Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 92 of 352
Found at i:29163837 original size:147 final size:148
Alignment explanation
Indices: 29163612--29163996 Score: 524
Period size: 147 Copynumber: 2.6 Consensus size: 148
29163602 TAGCCACTGG
* * * * *
29163612 CCTTATCTCTCTGAGGAAGCAAGAAAGTAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAAATTGAAGTCTTATCTTCCTGAGGTAGCA
* * *
29163677 AGGAAGCAGACTGAAGATTAAAGATTGGAAGAGGCGAATCTTATATCCATGTACCGGCAATGGAG
66 AGAAAGCAGACTGAAGATTAAAGATTGGAAGAGGCAAATCTTATATACATGTACCGGCAATGGAG
*
29163742 CA-AGTTTTAGCCTCAAGA
131 CAGA-TTTAAGCCTCAAGA
* *
29163760 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAAATTG-AGTCTTACCTTTCTGAGGTAGCA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAAATTGAAGTCTTATCTTCCTGAGGTAGCA
* * * * * **
29163824 AGAAAGCATACTGAAGATTGAAGATTGGAGGATGCAAATCTTATCTACATGTATTGGCAATGGAG
66 AGAAAGCAGACTGAAGATTAAAGATTGGAAGAGGCAAATCTTATATACATGTACCGGCAATGGAG
29163889 CAGATTTAAGCCTCAAGA
131 CAGATTTAAGCCTCAAGA
* * *
29163907 CCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTAAAAATTGTAGTATTATCTTCCTGAGGTAGCA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAAATTGAAGTCTTATCTTCCTGAGGTAGCA
* *
29163972 AGGAAA-CAGACCGAAGATTACAGAT
66 A-GAAAGCAGACTGAAGATTAAAGAT
29163997 CTTATTTCCC
Statistics
Matches: 208, Mismatches: 26, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
147 131 0.63
148 73 0.35
149 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (148 bp):
CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAAATTGAAGTCTTATCTTCCTGAGGTAGCA
AGAAAGCAGACTGAAGATTAAAGATTGGAAGAGGCAAATCTTATATACATGTACCGGCAATGGAG
CAGATTTAAGCCTCAAGA
Found at i:29164255 original size:180 final size:177
Alignment explanation
Indices: 29163860--29164513 Score: 694
Period size: 180 Copynumber: 3.7 Consensus size: 177
29163850 GGAGGATGCA
* * * * * *
29163860 AATCTTATCTACATGTATTGGCAATGGAGCAGATTTAAGCCTCAAGACCTTATCTCTCTGAAGTA
1 AATCTTATCTCCATGTATCGACAATGGAGCAGATTTTA-CCACAAG-CCTTATCTCTCTGAGGTA
* * * * *
29163925 GCAAGAGAGCAGGTTAAAAATTGTAGTATTATCTTCCTGAGGTAGCAAGGAAACAGACCGAAGAT
64 GCAAGAGAGCAGGTTAAAAAGTG-AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAAT
* * * * ** * *
29163990 T-ACAGATCTTATTTCCCT-AGGTAGTTGTGGAGCAGA--TTGAGGATGGCG
128 TGA-AGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTGA-GATGGTG
* * ***
29164038 AATCTTATCTCCATGTATCAACAATGGAGCAGATTTTAGCTATTGGCCTTATCTCTCTGAGGTAG
1 AATCTTATCTCCATGTATCGACAATGGAGCAGATTTTA-CCACAAGCCTTATCTCTCTGAGGTAG
* *
29164103 CAAGAGAGCAAGTT-GAAAGATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATT
65 CAAGAGAGCAGGTTAAAAAG-TGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATT
*
29164167 GAAGATTTTATCTCCCTGAAATTGCAGCGGAGCAGATCTTTGTAGATGGTG
129 GAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATC-TTG-AGATGGTG
* * * *
29164218 AATCTTATTTCCATGTATCGACAATGGAGCAGATTTTACCACCAAGCCTTATTTCTCTAACGTAG
1 AATCTTATCTCCATGTATCGACAATGGAGCAGATTTTACCA-CAAGCCTTATCTCTCTGAGGTAG
* * * * * **
29164283 CAAGAGAGCAGGTTGAAGAA-TGAGTTTTATTTTCCTGAGATAGCAAGGAAGCAGAATGGGAATT
65 CAAGAGAGCAGGTT-AAAAAGTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATT
29164347 GAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATC--GAGAATGGTG
129 GAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTGAG-ATGGTG
* * * * * * * * * *
29164395 AATCCTATCTTCATGTATCGGCAATAGAGTAAATTTTACCACTAGCCTTATTTCTTTGAGGTGGC
1 AATCTTATCTCCATGTATCGACAATGGAGCAGATTTTACCACAAGCCTTATCTCTCTGAGGTAGC
* *
29164460 AAGAGAGCAGGTTAAAAAGGGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGA
66 AAGAGAGCAGGTTAAAAAGTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
29164514 TTGTAGACTG
Statistics
Matches: 400, Mismatches: 64, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
175 4 0.01
176 118 0.29
177 87 0.22
178 36 0.09
179 2 0.00
180 150 0.38
181 1 0.00
182 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (177 bp):
AATCTTATCTCCATGTATCGACAATGGAGCAGATTTTACCACAAGCCTTATCTCTCTGAGGTAGC
AAGAGAGCAGGTTAAAAAGTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGA
AGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTGAGATGGTG
Found at i:29164467 original size:356 final size:358
Alignment explanation
Indices: 29163860--29164513 Score: 804
Period size: 356 Copynumber: 1.8 Consensus size: 358
29163850 GGAGGATGCA
* * *
29163860 AATCTTATCTACATGTATTGGCAATGGAGCAGATTTAAGCCTCAAGACCTTATCTCTCTGAAGTA
1 AATCTTATCTACATGTATCGACAATGGAGCAGATTTAAGCCCCAAGACCTTATCTCTCTGAAGTA
*
29163925 GCAAGAGAGCAGGTTAAAAATTGTAGTATTATCTTCCTGAGGTAGCAAGGAAACAGACCGAAGAT
66 GCAAGAGAGCAGGTTAAAAATTGTAGTATTATCTTCCTGAGATAGCAAGGAAACAGACCGAAGAT
* * ** * * * *
29163990 TACAGATCTTATTTCCCTAGGTAGTTGTGGAGCAGATTGAGGATGGCGAATCTTATCTCCATGTA
131 TACAGATCTTATCTCCCTAAGTAGCAGCGGAGCAGATCGAGAATGGCGAATCCTATCTCCATGTA
* * * * * *
29164055 TCAACAATGGAGCAGATTTTAGCTATTGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAAGTT-GA
196 TCAACAATAGAGCAAATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAAGTTAAA
*
29164119 AAGATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTTTATCTCCCT
261 AAG-GGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTTTATCTCCCT
29164184 GAAATTGCAGCGGAGCAGATCTTTGTAGATGGTG
325 GAAATTGCAGCGGAGCAGATCTTTGTAGATGGTG
* * * *
29164218 AATCTTATTTCCATGTATCGACAATGGAGCAGATTTTA-CCACCAAG-CCTTATTTCTCT-AACG
1 AATCTTATCTACATGTATCGACAATGGAGCAGATTTAAGCC-CCAAGACCTTATCTCTCTGAA-G
* * * * ** *
29164280 TAGCAAGAGAGCAGGTTGAAGAA-TG-AGTTTTATTTTCCTGAGATAGCAAGGAAGCAGAATG-G
64 TAGCAAGAGAGCAGGTT-AAAAATTGTAGTATTATCTTCCTGAGATAGCAAGGAAACAGACCGAA
* * * *
29164342 GAATTGA-AGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAGAATGGTGAATCCTATCTT
128 G-ATT-ACAGATCTTATCTCCCT-AAGTAGCAGCGGAGCAGATCGAGAATGGCGAATCCTATCTC
** * * * * *
29164406 CATGTATCGGCAATAGAGTAAATTTTA-CCACTAGCCTTATTTCTTTGAGGTGGCAAGAGAGCAG
190 CATGTATCAACAATAGAGCAAATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAA
*
29164470 GTTAAAAAGGGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGA
255 GTTAAAAAGGGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
29164514 TTGTAGACTG
Statistics
Matches: 247, Mismatches: 42, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
355 1 0.00
356 114 0.46
357 91 0.37
358 41 0.17
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (358 bp):
AATCTTATCTACATGTATCGACAATGGAGCAGATTTAAGCCCCAAGACCTTATCTCTCTGAAGTA
GCAAGAGAGCAGGTTAAAAATTGTAGTATTATCTTCCTGAGATAGCAAGGAAACAGACCGAAGAT
TACAGATCTTATCTCCCTAAGTAGCAGCGGAGCAGATCGAGAATGGCGAATCCTATCTCCATGTA
TCAACAATAGAGCAAATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAAGTTAAA
AAGGGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTTTATCTCCCTG
AAATTGCAGCGGAGCAGATCTTTGTAGATGGTG
Found at i:29168946 original size:29 final size:30
Alignment explanation
Indices: 29168899--29168970 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
29168889 GGTTTCATTT
*
29168899 CAGTCACCCAACTTTTAAAAAA-TAAC-AAA
1 CAGTCA-CCAACTTATAAAAAAGTAACAAAA
*
29168928 CAGTCACCAACGTTATAAAAAAGTGACAAAA
1 CAGTCACCAAC-TTATAAAAAAGTAACAAAA
*
29168959 CAGTCACTAACT
1 CAGTCACCAACT
29168971 AATAGTTTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.14
29 15 0.41
30 4 0.11
31 13 0.35
ACGTcount: A:0.49, C:0.24, G:0.08, T:0.19
Consensus pattern (30 bp):
CAGTCACCAACTTATAAAAAAGTAACAAAA
Found at i:29169027 original size:21 final size:21
Alignment explanation
Indices: 29169001--29169041 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
29168991 TAACAGAACC
29169001 GCTGATGTGGCAAGTTAACTA
1 GCTGATGTGGCAAGTTAACTA
*
29169022 GCTGATGTGGCCAGTTAACT
1 GCTGATGTGGCAAGTTAACT
29169042 TGCCACGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (21 bp):
GCTGATGTGGCAAGTTAACTA
Found at i:29169103 original size:3 final size:3
Alignment explanation
Indices: 29169097--29169139 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
29169087 CTTTTAACAG
* *
29169097 AGA AGA AGA AGA AGA AGA AGA AGA AGG AGA AAA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
29169140 CACTCACTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:29171452 original size:28 final size:28
Alignment explanation
Indices: 29171384--29171565 Score: 267
Period size: 28 Copynumber: 6.5 Consensus size: 28
29171374 CATGAGATTG
* * * *
29171384 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
29171413 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
29171441 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
29171469 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29171497 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29171525 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
29171552 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
29171566 GACTTAATAT
Statistics
Matches: 144, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 24 0.17
28 102 0.71
29 18 0.12
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:29175339 original size:26 final size:26
Alignment explanation
Indices: 29175308--29175415 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
29175298 TGAAATGCCC
*
29175308 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
29175334 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
29175360 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
29175386 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29175412 ATCA
1 ATCA
29175416 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:29182404 original size:26 final size:26
Alignment explanation
Indices: 29182374--29182500 Score: 187
Period size: 26 Copynumber: 5.2 Consensus size: 26
29182364 TGAAATGCCC
29182374 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29182400 ATCATGGAACATTTACCTAACCCA-T
1 ATCATGGAACATTTACCTAACCCATT
29182425 -T-AT---A-ATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
29182445 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
29182471 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29182497 ATCA
1 ATCA
29182501 ATTTGTACCA
Statistics
Matches: 91, Mismatches: 3, Indels: 14
0.84 0.03 0.13
Matches are distributed among these distances:
19 14 0.15
20 2 0.02
21 1 0.01
22 2 0.02
23 2 0.02
24 1 0.01
25 2 0.02
26 67 0.74
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:29182434 original size:19 final size:19
Alignment explanation
Indices: 29182410--29182446 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
29182400 ATCATGGAAC
29182410 ATTTACCTAACCCATTATA
1 ATTTACCTAACCCATTATA
29182429 ATTTACCTAACCCATTAT
1 ATTTACCTAACCCATTAT
29182447 CATGGAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.27, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTTACCTAACCCATTATA
