Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 251 of 284
Found at i:84355671 original size:40 final size:40
Alignment explanation
Indices: 84355546--84355672 Score: 168
Period size: 40 Copynumber: 3.2 Consensus size: 40
84355536 TTGAATGATG
* *
84355546 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * *
84355586 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
84355626 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
84355666 TCCGGGC
1 TCCGGGC
84355673 ACGAAAATGA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
40 62 0.82
41 7 0.09
42 7 0.09
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:84357603 original size:285 final size:282
Alignment explanation
Indices: 84357076--84357642 Score: 1062
Period size: 285 Copynumber: 2.0 Consensus size: 282
84357066 TTTAAGCTTC
* *
84357076 GATTTAGTAAATTTCATGTGAATTTAGTCAATAGGACTTATGTGTGACATTTTTGAAATGTGATA
1 GATTTAGTAAATTGCATATGAATTTAGTCAATAGGACTTATGTGTGACATTTTTGAAATGTGATA
*
84357141 GATCAAAACATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGACTTGCATGTCAATTTTCCCCC
66 GATCAAAACATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGACTTGCATGTCAATTTCCCCCC
84357206 CCATCTAGTAGTGGCCAGCCATGACATTAGGATGGACAAAGGGTGATGGGCAAAACATGTCATAG
131 CCATCTAGTAGTGGCCAGCCATGACATTAGGATGGACAAAGGGTGATGGGCAAAACATGTCATAG
84357271 ACATGTTGTGTTGGTGCATCATGGGAGGAAACAATAAAATAAAGAGCATGGGCAATAAAATATTA
196 ACATGTTGTGTTGGTGCATCATGGGAGGAAACAATAAAATAAAGAGCATGGGCAATAAAATATTA
84357336 GTGTTAGTAGGATGAGAAACAA
261 GTGTTAGTAGGATGAGAAACAA
*
84357358 GATTTAGTAAATTGCATATGAATTTAGTCAATAGGACTTTTGTGTGACATTTTTGAAATGTGATA
1 GATTTAGTAAATTGCATATGAATTTAGTCAATAGGACTTATGTGTGACATTTTTGAAATGTGATA
84357423 GATCAAAACATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAATTTCCCCC
66 GATCAAAACATAAGGACCTATTAGTGCATGTTGAAAAA-GGGGGACTTGCATGTCAATTT-CCCC
*
84357488 CCTCCATCTAGTAGTGGCCGGCCATGACATTAGGATGGACAAAGGGTGATGGGCAAAACATGTCA
129 CC-CCATCTAGTAGTGGCCAGCCATGACATTAGGATGGACAAAGGGTGATGGGCAAAACATGTCA
84357553 TAGACATGTTGTGTTGGTGCATCATGGGAGGAAACAATAAAATAAAGAGCATGGGCAATAAAATA
193 TAGACATGTTGTGTTGGTGCATCATGGGAGGAAACAATAAAATAAAGAGCATGGGCAATAAAATA
84357618 TTAGTGTTAGTAGGATGAGAAACAA
258 TTAGTGTTAGTAGGATGAGAAACAA
84357643 AAAAAAAAGA
Statistics
Matches: 277, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
282 100 0.36
283 21 0.08
284 5 0.02
285 151 0.55
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (282 bp):
GATTTAGTAAATTGCATATGAATTTAGTCAATAGGACTTATGTGTGACATTTTTGAAATGTGATA
GATCAAAACATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGACTTGCATGTCAATTTCCCCCC
CCATCTAGTAGTGGCCAGCCATGACATTAGGATGGACAAAGGGTGATGGGCAAAACATGTCATAG
ACATGTTGTGTTGGTGCATCATGGGAGGAAACAATAAAATAAAGAGCATGGGCAATAAAATATTA
GTGTTAGTAGGATGAGAAACAA
Found at i:84359377 original size:179 final size:179
Alignment explanation
Indices: 84359188--84359545 Score: 698
Period size: 179 Copynumber: 2.0 Consensus size: 179
84359178 TAATCCTCTG
84359188 TTCTGTTTTTAGAAAATCATTATAAATTGTACAAAAATTGTTATAAGATAAAATTTATATGCTTA
1 TTCTGTTTTTAGAAAATCATTATAAATTGTACAAAAATTGTTATAAGATAAAATTTATATGCTTA
*
84359253 GACTCCTTAATGAGTCTAGTTTCAAATGAAATCAAATACAACACATTTTGAATTCTGTAAAATGA
66 GACTCCTTAATGAGTCTAATTTCAAATGAAATCAAATACAACACATTTTGAATTCTGTAAAATGA
84359318 GAAATTAGATTCGTAGTGAAGAGTGGTCAGATTAGTCAAACAGTGAAAC
131 GAAATTAGATTCGTAGTGAAGAGTGGTCAGATTAGTCAAACAGTGAAAC
84359367 TTCTGTTTTTAGAAAATCATTATAAATTGTACAAAAATTGTTATAAGATAAAATTTATATGCTTA
1 TTCTGTTTTTAGAAAATCATTATAAATTGTACAAAAATTGTTATAAGATAAAATTTATATGCTTA
84359432 GACTCCTTAATGAGTCTAATTTCAAATGAAATCAAATACAACACATTTTGAATTCTGTAAAATGA
66 GACTCCTTAATGAGTCTAATTTCAAATGAAATCAAATACAACACATTTTGAATTCTGTAAAATGA
*
84359497 GAAATTTGATTCGTAGTGAAGAGTGGTCAGATTAGTCAAACAGTGAAAC
131 GAAATTAGATTCGTAGTGAAGAGTGGTCAGATTAGTCAAACAGTGAAAC
84359546 AGGGGAAACT
Statistics
Matches: 177, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
179 177 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (179 bp):
TTCTGTTTTTAGAAAATCATTATAAATTGTACAAAAATTGTTATAAGATAAAATTTATATGCTTA
GACTCCTTAATGAGTCTAATTTCAAATGAAATCAAATACAACACATTTTGAATTCTGTAAAATGA
GAAATTAGATTCGTAGTGAAGAGTGGTCAGATTAGTCAAACAGTGAAAC
Found at i:84363326 original size:26 final size:26
Alignment explanation
Indices: 84363288--84363339 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
84363278 CGGAAGATAC
* *
84363288 TCTTTGCCGTTTCTCATTTTTGGATG
1 TCTTTCCCATTTCTCATTTTTGGATG
84363314 TCTTTCCCATTTCTCATTTTTGGATG
1 TCTTTCCCATTTCTCATTTTTGGATG
84363340 AAGATAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.10, C:0.21, G:0.15, T:0.54
Consensus pattern (26 bp):
TCTTTCCCATTTCTCATTTTTGGATG
Found at i:84368242 original size:15 final size:15
Alignment explanation
Indices: 84368192--84368245 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
84368182 AAACCCTAAG
*
84368192 CCTT-AAACCACAAA
1 CCTTAAAACCTCAAA
84368206 CCTT-AAACCTCAAGA
1 CCTTAAAACCTCAA-A
*
84368221 CCATAAAATCCT-AAA
1 CCTTAAAA-CCTCAAA
84368236 CCTTAAAACC
1 CCTTAAAACC
84368246 ATACACCCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 14 0.41
15 12 0.35
16 5 0.15
17 3 0.09
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (15 bp):
CCTTAAAACCTCAAA
Found at i:84368264 original size:29 final size:29
Alignment explanation
Indices: 84368225--84368293 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
84368215 TCAAGACCAT
* *
84368225 AAAATCCTAAAC-CTTAAAACCATACACCC
1 AAAACCCTAAACTCTT-AAACCATAAACCC
*
84368254 AAAAGCCTAAACTCTTAAACCATAAACCC
1 AAAACCCTAAACTCTTAAACCATAAACCC
*
84368283 TAAACCCTAAA
1 AAAACCCTAAA
84368294 TATAGAAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 32 0.91
30 3 0.09
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.17
Consensus pattern (29 bp):
AAAACCCTAAACTCTTAAACCATAAACCC
Found at i:84368458 original size:7 final size:7
Alignment explanation
Indices: 84368448--84368491 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
84368438 GGCCAACTCT
*
84368448 TAAACCT
1 TAAACCC
*
84368455 TAAATCC
1 TAAACCC
84368462 TAAACCC
1 TAAACCC
84368469 TAAACCC
1 TAAACCC
84368476 TAAACACCC
1 T-AA-ACCC
84368485 TAAACCC
1 TAAACCC
84368492 ATTAGGCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
7 23 0.72
8 4 0.12
9 5 0.16
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:84368834 original size:130 final size:133
Alignment explanation
Indices: 84368493--84369191 Score: 369
Period size: 132 Copynumber: 5.2 Consensus size: 133
84368483 CCTAAACCCA
* * * * * * *
84368493 TTAGGCATGCATATACCAACCCTTATACAAAGATTTGGCCAAAGCGTATGTTGGCTAGTCTATCC
1 TTAGGCATACATATTCCAACCCTTATACAAAGAGTTGGCTAAAGCATAAGTTGGCAAGTCTATCC
* * ** * * * * * **
84368558 TAACACTTAAGAAAGTGTCGGCCCAAAAGTGTAGGCATAGTG-TTGGACAAAGCTGACTCTTATT
66 CAACACTT----AAGTG-C-ACAAAAAAGTATCGTCTTAG-GACTGGACAAAGCCAACTCTTATT
84368622 TAAGCGTTGC
124 TAAGCGTTGC
* * * * ** * *
84368632 ATTAAGCATGCATA-TCACAACCCTTATATAAAAAGTTAACCT-AAGCGTATGTTGGCAAGTCTA
1 -TTAGGCATACATATTC-CAACCCTTATACAAAGAGTT-GGCTAAAGCATAAGTTGGCAAGTCTA
*
84368695 TCCCAACACTT-AG-G-A-AAATATA-TATCGTCTTAGGACTGGACAAAGCCAACTCTTATTTAA
63 TCCCAACACTTAAGTGCACAAA-AAAGTATCGTCTTAGGACTGGACAAAGCCAACTCTTATTTAA
*
84368755 GTGTTGTC
127 GCGTTG-C
*
84368763 TTTGGCATACATATTCCAACCCTTATACAAAGAGTTGGCTAAAGCATAAGTTGGCCAA-TCTATC
1 TTAGGCATACATATTCCAACCCTTATACAAAGAGTTGGCTAAAGCATAAGTTGG-CAAGTCTATC
* ** *
84368827 CCAACACTTCGGAAAGTGTCACCAAAAAAGTGTCGTCTTAGGACTATACAAAAGCCAACTTTTAT
65 CCAACACTT----AAGTG-CA-CAAAAAAGTATCGTCTTAGGACTGGAC-AAAGCCAACTCTTAT
*
84368892 TCAAGCGTTGCC
123 TTAAGCGTTG-C
* * * *
84368904 TTAGTCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC---A--T----AGTCTATAC
1 TTAGGCATACATATTCCAACCCTTATACAAAGAGTTGGCTAAAGCATAAGTTGGCAAGTCTATCC
* * * *
84368960 CAACACTTAGTAAAATGTCGC-CACAAAAGTGTCGTCTTAGGACTATG-CAAAAGCCAACTTTTA
66 CAACAC-T--T--AA-GT-GCACAAAAAAGTATCGTCTTAGGACT-GGAC-AAAGCCAACTCTTA
* *
84369023 TTCAAGCATTGCC
122 TTTAAGCGTTG-C
* *
84369036 TTAGGCATACATATACCAACCCTTATACAAAGAGTTGGCCAAAGC---A--T----AGTCTATCC
1 TTAGGCATACATATTCCAACCCTTATACAAAGAGTTGGCTAAAGCATAAGTTGGCAAGTCTATCC
* * * *
84369092 CAACACTTAGGAAATGTTGC-CACAAAAGTGTCGTCTTAGGACTAGACAAAAACCAACTCTTATT
66 CAACACTT----AA-G-TGCACAAAAAAGTATCGTCTTAGGACTGGAC-AAAGCCAACTCTTATT
*
84369156 CAAGCGTTGC
124 TAAGCGTTGC
*
84369166 TTTAGGCATACATATCCCAACCCTTA
1 -TTAGGCATACATATTCCAACCCTTA
84369192 GGAAAGTGTT
Statistics
Matches: 469, Mismatches: 58, Indels: 73
0.78 0.10 0.12
Matches are distributed among these distances:
129 4 0.01
130 91 0.19
131 88 0.19
132 122 0.26
133 4 0.01
134 4 0.01
135 6 0.01
136 2 0.00
138 2 0.00
139 3 0.01
140 78 0.17
141 65 0.14
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (133 bp):
TTAGGCATACATATTCCAACCCTTATACAAAGAGTTGGCTAAAGCATAAGTTGGCAAGTCTATCC
CAACACTTAAGTGCACAAAAAAGTATCGTCTTAGGACTGGACAAAGCCAACTCTTATTTAAGCGT
TGC
Found at i:84369192 original size:91 final size:91
Alignment explanation
Indices: 84369087--84369282 Score: 322
Period size: 91 Copynumber: 2.2 Consensus size: 91
84369077 AAGCATAGTC
*
84369087 TATCCCAACACTTAGGAAA-TGTTGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAACCAACTC
1 TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCGTCTTAGGACTAGAC-AAAACCAACTC
84369151 TTATTCAAGCGTTGCTTTAGGCATACA
65 TTATTCAAGCGTTGCTTTAGGCATACA
* *
84369178 TATCCCAACCCTTAGGAAAGTGTTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCT
1 TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCGTCTTAGGACTAGACAAAACCAACTCT
* *
84369243 TATTTAAGCGTTGCTTTAGGCATGCA
66 TATTCAAGCGTTGCTTTAGGCATACA
*
84369269 TATACCAACCCTTA
1 TATCCCAACCCTTA
84369283 TACAAAGAGT
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
91 66 0.67
92 32 0.33
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (91 bp):
TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCGTCTTAGGACTAGACAAAACCAACTCT
TATTCAAGCGTTGCTTTAGGCATACA
Found at i:84369209 original size:131 final size:131
Alignment explanation
Indices: 84368821--84369191 Score: 591
Period size: 132 Copynumber: 2.8 Consensus size: 131
84368811 AGTTGGCCAA
* * * *
84368821 TCTATCCCAACACTTCGGAAAGTGTCACCAAAAAAGTGTCGTCTTAGGACTATACAAAAGCCAAC
1 TCTATCCCAACACTTAGGAAA-TGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAAC
*
84368886 TTTTATTCAAGCGTTGCCTTAGTCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCAT
65 TTTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCAT
84368951 AG
130 AG
* *
84368953 TCTATACCAACACTTAGTAAAATGTCGCCACAAAAGTGTCGTCTTAGGACTATG-CAAAAGCCAA
1 TCTATCCCAACACTTAG-GAAATGTCGCCACAAAAGTGTCGTCTTAGGACTA-GACAAAAGCCAA
* *
84369017 CTTTTATTCAAGCATTGCCTTAGGCATACATATACCAACCCTTATACAAAGAGTTGGCCAAAGCA
64 CTTTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCA
84369082 TAG
129 TAG
* *
84369085 TCTATCCCAACACTTAGGAAATGTTGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAACCAACT
1 TCTATCCCAACACTTAGGAAATGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACT
* *
84369150 CTTATTCAAGCGTTGCTTTAGGCATACATATCCCAACCCTTA
66 TTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTA
84369192 GGAAAGTGTT
Statistics
Matches: 219, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
130 1 0.00
131 81 0.37
132 134 0.61
