Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold29
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: 5511024
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 57772 characters in sequence are not A, C, G, or T
File 33 of 34
Found at i:5263352 original size:157 final size:155
Alignment explanation
Indices: 5263168--5263641 Score: 433
Period size: 157 Copynumber: 3.1 Consensus size: 155
5263158 TACTCAATAC
* * * *
5263168 CCCTAAAGGACATAAAAGGGACTATAAAAGGGATGAACCTATCCTAAATGCCCGCCTTCGGCATA
1 CCCTAAAGGACTTAAAAGAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCATCGGCATA
* * *
5263233 AAAGCAGACCCGATGACAACCTAGGAGTCAGTTCTAAAAAATTACGAAAATACCCTTACGGGTAT
66 AAAGCAGACCCGATGACAACCTAGGAATCAGTTC-AAAAAATTACGAAAATACCCCTA-GGGGAT
*
5263298 ACCTTT-A-ATGCAAAAGTATCCCGAGAA
129 ACATTTGATATG--AAAGTATCCCGAGAA
*
5263325 CCTTAAAGGACTTAAAA-AGACTCATAAAAGGGATGAACCTATCCTAAATGCCCACCATCGGCAT
1 CCCTAAAGGACTTAAAAGAGACT-ATAAAAGGGATGAACCTATCCTAAATGCCCACCATCGGCAT
* * * * ** * * *
5263389 AAAAGCGGACCTGGTGATAACCTAGGAATTGGTTCAAAAAATTATGAAATTGCCCCTAGGGGATA
65 AAAAGCAGACCCGATGACAACCTAGGAATCAGTTCAAAAAATTACGAAAATACCCCTAGGGGATA
*
5263454 CATTTGATATGAAAGTATCCCGA-TA
130 CATTTGATATGAAAGTATCCCGAGAA
* * *
5263479 CCC-------C-T-AAAG-GACTATAAAAGGGATGAAGCAATCCTAAATGCCCACCTTCGGCATA
1 CCCTAAAGGACTTAAAAGAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCATCGGCATA
* * * * * * * *
5263534 AAAGCGGACCCGGTGACAACCTAGGACA-CGGTTCTCAGAAATTACGAAAGTA-CCCTATGTGTA
66 AAAGCAGACCCGATGACAACCTAGGA-ATCAGTTC-AAAAAATTACGAAAATACCCCTA-GGGGA
* ** * *
5263597 TACCTTTGACGTAAAAGTATCCCG-GTAC
128 TACATTTGATATGAAAGTATCCCGAG-AA
5263625 CCCTAAAGGACTTAAAA
1 CCCTAAAGGACTTAAAA
5263642 ATGACAAGTA
Statistics
Matches: 260, Mismatches: 39, Indels: 38
0.77 0.12 0.11
Matches are distributed among these distances:
144 73 0.28
145 43 0.17
146 4 0.02
147 1 0.00
153 1 0.00
154 4 0.02
155 25 0.10
156 24 0.09
157 85 0.33
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (155 bp):
CCCTAAAGGACTTAAAAGAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCATCGGCATA
AAAGCAGACCCGATGACAACCTAGGAATCAGTTCAAAAAATTACGAAAATACCCCTAGGGGATAC
ATTTGATATGAAAGTATCCCGAGAA
Found at i:5263641 original size:144 final size:144
Alignment explanation
Indices: 5263343--5263641 Score: 379
Period size: 144 Copynumber: 2.1 Consensus size: 144
5263333 GACTTAAAAA
* * *
5263343 GACTCATAAAAGGGATGAACCTATCCTAAATGCCCACCATCGGCATAAAAGCGGACCTGGTGATA
1 GACT-ATAAAAGGGATGAACCAATCCTAAATGCCCACCATCGGCATAAAAGCGGACCCGGTGACA
* * * * * *
5263408 ACCTAGGAATTGGTTCAAAAAATTATGAAATTGCCCCTAGGGGATACATTTGATATGAAAGTATC
65 ACCTAGGAATCGGTTCAAAAAATTACGAAAGTGACCCTAGGGGATACATTTGACATAAAAGTATC
5263473 CCGATACCCCTAAAG
130 CCGATACCCCTAAAG
* *
5263488 GACTATAAAAGGGATGAAGCAATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAA
1 GACTATAAAAGGGATGAACCAATCCTAAATGCCCACCATCGGCATAAAAGCGGACCCGGTGACAA
* * * * * *
5263553 CCTAGGACA-CGGTTCTCAGAAATTACGAAAGT-ACCCTATGTGTATACCTTTGACGTAAAAGTA
66 CCTAGGA-ATCGGTTC-AAAAAATTACGAAAGTGACCCTA-GGGGATACATTTGACATAAAAGTA
*
5263616 TCCCGGTACCCCTAAAG
128 TCCCGATACCCCTAAAG
5263633 GACT-TAAAA
1 GACTATAAAA
5263642 ATGACAAGTA
Statistics
Matches: 133, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
144 78 0.59
145 55 0.41
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (144 bp):
GACTATAAAAGGGATGAACCAATCCTAAATGCCCACCATCGGCATAAAAGCGGACCCGGTGACAA
CCTAGGAATCGGTTCAAAAAATTACGAAAGTGACCCTAGGGGATACATTTGACATAAAAGTATCC
CGATACCCCTAAAG
Found at i:5265179 original size:25 final size:25
Alignment explanation
Indices: 5265143--5265233 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
5265133 GTTGTTTTTT
* * *
5265143 GTTGCTTTCTTCTTCATCAAATGTC
1 GTTGCTTGCTTCTTCAGCAGATGTC
* * *
5265168 GTTGCTTGCTTCTTTAGCTGTTGTC
1 GTTGCTTGCTTCTTCAGCAGATGTC
* * *
5265193 GTTGCTTACTTCTTCAGCAGCTGCC
1 GTTGCTTGCTTCTTCAGCAGATGTC
*
5265218 ATTGCTTGCTTCTTCA
1 GTTGCTTGCTTCTTCA
5265234 ACTATTACCA
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.11, C:0.25, G:0.18, T:0.46
Consensus pattern (25 bp):
GTTGCTTGCTTCTTCAGCAGATGTC
Found at i:5267808 original size:84 final size:82
Alignment explanation
Indices: 5267720--5267988 Score: 208
Period size: 84 Copynumber: 3.2 Consensus size: 82
5267710 ACAGGTAAAC
5267720 AAAGGATAAAGAAGTTGAATGAGATTAGATCAACAAGTCAACAAAAGATTAAAGGAAGTATCTGG
1 AAAGGATAAA-AAGTTGAATGAGATTAGATCAACAAGTCAACAAAAGATTAAAGGAAGTA-CTGG
5267785 GACCAAGCCGTAGGGGAAT
64 GACCAAGCCGTAGGGGAAT
* * * * * ** **
5267804 AAAGGATAAAAAGTTG-ATCAAGATTAAACCAATAAGTCAACGAGGGA-TAAAGGATTTACTAGG
1 AAAGGATAAAAAGTTGAAT-GAGATTAGATCAACAAGTCAACAAAAGATTAAAGGAAGTACT-GG
* * * *
5267867 GACTAGGCCG-ATGGGTAAAC
64 GACCAAGCCGTA-GGG-GAAT
* ** * *
5267887 AAAGGATAAAAAAGTTGACCA-G-GATTAGTTTGACAAGTCAACAAAAGATAAAAAGAAGTACTT
1 AAAGGAT-AAAAAGTTGA--ATGAGATTAGATCAACAAGTCAACAAAAGATTAAAGGAAGTAC-T
* *
5267950 GGGACCAA-CTTGATAGGTGAAT
62 GGGACCAAGC-CG-TAGGGGAAT
5267972 AAAGGATAAAAAGTTGA
1 AAAGGATAAAAAGTTGA
5267989 CCAGGATTAA
Statistics
Matches: 139, Mismatches: 33, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
81 3 0.02
82 24 0.17
83 36 0.26
84 47 0.34
85 24 0.17
86 3 0.02
87 2 0.01
ACGTcount: A:0.46, C:0.10, G:0.25, T:0.19
Consensus pattern (82 bp):
AAAGGATAAAAAGTTGAATGAGATTAGATCAACAAGTCAACAAAAGATTAAAGGAAGTACTGGGA
CCAAGCCGTAGGGGAAT
Found at i:5267812 original size:167 final size:165
Alignment explanation
Indices: 5267607--5268148 Score: 621
Period size: 167 Copynumber: 3.2 Consensus size: 165
5267597 AATATAAGAA
* * * *
5267607 AAGTACCTGGGACCAAGCCGACAGGTGAATGAAGGATAAAAAGTTGATCGAGATTAAACTGACAA
1 AAGTACCTGGGACCAAGCCGACAGGTGAATAAAGGATAAAAAGTTGATCAAGATTAAACCGATAA
* *
5267672 GTCAATGAGGAATAAAAGATTTACCTAGGACTGGGTCGACAGGTAAACAAAGGATAAAGAAGTTG
66 GTCAATGAGG-ATAAAAGATTTACCTAGGACTGGGCCGACGGGTAAACAAAGGATAAA-AAGTTG
*
5267737 AATGAGATTAGATCAACAAGTCAACAAAAGATTAAAGG
129 AA-GAGATTAGATCAACAAGTCAACAAAAGATTAAAAG
* * * *
5267775 AAGTATCTGGGACCAAGCCG-TAGGGGAATAAAGGATAAAAAGTTGATCAAGATTAAACCAATAA
1 AAGTACCTGGGACCAAGCCGACAGGTGAATAAAGGATAAAAAGTTGATCAAGATTAAACCGATAA
* * * *
5267839 GTCAACGAGGGATAAAGGATTTA-CTAGGGACTAGGCCGATGGGTAAACAAAGGATAAAAAAGTT
66 GTCAATGA-GGATAAAAGATTTACCTA-GGACTGGGCCGACGGGTAAACAAAGGAT-AAAAAGTT
* ** *
5267903 GACCAG-GATTAGTTTGACAAGTCAACAAAAGATAAAAAG
128 GA--AGAGATTAGATCAACAAGTCAACAAAAGATTAAAAG
* * * * *
5267942 AAGTACTTGGGACCAA-CTTGATAGGTGAATAAAGGATAAAAAGTTGACCAGGATTAAACCGATA
1 AAGTACCTGGGACCAAGC-CGACAGGTGAATAAAGGATAAAAAGTTGATCAAGATTAAACCGATA
** * *
5268006 AGTTGATGAAGGATAAAA-ATTTACCTGGGACTGGGCCGGCGGGTAAACAAAGGATAAAAAGGTT
65 AGTCAATG-AGGATAAAAGATTTACCTAGGACTGGGCCGACGGGTAAACAAAGGATAAAAA-GTT
* * *
5268070 GACCA-AGGTTGGATCAATAAGTCAACAAAAGA-TAGAAAG
128 GA--AGAGATTAGATCAACAAGTCAACAAAAGATTA-AAAG
*
5268109 AAGTACCTGGGACCAAGCCGACAGGTGAATGAAGGATAAA
1 AAGTACCTGGGACCAAGCCGACAGGTGAATAAAGGATAAA
5268149 GGTTGATTGG
Statistics
Matches: 316, Mismatches: 45, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
166 10 0.03
167 225 0.71
168 79 0.25
169 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.18
Consensus pattern (165 bp):
AAGTACCTGGGACCAAGCCGACAGGTGAATAAAGGATAAAAAGTTGATCAAGATTAAACCGATAA
GTCAATGAGGATAAAAGATTTACCTAGGACTGGGCCGACGGGTAAACAAAGGATAAAAAGTTGAA
GAGATTAGATCAACAAGTCAACAAAAGATTAAAAG
Found at i:5268213 original size:84 final size:84
Alignment explanation
Indices: 5268118--5268291 Score: 339
Period size: 84 Copynumber: 2.1 Consensus size: 84
5268108 GAAGTACCTG
*
5268118 GGACCAAGCCGACAGGTGAATGAAGGATAAAGGTTGATTGGAGATTGAGCTAACAAGTCACCATA
1 GGACTAAGCCGACAGGTGAATGAAGGATAAAGGTTGATTGGAGATTGAGCTAACAAGTCACCATA
5268183 ACGGTAATAGGCTTACCGA
66 ACGGTAATAGGCTTACCGA
5268202 GGACTAAGCCGACAGGTGAATGAAGGATAAAGGTTGATTGGAGATTGAGCTAACAAGTCACCATA
1 GGACTAAGCCGACAGGTGAATGAAGGATAAAGGTTGATTGGAGATTGAGCTAACAAGTCACCATA
5268267 ACGGTAATAGGCTTACCGA
66 ACGGTAATAGGCTTACCGA
5268286 GGACTA
1 GGACTA
5268292 TCGAAGACTG
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.20
Consensus pattern (84 bp):
GGACTAAGCCGACAGGTGAATGAAGGATAAAGGTTGATTGGAGATTGAGCTAACAAGTCACCATA
ACGGTAATAGGCTTACCGA
Found at i:5268410 original size:84 final size:82
Alignment explanation
Indices: 5268296--5268709 Score: 429
Period size: 84 Copynumber: 4.9 Consensus size: 82
5268286 GGACTATCGA
*
5268296 AGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTATTAGGGACTAAGCCGACTGGTAAACA
1 AGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTA-CAGGGACTAAGCCGACTGGTAAACA
* *
5268361 ATGGATAATGGTTGATCAG
65 AAGGATAA-GGTTGACCAG
* * * * * *
5268380 AGACTGAGCTGATAGGTCACTATAAGGGTAATAGGTTTACCATGGACTAAGCCAACAGGTAAACA
1 AGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTA-CAGGGACTAAGCCGACTGGTAAACA
*
5268445 AAGGATGAAGGTTGACCGG
65 AAGGAT-AAGGTTGACCAG
* * ** * ** *
5268464 AGACTAAGCTGACAAGTCACCATAAGGGTAAAAGGTTTACCGAGGACTAAGTTGA-TAGGTGAAC
1 AGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACAG-GGACTAAGCCGACT-GGTAAAC
*
5268528 AAAAGATGAAGGTTGACCAG
64 AAAGGAT-AAGGTTGACCAG
* * *
5268548 TGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACTAGGGACTAAG-CGAACGGGTAAAT
1 AGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTAC-AGGGACTAAGCCG-ACTGGTAAAC
* *
5268612 AAAAGATAAAGGTTGACCGG
64 AAAGGAT-AAGGTTGACCAG
* * * *
5268632 AGATTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACCGGGAACTAAGCTGA-TAGGTAAAT
1 AGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACAGGG-ACTAAGCCGACT-GGTAAAC
*
5268696 AATGGATAAAGGTT
64 AAAGGAT-AAGGTT
5268710 ATTTTTCCAG
Statistics
Matches: 277, Mismatches: 44, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
83 5 0.02
84 268 0.97
85 4 0.01
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.21
Consensus pattern (82 bp):
AGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACAGGGACTAAGCCGACTGGTAAACAA
AGGATAAGGTTGACCAG
Found at i:5268512 original size:43 final size:43
Alignment explanation
Indices: 5268381--5268691 Score: 146
Period size: 43 Copynumber: 7.4 Consensus size: 43
5268371 GTTGATCAGA
* * * *
5268381 GACTGAGCTGATAGGTCACTATAAGGGTAATAGGTTTACC-ATG
1 GACTAAGCTGACAGGTCACCATAAGGGTAAAAGGTTTACCGA-G
** * * * * *
5268424 GACTAAGCCAACAGGTAAACA-AAGGAT-GAAGGTTGACCG-G
1 GACTAAGCTGACAGGTCACCATAAGGGTAAAAGGTTTACCGAG
*
5268464 AGACTAAGCTGACAAGTCACCATAAGGGTAAAAGGTTTACCGAG
1 -GACTAAGCTGACAGGTCACCATAAGGGTAAAAGGTTTACCGAG
* * * * * * * *
5268508 GACTAAGTTGATAGGTGAACA-AAAGAT-GAAGGTTGACC-AG
1 GACTAAGCTGACAGGTCACCATAAGGGTAAAAGGTTTACCGAG
* ** *
5268548 TGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTA-CTAGG
1 -GACTAAGCTGACAGGTCACCATAAGGGTAAAAGGTTTACCGA-G
* * ** *
5268592 GACTAAGC-GAACGGGT-A-AATAAAAG-ATAAAGGTTGACCG-G
1 GACTAAGCTG-ACAGGTCACCATAAGGGTA-AAAGGTTTACCGAG
* * **
5268632 AGATTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACCG-G
1 -GACTAAGCTGACAGGTCACCATAAGGGTAAAAGGTTTACCGAG
*
5268675 GAACTAAGCTGATAGGT
1 G-ACTAAGCTGACAGGT
5268692 AAATAATGGA
Statistics
Matches: 189, Mismatches: 60, Indels: 38
0.66 0.21 0.13
Matches are distributed among these distances:
40 5 0.03
41 71 0.38
42 25 0.13
43 85 0.45
44 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.21
Consensus pattern (43 bp):
GACTAAGCTGACAGGTCACCATAAGGGTAAAAGGTTTACCGAG
Found at i:5268587 original size:168 final size:168
Alignment explanation
Indices: 5268296--5268694 Score: 518
Period size: 168 Copynumber: 2.4 Consensus size: 168
5268286 GGACTATCGA
** *
5268296 AGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTA-TTAGGGACTAAGCCGACT-GGTAAA
1 AGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACCGA-GGACTAAGCTGA-TAGGTAAA
** * * * *
5268359 CAATGGATAATGGTTGATCAGAGACTGAGCTGATAGGTCACTATAAGGGTAATAGGTTTACCATG
64 CAAAAGATAATGGTTGACCAGAGACTGAGCTGACAGGTCACCATAAGGGTAATAGGTTTACCAGG
* *
5268424 GACTAAGCCAACAGGTAAACAAAGGATGAAGGTTGACCGG
129 GACTAAGCCAACAGGTAAACAAAAGATAAAGGTTGACCGG
* * ** * *
5268464 AGACTAAGCTGACAAGTCACCATAAGGGTAAAAGGTTTACCGAGGACTAAGTTGATAGGTGAACA
1 AGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACCGAGGACTAAGCTGATAGGTAAACA
* * *
5268529 AAAGATGAA-GGTTGACCAGTGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACTAGGG
66 AAAGAT-AATGGTTGACCAGAGACTGAGCTGACAGGTCACCATAAGGGTAATAGGTTTACCAGGG
* * *
5268593 ACTAAGCGAACGGGTAAATAAAAGATAAAGGTTGACCGG
130 ACTAAGCCAACAGGTAAACAAAAGATAAAGGTTGACCGG
*
5268632 AGATTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACCG-GGAACTAAGCTGATAGGTAAA
1 AGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACCGAGG-ACTAAGCTGATAGGTAAA
5268695 TAATGGATAA
Statistics
Matches: 197, Mismatches: 30, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
167 3 0.02
168 191 0.97
169 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (168 bp):
AGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACCGAGGACTAAGCTGATAGGTAAACA
AAAGATAATGGTTGACCAGAGACTGAGCTGACAGGTCACCATAAGGGTAATAGGTTTACCAGGGA
CTAAGCCAACAGGTAAACAAAAGATAAAGGTTGACCGG
Found at i:5269214 original size:37 final size:37
Alignment explanation
Indices: 5269158--5269511 Score: 144
Period size: 37 Copynumber: 8.9 Consensus size: 37
5269148 GCTGACAAGC
5269158 AGACTTAATGGTGAAGAAGTCTCCAAGGTCAAAGTCA
1 AGACTTAATGGTGAAGAAGTCTCCAAGGTCAAAGTCA
* * * *
5269195 AGACTTAA-GGTTGAGGAAGTCTCTAGGGTCAAAGCCGACA
1 AGACTTAATGG-TGAAGAAGTCTCCAAGGTCAAA---GTCA
* * * * ** *
5269235 GGCAGACTTAAGGGTCAAGAAGTCTCTAGGGTCAAAACCG
1 ---AGACTTAATGGTGAAGAAGTCTCCAAGGTCAAAGTCA
* * * *
5269275 AGACTTAAGGGTGAAGAAGTCTTCAGGGTCAAAGTTGA
1 AGACTTAATGGTGAAGAAGTCTCCAAGGTCAAAG-TCA
* * *
5269313 TAGGCAAACTTAAGGGTGAAGAAGTCT-CTAGGATCAAAGCTGATA
1 -A-G---ACTTAATGGTGAAGAAGTCTCCAAGG-TCAAAG-T--CA
* * * *
5269358 GGCAGACTTAAAGGTGAAGAATTCTCCAAGGTTAAAGCCA
1 ---AGACTTAATGGTGAAGAAGTCTCCAAGGTCAAAGTCA
* * * *
5269398 GGACTTAAGGGTGAAGAAGTCTCTAAGGTCAAAGCCGATA
1 AGACTTAATGGTGAAGAAGTCTCCAAGGTCAAAGTC---A
* *
5269438 GGCAGACTTAAAGGTGAATG-AGTCTCCAAGGTCAAAGTTA
1 ---AGACTTAATGGTGAA-GAAGTCTCCAAGGTCAAAGTCA
5269478 AGACTTAA-GCGTG-AGAAAGTCTCC-AGGATCAAAG
1 AGACTTAATG-GTGAAG-AAGTCTCCAAGG-TCAAAG
5269512 CTGAGAGGCA
Statistics
Matches: 249, Mismatches: 37, Indels: 62
0.72 0.11 0.18
Matches are distributed among these distances:
35 1 0.00
36 7 0.03
37 112 0.45
39 1 0.00
40 8 0.03
42 3 0.01
43 107 0.43
44 7 0.03
45 1 0.00
46 1 0.00
47 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.21
Consensus pattern (37 bp):
AGACTTAATGGTGAAGAAGTCTCCAAGGTCAAAGTCA
Found at i:5269270 original size:123 final size:123
Alignment explanation
Indices: 5269121--5269614 Score: 364
Period size: 123 Copynumber: 4.0 Consensus size: 123
5269111 CGGATAGACA
* *
5269121 AAGGGTGAAGAAGTCTCTAAGATCAAAGCTGACAAGCAGACTTAATGGTGAAGAAGTCTCCAAGG
1 AAGGGTGAAGAAGTCTCTAAGGTCAAAGC--AC-AG-AGACTTAAGGGTGAAGAAGTCTCCAAGG
* * *
5269186 TCAAAG-TCA-A-G-ACTTAAGGTTGAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTT
62 TCAAAGTTCATAGGAACTTAAGGGTGAAGAAGTCTCTAGGATCAAAGCCGACAGGCAGACTT
* * * * *
5269244 AAGGGTCAAGAAGTCTCTAGGGTCAAA--ACCGAGACTTAAGGGTGAAGAAGTCTTCAGGGTCAA
1 AAGGGTGAAGAAGTCTCTAAGGTCAAAGCACAGAGACTTAAGGGTGAAGAAGTCTCCAAGGTCAA
* * *
5269307 AGTTGATAGGCAAACTTAAGGGTGAAGAAGTCTCTAGGATCAAAGCTGATAGGCAGACTT
66 AGTTCATAGG--AACTTAAGGGTGAAGAAGTCTCTAGGATCAAAGCCGACAGGCAGACTT
* * * * *
5269367 AAAGGTGAAGAATTCTCCAAGGTTAAAGC-CAG-GACTTAAGGGTGAAGAAGTCTCTAAGGTCAA
1 AAGGGTGAAGAAGTCTCTAAGGTCAAAGCACAGAGACTTAAGGGTGAAGAAGTCTCCAAGGTCAA
* * * **
5269430 AG-CCGATAGGCAGACTTAAAGGTGAATG-AGTCTCCAAGG-TCAAA---GTTA---AGACTT
66 AGTTC-ATAGG-A-ACTTAAGGGTGAA-GAAGTCT-CTAGGATCAAAGCCGACAGGCAGACTT
* * * * *
5269484 AAGCGTG-AGAAAGTCTC-CAGGATCAAAGCTGAGAGGCAGACTTAAGGGTAAAGAATTCTCCAA
1 AAGGGTGAAG-AAGTCTCTAAGG-TCAAAGC--ACA-G-AGACTTAAGGGTGAAGAAGTCTCCAA
* * * * *
5269547 GGTCAAAG-CCAATAGGTAGACTTAAGGGTGAAGAAGTATCTAGG-TGAAAGCCGACACGCAGAT
60 GGTCAAAGTTC-ATAGG-A-ACTTAAGGGTGAAGAAGTCTCTAGGATCAAAGCCGACAGGCAGAC
5269610 TT
122 TT
5269612 AAG
1 AAG
5269615 ATTAAAGTAT
Statistics
Matches: 297, Mismatches: 47, Indels: 49
0.76 0.12 0.12
Matches are distributed among these distances:
116 5 0.02
117 54 0.18
118 3 0.01
119 3 0.01
120 5 0.02
121 1 0.00
122 10 0.03
123 199 0.67
124 7 0.02
125 2 0.01
128 8 0.03
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (123 bp):
AAGGGTGAAGAAGTCTCTAAGGTCAAAGCACAGAGACTTAAGGGTGAAGAAGTCTCCAAGGTCAA
AGTTCATAGGAACTTAAGGGTGAAGAAGTCTCTAGGATCAAAGCCGACAGGCAGACTT
Found at i:5269341 original size:80 final size:80
Alignment explanation
Indices: 5269121--5269350 Score: 291
Period size: 80 Copynumber: 2.9 Consensus size: 80
5269111 CGGATAGACA
* * * * * *
5269121 AAGGGTGAAGAAGTCTCTAAGATCAAAGCTGACAAGCAGACTTAATGGTGAAGAAGTCTCCAAGG
1 AAGGGTGAAGAAGTCTCTAGGGTCAAAGCTGACAGGCAGACTTAAGGGTGAAGAAGTCTCTAGGG
**
5269186 TCAAAGTCAAGACTT
66 TCAAAACCAAGACTT
* * * *
