Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 278 of 322
Found at i:92324500 original size:17 final size:17
Alignment explanation
Indices: 92324463--92324501 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
92324453 CTATTAAGAT
*
92324463 AAATATTAAATCAAATC
1 AAATATTAAATCAAATA
* *
92324480 AAATATTAAATCTATTA
1 AAATATTAAATCAAATA
92324497 AAATA
1 AAATA
92324502 ATATTGTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATTAAATCAAATA
Found at i:92325936 original size:29 final size:30
Alignment explanation
Indices: 92325894--92325953 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
92325884 AAAAATGAAC
92325894 ATTAGCATTGTA-TTTTTTATATGCTTTAT
1 ATTAGCATTGTATTTTTTTATATGCTTTAT
*
92325923 ATTAGCATTGTATTTTTTTATATGTTTTAT
1 ATTAGCATTGTATTTTTTTATATGCTTTAT
92325953 A
1 A
92325954 CTTATTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.25, C:0.05, G:0.10, T:0.60
Consensus pattern (30 bp):
ATTAGCATTGTATTTTTTTATATGCTTTAT
Found at i:92326335 original size:18 final size:18
Alignment explanation
Indices: 92326312--92326348 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
92326302 AAAACACTAA
92326312 AATTTTAAAATTAAAACC
1 AATTTTAAAATTAAAACC
92326330 AATTTTAAAATTAAAACC
1 AATTTTAAAATTAAAACC
92326348 A
1 A
92326349 TCATGATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTTTAAAATTAAAACC
Found at i:92335432 original size:16 final size:16
Alignment explanation
Indices: 92335411--92335444 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
92335401 CGTTATTTGA
92335411 GCTCTGTGCCTAGCAG
1 GCTCTGTGCCTAGCAG
* *
92335427 GCTCTGTGTCTAGTAG
1 GCTCTGTGCCTAGCAG
92335443 GC
1 GC
92335445 ATTGTGCCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.29
Consensus pattern (16 bp):
GCTCTGTGCCTAGCAG
Found at i:92335488 original size:38 final size:38
Alignment explanation
Indices: 92335427--92335560 Score: 153
Period size: 38 Copynumber: 3.5 Consensus size: 38
92335417 TGCCTAGCAG
* * * *
92335427 GCTCTGTGT-CTAGTAGGCATTGTGCCGATGATATTCGT
1 GCTCTGT-TCCTAGCAGGCTTTGTGCCGGTGATATTCGA
*
92335465 GCTCTGTTCCTAGCTGGCTTTGTGCCGGTGATATTCGA
1 GCTCTGTTCCTAGCAGGCTTTGTGCCGGTGATATTCGA
* * * *
92335503 GCTCTGTTCCTAGCAGGTTTTGTGCTGGTGATATTTGG
1 GCTCTGTTCCTAGCAGGCTTTGTGCCGGTGATATTCGA
* *
92335541 GCTCTGTGCCTAGAAGGCTT
1 GCTCTGTTCCTAGCAGGCTT
92335561 CGCGCCGATG
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
37 1 0.01
38 81 0.99
ACGTcount: A:0.13, C:0.20, G:0.30, T:0.37
Consensus pattern (38 bp):
GCTCTGTTCCTAGCAGGCTTTGTGCCGGTGATATTCGA
Found at i:92339455 original size:27 final size:27
Alignment explanation
Indices: 92339414--92339479 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
92339404 TAAAGTTCAA
* *
92339414 TTTGAATCAATGACTTGATTTTATGA-T
1 TTTGAAACAAAGACTTGATTTTAT-ACT
92339441 TTTGAAACAAAGACTTGATTTTATACT
1 TTTGAAACAAAGACTTGATTTTATACT
92339468 TTTGAAACAAAG
1 TTTGAAACAAAG
92339480 GCATGAGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (27 bp):
TTTGAAACAAAGACTTGATTTTATACT
Found at i:92339492 original size:27 final size:27
Alignment explanation
Indices: 92339440--92339492 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
92339430 GATTTTATGA
* * *
92339440 TTTTGAAACAAAGACTTGATTTTATAC
1 TTTTGAAACAAAGACATGAGTGTATAC
*
92339467 TTTTGAAACAAAGGCATGAGTGTATA
1 TTTTGAAACAAAGACATGAGTGTATA
92339493 AAACTGGCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (27 bp):
TTTTGAAACAAAGACATGAGTGTATAC
Found at i:92340350 original size:27 final size:28
Alignment explanation
Indices: 92340312--92340364 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
92340302 TTTCAATTTC
92340312 AAGTCATAAAATAT-TTTGAAAACAACT
1 AAGTCATAAAATATATTTGAAAACAACT
* *
92340339 AAGTGCAT-AAATTTATTTGAACACAA
1 AAGT-CATAAAATATATTTGAAAACAA
92340365 TATCATGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.30
Consensus pattern (28 bp):
AAGTCATAAAATATATTTGAAAACAACT
Found at i:92346122 original size:26 final size:26
Alignment explanation
Indices: 92346091--92346159 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
92346081 CTTATGAACG
*
92346091 TCCCGA-TATATGGCTCTTTGTGAGCT
1 TCCCGATTA-ATGGCTCTTTGTGAGCC
*
92346117 TCCCGATTAAAGGCTCTTTGTGAGCC
1 TCCCGATTAATGGCTCTTTGTGAGCC
*
92346143 TCCTGATTAATGGCTCT
1 TCCCGATTAATGGCTCT
92346160 CCAGAGCTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 36 0.95
27 2 0.05
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
TCCCGATTAATGGCTCTTTGTGAGCC
Found at i:92346240 original size:25 final size:25
Alignment explanation
Indices: 92346100--92346240 Score: 99
Period size: 25 Copynumber: 5.6 Consensus size: 25
92346090 GTCCCGATAT
*
92346100 ATGGCTCTTTGTGAGCTTCCCGATTA
1 ATGGCTCTTTG-GAGCTTCCTGATTA
* *
92346126 AAGGCTCTTTGTGAGCCTCCTGATTA
1 ATGGCTCTTTG-GAGCTTCCTGATTA
*** *
92346152 ATGGCTCTCCAGAGCTACCTGA-T-
1 ATGGCTCTTTGGAGCTTCCTGATTA
* * * * *
92346175 ATGGTTCGTTAGAACTTCCCGA-TA
1 ATGGCTCTTTGGAGCTTCCTGATTA
* * *
92346199 TATGGCTATCTGAAGCTTCCTGATTA
1 -ATGGCTCTTTGGAGCTTCCTGATTA
92346225 ATGGCTCTTTGGAGCT
1 ATGGCTCTTTGGAGCT
92346241 ACCCATTATT
Statistics
Matches: 85, Mismatches: 27, Indels: 7
0.71 0.23 0.06
Matches are distributed among these distances:
23 16 0.19
24 1 0.01
25 36 0.42
26 32 0.38
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (25 bp):
ATGGCTCTTTGGAGCTTCCTGATTA
Found at i:92357661 original size:22 final size:22
Alignment explanation
Indices: 92357635--92357679 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
92357625 TTTTGAAACC
*
92357635 ATAACTTTAAATTCCAAACCTA
1 ATAACTTCAAATTCCAAACCTA
92357657 ATAACTTCAAATTCCAAACCTA
1 ATAACTTCAAATTCCAAACCTA
92357679 A
1 A
92357680 CTCGTCATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (22 bp):
ATAACTTCAAATTCCAAACCTA
Found at i:92359215 original size:19 final size:20
Alignment explanation
Indices: 92359178--92359215 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
92359168 TAGTTTTTTA
*
92359178 ATTGATTTAAAAAATGTTTC
1 ATTGAGTTAAAAAATGTTTC
92359198 ATTGAGTTAAAAAA-GTTT
1 ATTGAGTTAAAAAATGTTT
92359216 AAACCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (20 bp):
ATTGAGTTAAAAAATGTTTC
Found at i:92361359 original size:15 final size:16
Alignment explanation
Indices: 92361330--92361364 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
92361320 TTGTTGAGTT
92361330 TAAAAAATTACAAAGA
1 TAAAAAATTACAAAGA
92361346 TAAAAAATTA-AAAGA
1 TAAAAAATTACAAAGA
92361361 -AAAA
1 TAAAA
92361365 GAAAAAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 5 0.26
16 10 0.53
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (16 bp):
TAAAAAATTACAAAGA
Found at i:92364744 original size:15 final size:15
Alignment explanation
Indices: 92364724--92364754 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
92364714 TGGATGCACA
92364724 TCCATCTACCTTCAC
1 TCCATCTACCTTCAC
*
92364739 TCCATCTGCCTTCAC
1 TCCATCTACCTTCAC
92364754 T
1 T
92364755 GGTAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.45, G:0.03, T:0.35
Consensus pattern (15 bp):
TCCATCTACCTTCAC
Found at i:92372669 original size:25 final size:26
Alignment explanation
Indices: 92372641--92372697 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
92372631 TGGTGTTATC
* * *
92372641 AAAAATTGGTATTTG-ATTAAAAATT
1 AAAAATTGGAATTGGAATTAAAAATG
*
92372666 AAAAA-TGGAATTGGAATTGAAAATG
1 AAAAATTGGAATTGGAATTAAAAATG
92372691 AAAAATT
1 AAAAATT
92372698 TGACTTCCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 7 0.27
25 18 0.69
26 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (26 bp):
AAAAATTGGAATTGGAATTAAAAATG
Found at i:92377411 original size:36 final size:36
Alignment explanation
Indices: 92377363--92377434 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
92377353 GAGTGAGACA
92377363 TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
1 TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
* * *
92377399 TTGAATGTGATGGGATAGGTGTAGTGGAGGTAGGTG
1 TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
92377435 GCGTATTTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.00, G:0.47, T:0.28
Consensus pattern (36 bp):
TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
Found at i:92381040 original size:28 final size:28
Alignment explanation
Indices: 92381008--92381075 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 28
92380998 ATTAATTAAT
* *
92381008 TTTTTAAATTTAAAAAGTATAGAACATA
1 TTTTTAAATTTAAAAAGTATAAAAAATA
**
92381036 TTTTTAAAAAATAAAAAGTATAAAAAATA
1 TTTTT-AAATTTAAAAAGTATAAAAAATA
92381065 TTTTTAAATTT
1 TTTTTAAATTT
92381076 TTAATTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 9 0.27
29 24 0.73
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (28 bp):
TTTTTAAATTTAAAAAGTATAAAAAATA
Found at i:92382335 original size:63 final size:63
Alignment explanation
Indices: 92382236--92382357 Score: 244
Period size: 63 Copynumber: 1.9 Consensus size: 63
92382226 TTTTTTAAAG
92382236 AAATGCTATTATAAATTATAATTAAAGGATAAGTATAATGCAAATATAAATATATTGTGGAGT
1 AAATGCTATTATAAATTATAATTAAAGGATAAGTATAATGCAAATATAAATATATTGTGGAGT
92382299 AAATGCTATTATAAATTATAATTAAAGGATAAGTATAATGCAAATATAAATATATTGTG
1 AAATGCTATTATAAATTATAATTAAAGGATAAGTATAATGCAAATATAAATATATTGTG
92382358 AAGTGTGTCT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (63 bp):
AAATGCTATTATAAATTATAATTAAAGGATAAGTATAATGCAAATATAAATATATTGTGGAGT
Found at i:92385037 original size:289 final size:289
Alignment explanation
Indices: 92384518--92385091 Score: 1085
Period size: 289 Copynumber: 2.0 Consensus size: 289
92384508 GTAGGTTACA
* *
92384518 TGATTAAAGACGATGCCAGGACATCGAAAAGCAAAAGGAAAGACAAAGTTGTCGACGAATAACTA
1 TGATTAAAGACGATGCCAGGACATCGAAAAGCAAAAGAAAAGACAAAGTTGTCAACGAATAACTA
*
92384583 ATTTGGTTTCTGCTCTGATAATTCGAGTTCATTATATATTTATATGTATATGTTCAACTCGTTAA
66 ATTTGGTTTCTGCTCTGATAATTCAAGTTCATTATATATTTATATGTATATGTTCAACTCGTTAA
92384648 ATGTTCCATAATGGTAAACTATCAGTGTGATTGTATTTGAAAGGTACGTATATACTTAATTATGT
131 ATGTTCCATAATGGTAAACTATCAGTGTGATTGTATTTGAAAGGTACGTATATACTTAATTATGT
*
92384713 GGTTTGCAATAATTGGTAAGTGATTTGTATATGTATATTGCTTGTGTGGTGATATATGATCATTA
196 GGTTTGCAATAATTGGTAAGTGATTTGTATATGTATATTGCTTGTGTAGTGATATATGATCATTA
92384778 ATCATGAATTTTCCCTATTAACGTTGTCG
261 ATCATGAATTTTCCCTATTAACGTTGTCG
92384807 TGATTAAAGACGATGCCAGGACATCGAAAAGCAAAAGAAAAGACAAAGTTGTCAACGAATAACTA
1 TGATTAAAGACGATGCCAGGACATCGAAAAGCAAAAGAAAAGACAAAGTTGTCAACGAATAACTA
92384872 ATTTGGTTTCTGCTCTGATAATTCAAGTTCATTATATATTTATATGTATATGTTCAACTCGTTAA
66 ATTTGGTTTCTGCTCTGATAATTCAAGTTCATTATATATTTATATGTATATGTTCAACTCGTTAA
* *
92384937 ATGTTCCATATTGGTAAACTATCAGTGTGATTGTATTTGAAAGGTACGTATATATTTAATTATGT
131 ATGTTCCATAATGGTAAACTATCAGTGTGATTGTATTTGAAAGGTACGTATATACTTAATTATGT
*
92385002 GGTTTGCAATAATTGGTATGTGATTTGTATATGTATATTGCTTGTGTAGTGATATATGATCATTA
196 GGTTTGCAATAATTGGTAAGTGATTTGTATATGTATATTGCTTGTGTAGTGATATATGATCATTA
92385067 ATCATGAATTTTCCCTATTAACGTT
261 ATCATGAATTTTCCCTATTAACGTT
92385092 TTCGGATAGA
Statistics
Matches: 278, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
289 278 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (289 bp):
TGATTAAAGACGATGCCAGGACATCGAAAAGCAAAAGAAAAGACAAAGTTGTCAACGAATAACTA
ATTTGGTTTCTGCTCTGATAATTCAAGTTCATTATATATTTATATGTATATGTTCAACTCGTTAA
ATGTTCCATAATGGTAAACTATCAGTGTGATTGTATTTGAAAGGTACGTATATACTTAATTATGT
GGTTTGCAATAATTGGTAAGTGATTTGTATATGTATATTGCTTGTGTAGTGATATATGATCATTA
ATCATGAATTTTCCCTATTAACGTTGTCG
Found at i:92387124 original size:39 final size:39
Alignment explanation
Indices: 92387070--92387212 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
92387060 TAATATTCGT
* *
92387070 TTGAGCA-ACTTTCAGTACAATCAGTAGGTATGGCTCAA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* *
92387108 TTGATCATACTTTCAGTAGAATCAGTGGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* *
92387147 TTGAGCATACTTTCAGGAGAATCAGTAGGTATGGCCCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
92387186 TTGAGCATACTTTCAGTAGAATCAGTA
1 TTGAGCATACTTTCAGTAGAATCAGTA
92387213 TCCCATTTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 6 0.06
39 89 0.94
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (39 bp):
TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
Found at i:92387189 original size:78 final size:77
Alignment explanation
Indices: 92387042--92387211 Score: 234
Period size: 78 Copynumber: 2.2 Consensus size: 77
