* * *
65767325 AGGATTTAG-CTCGGATTGGTAATCCTGATTAAGCTCTTTTGAGCATATGTT
1 AGGATTTAGCCT-GGACTGGTAATCCTGATTAAGCCCTCTTGAGCATATGTT
65767376 GGAAACAGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.37
Consensus pattern (57 bp):
AGGATTTAGCCTGGACTGGTAATCCTGATTAAGCCCTCTTGAGCATATGTTATAGAT
Found at i:65767391 original size:57 final size:59
Alignment explanation
Indices: 65767267--65767392 Score: 159
Period size: 57 Copynumber: 2.2 Consensus size: 59
65767257 CATTACAGAA
* * * *
65767267 AGGATTTAGC-CTGGACTGGTAATCCTGATATAATCCCTCTTGAGCATATGTTATAGAT
1 AGGATTTAGCTCTGGACTGGTAATCCTGATATAAGCCCTCTTGAGCATATGTTAGAAAC
* * * *
65767325 AGGATTTAGCTC-GGATTGGTAATCCTGAT-TAAGCTCTTTTGAGCATATGTTGGAAAC
1 AGGATTTAGCTCTGGACTGGTAATCCTGATATAAGCCCTCTTGAGCATATGTTAGAAAC
65767382 AGGATTTAGCT
1 AGGATTTAGCT
65767393 TAGACAAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
57 32 0.54
58 26 0.44
59 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (59 bp):
AGGATTTAGCTCTGGACTGGTAATCCTGATATAAGCCCTCTTGAGCATATGTTAGAAAC
Found at i:65774383 original size:42 final size:42
Alignment explanation
Indices: 65774335--65774453 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 42
65774325 CCGAAATTCT
* *
65774335 ATATAAGACCATATCTGGGATATGGCATCGGTATG-TGATTTC
1 ATATAAGACCATATCAGGGATATGGCATCGATATGAT-ATTTC
* * * **
65774377 GTATAAGACCATTTCAAGGCCATGGCATCGATATGATATTTC
1 ATATAAGACCATATCAGGGATATGGCATCGATATGATATTTC
* * *
65774419 ATGTAAGACCATATCCGGGATATGGCATTGATATG
1 ATATAAGACCATATCAGGGATATGGCATCGATATG
65774454 GTACTGTGGG
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 60 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (42 bp):
ATATAAGACCATATCAGGGATATGGCATCGATATGATATTTC
Found at i:65781004 original size:44 final size:43
Alignment explanation
Indices: 65780922--65781034 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
65780912 GATACCACTA
* * * * *
65780922 TCCCAGACAGGGTCTTACACATAATCGATTAACGATGCCCAATG
1 TCCCAGACATGGTCTTACACGTAATCCAATAACAATG-CCAATG
65780966 TCCCAGACATGGTCTTACACGTAATCACAAT-ACAATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATC-CAATAACAATGCCAATG
* * *
65781009 TCCTAGACATAGTCTTACATGTAATC
1 TCCCAGACATGGTCTTACACGTAATC
65781035 TCATCTCAGT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
43 29 0.48
44 29 0.48
45 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCCAATAACAATGCCAATG
Found at i:65785519 original size:2 final size:2
Alignment explanation
Indices: 65785512--65785557 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
65785502 TTAATTGCCC
65785512 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
65785554 CT CT
1 CT CT
65785558 TTTTATGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:65788482 original size:20 final size:20
Alignment explanation
Indices: 65788457--65788513 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
65788447 ACACGTCAAC
65788457 ATTTAATTAATTTTTTAAA-A
1 ATTTAATTAA-TTTTTAAACA
*
65788477 ATTTAAATAATTTTTAAACA
1 ATTTAATTAATTTTTAAACA
*
65788497 ATATTAA-TCATTTTTAA
1 AT-TTAATTAATTTTTAA
65788514 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.24
20 21 0.64
21 4 0.12
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTAATTAATTTTTAAACA
Found at i:65794937 original size:2 final size:2
Alignment explanation
Indices: 65794930--65794980 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
65794920 ACAAGTACTG
* * *
65794930 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CG CA CG CA CA TA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
65794972 CA AA CA CA C
1 CA CA CA CA C
65794981 TAACTTTTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.47, G:0.04, T:0.02
Consensus pattern (2 bp):
CA
Found at i:65796185 original size:21 final size:21
Alignment explanation
Indices: 65796159--65796198 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
65796149 TAATGGGATT
65796159 GCTGATGTGGCAAGTTAACCA
1 GCTGATGTGGCAAGTTAACCA
65796180 GCTGATGTGGCAAGTTAAC
1 GCTGATGTGGCAAGTTAAC
65796199 TTACCACGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (21 bp):
GCTGATGTGGCAAGTTAACCA
Found at i:65796685 original size:6 final size:6
Alignment explanation
Indices: 65796646--65796697 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
65796636 TTCTAATTCA
* * * * * *
65796646 ATTTTA ATTTCG ATTCTG ATTCTG ATTTTG ATTTTG ATTTCG ATTTTA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
65796694 ATTT
1 ATTT
65796698 CAATTTTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.21, C:0.08, G:0.12, T:0.60
Consensus pattern (6 bp):
ATTTTG
Found at i:65796727 original size:6 final size:6
Alignment explanation
Indices: 65796716--65796781 Score: 60
Period size: 6 Copynumber: 11.0 Consensus size: 6
65796706 AAACACTCAC
* ** * * *
65796716 TGATTT TGATTT TGATTT TGATTC CAATTT TGATCT CGATTT AGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
* *
65796764 AGAATT TGATTT TGATTT
1 TGATTT TGATTT TGATTT
65796782 CGATCTGGAT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.23, C:0.06, G:0.15, T:0.56
Consensus pattern (6 bp):
TGATTT
Found at i:65796937 original size:47 final size:47
Alignment explanation
Indices: 65796854--65797050 Score: 331
Period size: 47 Copynumber: 4.2 Consensus size: 47
65796844 ATTATTTGTT
*
65796854 TCTGCCATTGTATGAATGCCATTATCAAATTGATGTGTATTGTGTATA
1 TCTGCCATTGTATGAATG-CATTATCAAACTGATGTGTATTGTGTATA
*
65796902 TCTGTCATTGTATGAATGCATTATCAAACTGATGTGTATTGTGTATA
1 TCTGCCATTGTATGAATGCATTATCAAACTGATGTGTATTGTGTATA
*
65796949 TCTGCCATTGTATGAATGCATTATCAAACTGATGTGTATTATGTATA
1 TCTGCCATTGTATGAATGCATTATCAAACTGATGTGTATTGTGTATA
* * *
65796996 TCTACCATTGTATGAATGCATTATCGAACTGATGTTTATTGTGTATA
1 TCTGCCATTGTATGAATGCATTATCAAACTGATGTGTATTGTGTATA
65797043 TCTGCCAT
1 TCTGCCAT
65797051 GATGTTTATT
Statistics
Matches: 140, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
47 123 0.88
48 17 0.12
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (47 bp):
TCTGCCATTGTATGAATGCATTATCAAACTGATGTGTATTGTGTATA
Found at i:65797375 original size:15 final size:15
Alignment explanation
Indices: 65797355--65797383 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
65797345 AAAGAAAACA
65797355 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
65797370 TGTCTGGTAGTGAT
1 TGTCTGGTAGTGAT
65797384 AGTGATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.38, T:0.41
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:65799017 original size:41 final size:42
Alignment explanation
Indices: 65798965--65799097 Score: 148
Period size: 41 Copynumber: 3.2 Consensus size: 42
65798955 TTGCTGATCA
*
65798965 CATGCACTGATTGTTAGAAAGCTATTGACT-TTTTTAATATG
1 CATGCAATGATTGTTAGAAAGCTATTGACTATTTTTAATATG
* * * *
65799006 TATGCAATGATTTTTGGAAAGCTGTTGACTATTTTTAATATG
1 CATGCAATGATTGTTAGAAAGCTATTGACTATTTTTAATATG
** * *
65799048 CATGCAATGATTGTT-G-GTG-TGTTGCCTATTTTTTAATATG
1 CATGCAATGATTGTTAGAAAGCTATTGACTA-TTTTTAATATG
65799088 CATGCAATGA
1 CATGCAATGA
65799098 GTTTTTTTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 8 0.10
40 22 0.28
41 26 0.32
42 24 0.30
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.43
Consensus pattern (42 bp):
CATGCAATGATTGTTAGAAAGCTATTGACTATTTTTAATATG
Found at i:65799054 original size:42 final size:42
Alignment explanation
Indices: 65798965--65799097 Score: 166
Period size: 42 Copynumber: 3.2 Consensus size: 42
65798955 TTGCTGATCA
* * *
65798965 CATGCACTGATTGTTAGAAAGCTATTGACT-TTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTAATATG
* *
65799006 TATGCAATGATTTTTGGAAAGCTGTTGACTATTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTAATATG
* *
65799048 CATGCAATGATTGTTGG--TG-TGTTGCCTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTA-TTTTTAATATG
65799088 CATGCAATGA
1 CATGCAATGA
65799098 GTTTTTTTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
39 8 0.10
40 22 0.27
41 25 0.31
42 26 0.32
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.43
Consensus pattern (42 bp):
CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTAATATG
Found at i:65800162 original size:44 final size:44
Alignment explanation
Indices: 65800108--65800195 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
65800098 TGTAAATTTC
* * *
65800108 CCTATAATTCATATTTGTCCAATTGTAATGAATTGTAGGAAAAT