5269201 AAGGTTGAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGGTCAAGAAGTCTCTAGGG
1 AAGGGTGAAGAAGTCTCTAGGGTCAAAGCTGACAGGCAGACTTAAGGGTGAAGAAGTCTCTAGGG
*
5269266 TCAAAACCGAGACTT
66 TCAAAACCAAGACTT
* * *
5269281 AAGGGTGAAGAAGTCT-TCAGGGTCAAAGTTGATAGGCAAACTTAAGGGTGAAGAAGTCTCTAGG
1 AAGGGTGAAGAAGTCTCT-AGGGTCAAAGCTGACAGGCAGACTTAAGGGTGAAGAAGTCTCTAGG
*
5269345 ATCAAA
65 GTCAAA
5269351 GCTGATAGGC
Statistics
Matches: 128, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
79 1 0.01
80 127 0.99
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (80 bp):
AAGGGTGAAGAAGTCTCTAGGGTCAAAGCTGACAGGCAGACTTAAGGGTGAAGAAGTCTCTAGGG
TCAAAACCAAGACTT
Found at i:5269342 original size:203 final size:203
Alignment explanation
Indices: 5269121--5269583 Score: 588
Period size: 203 Copynumber: 2.3 Consensus size: 203
5269111 CGGATAGACA
* * *
5269121 AAGGGTGAAGAAGTCTCTAAGATCAAAGCTGACAAGCAGACTTAATGGTGAAGAAGTCTCCAAGG
1 AAGGGTGAAGAAGTCTCTAAGATCAAAGCTGATAGGCAGACTTAAAGGTGAAGAAGTCTCCAAGG
* * * * *
5269186 TCAAAGTCAAGACTTAAGGTTGAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGGTC
66 TCAAAGCCAAGACTTAAGGGTGAAGAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAAGGTC
* * * * * * * *
5269251 AA-GAAGTCTCTAGGGTCAAAACCGAGACTTAAGGGTGA-AGAAGTCTTCAGGGTCAAAGTTGAT
131 AATG-AGTCTCCAAGGTCAAAACCAAGACTTAAGCGTGAGA-AAGTCTCCAGGATCAAAGCTGAG
5269314 AGGCAAACTT
194 AGGCAAACTT
* *
5269324 AAGGGTGAAGAAGTCTCTAGGATCAAAGCTGATAGGCAGACTTAAAGGTGAAGAATTCTCCAAGG
1 AAGGGTGAAGAAGTCTCTAAGATCAAAGCTGATAGGCAGACTTAAAGGTGAAGAAGTCTCCAAGG
* * * *
5269389 TTAAAGCCAGGACTTAAGGGTGAAGAAGTCTCTAAGGTCAAAGCCGATAGGCAGACTTAAAGGTG
66 TCAAAGCCAAGACTTAAGGGTGAAGAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAAGGTC
***
5269454 AATGAGTCTCCAAGGTCAAAGTTAAGACTTAAGCGTGAGAAAGTCTCCAGGATCAAAGCTGAGAG
131 AATGAGTCTCCAAGGTCAAAACCAAGACTTAAGCGTGAGAAAGTCTCCAGGATCAAAGCTGAGAG
*
5269519 GCAGACTT
196 GCAAACTT
* * * * ** * *
5269527 AAGGGTAAAGAATTCTCCAAGGTCAAAGCCAATAGGTAGACTTAAGGGTGAAGAAGT
1 AAGGGTGAAGAAGTCTCTAAGATCAAAGCTGATAGGCAGACTTAAAGGTGAAGAAGT
5269584 ATCTAGGTGA
Statistics
Matches: 222, Mismatches: 36, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
203 220 0.99
204 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (203 bp):
AAGGGTGAAGAAGTCTCTAAGATCAAAGCTGATAGGCAGACTTAAAGGTGAAGAAGTCTCCAAGG
TCAAAGCCAAGACTTAAGGGTGAAGAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAAGGTC
AATGAGTCTCCAAGGTCAAAACCAAGACTTAAGCGTGAGAAAGTCTCCAGGATCAAAGCTGAGAG
GCAAACTT
Found at i:5269404 original size:80 final size:80
Alignment explanation
Indices: 5269320--5269590 Score: 332
Period size: 80 Copynumber: 3.3 Consensus size: 80
5269310 TGATAGGCAA
5269320 ACTTAAGGGTGAAGAAGTCTCTAGGATCAAAGCTGATAGGCAGACTTAAAGGTGAAGAATTCTCC
1 ACTTAAGGGTGAAGAAGTCTCTAGGATCAAAGCTGATAGGCAGACTTAAAGGTGAAGAATTCTCC
*
5269385 AAGGTTAAAGCCAGG
66 AAGGTCAAAGCCAGG
* *
5269400 ACTTAAGGGTGAAGAAGTCTCTAAGG-TCAAAGCCGATAGGCAGACTTAAAGGTGAATG-AGTCT
1 ACTTAAGGGTGAAGAAGTCTCT-AGGATCAAAGCTGATAGGCAGACTTAAAGGTGAA-GAATTCT
** *
5269463 CCAAGGTCAAAGTTAAG
64 CCAAGGTCAAAGCCAGG
* * * * *
5269480 ACTTAAGCGTG-AGAAAGTCTCCAGGATCAAAGCTGAGAGGCAGACTTAAGGGTAAAGAATTCTC
1 ACTTAAGGGTGAAG-AAGTCTCTAGGATCAAAGCTGATAGGCAGACTTAAAGGTGAAGAATTCTC
5269544 CAAGGTCAAAGCCAATAGGTAG
65 CAAGGTCAAAGCC---A-G--G
*
5269566 ACTTAAGGGTGAAGAAGTATCTAGG
1 ACTTAAGGGTGAAGAAGTCTCTAGG
5269591 TGAAAGCCGA
Statistics
Matches: 160, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
79 6 0.04
80 127 0.79
81 4 0.03
83 1 0.01
86 20 0.12
87 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.21
Consensus pattern (80 bp):
ACTTAAGGGTGAAGAAGTCTCTAGGATCAAAGCTGATAGGCAGACTTAAAGGTGAAGAATTCTCC
AAGGTCAAAGCCAGG
Found at i:5272623 original size:52 final size:52
Alignment explanation
Indices: 5272474--5272602 Score: 258
Period size: 52 Copynumber: 2.5 Consensus size: 52
5272464 CGAAATATGA
5272474 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
5272526 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
5272578 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
5272603 AAGATCAGTG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 77 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:5272707 original size:32 final size:33
Alignment explanation
Indices: 5272666--5272727 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
5272656 TAGCTTAAAT
5272666 TGTATCGATACAAAAC-TTATGTATCGATAGAA
1 TGTATCGATACAAAACTTTATGTATCGATAGAA
*
5272698 TGTATCGATACAACACTTTATGTATCGATA
1 TGTATCGATACAAAACTTTATGTATCGATA
5272728 TAAATCGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAACTTTATGTATCGATAGAA
Found at i:5273612 original size:22 final size:22
Alignment explanation
Indices: 5273587--5273653 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
5273577 ATGCTGATTC
5273587 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * * *
5273609 AAGGTGCCA-ATGTGTT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
5273630 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
5273652 AA
1 AA
5273654 AATGAATTCG
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
19 4 0.12
20 5 0.16
21 6 0.19
22 8 0.25
23 5 0.16
24 4 0.12
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:5273628 original size:43 final size:43
Alignment explanation
Indices: 5273565--5273653 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
5273555 TAAAGATGAC
5273565 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
5273608 AAAGGTGCCAATGTGTTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
5273651 AAA
1 AAA
5273654 AATGAATTCG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:5274729 original size:154 final size:152
Alignment explanation
Indices: 5274428--5274742 Score: 348
Period size: 154 Copynumber: 2.1 Consensus size: 152
5274418 TAAGTTTAAG
* * *
5274428 AAAAATTACGAAAATGCCCTAGGGATAACTTCGATGTAAAAGTACCTGATACCCCTAAAGGACTT
1 AAAAATTACCAAAATCCCCTAGGGATAACTTCGATGTAAAAGTACCTAATACCCCTAAAGGACTT
** * * * *
5274493 ACAAAAAATTATAGATGAAAAGAACCTATCTTAAATGCCCACCTTCGGCATAAAAGCGACCCTGG
66 ACAAAAAACCATAGA-GAAAAGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGACCCTAG
5274558 AGACAACCAAGGACTCGATTCCA
130 AGACAACCAAGGACTCGATTCCA
* * *
5274581 AAAAATTACCAAAATACCCCTGAGGGATATCTTCGATGTAAAAGTGCCTAATATCCCTAAAGGAC
1 AAAAATTACCAAAAT-CCCCT-AGGGATAACTTCGATGTAAAAGTACCTAATACCCCTAAAGGAC
*** ** * *
5274646 TTA-AAATGGCCATAGA-AAGGATTAACCTATCCTAAATACCCACCTTTGACATGAAAGCGGACC
64 TTACAAAAAACCATAGAGAA--AAGAACCTATCCTAAATACCCACCTTCGACATAAAAGC-GACC
* * *
5274709 C-AGTGACAACCTAGGACTCGATTCTA
126 CTAGAGACAACCAAGGACTCGATTCCA
*
5274735 GAAAATTA
1 AAAAATTA
5274743 TGAAAATGCC
Statistics
Matches: 134, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
152 2 0.01
153 14 0.10
154 71 0.53
155 47 0.35
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.22
Consensus pattern (152 bp):
AAAAATTACCAAAATCCCCTAGGGATAACTTCGATGTAAAAGTACCTAATACCCCTAAAGGACTT
ACAAAAAACCATAGAGAAAAGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGACCCTAGA
GACAACCAAGGACTCGATTCCA
Found at i:5274749 original size:154 final size:151
Alignment explanation
Indices: 5274429--5274961 Score: 468
Period size: 150 Copynumber: 3.5 Consensus size: 151
5274419 AAGTTTAAGA
* * *
5274429 AAAATTACGAAAATG-CCCT-AGGGATAACTTCGATGTAAAAGTACCTGATACCCCTAAAGGACT
1 AAAATTACGAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTACCTAATACCCCTAAAGGACT
** * * *
5274492 TACAAAAAATTATAGATGAA--AAGAACCTATCTTAAATGCCCACCTTCGGCATAAAAGCGACCC
66 T---AAAAAGGATAGA--AAGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGACCC
* * * * *
5274555 TGGAGACAACCAAGGACTCGATTCCAA
126 -AGTGACAACCTAGGACTCGATTCTAG
* * * * * * *
5274582 AAAATTACCAAAATACCCCTGAGGGATATCTTCGATGTAAAAGTGCCTAATATCCCTAAAGGACT
1 AAAATTACGAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTACCTAATACCCCTAAAGGACT
* * * * *
5274647 TAAAATGGCCATAGAAAGGATTAACCTATCCTAAATACCCACCTTTGACATGAAAGCGGACCCAG
66 TAAAAAGG--ATAGAAAGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGC-GACCCAG
5274712 TGACAACCTAGGACTCGATTCTAG
128 TGACAACCTAGGACTCGATTCTAG
* * * * * ***
5274736 AAAATTATGAAAATGCCCTTAAGGGATACCTTTGACATAAAAATA-CTCGGCACCCCTAAAGGAC
1 AAAATTACGAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTACCT-AATACCCCTAAAGGAC
* * *** ***
5274800 TTAAAAAGG-TA-AAAGGATGAACTTATCCTAAATGCACACCTTTGGCATAAAAAAAAATGTAGT
65 TTAAAAAGGATAGAAAGGATGAACCTATCCTAAATGCCCACCTTTGGCAT-AAAAGCGACCCAGT
* *
5274863 GACAACCTAAGACTCGATTTTAG
129 GACAACCTAGGACTCGATTCTAG
* * * * * *
5274886 AAAATTAAGAAAATGCCCCAAAGGGATACCTTCGACGTAAAAGTACTTAGTATCCTTAAAGGACT
1 AAAATTACGAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTACCTAATACCCCTAAAGGACT
*
5274951 TAAAAAAGATA
66 TAAAAAGGATA
5274962 TGGACATGAG
Statistics
Matches: 306, Mismatches: 63, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
150 116 0.38
151 8 0.03
152 6 0.02
153 15 0.05
154 115 0.38
155 46 0.15
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (151 bp):
AAAATTACGAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTACCTAATACCCCTAAAGGACT
TAAAAAGGATAGAAAGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGACCCAGTGA
CAACCTAGGACTCGATTCTAG
Found at i:5275273 original size:79 final size:79
Alignment explanation
Indices: 5275142--5275743 Score: 570
Period size: 79 Copynumber: 7.6 Consensus size: 79
5275132 GAAAGAAAAC
* * * * * *
5275142 CAGGGTTAGAGTAT-CCCGAATGGTGAAAAATTGATATTTTGAAAATAAAACTGGGGTTTGAGTA
1 CAGGGTTGGAGTATCCCCG-ATTGTGGAAAATCGATATTTTGGAAATAAAACTGGGGTTGGAGTA
**
5275206 TCCTTTCGAAAATAA
65 TCCCCTCGAAAATAA
* * * *
5275221 CAGGGTTGGAGTATGCTCGATTGTAGAAAATCGATGTTTTGGAAATAAAACTGGGGTTGGAGTAT
1 CAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTGGAAATAAAACTGGGGTTGGAGTAT
*
5275286 CTCCTCGAAAATAA
66 CCCCTCGAAAATAA
* ** * * *
5275300 CAAGGTTGGAGTATCGTCGA-TGTTGGAAAATCTG-TATTTTAGAAATAAAA-TCGAGATTGGAG
1 CAGGGTTGGAGTATCCCCGATTG-TGGAAAATC-GATATTTTGGAAATAAAACT-GGGGTTGGAG
* *
5275362 TATCTCCTCGGAAATAA
63 TATCCCCTCGAAAATAA
* ** * * * * **
5275379 CAAGGTTGGAGTATCCCTAATGGTGGAAAATCGGTGTTTTAGAAATAAAACCAGGGTTGGAGTAT
1 CAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTGGAAATAAAACTGGGGTTGGAGTAT
5275444 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * * * * * *
5275458 CGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTTGAAA-AAAATTGGGGATGGAGTAT
1 CAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTGGAAATAAAACTGGGGTTGGAGTAT
5275522 CCCCTC-AGAAATAA
66 CCCCTCGA-AAATAA
* * * * * *
5275536 CAGGGTTCGAGTATCCCCGATGGTGGAAAATCAATATTTTGGAAATAAAACCGAGGTTAGAGTAT
1 CAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTGGAAATAAAACTGGGGTTGGAGTAT
*
5275601 CCCCTCAAAAATAA
66 CCCCTCGAAAATAA
* * * * * * * *
5275615 CGGGGTTGGAGTATCCTCGATTAT-TAGAAATCGATGTTTTGAAAATAAAACCGAGGTTGGAGTA
1 CAGGGTTGGAGTATCCCCGATTGTGGA-AAATCGATATTTTGGAAATAAAACTGGGGTTGGAGTA
* *
5275679 TTCCCTCAAAAATAA
65 TCCCCTCGAAAATAA
** * * *
5275694 TGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTATTTTAGAAATAAAA
1 CAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTGGAAATAAAA
5275744 ACATCAATAA
Statistics
Matches: 434, Mismatches: 77, Indels: 24
0.81 0.14 0.04
Matches are distributed among these distances:
77 1 0.00
78 69 0.16
79 357 0.82
80 7 0.02
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (79 bp):
CAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTGGAAATAAAACTGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:5275663 original size:236 final size:236
Alignment explanation
Indices: 5275145--5275743 Score: 670
Period size: 236 Copynumber: 2.5 Consensus size: 236
5275135 AGAAAACCAG
* * * * * *
5275145 GGTTAGAGTATCCCGAATGGT-GAAAAATTGATATTTTGAAAATAAAACTGGGGTTTGAGTATCC
1 GGTTGGAGTATCCCGAATAGTAG-AAAATCGATGTTTTGAAAATAAAAC-CGGGTTGGAGTATCC
** * * *
5275209 TTTCGAAAATAACAGGGTTGGAGTATGCTCGATTGT-AGAAAATCGATGTTTTGGAAATAAAACT
64 CCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGA-AAAATCGATGTTTTGGAAATAAAACT
* * * ** * **
5275273 GGGGTTGGAGTATCTCCTCGAAAATAACAAGGTTGGAGTATCGTCGATGTTGGAAAATCTGTATT
128 GGGGATGGAGTATCCCCTCGAAAATAACAAGGTTCGAGTATCCCCGATGGTGGAAAATCAATATT
* * * **
5275338 TTAGAAATAAAATCGAGATTGGAGTATCTCCTCGGAAATAACAA
193 TTAGAAATAAAACCGAGATTAGAGTATCCCCTCAAAAATAACAA
* * * *
5275382 GGTTGGAGTATCCCTAATGGTGGAAAATCGGTGTTTT-AGAAATAAAACCAGGGTTGGAGTATCC
1 GGTTGGAGTATCCCGAATAGTAGAAAATCGATGTTTTGA-AAATAAAACC-GGGTTGGAGTATCC
* * *
5275446 CCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTTGAAA-AAAATTG
64 CCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAACTG
*
5275510 GGGATGGAGTATCCCCTC-AGAAATAACAGGGTTCGAGTATCCCCGATGGTGGAAAATCAATATT
129 GGGATGGAGTATCCCCTCGA-AAATAACAAGGTTCGAGTATCCCCGATGGTGGAAAATCAATATT
* * **
5275574 TTGGAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAACGG
193 TTAGAAATAAAACCGAGATTAGAGTATCCCCTCAAAAATAACAA
* * *
5275618 GGTTGGAGTATCCTCGATTATTAG-AAATCGATGTTTTGAAAATAAAACCGAGGTTGGAGTATTC
1 GGTTGGAGTATCC-CGAATAGTAGAAAATCGATGTTTTGAAAATAAAACCG-GGTTGGAGTATCC
* * * * * * *
5275682 CCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTATTTTAGAAATAAAA
64 CCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAA
5275744 ACATCAATAA
Statistics
Matches: 305, Mismatches: 48, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
235 2 0.01
236 191 0.63
237 110 0.36
238 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (236 bp):
GGTTGGAGTATCCCGAATAGTAGAAAATCGATGTTTTGAAAATAAAACCGGGTTGGAGTATCCCC
TCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAACTGGG
GATGGAGTATCCCCTCGAAAATAACAAGGTTCGAGTATCCCCGATGGTGGAAAATCAATATTTTA
GAAATAAAACCGAGATTAGAGTATCCCCTCAAAAATAACAA
Found at i:5278140 original size:21 final size:20
Alignment explanation
Indices: 5278075--5278140 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
5278065 CAAAAATGCC
* *
5278075 TAAATATATCGATACAATGA
1 TAAATGTATCGATACAATCA
*
5278095 -AGAATGTATCGATAC-ATCGGG
1 TA-AATGTATCGATACAATC--A
5278116 TAAATGTATCGATACAAATCA
1 TAAATGTATCGATAC-AATCA
5278137 TAAA
1 TAAA
5278141 CATTTTGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
19 3 0.08
20 12 0.33
21 17 0.47
22 1 0.03
23 3 0.08
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.27
Consensus pattern (20 bp):
TAAATGTATCGATACAATCA
Found at i:5280881 original size:13 final size:13
Alignment explanation
Indices: 5280863--5280888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5280853 AATTTTTTTG
5280863 TGTATCGATACAT
1 TGTATCGATACAT
5280876 TGTATCGATACAT
1 TGTATCGATACAT
5280889 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5283444 original size:13 final size:13
Alignment explanation
Indices: 5283426--5283451 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5283416 ATAATCACCC
5283426 TGTATCGATACAA
1 TGTATCGATACAA
5283439 TGTATCGATACAA
1 TGTATCGATACAA
5283452 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5283508 original size:20 final size:20
Alignment explanation
Indices: 5283437--5283516 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
5283427 GTATCGATAC
*
5283437 AATGTATCGATACAAAGAAA
1 AATGTATCGATACATAGAAA
*
5283457 AATGTATCGATACATTGAATTTCCA
1 AATGTATCGATACATAGAA-----A
*
5283482 GATGTATCGATACATAGAAA
1 AATGTATCGATACATAGAAA
*
5283502 CATGTATCGATACAT
1 AATGTATCGATACAT
5283517 TTTGGGCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATAGAAA
Found at i:5289644 original size:13 final size:13
Alignment explanation
Indices: 5289626--5289651 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5289616 AATTTTTTTG
5289626 TGTATCGATACAT
1 TGTATCGATACAT
5289639 TGTATCGATACAT
1 TGTATCGATACAT
5289652 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5290989 original size:61 final size:61
Alignment explanation
Indices: 5290869--5292363 Score: 1496
Period size: 61 Copynumber: 24.3 Consensus size: 61
5290859 TATCCTCTTT
* * *
5290869 GTCCTCAAAGAGCAGGACGCCTTTTTC-TATGAAGCCCACACGAGTTTGTGGCACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * * * * *
5290929 GTCCTCAAAGAGTAGGATGCCATTTTCTTTTAAAGCCCACATGAGTTAGTGGTACGTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * * *
5290990 GTCCCCAAACAGCAGGAC-ACTTTTT-TTTTAAAAAAAACCCACACGAGTTGGTGGCACATTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTT----AAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * * * * *
5291053 GTCCTCGAAGAGTAGGATGCCTTTTGCTTTTTAAAGCCCATACGAGTTGGCGACACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * * *
5291115 GTCATCAAAAAACAGGACGTCTTTTTCTTTTTAAAGCGCACACGAGTTGGTGGCACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * * * *
5291177 GTCCTCGAAGAGCATGACGCC-TTTTCTTTTTAAAGCCTACACGAGTTGGTAGTACCCTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * * *
5291238 GTCCTCAAAAAGTAGGACACC-TTTTCTTTTTAAAGTCGACACGAGTTGGTGGCACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * * * * *
