Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 255 of 316
Found at i:84263487 original size:47 final size:47
Alignment explanation
Indices: 84263426--84263610 Score: 262
Period size: 47 Copynumber: 3.9 Consensus size: 47
84263416 TACATATATT
* * * *
84263426 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
84263473 TCACATTGGCCATTCGGCCTTATTACACAAATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
84263520 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
84263567 TCACATTGGCCATTCGGCCTCATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
84263611 CACAATTATC
Statistics
Matches: 121, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 121 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:84271974 original size:177 final size:177
Alignment explanation
Indices: 84271660--84272604 Score: 1068
Period size: 177 Copynumber: 5.4 Consensus size: 177
84271650 AGAAGCAGTA
* *
84271660 GTGGAGTAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
1 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
* * * *
84271725 TAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGACGATCGTAGTCTTATCTTCCTGATGTA
66 CAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTA
** * * *
84271790 GTAAGGAAGTAGACTAAAGATTGAAGATCTTATTTCCCTAAGTAGTT
131 ACAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTT
* * * *
84271837 GTGGAGCAGATCAAAGATGGCGAATCTTATTTCCATGTATCGGCAATGGGGCAGGTTTTAGCCAC
1 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
* * * * *
84271902 TAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAAATGGTGGTCTTATCTTCCTGAGGTA
66 CAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTA
* * * * * *
84271967 ATAAGGAAACAAACTGAAGATTGAAGATCTTAGCTCCCTAAGCAGTA
131 ACAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTT
** * * * * *
84272014 GTAAAGCAGATCGAAGGA-GGCGGATCTTATCTCCATGTATCGGCAATGGGGCAGATTTAATCCC
1 GTGGAGCAGATCGAA-GATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCA
* ** *
84272078 CCAGGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGATG
65 CCA-GCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGG
84272143 TAACAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTT
129 TAACAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTT
*
84272192 GTGGAGCAGATCGAAGATGGCGAATCTTATTTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
1 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
** * * * *
84272257 CAGATTTATCTCTTTGAGGTAGCAAGAGAGTAGGTTGAAGATTGTGGTCTTATCTTCATGAGGTA
66 CAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTA
* * * *
84272322 GCAAAGAAGCAGACTGAAGATTGAAGATCCTATTTCCCTAAGTAGTT
131 ACAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTT
* * * * * * *
84272369 GTGGAGCAGATCGAAGACGGTGAATCTTATCTCCATGTATTGGCCATCGAGTAGATTTAAGCCAC
1 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
* * * * * ** * * *
84272434 CAGCCTTATCTCCCTGAAGTTGC-AGTGGAGCAGGTTCAAGA-TACAGGCCTTATTTTCCTGAAG
66 CAGCCTTATCTCTCTGAGGTAGCAAG-AGAGCAGGTTGAAGATTGTA-GTCTTATCTTCCTGAGG
*** * * *
84272497 T-TTTAGTGGAGCAGACTGAAAATTGCAGATCTTA--T-CC--AGTA---
129 TAACAAG-GAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTT
* * * * * *
84272538 GTGGAACAGATCAAAGATGCCAAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTTAACCAC
1 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
84272603 CA
66 CA
84272605 AACTTGTTTC
Statistics
Matches: 651, Mismatches: 111, Indels: 20
0.83 0.14 0.03
Matches are distributed among these distances:
169 55 0.08
172 4 0.01
174 2 0.00
175 1 0.00
176 4 0.01
177 431 0.66
178 154 0.24
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (177 bp):
GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
CAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTA
ACAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTT
Found at i:84272306 original size:355 final size:354
Alignment explanation
Indices: 84271652--84272609 Score: 1170
Period size: 355 Copynumber: 2.7 Consensus size: 354
84271642 TTGTCTCCAG
* * *
84271652 AAGCAGTAGTGGAGTAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
1 AAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
* *
84271717 TTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGACGATCGTAGTCTTATCTTC
66 TAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGACGATCGTAGTCTTATCTTC
** * *
84271782 CTGATGTAGTAAGGAAGTAGACTAAAGATTGAAGATCTTATTTCCCTAAGTAGTTGTGGAGCAGA
131 CTGATGTAACAAGGAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGTAGTTGTGGAGCAGA
* * * *
84271847 TCAAAGATGGCGAATCTTATTTCCATGTATCGGCAATGGGGCAGGTTTTAGCCACTAGCCTTATC
196 TCAAAGATGGCGAATCTTATTTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGACTTATC
* * *
84271912 TCTCTGAGGTAGCAAGAGAGTAGGTTGAAAATGGTGGTCTTATCTTCCTGAGGTAATAAGGAAAC
261 TCTCTGAGGTAGCAAGAGAGTAGGTTGAAAATGGTGGTCTTATCTTCATGAGGTAACAAAGAAAC
*
84271977 AAACTGAAGATTGAAGATCTTAGCTCCCT
326 AAACTGAAGATTGAAGATCCTAGCTCCCT
** * *
84272006 AAGCAGTAGTAAAGCAGATCGAAGGA-GGCGGATCTTATCTCCATGTATCGGCAATGGGGCAGAT
1 AAGCAGTAGTGGAGCAGATCGAA-GACGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGAT
* * * * *
84272070 TTAATCCCCCAGGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCT
65 TTAAGCCACCA-GCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGACGATCGTAGTCTTATCT
*
84272135 TCCTGATGTAACAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTTGTGGAGCA
129 TCCTGATGTAACAAGGAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGTAGTTGTGGAGCA
* *
84272200 GATCGAAGATGGCGAATCTTATTTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGATTTA
194 GATCAAAGATGGCGAATCTTATTTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGACTTA
* * * *
84272265 TCTCTTTGAGGTAGCAAGAGAGTAGGTTGAAGATTGTGGTCTTATCTTCATGAGGTAGCAAAGAA
259 TCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAAATGGTGGTCTTATCTTCATGAGGTAACAAAGAA
* * **
84272330 GCAGACTGAAGATTGAAGATCCTATTTCCCT
324 ACAAACTGAAGATTGAAGATCCTAGCTCCCT
* * * * * * *
84272361 AAGTAGTTGTGGAGCAGATCGAAGACGGTGAATCTTATCTCCATGTATTGGCCATCGAGTAGATT
1 AAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
* * * * * * * *
84272426 TAAGCCACCAGCCTTATCTCCCTGAAGTTGC-AGTGGAGCAGGTTCAAGATAC--AGGCCTTATT
66 TAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAG-AGAGCAGGTTGACGAT-CGTA-GTCTTATC
* *** * *
84272488 TTCCTGAAGT-TTTAGTGGAGCAGACTGAAA-ATTGCAGATCTTA--T-CC--AGTA---GTGGA
128 TTCCTGATGTAACAAG-GAAGCAGACT-AAAGATTGAAGATCTTATCTCCCTAAGTAGTTGTGGA
* * * * * * *
84272543 ACAGATCAAAGATGCCAAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTTAACCACCAAAC
191 GCAGATCAAAGATGGCGAATCTTATTTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGAC
84272608 TT
256 TT
84272610 GTTTCCCTGA
Statistics
Matches: 520, Mismatches: 76, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
346 63 0.12
349 4 0.01
351 2 0.00
352 1 0.00
353 5 0.01
354 129 0.25
355 316 0.61
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (354 bp):
AAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
TAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGACGATCGTAGTCTTATCTTC
CTGATGTAACAAGGAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGTAGTTGTGGAGCAGA
TCAAAGATGGCGAATCTTATTTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGACTTATC
TCTCTGAGGTAGCAAGAGAGTAGGTTGAAAATGGTGGTCTTATCTTCATGAGGTAACAAAGAAAC
AAACTGAAGATTGAAGATCCTAGCTCCCT
Found at i:84290847 original size:39 final size:40
Alignment explanation
Indices: 84290670--84290847 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
84290660 CGGATGATAA
* * *
84290670 CCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
84290710 CTGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
84290750 CCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
84290790 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
84290830 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
84290848 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 17 0.14
40 105 0.85
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:84298716 original size:40 final size:40
Alignment explanation
Indices: 84298661--84298878 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
84298651 CGGATGATAA
* *
84298661 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
84298701 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
84298741 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
84298781 CCGGGCTAAGTCCCGCAGGCATTTGTGCGAGTTACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
84298821 CCGGGGTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
84298861 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
84298879 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 145 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:84302649 original size:23 final size:24
Alignment explanation
Indices: 84302603--84302649 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
84302593 CAGTGATCAC
*
84302603 ACGCCCGTGTAAACAGGTCATGTG
1 ACGCCCGTGTAAACAGGCCATGTG
* *
84302627 ACGCCCGTGT-CACAGGCCGTGTG
1 ACGCCCGTGTAAACAGGCCATGTG
84302650 GAAACAGGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.19, C:0.30, G:0.32, T:0.19
Consensus pattern (24 bp):
ACGCCCGTGTAAACAGGCCATGTG
Found at i:84306839 original size:16 final size:17
Alignment explanation
Indices: 84306818--84306856 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
84306808 GTAACGCCCT
84306818 AAAAATCT-CGAAACCC
1 AAAAATCTCCGAAACCC
84306834 AAAAAT-TCCGAAACCC
1 AAAAATCTCCGAAACCC
84306850 AAAAATC
1 AAAAATC
84306857 CTGAAATCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.54, C:0.28, G:0.05, T:0.13
Consensus pattern (17 bp):
AAAAATCTCCGAAACCC
Found at i:84306862 original size:16 final size:16
Alignment explanation
Indices: 84306818--84306862 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
84306808 GTAACGCCCT
84306818 AAAAAT-CTCGAAACCC
1 AAAAATCCT-GAAACCC
84306834 AAAAATTCC-GAAACCC
1 AAAAA-TCCTGAAACCC
84306850 AAAAATCCTGAAA
1 AAAAATCCTGAAA
84306863 TCCCGAACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.12
16 21 0.81
17 1 0.04
18 1 0.04
ACGTcount: A:0.53, C:0.27, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAAATCCTGAAACCC
Found at i:84308442 original size:29 final size:29
Alignment explanation
Indices: 84308409--84308510 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 29
84308399 TGAATATGAC
*
84308409 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
84308438 TGGGCCTAATGGGACATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
84308467 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
84308495 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
84308511 GATACAGGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 16 0.25
29 47 0.75
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:84308481 original size:58 final size:57