92387032 TGCGATTTTA
* * * * *
92387042 TTCAGTATAATCAGTGGGTAATATTCGTTTGAGCAACTTTCAGTACAATCAGTAGGTATGGCTCA
1 TTCAGTAGAATCAGTGGGTAATACTCGATTGAGCAACTTTCAGGACAATCAGTAGGTATGGCCCA
*
92387107 ATTGATCATACT
66 ATTGAGCATACT
* *
92387119 TTCAGTAGAATCAGTGGGT-ATGGCTCGATTGAGCATACTTTCAGGAGAATCAGTAGGTATGGCC
1 TTCAGTAGAATCAGTGGGTAAT-ACTCGATTGAGCA-ACTTTCAGGACAATCAGTAGGTATGGCC
*
92387183 CGATTGAGCATACT
64 CAATTGAGCATACT
92387197 TTCAGTAGAATCAGT
1 TTCAGTAGAATCAGT
92387212 ATCCCATTTT
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
76 2 0.02
77 28 0.34
78 52 0.63
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (77 bp):
TTCAGTAGAATCAGTGGGTAATACTCGATTGAGCAACTTTCAGGACAATCAGTAGGTATGGCCCA
ATTGAGCATACT
Found at i:92389177 original size:22 final size:23
Alignment explanation
Indices: 92389151--92389195 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
92389141 TAGATAAGTT
*
92389151 GGTCTCAAGACAAT-CCCATCAA
1 GGTCTCAAGACAATGCACATCAA
92389173 GGTCTCAAGACAATGCACATCAA
1 GGTCTCAAGACAATGCACATCAA
92389196 AGCTAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.38, C:0.29, G:0.16, T:0.18
Consensus pattern (23 bp):
GGTCTCAAGACAATGCACATCAA
Found at i:92389897 original size:21 final size:22
Alignment explanation
Indices: 92389873--92389945 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 22
92389863 AAAAAAATTT
*
92389873 AATTCAAACA-AAAATACAATC
1 AATTTAAACACAAAATACAATC
92389894 AATTTAAACACATAAAT--AATC
1 AATTTAAACACA-AAATACAATC
* * *
92389915 GATTTAAACATAAGA-ACAATC
1 AATTTAAACACAAAATACAATC
92389936 AATTTAAACA
1 AATTTAAACA
92389946 TATGGACAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.05
21 36 0.84
22 1 0.02
23 4 0.09
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.25
Consensus pattern (22 bp):
AATTTAAACACAAAATACAATC
Found at i:92389937 original size:42 final size:42
Alignment explanation
Indices: 92389888--92389985 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
92389878 AAACAAAAAT
* *
92389888 ACAATCAATTTAAACACATAAATAATCGATTTAAACATAAGA
1 ACAATCAATTTAAACACATAAACAATCGATTTAAAAATAAGA
* **
92389930 ACAATCAATTTAAACATATGGACAATCGATTTAAAAATAAGA
1 ACAATCAATTTAAACACATAAACAATCGATTTAAAAATAAGA
* *
92389972 GCAATCGATTTAAA
1 ACAATCAATTTAAA
92389986 AGACGTTGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (42 bp):
ACAATCAATTTAAACACATAAACAATCGATTTAAAAATAAGA
Found at i:92389946 original size:21 final size:21
Alignment explanation
Indices: 92389888--92389985 Score: 108
Period size: 21 Copynumber: 4.7 Consensus size: 21
92389878 AAACAAAAAT
* *
92389888 ACAATCAATTTAAACACATA-A
1 ACAATCGATTTAAACATA-AGA
*
92389909 ATAATCGATTTAAACATAAGA
1 ACAATCGATTTAAACATAAGA
* * *
92389930 ACAATCAATTTAAACATATGG
1 ACAATCGATTTAAACATAAGA
*
92389951 ACAATCGATTTAAAAATAAGA
1 ACAATCGATTTAAACATAAGA
*
92389972 GCAATCGATTTAAA
1 ACAATCGATTTAAA
92389986 AGACGTTGTA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 1 0.02
21 63 0.98
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (21 bp):
ACAATCGATTTAAACATAAGA
Found at i:92395746 original size:31 final size:31
Alignment explanation
Indices: 92395711--92395773 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
92395701 TAAAAAAGAA
92395711 AAAAAATCAACAAGTAACATTTACATGTGTC
1 AAAAAATCAACAAGTAACATTTACATGTGTC
92395742 AAAAAATCAACAAGTAACATTTACATGTGTC
1 AAAAAATCAACAAGTAACATTTACATGTGTC
92395773 A
1 A
92395774 TTTTCTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.25
Consensus pattern (31 bp):
AAAAAATCAACAAGTAACATTTACATGTGTC
Found at i:92397122 original size:89 final size:88
Alignment explanation
Indices: 92396976--92397176 Score: 251
Period size: 89 Copynumber: 2.2 Consensus size: 88
92396966 TCTCAATTTA
* * *
92396976 AAAAAAAAGAAGCAATTAAGCCTCTCCTTTTTTTGCATTCAATTGAGTACTTAAACTTTTAAAAT
1 AAAAAAAA-AAGCAATTAAGCC-CTCCTTTTTTTGCACTCAATTAAGTACTTAAACTTTCAAAAT
* *
92397041 GTATCAAAAAGACCCTCAAAC-TTT
64 GCATAAAAAAGACCCTCAAACTTTT
*
92397065 AAAAAAAAAAGCAATTAAGCCCTACCTTTTTTTTGCACTCAATTAAGTACTTGAACTTTCAAAAT
1 AAAAAAAAAAGCAATTAAGCCCT-CC-TTTTTTTGCACTCAATTAAGTACTTAAACTTTCAAAAT
** *
92397130 GCATAAAAAAGACGTTGAAACTTTT
64 GCATAAAAAAGACCCTCAAACTTTT
***
92397155 TTCAAAAAAAGCAATTAAGCCC
1 AAAAAAAAAAGCAATTAAGCCC
92397177 CTGCTTTTAT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
87 2 0.02
88 15 0.15
89 58 0.60
90 22 0.23
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (88 bp):
AAAAAAAAAAGCAATTAAGCCCTCCTTTTTTTGCACTCAATTAAGTACTTAAACTTTCAAAATGC
ATAAAAAAGACCCTCAAACTTTT
Found at i:92397287 original size:27 final size:26
Alignment explanation
Indices: 92397239--92397290 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
92397229 AGCTATAAAT
*
92397239 ATTATTAAATTTTAATAAAAAATTAA
1 ATTATTAAAATTTAATAAAAAATTAA
*
92397265 ATTATTAAAAATTTATTAAAAAATTA
1 ATTATT-AAAATTTAATAAAAAATTA
92397291 GAAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTATTAAAATTTAATAAAAAATTAA
Found at i:92397290 original size:8 final size:9
Alignment explanation
Indices: 92397281--92397348 Score: 77
Period size: 9 Copynumber: 7.6 Consensus size: 9
92397271 AAAAATTTAT
92397281 TAAAAAAT-
1 TAAAAAATA
92397289 TAGAAAAATA
1 TA-AAAAATA
* *
92397299 TAAAAATTG
1 TAAAAAATA
92397308 TAAAAAATA
1 TAAAAAATA
92397317 TAAAAAATA
1 TAAAAAATA
*
92397326 T-ATAAATA
1 TAAAAAATA
92397334 TAAAAAAATA
1 T-AAAAAATA
92397344 TAAAA
1 TAAAA
92397349 TTTTATAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
8 9 0.18
9 32 0.64
10 9 0.18
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (9 bp):
TAAAAAATA
Found at i:92397297 original size:9 final size:8
Alignment explanation
Indices: 92397254--92397348 Score: 55
Period size: 9 Copynumber: 10.6 Consensus size: 8
92397244 TAAATTTTAA
92397254 TAAAAAAT
1 TAAAAAAT
**
92397262 TAAATTAT
1 TAAAAAAT
92397270 TAAAAATTTAT
1 TAAAAA---AT
92397281 TAAAAAAT
1 TAAAAAAT
92397289 TAGAAAAAT
1 TA-AAAAAT
*
92397298 ATAAAAATT
1 -TAAAAAAT
92397307 GTAAAAAAT
1 -TAAAAAAT
92397316 ATAAAAAAT
1 -TAAAAAAT
*
92397325 ATATAAATAT
1 -TA-AAAAAT
*
92397335 AAAAAAAT
1 TAAAAAAT
92397343 ATAAAA
1 -TAAAA
92397349 TTTTATAAAG
Statistics
Matches: 68, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
8 19 0.28
9 34 0.50
10 7 0.10
11 8 0.12
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (8 bp):
TAAAAAAT
Found at i:92397304 original size:18 final size:17
Alignment explanation
Indices: 92397254--92397340 Score: 70
Period size: 18 Copynumber: 4.9 Consensus size: 17
92397244 TAAATTTTAA
**
92397254 TAAAAAAT-TAAATTAT
1 TAAAAAATATAAAAAAT
*
92397270 TAAAAATTTATTAAAAAAT
1 TAAAAA-ATA-TAAAAAAT
*
92397289 TAGAAAAATATAAAAATT
1 TA-AAAAATATAAAAAAT
92397307 GTAAAAAATATAAAAAA-
1 -TAAAAAATATAAAAAAT
*
92397324 TATATAAATATAAAAAA
1 TA-AAAAATATAAAAAA
92397341 ATATAAAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
16 8 0.14
17 14 0.24
18 20 0.34
19 12 0.21
20 4 0.07
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAAAAATATAAAAAAT
Found at i:92397305 original size:17 final size:17
Alignment explanation
Indices: 92397283--92397339 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
92397273 AAATTTATTA
92397283 AAAAATTAGAAAAATAT
1 AAAAATTAGAAAAATAT
92397300 AAAAATT-GTAAAAAATAT
1 AAAAATTAG--AAAAATAT
* * *
92397318 AAAAAATATATAAATAT
1 AAAAATTAGAAAAATAT
92397335 AAAAA
1 AAAAA
92397340 AATATAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.03
17 19 0.56
18 14 0.41
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (17 bp):
AAAAATTAGAAAAATAT
Found at i:92397340 original size:17 final size:16
Alignment explanation
Indices: 92397312--92397347 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
92397302 AAATTGTAAA
92397312 AAATATAAAAAATATAT
1 AAATATAAAAAA-ATAT
92397329 AAATATAAAAAAATAT
1 AAATATAAAAAAATAT
92397345 AAA
1 AAA
92397348 ATTTTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATATAAAAAAATAT
Found at i:92397640 original size:8 final size:8
Alignment explanation
Indices: 92397621--92397650 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
92397611 AAATTCTATT
92397621 TTTTATAAA
1 TTTTA-AAA
92397630 TTTTAAAA
1 TTTTAAAA
92397638 TTTTAAAA
1 TTTTAAAA
92397646 TTTTA
1 TTTTA
92397651 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TTTTAAAA
Found at i:92397654 original size:19 final size:19
Alignment explanation
Indices: 92397632--92397679 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
92397622 TTTATAAATT
92397632 TTAAAATTTTAA-AATTTTA
1 TTAAAATTTTAATAA-TTTA
92397651 TTAAAA-TTTAATAATTTA
1 TTAAAATTTTAATAATTTA
92397669 TCTAAAATTTT
1 T-TAAAATTTT
92397680 TTATTTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 10 0.38
19 13 0.50
20 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAAATTTTAATAATTTA
Found at i:92397867 original size:87 final size:87
Alignment explanation
Indices: 92397718--92397889 Score: 238
Period size: 87 Copynumber: 2.0 Consensus size: 87
92397708 TAATAAGAGA
* * * *
92397718 AGGGGCGTAATTGCTTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTA
1 AGGGGCGTAATTGCTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATACATTTTGAAAGCTCAAGTA
*
92397783 CCCAATTGAGT-AAAAAAAAGC
66 CCCAATCGAGTGAAAAAAAAGC
* * *
92397804 AGGGGCTTAATTGCTTTTTTTGAAGAAGTTTGAGGGCCTTTTTGATATATTTTGAAAGCTCAAGT
1 AGGGGCGTAATTGC-TTTTTTGAAAAAGTTTGAGGGCCTTTTTGATACATTTTGAAAGCTCAAGT
* *
92397869 GCTCAATCGAGTGAAAAAAAA
65 ACCCAATCGAGTGAAAAAAAA
92397890 TAAAAGGAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 13 0.18
87 53 0.72
88 8 0.11
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (87 bp):
AGGGGCGTAATTGCTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATACATTTTGAAAGCTCAAGTA
CCCAATCGAGTGAAAAAAAAGC
Found at i:92398543 original size:3 final size:3
Alignment explanation
Indices: 92398535--92398561 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
92398525 AAAAATGAAA
92398535 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
92398562 CATGCGTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:92407181 original size:18 final size:18
Alignment explanation
Indices: 92407158--92407196 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
92407148 GGGTTTAGTT
92407158 CATAACTAAATAAGAAAA
1 CATAACTAAATAAGAAAA
92407176 CATAACTAAATAAGAAAA
1 CATAACTAAATAAGAAAA
92407194 CAT
1 CAT
92407197 CTCCGAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.13, G:0.05, T:0.18
Consensus pattern (18 bp):
CATAACTAAATAAGAAAA
Found at i:92409933 original size:72 final size:72
Alignment explanation
Indices: 92409741--92409930 Score: 258
Period size: 72 Copynumber: 2.7 Consensus size: 72
92409731 TGACTTGAAA
* * * * *
92409741 CACACGGTCAAGTCACACGCCCGTTTGCTAGGCTATGTGAGTAATTTAATTTGCATAAAATAGGT
1 CACACGGCCAAGCCACACGACCGTATGCTAGGCTGTGTGAGTAATTTAATTTGCATAAAATAGGT
*
92409806 GTAAGGT
66 GCAAGGT
* *
92409813 CACACGGCCAAGCCACACGTCCGTATGCTAGGCCGTGTGAGTAATTTAATTTGCATAAAATAGGT
1 CACACGGCCAAGCCACACGACCGTATGCTAGGCTGTGTGAGTAATTTAATTTGCATAAAATAGGT
*
92409878 GCAGGGT
66 GCAAGGT
* *
92409885 CACATGGCCAAGCCACAC-ACTGTATGCTAGGCTGTGTG-GATAATTT
1 CACACGGCCAAGCCACACGACCGTATGCTAGGCTGTGTGAG-TAATTT
92409931 TAAGCATGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
70 1 0.01
71 23 0.22
72 81 0.77
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (72 bp):
CACACGGCCAAGCCACACGACCGTATGCTAGGCTGTGTGAGTAATTTAATTTGCATAAAATAGGT
GCAAGGT
Found at i:92410968 original size:25 final size:25
Alignment explanation
Indices: 92410936--92411056 Score: 111
Period size: 25 Copynumber: 4.8 Consensus size: 25
92410926 GAAACTCTTT
92410936 CGAGCCATATAACAGGAAGCTTATG
1 CGAGCCATATAACAGGAAGCTTATG
* * * *
92410961 CGAACCATGTAACAAGAAGCTTATA
1 CGAGCCATATAACAGGAAGCTTATG
* *
92410986 CGAGCCATGTAAC-GCGAAGCTCTTTG
1 CGAGCCATATAACAG-GAAGCT-TATG
*
92411012 -GAGCCATATAACAGGAAGCTCATG
1 CGAGCCATATAACAGGAAGCTTATG
** * *
92411036 TAAGCCATGTAACGGGAAGCT
1 CGAGCCATATAACAGGAAGCT
92411057 CTGGAGAGCC
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
24 2 0.03
25 73 0.94
26 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTTATG
Found at i:92411057 original size:25 final size:24
Alignment explanation
Indices: 92410988--92411081 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 24
92410978 AGCTTATACG
* * *
92410988 AGCCATGTAACGCGAAGCTCTTTGG
1 AGCCATGTAACGGGAAGCTCTGT-A
* *
92411013 AGCCATATAACAGGAAGCTCATGTA
