Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 77 of 175
Found at i:23502393 original size:15 final size:14
Alignment explanation
Indices: 23502361--23502400 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 14
23502351 AATATTGTTT
23502361 TTAAA-TAAATTAA
1 TTAAATTAAATTAA
23502374 TTAAATTAAATTAGA
1 TTAAATTAAATTA-A
23502389 TTAAATTAAATT
1 TTAAATTAAATT
23502401 CTTAATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 5 0.20
14 7 0.28
15 13 0.52
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
TTAAATTAAATTAA
Found at i:23506495 original size:25 final size:25
Alignment explanation
Indices: 23506462--23506620 Score: 169
Period size: 25 Copynumber: 6.4 Consensus size: 25
23506452 GTATGCTTAT
* *
23506462 ACGAACTGTGAATCAGTATGCTCTC
1 ACGAGCTGTAAATCAGTATGCTCTC
*
23506487 TCGAGCTGTAAATC-GATATGCTCTC
1 ACGAGCTGTAAATCAG-TATGCTCTC
* * * *
23506512 ATGAGCTGTAAAACGGTATACTCTC
1 ACGAGCTGTAAATCAGTATGCTCTC
* *
23506537 ACGAGCTATAAATCATTATGCTCTC
1 ACGAGCTGTAAATCAGTATGCTCTC
*
23506562 ACGAGCTATAAATCAGTATGCTCTC
1 ACGAGCTGTAAATCAGTATGCTCTC
* *
23506587 ACGAGCTGTAAA-CTGGTAAGCTCTC
1 ACGAGCTGTAAATC-AGTATGCTCTC
*
23506612 ATGAGCTGT
1 ACGAGCTGT
23506621 GGTGTGTTTA
Statistics
Matches: 113, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
24 2 0.02
25 110 0.97
26 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (25 bp):
ACGAGCTGTAAATCAGTATGCTCTC
Found at i:23521019 original size:48 final size:49
Alignment explanation
Indices: 23520967--23521104 Score: 138
Period size: 48 Copynumber: 2.8 Consensus size: 49
23520957 GTGGAACCAA
* *
23520967 TGGCAGTAATCTGCATATCAGTGGTGGCTTGTCCATAAAA-TCATATC-G
1 TGGCAGTAATCTGCATAT-AGTGGTGGCTTATCCACAAAAGTCATATCAG
**
23521015 TGGCAGTAAATCTG-ATAATAGTGGTGGCTTATCCACAAAAGTGTTATCAG
1 TGGCAGT-AATCTGCAT-ATAGTGGTGGCTTATCCACAAAAGTCATATCAG
* * * *
23521065 TGGCAGTTTATTTGCAAATAAGTGGTGGCTTTTCCACAAA
1 TGGCAG-TAATCTGCATAT-AGTGGTGGCTTATCCACAAA
23521105 TGGTGTTTTG
Statistics
Matches: 75, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
48 28 0.37
49 13 0.17
50 13 0.17
51 21 0.28
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (49 bp):
TGGCAGTAATCTGCATATAGTGGTGGCTTATCCACAAAAGTCATATCAG
Found at i:23530583 original size:50 final size:50
Alignment explanation
Indices: 23530529--23530797 Score: 295
Period size: 50 Copynumber: 5.3 Consensus size: 50
23530519 TATCCTAAAT
** * * * * * *
23530529 ATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTTCAAGAC
1 ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
** * * *
23530579 ATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
*
23530629 ATGGTCTTACATGAGACCTCTCATCTCGGTGTCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* *
23530679 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAT
1 ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* * * * *
23530729 ATGGTCTTACATGGGACCTCTCATAATCTCAATGATGTCAATGCCATGTCCTAGAC
1 ATGGTCTTACATGAGACCTCTC---ATCTC---GGTGCCAACGCCATGTCCCAGAC
23530785 ATGGTCTTACATG
1 ATGGTCTTACATG
23530798 GGATCTCTTT
Statistics
Matches: 189, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
50 153 0.81
53 5 0.03
56 31 0.16
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
Found at i:23530618 original size:100 final size:100
Alignment explanation
Indices: 23530508--23530753 Score: 330
Period size: 100 Copynumber: 2.5 Consensus size: 100
23530498 TTTCTCGTAC
* * * ** * * *
23530508 TGCCAATGCCATATCCTAAATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTT
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTC
* *
23530573 CAAGACATGGTCTTACGGGGGACCTCTCATCTTGG
66 CAAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
23530608 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGTCAACGCCATGTC
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTC
* *
23530673 CCAGACATGGTCTTACATGGGACCTCTCATCTCGG
66 CAAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
23530708 TGCCAACGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGAGACCTCTCATA
23530754 ATCTCAATGA
Statistics
Matches: 126, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 126 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (100 bp):
TGCCAATGCCATGTCCCAGATATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTC
CAAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:23533497 original size:28 final size:28
Alignment explanation
Indices: 23533432--23533530 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
23533422 CATGAGATTG
* * * *
23533432 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTTC-GACTATATA
* * *
23533461 GCACTAAGTGTGCGATTTTGATTATATA
1 GCACTAAGTGTGCGAGTTCGACTATATA
23533489 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTCGACTATAT-A
23533517 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
23533531 GGCTTATTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.72
29 16 0.26
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTCGACTATATA
Found at i:23540760 original size:50 final size:50
Alignment explanation
Indices: 23540568--23540813 Score: 195
Period size: 50 Copynumber: 4.8 Consensus size: 50
23540558 TCTTGTACTT
* * * * * * ** * *
23540568 CCAATGCCATATCCCAGATATGGTCTTACACGAGAGTTCTCATATAGGTG
1 CCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * ** * * *
23540618 CCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTAAGCTTGGTG
1 CCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * * *
23540668 CCAACGTCATGTCCCAGACATGGTCTTACGTGGGACCACTCATCTCGGTG
1 CCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTG
* *
23540718 CCAACGCCATGTCCGAAACATGGTCTTACATGGGACCTCTCATAATCTCAATGATG
1 CCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTC---ATCTC---GGTG
* * * *
23540774 CCAATGCCATGTCCTAGACATGGTCTTACATGGGATCTCT
1 CCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCT
23540814 TTACCTAAAT
Statistics
Matches: 158, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
50 114 0.72
53 5 0.03
56 39 0.25
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (50 bp):
CCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:23544405 original size:47 final size:47
Alignment explanation
Indices: 23544327--23544920 Score: 930
Period size: 47 Copynumber: 12.6 Consensus size: 47
23544317 CCCTTCGGGA
* * * * * *
23544327 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23544374 C-CAGTCACATATATACAGTTTCACATTCATCACATC-GCCATTAGG-
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23544419 CTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23544465 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23544512 CTTATCACATATATACACTGTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23544559 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23544606 CTTATCACATATATACAATTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23544653 CTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23544698 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23544745 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23544792 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATC-G-----GCCATTAGGC
23544845 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23544892 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
23544921 TATTCAAATA
Statistics
Matches: 508, Mismatches: 24, Indels: 28
0.91 0.04 0.05
Matches are distributed among these distances:
44 17 0.03
45 43 0.08
46 76 0.15
47 307 0.60
48 1 0.00
49 19 0.04
52 1 0.00
53 44 0.09
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23544744 original size:233 final size:234
Alignment explanation
Indices: 23544327--23544920 Score: 944
Period size: 233 Copynumber: 2.5 Consensus size: 234
23544317 CCCTTCGGGA
* * * * * *
23544327 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC-CAGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTA-TCACATATATACA
*
23544391 GTTTCACATTCATCACATC-GCCATTAGG-CTTATCACATATATACACTTCACATTCATCACATC
65 ATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTCACATTCATCACATC
*
23544454 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
130 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
23544519 CATATATACACTGTCACATTCATCACATCGGCCATTAGGC
195 CATATATACACTGTCACATTCATCACATCGGCCATTAGGC
* *
23544559 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAA
*
23544624 TTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATATACACTTCACATTCATCACATCG
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTCACATTCATCACATCG
23544689 GCCATTA-GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
131 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
23544753 ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 ATATATACACTGTCACATTCATCACATCGGCCATTAGGC
23544792 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTGCCATTCGGCCTTATCACATAT
1 CTTATCACATATATACACTTTCACATTCATCACATC-G-----GCCATTCGGCCTTATCACATAT
*
23544857 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
60 ATACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACAC-TTCACATT
23544921 TATTCAAATA
Statistics
Matches: 333, Mismatches: 17, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
232 71 0.21
233 139 0.42
234 44 0.13
239 61 0.18
241 10 0.03
242 8 0.02
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (234 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAA
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
ATATATACACTGTCACATTCATCACATCGGCCATTAGGC
Found at i:23544879 original size:25 final size:25
Alignment explanation
Indices: 23544795--23544879 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 25
23544785 ATTAGGCCTT
23544795 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
* * * * *
23544820 ATCACATCAGCCATTGC-CATTCGGCCTT-
1 ATCACAT-A--TA-TACACTTTC-ACATTC
23544848 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
23544873 ATCACAT
1 ATCACAT
23544880 CGGCCATTAG
Statistics
Matches: 43, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
24 5 0.12
25 19 0.44
26 1 0.02
27 1 0.02
28 12 0.28
29 5 0.12
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:23544941 original size:186 final size:182
Alignment explanation
Indices: 23544378--23544920 Score: 808
Period size: 186 Copynumber: 2.9 Consensus size: 182
23544368 CTCGGCCCAG
* *
23544378 TCACATATATACAGTTTCACATTCATCACATC-GCCATTAGG-CTTATCACATATATACAC-TTC
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
*
