Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 52 of 325
Found at i:15760953 original size:6 final size:6
Alignment explanation
Indices: 15760942--15761037 Score: 192
Period size: 6 Copynumber: 16.0 Consensus size: 6
15760932 AGAAAGTCAA
15760942 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
15760990 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
15761038 TTCATGCAAT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 90 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:15762017 original size:14 final size:13
Alignment explanation
Indices: 15761985--15762009 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15761975 CCAAACGTCC
15761985 AAATTTTCAAAAG
1 AAATTTTCAAAAG
15761998 AAATTTTCAAAA
1 AAATTTTCAAAA
15762010 AATCATTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCAAAAG
Found at i:15762341 original size:18 final size:18
Alignment explanation
Indices: 15762318--15762355 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
15762308 GTCCTGAGTA
15762318 TACTTGGTTATCAAATTT
1 TACTTGGTTATCAAATTT
15762336 TACTTGGTTATCAAATTT
1 TACTTGGTTATCAAATTT
15762354 TA
1 TA
15762356 TATATTAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (18 bp):
TACTTGGTTATCAAATTT
Found at i:15767280 original size:48 final size:49
Alignment explanation
Indices: 15767221--15767392 Score: 192
Period size: 48 Copynumber: 3.6 Consensus size: 49
15767211 ATGCCAAAAA
* * * * *
15767221 CCCAGCTATGGTATTACACGAAG-TCTCATAACGGTGCCGATGCCATGT
1 CCCAGATATGGTCTTACACGAAGATCTCATAACGATGCCAATGCCATAT
* * * *
15767269 CCCAGACATGGTCTTATACG-AGACCTCATATCGATGCCAATGCCATAT
1 CCCAGATATGGTCTTACACGAAGATCTCATAACGATGCCAATGCCATAT
* *
15767317 CCCAGATATGGTCTTACA-TAGGATCTCAT-ACTGATGCCAATGCCATAT
1 CCCAGATATGGTCTTACACGAAGATCTCATAAC-GATGCCAATGCCATAT
*
15767365 CCCAGATATGGTCTTACACG-GGATCTCA
1 CCCAGATATGGTCTTACACGAAGATCTCA
15767393 ATACTCACAT
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
47 3 0.03
48 101 0.97
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
CCCAGATATGGTCTTACACGAAGATCTCATAACGATGCCAATGCCATAT
Found at i:15767368 original size:96 final size:91
Alignment explanation
Indices: 15767162--15767384 Score: 236
Period size: 96 Copynumber: 2.4 Consensus size: 91
15767152 ACACATGAAA
* * * *
15767162 GATGCCAATGCCATGTCCCAGACGTGGTCTTACATGGGACCTCTCATCGATGCCAAAAACCCAGC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACACGAGACCTCTCATCGATGCCAAAAACCCAGA
*
15767227 TATGGTATTACACGAAGTCTCATAAC
66 TATGGTATTACAAGAAGTCTCATAAC
* * * *
15767253 GGTGCCGATGCCATGTCCCAGACATGGTCTTATACGAGACCTCAT-ATCGATGCCAATGCCATAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACACGAGACCTC-TCATCGATGCCAA----A-AA
* *
15767317 CCCAGATATGGTCTTACATAGGA-TCTCAT-AC
60 CCCAGATATGGTATTACA-AGAAGTCTCATAAC
* *
15767348 TGATGCCAATGCCATATCCCAGATATGGTCTTACACG
1 -GATGCCAATGCCATGTCCCAGACATGGTCTTACACG
15767385 GGATCTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
91 48 0.44
92 1 0.01
95 3 0.03
96 54 0.50
97 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (91 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACACGAGACCTCTCATCGATGCCAAAAACCCAGA
TATGGTATTACAAGAAGTCTCATAAC
Found at i:15767524 original size:6 final size:6
Alignment explanation
Indices: 15767513--15767704 Score: 384
Period size: 6 Copynumber: 32.0 Consensus size: 6
15767503 AGAAAGTCAA
15767513 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
15767561 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
15767609 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
15767657 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
15767705 TTCATGCAAT
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 186 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:15769464 original size:29 final size:29
Alignment explanation
Indices: 15769422--15769481 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
15769412 AAAAAGACGA
15769422 AAGACTAACTTGCTTCAGTGTTCATAATT
1 AAGACTAACTTGCTTCAGTGTTCATAATT
15769451 AAGACTAACTTGCTTCAGTGTTCATAATT
1 AAGACTAACTTGCTTCAGTGTTCATAATT
15769480 AA
1 AA
15769482 CTCCAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (29 bp):
AAGACTAACTTGCTTCAGTGTTCATAATT
Found at i:15769987 original size:23 final size:23
Alignment explanation
Indices: 15769968--15770016 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
15769958 ACTAAACTAT
15769968 AATTACAACTAAAAAGAAACCTA
1 AATTACAACTAAAAAGAAACCTA
* * * *
15769991 AATTTCAAGTAAAAATAAAACTA
1 AATTACAACTAAAAAGAAACCTA
15770014 AAT
1 AAT
15770017 AGGAAACATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.61, C:0.12, G:0.04, T:0.22
Consensus pattern (23 bp):
AATTACAACTAAAAAGAAACCTA
Found at i:15771334 original size:19 final size:20
Alignment explanation
Indices: 15771282--15771334 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
15771272 CTGATAATGC
15771282 TTTTCT-ATTGATTTTGTACT
1 TTTTCTAATTG-TTTTGTACT
* * *
15771302 TTTTCCACTCGTTTTG-ACT
1 TTTTCTAATTGTTTTGTACT
15771321 TTTTCTAATTGTTT
1 TTTTCTAATTGTTT
15771335 CTTTATTCAC
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 14 0.54
20 10 0.38
21 2 0.08
ACGTcount: A:0.13, C:0.15, G:0.09, T:0.62
Consensus pattern (20 bp):
TTTTCTAATTGTTTTGTACT
Found at i:15791311 original size:23 final size:23
Alignment explanation
Indices: 15791278--15791355 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
15791268 GATGCCACAT
15791278 AGGTGCTTGGGGAGTGGCGTGGG
1 AGGTGCTTGGGGAGTGGCGTGGG
* ** * *
15791301 AGATGCTTGGGTTCGAGGCAT---
1 AGGTGCTTGGG-GAGTGGCGTGGG
15791322 AGGTGCTTGGGGAGTGGCGTGGG
1 AGGTGCTTGGGGAGTGGCGTGGG
15791345 AGGTGCTTGGG
1 AGGTGCTTGGG
15791356 TTCAAGGCAT
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
20 5 0.12
21 10 0.24
23 21 0.51
24 5 0.12
ACGTcount: A:0.12, C:0.10, G:0.54, T:0.24
Consensus pattern (23 bp):
AGGTGCTTGGGGAGTGGCGTGGG
Found at i:15791338 original size:44 final size:44
Alignment explanation
Indices: 15791275--15791365 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
15791265 TGTGATGCCA
*
15791275 CATAGGTGCTTGGGGAGTGGCGTGGGAGATGCTTGGGTTCGAGG
1 CATAGGTGCTTGGGGAGTGGCGTGGGAGATGCTTGGGTTCAAGG
*
15791319 CATAGGTGCTTGGGGAGTGGCGTGGGAGGTGCTTGGGTTCAAGG
1 CATAGGTGCTTGGGGAGTGGCGTGGGAGATGCTTGGGTTCAAGG
15791363 CAT
1 CAT
15791366 GGCGCGCGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.14, C:0.12, G:0.48, T:0.25
Consensus pattern (44 bp):
CATAGGTGCTTGGGGAGTGGCGTGGGAGATGCTTGGGTTCAAGG
Found at i:15793251 original size:28 final size:27
Alignment explanation
Indices: 15793211--15793271 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
15793201 AAGCATTTTG
*
15793211 GTGGCTATGCCACAAACATCCGTTTCTA
1 GTGGCTACGCCACAAACATCCG-TTCTA
* * *
15793239 GTGGCTACGCCACAAATATCTGTTCTG
1 GTGGCTACGCCACAAACATCCGTTCTA
15793266 GTGGCT
1 GTGGCT
15793272 CTGCCATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (27 bp):
GTGGCTACGCCACAAACATCCGTTCTA
Found at i:15793277 original size:27 final size:27
Alignment explanation
Indices: 15793209--15793319 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 27
15793199 GGAAGCATTT
* * *
15793209 TGGTGGCTATGCCACAAACATCCGTTTC
1 TGGTGGCTCTGCCACAAATATCTG-TTC
*
15793237 TAGTGGCTAC-GCCACAAATATCTGTTC
1 TGGTGGCT-CTGCCACAAATATCTGTTC
*
15793264 TGGTGGCTCTGCCA-TAATATCTGTATC
1 TGGTGGCTCTGCCACAAATATCTGT-TC
* * *
15793291 TAGTGACTCTGTCAC-AATATCTGTTC
1 TGGTGGCTCTGCCACAAATATCTGTTC
15793317 TGG
1 TGG
15793320 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
26 14 0.20
27 36 0.52
28 19 0.28
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAAATATCTGTTC
Found at i:15802911 original size:26 final size:25
Alignment explanation
Indices: 15802882--15802933 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
15802872 ATTTTGTATC
*
15802882 TTTTA-ATTTTAAGCTATTAATTATTA
1 TTTTACATTTTAACCT-TT-ATTATTA
15802908 TTTTACCATTTTAACCTTTATTATTA
1 TTTTA-CATTTTAACCTTTATTATTA
15802934 AACATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 12 0.52
27 2 0.09
28 9 0.39
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTACATTTTAACCTTTATTATTA
Found at i:15803641 original size:21 final size:21
Alignment explanation
Indices: 15803615--15803670 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
15803605 ACCCATAAAG
15803615 GTTGAACGGAAGCTCGTAAGA
1 GTTGAACGGAAGCTCGTAAGA
* * *
15803636 GTTGAACGGAAACCCGTAAGG
1 GTTGAACGGAAGCTCGTAAGA
* *
15803657 GTTAAACAGAAGCT
1 GTTGAACGGAAGCT
15803671 TAATAGAGCT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (21 bp):
GTTGAACGGAAGCTCGTAAGA
Found at i:15803721 original size:42 final size:41
Alignment explanation
Indices: 15803577--15803731 Score: 114
Period size: 42 Copynumber: 3.7 Consensus size: 41
15803567 CCGGAGGATG
* * ** *
15803577 AACAGAAGCTCATGAGAGCTAAATAGAAACCCATAA-AGGTTG
1 AACAGAAGCTCGT-AGAGCTGAACGGAAACCCATAAGA-GTTA
* * * *
15803619 AACGGAAGCTCGTAAGAGTTGAACGGAAACCCGTAAGGGTTA
1 AACAGAAGCTCGT-AGAGCTGAACGGAAACCCATAAGAGTTA
** * *
15803661 AACAGAAGCTTAATAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGC-TCGTAGAGCTGAACGGAAACCCATAAGAGTTA
* * *
15803703 AATAGAAGCTCGTGAGAGCTAAATGGAAA
1 AACAGAAGCTCGT-AGAGCTGAACGGAAA
15803732 GTAAACCTGA
Statistics
Matches: 87, Mismatches: 23, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
41 2 0.02
42 83 0.95
43 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (41 bp):
AACAGAAGCTCGTAGAGCTGAACGGAAACCCATAAGAGTTA
Found at i:15812413 original size:20 final size:20
Alignment explanation
Indices: 15812353--15812413 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
15812343 CAAAATGTCG
15812353 TTGATGAAGACCACGATGAA
1 TTGATGAAGACCACGATGAA
* *
15812373 TTG-TGAA-A--A-AATGTCA
1 TTGATGAAGACCACGATG-AA
15812389 TTGATGAAGACCACGATGAA
1 TTGATGAAGACCACGATGAA
15812409 TTGAT
1 TTGAT
15812414 CCAAATAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
15 3 0.10
16 5 0.16
17 4 0.13
18 2 0.06
19 4 0.13
20 10 0.32
21 3 0.10
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.26
Consensus pattern (20 bp):
TTGATGAAGACCACGATGAA
Found at i:15815637 original size:35 final size:35
Alignment explanation
Indices: 15815591--15815672 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
15815581 TCAGTTAGAA
* * *
15815591 ACAGATACAGATTTGGGCTTAAGCCCAT-TACAGAT
1 ACAGATACAGATTCGAGCCTAAGCCCATCT-CAGAT
*
15815626 ACAGATGCAGATTCGAGCCTAAGCCCATCTCAGAT
1 ACAGATACAGATTCGAGCCTAAGCCCATCTCAGAT
*
15815661 ATAGATACAGAT
1 ACAGATACAGAT
15815673 GTACAAATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
35 39 0.98
36 1 0.03
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (35 bp):
ACAGATACAGATTCGAGCCTAAGCCCATCTCAGAT
Found at i:15821072 original size:22 final size:22
Alignment explanation
Indices: 15821047--15821197 Score: 110
Period size: 22 Copynumber: 6.9 Consensus size: 22
15821037 ACGTGCAATC
* *
15821047 AGAGAGTACATAAGTGCTAAAT
1 AGAGAGCACAAAAGTGCTAAAT
* *
15821069 AGAGAGCACCAAAGT--TTAAT
1 AGAGAGCACAAAAGTGCTAAAT
* * * * * *
15821089 CAGCGAGTACATAAGTGTTATAC
1 -AGAGAGCACAAAAGTGCTAAAT
15821112 AGAGAGCACAAAAGTGC-AAATT
1 AGAGAGCACAAAAGTGCTAAA-T
* * *
15821134 AGAGAGCCCAAAAGTGATAATT
1 AGAGAGCACAAAAGTGCTAAAT
* *