133 3 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (131 bp):
TCTATCCCAACACTTAGGAAATGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACT
TTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATA
G
Found at i:84369418 original size:120 final size:119
Alignment explanation
Indices: 84369200--84369420 Score: 329
Period size: 120 Copynumber: 1.8 Consensus size: 119
84369190 TAGGAAAGTG
**
84369200 TTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCTTATTTAAGCGTTGCTTTAGGCA
1 TTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCTTATAAAAGCGTTGCTTTAGGCA
*
84369265 TGCATATACCAACCCTTATACAAAGAGTTGCTAAAGTCCAGTCTATACCAACAC
66 TGCATATACCAACACTTATACAAAGAGTTGCTAAAGTCCAGTCTATACCAACAC
**
84369319 TTGCCCCAAAAGTGTCGTCTTAGGACTAGACTTTCA-CCAACTCTTATAAAAGCGTTGCTTTAGG
1 TTGCCCCAAAAGTGTCGTCTTAGGACTAGAC--AAAGCCAACTCTTATAAAAGCGTTGCTTTAGG
* * *
84369383 CTTGCATATCCCAACACTTAT-GAAAGAGTTGGCTAAAG
64 CATGCATATACCAACACTTATACAAAGAGTT-GCTAAAG
84369421 CGTATTTTGG
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
119 39 0.43
120 51 0.56
121 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (119 bp):
TTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCTTATAAAAGCGTTGCTTTAGGCA
TGCATATACCAACACTTATACAAAGAGTTGCTAAAGTCCAGTCTATACCAACAC
Found at i:84371621 original size:145 final size:143
Alignment explanation
Indices: 84371429--84371695 Score: 381
Period size: 145 Copynumber: 1.9 Consensus size: 143
84371419 TTATGTTAGC
* ** * * *
84371429 ATCATTTGTTATTTTATGATTAAAAAATTAAAATTTACTATAAATTGTTAAATTTCAATTAAATA
1 ATCATTTGTTAATTTACAATTAAAAAATTAAAATTTACTATAAATTGTCAAATGTCAATTAAAGA
* * * *
84371494 TTAAGTTTTACTCAATTCTTTATTTCTTTCCGTACTCAAAATAATTATATTATATTAATTAACAC
66 TTAAGTTTTACCCAATTATTTATTTCTTTCCATACCCAAAATAATTATATTATATTAATTAACAC
84371559 TTTCTATAATTTG
131 TTTCTATAATTTG
* * *
84371572 ATCATTTTGTTAATTTACAATTAAAAATATTAAGATTTACTATAAATTGTCAAATGTGAATTGAA
1 ATCA-TTTGTTAATTTACAATTAAAAA-ATTAAAATTTACTATAAATTGTCAAATGTCAATTAAA
* *
84371637 GATTGATTTTTACCCAATTATTTATTTCTTTCCATACCCAAAATAATTATATTATATTA
64 GATTAAGTTTTACCCAATTATTTATTTCTTTCCATACCCAAAATAATTATATTATATTA
84371696 GTAACATTTT
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
143 4 0.04
144 19 0.18
145 84 0.79
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (143 bp):
ATCATTTGTTAATTTACAATTAAAAAATTAAAATTTACTATAAATTGTCAAATGTCAATTAAAGA
TTAAGTTTTACCCAATTATTTATTTCTTTCCATACCCAAAATAATTATATTATATTAATTAACAC
TTTCTATAATTTG
Found at i:84372070 original size:122 final size:123
Alignment explanation
Indices: 84371934--84372181 Score: 489
Period size: 123 Copynumber: 2.0 Consensus size: 123
84371924 GTTTTGGATG
84371934 AAAAATAAATATGGTAATTTGAATTTTTCATCTTTTTAACAAAAAGAATAAC-TTCTTTCAATTT
1 AAAAATAAATATGGTAATTTGAATTTTTCATCTTTTTAACAAAAAGAATAACTTTCTTTCAATTT
84371998 TATTATTATTATTATTTTATAATTAGAGGTGAGGATTGTAATTGTTTGGGATTAAACT
66 TATTATTATTATTATTTTATAATTAGAGGTGAGGATTGTAATTGTTTGGGATTAAACT
84372056 AAAAATAAATATGGTAATTTGAATTTTTCATCTTTTTAACAAAAAGAATAACTTTCTTTCAATTT
1 AAAAATAAATATGGTAATTTGAATTTTTCATCTTTTTAACAAAAAGAATAACTTTCTTTCAATTT
84372121 TATTATTATTATTATTTTATAATTAGAGGTGAGGATTGTAATTGTTTGGGATTAAACT
66 TATTATTATTATTATTTTATAATTAGAGGTGAGGATTGTAATTGTTTGGGATTAAACT
84372179 AAA
1 AAA
84372182 GTTCTTATTC
Statistics
Matches: 125, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
122 52 0.42
123 73 0.58
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.45
Consensus pattern (123 bp):
AAAAATAAATATGGTAATTTGAATTTTTCATCTTTTTAACAAAAAGAATAACTTTCTTTCAATTT
TATTATTATTATTATTTTATAATTAGAGGTGAGGATTGTAATTGTTTGGGATTAAACT
Found at i:84376061 original size:42 final size:43
Alignment explanation
Indices: 84376014--84376117 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 43
84376004 ATGCCACTGA
* *
84376014 CCCAGACAGGGTCTTACACG-AAA-TCAAATACGATGACGATGT
1 CCCAGACAGGGTCTTACACGTAAACTCAAAT-CGATGACAACGT
* *
84376056 CCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAACGT
1 CCCAGACAGGGTCTTACACGTAAA-CTCAAATCGATGACAACGT
84376100 CCCAGAC-GTGGTCTTACA
1 CCCAGACAG-GGTCTTACA
84376118 TGGAATCACT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
42 19 0.36
43 3 0.06
44 25 0.47
45 6 0.11
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (43 bp):
CCCAGACAGGGTCTTACACGTAAACTCAAATCGATGACAACGT
Found at i:84383670 original size:7 final size:7
Alignment explanation
Indices: 84383658--84383717 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
84383648 TAAACAAAAT
84383658 AATTGAA
1 AATTGAA
84383665 AATTGAA
1 AATTGAA
*
84383672 GATTGAA
1 AATTGAA
*
84383679 AATAGAA
1 AATTGAA
84383686 AATT-AGA
1 AATTGA-A
*
84383693 AATTGAG
1 AATTGAA
* *
84383700 TATTGAG
1 AATTGAA
*
84383707 AATTGAG
1 AATTGAA
84383714 AATT
1 AATT
84383718 TAGGAAGGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
6 1 0.02
7 42 0.95
8 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (7 bp):
AATTGAA
Found at i:84384451 original size:22 final size:21
Alignment explanation
Indices: 84384420--84384464 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
84384410 ATATTTAGTC
84384420 ATATAATTATTAATATAATAA
1 ATATAATTATTAATATAATAA
* *
84384441 ATATAATTTATTATTTTAATAA
1 ATATAA-TTATTAATATAATAA
84384463 AT
1 AT
84384465 TATTTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATAATTATTAATATAATAA
Found at i:84384475 original size:20 final size:22
Alignment explanation
Indices: 84384435--84384476 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
84384425 ATTATTAATA
*
84384435 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
84384457 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
84384477 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:84384500 original size:13 final size:14
Alignment explanation
Indices: 84384484--84384525 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
84384474 TTTCAATTTT
84384484 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
84384497 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
84384512 ATTTTAAATAATAT
1 ATTTT-AATAATAT
84384526 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:84384510 original size:16 final size:16
Alignment explanation
Indices: 84384488--84384524 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
84384478 AATTTTATTT
84384488 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
84384505 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
84384520 TAATA
1 TAATA
84384525 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:84384577 original size:15 final size:15
Alignment explanation
Indices: 84384543--84384613 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
84384533 ATATTATTGA
84384543 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
84384556 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
84384571 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
**
84384590 AAATACATTAATAAT
1 AAATATTTTAATAAT
84384605 AAATATTTT
1 AAATATTTT
84384614 GTAGTATAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
13 4 0.09
14 6 0.14
15 18 0.41
16 2 0.05
17 4 0.09
19 10 0.23
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:84397244 original size:3 final size:3
Alignment explanation
Indices: 84397238--84397262 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
84397228 CAGAGTAGTT
84397238 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
84397263 GACAAGATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:84398440 original size:20 final size:20
Alignment explanation
Indices: 84398415--84398464 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
84398405 ATTATGACTT
84398415 AAATTCTAAATTGGGTCATC
1 AAATTCTAAATTGGGTCATC
84398435 AAATTCTAAATTGGGTCATC
1 AAATTCTAAATTGGGTCATC
*
84398455 AAATTTTAAA
1 AAATTCTAAA
84398465 GTGCTCTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (20 bp):
AAATTCTAAATTGGGTCATC
Found at i:84398863 original size:79 final size:79
Alignment explanation
Indices: 84398769--84398924 Score: 312
Period size: 79 Copynumber: 2.0 Consensus size: 79
84398759 TAGCAAATAT
84398769 ATTATCACATGTATAATGCATTGACAACATAATAAAACAAATATTTTAATTAATAGATTTAACAA
1 ATTATCACATGTATAATGCATTGACAACATAATAAAACAAATATTTTAATTAATAGATTTAACAA
84398834 CTATTGATCGAGCC
66 CTATTGATCGAGCC
84398848 ATTATCACATGTATAATGCATTGACAACATAATAAAACAAATATTTTAATTAATAGATTTAACAA
1 ATTATCACATGTATAATGCATTGACAACATAATAAAACAAATATTTTAATTAATAGATTTAACAA
84398913 CTATTGATCGAG
66 CTATTGATCGAG
84398925 GCATGTTTAG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (79 bp):
ATTATCACATGTATAATGCATTGACAACATAATAAAACAAATATTTTAATTAATAGATTTAACAA
CTATTGATCGAGCC
Found at i:84405634 original size:51 final size:51
Alignment explanation
Indices: 84405549--84405747 Score: 301
Period size: 51 Copynumber: 3.9 Consensus size: 51
84405539 CGGATACACG
* *
84405549 GTGGCCTTCATATAGTACCACCCTTGTAGT-CAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
* * *
84405600 GTGGCCTTCACCTAGTACCACACTTATGTCCAAAGCTATTTAATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
84405651 GTGGCATTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
84405702 ATGGCCTTCACATAGTACCACGCTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
84405748 CCAAGGTTCA
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
50 2 0.02
51 131 0.98
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:84405808 original size:28 final size:28
Alignment explanation
Indices: 84405771--84405860 Score: 134
Period size: 28 Copynumber: 3.4 Consensus size: 28
84405761 GGGAAATTTC
84405771 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
84405799 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
84405827 TCACTT---A-AATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
84405851 TCACTTAGCA
1 TCACTTAGCA
84405861 GAACGTCATA
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
24 21 0.38
25 1 0.02
27 1 0.02
28 33 0.59
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGGACTTATT
Found at i:84407208 original size:24 final size:24
Alignment explanation
Indices: 84407175--84407224 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
84407165 TAAATATGTC
84407175 TGTATGTTTTTTATTATGAAACCA
1 TGTATGTTTTTTATTATGAAACCA
* *
84407199 TGTATTTTTTTTATTATGATACCA
1 TGTATGTTTTTTATTATGAAACCA
84407223 TG
1 TG
84407225 AGGAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.12, T:0.54
Consensus pattern (24 bp):
TGTATGTTTTTTATTATGAAACCA
Found at i:84412305 original size:34 final size:34
Alignment explanation
Indices: 84412260--84412363 Score: 136
Period size: 34 Copynumber: 3.1 Consensus size: 34
84412250 ACAAATACAA
* *
84412260 ATATAATATCAAAATGTCATATTACCAGAAACAT
1 ATATAAGATCAAAATGTCATATTTCCAGAAACAT
* *
84412294 ATATAAGATCAAAATGTCATATTTTCAAAAACAT
1 ATATAAGATCAAAATGTCATATTTCCAGAAACAT
* * * *
84412328 ATATCAGATTAGAATGTCATATTTCCAGAAGCAT
1 ATATAAGATCAAAATGTCATATTTCCAGAAACAT
84412362 AT
1 AT
84412364 GTTAAATTAG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (34 bp):
ATATAAGATCAAAATGTCATATTTCCAGAAACAT
Found at i:84412373 original size:34 final size:33
Alignment explanation
Indices: 84412272--84412383 Score: 107
Period size: 34 Copynumber: 3.3 Consensus size: 33
84412262 ATAATATCAA