23544440 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
*
23544505 ATTAGGCCTTATCACATATATACACTGTCACATTCATCACATCGGCCATTAGGCCTTA
131 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT----CATTA-G-CTTA
*
23544563 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
*
23544628 ACATTCATCACTTCGGCCATTAGGCCTTATCACATATATACAC-TTCACATTCATCACATCGGCC
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
23544692 ATTA-GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
131 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT----CATTA-G-CTTA
23544749 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
*
23544814 ACATTCATCACATCAGCCATTGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACATTCATCACATC-G-----GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
23544879 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
125 TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATT
23544921 TATTCAAATA
Statistics
Matches: 336, Mismatches: 9, Indels: 15
0.93 0.03 0.04
Matches are distributed among these distances:
185 31 0.09
186 137 0.41
187 42 0.12
188 45 0.13
192 27 0.08
193 25 0.07
194 10 0.03
196 19 0.06
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (182 bp):
TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCATTAGCTTA
Found at i:23546426 original size:13 final size:13
Alignment explanation
Indices: 23546408--23546432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23546398 TACAAAATTT
23546408 TCATGGATTCAAA
1 TCATGGATTCAAA
23546421 TCATGGATTCAA
1 TCATGGATTCAA
23546433 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:23548877 original size:40 final size:40
Alignment explanation
Indices: 23548606--23548855 Score: 342
Period size: 40 Copynumber: 6.2 Consensus size: 40
23548596 CCAGCATGAT
* * * * * * *
23548606 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
** * *
23548646 TGCTCTTC-GAGGTTTAG-CACAGATATATCACTAGCACGAA
1 TGCTCTTCGGA-ACTTAGTC-CGGATACATCACTAGCACGAA
**
23548686 TGCTCTTCACAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
23548726 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
23548766 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
23548806 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
23548846 TGCTCTTCGG
1 TGCTCTTCGG
23548856 GATTTAGCCC
Statistics
Matches: 189, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 2 0.01
40 185 0.98
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:23550404 original size:47 final size:47
Alignment explanation
Indices: 23550326--23550971 Score: 1051
Period size: 47 Copynumber: 13.6 Consensus size: 47
23550316 CCCTTCGGGA
* * * * * *
23550326 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23550373 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23550420 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23550467 CTTACCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23550516 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23550563 CTTATCACATATATACACTTTCACATTCATCACATCTGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23550610 CTTATCACATATATTCAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23550657 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23550704 CTTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23550751 CTTATCACATATATATACACTTTCACATTCATCACATC-GCCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCC-ATTAGGC
23550800 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23550847 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23550896 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23550943 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
23550972 TATTCAAATA
Statistics
Matches: 561, Mismatches: 28, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
47 404 0.72
48 6 0.01
49 151 0.27
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23550523 original size:96 final size:96
Alignment explanation
Indices: 23550326--23550971 Score: 1081
Period size: 96 Copynumber: 6.8 Consensus size: 96
23550316 CCCTTCGGGA
* * * * * * * *
23550326 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
23550389 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
23550420 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
23550485 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
23550516 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
23550579 ACTTTCACATTCATCACATCTGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
23550610 CTTATCACATATATTCAATTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
23550673 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
23550704 CTTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
23550769 ACTTTCACATTCATCACATC-GCCTATTAGGC
66 ACTTTCACATTCATCACATCGGCC-ATTAGGC
23550800 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
23550865 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
23550896 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
23550961 ACTTTCACATT
66 ACTTTCACATT
23550972 TATTCAAATA
Statistics
Matches: 524, Mismatches: 22, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
94 226 0.43
95 3 0.01
96 292 0.56
97 3 0.01
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23550595 original size:143 final size:143
Alignment explanation
Indices: 23550326--23550971 Score: 1063
Period size: 143 Copynumber: 4.5 Consensus size: 143
23550316 CCCTTCGGGA
* * * * * * *
23550326 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
23550389 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
23550454 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
23550467 CTTACCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
23550532 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
23550597 TCTGCTATTAGGC
131 TCGGCCATTAGGC
*
23550610 CTTATCACATATAT-T-CAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
23550673 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATGTACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
23550738 TCGGCCATTAGGC
131 TCGGCCATTAGGC
23550751 CTTATCACATATATATACACTTTCACATTCATCACATC-GCCTATTAGGCCTTATCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCC-ATTAGGCCTTATCACATATATA
23550815 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
65 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
* *
23550880 ACATTGGCCATTCGGC
128 ACATCGGCCATTAGGC
23550896 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
23550959 ACACTTTCACATT
64 ACACTTTCACATT
23550972 TATTCAAATA
Statistics
Matches: 474, Mismatches: 21, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
141 144 0.30
142 6 0.01
143 258 0.54
144 3 0.01
145 63 0.13
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:23550713 original size:22 final size:22
Alignment explanation
Indices: 23550685--23550760 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
23550675 TTTCACATTC
23550685 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
* ** *** *
23550707 ATCACATATGTACACTTTCACATT
1 ATCACAT-CGGCCA-TTAGGCCTT
23550731 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
23550754 ATCACAT
1 ATCACAT
23550761 ATATATACAC
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:23552481 original size:13 final size:13
Alignment explanation
Indices: 23552463--23552487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23552453 TACTAAATTT
23552463 TCATGGATTCAAA
1 TCATGGATTCAAA
23552476 TCATGGATTCAA
1 TCATGGATTCAA
23552488 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:23554195 original size:16 final size:16
Alignment explanation
Indices: 23554148--23554187 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
23554138 ATTTCAATCC
23554148 AAAAATTATATTTTTG
1 AAAAATTATATTTTTG
23554164 AAAAATTATATTTTTG
1 AAAAATTATATTTTTG
23554180 AAAAATTA
1 AAAAATTA
23554188 CAGTTTTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
AAAAATTATATTTTTG
Found at i:23562764 original size:36 final size:33
Alignment explanation
Indices: 23562699--23562765 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
23562689 GTGAATGAAG
*
23562699 TGAGTGAACAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAACAAGAGAGAGAGCTAAAACAAGGAA
* *
23562732 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAACAAG-AGAGAGAGCT-AAA-ACAAGG
23562766 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.46, C:0.10, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAACAAGAGAGAGAGCTAAAACAAGGAA
Found at i:23577894 original size:12 final size:12
Alignment explanation
Indices: 23577877--23577913 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
23577867 TCGTATTATT
23577877 ATCGAGAACTTC
1 ATCGAGAACTTC
23577889 ATCGAGAACTTC
1 ATCGAGAACTTC
23577901 ATC-AGAAACTTC
1 ATCGAG-AACTTC
23577913 A
1 A
23577914 AAATCATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 2 0.08
12 22 0.92
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (12 bp):
ATCGAGAACTTC
Found at i:23587518 original size:25 final size:25
Alignment explanation
Indices: 23587474--23587524 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
23587464 TACAATCTAT
23587474 CTATAGCAGTCTCAGTATATACTAC
1 CTATAGCAGTCTCAGTATATACTAC
*
23587499 CTATAGCAGTTTCAAG-ATATACTAC
1 CTATAGCAGTCTC-AGTATATACTAC
23587524 C
1 C
23587525 AAAAACAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (25 bp):
CTATAGCAGTCTCAGTATATACTAC
Found at i:23587533 original size:25 final size:25
Alignment explanation
Indices: 23587490--23587537 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23587480 CAGTCTCAGT
* * *
23587490 ATATACTACCTATAGCAGTTTCAAG
1 ATATACTACCAAAAACAGTTTCAAG
23587515 ATATACTACCAAAAACAGTTTCA
1 ATATACTACCAAAAACAGTTTCA
23587538 GTTTAGACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (25 bp):
ATATACTACCAAAAACAGTTTCAAG
Found at i:23600743 original size:37 final size:37
Alignment explanation
Indices: 23600601--23600745 Score: 218
Period size: 37 Copynumber: 3.9 Consensus size: 37
23600591 GCTCAGACGA
* * * * *
23600601 AATCTCCACATGAAGTTATCGGGTCTTACCCAGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* * *
23600638 AATCTCCATATGTAGTCATCGGGTCTTGCCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
23600675 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
23600712 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
23600746 ATATATTTCC
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:23601016 original size:47 final size:47