15821156 AGAGAGCATAAAAGTACTAAAT
1 AGAGAGCACAAAAGTGCTAAAT
**
15821178 AGAGAGCACTGAAGTGCTAA
1 AGAGAGCACAAAAGTGCTAA
15821198 TCAGAGATCC
Statistics
Matches: 95, Mismatches: 29, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
20 4 0.04
21 13 0.14
22 74 0.78
23 4 0.04
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (22 bp):
AGAGAGCACAAAAGTGCTAAAT
Found at i:15821079 original size:43 final size:43
Alignment explanation
Indices: 15821031--15821163 Score: 131
Period size: 43 Copynumber: 3.1 Consensus size: 43
15821021 ACAATCAAAG
* *
15821031 GCACCAACGTGCAATCAGAGAGTACATAAGTGCTAAATAGAGA
1 GCACCAAAGTGCAATCAGAGAGTACATAAGTGATAAATAGAGA
** * * * *
15821074 GCACCAAAGTTTAATCAGCGAGTACATAAGTGTTATACAGAGA
1 GCACCAAAGTGCAATCAGAGAGTACATAAGTGATAAATAGAGA
* * ** * *
15821117 GCACAAAAGTGCAAATTAGAGAGCCCAAAAGTGATAATTAGAGA
1 GCACCAAAGTGC-AATCAGAGAGTACATAAGTGATAAATAGAGA
15821161 GCA
1 GCA
15821164 TAAAAGTACT
Statistics
Matches: 70, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
43 45 0.64
44 25 0.36
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.18
Consensus pattern (43 bp):
GCACCAAAGTGCAATCAGAGAGTACATAAGTGATAAATAGAGA
Found at i:15822398 original size:23 final size:23
Alignment explanation
Indices: 15822354--15822398 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15822344 TTAAAAAGTA
*
15822354 GTTAATTTCCAATTTAAACCTTG
1 GTTAATTTCCAATATAAACCTTG
*
15822377 GTTAATTTACC-ATATAAGCCTT
1 GTTAATTT-CCAATATAAACCTT
15822399 TTAACTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (23 bp):
GTTAATTTCCAATATAAACCTTG
Found at i:15825287 original size:41 final size:41
Alignment explanation
Indices: 15825190--15825495 Score: 341
Period size: 41 Copynumber: 7.5 Consensus size: 41
15825180 GTGTAAACAC
* *
15825190 GGCACGTATGTGCATTTCAGGGGTACCAAAGTACAACAT-A-
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAA-ATAAG
* *
15825230 GGCACATATGTGCAATTCAGGGGTACCGCAGTACAAATAAG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAG
**
15825271 GGCACGTATGTGCAATTCAGGGGTACCGAAGTATGAATAAG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAG
* * *
15825312 GGCACGTATGTGCAA-TCAGGGGTACTGATGGACAAA-AAG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAG
* * * * *
15825351 GGCACATATGTGCAATTTAGGGGTACCAAAGTACAAACATG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAG
* ** * ** * * *
15825392 GGCATGTATGTAAAATTTAGGGGTACTAAAATGCAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAG
* *
15825433 GGCACGTATGTGCAATTTAGGGGTACCGAAGTACAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAG
*
15825474 GGCACGTATGTACAATTCAGGG
1 GGCACGTATGTGCAATTCAGGG
15825496 AATAATTAAG
Statistics
Matches: 224, Mismatches: 38, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
39 19 0.08
40 65 0.29
41 140 0.62
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.22
Consensus pattern (41 bp):
GGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAG
Found at i:15825384 original size:121 final size:120
Alignment explanation
Indices: 15825190--15825495 Score: 337
Period size: 121 Copynumber: 2.5 Consensus size: 120
15825180 GTGTAAACAC
* * *
15825190 GGCACGTATGTGCATTTCAGGGGTACCAAAGTACAACATA-GGCACATATGTGCAATTCAGGGGT
1 GGCACGTATGTGCA-ATCAGGGGTACCGAAGTACAA-AAAGGGCACATATGTGCAATTCAGGGGT
** * ** *
15825254 ACCGCAGTACAAATAAGGGCACGTATGTGCAATTCAGGGGTACCGAAGTATG-AATAAG
64 ACCAAAGTACAAACAAGGGCACGTATGTAAAATTCAGGGGTA-CGAA-AATGAAATAAG
* * * *
15825312 GGCACGTATGTGCAATCAGGGGTACTGATGGACAAAAAGGGCACATATGTGCAATTTAGGGGTAC
1 GGCACGTATGTGCAATCAGGGGTACCGAAGTACAAAAAGGGCACATATGTGCAATTCAGGGGTAC
* * * * *
15825377 CAAAGTACAAACATGGGCATGTATGTAAAATTTAGGGGTACTAAAATGCAAATAGG
66 CAAAGTACAAACAAGGGCACGTATGTAAAATTCAGGGGTACGAAAATG-AAATAAG
* * * *
15825433 GGCACGTATGTGCAATTTAGGGGTACCGAAGTACAAATAGGGGCACGTATGTACAATTCAGGG
1 GGCACGTATGTGCAA-TCAGGGGTACCGAAGTACAAA-AAGGGCACATATGTGCAATTCAGGG
15825496 AATAATTAAG
Statistics
Matches: 153, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
119 3 0.02
120 5 0.03
121 93 0.61
122 31 0.20
123 21 0.14
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.22
Consensus pattern (120 bp):
GGCACGTATGTGCAATCAGGGGTACCGAAGTACAAAAAGGGCACATATGTGCAATTCAGGGGTAC
CAAAGTACAAACAAGGGCACGTATGTAAAATTCAGGGGTACGAAAATGAAATAAG
Found at i:15825454 original size:21 final size:21
Alignment explanation
Indices: 15825429--15825495 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
15825419 AAAATGCAAA
*
15825429 TAGGGGCACGTATGTGCAATT
1 TAGGGGCACGTATGTACAATT
* * *
15825450 TAGGGGTACCG-AAGTACAA-A
1 TAGGGGCA-CGTATGTACAATT
15825470 TAGGGGCACGTATGTACAATT
1 TAGGGGCACGTATGTACAATT
*
15825491 CAGGG
1 TAGGG
15825496 AATAATTAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 2 0.06
20 14 0.40
21 17 0.49
22 2 0.06
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (21 bp):
TAGGGGCACGTATGTACAATT
Found at i:15825462 original size:162 final size:162
Alignment explanation
Indices: 15825190--15825495 Score: 418
Period size: 162 Copynumber: 1.9 Consensus size: 162
15825180 GTGTAAACAC
* **
15825190 GGCACGTATGTGCATTTCAGGGGTACCAAAGTACAACATAGGCACATATGTGCAATTCAGGGGTA
1 GGCACATATGTGCATTTCAGGGGTACCAAAGTACAACATAGGCACATATGTAAAATTCAGGGGTA
** * **
15825255 CCGCAGTACAAATAAGGGCACGTATGTGCAATTCAGGGGTACCGAAGTATGAATAAGGGCACGTA
66 CCAAAATACAAATAAGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAGGGCACGTA
*
15825320 TGTGCAA-TCAGGGGTACTGATGGACAAAAAG
131 TGTACAATTCAGGGGTACTGATGGACAAAAAG
* ** *
15825351 GGCACATATGTGCAATTT-AGGGGTACCAAAGTACAAACATGGGCATGTATGTAAAATTTAGGGG
1 GGCACATATGTGC-ATTTCAGGGGTACCAAAGTAC-AACATAGGCACATATGTAAAATTCAGGGG
* * * * *
15825415 TACTAAAATGCAAATAGGGGCACGTATGTGCAATTTAGGGGTACCGAAGTACAAATAGGGGCACG
64 TACCAAAATACAAATAAGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAGGGCACG
15825480 TATGTACAATTCAGGG
129 TATGTACAATTCAGGG
15825496 AATAATTAAG
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
161 28 0.23
162 90 0.73
163 6 0.05
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.22
Consensus pattern (162 bp):
GGCACATATGTGCATTTCAGGGGTACCAAAGTACAACATAGGCACATATGTAAAATTCAGGGGTA
CCAAAATACAAATAAGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAAGGGCACGTA
TGTACAATTCAGGGGTACTGATGGACAAAAAG
Found at i:15825486 original size:20 final size:20
Alignment explanation
Indices: 15825425--15825488 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
15825415 TACTAAAATG
*
15825425 CAAATAGGGGCACGTATGTG
1 CAAATAGGGGCACGTATGTA
* * *
15825445 CAATTTAGGGGTACCG-AAGTA
1 CAA-ATAGGGGCA-CGTATGTA
15825466 CAAATAGGGGCACGTATGTA
1 CAAATAGGGGCACGTATGTA
15825486 CAA
1 CAA
15825489 TTCAGGGAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 2 0.06
20 17 0.50
21 13 0.38
22 2 0.06
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (20 bp):
CAAATAGGGGCACGTATGTA
Found at i:15834326 original size:20 final size:20
Alignment explanation
Indices: 15834303--15834343 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
15834293 AAACAGTAGC
15834303 TCATCCATATAAATAGTATT
1 TCATCCATATAAATAGTATT
15834323 TCATCCATATAAATAGTATT
1 TCATCCATATAAATAGTATT
15834343 T
1 T
15834344 ATGCCCGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (20 bp):
TCATCCATATAAATAGTATT
Found at i:15834553 original size:24 final size:24
Alignment explanation
Indices: 15834478--15834555 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 24
15834468 AAGCTGATGG
*
15834478 ACAGTAAGCTCTGACGAGCTAAAA
1 ACAGTAAGCTCTAACGAGCTAAAA
* * * * *
15834502 ATAGTAAGCTTTTATGAG-TTAAA
1 ACAGTAAGCTCTAACGAGCTAAAA
* *
15834525 ACAGTAAGCTCCAACGAGCTGAAA
1 ACAGTAAGCTCTAACGAGCTAAAA
15834549 ACAGTAA
1 ACAGTAA
15834556 ACACTTATGA
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 17 0.40
24 25 0.60
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (24 bp):
ACAGTAAGCTCTAACGAGCTAAAA
Found at i:15839688 original size:165 final size:165
Alignment explanation
Indices: 15839411--15839742 Score: 531
Period size: 165 Copynumber: 2.0 Consensus size: 165
15839401 TACTTGAGTC
* *
15839411 ATGTATAATGTACTTTATTATAGTCAGTCATATCTATGTCTCTATTTTTCAAGAGACATCTGCTT
1 ATGTATAATGTACTTTATTACAGTCAGTCATATATATGTCTCTATTTTTCAAGAGACATCTGCTT
* * * * * *
15839476 CTATACCTAAGTTAAGATATCTTCCAATTGGACTTGATAGACAACATATTAGTCTTT-TATTCGA
66 CAATACCTAAGATAAGATATCTCCCAATTGGACTTGACAGACAACATATTAATCTTTCAATT-GA
*
15839540 TTTGCTCAATTTTGATTAGACTAAGAATGTATTTAG
130 TTTGCTCAATTTTGATTAGACTAAGAATATATTTAG
*
15839576 ATGTATAATGTACTTTATTCCAGTCAGTCATATATATGTCTCTATTTTTCAAGAGACATCTGCTT
1 ATGTATAATGTACTTTATTACAGTCAGTCATATATATGTCTCTATTTTTCAAGAGACATCTGCTT
* *
15839641 CAATACCTAAGATAAGATATCTCCCAATTGGACTTGGCAGGCAACATATTAATCTTTCAATTGAT
66 CAATACCTAAGATAAGATATCTCCCAATTGGACTTGACAGACAACATATTAATCTTTCAATTGAT
*
15839706 TTGTTCAATTTTGATTAGACTAAGAATATATTTAG
131 TTGCTCAATTTTGATTAGACTAAGAATATATTTAG
15839741 AT
1 AT
15839743 TATCTATTAA
Statistics
Matches: 153, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
165 150 0.98
166 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (165 bp):
ATGTATAATGTACTTTATTACAGTCAGTCATATATATGTCTCTATTTTTCAAGAGACATCTGCTT
CAATACCTAAGATAAGATATCTCCCAATTGGACTTGACAGACAACATATTAATCTTTCAATTGAT
TTGCTCAATTTTGATTAGACTAAGAATATATTTAG
Found at i:15840238 original size:204 final size:207
Alignment explanation
Indices: 15839877--15840289 Score: 654
Period size: 204 Copynumber: 2.0 Consensus size: 207
15839867 CTGAAGGTTT
*
15839877 ATGGTTTGTCATAAAATATACTTCATTCCCATGAGTAAGGATCAAACCTTGAAACTCCAAGCTTG
1 ATGGTTGGTCATAAAATATACTTCATTCCCATGAGTAAGGATCAAACCTTGAAACTCCAAGCTTG
* * * *
15839942 TGATTATGGGATGAAGTAAACAACCACCACACCACGCCTCATCGTTATGTATAAAATTGGTGATT
66 TGATTATGAGATGAAATAAACAACCACCACACCACACCTCATCATTATGTATAAAATTGGTGATT
* *
15840007 TTGATTCAAACTCTAAAAAAATCAATAAAGTTAACCTCCAACATTTACAAAATGTCAA-AT-TAT
131 TTAATTCAAACTCCAAAAAAATCAATAAAGTTAACCTCCAACATTTACAAAATGTCAAGATATAT
15840070 A-ATTTTTAAAA
196 ATATTTTTAAAA
* *
15840081 ATGGTTGGTCATAAAATATACTTCATTCCCATGAGTAAGGATCAAACCTT-AAACCTCTAATCTT
1 ATGGTTGGTCATAAAATATACTTCATTCCCATGAGTAAGGATCAAACCTTGAAA-CTCCAAGCTT
* * * *
15840145 GTGATTATGAGATGAAATAAACAACCACCACACTACACCTCATTATTTTGTATAAAATTTGTGAT
65 GTGATTATGAGATGAAATAAACAACCACCACACCACACCTCATCATTATGTATAAAATTGGTGAT
* *
15840210 TTTAATTCAAACTCCAAAAAATTCAATAAAGTTAACCTCCAACATTTACAAAATGTCAAGTTATA
130 TTTAATTCAAACTCCAAAAAAATCAATAAAGTTAACCTCCAACATTTACAAAATGTCAAGATATA
15840275 TATATTTTTAAAA
195 TATATTTTTAAAA
15840288 AT
1 AT
15840290 TTATAAAATT
Statistics
Matches: 190, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
203 3 0.02
204 170 0.89
205 1 0.01
206 4 0.02
207 12 0.06
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (207 bp):
ATGGTTGGTCATAAAATATACTTCATTCCCATGAGTAAGGATCAAACCTTGAAACTCCAAGCTTG
TGATTATGAGATGAAATAAACAACCACCACACCACACCTCATCATTATGTATAAAATTGGTGATT
TTAATTCAAACTCCAAAAAAATCAATAAAGTTAACCTCCAACATTTACAAAATGTCAAGATATAT
ATATTTTTAAAA
Found at i:15844699 original size:19 final size:18
Alignment explanation
Indices: 15844675--15844717 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
15844665 ATCAAACAAT
15844675 AAATTAGTTTATCTAATAA
1 AAATTAG-TTATCTAATAA
*
15844694 AAATTA--TATCTATTAA
1 AAATTAGTTATCTAATAA
15844710 AAATTAGT