Found at i:29182439 original size:45 final size:45
Alignment explanation
Indices: 29182384--29182472 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
29182374 ATCATGGAAC
29182384 ATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATTATA
1 ATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATTATA
* *
29182429 ATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTAT
1 ATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATTAT
29182473 CATGGAACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (45 bp):
ATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATTATA
Found at i:29184051 original size:48 final size:48
Alignment explanation
Indices: 29183980--29184097 Score: 209
Period size: 48 Copynumber: 2.5 Consensus size: 48
29183970 TTTCATTAAA
*
29183980 AAGCAACTATAGTCATCGGCTTTTCGGTTGGGTAAAACCCTTTCCGAG
1 AAGCAACTATGGTCATCGGCTTTTCGGTTGGGTAAAACCCTTTCCGAG
* *
29184028 AAGCAACTATGGTCATCAGCTTTTCGGTTGGGTAAAACCCTTTTCGAG
1 AAGCAACTATGGTCATCGGCTTTTCGGTTGGGTAAAACCCTTTCCGAG
29184076 AAGCAACTATGGTCATCGGCTT
1 AAGCAACTATGGTCATCGGCTT
29184098 CCCAAATTCA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (48 bp):
AAGCAACTATGGTCATCGGCTTTTCGGTTGGGTAAAACCCTTTCCGAG
Found at i:29185559 original size:13 final size:13
Alignment explanation
Indices: 29185541--29185576 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
29185531 CCACTGAGAT
29185541 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
29185554 AAAAAAAGAAAAG
1 AAAAAAAAAAAAG
29185567 AAAAAAAAAA
1 AAAAAAAAAA
29185577 GACCAAGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:29191110 original size:37 final size:37
Alignment explanation
Indices: 29191060--29191165 Score: 158
Period size: 37 Copynumber: 2.9 Consensus size: 37
29191050 GCTCGAATAG
* * *
29191060 TCTCCACACGTAGTTAACGGATCTTACCCGGACAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
* *
29191097 TCTCCACACGTAGTCATCGGGTCTTACCCAGACATAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
*
29191134 TCTCCACACGTGGTCATCGGGTCTTACCCGGA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGA
29191166 ATATATTTCC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
Found at i:29191364 original size:48 final size:48
Alignment explanation
Indices: 29191306--29191633 Score: 575
Period size: 48 Copynumber: 6.8 Consensus size: 48
29191296 ATATACACAC
*
29191306 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
29191354 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
29191402 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
29191450 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
29191498 ATCTCATATATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
29191546 ATCTCATACATATTTCACATTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
29191594 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
29191634 GCACATATAT
Statistics
Matches: 267, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 267 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:29194810 original size:46 final size:47
Alignment explanation
Indices: 29194714--29194886 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 47
29194704 CTATTTGTGT
* ** *
29194714 CGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACAACTCTTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTC-AAGC
*
29194760 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTC-AAGC
* * * *
29194806 CGATG-CATGTCCCGGACAT-GTCTTACACTAGCATT-TGTCTCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTACGTCTCAA-GC
29194852 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT
29194887 CTCATAATGT
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
44 12 0.11
45 15 0.14
46 53 0.49
47 16 0.15
48 12 0.11
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCAAGC
Found at i:29194906 original size:94 final size:92
Alignment explanation
Indices: 29194760--29194931 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 92
29194750 AACTCTTAGC
* * * *
29194760 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCGGACAT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCAATGCATGTCCCAGACAT
29194825 GTCTTACACTAGCATTTGTCTCAATGT
66 GTCTTACACTAGCATTTGTCTCAATGT
* *
29194852 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCTAATGCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCAATGCATGTCCCAG
*
29194915 ACATGTTTTACACTAGC
62 ACATGTCTTACACTAGC
29194932 TCACATAAGT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 5 0.07
93 14 0.20
94 48 0.70
95 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCAATGCATGTCCCAGACAT
GTCTTACACTAGCATTTGTCTCAATGT
Found at i:29198762 original size:8 final size:8
Alignment explanation
Indices: 29198751--29198777 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
29198741 TGTTTTATTA
29198751 TATTATAT
1 TATTATAT
29198759 TATTATAT
1 TATTATAT
29198767 TATTATAT
1 TATTATAT
29198775 TAT
1 TAT
29198778 ATACTTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTATAT
Found at i:29198763 original size:13 final size:12
Alignment explanation
Indices: 29198744--29198779 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
29198734 TCTTTTATGT
29198744 TTTATTATATTA
1 TTTATTATATTA
29198756 TATTATTATATTA
1 T-TTATTATATTA
29198769 TTATATTATAT
1 TT-TATTATAT
29198780 ACTTAAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 2 0.09
13 20 0.91
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTATTATATTA
Found at i:29202870 original size:16 final size:16
Alignment explanation
Indices: 29202841--29202873 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29202831 TCAAACAATT
29202841 TTTTATATAATATTTA
1 TTTTATATAATATTTA
29202857 TTTTA-ATAATTATTTA
1 TTTTATATAA-TATTTA
29202873 T
1 T
29202874 ATAGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTATATAATATTTA
Found at i:29212368 original size:26 final size:26
Alignment explanation
Indices: 29212318--29212368 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
29212308 ATTTCCTTTT
*
29212318 TCTTTTTCTTTCCTTATTTCTTTCTC
1 TCTTTTTCTTTCCTTATCTCTTTCTC
29212344 TCTTTTTCGTTT-CTT-TCTCTGTTCT
1 TCTTTTTC-TTTCCTTATCTCT-TTCT
29212369 TATTCTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 4 0.18
26 15 0.68
27 3 0.14
ACGTcount: A:0.02, C:0.25, G:0.04, T:0.69
Consensus pattern (26 bp):
TCTTTTTCTTTCCTTATCTCTTTCTC
Found at i:29229154 original size:46 final size:46
Alignment explanation
Indices: 29229101--29229283 Score: 278
Period size: 46 Copynumber: 4.0 Consensus size: 46
29229091 TATATATACA
* * * *
29229101 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
*
29229147 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTA-ATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC-ACATATC
* * *
29229193 CATCTCATACACGTTTCGCATTAGCCATTCAGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
29229239 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
29229284 ATACACTTCC
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
46 124 0.99
47 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:29229328 original size:47 final size:47
Alignment explanation
Indices: 29229257--29229587 Score: 477
Period size: 47 Copynumber: 7.1 Consensus size: 47
29229247 ACACATTTCG
* * * * * *
29229257 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
29229304 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
29229351 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
29229398 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
29229445 TATTGGCCATTCGGCCTTATCACACATATG-ATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
29229491 CATTGGCCATTCAGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
29229538 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
29229585 CAT
1 CAT
29229588 AAAATCCTAA
Statistics
Matches: 261, Mismatches: 21, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
46 43 0.16
47 218 0.84
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:29229375 original size:22 final size:22
Alignment explanation
Indices: 29229347--29229421 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
29229337 GTTCACATTC
29229347 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
29229369 ATCACATATATGCATATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
29229393 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
29229416 ATCACA
1 ATCACA
29229422 CATATGCATG
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:29240078 original size:13 final size:13
Alignment explanation
Indices: 29240060--29240087 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
29240050 GTTATTCATA
29240060 ATTAATATGAATT
1 ATTAATATGAATT
29240073 ATTAATATGAATT
1 ATTAATATGAATT
29240086 AT
1 AT
29240088 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:29242169 original size:92 final size:97
Alignment explanation
Indices: 29242055--29242269 Score: 246
Period size: 92 Copynumber: 2.3 Consensus size: 97
29242045 TGAGAGACAC
* *
29242055 TGTAAGACCATGTATGGGACATGGCATCGGAA-TTGAGACAAGAGCCAGTGTAAGA-CAGGTCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGAACGT-AGACAAGAGCCAGTGTAAGACCAGGTCTG
* *
29242118 GGACAT-GCATCGACAACG-AGATGT-G-TC-AG
65 AGACATGGCATCGAC-ACGAAGATGTAGAGCTAG
* * * * * * *
29242147 TGTAAGACCATGTCTGGGACATGGCATTGGCACGTATAGAGGTGCCAGTGTAAGACCATGTCTGA
1 TGTAAGACCATGTCTGGGACATGGCATCGGAACGTAGACAAGAGCCAGTGTAAGACCAGGTCTGA
*
29242212 GACATGGCATCGACACGAATATGTGAGAGCTAG
66 GACATGGCATCGACACGAAGATGT-AGAGCTAG
29242245 TGTAAGACCATGTCTGGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
29242270 GTCAGCCTCG
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
92 45 0.44
93 16 0.16
94 13 0.13
96 1 0.01
97 1 0.01
98 27 0.26
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.21
Consensus pattern (97 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGAACGTAGACAAGAGCCAGTGTAAGACCAGGTCTGA
GACATGGCATCGACACGAAGATGTAGAGCTAG
Found at i:29242258 original size:50 final size:48
Alignment explanation
Indices: 29242016--29242269 Score: 197
Period size: 48 Copynumber: 5.4 Consensus size: 48
29242006 TAGCGTAAGG
* * * *
29242016 CATGTCTGGGACAT-GCATCAGCCAC-ATTATGA-GAGACACTGTAAGAC
1 CATGTCTGGGACATGGCATC-GACACGAATA-GAGGAGCCAGTGTAAGAC
* * *
29242063 CATGTATGGGACATGGCATCGGA-ATTGAGACA-A-GAGCCAGTGTAAGA-
1 CATGTCTGGGACATGGCATC-GACA-CGA-ATAGAGGAGCCAGTGTAAGAC
* * * *
29242110 CAGGTCTGGGACAT-GCATCGACAACG---AGATGTGTCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGAC-ACGAATAGAGGAGCCAGTGTAAGAC
* * * *
29242155 CATGTCTGGGACATGGCATTGGCACGTATAGAGGTGCCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGACACGAATAGAGGAGCCAGTGTAAGAC
* * *