Alignment explanation
Indices: 23600954--23601389 Score: 620
Period size: 47 Copynumber: 9.1 Consensus size: 47
23600944 ACACGTTTCG
* * * **
23600954 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
23601001 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
23601048 CATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
23601095 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * ** *
23601142 CATTGGCCATTCGACCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
23601195 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
23601242 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
23601289 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
23601340 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
23601387 CAT
1 CAT
23601390 AAAATCCTAA
Statistics
Matches: 353, Mismatches: 26, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
47 266 0.75
49 1 0.00
51 45 0.13
53 41 0.12
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:23601197 original size:194 final size:195
Alignment explanation
Indices: 23600977--23601367 Score: 649
Period size: 194 Copynumber: 2.0 Consensus size: 195
23600967 GCCTTACCAC
* * * * *
23600977 ATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACAT
1 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
*
23601042 TCATCACATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
66 TCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
* *
23601107 GGCCTTATCACACATACGCAT-GTTCACATTCATCACATTGGCCATTCGACCTTATCACGCATAT
131 GGCCTTATCACACATACACATGGTTCACATTCATCACATTGGCCATTCGACCTTATCACACATAT
23601171 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
1 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
23601236 TCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
66 TCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
* * *
23601301 GGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
131 GGCCTTATCACACATACACAT---GGTTCACATTCATCACATTGGCCATTCGACCTTATCACACA
23601366 TA
193 TA
23601368 CGCATGTTCA
Statistics
Matches: 182, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
194 142 0.78
198 40 0.22
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (195 bp):
ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
TCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
GGCCTTATCACACATACACATGGTTCACATTCATCACATTGGCCATTCGACCTTATCACACATAT
Found at i:23601226 original size:147 final size:145
Alignment explanation
Indices: 23600954--23601389 Score: 709
Period size: 147 Copynumber: 3.0 Consensus size: 145
23600944 ACACGTTTCG
* * * **
23600954 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * *
23601019 AT--C-T-CATATATGCATGTTCACATTCATCACATTGGCCATTTGGCCTTATCACACATACGCA
66 ATCACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
23601080 TGTTCACATTCATCA
131 TGTTCACATTCATCA
*
23601095 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
23601160 ATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
66 ATCA--CATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
23601225 CATGTTCACATTCATCA
129 CATGTTCACATTCATCA
23601242 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
23601307 ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66 ATCACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
*
23601372 TGTTCACATCCATCA
131 TGTTCACATTCATCA
23601387 CAT
1 CAT
23601390 AAAATCCTAA
Statistics
Matches: 275, Mismatches: 14, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
141 61 0.22
145 77 0.28
146 1 0.00
147 136 0.49
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (145 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
TGTTCACATTCATCA
Found at i:23603707 original size:85 final size:85
Alignment explanation
Indices: 23603578--23603756 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
23603568 TATTTTATTG
*
23603578 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
23603643 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
23603663 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
23603728 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
23603748 CCCATGCTC
1 CCCATGCTC
23603757 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:23618350 original size:22 final size:21
Alignment explanation
Indices: 23618321--23618368 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
23618311 AAGCATGAAC
*
23618321 TGAA-ATTTTAATGATTTAGTG
1 TGAACATTTTAATGAATT-GTG
* *
23618342 TGAACATTTTTATTAATTGTG
1 TGAACATTTTAATGAATTGTG
23618363 TGAACA
1 TGAACA
23618369 CATAGGTGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (21 bp):
TGAACATTTTAATGAATTGTG
Found at i:23623172 original size:50 final size:50
Alignment explanation
Indices: 23623109--23623296 Score: 209
Period size: 51 Copynumber: 3.7 Consensus size: 50
23623099 TATCATTCGA
* * *
23623109 TACACGTACTAGCCTTCACATAGTACTACACACGTGATCAAACTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTTCCGG
*
23623159 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAAGC-TTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-AAA-CTTTCCGG
* * * * * *
23623210 TACACATAGTAGCCTGCACATAGTGCTACACATGTGACCATTATCTAT-CGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA--AACTTTCCGG
* * *
23623261 TACAAGTAGTAGCCTACACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
23623297 TGTATAGGCA
Statistics
Matches: 116, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
50 36 0.31
51 77 0.66
52 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTTCCGG
Found at i:23630655 original size:22 final size:22
Alignment explanation
Indices: 23630629--23630674 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
23630619 ATTATGTGTA
23630629 TTAATTCATAATAT-AA-TTAATT
1 TTAATT-ATAAT-TCAATTTAATT
23630651 TTAATTATAATTCAATTTAATT
1 TTAATTATAATTCAATTTAATT
23630673 TT
1 TT
23630675 GTTTAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.05
21 7 0.32
22 14 0.64
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
TTAATTATAATTCAATTTAATT
Found at i:23630659 original size:16 final size:16
Alignment explanation
Indices: 23630640--23630672 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23630630 TAATTCATAA
23630640 TATAATT-AATTTTAAT
1 TATAATTCAA-TTTAAT
23630656 TATAATTCAATTTAAT
1 TATAATTCAATTTAAT
23630672 T
1 T
23630673 TTGTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAATTCAATTTAAT
Found at i:23646946 original size:30 final size:30
Alignment explanation
Indices: 23646888--23646943 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
23646878 TCGTTTTTAT
* *
23646888 TCTCAATCTCATTTTCAATTTTCTTTTCTA
1 TCTCAAACTCATCTTCAATTTTCTTTTCTA
*
23646918 TCTCAAACTCATCTTC-TTTTTCTTTT
1 TCTCAAACTCATCTTCAATTTTCTTTT
23646944 TCTCACTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 9 0.39
30 14 0.61
ACGTcount: A:0.18, C:0.25, G:0.00, T:0.57
Consensus pattern (30 bp):
TCTCAAACTCATCTTCAATTTTCTTTTCTA
Found at i:23647962 original size:11 final size:11
Alignment explanation
Indices: 23647946--23647995 Score: 93
Period size: 11 Copynumber: 4.6 Consensus size: 11
23647936 AATACAAACT
23647946 TTTTTTTTGAA
1 TTTTTTTTGAA
23647957 TTTTTTTTGAA
1 TTTTTTTTGAA
23647968 TTTTTTTTGAA
1 TTTTTTTTGAA
23647979 TTTTTTTTG-A
1 TTTTTTTTGAA
23647989 TTTTTTT
1 TTTTTTT
23647996 ACAATACCGT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
10 8 0.21
11 31 0.79
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:23651985 original size:30 final size:30
Alignment explanation
Indices: 23651919--23652107 Score: 145
Period size: 30 Copynumber: 6.4 Consensus size: 30
23651909 GCTGTCAATT
*
23651919 TATGAAAAGGGATGGTGACGACCATC-AAC
1 TATGAAAAGGGATAGTGACGACCATCAAAC
*
23651948 TATGAAAAGGGATAGTGACGACTATCAAAC
1 TATGAAAAGGGATAGTGACGACCATCAAAC
* * ** ** *
23651978 CATGAAAAGGAATAGCT-TTG-CCTATTTAAT
1 TATGAAAAGGGATAG-TGACGACC-ATCAAAC
* * * *
23652008 TATGAAAAGGGATAGCT-TCAACTATCAAAT
1 TATGAAAAGGGATAG-TGACGACCATCAAAC
** *
23652038 TATGAAAAGGGACGGTGACGGCCATC-AAC
1 TATGAAAAGGGATAGTGACGACCATCAAAC
* * *
23652067 AATGAAAAGGGATGGTGACGACCATCAAAA
1 TATGAAAAGGGATAGTGACGACCATCAAAC
23652097 TATGAAAAGGG
1 TATGAAAAGGG
23652108 GTAGCTTCGG
Statistics
Matches: 125, Mismatches: 29, Indels: 11
0.76 0.18 0.07
Matches are distributed among these distances:
29 51 0.41
30 72 0.58
31 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (30 bp):
TATGAAAAGGGATAGTGACGACCATCAAAC
Found at i:23652102 original size:119 final size:119
Alignment explanation
Indices: 23651890--23652139 Score: 338
Period size: 119 Copynumber: 2.1 Consensus size: 119
23651880 TCATCGGCCA
** * * * *
23651890 ATGAAAAGGGATAGCTTCGGCTGTCAATTTATGAAAAGGGATGGTGACGACCATCAACTATGAAA
1 ATGAAAAGGGATAGCTTCAACTATCAAATTATGAAAAGGGACGGTGACGACCATCAACAATGAAA
* * * * *
23651955 AGGGATAGTGACGACTATCAAACCATGAAAAGGAATAGCTTTGCCTATTTAATT
66 AGGGATAGTGACGACCATCAAAACATGAAAAGGAATAGCTTCGCCTATTGAACT
*
23652009 ATGAAAAGGGATAGCTTCAACTATCAAATTATGAAAAGGGACGGTGACGGCCATCAACAATGAAA
1 ATGAAAAGGGATAGCTTCAACTATCAAATTATGAAAAGGGACGGTGACGACCATCAACAATGAAA
* * ** * *
23652074 AGGGATGGTGACGACCATCAAAATATGAAAAGGGGTAGCTTCGGCTATTGAGCT
66 AGGGATAGTGACGACCATCAAAACATGAAAAGGAATAGCTTCGCCTATTGAACT
23652128 ATGAAAAGGGAT
1 ATGAAAAGGGAT
23652140 GGTGACAATC
Statistics
Matches: 113, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
119 113 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (119 bp):
ATGAAAAGGGATAGCTTCAACTATCAAATTATGAAAAGGGACGGTGACGACCATCAACAATGAAA
AGGGATAGTGACGACCATCAAAACATGAAAAGGAATAGCTTCGCCTATTGAACT
Found at i:23654059 original size:40 final size:40
Alignment explanation
Indices: 23653998--23654264 Score: 462
Period size: 40 Copynumber: 6.7 Consensus size: 40
23653988 GCAAACACAT
* * * *
23653998 TTGCTTTCGGCTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
23654038 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
23654078 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
23654118 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
23654158 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
23654198 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
23654238 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
23654265 ATCCAATGCT
Statistics
Matches: 215, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:23678575 original size:22 final size:22
Alignment explanation
Indices: 23678544--23678602 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