1 AGCCATGTAACGGGAAGCTC-TGTA
*
92411038 AGCCATGTAACGGGAAGCTCTGGA
1 AGCCATGTAACGGGAAGCTCTGTA
*
92411062 GAGCCAT-TATCGGGAAGCTC
1 -AGCCATGTAACGGGAAGCTC
92411082 ATACGAGCCA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
24 15 0.26
25 41 0.71
26 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (24 bp):
AGCCATGTAACGGGAAGCTCTGTA
Found at i:92411066 original size:50 final size:49
Alignment explanation
Indices: 92410988--92411083 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 49
92410978 AGCTTATACG
*
92410988 AGCCATGTAACGCGAAGCTCTTTGGAGCCATATAACAGGAAGCTCATGTA
1 AGCCATGTAACGCGAAGCTCTTGGGAGCCAT-TAACAGGAAGCTCATGTA
* * *
92411038 AGCCATGTAACGGGAAGCTC-TGGAGAGCCATTATCGGGAAGCTCAT
1 AGCCATGTAACGCGAAGCTCTTGG-GAGCCATTAACAGGAAGCTCAT
92411084 ACGAGCCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
49 15 0.37
50 26 0.63
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (49 bp):
AGCCATGTAACGCGAAGCTCTTGGGAGCCATTAACAGGAAGCTCATGTA
Found at i:92411066 original size:75 final size:74
Alignment explanation
Indices: 92410921--92411091 Score: 184
Period size: 75 Copynumber: 2.3 Consensus size: 74
92410911 TGAGTACATA
* * *
92410921 AACGAGAAACTCTTTCGAGCCATATAACAGGAAGCTTATGCGAACCATGTAACAAGAAGCTTATA
1 AACGAGAAGCTCTTTCGAGCCATATAACAGGAAGCTCATGCGAACCATGTAACAAGAAGCTTAGA
92410986 CGAGCCATGT
66 CGAGCCAT-T
* * * ** *
92410996 AACGCGAAGCTCTTTGGAGCCATATAACAGGAAGCTCATG-TAAGCCATGTAACGGGAAGCTCTG
1 AACGAGAAGCTCTTTCGAGCCATATAACAGGAAGCTCATGCGAA-CCATGTAACAAGAAGCT-TA
92411060 GA-GAGCCATT
64 GACGAGCCATT
* * * *
92411070 ATCGGGAAGCTCATACGAGCCA
1 AACGAGAAGCTCTTTCGAGCCA
92411092 ATGTCGGGAA
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
74 20 0.25
75 58 0.73
76 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (74 bp):
AACGAGAAGCTCTTTCGAGCCATATAACAGGAAGCTCATGCGAACCATGTAACAAGAAGCTTAGA
CGAGCCATT
Found at i:92411080 original size:24 final size:25
Alignment explanation
Indices: 92411025--92411201 Score: 105
Period size: 24 Copynumber: 7.1 Consensus size: 25
92411015 CCATATAACA
* *
92411025 GGAAGCTCATGTA-AGCCATGTAACG
1 GGAAGCTCATGAAGAGCCAT-TATCG
*
92411050 GGAAGCTC-TGGAGAGCCATTATCG
1 GGAAGCTCATGAAGAGCCATTATCG
* * *
92411074 GGAAGCTCAT-ACGAGCCAATGTCG
1 GGAAGCTCATGAAGAGCCATTATCG
* * * *
92411098 GGAAGGT--TCAAGCATGCTAATATCG
1 GGAAGCTCATGAAG-A-GCCATTATCG
* * * *
92411123 AGAAGCTC-TGGAGAGCCATTAACA
1 GGAAGCTCATGAAGAGCCATTATCG
** *
92411147 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCATGAAGAGCCATT-ATCG
*
92411173 GGAAGCTCACGAAGAGCCATATATCG
1 GGAAGCTCATGAAGAGCCAT-TATCG
92411199 GGA
1 GGA
92411202 TCCTCGTAAG
Statistics
Matches: 116, Mismatches: 27, Indels: 17
0.73 0.17 0.11
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 45 0.39
25 37 0.32
26 30 0.26
27 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.19
Consensus pattern (25 bp):
GGAAGCTCATGAAGAGCCATTATCG
Found at i:92411169 original size:25 final size:26
Alignment explanation
Indices: 92411134--92411192 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
92411124 GAAGCTCTGG
92411134 AGAGCCATTAA-CAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * *
92411159 AGAGCCTTTAATCGGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
92411185 AGAGCCAT
1 AGAGCCAT
92411193 ATATCGGGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:92419030 original size:13 final size:13
Alignment explanation
Indices: 92418971--92419056 Score: 50
Period size: 13 Copynumber: 6.4 Consensus size: 13
92418961 TACTTATATT
*
92418971 ATAAGTAAATAATA
1 ATAAATAAATAA-A
* *
92418985 AT-AATTACTAAA
1 ATAAATAAATAAA
*
92418997 ATATAAT-AATATA
1 ATA-AATAAATAAA
**
92419010 ATATAATAGTTAAA
1 ATA-AATAAATAAA
92419024 ATAAATAAATAAA
1 ATAAATAAATAAA
*
92419037 ATAAAAAGAAATAAA
1 AT--AAATAAATAAA
92419052 ATAAA
1 ATAAA
92419057 GAAAAAGGAA
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
12 3 0.05
13 30 0.54
14 11 0.20
15 12 0.21
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (13 bp):
ATAAATAAATAAA
Found at i:92419061 original size:19 final size:19
Alignment explanation
Indices: 92419021--92419063 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
92419011 TATAATAGTT
* *
92419021 AAAATAAATAAATAAAATA
1 AAAAGAAATAAATAAAAGA
92419040 AAAAGAAATAAA-ATAAAGA
1 AAAAGAAATAAATA-AAAGA
92419059 AAAAG
1 AAAAG
92419064 GAAAGAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (19 bp):
AAAAGAAATAAATAAAAGA
Found at i:92421635 original size:46 final size:46
Alignment explanation
Indices: 92421548--92421676 Score: 179
Period size: 46 Copynumber: 2.8 Consensus size: 46
92421538 TGATGTCATA
* * * * * *
92421548 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCAGGTTGCCATG
92421594 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
92421640 GTATCTTTTAACCATGGTCTTACACATTTCATATCAG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
92421677 AGAGTACACT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
45 4 0.05
46 71 0.95
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
Found at i:92441820 original size:29 final size:30
Alignment explanation
Indices: 92441773--92441841 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
92441763 TGGCCCAAGA
* * *
92441773 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TGAAAAGTTGAAGGACTAATAGT
92441803 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATGAAAAGTTGAAGGACTAATAGT
*
92441833 GCAAATATG
1 GTAAATATG
92441842 TTAAGGGTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.47
30 18 0.53
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.28
Consensus pattern (30 bp):
GTAAATATGAAAAGTTGAAGGACTAATAGT
Found at i:92441841 original size:30 final size:29
Alignment explanation
Indices: 92441783--92441841 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
92441773 GTAAATACTC
* * *
92441783 AAAATTTGAAGGATTAAAGTGTAAATATG
1 AAAAGTTGAAGGACTAAAGTGCAAATATG
92441812 AAAAGTTGAAGGACTAATAGTGCAAATATG
1 AAAAGTTGAAGGACTAA-AGTGCAAATATG
92441842 TTAAGGGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.47, C:0.03, G:0.22, T:0.27
Consensus pattern (29 bp):
AAAAGTTGAAGGACTAAAGTGCAAATATG
Found at i:92444017 original size:46 final size:46
Alignment explanation
Indices: 92443965--92444238 Score: 478
Period size: 46 Copynumber: 6.0 Consensus size: 46
92443955 AGTGTGCTCT
92443965 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
92444011 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
92444057 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
92444103 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
92444149 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
92444195 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
92444239 TCATGTCAAA
Statistics
Matches: 221, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
45 1 0.00
46 220 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:92447604 original size:65 final size:65
Alignment explanation
Indices: 92447482--92447605 Score: 142
Period size: 65 Copynumber: 1.9 Consensus size: 65
92447472 AGTATCTCCT
* ** *
92447482 TAAGTATCACACGGCCATAACACATAGGCGTGTTATGTGGCCGTGGGCTTAATTCAGTAGCTGGC
1 TAAGTATCACACGGCCATAACACACAGGCGTGTTATGTGGCCGTGGGCAAAAGTCAGTAGCTGGC
* * * * * *
92447547 TAAGTATCACATGGCCATAGCACACGGGCGTG-TCTGTTGGTCGTGGGGAAAAGTCAGTA
1 TAAGTATCACACGGCCATAACACACAGGCGTGTTATG-TGGCCGTGGGCAAAAGTCAGTA
92447606 TGCATGCTCT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
64 3 0.06
65 45 0.94
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (65 bp):
TAAGTATCACACGGCCATAACACACAGGCGTGTTATGTGGCCGTGGGCAAAAGTCAGTAGCTGGC
Found at i:92449198 original size:43 final size:42
Alignment explanation
Indices: 92449151--92449248 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
92449141 CCTAGACGTA
**
92449151 GTCTTACATGTAATTGAATATCGATGCC-ACTGTCCCAGACAGG
1 GTCTTACATGTAATCAAATA-CGATGCCGA-TGTCCCAGACAGG
* * *
92449194 GTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACATG
1 GTCTTACATGTAATCAAATACGATGCCGATGTCCCAGACAGG
92449236 GTCTTACATGTAA
1 GTCTTACATGTAA
92449249 ATCATAAGTC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 30 0.64
43 17 0.36
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (42 bp):
GTCTTACATGTAATCAAATACGATGCCGATGTCCCAGACAGG
Found at i:92452605 original size:44 final size:44
Alignment explanation
Indices: 92452443--92453751 Score: 361
Period size: 44 Copynumber: 28.8 Consensus size: 44
92452433 CATCGTGGTG
* * * * *
92452443 AATCTTATCTCCTGAAA-TTGTAGTGGAGCAGATTAAAGCCA-C
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCTATA
* * * *
92452485 AATCTTATCTCCTTGAAGTTGCAGTTGAGCT-GATTAAAGATAGCA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAG-TAGATTAAAGCTA-TA
* ** *
92452530 AATCTTATC-CCTCTGAAGTTATAGTAGAGTAGATTAAAGCTATA
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGTAGATTAAAGCTATA
* * * * *
92452574 AACCTTATCTCCTTAAAGTTGCAGTGCAGTAGGTTGAAGTTA-A
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCTATA
* * * * *
92452617 AAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAA--TATA
1 AA-TCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCTATA
* * * * * *
92452660 CGAATCTTATTTCCCTAAAGTTGCAATGGAATGGATTAATGCTACAAGTTA
1 --AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCT---A--TA
* * * * * *
92452711 CAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACA
1 -AA-TCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCT-ATA
* * * *
92452758 AATCTTATCT-CTCTAAAGTTGCAATAGAGCATATTAAAGCTATA
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGTAGATTAAAGCTATA
* * * * ***
92452802 AACCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTAAAGATGCG
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCTATA
* * * * * *
92452846 AATCTTATTTTCC-TGATGTTACAGTGGAGTATG-TTGAAGTTATA
1 AATCTTA-TCTCCTTAAAGTTGCAGTGGAGTA-GATTAAAGCTATA
* * * * * ** * * ** *
92452890 AGTCTTATCTCCCTAAAATTACAATGGAACAAATTGAATATAACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCT-ATA
* * ** * * *
92452935 AATCTTATCT-CTCTGAAGTTGTAGTAAAGCAGCTTAAAGTTATA
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGTAGATTAAAGCTATA
* * * * * *
92452979 AACCTTACCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAA-TTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATT-AAAGCTATA
* ** * * * * * *
92453023 AGTCTTATCTCCCAAAAATTGCAGTGGAGCAGACTGAAGATATCG
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCTAT-A
* * * ** *
92453068 AATCTTATTTCCCTGAAGTTGCAGTGGAACATATTAAAGCTACAAATTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCT----A-T--A
* * * * * * *
92453119 AATCTTATCTTCC-TGAAGTTGCAATGGAGCATATTGAAGTTACA
1 AATCTTATC-TCCTTAAAGTTGCAGTGGAGTAGATTAAAGCTATA
* * * * ** * *
92453163 GATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATCGAAGATAGCA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCTA-TA
* ** * * * *
92453208 AATCTTATCT-CTCTAAAGTTGTAGTAAAGCAGATTGAACCTACA
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGTAGATTAAAGCTATA
* * * * * *
92453252 AATCTTATCTCCCTGAAGTTACAGTGGAGCATATTAAAACTACT-
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCTA-TA
* * * * *
92453296 AATCTTATCTCCCTAAAGTTGCAATGGAGTAGATTGAAGCGACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCTATA
* * * * * *
92453340 AGTCCTAT-ACCTCTAAAGTTGCAGT-AAGTCAGATTAGATCTACCATA
1 AATCTTATCTCCT-TAAAGTTGCAGTGGAGT-AGATTAAAGCT---ATA
* * * *
92453387 GCAAGTCTTATCACCCTAAAGTTGCAGTGGAATAGACTAAAGCTTAAAGTCATA
1 --AA-TCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGC------T-ATA
* * ** *
92453441 AATCTTATCTCCTTAAAGTTGTAGTAGAACATATTAAAGCTCCAAGTTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCT---A--T--A
* * * *
92453492 AATCTTATCTCCCTAAAGATGCAGTGGAGTAGATTGAAA-ATACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATT-AAAGCTATA
* ** * * * **
92453536 AATCTTATCTCCTTGAAGTAACAGTGGAGCAGATTGAAGATGCA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCTATA
* * * * *
92453580 AATCTTATTTCCTTAAAGTTTCAGTGGAATGGATTAATGCTACAAGTTACA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCT---A--T--A
* * * * ***
92453631 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGATGCG
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCTATA
* * * * * *
92453675 AATCTTATTTCCCTGAACTTGCAGTGGAGCAGATTGAAGCTACT-
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCTA-TA