1 CCTACAATTCACATCTGTCCAATTGTAATGAATTGTAGGAAAAT
65800152 CCTACAATTCACATCTGTCCAATTGTAATGAATTGTAGGAAAAT
1 CCTACAATTCACATCTGTCCAATTGTAATGAATTGTAGGAAAAT
65800196 TTGGTAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (44 bp):
CCTACAATTCACATCTGTCCAATTGTAATGAATTGTAGGAAAAT
Found at i:65800376 original size:59 final size:59
Alignment explanation
Indices: 65800284--65800422 Score: 224
Period size: 59 Copynumber: 2.4 Consensus size: 59
65800274 TATTTGTTAT
*
65800284 CCAACTGTTAAGCAATTTGTATACCAACTGTTATCTTTTCTAACTAGCAGCCATGTATA
1 CCAACTGTTAAGCAATTTGTATACCAACTGTTATCTTTTCTAACCAGCAGCCATGTATA
* * * *
65800343 CCAACTGTTAAGCAATTTGTATATCAATTGTTATCTTTTCTAGCCAGCAGGCATGTATA
1 CCAACTGTTAAGCAATTTGTATACCAACTGTTATCTTTTCTAACCAGCAGCCATGTATA
*
65800402 CCAAGTGTTAAGCAATTTGTA
1 CCAACTGTTAAGCAATTTGTA
65800423 AACAACAACA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
59 74 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (59 bp):
CCAACTGTTAAGCAATTTGTATACCAACTGTTATCTTTTCTAACCAGCAGCCATGTATA
Found at i:65806053 original size:85 final size:85
Alignment explanation
Indices: 65805910--65806167 Score: 507
Period size: 85 Copynumber: 3.0 Consensus size: 85
65805900 GTTGCTTGCG
65805910 GGTCTCTTCGGTGAGTTCTCATGATGCCACGTGTCCTCATCAAGGTAGAGGTATAACAATAGTCC
1 GGTCTCTTCGGTGAGTTCTCATGATGCCACGTGTCCTCATCAAGGTAGAGGTATAACAATAGTCC
65805975 CCTCACTTAGTCAATAGGTA
66 CCTCACTTAGTCAATAGGTA
65805995 GGTCTCTTCGGTGAGTTCTCATGATGCCACGTGTCCTCATCAAGGTAGAGGTATAACAATAGTCC
1 GGTCTCTTCGGTGAGTTCTCATGATGCCACGTGTCCTCATCAAGGTAGAGGTATAACAATAGTCC
65806060 CCTCACTTAGTCAATAGGTA
66 CCTCACTTAGTCAATAGGTA
65806080 GGTCTCTTCGGTGAGTTCTCATGATGCCACGTGTCCTCATCAAGGTAGAGGTATAACAATAGTCC
1 GGTCTCTTCGGTGAGTTCTCATGATGCCACGTGTCCTCATCAAGGTAGAGGTATAACAATAGTCC
*
65806145 CATCACTTAGTCAATAGGTA
66 CCTCACTTAGTCAATAGGTA
65806165 GGT
1 GGT
65806168 TATAAAGTGA
Statistics
Matches: 172, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 172 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (85 bp):
GGTCTCTTCGGTGAGTTCTCATGATGCCACGTGTCCTCATCAAGGTAGAGGTATAACAATAGTCC
CCTCACTTAGTCAATAGGTA
Found at i:65806752 original size:22 final size:23
Alignment explanation
Indices: 65806727--65806771 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
65806717 AAATAGGGAG
*
65806727 AAAACAAC-AAGAAAATAACATT
1 AAAACAACAAAAAAAATAACATT
65806749 AAAACAACAAAAAAAATAACATT
1 AAAACAACAAAAAAAATAACATT
65806772 TTTTCTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.71, C:0.13, G:0.02, T:0.13
Consensus pattern (23 bp):
AAAACAACAAAAAAAATAACATT
Found at i:65810134 original size:71 final size:71
Alignment explanation
Indices: 65810018--65810171 Score: 256
Period size: 71 Copynumber: 2.2 Consensus size: 71
65810008 CTAGCCAGTA
*
65810018 GATGGCCGGCACTAAGTACATTTTTCAGCTCTCAATGCACTTTTTATTTTTTATTTTTACTTTGG
1 GATGGCCGGCACTAAGTACATTTTTCAGCTCTCAATGCACTTTTTATTTTCTATTTTTACTTTGG
65810083 GACACT
66 GACACT
* *
65810089 GATGGTCGGTACTAAGTACATTTTTC-GTCTCTCAATGCACTTTTTATTTTCTATTTTTACTTTG
1 GATGGCCGGCACTAAGTACATTTTTCAG-CTCTCAATGCACTTTTTATTTTCTATTTTTACTTTG
65810153 GGACACT
65 GGACACT
*
65810160 GATGGCCAGCAC
1 GATGGCCGGCAC
65810172 CATCTTTTTC
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
70 1 0.01
71 75 0.99
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (71 bp):
GATGGCCGGCACTAAGTACATTTTTCAGCTCTCAATGCACTTTTTATTTTCTATTTTTACTTTGG
GACACT
Found at i:65810966 original size:88 final size:87
Alignment explanation
Indices: 65810769--65811354 Score: 504
Period size: 90 Copynumber: 6.6 Consensus size: 87
65810759 TCAAAATAAT
* * * * *
65810769 TGTATT-ATTTCTTTAGAATGTTTGTATTTTTTATATCTATAAATTTAATGTAGT-TGT-TTAGG
1 TGTATTAATTTC-TTAGAATGTTTGTATTTTTTGTATCT-TTAATTTAATTTAGTCCGTATTA-T
* * * * *
65810831 ATTTAAGGTTTCATTTTTATATTTTCG
63 ATGT-A-GTTTGAATTTAAAATTTTCG
65810858 TGTATTAATTTCTTAGAATGTTTGTATTTTTTGTATCTGTTAATTTAATTTAGTCCGTATTATAT
1 TGTATTAATTTCTTAGAATGTTTGTATTTTTTGTATCT-TTAATTTAATTTAGTCCGTATTATAT
65810923 GTAGTTTGAATTTAAAATTTTCG
65 GTAGTTTGAATTTAAAATTTTCG
65810946 TGTATTAATTTCTTAGAATGTTTGTATTTTTTGTATCTGTTAATTTAATTTAGTCCGTATTATAT
1 TGTATTAATTTCTTAGAATGTTTGTATTTTTTGTATCT-TTAATTTAATTTAGTCCGTATTATAT
65811011 GTAGTTTGAATTTAAAATTTTCG
65 GTAGTTTGAATTTAAAATTTTCG
* * * ** * *
65811034 TGTATTAA-TT-TTACCAATCTGTTTATAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTGTATT
1 TGTATTAATTTCTTA-GAA--TGTTTGTA-TTTTTTGTATCTTT-AATTTAATTTAGTCCGTATT
* *
65811097 ATATATAGTTTGAATTTAAAAATTTCG
61 ATATGTAGTTTGAATTTAAAATTTTCG
* * * ** * * ** *
65811124 TGCACTAATTTTTTCCATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCCGTATTAT
1 TGTATTAATTTCTTAGA-ATGTTTGTA-TTTTTTGTATCTTT-AATTTAATTTAGTCCGTATTAT
*
65811189 ATGTAGTTTGAATTTAAAATTTTTG
63 ATGTAGTTTGAATTTAAAATTTTCG
* ** * * ** * * *
65811214 TGTATTAATTTTACCTA-TCTGATTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTGCATATTA
1 TGTATTAA-TTT-CTTAGAATGTTTGTA-TTTTTTGTATCTTT-AATTTAATTTAGTCCGTATTA
* * * * *
65811278 T-TTTTGTTTGAATTTTATATTTTTG
62 TATGTAGTTTGAATTTAAAATTTTCG
*
65811303 TGTATTAATATTC-TAGAATGTTTGTATTTTATTGTATCTGTAAATTTAATTT
1 TGTATTAAT-TTCTTAGAATGTTTGTATTTT-TTGTATCT-TTAATTTAATTT
65811355 GTTGTGTACT
Statistics
Matches: 430, Mismatches: 50, Indels: 35
0.83 0.10 0.07
Matches are distributed among these distances:
86 3 0.01
87 9 0.02
88 136 0.32
89 85 0.20
90 184 0.43
91 10 0.02
92 3 0.01
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (87 bp):
TGTATTAATTTCTTAGAATGTTTGTATTTTTTGTATCTTTAATTTAATTTAGTCCGTATTATATG
TAGTTTGAATTTAAAATTTTCG
Found at i:65811144 original size:90 final size:90
Alignment explanation
Indices: 65810899--65811311 Score: 543
Period size: 90 Copynumber: 4.6 Consensus size: 90
65810889 TGTATCTGTT
*
65810899 AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTCTTA-GA
1 AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAA-TT-TTACCA
* ** *
65810963 A--TGTTTGTA-TTTTTTGTATCTGTT-
64 ATCTGTTTGTAGTTTGTTGGGTGT-TTA
65810987 AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCAAT
1 AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCAAT
*
65811052 CTGTTTATAGTTTGTTGGGTGTTTA
66 CTGTTTGTAGTTTGTTGGGTGTTTA
* * * * * *
65811077 AATTTAATTTAGTCTGTATTATATATAGTTTGAATTTAAAAATTTCGTGCACTAATTTTTTCC-A
1 AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAA-TTTTACCAA
65811141 TCTGTTTGTAGTTTGTTGGGTGTTTA
65 TCTGTTTGTAGTTTGTTGGGTGTTTA
* *
65811167 AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCTAT
1 AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCAAT
*
65811232 CTGATTGTAGTTTGTTGGGTGTTTA
66 CTGTTTGTAGTTTGTTGGGTGTTTA
* * * * * * *
65811257 AATTTAATTTAGTGCATATTAT-TTTTGTTTGAATTTTATATTTTTGTGTATTAAT
1 AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAAT
65811312 ATTCTAGAAT
Statistics
Matches: 291, Mismatches: 27, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
86 3 0.01
87 4 0.01
88 55 0.19
89 44 0.15
90 179 0.62
91 6 0.02
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (90 bp):
AATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCAAT
CTGTTTGTAGTTTGTTGGGTGTTTA
Found at i:65817431 original size:177 final size:176
Alignment explanation
Indices: 65817102--65817891 Score: 899
Period size: 177 Copynumber: 4.5 Consensus size: 176
65817092 GAAATATGAC
* * ** * *
65817102 TGGCTTAAATCTGCTCCATTGCCAATATC-TAGAGATAAGATTCGCCATCTTCGATCTGTTCCAC
1 TGGCTTAAATCTGCTCCATTGCCGATA-CATGGAGATAAGATTTACCATCTTCGATCTGCTCCGC
** * * * * * * * * * * *
65817166 CACTACTTGA-GGAAATAAAATCTTTAATCTTTAGTCCGCTGCCTTGCTACCTCAGAAATATAAG
65 TGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCAGAAAGATAAA
* * *
65817230 ACTCATTCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGG
130 AC-CATTCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCTAG
*
65817278 TGGCTTAAATTTGCTCCATTGCCGATACATGGAGATAAGATTTACCATCTTCGATCTGCTCCGCT
1 TGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTACCATCTTCGATCTGCTCCGCT
* *
65817343 GCAACTTCAGGGAGATAAGATCTTCAATCTTTAGTCTGCTTTCTTACTACCTCAGAAAGATAAAA
66 GCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCAGAAAGATAAAA
* * *
65817408 CTCATTCTTCAACCTGCTCTCTTGCTACTTTAGAGAGATAAGGCTAG
131 C-CATTCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCTAG
* ** ** *
65817455 TGGCTT-AATCTGTTCCATTTTCGATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCGCT
1 TGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTACCATCTTCGATCTGCTCCGCT
* * * * * * *
65817519 GCAACTTTAGGGAGATAAGATTTTCAGTCTTCATTCTGCTTCCTTGCTACTTCAGGAAGATAATA
66 GCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCAGAAAGATAA-A
* * *
65817584 CCACCA-TCTTCAACATGCTCTCCTACTACCTCAGAGAGATAAGGTTAG
130 --ACCATTCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCTAG
* * * * * *
65817632 TGACTTAAATCTGCTCCATTGCCGGTACATGGAGATAAGATTTATCGTCTTTGATCTGCTCCACT
1 TGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTACCATCTTCGATCTGCTCCGCT
* * * * * * *
65817697 ACTACTT-AGAGAGATAAGATCTTTAATCTTCAGTCTGCTTCCTTACTACTTCAGGAAGATAAGA
66 GCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCAGAAAGATAAAA
*
65817761 CCACTATCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGTTAG
131 CCA-T-TCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCTAG
* * * *
65817809 TGACTTAAATCTGCTCCATTGCC-AGTACATGGAGATAAGATTTATCATCTTTGATATGCTCCGC
1 TGGCTTAAATCTGCTCCATTGCCGA-TACATGGAGATAAGATTTACCATCTTCGATCTGCTCCGC
65817873 TGCAACTTCAGGGAGATAA
65 TGCAACTTCAGGGAGATAA
65817892 AATTTGACTT
Statistics
Matches: 527, Mismatches: 76, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
174 4 0.01
175 1 0.00
176 166 0.31
177 291 0.55
178 63 0.12
179 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (176 bp):
TGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTACCATCTTCGATCTGCTCCGCT
GCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCAGAAAGATAAAA
CCATTCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCTAG
Found at i:65819150 original size:54 final size:54
Alignment explanation
Indices: 65819037--65819191 Score: 170
Period size: 54 Copynumber: 2.8 Consensus size: 54
65819027 TTATTTTTTC
* * * ***
65819037 ATTTTTATTTAGTCTCAAAGCGCTCTTTGGGGGTTTTCACTTTGG-CTCTTTTTT
1 ATTTTTA-TTAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCCCCCCCTTT
*
65819091 ATTTTTATTAGGTCTCAAAGCGCCCATTGCGGGTTTTCACTTTGGCCCCCCCTTT
1 ATTTTTATTA-GTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCCCCCCCTTT
** *
65819146 -TTTTTAAGAAAGTCTCAAAGTGCCCTTTGCGGGTTTTCACTTTGGC
1 ATTTTT-A-TTAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGC
65819192 TTCTTCCCCT
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
53 3 0.03
54 43 0.50
55 39 0.45
56 1 0.01
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.43
Consensus pattern (54 bp):
ATTTTTATTAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCCCCCCCTTT
Found at i:65827388 original size:42 final size:42
Alignment explanation
Indices: 65827325--65827451 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
65827315 CTTCGTTTTC
** *
65827325 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
65827368 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
65827409 TCGATGCCATAGCCCAACTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
65827450 TC
1 TC
65827452 TCACTGATGC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 10 0.13
42 63 0.84
43 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:65827511 original size:47 final size:46
Alignment explanation
Indices: 65827410--65827533 Score: 160
Period size: 47 Copynumber: 2.7 Consensus size: 46
65827400 ATTCATATAT
* * * *
65827410 CGATGCCATAGCCCA-ACTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGA-TATGGTCTTATACGAAGCACATATCACAC
* * *
65827456 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
65827503 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
65827534 GAAATCACTT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 26 0.38
47 42 0.62
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:65827550 original size:7 final size:7
Alignment explanation
Indices: 65827538--65827566 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
65827528 TATACGGAAA
65827538 TCACTTG
1 TCACTTG
65827545 TCACTTG
1 TCACTTG
65827552 TCACTTG
1 TCACTTG
65827559 TCACTTG
1 TCACTTG
65827566 T
1 T
65827567 AGCCGAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:65827600 original size:31 final size:31
Alignment explanation
Indices: 65827565--65827713 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
65827555 CTTGTCACTT
*
65827565 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
65827596 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
65827627 ATAGTCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
65827658 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
**
65827689 GTAGATGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
65827714 TGTCATTTGT
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
30 3 0.03
31 100 0.95
32 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:65827788 original size:50 final size:51
Alignment explanation
Indices: 65827695--65827817 Score: 194
Period size: 50 Copynumber: 2.4 Consensus size: 51
65827685 TCAGGTAGAT
* * *
65827695 GAAGCTACCACTTTTCACTTGTCATTTGTCGTTGATCAAATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAAATAAGTGTAGCC
* *
65827746 GAAGCTATCACTTATCACTT-TCATTTTTCCTTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAAATAAGTGTAGCC
65827796 GAAGCTATCACTTATCACTTGT
1 GAAGCTATCACTTATCACTTGT
65827818 TGCCATGGTC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 47 0.71
51 19 0.29
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (51 bp):
GAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAAATAAGTGTAGCC
Found at i:65833206 original size:53 final size:53
Alignment explanation
Indices: 65833144--65833254 Score: 204
Period size: 53 Copynumber: 2.1 Consensus size: 53
65833134 AAAGCCAAGC
*
65833144 AAAATTATCGAAATAGATTAACACATACTTAATAATATTGACTGAATTTTAAA
1 AAAATTATCGAAATAGATTAACACATACTTAATAAAATTGACTGAATTTTAAA
*
65833197 AAAATTATCGAAATAGATTAACACATACTTAATAAAATTGACTGAGTTTTAAA
1 AAAATTATCGAAATAGATTAACACATACTTAATAAAATTGACTGAATTTTAAA
65833250 AAAAT
1 AAAAT
65833255 ATATATAAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.32
Consensus pattern (53 bp):
AAAATTATCGAAATAGATTAACACATACTTAATAAAATTGACTGAATTTTAAA
Found at i:65835284 original size:27 final size:26
Alignment explanation
Indices: 65835254--65835335 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
65835244 TTATTTCATT
65835254 TCCATTTCATTTAAATCATCTTTTTTC
1 TCCATTTCATTTAAAT-ATCTTTTTTC
* *
65835281 TCCATTTAAATTT--A-ATC-TTTTCC
1 TCCATTT-CATTTAAATATCTTTTTTC
*
65835304 T-CATTTCATTTAAATTATCTTTCTT-
1 TCCATTTCATTTAAA-TATCTTTTTTC
65835329 TCCATTT
1 TCCATTT
65835336 TAATTTACGT
Statistics
Matches: 43, Mismatches: 5, Indels: 15
0.68 0.08 0.24
Matches are distributed among these distances:
21 4 0.09
22 5 0.12
23 7 0.16
24 3 0.07
25 4 0.09
26 9 0.21
27 7 0.16
28 4 0.09
ACGTcount: A:0.23, C:0.21, G:0.00, T:0.56
Consensus pattern (26 bp):
TCCATTTCATTTAAATATCTTTTTTC
Found at i:65835334 original size:21 final size:21
Alignment explanation
Indices: 65835261--65835340 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 21
65835251 ATTTCCATTT
* *
65835261 CATTTAAATCATCTTTTTTCTC
1 CATTTAAATTATCTTTCTT-TC
*
65835283 CATTTAAATTTAATCTTTTCCTCATTT
1 CATTTAAA-TT-ATC-TTT-CT--TTC
65835310 CATTTAAATTATCTTTCTTTC
1 CATTTAAATTATCTTTCTTTC
*
65835331 CATTTTAATT
1 CATTTAAATT
65835341 TACGTTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
21 11 0.23
22 8 0.17
23 3 0.06
24 6 0.13
25 6 0.13
26 3 0.06
27 9 0.19
28 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (21 bp):
CATTTAAATTATCTTTCTTTC
Found at i:65835426 original size:22 final size:22
Alignment explanation
Indices: 65835401--65835514 Score: 74
Period size: 22 Copynumber: 5.2 Consensus size: 22
65835391 TGTGTTTCAA
65835401 ATTAAATATGTATGTATATTGT
1 ATTAAATATGTATGTATATTGT
** * * **
65835423 ATTATAAT-TCAATGCATTTTAA
1 ATTA-AATATGTATGTATATTGT
65835445 ATTAAATATGTATGTATATTGT
1 ATTAAATATGTATGTATATTGT
* * **
65835467 ATTATAAT-TCAATACGT-T-TTAA
1 ATTA-AATAT--GTATGTATATTGT
65835489 ATTAAATATGTATGTATATTGT
1 ATTAAATATGTATGTATATTGT
65835511 ATTA
1 ATTA
65835515 TAATTTAATG
Statistics
Matches: 64, Mismatches: 20, Indels: 16
0.64 0.20 0.16
Matches are distributed among these distances:
20 4 0.06
21 7 0.11
22 42 0.66
23 7 0.11
24 4 0.06
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.48
Consensus pattern (22 bp):
ATTAAATATGTATGTATATTGT