5291299 ATCCTCAAAGAGTAGGACACCTTTTT-TTTTAAATCCCACATGAGTTTGTGGCACCCTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * *
5291359 GTCCTCAAAGTGCAGGATGCCTGTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCATTTA
1 GTCCTCAAAGAGCAGGACGCCT-TTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * * ** *
5291422 GTCCTCAAAGAGTAGGACTCCTTTTCCTTTTCAAATCCCACACGAGTTAATGGCACATTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCTTTTA
*** *
5291484 GTCCTCAAAGAGCAGGACTTATTTTTCCTTTCAAAAGCCCACACGAGTTGGTGGCACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTT-CTTT-TAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * * *
5291547 GTCCTCAAAGAGCAGGACGTCTTTCTCTTTTTAAAACCCTACACGAGCTGGTGGCACCCTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCC-ACACGAGTTGGTGGCACCTTTTA
* * *
5291610 GTCCTCAAAGAGCAGGACGCCATTTT-TTTCAAAGCCTACACGAGTTGGTGGCACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * * * *
5291670 GTCGTCAAAGAGTAGGATGCCTTTTTTGTTTTAAAGCCCACATGAGTTGGTGACACCTTTTA
1 GTCCTCAAAGAGCAGGACGCC-TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * *
5291732 GTCCTCAAAGAGCATGACGCTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * *
5291793 GTCTTCAAAGAGCAGGA---C-ATTT-TTTTAAAGCCCACATGAGTTGGTGGCACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * * * * *
5291849 TTCCTTAAAAAGTAGGATGCCTTTTTCTTTTAAAGCCCACACCAGCAT-GTGGCACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAG-TTGGTGGCACCTTTTA
* * * * * *
5291910 GTCCTCAAAGAGCAGGACACCCTTTTT-TTTAAAAAAATGCTCATACGAGTTGCTGGTACCTTTT
1 GTCCTCAAAGAGCAGGAC-GCCTTTTTCTTT---TAAA-GCCCACACGAGTTGGTGGCACCTTTT
5291974 A
61 A
* * * * * *
5291975 GTCCTCAAA-AACAAGATGCCTTTTTCTTTTTATAGCCTAGACGAGTTGGTGGCA-CTCTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCT-TTTA
* * * *
5292036 TTCGTCAAAGAGCAGGACACCTTTTTCTTTTAAAGCCTACACGAGTTGGTGGCACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * *
5292097 GTCCTCAAAGAGTAGGATGCCTTTTTCTTTTAAAGCCTAGACGAGTTGGTGGCACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* *
5292158 CTCCTCAAAGAGAAGGAC-CCTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTT-CTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * * * *
5292219 GTCCTCAAAAAGTAAGATGCCTTTTTCTTTTAAAGGCCACACGAGTTGGTGGTACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * * *
5292280 GTCCTCAAAGAGCTGGAGACTTCCTTTTTTTTCTTTTGAAGCCCACACAAGTTGGTGGCACCTTC
1 GTCCTCAAAGAGC-AG-GAC-GCC---TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
5292345 TA
60 TA
5292347 GTCCTCAATA-AGCAGGA
1 GTCCTCAA-AGAGCAGGA
5292364 TGCTCTTTAT
Statistics
Matches: 1179, Mismatches: 212, Indels: 83
0.80 0.14 0.06
Matches are distributed among these distances:
56 43 0.04
57 3 0.00
59 5 0.00
60 125 0.11
61 472 0.40
62 239 0.20
63 191 0.16
64 16 0.01
65 33 0.03
66 5 0.00
67 46 0.04
68 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (61 bp):
GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
Found at i:5291641 original size:248 final size:241
Alignment explanation
Indices: 5290865--5292363 Score: 1364
Period size: 248 Copynumber: 6.1 Consensus size: 241
5290855 CGTTTATCCT
* * * *
5290865 CTTT-GTCCTCAAAGAGCAGGACGCCTTTTTCTATGAAGCCCACACGAGTTTGTGGCACCTTTTA
1 CTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * *
5290929 GTCCTCAAAGAGTAGGA-TGCCATTTTCTTTTAAAGCCCACATGAGTTAGTGGTACGTTTTAGTC
66 GTCCTCAAAGAGTAGGACT-CC-TTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTC
* * ** * *
5290993 CCCAAACAGCAGGACACTTTTTTT-TTAAAAAAAACCCACACGAGTTGGTGGCACATTTTAGTCC
129 CTCAAAAAGCAGG--ACTTTTTTTCTT--TTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCC
* * ** * * * *
5291057 TCGAAGAGTAGGATGCCTTTTGCTTTTTAAAGCCCATACGAGTTGGCGACACC
190 TCAAAGAGCAGGACACCTTTT-CTTTTTAAAACCCACACGAGTTGGTGGCACC
* * * * * *
5291110 TTTTAGTCATCAAAAAACAGGACGTCTTTTTCTTTTTAAAGCGCACACGAGTTGGTGGCACCTTT
1 CTTTAGTCCTCAAAGAGCAGGACG-CCTTTT-TTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
* * * * * * * *
5291175 TAGTCCTCGAAGAGCATGACGCCTTTTCTTTTTAAAGCCTACACGAGTTGGTAGTACCCTTTAGT
64 TAGTCCTCAAAGAGTAGGACTCCTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGT
* *** * * *
5291240 CCTCAAAAAGTAGGACACCTTTTCTTTTTAAAGTCGACACGAGTTGGTGGCACCTTTTAATCCTC
128 CCTCAAAAAGCAGGACTTTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTC
* * * *
5291305 AAAGAGTAGGACACCTTTT-TTTTTAAATCCCACATGAGTTTGTGGCACC
192 AAAGAGCAGGACACCTTTTCTTTTTAAAACCCACACGAGTTGGTGGCACC
* * *
5291354 CTTTAGTCCTCAAAGTGCAGGATGCCTGTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCAT
1 CTTTAGTCCTCAAAGAGCAGGACGCCT-TTTT-TTTT-AAAGCCCACACGAGTTGGTGGCACCTT
* ** *
5291419 TTAGTCCTCAAAGAGTAGGACTCCTTTTCCTTTTCAAATCCCACACGAGTTAATGGCACATTTTA
63 TTAGTCCTCAAAGAGTAGGACTCCTTTT-CTTTT-AAAGCCCACACGAGTTGGTGGCACCTTTTA
* *
5291484 GTCCTCAAAGAGCAGGACTTATTTTTCCTTTCAAAAGCCCACACGAGTTGGTGGCACCTTTTAGT
126 GTCCTCAAAAAGCAGGACTT-TTTTT-CTTT-TAAAGCCCACACGAGTTGGTGGCACCTTTTAGT
** *
5291549 CCTCAAAGAGCAGGACGTCTTTCTCTTTTTAAAACCCTACACGAGCTGGTGGCACC
188 CCTCAAAGAGCAGGACACCTTT-TCTTTTTAAAACCC-ACACGAGTTGGTGGCACC
* * *
5291605 CTTTAGTCCTCAAAGAGCAGGACGCCATTTTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTA
1 CTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * *
5291670 GTCGTCAAAGAGTAGGA-TGCCTTTTTTGTTTTAAAGCCCACATGAGTTGGTGACACCTTTTAGT
66 GTCCTCAAAGAGTAGGACT-CC--TTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGT
* * * * * *
5291734 CCTCAAAGAGCATGACGCTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTTAGTCTTC
128 CCTCAAAAAGCAGGAC-TTTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTC
* *
5291799 AAAGAGCAGGACA----TT-TTTTTAAAGCCCACATGAGTTGGTGGCACC
192 AAAGAGCAGGACACCTTTTCTTTTTAAAACCCACACGAGTTGGTGGCACC
* * * * * * * *
5291844 TTTTATTCCTTAAAAAGTAGGATGCCTTTTTCTTTTAAAGCCCACACCAGCAT-GTGGCACCTTT
1 CTTTAGTCCTCAAAGAGCAGGACGCCTTTTT-TTTTAAAGCCCACACGAG-TTGGTGGCACCTTT
* * * * * *
5291908 TAGTCCTCAAAGAGCAGGACACCCTTTT-TTTTAAAAAAATGCTCATACGAGTTGCTGGTACCTT
64 TAGTCCTCAAAGAGTAGGAC-TCCTTTTCTTTT----AAA-GCCCACACGAGTTGGTGGCACCTT
* * * * *
5291972 TTAGTCCTCAAAAA-CAAGA-TGCCTTTTTCTTTTTATAGCCTAGACGAGTTGGTGGCA-CTCTT
123 TTAGTCCTCAAAAAGCAGGACT--TTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCT-TT
* * * *
5292034 TATTCGTCAAAGAGCAGGACACCTTTT-TCTTTTAAAGCCTACACGAGTTGGTGGCACC
184 TAGTCCTCAAAGAGCAGGACACCTTTTCT-TTTTAAAACCCACACGAGTTGGTGGCACC
* * * * *
5292092 TTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTAAAGCCTAGACGAGTTGGTGGCACCTTTT
1 CTTTAGTCCTCAAAGAGCAGGACGCCTTTTT-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTT
* *
5292157 ACTCCTCAAAGAGAAGGAC-CCTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGT
65 AGTCCTCAAAGAGTAGGACTCC-TTTT-CTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGT
* * * * *
5292221 CCTCAAAAAGTAAGA-TGCCTTTTTCTTTTAAAGGCCACACGAGTTGGTGGTACCTTTTAGTCCT
128 CCTCAAAAAGCAGGACT--TTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCT
* * * * * *
5292285 CAAAGAGCTGGAGACTTCCTTTTTTTTCTTTTGAAGCCCACACAAGTTGGTGGCA-C
191 CAAAGAGC-AG-GAC-ACC--TTTTCT-TTTTAAAACCCACACGAGTTGGTGGCACC
5292341 CTTCTAGTCCTCAATA-AGCAGGA
1 CTT-TAGTCCTCAA-AGAGCAGGA
5292364 TGCTCTTTAT
Statistics
Matches: 1037, Mismatches: 163, Indels: 103
0.80 0.13 0.08
Matches are distributed among these distances:
238 4 0.00
239 44 0.04
240 54 0.05
241 4 0.00
242 16 0.02
243 78 0.08
244 120 0.12
245 76 0.07
246 158 0.15
247 32 0.03
248 330 0.32
249 20 0.02
250 61 0.06
251 40 0.04
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (241 bp):
CTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
GTCCTCAAAGAGTAGGACTCCTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCT
CAAAAAGCAGGACTTTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAG
AGCAGGACACCTTTTCTTTTTAAAACCCACACGAGTTGGTGGCACC
Found at i:5292424 original size:41 final size:43
Alignment explanation
Indices: 5292347--5292572 Score: 200
Period size: 42 Copynumber: 5.4 Consensus size: 43
5292337 GCACCTTCTA
* * *
5292347 GTCCTCAATA-AGCAGGATGCTCTTTATTTCTTTTTCTT-CTTT
1 GTCCTCAA-AGAGCAAGATGCACTTTATTTCTCTTTCTTCCTTT
*
5292389 GTCCTCAAAGAGCAAGATGCACTTCATTT-TCTTTCTTCCTTT
1 GTCCTCAAAGAGCAAGATGCACTTTATTTCTCTTTCTTCCTTT
* * * * *
5292431 GTCTTCAATA-AGCAAGGTACACTTTATTTCTTTTTC-TCCTAT
1 GTCCTCAA-AGAGCAAGATGCACTTTATTTCTCTTTCTTCCTTT
* *
5292473 GTCCTCAAAGAGCAGGATGCACTTT-TTTCCCTTT-TTCCTTT
1 GTCCTCAAAGAGCAAGATGCACTTTATTTCTCTTTCTTCCTTT
* * * *** *
5292514 GTCTTCAAAGAGTAGGACAAACTTTATTTC-CTTTTTTCCTTT
1 GTCCTCAAAGAGCAAGATGCACTTTATTTCTCTTTCTTCCTTT
5292556 GTCCTC-AAGCAGCAAGA
1 GTCCTCAAAG-AGCAAGA
5292573 CCCATTTCAT
Statistics
Matches: 150, Mismatches: 25, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
41 48 0.32
42 96 0.64
43 6 0.04
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (43 bp):
GTCCTCAAAGAGCAAGATGCACTTTATTTCTCTTTCTTCCTTT
Found at i:5292492 original size:84 final size:81
Alignment explanation
Indices: 5292351--5292572 Score: 256
Period size: 84 Copynumber: 2.7 Consensus size: 81
5292341 CTTCTAGTCC
* * *
5292351 TCAATAAGCAGGATGCTCTTTATTTCTTTTTCTTCTTTGTCCTCAAAGAGCAAGATGCACTTCAT
1 TCAATAAGCAGG-TACACTTTATTTCTTTTTCTCCTTTGTCCTCAAAGAGCAAGATGCACTT--T
5292416 TTT-CTTTCTTCCTTTGTCT
63 TTTCCTTT-TTCCTTTGTCT
* *
5292435 TCAATAAGCAAGGTACACTTTATTTCTTTTTCTCCTATGTCCTCAAAGAGCAGGATGCACTTTTT
1 TCAATAAGC-AGGTACACTTTATTTCTTTTTCTCCTTTGTCCTCAAAGAGCAAGATGCACTTTTT
5292500 TCCCTTTTTCCTTTGTCT
65 T-CCTTTTTCCTTTGTCT
*
5292518 TCAA-AGAGTAGG-ACAAACTTTATTTCCTTTTT-TCCTTTGTCCTC-AAGCAGCAAGA
1 TCAATA-AGCAGGTAC--ACTTTATTT-CTTTTTCTCCTTTGTCCTCAAAG-AGCAAGA
5292573 CCCATTTCAT
Statistics
Matches: 122, Mismatches: 8, Indels: 17
0.83 0.05 0.12
Matches are distributed among these distances:
81 2 0.02
82 11 0.09
83 43 0.35
84 63 0.52
85 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (81 bp):
TCAATAAGCAGGTACACTTTATTTCTTTTTCTCCTTTGTCCTCAAAGAGCAAGATGCACTTTTTT
CCTTTTTCCTTTGTCT
Found at i:5292734 original size:43 final size:42
Alignment explanation
Indices: 5292630--5292737 Score: 155
Period size: 42 Copynumber: 2.5 Consensus size: 42
5292620 GCTCCTTCTC
* *
5292630 CCCTATGTCCTCAAGGAGCAAGACACTTTCCTTTTTCCTTTT
1 CCCTTTGTCCTCAAGGAGCAGGACACTTTCCTTTTTCCTTTT
*
5292672 CCTTTTGTCCTCAAGGAGCAGGACACTTT-CTTTATTCCTTTTT
1 CCCTTTGTCCTCAAGGAGCAGGACACTTTCCTTT-TTCC-TTTT
*
5292715 CCCTTTGTCCTCAAAGAGCAGGA
1 CCCTTTGTCCTCAAGGAGCAGGA
5292738 AGCCCCCTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
41 4 0.07
42 30 0.51
43 25 0.42
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (42 bp):
CCCTTTGTCCTCAAGGAGCAGGACACTTTCCTTTTTCCTTTT
Found at i:5296153 original size:79 final size:77
Alignment explanation
Indices: 5295930--5296277 Score: 355
Period size: 79 Copynumber: 4.4 Consensus size: 77
5295920 TAGGACATCG
* * * * *
5295930 ATTTTCCACCAT-TAGGAATACTTCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCAATTTT
1 ATTTTTCACCATCGAGG-ATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACC-CGATTTT
*
5295994 ATTTCTAAAGCATCA
64 ATTTCTAAAACA-CA
* * * *
5296009 ATTTCTCACCAT-TAGGGATACTCCAACCCAGTTCTTT-TGAGGGGATACTCCAACCCTGATTTT
1 ATTTTTCACCATCGA-GGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCC-GATTTT
* *
5296072 ATTTTTAAAACACC
64 ATTTCTAAAACACA
* * ** *
5296086 ATTTTTCTACGATCGAGGATACTCCAACCTTGTTATTTCTGAAAGGATACTCTAACCTCGATTTT
1 ATTTTTC-ACCATCGAGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACC-CGATTTT
5296151 ATTTCTAAAACATCA
64 ATTTCTAAAACA-CA
* *
5296166 AATTTTCACCATCG-GAGATACTCCAA-CCTCGTTATTTCTGAGGGGATACTCCAACCCTAGTTT
1 ATTTTTCACCATCGAG-GATACTCCAACCCT-GTTATTTCTGAGGGGATACTCCAACCCGA-TTT
*
5296229 TATTTTTAAAACACTA
63 TATTTCTAAAACAC-A
* *
5296245 ATTTTTCACCATCGGGGATACTTCAACCCTGTT
1 ATTTTTCACCATCGAGGATACTCCAACCCTGTT
5296278 TTTATCTCCA
Statistics
Matches: 226, Mismatches: 30, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
77 8 0.04
78 62 0.27
79 142 0.63
80 14 0.06
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (77 bp):
ATTTTTCACCATCGAGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCGATTTTAT
TTCTAAAACACA
Found at i:5298576 original size:13 final size:13
Alignment explanation
Indices: 5298558--5298582 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5298548 CATAAAGTGT
5298558 TGTATCGATACAA
1 TGTATCGATACAA
5298571 TGTATCGATACA
1 TGTATCGATACA
5298583 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5298580 original size:33 final size:33
Alignment explanation
Indices: 5298538--5298604 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5298528 TTCAACGATT
5298538 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
5298571 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
5298604 T
1 T
5298605 TCAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:5298663 original size:13 final size:13
Alignment explanation
Indices: 5298645--5298669 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5298635 ATCATTTAAA
5298645 TGTATCGATACAT
1 TGTATCGATACAT
5298658 TGTATCGATACA
1 TGTATCGATACA
5298670 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5298733 original size:52 final size:53
Alignment explanation
Indices: 5298677--5298808 Score: 223
Period size: 52 Copynumber: 2.5 Consensus size: 53
5298667 ACACTGATCT
*
5298677 TTGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACATTA-TAAA
1 TTGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
* *
5298729 TTGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TTGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
5298782 -TGTATCGATACATGCAGGCAAATTTTC
1 TTGTATCGATACATGCAGGCAAATTTTC
5298809 ATATTTCGGG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
52 72 0.96
53 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (53 bp):
TTGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
Found at i:5301774 original size:71 final size:71
Alignment explanation
Indices: 5301690--5301831 Score: 266
Period size: 71 Copynumber: 2.0 Consensus size: 71
5301680 ACTCCAAAAT
* *
5301690 CTCGGTCACTTCATAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCC
1 CTCGGTCACTTCATAGTAACCATTGAAGATCAATTAGATGGGCGATCCATCTACTGATCTTCCCC
5301755 CTTTAA
66 CTTTAA
5301761 CTCGGTCACTTCATAGTAACCATTGAAGATCAATTAGATGGGCGATCCATCTACTGATCTTCCCC
1 CTCGGTCACTTCATAGTAACCATTGAAGATCAATTAGATGGGCGATCCATCTACTGATCTTCCCC
5301826 CTTTAA
66 CTTTAA
5301832 TCAACACTCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (71 bp):
CTCGGTCACTTCATAGTAACCATTGAAGATCAATTAGATGGGCGATCCATCTACTGATCTTCCCC
CTTTAA
Found at i:5310473 original size:317 final size:317
Alignment explanation
Indices: 5309898--5310510 Score: 1208
Period size: 317 Copynumber: 1.9 Consensus size: 317
5309888 TGTGGGGGAC
*
5309898 ATTCTGTTATAATGTCATGCCATTTGTACTTAAAAATGCTAGGGCAACATATCAACGGGCCATGG
1 ATTCTGTTATAATGTCATGCCATTTGGACTTAAAAATGCTAGGGCAACATATCAACGGGCCATGG
5309963 TAACCTTGTTTCATGACATGATGCACAAAGAAATTGAGGTCTATGTTGACGACATGATTGCCAAA
66 TAACCTTGTTTCATGACATGATGCACAAAGAAATTGAGGTCTATGTTGACGACATGATTGCCAAA
5310028 TCGACAAAAGAGGACGAACATGTCAAAGACCTTCAAAAACTTTTTGAGCGGTTACAAAAATTTCA
131 TCGACAAAAGAGGACGAACATGTCAAAGACCTTCAAAAACTTTTTGAGCGGTTACAAAAATTTCA
5310093 ACTCAAATTGAATCCTGCCAAATGTACTTTTGGAGTCATTTCGGGTAAGCTTTTGGGCTTTATAG
196 ACTCAAATTGAATCCTGCCAAATGTACTTTTGGAGTCATTTCGGGTAAGCTTTTGGGCTTTATAG
5310158 TTAGCAAAAAAGGAATTGAAGTTGACCCAGACAAAGGAATTGAATCCTCTTTTGTCG
261 TTAGCAAAAAAGGAATTGAAGTTGACCCAGACAAAGGAATTGAATCCTCTTTTGTCG
5310215 ATTCTGTTATAATGTCATGCCATTTGGACTTAAAAATGCTAGGGCAACATATCAACGGGCCATGG
1 ATTCTGTTATAATGTCATGCCATTTGGACTTAAAAATGCTAGGGCAACATATCAACGGGCCATGG
5310280 TAACCTTGTTTCATGACATGATGCACAAAGAAATTGAGGTCTATGTTGACGACATGATTGCCAAA
66 TAACCTTGTTTCATGACATGATGCACAAAGAAATTGAGGTCTATGTTGACGACATGATTGCCAAA
*
5310345 TCGACAAAAGAGGACGAACATGTCAGAGACCTTCAAAAACTTTTTGAGCGGTTACAAAAATTTCA
131 TCGACAAAAGAGGACGAACATGTCAAAGACCTTCAAAAACTTTTTGAGCGGTTACAAAAATTTCA
5310410 ACTCAAATTGAATCCTGCCAAATGTACTTTTGGAGTCATTTCGGGTAAGCTTTTGGGCTTTATAG
196 ACTCAAATTGAATCCTGCCAAATGTACTTTTGGAGTCATTTCGGGTAAGCTTTTGGGCTTTATAG
5310475 TTAGCAAAAAAGGAATTGAAGTTGACCCAGACAAAG
261 TTAGCAAAAAAGGAATTGAAGTTGACCCAGACAAAG
5310511 TCAAAGCCAT
Statistics
Matches: 294, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
317 294 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (317 bp):
ATTCTGTTATAATGTCATGCCATTTGGACTTAAAAATGCTAGGGCAACATATCAACGGGCCATGG
TAACCTTGTTTCATGACATGATGCACAAAGAAATTGAGGTCTATGTTGACGACATGATTGCCAAA
TCGACAAAAGAGGACGAACATGTCAAAGACCTTCAAAAACTTTTTGAGCGGTTACAAAAATTTCA
ACTCAAATTGAATCCTGCCAAATGTACTTTTGGAGTCATTTCGGGTAAGCTTTTGGGCTTTATAG
TTAGCAAAAAAGGAATTGAAGTTGACCCAGACAAAGGAATTGAATCCTCTTTTGTCG
Found at i:5312983 original size:1 final size:1
Alignment explanation
Indices: 5312977--5313080 Score: 100
Period size: 1 Copynumber: 104.0 Consensus size: 1