* * *
92453719 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGA
1 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGA
92453752 CTGAAGCGAC
Statistics
Matches: 940, Mismatches: 251, Indels: 150
0.70 0.19 0.11
Matches are distributed among these distances:
42 17 0.02
43 38 0.04
44 491 0.52
45 172 0.18
46 3 0.00
47 5 0.01
48 1 0.00
49 6 0.01
50 27 0.03
51 167 0.18
52 8 0.01
54 4 0.00
56 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCTATA
Found at i:92452725 original size:95 final size:96
Alignment explanation
Indices: 92452610--92452782 Score: 285
Period size: 95 Copynumber: 1.8 Consensus size: 96
92452600 CAGTAGGTTG
* * * *
92452610 AAGTTAAAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAATAT-ACGAATCTTATTTCC
1 AAGTTAAAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCTCC
92452674 CTAAAGTTGCAATGGAATGGATTAATGCTAC
66 CTAAAGTTGCAATGGAATGGATTAATGCTAC
* *
92452705 AAGTTACAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCTCT
1 AAGTTAAAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCTCC
92452770 CTAAAGTTGCAAT
66 CTAAAGTTGCAAT
92452783 AGAGCATATT
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
95 46 0.65
96 25 0.35
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (96 bp):
AAGTTAAAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCTCC
CTAAAGTTGCAATGGAATGGATTAATGCTAC
Found at i:92452809 original size:140 final size:138
Alignment explanation
Indices: 92452577--92452829 Score: 328
Period size: 140 Copynumber: 1.8 Consensus size: 138
92452567 AGCTATAAAC
* * * * * * *
92452577 CTTATCTCCTTAAAGTTGCAGTGCAGTAGGTTGAAGTTAAAAGTCTTATCTCCCTGAAGTTGCAA
1 CTTATCTCCCTAAAGTTGCAATGCAGCAGATTGAAGATAAAAATCTTATCTCCCTAAAGTTGCAA
* * * *
92452642 TGGAGCAGATTGAATATACGAATCTTATTTCCCTAAAGTTGCAATGGAATGGATTAATGCTACAA
66 TAGAGCAGATTAAATATAC-AACCTTATCTCCCTAAAGTTGCAATGGAATGGATTAATGCTACAA
92452707 GTTACAAGT
130 GTTACAAGT
* *
92452716 CTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCTCTCTAAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAATGCAGCAGATTGAAGATAA-AAATCTTATCTCCCTAAAGTTGCA
* *
92452781 ATAGAGCATATTAAAGCTATA-AACCTTATCTCCCTAAAGTTGCAGTGGA
65 ATAGAGCAGATTAAA--TATACAACCTTATCTCCCTAAAGTTGCAATGGA
92452830 GTAGGTTAAA
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
139 34 0.35
140 58 0.60
142 4 0.04
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (138 bp):
CTTATCTCCCTAAAGTTGCAATGCAGCAGATTGAAGATAAAAATCTTATCTCCCTAAAGTTGCAA
TAGAGCAGATTAAATATACAACCTTATCTCCCTAAAGTTGCAATGGAATGGATTAATGCTACAAG
TTACAAGT
Found at i:92452830 original size:89 final size:89
Alignment explanation
Indices: 92452705--92453757 Score: 476
Period size: 88 Copynumber: 11.5 Consensus size: 89
92452695 TTAATGCTAC
* * *
92452705 AAGTTACAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCTCT
1 AAGTTATAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCT
* * *
92452770 CTAAAGTTGCAATAGAGCATATTA
66 CTAAAGTTGCAGTAGAGCAGATTG
* * * * * * * *
92452794 AAGCTATAAACCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTAAAGAT-GCGAATCTTAT-TTT
1 AAGTTATAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCT
* * * * *
92452857 CCTGATGTTACAGTGGAGTATG-TTG
66 -CTAAAGTTGCAGTAGAGCA-GATTG
* * * * * * *
92452882 AAGTTATAAGTCTTATCTCCCTAAAATTACAATGGAACAAATTGAATATAACAAATCTTATCTCT
1 AAGTTATAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCT
* * * * *
92452947 CTGAAGTTGTAGTAAAGCAGCTTA
66 CTAAAGTTGCAGTAGAGCAGATTG
* * * * * * *
92452971 AAGTTATAAACCTTACCTCCTTAAAGTTGCAGTGGAGCAGGTTGAA-ATTACAAGTCTTATCTCC
1 AAGTTATAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCT
* * * *
92453035 CAAAAATTGCAGTGGAGCAGACTG
66 CTAAAGTTGCAGTAGAGCAGATTG
* * * * * * * *
92453059 AAGATATCGAATCTTATTTCCCTGAAGTTGCAGTGGAACATATTAAAGCTACAAATTACAAATCT
1 AAGTTAT-AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT---G--A-AGATAACAAATCT
* * * *
92453124 TATCT-TCCTGAAGTTGCAATGGAGCATATTG
59 TATCTCT-CTAAAGTTGCAGTAGAGCAGATTG
* * * * * * *
92453155 AAGTTACAGATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCT
1 AAGTTATAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCT
* *
92453220 CTAAAGTTGTAGTAAAGCAGATTG
66 CTAAAGTTGCAGTAGAGCAGATTG
** * * * * * *
92453244 AACCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCATATT-AAAACT-ACTAATCTTATCTC
1 AAGTTATAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGA-TAACAAATCTTATCTC
* * * *
92453307 CCTAAAGTTGCAATGGAGTAGATTG
65 TCTAAAGTTGCAGTAGAGCAGATTG
** * * * * * * * *
92453332 AAGCGACAAGTCCTATAC-CTCTAAAGTTGCAGT-AAGTCAGATTAGATCTACCATAGCAAGTCT
1 AAGTTATAAATCTTAT-CTCCCTAAAGTTGCAGTGGAG-CAGATT-GA---A-GATAACAAATCT
* * * * *
92453395 TATCACCCTAAAGTTGCAGTGGAATAGACTAAAGCTTA
59 TATCTCTCTAAAGTTGCAGT---AGAG-C---AGATTG
* * * * * * * *
92453433 AAGTCATAAATCTTATCTCCTTAAAGTTGTAGTAGAACATATTAAAGCTCCAAGTTACAAATCTT
1 AAGTTATAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-----A-TAACAAATCTT
* * * *
92453498 ATCTCCCTAAAGATGCAGTGGAGTAGATTG
60 ATCTCTCTAAAGTTGCAGTAGAGCAGATTG
** * * * ** * *
92453528 AAAATACAAATCTTATCTCCTTGAAGTAACAGTGGAGCAGATTGAAGAT-GCAAATCTTATTTC-
1 AAGTTATAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCT
* * * * *
92453591 CTTAAAGTTTCAGTGGAATGGATTAATGCTAC
66 C-TAAAGTTGCAGTAG-A-GCA--GAT--T-G
* * * * * * *
92453623 AAGTTACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGAT-GCGAATCTTATTTCC
1 AAGTTATAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCT
* * *
92453687 CTGAACTTGCAGTGGAGCAGATTG
66 CTAAAGTTGCAGTAGAGCAGATTG
* * * * *
92453711 AAGCTACT-AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAG
1 AAGTTA-TAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG
92453758 CGACAATTCC
Statistics
Matches: 716, Mismatches: 198, Indels: 101
0.71 0.20 0.10
Matches are distributed among these distances:
87 5 0.01
88 225 0.31
89 201 0.28
90 8 0.01
91 2 0.00
92 4 0.01
93 4 0.01
94 27 0.04
95 135 0.19
96 39 0.05
97 3 0.00
99 2 0.00
100 2 0.00
101 33 0.05
102 26 0.04
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (89 bp):
AAGTTATAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCT
CTAAAGTTGCAGTAGAGCAGATTG
Found at i:92452905 original size:228 final size:226
Alignment explanation
Indices: 92452483--92452918 Score: 527
Period size: 228 Copynumber: 1.9 Consensus size: 226
92452473 GATTAAAGCC
* * * * * * *
92452483 ACAATCTTATCTCCTTGAAGTTGCAGTTGAGCTGATTAAAGATAGCAAATCTTATCCCTCTGAAG
1 ACAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGATAACAAATCTTATCCCTCTAAAG
* * * * *
92452548 TTATAGTAGAGTAGATTAAAGCTATAAACCTTATCTCCTTAAAGTTGCAGTGCAGTAGGTTGAAG
66 TTACAATAGAGCAGATTAAAGCTATAAACCTTATCTCCCTAAAGTTGCAGTGCAGTAGGTTAAAG
* * *
92452613 TTAAAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAATATACGAATCTTATTTCCCTAA
131 TGAAAAGTCTTATCTCCCTGAAGTTACAATGGAGCAGATTGAATATAC-AATCTTATCTCCCTAA
* *
92452678 AGTTGCAATGGAATGGATTAATGCTACAAGTT
195 AATTACAATGGAATGGATTAATGCTACAAGTT
* *
92452710 ACAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCTCTCTAAA
1 ACAA-TCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGATAACAAATCTTATCCCTCTAAA
* * *
92452775 GTTGCAATAGAGCATATTAAAGCTATAAACCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTAAA
65 GTTACAATAGAGCAGATTAAAGCTATAAACCTTATCTCCCTAAAGTTGCAGTGCAGTAGGTTAAA
** * * * * * *
92452840 GATGCGAA-TCTTATTTTCCTGATGTTACAGTGGAGTATG-TTGAAGTTATA-AGTCTTATCTCC
130 G-TGAAAAGTCTTATCTCCCTGAAGTTACAATGGAGCA-GATTGAA--TATACAATCTTATCTCC
92452902 CTAAAATTACAATGGAA
191 CTAAAATTACAATGGAA
92452919 CAAATTGAAT
Statistics
Matches: 174, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
227 4 0.02
228 162 0.93
229 4 0.02
230 4 0.02
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (226 bp):
ACAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGATAACAAATCTTATCCCTCTAAAG
TTACAATAGAGCAGATTAAAGCTATAAACCTTATCTCCCTAAAGTTGCAGTGCAGTAGGTTAAAG
TGAAAAGTCTTATCTCCCTGAAGTTACAATGGAGCAGATTGAATATACAATCTTATCTCCCTAAA
ATTACAATGGAATGGATTAATGCTACAAGTT
Found at i:92453050 original size:177 final size:177
Alignment explanation
Indices: 92452705--92453051 Score: 437
Period size: 177 Copynumber: 2.0 Consensus size: 177
92452695 TTAATGCTAC
* * * *
92452705 AAGTTACAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCTCT
1 AAGTTACAAGTCTTATCTCCCTAAAATTACAATGGAACAAATTGAAGATAACAAATCTTATCTCT
* * * *
92452770 CTAAAGTTGCAATAGAGCATATTAAAGCTATAAACCTTATCTCCCTAAAGTTGCAGTGGAGTAGG
66 CTAAAGTTGCAATAAAGCAGATTAAAGCTATAAACCTTACCTCCCTAAAGTTGCAGTGGAGCAGG
* * * ** **
92452835 TTAAAGATGCGAATCTTATTTTCCTGATGTTACAGTGGAGTATGTTG
131 TTAAAGATACGAATCTTATCTCCCAAAAATTACAGTGGAGTATGTTG
* *
92452882 AAGTTATAAGTCTTATCTCCCTAAAATTACAATGGAACAAATTGAATATAACAAATCTTATCTCT
1 AAGTTACAAGTCTTATCTCCCTAAAATTACAATGGAACAAATTGAAGATAACAAATCTTATCTCT
* * * * * *
92452947 CTGAAGTTGTAGTAAAGCAGCTTAAAGTTATAAACCTTACCTCCTTAAAGTTGCAGTGGAGCAGG
66 CTAAAGTTGCAATAAAGCAGATTAAAGCTATAAACCTTACCTCCCTAAAGTTGCAGTGGAGCAGG
* *
92453012 TTGAAA-TTAC-AAGTCTTATCTCCCAAAAATTGCAGTGGAG
131 TT-AAAGATACGAA-TCTTATCTCCCAAAAATTACAGTGGAG
92453052 CAGACTGAAG
Statistics
Matches: 143, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
176 2 0.01
177 138 0.97
178 3 0.02
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (177 bp):
AAGTTACAAGTCTTATCTCCCTAAAATTACAATGGAACAAATTGAAGATAACAAATCTTATCTCT
CTAAAGTTGCAATAAAGCAGATTAAAGCTATAAACCTTACCTCCCTAAAGTTGCAGTGGAGCAGG
TTAAAGATACGAATCTTATCTCCCAAAAATTACAGTGGAGTATGTTG
Found at i:92453105 original size:133 final size:134
Alignment explanation
Indices: 92452446--92453334 Score: 521
Period size: 133 Copynumber: 6.6 Consensus size: 134
92452436 CGTGGTGAAT
* * * ** * * *
92452446 CTTATCTCCTGAAA-TTGTAGTGGAGCAGATT-AAAGCCACAA-TCTTATCTCCTTGAAGTTGCA
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAA-TTACAAGTCTTATCTCCCTAAAATTGCA
* * * * * * ** * * *
92452508 GTTGAGCTGATTAAAGATAGCAAATCTTATC-CCTCTGAAGTTATAGTAG-AGTAGATTAAAGCT
65 ATGGAGCAGATTGAAGATATCAAATCTTATCTCC-CTAAAGTTGCAGTGGAAGCAGATTAAAGTT
*
92452571 ATAAAC
129 ACAAAC
* * * * * *
92452577 CTTATCTCCTTAAAGTTGCAGTGCAGTAGGTTGAAGTTAAAAGTCTTATCTCCCTGAAGTTGCAA
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTAAAATTGCAA
* * * * * *
92452642 TGGAGCAGATTGAATATA-CGAATCTTATTTCCCTAAAGTTGCAATGGAATGGATTAATGCTACA
66 TGGAGCAGATTGAAGATATCAAATCTTATCTCCCTAAAGTTGCAGTGGAA-GCA--GAT--TA-A
**
92452706 AGTTACAAGT
125 AGTTACAAAC
* * * * * * *
92452716 CTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAACAAATCTTATCTCTCTAAAGTTGCA
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGGTTGAA-ATTACAAGTCTTATCTCCCTAAAATTGCA
* * * * * * * * *
92452781 ATAGAGCATATTAAAGCTAT-AAACCTTATCTCCCTAAAGTTGCAGTGG-AGTAGGTTAAAGATG
65 ATGGAGCAGATTGAAGATATCAAATCTTATCTCCCTAAAGTTGCAGTGGAAGCAGATTAAAGTTA
* *
92452844 CGAAT
130 CAAAC
* * * * * * * * *
92452849 CTTATTTTCC-TGATGTTACAGTGGAGTATGTTGAAGTTATAAGTCTTATCTCCCTAAAATTACA
1 CTTA-TCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTAAAATTGCA
* * * * * * * * *
92452913 ATGGAACAAATTGAATATAACAAATCTTATCTCTCTGAAGTTGTAGT-AAAGCAGCTTAAAGTTA
65 ATGGAGCAGATTGAAGATATCAAATCTTATCTCCCTAAAGTTGCAGTGGAAGCAGATTAAAGTTA
*
92452977 TAAAC
130 CAAAC
* * *
92452982 CTTACCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCAAAAATTGCAG
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTAAAATTGCAA
* * * * *
92453047 TGGAGCAGACTGAAGATATCGAATCTTATTTCCCTGAAGTTGCAGTGGAA-CATATTAAAGCTAC
66 TGGAGCAGATTGAAGATATCAAATCTTATCTCCCTAAAGTTGCAGTGGAAGCAGATTAAAG----
*
92453111 AAATTACAAAT
127 ---TTACAAAC
* * ** * * * *
92453122 CTTATCTTCC-TGAAGTTGCAATGGAGCATATTGAAGTTAC-AGATCTTATCTCCCTGAAGTTGT
1 CTTATC-TCCTTAAAGTTGCAGTGGAGCAGGTTGAAATTACAAG-TCTTATCTCCCTAAAATTGC
* * * * * * * * **
92453185 AGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTCTAAAGTTGTAGT-AAAGCAGATTGAACCT
64 AATGGAGCAGATTGAAGATATCAAATCTTATCTCCCTAAAGTTGCAGTGGAAGCAGATTAAAGTT
*
92453249 ACAAAT
129 ACAAAC
* * * ** * * *
92453255 CTTATCTCCCTGAAGTTACAGTGGAGCATATTAAAACTACTAA-TCTTATCTCCCTAAAGTTGCA
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAATTAC-AAGTCTTATCTCCCTAAAATTGCA
*
92453319 ATGGAGTAGATTGAAG
65 ATGGAGCAGATTGAAG
92453335 CGACAAGTCC
Statistics
Matches: 579, Mismatches: 148, Indels: 60
0.74 0.19 0.08
Matches are distributed among these distances:
131 13 0.02
132 76 0.13
133 268 0.46
134 10 0.02
135 1 0.00
136 3 0.01
138 4 0.01