Alignment explanation
Indices: 84308409--84308519 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
84308399 TGAATATGAC
* *
84308409 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGACATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATGGGACAGATACAGGTGATT
* * * *
84308467 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGACAGATACAGGT
84308520 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGACAGATACAGGTGATT
Found at i:84311214 original size:27 final size:26
Alignment explanation
Indices: 84311183--84311332 Score: 149
Period size: 27 Copynumber: 5.6 Consensus size: 26
84311173 TAAATTGTAC
84311183 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
84311210 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
84311236 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
* *
84311264 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
84311291 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
84311318 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84311333 GACTCGATAT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 101 0.97
28 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:84311244 original size:54 final size:53
Alignment explanation
Indices: 84311183--84311332 Score: 167
Period size: 54 Copynumber: 2.8 Consensus size: 53
84311173 TAAATTGTAC
*
84311183 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAAATGAATATGT
* ** ** *
84311236 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGATTTGATTATGT
1 A-GCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATATGT
* * *
84311291 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCG
84311333 GACTCGATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
53 2 0.02
54 75 0.93
55 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATATGT
Found at i:84311323 original size:81 final size:81
Alignment explanation
Indices: 84311184--84311332 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
84311174 AAATTGTACA
*
84311184 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
84311249 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* * ** * *
84311265 GCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGAGTTGATTAT-ATAGCACTGAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
84311329 TGCG
65 TGCG
84311333 GACTCGATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.03
81 58 0.97
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:84318878 original size:27 final size:26
Alignment explanation
Indices: 84318847--84318996 Score: 149
Period size: 27 Copynumber: 5.6 Consensus size: 26
84318837 TAAATTGTAC
84318847 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
84318874 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
84318900 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
* *
84318928 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
84318955 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
84318982 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84318997 GACTCGATAT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 101 0.97
28 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:84318908 original size:54 final size:53
Alignment explanation
Indices: 84318847--84318996 Score: 167
Period size: 54 Copynumber: 2.8 Consensus size: 53
84318837 TAAATTGTAC
*
84318847 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAAATGAATATGT
* ** ** *
84318900 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGATTTGATTATGT
1 A-GCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATATGT
* * *
84318955 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCG
84318997 GACTCGATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
53 2 0.02
54 75 0.93
55 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATATGT
Found at i:84318987 original size:81 final size:81
Alignment explanation
Indices: 84318848--84318996 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
84318838 AAATTGTACA
*
84318848 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
84318913 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* * ** * *
84318929 GCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGAGTTGATTAT-ATAGCACTGAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
84318993 TGCG
65 TGCG
84318997 GACTCGATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.03
81 58 0.97
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:84320871 original size:5 final size:5
Alignment explanation
Indices: 84320831--84320855 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
84320821 ATAATTTTAA
84320831 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
84320856 ATTCCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:84321021 original size:26 final size:26
Alignment explanation
Indices: 84320988--84321047 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
84320978 GTTAATTCAA
84320988 TAATTTTAATACTTTAGAATCATAAT
1 TAATTTTAATACTTTAGAATCATAAT
84321014 TAATTTTAATACTTTAGAATCATAAT
1 TAATTTTAATACTTTAGAATCATAAT
84321040 TAATTTTA
1 TAATTTTA
84321048 TTTATTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (26 bp):
TAATTTTAATACTTTAGAATCATAAT
Found at i:84325392 original size:5 final size:6
Alignment explanation
Indices: 84325349--84325400 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
84325339 TGCCAGAAAC
* * * *
84325349 AAATAA AAA-AA AATTAGA AAACAA AAATTA AACTAA AAATAA AAATAA
1 AAATAA AAATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAATAA
84325397 AAAT
1 AAAT
84325401 GATTAAATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
5 4 0.11
6 28 0.78
7 4 0.11
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:84339811 original size:39 final size:40
Alignment explanation
Indices: 84339766--84339933 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
84339756 CGGGGTTTAG
* * *
84339766 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
84339805 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
84339845 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
84339885 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
84339926 CCGGATAT
1 CCGGATAT
84339934 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:84339916 original size:41 final size:40
Alignment explanation
Indices: 84339789--84339933 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
84339779 CTCGCACAAG
* * * * *
84339789 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
84339829 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
84339869 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
84339910 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
84339934 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:84342602 original size:27 final size:27
Alignment explanation
Indices: 84342563--84342691 Score: 147
Period size: 27 Copynumber: 4.8 Consensus size: 27
84342553 CACCAGATAC
*
84342563 ATAT-TGTGACAGAGCCACCAGAACAG
1 ATATATGTGGCAGAGCCACCAGAACAG
*
84342589 ATATATGTGGCAGAGCCACCAGATCAG
1 ATATATGTGGCAGAGCCACCAGAACAG
* *
84342616 ATA-ATTGTGGCATAGCCACCAGGACAG
1 ATATA-TGTGGCAGAGCCACCAGAACAG
* *
84342643 ATATATGTGGTAGAGCCACCAGATCAG
1 ATATATGTGGCAGAGCCACCAGAACAG
* *
84342670 ATA-ATTGTAGCATAGCCACCAG
1 ATATA-TGTGGCAGAGCCACCAG
84342692 GATGCTTCCT
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
26 6 0.07
27 80 0.92
28 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
ATATATGTGGCAGAGCCACCAGAACAG
Found at i:84342633 original size:54 final size:54
Alignment explanation
Indices: 84342553--84342691 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 54
84342543 GTGACGAAGT
* * *
84342553 CACCAGAT-ACAT-ATTGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
84342605 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGTAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
84342659 CACCAGATCAGATAATTGTAGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
84342692 GATGCTTCCT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
52 8 0.10
53 3 0.04
54 68 0.86
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:84342692 original size:54 final size:54
Alignment explanation
Indices: 84342575--84342693 Score: 211
Period size: 54 Copynumber: 2.2 Consensus size: 54
84342565 ATTGTGACAG
* *
84342575 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
1 AGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTAGCAT
*
84342629 AGCCACCAGGACAGATATATGTGGTAGAGCCACCAGATCAGATAATTGTAGCAT
1 AGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTAGCAT
84342683 AGCCACCAGGA
1 AGCCACCAGGA
84342694 TGCTTCCTCC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
AGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTAGCAT
Found at i:84346766 original size:17 final size:17
Alignment explanation
Indices: 84346735--84346767 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
84346725 GTATTGATTT
84346735 TGACATTCTTATGTCAA
1 TGACATTCTTATGTCAA
84346752 TGACAATTCTT-TGTCA
1 TGAC-ATTCTTATGTCA
84346768 TCAATCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (17 bp):
TGACATTCTTATGTCAA
Found at i:84351268 original size:23 final size:22
Alignment explanation
Indices: 84351206--84351291 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 22
84351196 TTTCGAGCTA
**
84351206 TGAACAGTAAGCTCCTCCTGAGC
1 TGAACAGTAAGCT-CTAATGAGC
*
84351229 TGATTGACAGTAAGCTCTATTGAGC
1 TGA---ACAGTAAGCTCTAATGAGC
*
84351254 TGAAACGGTAAGCTCTAATGAGC
1 TG-AACAGTAAGCTCTAATGAGC
84351277 TGAACAGTAAGCTCT
1 TGAACAGTAAGCTCT
84351292 TGCGAGTTGA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
22 12 0.22
23 22 0.41
25 9 0.17
26 11 0.20
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (22 bp):
TGAACAGTAAGCTCTAATGAGC
Found at i:84352671 original size:43 final size:42
Alignment explanation
Indices: 84352575--84352694 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
84352565 ATTATAGTAC
* * * * *
84352575 CATACCAATGCTATATCCCAGATATGGTCTTACATGAAATCT
1 CATATCAATGCCATAGCCAAGATATGGTCTTACATCAAATCT
* * * *
84352617 CGTTTCGATGCCAATAGCCAAGCTATGGTCTTACA-CAAAGTCT
1 CATATCAATGCC-ATAGCCAAGATATGGTCTTACATCAAA-TCT
* *
84352660 CATATCAATGCCATATCCCAGATATGGTCTTACAT
1 CATATCAATGCCATAGCCAAGATATGGTCTTACAT
84352695 GTAATCTTAG
Statistics
Matches: 60, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
42 29 0.48
43 31 0.52
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
CATATCAATGCCATAGCCAAGATATGGTCTTACATCAAATCT
Found at i:84360489 original size:19 final size:17
Alignment explanation
Indices: 84360455--84360487 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
84360445 TAGCCATGTG
84360455 TGACACACAGCCGTGTA
1 TGACACACAGCCGTGTA
*
84360472 TGACACACAGCTGTGT
1 TGACACACAGCCGTGT