* * * *
84412272 AATGTCATATTACCAGAAACATATATAAGATCAA
1 AATGTCATATTTCCAGAAACATATTTAA-ATTAG
* * * *
84412306 AATGTCATATTTTCAAAAACATATATCAGATTAG
1 AATGTCATATTTCCAGAAACATAT-TTAAATTAG
*
84412340 AATGTCATATTTCCAGAAGCATATGTTAAATTAG
1 AATGTCATATTTCCAGAAACATAT-TTAAATTAG
*
84412374 AATTTCATAT
1 AATGTCATAT
84412384 AAGATCAAAA
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
34 61 0.98
35 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (33 bp):
AATGTCATATTTCCAGAAACATATTTAAATTAG
Found at i:84420497 original size:28 final size:29
Alignment explanation
Indices: 84420466--84420539 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
84420456 AATCATATTC
* ** *
84420466 ATATGGCCTATTATTCC-AAATCACCTGT
1 ATATGGCCCATTAGGCCTAAATCACATGT
*
84420494 ATATGGCCCATTAGGCCTAAATCACATTT
1 ATATGGCCCATTAGGCCTAAATCACATGT
*
84420523 ATATGGCCCGTTAGGCC
1 ATATGGCCCATTAGGCC
84420540 CAGTCACATT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 14 0.36
29 25 0.64
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCTAAATCACATGT
Found at i:84420525 original size:29 final size:28
Alignment explanation
Indices: 84420456--84420554 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 28
84420446 CATTAAATCC
* * * **
84420456 AATCATATTCATATGGCCTATTATTCCA
1 AATCACATTTATATGGCCCATTAGGCCA
* *
84420484 AATCACCTGTATATGGCCCATTAGGCCTA
1 AATCACATTTATATGGCCCATTAGGCC-A
* *
84420513 AATCACATTTATATGGCCCGTTAGGCCC
1 AATCACATTTATATGGCCCATTAGGCCA
* *
84420541 AGTCACATTCATAT
1 AATCACATTTATAT
84420555 TCATGCTCAC
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 32 0.56
29 25 0.44
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (28 bp):
AATCACATTTATATGGCCCATTAGGCCA
Found at i:84425559 original size:3 final size:3
Alignment explanation
Indices: 84425551--84425576 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
84425541 TGTTTGCCTT
84425551 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
84425577 TTGTTTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:84425666 original size:26 final size:27
Alignment explanation
Indices: 84425609--84425666 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
84425599 TTATTATTTT
*
84425609 ATTATTTTCTATTTTTTATTACATTAT
1 ATTATTTTCTATTTTTTATTACATTAG
84425636 A-TATTTTCT-TTTTTTATTTAC-TTAG
1 ATTATTTTCTATTTTTTA-TTACATTAG
84425661 ATTATT
1 ATTATT
84425667 ATTGGTAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 11 0.39
26 16 0.57
27 1 0.04
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (27 bp):
ATTATTTTCTATTTTTTATTACATTAG
Found at i:84430553 original size:40 final size:40
Alignment explanation
Indices: 84430484--84430583 Score: 157
Period size: 40 Copynumber: 2.5 Consensus size: 40
84430474 AACCCAAGTA
*
84430484 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAACAACTCGCACAAATG
**
84430523 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAACAACTCGCACAAATG
*
84430563 CCTTCGGGACTTAACCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
84430584 GCCTTCGGGA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
39 13 0.23
40 43 0.77
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAACAACTCGCACAAATG
Found at i:84430588 original size:22 final size:22
Alignment explanation
Indices: 84430560--84430605 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
84430550 ACTCGCACAA
84430560 ATGCCTTCGGGACTTAACCCGG
1 ATGCCTTCGGGACTTAACCCGG
84430582 ATGCCTTCGGGACTTAACCCGG
1 ATGCCTTCGGGACTTAACCCGG
84430604 AT
1 AT
84430606 ATAGTAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.30, G:0.26, T:0.24
Consensus pattern (22 bp):
ATGCCTTCGGGACTTAACCCGG
Found at i:84430617 original size:62 final size:62
Alignment explanation
Indices: 84430520--84430645 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
84430510 ACTCGCACAA
*
84430520 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 ATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
84430582 ATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 ATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
84430644 AT
1 AT
84430646 ATAGTCACTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (62 bp):
ATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
Found at i:84430637 original size:40 final size:40
Alignment explanation
Indices: 84430582--84430671 Score: 162
Period size: 40 Copynumber: 2.2 Consensus size: 40
84430572 CTTAACCCGG
*
84430582 ATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAA
*
84430622 ATGCCTTCGGGACTTAACCCGGATATAGTCACTAGCACAA
1 ATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAA
84430662 ATGCCTTCGG
1 ATGCCTTCGG
84430672 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAA
Found at i:84430649 original size:102 final size:101
Alignment explanation
Indices: 84430484--84430671 Score: 304
Period size: 102 Copynumber: 1.9 Consensus size: 101
84430474 AACCCAAGTA
* * *
84430484 CCTTCGGGATTTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGATTAACCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGT
*
84430549 AACTCGCACAAATGCCTTCGGGACTTAACCCGGATG
66 AACTAGCACAAATGCCTTCGGGACTTAACCCGGATG
**
84430585 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
1 CCTTCGGGA-TTAACCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
*
84430650 TCACTAGCACAAATGCCTTCGG
65 TAACTAGCACAAATGCCTTCGG
84430672 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 9 0.11
102 70 0.89
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (101 bp):
CCTTCGGGATTAACCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAACCCGGATG
Found at i:84431996 original size:13 final size:13
Alignment explanation
Indices: 84431978--84432004 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
84431968 TTATTATTTC
84431978 TAACACAAAATGT
1 TAACACAAAATGT
84431991 TAACACAAAATGT
1 TAACACAAAATGT
84432004 T
1 T
84432005 TATAATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (13 bp):
TAACACAAAATGT
Found at i:84436471 original size:27 final size:27
Alignment explanation
Indices: 84436441--84436505 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
84436431 GGGCATAATC
* * *
84436441 GTCATTCTACCATACAGGGGTATTATG
1 GTCATTTTACCATACAGGGGAATTACG
*
84436468 GTCATTTTACC-TAGAGGGGAATTACG
1 GTCATTTTACCATACAGGGGAATTACG
*
84436494 GTAATTTTACCA
1 GTCATTTTACCA
84436506 ATATTACGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.69
27 10 0.31
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGAATTACG
Found at i:84440095 original size:46 final size:47
Alignment explanation
Indices: 84439928--84440242 Score: 186
Period size: 47 Copynumber: 6.7 Consensus size: 47
84439918 TTTGTGTGCT
*
84439928 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-ATGA-GAG-CC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGA-GACGAGAGC
84439974 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGC
* * *
84440021 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TATGAGATGTG-TC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGACGAGAGC
* * ** * *
84440066 AGTGTAAGACCATATCTAGGACATGGCATCGGCACGGATATGTGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA--CGAGAGC
* * * ** * * * ** *
84440115 TAATGTAAGACCATTTCTAGGACATGGTGTCAGCCTCGATTTCGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GACGAGAG-C
* * *
84440165 AATGTAAGACCAAGTCTGGGACATGGCATCGAC-TTGATG--GATGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GACGA-GAGC
* *
84440211 TAGTGTAAGACTATGTTTGGGACATGGCATCG
1 -AGTGTAAGACCATGTCTGGGACATGGCATCG
84440243 ATATTATACC
Statistics
Matches: 215, Mismatches: 36, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
44 9 0.04
45 20 0.09
46 42 0.20
47 58 0.27
48 23 0.11
49 31 0.14
50 31 0.14
51 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGC
Found at i:84440113 original size:94 final size:94
Alignment explanation
Indices: 84439925--84440140 Score: 258
Period size: 94 Copynumber: 2.3 Consensus size: 94
84439915 TTATTTGTGT
* *
84439925 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATATC
* **
84439990 TGGGACATGGCATCGGCATTGAGACGAGA
66 TAGGACATGGCATCGGCACGGAGACGAGA
* * *
84440019 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-TATGA-GATGTGTCAGTGTAAGACCATAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGA-GAGCCAGTGTAAGACCATAT
* *
84440081 CTAGGACATGGCATCGGCACGGATATGTGAGA
65 CTAGGACATGGCATCGGCACGGAGA--CGAGA
* * *
84440113 GCTAATGTAAGACCATTTCTAGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
84440141 GTGTCAGCCT
Statistics
Matches: 105, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
91 2 0.02
92 41 0.39
93 1 0.01
94 48 0.46
95 13 0.12
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATATC
TAGGACATGGCATCGGCACGGAGACGAGA
Found at i:84446869 original size:35 final size:35
Alignment explanation
Indices: 84446826--84446899 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
84446816 CTTCAATTTG
84446826 AATCTGAATCACTTTCCATAC-CCTCCATGGCCTTC
1 AATCTGAATCACTTTCCATACTCC-CCATGGCCTTC
*
84446861 AATCTGAATCACTTTCCATACTCCCCCTGGCCTTC
1 AATCTGAATCACTTTCCATACTCCCCATGGCCTTC
84446896 AATC
1 AATC
84446900 CTCTTAGTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
35 35 0.95
36 2 0.05
ACGTcount: A:0.23, C:0.38, G:0.08, T:0.31
Consensus pattern (35 bp):
AATCTGAATCACTTTCCATACTCCCCATGGCCTTC
Found at i:84447977 original size:63 final size:63
Alignment explanation
Indices: 84447878--84448006 Score: 215
Period size: 63 Copynumber: 2.0 Consensus size: 63
84447868 TCACATGGAG
*
84447878 ATATTCTTATCACATCAGGAATGAGGCGCATCTTAATAGAGTTTGAATTACCAAATTTAAGTT
1 ATATTCTTATCACATCAGGAATGAGGCGCATCTTAATAGAGTTTGAATTACAAAATTTAAGTT
* *
84447941 ATATTCTTATCCCATC-GAGAATGAGGCGCATCTTAATAGAGTTTGAGTTACAAAATTTAAGTT
1 ATATTCTTATCACATCAG-GAATGAGGCGCATCTTAATAGAGTTTGAATTACAAAATTTAAGTT
84448004 ATA
1 ATA
84448007 AATCAGGTTG
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
62 1 0.02
63 61 0.98
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (63 bp):
ATATTCTTATCACATCAGGAATGAGGCGCATCTTAATAGAGTTTGAATTACAAAATTTAAGTT
Found at i:84451447 original size:28 final size:29
Alignment explanation
Indices: 84451415--84451472 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
84451405 AACAAGCAAT
84451415 AATG-TTTAAAGTTTGAAAATTTAA-TTAA
1 AATGTTTTAAAGTTTGAAAA-TTAACTTAA
84451443 AATGTTTTAAAGTTTGAAAATTAACTTAA
1 AATGTTTTAAAGTTTGAAAATTAACTTAA
84451472 A
1 A
84451473 GTTTACAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (29 bp):
AATGTTTTAAAGTTTGAAAATTAACTTAA
Found at i:84455401 original size:23 final size:22
Alignment explanation
Indices: 84455347--84455401 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
84455337 AAAGTGAATA
* * *
84455347 AAACAAACAGAGTAAAGAAAAG
1 AAACAAAAAGAATAAAAAAAAG
84455369 AAACAAAAAGAATAAAAAAAAG
1 AAACAAAAAGAATAAAAAAAAG
*
84455391 AGAACAGAAAG
1 A-AACAAAAAG
84455402 CATTCGAGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.73, C:0.07, G:0.16, T:0.04
Consensus pattern (22 bp):
AAACAAAAAGAATAAAAAAAAG
Found at i:84456951 original size:23 final size:22
Alignment explanation
Indices: 84456924--84456978 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