139 42 0.07
140 159 0.27
141 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (134 bp):
CTTATCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTAAAATTGCAA
TGGAGCAGATTGAAGATATCAAATCTTATCTCCCTAAAGTTGCAGTGGAAGCAGATTAAAGTTAC
AAAC
Found at i:92453157 original size:96 final size:95
Alignment explanation
Indices: 92453015--92453190 Score: 228
Period size: 96 Copynumber: 1.8 Consensus size: 95
92453005 GAGCAGGTTG
* * *
92453015 AAATTACAAGTCTTATCTCCCAAAAATTGCAGTGGAGCAGACTGAAGATATC-GAATCTTATTTC
1 AAATTACAAATCTTATCTCCCAAAAATTGCAATGGAGCAGACTGAAGATA-CAG-ATCTTATCTC
92453079 CCTGAAGTTGCAGTGGAACATATTAAAGCTAC
64 CCTGAAGTTGCAGTGGAACATATTAAAGCTAC
* ** * * * *
92453111 AAATTACAAATCTTATCTTCCTGAAGTTGCAATGGAGCATATTGAAGTTACAGATCTTATCTCCC
1 AAATTACAAATCTTATCTCCCAAAAATTGCAATGGAGCAGACTGAAGATACAGATCTTATCTCCC
*
92453176 TGAAGTTGTAGTGGA
66 TGAAGTTGCAGTGGA
92453191 GTAGATCGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
95 26 0.38
96 42 0.62
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (95 bp):
AAATTACAAATCTTATCTCCCAAAAATTGCAATGGAGCAGACTGAAGATACAGATCTTATCTCCC
TGAAGTTGCAGTGGAACATATTAAAGCTAC
Found at i:92453210 original size:96 final size:96
Alignment explanation
Indices: 92453015--92453210 Score: 207
Period size: 96 Copynumber: 2.0 Consensus size: 96
92453005 GAGCAGGTTG
* * *
92453015 AAATTACAAGTCTTATCTCCCAAAAATTGCAGTGGAGCAGACTGAAGATATCGAATCTTATTTCC
1 AAATTACAAATCTTATCTCCCAAAAATTGCAATGGAGCAGACTGAAGATATCGAATCTTATCTCC
* * *
92453080 CTGAAGTTGCAGTGGAACATATTAAAGCTAC
66 CTGAAGTTGCAGTGGAACAGATCAAAGATAC
* ** * * * *
92453111 AAATTACAAATCTTATCTTCCTGAAGTTGCAATGGAGCATATTGAAGTTA-C-AGATCTTATCTC
1 AAATTACAAATCTTATCTCCCAAAAATTGCAATGGAGCAGACTGAAGATATCGA-ATCTTATCTC
* ** *
92453174 CCTGAAGTTGTAGTGGAGTAGATCGAAGATAGC
65 CCTGAAGTTGCAGTGGAACAGATCAAAGATA-C
92453207 AAAT
1 AAAT
92453211 CTTATCTCTC
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
94 1 0.01
95 34 0.42
96 46 0.57
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (96 bp):
AAATTACAAATCTTATCTCCCAAAAATTGCAATGGAGCAGACTGAAGATATCGAATCTTATCTCC
CTGAAGTTGCAGTGGAACAGATCAAAGATAC
Found at i:92453459 original size:51 final size:51
Alignment explanation
Indices: 92453392--92453524 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 51
92453382 CCATAGCAAG
* * *
92453392 TCTTATCACCCTAAAGTTGCAGTGGAATAGACTAAAGCTTAAAGTCATAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAATAGACTAAAGCTCAAAGTCACAAA
* * * * * * * *
92453443 TCTTATCTCCTTAAAGTTGTAGTAGAACATATTAAAGCTCCAAGTTACAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAATAGACTAAAGCTCAAAGTCACAAA
* *
92453494 TCTTATCTCCCTAAAGATGCAGTGGAGTAGA
1 TCTTATCTCCCTAAAGTTGCAGTGGAATAGA
92453525 TTGAAAATAC
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (51 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAATAGACTAAAGCTCAAAGTCACAAA
Found at i:92453717 original size:95 final size:95
Alignment explanation
Indices: 92453532--92453717 Score: 248
Period size: 95 Copynumber: 2.0 Consensus size: 95
92453522 AGATTGAAAA
* * *
92453532 TACAAATCTTATCTCCTTGAAGTAACAGTGGAGCAGATTGAAGATGCAAATCTTATTTCCTTAAA
1 TACAAATCTTATCTCCCTAAAGTAACAGTGGAGCAGATTGAAGATGCAAATCTTATTTCCCTAAA
* * **
92453597 GTTTCAGTGGAATGGATTAATGCTACAAGT
66 CTTGCAGTGGAACAGATTAATGCTACAAGT
* * * *
92453627 TACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGATGCGAATCTTATTTCCCTGAA
1 TACAAATCTTATCTCCCTAAAGTAACAGTGGAGCAGATTGAAGATGCAAATCTTATTTCCCTAAA
*
92453692 CTTGCAGTGGAGCAGATTGAA-GCTAC
66 CTTGCAGTGGAACAGATT-AATGCTAC
92453718 TAATCTTATC
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 76 0.97
96 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (95 bp):
TACAAATCTTATCTCCCTAAAGTAACAGTGGAGCAGATTGAAGATGCAAATCTTATTTCCCTAAA
CTTGCAGTGGAACAGATTAATGCTACAAGT
Found at i:92453745 original size:139 final size:139
Alignment explanation
Indices: 92453440--92453746 Score: 400
Period size: 139 Copynumber: 2.2 Consensus size: 139
92453430 TTAAAGTCAT
* * *
92453440 AAATCTTATCTCCTTAAAGTTGTAGTAGAACATATTAAAGCTCCAAGTTACAAATCTTATCTCCC
1 AAATCTTATCTCCTTAAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCC
* * *
92453505 TAAAGATGCAGTGGAGTAGATTGAAAATACAAATCTTATCTCCTTGAAGTAACAGTGGAGCAGAT
66 TAAAGATACAGTGGAGTAGATTGAAAATACAAATCTTATCTCCCTGAACTAACAGTGGAGCAGAT
*
92453570 TGAAGATGC
131 TGAAGATAC
* ** *
92453579 AAATCTTATTTCCTTAAAGTT-TCAGTGGAATGGATTAATGCTACAAGTTACAAATCTTATCTCC
1 AAATCTTATCTCCTTAAAGTTGT-AGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCC
* * * * * **
92453643 CTAAAGTTACAGTGGAGTAGATTGAAGATGCGAATCTTATTTCCCTGAACTTGCAGTGGAGCAGA
65 CTAAAGATACAGTGGAGTAGATTGAAAATACAAATCTTATCTCCCTGAACTAACAGTGGAGCAGA
*
92453708 TTGAAGCTAC
130 TTGAAGATAC
* * *
92453718 TAATCTTATCTCCCTGAAGTTGTAGTGGA
1 AAATCTTATCTCCTTAAAGTTGTAGTGGA
92453747 GTAGACTGAA
Statistics
Matches: 143, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
138 1 0.01
139 141 0.99
140 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (139 bp):
AAATCTTATCTCCTTAAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCC
TAAAGATACAGTGGAGTAGATTGAAAATACAAATCTTATCTCCCTGAACTAACAGTGGAGCAGAT
TGAAGATAC
Found at i:92453757 original size:44 final size:44
Alignment explanation
Indices: 92453492--92453806 Score: 236
Period size: 44 Copynumber: 7.0 Consensus size: 44
92453482 CCAAGTTACA
* * * *
92453492 AATCTTATCTCCCTAAAGATGCAGTGGAGTAGATTGAAAATACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACT
* ** * * *
92453536 AATCTTATCTCCTTGAAGTAACAGTGGAGCAGATTGAAGATGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACT
* * * * * * * *
92453580 AATCTTATTTCCTTAAAGTTTCAGTGGAATGGATTAATGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-T--TG----AAGATACT
* * * *
92453631 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGATGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACT
* * * *
92453675 AATCTTATTTCCCTGAACTTGCAGTGGAGCAGATTGAAGCTACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACT
* * **
92453719 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGCGAC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACT
* * * * *
92453762 AATTCCTATATCCCTGAAGTTGTAGTGGATTAGAATGAAGATACT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACT
92453807 TGGAAAAGAG
Statistics
Matches: 217, Mismatches: 45, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
43 2 0.01
44 175 0.81
45 1 0.00
47 2 0.01
48 2 0.01
50 1 0.00
51 34 0.16
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACT
Found at i:92455198 original size:3 final size:3
Alignment explanation
Indices: 92455190--92455250 Score: 63
Period size: 3 Copynumber: 19.7 Consensus size: 3
92455180 TTTTTCTCAC
*
92455190 TAT TAT TAT TAT TAT TAT TAT T-T TAT CTAT TAT TAG TAT TATT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TA-T TA-T
92455237 TAT GTAT T-T TAT TA
1 TAT -TAT TAT TAT TA
92455251 CAAATTGCAC
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
2 4 0.08
3 34 0.67
4 13 0.25
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:92458817 original size:137 final size:137
Alignment explanation
Indices: 92458557--92458822 Score: 336
Period size: 137 Copynumber: 1.9 Consensus size: 137
92458547 TTGATAGCAT
* * *
92458557 CACCAATATTATTCCTGCTTTGTCAACTCAAAAATGTGTTCAAAAAGGGTTTGAGGCATATCTAG
1 CACCAATATTATTCATGCTTTGTCAACTCAAAAATGTGTTCAAAAAGGGTGTGAGGCATATCTAA
* ** * ** *
92458622 CATATATTTTAGATACTAGAACTTCAAAATTGAAGTTGGAATAATTTTTTATCGTTTGTAATTTG
66 CATATAGTTTAGATACTAGAACTTCAAAATCCAAGTTGGAATAAGTTTCAATCATTTGTAATTTG
92458687 ATAACGC
131 ATAACGC
* * ** **
92458694 CACCAATATTATTTATGCTTTGTCAGCTCAAAAATGTGTTTGAAAAGGGTGTGAGGTGTATCTAA
1 CACCAATATTATTCATGCTTTGTCAACTCAAAAATGTGTTCAAAAAGGGTGTGAGGCATATCTAA
* * * *
92458759 CATATAGTTTAGATATTAGAATTTCAAAA-CCACAGTTGGAATCAGTTTCAATCATTTGTGATTT
66 CATATAGTTTAGATACTAGAACTTCAAAATCCA-AGTTGGAATAAGTTTCAATCATTTGTAATTT
92458823 TGTGGATGTA
Statistics
Matches: 108, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
136 1 0.01
137 107 0.99
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (137 bp):
CACCAATATTATTCATGCTTTGTCAACTCAAAAATGTGTTCAAAAAGGGTGTGAGGCATATCTAA
CATATAGTTTAGATACTAGAACTTCAAAATCCAAGTTGGAATAAGTTTCAATCATTTGTAATTTG
ATAACGC
Found at i:92468333 original size:13 final size:13
Alignment explanation
Indices: 92468311--92468357 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
92468301 CATTAAAGTC
*
92468311 AAATTTAATTATA
1 AAATTAAATTATA
92468324 AAATTAAATT-TA
1 AAATTAAATTATA
* * *
92468336 AAATTTAAGTATT
1 AAATTAAATTATA
92468349 AAATTAAAT
1 AAATTAAAT
92468358 CTTGAACCTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
AAATTAAATTATA
Found at i:92469063 original size:16 final size:15
Alignment explanation
Indices: 92469032--92469070 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
92469022 AATCATTTTC
*
92469032 AATATAATTTATAAT
1 AATATTATTTATAAT
92469047 AATATTATTTCATAAT
1 AATATTATTT-ATAAT
*
92469063 AAAATTAT
1 AATATTAT
92469071 ATTAAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTATTTATAAT
Found at i:92470685 original size:33 final size:33
Alignment explanation
Indices: 92470643--92470708 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
92470633 CTGACGTTTC
92470643 AGGTTCTTTGTTGGCTACGAAAATAATAATAAT
1 AGGTTCTTTGTTGGCTACGAAAATAATAATAAT
*
92470676 AGGTTCTTTGTTGGCTACGAAAATAATAGTAAT
1 AGGTTCTTTGTTGGCTACGAAAATAATAATAAT
92470709 TTACATTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (33 bp):
AGGTTCTTTGTTGGCTACGAAAATAATAATAAT
Found at i:92471188 original size:12 final size:12
Alignment explanation
Indices: 92471173--92471203 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
92471163 TTCTCTTTTA
92471173 TTTTTCTTTCCC
1 TTTTTCTTTCCC
92471185 TTTTTCTTTCCC
1 TTTTTCTTTCCC
92471197 TTTTTCT
1 TTTTTCT
92471204 CCCCTGCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:92472751 original size:12 final size:13
Alignment explanation
Indices: 92472734--92472764 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
92472724 TGTTTTAAGC
92472734 TTTAATT-TTATT
1 TTTAATTATTATT
92472746 TTTAATTATTATT
1 TTTAATTATTATT
92472759 TTTAAT
1 TTTAAT
92472765 AGATTAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTAATTATTATT
Found at i:92475081 original size:62 final size:62
Alignment explanation
Indices: 92474905--92475343 Score: 546
Period size: 62 Copynumber: 7.1 Consensus size: 62
92474895 GCCTGGACAA
* * * *
92474905 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACACGGCCTAGGCACACGTCCGTGTCCATG
1 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACAAGGCCTGGGCACACGCCCGTGTCCCTG
** * * *
92474967 GTTGTGTGGTTATTAAGTACAAACAGT---TTACAAGGCCTGGGTACATGCCCGTGTCCCTG
1 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACAAGGCCTGGGCACACGCCCGTGTCCCTG
* * * *
92475026 GCTGTGTGGCTCTTAAGCACAAACAGTGAGTTACAAGGCCTGGGCACATGCCCGTGTCCCTG
1 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACAAGGCCTGGGCACACGCCCGTGTCCCTG
* * * * *
92475088 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTATACA-GCCTGGGCTCACGCTCATGTCCTTG
1 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACA-AGGCCTGGGCACACGCCCGTGTCCCTG
* * * *
92475150 GCCGTATGGTTTTTAAGTACAAACAGTGAGTTACACGACCTGGGCACACGCCCGTGTCCCTG
1 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACAAGGCCTGGGCACACGCCCGTGTCCCTG
* * * * *
92475212 GCCATGTGGTTCTTAAGCACAAACAGTGAGTTACATA-GCTTGGGCACACACCCCTGTCCCTG
1 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACA-AGGCCTGGGCACACGCCCGTGTCCCTG
* * * *
92475274 GCCGTGTGGTTCTTAAGCACAAACAGTGAGTTACATGGCCTGGGCACGCACCCGTGTCCCTG
1 GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACAAGGCCTGGGCACACGCCCGTGTCCCTG
92475336 GCCGTGTG
1 GCCGTGTG
92475344 AACCCTGCAC
Statistics
Matches: 324, Mismatches: 46, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
59 49 0.15
62 274 0.85
63 1 0.00
ACGTcount: A:0.21, C:0.26, G:0.27, T:0.25
Consensus pattern (62 bp):
GCCGTGTGGTTCTTAAGTACAAACAGTGAGTTACAAGGCCTGGGCACACGCCCGTGTCCCTG
Found at i:92477253 original size:11 final size:11
Alignment explanation
Indices: 92477237--92477275 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
92477227 ATTTATGTTC
92477237 ATTTAAAACTT
1 ATTTAAAACTT
*
92477248 ATTTAATAAATT
1 ATTTAA-AACTT
*
92477260 ATTTAAAGCTT
1 ATTTAAAACTT
92477271 ATTTA
1 ATTTA
92477276 TTGTTTCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (11 bp):