Found at i:65835448 original size:44 final size:44
Alignment explanation
Indices: 65835389--65835580 Score: 276
Period size: 44 Copynumber: 4.4 Consensus size: 44
65835379 TATTTCATTT
* *
65835389 AATGTGTTTCAAATTAAATATGTATGTATATTGTATTATAATTC
1 AATGCGTTTTAAATTAAATATGTATGTATATTGTATTATAATTC
*
65835433 AATGCATTTTAAATTAAATATGTATGTATATTGTATTATAATTC
1 AATGCGTTTTAAATTAAATATGTATGTATATTGTATTATAATTC
* *
65835477 AATACGTTTTAAATTAAATATGTATGTATATTGTATTATAATTT
1 AATGCGTTTTAAATTAAATATGTATGTATATTGTATTATAATTC
* * * * *
65835521 AATGTGCTTTAAATTAAATATGCATGTATATTATATTATAATTT
1 AATGCGTTTTAAATTAAATATGTATGTATATTGTATTATAATTC
* *
65835565 AACGTGTTTTAAATTA
1 AATGCGTTTTAAATTA
65835581 GGAATAAGAA
Statistics
Matches: 135, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 135 1.00
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (44 bp):
AATGCGTTTTAAATTAAATATGTATGTATATTGTATTATAATTC
Found at i:65835536 original size:22 final size:22
Alignment explanation
Indices: 65835511--65835580 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
65835501 TGTATATTGT
*
65835511 ATTATAATTTAATGTGCTTTAA
1 ATTATAATTTAATGTGATTTAA
** *
65835533 ATTA-AATATGCATGT-ATATTAT
1 ATTATAAT-TTAATGTGAT-TTAA
* *
65835555 ATTATAATTTAACGTGTTTTAA
1 ATTATAATTTAATGTGATTTAA
65835577 ATTA
1 ATTA
65835581 GGAATAAGAA
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
21 4 0.11
22 27 0.77
23 4 0.11
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (22 bp):
ATTATAATTTAATGTGATTTAA
Found at i:65835668 original size:18 final size:19
Alignment explanation
Indices: 65835647--65835684 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
65835637 AAAGTATATC
*
65835647 ATTTGTATAA-GTTTTTAT
1 ATTTGTACAATGTTTTTAT
*
65835665 ATTTTTACAATGTTTTTAT
1 ATTTGTACAATGTTTTTAT
65835684 A
1 A
65835685 AGAACATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (19 bp):
ATTTGTACAATGTTTTTAT
Found at i:65838211 original size:52 final size:51
Alignment explanation
Indices: 65838145--65838246 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
65838135 TCTGATAAAA
* *
65838145 TTGGTGCCGGCCATC-TGATTCCCAAAATTAA-GAAAACTAATTTTTTTAATAC
1 TTGGTGCCGACCATCATG-TT-CCAAAA-TAAGGAAAAATAATTTTTTTAATAC
65838197 TTGGTGCCGACCATCAGTGTTCCAAAATAAGGAAAAATAATTTTTTTAAT
1 TTGGTGCCGACCATCA-TGTTCCAAAATAAGGAAAAATAATTTTTTTAAT
65838247 GTGATATGCC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
51 3 0.07
52 38 0.84
53 2 0.04
54 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (51 bp):
TTGGTGCCGACCATCATGTTCCAAAATAAGGAAAAATAATTTTTTTAATAC
Found at i:65838448 original size:110 final size:111
Alignment explanation
Indices: 65838310--65838621 Score: 335
Period size: 110 Copynumber: 2.8 Consensus size: 111
65838300 ATGAAAAAGG
* *
65838310 TGGTGCTGGCCATCAGTGTCTTATAGTAAAAAAAAAGTGCATTGGGAGCCAAAAAATGTACTTGG
1 TGGTGCTGGCCATCAGTGTCTCAAAGTAAAAAAAAAGTGCATTGGGAGCC-AAAAATGTACTTGG
*
65838375 TGTCGACCATCTACTTGCCAACACCCAA-TTTTTTTT-AAATGACA-
65 TGTCGACCATCTACTGGCCAACACCCAATTTTTTTTTAAAATGACAC
* * * * * * * *
65838419 TCGGTGTTGGCCATCAGTGTCCCAAAGTAAAAAAAAAATACATTAGGAGTCGAAAATATACTTGG
1 T-GGTGCTGGCCATCAGTGTCTCAAAGTAAAAAAAAAGTGCATTGGGAGCCAAAAATGTACTTGG
* * * *
65838484 TG-CTAGCCATTTACTGGGCAGCACCCAATTTTTTTTTTTAAAAATGACAC
65 TGTCGA-CCATCTACTGGCCAACACCCAA--TTTTTTTTT-AAAATGACAC
* * *
65838534 TGGTGCAGGCCATTAGTGTCTCAAAGTAAAAAAAAAAAGTGCATTGGGACCCGAAAAATGTACTT
1 TGGTGCTGGCCATCAGTGTCTCAAAGT--AAAAAAAAAGTGCATTGGGAGCC-AAAAATGTACTT
**
65838599 GGTGTCGGTCATCTACTGGCCAA
63 GGTGTCGACCATCTACTGGCCAA
65838622 TATTAAAACT
Statistics
Matches: 159, Mismatches: 32, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
108 2 0.01
109 33 0.21
110 41 0.26
112 8 0.05
114 30 0.19
115 1 0.01
116 18 0.11
117 25 0.16
118 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (111 bp):
TGGTGCTGGCCATCAGTGTCTCAAAGTAAAAAAAAAGTGCATTGGGAGCCAAAAATGTACTTGGT
GTCGACCATCTACTGGCCAACACCCAATTTTTTTTTAAAATGACAC
Found at i:65839711 original size:21 final size:20
Alignment explanation
Indices: 65839665--65839719 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
65839655 TGACAATTAC
*
65839665 TTATTTTATAAT-TTTAATT
1 TTATTTTATAATATTTAATA
*
65839684 TTAATTTATATAATATTTTATA
1 TT-ATTT-TATAATATTTAATA
65839706 TTATTTTAATAATA
1 TTATTTT-ATAATA
65839720 AATATGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 2 0.07
20 5 0.17
21 16 0.53
22 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTTATAATATTTAATA
Found at i:65840115 original size:21 final size:21
Alignment explanation
Indices: 65840085--65840137 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
65840075 CATTTTTTTA
*
65840085 AAGAGGAAAAAACTGAAAATC
1 AAGAGAAAAAAACTGAAAATC
*
65840106 AAGAGAAAAAAATTGAAAATC
1 AAGAGAAAAAAACTGAAAATC
*
65840127 AGGAGAAAAAA
1 AAGAGAAAAAA
65840138 TTTGATTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.66, C:0.06, G:0.19, T:0.09
Consensus pattern (21 bp):
AAGAGAAAAAAACTGAAAATC
Found at i:65845308 original size:38 final size:35
Alignment explanation
Indices: 65845260--65845330 Score: 106
Period size: 38 Copynumber: 1.9 Consensus size: 35
65845250 TTAATATAAA
*
65845260 AATAATTATATTAAGAATATTATTAAATTATATTTAAT
1 AATAAATATATTAA-AATATTATTAAA--ATATTTAAT
65845298 AATAAATATATTAAAATATTATTAAAATATTTA
1 AATAAATATATTAAAATATTATTAAAATATTTA
65845331 TTTTTATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 7 0.22
37 12 0.38
38 13 0.41
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (35 bp):
AATAAATATATTAAAATATTATTAAAATATTTAAT
Found at i:65845322 original size:11 final size:11
Alignment explanation
Indices: 65845268--65845328 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 11
65845258 AAAATAATTA
65845268 TATTAAGAATAT
1 TATTAA-AATAT
*
65845280 TATTAAATTA-
1 TATTAAAATAT
65845290 TATTTAATAATAAAT
1 TA-TTAA-AAT--AT
65845305 ATATTAAAATAT
1 -TATTAAAATAT
65845317 TATTAAAATAT
1 TATTAAAATAT
65845328 T
1 T
65845329 TATTTTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
10 2 0.05
11 19 0.46
12 10 0.24
14 4 0.10
15 4 0.10
16 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
TATTAAAATAT
Found at i:65845549 original size:46 final size:44
Alignment explanation
Indices: 65845459--65845550 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 44
65845449 ATATCTATTC
** **
65845459 CATTCAACCAAACACAATAATACTATTACAGTTCTATTTTATTA
1 CATTCAACCAAACACAATAATACTATTACAACTCTATTCCATTA
*
65845503 CATTCAACCAAACA-ATTGAATTACTGATTACAACTCTATTCCATTA
1 CATTCAACCAAACACAAT-AA-TACT-ATTACAACTCTATTCCATTA
65845549 CA
1 CA
65845551 GCCCTATTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.05
44 16 0.40
45 4 0.10
46 18 0.45
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.34
Consensus pattern (44 bp):
CATTCAACCAAACACAATAATACTATTACAACTCTATTCCATTA
Found at i:65847859 original size:42 final size:42
Alignment explanation
Indices: 65847800--65847896 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
65847790 AATCCTAATT
65847800 GAGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
1 GAGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
*
65847842 GAGAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GAGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
* *
65847884 AATAAAATA-TTCC
1 GAGAAAATAGTTCC
65847897 TAGAATATGA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 4 0.08
42 48 0.92
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.29
Consensus pattern (42 bp):
GAGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
Found at i:65847936 original size:19 final size:18
Alignment explanation
Indices: 65847914--65847953 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
65847904 TGAATAAAAC
65847914 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
65847933 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
65847951 TTA
1 TTA
65847954 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:65852529 original size:42 final size:42
Alignment explanation
Indices: 65852470--65852553 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
65852460 AATCCTAATT
* *
65852470 GGGAAAATAGTTTCCTTATTCTAATAAACTACTGAAACATAA
1 GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
* *
65852512 GGGAAAATAGTTCCCTTATTTTAATAAACTACTAAAAGATAA
1 GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