5312967 CGTCCTTCAC
* * * * * * * * *
5312977 AAAAAAAAAACAAAACAAAAAAAAACAAAACAAAAAAACAACAAAACAAAAAAAAAAACAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
5313042 AAAAAAAAAACAAAAAAAAAACAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5313081 CAAACAAACC
Statistics
Matches: 79, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5312991 original size:11 final size:11
Alignment explanation
Indices: 5312975--5313088 Score: 137
Period size: 11 Copynumber: 10.5 Consensus size: 11
5312965 GGCGTCCTTC
5312975 ACAAAAAAAAA
1 ACAAAAAAAAA
*
5312986 AC-AAAACAAA
1 ACAAAAAAAAA
*
5312996 A-AAAAACAAA
1 ACAAAAAAAAA
*
5313006 ACAAAAAAACA
1 ACAAAAAAAAA
5313017 ACAAAACAAAAA
1 ACAAAA-AAAAA
5313029 A-AAAAACAAAA
1 ACAAAAA-AAAA
5313040 ACAAAAAAAAA
1 ACAAAAAAAAA
5313051 ACAAAAAAAAA
1 ACAAAAAAAAA
5313062 ACAAAAAACAAA
1 ACAAAAAA-AAA
*
5313074 A-AAAAAACAA
1 ACAAAAAAAAA
5313084 ACAAA
1 ACAAA
5313089 CCCGCAAGGG
Statistics
Matches: 91, Mismatches: 5, Indels: 14
0.83 0.05 0.13
Matches are distributed among these distances:
10 21 0.23
11 56 0.62
12 14 0.15
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
ACAAAAAAAAA
Found at i:5313011 original size:28 final size:27
Alignment explanation
Indices: 5312980--5313088 Score: 134
Period size: 28 Copynumber: 3.9 Consensus size: 27
5312970 CCTTCACAAA
5312980 AAAAAAACAAAACAAAAAAAAACAAAAC
1 AAAAAAACAAAA-AAAAAAAAACAAAAC
5313008 AAAAAAACAACAAAACAAAAAAA-AAAAC
1 AAAAAAACAA-AAAA-AAAAAAACAAAAC
*
5313036 AAAAACAA-AAAAAAAACAAAAAAAAAAC
1 AAAAA-AACAAAAAAAA-AAAAACAAAAC
5313064 -AAAAAACAAAAAAAAAACAAACAAA
1 AAAAAAACAAAAAAAAAA-AAACAAA
5313089 CCCGCAAGGG
Statistics
Matches: 73, Mismatches: 1, Indels: 15
0.82 0.01 0.17
Matches are distributed among these distances:
26 6 0.08
27 27 0.37
28 29 0.40
29 11 0.15
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (27 bp):
AAAAAAACAAAAAAAAAAAAACAAAAC
Found at i:5313011 original size:29 final size:28
Alignment explanation
Indices: 5312977--5313084 Score: 130
Period size: 30 Copynumber: 3.7 Consensus size: 28
5312967 CGTCCTTCAC
5312977 AAAAAAAAAACAAAACAAAAAAAAACAAA
1 AAAAAAAAAACAAAACAAAAAAAAAC-AA
5313006 ACAAAAAAACAACAAAACAAAAAAAAA-AA
1 A-AAAAAAA-AACAAAACAAAAAAAAACAA
*
5313035 CAAAAACAAAAAAAAAACAAAAAAAAAACAA
1 -AAAAA-AAAAACAAAAC-AAAAAAAAACAA
5313066 AAAACAAAAAA-AAAACAAA
1 AAAA-AAAAAACAAAACAAA
5313085 CAAACCCGCA
Statistics
Matches: 71, Mismatches: 1, Indels: 15
0.82 0.01 0.17
Matches are distributed among these distances:
28 3 0.04
29 19 0.27
30 29 0.41
31 20 0.28
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (28 bp):
AAAAAAAAAACAAAACAAAAAAAAACAA
Found at i:5314518 original size:31 final size:30
Alignment explanation
Indices: 5314447--5314589 Score: 141
Period size: 30 Copynumber: 4.9 Consensus size: 30
5314437 TTCCTCACCC
*
5314447 TTCAAAAGTCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCATATTT
*
5314477 TTC-AAAGCCCACAAGTCAGTGGCATTTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-TATTT
**
5314507 TTCAAAAGCCCACAAGTCAGTGGCA-A-CC
1 TTCAAAAGCCCACAAGTCAGTGGCATATTT
* * ***
5314535 TTC-AAAGCTCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATATTT
** *
5314564 TTCCGAAGCCCACAAGTCGGTGGCAT
1 TTCAAAAGCCCACAAGTCAGTGGCAT
5314590 CTTCACAACT
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
27 19 0.20
28 3 0.03
29 23 0.25
30 27 0.29
31 21 0.23
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCATATTT
Found at i:5314683 original size:34 final size:36
Alignment explanation
Indices: 5314593--5314683 Score: 100
Period size: 35 Copynumber: 2.6 Consensus size: 36
5314583 GTGGCATCTT
* *
5314593 CACAACTC-CGTGGCACTCTTTTTCTTTTGTAAGCT
1 CACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGCC
* *
5314628 CATAACTCTA-TAGCACTCTTTTTCTTTT-TAAGCC
1 CACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGCC
* *
5314662 CACAAGT-TAGTGGCACCCTTTT
1 CACAACTCTAGTGGCACTCTTTT
5314684 CAAAAGCCCA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
33 2 0.04
34 20 0.43
35 24 0.52
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (36 bp):
CACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGCC
Found at i:5314732 original size:58 final size:59
Alignment explanation
Indices: 5314657--5315027 Score: 242
Period size: 58 Copynumber: 6.2 Consensus size: 59
5314647 TTTTCTTTTT
* *
5314657 AAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-TTT-AA
1 AAGCCCACAAGTCAGTGGCAACCTTTTC-AAAGCCCACAAGTCAGTGGCAACCTTTTCAA
* * * ***
5314715 AAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCAACAAGTCAGTGGCATTTTTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCA-ACCTTTTCAA
* * * **
5314775 AAGCCCACAAGTCCGTGGCAACC--TTCAAAGCCCACAAATCAGTGGCACCCTTTTCCG
1 AAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAA
* * * * * * *
5314832 AAGCCCATAAGTCGGTGGC-ATCTTTTCCAAAGTCCACAACTCCGTGGC-ACTCTTTTTCTTTTG
1 AAGCCCACAAGTCAGTGGCAACCTTTT-CAAAGCCCACAAGTCAGTGGCAAC-C-TTTTC----A
*
5314895 T
59 A
* * * * * *
5314896 AAGCTCACAACTCTA-TAGC-ACTCTTTTTCTTTTTAAGCCCACAAGTTAGTGGCACCCTTTTCA
1 AAGCCCACAAGTC-AGTGGCAAC-C-TTTTC----AAAGCCCACAAGTCAGTGGCAACCTTTTCA
5314959 A
59 A
* * *
5314960 ACGCCCACAAGTCAGTGGCAACC-TTTAAAAGCCCACAAGTCAGTAGCAACC--TTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAA
*
5315016 AAGCACACAAGT
1 AAGCCCACAAGT
5315028 TGATGCAAAC
Statistics
Matches: 240, Mismatches: 51, Indels: 46
0.71 0.15 0.14
Matches are distributed among these distances:
56 17 0.07
57 42 0.17
58 70 0.29
59 22 0.09
60 27 0.11
62 3 0.01
63 1 0.00
64 28 0.12
65 4 0.02
66 4 0.02
68 5 0.02
69 16 0.07
70 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (59 bp):
AAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAA
Found at i:5314756 original size:29 final size:29
Alignment explanation
Indices: 5314650--5315003 Score: 218
Period size: 30 Copynumber: 11.9 Consensus size: 29
5314640 GCACTCTTTT
*
5314650 TCTTTTT--AAGCCCACAAGTTAGTGGCA
1 TCTTTTTCAAAGCCCACAAGTCAGTGGCA
* *
5314677 CCCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 TCTTTTTC-AAAGCCCACAAGTCAGTGGCA
* * *
5314707 AC-CTTTAAAAGCCCACAAGTCAGTGGCA
1 TCTTTTTCAAAGCCCACAAGTCAGTGGCA
*
5314735 TCTTTTTCAAAGCCAACAAGTCAGTGGCA
1 TCTTTTTCAAAGCCCACAAGTCAGTGGCA
* *
5314764 TTTTTTTTCAAAAGCCCACAAGTCCGTGGCA
1 -TCTTTTTC-AAAGCCCACAAGTCAGTGGCA
* * *
5314795 AC--CTTCAAAGCCCACAAATCAGTGGCA
1 TCTTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
5314822 CCCTTTTCCGAAGCCCATAAGTCGGTGGCA
1 -TCTTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
5314852 TCTTTTCCAAAGTCCACAACTCCGTGGCA
1 TCTTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
5314881 CTCTTTTTCTTTTGTAAGCTCACAACTCTA-TAGCA
1 -TCTTTTTC-----AAAGCCCACAAGTC-AGTGGCA
* *
5314916 CTCTTTTTCTTTTTAAGCCCACAAGTTAGTGGCA
1 -TCTTTTTC----AAAGCCCACAAGTCAGTGGCA
* *
5314950 CCCTTTTCAAACGCCCACAAGTCAGTGGCA
1 TCTTTTTCAAA-GCCCACAAGTCAGTGGCA
* * *
5314980 AC-CTTTAAAAGCCCACAAGTCAGT
1 TCTTTTTCAAAGCCCACAAGTCAGT
5315004 AGCAACCTTC
Statistics
Matches: 260, Mismatches: 49, Indels: 35
0.76 0.14 0.10
Matches are distributed among these distances:
27 24 0.09
28 40 0.15
29 57 0.22
30 71 0.27
31 19 0.07
33 7 0.03
34 18 0.07
35 24 0.09
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (29 bp):
TCTTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:5314836 original size:88 final size:86
Alignment explanation
Indices: 5314657--5314880 Score: 261
Period size: 88 Copynumber: 2.6 Consensus size: 86
5314647 TTTTCTTTTT
* * * *
5314657 AAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCA
1 AAGCCAACAAGTCAGTGGCA-TCTTTTCAAAAGCCCACAAGTCCGTGGCAACCTTTAAAAGCCCA
* * *
5314722 CAAGTCAGTGGCATCTTTTTCA
65 CAAATCAGTGGCACCTTTTCCA
* *
5314744 AAGCCAACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCCGTGGCAACC-TTCAAAGCCC
1 AAGCCAACAAGTCAGTGGCA--TCTTTTCAAAAGCCCACAAGTCCGTGGCAACCTTTAAAAGCCC
*
5314808 ACAAATCAGTGGCACCCTTTTCCG
64 ACAAATCAGTGGCA-CCTTTTCCA
* * * * * *
5314832 AAGCCCATAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCA
1 AAGCCAACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCCGTGGCA
5314881 CTCTTTTTCT
Statistics
Matches: 117, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
86 25 0.21
87 40 0.34
88 52 0.44
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (86 bp):
AAGCCAACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCCGTGGCAACCTTTAAAAGCCCAC
AAATCAGTGGCACCTTTTCCA
Found at i:5314956 original size:34 final size:36
Alignment explanation
Indices: 5314865--5314956 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 36
5314855 TTTCCAAAGT
*
5314865 CCACAACTC-CGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
* *
5314900 TCACAACTCTA-TAGCACTCTTTTTCTTTT-TAAGC
1 CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
* *
5314934 CCACAAGT-TAGTGGCACCCTTTT
1 CCACAACTCTAGTGGCACTCTTTT
5314957 CAAACGCCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
33 2 0.04
34 21 0.44
35 25 0.52
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (36 bp):
CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
Found at i:5314998 original size:273 final size:263
Alignment explanation
Indices: 5314445--5315003 Score: 947
Period size: 263 Copynumber: 2.1 Consensus size: 263
5314435 CATTCCTCAC
* * *
5314445 CCTTCAAAAGTCCACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTTC
1 CCTTTAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAGCCAACAAGTCAGTGGCATTTTTTTTC
*
5314510 AAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCTCACAAATCAGTGGCACCCTTTTCCGAAGCCC
66 AAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCC
*
5314575 ACAAGTCGGTGGCATCTTCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCTCATAACTCTATA
131 ACAAGTCGGTGGCATCTTCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCTCACAACTCTATA
5314640 GCACTCTTTTTCTTTTTAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGG
196 GCACTCTTTTTCTTTTTAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGG
5314705 CAA
261 CAA
*
5314708 CCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCAACAAGTCAGTGGCATTTTTTTTC
1 CCTTTAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAGCCAACAAGTCAGTGGCATTTTTTTTC
*
5314773 AAAAGCCCACAAGTCCGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCC
66 AAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCC
*
5314838 ATAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCTCA
131 ACAAGTCGGTGGCATC---T------T-CACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCTCA
*
5314903 CAACTCTATAGCACTCTTTTTCTTTTTAAGCCCACAAGTTAGTGGCACCCTTTTCAAACGCCCAC
186 CAACTCTATAGCACTCTTTTTCTTTTTAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCAC
5314968 AAGTCAGTGGCAA
251 AAGTCAGTGGCAA
5314981 CCTTTAAAAGCCCACAAGTCAGT
1 CCTTTAAAAGCCCACAAGTCAGT
5315004 AGCAACCTTC
Statistics
Matches: 277, Mismatches: 9, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
263 139 0.50
266 1 0.00
272 1 0.00
273 136 0.49
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (263 bp):
CCTTTAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAGCCAACAAGTCAGTGGCATTTTTTTTC
AAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCC
ACAAGTCGGTGGCATCTTCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCTCACAACTCTATA
GCACTCTTTTTCTTTTTAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGG
CAA
Found at i:5315002 original size:28 final size:28
Alignment explanation
Indices: 5314930--5315027 Score: 124
Period size: 28 Copynumber: 3.4 Consensus size: 28
5314920 TTTTCTTTTT
* *
5314930 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
*
5314960 ACGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
5314988 AAGCCCACAAGTCAGTAGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
*
5315016 AAGCACACAAGT
1 AAGCCCACAAGT
5315028 TGATGCAAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 38 0.62
29 3 0.05
30 20 0.33
ACGTcount: A:0.36, C:0.31, G:0.16, T:0.17
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:5315053 original size:29 final size:28
Alignment explanation
Indices: 5314930--5315053 Score: 117
Period size: 28 Copynumber: 4.3 Consensus size: 28
5314920 TTTTCTTTTT
* * *
5314930 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTAGCAACC--TTCAA
* * *
5314960 ACGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTAGCAACCTTCAA
5314988 AAGCCCACAAGTCAGTAGCAACCTTCAA
1 AAGCCCACAAGTCAGTAGCAACCTTCAA
* *
5315016 AAGCACACAAGT-TG-ATGCAAACCTCTCAA
1 AAGCCCACAAGTCAGTA-GC-AACCT-TCAA
5315045 AAGCCCACA
1 AAGCCCACA
5315054 TAATTTGGTG
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.01
27 3 0.04
28 45 0.56
29 12 0.15
30 20 0.25
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.17
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTAGCAACCTTCAA
Found at i:5315231 original size:43 final size:43
Alignment explanation
Indices: 5315170--5315258 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
5315160 CACCTTCATA
*
5315170 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACC
* *
5315213 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACC
5315256 TTT
1 TTT
5315259 TCCATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACC
Found at i:5315256 original size:92 final size:95
Alignment explanation
Indices: 5315080--5315311 Score: 292
Period size: 92 Copynumber: 2.4 Consensus size: 95
5315070 CCTTTTAAAC
* * * * *
5315080 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGCCTTTAAGTCCAATATCGCTGGCCTT
1 CCAATGTAGCTAGCCTTGAATCAGCACATT-G-A-CAT-CCTTTAAGTCCAATATAGCTGGCCTT
*
5315145 AAATTAGCATATTGGCACC-TT-CATATTTAAGT
62 AAATCAGCATATTGGCACCTTTCCATATTTAAGT
* *
5315177 CCAATGTAGCT-GACCTTGAATCAGCACATTGGCA-CCTTTAAGTCCAATATAGCTGGCCTTGAA
1 CCAATGTAGCTAG-CCTTGAATCAGCACATTGACATCCTTTAAGTCCAATATAGCTGGCCTTAAA
*
5315240 TCAGCATATTGGCACCTTTTCCATCTTTAAGT
65 TCAGCATATTGGCACC-TTTCCATATTTAAGT
*
5315272 TCAATGTAGCTAGCCTTGAATCAGCACATTGACATCCTTT
1 CCAATGTAGCTAGCCTTGAATCAGCACATTGACATCCTTT
5315312 TTCTCATCTT
Statistics
Matches: 119, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
92 42 0.35
94 3 0.03
95 40 0.34
96 8 0.07
97 26 0.22
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (95 bp):
CCAATGTAGCTAGCCTTGAATCAGCACATTGACATCCTTTAAGTCCAATATAGCTGGCCTTAAAT
CAGCATATTGGCACCTTTCCATATTTAAGT
Found at i:5315290 original size:52 final size:55
Alignment explanation
Indices: 5315212--5315333 Score: 169
Period size: 52 Copynumber: 2.3 Consensus size: 55
5315202 ACATTGGCAC
* * *
5315212 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* *
5315264 CTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
*
5315319 CTTTAAGCCCAATAT
1 CTTTAAGTCCAATAT
5315334 CGTTGGCCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
52 37 0.63
53 2 0.03
54 5 0.08
55 15 0.25
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:5315347 original size:55 final size:52
Alignment explanation
Indices: 5315212--5315349 Score: 168
Period size: 52 Copynumber: 2.6 Consensus size: 52
5315202 ACATTGGCAC
* *
5315212 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
* * *
5315264 CTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CC-TTTTC-CAT
* * * *
5315319 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
5315350 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
53 2 0.03
54 5 0.07
55 27 0.38
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
Found at i:5316211 original size:13 final size:13
Alignment explanation
Indices: 5316193--5316217 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5316183 CATAAAGTGT
5316193 TGTATCGATACAA
1 TGTATCGATACAA
5316206 TGTATCGATACA
1 TGTATCGATACA
5316218 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5316215 original size:33 final size:33
Alignment explanation
Indices: 5316173--5316239 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5316163 TTCAACGATT
5316173 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
5316206 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
5316239 T
1 T
5316240 TCAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:5316369 original size:52 final size:52
Alignment explanation
Indices: 5316313--5316441 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
5316303 CACTGATCTT
* *
5316313 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATATATCGATACACTATAAAA
* **
5316365 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATATATCGATACACTATAAAA
*
5316417 TGTATCTATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
5316442 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATATATCGATACACTATAAAA
Found at i:5319444 original size:71 final size:71
Alignment explanation
Indices: 5319328--5319469 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
