Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 90 of 318
Found at i:27226362 original size:66 final size:66
Alignment explanation
Indices: 27226256--27226452 Score: 331
Period size: 66 Copynumber: 3.0 Consensus size: 66
27226246 ATGTTTTGTT
* *
27226256 CCGTTCCATCAGCTCCCTGTAATAAGAACCTCCATTCTTGGTCACCAACTGTGAAACTTGAATAG
1 CCGTTCCATCATCTCCCTGTAATAAGGACCTCCATTCTTGGTCACCAACTGTGAAACTTGAATAG
27226321 C
66 C
*
27226322 CCGTTCCATCATCTCCCTGCAATAAGGACCTCCATTCTTGGTCACCAACTGTGAAACTTGAATAG
1 CCGTTCCATCATCTCCCTGTAATAAGGACCTCCATTCTTGGTCACCAACTGTGAAACTTGAATAG
27226387 C
66 C
* * * *
27226388 CCGTTCCTTCATCTCCTTGTAATAAGGACCTCCATTCTTGGTCACCAACCGTGACACTTGAATAG
1 CCGTTCCATCATCTCCCTGTAATAAGGACCTCCATTCTTGGTCACCAACTGTGAAACTTGAATAG
27226453 TCTTTGTTTG
Statistics
Matches: 123, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 123 1.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (66 bp):
CCGTTCCATCATCTCCCTGTAATAAGGACCTCCATTCTTGGTCACCAACTGTGAAACTTGAATAG
C
Found at i:27228116 original size:18 final size:17
Alignment explanation
Indices: 27228093--27228128 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27228083 AAAGACAATT
27228093 TTTTATAATTAAATATGA
1 TTTTAT-ATTAAATATGA
*
27228111 TTTTATTTTAAATATGA
1 TTTTATATTAAATATGA
27228128 T
1 T
27228129 AATAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTTATATTAAATATGA
Found at i:27228309 original size:19 final size:20
Alignment explanation
Indices: 27228281--27228318 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
27228271 AGAAAATAAA
27228281 TATATCTTAT-ATTAAATTC
1 TATATCTTATAATTAAATTC
*
27228300 TATATTTTATAATTAAATT
1 TATATCTTATAATTAAATT
27228319 TAAAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATCTTATAATTAAATTC
Found at i:27247999 original size:18 final size:18
Alignment explanation
Indices: 27247976--27248013 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
27247966 ATGGATTCAC
27247976 TCGGCAGGGGAAGTACCG
1 TCGGCAGGGGAAGTACCG
27247994 TCGGCAGGGGAAGTACCG
1 TCGGCAGGGGAAGTACCG
27248012 TC
1 TC
27248014 ACCATTGCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.24, G:0.42, T:0.13
Consensus pattern (18 bp):
TCGGCAGGGGAAGTACCG
Found at i:27248816 original size:21 final size:22
Alignment explanation
Indices: 27248792--27248838 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
27248782 CCTGTATGTC
*
27248792 TTATTC-TAAGTAAATATTCTT
1 TTATTCTTAAGCAAATATTCTT
*
27248813 TTA-TCTTGAGCAAATATTCTT
1 TTATTCTTAAGCAAATATTCTT
27248834 TTATT
1 TTATT
27248839 GCAGCTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 19 0.86
22 1 0.05
ACGTcount: A:0.30, C:0.11, G:0.06, T:0.53
Consensus pattern (22 bp):
TTATTCTTAAGCAAATATTCTT
Found at i:27253818 original size:177 final size:177
Alignment explanation
Indices: 27253543--27254184 Score: 890
Period size: 177 Copynumber: 3.6 Consensus size: 177
27253533 GTAGCGGAGT
* * * * * * * *
27253543 AGACTG-GAAATTACAGGTCTTATCTCCCTAAGCAGTAGTGGAGAAGACCAAAAATAGCGAATCT
1 AGACTGAG-AATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCT
* * *
27253607 TATCTCTATGTATCGGCAATGGAGCAGGTTTTAGCCACTAGCCTTATCTCTCTGAGGTAGTAAGA
65 TATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGA
* *
27253672 GAGCAAGCTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAACC
130 GAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
* ** *
27253720 AGACTGAGAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGAAAATTTT
1 AGACTGAGAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTT
* * * * * *
27253785 ATCTCCATGTATCGGCAATGGAGTAGATTTTAGCCACCAGTCTTATCCCTTTGAGGTAGCAAAAG
66 ATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAG
* *
27253850 AGCAAGTTGAAGATACAAATCTTATCTTCCTGAGGTAGCAAGAAAGC
131 AGCAAGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
* * * *
27253897 AGACTGAGAATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTGAAGACGGTCAATCTT
1 AGACTGAGAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTT
*
27253962 ATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTAAGGTAGCAAGAG
66 ATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAG
* * * * *
27254027 AACAGGTTGAAGATACAAGTTTTATCTTCCTGAAGTAGCAAGGAAGA
131 AGCAAGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
* * * * *
27254074 AGATTGAGAGTTGTAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATTGAAGATGGTGAATCTT
1 AGACTGAGAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTT
* *
27254139 ATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCATTAGCCTTAT
66 ATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTAT
27254185 TTCCTTGAAT
Statistics
Matches: 411, Mismatches: 53, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
177 410 1.00
178 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (177 bp):
AGACTGAGAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTT
ATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAG
AGCAAGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
Found at i:27253948 original size:88 final size:88
Alignment explanation
Indices: 27253680--27253950 Score: 193
Period size: 88 Copynumber: 3.1 Consensus size: 88
27253670 GAGAGCAAGC
* * *
27253680 TGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAACCAGACTGAGAATTGCAGATCTTATCT
1 TGAAGATACAAATCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAGAATTGCAGATCTTATCT
* *
27253745 CCCTAAGCAGTAGTGGAGTAGAT
66 CCCTAAGTAGTAGTGGAGCAGAT
* * * * * * * * *
27253768 CGAAGATGGA-AAATTTTATC-TCC--ATGTATC-GGCAATG--GAGT-AGATTTTAGCCACCAG
1 TGAAGAT--ACAAATCTTATCTTCCTGAGGTAGCAAG-AAAGCAGACTGAGA-ATT-G-CA-GA-
* * * ***
27253825 TCTTATC-CCTTTGAGGTAGCAAAAGAGCA-AGT
58 TCTTATCTCC-CT-AAGTAGTAGTGGAGCAGA-T
27253857 TGAAGATACAAATCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAGAATTGCAGATCTTATCT
1 TGAAGATACAAATCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAGAATTGCAGATCTTATCT
27253922 CCCTAAGTAGTAGTGGAGCAGAT
66 CCCTAAGTAGTAGTGGAGCAGAT
27253945 TGAAGA
1 TGAAGA
27253951 CGGTCAATCT
Statistics
Matches: 127, Mismatches: 35, Indels: 42
0.62 0.17 0.21
Matches are distributed among these distances:
83 3 0.02
84 5 0.04
85 2 0.02
86 8 0.06
87 4 0.03
88 45 0.35
89 36 0.28
90 4 0.03
91 10 0.08
92 2 0.02
93 5 0.04
94 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (88 bp):
TGAAGATACAAATCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAGAATTGCAGATCTTATCT
CCCTAAGTAGTAGTGGAGCAGAT
Found at i:27254807 original size:18 final size:19
Alignment explanation
Indices: 27254786--27254822 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
27254776 TTTTATTCTG
27254786 TTTTCCTCT-TTTTCATTT
1 TTTTCCTCTCTTTTCATTT
27254804 TTTTCCTCTCTTTTCATTT
1 TTTTCCTCTCTTTTCATTT
27254823 GAATTCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTCCTCTCTTTTCATTT
Found at i:27257996 original size:16 final size:17
Alignment explanation
Indices: 27257975--27258007 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27257965 CCCCAGACTG
27257975 TATTC-TGATGTTTGAT
1 TATTCTTGATGTTTGAT
*
27257991 TATTCTTTATGTTTGAT
1 TATTCTTGATGTTTGAT
27258008 ATATGTGGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.18, C:0.06, G:0.15, T:0.61
Consensus pattern (17 bp):
TATTCTTGATGTTTGAT
Found at i:27259232 original size:18 final size:17
Alignment explanation
Indices: 27259202--27259240 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
27259192 CTTGAAATAA
27259202 AAAAAATCTTAAAATTC
1 AAAAAATCTTAAAATTC
* *
27259219 AAAAAATTTCTAAAATTT
1 AAAAAATCT-TAAAATTC
27259237 AAAA
1 AAAA
27259241 TTTTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAAATCTTAAAATTC
Found at i:27260230 original size:23 final size:20
Alignment explanation
Indices: 27260199--27260257 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 20
27260189 AAATCACACT