65852554 AATAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (42 bp):
GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
Found at i:65852561 original size:42 final size:42
Alignment explanation
Indices: 65852472--65852566 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
65852462 TCCTAATTGG
* * **
65852472 GAAAATAGTTTCCTTATTCTAATAAACTACTGAAACATAAGG
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
* *
65852514 GAAAATAGTTCCCTTATTTTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
65852556 TAAAATA-TTCC
1 GAAAATAGTTCC
65852567 TAGAATATGA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 4 0.09
42 42 0.91
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:65852606 original size:19 final size:18
Alignment explanation
Indices: 65852584--65852623 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
65852574 TGAATAAAAC
*
65852584 TTATCTACCTATATAAGAT
1 TTATCTACCTAAATAA-AT
65852603 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
65852621 TTA
1 TTA
65852624 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:65861319 original size:7 final size:7
Alignment explanation
Indices: 65861289--65861334 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
65861279 ATAAAAATAC
65861289 ATAATTT
1 ATAATTT
*
65861296 ATTAATAT
1 A-TAATTT
*
65861304 -TAATAT
1 ATAATTT
65861310 ATAATTT
1 ATAATTT
65861317 ATAATTT
1 ATAATTT
65861324 ATAATTT
1 ATAATTT
65861331 -TAAT
1 ATAAT
65861335 AAAATAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 10 0.29
7 20 0.57
8 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
ATAATTT
Found at i:65870915 original size:16 final size:15
Alignment explanation
Indices: 65870872--65870919 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 15
65870862 AAATCCTCTT
65870872 TCTC-TTTCTTTTT-
1 TCTCATTTCTTTTTC
* *
65870885 TCTCTTTTCTATTTC
1 TCTCATTTCTTTTTC
65870900 TCTCAATTTCTTTTTC
1 TCTC-ATTTCTTTTTC
65870916 TCTC
1 TCTC
65870920 TCTCTTTGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 4 0.14
14 8 0.28
15 4 0.14
16 13 0.45
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (15 bp):
TCTCATTTCTTTTTC
Found at i:65872785 original size:26 final size:26
Alignment explanation
Indices: 65872743--65872794 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
65872733 AACACTTTTG
*
65872743 ATTTTGTTTATGTTTTGGATGTTGTT
1 ATTTTGTTTATGGTTTGGATGTTGTT
**
65872769 ATTTTGTGTT-TGGTTTGTTTGTTGTT
1 ATTTTGT-TTATGGTTTGGATGTTGTT
65872795 TGTTTTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.08, C:0.00, G:0.25, T:0.67
Consensus pattern (26 bp):
ATTTTGTTTATGGTTTGGATGTTGTT
Found at i:65873022 original size:12 final size:12
Alignment explanation
Indices: 65873007--65873037 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
65872997 GTTTTTTTTC
65873007 TTATTTTTATGT
1 TTATTTTTATGT
*
65873019 TTATTTTTGTGT
1 TTATTTTTATGT
65873031 TTATTTT
1 TTATTTT
65873038 AGTTTTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (12 bp):
TTATTTTTATGT
Found at i:65873022 original size:30 final size:30
Alignment explanation
Indices: 65872988--65873050 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
65872978 GCACATTAAC
* *
65872988 TTTATGTGTGTTTTTTTTCTTA-TTTTTATG
1 TTTATGTGTGTGTTTATT-TTAGTTTTTATG
* *
65873018 TTTATTTTTGTGTTTATTTTAGTTTTTATG
1 TTTATGTGTGTGTTTATTTTAGTTTTTATG
65873048 TTT
1 TTT
65873051 TTTTATGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 3 0.11
30 25 0.89
ACGTcount: A:0.11, C:0.02, G:0.13, T:0.75
Consensus pattern (30 bp):
TTTATGTGTGTGTTTATTTTAGTTTTTATG
Found at i:65873054 original size:17 final size:17
Alignment explanation
Indices: 65872988--65873056 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 17
65872978 GCACATTAAC
* * *
65872988 TTTATGTGTGTTTTTTT
1 TTTATGTTTATTTTATT
*
65873005 TCTTATTTTTATGTTTATT
1 T-TTATGTTTAT-TTTATT
*
65873024 TTTGTGTTTATTTTAGTT
1 TTTATGTTTATTTTA-TT
65873042 TTTATGTTT-TTTTAT
1 TTTATGTTTATTTTAT
65873057 GAAAAATAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
16 1 0.02
17 10 0.24
18 25 0.60
19 6 0.14
ACGTcount: A:0.12, C:0.01, G:0.12, T:0.75
Consensus pattern (17 bp):
TTTATGTTTATTTTATT
Found at i:65875143 original size:19 final size:19
Alignment explanation
Indices: 65875104--65875144 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
65875094 TAGTTTTAGG
**
65875104 TTTAGTTTTTTTCTAGTTT
1 TTTAGTTTTTTTCTACATT
65875123 TTTAGTTTTTTTCTACATT
1 TTTAGTTTTTTTCTACATT
65875142 TTT
1 TTT
65875145 CTAGGGCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.73
Consensus pattern (19 bp):
TTTAGTTTTTTTCTACATT
Found at i:65880587 original size:40 final size:40
Alignment explanation
Indices: 65880542--65881477 Score: 1683
Period size: 40 Copynumber: 23.6 Consensus size: 40
65880532 CAAGCTCAAT
* * * * *
65880542 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
65880582 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
* * * *
65880622 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65880662 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
* *
65880702 TTCCTTCGGGTCTTATCCCAGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65880742 TGCCTTCGGG-----T----GATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
65880773 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65880813 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65880853 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65880893 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65880933 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65880973 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65881013 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65881053 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65881093 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65881133 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65881173 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65881213 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65881253 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65881293 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65881333 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65881373 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
65881413 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
65881453 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTATCCCGGATAT
65881478 CATTCAAATG
Statistics
Matches: 869, Mismatches: 18, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
31 30 0.03
35 1 0.00
40 838 0.96
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (40 bp):
TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
Found at i:65880757 original size:31 final size:31
Alignment explanation
Indices: 65880722--65880783 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
65880712 TCTTATCCCA
65880722 GATATATCAATTCGCACAAATGCCTTCGGGT
1 GATATATCAATTCGCACAAATGCCTTCGGGT
65880753 GATATATCAATTCGCACAAATGCCTTCGGGT
1 GATATATCAATTCGCACAAATGCCTTCGGGT
65880784 CTTAGCCCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (31 bp):
GATATATCAATTCGCACAAATGCCTTCGGGT
Found at i:65887538 original size:20 final size:21
Alignment explanation
Indices: 65887513--65887553 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
65887503 CGAGACTTAA
*
65887513 TCGGAAACTTT-AAGAATTTT
1 TCGGAAACTTTCAAAAATTTT
*
65887533 TCGGAAAGTTTCAAAAATTTT
1 TCGGAAACTTTCAAAAATTTT
65887554 CCAAGTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (21 bp):
TCGGAAACTTTCAAAAATTTT
Found at i:65892250 original size:124 final size:124
Alignment explanation
Indices: 65892030--65892278 Score: 489
Period size: 124 Copynumber: 2.0 Consensus size: 124
65892020 ATCATATGAC
65892030 CCGTAATATGTTAGAAATGATATGTGAAAATTTTGATATGAAAATTTTATTGATTAAGTGTTTAA
1 CCGTAATATGTTAGAAATGATATGTGAAAATTTTGATATGAAAATTTTATTGATTAAGTGTTTAA
65892095 TTACGAAAAGGACTAAATCGCATAAAATGAGAAAGTCAAATTCTAGTAGCTATAAGGAT
66 TTACGAAAAGGACTAAATCGCATAAAATGAGAAAGTCAAATTCTAGTAGCTATAAGGAT
65892154 CCGTAATATGTTAGAAATGATATGTGAAAATTTTGATATGAAAATTTTATTGATTAAGTGTTTAA
1 CCGTAATATGTTAGAAATGATATGTGAAAATTTTGATATGAAAATTTTATTGATTAAGTGTTTAA
*
65892219 TTACGAAAAGGACTAAATCGTATAAAATGAGAAAGTCAAATTCTAGTAGCTATAAGGAT
66 TTACGAAAAGGACTAAATCGCATAAAATGAGAAAGTCAAATTCTAGTAGCTATAAGGAT