84360488 GTCCCCTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.21
Consensus pattern (17 bp):
TGACACACAGCCGTGTA
Found at i:84367194 original size:40 final size:40
Alignment explanation
Indices: 84367087--84367288 Score: 252
Period size: 40 Copynumber: 5.1 Consensus size: 40
84367077 CGGATGATAA
* * *
84367087 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
84367127 CCGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTA-TAATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACT-ATAT
*
84367166 CAGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
84367206 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
84367246 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
84367286 CCG
1 CCG
84367289 ATTAAATTTC
Statistics
Matches: 144, Mismatches: 11, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.23
40 109 0.76
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:84375332 original size:40 final size:40
Alignment explanation
Indices: 84375225--84375427 Score: 263
Period size: 40 Copynumber: 5.1 Consensus size: 40
84375215 CGGATGATAA
* *
84375225 CCGGGCTAAGTCCCGAAGGCATTTC-TGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCA-TTCGTGCGAGTTACTATA-T
*
84375265 CCGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
84375304 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
84375344 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAATATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
84375384 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
84375424 CCGG
1 CCGG
84375428 TTAAATTTCG
Statistics
Matches: 145, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
39 36 0.25
40 109 0.75
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:84375397 original size:80 final size:79
Alignment explanation
Indices: 84375221--84375427 Score: 294
Period size: 80 Copynumber: 2.6 Consensus size: 79
84375211 TATTCGGATG
* *
84375221 ATAACCGGGCTAAGTCCCGAAGGCATTTC-TGCTAGTGACTA-ATTCCGGGCTAAGCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCA-TTCGTGCGAGTTACTATA-TCCGGGCTAAGCCCGAAGGC
*
84375284 AATTGTGCGAGTTATT
64 AATTGTGCGAGTTAAT
*
84375300 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAG-CCCGAAGGCA
*
84375365 TTTGTGCGAGTTAAT
65 ATTGTGCGAGTTAAT
* *
84375380 ATAACCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCCGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATATCCGG
84375428 TTAAATTTCG
Statistics
Matches: 116, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
78 3 0.03
79 47 0.41
80 66 0.57
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCGAAGGCAA
TTGTGCGAGTTAAT
Found at i:84386163 original size:48 final size:48
Alignment explanation
Indices: 84386103--84386329 Score: 159
Period size: 46 Copynumber: 4.8 Consensus size: 48
84386093 CCACATTATG
* * *
84386103 AGAGCTAGTGTAAAACCATGTTTGGGACATGGCATTGGCATTGAGAT-A
1 AGAGCTAGTGTAAAA-CATGTCTGGGACATGGCATCGGCATCGAGATGA
* * *
84386151 AGAGCTAATGTAAGACATGTCTGGGACAT-GCATCGGCATCGAGATGT
1 AGAGCTAGTGTAAAACATGTCTGGGACATGGCATCGGCATCGAGATGA
* *
84386198 A-AGCCAGTGTAAAACATGTCTGGGACAT-GCATCGACTAT-GA-A--A
1 AGAGCTAGTGTAAAACATGTCTGGGACATGGCATCGGC-ATCGAGATGA
* * * * * * *
84386241 AGTG-TCAGTGTAAGACTATCTCTAGGACATGGCATCGGTA-CGGATATGTG
1 AGAGCT-AGTGTAAAAC-ATGTCTGGGACATGGCATCGGCATC-GAGATG-A
* * *
84386291 AGAGCTAGTGTAAGACCATGCCTGGGACATGACATCGGC
1 AGAGCTAGTGTAA-AACATGTCTGGGACATGGCATCGGC
84386330 CTCAATTTTG
Statistics
Matches: 138, Mismatches: 27, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
43 1 0.01
44 10 0.07
45 13 0.09
46 55 0.40
47 17 0.12
48 13 0.09
50 27 0.20
51 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (48 bp):
AGAGCTAGTGTAAAACATGTCTGGGACATGGCATCGGCATCGAGATGA
Found at i:84389055 original size:50 final size:50
Alignment explanation
Indices: 84388929--84389170 Score: 256
Period size: 50 Copynumber: 4.8 Consensus size: 50
84388919 AGCCGAAGCT
* * * * *
84388929 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * *
84388978 ATCTGGTACATGTAGTAGCCTACACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * *
84389028 ATCTGATACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
* * * * *
84389079 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-C
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
84389128 AGTATGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
84389171 TACTCACAAT
Statistics
Matches: 158, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
49 40 0.25
50 79 0.50
51 39 0.25
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:84390587 original size:37 final size:37
Alignment explanation
Indices: 84390487--84390588 Score: 116
Period size: 37 Copynumber: 2.8 Consensus size: 37
84390477 TATACTACCC
*
84390487 GAATTTGGCGTGTTATT-GGATGGATTAGCTCTTACGA
1 GAATTTGGCGTGTT-TTCGGTTGGATTAGCTCTTACGA
* ** * * *
84390524 GCATTTGGTATGTTATCGATTGGATTAGCTCTTATGA
1 GAATTTGGCGTGTTTTCGGTTGGATTAGCTCTTACGA
*
84390561 GAATTTGGCGTGTTTTCGGTTAGATTAG
1 GAATTTGGCGTGTTTTCGGTTGGATTAG
84390589 TTCTATACTT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
36 1 0.02
37 50 0.98
ACGTcount: A:0.21, C:0.10, G:0.28, T:0.41
Consensus pattern (37 bp):
GAATTTGGCGTGTTTTCGGTTGGATTAGCTCTTACGA
Found at i:84393005 original size:30 final size:30
Alignment explanation
Indices: 84392969--84393028 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
84392959 ATTGTGAAGA
84392969 ACAAATATCCATTGCCAAGGATCGATGATT
1 ACAAATATCCATTGCCAAGGATCGATGATT
*
84392999 ACAAATATCCATTGCCAAGGATTGATGATT
1 ACAAATATCCATTGCCAAGGATCGATGATT
84393029 TGTTCAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (30 bp):
ACAAATATCCATTGCCAAGGATCGATGATT
Found at i:84396880 original size:46 final size:46
Alignment explanation
Indices: 84396740--84397090 Score: 198
Period size: 46 Copynumber: 7.4 Consensus size: 46
84396730 TGTGCTACTA
* * *
84396740 TAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCCAGTG
* * * * *
84396786 TAAAACCATGTTTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCCAGTG
*
84396834 TAAGACATGTCTGGGACATACATCGGCCTCGAGATGTA-AGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCCAGTG
* * *
84396880 TAAGACATGTCTGGGACATGCATCAG-CTACGA-AAG-GTGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCCAGTG
* * * * * **
84396924 TAAGACCATGTTTAGGACATGGCATCAGCAC-GGATATGTTAGAGATAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGATG--AGAGCCAGTG
* * * * ** * *
84396974 TAGGACCATGTTTGGGACATGGCTTCGGCCTCAATTTTGATAGTCAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-GATGAGAGCCAGTG
* * *
84397023 TAAGACCATGTCTGGGACATGGAATC-GACT--TGATGGATGAGCCAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAT-GA-GAGCCAGTG
*
84397070 TAAGACCATGTCTAGGACATG
1 TAAGA-CATGTCTGGGACATG
84397091 GGATCGGCAT
Statistics
Matches: 241, Mismatches: 46, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
44 12 0.05
45 17 0.07
46 64 0.27
47 55 0.23
48 27 0.11
49 31 0.13
50 32 0.13
51 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCCAGTG
Found at i:84402621 original size:21 final size:21
Alignment explanation
Indices: 84402597--84402644 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
84402587 ATGTTTAAGT
84402597 TCCACACGGGCGCGTTGCCCA
1 TCCACACGGGCGCGTTGCCCA
84402618 TCCACACGGGCGCGTTGCCCA
1 TCCACACGGGCGCGTTGCCCA
84402639 TCCACA
1 TCCACA
84402645 TAGGCGTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.17, C:0.44, G:0.25, T:0.15
Consensus pattern (21 bp):
TCCACACGGGCGCGTTGCCCA
Found at i:84402650 original size:21 final size:21
Alignment explanation
Indices: 84402597--84402650 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
84402587 ATGTTTAAGT
*
84402597 TCCACACGGGCGCGTTGCCCA
1 TCCACACAGGCGCGTTGCCCA
*
84402618 TCCACACGGGCGCGTTGCCCA
1 TCCACACAGGCGCGTTGCCCA
*
84402639 TCCACATAGGCG
1 TCCACACAGGCG
84402651 TGTGCCCTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.17, C:0.41, G:0.28, T:0.15
Consensus pattern (21 bp):
TCCACACAGGCGCGTTGCCCA
Found at i:84405402 original size:47 final size:49
Alignment explanation
Indices: 84405333--84405457 Score: 154
Period size: 46 Copynumber: 2.7 Consensus size: 49
84405323 GAACTTTACC
*
84405333 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCATAAGCG
* * * *
84405380 AACTCGGACTTAACTCAACGAGTTCGGA---CATTTGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCATAAGCG
84405426 AACTCGGACTCAACTCAACGAGTTCGGATGCC
1 AACTCGGACTCAACTCAACGAGTTCGGATGCC
84405458 CAAATATCCC
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 2 0.03
46 28 0.42
47 27 0.41
49 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (49 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCATAAGCG
Found at i:84405472 original size:46 final size:46
Alignment explanation
Indices: 84405333--84405472 Score: 119
Period size: 46 Copynumber: 3.0 Consensus size: 46
84405323 GAACTTTACC
* * * *
84405333 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCCAGTG
* * *
84405380 AACTCGGACTTAACTCAACGAGTTCGGA----CATTTGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--CAGTG
*
84405426 AACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCCAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCCAGTG
84405472 A
1 A
84405473 CATGTCACTT
Statistics
Matches: 73, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
45 1 0.01
46 33 0.45
47 27 0.37
48 4 0.05
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCCAGTG
Found at i:84408105 original size:21 final size:21
Alignment explanation
Indices: 84408079--84408122 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
84408069 TTCACTAACT
84408079 AAATCTTTGTATTACCCATTG
1 AAATCTTTGTATTACCCATTG
84408100 AAATCTTTGTATTACCCATTG
1 AAATCTTTGTATTACCCATTG
84408121 AA
1 AA
84408123 CGCTCGGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (21 bp):
AAATCTTTGTATTACCCATTG
Found at i:84409492 original size:62 final size:62
Alignment explanation
Indices: 84409395--84409516 Score: 217
Period size: 62 Copynumber: 2.0 Consensus size: 62
84409385 TGCCCTTTAA
*
84409395 AAACCCCCAAATTAAAGTTCATAGCAATTTAACACCTTTAGCTAACAATTCAAGACTTTTTT
1 AAACCCCCAAATTAAAGTTCATAACAATTTAACACCTTTAGCTAACAATTCAAGACTTTTTT
* *
84409457 AAACCCCCAAATTAAAGTTCATAACAATTTAACACCTTTATCTAACAATTTAAGACTTTT
1 AAACCCCCAAATTAAAGTTCATAACAATTTAACACCTTTAGCTAACAATTCAAGACTTTT
84409517 GTACTTTATG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (62 bp):
AAACCCCCAAATTAAAGTTCATAACAATTTAACACCTTTAGCTAACAATTCAAGACTTTTTT
Found at i:84416519 original size:26 final size:26
Alignment explanation
Indices: 84416481--84416530 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
84416471 TCTCATCCTT
84416481 ATTTTACCCCTAGTAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGATG
* *
84416507 ATTTTACCTCTAGTAAATTTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