27260199 AATA-ATTATTTAATTAGTAA
1 AATATATTATTTAATTA-TAA
27260219 CAATATATTTATTTGAAATTATAA
1 -AATATA-TTATTT--AATTATAA
27260243 AATATATTATTTAAT
1 AATATATTATTTAAT
27260258 AAATAATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 3 0.09
21 4 0.12
22 7 0.21
23 12 0.35
24 3 0.09
25 5 0.15
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (20 bp):
AATATATTATTTAATTATAA
Found at i:27263285 original size:13 final size:14
Alignment explanation
Indices: 27263267--27263295 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27263257 ACCTAAGTCC
27263267 ATAACAGA-AACAG
1 ATAACAGATAACAG
27263280 ATAACAGATAACAG
1 ATAACAGATAACAG
27263294 AT
1 AT
27263296 CAGATGTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (14 bp):
ATAACAGATAACAG
Found at i:27263287 original size:7 final size:7
Alignment explanation
Indices: 27263267--27263295 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
27263257 ACCTAAGTCC
27263267 ATAACAG
1 ATAACAG
27263274 A-AACAG
1 ATAACAG
27263280 ATAACAG
1 ATAACAG
27263287 ATAACAG
1 ATAACAG
27263294 AT
1 AT
27263296 CAGATGTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (7 bp):
ATAACAG
Found at i:27265038 original size:32 final size:30
Alignment explanation
Indices: 27264979--27265048 Score: 79
Period size: 32 Copynumber: 2.3 Consensus size: 30
27264969 TGAACTTATG
* * *
27264979 GTATATATATATGGGTTTTATTTATATATA
1 GTATATATATATGGGTTTTAGTAATATACA
*
27265009 GTATATATATTAATGGGTTTTGGTAATATACA
1 GTATATATA-T-ATGGGTTTTAGTAATATACA
27265041 -TATATATA
1 GTATATATA
27265049 AGCGTGTGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 9 0.26
31 9 0.26
32 16 0.47
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (30 bp):
GTATATATATATGGGTTTTAGTAATATACA
Found at i:27265526 original size:18 final size:18
Alignment explanation
Indices: 27265493--27265547 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
27265483 TATATTATTA
*
27265493 TGGCGAACTGTGTTAATT
1 TGGCGAACTGTATTAATT
* * *
27265511 TGGTGATCTGTATTAATA
1 TGGCGAACTGTATTAATT
27265529 TGGCGAACTGTATTAATT
1 TGGCGAACTGTATTAATT
27265547 T
1 T
27265548 TCCAAACTGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (18 bp):
TGGCGAACTGTATTAATT
Found at i:27266786 original size:13 final size:12
Alignment explanation
Indices: 27266745--27266786 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
27266735 ATGGATTATG
27266745 ATTGTTTGAC-A
1 ATTGTTTGACTA
*
27266756 ATTGGTTTGAATA
1 ATT-GTTTGACTA
27266769 ATTGTTTGACTA
1 ATTGTTTGACTA
27266781 ACTTGT
1 A-TTGT
27266787 AAGTGCAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 3 0.12
12 15 0.58
13 8 0.31
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (12 bp):
ATTGTTTGACTA
Found at i:27268179 original size:18 final size:18
Alignment explanation
Indices: 27268134--27268171 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
27268124 CGTACATGAG
* *
27268134 AGAAACAAAAACAAAGAA
1 AGAAAAAAAAAAAAAGAA
27268152 AGAAAAAAAAAAAAAGAA
1 AGAAAAAAAAAAAAAGAA
27268170 AG
1 AG
27268172 GAAGAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAAAAAAGAA
Found at i:27269469 original size:40 final size:40
Alignment explanation
Indices: 27269410--27269516 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
27269400 CAATTGAATG
* * * *
27269410 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
27269450 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
27269490 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
27269517 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:27269576 original size:40 final size:40
Alignment explanation
Indices: 27269452--27269577 Score: 150
Period size: 40 Copynumber: 3.1 Consensus size: 40
27269442 TGGAAATTAT
* **
27269452 ATCCGGGTTAAGACCCGAAGGCAATT-GTGC-TAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAT-GTGGTTAC
* *
27269492 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT-C