29242203 CATGTCTGAGACATGGCATCGACACGAATATGTGAGAGCTAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGACACGAATA-GAG-GAGCCAGTGTAAGAC
29242253 CATGTCTGGGACATGGC
1 CATGTCTGGGACATGGC
29242270 GTCAGCCTCG
Statistics
Matches: 166, Mismatches: 26, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 12 0.07
45 18 0.11
46 12 0.07
47 27 0.16
48 62 0.37
49 3 0.02
50 30 0.18
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (48 bp):
CATGTCTGGGACATGGCATCGACACGAATAGAGGAGCCAGTGTAAGAC
Found at i:29242263 original size:98 final size:92
Alignment explanation
Indices: 29242098--29242269 Score: 238
Period size: 98 Copynumber: 1.8 Consensus size: 92
29242088 TGAGACAAGA
* *
29242098 GCCAGTGTAAGACAGGTCTGGGACATGCATCGACAACGAGATGTGTCAGTGTAAGACCATGTCTG
1 GCCAGTGTAAGACAGGTCTGAGACATGCATCGACAACGAGATGTGGCAGTGTAAGACCATGTCTG
29242163 GGACATGGCATTGGCACGTATAGAGGT
66 GGACATGGCATTGGCACGTATAGAGGT
* *
29242190 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGAC-ACGAATATGTGAGAGCTAGTGTAAGACC
1 GCCAGTGTAAGA-CAGGTCTGAGACAT-GCATCGACAACG-AGATGT--G-GC-AGTGTAAGACC
29242254 ATGTCTGGGACATGGC
59 ATGTCTGGGACATGGC
29242270 GTCAGCCTCG
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
92 12 0.17
93 15 0.22
94 13 0.19
96 1 0.01
97 1 0.01
98 27 0.39
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (92 bp):
GCCAGTGTAAGACAGGTCTGAGACATGCATCGACAACGAGATGTGGCAGTGTAAGACCATGTCTG
GGACATGGCATTGGCACGTATAGAGGT
Found at i:29242310 original size:49 final size:49
Alignment explanation
Indices: 29242016--29242311 Score: 189
Period size: 48 Copynumber: 6.2 Consensus size: 49
29242006 TAGCGTAAGG
* * * *
29242016 CATGTCTGGGACAT-GCATCAGCCAC-ATTATGAGAGA-CACTGTAAGAC
1 CATGTCTGGGACATGGCATC-GACACGAATATGTGAGAGCAGTGTAAGAC
* *
29242063 CATGTATGGGACATGGCATCG----GAAT-TGAGACAAGAGCCAGTGTAAGA-
1 CATGTCTGGGACATGGCATCGACACGAATATGTG---AGAG-CAGTGTAAGAC
* * *
29242110 CAGGTCTGGGACAT-GCATCGACAACG-AGATGT--G-TCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGAC-ACGAATATGTGAGAGCAGTGTAAGAC
* * * * *
29242155 CATGTCTGGGACATGGCATTGGCACGTATA-GAG-GTGCCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGACACGAATATGTGAGAG-CAGTGTAAGAC
*
29242203 CATGTCTGAGACATGGCATCGACACGAATATGTGAGAGCTAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGACACGAATATGTGAGAGC-AGTGTAAGAC
* * * *
29242253 CATGTCTGGGACATGGCGTCAGCCTCG-AT-T-TCGATAGTCAGTGTAAGAC
1 CATGTCTGGGACATGGCATC-GACACGAATATGT-GAGAG-CAGTGTAAGAC
29242302 CATGTCTGGG
1 CATGTCTGGG
29242312 CCATTGTAAC
Statistics
Matches: 199, Mismatches: 25, Indels: 48
0.73 0.09 0.18
Matches are distributed among these distances:
43 4 0.02
44 12 0.06
45 17 0.09
46 19 0.10
47 26 0.13
48 52 0.26
49 28 0.14
50 34 0.17
51 7 0.04
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (49 bp):
CATGTCTGGGACATGGCATCGACACGAATATGTGAGAGCAGTGTAAGAC
Found at i:29242624 original size:32 final size:32
Alignment explanation
Indices: 29242557--29242659 Score: 167
Period size: 32 Copynumber: 3.3 Consensus size: 32
29242547 CATGAAACAG
* *
29242557 GGTCACACA--CCCGTGTGGG-TAGGTCATGT
1 GGTCACACACGCCCGTGTGGGTTAGGCCGTGT
29242586 GGTCACACACGCCCGTGTGGGTTAGGCCGTGT
1 GGTCACACACGCCCGTGTGGGTTAGGCCGTGT
29242618 GGTCACACACGCCCGTGTGGGTTAGGCCGTGT
1 GGTCACACACGCCCGTGTGGGTTAGGCCGTGT
29242650 GGTCACACAC
1 GGTCACACAC
29242660 ACCCATATGG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
29 9 0.13
31 10 0.14
32 50 0.72
ACGTcount: A:0.16, C:0.28, G:0.35, T:0.21
Consensus pattern (32 bp):
GGTCACACACGCCCGTGTGGGTTAGGCCGTGT
Found at i:29244349 original size:28 final size:28
Alignment explanation
Indices: 29244307--29244360 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
29244297 ATCTTCGATG
*
29244307 TCTCGCACACTAAGTGCCATACTCAATA
1 TCTCGCACACCAAGTGCCATACTCAATA
* *
29244335 TCTCGCACACCAAGTGCTATTCTCAA
1 TCTCGCACACCAAGTGCCATACTCAA
29244361 CATTTCACGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.33, G:0.11, T:0.26
Consensus pattern (28 bp):
TCTCGCACACCAAGTGCCATACTCAATA
Found at i:29244377 original size:28 final size:28
Alignment explanation
Indices: 29244307--29244381 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 28
29244297 ATCTTCGATG
* *
29244307 TCTCGCACACTAAGTGCCATACTCAATA
1 TCTCACACACTAAGTGCCATACTCAACA
* * * *
29244335 TCTCGCACACCAAGTGCTATTCTCAACA
1 TCTCACACACTAAGTGCCATACTCAACA
* *
29244363 TTTCACGCACTAAGTGCCA
1 TCTCACACACTAAGTGCCA
29244382 CATATATATA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.29, C:0.33, G:0.12, T:0.25
Consensus pattern (28 bp):
TCTCACACACTAAGTGCCATACTCAACA
Found at i:29255980 original size:19 final size:19
Alignment explanation
Indices: 29255954--29255995 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
29255944 TAATTAATTT
* *
29255954 ATTTTTTTTCTAAATTTTAA
1 ATTTTTTTTAT-AATTTCAA
29255974 ATTTTTTTTATAATTTCAA
1 ATTTTTTTTATAATTTCAA
29255993 ATT
1 ATT
29255996 AAAATCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTTTTATAATTTCAA
Found at i:29258730 original size:13 final size:13
Alignment explanation
Indices: 29258712--29258750 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
29258702 AAGGATTTGG
29258712 AGTTTAGGGTTTA
1 AGTTTAGGGTTTA
*
29258725 AGTTTAAGGTTTA
1 AGTTTAGGGTTTA
29258738 AGGGTTTAGGGTT
1 A--GTTTAGGGTT
29258751 GCGAGTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 13 0.59
15 9 0.41
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (13 bp):
AGTTTAGGGTTTA
Found at i:29265404 original size:13 final size:13
Alignment explanation
Indices: 29265380--29265413 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
29265370 TATTTTTTAT
29265380 TATATAATTGTGTG
1 TATAT-ATTGTGTG
29265394 TATATATTGTGTG
1 TATATATTGTGTG
*
29265407 TGTATAT
1 TATATAT
29265414 ATTATATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (13 bp):
TATATATTGTGTG
Found at i:29265408 original size:15 final size:15
Alignment explanation
Indices: 29265388--29265416 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29265378 ATTATATAAT
29265388 TGTGTGTATATATTG
1 TGTGTGTATATATTG
29265403 TGTGTGTATATATT
1 TGTGTGTATATATT
29265417 ATATGCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (15 bp):
TGTGTGTATATATTG
Found at i:29272345 original size:42 final size:42
Alignment explanation
Indices: 29272294--29272376 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
29272284 CGCATGGTGT
29272294 ATGAATGAGTCCATATTCATTTCAGAAATGCAAACATTGAAA
1 ATGAATGAGTCCATATTCATTTCAGAAATGCAAACATTGAAA
*
29272336 ATGATTGAGTCCATATTCATTTCAGAAATGCAAACATTGAA
1 ATGAATGAGTCCATATTCATTTCAGAAATGCAAACATTGAA
29272377 TCTCAACTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGAATGAGTCCATATTCATTTCAGAAATGCAAACATTGAAA
Found at i:29277690 original size:26 final size:26
Alignment explanation
Indices: 29277650--29277705 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
29277640 ATATAATAAT
29277650 AATATAATAAATAATACA-AATTTAAA
1 AATATAATAAATAATA-ATAATTTAAA
** *
29277676 AATATAATACTTAATAATAATTTCAA
1 AATATAATAAATAATAATAATTTAAA
29277702 AATA
1 AATA
29277706 GCATTTACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (26 bp):
AATATAATAAATAATAATAATTTAAA
Found at i:29279631 original size:87 final size:87
Alignment explanation
Indices: 29279386--29279647 Score: 357
Period size: 87 Copynumber: 3.0 Consensus size: 87
29279376 CAAATCTGCT
* * * * * **
29279386 TCTTCGATTTGTTCCCTG-ACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAAC
1 TCTTCGATTTGTTCCTTGTA-AACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAAC
* * *
29279450 A-CGTGAAAGCCAAATCTGCTATG
65 ATC-TGAAGGTCAGATCTGCTATG
*
29279473 TCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
1 TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
*
29279538 TCTGAAGGTCAGACCTGCTATG
66 TCTGAAGGTCAGATCTGCTATG
* *
29279560 TCTTCGATTTGTTTCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCAGTATAAACA
1 TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
*
29279625 TCTGAAGGTTAGATCTGCTATG
66 TCTGAAGGTCAGATCTGCTATG
29279647 T
1 T
29279648 GTCTGCTCTC
Statistics
Matches: 156, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
87 154 0.99
88 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (87 bp):
TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
TCTGAAGGTCAGATCTGCTATG
Found at i:29279728 original size:89 final size:93
Alignment explanation
Indices: 29279620--29279791 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 93
29279610 ACTTCAGTAT
* * * * *
29279620 AAACATCTGAAGGTTAGATCTGCTATG-T-G-TCTGCTCTCCATCGAATATGGAGACGCCAAATC
1 AAACATCTGAAAGTCAGATCTGCTATGTTCGATCTGCTCTCCATCGAAGATAGAGAAGCCAAATC
29279682 -TGTTATCTTGGATCTGCTTTAATGTGA
66 TTGTTATCTTGGATCTGCTTTAATGTGA
* *
29279709 AAACATCTGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCTCCGTCGAAGATAGAGAAGCCAAA
1 AAACATCTGAAAGTCAGATCTGCTATG--TTCGATCTGCTCTCCATCGAAGATAGAGAAGCCAAA
29279774 TCTTGTTATCTTGGATCT
64 TCTTGTTATCTTGGATCT
29279792 ATTTTAGTGT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
89 25 0.36
92 1 0.01
93 1 0.01
94 28 0.40
95 15 0.21
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (93 bp):
AAACATCTGAAAGTCAGATCTGCTATGTTCGATCTGCTCTCCATCGAAGATAGAGAAGCCAAATC
TTGTTATCTTGGATCTGCTTTAATGTGA
Found at i:29293590 original size:766 final size:765
Alignment explanation
Indices: 29292113--29293647 Score: 2491
Period size: 766 Copynumber: 2.0 Consensus size: 765
29292103 GAGTCTTCAG
* * * *
29292113 GTTCCCACGTGGCCTCCTCAGTACCATGATTCCGCTACAGAACCTTCACTAAAGGGATGGACTTC
1 GTTCCCACATGGCCTCCTCAGTACCATGATTCCGCCACAGAACCTTCACTAAAAGGATAGACTTC
* *
29292178 CTCTTCAAAACCTTAATGTCTTGATCTAGAATCTGAACCGGCTCCTCCTCAAAAGTCAAGTCCGA
66 CTCCTCAAAACCTTAATGTCTCGATCTAGAATCTGAACCGGCTCCTCCTCAAAAGTCAAGTCCGA
* *
29292243 CATAACCTCAATTTTTTTAAGAAAAATAACATGATAAGGATCAGACTGATACCGCCTCAACATCA
131 CATAACCTCAATTTTTTTAAGAAAAACAACATGAGAAGGATCAGACTGATACCGCCTCAACATCA
* *
29292308 AGACGTGGAAGACATCGTGAATATGGTCCAGCTCCAGAGGTAGCTCCAACTGATAAGCAACCAGT
196 AGACGTGGAAGACATCATGAATATGGTCCAACTCCAGAGGTAGCTCCAACTGATAAGCAACCAGT
29292373 CCCACACGCTTCAGGATCCGATACGACCCAATAAACCTAGGGCTTAGCTTGCCTTACGACCGAAT
261 CCCACACGCTTCAGGATCCGATACGACCCAATAAACCTAGGGCTTAGCTTGCCTTACGACCGAAT
**
29292438 CTCAGAACCTTCTTCCACGGAGAAACCTTAAGAAAAATGAAGTCCCCCACAGAGTACTCAATATC
326 CTCAGAACCTTCTTCCACGGAGAAACCTTAAGAAAAACAAAGTCCCCCACAGAGTACTCAATATC
29292503 ACGCCTCTTCAAATCAGCATAAGATTTCTATCTATCAGAAGCTGCCTTCAGACGATCCCGAATCA
391 ACGCCTCTTCAAATCAGCATAAGATTTCTATCTATCAGAAGCTGCCTTCAGACGATCCCGAATCA
* ** * * * *
29292568 GCTTAACTTTATCCTCGGTCTCAGAAACCAATTCAAGACCCAAAACTCGACGTTCACCCAACTAA
456 ACCAAACTTTATCATCGGTCTCAAAAACCAACTCAAAACCCAAAACTCGACGTTCACCCAACTAA
* *
29292633 GTCCAAGACAGCAGAGTGTGACACTTACGACCATACAATGCCTCGTATGGTGCCATCTGGATGCT
521 GTCCAAGACAGCAGAGTGCGACACTTACGACCATACAATACCTCGTATGGTGCCATCTGGATGCT