5319318 ACTCCAAAAT
*
5319328 CTCGGTCACTTTGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCC
1 CTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCC
5319393 CTTTAA
66 CTTTAA
5319399 CTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCC
1 CTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCC
5319464 CTTTAA
66 CTTTAA
5319470 TCAACACACT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (71 bp):
CTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCC
CTTTAA
Found at i:5324217 original size:31 final size:32
Alignment explanation
Indices: 5324174--5324249 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
5324164 CATTTTTCAT
*
5324174 TGTAT-GATACATTTTGAG-TTTTGACCCAAT
1 TGTATCGATACATTTTGAGTTTTTGACCCAAA
*
5324204 TTTATCGATACATTTTGAGTTTTTGACCCAAA
1 TGTATCGATACATTTTGAGTTTTTGACCCAAA
*
5324236 TGTATCAATACATT
1 TGTATCGATACATT
5324250 CTTCAATGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 4 0.10
31 13 0.32
32 23 0.57
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.43
Consensus pattern (32 bp):
TGTATCGATACATTTTGAGTTTTTGACCCAAA
Found at i:5326024 original size:18 final size:18
Alignment explanation
Indices: 5326001--5326036 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
5325991 TTAGATGAAG
5326001 GAGTTATGATTTTTTAAA
1 GAGTTATGATTTTTTAAA
5326019 GAGTTATGATTTTTTAAA
1 GAGTTATGATTTTTTAAA
5326037 CCTAACTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (18 bp):
GAGTTATGATTTTTTAAA
Found at i:5326829 original size:97 final size:97
Alignment explanation
Indices: 5326629--5326837 Score: 233
Period size: 97 Copynumber: 2.1 Consensus size: 97
5326619 CTCGACCTTT
** * * *
5326629 CGAGGGAGATACTCCAACCCCGTTTTTAAATTTGTCAAGATCTAAATCTTATTTTTGCTTAAATT
1 CGAGGG-GATACTCCAACCCCACTTTTAAACTTCTCAAGATCTAAATCTTATTTTTGCTCAAATT
* * * *
5326694 GTCATCATCAGGGATACTCGAAGCTCATTCTTT
65 ATCATCATCAGGGATACTCGAAGCCCATTATTC
* * *
5326727 TGAGGGGATACTCCAACCTCACTTTTAAACTTCTCAAGATTTAAATCTTATTTTTGGCTCAAATT
1 CGAGGGGATACTCCAACCCCACTTTTAAACTTCTCAAGATCTAAATCTTATTTTT-GCTCAAATT
* * * *
5326792 ATCGTCGTC-GGGATGCTC-CAGCCCCATTATTC
65 ATCATCATCAGGGATACTCGAAG-CCCATTATTC
5326824 CGAGGGGATACTCC
1 CGAGGGGATACTCC
5326838 TAAATTAAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
96 2 0.02
97 71 0.77
98 19 0.21
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (97 bp):
CGAGGGGATACTCCAACCCCACTTTTAAACTTCTCAAGATCTAAATCTTATTTTTGCTCAAATTA
TCATCATCAGGGATACTCGAAGCCCATTATTC
Found at i:5330397 original size:28 final size:28
Alignment explanation
Indices: 5330336--5330417 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
5330326 TTTTGGAGAT
*
5330336 AATAACGGGGTTGGAGTGTTCCCTCG--GA
1 AATAACGGGGTTGGAGT-ATCCC-CGATGA
*
5330364 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* *
5330392 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
5330418 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 4 0.09
28 41 0.87
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:5330532 original size:52 final size:51
Alignment explanation
Indices: 5330400--5330785 Score: 219
Period size: 52 Copynumber: 7.4 Consensus size: 51
5330390 GAAATAACGA
* * * * **
5330400 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTAGAAATAAAATCAA
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGT-GTTTTAGAAATAAAACCGG
* * * * * *
5330452 TGTTGGAGTATCCCCAATTAAAGGAAAATTGGTGTTTCAAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTAGAAATAAAACCGG
* * *
5330504 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTGGTGTTTTAGAAATAAAACCGG
* *** * * **
5330556 GGTTGGAATATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGG
* * * ** * * *
5330607 GGTTGGAGTATCCCC--TCA-GAAATAA-CGGGGTTGGAGTATCCCCGATGATCAA-CAG
1 GGTTGGAGTATCCCCGATTATGAAA-AATTGGTGTTTTAG-A-----AAT-A-AAACCGG
* * *
5330662 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATTGGTG--TTTTAGAAATAAAACCGG
* * *
5330716 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTT-GAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTAG-AAATAAAACCGG
* *
5330767 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
5330786 GTGGAGAATT
Statistics
Matches: 256, Mismatches: 57, Indels: 43
0.72 0.16 0.12
Matches are distributed among these distances:
48 8 0.03
49 5 0.02
50 1 0.00
51 71 0.28
52 90 0.35
53 21 0.08
54 25 0.10
55 20 0.08
56 1 0.00
57 1 0.00
58 5 0.02
59 4 0.02
60 1 0.00
61 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGG
Found at i:5330608 original size:51 final size:52
Alignment explanation
Indices: 5330492--5330621 Score: 172
Period size: 51 Copynumber: 2.5 Consensus size: 52
5330482 GGTGTTTCAA
* * * *
5330492 AAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
* * *
5330544 CAATAAAACCGGGGTTGGAATATCCCCGATTAT-GAAAAATCAATATTTTGG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
**
5330595 AAATAAAGTCGGGGTTGGAGTATCCCC
1 AAATAAAACCGGGGTTGGAGTATCCCC
5330622 TCAGAAATAA
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
51 37 0.55
52 30 0.45
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (52 bp):
AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
Found at i:5330767 original size:51 final size:53
Alignment explanation
Indices: 5330663--5330785 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 53
5330653 GATCAACAGG
* * *
5330663 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGA
5330717 GTTGGAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGA
*
5330768 GTTGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
5330786 GTGGAGAATT
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
51 35 0.55
52 2 0.03
53 8 0.12
54 19 0.30
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
Found at i:5333167 original size:13 final size:13
Alignment explanation
Indices: 5333149--5333174 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5333139 ACAAAGATCC
5333149 ATGTATCGATACA
1 ATGTATCGATACA
5333162 ATGTATCGATACA
1 ATGTATCGATACA
5333175 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:5333170 original size:33 final size:33
Alignment explanation
Indices: 5333128--5333194 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5333118 AAAATTTCCA
***
5333128 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
5333161 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
5333194 A
1 A
5333195 TTTCCTTCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:5333329 original size:21 final size:21
Alignment explanation
Indices: 5333305--5333361 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
5333295 CATTTGTAGG
*
5333305 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTACACAA
*
5333326 ATGTATCGATACATTATACAA
1 ATGTATCGATACATTACACAA
*
5333347 ATGTATTGATACATT
1 ATGTATCGATACATT
5333362 TGGATAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACATTACACAA
Found at i:5333992 original size:153 final size:153
Alignment explanation
Indices: 5333817--5334161 Score: 401
Period size: 154 Copynumber: 2.2 Consensus size: 153
5333807 TTACAGATGT
* ** * *
5333817 GATGAACCTACCCTAAGTATCCACCTTCAACATAAAAG-GACCGGGTGACAACCTAGGAGTT-GT
1 GATGAACCTACCCTAAATATCCACCTTCGGCATAAAAGAAACC-GGTGACAACCTAGAAGTTGGT
* ** ** * *
5333880 ATCTAGAAAATTATGAGGATGCCCCTAGGGGATACCTTCAATGTAAAAGTA-CTCGATAC-CTCT
65 -TCTAAAAAATTACAAAAATGCCCCTAGGAGATACCTTCAACGTAAAAGTACCT-GATACTC-CT
* *
5333943 AAAGGACATAAAAAATATTTTAAAAGG
127 AAAAGACATAAAAAAGATTTTAAAAGG
* * * * *
5333970 GATGAACCTATCCTAAATATCCACCTTTGGCACAAAAGCAAATCGGTGACGACCTAGAAGTTGGT
1 GATGAACCTACCCTAAATATCCACCTTCGGCATAAAAG-AAACCGGTGACAACCTAGAAGTTGGT
* * *
5334035 TTTAAAAAATTACAAAAATGCCCTTAGGAGATACCTTCGACGTAAAAGTACCTGATACTCCTAAA
65 TCTAAAAAATTACAAAAATGCCCCTAGGAGATACCTTCAACGTAAAAGTACCTGATACTCCTAAA
* *
5334100 AGACTTAAAAAAGATTTTAAATGG
130 AGACATAAAAAAGATTTTAAAAGG
5334124 GATGAACCTACCCTAAATATCCACCTTCGGCATAAAAG
1 GATGAACCTACCCTAAATATCCACCTTCGGCATAAAAG
5334162 CAGACCCAGT
Statistics
Matches: 160, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
153 32 0.20
154 121 0.76
155 7 0.04
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (153 bp):
GATGAACCTACCCTAAATATCCACCTTCGGCATAAAAGAAACCGGTGACAACCTAGAAGTTGGTT
CTAAAAAATTACAAAAATGCCCCTAGGAGATACCTTCAACGTAAAAGTACCTGATACTCCTAAAA
GACATAAAAAAGATTTTAAAAGG
Found at i:5335869 original size:168 final size:167
Alignment explanation
Indices: 5335643--5336092 Score: 735
Period size: 168 Copynumber: 2.7 Consensus size: 167
5335633 AAGATAAATT
* * *
5335643 AATTATTGAAAACTGATTTAATA-CGAAATAAATGATGATATTTGATGAATTTTAAAAATTAAAA
1 AATT-TTGAAAACAGATTTAATATC-AATTAAATAATGATATTTGATGAATTTTAAAAATTAAAA
* *
5335707 ACCAAGAAAAATCCCTTTGAAAACATTTATGGAATGAAAAACTCTGTATTTTGAAAATAAAGAGA
64 ACCAAGAAAAATCCCTTTGAAAACATTTATGGAGTGAAAAACTCTATATTTTGAAAATAAAGAGA
5335772 ATTTCAAGAAAAAAACAAAAAACTCAAGAAAATGAATGA
129 ATTTCAAGAAAAAAACAAAAAACTCAAGAAAATGAATGA
5335811 AATTTTGAAAACAGATTTAATATCAATTAAAATAATGATATTTGATGAATTTTAAAAATTAAAAA
1 AATTTTGAAAACAGATTTAATATCAATT-AAATAATGATATTTGATGAATTTTAAAAATTAAAAA
* *
5335876 CCAAGAAAAATCCCTTTGAAAACATTTACGGAGTGAAAAACTCTATATTTTGAAAATGAAGAGAA
65 CCAAGAAAAATCCCTTTGAAAACATTTATGGAGTGAAAAACTCTATATTTTGAAAATAAAGAGAA
5335941 TTTCAAGAAAAAAACAAAAAACTCAAGAAAATGAATGA
130 TTTCAAGAAAAAAACAAAAAACTCAAGAAAATGAATGA
* *
5335979 AATTTTGAAAACAGATTTAATATCAATTAAATAATAATATTTGATGAATTTTAAAAATTATAAAC
1 AATTTTGAAAACAGATTTAATATCAATTAAATAATGATATTTGATGAATTTTAAAAATTAAAAAC
* *
5336044 TAAGAAAAAT-CCTTCAGAAAACATTTATGGAGT-AGAAAACTCTATATTT
66 CAAGAAAAATCCCTT-TGAAAACATTTATGGAGTGA-AAAACTCTATATTT
5336093 CAAAAATAGT
Statistics
Matches: 266, Mismatches: 12, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
166 5 0.02
167 94 0.35
168 167 0.63
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.29
Consensus pattern (167 bp):
AATTTTGAAAACAGATTTAATATCAATTAAATAATGATATTTGATGAATTTTAAAAATTAAAAAC
CAAGAAAAATCCCTTTGAAAACATTTATGGAGTGAAAAACTCTATATTTTGAAAATAAAGAGAAT
TTCAAGAAAAAAACAAAAAACTCAAGAAAATGAATGA
Found at i:5337102 original size:13 final size:13
Alignment explanation
Indices: 5337084--5337109 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5337074 CAATTTTTTG
5337084 TGTATCGATACAT
1 TGTATCGATACAT
5337097 TGTATCGATACAT
1 TGTATCGATACAT
5337110 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5337848 original size:21 final size:21
Alignment explanation
Indices: 5337807--5337850 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5337797 CTCCCCTTTA
* *
5337807 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
5337828 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
5337849 TC
1 TC
5337851 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:5341770 original size:15 final size:15
Alignment explanation
Indices: 5341750--5341780 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5341740 ATTTCGTTTG
*
5341750 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
5341765 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
5341780 G
1 G
5341781 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:5343616 original size:21 final size:21
Alignment explanation
Indices: 5343587--5343631 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
5343577 AAGTTTTCAT
*
5343587 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
5343607 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
5343629 TTT
1 TTT
5343632 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:5352196 original size:155 final size:154
Alignment explanation
Indices: 5351476--5352216 Score: 768
Period size: 156 Copynumber: 4.8 Consensus size: 154
5351466 TACCCGATAC
* * * * * *
5351476 CCCTAAAGGACTTAGAAAGACTAGAGATGGGATGAAACTATCCTAAATGCCCACCTTCGGCATAA
1 CCCTAAAGGACTTAAAAAGACTAGAAATGCGATGAACCTATCCTAAATACCCACCTTCGGAATAA
* * * * *
5351541 AAGCAAACTCGGTGACAACCT-AGCACTCGATTTTAAGAAATTACGAAAATGCCCCTATAGGTAT
66 AAGCAGACCCGGTGA-TACCTAAG-ACTCGGTTTTAAGAAAATACGAAAATGCCCCTATAGGTAT
* * * *
5351605 ACTTTTGAC-ATAAAAGTACCTCGGCAA
129 ACCTTTGACGAAAAAAAT-CC-CAGCAA
* * * * ** * *
5351632 CCTTAAAAGTCCTAAATTGACTAGAAAAGCGATGAACCTATCCTAAATACCCACCTTCGAAATAA
1 CCCTAAAGGACTTAAAAAGACTAGAAATGCGATGAACCTATCCTAAATACCCACCTTCGGAATAA
* * *
5351697 AAGCAGACCCGGTGATAACTTAAGACTCAGTTCTAAGAAAATACGAAAATGCCCCTATAGGTATA
66 AAGCAGACCCGGTGAT-ACCTAAGACTCGGTTTTAAGAAAATACGAAAATGCCCCTATAGGTATA
* * ** *
5351762 CTTTTCACGTAAAAGTATCCCGGCAA
130 CCTTTGACG-AAAAAAATCCCAGCAA
* *
5351788 CCCTAAAGGACTTAAAAAGACTAGAAATGCGATGAACCTATCCTAAATACCCACCTTCGGTAGAA
1 CCCTAAAGGACTTAAAAAGACTAGAAATGCGATGAACCTATCCTAAATACCCACCTTCGGAATAA
* * * * * * * * * *
5351853 AAGCAAACCCGATGATAGCCTAGGATTCGATTCTAAGAAAGTACGAAAATGCGCTTATGGGTATA
66 AAGCAGACCCGGTGATA-CCTAAGACTCGGTTTTAAGAAAATACGAAAATGCCCCTATAGGTATA
5351918 CCTTTGACGGAAAAAAATCCCAGCAA
130 CCTTTGAC-GAAAAAAATCCCAGCAA
* * *
5351944 CCCTAAAGGACTTAAAAAGACAAGAAATGTGATGAACCTATCCTAAATTCCCACCTTC-GACATA
1 CCCTAAAGGACTTAAAAAGACTAGAAATGCGATGAACCTATCCTAAATACCCACCTTCGGA-ATA
** * * *
5352008 AAAGTGGACCCGATGATAGCCTAGGACTCGGTTTTTAGAAAATACGAAAATGCCCCTATAGGTAT
65 AAAGCAGACCCGGTGATA-CCTAAGACTCGGTTTTAAGAAAATACGAAAATGCCCCTATAGGTAT
*
5352073 ACCTTTGACAAAAAAAATCCCAGCAA
129 ACCTTTGACGAAAAAAATCCCAGCAA
* * * * * * *
5352099 CCCTAAAAGACTTAAAAAGACTAGAAATGTGATGATCCAATCATAAATGCCTACCTTCGGAATAA
1 CCCTAAAGGACTTAAAAAGACTAGAAATGCGATGAACCTATCCTAAATACCCACCTTCGGAATAA
* * * * * * *
5352164 AAACGGACCCGGTGATGACCTAAGAGTTGGTTTTATGAAATTACTAAAATGCC
66 AAGCAGACCCGGTGAT-ACCTAAGACTCGGTTTTAAGAAAATACGAAAATGCC
5352217 TTAAGGGTTA
Statistics
Matches: 489, Mismatches: 87, Indels: 19
0.82 0.15 0.03
Matches are distributed among these distances:
155 114 0.23
156 366 0.75
157 5 0.01
158 4 0.01
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (154 bp):
CCCTAAAGGACTTAAAAAGACTAGAAATGCGATGAACCTATCCTAAATACCCACCTTCGGAATAA
AAGCAGACCCGGTGATACCTAAGACTCGGTTTTAAGAAAATACGAAAATGCCCCTATAGGTATAC
CTTTGACGAAAAAAATCCCAGCAA
Found at i:5352273 original size:312 final size:312
Alignment explanation
Indices: 5351662--5352233 Score: 740
Period size: 311 Copynumber: 1.8 Consensus size: 312
5351652 CTAGAAAAGC
* *
5351662 GATGAACCTATCCTAAATACCCACCTTCGAAATAAAAGCAGACCCGGTGATAACTTAAGACTCAG
1 GATGAACCTATCCTAAATACCCACCTTCGAAATAAAAGCAGACCCGATGATAACCTAAGACTCAG
* * ** *
5351727 TTCTAAGAAAATACGAAAATGCCCCTATAGGTATACTTTTCACGTAAAAGTATCCCGGCAACCCT
66 TTCTAAGAAAATACGAAAATGCCCCTATAGGTATACCTTTCACGAAAAAAAATCCCAGCAACCCT
* * * * *
5351792 AAAGGACTTAAAAAGACTAGAAATGCGATGAACCTATCCTAAATACCCACCTTCGGTAGAAAAGC
131 AAAAGACTTAAAAAGACTAGAAATGCGATGAACCAATCATAAATACCCACCTTCGGAAGAAAAAC
* *
5351857 AAACCCGATGATAGCCTAGGATTCGATTCTAAGAAAGTACGAAAATGCGCTTATGGGTATACCTT
196 AAACCCGATGATAGCCTAAGATTCGATTCTAAGAAAGTACGAAAATGCGCTTAAGGGTATACCTT
* *
5351922 TGACGGAAAAAAATCCCAGCAACCCTAAAGGACTTAAAAAGACAAGAAATGT
261 TGACGGAAAAAAATCCCAGAAAACCTAAAGGACTTAAAAAGACAAGAAATGT
* * ** * * *
5351974 GATGAACCTATCCTAAATTCCCACCTTCGACATAAAAGTGGACCCGATGATAGCCTAGGACTCGG
1 GATGAACCTATCCTAAATACCCACCTTCGAAATAAAAGCAGACCCGATGATAACCTAAGACTCAG
* * *
5352039 TTTTTAGAAAATACGAAAATGCCCCTATAGGTATACCTTTGAC-AAAAAAAATCCCAGCAACCCT
66 TTCTAAGAAAATACGAAAATGCCCCTATAGGTATACCTTTCACGAAAAAAAATCCCAGCAACCCT
* * * * *
5352103 AAAAGACTTAAAAAGACTAGAAATGTGATGATCCAATCATAAATGCCTACCTTCGGAATAAAAAC
131 AAAAGACTTAAAAAGACTAGAAATGCGATGAACCAATCATAAATACCCACCTTCGGAAGAAAAAC
** * * * * * *
5352168 GGACCCGGTGAT-GACCTAAGAGTT-GGTTTTATGAAATTACTAAAATGC-CTTAAGGGT-TACC
196 AAACCCGATGATAG-CCTAAGA-TTCGATTCTAAGAAAGTACGAAAATGCGCTTAAGGGTATACC
5352229 TTTGA
259 TTTGA
5352234 TGTTGCGGTA
Statistics
Matches: 221, Mismatches: 37, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
309 9 0.04
310 9 0.04
311 106 0.48
312 97 0.44
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (312 bp):
GATGAACCTATCCTAAATACCCACCTTCGAAATAAAAGCAGACCCGATGATAACCTAAGACTCAG
TTCTAAGAAAATACGAAAATGCCCCTATAGGTATACCTTTCACGAAAAAAAATCCCAGCAACCCT
AAAAGACTTAAAAAGACTAGAAATGCGATGAACCAATCATAAATACCCACCTTCGGAAGAAAAAC
AAACCCGATGATAGCCTAAGATTCGATTCTAAGAAAGTACGAAAATGCGCTTAAGGGTATACCTT
TGACGGAAAAAAATCCCAGAAAACCTAAAGGACTTAAAAAGACAAGAAATGT
Found at i:5352588 original size:158 final size:157
Alignment explanation
Indices: 5352244--5352631 Score: 474
Period size: 158 Copynumber: 2.4 Consensus size: 157
5352234 TGTTGCGGTA
* * *
5352244 CCCTAAAAGACTTAAAAAGGACTTTAAAAAAGTGGTGAACCTATCCTAAATACCCACTTTCAGCA
1 CCCTAAAAGACTTAAAATGGAC--TATAAAAG-GGTGAACCTATCCTAAATACCCACTTT-GGCA
* * * *
5352309 TAAAACCAGACTCGGTGATGACCTAGGAGTTGGTTCTAAAAAAAAAAATTATAAAAATGCCCCTA
62 TAAAAACAGACCCGGTGACGACCTAGGAGTTGGTTCT--AAAAAAAAATTATAAAAATGACCCTA
* * * *
5352374 GGGGATACTTTCGATGTTAAAGTATCCCGATAC
125 GGGGATACCTTCAACGTTAAAGTATCCCAATAC
* * *
5352407 CCTTAAAGGACTTAAAAAT-GACTATAAAAGAGGTGAACCTATCTTAAATACCCACCTTTGGCAT