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAC
*
27269531 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTAC
1 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAC
27269572 ATCCGG
1 ATCCGG
27269578 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
39 4 0.05
40 69 0.93
41 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAC
Found at i:27274678 original size:26 final size:27
Alignment explanation
Indices: 27274612--27274687 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 27
27274602 AAAAGCAGCT
* * *
27274612 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATTATACCCCTAGGTA-GCA
*
27274640 AAATTACTGTTATACCCCTAGGTA-CA
1 AAATTACTATTATACCCCTAGGTAGCA
*
27274666 AAATTACCATTATACCCCTAGG
1 AAATTACTATTATACCCCTAGG
27274688 GTTAATTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 21 0.50
28 21 0.50
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (27 bp):
AAATTACTATTATACCCCTAGGTAGCA
Found at i:27274833 original size:27 final size:26
Alignment explanation
Indices: 27274791--27274949 Score: 174
Period size: 27 Copynumber: 5.9 Consensus size: 26
27274781 AGGAAGCGTC
*
27274791 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
27274818 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
27274845 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
27274872 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* * *
27274899 CTAGTGGCTCTGCTACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCT-GAT
* *
27274927 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
27274950 ATTTTGGCAG
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
26 4 0.04
27 90 0.81
28 17 0.15
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:27274949 original size:54 final size:54
Alignment explanation
Indices: 27274794--27274949 Score: 224
Period size: 54 Copynumber: 2.9 Consensus size: 54
27274784 AAGCGTCCTG
* * *
27274794 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTTCTG
1 GTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
27274848 GTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
* * * * *
27274902 GTGGCTCTGCTACGATTATCTATATCTGGTGACTCTGTCACAT-TATCT
1 GTGGCTATGCCACGATTATCT-GATCTGGTGGCTCTGCCACATATATCT
27274950 ATTTTGGCAG
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 75 0.81
55 18 0.19
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (54 bp):
GTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
Found at i:27281932 original size:27 final size:26
Alignment explanation
Indices: 27281891--27282056 Score: 152
Period size: 27 Copynumber: 6.2 Consensus size: 26
27281881 AGGAAGCGTC
*
27281891 CTGGTGGCTATGCCACAATTATCTGAA
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* * *
27281918 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
*
27281945 CTGGTGGCTATGCCATGATTATCTGAT
1 CTGGTGGCTATGCCA-CATTATCTGAT
* * *
27281972 CTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
* *
27281999 CTGGTGGCTTTGCTACGATTATCTGTAT
1 CTGGTGGCTATGCCAC-ATTATCTG-AT
* * * *
27282027 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACATTATCTGAT
27282053 CTGG
1 CTGG
27282057 CAGCCATGCT
Statistics
Matches: 114, Mismatches: 20, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
26 9 0.08
27 88 0.77
28 17 0.15
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:27281979 original size:54 final size:54
Alignment explanation
Indices: 27281891--27282056 Score: 235
Period size: 54 Copynumber: 3.1 Consensus size: 54
27281881 AGGAAGCGTC
* * *
27281891 CTGGTGGCTATGCCACAATTATCTGAACTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
27281945 CTGGTGGCTATGCCATGATTATCTGATCTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * * *
27281999 CTGGTGGCTTTGCTACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACGATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
27282053 CTGG
1 CTGG