* * * * * * * *
29292698 AGACTGGAAACTGTTATTGTAGGCGAACTCAGCTAGCGTCAGATAATCTTCTCAACTACTTTGGA
586 AAACTGGAAACTATTATTGTAGGCGAACTCAGCTAGAGGCAAATAATCTTCTCAACTACCTCGAA
29292763 ATTCTAACACACAACTCCGAAGCAAGTCCTCCAATATCTGAATCACCCTCTCAAACTGACCATCA
651 ATTCTAACACACAACTCCGAAGCAAGTCCTCCAATATCTGAATCACCCTCTCAAACTGACCATCA
*
29292828 GTCTGAGGATGGAACGCAGTACTAAAGTCCAATCTCGAACCC-AAAGCCTT
716 GTCTGAGGATGGAACGCAGTACTAAAGTCCAATCTCG-ACCCTAAAGCCTC
*
29292878 GTTCCCACATGGCC-CACTCAGTACCATGATTCCGCCACAGAACCTTTACTAAAAGGATAGACTT
1 GTTCCCACATGGCCTC-CTCAGTACCATGATTCCGCCACAGAACCTTCACTAAAAGGATAGACTT
* * *
29292942 CCTCCTCAGAACCTTAATGTCTCGATCTATAATCTGAACCGGCTCCTCCTCAAAAGTCAAGTCTG
65 CCTCCTCAAAACCTTAATGTCTCGATCTAGAATCTGAACCGGCTCCTCCTCAAAAGTCAAGTCCG
* *
29293007 ACATAACCTTAATTTTTTTTAAGAAAAACAATATGAGAAGGATCAGACTGATACCGCCTCAACAT
130 ACATAACCTCAA-TTTTTTTAAGAAAAACAACATGAGAAGGATCAGACTGATACCGCCTCAACAT
29293072 CAAGACGTGGAAGACATCATGAATATGGTCCAACTCCAGAGGTAGCTCCAACTGATAAGCAACCA
194 CAAGACGTGGAAGACATCATGAATATGGTCCAACTCCAGAGGTAGCTCCAACTGATAAGCAACCA
* * **
29293137 GTCCCACATGCTTCAGGATTCGATACGGTCCAATAAACCTAGGGCTTAGCTTGCCTTACGACCGA
259 GTCCCACACGCTTCAGGATCCGATACGACCCAATAAACCTAGGGCTTAGCTTGCCTTACGACCGA
29293202 ATCTCAGAACCTTCTTCCACGGAGAAACCTTAAGAAAAACAAAGTCCCCCACAGAGTACTCAATA
324 ATCTCAGAACCTTCTTCCACGGAGAAACCTTAAGAAAAACAAAGTCCCCCACAGAGTACTCAATA
* * * *
29293267 TCACGCCTCTTTAAATCAGCATAAGATTTCTATCTATCAGAAGTTGCC-TCTAGATGATCCTGAA
389 TCACGCCTCTTCAAATCAGCATAAGATTTCTATCTATCAGAAGCTGCCTTC-AGACGATCCCGAA
* * * *
29293331 TCAACCAAACTTTATCATCGGTCTCAAAAATCAACTCAAAACCCATAACTCGATGTTCACCTAAC
453 TCAACCAAACTTTATCATCGGTCTCAAAAACCAACTCAAAACCCAAAACTCGACGTTCACCCAAC
* * * *
29293396 TCAGTCCAAGACAGCGGAGTGCGATACTTATGACCATACAATACCTCGTATGGTGCCATCTGGAT
518 TAAGTCCAAGACAGCAGAGTGCGACACTTACGACCATACAATACCTCGTATGGTGCCATCTGGAT
*
29293461 GCTAAACTGGAAACTATTATTGTAGGCGAACTCAGTTAGAGGCAAATAATCTTCTCAACTACCTC
583 GCTAAACTGGAAACTATTATTGTAGGCGAACTCAGCTAGAGGCAAATAATCTTCTCAACTACCTC
* * * **
29293526 GAAATTCTAACACATAACTCTGAAGCATGTCCTCCAATATCTGAATCACCCTCTCAGGCTGACCA
648 GAAATTCTAACACACAACTCCGAAGCAAGTCCTCCAATATCTGAATCACCCTCTCAAACTGACCA
29293591 TCAGTCTGAGGATGGAACGCAGTACTAAAGTCCAATCTCGACCCTAAAGCCTC
713 TCAGTCTGAGGATGGAACGCAGTACTAAAGTCCAATCTCGACCCTAAAGCCTC
29293644 GTTC
1 GTTC
29293648 AATTTCTTTC
Statistics
Matches: 708, Mismatches: 58, Indels: 7
0.92 0.08 0.01
Matches are distributed among these distances:
764 1 0.00
765 134 0.19
766 573 0.81
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (765 bp):
GTTCCCACATGGCCTCCTCAGTACCATGATTCCGCCACAGAACCTTCACTAAAAGGATAGACTTC
CTCCTCAAAACCTTAATGTCTCGATCTAGAATCTGAACCGGCTCCTCCTCAAAAGTCAAGTCCGA
CATAACCTCAATTTTTTTAAGAAAAACAACATGAGAAGGATCAGACTGATACCGCCTCAACATCA
AGACGTGGAAGACATCATGAATATGGTCCAACTCCAGAGGTAGCTCCAACTGATAAGCAACCAGT
CCCACACGCTTCAGGATCCGATACGACCCAATAAACCTAGGGCTTAGCTTGCCTTACGACCGAAT
CTCAGAACCTTCTTCCACGGAGAAACCTTAAGAAAAACAAAGTCCCCCACAGAGTACTCAATATC
ACGCCTCTTCAAATCAGCATAAGATTTCTATCTATCAGAAGCTGCCTTCAGACGATCCCGAATCA
ACCAAACTTTATCATCGGTCTCAAAAACCAACTCAAAACCCAAAACTCGACGTTCACCCAACTAA
GTCCAAGACAGCAGAGTGCGACACTTACGACCATACAATACCTCGTATGGTGCCATCTGGATGCT
AAACTGGAAACTATTATTGTAGGCGAACTCAGCTAGAGGCAAATAATCTTCTCAACTACCTCGAA
ATTCTAACACACAACTCCGAAGCAAGTCCTCCAATATCTGAATCACCCTCTCAAACTGACCATCA
GTCTGAGGATGGAACGCAGTACTAAAGTCCAATCTCGACCCTAAAGCCTC
Found at i:29299877 original size:127 final size:122
Alignment explanation
Indices: 29299759--29299985 Score: 289
Period size: 127 Copynumber: 1.8 Consensus size: 122
29299749 ATGAGATATG
* * *
29299759 ATTAAAACTAATCCTAATTCAATGTTAAA-TTGATAAAAATTAATATATAAATTATAATAGATAT
1 ATTAAAACTAATCCTAACTCAAT-ATAAAGTTGATAAAAATTAATATAT--ATTATAAT-G-GA-
29299823 AATTATATATTAA-AGATTATCATCTTATTATT-ATTAAAAACTTATCAAGTAAAATATGATGAA
60 AA-TATATATTAATA-ATTATCATCTTATTATTAATTAAAAACTTATCAAGTAAAATATGATGAA
* * *
29299886 ATTAACACTAATCCTAACTCTATATAAAGTTGATAATAATTAATATATATTATAATGGAAATATA
1 ATTAAAACTAATCCTAACTCAATATAAAGTTGATAAAAATTAATATATATTATAATGGAAATATA
* *
29299951 TATTAATAATTATCATCTTTTTTTTAATTAAAAAC
66 TATTAATAATTATCATCTTATTATTAATTAAAAAC
29299986 ATTTATTCTA
Statistics
Matches: 89, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
121 25 0.28
122 12 0.13
123 1 0.01
124 1 0.01
125 8 0.09
126 4 0.04
127 38 0.43
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (122 bp):
ATTAAAACTAATCCTAACTCAATATAAAGTTGATAAAAATTAATATATATTATAATGGAAATATA
TATTAATAATTATCATCTTATTATTAATTAAAAACTTATCAAGTAAAATATGATGAA
Found at i:29312195 original size:16 final size:15
Alignment explanation
Indices: 29312169--29312203 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
29312159 TGATGTGAAT
29312169 AATATAAAATATTAA
1 AATATAAAATATTAA
*
29312184 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
29312200 AATA
1 AATA
29312204 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:29312375 original size:20 final size:20
Alignment explanation
Indices: 29312318--29312377 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
29312308 AATACTACAT
29312318 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
29312337 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
29312360 AAATATGTACATAATATA
1 AAATATGTACATAATATA
29312378 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:29312385 original size:23 final size:23
Alignment explanation
Indices: 29312359--29312500 Score: 106
Period size: 25 Copynumber: 5.9 Consensus size: 23
29312349 GATAATATTA
*
29312359 AAAATATGTACATAATATAGTGT
1 AAAATATATACATAATATAGTGT
* *
29312382 AAAAAATACATACATAATATAAT-T
1 --AAAATATATACATAATATAGTGT
* *
29312406 AAAATATATACATAAGATAACATGT
1 AAAATATATACATAATAT-A-GTGT
* *
29312431 AATATATATATAAATAATATAGTATT
1 AA-A-ATATATACATAATATAGT-GT
* *
29312457 AAAGATATATACATAAAATAGTAT
1 AAA-ATATATACATAATATAGTGT
* *
29312481 AATATATATACGTAATATAG
1 AAAATATATACATAATATAG
29312501 AATTTAGAAT
Statistics
Matches: 95, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
22 16 0.17
23 16 0.17
24 6 0.06
25 39 0.41
26 5 0.05
27 13 0.14
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (23 bp):
AAAATATATACATAATATAGTGT
Found at i:29312439 original size:27 final size:25
Alignment explanation
Indices: 29312391--29312472 Score: 71
Period size: 27 Copynumber: 3.3 Consensus size: 25
29312381 TAAAAAATAC
*
29312391 ATACATAATAT-A-ATTAAA-ATAT
1 ATACATAAGATAACATTAAAGATAT
*
29312413 ATACATAAGATAACATGTAATATATAT
1 ATACATAAGATAACAT-TAA-AGATAT
* * **
29312440 ATAAATAATATAGTATTAAAGATAT
1 ATACATAAGATAACATTAAAGATAT
29312465 ATACATAA
1 ATACATAA
29312473 AATAGTATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
22 10 0.21
23 1 0.02
24 2 0.04
25 15 0.31
26 4 0.08
27 16 0.33
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (25 bp):
ATACATAAGATAACATTAAAGATAT
Found at i:29312464 original size:25 final size:25
Alignment explanation
Indices: 29312354--29312565 Score: 133
Period size: 23 Copynumber: 8.9 Consensus size: 25
29312344 TACGTGATAA
* *
29312354 TATTAAAAATATGTACATAATATAG
1 TATTAAAGATATATACATAATATAG
* * * *
29312379 TGTAAAAAATACATACATAATATA-
1 TATTAAAGATATATACATAATATAG
* *
29312403 -ATTAAA-ATATATACATAAGATAA
1 TATTAAAGATATATACATAATATAG
* * *
29312426 CATGTAATATATATATAAATAATATAG
1 TAT-TAA-AGATATATACATAATATAG
*
29312453 TATTAAAGATATATACATAAAATAG
1 TATTAAAGATATATACATAATATAG
* *
29312478 TA-T-AATATATATACGTAATATAG
1 TATTAAAGATATATACATAATATAG
* * *
29312501 AATT-TAGA-ATATACCTAATATA-
1 TATTAAAGATATATACATAATATAG
* * *
29312523 T-TAAAAGA-ATATATATAATATAA
1 TATTAAAGATATATACATAATATAG
*
29312546 TATT-AAGAAATATA-ATAATA
1 TATTAAAGATATATACATAATA
29312566 ACAAAAAAAA
Statistics
Matches: 149, Mismatches: 28, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.01
22 29 0.19
23 46 0.31
24 12 0.08
25 41 0.28
26 4 0.03
27 16 0.11
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
TATTAAAGATATATACATAATATAG
Found at i:29312563 original size:23 final size:25
Alignment explanation
Indices: 29312520--29312565 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29312510 TATACCTAAT
29312520 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
29312545 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
29312566 ACAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:29314106 original size:75 final size:72
Alignment explanation
Indices: 29313952--29314215 Score: 307
Period size: 75 Copynumber: 3.6 Consensus size: 72
29313942 TCGACATGTG
* * * * * **
29313952 ATCCGAGGCTCCACTCAACTCTCACAATATGAGTTGATTTTTGGAA-ACAGAGATCAAAATTACC
1 ATCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGACAGAAATTGAAATTACC
29314016 TCAGCGT
66 TCAGCGT
* *
29314023 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGACAAAAATTGAAATT
1 ATCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTTGAAAGACAGAAATTGAAATT
29314088 ACCTCAGCGT
63 ACCTCAGCGT
* *
29314098 ATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGGCAGAAATTGAAAATAC
1 ATCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGACAGAAATTGAAATTAC
*
29314163 CTCAACATGTT
65 CTCAGC--G-T
* * *
29314174 AGT-CAAGGCTCAACTCACCTCTCGTAATATGAGCTGATTTTT
1 A-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
29314216 TTTGAACCGT
Statistics
Matches: 168, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
71 3 0.02
72 30 0.18
73 29 0.17
74 8 0.05
75 94 0.56
76 3 0.02
77 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (72 bp):
ATCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGACAGAAATTGAAATTACC
TCAGCGT
Found at i:29321462 original size:28 final size:28
Alignment explanation
Indices: 29321397--29321603 Score: 335
Period size: 28 Copynumber: 7.4 Consensus size: 28
29321387 GAGATTGGCG
* * * *
29321397 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
29321426 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
29321454 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
29321482 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
29321510 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
29321538 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
29321566 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
29321593 CTGAGTGTGCG
1 CTAAGTGTGCG
29321604 GACTTAATAT
Statistics
Matches: 169, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 24 0.14
28 130 0.77
29 15 0.09
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:29329740 original size:16 final size:15
Alignment explanation
Indices: 29329714--29329743 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
29329704 TGATGTGAAT
29329714 AATATAAAATATTAA
1 AATATAAAATATTAA
29329729 AATATCAAAATATTA
1 AATAT-AAAATATTA
29329744 GGATAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:29329919 original size:20 final size:20