1 CCCTAAAAGACTT-AAAATGGACTATAAAAG-GGTGAACCTATCCTAAATACCCA-CTTTGGCAT
* * * *
5352471 AAAAACGGACCCGGTGACGACCTAGGAGTTGGTTGT-AAAAAAAGTTATGAAAATGACCCTAGGG
63 AAAAACAGACCCGGTGACGACCTAGGAGTTGGTTCTAAAAAAAAATTATAAAAATGACCCTAGGG
5352535 GATACCTTCAACGTTAAAGTATCCCAATAC
128 GATACCTTCAACGTTAAAGTATCCCAATAC
* * *
5352565 CCCTAAAAGACTTAAAATGGACTATAAAAGGGATGAATCTATCCTAAATGCCCATCTTCGGCATA
1 CCCTAAAAGACTTAAAATGGACTATAAAAGGG-TGAACCTATCCTAAATACCCA-CTTTGGCATA
5352630 AA
64 AA
5352632 CGCGGACTCG
Statistics
Matches: 195, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
157 7 0.04
158 102 0.52
161 64 0.33
162 4 0.02
163 14 0.07
164 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (157 bp):
CCCTAAAAGACTTAAAATGGACTATAAAAGGGTGAACCTATCCTAAATACCCACTTTGGCATAAA
AACAGACCCGGTGACGACCTAGGAGTTGGTTCTAAAAAAAAATTATAAAAATGACCCTAGGGGAT
ACCTTCAACGTTAAAGTATCCCAATAC
Found at i:5354157 original size:10 final size:10
Alignment explanation
Indices: 5354144--5354173 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
5354134 ATTTTCTTGT
5354144 TTTTTTTCTC
1 TTTTTTTCTC
*
5354154 TTTTTTTCTT
1 TTTTTTTCTC
5354164 TTTTTTTCTC
1 TTTTTTTCTC
5354174 CCTTCTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:5354182 original size:22 final size:22
Alignment explanation
Indices: 5354135--5354182 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
5354125 ATTTTTACTA
* *
5354135 TTTTCTTGTTTTTTTTCTCTTT
1 TTTTCTTGTTTTTTTTCCCTTC
5354157 TTTTCTT-TTTTTTTCTCCCTTC
1 TTTTCTTGTTTTTTT-TCCCTTC
5354179 TTTT
1 TTTT
5354183 TGCTGAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTCTTGTTTTTTTTCCCTTC
Found at i:5355224 original size:168 final size:166
Alignment explanation
Indices: 5354980--5355448 Score: 597
Period size: 166 Copynumber: 2.8 Consensus size: 166
5354970 AGATTTAAAA
* * *
5354980 GAAAAAATTCAAAAACTCATGAAGATGAATGAA-TTTTGAAAACTGAATTAATATGAAATACATA
1 GAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATA
** * *
5355044 ATGTTGTTTGATGAATTTTAAAAATTGAAAATCTCAAAAAAACACCTCGAAAAAAATTACGGAGT
66 ATAATATTTGATGAATTTTAAAAATTGAAAATCT-AAAAAAA-TCCTCGAAAAAAATTACGGAGT
* *
5355109 AAAAAACACCATATTTTGGAAAAAA-AGGAATTTCAAG
129 AAAAAACACCATATTTTAGAAAAAAGAGAAATTTCAAG
5355146 GAAACAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAAATAAAT
1 GAAA-AAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAAATAAAT
* * * ***
5355211 GATAATATTTGATGAATTTTAAAAATTGAAAACCTAGAAAAATCCTCGAAAAAAAATTATAAAGT
65 AATAATATTTGATGAATTTTAAAAATTGAAAATCTAAAAAAATCCTCG-AAAAAAATTACGGAGT
* *
5355276 -GAAAACACTATATTTTAGAAAAAAGAGAAATTTCAAG
129 AAAAAACACCATATTTTAGAAAAAAGAGAAATTTCAAG
* * * * * *
5355313 GAAAAAAATAAAAAACTCATGAAAATAAATTAATTTTTGAAAACTAATTTAATATAAAATAAATA
1 GAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATA
* * * *
5355378 ATAATATTTGATAAATTTCAAAAATTTAAAAT-TAAGAAAAATCCTCCCAAAAAAATTACGGAG-
66 ATAATATTTGATGAATTTTAAAAATTGAAAATCTAA-AAAAATCCT-CGAAAAAAATTACGGAGT
5355441 AAGAAAAC
129 AA-AAAAC
5355449 CCCGTTATTT
Statistics
Matches: 261, Mismatches: 34, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
165 2 0.01
166 133 0.51
167 68 0.26
168 58 0.22
ACGTcount: A:0.54, C:0.09, G:0.10, T:0.27
Consensus pattern (166 bp):
GAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATA
ATAATATTTGATGAATTTTAAAAATTGAAAATCTAAAAAAATCCTCGAAAAAAATTACGGAGTAA
AAAACACCATATTTTAGAAAAAAGAGAAATTTCAAG
Found at i:5357025 original size:169 final size:167
Alignment explanation
Indices: 5356809--5357112 Score: 439
Period size: 167 Copynumber: 1.8 Consensus size: 167
5356799 TTGGATCAGT
* *
5356809 AAGTCAATAAAAAATAAAAGAAAGTACTTGGGACCAAGCCGACAGGTGAATGAAGGACAAAAAAG
1 AAGTCAATAAAAAATAAAAGAAAGTACTTGGGACCAAGCCAACAGGTGAATGAACGA-AAAAAAG
* * * * *
5356874 TTAATCGAGATTAAATTGATGAGTCAATGAGGGATAAACGATTTACCCAAAACTGAGCCAATGGG
65 TTAATCG-GATTAAACTGATAAGTCAACGAAGGATAAACGATTTACCCAAAACTAAGCCAATGGG
*
5356939 TACACAAAAGATAATGAAGTTGACCGAGATTGGATTGAC
129 TAAACAAAAGATAATGAAGTTGACCGAGATTGGATTGAC
* *
5356978 AAGTCAATAAAAGATAAAA-AGAAGTACTTGGGACCAAGCCAACAGGTGAATGAACGATAAAAAG
1 AAGTCAATAAAAAATAAAAGA-AAGTACTTGGGACCAAGCCAACAGGTGAATGAACGAAAAAAAG
* * ** *
5357042 TTGATCGGATTAAACTGATAAGTCAACGAAGGATAAAGGATTTACCCAGGACTAAGTCAATGGGT
65 TTAATCGGATTAAACTGATAAGTCAACGAAGGATAAACGATTTACCCAAAACTAAGCCAATGGGT
5357107 AAACAA
130 AAACAA
5357113 TGGATGAAGG
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
167 54 0.45
168 13 0.11
169 52 0.44
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (167 bp):
AAGTCAATAAAAAATAAAAGAAAGTACTTGGGACCAAGCCAACAGGTGAATGAACGAAAAAAAGT
TAATCGGATTAAACTGATAAGTCAACGAAGGATAAACGATTTACCCAAAACTAAGCCAATGGGTA
AACAAAAGATAATGAAGTTGACCGAGATTGGATTGAC
Found at i:5357288 original size:43 final size:44
Alignment explanation
Indices: 5357238--5357354 Score: 175
Period size: 43 Copynumber: 2.7 Consensus size: 44
5357228 GACGAGCAAT
*
5357238 TAAAGAGATGAAGAAGTCTCCCGAGTCTGAGT-CGACGGGTAGA
1 TAAAGAGATGAAGAAGTCTCCCGAGTCTGAGTCCAACGGGTAGA
* * *
5357281 TAAAGAGATGAAAAAGTCTCCCTAGTTTGA-TCCAACGGGTAGA
1 TAAAGAGATGAAGAAGTCTCCCGAGTCTGAGTCCAACGGGTAGA
*
5357324 TAAAGAGATGAAGAAGTCTCTCGAGTCTGAG
1 TAAAGAGATGAAGAAGTCTCCCGAGTCTGAG
5357355 CAGATGGGCA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.02
43 63 0.98
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.21
Consensus pattern (44 bp):
TAAAGAGATGAAGAAGTCTCCCGAGTCTGAGTCCAACGGGTAGA
Found at i:5357433 original size:43 final size:41
Alignment explanation
Indices: 5357385--5357528 Score: 123
Period size: 42 Copynumber: 3.4 Consensus size: 41
5357375 GAAAACAAAG
*
5357385 GTCTCCTGGGTCTAAGCCGATGAGCAGA-CAGTTGATAAAGGAA
1 GTCTCCTGGGTCTAAGCCGATG-GCAGATGA-TTGATAAAGG-A
* * * * *
5357428 GTCTCC-GAGTTTAAGCCAATGGAAAGATGAATGATAAAGGA
1 GTCTCCTGGGTCTAAGCCGATGG-CAGATGATTGATAAAGGA
* * *
5357469 GTCT-CTCGGGTCTAAGCTGACGGGCAGATGATTAATAAAGGGA
1 GTCTCCT-GGGTCTAAGCCGA-TGGCAGATGATTGATAAA-GGA
5357512 GTCTCCTGGGTCTAAGC
1 GTCTCCTGGGTCTAAGC
5357529 TGACGGGTAG
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
40 1 0.01
41 6 0.08
42 45 0.56
43 26 0.32
44 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (41 bp):
GTCTCCTGGGTCTAAGCCGATGGCAGATGATTGATAAAGGA
Found at i:5357498 original size:42 final size:42
Alignment explanation
Indices: 5357392--5357883 Score: 191
Period size: 43 Copynumber: 11.6 Consensus size: 42
5357382 AAGGTCTCCT
* * *
5357392 GGGTCTAAGCCGATGAGCAGAC-AGTTGATAAAGGAAGTCTC-C
1 GGGTCTAAGCCGACGGGCAGACGA-ATGATAAAGG-AGTCTCTC
* * * * ** *
5357434 GAGTTTAAGCCAATGGAAAGATGAATGATAAAGGAGTCTCTC
1 GGGTCTAAGCCGACGGGCAGACGAATGATAAAGGAGTCTCTC
* * * *
5357476 GGGTCTAAGCTGACGGGCAGATGATTAATAAAGGGAGTCTC-C
1 GGGTCTAAGCCGACGGGCAGACGAATGATAAA-GGAGTCTCTC
* * * * *
5357518 TGGGTCTAAGCTGACGGGTAGACG-GTGGATGAAA-AAGTCTCTT
1 -GGGTCTAAGCCGACGGGCAGACGAAT-GAT-AAAGGAGTCTCTC
** * * * * * *
5357561 AAGTCTAAGCAGATGAGCAGACAAAAG-TGAAAGAAGTCTCTC
1 GGGTCTAAGCCGACGGGCAGACGAATGAT-AAAGGAGTCTCTC
* * * *
5357603 GAGTCTAAGCCGACGGGCAGATGGAATGATAAAAGAGTCTCCC
1 GGGTCTAAGCCGACGGGCAGA-CGAATGATAAAGGAGTCTCTC
* * * *
5357646 GGGTCTGAGCCGACGGGCAGACCAAAGATGAAA-AAGTCTCTC
1 GGGTCTAAGCCGACGGGCAGACGAATGAT-AAAGGAGTCTCTC
* * * ** *
5357688 AGGTCTGAGCCGACGGGCATACG-ATAGATAAATAAAGTCTCCC
1 GGGTCTAAGCCGACGGGCAGACGAAT-GATAAA-GGAGTCTCTC
* * * * * *
5357731 GGGTCTGAGCTGATGGGCAGACGATTGACAAAGGAAGTTTC-C
1 GGGTCTAAGCCGACGGGCAGACGAATGATAAAGG-AGTCTCTC
* * * * *
5357773 TGAG-ATAGAGACGACGAGC-GAACG-ATAGACAAAGGAAGTCTCTC
1 -GGGTCTA-AGCCGACGGGCAG-ACGAAT-GATAAAGG-AGTCTCTC
* * * * *
5357817 GGGTCTGAGTCGACAGGTAGTA-GATTGATAAAGGAAGTCTCTC
1 GGGTCTAAGCCGACGGGCAG-ACGAATGATAAAGG-AGTCTCTC
* *
5357860 GGGTCTGAGCTGACGGGCAGACGA
1 GGGTCTAAGCCGACGGGCAGACGA
5357884 TTAAAAAAAG
Statistics
Matches: 337, Mismatches: 87, Indels: 51
0.71 0.18 0.11
Matches are distributed among these distances:
41 15 0.04
42 138 0.41
43 174 0.52
44 10 0.03
ACGTcount: A:0.32, C:0.18, G:0.31, T:0.19
Consensus pattern (42 bp):
GGGTCTAAGCCGACGGGCAGACGAATGATAAAGGAGTCTCTC
Found at i:5357529 original size:43 final size:42
Alignment explanation
Indices: 5357452--5357666 Score: 136
Period size: 42 Copynumber: 5.1 Consensus size: 42
5357442 GCCAATGGAA
*
5357452 AGATGAATGATAAAGGAGTCTCTCGGGTCTAAGCTGACGGGC
1 AGATGAATAATAAAGGAGTCTCTCGGGTCTAAGCTGACGGGC
* *
5357494 AGATGATTAATAAAGGGAGTCTC-CTGGGTCTAAGCTGACGGGT
1 AGATGAATAATAAA-GGAGTCTCTC-GGGTCTAAGCTGACGGGC
* * *** * * *
5357537 AGACGGTGGATGA-AAA--AGTCTCTTAAGTCTAAGCAGATGAGC
1 AGA---TGAATAATAAAGGAGTCTCTCGGGTCTAAGCTGACGGGC
* * * *
5357579 AGA-CAA-AAGTGAAAGAAGTCTCTCGAGTCTAAGCCGACGGGC
1 AGATGAATAA-T-AAAGGAGTCTCTCGGGTCTAAGCTGACGGGC
* * * * *
5357621 AGATGGAATGATAAAAGAGTCTCCCGGGTCTGAGCCGACGGGC
1 AGAT-GAATAATAAAGGAGTCTCTCGGGTCTAAGCTGACGGGC
5357664 AGA
1 AGA
5357667 CCAAAGATGA
Statistics
Matches: 131, Mismatches: 28, Indels: 27
0.70 0.15 0.15
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 3 0.02
42 58 0.44
43 57 0.44
44 3 0.02
45 4 0.03
46 4 0.03
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.20
Consensus pattern (42 bp):
AGATGAATAATAAAGGAGTCTCTCGGGTCTAAGCTGACGGGC
Found at i:5357642 original size:85 final size:84
Alignment explanation
Indices: 5357549--5357706 Score: 185
Period size: 85 Copynumber: 1.9 Consensus size: 84
5357539 ACGGTGGATG
** *
5357549 AAAAAGTCTCTTAAGTCTAAGCAGATGAGCAGACAAAAG-TGAAAGAAGTCTCTC-GAGTCTAAG
1 AAAAAGTCTCCCAAGTCTAAGCAGACGAGCAGACAAAAGATGAAA-AAGTCTCTCAG-GTCTAAG
5357612 CCGACGGGCAGATGGAATGAT
64 CCGACGGGCAGATGGAATGAT
** * * * * *
5357633 AAAAGAGTCTCCCGGGTCTGAGCCGACGGGCAGACCAAAGATGAAAAAGTCTCTCAGGTCTGAGC
1 AAAA-AGTCTCCCAAGTCTAAGCAGACGAGCAGACAAAAGATGAAAAAGTCTCTCAGGTCTAAGC
5357698 CGACGGGCA
65 CGACGGGCA
5357707 TACGATAGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
84 4 0.07
85 51 0.84
86 6 0.10
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.16
Consensus pattern (84 bp):
AAAAAGTCTCCCAAGTCTAAGCAGACGAGCAGACAAAAGATGAAAAAGTCTCTCAGGTCTAAGCC
GACGGGCAGATGGAATGAT
Found at i:5357727 original size:85 final size:85
Alignment explanation
Indices: 5357577--5357752 Score: 225
Period size: 85 Copynumber: 2.1 Consensus size: 85
5357567 AAGCAGATGA
* *
5357577 GCAGACAAAAGTGAAAGAAGTCTCTCGAGTCTAAGCCGACGGGCAGATGGAATGATAAAAGAGTC
1 GCAGACAAAAGTGAAAGAAGTCTCTCGAGTCTAAGCCGACGGGCAGATCGAATGATAAAAAAGTC
5357642 TCCCGGGTCTGAGCCGACGG
66 TCCCGGGTCTGAGCCGACGG
* * *
5357662 GCAGACCAAAGATGAAA-AAGTCTCTC-AGGTCTGAGCCGACGGGCATA-CG-ATAGATAAATAA
1 GCAGACAAAAG-TGAAAGAAGTCTCTCGA-GTCTAAGCCGACGGGCAGATCGAAT-GATAAA-AA
* *
5357723 AGTCTCCCGGGTCTGAGCTGATGG
62 AGTCTCCCGGGTCTGAGCCGACGG
5357747 GCAGAC
1 GCAGAC
5357753 GATTGACAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
83 2 0.03
84 8 0.10
85 65 0.81
86 5 0.06
ACGTcount: A:0.32, C:0.22, G:0.30, T:0.16
Consensus pattern (85 bp):
GCAGACAAAAGTGAAAGAAGTCTCTCGAGTCTAAGCCGACGGGCAGATCGAATGATAAAAAAGTC
TCCCGGGTCTGAGCCGACGG
Found at i:5357739 original size:43 final size:43
Alignment explanation
Indices: 5357460--5357884 Score: 219
Period size: 43 Copynumber: 10.0 Consensus size: 43
5357450 AAAGATGAAT
* * * *
5357460 GATAAAG-GAGTCTCTCGGGTCTAAGCTGACGGGCAGATGATTA
1 GATAAAGAAAGTCTCTCGGGTCTGAGCCGACGGGCAGACGA-TA
** * * * * *
5357503 -ATAAAGGGAGTCTC-CTGGGTCTAAGCTGACGGGTAGACGGTG
1 GATAAAGAAAGTCTCTC-GGGTCTGAGCCGACGGGCAGACGATA
* *** * * * * * *
5357545 GATGAA-AAAGTCTCTTAAGTCTAAGCAGATGAGCAGACAAAA
1 GATAAAGAAAGTCTCTCGGGTCTGAGCCGACGGGCAGACGATA
* * *
5357587 G-TGAAAG-AAGTCTCTCGAGTCTAAGCCGACGGGCAGATGGA-A
1 GAT-AAAGAAAGTCTCTCGGGTCTGAGCCGACGGGCAGA-CGATA
* * * *
5357629 TGATAAA-AGAGTCTCCCGGGTCTGAGCCGACGGGCAGACCAAA
1 -GATAAAGAAAGTCTCTCGGGTCTGAGCCGACGGGCAGACGATA
* * *
5357672 GATGAA-AAAGTCTCTCAGGTCTGAGCCGACGGGCATACGATA
1 GATAAAGAAAGTCTCTCGGGTCTGAGCCGACGGGCAGACGATA
* * * * *
5357714 GATAAATAAAGTCTCCCGGGTCTGAGCTGATGGGCAGACGATT
1 GATAAAGAAAGTCTCTCGGGTCTGAGCCGACGGGCAGACGATA
* * * * * * *
5357757 GACAAAGGAAGTTTC-CTGAGAT-AGAGACGACGAGC-GAACGATA
1 GATAAAGAAAGTCTCTC-G-GGTCTGAGCCGACGGGCAG-ACGATA
* * * * * *
5357800 GACAAAGGAAGTCTCTCGGGTCTGAGTCGACAGGTAGTA-GATT
1 GATAAAGAAAGTCTCTCGGGTCTGAGCCGACGGGCAG-ACGATA
* *
5357843 GATAAAGGAAGTCTCTCGGGTCTGAGCTGACGGGCAGACGAT
1 GATAAAGAAAGTCTCTCGGGTCTGAGCCGACGGGCAGACGAT
5357885 TAAAAAAAGA
Statistics
Matches: 292, Mismatches: 71, Indels: 38
0.73 0.18 0.09
Matches are distributed among these distances:
41 1 0.00
42 105 0.36
43 180 0.62
44 6 0.02
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.19
Consensus pattern (43 bp):
GATAAAGAAAGTCTCTCGGGTCTGAGCCGACGGGCAGACGATA
Found at i:5358024 original size:43 final size:43
Alignment explanation
Indices: 5357951--5358180 Score: 232
Period size: 43 Copynumber: 5.4 Consensus size: 43
5357941 TCTCAAGTCT
* * * * * *
5357951 AAGCCGACAAGTAGACTTAATGGTGAATAAGTCTCCATGATCA
1 AAGCCGACAGGCAGACTTAAAGGCGAATAAGTCTCCAAGGTCA
* * *
5357994 AAGCTGACAGGCAGACTTAAAGAG-GAATAAGTCTCTAGGGTCA
1 AAGCCGACAGGCAGACTTAAAG-GCGAATAAGTCTCCAAGGTCA
* * * *
5358037 AAGCCGACAAGCAAACTTAAAGGTGAATAAGTCTCTAAGGTCA
1 AAGCCGACAGGCAGACTTAAAGGCGAATAAGTCTCCAAGGTCA
** *
5358080 AAGCTAACAGGTAGACTTAAAAGG-GAATAAGTCTCCAAGGTCA
1 AAGCCGACAGGCAGACTT-AAAGGCGAATAAGTCTCCAAGGTCA
* * * * *
5358123 AAGCCGACAGGTAGA-TTTAAGGCAAAGAAGTCTCCAAAGTCA
1 AAGCCGACAGGCAGACTTAAAGGCGAATAAGTCTCCAAGGTCA
5358165 AAGCCGACAGGCAGAC
1 AAGCCGACAGGCAGAC
5358181 GATTGACAAA
Statistics
Matches: 158, Mismatches: 24, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
41 4 0.03
42 33 0.21
43 115 0.73
44 6 0.04
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.18
Consensus pattern (43 bp):
AAGCCGACAGGCAGACTTAAAGGCGAATAAGTCTCCAAGGTCA
Found at i:5358055 original size:86 final size:86
Alignment explanation
Indices: 5357951--5358131 Score: 256
Period size: 86 Copynumber: 2.1 Consensus size: 86
5357941 TCTCAAGTCT
* * * * *
5357951 AAGCCGACAAGTAGACTTAATGGTGAATAAGTCTCCATGATCAAAGCTGACAGGCAGACTT-AAA
1 AAGCCGACAAGCAAACTTAAAGGTGAATAAGTCTCCAAGATCAAAGCTAACAGGCAGACTTAAAA
* *
5358015 GAGGAATAAGTCTCTAGGGTCA
66 G-GGAATAAGTCTCCAAGGTCA
* * *
5358037 AAGCCGACAAGCAAACTTAAAGGTGAATAAGTCTCTAAGGTCAAAGCTAACAGGTAGACTTAAAA
1 AAGCCGACAAGCAAACTTAAAGGTGAATAAGTCTCCAAGATCAAAGCTAACAGGCAGACTTAAAA
5358102 GGGAATAAGTCTCCAAGGTCA
66 GGGAATAAGTCTCCAAGGTCA
5358123 AAGCCGACA
1 AAGCCGACA
5358132 GGTAGATTTA
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 80 0.95
87 4 0.05
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (86 bp):
AAGCCGACAAGCAAACTTAAAGGTGAATAAGTCTCCAAGATCAAAGCTAACAGGCAGACTTAAAA
GGGAATAAGTCTCCAAGGTCA
Found at i:5358212 original size:43 final size:43
Alignment explanation
Indices: 5358146--5358988 Score: 381
Period size: 43 Copynumber: 19.8 Consensus size: 43
5358136 GATTTAAGGC
** * *
5358146 AAAGAAGTCTCCAAAGTCAAAGCCGACAGGCAGACGATTGACA
1 AAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGACA
* * * * * *
5358189 AAAGAAGTCTCCCGAGTTTAAGCCCATGGGGAGACAATTGATA
1 AAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGACA
* * ** * * **
5358232 AACA-AAGTTTCCCAAGTCTAAGCCGGTGGGCAGATGATTAATG
1 AA-AGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGACA
* * * * * *
5358275 AAA-AAGTCTCTCGGGTCTGAGCTGATGGGTAGACGATTGACA
1 AAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGACA
* * * *
5358317 AATGAAGTCT-TCGAGGTCAAAGCCGACGGGCAGACGATTGATA
1 AAAGAAGTCTCCCGA-GTCTAAGCCGACGGGCAGACGATTGACA
* * ** * *
5358360 AAGGAAGTCT-CCTAGGATAGAGTCGACGGACAGACGATTGACA
1 AAAGAAGTCTCCCGAGTCTA-AGCCGACGGGCAGACGATTGACA
** * * *
5358403 ATTGAAGTCTCTCGAGTCTAAGCCGATGGGCAGACGATTGATA
1 AAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGACA
* ** * ** *
5358446 AAAGAAGTCTCCC-AGGTTTAAGCTAATGAACA-AGTGATTGACA
1 AAAGAAGTCTCCCGA-GTCTAAGCCGACGGGCAGA-CGATTGACA
* ** * * * *
5358489 AAATAAGTCTCTTGAGTCTGACCCGACGGGCAAACGATTAACA
1 AAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGACA
* * * ** * ** *
5358532 AAGGAAATCTCTCG-GT-TTTGCCAATAGGCAAACGATTGAC-
1 AAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGACA
** * * * *
5358572 AAAGAAAGTCTCATGGGTCTGAGCCAACGGGCAGATGATTGACA
1 AAAG-AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGACA
* * * * * *
5358616 AAGGAAGTCTCCCGAGTCTGAGCCGATGGGCAAATGATTGATA
1 AAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGACA
* ** * * * *
5358659 AAGGACA-TCTTTCGGGTCTCAGCCGACGGGCAGATGATTGAAA
1 AAAGA-AGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGACA
* * * * * * * ** **
5358702 AAAGAAATCTGCTGGGTCTATGCCGATGGGTAGATAATTGATG
1 AAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGACA
* * * *
5358745 GAA-AAGTCTCCTGAGTTTAAGCCGAGGGGCAGACGATTGAC-
1 AAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGACA
* *
5358786 AAAGAAAGTCTCCTG-GTCTAAGCTGACGGGCAGACGATTGA-A
1 AAAG-AAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGACA
* * ** *
5358828 AAAGAAGTCTCTC-AGGTCTAAACTAACGGGCAGACGATTGATA