84456914 CAGACACTTT
84456924 ATGTGTCGTATTTCAGGCACCTC
1 ATGTGTCGTATTT-AGGCACCTC
* * *
84456947 GTGTGTCGT-TTTAGGCACTTT
1 ATGTGTCGTATTTAGGCACCTC
84456968 ATGTGTCGTAT
1 ATGTGTCGTAT
84456979 ACTGATCAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 15 0.56
22 4 0.15
23 8 0.30
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.42
Consensus pattern (22 bp):
ATGTGTCGTATTTAGGCACCTC
Found at i:84456972 original size:21 final size:23
Alignment explanation
Indices: 84456913--84456978 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
84456903 GCTTTACTGA
*
84456913 TCAGACACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* **
84456936 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
84456958 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
84456979 ACTGATCAGG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 15 0.43
22 4 0.11
23 16 0.46
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.41
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:84463293 original size:23 final size:22
Alignment explanation
Indices: 84463239--84463293 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
84463229 AAAGTGAATA
* * *
84463239 AAACAAACAGAGTAAAGAAAAG
1 AAACAAAAAGAATAAAAAAAAG
84463261 AAACAAAAAGAATAAAAAAAAG
1 AAACAAAAAGAATAAAAAAAAG
*
84463283 AGAACAGAAAG
1 A-AACAAAAAG
84463294 CATTCGAGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.73, C:0.07, G:0.16, T:0.04
Consensus pattern (22 bp):
AAACAAAAAGAATAAAAAAAAG
Found at i:84464872 original size:21 final size:21
Alignment explanation
Indices: 84464812--84464874 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
84464802 GGCTTTACTG
84464812 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
* **
84464833 ATTTCAGGCACCTCGTGTGTCGT
1 A--TCAGGCACTTTATGTGTCGT
84464856 ATCAGGCACTTTATGTGTC
1 ATCAGGCACTTTATGTGTC
84464875 ATATACTGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 16 0.47
23 18 0.53
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:84466777 original size:16 final size:16
Alignment explanation
Indices: 84466756--84466786 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84466746 ATAACCATAT
84466756 CATATAGTAATTCAAA
1 CATATAGTAATTCAAA
*
84466772 CATATAGTATTTCAA
1 CATATAGTAATTCAA
84466787 TTCACTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAGTAATTCAAA
Found at i:84473168 original size:40 final size:40
Alignment explanation
Indices: 84473124--84473390 Score: 320
Period size: 39 Copynumber: 6.8 Consensus size: 40
84473114 GCTCCTCGTT
* *
84473124 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
84473164 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
84473204 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
84473243 CAAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
84473282 CAAATGCCTTCGGG-CTTAGCCTGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
84473321 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
84473362 C-AA-GCCTTCGGGACTTAGCCCGGACATTA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATTA
84473391 TTCAAATAAC
Statistics
Matches: 204, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 2 0.01
39 128 0.63
40 63 0.31
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:84473379 original size:118 final size:119
Alignment explanation
Indices: 84473124--84473390 Score: 325
Period size: 118 Copynumber: 2.3 Consensus size: 119
84473114 GCTCCTCGTT
* *
84473124 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
* *
84473188 GATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
65 GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
* * *
84473243 CAAATGCCTTTGGG-CTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCTG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCCG
* * *
84473305 GAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
65 GAATTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TAGCA
84473362 C-AA-GCCTTCGGGACTTAGCCCGGACATTA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATTA
84473391 TTCAAATAAC
Statistics
Matches: 129, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
117 44 0.34
118 58 0.45
119 27 0.21
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
Found at i:84475339 original size:48 final size:48
Alignment explanation
Indices: 84475232--84475598 Score: 201
Period size: 48 Copynumber: 7.7 Consensus size: 48
84475222 GGGTAAATTA
* ** * * * *
84475232 CCGATGCCTTGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCGTATCAATG
* * * * * *
84475280 CTGATGACATGTCCTAGACATGGTCTTGCACTAGCTTTCGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCGTATCAATG
* ** * *
84475328 CCGATGCCATGTCCCAGGCATGGTCTTATTCTGGCTTTCGTAACATTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCGTATCAATG
* * * * * * * * *
84475376 CCGATGCCATGTTCCAAACATGATCTTACACAGGCTCTCATAACATTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCGTATCAATG
* * * * * *
84475424 CCGATGCCATG-CTCCAAATATGGTCTTACACTGGCTTGCATAACATTG
1 CCGATGCCATGTC-CCAGACATGGTCTTACACTGGCTTTCGTATCAATG
** * * * * * **
84475472 TTGATGCTATGTTCCAAACATGGTCTTATATTGGC--TCCCAT-AATTTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCGTATCAA--T-G
* * *
84475520 CTGATGCCATGTCCCAGACAT-GTCTTACAATGGCTCTC--AT-AATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCGTATCAA--T-G
*
84475567 TCGATGCCATGTCCCAGACATGGTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
84475599 AGCAAACATA
Statistics
Matches: 249, Mismatches: 62, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
45 1 0.00
46 2 0.01
47 39 0.16
48 205 0.82
49 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCGTATCAATG
Found at i:84475768 original size:28 final size:28
Alignment explanation
Indices: 84475728--84475782 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
84475718 CAAAATCAAT
84475728 CATTCCACACATAATAACGATAAAGTTG
1 CATTCCACACATAATAACGATAAAGTTG
*
84475756 CATTCCACACATAATAATGATAAAGTT
1 CATTCCACACATAATAACGATAAAGTT
84475783 TCCTTACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (28 bp):
CATTCCACACATAATAACGATAAAGTTG
Found at i:84491743 original size:46 final size:47
Alignment explanation
Indices: 84491600--84491819 Score: 247
Period size: 46 Copynumber: 4.7 Consensus size: 47
84491590 TGATATGTGT
*
84491600 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-ACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTACATGATGAGA
* * **
84491646 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GATGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTACATGATGAGA
**
84491694 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTACATGATG-AGA
* * *
84491740 GCTAGCGTAAGACATGTCTGGGACATGCATCGG-GTACATGATG-TA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTACATGATGAGA
*
84491785 TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
84491820 ACGGATACAT
Statistics
Matches: 152, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
44 8 0.05
45 18 0.12
46 71 0.47
47 29 0.19
48 25 0.16
49 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTACATGATGAGA
Found at i:84491852 original size:140 final size:141
Alignment explanation
Indices: 84491600--84491865 Score: 378
Period size: 140 Copynumber: 1.9 Consensus size: 141
84491590 TGATATGTGT
* *
84491600 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGCGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTC
** * *
84491665 TGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCC
66 TGGGACATGGCATCGGCACGGACATGAGAGCTAGTGTAAGACATGTCTAGGACATGGCATCGGCC
84491729 TTGAGATGTAA
131 TTGAGATGTAA
** * *
84491740 GCTAGCGTAAGACATGTCTGGGACATGCATCGGGTACATGATG-TA-TCAGTGTAAGACCATGTC
1 GCTAGCGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTC
*
84491803 TGGGACATGGCATCGGCACGGATACATGAGATC-AGTGTAAGACCATGTCTAGGACATGGCATC
66 TGGGACATGGCATCGGCACGG--ACATGAGAGCTAGTGTAAGA-CATGTCTAGGACATGGCATC
84491866 AACTTAACGT
Statistics
Matches: 111, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
138 36 0.32
139 10 0.09
140 60 0.54
141 5 0.05
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (141 bp):
GCTAGCGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCACGGACATGAGAGCTAGTGTAAGACATGTCTAGGACATGGCATCGGCC
TTGAGATGTAA
Found at i:84491890 original size:140 final size:140
Alignment explanation
Indices: 84491603--84491914 Score: 348
Period size: 140 Copynumber: 2.2 Consensus size: 140
84491593 TATGTGTGCT
*
84491603 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
** * * ** *
84491668 GACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA
66 GACATGGCATCGGCACGGACATGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGAACTTAA
*
84491733 GATGTAAGCT
131 GATGTAAGCC
* ** * *
84491743 AGCGTAAGACATGTCTGGGACATGCATCGGGTACATGATG-TA-TCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
*
84491806 GACATGGCATCGGCACGGATACATGAGATC-AGTGTAAGACCATGTCTAGGACATGGCATC-AAC
66 GACATGGCATCGGCACGG--ACATGAGAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGAAC
84491869 TTAACG-TG-AGAGCC
127 TTAA-GATGTA-AGCC
* * *
84491883 AGTGTAAGGCCACGTTTGGGACATGGCATCGG
1 AGTGTAA-GACATGTCTGGGACAT-GCATCGG
84491915 TATTATACCC
Statistics
Matches: 145, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
138 36 0.25
139 11 0.08
140 72 0.50
141 19 0.13
142 7 0.05
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCACGGACATGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGAACTTAA
GATGTAAGCC
Found at i:84493127 original size:6 final size:6
Alignment explanation
Indices: 84493109--84493145 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
84493099 CATGAGAGCC
*
84493109 TTTCTT TTT-TT TTTCTT TTTCTT TCTC-T TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
84493146 TNATAATGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 9 0.33
6 18 0.67
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:84493131 original size:17 final size:17
Alignment explanation
Indices: 84493109--84493145 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
84493099 CATGAGAGCC
* *
84493109 TTTCTTTTTTTTTTCTT
1 TTTCTTTCTCTTTTCTT
84493126 TTTCTTTCTCTTTTCTT
1 TTTCTTTCTCTTTTCTT
84493143 TTT
1 TTT
84493146 TNATAATGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTCTTTCTCTTTTCTT
Found at i:84495858 original size:85 final size:85
Alignment explanation
Indices: 84495715--84495884 Score: 304
Period size: 85 Copynumber: 2.0 Consensus size: 85
84495705 CGGAGTCTAG
* *
84495715 GCGAAAGTAATTGGTGAGTGTTTGGAATCGCTGCTTGTAGACATGATTCAATGCGTTATTTGAGA
1 GCGAAAGTAATTGGTGACTGTTTGGAATCGCTGCTTGTAGACATGATTCAATACGTTATTTGAGA
84495780 ATTTAGAAATAGCCTAAACC
66 ATTTAGAAATAGCCTAAACC
* *
84495800 GCGAAAGTAATTGGTGACTGTTTGGAATCGCTGCTTGTAGACATGATTCATTACGTTATTTGGGA
1 GCGAAAGTAATTGGTGACTGTTTGGAATCGCTGCTTGTAGACATGATTCAATACGTTATTTGAGA
84495865 ATTTAGAAATAGCCTAAACC
66 ATTTAGAAATAGCCTAAACC
84495885 TCTACTCTAA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (85 bp):
GCGAAAGTAATTGGTGACTGTTTGGAATCGCTGCTTGTAGACATGATTCAATACGTTATTTGAGA
ATTTAGAAATAGCCTAAACC
Found at i:84509605 original size:94 final size:94
Alignment explanation
Indices: 84509444--84510466 Score: 1867