Alignment explanation
Indices: 29329862--29329921 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
29329852 AATACTACAT
29329862 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
29329881 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
29329904 AAATATGTACATAATATA
1 AAATATGTACATAATATA
29329922 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:29329993 original size:29 final size:29
Alignment explanation
Indices: 29329953--29330019 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
29329943 TATAATTAAA
*
29329953 ATATATACATAAGATAACATGTAAA-ATAT
1 ATATATAAATAAGATAACAT-TAAAGATAT
* **
29329982 ATATATAAATAATATAGTATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAGATAT
*
29330011 ATACATAAA
1 ATATATAAA
29330020 ATAGTATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAGATAT
Found at i:29330668 original size:18 final size:18
Alignment explanation
Indices: 29330613--29330668 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
29330603 GTGGAGTAGG
*
29330613 TAGTGAAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
29330631 TAGT--AG--AGT-TGG-
1 TAGTGGAGCAAGTGTGGC
*
29330643 TGGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
29330661 TAGTGGAG
1 TAGTGGAG
29330669 TTGGTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 3 0.10
13 3 0.10
14 5 0.17
16 5 0.17
17 3 0.10
18 11 0.37
ACGTcount: A:0.23, C:0.07, G:0.45, T:0.25
Consensus pattern (18 bp):
TAGTGGAGCAAGTGTGGC
Found at i:29330670 original size:30 final size:30
Alignment explanation
Indices: 29330593--29330678 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
29330583 GTGGTGGTGG
* * *
29330593 AGTGTGGCTAGTGGAGTAGGTAGTGAAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
*
29330623 AGTGTGGCTAGTAGAGTTGGTGGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
29330653 AGTGTGGCTAGTGGAGTTGGTGGTGG
1 AGTGTGGCTAGTGGAGTTGGTGGTGG
29330679 CAAAGGCTAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.20, C:0.06, G:0.48, T:0.27
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
Found at i:29331004 original size:47 final size:48
Alignment explanation
Indices: 29330934--29331197 Score: 199
Period size: 46 Copynumber: 5.6 Consensus size: 48
29330924 ATACCGATAC
**
29330934 CATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAATTC-GATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGACAGATG
* * * ** *
29330980 CTATGTCCCAGGCATGGTCTTACACTGAC-AATCATCTTGTAGCCA-ATG
1 C-ATGTCCCAGACATGGTCTTACACTGGCTCATCATC-TCAAGACAGATG
* * * * *
29331028 CATGTCCCAGACAT-GTCTTACACTGGCTTA-CGTCTCGAGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGACAGATG
* * * *
29331074 CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATACAGATAC
1 CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGACAGAT-G
* *** *
29331121 CATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGTC-GATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCAAGACAGATG
* *
29331168 CATGTCCTAGACAT-GTCTTACACTAGCTCA
1 CATGTCCCAGACATGGTCTTACACTGGCTCA
29331198 CACACAAATG
Statistics
Matches: 174, Mismatches: 33, Indels: 21
0.76 0.14 0.09
Matches are distributed among these distances:
45 4 0.02
46 73 0.42
47 68 0.39
48 27 0.16
49 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGACAGATG
Found at i:29331186 original size:140 final size:140
Alignment explanation
Indices: 29330934--29331191 Score: 349
Period size: 140 Copynumber: 1.8 Consensus size: 140
29330924 ATACCGATAC
* * * * *
29330934 CATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAATTCGATGCTATGTCCCAGGCATGGTC
1 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAATACGATACCATGTCCCAGACATGGTC
**
29330999 TTACACTGACAATCATCTTGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
66 TTACACTGACAATCATAATGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
29331064 GAGGCTGATG
131 GAGGCTGATG
*
29331074 CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATACAGATACCATGTCCCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAATAC-GATACCATGTCCCAGACATGG
* ** * * * *
29331137 TCTTACACTGGCTCTCATAATGTGGTCGATGCATGTCCTAGACATGTCTTACACT
64 TCTTACACTGACAATCATAATGTAGCCAATGCATGTCCCAGACATGTCTTACACT
29331192 AGCTCACACA
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
138 1 0.01
139 22 0.22
140 78 0.77
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAATACGATACCATGTCCCAGACATGGTC
TTACACTGACAATCATAATGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
GAGGCTGATG
Found at i:29334146 original size:25 final size:25
Alignment explanation
Indices: 29334116--29334168 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
29334106 CATCACTTAA
*
29334116 CATTTCAATATTCATATAAACATAT
1 CATTTCAATATTCAAATAAACATAT
29334141 CATTTCAATATTCAAATAAACATAT
1 CATTTCAATATTCAAATAAACATAT
29334166 CAT
1 CAT
29334169 CTCCAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (25 bp):
CATTTCAATATTCAAATAAACATAT
Found at i:29337235 original size:23 final size:25
Alignment explanation
Indices: 29337204--29337250 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
29337194 AAATAATTAA
*
29337204 TCATCATTAAATATGTATT-TTATT
1 TCATCATTAAATATGAATTATTATT
29337228 TCAT-ATTAAATATGAATTATTAT
1 TCATCATTAAATATGAATTATTAT
29337251 ATAAATAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.51
Consensus pattern (25 bp):
TCATCATTAAATATGAATTATTATT
Found at i:29344741 original size:28 final size:28
Alignment explanation
Indices: 29344709--29344768 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
29344699 GCAATCAAAT
29344709 ATGACACTCAGTGTACGAA-ATATTGAGA
1 ATGACACTCAGTGTAC-AAGATATTGAGA
* * * *
29344737 ATGACATTTAGTGTGCAAGATATTGATA
1 ATGACACTCAGTGTACAAGATATTGAGA
29344765 ATGA
1 ATGA
29344769 AACTTAGGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (28 bp):
ATGACACTCAGTGTACAAGATATTGAGA
Found at i:29345210 original size:21 final size:22
Alignment explanation
Indices: 29345179--29345219 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
29345169 GAATGTATTG
*
29345179 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
29345201 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
29345220 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:29352402 original size:42 final size:42
Alignment explanation
Indices: 29352281--29352475 Score: 160
Period size: 43 Copynumber: 4.6 Consensus size: 42
29352271 TAAGATGCCA
* * * *
29352281 ATGCCATATCCCAGATATGGTCTTACAAG-GGATCACATATCG
1 ATGCCATATCCCACATATGGTCTTACACGAAG-TCTCATATCG
* *
29352323 ATGCCAATAGTCCC-CCTATGGTCTTACACGATGTCTCATATCG
1 ATGCC-ATA-TCCCACATATGGTCTTACACGAAGTCTCATATCG
* * *
29352366 ATGCCATATCCCACATATGGCCTTATACGAAGTCTCATTTTCG
1 ATGCCATATCCCACATATGGTCTTACACGAAGTCTCA-TATCG
* * * * * * **
29352409 AAGCCATGTCCCAAACATGGTCTTACACGAATTCGCATGCCG
1 ATGCCATATCCCACATATGGTCTTACACGAAGTCTCATATCG
* **
29352451 ATGCCATATCCTAGGTATGGTCTTA
1 ATGCCATATCCCACATATGGTCTTA
29352476 TACAGAATCT
Statistics
Matches: 122, Mismatches: 26, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
41 4 0.03
42 50 0.41
43 63 0.52
44 5 0.04
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCACATATGGTCTTACACGAAGTCTCATATCG
Found at i:29355979 original size:27 final size:27
Alignment explanation
Indices: 29355946--29356112 Score: 169
Period size: 27 Copynumber: 6.2 Consensus size: 27
29355936 TTACACTACA
* *
29355946 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
29355973 -GGTGTATTTCAATAATTTTACAAGTCG
1 AGG-GTATTTCAGTAATTTTACAAATCG
*
29356000 AGGGTATTTCAGTAATTTCACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * **
29356027 AGGGTATTTCAATAATTTCACAAATTA
1 AGGGTATTTCAGTAATTTTACAAATCG
**
29356054 AGGGTATTTTGGTAATTTTAC-AATCCG
1 AGGGTATTTCAGTAATTTTACAAAT-CG
*
29356081 AGGGTAATTT-AGTAATTTTACAAGTCG
1 AGGGT-ATTTCAGTAATTTTACAAATCG
*
29356108 TGGGT
1 AGGGT
29356113 CTTAACAACC
Statistics
Matches: 116, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
26 5 0.04
27 103 0.89
28 8 0.07
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:29356043 original size:81 final size:81
Alignment explanation
Indices: 29355946--29356112 Score: 196
Period size: 81 Copynumber: 2.1 Consensus size: 81
29355936 TTACACTACA
** * *
29355946 AGGGTATTTCGGTAATTTTACAAATT-GGGTGTATTTCAATAATTTTACAAGT-CGAGGGT-ATT
1 AGGGTATTTCAATAATTTCACAAATTAAGG-GTATTTCAATAATTTTACAA-TCCGAGGGTAATT
29356008 TCAGTAATTTCACAAATCG
64 T-AGTAATTTCACAAATCG
***
29356027 AGGGTATTTCAATAATTTCACAAATTAAGGGTATTTTGGTAATTTTACAATCCGAGGGTAATTTA
1 AGGGTATTTCAATAATTTCACAAATTAAGGGTATTTCAATAATTTTACAATCCGAGGGTAATTTA
* *
29356092 GTAATTTTACAAGTCG
66 GTAATTTCACAAATCG
*
29356108 TGGGT
1 AGGGT
29356113 CTTAACAACC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
80 1 0.01
81 66 0.90
82 6 0.08
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (81 bp):
AGGGTATTTCAATAATTTCACAAATTAAGGGTATTTCAATAATTTTACAATCCGAGGGTAATTTA
GTAATTTCACAAATCG
Found at i:29358199 original size:21 final size:20
Alignment explanation
Indices: 29358174--29358228 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 20
29358164 ATATATAGAC
29358174 TAAATAAAATAATAAAATAA
1 TAAATAAAATAATAAAATAA
*** *
29358194 TAAAATATCTTATTAAAATAA
1 T-AAATAAAATAATAAAATAA
29358215 TAAAT-AAATAATAA
1 TAAATAAAATAATAA
29358229 TTATTTAATT
Statistics
Matches: 26, Mismatches: 8, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
19 5 0.19
20 5 0.19
21 16 0.62
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAATAAAATAATAAAATAA
Found at i:29358218 original size:8 final size:8
Alignment explanation
Indices: 29358176--29358200 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
29358166 ATATAGACTA
29358176 AATAAAAT
1 AATAAAAT
29358184 AATAAAAT
1 AATAAAAT
29358192 AATAAAAT
1 AATAAAAT
29358200 A
1 A
29358201 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:29358250 original size:29 final size:31
Alignment explanation
Indices: 29358178--29358251 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 31
29358168 ATAGACTAAA
29358178 TAAAATAA-TA-AAATAATAAAATATCTTAT
1 TAAAATAATTATAAATAATAAAATATCTTAT
* *
29358207 TAAAATAATAAATAAATAAT-AATTAT-TTAAT
1 TAAAATAAT-TATAAATAATAAAATATCTT-AT
29358238 T-AAATAATTATAAA
1 TAAAATAATTATAAA
29358252 ATATCACCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
29 13 0.34
30 9 0.24
31 9 0.24
32 7 0.18
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (31 bp):
TAAAATAATTATAAATAATAAAATATCTTAT
Found at i:29358254 original size:30 final size:31
Alignment explanation
Indices: 29358178--29358254 Score: 74
Period size: 30 Copynumber: 2.5 Consensus size: 31
29358168 ATAGACTAAA
29358178 TAAAAT-A-ATAAAATAATAAAATATCTTAT
1 TAAAATAATATAAAATAATAAAATATCTTAT
* *