1 AAATTAGT
15844718 ATGTGTACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
16 15 0.71
19 6 0.29
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (18 bp):
AAATTAGTTATCTAATAA
Found at i:15844705 original size:16 final size:16
Alignment explanation
Indices: 15844684--15844715 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15844674 TAAATTAGTT
15844684 TATCTAATAAAAATTA
1 TATCTAATAAAAATTA
*
15844700 TATCTATTAAAAATTA
1 TATCTAATAAAAATTA
15844716 GTATGTGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TATCTAATAAAAATTA
Found at i:15847131 original size:28 final size:28
Alignment explanation
Indices: 15847087--15847142 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
15847077 TAGTAAAATT
15847087 ATAATTTAACTCCTAAAA-TAATAAAAA
1 ATAATTTAACTCCTAAAATTAATAAAAA
** *
15847114 ATAATTTAATCTTTTAAAATTTATAAAAA
1 ATAATTTAA-CTCCTAAAATTAATAAAAA
15847143 TAAAAACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.38
28 7 0.29
29 8 0.33
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (28 bp):
ATAATTTAACTCCTAAAATTAATAAAAA
Found at i:15849915 original size:29 final size:29
Alignment explanation
Indices: 15849881--15849938 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
15849871 AACACAATCG
*
15849881 CATAGTATTCGTAGCATTAACCACCATAT
1 CATAGTACTCGTAGCATTAACCACCATAT
15849910 CATAGTACTCGTAGCATTAACCACCATAT
1 CATAGTACTCGTAGCATTAACCACCATAT
15849939 TGCATATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.29
Consensus pattern (29 bp):
CATAGTACTCGTAGCATTAACCACCATAT
Found at i:15851613 original size:44 final size:45
Alignment explanation
Indices: 15851497--15851623 Score: 157
Period size: 45 Copynumber: 2.8 Consensus size: 45
15851487 TAAATGTTGC
* * *
15851497 AGATAAAACCTGCTAATACAATATGGATAAACCACTAATCAGTGT
1 AGATAAAAACTGCTAATACGATATGGATAAACCACTAATCAGTAT
* *
15851542 AGATAAAAACTGCTAATATGGTATGGATAAACCACTAATC-GTAT
1 AGATAAAAACTGCTAATACGATATGGATAAACCACTAATCAGTAT
** ** *
15851586 AGATAAAAGTTGCTAATACGACGTGGATTAACCACTAA
1 AGATAAAAACTGCTAATACGATATGGATAAACCACTAA
15851624 ACGGTGAATA
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
44 34 0.49
45 36 0.51
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (45 bp):
AGATAAAAACTGCTAATACGATATGGATAAACCACTAATCAGTAT
Found at i:15866993 original size:131 final size:132
Alignment explanation
Indices: 15866805--15867676 Score: 622
Period size: 131 Copynumber: 6.6 Consensus size: 132
15866795 CAGATCCAGG
15866805 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT
1 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT
* * * * *
15866870 GGCAGGGAGTAGATCAAAGACATAGTTGATTTGACTTTCACGTGT-TTACGTTGAAGCAAATCTA
66 GGCAGAGAGCAGATCGAAGACATAGTTGATTTGGC-ATCAC-TGTATTACGTTGAAGCAAATCTA
15866934 -A-A
129 GACA
* ** * *
15866936 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATGGAAGGCAGCAGATTTGGCATCTCTATATT
1 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT
*** * * * *
15867001 GGCAGAGAGCAGATCGAAG--ATAACAGATTTGGCATCTCTGTATTGGCAG--GGAGCAGAT-TG
66 GGCAGAGAGCAGATCGAAGACATAGTTGATTTGGCATCACTGTATT-AC-GTTGAAGCAAATCT-
15867061 AAGACA
128 -AGACA
* * * ** * * *
15867067 TAGTTGATTTGGCTTTCACGTGT-TTACGTTGA-AGCAAATC-TA-AT-A-TGATTTGGCATCTC
1 -A--TGATTTGGC-ATCTC-TGTATT-GGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTC
* * * ** *
15867126 TGTATTGGCAGAGAGCAGATCGAAGAC--AGTAGATTTGGCATCTCTGTATT-GGCAGAGAGCAG
60 TGTATTGGCAGAGAGCAGATCGAAGACATAGTTGATTTGGCATCACTGTATTACGTTGA-AGCAA
* *
15867188 ATCGAAGATA
124 ATC-TAGACA
* * * * *
15867198 ACAGATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGT
1 A-TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG--ATAACAGATTTGGC-ATCTC-T
* ** * * * * ** *
15867263 GT-TTACGTTGA-AGCAAATCTAAG----A--TGATTTGGCATCTCTGTATT-GGCAGAGAGCAG
61 GTATT-GGCAGAGAGCAGATCGAAGACATAGTTGATTTGGCATCACTGTATTACGTTGA-AGCAA
*
15867319 ATCGAAGACA
124 ATC-TAGACA
* * *
15867329 ACAGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAACAGATTTGGCATCTCTATAT
1 A-TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAT
* * *
15867394 TGGCAGGGAGCAGATCGAAGACATAGTTGATTTGGCTTTCACGTGT-TTACGTTGAAGTAAATCT
65 TGGCAGAGAGCAGATCGAAGACATAGTTGATTTGGC-ATCAC-TGTATTACGTTGAAGCAAATCT
*
15867458 A-A-G
128 AGACA
* * * *
15867461 ATGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCAAATTTGGCGTCTCTGTATT
1 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT
** * * *
15867526 ATCAGGGAGCCA-ATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTACGTTGAAGCAAATCT
66 GGCAGAGAG-CAGATCGAAGACATAGTTGATTTGGC-ATCAC-TGTATTACGTTGAAGCAAATCT
*
15867589 A-A-G
128 AGACA
* * *
15867592 ATGATTTAGCATCTCTGTATTGGCAGAGAGCAAATCTAAGATAACAGATTTGGCATCTCTGTATT
1 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT
* *
15867657 GGCAGAAAGTAGATCGAAGA
66 GGCAGAGAGCAGATCGAAGA
15867677 TGATTTGGCG
Statistics
Matches: 598, Mismatches: 99, Indels: 88
0.76 0.13 0.11
Matches are distributed among these distances:
127 13 0.02
128 40 0.07
129 34 0.06
130 5 0.01
131 412 0.69
132 7 0.01
133 3 0.01
134 29 0.05
135 37 0.06
136 18 0.03
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (132 bp):
ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT
GGCAGAGAGCAGATCGAAGACATAGTTGATTTGGCATCACTGTATTACGTTGAAGCAAATCTAGA
CA
Found at i:15867351 original size:306 final size:303
Alignment explanation
Indices: 15866982--15867677 Score: 863
Period size: 306 Copynumber: 2.3 Consensus size: 303
15866972 GAAGGCAGCA
*
15866982 GATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
* * *** * * * *
15867047 CAGGGAGCAGATTGAAGACATAGTTGATTTGGC-TTTC-ACGTGTTTAC-GTTGAAGCAAATC-T
66 CAGAGAGCAGATCGAAG--ATAACAGATTTGGCATCTCTA--TATTGACAG--GAAGCAAATCAG
* * *
15867108 A-ATA-TGATTTGGC-ATCTC-TGTATT-GGCAGAGAGCAGATCGAAGACAGTAGATTTGGCATC
125 ACATAGTGATTTGGCTATCACGTGT-TTACGCAGA-AGCAAATCGAAG--A-T-GATTTGGCATC
* *
15867168 TCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGGGAG-CAG
184 TCTGTATTGGCAGAGAGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGCAGGGAGCCA-
15867232 ATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGAT
248 ATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGAT
*
15867288 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
* * * *
15867353 CAGAGAGTAGATCGAAGATAACAGATTTGGCATCTCTATATTGGCAGGGAGCAGATCGAAGACAT
66 CAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTATATTGACAGGAAGCAAATC--AGACAT
* ** * * *
15867418 AGTTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGATGATTTGGCATCTTTGTATTG
129 AG-TGATTTGGCTATCACGTGTTTACGCAGAAGCAAATCGAAGATGATTTGGCATCTCTGTATTG
* * *
15867483 GCAGAGAGCAGATCGAAGATACCAAATTTGGCGTCTCTGTATTATCAGGGAGCCAATCGAAGACA
193 GCAGAGAGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGCAGGGAGCCAATCGAAGACA
*
15867548 TAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGAT
258 TAACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGAT
* * *
15867594 GATTTAGCATCTCTGTATTGGCAGAGAGCAAATCTAAGATAACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
* *
15867659 CAGAAAGTAGATCGAAGAT
66 CAGAGAGCAGATCGAAGAT
15867678 GATTTGGCGT
Statistics
Matches: 342, Mismatches: 35, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
303 8 0.02
304 15 0.04
305 4 0.01
306 279 0.82
307 6 0.02
308 1 0.00
309 9 0.03
310 14 0.04
311 6 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (303 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
CAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTATATTGACAGGAAGCAAATCAGACATAG
TGATTTGGCTATCACGTGTTTACGCAGAAGCAAATCGAAGATGATTTGGCATCTCTGTATTGGCA
GAGAGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGCAGGGAGCCAATCGAAGACATAA
CTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGAT
Found at i:15867545 original size:175 final size:175
Alignment explanation
Indices: 15866807--15867525 Score: 1249
Period size: 175 Copynumber: 4.1 Consensus size: 175
15866797 GATCCAGGAT
15866807 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
* * * *
15866872 CAGGGAGTAGATCAAAGACATAGTTGATTTGACTTTCACGTGTTTACGTTGAAGCAAATCTAAAA
66 CAGGGAGCAGATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
* *
15866937 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATGGAAGGCAGCA
131 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGCA
*
15866982 GATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
* *
15867047 CAGGGAGCAGATTGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAATA
66 CAGGGAGCAGATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
*
15867112 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGTA
131 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGCA
15867157 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
**
15867222 CAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
66 CAGGGAGCAGATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
*
15867287 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
131 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGCA
* *
15867332 GATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAACAGATTTGGCATCTCTATATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
*
15867397 CAGGGAGCAGATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGA
66 CAGGGAGCAGATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
* * *
15867462 TGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCA
131 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGCA
* *
15867507 AATTTGGCGTCTCTGTATT
1 GATTTGGCATCTCTGTATT
15867526 ATCAGGGAGC
Statistics
Matches: 518, Mismatches: 26, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
175 518 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (175 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
CAGGGAGCAGATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGCA
Found at i:15867625 original size:40 final size:40
Alignment explanation
Indices: 15867580--15867751 Score: 148
Period size: 44 Copynumber: 4.1 Consensus size: 40
15867570 TTTACGTTGA
* *
15867580 AGCAAATCTAAGATGATTTAGCATCTCTGTATTGGCAGAG
1 AGCAAATCGAAGATGATTTGGCATCTCTGTATTGGCAGAG
* *
15867620 AGCAAATCTAAGATAACAGATTTGGCATCTCTGTATTGGCAGAA
1 AGCAAATCGAAGAT----GATTTGGCATCTCTGTATTGGCAGAG
* * * * *
15867664 AGTAGATCGAAGATGATTTGGCGTCTCTGTATTGTCAAAG
1 AGCAAATCGAAGATGATTTGGCATCTCTGTATTGGCAGAG
* * *
15867704 ATCAAATCGAAGACGATAGATTTGG-AGTCTCTGTATTGTCAGGG
1 AGCAAATCG-A-A-GAT-GATTTGGCA-TCTCTGTATTGGCAGAG
15867748 AGCA
1 AGCA
15867752 GATTGAAAAT
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
40 42 0.39
41 1 0.01
42 1 0.01
43 3 0.03
44 60 0.56
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (40 bp):
AGCAAATCGAAGATGATTTGGCATCTCTGTATTGGCAGAG
Found at i:15867764 original size:84 final size:86
Alignment explanation
Indices: 15867113--15867787 Score: 255
Period size: 87 Copynumber: 7.7 Consensus size: 86
15867103 AATCTAATAT
* * *
15867113 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAG-TAGATTTGGCATCTCTGTATTG
1 GATTTGGCATCTCTGTATTGGCAGAAAGCAGATCGAA-A-AGAT-GATTTAGCGTCTCTGTATTG
* * * *
15867177 GCAGAGAGCAGATCGAAGATAACA
63 TCAAAGAGCAAATCGAAGACAACA
** * * * *
15867201 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGT-