Period size: 94 Copynumber: 10.9 Consensus size: 94
84509434 TGATATGTGT
84509444 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
84509509 TGGGACATGGCATCGGCATTGAGATGAGA
66 TGGGACATGGCATCGGCATTGAGATGAGA
84509538 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
84509603 TGGGACATGGCATCGGCATTGAGATGAGA
66 TGGGACATGGCATCGGCATTGAGATGAGA
84509632 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
84509697 TGGGACATGGCATCGGCATTGAGATGAGA
66 TGGGACATGGCATCGGCATTGAGATGAGA
84509726 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
84509791 TGGGACATGGCATCGGCATTGAGATGAGA
66 TGGGACATGGCATCGGCATTGAGATGAGA
84509820 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
84509885 TGGGACATGGCATCGGCATTGAGATGAGA
66 TGGGACATGGCATCGGCATTGAGATGAGA
84509914 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
84509979 TGGGACATGGCATCGGCATTGAGATGAGA
66 TGGGACATGGCATCGGCATTGAGATGAGA
84510008 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
84510073 TGGGACATGGCATCGGCATTGAGATGAGA
66 TGGGACATGGCATCGGCATTGAGATGAGA
84510102 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
84510167 TGGGACATGGCATCGGCATTGAGATGAGA
66 TGGGACATGGCATCGGCATTGAGATGAGA
84510196 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
84510261 TGGGACATGGCATCGGCATTGAGATGAGA
66 TGGGACATGGCATCGGCATTGAGATGAGA
84510290 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
** *
84510355 TGGGACATGGCATCGGCACGGATACATGAGA
66 TGGGACATGGCATCGGCATTG--AGATGAGA
* * * *
84510386 TC-AGTGTAAGACCATGTCTAGGACATGGCAT---CAAC-TTAACGTGAGAGCCAGTGTAAGGCC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-A--TGAGAGCCAGTGTAAGACC
* *
84510446 ACGTTTGGGACATGGCATCGG
61 ATGTCTGGGACATGGCATCGG
84510467 TATTATACCC
Statistics
Matches: 913, Mismatches: 9, Indels: 12
0.98 0.01 0.01
Matches are distributed among these distances:
93 2 0.00
94 840 0.92
95 9 0.01
96 58 0.06
97 4 0.00
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATTGAGATGAGA
Found at i:84510457 original size:47 final size:49
Alignment explanation
Indices: 84509447--84510465 Score: 673
Period size: 47 Copynumber: 21.6 Consensus size: 49
84509437 TATGTGTGCT
** ** *
84509447 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGATACATGAGAGCC
* * *
84509493 AGTGTAAGACCATGTCTGGGACATGGCATCG---GCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGA-T-ACATGAGAGCC
** ** *
84509541 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGATACATGAGAGCC
* * *
84509587 AGTGTAAGACCATGTCTGGGACATGGCATCG---GCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGA-T-ACATGAGAGCC
** ** *
84509635 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGATACATGAGAGCC
* * *
84509681 AGTGTAAGACCATGTCTGGGACATGGCATCG---GCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGA-T-ACATGAGAGCC
** ** *
84509729 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGATACATGAGAGCC
* * *
84509775 AGTGTAAGACCATGTCTGGGACATGGCATCG---GCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGA-T-ACATGAGAGCC
** ** *
84509823 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGATACATGAGAGCC
* * *
84509869 AGTGTAAGACCATGTCTGGGACATGGCATCG---GCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGA-T-ACATGAGAGCC
** ** *
84509917 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGATACATGAGAGCC
* * *
84509963 AGTGTAAGACCATGTCTGGGACATGGCATCG---GCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGA-T-ACATGAGAGCC
** ** *
84510011 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGATACATGAGAGCC
* * *
84510057 AGTGTAAGACCATGTCTGGGACATGGCATCG---GCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGA-T-ACATGAGAGCC
** ** *
84510105 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGATACATGAGAGCC
* * *
84510151 AGTGTAAGACCATGTCTGGGACATGGCATCG---GCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGA-T-ACATGAGAGCC
** ** *
84510199 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGATACATGAGAGCC
* * *
84510245 AGTGTAAGACCATGTCTGGGACATGGCATCG---GCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGA-T-ACATGAGAGCC
** ** *
84510293 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGATACATGAGAGCC
* *
84510339 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATACATGAGA-TC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GAACGGATACATGAGAGCC
* ** *
84510388 AGTGTAAGACCATGTCTAGGACATGGCATC-AACTTA-ACGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGATACATGAGAGCC
* * *
84510435 AGTGTAAGGCCACGTTTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
84510466 GTATTATACC
Statistics
Matches: 825, Mismatches: 70, Indels: 154
0.79 0.07 0.15
Matches are distributed among these distances:
45 18 0.02
46 232 0.28
47 296 0.36
48 221 0.27
49 52 0.06
50 6 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGAACGGATACATGAGAGCC
Found at i:84512346 original size:12 final size:12
Alignment explanation
Indices: 84512329--84512360 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
84512319 ATTAAATGAG
84512329 ATGTAAGTTTAT
1 ATGTAAGTTTAT
84512341 ATGTAAGTTTAT
1 ATGTAAGTTTAT
84512353 ATGTAAGT
1 ATGTAAGT
84512361 AATACATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (12 bp):
ATGTAAGTTTAT
Found at i:84520225 original size:92 final size:93
Alignment explanation
Indices: 84520053--84520225 Score: 224
Period size: 94 Copynumber: 1.9 Consensus size: 93
84520043 TGATATGTGT
* * *
84520053 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGAAATGTCTGGGACATGCATCGGCCACATGAT-AGAGCCAGTGTAAGACCATGTC
*
84520118 TAGGACATTGCATCGGTATTGAGACGAGA
65 TAGGACATGGCATCGGTATTGAGACGAGA
* ** * *
84520147 GCTAGTGTAAGAAATGTTTGGGACATGCATCGGGTACATGAT-GTGTCAGTGTAAGACCATGTC-
1 GCTAGTGTAAGAAATGTCTGGGACATGCATCGGCCACATGATAGAGCCAGTGTAAGACCATGTCT
*
84520210 CGGTACATGGCATCGG
66 AGG-ACATGGCATCGG
84520226 CATGGATATG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
91 2 0.03
92 30 0.44
94 36 0.53
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (93 bp):
GCTAGTGTAAGAAATGTCTGGGACATGCATCGGCCACATGATAGAGCCAGTGTAAGACCATGTCT
AGGACATGGCATCGGTATTGAGACGAGA
Found at i:84527075 original size:116 final size:116
Alignment explanation
Indices: 84526871--84527170 Score: 546
Period size: 116 Copynumber: 2.6 Consensus size: 116
84526861 AAGAACTTAG
* * *
84526871 CAAAGAAATCAAAAGATTATTATAACCATCCGACAGCTTCAGTTGGGGTATTCTAACAGAGATCG
1 CAAAGAAATCAAAAGATTATTATAACCGTCCAACAACTTCAGTTGGGGTATTCTAACAGAGATCG
*
84526936 TGGTTAGAGATTCAAGAAAGAGGACAATGAGTAAACCCTATCATTCCTCTT
66 TGGTTAGAGATTCAAGAAAGAGGACAATGAGTAAACCCTATCATTCCTATT
*
84526987 CAAAGAAATCAAAAGATTATTATAACCGTCTAACAACTTCAGTTGGGGTATTCTAACAGAGATCG
1 CAAAGAAATCAAAAGATTATTATAACCGTCCAACAACTTCAGTTGGGGTATTCTAACAGAGATCG
84527052 TGGTTAGAGATTCAAGAAAGAGGACAATGAGTAAACCCTATCATTCCTATT
66 TGGTTAGAGATTCAAGAAAGAGGACAATGAGTAAACCCTATCATTCCTATT
*
84527103 CAACGAAATCAAAAGATTATTATAACCGTCCAACAACTTCAGTTGGGGTATTCTAACAGAGATCG
1 CAAAGAAATCAAAAGATTATTATAACCGTCCAACAACTTCAGTTGGGGTATTCTAACAGAGATCG
84527168 TGG
66 TGG
84527171 GAAGCAACAC
Statistics
Matches: 177, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 177 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (116 bp):
CAAAGAAATCAAAAGATTATTATAACCGTCCAACAACTTCAGTTGGGGTATTCTAACAGAGATCG
TGGTTAGAGATTCAAGAAAGAGGACAATGAGTAAACCCTATCATTCCTATT
Found at i:84538208 original size:29 final size:29
Alignment explanation
Indices: 84538104--84538215 Score: 127
Period size: 29 Copynumber: 3.9 Consensus size: 29
84538094 ATACCTGTAA
* *
84538104 ATGGCCCACTAGG-CCGAATCACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATTTAT
* * * * *
84538132 ATGACTCATTAAGCCCAATTCACATGTAT
1 ATGGCCCATTAGGCCCAAATCACATTTAT
*
84538161 ATGGCCCATCAGGCCCAAATCACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATTTAT
**
84538190 ATGGCCCATTAGGATCAAATCACATT
1 ATGGCCCATTAGGCCCAAATCACATT
84538216 CACAGTCATG
Statistics
Matches: 67, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
28 9 0.13
29 58 0.87
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATTTAT
Found at i:84538456 original size:16 final size:16
Alignment explanation
Indices: 84538431--84538473 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
84538421 GTAGCCAAAC
*
84538431 TTTCAACTTTTCGGCA
1 TTTCAGCTTTTCGGCA
* *
84538447 TTTCCGCTTTTCGGTA
1 TTTCAGCTTTTCGGCA
84538463 TTTCAGCTTTT
1 TTTCAGCTTTT
84538474 GCTGATCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.12, C:0.23, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:84540161 original size:39 final size:39
Alignment explanation
Indices: 84540096--84540229 Score: 142
Period size: 39 Copynumber: 3.4 Consensus size: 39
84540086 AAATTCAATC
* * * * *
84540096 ACCAACACAAAGCCTACGGACTTTAAGCCCGGATATAGT
1 ACCAGCACAAAGCCTGCAGACCTTAAGTCCGGATATAGT
* **
84540135 ACCAGTATGAAGCCTGCAGACCTTAAGTCCGGATATAGT
1 ACCAGCACAAAGCCTGCAGACCTTAAGTCCGGATATAGT
* * * *
84540174 ACCAGCACAAAGCCTGCGGATCTTAAGTCCGGATACAAT
1 ACCAGCACAAAGCCTGCAGACCTTAAGTCCGGATATAGT
* *
84540213 TCCAGCACGAAGCCTGC
1 ACCAGCACAAAGCCTGC
84540230 GGGTCTTTAA
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (39 bp):
ACCAGCACAAAGCCTGCAGACCTTAAGTCCGGATATAGT
Found at i:84541112 original size:27 final size:27
Alignment explanation
Indices: 84541082--84541367 Score: 367
Period size: 27 Copynumber: 10.6 Consensus size: 27
84541072 TTAGTTTACC
84541082 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
84541109 AAATTACAAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
84541136 AAATCACCAAAATACTCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
84541163 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
84541190 AAATTACAAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
84541217 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
84541244 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
84541271 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
84541298 AAATTATCAAAATACCCCTAGTTTG-A
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
84541324 AAATTACCAAAATATCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
84541351 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
84541368 TCGACCTGTA
Statistics
Matches: 222, Mismatches: 36, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 23 0.10
27 199 0.90
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:84541219 original size:81 final size:80
Alignment explanation
Indices: 84541082--84541421 Score: 369
Period size: 81 Copynumber: 4.2 Consensus size: 80
84541072 TTAGTTTACC
** * *
84541082 AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCATTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCCCTGGTTTGTAAAATTACCAAA
*
84541147 ATACTCCTGGTTTGTA
66 ATAC-CCTAGTTTGTA
* ** *
84541163 AAATTACCAAAATACCCTTGGTTTACAAAATTACAAAAATACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCCCTGGTTTGTAAAATTACCAAA
* *
84541228 ATACCCTTTGTTTATA
66 ATACCC-TAGTTTGTA
* *
84541244 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCCCTGGTTTGTAAAATTACCAAA
84541309 ATACCCCTAGTTTG-A
66 ATA-CCCTAGTTTGTA
* ** * ** *** ***
84541324 AAATTACCAAAATATCCCTAATTTGTGAAATTACTGAAATA-CCCTCGACCTGTAAAATTATTGA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCCCT-GGTTTGTAAAATTACCAA