29358207 TAAAATAATAAATAAATAAT-AATTAT-TTAAT
1 TAAAATAATATA-AAATAATAAAATATCTT-AT
29358238 T-AAATAATTATAAAATA
1 TAAAATAA-TATAAAATA
29358255 TCACCAACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
29 6 0.15
30 14 0.35
31 13 0.32
32 7 0.17
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (31 bp):
TAAAATAATATAAAATAATAAAATATCTTAT
Found at i:29359869 original size:27 final size:27
Alignment explanation
Indices: 29359839--29359990 Score: 120
Period size: 27 Copynumber: 5.8 Consensus size: 27
29359829 TATACTACAA
29359839 GGGTATTTCAGTAATTTTACAAATCGG
1 GGGTATTTCAGTAATTTTACAAATCGG
* * *
29359866 GGGTATTTTAGTAATTTTACAAGTTGG
1 GGGTATTTCAGTAATTTTACAAATCGG
* * * *
29359893 GGATATTT-TGATAATTTCACAAATCGA
1 GGGTATTTCAG-TAATTTTACAAATCGG
* * **
29359920 GGGTATTTCAATAATTTCACAAATTAG
1 GGGTATTTCAGTAATTTTACAAATCGG
*
29359947 GGG----T-AGTAATTTTAC-AACCAGG
1 GGGTATTTCAGTAATTTTACAAATC-GG
*
29359969 GGGTATTTCAATAATTTTACAA
1 GGGTATTTCAGTAATTTTACAA
29359991 GTCAAGGGTG
Statistics
Matches: 95, Mismatches: 21, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
21 2 0.02
22 13 0.14
23 1 0.01
26 2 0.02
27 76 0.80
28 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGG
Found at i:29364105 original size:16 final size:15
Alignment explanation
Indices: 29364084--29364115 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
29364074 TTTTTTAGAT
29364084 AATTGGAAGCTCGATC
1 AATTGGAAGCTC-ATC
29364100 AATTGGAAGCTCATC
1 AATTGGAAGCTCATC
29364115 A
1 A
29364116 GAGACCTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (15 bp):
AATTGGAAGCTCATC
Found at i:29367404 original size:16 final size:16
Alignment explanation
Indices: 29367379--29367413 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
29367369 GTGACCATAG
29367379 TTTTTGAAATTTACGT
1 TTTTTGAAATTTACGT
* *
29367395 TTTTTTAAATTTATGT
1 TTTTTGAAATTTACGT
29367411 TTT
1 TTT
29367414 ATGGTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.66
Consensus pattern (16 bp):
TTTTTGAAATTTACGT
Found at i:29369508 original size:228 final size:228
Alignment explanation
Indices: 29369111--29369585 Score: 842
Period size: 228 Copynumber: 2.1 Consensus size: 228
29369101 CCTTGTGGCT
* *
29369111 GGCTGTGTAACTCACTGTTCATCATTTTGGGGCCACACGGACAAGGCAAATGGGCATGTGCCCAG
1 GGCTGTGTAACTCACTGTTCATCATTTTGGGGCCACACGGACAAGGCAAACGGACATGTGCCCAG
* *
29369176 ATCGTGTGTGGCATTGTTAGTGCAAAGTTTGCACGGGTAAGGACCCGAGCATATGTCTAGGCCAT
66 ATCGTGTGTGGCATTGTTAGTGCAAAGTTTGCACGGGTAAGGACACAAGCATATGTCTAGGCCAT
* * * *
29369241 GTAACTCTCTGTTTGTGACTTAGGACCATATGTCTAGGGACATGGGCGTGTGCCCAGGCCATGTG
131 GTAACTCTCTATTTGTAACTTAGGACCATATGTCTAGGGACATGGGCATGTGCCCAGACCATGTG
* *
29369306 AGGCATATGGGTAAGGACACGAGAGTGTGTCCA
196 AGGCACACGGGTAAGGACACGAGAGTGTGTCCA
29369339 GGCTGTGTAACTCACTGTTCATCATTTTGGGGCCACACGGACAAGGCAAACGGACATGTGCCCAG
1 GGCTGTGTAACTCACTGTTCATCATTTTGGGGCCACACGGACAAGGCAAACGGACATGTGCCCAG
29369404 ATCGTGTGTGGCATTGTTAGTGCAAAGTTTGCACGGGTAAGGACACAAGCATATGTCTAGGCCAT
66 ATCGTGTGTGGCATTGTTAGTGCAAAGTTTGCACGGGTAAGGACACAAGCATATGTCTAGGCCAT
*
29369469 GTAACTCTCTATTTGTAACTTAGGACCATATGTCTAGGGACATGGGCATGTGCCTAGACCATGTG
131 GTAACTCTCTATTTGTAACTTAGGACCATATGTCTAGGGACATGGGCATGTGCCCAGACCATGTG
*
29369534 AGGCACACGGGTAAGGACACGGGAGTGTGTCCA
196 AGGCACACGGGTAAGGACACGAGAGTGTGTCCA
29369567 GGCTGTGTAACTCACTGTT
1 GGCTGTGTAACTCACTGTT
29369586 TATGTTTTGG
Statistics
Matches: 235, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
228 235 1.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (228 bp):
GGCTGTGTAACTCACTGTTCATCATTTTGGGGCCACACGGACAAGGCAAACGGACATGTGCCCAG
ATCGTGTGTGGCATTGTTAGTGCAAAGTTTGCACGGGTAAGGACACAAGCATATGTCTAGGCCAT
GTAACTCTCTATTTGTAACTTAGGACCATATGTCTAGGGACATGGGCATGTGCCCAGACCATGTG
AGGCACACGGGTAAGGACACGAGAGTGTGTCCA
Found at i:29373863 original size:55 final size:54
Alignment explanation
Indices: 29373776--29374030 Score: 219
Period size: 55 Copynumber: 4.8 Consensus size: 54
29373766 ATTAGGGTTT
* *
29373776 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAATGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * *
29373831 AAGGATATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
29373886 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* * * *
29373939 AATGATAACATGTAA-ACCCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGA-CCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
29373988 AAGGATACC-TCGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 AAGGATACCAT-GTAAGACCATGCCAAGACATGGCAATTGGTAAG
29374031 GTACCTGTGT
Statistics
Matches: 164, Mismatches: 25, Indels: 28
0.76 0.12 0.13
Matches are distributed among these distances:
48 3 0.02
49 31 0.19
50 1 0.01
52 7 0.04
53 37 0.23
54 12 0.07
55 69 0.42
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:29373982 original size:108 final size:110
Alignment explanation
Indices: 29373783--29373983 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 110
29373773 TTTAAGGATA
* *
29373783 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAATGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATAACATGTAAGA
*
29373848 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
29373893 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAATGATAACATGTAA-
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATAACATGTAAG
* *
29373954 ACCCATGTCGAGACATGGCAATGGTAAGTT
65 A-CCATGTCAAGACATGGCAATGATAAGTT
29373984 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
107 4 0.05
108 44 0.54
109 7 0.09
110 27 0.33
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATAACATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:29375125 original size:27 final size:27
Alignment explanation
Indices: 29375077--29375235 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
29375067 GCGAGGCTGC
* * *
29375077 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
29375104 CAGATATTGCGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
29375130 CAGATATATGTAGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
29375157 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
29375184 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
29375211 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
29375236 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:29375236 original size:54 final size:54
Alignment explanation
Indices: 29375077--29375238 Score: 229
Period size: 54 Copynumber: 3.0 Consensus size: 54
29375067 GCGAGGCTGC
* * * * * *
29375077 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGCGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
* *
29375130 CAGATATATGTAGTAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
29375184 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
29375238 C
1 C
29375239 GCTTCCTCCA
Statistics
Matches: 97, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
53 12 0.12
54 85 0.88
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:29376889 original size:26 final size:26
Alignment explanation
Indices: 29376860--29376937 Score: 129
Period size: 26 Copynumber: 3.0 Consensus size: 26
29376850 ATGCCCATCG
29376860 TGGAATATTTACCTAAACCATTATCA
1 TGGAATATTTACCTAAACCATTATCA
*
29376886 TGGAATATTTACCTAATCCATTATCA
1 TGGAATATTTACCTAAACCATTATCA
* *
29376912 TGGAACATTTACCTAACCCATTATCA
1 TGGAATATTTACCTAAACCATTATCA
29376938 ATTTGTACCA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.35
Consensus pattern (26 bp):
TGGAATATTTACCTAAACCATTATCA
Found at i:29377331 original size:16 final size:16
Alignment explanation
Indices: 29377310--29377340 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29377300 ATAAATTTGA
29377310 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
29377326 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
29377341 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:29379710 original size:43 final size:43
Alignment explanation
Indices: 29379644--29379731 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
29379634 CGTATTGAAC
29379644 TCCAAAGTTTATTGTTTTAGATCTTCAACTTTTCTTCTCGAAA
1 TCCAAAGTTTATTGTTTTAGATCTTCAACTTTTCTTCTCGAAA
*
29379687 TCCAAAGTTTATTGTTTTGGATCTTCAACTTTTCTTCTCGAAA
1 TCCAAAGTTTATTGTTTTAGATCTTCAACTTTTCTTCTCGAAA
29379730 TC
1 TC
29379732 TTTCGTGATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.47
Consensus pattern (43 bp):
TCCAAAGTTTATTGTTTTAGATCTTCAACTTTTCTTCTCGAAA
Found at i:29385215 original size:18 final size:17
Alignment explanation
Indices: 29385183--29385216 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
29385173 GGTAAAAATA
29385183 TAGTTTTATTATTATAT
1 TAGTTTTATTATTATAT
*
29385200 TAGTTTATATTTTTATA
1 TAGTTT-TATTATTATA
29385217 AAAGTTAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TAGTTTTATTATTATAT
Found at i:29385253 original size:29 final size:31
Alignment explanation
Indices: 29385210--29385271 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
29385200 TAGTTTATAT
29385210 TTTTATAAAAGTTAA-AGTATTAAA-T-TAAA
1 TTTTATAAAAGTTAAGAG-ATTAAAGTATAAA
* *
29385239 TTTTATTAAATTTAAGAGATTAAAGTATAAA
1 TTTTATAAAAGTTAAGAGATTAAAGTATAAA
29385270 TT
1 TT
29385272 GACTATTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 19 0.68
30 3 0.11
31 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (31 bp):
TTTTATAAAAGTTAAGAGATTAAAGTATAAA
Found at i:29386443 original size:24 final size:24
Alignment explanation
Indices: 29386416--29386463 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
29386406 CACTGCAAGC
29386416 TCAAAATATTAACATTTACTAATA
1 TCAAAATATTAACATTTACTAATA
*
29386440 TCAAAATATTATCATTTACTAATA
1 TCAAAATATTAACATTTACTAATA
29386464 CAACTAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (24 bp):
TCAAAATATTAACATTTACTAATA
Found at i:29386765 original size:11 final size:11
Alignment explanation
Indices: 29386751--29386790 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
29386741 TTTTTGTCAC
29386751 TATTTTGCTAT
1 TATTTTGCTAT
*
29386762 TATTTTACTAT
1 TATTTTGCTAT
*
29386773 TATATTGCTAT
1 TATTTTGCTAT
29386784 TATTTTG
1 TATTTTG
29386791 TTGCTAATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.62
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:29386767 original size:22 final size:23
Alignment explanation
Indices: 29386742--29386791 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
29386732 TTTTCCCATT
*
29386742 TTTTGTC-ACTATTTTGCTATTA
1 TTTTGTCTACTATATTGCTATTA
* *
29386764 TTTT-ACTATTATATTGCTATTA
1 TTTTGTCTACTATATTGCTATTA
29386786 TTTTGT
1 TTTTGT
29386792 TGCTAATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTTGTCTACTATATTGCTATTA
Found at i:29387658 original size:16 final size:16
Alignment explanation
Indices: 29387637--29387670 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