65892278 C
1 C
65892279 AAATAGCTAT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (124 bp):
CCGTAATATGTTAGAAATGATATGTGAAAATTTTGATATGAAAATTTTATTGATTAAGTGTTTAA
TTACGAAAAGGACTAAATCGCATAAAATGAGAAAGTCAAATTCTAGTAGCTATAAGGAT
Found at i:65902814 original size:248 final size:245
Alignment explanation
Indices: 65902110--65902847 Score: 1413
Period size: 245 Copynumber: 3.0 Consensus size: 245
65902100 GACTCCGGTG
65902110 AGCCTTTTTCCTCTTTATTTATTTTCCTATATACCAAAGATTAATGGATAAATCCAAGAAAAAAC
1 AGCCTTTTTCCTCTTTATTTATTTTCCTATATACCAAAGATTAATGGATAAATCCAAGAAAAAAC
65902175 AAAGGAAAACAAAGTGAAAATCACCTTTAGCAAAATCGCTTCTGTTTTTTTTATTTCTCTTTTTT
66 AAAGGAAAACAAAGTGAAAATCACCTTTAGCAAAATCGCTTCTGTTTTTTTTATTTCTCTTTTTT
65902240 GTATTGATATCGTGTGTGTTCGTTCATAGTAGAATACAATCAAAATGAAAAAACGGCTTTATATC
131 GTATTGATATCGTGTGTGTTCGTTCATAGTAGAATACAATCAAAATGAAAAAACGGCTTTATATC
* *
65902305 CGAGTGAGAAAAATAATGAAAATATTACAATATTTTATCACGTTTTCATT
196 CGAATAAGAAAAATAATGAAAATATTACAATATTTTATCACGTTTTCATT
65902355 AGCCTTTTTCCTCTTTATTTATTTTCCTATATACCAAAGATTAATGGATAAATCCAAGAAAAAAC
1 AGCCTTTTTCCTCTTTATTTATTTTCCTATATACCAAAGATTAATGGATAAATCCAAGAAAAAAC
*
65902420 AAAGGAAAACAAAGTGAAAATCCCCTTTAGCAAAATCGCTTCTGTTTTTTTTATTTCTCTTTTTT
66 AAAGGAAAACAAAGTGAAAATCACCTTTAGCAAAATCGCTTCTGTTTTTTTTATTTCTCTTTTTT
65902485 GTATTGATATCGTGTGTGTTCGTTCATAGTAGAATACAATCAAAATGAAAAAACGGCTTTATATC
131 GTATTGATATCGTGTGTGTTCGTTCATAGTAGAATACAATCAAAATGAAAAAACGGCTTTATATC
65902550 CGAATAAGAAAAATAATGAAAATATTACAATATTTTATCACGTTTTCATT
196 CGAATAAGAAAAATAATGAAAATATTACAATATTTTATCACGTTTTCATT
*
65902600 AGCCTTTTTCCTCTTTATTTATTTTCCTATATACCAAAGATTAATGGATAAAACCCAAGAAAAAA
1 AGCCTTTTTCCTCTTTATTTATTTTCCTATATACCAAAGATTAATGGAT-AAATCCAAGAAAAAA
65902665 CAAAGGAAAACAAAGTGAAAATCACCTTTAGCAAAATCGCTTCTGTTTTTTTTTTATTTCTCTTT
65 CAAAGGAAAACAAAGTGAAAATCACCTTTAGCAAAATCGCTTCTG--TTTTTTTTATTTCTCTTT
65902730 TTTGTATTGATATCGTGTGTGTTCGTTCATAGTAGAATACAATCAAAATGAAAAAACGGCTTTAT
128 TTTGTATTGATATCGTGTGTGTTCGTTCATAGTAGAATACAATCAAAATGAAAAAACGGCTTTAT
65902795 ATCCGAATAAGAAAAATAATGAAAATATTACAATATTTTATCACGTTTTCATT
193 ATCCGAATAAGAAAAATAATGAAAATATTACAATATTTTATCACGTTTTCATT
65902848 TTACTGTTGT
Statistics
Matches: 485, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
245 291 0.60
246 58 0.12
248 136 0.28
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (245 bp):
AGCCTTTTTCCTCTTTATTTATTTTCCTATATACCAAAGATTAATGGATAAATCCAAGAAAAAAC
AAAGGAAAACAAAGTGAAAATCACCTTTAGCAAAATCGCTTCTGTTTTTTTTATTTCTCTTTTTT
GTATTGATATCGTGTGTGTTCGTTCATAGTAGAATACAATCAAAATGAAAAAACGGCTTTATATC
CGAATAAGAAAAATAATGAAAATATTACAATATTTTATCACGTTTTCATT
Found at i:65905964 original size:55 final size:55
Alignment explanation
Indices: 65905897--65906029 Score: 196
Period size: 55 Copynumber: 2.4 Consensus size: 55
65905887 TGCCCTTAGT
* * * *
65905897 CCGTGTATAACACTGACTTTAAAACATGGCCATGGCACACGCCTGTGTGGCCGGC
1 CCGTGTACAACACTGACTTTAAAACACGGCCATCGCACACGCCCGTGTGGCCGGC
* *
65905952 CCGTGTACAACACTGACTTTAAAACACGGCCATCGTACACGCCCGTGTGGCCTGC
1 CCGTGTACAACACTGACTTTAAAACACGGCCATCGCACACGCCCGTGTGGCCGGC
*
65906007 CCGTGTACAACATTGAC-TTAAAA
1 CCGTGTACAACACTGACTTTAAAA
65906030 TTTTAAGTGC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
54 6 0.08
55 65 0.92
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (55 bp):
CCGTGTACAACACTGACTTTAAAACACGGCCATCGCACACGCCCGTGTGGCCGGC
Found at i:65911503 original size:23 final size:23
Alignment explanation
Indices: 65911477--65911521 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
65911467 TATAAATTTA
65911477 AATTAGAAATTA-GAAAAATAAAT
1 AATTA-AAATTATGAAAAATAAAT
**
65911500 AATTATTATTATGAAAAATAAA
1 AATTAAAATTATGAAAAATAAA
65911522 ATTTCTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (23 bp):
AATTAAAATTATGAAAAATAAAT
Found at i:65911760 original size:23 final size:23
Alignment explanation
Indices: 65911730--65911778 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
65911720 TATTGAAGTC
*
65911730 TTTTTATATGTATATCTTGATAA
1 TTTTTATATGTATATCTTAATAA
65911753 TTTTTATATGTATATCTTAATAA
1 TTTTTATATGTATATCTTAATAA
65911776 TTT
1 TTT
65911779 ATACATTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (23 bp):
TTTTTATATGTATATCTTAATAA
Found at i:65912793 original size:78 final size:78
Alignment explanation
Indices: 65912671--65912816 Score: 292
Period size: 78 Copynumber: 1.9 Consensus size: 78
65912661 TTTGTGCAAC
65912671 CCAAAGAAAATAAGGACTCAACCCTGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCAACCTCAA
1 CCAAAGAAAATAAGGACTCAACCCTGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCAACCTCAA
65912736 CAAGCGGTGCAGG
66 CAAGCGGTGCAGG
65912749 CCAAAGAAAATAAGGACTCAACCCTGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCAACCTCAA
1 CCAAAGAAAATAAGGACTCAACCCTGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCAACCTCAA
65912814 CAA
66 CAA
65912817 TCGGAAGACT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.12
Consensus pattern (78 bp):
CCAAAGAAAATAAGGACTCAACCCTGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCAACCTCAA
CAAGCGGTGCAGG
Found at i:65918471 original size:21 final size:21
Alignment explanation
Indices: 65918438--65918486 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
65918428 ATAAATAAAA
*
65918438 TCATTCA-TGTCAATTCCCTG
1 TCATTCACTGTCAATTCACTG
*
65918458 TCATTCACTGTCAATTTACTG
1 TCATTCACTGTCAATTCACTG
65918479 TCATTCAC
1 TCATTCAC
65918487 AACTTCTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.22, C:0.29, G:0.08, T:0.41
Consensus pattern (21 bp):
TCATTCACTGTCAATTCACTG
Found at i:65918478 original size:11 final size:11
Alignment explanation
Indices: 65918440--65918486 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
65918430 AAATAAAATC
65918440 ATTCA-TGTCA
1 ATTCACTGTCA
*
65918450 ATTCCCTGTC-
1 ATTCACTGTCA
65918460 ATTCACTGTCA
1 ATTCACTGTCA
*
65918471 ATTTACTGTC-
1 ATTCACTGTCA
65918481 ATTCAC
1 ATTCAC
65918487 AACTTCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 18 0.58
11 13 0.42
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (11 bp):
ATTCACTGTCA
Found at i:65918697 original size:21 final size:19
Alignment explanation
Indices: 65918660--65918730 Score: 97
Period size: 19 Copynumber: 3.6 Consensus size: 19
65918650 TGATTAAGCC
65918660 AACAGAAGCTCGAAAGCTG
1 AACAGAAGCTCGAAAGCTG
65918679 AACAGAAGCTCGTGAAAGCTG
1 AACAGAAGCTC--GAAAGCTG
* * *
65918700 AATAGAAGCTCAAAAGCTA
1 AACAGAAGCTCGAAAGCTG
65918719 AACAGAAGCTCG
1 AACAGAAGCTCG
65918731 TGAGAGCTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
19 27 0.60
21 18 0.40
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.13
Consensus pattern (19 bp):
AACAGAAGCTCGAAAGCTG
Found at i:65918723 original size:40 final size:40
Alignment explanation
Indices: 65918663--65918741 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
65918653 TTAAGCCAAC
* *
65918663 AGAAGCTCGAAAGCTGAACAGAAGCTCGTGAAAGCTGAAT
1 AGAAGCTCAAAAGCTAAACAGAAGCTCGTGAAAGCTGAAT
*
65918703 AGAAGCTCAAAAGCTAAACAGAAGCTCGTGAGAGCTGAA
1 AGAAGCTCAAAAGCTAAACAGAAGCTCGTGAAAGCTGAA
65918742 AGTAAAACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.14
Consensus pattern (40 bp):
AGAAGCTCAAAAGCTAAACAGAAGCTCGTGAAAGCTGAAT
Found at i:65918775 original size:27 final size:27
Alignment explanation
Indices: 65918744--65918801 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
65918734 GAGCTGAAAG
* *
65918744 TAAAACATGAGAGTTCGTAACAAATCC
1 TAAAACACGAGAGTTCGCAACAAATCC
65918771 TAAAACACGAGAGTTCGCAACAAATCC
1 TAAAACACGAGAGTTCGCAACAAATCC
65918798 TAAA
1 TAAA
65918802 CCCTAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.47, C:0.21, G:0.14, T:0.19
Consensus pattern (27 bp):
TAAAACACGAGAGTTCGCAACAAATCC
Found at i:65918926 original size:17 final size:17
Alignment explanation
Indices: 65918906--65918944 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
65918896 AAATCCAATT
65918906 CAATATTAT-AATTCCAA
1 CAATATT-TCAATTCCAA
*
65918923 CAATATTTCATTTCCAA
1 CAATATTTCAATTCCAA
65918940 CAATA
1 CAATA
65918945 GAATAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (17 bp):
CAATATTTCAATTCCAA
Found at i:65923923 original size:19 final size:19
Alignment explanation
Indices: 65923877--65923923 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
65923867 TATACAAAGT
*