* *
84541388 AATACCCTCGACTTGTA
65 AATACCCTAG-TTTGTA
*
84541405 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
84541422 TTGATTTATA
Statistics
Matches: 221, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
79 9 0.04
80 58 0.26
81 151 0.68
82 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCCCTGGTTTGTAAAATTACCAAA
ATACCCTAGTTTGTA
Found at i:84541420 original size:27 final size:27
Alignment explanation
Indices: 84541082--84541439 Score: 266
Period size: 27 Copynumber: 13.3 Consensus size: 27
84541072 TTAGTTTACC
*
84541082 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * * *
84541109 AAATTACAAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
84541136 AAATCACCAAAATACTCCT-GGTTTGTA
1 AAATTACCAAAATAC-CCTCGATTTGTA
* * **
84541163 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
84541190 AAATTACAAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
84541217 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
*
84541244 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
84541271 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
84541298 AAATTATCAAAATACCC-CTAGTTTG-A
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
84541324 AAATTACCAAAATATCCCT-AATTTGTG
1 AAATTACCAAAATA-CCCTCGATTTGTA
** **
84541351 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
84541378 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
84541405 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
84541432 GAATTACC
1 AAATTACC
84541440 GTTTTACCAT
Statistics
Matches: 275, Mismatches: 43, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
26 26 0.09
27 246 0.89
28 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:84541499 original size:27 final size:27
Alignment explanation
Indices: 84541464--84541708 Score: 296
Period size: 27 Copynumber: 9.1 Consensus size: 27
84541454 TTACAAAATG
* *
84541464 ACCGAAATACCCTTGTAGGGTAGAAAT
1 ACCGAAATACCCCTGTAGGGTAGAATT
* *
84541491 ATCGGAATACCCCTGTAGGGTAGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
84541518 ACC-AGAATACCCCTGTAGGGTAGAATT
1 ACCGA-AATACCCCTGTAGGGTAGAATT
84541545 ACCGAAATACCCCTGTAGGGTAGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
* * **
84541572 ATCGCAATACCTTTGTAGGGTAGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
* * *
84541599 ATCGCAATACCCATGTAGGGTAGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
*
84541626 ACCGAAATACCCCTGTATGGTAGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
** *
84541653 ACTAAAATACCCCTGTAGGGTGGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
* * * *
84541680 ACCGAGATA-CCTTGTGGGGTAAAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
84541706 ACC
1 ACC
84541709 ATTTTGCCCC
Statistics
Matches: 189, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
26 16 0.08
27 172 0.91
28 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
ACCGAAATACCCCTGTAGGGTAGAATT
Found at i:84542187 original size:22 final size:22
Alignment explanation
Indices: 84542135--84542199 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
84542125 TTAAAGCCTT
* *
84542135 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
84542157 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
84542179 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
84542200 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:84542388 original size:27 final size:27
Alignment explanation
Indices: 84542358--84542441 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
84542348 ATTCTGTTAA
* *
84542358 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
84542385 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
84542412 GTGGCTCTACCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
84542439 GTG
1 GTG
84542442 ACTCTATCAC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 8 0.16
27 35 0.70
28 7 0.14
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:84542446 original size:27 final size:26
Alignment explanation
Indices: 84542358--84542459 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
84542348 ATTCTGTTAA
* * *
84542358 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTACCACAATATCTG-TTCTG
* *
84542385 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTACCAC-AATATCTGTTCTG
84542412 GTGGCTCTACCACAATATCTGTATCTG
1 GTGGCTCTACCACAATATCTGT-TCTG
* * *
84542439 GTGACTCTATCACAAAATCTG
1 GTGGCTCTACCACAATATCTG
84542460 ATAACTGAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 9 0.14
27 50 0.76
28 7 0.11
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
GTGGCTCTACCACAATATCTGTTCTG
Found at i:84542453 original size:54 final size:53
Alignment explanation
Indices: 84542358--84542459 Score: 123
Period size: 54 Copynumber: 1.9 Consensus size: 53
84542348 ATTCTGTTAA
* * * * * *
84542358 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTACCACAATATCTGTATCTGGTGACTATACCACAAA-ATCTGTTCTG
* *
84542412 GTGGCTCTACCACAATATCTGTATCTGGTGACTCTATCACAAAATCTG
1 GTGGCTCTACCACAATATCTGTATCTGGTGACTATACCACAAAATCTG
84542460 ATAACTGAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 5 0.12
54 35 0.88
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (53 bp):
GTGGCTCTACCACAATATCTGTATCTGGTGACTATACCACAAAATCTGTTCTG
Found at i:84542634 original size:6 final size:6
Alignment explanation
Indices: 84542596--84542709 Score: 74
Period size: 6 Copynumber: 18.3 Consensus size: 6
84542586 TTGCATTCAC
* * *
84542596 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCT-
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
84542645 ATTACCTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTATG
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
84542696 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
84542710 AATGTTTCTT
Statistics
Matches: 84, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
5 7 0.08
6 59 0.70
7 13 0.15
8 5 0.06
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:84542642 original size:31 final size:31
Alignment explanation
Indices: 84542596--84542667 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
84542586 TTGCATTCAC
*
84542596 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTATTACCTGATACTG
*
84542628 ATTCTGATTTTGATTCTATTACCTGATTCTG
1 ATTCTGATTTTGATTCTATTACCTGATACTG
84542659 ATTCTGATT
1 ATTCTGATT
84542668 CTGTCACCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 31 0.82
32 7 0.18
ACGTcount: A:0.19, C:0.15, G:0.14, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTATTACCTGATACTG
Found at i:84542653 original size:25 final size:25
Alignment explanation
Indices: 84542625--84542692 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
84542615 TTACCTGATA
* *
84542625 CTGATTCTGATTTTGATTCTATTAC
1 CTGATTCTGATTCTGATTCTATCAC
*
84542650 CTGATTCTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTATCAC
*
84542675 CTAATTCTGATTCTGATT
1 CTGATTCTGATTCTGATT
84542693 ATGATTCTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTATCAC
Found at i:84542718 original size:18 final size:18
Alignment explanation
Indices: 84542678--84542730 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
84542668 CTGTCACCTA
* *
84542678 ATTCTGATTCTGATTATG
1 ATTCTTATTCTGATAATG
84542696 ATTC-TAGTTCTGATAATG
1 ATTCTTA-TTCTGATAATG
*
84542714 TTTCTTATTCTG-TAATG
1 ATTCTTATTCTGATAATG
84542731 GGTTAAAGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 6 0.20
18 22 0.73
19 2 0.07
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (18 bp):
ATTCTTATTCTGATAATG
Found at i:84543398 original size:39 final size:39
Alignment explanation
Indices: 84543355--84543645 Score: 375
Period size: 39 Copynumber: 7.4 Consensus size: 39
84543345 GGTGTTACAT
84543355 TTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACC
1 TTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACC
* * * * * *
84543394 TTAAGTCCGGATACAATTCTAGCACGAAGCTTGCGGGTCT
1 TTAAGCCCGGATATAATTCCAGCACGAAGCCTGC-GGACC
84543434 TTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACC
1 TTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACC
* * * * * *
84543473 TTAAGTCCGGATACAATTCTAGCACGAAGCTTGCGGGTCT
1 TTAAGCCCGGATATAATTCCAGCACGAAGCCTGC-GGACC
84543513 TTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACC
1 TTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACC
* * * * * *
84543552 TTAAGTCCGGATACAATTCTAGCACGAAGCTTGCGGGTCT
1 TTAAGCCCGGATATAATTCCAGCACGAAGCCTGC-GGACC
84543592 TTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACC
1 TTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACC
* *
84543631 TTAAGTCTGGATATA
1 TTAAGCCCGGATATA
84543646 CATCATATAT
Statistics
Matches: 211, Mismatches: 38, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
39 112 0.53
40 99 0.47
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (39 bp):
TTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACC
Found at i:84543485 original size:79 final size:79
Alignment explanation
Indices: 84543354--84543643 Score: 571
Period size: 79 Copynumber: 3.7 Consensus size: 79
84543344 GGGTGTTACA
84543354 TTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCTAGCAC
1 TTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCTAGCAC
84543419 GAAGCTTGCGGGTC
66 GAAGCTTGCGGGTC
84543433 TTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCTAGCAC
1 TTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCTAGCAC
84543498 GAAGCTTGCGGGTC
66 GAAGCTTGCGGGTC
84543512 TTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCTAGCAC
1 TTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCTAGCAC
84543577 GAAGCTTGCGGGTC
66 GAAGCTTGCGGGTC
*
84543591 TTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACCTTAAGTCTGGATA
1 TTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
84543644 TACATCATAT
Statistics
Matches: 210, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 210 1.00
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (79 bp):
TTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCTAGCAC
GAAGCTTGCGGGTC
Found at i:84549116 original size:40 final size:40
Alignment explanation
Indices: 84549061--84549278 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
84549051 CGGATGATAA
* * *
84549061 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
84549101 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
84549141 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
84549181 CCAGGTTAAGTCCCGAAGGCATTTTTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
84549221 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
84549261 CC-GGTTAACTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
84549279 TACTTGGCTT
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 145 0.90
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:84549449 original size:64 final size:64
Alignment explanation
Indices: 84549367--84549493 Score: 218
Period size: 64 Copynumber: 2.0 Consensus size: 64
84549357 TCGTATATGC
*
84549367 ATTGAATTAGTTGATCCCTTACAAATAGTATTCGCTCAGTCGATAAATGAGCTATCGGCCTTTT
1 ATTGAATTAGTTGATCCCTTACAAATAGTATTCGCTCAGTCGATAAATGAGCTACCGGCCTTTT