27282057 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 83 0.83
55 17 0.17
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:27282078 original size:54 final size:54
Alignment explanation
Indices: 27281891--27282078 Score: 163
Period size: 54 Copynumber: 3.5 Consensus size: 54
27281881 AGGAAGCGTC
* * * *
27281891 CTGGTGGCTATGC-CACAATTATCTG-AACTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCTCA-TATT-TCTGTATCTGGTGACTCTGCCACATATATCTGTT
* *
27281945 CTGGTGGCTATGC-CATGATTATCTG-ATCTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTATGCTCAT-ATT-TCTGTATCTGGTGACTCTGCCACATATATCTGTT
* * *
27281999 CTGGTGGCTTTGCTACGAT-TATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCT-C-ATATTTCTGTATCTGGTGACTCTGCCACATATATCTGTT
** *
27282053 CTGGCAGCCATGCTGCATATTTCTGT
1 CTGGTGGCTATGCT-CATATTTCTGT
27282079 GGTGTGTAGC
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
53 2 0.02
54 90 0.80
55 18 0.16
56 1 0.01
57 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCTCATATTTCTGTATCTGGTGACTCTGCCACATATATCTGTT
Found at i:27287572 original size:29 final size:30
Alignment explanation
Indices: 27287531--27287605 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
27287521 AGTTATAATA
* * * * *
27287531 ACAAAACAATCACTAAACTTTA-AAAAGTT
1 ACAAATCAGTCACTAAAATTTAGAAAAATG
*
27287560 ACAACTCAGTCACTAAAATTTAGAAAAATG
1 ACAAATCAGTCACTAAAATTTAGAAAAATG
27287590 ACAAATCAGTCACTAA
1 ACAAATCAGTCACTAA
27287606 CATTCATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 18 0.47
30 20 0.53
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.23
Consensus pattern (30 bp):
ACAAATCAGTCACTAAAATTTAGAAAAATG
Found at i:27290718 original size:49 final size:49
Alignment explanation
Indices: 27290646--27290802 Score: 161
Period size: 49 Copynumber: 3.2 Consensus size: 49
27290636 GTGTGGTAGA
* * ** *
27290646 CCGTGTGGCTAGGTAGTGTAGAGCACATGGTCGTATGTGTTTCTGCATC
1 CCGTGTGGCTAGGTTGTGTAGAGCACACGACCATATGTGTTTCTGCATC
* * *
27290695 CCGTGTGGATAGGTTGTATAGAGCACACGACCATATGTGTTTTTGCATC
1 CCGTGTGGCTAGGTTGTGTAGAGCACACGACCATATGTGTTTCTGCATC
* * * * * * * *
27290744 CCATGTGGCTAGGATGTGTAGAGAACACAACCGTGTGTGTTTTTGCAGC
1 CCGTGTGGCTAGGTTGTGTAGAGCACACGACCATATGTGTTTCTGCATC
*
27290793 CAGTGTGGCT
1 CCGTGTGGCT
27290803 TGGCCGTATG
Statistics
Matches: 89, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 89 1.00
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (49 bp):
CCGTGTGGCTAGGTTGTGTAGAGCACACGACCATATGTGTTTCTGCATC
Found at i:27291320 original size:5 final size:5
Alignment explanation
Indices: 27291306--27291426 Score: 127
Period size: 5 Copynumber: 24.2 Consensus size: 5
27291296 GGGGTAGGAC
* * ** * * * *
27291306 ATGAT ATGAT TTGAT ATGCT ATCCT ATGCT ATGCT ATGTT ACGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
* *
27291356 ATGAT ATCAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGTT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
*
27291406 ATGAT -TCGTT ATGAT ATGAT A
1 ATGAT AT-GAT ATGAT ATGAT A
27291427 AGTTATACTT
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
4 1 0.01
5 97 0.98
6 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (5 bp):
ATGAT
Found at i:27292004 original size:13 final size:13
Alignment explanation
Indices: 27291986--27292024 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
27291976 GTTTGGCAAC
27291986 GCTTTTGAAAAGT
1 GCTTTTGAAAAGT
*
27291999 GCTTTTGAGAAGT
1 GCTTTTGAAAAGT
27292012 GCTTTTGAAAAGT
1 GCTTTTGAAAAGT
27292025 TCGATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (13 bp):
GCTTTTGAAAAGT
Found at i:27294073 original size:33 final size:33
Alignment explanation
Indices: 27294031--27294095 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
27294021 TTAAAAAAAG
27294031 AAATAGGGTTTGGGAGCTTTCAAATTTAGCCCA
1 AAATAGGGTTTGGGAGCTTTCAAATTTAGCCCA
27294064 AAATAGGGTTTGGGAGCTTTCAAATTTAGCCC