29387627 AAATGAGATA
29387637 AACTTAGGATGTGTTT
1 AACTTAGGATGTGTTT
29387653 AACTTAGGATGTGTTT
1 AACTTAGGATGTGTTT
29387669 AA
1 AA
29387671 TAAACTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (16 bp):
AACTTAGGATGTGTTT
Found at i:29392140 original size:21 final size:21
Alignment explanation
Indices: 29392094--29392142 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
29392084 AAACAACAAG
* *
29392094 AAAATAATAGTAAAATAGTAAT
1 AAAA-AATAGTAAAATAGCAAC
29392116 AAAAAATAGTAAGAA-AGCAAC
1 AAAAAATAGTAA-AATAGCAAC
29392137 AAAAAA
1 AAAAAA
29392143 AAACAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.69, C:0.04, G:0.10, T:0.16
Consensus pattern (21 bp):
AAAAAATAGTAAAATAGCAAC
Found at i:29393887 original size:20 final size:20
Alignment explanation
Indices: 29393851--29393888 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
29393841 TTTCAAGTTC
*
29393851 AATTTTTTTGCAGAAAATAA
1 AATTTTTTTCCAGAAAATAA
29393871 AATTTTTATTCCA-AAAAT
1 AATTTTT-TTCCAGAAAAT
29393889 CTTGTAGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (20 bp):
AATTTTTTTCCAGAAAATAA
Found at i:29394724 original size:10 final size:8
Alignment explanation
Indices: 29394691--29394723 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
29394681 AACATCATAC
29394691 ACATATAT
1 ACATATAT
29394699 ACATATAT
1 ACATATAT
29394707 ACATATAT
1 ACATATAT
29394715 ACATATAT
1 ACATATAT
29394723 A
1 A
29394724 TCATCTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (8 bp):
ACATATAT
Found at i:29397239 original size:17 final size:17
Alignment explanation
Indices: 29397217--29397254 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
29397207 GTGTAAGATT
29397217 ATTAA-TTTGTAAATTAA
1 ATTAATTTTG-AAATTAA
*
29397234 ATTAATTTTGAAATTTA
1 ATTAATTTTGAAATTAA
29397251 ATTA
1 ATTA
29397255 TATCATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
ATTAATTTTGAAATTAA
Found at i:29398127 original size:32 final size:30
Alignment explanation
Indices: 29398088--29398154 Score: 98
Period size: 32 Copynumber: 2.2 Consensus size: 30
29398078 CAACTTAACA
29398088 AACAAATGCCTCTAAAATAATAATAAAAAATT
1 AACAAATGCCTCTAAAATAAT-A-AAAAAATT
* *
29398120 AACAAATGCCTTTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAAAAAAATT
29398150 AACAA
1 AACAA
29398155 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 12 0.36
31 1 0.03
32 20 0.61
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.24
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAAAAAAATT
Found at i:29399243 original size:57 final size:57
Alignment explanation
Indices: 29399155--29399267 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
29399145 AAAAAGAAAG
*
29399155 AAAGAAATATTATATTGATGTCTGTCAACGTGAACCCTACGCTGTATATATTTGTGA
1 AAAGAAATATTATATTGATGTCTGTAAACGTGAACCCTACGCTGTATATATTTGTGA
29399212 AAAGAAATATTATATTGATGTCTGTAAACGTGAACCCTACGCTGTATATATTTGTG
1 AAAGAAATATTATATTGATGTCTGTAAACGTGAACCCTACGCTGTATATATTTGTG
29399268 GCATCTCGGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (57 bp):
AAAGAAATATTATATTGATGTCTGTAAACGTGAACCCTACGCTGTATATATTTGTGA
Found at i:29400651 original size:21 final size:22
Alignment explanation
Indices: 29400614--29400655 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
29400604 GAAATAAATA
29400614 ATATAAAACAATTTAAAATAAC
1 ATATAAAACAATTTAAAATAAC
*
29400636 ATATAAAA-AGTTTAAAATAA
1 ATATAAAACAATTTAAAATAA
29400656 ATAATAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (22 bp):
ATATAAAACAATTTAAAATAAC
Found at i:29400662 original size:21 final size:22
Alignment explanation
Indices: 29400605--29400662 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
29400595 AAGAACAATG
29400605 AAATAAATAATATAAAACAATTTA
1 AAATAAAT-A-ATAAAACAATTTA
*
29400629 AAATAACAT-ATAAAA-AGTTTA
1 AAATAA-ATAATAAAACAATTTA
29400650 AAATAAATAATAA
1 AAATAAATAATAA
29400663 GTGAAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.06
21 15 0.48
22 6 0.19
24 6 0.19
25 2 0.06
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (22 bp):
AAATAAATAATAAAACAATTTA
Found at i:29400770 original size:25 final size:24
Alignment explanation
Indices: 29400737--29400794 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 24
29400727 ATATGAAATC
29400737 TTAAAATAAATAATAATAAAA-AAGT
1 TTAAAATAAATAATAA-AAAATAA-T
*
29400762 TTACAATAAATAATAAAAAATAAT
1 TTAAAATAAATAATAAAAAATAAT
29400786 TTAAAATAA
1 TTAAAATAA
29400795 TTAACATAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
TTAAAATAAATAATAAAAAATAAT
Found at i:29400918 original size:26 final size:24
Alignment explanation
Indices: 29400817--29400941 Score: 87
Period size: 26 Copynumber: 5.0 Consensus size: 24
29400807 GCAGTATAAC
*
29400817 TAAATAACATATA-AGAATTTTAAAA
1 TAAATAATATATATA-AA-TTTAAAA
* *
29400842 TAACTAATATATATAAAATAGTTTGAAA
1 TAAATAATATATAT--AA-A-TTTAAAA
* * *
29400870 T-AA-AATATA-AAAAAATCAAAA
1 TAAATAATATATATAAATTTAAAA
*
29400891 TAAATAATATGTATAATAGTTTAAAA
1 TAAATAATATATATAA-A-TTTAAAA
29400917 TAAATAATATATATAAATTTAAAA
1 TAAATAATATATATAAATTTAAAA
29400941 T
1 T
29400942 GGACAATAGT
Statistics
Matches: 77, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
21 5 0.06
22 3 0.04
23 7 0.09
24 11 0.14
25 14 0.18
26 26 0.34
27 2 0.03
28 9 0.12
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (24 bp):
TAAATAATATATATAAATTTAAAA
Found at i:29402771 original size:44 final size:44
Alignment explanation
Indices: 29402674--29402885 Score: 183
Period size: 44 Copynumber: 4.8 Consensus size: 44
29402664 TTGGCATCTA
* * * * ** *
29402674 CAATCTGTTCCACTGCAACTTCACGGAAATAAGATTCAT-ATCTT
1 CAATCTGCTCCACTGCAACTTTAAGGAGATAAGATTTGTGGT-TT
* * * * **
29402718 CAATTTGCTCCACTGGAACTTTAGGGAGATGAGATTTGTAATTT
1 CAATCTGCTCCACTGCAACTTTAAGGAGATAAGATTTGTGGTTT
** * * *
29402762 CAGCCTGCTCTACTGCAATTTTAAGGAGATAAGGTTTGTGGTTT
1 CAATCTGCTCCACTGCAACTTTAAGGAGATAAGATTTGTGGTTT
* * * *
29402806 CAATCTGCTCCACTACAACTTTAAAGAGATAAGATTAGTGGCTT
1 CAATCTGCTCCACTGCAACTTTAAGGAGATAAGATTTGTGGTTT
* * *
29402850 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATT
1 CAATCTGCTCCACTGCAACTTTAAGGAGATAAGATT
29402886 CGTCATGGTA
Statistics
Matches: 133, Mismatches: 34, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
44 131 0.98
45 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (44 bp):
CAATCTGCTCCACTGCAACTTTAAGGAGATAAGATTTGTGGTTT
Found at i:29403092 original size:44 final size:45
Alignment explanation
Indices: 29403039--29403160 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 45
29403029 ATTCATGACA
* * *
29403039 TCAACCTACTCCACTGCAACTTAAGGGAGATAAGGTTTA-TGGTT
1 TCAATCTACTCCACTGCAACTTAAGGGAGATAAGGATTAGTGGCT
* * * *
29403083 TTAATCTACTCCATTACAACTTTAGGGAGATAA-GATTAGTGGCT
1 TCAATCTACTCCACTGCAACTTAAGGGAGATAAGGATTAGTGGCT
***
29403127 TCAATCTACTTTGCTGCAACTTCAA-GGAGATAAG
1 TCAATCTACTCCACTGCAACTT-AAGGGAGATAAG
29403161 ATTTGCCATG
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
43 4 0.07
44 56 0.92
45 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (45 bp):
TCAATCTACTCCACTGCAACTTAAGGGAGATAAGGATTAGTGGCT
Found at i:29407327 original size:156 final size:156
Alignment explanation
Indices: 29406992--29407308 Score: 476
Period size: 160 Copynumber: 2.0 Consensus size: 156
29406982 TTTATTGGTA
* * *
29406992 TATGTAAAAATAAGATAATCAATACTACATGGATGAGTGTACCATTTTTTTTTGGAATTGATATA
1 TATGTAAAAATAATATAATCAATTCCACATGGATGAGTGTACCATTTTTTTTTGGAATTGATATA
*
29407057 TTAGTATTAATTTGTTTTGATATATTATTCTAGATTTATCAATTTTTTTAAAAAAATTAACAAAT
66 TTAATATTAATTTGTTTTGATATATTATTCTAGATTTATCAATTTTTTTAAAAAAATTAACAAAT
* *
29407122 ATCATATGAATGAGATTAAATAAATT
131 ATCAAATGAACGAGATTAAATAAATT
29407148 TATGTAAAAATAATATAATCAATTCCACATGGATGAGTGTACCA-TTTTTTTTGGAATTGATATA
1 TATGTAAAAATAATATAATCAATTCCACATGGATGAGTGTACCATTTTTTTTTGGAATTG----A
* * * *
29407212 TTAATATTAATATTAATTTGTTTTGATGTATTATTTTAGATTTATC-GTTTTTTTAAAAATATTA
62 -T-ATATTAATATTAATTTGTTTTGATATATTATTCTAGATTTATCAATTTTTTTAAAAAAATTA
29407276 ACAAATATCAAATGAACGAGATTAAATAAATT
125 ACAAATATCAAATGAACGAGATTAAATAAATT
29407308 T
1 T
29407309 CTTAAAATGT
Statistics
Matches: 145, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
155 15 0.10
156 41 0.28
159 1 0.01
160 48 0.33
161 40 0.28
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.44
Consensus pattern (156 bp):
TATGTAAAAATAATATAATCAATTCCACATGGATGAGTGTACCATTTTTTTTTGGAATTGATATA
TTAATATTAATTTGTTTTGATATATTATTCTAGATTTATCAATTTTTTTAAAAAAATTAACAAAT
ATCAAATGAACGAGATTAAATAAATT
Found at i:29408128 original size:92 final size:92
Alignment explanation
Indices: 29407961--29408132 Score: 229
Period size: 92 Copynumber: 1.9 Consensus size: 92
29407951 TATCTATATT
* * * * * ** *
29407961 TTCATAAAATGTCCAATGTGATATTTGTACTTTGAAAATGTTCAATGTAATACTTGGATTATTAA
1 TTCATAAAATGTCCAACGTGATATTTATACTTTGAAAATGTCCAATATAATACCTAAATTATCAA
29408026 TATGTGTTTTATTATGGTTCATATACA
66 TATGTGTTTTATTATGGTTCATATACA
* *
29408053 TTCATAAAATGTTCAACGTGGTATTTATACTTTGAAAATGTCCAATATAATACCTAAATTATCAA
1 TTCATAAAATGTCCAACGTGATATTTATACTTTGAAAATGTCCAATATAATACCTAAATTATCAA
*
29408118 TA-GATTTTTTATTAT
66 TATG-TGTTTTATTAT
29408133 AGTACATGCA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
91 1 0.01
92 67 0.99
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.44
Consensus pattern (92 bp):
TTCATAAAATGTCCAACGTGATATTTATACTTTGAAAATGTCCAATATAATACCTAAATTATCAA
TATGTGTTTTATTATGGTTCATATACA
Found at i:29408222 original size:12 final size:12
Alignment explanation
Indices: 29408207--29408240 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
29408197 ATAATATAAT
*
29408207 ATTATATGAAAA
1 ATTAAATGAAAA
29408219 ATTAAAT-AAAA
1 ATTAAATGAAAA
29408230 ATTAAATGAAA
1 ATTAAATGAAA
29408241 TTAAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (12 bp):
ATTAAATGAAAA
Found at i:29416211 original size:37 final size:37
Alignment explanation
Indices: 29416161--29416239 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
29416151 TTATTACGAA
* * *
29416161 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
29416198 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
29416235 GTCTT
1 GTCTT
29416240 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:29416468 original size:47 final size:47
Alignment explanation
Indices: 29416357--29416720 Score: 665
Period size: 47 Copynumber: 7.7 Consensus size: 47
29416347 GCCCTTCGGG
*
29416357 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
29416407 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
29416454 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29416501 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
29416548 ACTTTGACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