23678534 ACATGGCCAG
* *
23678544 TGTCACGACACCCTATTGCCTA
1 TGTCATGACACCCTAGTGCCTA
*
23678566 TGTCATGACACCCTAGTGCCTG
1 TGTCATGACACCCTAGTGCCTA
23678588 TGTCATGACACCCTA
1 TGTCATGACACCCTA
23678603 AGAGCAGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.27
Consensus pattern (22 bp):
TGTCATGACACCCTAGTGCCTA
Found at i:23681036 original size:20 final size:20
Alignment explanation
Indices: 23681011--23681048 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23681001 GCTCTTTTGT
*
23681011 ACATATATTTTCTTTCAAGC
1 ACATATATTTTATTTCAAGC
*
23681031 ACATATGTTTTATTTCAA
1 ACATATATTTTATTTCAA
23681049 CATAAGCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (20 bp):
ACATATATTTTATTTCAAGC
Found at i:23684327 original size:50 final size:50
Alignment explanation
Indices: 23684191--23684376 Score: 133
Period size: 50 Copynumber: 3.6 Consensus size: 50
23684181 AGATCCCATG
* ** ** *
23684191 TAAGACCATGTCTGGGACATGTCATTGGCATTATTGAGTTCATGAGAGGTCCAACG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATGAGAGGTCCCTCA
* * * *
23684247 TAAGACCATGTCTAGTACATAGCGTTGGCACCAAGATGAGAGGTCCCTCA
1 TAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCTCA
* * * * *
23684297 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGA--ACTCTCA
1 TAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCTCA
* *
23684345 TGTAAGACCATATCTGGGATATGGCATTGGCA
1 --TAAGACCATGTCTGGGACATGGCATTGGCA
23684377 GTACAGGAAA
Statistics
Matches: 106, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
48 5 0.05
50 73 0.69
53 2 0.02
56 26 0.25
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCTCA
Found at i:23686469 original size:28 final size:28
Alignment explanation
Indices: 23686429--23686666 Score: 424
Period size: 28 Copynumber: 8.5 Consensus size: 28
23686419 TAAATTGTAC
*
23686429 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
23686457 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23686485 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
23686513 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
23686541 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
23686569 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23686597 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23686625 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23686652 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23686667 GACTTAATAT
Statistics
Matches: 205, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
27 24 0.12
28 181 0.88
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:23694789 original size:28 final size:28
Alignment explanation
Indices: 23694749--23694986 Score: 424
Period size: 28 Copynumber: 8.5 Consensus size: 28
23694739 TAAATTGTAC
*
23694749 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
23694777 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23694805 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
23694833 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
23694861 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
23694889 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23694917 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23694945 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23694972 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23694987 GACTTAATAT
Statistics
Matches: 205, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
27 24 0.12
28 181 0.88
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:23698959 original size:30 final size:30
Alignment explanation
Indices: 23698902--23698960 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
23698892 TGCCTTTGAA
* * *
23698902 AATATTTACAAAAATAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
23698932 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
23698961 GAAAATAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:23702277 original size:50 final size:50
Alignment explanation
Indices: 23702202--23702346 Score: 204
Period size: 50 Copynumber: 2.9 Consensus size: 50
23702192 CATTTGGGTA
* *
23702202 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGTT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
23702252 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * *
23702302 GAGACGGCCCCCA--TAAGACCATGTCTGGGACATGGCATGGGCACC
1 AAGA-GG-TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACC
23702347 AATATGGGAA
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
50 81 0.93
51 2 0.02
52 4 0.05
ACGTcount: A:0.25, C:0.24, G:0.32, T:0.19
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:23702369 original size:50 final size:50
Alignment explanation
Indices: 23702209--23702443 Score: 176
Period size: 50 Copynumber: 4.7 Consensus size: 50
23702199 GTAAAGAGGT
* * * ***
23702209 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGT-TAAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC-CAATATAAGAACA
* * * * * *
23702259 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGACGGCC
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAATATAAGA--ACA
* **
23702311 CCCA--TAAGACCATGTCTGGGACATGGCATGGGCACCAATATGGGAACA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAATATAAGAACA
* * * * * *
23702359 CCCATGTAAGACCATATCTGAGATATGGCATTGG---CAGTACAGGAACCA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAATATAAGAA-CA
* *
23702407 TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 -CCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
23702444 TGTTATTATT
Statistics
Matches: 150, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
47 8 0.05
48 7 0.05
49 29 0.19
50 101 0.67
52 5 0.03
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAATATAAGAACA
Found at i:23715922 original size:12 final size:12
Alignment explanation
Indices: 23715905--23715950 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
23715895 AAATTGTAGT
23715905 TTCAAAAAAAAA
1 TTCAAAAAAAAA
23715917 TTC-AAAAAAAA
1 TTCAAAAAAAAA
23715928 TTCAAAAAAAAA
1 TTCAAAAAAAAA
23715940 TTCAAAAAAAA
1 TTCAAAAAAAA
23715951 GAATTTCGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.33
12 22 0.67
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (12 bp):
TTCAAAAAAAAA
Found at i:23715925 original size:11 final size:11
Alignment explanation
Indices: 23715909--23715950 Score: 75
Period size: 11 Copynumber: 3.7 Consensus size: 11
23715899 TGTAGTTTCA
23715909 AAAAAAAATTC
1 AAAAAAAATTC
23715920 AAAAAAAATTC
1 AAAAAAAATTC
23715931 AAAAAAAAATTC
1 -AAAAAAAATTC
23715943 AAAAAAAA
1 AAAAAAAA
23715951 GAATTTCGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 19 0.63
12 11 0.37
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:23715935 original size:23 final size:23
Alignment explanation
Indices: 23715905--23715950 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
23715895 AAATTGTAGT
23715905 TTCAAAAAAAAATTCAAAAAAAA
1 TTCAAAAAAAAATTCAAAAAAAA
23715928 TTCAAAAAAAAATTCAAAAAAAA
1 TTCAAAAAAAAATTCAAAAAAAA
23715951 GAATTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (23 bp):
TTCAAAAAAAAATTCAAAAAAAA
Found at i:23720021 original size:50 final size:48
Alignment explanation
Indices: 23719924--23720063 Score: 136
Period size: 50 Copynumber: 2.8 Consensus size: 48
23719914 TATTGAGGTT
* * *
23719924 ATGAGATGTCCCACGTAAGACCATGTCTGTGACATGACTTTGGCACCGAG
1 ATGAGAAGTCCCACGTAAGACCATGTCTG-GACATGGC-ATGGCACCGAG
* * *
23719974 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGCCACCGAT
1 ATGAGAAGTCCCACGTAAGACCATGTCT-GGACATGGCATGG-CACCGAG
* * * * *
23720024 AGGAGAACTCCCATGTAAGACCATATCTGGGATATGGCAT
1 ATGAGAAGTCCCACGTAAGACCATGTCT-GGACATGGCAT
23720064 TGGTAGTACA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 3 0.04
50 71 0.95
51 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (48 bp):
ATGAGAAGTCCCACGTAAGACCATGTCTGGACATGGCATGGCACCGAG
Found at i:23720350 original size:20 final size:20
Alignment explanation
Indices: 23720325--23720363 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23720315 AGAGTTATTT
* *
23720325 AAGTAAGCAAGTAATTAAAC
1 AAGTAAGAAAGTAAGTAAAC
23720345 AAGTAAGAAAGTAAGTAAA
1 AAGTAAGAAAGTAAGTAAA
23720364 GAAGAAGCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.05, G:0.18, T:0.18
Consensus pattern (20 bp):
AAGTAAGAAAGTAAGTAAAC
Found at i:23736712 original size:18 final size:18
Alignment explanation
Indices: 23736689--23736749 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
23736679 TTAATCATTT
23736689 TTAATTTATCTTAGTATG
1 TTAATTTATCTTAGTATG
* * ** * *
23736707 TTAATTAATTTGTCTTTTT
1 TTAATTTATCT-TAGTATG
23736726 TTAATTTATCTTAGTATG
1 TTAATTTATCTTAGTATG
23736744 TTAATT
1 TTAATT
23736750 AATTTATCTT
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
18 18 0.60
19 12 0.40
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (18 bp):
TTAATTTATCTTAGTATG
Found at i:23736714 original size:22 final size:22
Alignment explanation
Indices: 23736689--23736759 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
23736679 TTAATCATTT
23736689 TTAATTTATCTTAGTATGTTAA
1 TTAATTTATCTTAGTATGTTAA
*
23736711 TTAATTTGTC-T--T-T-TT--
1 TTAATTTATCTTAGTATGTTAA
23736726 TTAATTTATCTTAGTATGTTAA
1 TTAATTTATCTTAGTATGTTAA
23736748 TTAATTTATCTT
1 TTAATTTATCTT
23736760 GATATTATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
15 9 0.22
16 1 0.03
17 2 0.05
18 2 0.05
19 2 0.05
20 2 0.05
21 1 0.03
22 21 0.52
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.61
Consensus pattern (22 bp):
TTAATTTATCTTAGTATGTTAA
Found at i:23736729 original size:37 final size:37
Alignment explanation
Indices: 23736686--23736759 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
23736676 TTTTTAATCA
*
23736686 TTTTTAATTTATCTTAGTATGTTAATTAATTTGTCTT
1 TTTTTAATTTATCTTAGTATGTTAATTAATTTATCTT
23736723 TTTTTAATTTATCTTAGTATGTTAATTAATTTATCTT
1 TTTTTAATTTATCTTAGTATGTTAATTAATTTATCTT
23736760 GATATTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (37 bp):
TTTTTAATTTATCTTAGTATGTTAATTAATTTATCTT
Found at i:23739443 original size:20 final size:20
Alignment explanation
Indices: 23739413--23739466 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
23739403 GGGGTGGACT
*
23739413 TCTTGATTGGGCTTGGACTCA
1 TCTT-ATTGGGCCTGGACTCA
23739434 TCTTATTGGGCCTGGACTCA
1 TCTTATTGGGCCTGGACTCA
23739454 TCTTATTGGGCCT
1 TCTTATTGGGCCT
23739467 TGCCTTCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 28 0.88