* * *
84549431 ATTGATTTAGTTGATCCCTTACAATTAGTATTCGCTTAGTCGATAAATGAGCTACCGGCCTTT
1 ATTGAATTAGTTGATCCCTTACAAATAGTATTCGCTCAGTCGATAAATGAGCTACCGGCCTTT
84549494 AGCTAAGTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (64 bp):
ATTGAATTAGTTGATCCCTTACAAATAGTATTCGCTCAGTCGATAAATGAGCTACCGGCCTTTT
Found at i:84556281 original size:46 final size:46
Alignment explanation
Indices: 84556214--84556304 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
84556204 CTTCTTGGTT
*
84556214 GATGTTTGATGTTGTGGTGATGAGGCATGAAGATGAGTTAAGTTTC
1 GATGTTTGATGTTGTGGTGATGAGGCATGAAGATGAGCTAAGTTTC
84556260 GATGTTTGATGTTGTGGTGATGAGGCATGAAGATGAGCTAAGTTT
1 GATGTTTGATGTTGTGGTGATGAGGCATGAAGATGAGCTAAGTTT
84556305 TGGCTAGGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.24, C:0.04, G:0.35, T:0.36
Consensus pattern (46 bp):
GATGTTTGATGTTGTGGTGATGAGGCATGAAGATGAGCTAAGTTTC
Found at i:84557246 original size:40 final size:40
Alignment explanation
Indices: 84557188--84557445 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
84557178 CGGATGATAA
* * *
84557188 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
84557228 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
84557268 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
84557308 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
84557348 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
84557388 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
84557428 CC-GGTTAACTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
84557446 TACTTGGCTT
Statistics
Matches: 200, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 16 0.08
40 184 0.92
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:84561362 original size:29 final size:28
Alignment explanation
Indices: 84561295--84561413 Score: 121
Period size: 29 Copynumber: 4.1 Consensus size: 28
84561285 AAACTCACAT
*
84561295 ACATGTATATGGCCCACTAGGCCCAATC
1 ACATGTATATGGCCCATTAGGCCCAATC
* ** *
84561323 ACATTTATATGGTTCATTAGGCCCACTTC
1 ACATGTATATGGCCCATTAGGCCCA-ATC
*
84561352 ACATGTATATGGCCCATCAGGCCCAAATC
1 ACATGTATATGGCCCATTAGGCCC-AATC
* * * *
84561381 ATATTTATATGGCTCATGAGGCCCAAATC
1 ACATGTATATGGCCCATTAGGCCC-AATC
84561410 ACAT
1 ACAT
84561414 TCACATTCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
28 21 0.28
29 52 0.70
30 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (28 bp):
ACATGTATATGGCCCATTAGGCCCAATC
Found at i:84561362 original size:57 final size:58
Alignment explanation
Indices: 84561295--84561405 Score: 172
Period size: 58 Copynumber: 1.9 Consensus size: 58
84561285 AAACTCACAT
* *
84561295 ACATGTATATGGCCCA-CTAGGCCC-AATCACATTTATATGGTTCATTAGGCCCACTTC
1 ACATGTATATGGCCCATC-AGGCCCAAATCACATTTATATGGCTCATGAGGCCCACTTC
*
84561352 ACATGTATATGGCCCATCAGGCCCAAATCATATTTATATGGCTCATGAGGCCCA
1 ACATGTATATGGCCCATCAGGCCCAAATCACATTTATATGGCTCATGAGGCCCA
84561406 AATCACATTC
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
57 22 0.45
58 27 0.55
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (58 bp):
ACATGTATATGGCCCATCAGGCCCAAATCACATTTATATGGCTCATGAGGCCCACTTC
Found at i:84561654 original size:16 final size:16
Alignment explanation
Indices: 84561630--84561672 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
84561620 GCAGCCAAAC
*
84561630 TTTCAGCTTTTAAGCA
1 TTTCGGCTTTTAAGCA
* *
84561646 TTTCGGCTTTTCAGTA
1 TTTCGGCTTTTAAGCA
*
84561662 TTTTGGCTTTT
1 TTTCGGCTTTT
84561673 GCCGATCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.53
Consensus pattern (16 bp):
TTTCGGCTTTTAAGCA
Found at i:84568994 original size:46 final size:46
Alignment explanation
Indices: 84568845--84569066 Score: 206
Period size: 46 Copynumber: 4.8 Consensus size: 46
84568835 TCACTTGTTT
* * *
84568845 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAT--ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GACGA
* * *
84568891 GAGCCAGTGTAAGACCATGTCTAGGACATGGCAAT-GGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GC-ATCGGCCTCGAGACGA
*
84568939 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* * *
84568986 -AGCCAGTGTAAGACATGTTTGGGACATGCATCAG-CTACGAGA--T
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGA
* *
84569029 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
84569067 ACAGATATGC
Statistics
Matches: 147, Mismatches: 17, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
44 11 0.07
45 17 0.12
46 67 0.46
47 28 0.19
48 21 0.14
49 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:84574815 original size:53 final size:53
Alignment explanation
Indices: 84574726--84574969 Score: 164
Period size: 47 Copynumber: 4.9 Consensus size: 53
84574716 CCATGGCAAC
* * *
84574726 ATGTGATATGTGATTTCCGTATAATACTATAGCTGGGCTATGGCATCGGAGAG
1 ATGTGATATGTGATTTCCGTATAAAACCATAGCTGGGATATGGCATCGGAGAG
* *
84574779 ATGTGATCATGTGCTTT-CGTATAAAACCATATCTGGGATATGGCATC---G-G
1 ATGTGAT-ATGTGATTTCCGTATAAAACCATAGCTGGGATATGGCATCGGAGAG
* * * * * *
84574828 -TGTGATATATG-CTACTGTATAAGACCATAGCTGGGATATAGCATC----AG
1 ATGTGATATGTGATTTCCGTATAAAACCATAGCTGGGATATGGCATCGGAGAG
* * * * * *
84574875 -TGAGATATGTGA-TT-CGTCTAAGACCATAGCTGGGCTATGGGATC---GAT
1 ATGTGATATGTGATTTCCGTATAAAACCATAGCTGGGATATGGCATCGGAGAG
* * * *
84574922 ATGTGATATGTGA-TTACGTGTAAGACCATAGCTGGGCTATGGCATCGG
1 ATGTGATATGTGATTTCCGTATAAAACCATAGCTGGGATATGGCATCGG
84574970 TATATGAATA
Statistics
Matches: 158, Mismatches: 24, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
46 26 0.16
47 42 0.27
48 19 0.12
49 29 0.18
50 1 0.01
53 33 0.21
54 8 0.05
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (53 bp):
ATGTGATATGTGATTTCCGTATAAAACCATAGCTGGGATATGGCATCGGAGAG
Found at i:84574967 original size:95 final size:94
Alignment explanation
Indices: 84574726--84575018 Score: 251
Period size: 95 Copynumber: 3.1 Consensus size: 94
84574716 CCATGGCAAC
* * *
84574726 ATGTGATATGTGATTTCCGTATAATACTATAGCTGGGCTATGGCATCGGAGAGATGTGATCATGT
1 ATGTGATATGTGA-TTACGTATAAGACCATAGCTGGGCTATGGCATC----AG-TG-GAT-ATGT
* * * *
84574791 GCTTTCGTATAAAACCATATCTGGGATATGGCATCG--
58 G-ATTCGTATAAGACCATAGCTGGGCTATGGCATCGAT
* * * * *
84574827 GTGTGATATATG-CTACTGTATAAGACCATAGCTGGGATATAGCATCAGTGAGATATGTGATTCG
1 ATGTGATATGTGATTAC-GTATAAGACCATAGCTGGGCTATGGCATCAGTG-GATATGTGATTCG
* *
84574891 TCTAAGACCATAGCTGGGCTATGGGATCGAT
64 TATAAGACCATAGCTGGGCTATGGCATCGAT
* * *
84574922 ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC-G-GTATATG-AATAT-GT
1 ATGTGATATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATCAGTGGATATGTGAT-TCGT
*
84574983 GTAAGACCATAGCTGGGCTATGGCATC-ATT
65 ATAAGACCATAGCTGGGCTATGGCATCGA-T
84575013 ATGTGA
1 ATGTGA
84575019 AGATGTGTAA
Statistics
Matches: 161, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
90 1 0.01
91 36 0.22
92 6 0.04
93 29 0.18
94 6 0.04
95 41 0.25
96 5 0.03
99 2 0.01
100 25 0.16
101 10 0.06
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (94 bp):
ATGTGATATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATCAGTGGATATGTGATTCGTA
TAAGACCATAGCTGGGCTATGGCATCGAT
Found at i:84574988 original size:42 final size:42
Alignment explanation
Indices: 84574939--84575052 Score: 165
Period size: 42 Copynumber: 2.7 Consensus size: 42
84574929 ATGTGATTAC
*
84574939 GTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGAAGAT
** *
84574981 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGAAGAT
* **
84575023 GTGTAAGACCATAGTTGAACTATGGCATCG
1 GTGTAAGACCATAGCTGGGCTATGGCATCG
84575053 AGAAAATGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGAAGAT
Found at i:84577438 original size:17 final size:16
Alignment explanation
Indices: 84577412--84577443 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
84577402 CCAAGAATTT
84577412 GATAGAGTTTTGAGAG
1 GATAGAGTTTTGAGAG
84577428 GATATGAGTTTTGAGA
1 GATA-GAGTTTTGAGA
84577444 TCGAGAGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
GATAGAGTTTTGAGAG
Found at i:84579888 original size:53 final size:53
Alignment explanation
Indices: 84579808--84579913 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
84579798 GGAAGCTATA
84579808 CCTGAATTGGATAGAAGCAAAAGTTCAAAGTAAGAAAAGGTCAATGACTCTTT
1 CCTGAATTGGATAGAAGCAAAAGTTCAAAGTAAGAAAAGGTCAATGACTCTTT
84579861 CCTGAATTGGATAGAAGCAAAAGTTCAAAGTAAGAAAAGGTCAATGACTCTTT
1 CCTGAATTGGATAGAAGCAAAAGTTCAAAGTAAGAAAAGGTCAATGACTCTTT
84579914 TTTAAAGAGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.25
Consensus pattern (53 bp):
CCTGAATTGGATAGAAGCAAAAGTTCAAAGTAAGAAAAGGTCAATGACTCTTT
Found at i:84582243 original size:25 final size:25
Alignment explanation
Indices: 84582213--84582261 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
84582203 TAGAGCTACA
84582213 TCAAAAGGAAAAGGCAAGAAGCATC
1 TCAAAAGGAAAAGGCAAGAAGCATC
84582238 TCAAAAGGAAAAGGCAAGAAGCAT
1 TCAAAAGGAAAAGGCAAGAAGCAT
84582262 ACTTCTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.53, C:0.14, G:0.24, T:0.08
Consensus pattern (25 bp):
TCAAAAGGAAAAGGCAAGAAGCATC
Found at i:84586192 original size:8 final size:9
Alignment explanation
Indices: 84586166--84586190 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
84586156 TATATAATAC
84586166 ATTAAAAAT
1 ATTAAAAAT
84586175 ATTAAAAAT
1 ATTAAAAAT
84586184 ATTAAAA
1 ATTAAAA
84586191 TAAATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:84586329 original size:36 final size:36
Alignment explanation
Indices: 84586289--84586385 Score: 99
Period size: 36 Copynumber: 2.7 Consensus size: 36
84586279 GTAACAAAAT
* * * *
84586289 TAACAATAAAATAAGAGTTATATAAT-ATCTAAATAG
1 TAACAATAAAATAAGAATAAAATAATAAT-GAAATAG
* *
84586325 TAACAACAAAATAATAATAAAATAATAATGAAATAG
1 TAACAATAAAATAAGAATAAAATAATAATGAAATAG
*
84586361 TAACAATATAATAAGAA-AATAATAA
1 TAACAATAAAATAAGAATAA-AATAA
84586386 AAAATATAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
35 2 0.04
36 46 0.92
37 2 0.04
ACGTcount: A:0.63, C:0.05, G:0.06, T:0.26
Consensus pattern (36 bp):
TAACAATAAAATAAGAATAAAATAATAATGAAATAG
Found at i:84586348 original size:11 final size:11
Alignment explanation
Indices: 84586332--84586395 Score: 69
Period size: 11 Copynumber: 6.0 Consensus size: 11
84586322 TAGTAACAAC
84586332 AAAATAATAAT
1 AAAATAATAAT
84586343 AAAATAATAAT
1 AAAATAATAAT
* * *
84586354 GAAATAGTAAC
1 AAAATAATAAT
* *
84586365 AATATAATAAG
1 AAAATAATAAT
84586376 AAAATAATAA-
1 AAAATAATAAT
84586386 AAAAT-ATAAT
1 AAAATAATAAT
84586396 TTTTTATTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
9 4 0.09
10 5 0.11
11 35 0.80
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.25
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:84604476 original size:38 final size:36
Alignment explanation
Indices: 84604434--84604510 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 36
84604424 ACTTAATCAC
*
84604434 TTTAATATTAAAT-TAA-TAAAATATTATTAAGATAAGTA
1 TTTAAT-TT-AATCTAATTAAAAT-TTATTAAAATAA-TA
84604472 TTTAATTTAATCTAATTTAAAATTTATTAAAATAATA
1 TTTAATTTAATCTAA-TTAAAATTTATTAAAATAATA
84604509 TT
1 TT
84604511 ATTTTTGGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
36 3 0.09
37 9 0.26
38 17 0.49
39 6 0.17
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (36 bp):
TTTAATTTAATCTAATTAAAATTTATTAAAATAATA