29416595 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29416642 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29416689 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
29416721 ATACTATCAT
Statistics
Matches: 307, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 269 0.88
49 34 0.11
50 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:29416540 original size:22 final size:22
Alignment explanation
Indices: 29416513--29416588 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
29416503 TTTCACATTC
29416513 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
**** * * *
29416535 ATCACATATATACACTTTGACATT
1 ATCACAT-CGGCCA-TTAGGCCTT
29416559 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
29416582 ATCACAT
1 ATCACAT
29416589 ATATACACTT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:29416635 original size:22 final size:22
Alignment explanation
Indices: 29416607--29416682 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
29416597 TTTCACATTC
29416607 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *** *
29416629 ATCACATATACACACTTTCACATT
1 ATCACATCGGC-CA-TTAGGCCTT
29416653 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
29416676 ATCACAT
1 ATCACAT
29416683 ATATACACTT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:29420270 original size:40 final size:40
Alignment explanation
Indices: 29420225--29420459 Score: 210
Period size: 40 Copynumber: 5.9 Consensus size: 40
29420215 CGAATACACG
* * * *
29420225 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* ** *
29420265 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
29420305 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
29420345 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * * *
29420385 GTAACTC-GCACCAATGC-CTTC-GGTCTTAGTCCGGATATGG
1 -TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT-A
* *
29420425 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGA
29420460 CATCATTCGA
Statistics
Matches: 158, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
39 26 0.16
40 121 0.77
41 11 0.07
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:29420806 original size:29 final size:29
Alignment explanation
Indices: 29420767--29420845 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
29420757 CTTAATAATC
*
29420767 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
29420797 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
29420826 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
29420846 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:29420888 original size:43 final size:43
Alignment explanation
Indices: 29420827--29420929 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
29420817 TGCATTTCAA
29420827 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
29420870 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
29420913 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
29420930 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:29422843 original size:37 final size:37
Alignment explanation
Indices: 29422793--29422871 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
29422783 TTATTACGAA
* * *
29422793 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
29422830 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
29422867 GTCTT
1 GTCTT
29422872 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:29423100 original size:47 final size:47
Alignment explanation
Indices: 29422989--29423305 Score: 598
Period size: 47 Copynumber: 6.7 Consensus size: 47
29422979 GCCCTTCGGG
*
29422989 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
29423039 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29423086 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29423133 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29423180 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29423227 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29423274 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
29423306 ATACTATCAT
Statistics
Matches: 266, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
47 228 0.86
49 34 0.13
50 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:29431012 original size:29 final size:29
Alignment explanation
Indices: 29430978--29431051 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
29430968 TAATCAACCA
*
29430978 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
29431007 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
29431036 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
29431052 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:29439112 original size:29 final size:29
Alignment explanation
Indices: 29439078--29439151 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
29439068 TAATCAACCA
*
29439078 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
29439107 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
29439136 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
29439152 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:29443051 original size:62 final size:62
Alignment explanation
Indices: 29442974--29443098 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
29442964 ATGTGAGATC
29442974 GGTGAACTTCTTTATAAGTTTGGGTGGCATATTGCATAGATTTGACAATATGCCCATTTGAA
1 GGTGAACTTCTTTATAAGTTTGGGTGGCATATTGCATAGATTTGACAATATGCCCATTTGAA
* *
29443036 GGTGAACTTTTTTATAAGTTTGGGTGGCGTATTGCATAGATTTGACAATATGCCCATTTGAA
1 GGTGAACTTCTTTATAAGTTTGGGTGGCATATTGCATAGATTTGACAATATGCCCATTTGAA
29443098 G
1 G
29443099 AACGCCTTGC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (62 bp):
GGTGAACTTCTTTATAAGTTTGGGTGGCATATTGCATAGATTTGACAATATGCCCATTTGAA
Found at i:29451469 original size:55 final size:55
Alignment explanation
Indices: 29451410--29451515 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 55
29451400 CACGATCTTG
* * * *
29451410 CGACACGCCCGTGTGGAAGAACTGTGGGCGAACCTGTTAAAATAGCACGGGTGTT
1 CGACACACCCGTGTGGAACAACCGTGGGCGAACCTGTTAAAATAACACGGGTGTT
* * *
29451465 CGACACACCCGTGTGGAACACCCGTGGTCGAACCTGTTAAATTAACACGGG
1 CGACACACCCGTGTGGAACAACCGTGGGCGAACCTGTTAAAATAACACGGG
29451516 CATAGGGCTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.19
Consensus pattern (55 bp):
CGACACACCCGTGTGGAACAACCGTGGGCGAACCTGTTAAAATAACACGGGTGTT
Found at i:29454091 original size:49 final size:49
Alignment explanation
Indices: 29454019--29454206 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
29454009 TGAGGTCACG
**
29454019 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
29454068 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
*
29454119 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
29454168 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
29454207 GCTTCGGCTA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 76 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:29454187 original size:100 final size:100
Alignment explanation
Indices: 29454014--29454201 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
29454004 TATTGTGAGG
**
29454014 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
29454079 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
*
29454114 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
29454179 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
29454202 AGATAGCTTC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:29457197 original size:15 final size:15
Alignment explanation
Indices: 29457177--29457241 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
29457167 GTATCTTGGG
29457177 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
29457192 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
29457207 TTT-TTCT-GTCTTGGA
1 TTTCTT-TATTC-TGGA
*
29457222 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
29457236 TTTCTT
1 TTTCTT
29457242 GTTATCTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 13 0.32
15 25 0.61
16 3 0.07
ACGTcount: A:0.08, C:0.12, G:0.15, T:0.65
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:29457209 original size:30 final size:30
Alignment explanation
Indices: 29457172--29457241 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
29457162 GTATCGTATC
*
29457172 TTGGGTTTCTT-TAT-TCTGGATTTCTTTAT
1 TTGGGTTTCTTCTGTCT-TGGATTTCTTTAT
29457201 TCTGGGTTT-TTCTGTCTTGGATTTCTTTAT
1 T-TGGGTTTCTTCTGTCTTGGATTTCTTTAT
*
29457231 TTGGTTTTCTT
1 TTGGGTTTCTT
29457242 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
29 9 0.26
30 25 0.71
31 1 0.03
ACGTcount: A:0.07, C:0.11, G:0.19, T:0.63
Consensus pattern (30 bp):
TTGGGTTTCTTCTGTCTTGGATTTCTTTAT
Found at i:29459312 original size:49 final size:49
Alignment explanation
Indices: 29459240--29459427 Score: 234
Period size: 49 Copynumber: 3.8 Consensus size: 49
29459230 TGAGGTCACG
* *
29459240 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
* * * * * *
29459289 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCCA-AAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATAA-T-TGGTCGCA
* *
29459340 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
* *
29459389 TGTGTAGTATTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
29459428 GCTTCGGCTA
Statistics
Matches: 116, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 72 0.62
50 7 0.06
51 37 0.32
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
Found at i:29459408 original size:100 final size:100
Alignment explanation
Indices: 29459235--29459422 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
29459225 TATTGTGAGG
*
29459235 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
29459300 ATGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
* * * *
29459335 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTGGTCGTATGTGTAGTATT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
29459400 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
29459423 AGATAGCTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
Found at i:29469701 original size:22 final size:23
Alignment explanation
Indices: 29469673--29469762 Score: 93
Period size: 22 Copynumber: 4.1 Consensus size: 23
29469663 CTTGAGCTGA
29469673 TGAACAGTAAGCTCTAT-CGAGC
1 TGAACAGTAAGCTCTATACGAGC
29469695 TGAACAGTAAGCT-TATACGAGC
1 TGAACAGTAAGCTCTATACGAGC
* * * *
29469717 TGAAATAGTAAGCTCCAAATGAGC
1 TG-AACAGTAAGCTCTATACGAGC
29469741 T-AA-A-TAAGCTCT-TACGAGC
1 TGAACAGTAAGCTCTATACGAGC
29469760 TGA
1 TGA
29469763 TATATCGGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
19 6 0.11
20 8 0.14
21 4 0.07
22 22 0.39
23 10 0.18
24 7 0.12
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (23 bp):
TGAACAGTAAGCTCTATACGAGC
Done.