21 4 0.12
ACGTcount: A:0.13, C:0.22, G:0.26, T:0.39
Consensus pattern (20 bp):
TCTTATTGGGCCTGGACTCA
Found at i:23746975 original size:431 final size:431
Alignment explanation
Indices: 23746172--23747027 Score: 1426
Period size: 431 Copynumber: 2.0 Consensus size: 431
23746162 TATGGTTTGT
* *
23746172 CTTCTTGTTTGGGCTTGGAATCATCTTATTAGGCCTTGCCTTCAAGAACTTGGGCTTGTATTCCA
1 CTTCTTGATTCGGCTTGGAATCATCTTATTAGGCCTTGCCTTCAAGAACTTGGGCTTGTATTCCA
* * * *
23746237 TCTTCTACCAAAATTGGTTCGTTGATGCTCATAACGGAGATCCAATGCGCTTTGGCTGCAAGATT
66 TCTTCTACCAAAATTGGGTCGTTGAGGCTCATAACGAAGATCCAATGCGATTTGGCTGCAAGATT
23746302 TGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCC
131 TGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCC
* * *
23746367 AAACAGCAAGATTGGGCCAAGATTCGGTTACTTGATTTTCTTGAAAATAGGAAAGTGAATCTTGA
196 AAACAGCAAGATTGGGCCAAGATTCAGTTACTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGA
* * *
23746432 TTTTCTCTTTCTTTCATGTACGCATCCAATGCCTTGCTAACAAACTCCTGAATGGTCCCATTTAG
261 TTTTCTCTTTCTCTCATATACGCATCCAAGGCCTTGCTAACAAACTCCTGAATGGTCCCATTTAG
* *
23746497 TTTGGAGCACATTTGTCGGGCCTTTGATCTTGTTATTGGGCCTTGTGGTAATTTGAGCCCATCAC
326 TTTGGAACACATTTGTCGGGCCTTTGATCTCGTTATTGGGCCTTGTGGTAATTTGAGCCCATCAC
*
23746562 GTTCTTGGGCTTGGGTTGGGCCTTTGTGACTCGTATCAGGA
391 GTTCTTGGGCTTGGGTTGGGCATTTGTGACTCGTATCAGGA
* *
23746603 CTTCTTGATTCGGCTTGGACTCATCTTATTGGGCCTTGCCTTCAAGAACTTGGGCTTGTATTCCA
1 CTTCTTGATTCGGCTTGGAATCATCTTATTAGGCCTTGCCTTCAAGAACTTGGGCTTGTATTCCA
* * *
23746668 TC-TCTTACCGAAATTGGGTCGTTGAGGCTCGTAACGAAGATCCAATGCGATTTGGCTTCAAGAT
66 TCTTC-TACCAAAATTGGGTCGTTGAGGCTCATAACGAAGATCCAATGCGATTTGGCTGCAAGAT
23746732 TTGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTC
130 TTGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTC
* * *
23746797 CAAACAGTAAGATTGGGCTAAGATTCAGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTG
195 CAAACAGCAAGATTGGGCCAAGATTCAGTTACTTGATTTTCTTGAAAACAAGAAAGTGAATCTTG
* * * * *
23746862 ATTTTCTCTTTCTCTCGTATATGCATCTAAGGCCTTGCTAACGAACTCCTGGATGGTCCCATTTA
260 ATTTTCTCTTTCTCTCATATACGCATCCAAGGCCTTGCTAACAAACTCCTGAATGGTCCCATTTA
*
23746927 GTTTGGAACACATTTTTCGGGCCTTTGATCTCGTTATTGGGCCTTGTGGTAATTTGAGCCCATCA
325 GTTTGGAACACATTTGTCGGGCCTTTGATCTCGTTATTGGGCCTTGTGGTAATTTGAGCCCATCA
*
23746992 CGTTCTTGGGCTTTGGTTGGGCATTTGTGACTCGTA
390 CGTTCTTGGGCTTGGGTTGGGCATTTGTGACTCGTA
23747028 CCACAAGCAA
Statistics
Matches: 394, Mismatches: 30, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
430 2 0.01
431 392 0.99
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (431 bp):
CTTCTTGATTCGGCTTGGAATCATCTTATTAGGCCTTGCCTTCAAGAACTTGGGCTTGTATTCCA
TCTTCTACCAAAATTGGGTCGTTGAGGCTCATAACGAAGATCCAATGCGATTTGGCTGCAAGATT
TGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCC
AAACAGCAAGATTGGGCCAAGATTCAGTTACTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGA
TTTTCTCTTTCTCTCATATACGCATCCAAGGCCTTGCTAACAAACTCCTGAATGGTCCCATTTAG
TTTGGAACACATTTGTCGGGCCTTTGATCTCGTTATTGGGCCTTGTGGTAATTTGAGCCCATCAC
GTTCTTGGGCTTGGGTTGGGCATTTGTGACTCGTATCAGGA
Found at i:23749806 original size:21 final size:22
Alignment explanation
Indices: 23749768--23749824 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
23749758 TGAACAAGCC
23749768 ACCACATAATTCCTGAT-AACG
1 ACCACATAATTCCTGATAAACG
* *
23749789 ACCACATAATT-GTAGATAAACT
1 ACCACATAATTCCT-GATAAACG
23749811 ACCACATAACTTCC
1 ACCACATAA-TTCC
23749825 ACCTTTCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.03
21 14 0.48
22 12 0.41
23 2 0.07
ACGTcount: A:0.40, C:0.28, G:0.07, T:0.25
Consensus pattern (22 bp):
ACCACATAATTCCTGATAAACG
Found at i:23750687 original size:23 final size:23
Alignment explanation
Indices: 23750657--23750702 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
23750647 AGAGAAAAAA
23750657 AATTCTCAGTGCCTCTCATGTAC
1 AATTCTCAGTGCCTCTCATGTAC
23750680 AATTCTCAGTGCCTCTCATGTAC
1 AATTCTCAGTGCCTCTCATGTAC
23750703 TTACACTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (23 bp):
AATTCTCAGTGCCTCTCATGTAC
Found at i:23760530 original size:28 final size:28
Alignment explanation
Indices: 23760499--23760631 Score: 176
Period size: 28 Copynumber: 4.8 Consensus size: 28
23760489 CTTTAGAGTA
* *
23760499 TGCCACAAAGGATTCCATTTTCTTAGTT
1 TGCCACAAAGGCTTCCATTTTCTTAGAT
*
23760527 TGCCACAAAGGCTTCCATTTTCTTAAAT
1 TGCCACAAAGGCTTCCATTTTCTTAGAT
* *
23760555 TGCCACAAATGCTTCCATTTTCATAGAT
1 TGCCACAAAGGCTTCCATTTTCTTAGAT
* *
23760583 CGCCACAAAGGCTTCCCTTTTCTTAGAT
1 TGCCACAAAGGCTTCCATTTTCTTAGAT
* * *
23760611 CGCTACAAAGGCTTCAATTTT
1 TGCCACAAAGGCTTCCATTTT
23760632 TTGGTGTGTT
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 92 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (28 bp):
TGCCACAAAGGCTTCCATTTTCTTAGAT
Found at i:23765750 original size:20 final size:20
Alignment explanation
Indices: 23765725--23765779 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
23765715 TAACACATGT
23765725 ATTAAATTAAGACAAACTTA
1 ATTAAATTAAGACAAACTTA
* * *
23765745 ATTAAATCAAGACATATTTA
1 ATTAAATTAAGACAAACTTA
* *
23765765 ATTTAACTAAGACAA
1 ATTAAATTAAGACAA
23765780 GACAAATTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (20 bp):
ATTAAATTAAGACAAACTTA
Found at i:23781723 original size:20 final size:19
Alignment explanation
Indices: 23781698--23781743 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
23781688 ATATATATTC
23781698 TTTTTTTTTAAATTCGAATT
1 TTTTTTTTTAAATTC-AATT
**
23781718 TTTTTTTTTATTTTCAATT
1 TTTTTTTTTAAATTCAATT
23781737 TTTTTTT
1 TTTTTTT
23781744 GTTTGAACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTTTTAAATTCAATT
Found at i:23783765 original size:29 final size:29
Alignment explanation
Indices: 23783732--23783800 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
23783722 ATTAGTTTAG
*
23783732 GACATATTTAAAACACTTGAACTAATTAA
1 GACATATTTAAAACACTTAAACTAATTAA
* *
23783761 GACATATTTAAAACAGTTAAACTAATTAG
1 GACATATTTAAAACACTTAAACTAATTAA
23783790 GACATATTTAA
1 GACATATTTAA
23783801 TAATATCTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.32
Consensus pattern (29 bp):
GACATATTTAAAACACTTAAACTAATTAA
Found at i:23784281 original size:14 final size:14
Alignment explanation
Indices: 23784262--23784288 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23784252 TGCATCTCCC
23784262 CATGCATGAATCTA
1 CATGCATGAATCTA
23784276 CATGCATGAATCT
1 CATGCATGAATCT
23784289 GTCCAATGTA
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:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (14 bp):
CATGCATGAATCTA
Found at i:23784491 original size:20 final size:20
Alignment explanation
Indices: 23784466--23784520 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
23784456 TAACACATGT
23784466 ATTAAATTAAGACAAACTTA
1 ATTAAATTAAGACAAACTTA
* * *
23784486 ATTAAATCAAGACATATTTA
1 ATTAAATTAAGACAAACTTA
* *
23784506 ATTTAACTAAGACAA
1 ATTAAATTAAGACAA
23784521 GACAAATTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (20 bp):
ATTAAATTAAGACAAACTTA
Found at i:23788604 original size:40 final size:40
Alignment explanation
Indices: 23788413--23788597 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
23788403 TCGAATGATG
* * * *
23788413 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
23788453 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
23788493 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23788532 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
23788573 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23788598 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23788619 original size:79 final size:79
Alignment explanation
Indices: 23788466--23788630 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
23788456 GGACTAAGAT
** **
23788466 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
23788531 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
23788545 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
23788608 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
23788624 CCGAAGG
1 CCGAAGG
23788631 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:23796593 original size:40 final size:39
Alignment explanation
Indices: 23796403--23796586 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
23796393 CGAATGATGT
* * * *
23796403 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
23796442 TCGGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
23796483 CCGGGCTAAG-CCCGAAGGCATTGGTCCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23796521 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
23796562 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23796587 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
39 36 0.30
40 70 0.58
41 14 0.12
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23796608 original size:79 final size:79
Alignment explanation
Indices: 23796455--23796619 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
23796445 GGACTAAGAT
* **
23796455 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTCCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
23796520 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
23796534 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
23796597 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
23796613 CCGAAGG
1 CCGAAGG
23796620 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:23798214 original size:20 final size:20
Alignment explanation
Indices: 23798189--23798227 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23798179 TACTTTCTTA
23798189 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
23798209 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
23798228 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:23798216 original size:12 final size:12
Alignment explanation
Indices: 23798178--23798228 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
23798168 ATCATGATAT
* *
23798178 TTACTTTCTTAT
1 TTACTTGCTTAC
*
23798190 TTACTTACTCT-C
1 TTACTTGCT-TAC
*
23798202 TTACTTGTTTAC
1 TTACTTGCTTAC
23798214 TTACTTGCTTAC
1 TTACTTGCTTAC
23798226 TTA
1 TTA
23798229 AATAACTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.18, C:0.22, G:0.04, T:0.57
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:23813467 original size:1 final size:1
Alignment explanation
Indices: 23813461--23813538 Score: 138
Period size: 1 Copynumber: 78.0 Consensus size: 1
23813451 CTAAACTTTT
*
23813461 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