ATTTAAAACTT
Found at i:92478302 original size:27 final size:27
Alignment explanation
Indices: 92478264--92478316 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
92478254 GATTTTTTAG
92478264 CTTTAAATGCACCCAAGTTAGCCTAAA
1 CTTTAAATGCACCCAAGTTAGCCTAAA
*
92478291 CTTTAAATGCACCTAAGTTAGCCTAA
1 CTTTAAATGCACCCAAGTTAGCCTAA
92478317 CTATTACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (27 bp):
CTTTAAATGCACCCAAGTTAGCCTAAA
Found at i:92481779 original size:25 final size:25
Alignment explanation
Indices: 92481751--92481832 Score: 119
Period size: 25 Copynumber: 3.3 Consensus size: 25
92481741 TCATTAGGGT
*
92481751 TACTGATTTATAGCTCGTCAGAGCA
1 TACTGATTTATAGCTCGTAAGAGCA
*
92481776 TACTAATTTATAGCTCGTAAGAGCA
1 TACTGATTTATAGCTCGTAAGAGCA
* * *
92481801 TACCGATTCATAGCTCGTGAGAGCA
1 TACTGATTTATAGCTCGTAAGAGCA
92481826 TACTGAT
1 TACTGAT
92481833 CTTCAGCTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (25 bp):
TACTGATTTATAGCTCGTAAGAGCA
Found at i:92481841 original size:50 final size:50
Alignment explanation
Indices: 92481755--92481860 Score: 135
Period size: 50 Copynumber: 2.1 Consensus size: 50
92481745 TAGGGTTACT
* * *
92481755 GATTTATAGCTCGTCAGAGCATACTAATTTATAGCTCGTAA-GAGCATACC
1 GATTCATAGCTCGTCAGAGCATACTAATTTACAGCTC-AAATGAGCATACC
* *
92481805 GATTCATAGCTCGTGAGAGCATACTGATCTT-CAGCTCAAATGAGCATACC
1 GATTCATAGCTCGTCAGAGCATACTAAT-TTACAGCTCAAATGAGCATACC
92481855 GATTCA
1 GATTCA
92481861 CAACTTATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
49 2 0.04
50 45 0.92
51 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (50 bp):
GATTCATAGCTCGTCAGAGCATACTAATTTACAGCTCAAATGAGCATACC
Found at i:92487087 original size:54 final size:54
Alignment explanation
Indices: 92487016--92487173 Score: 151
Period size: 54 Copynumber: 2.9 Consensus size: 54
92487006 CCATTTTGGT
* * * * **
92487016 AGACTAC-CCAGTGTTTATTGTCCTAATGAACTACCCCGTTTTTATTGTTCTGGC
1 AGACTACTCC-GTTTTTATTGTCCTAATGAACTACCCCGTGTTTATTATCCCAGC
* *
92487070 AGACTA-TCCTGTTTTTATTGTCCTAGTGGACTACCCCGTGTTTATTATCCCAGC
1 AGACTACTCC-GTTTTTATTGTCCTAATGAACTACCCCGTGTTTATTATCCCAGC
* * * * *
92487124 GGACTACTCCGTTTTTATTGTCCCAA-GAAACTATCTCATGTTTATTATCC
1 AGACTACTCCGTTTTTATTGTCCTAATG-AACTACCCCGTGTTTATTATCC
92487174 TGGAAGACTC
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
53 1 0.01
54 81 0.95
55 3 0.04
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (54 bp):
AGACTACTCCGTTTTTATTGTCCTAATGAACTACCCCGTGTTTATTATCCCAGC
Found at i:92487127 original size:27 final size:27
Alignment explanation
Indices: 92487017--92487148 Score: 102
Period size: 27 Copynumber: 4.9 Consensus size: 27
92487007 CATTTTGGTA
* * **
92487017 GACTACCCAGTGTTTATTGTCCTAATG
1 GACTACCCCGTGTTTATTGTCCCAGCG
* * * ** *
92487044 AACTACCCCGTTTTTATTGTTCTGGCA
1 GACTACCCCGTGTTTATTGTCCCAGCG
* * * * *
92487071 GACTATCCTGTTTTTATTGTCCTAGTG
1 GACTACCCCGTGTTTATTGTCCCAGCG
*
92487098 GACTACCCCGTGTTTATTATCCCAGCG
1 GACTACCCCGTGTTTATTGTCCCAGCG
* *
92487125 GACTACTCCGTTTTTATTGTCCCA
1 GACTACCCCGTGTTTATTGTCCCA
92487149 AGAAACTATC
Statistics
Matches: 81, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.39
Consensus pattern (27 bp):
GACTACCCCGTGTTTATTGTCCCAGCG
Found at i:92497099 original size:207 final size:208
Alignment explanation
Indices: 92496743--92497157 Score: 706
Period size: 207 Copynumber: 2.0 Consensus size: 208
92496733 AACAATAAAT
* *
92496743 AAAATTCTAAATTTGAAATCCAGAAAATTAGAACGGCTTTACTACAACCCACATAAAAACATTTA
1 AAAATTCCAAATTTGAAATCCAGAAAATTACAACGGCTTTACTACAACCCACATAAAAACATTTA
* * * * *
92496808 AAAGTAATAATCAAAACTGTAACATAAACAGTGCGTGTGGCTTCCTCCGTGCCCGTCGCAGCTCC
66 AAAGTAATAATCAAAACTATAAAATAAACAGTGCGTGTGGCTTCCTCCGAGCCCCTCGCAGCCCC
92496873 GATCCGTCTAAGGCTGGAAATTACATGAAAGGTTAATAAACGGGGTGAGTTTACGAAACCTCAGT
131 GATCCGTCTAAGGCTGGAAATTACATGAAAGGTTAATAAACGGGGTGAGTTTACGAAACCTCAGT
92496938 GTGAAATCCCCTA
196 GTGAAATCCCCTA
* *
92496951 AAAATTCCAAATTTGAAATCTAGAAAATTACAACGGCTTTACTACAACCCACA-CAAAACATTTA
1 AAAATTCCAAATTTGAAATCCAGAAAATTACAACGGCTTTACTACAACCCACATAAAAACATTTA
* * *
92497015 AAAGTAATAATCGAAATTATAAAATAAACAGTGTGTGTGGCTTCCTCCGAGCCCCTCGCAGCCCC
66 AAAGTAATAATCAAAACTATAAAATAAACAGTGCGTGTGGCTTCCTCCGAGCCCCTCGCAGCCCC
*
92497080 GATCCGTCTAAGGCTGGAAATTACCTGAAAGGTTAATAAACGGGGTGAGTTTACGAAACCTCAGT
131 GATCCGTCTAAGGCTGGAAATTACATGAAAGGTTAATAAACGGGGTGAGTTTACGAAACCTCAGT
92497145 GTGAAATCCCCTA
196 GTGAAATCCCCTA
92497158 CTATATAAAG
Statistics
Matches: 194, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
207 144 0.74
208 50 0.26
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (208 bp):
AAAATTCCAAATTTGAAATCCAGAAAATTACAACGGCTTTACTACAACCCACATAAAAACATTTA
AAAGTAATAATCAAAACTATAAAATAAACAGTGCGTGTGGCTTCCTCCGAGCCCCTCGCAGCCCC
GATCCGTCTAAGGCTGGAAATTACATGAAAGGTTAATAAACGGGGTGAGTTTACGAAACCTCAGT
GTGAAATCCCCTA
Found at i:92497280 original size:6 final size:6
Alignment explanation
Indices: 92497262--92497348 Score: 115
Period size: 6 Copynumber: 14.3 Consensus size: 6
92497252 AAGAAACATT
92497262 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
92497310 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
92497349 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
5 3 0.04
6 64 0.89
7 4 0.06
8 1 0.01
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:92497521 original size:27 final size:26
Alignment explanation
Indices: 92497473--92497574 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
92497463 GCTCAGTTAT
* *
92497473 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGA-A
* *
92497500 TAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAAAGCCACCAGAA
*
92497526 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAG-AA
*
92497554 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
92497575 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 6 0.09
27 51 0.78
28 8 0.12
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAAAGCCACCAGAA
Found at i:92497761 original size:22 final size:22
Alignment explanation
Indices: 92497733--92497797 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
92497723 GCAAATACGT
*
92497733 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
92497755 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
92497777 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
92497798 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:92498347 original size:80 final size:81
Alignment explanation
Indices: 92498223--92498791 Score: 675
Period size: 80 Copynumber: 7.1 Consensus size: 81
92498213 AGGGGTAAAA
* * * * * * * * **
92498223 TGGTAATTTTACCCCACA-AGGTATCTCGGTAATTCCACCATACAGGGGTATTTTAGTAATTCTA
1 TGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAGGGGTATTTCGGTAATTCTA
*
92498287 CCCTATAGGGGTATTT
66 CCCTACAGGGGTATTT
* * *
92498303 TGGTAATTC-ACCCTACAGGGGTATTACGATAATTCTACCCTACAGGGGTATTTTGGTAATTCTA
1 TGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAGGGGTATTTCGGTAATTCTA
92498367 CCCTACAGGGGTATTT
66 CCCTACAGGGGTATTT
* * * * * * *
92498383 CGGTATTTCTACCTTATAAGAGTATTTCGATATTTCTACCCTACA-AGGTATTTCGGTAATTCTA
1 TGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAGGGGTATTTCGGTAATTCTA
92498447 CCCTACAGGGGTATTT
66 CCCTACAGGGGTATTT
* * * * * * * *
92498463 TAGTATTTCTACCCCACA-AGGTATTTTGGTAATTCTACCCTACAGGGGAATTTCGGTAATTCTA
1 TGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAGGGGTATTTCGGTAATTCTA
*
92498527 CCCTACAGTGGTATTT
66 CCCTACAGGGGTATTT
* * * * * *
92498543 CGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTA
1 TGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAGGGGTATTTCGGTAATTCTA
*
92498608 CCCTACA-AGGTATTT
66 CCCTACAGGGGTATTT
* *
92498623 CGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACA-AGGTATTTCGGTAATTCTA
1 TGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAGGGGTATTTCGGTAATTCTA
92498687 CCCTACAGGGGTATTT
66 CCCTACAGGGGTATTT
* * * *
92498703 TAGTAATTCTACCCTATAGGGGTATTTC-AGTATTTTTACCCTACAAGGGTATTTCGGTAATTCT
1 TGGTAATTCTACCCTACAGGGGTATTTCGA-TATTTCTACCCTACAGGGGTATTTCGGTAATTCT
*
92498767 ACCCTATAGGGGTATTT
65 ACCCTACAGGGGTATTT
*
92498784 TAGTAATT
1 TGGTAATT
92498792 TTACAAACTA
Statistics
Matches: 427, Mismatches: 55, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
79 53 0.12
80 257 0.60
81 117 0.27
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
TGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAGGGGTATTTCGGTAATTCTA
CCCTACAGGGGTATTT
Found at i:92498555 original size:187 final size:187
Alignment explanation
Indices: 92498228--92498783 Score: 821
Period size: 187 Copynumber: 3.0 Consensus size: 187
92498218 TAAAATGGTA
* * * * *
92498228 ATTT-TACCCCACAAGGTATCTCGGTAATTCCACCATACAGGGGTATTTTAGTAATTCTACCCTA
1 ATTTCTACCCTACAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTACCCTA
* * * *
92498292 TAGGGGTATTTTGGTAATTC-ACCCTACAGGGGTATTACGATAATTCTACCCTACAGGGGTATTT
66 CA-AGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* * * * *
92498356 TGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCTTATAAGAGTATTTCGAT
130 CGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTCGAT
*
92498414 ATTTCTACCCTACAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTACCCCA
1 ATTTCTACCCTACAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTACCCTA
* *
92498479 CAAGGTATTTTGGTAATTCTACCCTACAGGGGAATTTCGGTAATTCTACCCTACAGTGGTATTTC
66 CAAGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
92498544 GGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
131 GGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTCGAT
*
92498601 ATTTCTACCCTACAAGGTATTTCGGTAATTCTACCCTACAGGGGTA-TTTCGATATTTCTACCCT
1 ATTTCTACCCTACAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAG-TATTTCTACCCT
* ** *
92498665 ACAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTT
65 ACAAGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* * * *
92498730 CAGTATTTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTT
130 CGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTATAAGGGTATTT
92498784 TAGTAATTTT
Statistics
Matches: 335, Mismatches: 32, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
186 24 0.07
187 311 0.93
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (187 bp):
ATTTCTACCCTACAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTACCCTA
CAAGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
GGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTCGAT
Found at i:92498791 original size:27 final size:27
Alignment explanation
Indices: 92498224--92498783 Score: 664
Period size: 27 Copynumber: 21.0 Consensus size: 27
92498214 GGGGTAAAAT
* * * *
92498224 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
92498250 GGTAATTCCACCATACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
92498277 AGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92498304 GGTAATTC-ACCCTACAGGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
92498330 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
92498357 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
92498384 GGTATTTCTACCTTATAAGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
92498411 GATATTTCTACCCTACA-AGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92498437 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
92498464 AGTATTTCTACCCCACA-AGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92498490 GGTAATTCTACCCTACAGGGGAATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92498517 GGTAATTCTACCCTACAGTGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
92498544 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
92498571 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
92498598 GGTATTTCTACCCTACA-AGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
92498624 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
92498651 GATATTTCTACCCTACA-AGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92498677 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
92498704 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
92498731 AGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
92498758 GGTAATTCTACCCTATAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
92498784 TAGTAATTTT
Statistics
Matches: 457, Mismatches: 71, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