1 AAATAGGGTTTGGGAGCTTTCAAATTTAGCCC
27294096 TTCATTTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (33 bp):
AAATAGGGTTTGGGAGCTTTCAAATTTAGCCCA
Found at i:27296935 original size:26 final size:27
Alignment explanation
Indices: 27296892--27296942 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
27296882 GTAAAAATAT
*
27296892 TTAATTATAATTTTTAAAATTATTTAA
1 TTAATTATAATTATTAAAATTATTTAA
27296919 TTAATT-TAATTATTAAAATTATTT
1 TTAATTATAATTATTAAAATTATTT
27296943 TGGAACTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TTAATTATAATTATTAAAATTATTTAA
Found at i:27310302 original size:26 final size:27
Alignment explanation
Indices: 27310256--27310306 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
27310246 TACAAATGTG
*
27310256 TTAAAATCATTAATTAAAAATATTTTT
1 TTAAAATCACTAATTAAAAATATTTTT
*
27310283 TTAAAAT-ACTAATTATAAATATTT
1 TTAAAATCACTAATTAAAAATATTT
27310307 AATATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
TTAAAATCACTAATTAAAAATATTTTT
Found at i:27313413 original size:21 final size:21
Alignment explanation
Indices: 27313389--27313442 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
27313379 TTTTTAAAAT
27313389 TTTAATTTTCTTTATATATTC
1 TTTAATTTTCTTTATATATTC
*
27313410 TTTAGA--TTCTTT-TATATTT
1 TTTA-ATTTTCTTTATATATTC
27313429 TTATAATTTT-TTTA
1 TT-TAATTTTCTTTA
27313443 AAAATATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
19 9 0.33
20 11 0.41
21 6 0.22
22 1 0.04
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTAATTTTCTTTATATATTC
Found at i:27313441 original size:19 final size:20
Alignment explanation
Indices: 27313389--27313442 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
27313379 TTTTTAAAAT
27313389 TTTAATTTTCTTTATATATTC
1 TTTAATTTT-TTTATATATTC
*
27313410 TTTAGATTCTTTTATAT-TT-
1 TTTA-ATTTTTTTATATATTC
27313429 TTATAATTTTTTTA
1 TT-TAATTTTTTTA
27313443 AAAATATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 10 0.34
20 4 0.14
21 11 0.38
22 4 0.14
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTAATTTTTTTATATATTC
Found at i:27316696 original size:2 final size:2
Alignment explanation
Indices: 27316689--27316728 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
27316679 AAGTACATTA
27316689 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27316729 GAATACTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27322690 original size:39 final size:38
Alignment explanation
Indices: 27322615--27322794 Score: 299
Period size: 38 Copynumber: 4.7 Consensus size: 38
27322605 CCGCACAAAG
*
27322615 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAA-TTGCACAATT
* *
27322655 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAA-TTGCACAATT
27322694 GCCTTCGGGCTTAGCCCGG-TATCACAATTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTGCACAATT
27322731 GCCTTCGGGCTTAGCCCGGATATCACAATTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTGCACAATT
27322769 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
27322795 TCGAACATTC
Statistics
Matches: 133, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
37 28 0.21
38 51 0.38
39 45 0.34
40 9 0.07
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (38 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTGCACAATT
Found at i:27322744 original size:76 final size:78
Alignment explanation
Indices: 27322575--27322794 Score: 311
Period size: 76 Copynumber: 2.8 Consensus size: 78
27322565 TCGTTCAAAC
* * ** * ** *
27322575 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATC
27322640 ACAATTTGCACAATT
64 ACAATTTGCACAATT
27322655 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGG-TATCAC
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
27322719 AA-TTGCACAATT
66 AATTTGCACAATT
* *
27322731 GCCTTCGGGCTTAGCCCGGATATCACAA-TTGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
27322795 TCGAACATTC
Statistics
Matches: 129, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