1 GATTTGGCATCTCTGTATTGGCAGAAAGCAGATCGAA-A-A-GA-TGATTTAGC-GTCTC-TGTA
** * *
15867265 TTACGT-TGA-AGCAAATCTAAG---A-T
60 TT--GTCAAAGAGCAAATCGAAGACAACA
* * * *
15867288 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACA-ACAGATTTGGCATCTCTGTATTG
1 GATTTGGCATCTCTGTATTGGCAGAAAGCAGATCGAA-A-AGA-TGATTTAGCGTCTCTGTATTG
* * * * *
15867352 GCAGAGAGTAGATCGAAGATAACA
63 TCAAAGAGCAAATCGAAGACAACA
* ** * * * *
15867376 GATTTGGCATCTCTATATTGGCAGGGAGCAGATCGAAGACATAGTTGATTTGGCTTTCACGTGT-
1 GATTTGGCATCTCTGTATTGGCAGAAAGCAGATCG-A-A-A-AGATGATTTAGC-GTCTC-TGTA
** * * *
15867440 TTACGT-TGA-AGTAAATCTAAG---A-T
60 TT--GTCAAAGAGCAAATCGAAGACAACA
* * * * * *
15867463 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATACCA-AATTTGGCGTCTCTGTATTA
1 GATTTGGCATCTCTGTATTGGCAGAAAGCAGATCGAA-A-A-GATGATTTAGCGTCTCTGTATTG
** * *
15867527 TCAGGGAGCCAATCGAAGACATAGCT
63 TCAAAGAGCAAATCGAAGACA-A-CA
* * * ** * * *
15867553 GATTTGGCTTTCACGTGT-TTACGTTG-AAGCAAATC--TAAGATGATTTAGCATCTCTGTATTG
1 GATTTGGC-ATCTC-TGTATT-GGCAGAAAGCAGATCGAAAAGATGATTTAGCGTCTCTGTATTG
* * * *
15867614 GCAGAGAGCAAATCTAAGATAACA
63 TCAAAGAGCAAATCGAAGACAACA
* *
15867638 GATTTGGCATCTCTGTATTGGCAGAAAGTAGATCG--AAGATGATTTGGCGTCTCTGTATTGTCA
1 GATTTGGCATCTCTGTATTGGCAGAAAGCAGATCGAAAAGATGATTTAGCGTCTCTGTATTGTCA
* * *
15867701 AAGATCAAATCGAAGACGATA
66 AAGAGCAAATCGAAGACAACA
* ** * *
15867722 GATTTGG-AGTCTCTGTATTGTCAGGGAGCAGATTGAAAATGATAGATTTTGCGTCTCTGTATTG
1 GATTTGGCA-TCTCTGTATTGGCAGAAAGCAGATCGAAAA-GAT-GATTTAGCGTCTCTGTATTG
15867786 TC
63 TC
15867788 GGAAAGCGGA
Statistics
Matches: 455, Mismatches: 89, Indels: 86
0.72 0.14 0.14
Matches are distributed among these distances:
82 2 0.00
83 15 0.03
84 108 0.24
85 30 0.07
86 5 0.01
87 109 0.24
88 98 0.22
89 1 0.00
90 28 0.06
91 42 0.09
92 15 0.03
93 2 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (86 bp):
GATTTGGCATCTCTGTATTGGCAGAAAGCAGATCGAAAAGATGATTTAGCGTCTCTGTATTGTCA
AAGAGCAAATCGAAGACAACA
Found at i:15873367 original size:3 final size:3
Alignment explanation
Indices: 15873361--15873412 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
15873351 GAGAAAAAAA
* *
15873361 AAG AAG AAG AAG AGG AA- AAG AAG GAG AAG AAG AAG AAG AAGG AA-
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG
15873405 AAG AAG AA
1 AAG AAG AA
15873413 AAATTGATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.83
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15875046 original size:22 final size:22
Alignment explanation
Indices: 15875016--15875059 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15875006 AGGCAAACAC
15875016 TAAAGATATTTTATAAGTGGAT
1 TAAAGATATTTTATAAGTGGAT
*
15875038 TAAATATATTTTATAAGTGGAT
1 TAAAGATATTTTATAAGTGGAT
15875060 AATTTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (22 bp):
TAAAGATATTTTATAAGTGGAT
Found at i:15881611 original size:2 final size:2
Alignment explanation
Indices: 15881604--15881630 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15881594 AATCTCAAAG
15881604 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15881631 CCTTTTCACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15889044 original size:6 final size:6
Alignment explanation
Indices: 15889035--15889059 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15889025 CTTGAAATTG
15889035 AGGTTC AGGTTC AGGTTC AGGTTC A
1 AGGTTC AGGTTC AGGTTC AGGTTC A
15889060 TTCTCTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.32
Consensus pattern (6 bp):
AGGTTC
Found at i:15889895 original size:13 final size:13
Alignment explanation
Indices: 15889877--15889901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15889867 ATATGCACTT
15889877 AAATATTATAAAA
1 AAATATTATAAAA
15889890 AAATATTATAAA
1 AAATATTATAAA
15889902 GTTAATATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATATTATAAAA
Found at i:15892340 original size:36 final size:36
Alignment explanation
Indices: 15892293--15892376 Score: 141
Period size: 36 Copynumber: 2.3 Consensus size: 36
15892283 ACTTTGGTGC
* *
15892293 TCAGGTGTGTATTAGAGATATTGCTCAGATGAGCAA
1 TCAGGTGTGTATTAGAGATATCGCTCAGACGAGCAA
*
15892329 TCAGGTGTGTATTGGAGATATCGCTCAGACGAGCAA
1 TCAGGTGTGTATTAGAGATATCGCTCAGACGAGCAA
15892365 TCAGGTGTGTAT
1 TCAGGTGTGTAT
15892377 CGGTAGTTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (36 bp):
TCAGGTGTGTATTAGAGATATCGCTCAGACGAGCAA
Found at i:15895692 original size:17 final size:17
Alignment explanation
Indices: 15895648--15895683 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
15895638 TATGACAATG
15895648 TGCAAGCTGTGTTTATA
1 TGCAAGCTGTGTTTATA
*
15895665 TGCAAGTTGTGTTTATA
1 TGCAAGCTGTGTTTATA
15895682 TG
1 TG
15895684 TGAACTGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.44
Consensus pattern (17 bp):
TGCAAGCTGTGTTTATA
Found at i:15897620 original size:15 final size:15
Alignment explanation
Indices: 15897600--15897639 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
15897590 TGTTTAGTCC
* *
15897600 TTAGGGTTTTTTGGT
1 TTAGGGTTTTTAGGG
15897615 TTAGGGTTTTTAGGG
1 TTAGGGTTTTTAGGG
15897630 TTAGGGTTTT
1 TTAGGGTTTT
15897640 GTTAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.10, C:0.00, G:0.35, T:0.55
Consensus pattern (15 bp):
TTAGGGTTTTTAGGG
Found at i:15897687 original size:42 final size:41
Alignment explanation
Indices: 15897619--15897697 Score: 122
Period size: 42 Copynumber: 1.9 Consensus size: 41
15897609 TTTGGTTTAG
* * *
15897619 GGTTTTTAGGGTTAGGGTTTTGTTAAAATAATTTAGGCTTA
1 GGTTTGTAGGGTTAGGATTTTATTAAAATAATTTAGGCTTA
15897660 GGTTTGTAGGGTTTAGGATTTTATTAAAATAATTTAGG
1 GGTTTGTAGGG-TTAGGATTTTATTAAAATAATTTAGG
15897698 GTTCTGGGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 10 0.29
42 24 0.71
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.46
Consensus pattern (41 bp):
GGTTTGTAGGGTTAGGATTTTATTAAAATAATTTAGGCTTA
Found at i:15897843 original size:34 final size:34
Alignment explanation
Indices: 15897735--15897853 Score: 154
Period size: 34 Copynumber: 3.5 Consensus size: 34
15897725 TAAATCAAGA
* *
15897735 TTTAGTGTTCTTTTTTAAAAATTAATTAAATTACGG
1 TTTAGTG-T-TTTTTAAAAAATTAATTAAATTAGGG
*
15897771 TTTAAG-G-GTTTTAAATAAATTAATTAAATTAGGG
1 TTT-AGTGTTTTTTAAA-AAATTAATTAAATTAGGG
15897805 TTTAGTGTTTTTTAAAAAATTAATTAAATTAGGG
1 TTTAGTGTTTTTTAAAAAATTAATTAAATTAGGG
15897839 TTTAGT-TTTTTTAAA
1 TTTAGTGTTTTTTAAA
15897854 TAATGTTATG
Statistics
Matches: 75, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
33 17 0.23
34 45 0.60
35 7 0.09
36 4 0.05
37 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (34 bp):
TTTAGTGTTTTTTAAAAAATTAATTAAATTAGGG
Found at i:15898154 original size:125 final size:125
Alignment explanation
Indices: 15897923--15898315 Score: 549
Period size: 125 Copynumber: 3.1 Consensus size: 125
15897913 CTTTGTTTTT
* * * * * *
15897923 TTTTTCTATAGTAGTTCTTGAAAAAACAATTTTGAGAATACGATTCTGAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTG-AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
* * * * * *
15897988 ATGCTTCAAGCAGGATGCAATGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGCTC
65 ACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCACACGTAGACGCTC
* *
15898049 TTTTTCTTCAGTAGTTCCTGAAAAATAATTTTGAGAAGACGTTTATGAACAAATAGTGTCAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAA
* *
15898114 CGCTTCAAGTAGGATGCACTATTAGC-AAATTACTGAAAAAAGCTCACACGTAGACGCTC
66 CGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCACACGTAGACGCTC
* *
15898173 TTTTTCTACAGTAGTTCCTACAAAAATAATTTTGAGAAGA-ATGTTCTGAACAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCT-GAAAAATAATTTTGAGAAGACGT-TTCTGAACAAATAGTGTCAAA
*
15898237 AACGCTTCAAGCAGGATGCACTATCAGCAAAATTGA-TGAAAAAAGCTCACACGTCGACGCTC
64 AACGCTTCAAGCAGGATGCACTATCAGCAAAATT-ACTGAAAAAAGCTCACACGTAGACGCTC
*
15898299 TTTTTCTACAGTTGTTC
1 TTTTTCTACAGTAGTTC
15898316 ATGTTTGGCC
Statistics
Matches: 239, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
124 49 0.21
125 126 0.53
126 63 0.26
127 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAA
CGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCACACGTAGACGCTC
Found at i:15898995 original size:18 final size:18
Alignment explanation
Indices: 15898972--15899011 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
15898962 CTTCTAATGG
15898972 TTGGCAATCTACATCTGA
1 TTGGCAATCTACATCTGA
15898990 TTGGCAATCTACATCTGA
1 TTGGCAATCTACATCTGA
15899008 TTGG
1 TTGG
15899012 AGACGTTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (18 bp):
TTGGCAATCTACATCTGA
Found at i:15900730 original size:18 final size:18
Alignment explanation
Indices: 15900707--15900744 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
15900697 GGAAAAAGAA
*
15900707 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
15900725 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
15900743 AC
1 AC
15900745 GCACCTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:15902526 original size:30 final size:30
Alignment explanation
Indices: 15902492--15902551 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
15902482 ATTAATTAAA
15902492 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
*
15902522 GAGAGCTTTGAGAAATTTAGGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
15902552 CGGATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.30
Consensus pattern (30 bp):
GAGAGCTTTGAGAAATTTAAGGAGAAATTT
Found at i:15905324 original size:45 final size:47
Alignment explanation
Indices: 15905254--15905350 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 47
15905244 TGACGATGAC
* **
15905254 TTTTACTACAATAACTTACCATCTCGGTTG-CCTGGTTTTGATGGCT
1 TTTTACTACAATAACTTACCATCTCGGTCGACCCAGTTTTGATGGCT
* *
15905300 TTTTACTATAATAAC-TATCATCTCGGTCGACCCAGTTTTGATGGCT
1 TTTTACTACAATAACTTACCATCTCGGTCGACCCAGTTTTGATGGCT
15905346 TTTTA
1 TTTTA
15905351 AATTACCATC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
45 12 0.27
46 33 0.73
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (47 bp):
TTTTACTACAATAACTTACCATCTCGGTCGACCCAGTTTTGATGGCT
Found at i:15908643 original size:28 final size:28
Alignment explanation
Indices: 15908594--15908647 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
15908584 AATAGGGGGT
*
15908594 TCGCCTATAGAGTTTTGCATACAAGGGC
1 TCGCCTATAGAGTTTAGCATACAAGGGC
*
15908622 TCGCCTATAGGGTTTCAG-ATACAAGG
1 TCGCCTATAGAGTTT-AGCATACAAGG
15908648 AGGGTTCGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (28 bp):
TCGCCTATAGAGTTTAGCATACAAGGGC
Found at i:15909921 original size:20 final size:21
Alignment explanation
Indices: 15909882--15909923 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
15909872 TGTCCATAAT
15909882 TTATAAAATCATTATAAAAAAA
1 TTATAAAA-CATTATAAAAAAA
*
15909904 TTATAAAA-ATTGTAAAAAAA
1 TTATAAAACATTATAAAAAAA
15909924 AACTATAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
TTATAAAACATTATAAAAAAA
Found at i:15910147 original size:314 final size:310
Alignment explanation
Indices: 15909574--15910148 Score: 816
Period size: 314 Copynumber: 1.8 Consensus size: 310
15909564 GTTAATAATA
** * *
15909574 ATAAATATATTATAAAATCATTATAAAAATCATAAAAAAAAGCTATAAGAAATTATACAAAATGT
1 ATAAATATATTATAAAAAAATTATAAAAATCATAAAAAAAAACTATAAGAAATTATACAAAATGC