26 126 0.28
27 331 0.72
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:92498818 original size:54 final size:53
Alignment explanation
Indices: 92498264--92498854 Score: 234
Period size: 53 Copynumber: 11.1 Consensus size: 53
92498254 ATTCCACCAT
* * **
92498264 ACAGGGGTATTTT-AGTAATTCTACCCTATAGGGGTATTTTGGTAA-TTCACCCT
1 ACAGGGGTATTTTGA-TAATTCTACCCTATAGGGGTATTTTAGTAATTTTA-CAA
** * * * **
92498317 ACAGGGGTATTACGATAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCT
1 ACAGGGGTATTTTGATAATTCTACCCTATAGGGGTATTTTAGTAATTTTA-CAA
* * * * * * * **
92498371 ACAGGGGTATTTCGGTATTTCTACCTTATAAGAGTA-TTTCG-ATATTTCTACCCT
1 ACAGGGGTATTTTGATAATTCTACCCTATAGGGGTATTTTAGTA-ATTT-TA-CAA
* * * * **
92498425 ACA-AGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGT-ATTTCTACCCC
1 ACAGGGGTATTTTGATAATTCTACCCTATAGGGGTATTTTAGTAATTT-TA-CAA
* * * * ** * **
92498478 ACA-AGGTATTTTGGTAATTCTACCCTACAGGGGAATTTCGGTAATTCTACCCT
1 ACAGGGGTATTTTGATAATTCTACCCTATAGGGGTATTTTAGTAATTTTA-CAA
* * * * * * ** **
92498531 ACAGTGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT-ATTTCTACCCT
1 ACAGGGGTATTTTGATAATTCTACCCTATAGGGGTATTTTAGTAATTT-TA-CAA
* * * * * * ** * **
92498585 ACAAGGGTATTTCGGTATTTCTACCCTACA-AGGTATTTCGGTAATTCTACCCT
1 ACAGGGGTATTTTGATAATTCTACCCTATAGGGGTATTTTAGTAATTTTA-CAA
* * * * ** * **
92498638 ACAGGGGTATTTCGATATTTCTACCCTACA-AGGTATTTCGGTAATTCTACCCT
1 ACAGGGGTATTTTGATAATTCTACCCTATAGGGGTATTTTAGTAATTTTA-CAA
* * **
92498691 ACAGGGGTATTTT-AGTAATTCTACCCTATAGGGGTATTTCAGTATTTTTACCCT
1 ACAGGGGTATTTTGA-TAATTCTACCCTATAGGGGTATTTTAGTAATTTTA-CAA
* * *
92498745 ACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTTTACAA
1 ACAGGGGTATTTTGATAATTCTACCCTATAGGGGTATTTTAGTAATTTTACAA
* * ** * * *
92498798 ACTAGGGGTTTTTTGATAATTTTA-CAAACCAGGGGTATTTTGGTAATTTTATAA
1 AC-AGGGGTATTTTGATAATTCTACCCTA-TAGGGGTATTTTAGTAATTTTACAA
92498852 ACA
1 ACA
92498855 AAGTGTATTT
Statistics
Matches: 459, Mismatches: 64, Indels: 30
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.00
53 231 0.50
54 226 0.49
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (53 bp):
ACAGGGGTATTTTGATAATTCTACCCTATAGGGGTATTTTAGTAATTTTACAA
Found at i:92498834 original size:81 final size:82
Alignment explanation
Indices: 92498669--92499007 Score: 273
Period size: 81 Copynumber: 4.2 Consensus size: 82
92498659 TACCCTACAA
* * ** * * *
92498669 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTA-TAGGGG-TATTTCA
1 GGTATTTTGGTAATTCTACCCTACAGGGGTATTTTAGTAATTTTA-CAAACCAGGGGTTTTTTGA
* **
92498732 GTATTTTTACCCTA-CAAG
65 GTAATTTTA-CAAACCAAG
* * *
92498750 GGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTTTACAAACTAGGGGTTTTTTGA-
1 GGTATTTTGGTAATTCTACCCTACAGGGGTATTTTAGTAATTTTACAAACCAGGGGTTTTTTGAG
*
92498814 TAATTTTACAAACCAGG
66 TAATTTTACAAACCAAG
* *** * *
92498831 GGTATTTTGGTAATTTTA-TAAACAAAGTGTATTTTAGTAATTTTACAAACCA-GGGTTATTTTG
1 GGTATTTTGGTAATTCTACCCTAC-AGGGGTATTTTAGTAATTTTACAAACCAGGGGTT-TTTTG
**
92498894 -GTAATTTTGTAAACCAAG
64 AGTAATTTTACAAACCAAG
* ** * * * * * *
92498912 GGTATTTTGGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTCT-A
1 GGTATTTTGGTAATTCTACCCTA-CAGGGGTATTTTAGTAATTTTACAAACCAGGGGTTTTTTGA
* *
92498975 GTAATTTTACAAACTAGG
65 GTAATTTTACAAACCAAG
92498993 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
92499008 TTGTAAACCA
Statistics
Matches: 215, Mismatches: 34, Indels: 18
0.81 0.13 0.07
Matches are distributed among these distances:
80 10 0.05
81 195 0.91
82 10 0.05
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (82 bp):
GGTATTTTGGTAATTCTACCCTACAGGGGTATTTTAGTAATTTTACAAACCAGGGGTTTTTTGAG
TAATTTTACAAACCAAG
Found at i:92498872 original size:54 final size:54
Alignment explanation
Indices: 92498774--92499020 Score: 334
Period size: 54 Copynumber: 4.6 Consensus size: 54
92498764 TCTACCCTAT
* * * * *
92498774 AGGGGTATTTTAGTAATTTTACAAACTAGGGGT-TTTTTGATAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAG-TAATTTTACAAACC
*
92498828 AGGGGTATTTTGGTAATTTTATAAACAAAGTGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACC
* * * *
92498882 AGGGTTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACC
* * * *
92498936 AGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACC
*
92498990 AGGGGTATTTTGGTAATTTTGTAAACCAAAG
1 AGGGGTATTTTGGTAATTTTATAAA-CAAAG
92499021 TATTCTAAAC
Statistics
Matches: 171, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
54 162 0.95
55 9 0.05
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACC
Found at i:92499015 original size:27 final size:27
Alignment explanation
Indices: 92498774--92499009 Score: 301
Period size: 27 Copynumber: 8.7 Consensus size: 27
92498764 TCTACCCTAT
* *
92498774 AGGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
92498801 AGGGGTTTTTTGATAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
92498828 AGGGGTATTTTGGTAATTTTATAAACA
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
92498855 AAGTGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* **
92498882 AGGGTTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
92498909 AAGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
92498936 AGGGGTATTTTGGTGATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * * *
92498963 AAGGGTATTCTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
92498990 AGGGGTATTTTGGTAATTTT
1 AGGGGTATTTTGGTAATTTT
92499010 GTAAACCAAA
Statistics
Matches: 174, Mismatches: 35, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 174 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:92502276 original size:28 final size:28
Alignment explanation
Indices: 92502244--92502298 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
92502234 CTCCATGAAT
92502244 GCTTTCCTTTCCATAAATTGCCACAAAG
1 GCTTTCCTTTCCATAAATTGCCACAAAG
** * *
92502272 GCTTTTGTTTTCATATATTGCCACAAA
1 GCTTTCCTTTCCATAAATTGCCACAAA
92502299 AGCGTCTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (28 bp):
GCTTTCCTTTCCATAAATTGCCACAAAG
Found at i:92502317 original size:26 final size:27
Alignment explanation
Indices: 92502281--92502358 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 27
92502271 GGCTTTTGTT
* *
92502281 TTCATATATTGCCACAAAAGCGTC-TA
1 TTCATAGATTGCCACAAAGGCGTCATA
* * *
92502307 TTCATAGATTGCCATAAAGGCATCCATT
1 TTCATAGATTGCCACAAAGGCGT-CATA
*
92502335 TTCATAGATTACCACAAAGGCGTC
1 TTCATAGATTGCCACAAAGGCGTC
92502359 CATTTCTATA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 19 0.45
27 2 0.05
28 21 0.50
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (27 bp):
TTCATAGATTGCCACAAAGGCGTCATA
Found at i:92502341 original size:28 final size:28
Alignment explanation
Indices: 92502307--92502363 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
92502297 AAAGCGTCTA
* *
92502307 TTCATAGATTGCCATAAAGGCATCCATT
1 TTCATAGATTACCACAAAGGCATCCATT
*
92502335 TTCATAGATTACCACAAAGGCGTCCATT
1 TTCATAGATTACCACAAAGGCATCCATT
92502363 T
1 T
92502364 CTATACGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (28 bp):
TTCATAGATTACCACAAAGGCATCCATT
Found at i:92504167 original size:10 final size:10
Alignment explanation
Indices: 92504152--92504176 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
92504142 AAGGTAATCC
92504152 TATTTCCCCT
1 TATTTCCCCT
92504162 TATTTCCCCT
1 TATTTCCCCT
92504172 TATTT
1 TATTT
92504177 TCTTATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (10 bp):
TATTTCCCCT
Found at i:92506469 original size:17 final size:17
Alignment explanation
Indices: 92506447--92506479 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
92506437 AAGATGATAA
92506447 TTTCTT-TCTTCTTATCC
1 TTTCTTATCTT-TTATCC
92506464 TTTCTTATCTTTTATC
1 TTTCTTATCTTTTATC
92506480 GTCTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTCTTATCTTTTATCC
Found at i:92507397 original size:11 final size:11
Alignment explanation
Indices: 92507381--92507405 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
92507371 TCACATGACC
92507381 AAAACACATTT
1 AAAACACATTT
92507392 AAAACACATTT
1 AAAACACATTT
92507403 AAA
1 AAA
92507406 GCATACCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAACACATTT
Found at i:92508947 original size:62 final size:62
Alignment explanation
Indices: 92508872--92508990 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 62
92508862 AAGTACAAGA
** * *
92508872 TAGAGATCACACAGGTTAGGGACATGAGCATGTGTCCAGGCCGTGTGACTTACTGTTGCTTT
1 TAGAGATCACACAGGCCAGGGACACGAGCATGTGTCCAGGCCGTGTGACTCACTGTTGCTTT
* ** *
92508934 TAGAGTTCACACAGGCCATTGACACGGGCATGTGTCCAGGCCGTGTGACTCACTGTT
1 TAGAGATCACACAGGCCAGGGACACGAGCATGTGTCCAGGCCGTGTGACTCACTGTT
92508991 TACAATTTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 49 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (62 bp):
TAGAGATCACACAGGCCAGGGACACGAGCATGTGTCCAGGCCGTGTGACTCACTGTTGCTTT
Found at i:92509447 original size:19 final size:19
Alignment explanation
Indices: 92509399--92509458 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 19
92509389 AATCTTTAAG
*
92509399 GATATGCAATCTTAGTTAT
1 GATATGCAATCTTAGATAT
*
92509418 G--ATGAAATCTTAGATAT
1 GATATGCAATCTTAGATAT
92509435 GATATGCAATCTTGAGGATAT
1 GATATGCAATCTT-A-GATAT
92509456 GAT
1 GAT
92509459 CTTGTAATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 15 0.44
19 10 0.29
20 1 0.03
21 8 0.24
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:92522910 original size:39 final size:40
Alignment explanation
Indices: 92522775--92522890 Score: 216
Period size: 40 Copynumber: 2.9 Consensus size: 40
92522765 NNNNNNNNNN
*
92522775 GAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGC
92522815 GAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGC
92522855 GAGTTACTATAACCGGGCT-AGTCCCGAAGGCATTTG
1 GAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
92522891 AGCAAGTAGC
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
39 17 0.23
40 58 0.77
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGC
Found at i:92526335 original size:8 final size:8
Alignment explanation
Indices: 92526322--92526375 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
92526312 CTATTTCAAA
92526322 AAAAAAAG
1 AAAAAAAG
92526330 -AAAAAAG
1 AAAAAAAG
92526337 AAAAGAAA-
1 AAAA-AAAG
*
92526345 ATAAATAA-
1 A-AAAAAAG
*
92526353 ATAAAAAG
1 AAAAAAAG
92526361 AAAAAAAG
1 AAAAAAAG
92526369 AAAAAAA
1 AAAAAAA
92526376 ATGGAGAGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 11 0.29
8 21 0.55
9 6 0.16
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (8 bp):
AAAAAAAG
Found at i:92526340 original size:12 final size:11
Alignment explanation
Indices: 92526319--92526376 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 11
92526309 CTTCTATTTC
92526319 AAAAAAAAAAG
1 AAAAAAAAAAG
92526330 AAAAAAGAAAAG
1 AAAAAA-AAAAG
*
92526342 AAAATAAATAAAT
1 AAAA-AAA-AAAG
92526355 AAAAAGAAAAA-
1 AAAAA-AAAAAG
92526366 AAGAAAAAAAA
1 AA-AAAAAAAA
92526377 TGGAGAGGCC
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
11 13 0.32
12 17 0.41
13 11 0.27
ACGTcount: A:0.86, C:0.00, G:0.09, T:0.05
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:92527423 original size:44 final size:45
Alignment explanation
Indices: 92527280--92527594 Score: 211
Period size: 44 Copynumber: 7.1 Consensus size: 45
92527270 CAAAGAAACA
* *
92527280 AGATTTGGCATCCCTGTGTTTATAGGGAA-ACAGATCGAAGATAAC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACA-AGATCGAAGATAGC
* * ** * * **
92527325 AGATCT-GAAACTCCTGTGCCTACAGCGAAGC-AGATCGAAGATTTC
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAAGATCGAAGATAGC
* * *
92527370 AG--CATGGCATCCCTATGTTTATAGGGAGCAAG-TTGAAGATAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
*
92527413 AGATTTGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * * * * * ***
92527457 AGATCTGACATTCCTGTGCTTACAGCGAA-ACAGATCAAAGATTTT
1 AGATCTGGCATCCCTGTGTTTATAGGGAACA-AGATCGAAGATAGC
* * *
92527502 A-ACCTGGCATCTCTGTGTTTATAGGGAACAAG-TTGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * * * *
92527545 AGATTTGGCATCCTTGTGTTTACAAGGAACAA-ACCGAAGACATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAG--ATAGC
92527591 AGAT
1 AGAT
92527595 TTGACTTTCA
Statistics
Matches: 200, Mismatches: 54, Indels: 31
0.70 0.19 0.11
Matches are distributed among these distances:
43 21 0.10
44 123 0.62
45 47 0.23
46 9 0.05