84416531 GAAAATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGATG
Found at i:84418766 original size:37 final size:37
Alignment explanation
Indices: 84418713--84418815 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
84418703 CGAATAGTCC
*
84418713 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
**
84418750 CCACACGTAGTCATCGGGTCTTACCCGGACATGATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
84418787 CCACACGTAGTCATTGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
84418816 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:84419014 original size:48 final size:48
Alignment explanation
Indices: 84418956--84419715 Score: 1367
Period size: 48 Copynumber: 15.8 Consensus size: 48
84418946 ATATACACAC
* *
84418956 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
84419004 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
84419052 ATCTCATATATATTTCACATTATCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
84419100 ATCTCATACATATTTCACATTAGCCAGTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
84419148 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
84419196 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
84419244 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
84419292 ATCTCATATATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
84419340 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
84419388 ATCTCATATATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
84419436 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
84419484 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
84419532 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
84419580 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
84419628 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
84419676 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
84419716 GCACATATAT
Statistics
Matches: 683, Mismatches: 29, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 683 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:84436255 original size:39 final size:39
Alignment explanation
Indices: 84436155--84436405 Score: 287
Period size: 39 Copynumber: 6.5 Consensus size: 39
84436145 GCTCCTCGTT
* * **
84436155 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACT--CA
1 CAAATGCCTTC-GGACTTAACCCGGATTTAACAACTCGCA
* * *
84436193 CACATGCCTTCGGACATATCCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCA
84436232 CAAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCA
* *
84436271 CGAATGCCTTCGGACTTAACCCGGATTTAACAACTAGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCA
*
84436310 CGAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCA
* * * * * *
84436349 C-GATGCCTTTGGAACTTAATCCGGATATATTC-ACTTAGCA
1 CAAATGCCTTCGG-ACTTAACCCGGATTTA-ACAAC-TCGCA
84436389 CAAA-GCCTTCGGACTTA
1 CAAATGCCTTCGGACTTA
84436406 GCCGGACAGC
Statistics
Matches: 189, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
37 21 0.11
38 19 0.10
39 135 0.71
40 13 0.07
41 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCA
Found at i:84436295 original size:78 final size:77
Alignment explanation
Indices: 84436155--84436405 Score: 319
Period size: 78 Copynumber: 3.2 Consensus size: 77
84436145 GCTCCTCGTT
* * ** * * *
84436155 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-ATGCCTTCGGACATATCCCGGAT
1 CAAATGCCTTC-GGACTTAACCCGGATTTAACAACTCGCACGATGCCTTCGGACTTAACCCGGAT
*
84436219 TTAACAACTCGCA
65 TTAACAACTAGCA
84436232 CAAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGACTTAACCCGGAT
1 CAAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCACG-ATGCCTTCGGACTTAACCCGGAT
84436297 TTAACAACTAGCA
65 TTAACAACTAGCA
* * *
84436310 CGAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCACGATGCCTTTGGAACTTAATCCGGAT
1 CAAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCACGATGCCTTCGG-ACTTAACCCGGAT
* *
84436375 ATATTC-ACTTAGCA
65 TTA-ACAAC-TAGCA
84436389 CAAA-GCCTTCGGACTTA
1 CAAATGCCTTCGGACTTA
84436406 GCCGGACAGC
Statistics
Matches: 155, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
76 24 0.15
77 20 0.13
78 102 0.66
79 9 0.06
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCACGATGCCTTCGGACTTAACCCGGATT
TAACAACTAGCA
Found at i:84444165 original size:40 final size:40
Alignment explanation
Indices: 84444062--84444324 Score: 320
Period size: 40 Copynumber: 6.7 Consensus size: 40
84444052 GCTCCTCGTT
* * ** *
84444062 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* *
84444102 C-AATGCCTTCGGGACATATCCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
84444141 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* *
84444181 CGAATGCCTTC-GGACTTAACCCGGA-TTAACAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
84444219 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * * * *
84444259 CGAATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCA
*
84444300 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
84444325 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
38 23 0.12
39 63 0.31
40 106 0.53
41 8 0.04
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:84444235 original size:78 final size:77
Alignment explanation
Indices: 84444064--84444324 Score: 328
Period size: 78 Copynumber: 3.3 Consensus size: 77
84444054 TCCTCGTTCA
* * ** * * *
84444064 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-AATGCCTTCGGGACATATCCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTC-GGACTTAACCCGGA-
*
84444128 TTAACAACTCGCAC
64 TTAACAACTAGCAC
84444142 AAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGACTTAACCCGGAT
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGACTTAACCCGGAT
84444207 TAACAACTAGCAC
65 TAACAACTAGCAC
*
84444220 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGAACTTAATCCGGA
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGG-ACTTAACCCGGA
*
84444285 TATATTC-ACTTAGCAC
64 T-TA-ACAAC-TAGCAC
* *
84444301 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
84444325 CAGCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
78 64 0.39
79 58 0.35
80 35 0.21
81 7 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (77 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGACTTAACCCGGATT
AACAACTAGCAC
Found at i:84444243 original size:118 final size:119
Alignment explanation
Indices: 84444064--84444285 Score: 324
Period size: 118 Copynumber: 1.9 Consensus size: 119
84444054 TCCTCGTTCA
* ** *
84444064 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATATCCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACAATGCCTTCGGGACATAACCCGGATT
*
84444129 TAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAACTCGCACAAATGCCTTCGGAACTTAACCCGGATTTAACAACTCGCACG
* *
84444183 AATGCCTTC-GGACTTAACCCGGA-TTAACAACT-AGCACGAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCA-CAC-AATGCCTTCGGGACATAACCCGGA
* *
84444245 TTTAACAACTCGCACGAATGCCTTCGGAACTTAATCCGGAT
64 TTTAACAACTCGCACAAATGCCTTCGGAACTTAACCCGGAT
84444286 ATATTCACTT
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
116 1 0.01
117 10 0.11
118 72 0.78
119 9 0.10
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACAATGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACAAATGCCTTCGGAACTTAACCCGGATTTAACAACTCGCACG
Found at i:84444308 original size:118 final size:119
Alignment explanation
Indices: 84444067--84444324 Score: 319
Period size: 118 Copynumber: 2.2 Consensus size: 119
84444057 TCGTTCAAAT
* * ** *
84444067 GCCTTCGGGACATAGCCCGGATTTAGTAACTCA-CAC-AATGCCTTCGGGACATATCCCGGATTT
1 GCCTTCGGGACTTAACCCGGA-TTAACAACT-AGCACGAATGCCTTCGGGACATAACCCGGATTT
* * * *
84444130 AACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAAT
64 AACAACTCGCACAAATGCCTTCGGAACTTAACCCGGATATAACAACTAGCACGAAA
*
84444186 GCCTTC-GGACTTAACCCGGATTAACAACTAGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
1 GCCTTCGGGACTTAACCCGGATTAACAACTAGCACGAATGCCTTCGGGACATAACCCGGATTTAA
* * *
84444250 CAACTCGCACGAATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCAC-AAA
66 CAACTCGCACAAATGCCTTCGGAACTTAACCCGGATATA-ACAAC-TAGCACGAAA
*
84444304 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
84444325 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
116 1 0.01
117 10 0.08
118 84 0.70
119 25 0.21
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (119 bp):
GCCTTCGGGACTTAACCCGGATTAACAACTAGCACGAATGCCTTCGGGACATAACCCGGATTTAA
CAACTCGCACAAATGCCTTCGGAACTTAACCCGGATATAACAACTAGCACGAAA
Found at i:84447332 original size:15 final size:15
Alignment explanation
Indices: 84447312--84447342 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
84447302 GAATTTAATG
84447312 AGACGGCAAGACTAA
1 AGACGGCAAGACTAA
84447327 AGACGGCAAGACTAA
1 AGACGGCAAGACTAA
84447342 A
1 A
84447343 TGCTCCAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.26, T:0.06
Consensus pattern (15 bp):
AGACGGCAAGACTAA
Found at i:84454014 original size:25 final size:25
Alignment explanation
Indices: 84453986--84454050 Score: 67
Period size: 30 Copynumber: 2.4 Consensus size: 25
84453976 TTTTGCTGTT
84453986 TTATGATAGAATATGAGGTTTTAAA
1 TTATGATAGAATATGAGGTTTTAAA
*
84454011 TTATGTTAGACAAGAATATGAGGTTTTAAA
1 TTA---T-GA-TAGAATATGAGGTTTTAAA
*
84454041 TTATGTTAGA
1 TTATGATAGA
84454051 CAACTTGTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
25 6 0.19
26 1 0.03
27 1 0.03
28 1 0.03
29 2 0.06
30 21 0.66
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.40
Consensus pattern (25 bp):
TTATGATAGAATATGAGGTTTTAAA
Found at i:84454027 original size:30 final size:30
Alignment explanation
Indices: 84453993--84454053 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
84453983 GTTTTATGAT
84453993 AGAATATGAGGTTTTAAATTATGTTAGACA
1 AGAATATGAGGTTTTAAATTATGTTAGACA
84454023 AGAATATGAGGTTTTAAATTATGTTAGACA
1 AGAATATGAGGTTTTAAATTATGTTAGACA
84454053 A
1 A
84454054 CTTGTGCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (30 bp):
AGAATATGAGGTTTTAAATTATGTTAGACA
Found at i:84454257 original size:30 final size:30
Alignment explanation
Indices: 84454223--84454283 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
84454213 TTCCCGAGCC
84454223 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
84454253 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
84454283 T
1 T
84454284 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:84458392 original size:44 final size:45
Alignment explanation
Indices: 84458320--84458504 Score: 207
Period size: 44 Copynumber: 4.2 Consensus size: 45
84458310 GCTAATGTAC
* * * * *
84458320 TCCAATGTATATAATTTATAT-TACAAAGTTTGATCCAAGTTTGT
1 TCCAATGAATCTAATTTAAATGTACAAAGTTGGTTCCAAGTTTGT
* * * * *
84458364 TCCAATGAAACTAATTGAAATGCA-AAAGTTTGTTTCAAGTTTGT
1 TCCAATGAATCTAATTTAAATGTACAAAGTTGGTTCCAAGTTTGT