65923877 TAAATATATCAATAATATA
1 TAAATATATCAATAATACA
*
65923896 T-AATAATATTAATAATACA
1 TAAAT-ATATCAATAATACA
65923915 TAAATATAT
1 TAAATATAT
65923924 AAAGGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.12
19 18 0.75
20 3 0.12
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATATCAATAATACA
Found at i:65925791 original size:3 final size:3
Alignment explanation
Indices: 65925783--65925820 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
65925773 ATCACATGTT
65925783 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
65925821 TGGATGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:65937651 original size:24 final size:21
Alignment explanation
Indices: 65937597--65937640 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
65937587 GTATAAGGTT
65937597 AGAGAGAGTTTTTGATGATTA
1 AGAGAGAGTTTTTGATGATTA
65937618 AGAGAGAGTTTTTGATGATTA
1 AGAGAGAGTTTTTGATGATTA
65937639 AG
1 AG
65937641 GGAGGGGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.30, T:0.36
Consensus pattern (21 bp):
AGAGAGAGTTTTTGATGATTA
Found at i:65944991 original size:16 final size:16
Alignment explanation
Indices: 65944970--65945002 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
65944960 CATCAATGTT
65944970 AGGAATGGTGAAATGG
1 AGGAATGGTGAAATGG
65944986 AGGAATGGTGAAATGG
1 AGGAATGGTGAAATGG
65945002 A
1 A
65945003 ATAGGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.18
Consensus pattern (16 bp):
AGGAATGGTGAAATGG
Found at i:65945262 original size:27 final size:27
Alignment explanation
Indices: 65945232--65945312 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
65945222 AATATAGCCT
*
65945232 ATCAGGATAGTAAACACGAGGTAGTCC
1 ATCAGGACAGTAAACACGAGGTAGTCC
* *
65945259 ATCAGGACAGTAAATACGAGGTAGTCT
1 ATCAGGACAGTAAACACGAGGTAGTCC
* *
65945286 A-CTGGGACAATAAACACGAGGTAGTCC
1 ATC-AGGACAGTAAACACGAGGTAGTCC
65945313 GCAGGGAGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.19
Consensus pattern (27 bp):
ATCAGGACAGTAAACACGAGGTAGTCC
Found at i:65945319 original size:27 final size:27
Alignment explanation
Indices: 65945242--65945328 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
65945232 ATCAGGATAG
*
65945242 TAAACACGAGGTAGTCCATCA-GGACAG
1 TAAACACGAGGTAGTCCA-CAGGGACAA
* * *
65945269 TAAATACGAGGTAGTCTACTGGGACAA
1 TAAACACGAGGTAGTCCACAGGGACAA
* * *
65945296 TAAACACGAGGTAGTCCGCAGGGAGAT
1 TAAACACGAGGTAGTCCACAGGGACAA
65945323 TAAACA
1 TAAACA
65945329 TAGGGTAAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
26 1 0.02
27 48 0.98
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.17
Consensus pattern (27 bp):
TAAACACGAGGTAGTCCACAGGGACAA
Found at i:65950869 original size:40 final size:40
Alignment explanation
Indices: 65950814--65951129 Score: 497
Period size: 40 Copynumber: 7.9 Consensus size: 40
65950804 CTCGCCGATG
* **
65950814 ATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGAAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
65950854 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
65950894 ATCCGGGCTAAATCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
65950934 ATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
65950974 ATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
65951014 ATCCGGGCTAAGTCTCAAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
65951054 ATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
65951094 ATTCGGGCTAGGTCCCGAAGAGCATTCATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
65951130 ATGTGTATTC
Statistics
Matches: 252, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 252 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
Found at i:65951343 original size:25 final size:25
Alignment explanation
Indices: 65951293--65951343 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
65951283 TGTGTAACAA
* *
65951293 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
65951318 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
65951343 C
1 C
65951344 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:65954899 original size:47 final size:46
Alignment explanation
Indices: 65954830--65954985 Score: 192
Period size: 47 Copynumber: 3.3 Consensus size: 46
65954820 AGCTTAAGAT
65954830 CGAATGGCCAATGTGATGAATGTGAAAGGGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAA-GGTGTATATGTGATAAGGC
*
65954877 CGAATGGCCAATGTGATGAATGTGAAA-GTGCATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGGTG--TATATGTGATAAGGC
** * *
65954924 CGAATGGTTAATGTGAT-ATATGTGTAA-GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGGTGTATATGTGATAAGGC
*
65954969 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
65954986 AAAGTGTGCA
Statistics
Matches: 96, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
45 24 0.25
46 6 0.06
47 66 0.69
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGGTGTATATGTGATAAGGC
Found at i:65955109 original size:39 final size:40
Alignment explanation
Indices: 65955055--65955140 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 40
65955045 TAAATGAATT
* * * *
65955055 ATGCTGAGATTGTATCCGGG-TTAGAGACCCGCTGGCTTC
1 ATGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTA
*
65955094 ATGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTA
1 ATGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTA
65955134 ATGCTGG
1 ATGCTGG
65955141 TGAATTAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 19 0.46
40 22 0.54
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (40 bp):
ATGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTA
Found at i:65956061 original size:108 final size:108
Alignment explanation
Indices: 65955930--65956144 Score: 421
Period size: 108 Copynumber: 2.0 Consensus size: 108
65955920 TATGTGCTTC
65955930 TAAATATGGAAACTAAACATGGTAAAAGTATTATGTTTTAGTTTGATTGATTGAATTAGAAGTAG
1 TAAATATGGAAACTAAACATGGTAAAAGTATTATGTTTTAGTTTGATTGATTGAATTAGAAGTAG
65955995 ATATGAGGTTTCTAGATGCGAAAGACTATGTGAATCAAATTTG
66 ATATGAGGTTTCTAGATGCGAAAGACTATGTGAATCAAATTTG
*
65956038 TAAATATGGAAACTAAACATGGTAAAAGTATTATGTTTTAGTTTGATTTATTGAATTAGAAGTAG
1 TAAATATGGAAACTAAACATGGTAAAAGTATTATGTTTTAGTTTGATTGATTGAATTAGAAGTAG
65956103 ATATGAGGTTTCTAGATGCGAAAGACTATGTGAATCAAATTT
66 ATATGAGGTTTCTAGATGCGAAAGACTATGTGAATCAAATTT
65956145 AGAAGAAATA
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (108 bp):
TAAATATGGAAACTAAACATGGTAAAAGTATTATGTTTTAGTTTGATTGATTGAATTAGAAGTAG
ATATGAGGTTTCTAGATGCGAAAGACTATGTGAATCAAATTTG
Found at i:65959709 original size:38 final size:37
Alignment explanation
Indices: 65959660--65959787 Score: 89
Period size: 38 Copynumber: 3.3 Consensus size: 37
65959650 TTTAAGATTT
65959660 AATTTATATAATTTAATTTTGACATAATTTGATACCTC
1 AATTT-TATAATTTAATTTTGACATAATTTGATACCTC
* * * * * * *
65959698 AATCTTTATAATATCATTAGTTAGTC-TAAATTTAAGA-TTT
1 AAT-TTTATAATTTAATT--TT-GACAT-AATTTGATACCTC
* *
65959738 AATTTATATAATTTAATTTTAACATAATTTGATGCCTC
1 AATTT-TATAATTTAATTTTGACATAATTTGATACCTC
65959776 AATTTTTATAAT
1 AA-TTTTATAAT
65959788 ATCATTAGTT
Statistics
Matches: 65, Mismatches: 16, Indels: 18
0.66 0.16 0.18
Matches are distributed among these distances:
37 7 0.11
38 25 0.38
39 7 0.11
40 17 0.26
41 9 0.14
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (37 bp):
AATTTTATAATTTAATTTTGACATAATTTGATACCTC
Found at i:65959819 original size:78 final size:78
Alignment explanation
Indices: 65959647--65959805 Score: 284
Period size: 78 Copynumber: 2.1 Consensus size: 78
65959637 ATATTTGCTC
*
65959647 AAATTTAAGATTTAATTTATATAATTTAATTTTGACATAATTTGATACCTCAATCTTTATAATAT
1 AAATTTAAGATTTAATTTATATAATTTAATTTTAACATAATTTGATACCTCAATCTTTATAATAT
65959712 CATTAGTTAGTCT
66 CATTAGTTAGTCT
* *
65959725 AAATTTAAGATTTAATTTATATAATTTAATTTTAACATAATTTGATGCCTCAATTTTTATAATAT
1 AAATTTAAGATTTAATTTATATAATTTAATTTTAACATAATTTGATACCTCAATCTTTATAATAT
65959790 CATTAGTT-GTCT
66 CATTAGTTAGTCT
65959802 AAAT
1 AAAT
65959806 ATTTTATTCT
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 8 0.10
78 70 0.90
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (78 bp):
AAATTTAAGATTTAATTTATATAATTTAATTTTAACATAATTTGATACCTCAATCTTTATAATAT
CATTAGTTAGTCT
Found at i:65966407 original size:33 final size:34
Alignment explanation
Indices: 65966336--65966431 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 34