23813526 AAAAAAAACAAAA
1 AAAAAAAAAAAAA
23813539 TAAACATTAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.97, C:0.01, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:23813514 original size:39 final size:40
Alignment explanation
Indices: 23813460--23813542 Score: 159
Period size: 39 Copynumber: 2.1 Consensus size: 40
23813450 GCTAAACTTT
23813460 TAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA-AAAA
1 TAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAA
23813499 TAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAA
1 TAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAA
23813539 TAAA
1 TAAA
23813543 CATTATAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 35 0.81
40 8 0.19
ACGTcount: A:0.95, C:0.01, G:0.00, T:0.04
Consensus pattern (40 bp):
TAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAA
Found at i:23813516 original size:40 final size:40
Alignment explanation
Indices: 23813461--23813542 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
23813451 CTAAACTTTT
23813461 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATA
*
23813501 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAATA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATA
23813541 AA
1 AA
23813543 CATTATAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.96, C:0.01, G:0.00, T:0.02
Consensus pattern (40 bp):
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATA
Found at i:23826813 original size:21 final size:21
Alignment explanation
Indices: 23826772--23826820 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
23826762 ATATATATTC
23826772 TTTTTTTTTTAAATTCGAATT
1 TTTTTTTTTTAAATTCGAATT
**
23826793 TTTTTATTTTTATTTTC-AATT
1 TTTTT-TTTTTAAATTCGAATT
23826814 TTTTTTT
1 TTTTTTT
23826821 GTTTTGAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 14 0.56
22 9 0.36
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTTTTTTAAATTCGAATT
Found at i:23826825 original size:22 final size:22
Alignment explanation
Indices: 23826772--23826825 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
23826762 ATATATATTC
23826772 TTTTTTTTTTAAATTCGAATTT
1 TTTTTTTTTTAAATTCGAATTT
* **
23826794 TTTTATTTTTATTTTC-AATTT
1 TTTTTTTTTTAAATTCGAATTT
23826815 TTTTTTGTTTT
1 TTTTTT-TTTT
23826826 GAACGACGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTTTTTTTTAAATTCGAATTT
Found at i:23828857 original size:29 final size:29
Alignment explanation
Indices: 23828824--23828892 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
23828814 ATTAGTTTAG
*
23828824 GACATATTTAAAACACTTGAACTAATTAA
1 GACATATTTAAAACACTTAAACTAATTAA
* *
23828853 GACATATTTAAAACAGTTAAACTAATTAG
1 GACATATTTAAAACACTTAAACTAATTAA
23828882 GACATATTTAA
1 GACATATTTAA
23828893 TAATATCTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.32
Consensus pattern (29 bp):
GACATATTTAAAACACTTAAACTAATTAA
Found at i:23829374 original size:14 final size:14
Alignment explanation
Indices: 23829355--23829381 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23829345 TGCATCTCCC
23829355 CATGCATGAATCTA
1 CATGCATGAATCTA
23829369 CATGCATGAATCT
1 CATGCATGAATCT
23829382 GTCCAATGTA
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:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (14 bp):
CATGCATGAATCTA
Found at i:23829584 original size:20 final size:20
Alignment explanation
Indices: 23829559--23829613 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
23829549 TAACACATGT
23829559 ATTAAATTAAGACAAACTTA
1 ATTAAATTAAGACAAACTTA
* * *
23829579 ATTAAATCAAGACATATTTA
1 ATTAAATTAAGACAAACTTA
* *
23829599 ATTTAACTAAGACAA
1 ATTAAATTAAGACAA
23829614 GACAAATTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (20 bp):
ATTAAATTAAGACAAACTTA
Found at i:23833698 original size:40 final size:40
Alignment explanation
Indices: 23833507--23833691 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
23833497 TCGAATGATG
* * * *
23833507 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
23833547 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
23833587 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23833626 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
23833667 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23833692 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23833713 original size:79 final size:79
Alignment explanation
Indices: 23833560--23833724 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
23833550 GGACTAAGAT
** **
23833560 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
23833625 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
23833639 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
23833702 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
23833718 CCGAAGG
1 CCGAAGG
23833725 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:23841572 original size:38 final size:39
Alignment explanation
Indices: 23841450--23841631 Score: 176
Period size: 38 Copynumber: 4.6 Consensus size: 39
23841440 TCGAATGATG
* * * *
23841450 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
23841490 T-CGGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGG-CTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
*
23841530 TCCGGGCTAAGCCCGAAGGCATTGGT-CGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
23841568 TCCGGGTTAAGTCCGAAGGCATTTGTGCG-GTTACTATAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
23841607 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
23841632 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
38 48 0.41
39 34 0.29
40 25 0.21
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23841653 original size:77 final size:77
Alignment explanation
Indices: 23841497--23841664 Score: 191
Period size: 77 Copynumber: 2.2 Consensus size: 77
23841487 ATATCGGGAC
* **
23841497 TAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTCGAGTT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGAACGAGTT
23841562 ACTAAATCCGGGT
65 ACTAAATCCGGGT
* *
23841575 TAAGTCCGAAGGCATTTGTGCG-GTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCA-TTGAACGAG
*
23841638 -TAGCTATATCC-GGT
63 TTA-CTAAATCCGGGT
*
23841652 TAAATTCCGAAGG
1 T-AAGTCCGAAGG
23841665 TACGTGATTC
Statistics
Matches: 78, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
75 2 0.03
76 14 0.18
77 34 0.44
78 28 0.36
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (77 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGAACGAGTTA
CTAAATCCGGGT
Found at i:23843257 original size:20 final size:20
Alignment explanation
Indices: 23843232--23843270 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23843222 TACTTTCTTA
23843232 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
23843252 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
23843271 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:23843259 original size:12 final size:12
Alignment explanation
Indices: 23843221--23843271 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
23843211 ATCATGATAT
* *
23843221 TTACTTTCTTAT
1 TTACTTGCTTAC
*
23843233 TTACTTACTCT-C
1 TTACTTGCT-TAC
*
23843245 TTACTTGTTTAC
1 TTACTTGCTTAC
23843257 TTACTTGCTTAC
1 TTACTTGCTTAC
23843269 TTA
1 TTA
23843272 AATAACTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.18, C:0.22, G:0.04, T:0.57
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:23862557 original size:43 final size:42
Alignment explanation
Indices: 23862438--23862570 Score: 144
Period size: 43 Copynumber: 3.2 Consensus size: 42
23862428 CTCGGTGGAT
*
23862438 TCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAAATCAGTGATACGGGGAA
* * **
23862479 TCAGCACATAGCAACC-CCTTTCACAATCAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-AAAATCAGTGATACGG-GGAA
* * * *
23862522 TCAACACTTAGAAACCACCTTTATACTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAAATCAGTGATACGGGGAA
*
23862564 TTAGCAC
1 TCAGCAC
23862571 AAATATACGG
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.03
41 17 0.23
42 21 0.28
43 29 0.39
44 5 0.07
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTAAAATCAGTGATACGGGGAA
Found at i:23862616 original size:64 final size:64
Alignment explanation
Indices: 23862506--23862635 Score: 206
Period size: 64 Copynumber: 2.0 Consensus size: 64
23862496 CTTTCACAAT
*
23862506 CAAAGATACGGTGGAATCAACACTTAGAAACCACCTTTATACTCAGTGATACGGGGAATTAGCA
1 CAAAGATACGGTGGAATCAACACTTAGAAACCACCTTTATACTCAGTGATACGGGGAATCAGCA
* * * * *
23862570 CAAATATACGGTGGAATCAGCACTTAGCAACTACCTTTATATTCAGTGATACGGGGAATCAGCA
1 CAAAGATACGGTGGAATCAACACTTAGAAACCACCTTTATACTCAGTGATACGGGGAATCAGCA
23862634 CA
1 CA
23862636 TAGCAACCCT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (64 bp):
CAAAGATACGGTGGAATCAACACTTAGAAACCACCTTTATACTCAGTGATACGGGGAATCAGCA
Found at i:23862640 original size:42 final size:41
Alignment explanation
Indices: 23862572--23862726 Score: 163
Period size: 42 Copynumber: 3.7 Consensus size: 41
23862562 AATTAGCACA
* * *
23862572 AATATACGGTGGAATCAGCACTTAGCAACTACCTTTATATTC
1 AATATACGGTGGAATCAACACTTAGCAAC-ACCTTTACAATC
* * *
23862614 AGTGATACGG-GGAATCAGCACATAGCAAC-CCTTTCACAATC
1 AAT-ATACGGTGGAATCAACACTTAGCAACACCTTT-ACAATC
*
23862655 AAATATACGGTGGAATCAACACTTAGCAACCACCTTTAGAATC
1 -AATATACGGTGGAATCAACACTTAGCAA-CACCTTTACAATC
*
23862698 AATAATTCGG-GGAATCAACACTTAGCAAC
1 AAT-ATACGGTGGAATCAACACTTAGCAAC
23862727 CCCTCAGGGA
Statistics
Matches: 97, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
40 5 0.05
41 11 0.11
42 59 0.61
43 17 0.18
44 5 0.05
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (41 bp):
AATATACGGTGGAATCAACACTTAGCAACACCTTTACAATC
Found at i:23862709 original size:148 final size:148
Alignment explanation
Indices: 23862430--23862712 Score: 460
Period size: 148 Copynumber: 1.9 Consensus size: 148
23862420 ATCCGTTACT
*
23862430 CGGTGGATTCAGCACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
* * * *
23862495 CCTTTCACAATCAAAGATACGGTGGAATCAACACTTAGAAACCACCTTTATACTCAGTGATACGG
66 CCTTTCACAATCAAAGATACGGTGGAATCAACACTTAGAAACCACCTTTAGAATCAATAATACGG
23862560 GGAATTAGCACAAATATA
131 GGAATTAGCACAAATATA
* *
23862578 CGGTGGAATCAGCACTTAGCAACTACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAA-
1 CGGTGGAATCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
* * *
23862642 CCCTTTCACAATCAAATATACGGTGGAATCAACACTTAGCAACCACCTTTAGAATCAATAATTCG