* *
84458408 TCTAATTAATCTAATTTAAA-GTACAAAGTTGGTTCCAAGTTTGT
1 TCCAATGAATCTAATTTAAATGTACAAAGTTGGTTCCAAGTTTGT
* *
84458452 TACAATGAATCTAATTTAAAT-TACAAAGTTGGTTCCAAGTTTGG
1 TCCAATGAATCTAATTTAAATGTACAAAGTTGGTTCCAAGTTTGT
*
84458496 TGCAATGAA
1 TCCAATGAA
84458505 CACAACTTGT
Statistics
Matches: 118, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
43 2 0.02
44 115 0.97
45 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (45 bp):
TCCAATGAATCTAATTTAAATGTACAAAGTTGGTTCCAAGTTTGT
Found at i:84459781 original size:40 final size:40
Alignment explanation
Indices: 84459749--84459980 Score: 356
Period size: 40 Copynumber: 5.8 Consensus size: 40
84459739 CCAGCATGAT
* * *
84459749 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
84459789 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
84459829 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
84459869 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
84459909 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
84459949 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
84459981 CTCAATTCTC
Statistics
Matches: 171, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 171 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:84461245 original size:37 final size:37
Alignment explanation
Indices: 84461195--84461273 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
84461185 TTATTACGAA
* * *
84461195 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
84461232 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
84461269 GTCTT
1 GTCTT
84461274 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:84461566 original size:49 final size:47
Alignment explanation
Indices: 84461392--84461665 Score: 415
Period size: 47 Copynumber: 5.7 Consensus size: 47
84461382 CCCTTCGGGA
* * * * * *
84461392 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
84461439 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84461486 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84461533 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84461582 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84461631 CTTATCACATATATACA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
84461666 AGAACCCTAA
Statistics
Matches: 213, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 116 0.54
49 96 0.45
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:84461589 original size:96 final size:94
Alignment explanation
Indices: 84461392--84461665 Score: 415
Period size: 96 Copynumber: 2.9 Consensus size: 94
84461382 CCCTTCGGGA
* * * * * * * *
84461392 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
84461457 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
84461486 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
84461551 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
84461582 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
84461647 A-TGTTCACATCCATCACAT
64 ACT-TTCACATTCATCACAT
84461666 AGAACCCTAA
Statistics
Matches: 166, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
94 47 0.28
95 1 0.01
96 71 0.43
98 47 0.28
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:84464972 original size:40 final size:40
Alignment explanation
Indices: 84464940--84465171 Score: 356
Period size: 40 Copynumber: 5.8 Consensus size: 40
84464930 CCAGCATGAT
* * *
84464940 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
84464980 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
84465020 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
84465060 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
84465100 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
84465140 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
84465172 CTCAATTCTC
Statistics
Matches: 171, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 171 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:84466436 original size:37 final size:37
Alignment explanation
Indices: 84466386--84466464 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
84466376 TTATTACGAA
* * *
84466386 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
84466423 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
84466460 GTCTT
1 GTCTT
84466465 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:84466757 original size:49 final size:47
Alignment explanation
Indices: 84466583--84466856 Score: 415
Period size: 47 Copynumber: 5.7 Consensus size: 47
84466573 CCCTTCGGGA
* * * * * *
84466583 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
84466630 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84466677 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84466724 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84466773 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84466822 CTTATCACATATATACA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
84466857 AGAACCCTAA
Statistics
Matches: 213, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 116 0.54
49 96 0.45
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:84466780 original size:96 final size:94
Alignment explanation
Indices: 84466583--84466856 Score: 415
Period size: 96 Copynumber: 2.9 Consensus size: 94
84466573 CCCTTCGGGA
* * * * * * * *
84466583 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
84466648 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
84466677 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
84466742 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
84466773 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
84466838 A-TGTTCACATCCATCACAT
64 ACT-TTCACATTCATCACAT
84466857 AGAACCCTAA
Statistics
Matches: 166, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
94 47 0.28
95 1 0.01
96 71 0.43
98 47 0.28
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:84470681 original size:47 final size:47
Alignment explanation
Indices: 84470627--84471005 Score: 553
Period size: 47 Copynumber: 8.1 Consensus size: 47
84470617 TTAGGATTTT
** * *
84470627 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
84470674 ATGTGATGAATGTGAACATGAATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
84470721 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
84470768 ATGTGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
84470815 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
84470862 ATGTGATGAATGTGAATATGCATATATGTGGTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
84470909 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
84470956 ATGTGATGAACGCAGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATG-TGAACATGCATATATGTGATAAGGCCGAATGGCCA
84471003 ATG
1 ATG
84471006 CGAAATGTGT
Statistics
Matches: 303, Mismatches: 28, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 300 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:84470727 original size:22 final size:22
Alignment explanation
Indices: 84470700--84470774 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
84470690 CATGAATATG
84470700 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
84470722 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
84470745 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
84470769 TGTGAT
1 TGTGAT
84470775 GAATATGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:84470868 original size:22 final size:22
Alignment explanation
Indices: 84470841--84470915 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
84470831 CATGCATATG
84470841 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * * *
84470863 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCCGAAT-GGC-CA-A
*
84470888 TGTGGTAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
84470910 TGTGAT
1 TGTGAT
84470916 GAATGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.42
23 6 0.16
24 6 0.16
25 10 0.26
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:84471032 original size:46 final size:46
Alignment explanation
Indices: 84470979--84471069 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
84470969 AGAAGTGTAT
* *
84470979 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* *
84471025 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
84471070 TGTATATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:84480008 original size:150 final size:149
Alignment explanation
Indices: 84479713--84479990 Score: 346
Period size: 150 Copynumber: 1.9 Consensus size: 149
84479703 TCACCTTGCA
* *
84479713 CCACTACTCTTCGCCAACTTTCACCTTTGCATCACCACAATTAATCATTCTTTATTTTCTCCTTT
1 CCACTACTCTTCGCCAACTTTCAACTTTGCATCACCACAATTAACCATTCTTTATTTTCTCCTTT
* * ** * *
84479778 CCCTTTTCCTATTCTTTTCATTTTTTTCATTTCTTTTTTATTAAAAAAATTATCATCCCTCTTCA
66 CCCTCTTCATATTCTTTT-ATCCTCTTCATTTCTTTTTGATTAAAAAAATTATCATCCCTCTTCA
84479843 ATGCTTGTCAATTCATTATG
130 ATGCTTGTCAATTCATTATG
* ** * *
84479863 CCACTACTCTTCTCCAACTTTCAACTTTGCATCACCACTCTTAACCGTTCTTTCTTTTCTCCTTT
1 CCACTACTCTTCGCCAACTTTCAACTTTGCATCACCACAATTAACCATTCTTTATTTTCTCCTTT
* * * *
84479928 TCCTCTT-ATTTTCAATTTT-TCCTCTTCTTTTC-TTTTGATTAAAACAAATTGTCATCCCTCTT
66 CCCTCTTCATATTC--TTTTATCCTCTTCATTTCTTTTTGATTAAAA-AAATTATCATCCCTCTT
84479990 C
128 C
84479991 TGTTCTTTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
148 11 0.10
149 30 0.28
150 63 0.58
151 4 0.04
ACGTcount: A:0.20, C:0.29, G:0.03, T:0.48
Consensus pattern (149 bp):
CCACTACTCTTCGCCAACTTTCAACTTTGCATCACCACAATTAACCATTCTTTATTTTCTCCTTT
CCCTCTTCATATTCTTTTATCCTCTTCATTTCTTTTTGATTAAAAAAATTATCATCCCTCTTCAA
TGCTTGTCAATTCATTATG
Found at i:84484125 original size:45 final size:45
Alignment explanation
Indices: 84484058--84484179 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 45
84484048 CGCACAGTAT
* *
84484058 TATTCGGGCCTTTGAGCTTAGCAGGCTATAATGCCGATGAGAT-A
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAAATGA
*
84484102 CTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
1 -TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAAATGA
* *
84484148 TA-TCGGG-CTTTGAGCCTAGAAGGCGA-AATGCC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
84484180 AGTGAATGAA
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
42 6 0.08
43 17 0.24
44 5 0.07
45 42 0.59
46 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAAATGA
Found at i:84484745 original size:16 final size:18
Alignment explanation
Indices: 84484714--84484746 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
84484704 AACTCGTCAC
84484714 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
84484732 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
84484747 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:84486623 original size:17 final size:18
Alignment explanation
Indices: 84486603--84486642 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