* * *
15909639 AAAAAAATTATAATCAATCAAACTCTTCAATTTTTTCACTTACCAATTAACACCTATTTTTTTTT
66 AAAAAAATTATAATCAATCAAACTCTTCAATATTTCCACATACCAATTAACACCTATTTTTTTTT
** **
15909704 CCTAAAAGATTTAGTTTGAAGATTTTGACCAAGTCAAATAAATTTTAACCAAACTAACTCTTCAA
131 CAAAAAAGATTTAGTTTGAAGAGATTGACCAAGTCAAATAAATTTTAACCAAACTAACTCTTCAA
* * *
15909769 TTTTTCCACTCAACAATCAACATCCTTTAAAATTTTCTTACCCACCAATCCTATTTTCCTTCCAT
196 TTTTTCCACCCAACAATCAACAGCCTTTAAAATTTTCTTACCCACCAATCATATTTTCCTTCCAT
15909834 TTTATAGTCTTATGAGTTGTCGGGGGAAAACACTTAATTGTCCATAATTT
261 TTTATAGTCTTATGAGTTGTCGGGGGAAAACACTTAATTGTCCATAATTT
** * * *
15909884 ATAAA-ATCATTATAAAAAAATTATAAAAATTGTAAAAAAAAACTATAAGGAATTATATAAATTG
1 ATAAATAT-ATTATAAAAAAATTATAAAAATCATAAAAAAAAACTATAAGAAATTATACAAAATG
* * *
15909948 CAAAAAGAATTATAAT-AATCAAACTCTTCAATATTTCCACATATCAATTAACATCTTTATTTTT
65 CAAAAA-AATTATAATCAATCAAACTCTTCAATATTTCCACATACCAATTAACACCTAT-TTTTT
* *
15910012 TTTCAAAAAAAAAGATTTAGTTTGAAGAGATTGACCAAGTCAACCA-AAATTTTAACTAATCTAA
128 TTTC---AAAAAAGATTTAGTTTGAAGAGATTGACCAAGTCAA--ATAAATTTTAACCAAACTAA
* *
15910076 CTCTT-AATTTTTCCACCCATCAATCAACAGCCTTTAATATTTTCTTACCCACCAATCATATTTT
188 CTCTTCAATTTTTCCACCCAACAATCAACAGCCTTTAAAATTTTCTTACCCACCAATCATATTTT
15910140 CCTTCCATT
253 CCTTCCATT
15910149 GTATGCTTAT
Statistics
Matches: 231, Mismatches: 26, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
309 2 0.01
310 94 0.41
311 18 0.08
314 95 0.41
315 21 0.09
316 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (310 bp):
ATAAATATATTATAAAAAAATTATAAAAATCATAAAAAAAAACTATAAGAAATTATACAAAATGC
AAAAAAATTATAATCAATCAAACTCTTCAATATTTCCACATACCAATTAACACCTATTTTTTTTT
CAAAAAAGATTTAGTTTGAAGAGATTGACCAAGTCAAATAAATTTTAACCAAACTAACTCTTCAA
TTTTTCCACCCAACAATCAACAGCCTTTAAAATTTTCTTACCCACCAATCATATTTTCCTTCCAT
TTTATAGTCTTATGAGTTGTCGGGGGAAAACACTTAATTGTCCATAATTT
Found at i:15916792 original size:29 final size:28
Alignment explanation
Indices: 15916740--15916803 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 28
15916730 TGTCTTCTTC
*
15916740 TTCTTCTTCTTTTTTTTTTCTGTTT-G-T
1 TTCTT-TTCTTTTTTCTTTCTGTTTGGCT
15916767 TTCTTTTCTTATTCTTCTTTCATGTTTGGCT
1 TTCTTTTCTT-TT-TTCTTTC-TGTTTGGCT
15916798 TTCTTT
1 TTCTTT
15916804 GGTTATTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 5 0.16
27 7 0.23
28 6 0.19
29 5 0.16
30 1 0.03
31 7 0.23
ACGTcount: A:0.03, C:0.17, G:0.08, T:0.72
Consensus pattern (28 bp):
TTCTTTTCTTTTTTCTTTCTGTTTGGCT
Found at i:15918524 original size:13 final size:13
Alignment explanation
Indices: 15918506--15918536 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15918496 TATTTACAAT
*
15918506 AAATAAATAAGCC
1 AAATAAATAAACC
15918519 AAATAAATAAACC
1 AAATAAATAAACC
15918532 AAATA
1 AAATA
15918537 GATTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.13, G:0.03, T:0.16
Consensus pattern (13 bp):
AAATAAATAAACC
Found at i:15921190 original size:14 final size:14
Alignment explanation
Indices: 15921171--15921197 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15921161 AGAAAATTTT
15921171 TACTTTAGTTACTA
1 TACTTTAGTTACTA
15921185 TACTTTAGTTACT
1 TACTTTAGTTACT
15921198 TAGTAAATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (14 bp):
TACTTTAGTTACTA
Found at i:15925218 original size:47 final size:47
Alignment explanation
Indices: 15925152--15925727 Score: 918
Period size: 47 Copynumber: 12.1 Consensus size: 47
15925142 GAAATGATAG
*
15925152 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
15925199 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGA
15925248 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
15925297 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
15925344 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
15925391 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATCTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
15925440 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
15925487 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
15925534 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
15925583 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
15925630 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
15925677 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
15925724 TAAG
1 TAAG
15925728 TCCCGAAGGG
Statistics
Matches: 492, Mismatches: 29, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
47 308 0.63
49 184 0.37
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:15925337 original size:96 final size:96
Alignment explanation
Indices: 15925152--15925727 Score: 916
Period size: 96 Copynumber: 6.0 Consensus size: 96
15925142 GAAATGATAG
*
15925152 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
15925215 ATGTGATGAATGTGAAAGCGTATATATATGTGA
66 ATGTGATGAATGTGAAA--GTGTATATATGTGA
15925248 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
15925313 ATGTGATGAATGTGAAAGTGTATATACGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
15925344 TAAGGCCTAATGGCCGATGTGATGAACGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
15925407 ATGTGATGAATGTGAAAGTGTATATATATCTGA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGA
*
15925440 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
15925503 ATGTGATGAATGTGAAAGTGTATATATGAGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
15925534 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
15925599 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
15925630 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * *
15925693 ACGTGATGGATGTGAAAGTGTATAAATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
15925724 TAAG
1 TAAG
15925728 TCCCGAAGGG
Statistics
Matches: 452, Mismatches: 20, Indels: 18
0.92 0.04 0.04
Matches are distributed among these distances:
94 153 0.34
96 254 0.56
98 45 0.10
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:15925448 original size:143 final size:143
Alignment explanation
Indices: 15925152--15925727 Score: 985
Period size: 143 Copynumber: 4.0 Consensus size: 143
15925142 GAAATGATAG
* *
15925152 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
15925217 GTGATGAATGTGAAAGCGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
15925282 TGTATATATATGTGA
129 TGTATATATATGTGA
15925297 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
*
15925362 GTGATGAACGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
15925427 TATATATATCTGA
131 TATATATATGTGA
15925440 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
* *
15925505 GTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
15925570 TATATATATGTGA
131 TATATATATGTGA
* *
15925583 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
* * * * * * *
15925648 GTGATGAATGTGAAAGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 GTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
15925713 TATA-A-ATGTGA
131 TATATATATGTGA
15925724 TAAG
1 TAAG
15925728 TCCCGAAGGG
Statistics
Matches: 411, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
141 9 0.02
142 1 0.00
143 324 0.79
145 77 0.19
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATATGTGA
Found at i:15925902 original size:37 final size:37
Alignment explanation
Indices: 15925846--15925924 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
15925836 CCGAGCTATA
* * *
15925846 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
15925883 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
15925920 AAGAC
1 AAGAC
15925925 TTCGTAATAA
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:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:15928183 original size:20 final size:20
Alignment explanation
Indices: 15928158--15928196 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15928148 ACAACTTTCA
15928158 TAATTTATAATTTT-TTTTTG
1 TAATTT-TAATTTTCTTTTTG
*
15928178 TAATTTTACTTTTCTTTTT
1 TAATTTTAATTTTCTTTTT
15928197 TTCCTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (20 bp):
TAATTTTAATTTTCTTTTTG
Found at i:15933805 original size:37 final size:37
Alignment explanation
Indices: 15933755--15933833 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
15933745 TTATTACGAA
* * *
15933755 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
15933792 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
15933829 GTCTT
1 GTCTT
15933834 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:15934039 original size:47 final size:47
Alignment explanation
Indices: 15933952--15934403 Score: 616
Period size: 47 Copynumber: 9.4 Consensus size: 47
15933942 CCTTTCGGGA
* * * * * * * *
15933952 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15933999 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15934046 CTTATCACATATATACACTTTCACATTCATCATATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
15934093 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15934140 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15934187 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15934234 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
15934285 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
15934336 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15934385 CTTATTACATACATACACT
1 CTTATCACATATATACACT
15934404 CTCTTGGCTG
Statistics
Matches: 375, Mismatches: 24, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 228 0.61
48 1 0.00
49 58 0.15
50 1 0.00
51 87 0.23
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15947101 original size:27 final size:27
Alignment explanation
Indices: 15947071--15947189 Score: 152
Period size: 27 Copynumber: 4.4 Consensus size: 27
15947061 ATTACTGAAA
** *
15947071 TACCCTCGATTTGTAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
15947098 TACCCTC-AGTTTACAAAATTACTATTT
1 TACCCTCGA-TTTACAAAATTACCATTT
*
15947125 TACCCTAGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
15947152 TACCCTC-AGTTTACAAAATTACCGTTT
1 TACCCTCGA-TTTACAAAATTACCATTT
15947179 TACCCTCGATT
1 TACCCTCGATT
15947190 GTGAAATTAC
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
26 2 0.03
27 76 0.95
28 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:15947136 original size:54 final size:54
Alignment explanation
Indices: 15947071--15947189 Score: 184
Period size: 54 Copynumber: 2.2 Consensus size: 54
15947061 ATTACTGAAA
** * *
15947071 TACCCTCGATTTGTAGAATTACCATTTTACCCTCAGTTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCATTT
* *
15947125 TACCCTAGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCATTT
15947179 TACCCTCGATT
1 TACCCTCGATT
15947190 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCATTT
Found at i:15947323 original size:27 final size:27
Alignment explanation
Indices: 15947221--15947344 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
15947211 TGTAGGATAG
*
15947221 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * *
15947248 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
15947275 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
15947302 AATTACCAAAATACCCCTAATTTAAAA
1 AATTACCAAAATACCCCTAATTTGTAA
*
15947329 AATTACAAAAATACCC
1 AATTACCAAAATACCC