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (45 bp):
AGATCTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
Found at i:92527521 original size:132 final size:132
Alignment explanation
Indices: 92527280--92527599 Score: 451
Period size: 132 Copynumber: 2.4 Consensus size: 132
92527270 CAAAGAAACA
* *
92527280 AGATTTGGCATCCCTGTGTTTATAGGGAAACAGATCGAAGATAACAGATCTGAAACTCCTGTGCC
1 AGATTTGGCATCCCTGTGTTTATAGGG-AACAGATCGAAGATAGCAGATCTGACACTCCTGTGCC
* * * *
92527345 TACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAGCAAGTTGAAGAT
65 TACAGCGAAACAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGAT
92527410 AGC
130 AGC
* *
92527413 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCCT
* * * *
92527478 ACAGCGAAACAGATCAAAGATTTTAACCTGGCATCTCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAACAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
92527543 GC
131 GC
* * * * * *
92527545 AGATTTGGCATCCTTGTGTTTACAAGGAACAAACCGAAGACATAGCAGATTTGAC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAG--ATAGCAGATCTGAC
92527600 TTTCAGATGT
Statistics
Matches: 167, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
132 127 0.76
133 27 0.16
134 13 0.08
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCCT
ACAGCGAAACAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:92528247 original size:14 final size:15
Alignment explanation
Indices: 92528228--92528284 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
92528218 AATCTTTAAG
92528228 GATATG-CAATCTTA
1 GATATGACAATCTTA
92528242 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
92528259 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
92528278 GATATGA
1 GATATGA
92528285 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:92528269 original size:36 final size:38
Alignment explanation
Indices: 92528228--92528317 Score: 130
Period size: 36 Copynumber: 2.3 Consensus size: 38
92528218 AATCTTTAAG
92528228 GATATGCAATCTTAGATATGATA-CAATCTT-AGATAT
1 GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
92528264 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATA-GCAATCTT-AAGATAT
*
92528304 GATATTGTAATCTT
1 GATA-TGCAATCTT
92528318 GGAGATTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
36 23 0.48
38 7 0.15
40 10 0.21
41 8 0.17
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:92528275 original size:19 final size:19
Alignment explanation
Indices: 92528228--92528308 Score: 130
Period size: 19 Copynumber: 4.3 Consensus size: 19
92528218 AATCTTTAAG
92528228 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
92528247 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
92528264 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
92528283 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
92528304 GATAT
1 GATAT
92528309 TGTAATCTTG
Statistics
Matches: 58, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.29
19 30 0.52
21 11 0.19
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:92539638 original size:28 final size:29
Alignment explanation
Indices: 92539600--92539764 Score: 171
Period size: 28 Copynumber: 5.9 Consensus size: 29
92539590 CTTTAGAAAA
* *
92539600 TGCCACGAAGGTGTTCC-TTTCCATAGAT
1 TGCCACAAAGGTGTTCCATTTTCATAGAT
* ** *
92539628 TGCCACAAAGG-CTTCTGTTTTCCTAGAT
1 TGCCACAAAGGTGTTCCATTTTCATAGAT
*
92539656 TGCCACAAAGGTG-TCCATTTTCATATAT
1 TGCCACAAAGGTGTTCCATTTTCATAGAT
* * *
92539684 TGTCACAAAGGT-CTCCATTTTCATATAT
1 TGCCACAAAGGTGTTCCATTTTCATAGAT
* *
92539712 TGTCACAAAGGTG-TCCATTTTCATAAAT
1 TGCCACAAAGGTGTTCCATTTTCATAGAT
*
92539740 TTCCACAAAGGTG-TCCATTTTCATA
1 TGCCACAAAGGTGTTCCATTTTCATA
92539765 CATTTTCACG
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
27 3 0.03
28 116 0.97
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (29 bp):
TGCCACAAAGGTGTTCCATTTTCATAGAT
Found at i:92539667 original size:56 final size:56
Alignment explanation
Indices: 92539600--92539764 Score: 190
Period size: 56 Copynumber: 2.9 Consensus size: 56
92539590 CTTTAGAAAA
* * * ** *
92539600 TGCCACGAAGGTGTTCC-TTTCCATAGATTGCCACAAAGG-CTTCTGTTTTCCTAGAT
1 TGCCACAAAGGTG-TCCATTTTCATAAATTGCCACAAAGGTC-TCCATTTTCATAGAT
* * *
92539656 TGCCACAAAGGTGTCCATTTTCATATATTGTCACAAAGGTCTCCATTTTCATATAT
1 TGCCACAAAGGTGTCCATTTTCATAAATTGCCACAAAGGTCTCCATTTTCATAGAT
* * *
92539712 TGTCACAAAGGTGTCCATTTTCATAAATTTCCACAAAGGTGTCCATTTTCATA
1 TGCCACAAAGGTGTCCATTTTCATAAATTGCCACAAAGGTCTCCATTTTCATA
92539765 CATTTTCACG
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
55 3 0.03
56 90 0.96
57 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (56 bp):
TGCCACAAAGGTGTCCATTTTCATAAATTGCCACAAAGGTCTCCATTTTCATAGAT
Found at i:92539769 original size:28 final size:28
Alignment explanation
Indices: 92539645--92539773 Score: 179
Period size: 28 Copynumber: 4.6 Consensus size: 28
92539635 AAGGCTTCTG
* * *
92539645 TTTTCCTAGATTGCCACAAAGGTGTCCA
1 TTTTCATATATTGTCACAAAGGTGTCCA
*
92539673 TTTTCATATATTGTCACAAAGGTCTCCA
1 TTTTCATATATTGTCACAAAGGTGTCCA
92539701 TTTTCATATATTGTCACAAAGGTGTCCA
1 TTTTCATATATTGTCACAAAGGTGTCCA
*
92539729 TTTTCATAAATT-TCCACAAAGGTGTCCA
1 TTTTCATATATTGT-CACAAAGGTGTCCA
* *
92539757 TTTTCATACATTTTCAC
1 TTTTCATATATTGTCAC
92539774 GATAGAGATT
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.01
28 90 0.98
29 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.39
Consensus pattern (28 bp):
TTTTCATATATTGTCACAAAGGTGTCCA
Found at i:92544066 original size:25 final size:25
Alignment explanation
Indices: 92544038--92544116 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
92544028 CTAATGGCCG
92544038 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
92544063 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
92544085 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
92544110 ATGTGAT
1 ATGTGAT
92544117 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:92544088 original size:47 final size:47
Alignment explanation
Indices: 92544022--92544309 Score: 486
Period size: 47 Copynumber: 6.1 Consensus size: 47
92544012 GAAATGATAG
92544022 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
92544069 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
92544116 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
92544165 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
92544212 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
92544259 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
92544306 TAAG
1 TAAG
92544310 TCCCGAAGGG
Statistics
Matches: 229, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 182 0.79
49 47 0.21
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:92544196 original size:96 final size:94
Alignment explanation
Indices: 92544022--92544309 Score: 486
Period size: 96 Copynumber: 3.0 Consensus size: 94
92544012 GAAATGATAG
92544022 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
92544087 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
92544116 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
92544181 ATGTGATGAATGTGAAAGTGTATATATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * *
92544212 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
92544277 GTGATGGATGTGAAAGTGTATAAATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
92544306 TAAG
1 TAAG
92544310 TCCCGAAGGG
Statistics
Matches: 184, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
94 90 0.49
96 94 0.51
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:92544281 original size:143 final size:141
Alignment explanation
Indices: 92544022--92544309 Score: 495
Period size: 143 Copynumber: 2.0 Consensus size: 141
92544012 GAAATGATAG
92544022 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * * *
92544087 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
92544152 TATATATATGTGA
131 TATA-A-ATGTGA
92544165 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
92544230 GTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
92544295 TATAAATGTGA
131 TATAAATGTGA
92544306 TAAG
1 TAAG
92544310 TCCCGAAGGG
Statistics
Matches: 138, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 10 0.07
142 1 0.01
143 127 0.92
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (141 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
TATAAATGTGA
Found at i:92546096 original size:43 final size:43
Alignment explanation
Indices: 92545996--92546100 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
92545986 ATCCGATAAG
* * * *
92545996 TGTAAGACCACGTCTGGGA-CGTTGGAATCGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGATAGTTGGAATCGTATTTAATTACA
*
92546038 TGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTAATTACA
1 TGTAAGACCAC-GTCTGGGATAGTTGGAATCG-TATTTAATTACA
*
92546081 TGTAATACCACGTCTGGGAT
1 TGTAAGACCACGTCTGGGAT
92546101 GTTAGCATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.02
42 24 0.45
43 27 0.51
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGATAGTTGGAATCGTATTTAATTACA
Found at i:92563975 original size:27 final size:27
Alignment explanation
Indices: 92563958--92564136 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
92563948 ATATTAAGTC
92563958 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTCAGTGCTATATAGTCAACT
* * *
92563985 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTCAGTGCTATATAGTCA-ACT
* *
92564013 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAGTCAACT
* *
92564040 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAGTCAACT
* *
92564067 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAGTC-AACT
* * * * *
92564095 CGTACACTTAGTGCTACATATTCAATT
1 CGCACACTCAGTGCTATATAGTCAACT
*
92564122 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
92564137 GCACAATTTA
Statistics
Matches: 142, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 91 0.64
28 51 0.36
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAGTCAACT
Found at i:92564042 original size:55 final size:54
Alignment explanation
Indices: 92563958--92564136 Score: 286
Period size: 55 Copynumber: 3.3 Consensus size: 54
92563948 ATATTAAGTC
* *
92563958 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCA-ACT
*
92564013 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
* * *
92564067 CGCACACTTAGTGCTACATAGTCAAACTCGTACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCAACT
92564122 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
92564137 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
54 26 0.22
55 91 0.78
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:92564096 original size:82 final size:82
Alignment explanation
Indices: 92563958--92564136 Score: 295
Period size: 82 Copynumber: 2.2 Consensus size: 82
92563948 ATATTAAGTC
* * *
92563958 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
92564023 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* *
92564040 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGTACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
* *
92564105 GTGCTACATATTCAATT
66 GTGCTACATAGTCAACT
92564122 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
92564137 GCACAATTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 90 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:92566903 original size:17 final size:17
Alignment explanation
Indices: 92566881--92566913 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
92566871 AGCCAAGTAC
92566881 GACTCAGTATAATAACG
1 GACTCAGTATAATAACG
92566898 GACTCAGTATAATAAC
1 GACTCAGTATAATAAC
92566914 CTCACCAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (17 bp):
GACTCAGTATAATAACG
Found at i:92571395 original size:46 final size:46
Alignment explanation
Indices: 92571337--92571470 Score: 189
Period size: 46 Copynumber: 2.9 Consensus size: 46
92571327 ATTTATGGTT
* * *
92571337 TCTTCCATCCATCCCACTACAAATCAAGGGTATAGGATTTGTACCA
1 TCTTCAATCCATCCCACTACAACTCAGGGGTATAGGATTTGTACCA
* * **
92571383 TCTTTAATCCATCCCACTGCAACTCAGGGGTATTA-GATTTGTATTA
1 TCTTCAATCCATCCCACTACAACTCAGGGGTA-TAGGATTTGTACCA
92571429 TCTTCAATCCATCCCACTACAACTCAGGGGTATAGGATTTGT
1 TCTTCAATCCATCCCACTACAACTCAGGGGTATAGGATTTGT
92571471 GGCTTCTTCA
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
45 2 0.03
46 73 0.95
47 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTACAACTCAGGGGTATAGGATTTGTACCA
Done.