84486593 CTTCACAAAG
*
84486603 TTTTGCTTCACTTGATT-
1 TTTTGCTTCACTCGATTA
*
84486620 TTTTTCTTCACTCGATTA
1 TTTTGCTTCACTCGATTA
84486638 TTTTG
1 TTTTG
84486643 ACAGTGTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.12, C:0.17, G:0.10, T:0.60
Consensus pattern (18 bp):
TTTTGCTTCACTCGATTA
Found at i:84488373 original size:3 final size:3
Alignment explanation
Indices: 84488365--84488417 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
84488355 AATAAACACA
84488365 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
84488413 AAT AA
1 AAT AA
84488418 ACTAATTATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:84493548 original size:21 final size:21
Alignment explanation
Indices: 84493522--84493568 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
84493512 ACGTGTACTG
84493522 TACTGGCAGCTCTACTGCAAT
1 TACTGGCAGCTCTACTGCAAT
* *
84493543 TACTGGCAGCTGTGCTGCAAT
1 TACTGGCAGCTCTACTGCAAT
84493564 TACTG
1 TACTG
84493569 AATAGTGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (21 bp):
TACTGGCAGCTCTACTGCAAT
Found at i:84493768 original size:34 final size:34
Alignment explanation
Indices: 84493701--84493769 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
84493691 GCATTTGTTT
* *
84493701 CTGTTACTGTAATGGGCTAAGGCCCGCATTGATA
1 CTGTTACTGTAATGGGCTAAGGCCCACACTGATA
* * *
84493735 CTGTTATTGTAATGGGCTAAGGCCTATACTGATA
1 CTGTTACTGTAATGGGCTAAGGCCCACACTGATA
84493769 C
1 C
84493770 AGGACTGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (34 bp):
CTGTTACTGTAATGGGCTAAGGCCCACACTGATA
Found at i:84507153 original size:68 final size:66
Alignment explanation
Indices: 84507081--84507257 Score: 173
Period size: 67 Copynumber: 2.7 Consensus size: 66
84507071 CATCATGTGT
* * *
84507081 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGAT-CTAGTGAAGGACACC
84507143 ATGTAG
61 ATGTAG
** *
84507149 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGCTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATCTA-GTGAAGGACACCATGT
84507214 AG
65 AG
* * * * *
84507216 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGG
84507258 TACTGAGTGT
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
64 23 0.24
65 5 0.05
66 21 0.22
67 32 0.34
68 13 0.14
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATCTAGTGAAGGACACCATGTA
G
Found at i:84507186 original size:64 final size:64
Alignment explanation
Indices: 84507105--84507288 Score: 196
Period size: 67 Copynumber: 2.8 Consensus size: 64
84507095 AGACATTATG
* *
84507105 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
84507169 ATGTAGCTAGGTCGCATGCGTGGCT-CTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
84507233 TAA
62 TAA
* * * *
84507236 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
84507289 CGAACTCTAT
Statistics
Matches: 100, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 24 0.24
65 4 0.04
66 19 0.19
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:84511005 original size:32 final size:32
Alignment explanation
Indices: 84510959--84511039 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
84510949 ATTGAAATGG
* * *
84510959 GCTAGGCCCAACTGATATTGGTTCTGATATGA
1 GCTAAGCCCAACTGATATTGATTCTGAGATGA
* * *
84510991 GCTATGCCCAACTGATATTGATTTTGAGATGG
1 GCTAAGCCCAACTGATATTGATTCTGAGATGA
*
84511023 GCTAAGCCCAATTGATA
1 GCTAAGCCCAACTGATA
84511040 CTGTGATGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (32 bp):
GCTAAGCCCAACTGATATTGATTCTGAGATGA
Found at i:84516016 original size:15 final size:15
Alignment explanation
Indices: 84515996--84516025 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
84515986 ATTAAGAAAG
84515996 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
84516011 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
84516026 GAATTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:84516668 original size:43 final size:43
Alignment explanation
Indices: 84516620--84516774 Score: 233
Period size: 43 Copynumber: 3.6 Consensus size: 43
84516610 TATATGTTCT
84516620 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* *
84516663 TGTGTAAGACCACGTCTGGGACGTTAGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* *
84516706 CGTGTAAGGCC-CAGTCTGGGATAG-TGGCATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATGTGATTA
*
84516749 CATGTAAGACCACGTCTGGGACGTTG
1 CGTGTAAGACCACGTCTGGGACGTTG
84516775 ACATTGTATG
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
42 2 0.02
43 95 0.96
44 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
Found at i:84529829 original size:40 final size:40
Alignment explanation
Indices: 84529780--84529967 Score: 231
Period size: 40 Copynumber: 4.7 Consensus size: 40
84529770 GCTACTTGCT
*
84529780 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGAA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGAA
*
84529820 CGAAA-GCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 C-AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGAA
* * *
84529860 CAAATGCCTTTGGGACTTAGCCCGGATATAATAACTC-ACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGA-A
* * * * *
84529900 CAATTGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGAA
84529939 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
84529968 CATCCGAATA
Statistics
Matches: 126, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 1 0.01
39 33 0.26
40 88 0.70
41 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGAA
Found at i:84529941 original size:39 final size:40
Alignment explanation
Indices: 84529747--84529963 Score: 230
Period size: 40 Copynumber: 5.5 Consensus size: 40
84529737 AAACCAAGTA
** * *
84529747 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATG
* * * *
84529786 CCTTCAGGACTTAGCCCGGTTATAGTAACTCGAACGAAA-G
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCAC-AAATG
* *
84529826 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
84529866 CCTTTGGGACTTAGCCCGGATATAATAACTCA-CACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT-AGCACAAATG
*
84529906 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATG
84529945 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
84529964 TTATCATCCG
Statistics
Matches: 152, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 47 0.31
40 100 0.66
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:84529954 original size:79 final size:80
Alignment explanation
Indices: 84529747--84529963 Score: 248
Period size: 79 Copynumber: 2.7 Consensus size: 80
84529737 AAACCAAGTA
** * * * *
84529747 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCAGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
84529810 GTAACTCGAACGAAAG
65 ATAACTCGAACGAAAG
* * *
84529826 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
*
84529891 TAACTC-ACAC-AATTG
66 TAACTCGA-ACGAA-AG
*
84529906 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
84529964 TTATCATCCG
Statistics
Matches: 119, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.50
80 58 0.49
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
TAACTCGAACGAAAG
Found at i:84543848 original size:43 final size:43
Alignment explanation
Indices: 84543801--84543957 Score: 188
Period size: 43 Copynumber: 3.7 Consensus size: 43
84543791 TGTGTTCTCG
*
84543801 TGTAAGACCACGCCTGGGACGTTGGCATCGATATGTGATTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACA
* * *
84543844 TGTAAGACCACGTCTTGGACGTTGGCCTCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACA
** *** *
84543887 TGTAAGACCGTGTCTGGGAAAATGGCATCGATATGTAATTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACA
* * * *
84543930 TGTCAGACCATGTTTGGAACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
84543958 TGTATGATAT
Statistics
Matches: 94, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 94 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACA
Found at i:84552533 original size:26 final size:26
Alignment explanation
Indices: 84552503--84552608 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
84552493 TGAAATTCCC
84552503 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
84552529 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
84552555 ATCATGAAACATTTACCT--CCCATT
1 ATCATGGAACATTTACCTAACCCATT
84552579 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
84552605 ATCA
1 ATCA
84552609 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
24 23 0.30
26 53 0.70
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:84552589 original size:50 final size:51
Alignment explanation
Indices: 84552503--84552608 Score: 187
Period size: 50 Copynumber: 2.1 Consensus size: 51
84552493 TGAAATTCCC
*
84552503 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCT-ACCCATTATCATGGAACATTTACCTAACCCATT
84552555 ATCATGAAACATTTACCT-CCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTACCCATTATCATGGAACATTTACCTAACCCATT
84552605 ATCA
1 ATCA
84552609 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
50 36 0.68
52 17 0.32
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (51 bp):
ATCATGAAACATTTACCTACCCATTATCATGGAACATTTACCTAACCCATT
Found at i:84555994 original size:20 final size:21
Alignment explanation
Indices: 84555943--84555994 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
84555933 AGTCATACAC
*
84555943 TAAAATCAAAT-ACATTAAAA
1 TAAAATCAAATAACATAAAAA
*
84555963 TAAAAT-TAATAACATAAAAA
1 TAAAATCAAATAACATAAAAA
84555983 T-AAATCAAATAA
1 TAAAATCAAATAA
84555995 AAATAACTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAAATCAAATAACATAAAAA
Found at i:84556007 original size:15 final size:14
Alignment explanation
Indices: 84555958--84556007 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
84555948 TCAAATACAT
*
84555958 TAAAATAAAATTAA
1 TAAAATAAAAATAA
*
84555972 TAACATAAAAATAAA
1 TAAAATAAAAAT-AA
*
84555987 TCAAATAAAAATAA
1 TAAAATAAAAATAA
84556001 CTAAAAT
1 -TAAAAT
84556008 TCAAATTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAAATAAAAATAA
Found at i:84560011 original size:27 final size:27
Alignment explanation
Indices: 84559953--84560011 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
84559943 TTTGGGCTAA
* *
84559953 GCCCAATTGATTCTGTTATGGGCTGTG
1 GCCCAAATGATTCTGTAATGGGCTGTG
* *
84559980 ACCCAAATGATAT-TGTAATGGGCTTTG
1 GCCCAAATGAT-TCTGTAATGGGCTGTG
84560007 GCCCA
1 GCCCA
84560012 CGTATGCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (27 bp):
GCCCAAATGATTCTGTAATGGGCTGTG
Found at i:84563980 original size:27 final size:27
Alignment explanation
Indices: 84563910--84564049 Score: 113
Period size: 27 Copynumber: 5.1 Consensus size: 27
84563900 GGTCGTTAAG
* *
84563910 ACCCCCAACTTGTAAAACTTACTGAAAT
1 ACCCCTAATTTGTAAAA-TTACTGAAAT
*** *
84563938 ACCACC-GGGTTATAAAATTA-TCGAAAT
1 ACC-CCTAATTTGTAAAATTACT-GAAAT
*