1 AAAGAAGTCTCCCGA-GTCTAAGCCGACGGGCAGACGATTGACA
* * * * * **
5358871 AAGGAAGTCTCCC-AGGTCTAAGCTGACGTGCGGATGATTGATG
1 AAAGAAGTCTCCCGA-GTCTAAGCCGACGGGCAGACGATTGACA
* * ** * *
5358914 GAA-AAGTCTCCC-AGATTTAAGTTGACGAGCAGACGATTAACA
1 AAAGAAGTCTCCCGAG-TCTAAGCCGACGGGCAGACGATTGACA
* ** *
5358956 AAAAAAGTCTCCTAAGTCTAAGCCGATGGGCAG
1 AAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAG
5358989 GCAAAGGATG
Statistics
Matches: 603, Mismatches: 173, Indels: 48
0.73 0.21 0.06
Matches are distributed among these distances:
40 3 0.00
41 34 0.06
42 152 0.25
43 400 0.66
44 14 0.02
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (43 bp):
AAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGACA
Found at i:5358946 original size:85 final size:85
Alignment explanation
Indices: 5358738--5358988 Score: 247
Period size: 85 Copynumber: 3.0 Consensus size: 85
5358728 TGGGTAGATA
* * * *
5358738 ATTGATGGAAAAGTCT-CCTGAGTTTAAGCCGAGGGGCAGACGATTGACAAAGAAAGTCT-CCTG
1 ATTGATGGAAAAGTCTCCCAGA-TTTAAGCTGACGGGCAGACGATTGACAAAGAAAGTCTCCCAG
5358801 GTCTAAGCTGACGGGCAGACG
65 GTCTAAGCTGACGGGCAGACG
** * * * * * * *
5358822 ATTGA-AAAAGAAGTCTCTCAGGTCTAAACTAACGGGCAGACGATTGATAAAGGAAGTCTCCCAG
1 ATTGATGGAA-AAGTCTCCCAGATTTAAGCTGACGGGCAGACGATTGACAAAGAAAGTCTCCCAG
* * *
5358886 GTCTAAGCTGACGTGCGGATG
65 GTCTAAGCTGACGGGCAGACG
* * * * * *
5358907 ATTGATGGAAAAGTCTCCCAGATTTAAGTTGACGAGCAGACGATTAACAAAAAAAGTCTCCTAAG
1 ATTGATGGAAAAGTCTCCCAGATTTAAGCTGACGGGCAGACGATTGACAAAGAAAGTCTCCCAGG
* *
5358972 TCTAAGCCGATGGGCAG
66 TCTAAGCTGACGGGCAG
5358989 GCAAAGGATG
Statistics
Matches: 128, Mismatches: 35, Indels: 7
0.75 0.21 0.04
Matches are distributed among these distances:
83 2 0.02
84 41 0.32
85 83 0.65
86 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (85 bp):
ATTGATGGAAAAGTCTCCCAGATTTAAGCTGACGGGCAGACGATTGACAAAGAAAGTCTCCCAGG
TCTAAGCTGACGGGCAGACG
Found at i:5359041 original size:42 final size:42
Alignment explanation
Indices: 5358957--5359169 Score: 182
Period size: 42 Copynumber: 5.0 Consensus size: 42
5358947 CGATTAACAA
* * *
5358957 AAAAAGTCTCCTAAGTCTAAGCCGATGGGCAGGCAAAGGATG
1 AAAAAGTCTCCTGAGTCTAAGCCGATGGGCAGACAAAAGATG
* *
5358999 AAAAAGTCTCCTGGGCCTAAGCCGATGGGCAGACAAAAGATG
1 AAAAAGTCTCCTGAGTCTAAGCCGATGGGCAGACAAAAGATG
* *
5359041 AAAAAGTCT-CTCAAGTCTAAGTCGATGGGC-GAACAAAAGAT-
1 AAAAAGTCTCCT-GAGTCTAAGCCGATGGGCAG-ACAAAAGATG
* * * * * * * *
5359082 AGAGAGGTCT-CTCGGGTCTAAGTCGGTGGGCAGACAAAGGGTAA
1 A-AAAAGTCTCCT-GAGTCTAAGCCGATGGGCAGACAAAAGAT-G
* * * *
5359126 AAAAAGTCTCCCGAGTCTAAGCTGACGTGCAGACAAAAGATG
1 AAAAAGTCTCCTGAGTCTAAGCCGATGGGCAGACAAAAGATG
5359168 AA
1 AA
5359170 GAGTATAAGG
Statistics
Matches: 136, Mismatches: 28, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
41 4 0.03
42 102 0.75
43 28 0.21
44 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (42 bp):
AAAAAGTCTCCTGAGTCTAAGCCGATGGGCAGACAAAAGATG
Found at i:5359092 original size:84 final size:84
Alignment explanation
Indices: 5358955--5359169 Score: 213
Period size: 84 Copynumber: 2.5 Consensus size: 84
5358945 GACGATTAAC
* *
5358955 AAAAAAAGTCTCCTAAGTCTAAGCCGATGGGCAGGCAAAGGATGAAAAAGTCTC-CTGGGCCTAA
1 AAAAAAAGTCTCC-AAGTCTAAGCCGATGGGCAGACAAAAGATGAAAAAGTCTCTC-GGGCCTAA
5359019 GCCGATGGGCAGACAAAAGAT
64 GCCGATGGGCAGACAAAAGAT
* * * * *
5359040 -GAAAAAGTCTCTCAAGTCTAAGTCGATGGGC-GAACAAAAGAT-AGAGAGGTCTCTCGGGTCTA
1 AAAAAAAGTCTC-CAAGTCTAAGCCGATGGGCAG-ACAAAAGATGA-AAAAGTCTCTCGGGCCTA
* * * *
5359102 AGTCGGTGGGCAGACAAAGGGT
63 AGCCGATGGGCAGACAAAAGAT
* * * *
5359124 AAAAAAAGTCTCCCGAGTCTAAGCTGACGTGCAGACAAAAGATGAA
1 AAAAAAAGTCT-CCAAGTCTAAGCCGATGGGCAGACAAAAGATGAA
5359170 GAGTATAAGG
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
83 2 0.02
84 65 0.62
85 35 0.33
86 3 0.03
ACGTcount: A:0.37, C:0.19, G:0.28, T:0.17
Consensus pattern (84 bp):
AAAAAAAGTCTCCAAGTCTAAGCCGATGGGCAGACAAAAGATGAAAAAGTCTCTCGGGCCTAAGC
CGATGGGCAGACAAAAGAT
Found at i:5359858 original size:89 final size:88
Alignment explanation
Indices: 5359742--5359940 Score: 301
Period size: 89 Copynumber: 2.2 Consensus size: 88
5359732 TTTGGTAAGG
* * * *
5359742 AAGGATATGATTGGGAATATATGGGCTACACCTTACTCCAAGGAAATTAGGCTTAGTGATGCACC
1 AAGGATATGATTAGGAATATGTAGGCTACACCTTACCCCAAGGAAATTAGGCTTAGTGATGCACC
5359807 AATACCATCTAGTGGTTGGAGGAA
66 AATACCATCTAGTGGTTGGAGG-A
* *
5359831 AAGGATATAATTAGGAATATGTAGGCTACACCTTACCCCAAGGAAATTAGGCTTAGTGATGCATC
1 AAGGATATGATTAGGAATATGTAGGCTACACCTTACCCCAAGGAAATTAGGCTTAGTGATGCACC
*
5359896 AATACCATCTAGTGGTTGGATGA
66 AATACCATCTAGTGGTTGGAGGA
*
5359919 AGGGAATATGATTAGGAA-ATGT
1 AAGG-ATATGATTAGGAATATGT
5359941 GTTTTCCTTG
Statistics
Matches: 100, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
88 8 0.08
89 92 0.92
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (88 bp):
AAGGATATGATTAGGAATATGTAGGCTACACCTTACCCCAAGGAAATTAGGCTTAGTGATGCACC
AATACCATCTAGTGGTTGGAGGA
Found at i:5360867 original size:15 final size:15
Alignment explanation
Indices: 5360844--5360879 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
5360834 TTCATTTTGA
5360844 TTTTTTTCTT-TTTCT
1 TTTTTTTCTTCTTT-T
5360859 TTTTTTTCTTCTTTT
1 TTTTTTTCTTCTTTT
5360874 TTTTTT
1 TTTTTT
5360880 GGTTTGTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTTTTCTTCTTTT
Found at i:5361268 original size:23 final size:23
Alignment explanation
Indices: 5361222--5361269 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
5361212 ATTTTCTTTC
*
5361222 TTTTTTTCTTTTCATTTTTTTTAT
1 TTTTTTTCTTTT-ATTTTTATTAT
5361246 TTTTTTTCTTTT-TTTGTTATTAT
1 TTTTTTTCTTTTATTT-TTATTAT
5361269 T
1 T
5361270 AAAAAAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 7 0.32
24 12 0.55
ACGTcount: A:0.08, C:0.06, G:0.02, T:0.83
Consensus pattern (23 bp):
TTTTTTTCTTTTATTTTTATTAT
Found at i:5364539 original size:19 final size:20
Alignment explanation
Indices: 5364496--5364548 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
5364486 ATTTCAACGA
5364496 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATAAAGT
*
5364516 GTTGTATCGATACAT-AAGT
1 TTTGTATCGATACATAAAGT
5364535 TTTGTATCGATACA
1 TTTGTATCGATACA
5364549 ATGTATCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTGTATCGATACATAAAGT
Found at i:5364555 original size:13 final size:13
Alignment explanation
Indices: 5364537--5364562 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5364527 ACATAAGTTT
5364537 TGTATCGATACAA
1 TGTATCGATACAA
5364550 TGTATCGATACAA
1 TGTATCGATACAA
5364563 AGCTACTGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5364679 original size:52 final size:52
Alignment explanation
Indices: 5364634--5364762 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
5364624 CACTGATCTT
*
5364634 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
5364686 TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
5364738 TGTATCGATGCATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
5364763 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:5368377 original size:155 final size:155
Alignment explanation
Indices: 5367840--5368810 Score: 879
Period size: 156 Copynumber: 6.3 Consensus size: 155
5367830 GACATACACT
* * * * *
5367840 TTTGATGTAAAAGTATCTCGGCAACCCTAAAGGACTTAAAAA-GACTAGAAATGTGATGAACATA
1 TTTGACGTAAAAGTATCCCGG-TACCCTAAAGGACTTAAAAAGGACTAGAAATGGGATGAACCTA
* * * * * *
5367904 TCCTAAATGCCCACCTTCAGCATAAAAGTGGACCCGGTGATAGCCTAGGACTCGATTCTAAGAAA
65 TCCTAAATGCCCACCTTCAGCATAAAAGCGGACCCAGTGATAACCTAGGACTTGGTTCTAAAAAA
* * * *
5367969 GTATGAAAATGCCCTTATAGG-TATGCC
130 TTATGAAAATGCCC--CTAGGAGATACC
* * ** *
5367996 TTTGACTTAAAATTATCCCGACAACCCTAAAGGACTT-AAAAGGACTAGAAATGTGATGAACCTA
1 TTTGACGTAAAAGTATCCCG-GTACCCTAAAGGACTTAAAAAGGACTAGAAATGGGATGAACCTA
* ** * * * *
5368060 TCCTAAATGCCCACCTTCGGCATAAAAGCAAACCC-GTGATAGCCTAAGACTTGATTTTAAAAAA
65 TCCTAAATGCCCACCTTCAGCATAAAAGCGGACCCAGTGATAACCTAGGACTTGGTTCTAAAAAA
* ** *
5368124 ATATGAAAATGCCCCTATAAGTACACC
130 TTATGAAAATGCCCCTAGGAG-ATACC
* * * * * *
5368151 TTCGACATAAAAGTAT-CCTG-A---AAAAGGACTTAAAAA-GACTAGAAATGTGATGAACTTAT
1 TTTGACGTAAAAGTATCCCGGTACCCTAAAGGACTTAAAAAGGACTAGAAATGGGATGAACCTAT
* * * *
5368210 CCTAAATGCCCACCTTCAGCATAAAAGTGGACCCAGTGACAACCTAGGAATTGGTTCTAAGAAAT
66 CCTAAATGCCCACCTTCAGCATAAAAGCGGACCCAGTGATAACCTAGGACTTGGTTCTAAAAAAT
** * *
5368275 TACAAAAATGACCTTAGGAGATACC
131 TATGAAAATGCCCCTAGGAGATACC
* * ** * *
5368300 TTTGATGTTAAAGTATCCCGGTACATTAAAGGACTTAAAAAGGACTATAAAGGGGATGAACCTAT
1 TTTGACGTAAAAGTATCCCGGTACCCTAAAGGACTTAAAAAGGACTAGAAATGGGATGAACCTAT
* * * * *
5368365 CCTAAATACCCACCTTCAGCATAAAAGCAGACCCAGTGATGACCTAAGAGTTGGTTCTAAAAAAA
66 CCTAAATGCCCACCTTCAGCATAAAAGCGGACCCAGTGATAACCTAGGACTTGGTTCT-AAAAAA
* * **
5368430 TTACGAAAATACCCCTAAAAGATACC
130 TTATGAAAATGCCCCTAGGAGATACC
* * * * * * *
5368456 TTTGACGTTAAAGTATCTCAGTACCCCTAAAAGACTTAAAAATGACTATAAAAAGGG-TGAACCT
1 TTTGACGTAAAAGTATCCCGGTA-CCCTAAAGGACTTAAAAAGGACTA-GAAATGGGATGAACCT
* * * * * *
5368520 ATCCTAAATTCCCACCTTCGGCATAAAAGCGGACTCAGTGATGACCTAGGAGTTAGTTCTAAAAA
64 ATCCTAAATGCCCACCTTCAGCATAAAAGCGGACCCAGTGATAACCTAGGACTTGGTTCT--AAA
* *
5368585 AAATTATGAAAATTCCCCTAGGGGATACC
127 AAATTATGAAAATGCCCCTAGGAGATACC
* * * * *
5368614 TTCGACGTTAAAGTATCTCGGTACCCCTAAAGGACTTAAAAAGGACTATAAAAGGGATGAACCTA
1 TTTGACGTAAAAGTATCCCGGTA-CCCTAAAGGACTTAAAAAGGACTAGAAATGGGATGAACCTA
* * ** * ** *
5368679 TCCTAAATACCCACCTTCAACATAAAAGCGGACCTGGTGATAACTTAGGACTCAGTTCTAGGAAA
65 TCCTAAATGCCCACCTTCAGCATAAAAGCGGACCCAGTGATAACCTAGGACTTGGTTCTA-AAAA
* **
5368744 A-TACGAAAATATCCCTAAGG-GATACC
129 ATTATGAAAATGCCCCT-AGGAGATACC
* * *
5368770 TTGGACGTAAAAGTATCTCAGTACCCCTAAAGGACTTAAAA
1 TTTGACGTAAAAGTATCCCGGTA-CCCTAAAGGACTTAAAA
5368811 GGGATAGGTA
Statistics
Matches: 683, Mismatches: 113, Indels: 38
0.82 0.14 0.05
Matches are distributed among these distances:
149 77 0.11
150 43 0.06
151 1 0.00
152 1 0.00
153 2 0.00
154 16 0.02
155 128 0.19
156 185 0.27
157 95 0.14
158 135 0.20
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (155 bp):
TTTGACGTAAAAGTATCCCGGTACCCTAAAGGACTTAAAAAGGACTAGAAATGGGATGAACCTAT
CCTAAATGCCCACCTTCAGCATAAAAGCGGACCCAGTGATAACCTAGGACTTGGTTCTAAAAAAT
TATGAAAATGCCCCTAGGAGATACC
Found at i:5368428 original size:305 final size:306
Alignment explanation
Indices: 5367868--5368793 Score: 974
Period size: 305 Copynumber: 3.0 Consensus size: 306
5367858 CGGCAACCCT
5367868 AAAGGACTTAAAAAGACTAGAAATGTGATGAACATATCCTAAATGCCCACCTTCAGCATAAAAGT
1 AAAGGACTTAAAAAGACTAGAAATGTGATGAACATATCCTAAATGCCCACCTTCAGCATAAAAGT
* * * * * * * *
5367933 GGACCCGGTGATAGCCTAGGACTCGATTCTAAGAAAGTATGAAAATGCCCTTATAGGTATGCCTT
66 GGACCCAGTGATAACCTAGGAATTGGTTCTAAGAAATTATGAAAATGCCC-T-TAGGGATACCTT
* * ** * * *
5367998 TGACT-TAAAATTATCCCGACAACCCTAAAGGACTT-AAAAGGACTAGAAATGTGATGAACCTAT
129 TGA-TGTTAAAGTATCCCG-GTACCCTAAAGGACTTAAAAAGGACTATAAAAGGGATGAACCTAT
* * * *
5368061 CCTAAATGCCCACCTTCGGCATAAAAGCAAACCCGTGATAGCCTAAGACTTGATTTTAAAAAAA-
192 CCTAAATACCCACCTTCAGCATAAAAGCAGACCCGTGATAGCCTAAGACTTGATTCTAAAAAAAT
* * * *
5368125 TATGAAAATGCCCCTATAAGTACACCTTCGACATAAAAGTATC-CTG-A-A
257 TACGAAAATACCCCTAAAAG-ACACCTTCGACATAAAAGTATCTCAGTACA
*
5368173 AAAGGACTTAAAAAGACTAGAAATGTGATGAACTTATCCTAAATGCCCACCTTCAGCATAAAAGT
1 AAAGGACTTAAAAAGACTAGAAATGTGATGAACATATCCTAAATGCCCACCTTCAGCATAAAAGT
* ** *
5368238 GGACCCAGTGACAACCTAGGAATTGGTTCTAAGAAATTACAAAAATGACCTTAGGAGATACCTTT
66 GGACCCAGTGATAACCTAGGAATTGGTTCTAAGAAATTATGAAAATGCCCTTAGG-GATACCTTT
** *
5368303 GATGTTAAAGTATCCCGGTACATTAAAGGACTTAAAAAGGACTATAAAGGGGATGAACCTATCCT
130 GATGTTAAAGTATCCCGGTACCCTAAAGGACTTAAAAAGGACTATAAAAGGGATGAACCTATCCT
* *
5368368 AAATACCCACCTTCAGCATAAAAGCAGACCCAGTGAT-GACCTAAGAGTTGGTTCTAAAAAAATT
195 AAATACCCACCTTCAGCATAAAAGCAGACCC-GTGATAG-CCTAAGACTTGATTCTAAAAAAATT
* * * *
5368432 ACGAAAATACCCCTAAAAGATACCTTTGACGTTAAAGTATCTCAGTACCCCTA
258 ACGAAAATACCCCTAAAAGACACCTTCGACATAAAAGTATCTCAGTA---C-A
* * * * * *
5368485 AAA-GACTTAAAAATGACTATAAAAAG-GGTGAACCTATCCTAAATTCCCACCTTCGGCATAAAA
1 AAAGGACTTAAAAA-GACTA-GAAATGTGATGAACATATCCTAAATGCCCACCTTCAGCATAAAA
* * * * * * * *
5368548 GCGGACTCAGTGATGACCTAGGAGTTAGTTCTAAAAAAAATTATGAAAATTCCCCTAGGGGATAC
64 GTGGACCCAGTGATAACCTAGGAATTGGTTCT--AAGAAATTATGAAAATGCCCTTA-GGGATAC
* * *
5368613 CTTCGACGTTAAAGTATCTCGGTACCCCTAAAGGACTTAAAAAGGACTATAAAAGGGATGAACCT
126 CTTTGATGTTAAAGTATCCCGGTA-CCCTAAAGGACTTAAAAAGGACTATAAAAGGGATGAACCT
* * * * * * * **
5368678 ATCCTAAATACCCACCTTCAACATAAAAGCGGACCTGGTGATAACTTAGGAC-TCAGTTCTAGGA
190 ATCCTAAATACCCACCTTCAGCATAAAAGCAGACC-CGTGATAGCCTAAGACTTGA-TTCTAAAA
* ** * * *
5368742 AAA-TACGAAAATATCCCTAAGGGATACCTTGGACGTAAAAGTATCTCAGTAC
253 AAATTACGAAAATACCCCTAAAAGACACCTTCGACATAAAAGTATCTCAGTAC
5368794 CCCTAAAGGA
Statistics
Matches: 523, Mismatches: 76, Indels: 38
0.82 0.12 0.06
Matches are distributed among these distances:
303 17 0.03
304 78 0.15
305 147 0.28
306 19 0.04
307 1 0.00
311 11 0.02
312 68 0.13
313 4 0.01
314 87 0.17
315 91 0.17
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (306 bp):
AAAGGACTTAAAAAGACTAGAAATGTGATGAACATATCCTAAATGCCCACCTTCAGCATAAAAGT
GGACCCAGTGATAACCTAGGAATTGGTTCTAAGAAATTATGAAAATGCCCTTAGGGATACCTTTG
ATGTTAAAGTATCCCGGTACCCTAAAGGACTTAAAAAGGACTATAAAAGGGATGAACCTATCCTA
AATACCCACCTTCAGCATAAAAGCAGACCCGTGATAGCCTAAGACTTGATTCTAAAAAAATTACG
AAAATACCCCTAAAAGACACCTTCGACATAAAAGTATCTCAGTACA
Found at i:5370245 original size:21 final size:21
Alignment explanation
Indices: 5370219--5370258 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5370209 ATTTTCACTA
5370219 TTTTCTTGT-TTTTTTCTCTTT
1 TTTTCTT-TCTTTTTTCTCTTT
5370240 TTTTCTTTCTTTTTTCTCT
1 TTTTCTTTCTTTTTTCTCT
5370259 CCCTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (21 bp):
TTTTCTTTCTTTTTTCTCTTT
Found at i:5371401 original size:165 final size:166
Alignment explanation
Indices: 5371036--5371462 Score: 545
Period size: 165 Copynumber: 2.6 Consensus size: 166
5371026 AAATATTTAA
* **
5371036 GAATTTTTGAAAACTAAATTAATATGAAATAAATAATGTTGTTTGATGAATTTTAAAAAATTGAA
1 GAATTTTTGAAAACTGAATTAATATGAAATAAATAATAATGTTTGATGAA-TTTAAAAAATTGAA
* * * *
5371101 AATCTGGAAAAATCCCCTCGAAAAAAATTACACAGTAAAAAATACCGTATTTTGGAAAATGGAAA
65 AATCAGGAAAAATCCCCTCGAAAAAAATTACACAGTAAAAAACACCGTATTTCGGAAAAGGGAAA
* *
5371166 TTTCAACGAAAAAATTTAAAAATGAATGAAAATGAAT
130 TTTCAACGAAAAAAATCAAAAATGAATGAAAATGAAT
* * *
5371203 GAATTTTTGAAAACTGAATTAATATGAAATAAATGATAATATTTGATGAATTTGAAAAATTGAAA
1 GAATTTTTGAAAACTGAATTAATATGAAATAAATAATAATGTTTGATGAATTTAAAAAATTGAAA
* * * * * *
5371268 ACCAGGGAAAATCCCCCCGAAAAAAATTATAGAGT-GAAAACACCGTATTTCGGAAAAAGGGAAA
66 ATCAGGAAAAATCCCCTCGAAAAAAATTACACAGTAAAAAACACCGTATTTCGG-AAAAGGGAAA
* * *
5371332 TTTTAA-GAAAAAAATCAAAAACT-CATGAGAATGAAT
130 TTTCAACGAAAAAAATCAAAAA-TGAATGAAAATGAAT
* * * * *
5371368 TAATTTTTGAAAACTGATTTAATACGAAATAAATAATAATGTTTGATGAATTTTAAAAATTAAAA
1 GAATTTTTGAAAACTGAATTAATATGAAATAAATAATAATGTTTGATGAATTTAAAAAATTGAAA
* * *
5371433 ATTAAGAAAAATCCTCTCGAAAAAAATTAC
66 ATCAGGAAAAATCCCCTCGAAAAAAATTAC
5371463 GGAGAAGAAA
Statistics
Matches: 223, Mismatches: 35, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
165 120 0.54
166 58 0.26
167 45 0.20
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (166 bp):
GAATTTTTGAAAACTGAATTAATATGAAATAAATAATAATGTTTGATGAATTTAAAAAATTGAAA
ATCAGGAAAAATCCCCTCGAAAAAAATTACACAGTAAAAAACACCGTATTTCGGAAAAGGGAAAT
TTCAACGAAAAAAATCAAAAATGAATGAAAATGAAT
Found at i:5374197 original size:30 final size:30
Alignment explanation
Indices: 5374158--5374852 Score: 360
Period size: 30 Copynumber: 23.5 Consensus size: 30
5374148 AGTAAAGTAA
* *
5374158 CCTTCTTAAAGTCCATGACTTAGTGGCATC
1 CCTTTTTAAAGTCCACGACTTAGTGGCATC
* ** *
5374188 TCTTTTTAAAGTCCATAACTCAGTGGCA--
1 CCTTTTTAAAGTCCACGACTTAGTGGCATC
* * * *
5374216 CCTTTCTCAAAGTCCATGACTCAATGGCAT-
1 CCTTT-TTAAAGTCCACGACTTAGTGGCATC
*
5374246 CCTTTCTTAAAGTCCACGACTTAATGGCATC
1 CCTTT-TTAAAGTCCACGACTTAGTGGCATC
* * *
5374277 CCTTCTCAAAGTCCATGACTTAGTGGCATC
1 CCTTTTTAAAGTCCACGACTTAGTGGCATC
* * **
5374307 CCTTCTTAAAGTCCACCACTCCGTGGCATC
1 CCTTTTTAAAGTCCACGACTTAGTGGCATC
* * * * *
5374337 CCTTCTCAAAGTTCATGACTCAGTGGCATC
1 CCTTTTTAAAGTCCACGACTTAGTGGCATC
* * * * *
5374367 CGTTCTCAAAGCCCATGACTTA-TGGCA-C
1 CCTTTTTAAAGTCCACGACTTAGTGGCATC
*
5374395 CCTTCTTTAAAGTCCAC-ATCTTCGTGGCA--
1 CCTT-TTTAAAGTCCACGA-CTTAGTGGCATC
* *
5374424 CCTTTTTAAAGTCCACAACTTCA-TGGCATT
1 CCTTTTTAAAGTCCACGACTT-AGTGGCATC
** * ** *
5374454 ATTTTTTAAAGTCCACAACTCCGTAGCA--
1 CCTTTTTAAAGTCCACGACTTAGTGGCATC
* * *
5374482 CCTTTCTCAAAGTCCATGACTTAATGGCAT-
1 CCTTT-TTAAAGTCCACGACTTAGTGGCATC
*
5374512 CCTTTCTCAAAAGTCCACGACTTAGTGGCAT-
1 CCTTT-T-TAAAGTCCACGACTTAGTGGCATC
* * * *
5374543 CCTTTCTCAAAGTCTACGACTCAGTGGCCTC
1 CCTTT-TTAAAGTCCACGACTTAGTGGCATC
* * * *
5374574 CCTTCTTAAAGTCCACAACTCAATGGCATC
1 CCTTTTTAAAGTCCACGACTTAGTGGCATC
* * * *