65966326 TATGGTGGTA
* *
65966336 GATACGGGTCGGAAAGAGNTGGAGTAC-GACGATT
1 GATACGGGCCGGAAAGAG-TGGAGTACTGACGATG
65966370 GATACGGGCCGGAAAGAGTGGAGTACTGA-GATG
1 GATACGGGCCGGAAAGAGTGGAGTACTGACGATG
* * *
65966403 GATACGAGCCAGG-ATGACTGGAGTACTGA
1 GATACGGGCC-GGAAAGAGTGGAGTACTGA
65966432 TGTAGTAGTG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
33 34 0.62
34 21 0.38
ACGTcount: A:0.30, C:0.14, G:0.39, T:0.17
Consensus pattern (34 bp):
GATACGGGCCGGAAAGAGTGGAGTACTGACGATG
Found at i:65968741 original size:11 final size:11
Alignment explanation
Indices: 65968725--65968775 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
65968715 ACACAACAAT
*
65968725 TTATAACTTAA
1 TTATAAATTAA
*
65968736 TTATAAATTAC
1 TTATAAATTAA
*
65968747 TAATAAATTAA
1 TTATAAATTAA
* *
65968758 TTTTAAAATAA
1 TTATAAATTAA
65968769 TTATAAA
1 TTATAAA
65968776 AAACAAAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (11 bp):
TTATAAATTAA
Found at i:65968956 original size:16 final size:16
Alignment explanation
Indices: 65968931--65968961 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65968921 AATACATTAC
*
65968931 CTTTTTTTTTCTTCTT
1 CTTTTCTTTTCTTCTT
65968947 CTTTTCTTTTCTTCT
1 CTTTTCTTTTCTTCT
65968962 CCTCTTCTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
CTTTTCTTTTCTTCTT
Found at i:65968969 original size:16 final size:16
Alignment explanation
Indices: 65968937--65968970 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
65968927 TTACCTTTTT
* *
65968937 TTTTCTTCTTCTTTTC
1 TTTTCTTCTCCTCTTC
65968953 TTTTCTTCTCCTCTTC
1 TTTTCTTCTCCTCTTC
65968969 TT
1 TT
65968971 CTCCTTTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTCTTCTCCTCTTC
Found at i:65969994 original size:23 final size:24
Alignment explanation
Indices: 65969949--65969994 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
65969939 TTATGACTTC
* *
65969949 ATTTTTTTTGAAGGGATTTAAAGA
1 ATTTTTTTTAAAGGGATTCAAAGA
65969973 ATTTTTTTTAAAGGGA-TCAAAG
1 ATTTTTTTTAAAGGGATTCAAAG
65969995 TATAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (24 bp):
ATTTTTTTTAAAGGGATTCAAAGA
Found at i:65970737 original size:48 final size:47
Alignment explanation
Indices: 65970665--65970799 Score: 157
Period size: 48 Copynumber: 2.8 Consensus size: 47
65970655 AGTGATAATT
* *
65970665 TTAAATTTTCAATACTATTCGATATTTTTTTAATTTATGTAAATT-TAA
1 TTAAA-TTTCAATACTATTTGATATTTTTTTCATTTATG-AAATTATAA
* * *
65970713 TTAAATTTGCAATATTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTATTTGATATTTTTTTCATTTATGAAATTATAA
**
65970761 TTAAAATTTCAATACTGCTTGAT-TTTTTTTCATTTATGA
1 TT-AAATTTCAATACTATTTGATATTTTTTTCATTTATGA
65970800 TGTTTGCATT
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
47 21 0.28
48 47 0.64
49 6 0.08
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.53
Consensus pattern (47 bp):
TTAAATTTCAATACTATTTGATATTTTTTTCATTTATGAAATTATAA
Found at i:65971764 original size:7 final size:7
Alignment explanation
Indices: 65971752--65971784 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
65971742 TAGTCGTTTC
65971752 GTATTTA
1 GTATTTA
65971759 GTATTTA
1 GTATTTA
65971766 GTATTTA
1 GTATTTA
65971773 GTATTTA
1 GTATTTA
65971780 GTATT
1 GTATT
65971785 ATGTATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:65971790 original size:7 final size:7
Alignment explanation
Indices: 65971780--65971811 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
65971770 TTAGTATTTA
65971780 GTATTAT
1 GTATTAT
65971787 GTATTAT
1 GTATTAT
65971794 GTATTAT
1 GTATTAT
65971801 GTATATAT
1 GTAT-TAT
65971809 GTA
1 GTA
65971812 ATATTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (7 bp):
GTATTAT
Found at i:65971790 original size:14 final size:14
Alignment explanation
Indices: 65971759--65971804 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
65971749 TTCGTATTTA
65971759 GTATTTAGTATT-T
1 GTATTTAGTATTAT
65971772 AGTATTTAGTATTAT
1 -GTATTTAGTATTAT
65971787 GTA-TTATGTATTAT
1 GTATTTA-GTATTAT
65971801 GTAT
1 GTAT
65971805 ATATGTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.10
14 25 0.86
15 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (14 bp):
GTATTTAGTATTAT
Found at i:65971798 original size:21 final size:21
Alignment explanation
Indices: 65971752--65971791 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
65971742 TAGTCGTTTC
65971752 GTATTTAGTATT-TAGTATTTA
1 GTATTTAGTATTAT-GTATTTA
65971773 GTATTTAGTATTATGTATT
1 GTATTTAGTATTATGTATT
65971792 ATGTATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
GTATTTAGTATTATGTATTTA
Found at i:65972409 original size:18 final size:18
Alignment explanation
Indices: 65972386--65972423 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
65972376 TGCTAGGTGC
*
65972386 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
65972404 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
65972422 GT
1 GT
65972424 TTTCTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:65976091 original size:126 final size:126
Alignment explanation
Indices: 65975866--65976246 Score: 600
Period size: 126 Copynumber: 3.0 Consensus size: 126
65975856 TTATAGCCTC
*
65975866 ATTTTTCTACGTACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * * *
65975931 ACAGCGCATCCTACTTAAAGCATTTTCAACACTATTTGTTCAGAAACATCTACTCAGAATT
66 ACAGTGCATCCTACTTAAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * * *
65975992 ATTTTTCTACGAACTACTGTAGCAAAAGAACGTCCACTTGAGAGCTTTTTTTAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * *
65976057 ATAGTGCTTCCTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTACTTAAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
65976118 ATATTTCTAAGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * * *
65976183 ACAGTGCATCCTGCTTAAAGCGTTTTCGACTCTATTTGTTTAGAAACGTCTACTCAAAATT
66 ACAGTGCATCCTACTTAAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
65976244 ATT
1 ATT
65976247 CTTACAGAAA
Statistics
Matches: 229, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 229 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTACTTAAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:65976869 original size:35 final size:38
Alignment explanation
Indices: 65976788--65976877 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 38
65976778 AGGATTATGT
*
65976788 ATCAATTAACCCTAAATTAATCAATTAAACCTAAATTTA
1 ATCAATTAACCCTAATTTAATCAATT-AACCTAAATTTA
*
65976827 ATCAATTAACCCTAATTTAATCAA-T-CCCT-AATTTA
1 ATCAATTAACCCTAATTTAATCAATTAACCTAAATTTA
*
65976862 ATTAATTAACCCTAAT
1 ATCAATTAACCCTAAT
65976878 ACCTTAAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
35 21 0.44
36 3 0.06
38 1 0.02
39 23 0.48
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (38 bp):
ATCAATTAACCCTAATTTAATCAATTAACCTAAATTTA
Found at i:65976877 original size:19 final size:19
Alignment explanation
Indices: 65976788--65976877 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
65976778 AGGATTATGT
*
65976788 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAATTTA
*
65976807 ATCAATTAAACCTAAATTTA
1 ATCAATTAACCCT-AATTTA
65976827 ATCAATTAACCCTAATTTA
1 ATCAATTAACCCTAATTTA
65976846 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAATTTA
*
65976862 ATTAATTAACCCTAAT
1 ATCAATTAACCCTAAT
65976878 ACCTTAAACT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
16 14 0.22
17 1 0.02
18 1 0.02
19 30 0.48
20 17 0.27
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (19 bp):
ATCAATTAACCCTAATTTA
Found at i:65976993 original size:17 final size:17
Alignment explanation
Indices: 65976971--65977003 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
65976961 CCTTAAATTC
65976971 TAAACCTTAAAAAACCA
1 TAAACCTTAAAAAACCA
65976988 TAAACCTTAAAAAACC
1 TAAACCTTAAAAAACC
65977004 CTACCCTAAA
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:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAACCTTAAAAAACCA
Found at i:65981076 original size:23 final size:23
Alignment explanation
Indices: 65981050--65981095 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
65981040 GTGTTTCATG
*
65981050 TCTGTTGCCTGATTAAGTTACAT
1 TCTGCTGCCTGATTAAGTTACAT
65981073 TCTGCTGCCTGATTAAGTTACAT
1 TCTGCTGCCTGATTAAGTTACAT
65981096 ACTAGCTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (23 bp):
TCTGCTGCCTGATTAAGTTACAT
Done.