84563965 TCCCCTAATTTGTAAAATTACTGAAAT
1 ACCCCTAATTTGTAAAATTACTGAAAT
* * *
84563992 ACCCCTGACTTGTAAAATTACTAAAAT
1 ACCCCTAATTTGTAAAATTACTGAAAT
* * **
84564019 ACCCCCATTTTGTAAAATTACCAAAAT
1 ACCCCTAATTTGTAAAATTACTGAAAT
84564046 ACCC
1 ACCC
84564050 TTTGTAGTGT
Statistics
Matches: 90, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.03
27 74 0.82
28 11 0.12
29 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (27 bp):
ACCCCTAATTTGTAAAATTACTGAAAT
Found at i:84564008 original size:54 final size:53
Alignment explanation
Indices: 84563910--84564049 Score: 147
Period size: 54 Copynumber: 2.6 Consensus size: 53
84563900 GGTCGTTAAG
* ** *
84563910 ACCCCCAACTTGTAAAACTTACTGAAATACCACCGGGTTATAAAATTA-TCGAAAT
1 ACCCCCAATTTGTAAAA-TTACTGAAATACC-CCGACTTATAAAATTACT-AAAAT
* * *
84563965 TCCCCTAATTTGTAAAATTACTGAAATACCCCTGACTTGTAAAATTACTAAAAT
1 ACCCCCAATTTGTAAAATTACTGAAATACCCC-GACTTATAAAATTACTAAAAT
* **
84564019 ACCCCCATTTTGTAAAATTACCAAAATACCC
1 ACCCCCAATTTGTAAAATTACTGAAATACCC
84564050 TTTGTAGTGT
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
53 2 0.03
54 54 0.76
55 15 0.21
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (53 bp):
ACCCCCAATTTGTAAAATTACTGAAATACCCCGACTTATAAAATTACTAAAAT
Found at i:84564674 original size:32 final size:30
Alignment explanation
Indices: 84564572--84564673 Score: 78
Period size: 32 Copynumber: 3.2 Consensus size: 30
84564562 ATATTTACCC
* *
84564572 AAGGCTATGTGCCGATTATATTACCGTCACT
1 AAGGCTATGTGCCAATTATAATACCGT-ACT
* ** *
84564603 GATGGCTATGTGCCAAACATAATACAGTTACCT
1 -AAGGCTATGTGCCAATTATAATACCG-TA-CT
* *
84564636 ATGGCTTTGTGCCAATTATAATACCGCTACT
1 AAGGCTATGTGCCAATTATAATACCG-TACT
84564667 AAAGGCT
1 -AAGGCT
84564674 TAGAGTAGCA
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
31 2 0.04
32 50 0.91
33 3 0.05
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (30 bp):
AAGGCTATGTGCCAATTATAATACCGTACT
Found at i:84565533 original size:16 final size:17
Alignment explanation
Indices: 84565501--84565533 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
84565491 AAATAAGAAA
84565501 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
84565519 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
84565534 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:84566074 original size:9 final size:9
Alignment explanation
Indices: 84566060--84566092 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
84566050 TGGGTTAAAT
84566060 TGAATTTTG
1 TGAATTTTG
84566069 TGAATTTTG
1 TGAATTTTG
*
84566078 TGTA-TTTG
1 TGAATTTTG
84566086 TGAATTT
1 TGAATTT
84566093 GGGGACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (9 bp):
TGAATTTTG
Found at i:84566568 original size:43 final size:42
Alignment explanation
Indices: 84566475--84566621 Score: 150
Period size: 43 Copynumber: 3.4 Consensus size: 42
84566465 GATTACCAAG
* * *
84566475 ATGTGATTACATGTAAGACCATGTGTAGGAAATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGT
* *
84566517 ATTGTGATTACGTGTAAGACCATGTCTAGGACATTGGGATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCG-T
* * * * * * *
84566561 ATATGATTTCGTATAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCG-T
*
84566604 ATGTGATAACATGTAAGA
1 ATGTGATTACATGTAAGA
84566622 TCATATCTGG
Statistics
Matches: 85, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 1 0.01
43 82 0.96
44 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGT
Found at i:84568234 original size:50 final size:50
Alignment explanation
Indices: 84568159--84568282 Score: 167
Period size: 50 Copynumber: 2.5 Consensus size: 50
84568149 CTTAAGGTTT
84568159 GGCACTTGGTGCTGAGGCATGTTACAAGAGGGATACTAGCCTACAGGCTA
1 GGCACTTGGTGCTGAGGCATGTTACAAGAGGGATACTAGCCTACAGGCTA
* ** * *
84568209 GGCACTTGGTGCTGAGGCGTGTTACAAGAGGGATGTTAGCCTACGGGTTA
1 GGCACTTGGTGCTGAGGCATGTTACAAGAGGGATACTAGCCTACAGGCTA
* * **
84568259 GGCACATGGTACCAAGGCATGTTA
1 GGCACTTGGTGCTGAGGCATGTTA
84568283 TCGATTGGCT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (50 bp):
GGCACTTGGTGCTGAGGCATGTTACAAGAGGGATACTAGCCTACAGGCTA
Found at i:84573440 original size:15 final size:15
Alignment explanation
Indices: 84573422--84573463 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
84573412 CAATTTGGTT
84573422 TATTTTTATTTTTAC
1 TATTTTTATTTTTAC
*
84573437 TATTTTTATTTTAAC
1 TATTTTTATTTTTAC
*
84573452 T-TATTTATTTTT
1 TATTTTTATTTTT
84573464 GTGATTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTTTATTTTTAC
Found at i:84600181 original size:120 final size:120
Alignment explanation
Indices: 84599949--84600207 Score: 287
Period size: 120 Copynumber: 2.2 Consensus size: 120
84599939 TCGAATGATG
* * *
84599949 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
84600014 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTACGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAA
* * **
84600069 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
84600132 TTGTGCGAGATACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTACGAGATACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAA
* *
84600189 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
84600208 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
119 18 0.15
120 90 0.76
121 10 0.08
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:84600188 original size:40 final size:40
Alignment explanation
Indices: 84599949--84600174 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
84599939 TCGAATGATG
* * * *
84599949 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
84599989 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84600029 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84600069 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
84600109 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
84600150 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
84600175 AACGAGTAGC
Statistics
Matches: 170, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 159 0.94
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:84606332 original size:31 final size:31
Alignment explanation
Indices: 84606297--84606383 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
84606287 CATATACTGT
*
84606297 GCCGAAGCCTTTACATTATTCATATCACTAG
1 GCCGAAGCCTTTTCATTATTCATATCACTAG
*
84606328 GCCGAAGCCTTTTCATTATTCATATCACTGG
1 GCCGAAGCCTTTTCATTATTCATATCACTAG
*
84606359 GCCAAAGCCTTTTCATTATTCATAT
1 GCCGAAGCCTTTTCATTATTCATAT
84606384 TACTGTAACA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (31 bp):
GCCGAAGCCTTTTCATTATTCATATCACTAG
Found at i:84606619 original size:25 final size:25
Alignment explanation
Indices: 84606591--84606650 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
84606581 CTGGAGGCCT
*
84606591 AGCCTCTTTTAGT-AACTGGGCCAAA
1 AGCC-CTTTTAATAAACTGGGCCAAA
*
84606616 AGCCCTTTTTAATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGCCAAA
84606642 AGCCCTTTT
1 AGCCCTTTT
84606651 CGGTAAACTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 1 0.03
25 14 0.45
26 16 0.52
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGCCAAA
Found at i:84606641 original size:26 final size:26
Alignment explanation
Indices: 84606604--84606675 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
84606594 CTCTTTTAGT
* *
84606604 AACTGGGCCAAAAGCCCTTTTTAATA
1 AACTGGGGCAAAAGCCCTTTTCAATA
**
84606630 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCAATA
*
84606656 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
84606676 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 10 0.24
26 31 0.76
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCAATA
Found at i:84618000 original size:30 final size:30
Alignment explanation
Indices: 84617966--84618026 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
84617956 TCCTTAACTC
84617966 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
84617996 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
84618026 A
1 A
84618027 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:84625306 original size:46 final size:46
Alignment explanation
Indices: 84625239--84625330 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
84625229 TTCATCTCTT
84625239 GATATATCCCTATGTCAATTCAGCTGACTAAACAGATTCTAGTAAG
1 GATATATCCCTATGTCAATTCAGCTGACTAAACAGATTCTAGTAAG
84625285 GATATATCCCTATGTCAATTCAGCTGACTAAACAGATTCTAGTAAG
1 GATATATCCCTATGTCAATTCAGCTGACTAAACAGATTCTAGTAAG
84625331 CAAACATGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (46 bp):
GATATATCCCTATGTCAATTCAGCTGACTAAACAGATTCTAGTAAG
Found at i:84627852 original size:21 final size:21
Alignment explanation
Indices: 84627826--84627870 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
84627816 GCCGAGGTGT
84627826 TGAAAGTAAGTATAATTATGA
1 TGAAAGTAAGTATAATTATGA
84627847 TGAAAGTAAGTATAATTATGA
1 TGAAAGTAAGTATAATTATGA
84627868 TGA
1 TGA
84627871 TTTAAATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (21 bp):
TGAAAGTAAGTATAATTATGA
Found at i:84629395 original size:47 final size:47
Alignment explanation
Indices: 84629317--84629729 Score: 657
Period size: 47 Copynumber: 8.7 Consensus size: 47
84629307 CCCTTCGGGA
* * * * * *
84629317 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
84629364 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84629411 CTTATCACATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84629458 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84629505 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84629552 CTTATAACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84629599 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84629646 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
84629695 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
84629730 AGAATCCTAA
Statistics
Matches: 342, Mismatches: 21, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 295 0.86
49 46 0.13
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:84633802 original size:40 final size:40
Alignment explanation
Indices: 84633770--84634161 Score: 541
Period size: 40 Copynumber: 9.8 Consensus size: 40
84633760 CCAGCATGAT
* * *
84633770 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** **
84633810 TGCTCTTCGGGGTTTAGCATGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
84633850 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
84633890 TGCTCTTCGGGATTTAACCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
84633930 TGCTCTTCAGAAATTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
84633970 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
84634010 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
84634050 TGCTCTTCAGAACTTAGTCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
84634090 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