Found at i:84606280 original size:27 final size:27
Alignment explanation
Indices: 84606242--84606303 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
84606232 CAAAACAGTC
* **
84606242 ATTTTACCCTACAGGGGTATTTTAGTA
1 ATTTTACACTACAACGGTATTTTAGTA
84606269 ATTTTACACTACAACGGTATTTTAGTA
1 ATTTTACACTACAACGGTATTTTAGTA
84606296 ATTTTACA
1 ATTTTACA
84606304 AACTGAGGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (27 bp):
ATTTTACACTACAACGGTATTTTAGTA
Found at i:84606560 original size:18 final size:19
Alignment explanation
Indices: 84606525--84606571 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
84606515 GTGTGGGGCC
*
84606525 CACGAGCCCATTGGGCCCA
1 CACGAGCCCATTGAGCCCA
*
84606544 CACGA-CCCATTTAGCCCA
1 CACGAGCCCATTGAGCCCA
84606562 -ACGAGGCCCA
1 CACGA-GCCCA
84606572 GAACAAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.17
18 11 0.46
19 9 0.38
ACGTcount: A:0.26, C:0.43, G:0.21, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATTGAGCCCA
Found at i:84607273 original size:40 final size:40
Alignment explanation
Indices: 84607218--84607297 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
84607208 GGGAAAAAGG
84607218 TAAAGAATTGGTCCACGGTCTTAAACTACCAAACAAACAA
1 TAAAGAATTGGTCCACGGTCTTAAACTACCAAACAAACAA
84607258 TAAAGAATTGGTCCACGGTCTTAAACTACCAAACAAACAA
1 TAAAGAATTGGTCCACGGTCTTAAACTACCAAACAAACAA
84607298 CGGAGTAGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.45, C:0.23, G:0.12, T:0.20
Consensus pattern (40 bp):
TAAAGAATTGGTCCACGGTCTTAAACTACCAAACAAACAA
Found at i:84607930 original size:24 final size:24
Alignment explanation
Indices: 84607885--84607930 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
84607875 CCTAAAATCC
*
84607885 CTCCATGATTTTCTCCCCAATCTT
1 CTCCATGATTTTCTCCACAATCTT
* *
84607909 CTCCTTGATTTTCTCCATAATC
1 CTCCATGATTTTCTCCACAATC
84607931 CATTCATTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.35, G:0.04, T:0.43
Consensus pattern (24 bp):
CTCCATGATTTTCTCCACAATCTT
Found at i:84613208 original size:21 final size:22
Alignment explanation
Indices: 84613172--84613215 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
84613162 AATTTTTAAA
*
84613172 AATATTTATATTATTTTAATTT
1 AATATTTATATAATTTTAATTT
*
84613194 AATATTTA-ATAATTTTTATTT
1 AATATTTATATAATTTTAATTT
84613215 A
1 A
84613216 TTGAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
AATATTTATATAATTTTAATTT
Found at i:84619124 original size:13 final size:15
Alignment explanation
Indices: 84619106--84619138 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
84619096 TGATCAAATT
84619106 TAAAATTTAA-CA-A
1 TAAAATTTAATCACA
84619119 TAAAATTTAATCACA
1 TAAAATTTAATCACA
84619134 TAAAA
1 TAAAA
84619139 ATTGAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 2 0.11
15 6 0.33
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAAATTTAATCACA
Found at i:84622790 original size:24 final size:24
Alignment explanation
Indices: 84622758--84622808 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
84622748 AGTTAGGATT
84622758 TAACTTCTAGGTTTTTAAACAAAC
1 TAACTTCTAGGTTTTTAAACAAAC
84622782 TAACTTCTAGGTTTTTAAACAAAC
1 TAACTTCTAGGTTTTTAAACAAAC
84622806 TAA
1 TAA
84622809 TGTAATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (24 bp):
TAACTTCTAGGTTTTTAAACAAAC
Found at i:84630771 original size:15 final size:15
Alignment explanation
Indices: 84630739--84630767 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
84630729 ATTTTCTGTG
84630739 TTTGTTATGTGTGAA
1 TTTGTTATGTGTGAA
84630754 TTTG-TATGTGTGAA
1 TTTGTTATGTGTGAA
84630768 ATTTTTGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (15 bp):
TTTGTTATGTGTGAA
Found at i:84633239 original size:29 final size:29
Alignment explanation
Indices: 84633174--84633257 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 29
84633164 GCATGAGTAT
* * *
84633174 AATATGATTTGGGCCTAATGGGCCATATG
1 AATATGAATTAGGCCTAATGGGCCATAAG
** * *
84633203 AAGGTGAATTAGGTCTAGTGGGCCATAAG
1 AATATGAATTAGGCCTAATGGGCCATAAG
* *
84633232 AATATGAACTGGGCC-AGATGGGCCAT
1 AATATGAATTAGGCCTA-ATGGGCCAT
84633258 TTGAATAAGA
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
28 1 0.02
29 40 0.98
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (29 bp):
AATATGAATTAGGCCTAATGGGCCATAAG
Found at i:84634346 original size:18 final size:18
Alignment explanation
Indices: 84634323--84634365 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
84634313 GTTTAAGAAA
84634323 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
**
84634341 GGTTTTTGATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
84634359 AGTTTTC
1 GGTTTTC
84634366 TTTGAAACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:84640691 original size:16 final size:15
Alignment explanation
Indices: 84640672--84640722 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
84640662 ATAAATCGGC
84640672 AAAAGCCAAAATGCTG
1 AAAAGCCAAAA-GCTG
*
84640688 AAAAGCCGAAAAGCCG
1 AAAAGCC-AAAAGCTG
*
84640704 AAATGCCAAAAAGCTG
1 AAAAGCC-AAAAGCTG
84640720 AAA
1 AAA
84640723 GTTGGGCTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 26 0.87
17 4 0.13
ACGTcount: A:0.53, C:0.20, G:0.20, T:0.08
Consensus pattern (15 bp):
AAAAGCCAAAAGCTG
Found at i:84640700 original size:8 final size:8
Alignment explanation
Indices: 84640672--84640722 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
84640662 ATAAATCGGC
84640672 AAAAGCC-
1 AAAAGCCG
*
84640679 AAAATGCTG
1 AAAA-GCCG
84640688 AAAAGCCG
1 AAAAGCCG
84640696 AAAAGCCG
1 AAAAGCCG
* *
84640704 AAATGCCA
1 AAAAGCCG
*
84640712 AAAAGCTG
1 AAAAGCCG
84640720 AAA
1 AAA
84640723 GTTGGGCTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
7 4 0.11
8 27 0.77
9 4 0.11
ACGTcount: A:0.53, C:0.20, G:0.20, T:0.08
Consensus pattern (8 bp):
AAAAGCCG
Found at i:84640715 original size:24 final size:24
Alignment explanation
Indices: 84640672--84640722 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
84640662 ATAAATCGGC
**
84640672 AAAAGCCAAAATGCTGAAAAGCCG
1 AAAAGCCAAAATGCCAAAAAGCCG
* *
84640696 AAAAGCCGAAATGCCAAAAAGCTG
1 AAAAGCCAAAATGCCAAAAAGCCG
84640720 AAA
1 AAA
84640723 GTTGGGCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.53, C:0.20, G:0.20, T:0.08
Consensus pattern (24 bp):
AAAAGCCAAAATGCCAAAAAGCCG
Found at i:84640989 original size:29 final size:27
Alignment explanation
Indices: 84640940--84641051 Score: 82
Period size: 29 Copynumber: 4.0 Consensus size: 27
84640930 TGAGTATAAT
* * *
84640940 ATGATTTGGGCCTAATGGGCCATATGA
1 ATGAATTGGGCCTAGTAGGCCATATGA
*
84640967 AGGTGAATTGGGCCTAGTAGGCCATAAGAA
1 A--TGAATTGGGCCTAGTAGGCCATATG-A
* *
84640997 TATGAACTGGGCC-AGATAGGCCATTTGA
1 -ATGAATTGGGCCTAG-TAGGCCATATGA
* * *
84641025 ATAAGATTGGGCCTAGTGGGCTATATG
1 ATGA-ATTGGGCCTAGTAGGCCATATG
84641052 CATGTATGTA
Statistics
Matches: 66, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
27 4 0.06
28 18 0.27
29 42 0.64
30 1 0.02
31 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (27 bp):
ATGAATTGGGCCTAGTAGGCCATATGA
Found at i:84643624 original size:79 final size:82
Alignment explanation
Indices: 84643513--84643697 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
84643503 GCTACTCGTT
* *
84643513 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
84643576 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
84643593 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
84643656 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
84643673 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
84643698 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:84643697 original size:40 final size:40
Alignment explanation
Indices: 84643494--84643697 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
84643484 CGGAATTTAA
** *
84643494 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
84643534 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
84643574 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
84643613 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
84643653 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
84643693 CCGGA
1 CCGGA
84643698 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:84646521 original size:22 final size:22
Alignment explanation
Indices: 84646485--84646536 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
84646475 TTAATTTCCA
84646485 TGTT-TGGTTTCAGTT-ATGTT
1 TGTTATGGTTTCAGTTCATGTT
* *
84646505 TGCTTATGGTTTGAGTTCATTTT
1 TG-TTATGGTTTCAGTTCATGTT
84646528 TGTTATGGT
1 TGTTATGGT
84646537 ATTTTCTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 2 0.07
21 2 0.07
22 17 0.63
23 6 0.22
ACGTcount: A:0.12, C:0.06, G:0.25, T:0.58
Consensus pattern (22 bp):
TGTTATGGTTTCAGTTCATGTT
Found at i:84657125 original size:138 final size:138
Alignment explanation
Indices: 84656964--84657256 Score: 586
Period size: 138 Copynumber: 2.1 Consensus size: 138
84656954 TAAGTAATTA
84656964 GGACTAAATTGTAAAAATAATAATTTGAGGGACTAAAATGTGAAATAAATAAAATATATGAACTT
1 GGACTAAATTGTAAAAATAATAATTTGAGGGACTAAAATGTGAAATAAATAAAATATATGAACTT
84657029 GTATGAAGGTGGGTAAGATTCGGCCTAACATGGTTGTGATGAAATTTTGCATATTTTGTGTTTTG
66 GTATGAAGGTGGGTAAGATTCGGCCTAACATGGTTGTGATGAAATTTTGCATATTTTGTGTTTTG
84657094 TGCAATAG
131 TGCAATAG
84657102 GGACTAAATTGTAAAAATAATAATTTGAGGGACTAAAATGTGAAATAAATAAAATATATGAACTT
1 GGACTAAATTGTAAAAATAATAATTTGAGGGACTAAAATGTGAAATAAATAAAATATATGAACTT
84657167 GTATGAAGGTGGGTAAGATTCGGCCTAACATGGTTGTGATGAAATTTTGCATATTTTGTGTTTTG
66 GTATGAAGGTGGGTAAGATTCGGCCTAACATGGTTGTGATGAAATTTTGCATATTTTGTGTTTTG
84657232 TGCAATAG
131 TGCAATAG
84657240 GGACTAAATTGTAAAAA
1 GGACTAAATTGTAAAAA
84657257 GTGTAAATGT
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 155 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.33
Consensus pattern (138 bp):
GGACTAAATTGTAAAAATAATAATTTGAGGGACTAAAATGTGAAATAAATAAAATATATGAACTT
GTATGAAGGTGGGTAAGATTCGGCCTAACATGGTTGTGATGAAATTTTGCATATTTTGTGTTTTG
TGCAATAG
Found at i:84660987 original size:41 final size:41
Alignment explanation
Indices: 84660930--84661011 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
84660920 ATGTGTAAGG
*
84660930 TGTCCACTTGGAAATTAGGGACCAATTTAAATAAATTGCAA
1 TGTCCAATTGGAAATTAGGGACCAATTTAAATAAATTGCAA
84660971 TGTCCAATTGGAAATTAGGGACCAATTTAAATAAATTGCAA
1 TGTCCAATTGGAAATTAGGGACCAATTTAAATAAATTGCAA
84661012 AACTTGGGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (41 bp):
TGTCCAATTGGAAATTAGGGACCAATTTAAATAAATTGCAA
Found at i:84665017 original size:40 final size:40
Alignment explanation
Indices: 84664973--84665156 Score: 273
Period size: 40 Copynumber: 4.6 Consensus size: 40
84664963 GCTACTAGCT
* *
84664973 CAAATGTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
84665013 CAAATGCCTTCGGGCCTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
84665053 CAAATACCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
84665093 CAACTGCCTTTGGG-CTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
84665132 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
84665157 GTATCAATCC
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.25
40 96 0.74
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Done.