75 28 0.22
76 43 0.33
77 8 0.06
78 9 0.07
79 32 0.25
80 9 0.07
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (78 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
AATTTGCACAATT
Found at i:27330699 original size:79 final size:78
Alignment explanation
Indices: 27330614--27330824 Score: 235
Period size: 78 Copynumber: 2.7 Consensus size: 78
27330604 CTTCGGGACA
* ** * *
27330614 TAGCCCGGTTATGGTAACCCGCTCAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAAGACCTTCGGG-CTTAACCCGGATATCACAATTTGCACA
*
27330679 ATTGCCTTCAGGCT
65 ATTACCTTCAGGCT
* ** * *
27330693 TAGCCCGGATATCATAACTCGCACAATTACCTTCGGGCTTAGCCCGGGTATCACAATTTGCACAA
1 TAGCCCGGATATCATAACCCGCACAAAGACCTTCGGGCTTAACCCGGATATCACAATTTGCACAA
*
27330758 TTACCTTCGGGCT
66 TTACCTTCAGGCT
* *** * *
27330771 TAGCCCGGATATCACAATTTGCACAATTG-CCTTCGGGCTTAGCCCGGATATCAC
1 TAGCCCGGATATCATAACCCGCACAA-AGACCTTCGGGCTTAACCCGGATATCAC
27330825 TCGAACATTC
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
78 84 0.74
79 30 0.26
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (78 bp):
TAGCCCGGATATCATAACCCGCACAAAGACCTTCGGGCTTAACCCGGATATCACAATTTGCACAA
TTACCTTCAGGCT
Found at i:27330701 original size:39 final size:39
Alignment explanation
Indices: 27330642--27330824 Score: 285
Period size: 39 Copynumber: 4.7 Consensus size: 39
27330632 CCGCTCAAAG
*
27330642 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * * *
27330682 GCCTTCAGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
* *
27330721 ACCTTCGGGCTTAGCCCGGGTATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
*
27330760 ACCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
27330799 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
27330825 TCGAACATTC
Statistics
Matches: 130, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 122 0.94
40 8 0.06
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:27332911 original size:26 final size:26
Alignment explanation
Indices: 27332876--27332938 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
27332866 TCATTATTTA
* * * * *
27332876 AAAATTTAAAAATTTATATATTTTTT
1 AAAATATAAAAATTCAAATATATATT
27332902 AAAATATAAAAATTCAAATATATATT
1 AAAATATAAAAATTCAAATATATATT
27332928 AAAATTATAAA
1 AAAA-TATAAA
27332939 TAAAAAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (26 bp):
AAAATATAAAAATTCAAATATATATT
Found at i:27333601 original size:3 final size:3
Alignment explanation
Indices: 27333588--27333704 Score: 209
Period size: 3 Copynumber: 39.0 Consensus size: 3
27333578 TGCAATTGAA
*
27333588 AAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AAT AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
27333635 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
27333683 AAG AAG AAG AAG AAG AAAG AAG
1 AAG AAG AAG AAG AAG -AAG AAG
27333705 TCAGAAATAG
Statistics
Matches: 110, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
2 2 0.02
3 105 0.95
4 3 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:27334023 original size:23 final size:25
Alignment explanation
Indices: 27333997--27334045 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
27333987 TGAGTCTAAA
27333997 TTAGTAA-TATATGGAATT-ATAGT
1 TTAGTAATTATATGGAATTGATAGT
* *
27334020 TTAGTAATTTTATTGAATTGATAGT
1 TTAGTAATTATATGGAATTGATAGT
27334045 T
1 T
27334046 ACTTAAGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
24 9 0.41
25 6 0.27
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (25 bp):
TTAGTAATTATATGGAATTGATAGT
Found at i:27334225 original size:14 final size:14
Alignment explanation
Indices: 27334206--27334243 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
27334196 TTGATTAAAT
*
27334206 TTAATTAAGTGTGG
1 TTAATTAAGTATGG
27334220 TTAATTAAGTATGG
1 TTAATTAAGTATGG
27334234 TTAATTAAGT
1 TTAATTAAGT
27334244 TAATTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (14 bp):