84634130 TGCTCTTCGGGATTTAGCCCGGACATTTCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
84634162 CTCAATTCTC
Statistics
Matches: 311, Mismatches: 41, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 311 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:84635614 original size:47 final size:47
Alignment explanation
Indices: 84635536--84635948 Score: 666
Period size: 47 Copynumber: 8.7 Consensus size: 47
84635526 CCCTTCGGGA
* * * * * *
84635536 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
84635583 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84635630 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84635677 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84635724 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84635771 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84635818 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84635865 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
84635914 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
84635949 AGAATCCTAA
Statistics
Matches: 344, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 298 0.87
49 45 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:84642972 original size:81 final size:81
Alignment explanation
Indices: 84642856--84643255 Score: 495
Period size: 81 Copynumber: 5.0 Consensus size: 81
84642846 TGCCTTCAAC
***
84642856 TTGTAAAATTACCAAAGTACTCC-CGATTTACAGAATTACCGTTTTACCCTC-GATTTACAGAAT
1 TTGTAAAATTACCATTTTAC-CCTCGATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAAT
*
84642919 TACCGTTTTACCTTCGAT
64 TACCGTTTTACCCTCGAT
* * *
84642937 TTTTAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTA
1 TTGTAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTA
84643002 CCGTTTTACCCTCGAT
66 CCGTTTTACCCTCGAT
*
84643018 TTGTAAAATTACTATTTTA-CCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTA
1 TTGTAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTA
**
84643082 CTATTTTACCCTCGAT
66 CCGTTTTACCCTCGAT
** * ***
84643098 TTACAGAATTACCATTTTACCCTC-AGTTTACAGAATTATTATTTTACCCTC-GATTTACAGAAT
1 TTGTAAAATTACCATTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAAT
**
84643161 TACTATTTTACCCTCGAT
64 TACCGTTTTACCCTCGAT
* ** ** * *
84643179 TTGTAAAATTACCGTTTTACCCTTAATTTACAGAATTATTGGTTTACCCTCAGTTTACAAAATTA
1 TTGTAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTA
*
84643244 TCGTTTTACCCT
66 CCGTTTTACCCT
84643256 TGACTGTGAA
Statistics
Matches: 281, Mismatches: 31, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
80 77 0.27
81 201 0.72
82 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (81 bp):
TTGTAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTA
CCGTTTTACCCTCGAT
Found at i:84643167 original size:27 final size:27
Alignment explanation
Indices: 84642879--84643255 Score: 431
Period size: 27 Copynumber: 14.0 Consensus size: 27
84642869 AAAGTACTCC
84642879 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
84642906 CGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
84642933 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
84642960 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
84642987 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** * **
84643014 CGATTTGTAAAATTACTATTTTA-CCT
1 CGATTTACAGAATTACCGTTTTACCCT
84643040 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
84643067 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
84643094 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
***
84643121 C-AGTTTACAGAATTATTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
**
84643148 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
84643175 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** ** *
84643202 TAATTTACAGAATTATTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
84643229 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
84643256 TGACTGTGAA
Statistics
Matches: 301, Mismatches: 41, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
26 25 0.08
27 273 0.91
28 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:84643306 original size:27 final size:28
Alignment explanation
Indices: 84643263--84643353 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 28
84643253 CCTTGACTGT
*
84643263 GAAATTACTAAAATACCCTTGTAGGGTA
1 GAAATTACCAAAATACCCTTGTAGGGTA
*
84643291 GAAA-TACCAAAATACCCCTGTAGGGTA
1 GAAATTACCAAAATACCCTTGTAGGGTA
* * *
84643318 G-AATTACCGAGATACCCTTGTGGGGTA
1 GAAATTACCAAAATACCCTTGTAGGGTA
84643345 -AAATTACCA
1 GAAATTACCA
84643354 TTTTGCCCCT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
26 2 0.04
27 48 0.89
28 4 0.07
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (28 bp):
GAAATTACCAAAATACCCTTGTAGGGTA
Found at i:84643612 original size:27 final size:27
Alignment explanation
Indices: 84643551--84643633 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
84643541 CGGAGGAAGC
*
84643551 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
*
84643578 GTTCTGGTGGCTCTGCCA-TAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* * **
84643604 GTATTTGGTGACTCTGTTAC-AATATCT
1 GT-TCTGGTGGCTCTGCCACAAATATCT
84643631 GTT
1 GTT
84643634 GACCGATCGA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
26 10 0.21
27 38 0.79
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:84643753 original size:22 final size:22
Alignment explanation
Indices: 84643721--84643779 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
84643711 CCCGTTATTA
*
84643721 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
84643743 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
84643765 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
84643780 ATGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:84643976 original size:27 final size:25
Alignment explanation
Indices: 84643946--84644017 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 25
84643936 GGTTGGTTTT
*
84643946 CCACATTATCTGATTCTGGTGGCTCTG
1 CCACA-TATCTG-TTCTGGTGACTCTG
84643973 CCACAATATCTGTATCTGGTGACTCTG
1 CCAC-ATATCTGT-TCTGGTGACTCTG
*
84644000 TCACGATATCTGTTCTGG
1 CCAC-ATATCTGTTCTGG
84644018 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
26 6 0.15
27 33 0.82
28 1 0.03
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (25 bp):
CCACATATCTGTTCTGGTGACTCTG
Found at i:84644144 original size:6 final size:6
Alignment explanation
Indices: 84644135--84644370 Score: 200
Period size: 6 Copynumber: 38.8 Consensus size: 6
84644125 TTGCATTCAC
* * *
84644135 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTA ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
84644184 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
84644232 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTATTG ATTCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * * *
84644281 ATTCTG -TCACCTA ATTCGG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
*
84644330 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTT ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
84644371 CATTTTGGTT
Statistics
Matches: 185, Mismatches: 26, Indels: 38
0.74 0.10 0.15
Matches are distributed among these distances:
5 13 0.07
6 154 0.83
7 15 0.08
8 3 0.02
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:84644224 original size:55 final size:55
Alignment explanation
Indices: 84644135--84644341 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
84644125 TTGCATTCAC
*
84644135 ATTCTGATTCTGATTCTGTTACTGATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTAATTCTG
*
84644190 ATTCTGATTCTGATTCTGTTACTGATTCTAATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTAATTCTG
* *
84644245 ATTCTGATTCTGATTCTGTTATTGATTCTGATTCTGATTCTGTCACCTAATTCGG
1 ATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTAATTCTG
* *
84644300 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTG
84644342 ATTCTGTTAC
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 144 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (55 bp):
ATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTAATTCTG
Found at i:84649612 original size:23 final size:22
Alignment explanation
Indices: 84649569--84649612 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
84649559 TCTCAATTCA
* *
84649569 TAAATAAATTCATACGAAAACT
1 TAAATAAAATCATACCAAAACT
*
84649591 TAAACTAAAATCATACCTAAAC
1 TAAA-TAAAATCATACCAAAAC
84649613 ATACGATCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.55, C:0.18, G:0.02, T:0.25
Consensus pattern (22 bp):
TAAATAAAATCATACCAAAACT
Found at i:84652644 original size:43 final size:42
Alignment explanation
Indices: 84652540--84652644 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 42
84652530 TTGTTTTATG
* *
84652540 TGTAAGACCATGTCTGGGACATCAGCATCGTATTTAATTTCG
1 TGTAAGACCATGTCTGGGACATCAGCATCGTATTTAATTACA
* * * * *
84652582 TGTATGACCCTGTCTGGGACAATGA-CATCGATGTTTGATTACA
1 TGTAAGACCATGTCTGGGAC-ATCAGCATCG-TATTTAATTACA
*
84652625 TGTAAGACCAAGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
84652645 TTTGGCATTG
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
42 23 0.45
43 28 0.55
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATCAGCATCGTATTTAATTACA
Found at i:84654927 original size:119 final size:120
Alignment explanation
Indices: 84654745--84654967 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
84654735 TCCTCGTTCA
*
84654745 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGATTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGATTTAACCCGGAT
* *
84654810 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
84654865 AATGCCTTCGGG-CTTAGCCCGGGAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCC-GGATATAGTAACTCGCACAAATGCCTTCGGGAT-TTAACCCGG
* * *
84654927 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
84654968 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 63 0.70
120 23 0.26
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGATTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:84654967 original size:40 final size:40
Alignment explanation
Indices: 84654743--84654967 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
84654733 GCTCCTCGTT
* *
84654743 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
84654783 CAAATGCCTTCGGGATTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
84654823 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
84654863 CCAATGCCTTCGGG-CTTAGCCCGGGAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGATATAGTAACTCGCA
* * * *
84654902 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
84654943 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
84654968 CATCATTCAA
Statistics
Matches: 163, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 118 0.72
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Done.