15947345 TTGACTTTCT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.04
27 78 0.92
28 4 0.05
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:15947395 original size:27 final size:27
Alignment explanation
Indices: 15947356--15947407 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
15947346 TGACTTTCTA
15947356 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
15947383 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
15947408 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:15948372 original size:25 final size:24
Alignment explanation
Indices: 15948334--15948403 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
15948324 AGGAAGTGCT
*
15948334 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* * *
15948358 GAAAAAGGCTTTGCCCTAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
15948383 AGAAAGGGCTTTACCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
15948404 ATTAAAAGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:15948416 original size:24 final size:25
Alignment explanation
Indices: 15948346--15948416 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
15948336 AAGGGCTCTG
* *
15948346 CCCCAGTTTACCGAAAA-AGGCTTTG
1 CCCCAGTTTATC-AAAAGAGGCTTTA
*
15948371 CCCTAGTTTATCAGAAAG-GGCTTTA
1 CCCCAGTTTATCA-AAAGAGGCTTTA
*
15948396 CCCCAG-TTATTAAAAGAGGCT
1 CCCCAGTTTATCAAAAGAGGCT
15948417 AGGCCTCTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 4 0.11
24 10 0.26
25 24 0.63
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (25 bp):
CCCCAGTTTATCAAAAGAGGCTTTA
Found at i:15948598 original size:42 final size:42
Alignment explanation
Indices: 15948551--15948684 Score: 243
Period size: 42 Copynumber: 3.2 Consensus size: 42
15948541 TAGTCTCCCC
15948551 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
15948593 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
15948635 AAATGGGCATGCATACA-TCTATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTC-ATTGACATTACATGTGATATTG
15948677 AAATGGGC
1 AAATGGGC
15948685 CTAAGGGCCA
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
41 2 0.02
42 88 0.98
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:15948723 original size:23 final size:23
Alignment explanation
Indices: 15948697--15948767 Score: 142
Period size: 23 Copynumber: 3.1 Consensus size: 23
15948687 AAGGGCCATA
15948697 CCGTTTACAGTAAAGGCTTCGGC
1 CCGTTTACAGTAAAGGCTTCGGC
15948720 CCGTTTACAGTAAAGGCTTCGGC
1 CCGTTTACAGTAAAGGCTTCGGC
15948743 CCGTTTACAGTAAAGGCTTCGGC
1 CCGTTTACAGTAAAGGCTTCGGC
15948766 CC
1 CC
15948768 AGTGATATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.25
Consensus pattern (23 bp):
CCGTTTACAGTAAAGGCTTCGGC
Found at i:15948792 original size:31 final size:31
Alignment explanation
Indices: 15948754--15948836 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
15948744 CGTTTACAGT
15948754 AAAGGCTTCGGCCCAGTGATATAATTTATGA
1 AAAGGCTTCGGCCCAGTGATATAATTTATGA
* *
15948785 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATAATTTATGA
*
15948816 AAAGGCTTTGGCCCAGT-ATAT
1 AAAGGCTTCGGCCCAGTGATAT
15948837 GTCAAGACTG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 4 0.08
31 45 0.92
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATAATTTATGA
Found at i:15956039 original size:33 final size:33
Alignment explanation
Indices: 15955997--15956063 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
15955987 ACCGATAAGC
15955997 TTACAAAGCTTAGTAAGAACATAGTATAACATT
1 TTACAAAGCTTAGTAAGAACATAGTATAACATT
15956030 TTACAAAGCTTAGTAAGAACATAGTATAACATT
1 TTACAAAGCTTAGTAAGAACATAGTATAACATT
15956063 T
1 T
15956064 AATCTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (33 bp):
TTACAAAGCTTAGTAAGAACATAGTATAACATT
Found at i:15956185 original size:40 final size:40
Alignment explanation
Indices: 15956141--15956344 Score: 198
Period size: 40 Copynumber: 5.1 Consensus size: 40
15956131 ATGTAAGAGT
* * * *
15956141 ATTCAGGGGTACCAGAGTACAAATAAGGGCACATACGTGC
1 ATTCAGGGGTACCAGAGTACAAACAGGGGCACACATGTGC
* * *
15956181 ATTCAGGGGTA-CTGAAGAACAAACAAGGGCACACATGTGC
1 ATTCAGGGGTACCAG-AGTACAAACAGGGGCACACATGTGC
* **
15956221 ATTTAGGGGTACC-GAAGTAC-AACAGGGGCACGTATGTGC
1 ATTCAGGGGTACCAG-AGTACAAACAGGGGCACACATGTGC
** * *
15956260 ATTCAAAGGTACCAAAGTACAAATAGGGGCACACATGTGC
1 ATTCAGGGGTACCAGAGTACAAACAGGGGCACACATGTGC
* * * * *
15956300 CTTTAGGGGCACCAAAGTACAAACAGGGGCACGCATGTGC
1 ATTCAGGGGTACCAGAGTACAAACAGGGGCACACATGTGC
15956340 ATTCA
1 ATTCA
15956345 TACAATAATT
Statistics
Matches: 134, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 33 0.25
40 100 0.75
41 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (40 bp):
ATTCAGGGGTACCAGAGTACAAACAGGGGCACACATGTGC
Found at i:15956282 original size:79 final size:79
Alignment explanation
Indices: 15956145--15956344 Score: 240
Period size: 79 Copynumber: 2.5 Consensus size: 79
15956135 AAGAGTATTC
* * * * ** **
15956145 AGGGGTACCAGAGTACAAATAAGGGCACATACGTGCATTCAGGGGTACTGAAGAACAAACAAGGG
1 AGGGGTACCA-AGTACAAACAGGGGCACGTATGTGCATTCAAAGGTACCAAAGAACAAACAAGGG
15956210 CACACATGTGCATTT
65 CACACATGTGCATTT
* * *
15956225 AGGGGTACCGAAGTAC-AACAGGGGCACGTATGTGCATTCAAAGGTACCAAAGTACAAATAGGGG
1 AGGGGTACC-AAGTACAAACAGGGGCACGTATGTGCATTCAAAGGTACCAAAGAACAAACAAGGG
*
15956289 CACACATGTGCCTTT
65 CACACATGTGCATTT
* *
15956304 AGGGGCACCAAAGTACAAACAGGGGCACGCATGTGCATTCA
1 AGGGGTACC-AAGTACAAACAGGGGCACGTATGTGCATTCA
15956345 TACAATAATT
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
79 65 0.63
80 37 0.36
81 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.17
Consensus pattern (79 bp):
AGGGGTACCAAGTACAAACAGGGGCACGTATGTGCATTCAAAGGTACCAAAGAACAAACAAGGGC
ACACATGTGCATTT
Found at i:15957512 original size:40 final size:40
Alignment explanation
Indices: 15957457--15957660 Score: 198
Period size: 40 Copynumber: 5.1 Consensus size: 40
15957447 ATATAAGAGT
* * * *
15957457 ATTCAGGGGTACCGAAGTACAAACAGGGGCACATATATGC
1 ATTCAGGGGAACCGAAGTACAAACAAGGGCACGTATGTGC
* * * *
15957497 ACTCAAGGGCACCGAAGTACAAACAAGGGCACGCATGTGC
1 ATTCAGGGGAACCGAAGTACAAACAAGGGCACGTATGTGC
* * *
15957537 ATTCTGGGGTACCGAAGTAC-AACAAGGGCATGTATGTGC
1 ATTCAGGGGAACCGAAGTACAAACAAGGGCACGTATGTGC
* *
15957576 ATTCAGGGGTAACC-AAGTACAAACAGGGGCACGCATGTGC
1 ATTCAGGGG-AACCGAAGTACAAACAAGGGCACGTATGTGC
* * * * * *
15957616 CTTTAGGGGTACC-ACGGTACAAACAGGGGCACGCATGTGC
1 ATTCAGGGGAACCGA-AGTACAAACAAGGGCACGTATGTGC
15957656 ATTCA
1 ATTCA
15957661 TACAATAATT
Statistics
Matches: 137, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 35 0.26
40 102 0.74
ACGTcount: A:0.31, C:0.23, G:0.29, T:0.17
Consensus pattern (40 bp):
ATTCAGGGGAACCGAAGTACAAACAAGGGCACGTATGTGC
Found at i:15957595 original size:79 final size:80
Alignment explanation
Indices: 15957457--15957660 Score: 245
Period size: 79 Copynumber: 2.6 Consensus size: 80
15957447 ATATAAGAGT
* * * * *
15957457 ATTCAGGGGTACCGAAGTACAAACAGGGGCACATATATGCACTCAAGGGCACCGAAGTACAAACA
1 ATTCTGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAAGGGAACCGAAGTACAAACA
15957522 AGGGCACGCATGTGC
66 AGGGCACGCATGTGC
* * *
15957537 ATTCTGGGGTACCGAAGTAC-AACAAGGGCATGTATGTGCATTCAGGGGTAACC-AAGTACAAAC
1 ATTCTGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAAGGG-AACCGAAGTACAAAC
*
15957600 AGGGGCACGCATGTGC
65 AAGGGCACGCATGTGC
* * *
15957616 CTT-TAGGGGTACC-ACGGTACAAACAGGGGCACGCATGTGCATTCA
1 ATTCT-GGGGTACCGA-AGTACAAACAGGGGCACGTATGTGCATTCA
15957661 TACAATAATT
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 2 0.02
79 61 0.58
80 43 0.41
ACGTcount: A:0.31, C:0.23, G:0.29, T:0.17
Consensus pattern (80 bp):
ATTCTGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAAGGGAACCGAAGTACAAACA
AGGGCACGCATGTGC
Found at i:15966381 original size:25 final size:25
Alignment explanation
Indices: 15966347--15966395 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15966337 TATGGAACTT
* *
15966347 AATTTACAGCTCGTGTGAGCATACC
1 AATTCACAGCTCGTATGAGCATACC
*
15966372 AATTCACAGCTTGTATGAGCATAC
1 AATTCACAGCTCGTATGAGCATAC
15966396 ATGTACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (25 bp):
AATTCACAGCTCGTATGAGCATACC
Found at i:15970277 original size:21 final size:20
Alignment explanation
Indices: 15970237--15970279 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
15970227 GAATAAATTT
*
15970237 TTAATAAATTTTTTATTTTA
1 TTAATAAATTTTTTACTTTA
15970257 TTAATAAATTTTTTAACTTTA
1 TTAATAAATTTTTT-ACTTTA
15970278 TT
1 TT
15970280 TATCTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTAATAAATTTTTTACTTTA
Found at i:15976745 original size:13 final size:13
Alignment explanation
Indices: 15976729--15976788 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
15976719 AGAGAAAGGA
*
15976729 GAAGGAGAAGAAG
1 GAAGAAGAAGAAG
** *
15976742 GAAGGTGAAGGA-
1 GAAGAAGAAGAAG
15976754 GAAGAAGAAG-A-
1 GAAGAAGAAGAAG
15976765 -AAGAAGAAGAAG
1 GAAGAAGAAGAAG
15976777 GAAGAAGAAGAA
1 GAAGAAGAAGAA
15976789 AAAAAGGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 9 0.22
11 2 0.05
12 8 0.20
13 21 0.52
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (13 bp):
GAAGAAGAAGAAG
Found at i:15976751 original size:19 final size:18
Alignment explanation
Indices: 15976724--15976780 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
15976714 AAAGGAGAGA
15976724 AAGGAGAAGGAGAAGAAGG
1 AAGG-GAAGGAGAAGAAGG
15976743 AAGGTGAAGGAGAAGAA-G
1 AAGG-GAAGGAGAAGAAGG
* *
15976761 AA-GAAAGAAGAAGAAGG
1 AAGGGAAGGAGAAGAAGG
15976778 AAG
1 AAG
15976781 AAGAAGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 10 0.30
17 4 0.12
18 3 0.09
19 16 0.48
ACGTcount: A:0.56, C:0.00, G:0.42, T:0.02
Consensus pattern (18 bp):
AAGGGAAGGAGAAGAAGG
Found at i:15976759 original size:3 final size:3
Alignment explanation
Indices: 15976728--15976788 Score: 59
Period size: 3 Copynumber: 19.3 Consensus size: 3
15976718 GAGAGAAAGG
* * * *
15976728 AGA AGG AGA AGA AGGA AGG TGA AGG AGA AGA AGA AGAA AGA AGA AGA
1 AGA AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA
15976775 AGGA AGA AGA AGA A
1 A-GA AGA AGA AGA A
15976789 AAAAAGGTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 38 0.81
4 9 0.19
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:15977400 original size:117 final size:115
Alignment explanation
Indices: 15977056--15977501 Score: 699
Period size: 115 Copynumber: 3.9 Consensus size: 115
15977046 ATTTATAGTT
* *
15977056 GATTTGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGA-TTTTTTTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTTA
15977120 GTAATATATTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
66 GTAATATA-TTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* *
15977171 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA--GTATTAGCGTATTGT-AATTTTTTTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTTA
*
15977233 GTAATATATTTTAAAAAAATATTTTTATAGCTATTTTATTAGTAATTTAA
66 GTAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* *
15977283 GATTAGCTTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTTA
15977348 GTAATATATTTTAAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
66 GTAATATATTTTAAAAAAATA-A-TTTTATAGCTATTTTATTAGTAATTTAA
*