5374604 CCTTCTCAAAGTCGACGACTCT-GTAGCATC
1 CCTTTTTAAAGTCCACGACT-TAGTGGCATC
* * * * *
5374634 CCTTCTCAAAGTCGACGACTCAATGGCATC
1 CCTTTTTAAAGTCCACGACTTAGTGGCATC
* ** * *
5374664 CCTTCTTAAAACCCACGACTAAATGGCA-C
1 CCTTTTTAAAGTCCACGACTTAGTGGCATC
* * * *
5374693 CCTTCTTCAAAGTCCATGTCTTCGTGGCA--
1 CCTT-TTTAAAGTCCACGACTTAGTGGCATC
* ** *
5374722 CTTTTTTAAAGTCCATAACTTCGTGGCA-C
1 CCTTTTTAAAGTCCACGACTTAGTGGCATC
*
5374751 CCTTTTTAAAGTCCAC-AATCT-GTGGC-TC
1 CCTTTTTAAAGTCCACGACT-TAGTGGCATC
* * * *
5374779 TTCTTTTCAAACTCCACCACTCT-GTGGCA-C
1 -CCTTTTTAAAGTCCACGACT-TAGTGGCATC
* ** **
5374809 CTTTTTTAAAGTCCATAACTCCGTGGCA-C
1 CCTTTTTAAAGTCCACGACTTAGTGGCATC
5374838 CC-TTTTAAAGTCCAC
1 CCTTTTTAAAGTCCAC
5374853 AACTCCATGG
Statistics
Matches: 534, Mismatches: 106, Indels: 52
0.77 0.15 0.08
Matches are distributed among these distances:
28 73 0.14
29 115 0.22
30 311 0.58
31 35 0.07
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (30 bp):
CCTTTTTAAAGTCCACGACTTAGTGGCATC
Found at i:5374304 original size:60 final size:60
Alignment explanation
Indices: 5374158--5374736 Score: 448
Period size: 60 Copynumber: 9.8 Consensus size: 60
5374148 AGTAAAGTAA
* * ** * *
5374158 CCTTCTTAAAGTCCATGACTTAGTGGCATCTCTTT-TTAAAGTCCATAACTCAGTGGCA-C
1 CCTTCTCAAAGTCCATGACTCAGTGGCATC-CTTTCTTAAAGTCCACGACTTAATGGCATC
* *
5374217 CTTTCTCAAAGTCCATGACTCAATGGCATCCTTTCTTAAAGTCCACGACTTAATGGCATC
1 CCTTCTCAAAGTCCATGACTCAGTGGCATCCTTTCTTAAAGTCCACGACTTAATGGCATC
* * * ***
5374277 CCTTCTCAAAGTCCATGACTTAGTGGCATCCCTTCTTAAAGTCCACCACTCCGTGGCATC
1 CCTTCTCAAAGTCCATGACTCAGTGGCATCCTTTCTTAAAGTCCACGACTTAATGGCATC
* * * * *
5374337 CCTTCTCAAAGTTCATGACTCAGTGGCATCCGTTCTCAAAGCCCATGACTT-ATGGCA-C
1 CCTTCTCAAAGTCCATGACTCAGTGGCATCCTTTCTTAAAGTCCACGACTTAATGGCATC
* * * * *
5374395 CCTTCTTTAAAGTCCA-CATCTTC-GTGGCA-CCTTT-TTAAAGTCCACAACTTCATGGCATT
1 CCTTC-TCAAAGTCCATGA-C-TCAGTGGCATCCTTTCTTAAAGTCCACGACTTAATGGCATC
** * * ** * * * *
5374454 ATTTTTTAAAGTCCACAACTCCGTAGCA-CCTTTCTCAAAGTCCATGACTTAATGGCATC
1 CCTTCTCAAAGTCCATGACTCAGTGGCATCCTTTCTTAAAGTCCACGACTTAATGGCATC
* * * * * * * *
5374513 CTTTCTCAAAAGTCCACGACTTAGTGGCATCCTTTCTCAAAGTCTACGACTCAGTGGCCTC
1 CCTTCTC-AAAGTCCATGACTCAGTGGCATCCTTTCTTAAAGTCCACGACTTAATGGCATC
* ** * * * * * *
5374574 CCTTCTTAAAGTCCACAACTCAATGGCATCCCTTCTCAAAGTCGACGACTCT-GTAGCATC
1 CCTTCTCAAAGTCCATGACTCAGTGGCATCCTTTCTTAAAGTCCACGACT-TAATGGCATC
* * * * ** *
5374634 CCTTCTCAAAGTCGACGACTCAATGGCATCCCTTCTTAAAACCCACGACTAAATGGCA-C
1 CCTTCTCAAAGTCCATGACTCAGTGGCATCCTTTCTTAAAGTCCACGACTTAATGGCATC
* *
5374693 CCTTCTTCAAAGTCCATGTCTTC-GTGGCA--CTTTTTTAAAGTCCA
1 CCTTC-TCAAAGTCCATGAC-TCAGTGGCATCCTTTCTTAAAGTCCA
5374737 TAACTTCGTG
Statistics
Matches: 420, Mismatches: 84, Indels: 33
0.78 0.16 0.06
Matches are distributed among these distances:
57 14 0.03
58 53 0.13
59 98 0.23
60 222 0.53
61 33 0.08
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.30
Consensus pattern (60 bp):
CCTTCTCAAAGTCCATGACTCAGTGGCATCCTTTCTTAAAGTCCACGACTTAATGGCATC
Found at i:5374364 original size:90 final size:89
Alignment explanation
Indices: 5374158--5374864 Score: 499
Period size: 90 Copynumber: 8.0 Consensus size: 89
5374148 AGTAAAGTAA
* * * * * * * *
5374158 CCTTCTTAAAGTCCATGACTTAGTGGCATCTCTTTTTAAAGTCCATAACTCAGTGGCACCTTTCT
1 CCTTCTCAAAGTCCACGACTCAGTGGCATCCCTTCTCAAAGTCCATGACTCAGTGGCACCCTTCT
* *
5374223 CAAAGTCCATGACTCAATGGCATC
66 TAAAGTCCACGACTCAATGGCATC
* * * * *
5374247 CTTTCTTAAAGTCCACGACTTAATGGCATCCCTTCTCAAAGTCCATGACTTAGTGGCATCCCTTC
1 CCTTCTCAAAGTCCACGACTCAGTGGCATCCCTTCTCAAAGTCCATGACTCAGTGGCA-CCCTTC
* **
5374312 TTAAAGTCCACCACTCCGTGGCATC
65 TTAAAGTCCACGACTCAATGGCATC
* * * * *
5374337 CCTTCTCAAAGTTCATGACTCAGTGGCATCCGTTCTCAAAGCCCATGACTTA-TGGCACCCTTCT
1 CCTTCTCAAAGTCCACGACTCAGTGGCATCCCTTCTCAAAGTCCATGACTCAGTGGCACCCTTC-
*
5374401 TTAAAGTCCAC-ATCTTC-GTGGCA--
65 TTAAAGTCCACGA-C-TCAATGGCATC
* * * *** * * ** * * *
5374424 CCTTTTTAAAGTCCACAACTTCA-TGGCATTATTTTTTAAAGTCCACAACTCCGTAGCACCTTTC
1 CCTTCTCAAAGTCCACGAC-TCAGTGGCATCCCTTCTCAAAGTCCATGACTCAGTGGCACCCTTC
* * *
5374488 TCAAAGTCCATGACTTAATGGCATC
65 TTAAAGTCCACGACTCAATGGCATC
* * * * * *
5374513 CTTTCTCAAAAGTCCACGACTTAGTGGCATCCTTTCTCAAAGTCTACGACTCAGTGGCCTCCCTT
1 CCTTCTC-AAAGTCCACGACTCAGTGGCATCCCTTCTCAAAGTCCATGACTCAGTGG-CACCCTT
*
5374578 CTTAAAGTCCACAACTCAATGGCATC
64 CTTAAAGTCCACGACTCAATGGCATC
* * * * * *
5374604 CCTTCTCAAAGTCGACGACTCTGTAGCATCCCTTCTCAAAGTCGACGACTCAATGGCATCCCTTC
1 CCTTCTCAAAGTCCACGACTCAGTGGCATCCCTTCTCAAAGTCCATGACTCAGTGGCA-CCCTTC
** *
5374669 TTAAAACCCACGACTAAATGGCA-C
65 TTAAAGTCCACGACTCAATGGCATC
* * * * * *
5374693 CCTTCTTCAAAGTCCATGTCTTC-GTGGCA--CTTTTTTAAAGTCCATAACTTC-GTGGCACCCT
1 CCTTC-TCAAAGTCCACGAC-TCAGTGGCATCCCTTCTCAAAGTCCATGAC-TCAGTGGCACCCT
* * **
5374754 TTTTAAAGTCCAC-AATCTGTGGC-TC
63 TCTTAAAGTCCACGACTCAATGGCATC
* * * * * * * * * *
5374779 TTCTTTTCAAACTCCACCACTCTGTGGCA-CCTTTTTTAAAGTCCATAACTCCGTGGCACCCTT-
1 -CCTTCTCAAAGTCCACGACTCAGTGGCATCCCTTCTCAAAGTCCATGACTCAGTGGCACCCTTC
* *
5374842 TTAAAGTCCACAACTCCATGGCA
65 TTAAAGTCCACGACTCAATGGCA
5374865 CCTTTTTTCA
Statistics
Matches: 492, Mismatches: 102, Indels: 49
0.77 0.16 0.08
Matches are distributed among these distances:
85 2 0.00
86 37 0.08
87 102 0.21
88 38 0.08
89 88 0.18
90 190 0.39
91 35 0.07
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (89 bp):
CCTTCTCAAAGTCCACGACTCAGTGGCATCCCTTCTCAAAGTCCATGACTCAGTGGCACCCTTCT
TAAAGTCCACGACTCAATGGCATC
Found at i:5374462 original size:58 final size:59
Alignment explanation
Indices: 5374400--5374556 Score: 154
Period size: 58 Copynumber: 2.6 Consensus size: 59
5374390 GGCACCCTTC
* * * * *
5374400 TTTAAAGTCCACATCTTCGTGGCACCTTT-TTAAAGTCCACAACTTCATGGCATTATTT
1 TTTAAAGTCCACAACTCCGTAGCACCTTTCTCAAAGTCCACAACTTAATGGCATTATTT
** **
5374458 TTTAAAGTCCACAACTCCGTAGCACCTTTCTCAAAGTCCATGACTTAATGGCATCCTTT
1 TTTAAAGTCCACAACTCCGTAGCACCTTTCTCAAAGTCCACAACTTAATGGCATTATTT
** * ** *
5374517 CTCAAAAGTCCACGACTTAGTGGCATCCTTTCTCAAAGTC
1 -TTTAAAGTCCACAACTCCGTAGCA-CCTTTCTCAAAGTC
5374557 TACGACTCAG
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
58 26 0.32
59 23 0.28
60 18 0.22
61 14 0.17
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (59 bp):
TTTAAAGTCCACAACTCCGTAGCACCTTTCTCAAAGTCCACAACTTAATGGCATTATTT
Found at i:5374750 original size:58 final size:58
Alignment explanation
Indices: 5374687--5374878 Score: 178
Period size: 58 Copynumber: 3.3 Consensus size: 58
5374677 CACGACTAAA
* * *
5374687 TGGCACCCTTCTTCAAAGTCCATGTCTTCGTGGCACTTTTTTAAAGTCCATAACTTCG
1 TGGCACCCTTTTTCAAAGTCCATATCTTCGTGGCACTTTTTTAAAGTCCACAACTTCG
* * * *
5374745 TGGCACCCTTTTT-AAAGTCCACAATC-T-GTGGCTCTTCTTTTCAAACTCCACCAC-TCTG
1 TGGCACCCTTTTTCAAAGTCCA-TATCTTCGTGGCACTT-TTTT-AAAGTCCACAACTTC-G
* * * ** * *
5374803 TGGCA-CCTTTTTTAAAGTCCATAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCA
1 TGGCACCCTTTTTCAAAGTCCATATCTTCGTGGCACTTTTTTAAAGTCCACAACTTCG
*
5374860 TGGCACCTTTTTTCAAAGT
1 TGGCACCCTTTTTCAAAGT
5374879 GCACATAAGT
Statistics
Matches: 106, Mismatches: 19, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
56 8 0.08
57 39 0.37
58 53 0.50
59 6 0.06
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.34
Consensus pattern (58 bp):
TGGCACCCTTTTTCAAAGTCCATATCTTCGTGGCACTTTTTTAAAGTCCACAACTTCG
Found at i:5375004 original size:52 final size:51
Alignment explanation
Indices: 5374937--5375773 Score: 403
Period size: 52 Copynumber: 16.2 Consensus size: 51
5374927 CATCTCCTTC
* * * *
5374937 TAAGCCCAATATCGCTG-ACTCTGAATCAGCACATTGGCACTCTAGTCATATT
1 TAAGTCCAATATCGCTGCCCT-TGAATCAGCATATTGGCACTCTA-TCATCTT
* * * *
5374989 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACT-TTTTATCTT
1 TAAGTCCAATATCGCTGCCCTTGAATCAGCATATTGGCACTCTATCATCTT
* * * * * *
5375039 TAAGTCCAATGTCGCTAG-CCTTGAAACAACACATTAGCATTCTTATCA-CTT
1 TAAGTCCAATATCGCT-GCCCTTGAATCAGCATATTGGCACTC-TATCATCTT
* * * * *
5375090 TAAGTCCAATATC-CTTGGCCTTGAATCAGCATATTAGTACT-TTTTATCTT
1 TAAGTCCAATATCGC-TGCCCTTGAATCAGCATATTGGCACTCTATCATCTT
* * * * * *
5375140 TAAGTCCAATATCGCTGGCCTTGAATTAGCATATTAGTACT-TTTTATCTT
1 TAAGTCCAATATCGCTGCCCTTGAATCAGCATATTGGCACTCTATCATCTT
* * * * *
5375190 TAAGTCCAATGTCGCTAG-CCTTGAATCAACATATTGGTACTTTTTATTATCTT
1 TAAGTCCAATATCGCT-GCCCTTGAATCAGCATATTGGCAC--TCTATCATCTT
* * * * ** *
5375243 TAAGTCCAATGTCACTGGCCTTGAATCAACGCATTGGCACTCTTGTCATCTT
1 TAAGTCCAATATCGCTGCCCTTGAATCAGCATATTGGCACTC-TATCATCTT
* * ** * * *
5375295 TAACTCCAATATTGCTAACCTTGAATCAGCATATTGGCATTTTTTATTATCTT
1 TAAGTCCAATATCGCTGCCCTTGAATCAGCATATTGGCA--CTCTATCATCTT
* * ** * * * *
5375348 TAAATCCAATGTCATTAG-CCTTGAATTAGTACATTAGCACTCTTATCATCTT
1 TAAGTCCAATATCGCT-GCCCTTGAATCAGCATATTGGCACTC-TATCATCTT
* * *
5375400 TAAGTCCAATATCGCTAG-CCTTGAATTAGCATATTGGCACCTTTTGTCATCTT
1 TAAGTCCAATATCGCT-GCCCTTGAATCAGCATATTGGCA-C-TCTATCATCTT
* * * * *
5375453 TAAGTCCAATGTTGCTAG-CCTTAAAGT-AGCACT-TTGGCACTCTTCTCACCTT
1 TAAGTCCAATATCGCT-GCCCTTGAA-TCAGCA-TATTGGCACTC-TATCATCTT
*** * * * *
5375505 TAAGTTTGATATCACTGGCCTTGAATTAGCATATTGGCACCTTTTATCATCTT
1 TAAGTCCAATATCGCTGCCCTTGAATCAGCATATTGGCA-C-TCTATCATCTT
* * ** * * * * *
5375558 TAAGTGCAATGTCATTGGCCTTGAATCAACACAATGGCACCTTTATCATCTT
1 TAAGTCCAATATCGCTGCCCTTGAATCAGCATATTGGCA-CTCTATCATCTT
* * * * * * * *
5375610 TAAATCCAATGTTC-TTG-GCTCTGAATCAGTACAATGGCACCTTTATCATCTT
1 TAAGTCCAAT-ATCGCTGCCCT-TGAATCAGCATATTGGCA-CTCTATCATCTT
* * ** * * * * *
5375662 TAAATCCAATGTCATTGGCCTAGAATCAGCACATTGGCACCTTTATCATTTT
1 TAAGTCCAATATCGCTGCCCTTGAATCAGCATATTGGCA-CTCTATCATCTT
* * * * *
5375714 TAAATCTAATGTCACTAG-CCTTGAATCAGCATATTAGTGCTCT-TATCATCTT
1 TAAGTCCAATATCGCT-GCCCTTGAATCAGCATATT-G-GCACTCTATCATCTT
5375766 TAAGTCCA
1 TAAGTCCA
5375774 GTGCCACAAG
Statistics
Matches: 633, Mismatches: 117, Indels: 70
0.77 0.14 0.09
Matches are distributed among these distances:
49 3 0.00
50 123 0.19
51 48 0.08
52 284 0.45
53 168 0.27
54 7 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (51 bp):
TAAGTCCAATATCGCTGCCCTTGAATCAGCATATTGGCACTCTATCATCTT
Found at i:5375132 original size:42 final size:43
Alignment explanation
Indices: 5375086--5375232 Score: 100
Period size: 50 Copynumber: 3.1 Consensus size: 43
5375076 CATTCTTATC
5375086 ACTTTAAGTCCAATATC-CTTGGCCTTGAATCAGCATATTAGTACTTTTT
1 ACTTTAAGTCCAATATCGC-TGGCCTTGAATCAGCATATTAG------TT
*
5375135 ATCTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTAGTACTTTTT
1 A-CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAG------TT
* * * *
5375185 ATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAACATATT-GGT
1 A-CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGTT
5375228 ACTTT
1 ACTTT
5375233 TTATTATCTT
Statistics
Matches: 90, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
42 4 0.04
43 2 0.02
49 2 0.02
50 81 0.90
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.40
Consensus pattern (43 bp):
ACTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGTT
Found at i:5375328 original size:105 final size:104
Alignment explanation
Indices: 5374958--5375805 Score: 768
Period size: 105 Copynumber: 8.2 Consensus size: 104
5374948 TCGCTGACTC
* *
5374958 TGAATCAGCACATTGGCACTC-TAGTCATATTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
1 TGAATCAGCACATTGGCACTCTTA-TCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATA
* *
5375022 TTGGTACTTTT-T-ATCTTTAAGTCCAATGTCGCTAGCCT
65 TTGGCACTTTTATCATCTTTAAGTCCAATGTCACTAGCCT
* * * * *
5375060 TGAAACAACACATTAGCATTCTTATCA-CTTTAAGTCCAATATC-CTTGGCCTTGAATCAGCATA
1 TGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCCAATATCGC-TAGCCTTGAATCAGCATA
* * * * *
5375123 TTAGTACTTTT-T-ATCTTTAAGTCCAATATCGCTGGCCT
65 TTGGCACTTTTATCATCTTTAAGTCCAATGTCACTAGCCT
* * * * * * *
5375161 TGAATTAGCATATTAGTACT-TT-TTATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAACATAT
1 TGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATAT
* * *
5375224 TGGTACTTTTTATTATCTTTAAGTCCAATGTCACTGGCCT
66 TGGCAC-TTTTATCATCTTTAAGTCCAATGTCACTAGCCT
* * * * * *
5375264 TGAATCAACGCATTGGCACTCTTGTCATCTTTAACTCCAATATTGCTAACCTTGAATCAGCATAT
1 TGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATAT
* * * *
5375329 TGGCATTTTTTATTATCTTTAAATCCAATGTCATTAGCCT
66 TGGCA-CTTTTATCATCTTTAAGTCCAATGTCACTAGCCT
* * * *
5375369 TGAATTAGTACATTAGCACTCTTATCATCTTTAAGTCCAATATCGCTAGCCTTGAATTAGCATAT
1 TGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATAT
* **
5375434 TGGCACCTTTTGTCATCTTTAAGTCCAATGTTGCTAGCCT
66 TGGCA-CTTTTATCATCTTTAAGTCCAATGTCACTAGCCT
* * * * *** * * *
5375474 TAAAGT-AGCACTTTGGCACTCTTCTCACCTTTAAGTTTGATATCACTGGCCTTGAATTAGCATA
1 TGAA-TCAGCACATTGGCACTCTTATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATA
* * *
5375538 TTGGCACCTTTTATCATCTTTAAGTGCAATGTCATTGGCCT
65 TTGGCA-CTTTTATCATCTTTAAGTCCAATGTCACTAGCCT
* * * * * * * * *
5375579 TGAATCAACACAATGGCAC-CTTTATCATCTTTAAATCCAATGT-TCTTGGCTCTGAATCAGTAC
1 TGAATCAGCACATTGGCACTC-TTATCATCTTTAAGTCCAATATCGCTAGCCT-TGAATCAGCAT
* * * * *
5375642 AATGGCACCTTTATCATCTTTAAATCCAATGTCATTGGCCT
64 ATTGGCACTTTTATCATCTTTAAGTCCAATGTCACTAGCCT
* * * * * *
5375683 AGAATCAGCACATTGGCAC-CTTTATCATTTTTAAATCTAATGTCACTAGCCTTGAATCAGCATA
1 TGAATCAGCACATTGGCACTC-TTATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATA
* ** * * * *
5375747 TTAGTGCTCTTATCATCTTTAAGTCCAGTGCCACAAGCCT
65 TTGGCACTTTTATCATCTTTAAGTCCAATGTCACTAGCCT
* *
5375787 TGAATCTGTACATTGGCAC
1 TGAATCAGCACATTGGCAC
5375806 ATTTGTCAAA
Statistics
Matches: 612, Mismatches: 119, Indels: 28
0.81 0.16 0.04
Matches are distributed among these distances:
99 2 0.00
100 40 0.07
101 87 0.14
102 21 0.03
103 40 0.07
104 132 0.22
105 289 0.47
106 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (104 bp):
TGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATAT
TGGCACTTTTATCATCTTTAAGTCCAATGTCACTAGCCT
Found at i:5376573 original size:20 final size:20
Alignment explanation
Indices: 5376548--5376585 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
5376538 TTTTAGCCCA
5376548 ATTGTATCGATACATTCTTT
1 ATTGTATCGATACATTCTTT
5376568 ATTGTATCGATACATTCT
1 ATTGTATCGATACATTCT
5376586 GGGTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (20 bp):
ATTGTATCGATACATTCTTT
Found at i:5378908 original size:98 final size:97
Alignment explanation
Indices: 5378746--5378929 Score: 255
Period size: 98 Copynumber: 1.9 Consensus size: 97
5378736 TGTCATGATC
* * * * *
5378746 TAAATCTTATTTTAGCTTAAATTGTCATCATCAGGATACTTCAACCTCATTCTTTCAAGGGGATA
1 TAAATCTTATTTTAGCTCAAATTATCATCATCAGGATACTCCAACCCCATTCTCTCAAGGGGATA
5378811 CTCCAACCCCACTTTT-AACCTTCTCAAGATT
66 CTCCAACCCCACTTTTCAACCTTCTCAAGATT
* *
5378842 TAAATCTTATTCTTGGCTCAAATTATCATCATCAAGGATACTCCAACCCCATTCCTCTGAA-GGG
1 TAAATCTTATT-TTAGCTCAAATTATCATCATC-AGGATACTCCAACCCCATT-CTCTCAAGGGG
*
5378906 ATACTCCAACCCCATTTTTCAACC
63 ATACTCCAACCCCACTTTTCAACC
5378930 AAAAATTAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
96 11 0.14
97 18 0.24
98 38 0.50
99 9 0.12
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (97 bp):
TAAATCTTATTTTAGCTCAAATTATCATCATCAGGATACTCCAACCCCATTCTCTCAAGGGGATA
CTCCAACCCCACTTTTCAACCTTCTCAAGATT
Found at i:5382895 original size:13 final size:13
Alignment explanation
Indices: 5382877--5382901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5382867 CAAAGATCAG
5382877 TGTATCGATACAA
1 TGTATCGATACAA
5382890 TGTATCGATACA
1 TGTATCGATACA
5382902 TTCGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5382981 original size:13 final size:13
Alignment explanation
Indices: 5382963--5382987 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5382953 ACAAAAAATA
5382963 TGTATCGATACAT
1 TGTATCGATACAT
5382976 TGTATCGATACA
1 TGTATCGATACA
5382988 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5382983 original size:32 final size:33
Alignment explanation
Indices: 5382942--5383007 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
5382932 AGTAGCTTAA
5382942 ATTGTATCGATACAA-AAAATATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
***
5382974 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
5383007 A
1 A
5383008 AATCATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAACAAAATATGTATCGATAC
Found at i:5390204 original size:34 final size:35
Alignment explanation
Indices: 5390164--5390255 Score: 98
Period size: 34 Copynumber: 2.7 Consensus size: 35
5390154 GTCTTTGCTG
* * *
5390164 AAATATCCTCAAGAAAGGCTTTAAA-TTTTGGTTT
1 AAATATCCTCAAGAAAGGCTTTAAACTTTTAGATA
* * *
5390198 AAATATCCTCGAGAGATGCTTTAAAACTTTTAGATA
1 AAATATCCTCAAGAAAGGCTTT-AAACTTTTAGATA
*
5390234 AAATATCCTTAA-AAAGGCTTTA
1 AAATATCCTCAAGAAAGGCTTTA
5390256 GAAGTCTTTA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
34 20 0.43
35 10 0.22
36 16 0.35
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (35 bp):
AAATATCCTCAAGAAAGGCTTTAAACTTTTAGATA
Done.