65 CCCTTTCACAATCAAAGATACGGTGGAATCAACACTTAGAAACCACCTTTAGAATCAATAATACG
23862707 GGGAAT
130 GGGAAT
23862713 CAACACTTAG
Statistics
Matches: 124, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
148 89 0.72
149 35 0.28
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (148 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAAGATACGGTGGAATCAACACTTAGAAACCACCTTTAGAATCAATAATACGG
GGAATTAGCACAAATATA
Found at i:23862711 original size:84 final size:84
Alignment explanation
Indices: 23862570--23862728 Score: 237
Period size: 84 Copynumber: 1.9 Consensus size: 84
23862560 GGAATTAGCA
* * * * * * *
23862570 CAAATATACGGTGGAATCAGCACTTAGCAACTACCTTTATATTCAGTGATACGGGGAATCAGCAC
1 CAAATATACGGTGGAATCAACACTTAGCAACCACCTTTAGAATCAATAATACGGGGAATCAACAC
23862635 ATAGCAACCCTTTCACAAT
66 ATAGCAACCCTTTCACAAT
*
23862654 CAAATATACGGTGGAATCAACACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAACAC
1 CAAATATACGGTGGAATCAACACTTAGCAACCACCTTTAGAATCAATAATACGGGGAATCAACAC
*
23862719 TTAGCAACCC
66 ATAGCAACCC
23862729 CTCAGGGAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (84 bp):
CAAATATACGGTGGAATCAACACTTAGCAACCACCTTTAGAATCAATAATACGGGGAATCAACAC
ATAGCAACCCTTTCACAAT
Found at i:23862736 original size:26 final size:26
Alignment explanation
Indices: 23862707--23862780 Score: 130
Period size: 26 Copynumber: 2.8 Consensus size: 26
23862697 CAATAATTCG
**
23862707 GGGAATCAACACTTAGCAACCCCTCA
1 GGGAATCTGCACTTAGCAACCCCTCA
23862733 GGGAATCTGCACTTAGCAACCCCTCA
1 GGGAATCTGCACTTAGCAACCCCTCA
23862759 GGGAATCTGCACTTAGCAACCC
1 GGGAATCTGCACTTAGCAACCC
23862781 TCTTTTGATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.30, C:0.34, G:0.19, T:0.18
Consensus pattern (26 bp):
GGGAATCTGCACTTAGCAACCCCTCA
Found at i:23865963 original size:42 final size:42
Alignment explanation
Indices: 23865883--23865964 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
23865873 CGTTTTCTCT
* **
23865883 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
23865925 ATGCCATAGCCCAACTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
23865965 CACACCAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:23868619 original size:85 final size:85
Alignment explanation
Indices: 23868477--23868714 Score: 345
Period size: 85 Copynumber: 2.8 Consensus size: 85
23868467 ATCCATTACT
* * *
23868477 CGGTGGATTCAGCACTTAGTAACCACC-TTAAATTCAATGATACAGGGAATCAACACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATCAACACATAGCAAC
23868541 CCCTTTCACAATCAAAGAAA
66 CCCTTTCACAATCAAAGAAA
* * * *
23868561 CGGTGGAATCAGCACTTAGCAACAACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATCAACACATAGCAAC
* *
23868626 CCCTTTCACAATCAAATATA
66 CCCTTTCACAATCAAAGAAA
* * *
23868646 CGGTGGAATCAGCACTTAGCAACCACCTTTAGAA-TCAATAATTCGGGGAATCAACACTTAGCAA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTA-AATTCAATGATACGGGGAATCAACACATAGCAA
23868710 CCCCT
65 CCCCT
23868715 CGGGGAATCT
Statistics
Matches: 136, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
84 24 0.18
85 111 0.82
86 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATCAACACATAGCAAC
CCCTTTCACAATCAAAGAAA
Found at i:23868711 original size:42 final size:42
Alignment explanation
Indices: 23868485--23868711 Score: 214
Period size: 43 Copynumber: 5.4 Consensus size: 42
23868475 CTCGGTGGAT
* * *
23868485 TCAGCACTTAGTAACCACC-TTA-AATTCAATGATACAGGGAA
1 TCAGCACTTAGCAACCACCTTTACAA-TCAATAATACGGGGAA
* * *
23868526 TCAACACATAGCAACC-CCTTTCACAATCAA-AGAAACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAATA-ATACGG-GGAA
* * * * *
23868569 TCAGCACTTAGCAACAACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATAATACGGGGAA
*
23868611 TCAGCACATAGCAACC-CCTTTCACAATCAA-ATATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAATA-ATACGG-GGAA
* *
23868654 TCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATAATACGGGGAA
*
23868696 TCAACACTTAGCAACC
1 TCAGCACTTAGCAACC
23868712 CCTCGGGGAA
Statistics
Matches: 150, Mismatches: 24, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
40 2 0.01
41 20 0.13
42 57 0.38
43 60 0.40
44 11 0.07
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTACAATCAATAATACGGGGAA
Found at i:23868717 original size:26 final size:26
Alignment explanation
Indices: 23868688--23868740 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
23868678 AATCAATAAT
23868688 TCGGGGAATCAACACTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
*
23868714 TCGGGGAATCTACACTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
23868740 T
1 T
23868741 TTTTGATCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAACACTTAGCAACCCC
Found at i:23886585 original size:14 final size:15
Alignment explanation
Indices: 23886565--23886607 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
23886555 TTAGAGTGTA
23886565 TATGAATTTTATATG
1 TATGAATTTTATATG
*
23886580 -ATGAATTTAAT-TG
1 TATGAATTTTATATG
23886593 TATGAATTTTCATAT
1 TATGAATTTT-ATAT
23886608 TAATAGCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 2 0.09
14 18 0.78
15 2 0.09
16 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (15 bp):
TATGAATTTTATATG
Found at i:23889555 original size:20 final size:21
Alignment explanation
Indices: 23889526--23889620 Score: 108
Period size: 20 Copynumber: 4.7 Consensus size: 21
23889516 ACGGGATTTG
*
23889526 CACTTCGGTGCCCCTGTTAT-
1 CACTTTGGTGCCCCTGTTATA
**
23889546 CACTTTGGTGCCCCTACTAT-
1 CACTTTGGTGCCCCTGTTATA
*
23889566 CACTTTGGTGCCCCTGTT-TG
1 CACTTTGGTGCCCCTGTTATA
*
23889586 CACTTCGGTGCCCCTG-TATA
1 CACTTTGGTGCCCCTGTTATA
*
23889606 CACTTTGGTGTCCCT
1 CACTTTGGTGCCCCT
23889621 ATCGCACTAC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
19 2 0.03
20 62 0.97
ACGTcount: A:0.11, C:0.34, G:0.20, T:0.36
Consensus pattern (21 bp):
CACTTTGGTGCCCCTGTTATA
Found at i:23889581 original size:40 final size:40
Alignment explanation
Indices: 23889526--23889639 Score: 126
Period size: 40 Copynumber: 2.9 Consensus size: 40
23889516 ACGGGATTTG
* *
23889526 CACTTCGGTGCCCCTGTTAT-CACTTTGGTGCCCCTACTAT-
1 CACTTTGGTGCCCCTGTT-TGCACTTCGGTGCCCCT-CTATA
*
23889566 CACTTTGGTGCCCCTGTTTGCACTTCGGTGCCCCTGTATA
1 CACTTTGGTGCCCCTGTTTGCACTTCGGTGCCCCTCTATA
* * * *
23889606 CACTTTGGTGTCCCT-ATCGCACTACGGTGCCCCT
1 CACTTTGGTGCCCCTGTTTGCACTTCGGTGCCCCT
23889640 GTTTGCACAT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
39 20 0.31
40 45 0.69
ACGTcount: A:0.11, C:0.35, G:0.20, T:0.33
Consensus pattern (40 bp):
CACTTTGGTGCCCCTGTTTGCACTTCGGTGCCCCTCTATA
Found at i:23889615 original size:60 final size:59
Alignment explanation
Indices: 23889522--23889647 Score: 182
Period size: 60 Copynumber: 2.1 Consensus size: 59
23889512 TTGTACGGGA
* **
23889522 TTTGCACTTCGGTGCCCCTGTTATCACTTTGGTGCCCCTACTATCACTTTGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTGTTATCACTTTGGTGCCCCTA-TAGCACTACGGTGCCCCTG
* *
23889582 TTTGCACTTCGGTGCCCCTG-TATACACTTTGGTGTCCCTATCGCACTACGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTGTTAT-CACTTTGGTGCCCCTATAGCACTACGGTGCCCCTG
23889641 TTTGCAC
1 TTTGCAC
23889648 ATTTGAGCCC
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
59 25 0.42
60 35 0.58
ACGTcount: A:0.11, C:0.33, G:0.21, T:0.35
Consensus pattern (59 bp):
TTTGCACTTCGGTGCCCCTGTTATCACTTTGGTGCCCCTATAGCACTACGGTGCCCCTG
Found at i:23889660 original size:39 final size:39
Alignment explanation
Indices: 23889566--23889687 Score: 113
Period size: 40 Copynumber: 3.1 Consensus size: 39
23889556 CCCCTACTAT
* * * * *
23889566 CACTTTGGTGCCCCTGTTTGCACTTCGGTGCCCCTGTATA
1 CACTTTGGAGCCCCTATCTGCAC-TCGGTGCCCCTGTTTG
* *
23889606 CACTTTGGTGTCCCTATC-GCACTACGGTGCCCCTGTTTG
1 CACTTTGGAGCCCCTATCTGCACT-CGGTGCCCCTGTTTG
*
23889645 CACATTT-GAGCCCCTATCTGCACCTCGGTGCTCCTGTTATG
1 CAC-TTTGGAGCCCCTATCTGCA-CTCGGTGCCCCTGTT-TG
23889686 CA
1 CA
23889688 TCTGTGATGC
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
38 1 0.01
39 29 0.42
40 33 0.48
41 6 0.09
ACGTcount: A:0.12, C:0.34, G:0.21, T:0.33
Consensus pattern (39 bp):
CACTTTGGAGCCCCTATCTGCACTCGGTGCCCCTGTTTG
Found at i:23891302 original size:68 final size:68
Alignment explanation
Indices: 23891100--23891333 Score: 263
Period size: 69 Copynumber: 3.4 Consensus size: 68
23891090 TTTGATGAAT
* * *
23891100 TGTAAAATTAAGGTTCGCAGGCAAAAGAGCCACGACCTCCAGAACAATTAGCGAGAGCAAAGCTC
1 TGTAAAATTAAGGTTCGCAGGC-AAAGAGCCGC-AACTCCAAAACAATTAGCGAGAGCAAAGCTC
*
23891165 TCAGC
64 CCAGC
* * * * *
23891170 TTTAAAATTAAGGTTCGCAAGTAAAGAGCTG-AGACCTCCAAAACAATTAGTGAGAGCAAAGCTC
1 TGTAAAATTAAGGTTCGCAGGCAAAGAGCCGCA-A-CTCCAAAACAATTAGCGAGAGCAAAGCTC
23891234 CCAGC
64 CCAGC
* * * * *
23891239 TGTAAAATTAAGGTTCACAGGCGAAGATCCGCAACTCCAAAATAGTTAGCGAGAGCAAAGCTCCC
1 TGTAAAATTAAGGTTCGCAGGCAAAGAGCCGCAACTCCAAAACAATTAGCGAGAGCAAAGCTCCC
23891304 AGC
66 AGC
* ** *
23891307 TATAAAACCAAGGTTCGCAGGCGAAGA
1 TGTAAAATTAAGGTTCGCAGGCAAAGA
23891334 ATCGCGACCT
Statistics
Matches: 138, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
67 1 0.01
68 54 0.39
69 63 0.46
70 20 0.14
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (68 bp):
TGTAAAATTAAGGTTCGCAGGCAAAGAGCCGCAACTCCAAAACAATTAGCGAGAGCAAAGCTCCC
AGC
Found at i:23894883 original size:14 final size:14
Alignment explanation
Indices: 23894864--23894890 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23894854 TACATTGGGC
23894864 AGATTCATGCATGT
1 AGATTCATGCATGT
23894878 AGATTCATGCATG
1 AGATTCATGCATG
23894891 GGGAGATGCA
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:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (14 bp):
AGATTCATGCATGT
Found at i:23899538 original size:21 final size:20
Alignment explanation
Indices: 23899492--23899539 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
23899482 AATTATATGA
*
23899492 ATATATTAAATATTTAATTTT
1 ATAT-TTAAATATTTAATGTT
23899513 ATATTTAAATTATTT-ATGTT
1 ATATTTAAA-TATTTAATGTT
23899533 AGTATTT
1 A-TATTT
23899540 TACATCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
ATATTTAAATATTTAATGTT
Found at i:23899992 original size:26 final size:25
Alignment explanation
Indices: 23899926--23900032 Score: 134
Period size: 25 Copynumber: 4.4 Consensus size: 25
23899916 TCTTTTTAAA
23899926 AATTTAAATTTGTTTGTTTAAGAAT
1 AATTTAAATTTGTTTGTTTAAGAAT
*
23899951 AATTTAAATTTGTTTGTTTTAGAAT
1 AATTTAAATTTGTTTGTTTAAGAAT
*
23899976 AATTTAAACTTTATTTGTTTAAGAAT
1 AATTTAAA-TTTGTTTGTTTAAGAAT
* *
23900002 AATCT-AA--T-TCT-TTTAAGAAT
1 AATTTAAATTTGTTTGTTTAAGAAT
23900022 AATTTAAATTT
1 AATTTAAATTT
23900033 TAGTTTTTAA