15977400 GATTAGGTTATAT--ATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAATGTATTGTGATTTTTTT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA--GTGTATTAGTGTATTGTGA-TTTTTT
* *
15977463 TTAGTAATGTA-TTTAAAAAAATAATTTTATAGTTATTTT
63 TTAGTAATATATTTTAAAAAAATAATTTTATAGCTATTTT
15977502 GTGTTAGTAT
Statistics
Matches: 308, Mismatches: 14, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
112 77 0.25
113 30 0.10
114 14 0.05
115 100 0.32
116 1 0.00
117 70 0.23
118 16 0.05
ACGTcount: A:0.32, C:0.01, G:0.15, T:0.52
Consensus pattern (115 bp):
GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTTA
GTAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
Found at i:15977419 original size:227 final size:228
Alignment explanation
Indices: 15977063--15977501 Score: 699
Period size: 227 Copynumber: 1.9 Consensus size: 228
15977053 GTTGATTTGG
*
15977063 TTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATA
1 TTATATAAATTATTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATA
15977128 TTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTA
66 TTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATAT-AATTGTTA
* *
15977193 GTGTTTAGTGGTTTA-GTATTAGCGTATTGT-A-ATTTTTTTAGTAATATATTTTAAAAAAATAT
130 GTGTTTAGTGGTTTAGGTATTAACGTATTGTGATATTTTTTTAGTAATATA-TTTAAAAAAATAA
15977255 TTTTATAGCTATTTTATTAGTAATTTAAGATTAGC
194 TTTTATAGCTATTTTATTAGTAATTTAAGATTAGC
*
15977290 TTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTTAGTAATAT
1 TTATATAAATTATTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGA-TTTTTTTAGTAATAT
15977355 A-TTTTAAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATAT-ATTGT
65 ATTTTTAAAAAAATA-A-TTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAATTGT
* * *
15977418 TAGTGTTTAGTGGTTTAGTGTGTATTAATGTATTGTGATTTTTTTTTAGTAATGTATTTAAAAAA
128 TAGTGTTTAGTGGTTTA--G-GTATTAACGTATTGTGATATTTTTTTAGTAATATATTTAAAAAA
*
15977483 ATAATTTTATAGTTATTTT
190 ATAATTTTATAGCTATTTT
15977502 GTGTTAGTAT
Statistics
Matches: 195, Mismatches: 8, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
227 82 0.42
228 17 0.09
229 41 0.21
231 13 0.07
232 27 0.14
233 15 0.08
ACGTcount: A:0.32, C:0.01, G:0.15, T:0.52
Consensus pattern (228 bp):
TTATATAAATTATTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATA
TTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAATTGTTAG
TGTTTAGTGGTTTAGGTATTAACGTATTGTGATATTTTTTTAGTAATATATTTAAAAAAATAATT
TTATAGCTATTTTATTAGTAATTTAAGATTAGC
Found at i:15977587 original size:15 final size:16
Alignment explanation
Indices: 15977558--15977589 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
15977548 TTGTGATTTT
15977558 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
15977574 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
15977589 T
1 T
15977590 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:15979676 original size:33 final size:33
Alignment explanation
Indices: 15979639--15979731 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 33
15979629 ATTCATCTCA
* *
15979639 GTACTCTACTCCTTCCGGCCCGTATCCACCTAT
1 GTACTCTACTCCTTCCGGCCCGTATCCACCGAC
* *
15979672 GTACTCAACTCC-TCCAGAG-CCGTATCCACCGCC
1 GTACTCTACTCCTTCC-G-GCCCGTATCCACCGAC
* *
15979705 GTACTCTACTCCTCCCGGCCCATATCC
1 GTACTCTACTCCTTCCGGCCCGTATCC
15979732 CCTCCATATT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
32 4 0.08
33 42 0.86
34 3 0.06
ACGTcount: A:0.17, C:0.45, G:0.13, T:0.25
Consensus pattern (33 bp):
GTACTCTACTCCTTCCGGCCCGTATCCACCGAC
Found at i:15980816 original size:41 final size:42
Alignment explanation
Indices: 15980759--15980842 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
15980749 TCGACGACCG
15980759 ATGGTCTCTGTAACGCG-AACGTTTCATTACGTCGTGAATAT
1 ATGGTCTCTGTAACGCGAAACGTTTCATTACGTCGTGAATAT
*
15980800 ATGGTCTCTGTAACGCGAAATGTTTCATTACGTCGTGAATAT
1 ATGGTCTCTGTAACGCGAAACGTTTCATTACGTCGTGAATAT
15980842 A
1 A
15980843 CTTCTACATT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 17 0.41
42 24 0.59
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (42 bp):
ATGGTCTCTGTAACGCGAAACGTTTCATTACGTCGTGAATAT
Found at i:15983444 original size:27 final size:26
Alignment explanation
Indices: 15983384--15983444 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
15983374 TACCAAGAAG
*
15983384 GCACAACTAGTCGTGCCTGTCAGATA
1 GCACAACTAGTCGAGCCTGTCAGATA
* * *
15983410 GACTCAACTAGTTGAGCCTGTCAGGTAA
1 G-CACAACTAGTCGAGCCTGTCAGAT-A
15983438 GCACAAC
1 GCACAAC
15983445 ATGTATGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.04
27 25 0.89
28 2 0.07
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (26 bp):
GCACAACTAGTCGAGCCTGTCAGATA
Found at i:15990364 original size:23 final size:23
Alignment explanation
Indices: 15990321--15990364 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
15990311 AAGAAAGAGA
* *
15990321 TTTTATCTATAACTTTTTATATT
1 TTTTATCTATAAATTTCTATATT
15990344 TTTTAT-TATAAATTTACTATA
1 TTTTATCTATAAATTT-CTATA
15990365 AATATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTATCTATAAATTTCTATATT
Found at i:15999012 original size:62 final size:62
Alignment explanation
Indices: 15998890--15999016 Score: 164
Period size: 62 Copynumber: 2.0 Consensus size: 62
15998880 GTCTGGGTTG
* * * **
15998890 TGTAACTCACTATTTATGGTATAAAACCATACGGCCAGGGACACGAGCATGTGCTTAGGCCA
1 TGTAACTCACTATTTATGGTATAAAACCACACGGCCAGAGACACGAGCATGTACCCAGGCCA
* * * * *
15998952 TGTAACTCACTTTTTATGGTATAAAACCACATGGTCAGAGACATGGGCATGTACCCAGGCCA
1 TGTAACTCACTATTTATGGTATAAAACCACACGGCCAGAGACACGAGCATGTACCCAGGCCA
15999014 TGT
1 TGT
15999017 GAGTCACACG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (62 bp):
TGTAACTCACTATTTATGGTATAAAACCACACGGCCAGAGACACGAGCATGTACCCAGGCCA
Found at i:16004601 original size:9 final size:9
Alignment explanation
Indices: 16004587--16004622 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
16004577 TAGAGACTGG
16004587 AAAATTCCT
1 AAAATTCCT
16004596 AAAATTCCT
1 AAAATTCCT
* *
16004605 GAAATTTCT
1 AAAATTCCT
16004614 AAAATTCCT
1 AAAATTCCT
16004623 TCTGATACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (9 bp):
AAAATTCCT
Found at i:16004615 original size:18 final size:18
Alignment explanation
Indices: 16004588--16004622 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16004578 AGAGACTGGA
16004588 AAATTCCTAAAATTCCTG
1 AAATTCCTAAAATTCCTG
*
16004606 AAATTTCTAAAATTCCT
1 AAATTCCTAAAATTCCT
16004623 TCTGATACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.37
Consensus pattern (18 bp):
AAATTCCTAAAATTCCTG
Found at i:16014425 original size:17 final size:16
Alignment explanation
Indices: 16014402--16014448 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
16014392 TGTTTTGATC
16014402 TTTTTGTTTCTTTTAT
1 TTTTTGTTTCTTTTAT
* *
16014418 TTTCTTGTTTCATTTGT
1 TTT-TTGTTTCTTTTAT
*
16014435 TTTTTTTTTCTTTT
1 TTTTTGTTTCTTTT
16014449 TTACAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.04, C:0.09, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTTTGTTTCTTTTAT
Found at i:16015362 original size:50 final size:49
Alignment explanation
Indices: 16015299--16015395 Score: 124
Period size: 50 Copynumber: 2.0 Consensus size: 49
16015289 TTTACATATG
* * *
16015299 TCTATATTGAATTTTTATATATACTGTTTATTTTTAAATTTTTATTTATTA
1 TCTATATTGAATTTTTATATATAATGTTCA-TTTTAAACTTTT-TTTATTA
* *
16015350 TCTAT-TTTAATTTTTTTATATAATGTTCATTTTAAACTTTTTTTAT
1 TCTATATTGAATTTTTATATATAATGTTCATTTTAAACTTTTTTTAT
16015396 ACATCATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
48 5 0.12
49 11 0.27
50 20 0.49
51 5 0.12
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (49 bp):
TCTATATTGAATTTTTATATATAATGTTCATTTTAAACTTTTTTTATTA
Found at i:16015433 original size:51 final size:51
Alignment explanation
Indices: 16015363--16015468 Score: 133
Period size: 51 Copynumber: 2.1 Consensus size: 51
16015353 ATTTTAATTT
* *
16015363 TTTTATATAATGTTCATTTTAAACTT-TTTTTATACATCATTTACTTTAAAA
1 TTTTATATAATATTCATTTTAAA-TTATTTTTACACATCATTTACTTTAAAA
* * * * *
16015414 TTTTATGTAATATTTATTTTAAATTATTTTTACATATTATTTATTTTAAAA
1 TTTTATATAATATTCATTTTAAATTATTTTTACACATCATTTACTTTAAAA
16015465 TTTT
1 TTTT
16015469 TCCCATATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.04
51 45 0.96
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (51 bp):
TTTTATATAATATTCATTTTAAATTATTTTTACACATCATTTACTTTAAAA
Found at i:16015478 original size:28 final size:27
Alignment explanation
Indices: 16015325--16015522 Score: 101
Period size: 27 Copynumber: 7.6 Consensus size: 27
16015315 ATATATACTG
* *
16015325 TTTATTTTTAAATTTTT--ATTTATTA
1 TTTATTTTAAAATTTTTCCATATATTA
* ** * *
16015350 TCTATTTT--AATTTTTTTATATAATG
1 TTTATTTTAAAATTTTTCCATATATTA
* * ** * *
16015375 TTCATTTTAAACTTTTTTTATACATCA
1 TTTATTTTAAAATTTTTCCATATATTA
* * *
16015402 TTTACTTTAAAA-TTTT--ATGTAATA
1 TTTATTTTAAAATTTTTCCATATATTA
*
16015426 TTTATTTTAAATTATTTTT--ACATATTA
1 TTTATTTTAAA--ATTTTTCCATATATTA
16015453 TTTATTTTAAAATTTTTCCCATATATTA
1 TTTATTTTAAAATTTTT-CCATATATTA
* **
16015481 TTTATTTT-AAATCTTTGTATATATTA
1 TTTATTTTAAAATTTTTCCATATATTA
* *
16015507 TCTATTTTAAAGTTTT
1 TTTATTTTAAAATTTT
16015523 ATATATATTA
Statistics
Matches: 133, Mismatches: 29, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
23 7 0.05
24 14 0.11
25 24 0.18
26 20 0.15
27 53 0.40
28 15 0.11
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTATTTTAAAATTTTTCCATATATTA
Found at i:16015482 original size:51 final size:51
Alignment explanation
Indices: 16015378--16015483 Score: 117
Period size: 51 Copynumber: 2.1 Consensus size: 51
16015368 TATAATGTTC
* **
16015378 ATTTTAAACTTTTTTTATACATCATTTACTTTAAAATTTTATGTAATATTT
1 ATTTTAAACTTTTTTTACACATCATTTACTTTAAAATTTTATCCAATATTT
* * * *
16015429 ATTTTAAA-TTATTTTTACATATTATTTATTTTAAAATTTT-TCCCATATATT
1 ATTTTAAACTT-TTTTTACACATCATTTACTTTAAAATTTTATCCAATAT-TT
16015480 ATTT
1 ATTT
16015484 ATTTTAAATC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
50 7 0.15
51 39 0.85
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.58
Consensus pattern (51 bp):
ATTTTAAACTTTTTTTACACATCATTTACTTTAAAATTTTATCCAATATTT
Found at i:16015512 original size:26 final size:26
Alignment explanation
Indices: 16015308--16015589 Score: 196
Period size: 26 Copynumber: 10.8 Consensus size: 26
16015298 GTCTATATTG
* * *
16015308 AATTTTTATATATACTGTTTATTTTTA
1 AATTTTTTTATATATTATTTA-TTTTA
* *
16015335 AA--TTTTTATTTATTATCTATTTT-
1 AATTTTTTTATATATTATTTATTTTA
* * *
16015358 AATTTTTTTATATAATGTTCATTTTA
1 AATTTTTTTATATATTATTTATTTTA
* * *
16015384 AACTTTTTTTATACATCATTTACTTTA
1 AA-TTTTTTTATATATTATTTATTTTA
* * *
16015411 AA--ATTTTATGTAATATTTATTTTA
1 AATTTTTTTATATATTATTTATTTTA
*
16015435 AATTATTTTTACATATTATTTATTTTAA
1 AATT-TTTTTATATATTATTTATTTT-A
**
16015463 AATTTTTCCCATATATTATTTATTTTA
1 AATTTTT-TTATATATTATTTATTTTA
* * *
16015490 AATCTTTGTATATATTATCTATTTTA
1 AATTTTTTTATATATTATTTATTTTA
* * ** **
16015516 AAGTTTTATATATATTACGTGGTTTA
1 AATTTTTTTATATATTATTTATTTTA
* * *
16015542 AATTATTTTATATGTTATTTACTTTA
1 AATTTTTTTATATATTATTTATTTTA
*
16015568 AATTTCTTTTACATTATTATTT
1 AATTT-TTTTATA-TATTATTT
16015590 TTAAAACTGT
Statistics
Matches: 193, Mismatches: 51, Indels: 21
0.73 0.19 0.08
Matches are distributed among these distances:
23 2 0.01
24 22 0.11
25 28 0.15
26 59 0.31
27 55 0.28
28 27 0.14
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (26 bp):
AATTTTTTTATATATTATTTATTTTA
Found at i:16015663 original size:31 final size:31
Alignment explanation
Indices: 16015600--16015669 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
16015590 TTAAAACTGT
* *
16015600 TTTATATTTTTTCTATATTACGTATTTTAAA
1 TTTATATTTTTTATATATTACGTATTTAAAA
**
16015631 TTTAT-TTTTTTATATATTATTTAGTTTAAAA
1 TTTATATTTTTTATATATTACGTA-TTTAAAA
16015662 TTTTATAT
1 -TTTATAT
16015670 GTCATTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 15 0.47
31 11 0.34
32 5 0.16
33 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (31 bp):
TTTATATTTTTTATATATTACGTATTTAAAA
Found at i:16015739 original size:27 final size:27
Alignment explanation
Indices: 16015311--16015753 Score: 116
Period size: 26 Copynumber: 16.6 Consensus size: 27
16015301 TATATTGAAT
16015311 TTTTATATA-TACTGTTTATTTTTAAA-T-
1 TTTTATATATTA-T-TTTA-TTTTAAATTG
* *
16015338 TTTTATTTATTA-TCTATTTT-AATT-
1 TTTTATATATTATTTTATTTTAAATTG
* * *
16015362 TTTT-TATATAATGTTCATTTTAAACTTT
1 TTTTATATATTAT-TTTATTTTAAA-TTG
* * * *
16015390 TTTTATACATCA-TTTACTTTAAA--A
1 TTTTATATATTATTTTATTTTAAATTG
* * *
16015414 TTTTATGTAATA-TTTATTTTAAATTAT
1 TTTTATATATTATTTTATTTTAAATT-G
*
16015441 TTTTACATATTA-TTTATTTTAAAATT-
1 TTTTATATATTATTTTATTTT-AAATTG
*
16015467 TTTCCCATATATTA-TTTATTTTAAATCT-
1 TTT--TATATATTATTTTATTTTAAAT-TG
* *
16015495 TTGTATATATTA-TCTATTTTAAA--G
1 TTTTATATATTATTTTATTTTAAATTG
* ** *
16015519 TTTTATATA-TATTACGTGGTTTAAATTA
1 TTTTATATATTATT--TTATTTTAAATTG
* *
16015547 TTTTATATGTTA-TTTACTTTAAATT-
1 TTTTATATATTATTTTATTTTAAATTG
* * *
16015572 TCTTT-TACATTATTATT-TTTAAAACTG
1 T-TTTATATATTATT-TTATTTTAAATTG
* ** *
16015599 TTTTATAT-TT-TTTCTATATT-ACGTA
1 TTTTATATATTATTT-TATTTTAAATTG
*
16015624 TTTTAAAT-TTATTTT-TTTATATATTATTTAG
1 TTTTATATATTATTTTATTT-TA-A--A-TT-G
* * * *
16015655 TTTAAAATTTTATATGTCATTTTAAATTG
1 TTTTATATATTAT-T-TTATTTTAAATTG
* * * *
16015684 TTTTATAAATTA-GTTATTTTAGATCG
1 TTTTATATATTATTTTATTTTAAATTG
16015710 TTTTATATATTATTTTATTTTAAATTG
1 TTTTATATATTATTTTATTTTAAATTG
*
16015737 TTTTGTATATTAATTTT
1 TTTTATATATT-ATTTT
16015754 TAATTATTAT
Statistics
Matches: 308, Mismatches: 65, Indels: 85
0.67 0.14 0.19
Matches are distributed among these distances:
23 9 0.03
24 39 0.13
25 31 0.10
26 80 0.26
27 67 0.22
28 43 0.14
29 16 0.05
30 3 0.01
31 8 0.03
32 4 0.01
33 2 0.01
34 3 0.01
35 3 0.01
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.60
Consensus pattern (27 bp):
TTTTATATATTATTTTATTTTAAATTG
Found at i:16018449 original size:35 final size:35
Alignment explanation
Indices: 16018403--16018474 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
16018393 ATATGACTTT
16018403 TCATTAAGAGGACTGCTCCAACAAGCTCTAAGAAC
1 TCATTAAGAGGACTGCTCCAACAAGCTCTAAGAAC
16018438 TCATTAAGAGGACTGCTCCAACAAGCTCTAAGAAC
1 TCATTAAGAGGACTGCTCCAACAAGCTCTAAGAAC
16018473 TC
1 TC
16018475 TTATGATGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (35 bp):
TCATTAAGAGGACTGCTCCAACAAGCTCTAAGAAC
Found at i:16022023 original size:6 final size:5
Alignment explanation
Indices: 16021993--16022022 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
16021983 CTAAACTTCT
16021993 TTTTC TTTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTT
16022023 TTCCCTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:16027308 original size:43 final size:43
Alignment explanation
Indices: 16027255--16027352 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
16027245 GGAAAACATC
* * * *
16027255 GCTATAGAACATGATTTTTAACGGCGCTTTTATTACAAACGCT
1 GCTAAAGAACATGATCTTTAACAGCACTTTTATTACAAACGCT
* ** *
16027298 GTTAAAGAACATGATCTTTAGTAGCACTTTTATTACAAACGTT
1 GCTAAAGAACATGATCTTTAACAGCACTTTTATTACAAACGCT
16027341 GCTAAAGAACAT
1 GCTAAAGAACAT
16027353 TGCAGCATAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (43 bp):
GCTAAAGAACATGATCTTTAACAGCACTTTTATTACAAACGCT
Found at i:16029251 original size:14 final size:14
Alignment explanation
Indices: 16029217--16029253 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
16029207 GTGTATATAT
16029217 AACAAA-AAGAAAAA
1 AACAAAGAA-AAAAA
16029231 AAC-AAGAAAAAAA
1 AACAAAGAAAAAAA
16029244 AACAAAGAAA
1 AACAAAGAAA
16029254 CCAGATATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (14 bp):
AACAAAGAAAAAAA
Found at i:16031113 original size:18 final size:18
Alignment explanation
Indices: 16031090--16031125 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
16031080 TTTGTTGAAA
*
16031090 CAAATCGAATTGGCCAAC
1 CAAATCGAATCGGCCAAC
16031108 CAAATCGAATCGGCCAAC
1 CAAATCGAATCGGCCAAC
16031126 AACCCTCCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.31, G:0.17, T:0.14
Consensus pattern (18 bp):
CAAATCGAATCGGCCAAC
Found at i:16031513 original size:14 final size:14
Alignment explanation
Indices: 16031496--16031539 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
16031486 ATATTTATTG
*
16031496 TTATTTTT-TTGTTT
1 TTATTTTTATT-TTC
16031510 TTATTTTTATTTTC
1 TTATTTTTATTTTC
*
16031524 TTATTTTTCTTTTC
1 TTATTTTTATTTTC
16031538 TT
1 TT
16031540 CTTCAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 25 0.93
15 2 0.07
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.82
Consensus pattern (14 bp):
TTATTTTTATTTTC
Found at i:16031530 original size:20 final size:20
Alignment explanation
Indices: 16031489--16031536 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
16031479 TTTTTAAATA
* * *
16031489 TTTATTGTTATTTTTTTGTT
1 TTTATTTTTATTTTCTTATT
16031509 TTTATTTTTATTTTCTTATT
1 TTTATTTTTATTTTCTTATT
*
16031529 TTTCTTTT
1 TTTATTTT
16031537 CTTCTTCAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.81
Consensus pattern (20 bp):
TTTATTTTTATTTTCTTATT
Found at i:16039054 original size:14 final size:15
Alignment explanation
Indices: 16039022--16039055 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
16039012 AAAAGTAAGT
16039022 TATTTTCTAGAAATC
1 TATTTTCTAGAAATC
16039037 -ATTTTCTAG-AATC
1 TATTTTCTAGAAATC
16039050 TATTTT
1 TATTTT
16039056 TAGTTAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (15 bp):
TATTTTCTAGAAATC
Found at i:16039802 original size:51 final size:51
Alignment explanation
Indices: 16039744--16039849 Score: 185
Period size: 51 Copynumber: 2.1 Consensus size: 51
16039734 TCTTCCCCTT
16039744 ACTTTTCAAGTTTCAAACTTTGTATCTCACATTTATTAAAGCATGCTTCTC
1 ACTTTTCAAGTTTCAAACTTTGTATCTCACATTTATTAAAGCATGCTTCTC
* * *
16039795 ACTTTTCAAGTTTCAAACTTTGTATCTCGCCTTTATTAAAGTATGCTTCTC
1 ACTTTTCAAGTTTCAAACTTTGTATCTCACATTTATTAAAGCATGCTTCTC
16039846 ACTT
1 ACTT
16039850 ACGTGTTTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.44
Consensus pattern (51 bp):
ACTTTTCAAGTTTCAAACTTTGTATCTCACATTTATTAAAGCATGCTTCTC
Found at i:16040280 original size:19 final size:18
Alignment explanation
Indices: 16040256--16040291 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16040246 TATTAAATTA
*
16040256 TTTAATATTAAAATTTTAT
1 TTTAATAAT-AAATTTTAT
16040275 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
16040292 ACAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:16040305 original size:15 final size:16
Alignment explanation
Indices: 16040278--16040307 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16040268 ATTTTATTTT
16040278 AATAATAAATTTTAAC
1 AATAATAAATTTTAAC
16040294 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
16040308 AGTTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAC
Found at i:16047515 original size:49 final size:47
Alignment explanation
Indices: 16047370--16047641 Score: 141
Period size: 46 Copynumber: 5.7 Consensus size: 47
16047360 GGGATAAAAT
* * ** * **
16047370 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATC-AAA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCT-TTATATCTCGA
* * * *
16047418 GTCGATGCCATGTCGCAGACAAGTCTTACA-TTGACTTTCATA-CATCGA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAG-CTTT-ATATC-TCGA
* *
16047466 GACCGATGCCGTGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGA
1 G-CCGATGCCATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGA
* * * * *
16047515 GGCTGACG-CATGTCCCAGACATGTCTTCCAGTAG-TTCT-TATCTCAA
1 -GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGA
* * * *
16047561 TGCCGAT-ACATGTCCCAGACATGTCTTACACTGGCTCTCATAATGT-G-
1 -GCCGATGCCATGTCCCAGACATGTCTTACACTAGCT-TTAT-ATCTCGA
** *
16047608 GTTGATG-CATGTCCCAAACATGTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGC
16047642 ACACTTATCA
Statistics
Matches: 173, Mismatches: 36, Indels: 32
0.72 0.15 0.13
Matches are distributed among these distances:
46 66 0.38
47 16 0.09
48 44 0.25
49 42 0.24
50 5 0.03
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGA
Found at i:16052960 original size:24 final size:24
Alignment explanation
Indices: 16052933--16052980 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
16052923 CACCGTCATA
16052933 CGACCTTACTTCAGCTCAAGGAAT
1 CGACCTTACTTCAGCTCAAGGAAT
16052957 CGACCTTACTTCAGCTCAAGGAAT
1 CGACCTTACTTCAGCTCAAGGAAT
16052981 TCTTTCCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (24 bp):
CGACCTTACTTCAGCTCAAGGAAT
Found at i:16055314 original size:49 final size:47
Alignment explanation
Indices: 16055219--16055440 Score: 145
Period size: 46 Copynumber: 4.7 Consensus size: 47
16055209 ACATCAAAGT
* * *
16055219 CGATGCCATGTCGCAGACAAGTCTTACA-TTGACTTTCATA-CATCGAGAC
1 CGATGCCATGTCCCAGACATGTCTTACACTAG-CTTT-ATATC-TCGAG-C
* *
16055268 CGATGCCGTGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGA-GC
* * * * * *
16055317 TGACG-CATGTCCCAGACATGTCTTGCAGTAGCTCT-TATCTCAATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGA-GC
* * * * *
16055363 CGAT-ACATGTCCCAGACATGTCTTACACTGGCTCTCATAATGT-G-GT
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCT-TTAT-ATCTCGAGC
* *
16055409 TGATG-CATGTCCCAAACATGTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGC
16055441 ACACTTATCA
Statistics
Matches: 138, Mismatches: 26, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
46 65 0.47
47 1 0.01
48 25 0.18
49 42 0.30
50 5 0.04
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGC
Found at i:16055340 original size:48 final size:47
Alignment explanation
Indices: 16055276--16055440 Score: 156
Period size: 46 Copynumber: 3.5 Consensus size: 47
16055266 ACCGATGCCG
* *
16055276 TGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGACGCA
1 TGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCTGATGCA
* * * * * * *
16055324 TGTCCCAGACATGTCTTGCAGTAGCTCT-TATCTCAATGCCGATACA
1 TGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCTGATGCA
* * * * *
16055370 TGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGTTGATGCA
1 TGTCCCAGACATGTCTTACACTAGCT-TTATATCTCGAGGCTGATGCA
*
16055416 TGTCCCAAACATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
16055441 ACACTTATCA
Statistics
Matches: 92, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
46 65 0.71
47 2 0.02
48 25 0.27
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
TGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCTGATGCA
Done.