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
20 13 0.18
21 4 0.06
22 1 0.01
23 1 0.01
25 34 0.47
26 19 0.26
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.51
Consensus pattern (25 bp):
AATTTAAATTTGTTTGTTTAAGAAT
Found at i:23900040 original size:25 final size:24
Alignment explanation
Indices: 23899926--23900047 Score: 119
Period size: 25 Copynumber: 5.0 Consensus size: 24
23899916 TCTTTTTAAA
23899926 AATTTAAATTTGTTTGTTTAAGAAT
1 AATTTAAATTTG-TTGTTTAAGAAT
*
23899951 AATTTAAATTTGTTTGTTTTAGAAT
1 AATTTAAATTTG-TTGTTTAAGAAT
*
23899976 AATTTAAACTTTATTTGTTTAAGAAT
1 AATTTAAA-TTT-GTTGTTTAAGAAT
* *
23900002 AATCT-AA-TT-CT-TTTAAGAAT
1 AATTTAAATTTGTTGTTTAAGAAT
23900022 AATTTAAATTTTAGTT-TTTAAGAAT
1 AATTTAAA-TTT-GTTGTTTAAGAAT
23900047 A
1 A
23900048 CCAATAAAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
20 13 0.16
21 3 0.04
23 4 0.05
25 45 0.54
26 18 0.22
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (24 bp):
AATTTAAATTTGTTGTTTAAGAAT
Found at i:23900676 original size:90 final size:89
Alignment explanation
Indices: 23900483--23900718 Score: 235
Period size: 90 Copynumber: 2.6 Consensus size: 89
23900473 TAAGGGTGCA
* * * ** * *
23900483 AAAAAACCCTCAAACTTTTTTTAAAAAAAATAATTAAGCTCTTGTTTTTTTTCTTTACACTCATT
1 AAAAAACCCTCAAACCTTTTTAAAAAAAAACAATTAAGC-C--CCTATTTTTCTTTACACTCAAT
* *
23900548 TGGGTAGTTCAACTTTCAAAATATATC
63 TGGGTACTTCAACTTTCAAAATACATC
*
23900575 AAAAAAGCCCTCAAACCTTTTTAAGAAAAAAACAATTAAGCCCCTATTTTT-TTTGCACTCAATT
1 AAAAAA-CCCTCAAACCTTTTTAA-AAAAAAACAATTAAGCCCCTATTTTTCTTTACACTCAATT
*
23900639 GGGTACTTGAACTTTCAAAA-AGCATC
64 GGGTACTTCAACTTTCAAAATA-CATC
* * * * * *
23900665 AAAAAGACCCTCAAA-CATTTTCAAAAAAAGCAACTAAGCCCCTGTTTTTATTTA
1 AAAAA-ACCCTCAAACCTTTTTAAAAAAAAACAATTAAGCCCCTATTTTTCTTTA
23900719 AAATTAGAAA
Statistics
Matches: 122, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
88 23 0.19
89 10 0.08
90 45 0.37
91 7 0.06
92 6 0.05
93 16 0.13
94 15 0.12
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (89 bp):
AAAAAACCCTCAAACCTTTTTAAAAAAAAACAATTAAGCCCCTATTTTTCTTTACACTCAATTGG
GTACTTCAACTTTCAAAATACATC
Found at i:23900740 original size:10 final size:9
Alignment explanation
Indices: 23900727--23900785 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
23900717 TAAAATTAGA
23900727 AAAAAAT-T
1 AAAAAATAT
*
23900735 ATAAAAATCGT
1 A-AAAAAT-AT
23900746 AAAAAATAT
1 AAAAAATAT
*
23900755 AAAATATAT
1 AAAAAATAT
*
23900764 -AGAAATAT
1 AAAAAATAT
23900772 AAAAAATTAT
1 AAAAAA-TAT
23900782 AAAA
1 AAAA
23900786 TTTTATAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 7 0.17
9 19 0.46
10 13 0.32
11 2 0.05
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.25
Consensus pattern (9 bp):
AAAAAATAT
Found at i:23900769 original size:27 final size:26
Alignment explanation
Indices: 23900729--23900787 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
23900719 AAATTAGAAA
*
23900729 AAAATTATAAAAATCGTAAAAAA-TAT
1 AAAATTATAAAAAT-ATAAAAAATTAT
*
23900755 AAAATATATAGAAATATAAAAAATTAT
1 AAAAT-TATAAAAATATAAAAAATTAT
23900782 AAAATT
1 AAAATT
23900788 TTATAAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (26 bp):
AAAATTATAAAAATATAAAAAATTAT
Found at i:23900786 original size:17 final size:16
Alignment explanation
Indices: 23900748--23900786 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
23900738 AAAATCGTAA
*
23900748 AAAATATAAAATATAT
1 AAAATATAAAAAATAT
23900764 AGAAATATAAAAAATTAT
1 A-AAATATAAAAAA-TAT
23900782 AAAAT
1 AAAAT
23900787 TTTATAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.75
18 4 0.20
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (16 bp):
AAAATATAAAAAATAT
Found at i:23901075 original size:27 final size:30
Alignment explanation
Indices: 23901031--23901099 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 30
23901021 ATAAAAAAAA
*
23901031 TTTCTAAATTTTCA-TAAAATTT-A-AATT
1 TTTCTAAATTTTTATTAAAATTTAATAATT
*
23901058 TTT-TATATTTTTATTAAAATTTAATAATT
1 TTTCTAAATTTTTATTAAAATTTAATAATT
23901087 TTTCTAAATTTTT
1 TTTCTAAATTTTT
23901100 TTATTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 8 0.23
27 11 0.31
28 1 0.03
29 7 0.20
30 8 0.23
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTCTAAATTTTTATTAAAATTTAATAATT
Found at i:23901107 original size:19 final size:19
Alignment explanation
Indices: 23901052--23901118 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
23901042 TCATAAAATT
23901052 TAAATTTTTTATATTTTTAT-
1 TAAATTTTTT-TATTTTT-TC
* ** *
23901072 TAAAATTTAATAATTTTTC
1 TAAATTTTTTTATTTTTTC
23901091 TAAATTTTTTTATTTTTTTC
1 TAAATTTTTTTA-TTTTTTC
23901111 T-AATTTTT
1 TAAATTTTT
23901119 AGTAAGAGCA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
18 1 0.03
19 22 0.59
20 14 0.38
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
TAAATTTTTTTATTTTTTC
Found at i:23902217 original size:23 final size:23
Alignment explanation
Indices: 23902185--23902246 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
23902175 GCCCGGCCCG
*
23902185 TTTTTAATTAAAATTAAAA-TAA
1 TTTTTTATTAAAATTAAAACTAA
23902207 TTTTTTTATTAAAATTAAAACTAA
1 -TTTTTTATTAAAATTAAAACTAA
*
23902231 -TTGTTATTAAAATTAA
1 TTTTTTATTAAAATTAA
23902247 TTGTTAGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 15 0.42
23 18 0.50
24 3 0.08
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTTTTATTAAAATTAAAACTAA
Found at i:23902240 original size:22 final size:22
Alignment explanation
Indices: 23902191--23902246 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
23902181 CCCGTTTTTA
*
23902191 ATTAAAATTAAAATAATTTTTTT
1 ATTAAAATTAAAATAA-TTTGTT
23902214 ATTAAAATTAAAACTAA-TTGTT
1 ATTAAAATTAAAA-TAATTTGTT
23902236 ATTAAAATTAA
1 ATTAAAATTAA
23902247 TTGTTAGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 15 0.48
23 13 0.42
24 3 0.10
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTAAAATTAAAATAATTTGTT
Found at i:23902241 original size:16 final size:16
Alignment explanation
Indices: 23902220--23902258 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
23902210 TTTTATTAAA
23902220 ATTAAAACTAATTGTT
1 ATTAAAACTAATTGTT
*
23902236 ATTAAAATTAATTGTT
1 ATTAAAACTAATTGTT
*
23902252 AGTAAAA
1 ATTAAAA
23902259 TCATCAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (16 bp):
ATTAAAACTAATTGTT
Found at i:23902346 original size:9 final size:9
Alignment explanation
Indices: 23902334--23902395 Score: 101
Period size: 9 Copynumber: 7.1 Consensus size: 9
23902324 ATTATCAAAT
23902334 TATTAATTG
1 TATTAATTG
23902343 TATTAATTG
1 TATTAATTG
23902352 TATTAATTG
1 TATTAATTG
23902361 --TTAATTG
1 TATTAATTG
*
23902368 AATTAATTG
1 TATTAATTG
23902377 TATTAATTG
1 TATTAATTG
23902386 TATTAATTG
1 TATTAATTG
23902395 T
1 T
23902396 TATAACAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
7 7 0.14
9 43 0.86
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (9 bp):
TATTAATTG
Found at i:23902359 original size:25 final size:25
Alignment explanation
Indices: 23902331--23902395 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 25
23902321 AAAATTATCA
23902331 AATTATTAATTGTATTAATTGTATT
1 AATTATTAATTGTATTAATTGTATT
* *
23902356 AATTGTTAATTGAATTAATTGTATT
1 AATTATTAATTGTATTAATTGTATT
23902381 AATTGTATTAATTGT
1 AA-T-TATTAATTGT
23902396 TATAACAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 25 0.74
26 1 0.03
27 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (25 bp):
AATTATTAATTGTATTAATTGTATT
Found at i:23902492 original size:68 final size:69
Alignment explanation
Indices: 23902377--23902527 Score: 259
Period size: 68 Copynumber: 2.2 Consensus size: 69
23902367 GAATTAATTG
*
23902377 TATTAATTGTATTAATTGTTATAACAAAATCTAACATTTGATTAGTAAAATAAATTTGATGTTTT
1 TATT-ATTGTATTAATTGTTATAACAAAATCTAACATTTGATTAGTAAAATAAACTTGATGTTTT
23902442 ATTAT
65 ATTAT
*
23902447 TATT-TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAATAAACTTGATGTTTTA
1 TATTATTGTATTAATTGTTATAACAAAATCTAACATTTGATTAGTAAAATAAACTTGATGTTTTA
23902511 TTAT
66 TTAT
*
23902515 TATTATTTTATTA
1 TATTATTGTATTA
23902528 TTATTATTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
68 66 0.86
69 7 0.09
70 4 0.05
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.49
Consensus pattern (69 bp):
TATTATTGTATTAATTGTTATAACAAAATCTAACATTTGATTAGTAAAATAAACTTGATGTTTTA
TTAT
Found at i:23902525 original size:14 final size:14
Alignment explanation
Indices: 23902506--23902537 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
23902496 AAACTTGATG
23902506 TTTTATTATTATTA
1 TTTTATTATTATTA
23902520 TTTTATTATTATTA
1 TTTTATTATTATTA
23902534 TTTT
1 TTTT
23902538 GTAACAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:23925514 original size:21 final size:20
Alignment explanation
Indices: 23925490--23925546 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 20
23925480 TCTCTCTCGC
23925490 TTTCTTTTTTGCCTTTTTCA-T
1 TTTCTTTTTT--CTTTTTCACT
23925511 TTTCATTTTCTTCTTTTTCACT
1 TTTC-TTTT-TTCTTTTTCACT
*
23925533 TTTATTTTTCTCTT
1 TTTCTTTTT-TCTT
23925547 CTCTTTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
20 1 0.03
21 20 0.65
22 8 0.26
23 2 0.06
ACGTcount: A:0.07, C:0.19, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTCTTTTTTCTTTTTCACT
Found at i:23925574 original size:19 final size:20
Alignment explanation
Indices: 23925532--23925575 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
23925522 TCTTTTTCAC
*
23925532 TTTTATTTTTCTCTTCTCTT
1 TTTTATTTTTCTCTTCACTT
23925552 TTTTATTTTTC-C-TCACTT
1 TTTTATTTTTCTCTTCACTT
23925570 GTTTTA
1 -TTTTA
23925576 ACAACAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 6 0.27
20 11 0.50
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTATTTTTCTCTTCACTT
Found at i:23929708 original size:4 final size:4
Alignment explanation
Indices: 23929699--23929727 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
23929689 AAACTAAGTA
23929699 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
23929728 TAAAACTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:23943443 original size:22 final size:22
Alignment explanation
Indices: 23943417--23943462 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
23943407 CTATGCTTAA
23943417 TAACTTAATCAATTGAATCACT
1 TAACTTAATCAATTGAATCACT
23943439 TAACTTAATCAATTGAATCACT
1 TAACTTAATCAATTGAATCACT
23943461 TA
1 TA
23943463 GTATATAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.04, T:0.37
Consensus pattern (22 bp):
TAACTTAATCAATTGAATCACT
Done.