TTAATTAAGTATGG
Found at i:27334274 original size:16 final size:15
Alignment explanation
Indices: 27334220--27334276 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
27334210 TTAAGTGTGG
27334220 TTAATTAAGTATGGTTAA
1 TTAATTAA-TAT--TTAA
* *
27334238 TTAAGTTAATTTTTTA
1 TTAA-TTAATATTTAA
27334254 TTAATTAATATTTAA
1 TTAATTAATATTTAA
27334269 TCTAATTA
1 T-TAATTA
27334277 TAAATAACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 10 0.30
16 13 0.39
18 6 0.18
19 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.53
Consensus pattern (15 bp):
TTAATTAATATTTAA
Found at i:27336478 original size:17 final size:17
Alignment explanation
Indices: 27336452--27336487 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
27336442 AAAGATTATA
*
27336452 TATTATGTTTATGAACT
1 TATTAGGTTTATGAACT
27336469 TATTAGGTTTATGAACT
1 TATTAGGTTTATGAACT
27336486 TA
1 TA
27336488 AATGTTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.50
Consensus pattern (17 bp):
TATTAGGTTTATGAACT
Found at i:27336839 original size:19 final size:19
Alignment explanation
Indices: 27336817--27336861 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27336807 AAGAATAAGG
27336817 AAAAAATAGAAGA-AAAGCA
1 AAAAAATAGAA-ATAAAGCA
* *
27336836 AAAAAAAAGAAATAAAGTA
1 AAAAAATAGAAATAAAGCA
27336855 AAAAAAT
1 AAAAAAT
27336862 CTAAGTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (19 bp):
AAAAAATAGAAATAAAGCA
Found at i:27336845 original size:16 final size:16
Alignment explanation
Indices: 27336804--27336847 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
27336794 AAAGAGGAAG
*
27336804 AAAAAGAATAAGGAAAA
1 AAAAAGAA-AAGCAAAA
27336821 AATAGAAGAAAAGCAAAA
1 AA-A-AAGAAAAGCAAAA
27336839 AAAAAGAAA
1 AAAAAGAAA
27336848 TAAAGTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.25
17 3 0.12
18 10 0.42
19 5 0.21
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (16 bp):
AAAAAGAAAAGCAAAA
Found at i:27340324 original size:3 final size:3
Alignment explanation
Indices: 27340318--27340376 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
27340308 AAATAGTGGA
27340318 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
27340366 ATG ATG ATG AT
1 ATG ATG ATG AT
27340377 AGCCATTAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:27343335 original size:40 final size:40
Alignment explanation
Indices: 27343280--27343363 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
27343270 TGTGGTAAAG
*
27343280 CTTAGTGAGTATGAGACTATACCCTGTAATATTGAAGAAT
1 CTTAGTGAGTATGAGACTATACCCTGTAATATTGAAGAAC
*
27343320 CTTAGTGAGTATGAGACTATACCCTGTAATATTGGAGAAC
1 CTTAGTGAGTATGAGACTATACCCTGTAATATTGAAGAAC
27343360 CTTA
1 CTTA
27343364 TTGTGGTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.32
Consensus pattern (40 bp):
CTTAGTGAGTATGAGACTATACCCTGTAATATTGAAGAAC
Found at i:27347173 original size:65 final size:65
Alignment explanation
Indices: 27347088--27347301 Score: 286
Period size: 65 Copynumber: 3.3 Consensus size: 65
27347078 GGACTACAGT
* * *
27347088 AGCTCTTTATGAGTGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCGGACACAAACGC
1 AGCTCTTTGTGAGCGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAACGC
* * **
27347153 AACTCTTTGTGAGCGTCCTGTTATATGATCAGTTGTGATCCTGCATATATTGCAGACAC-AACAT
1 AGCTCTTTGTGAGCGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAACGC
* * * * * * * *
27347217 AGTTATTTGTGAGCATCCTGTTATATGATCGGTTGTGATTCTACATATGTTGTAGACACAAATGC
1 AGCTCTTTGTGAGCGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAACGC
27347282 AGCTCTTTGTGAGCGTCCTG
1 AGCTCTTTGTGAGCGTCCTG
27347302 ATATGGCTTG
Statistics
Matches: 126, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
64 53 0.42
65 73 0.58
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.36
Consensus pattern (65 bp):
AGCTCTTTGTGAGCGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAACGC
Found at i:27347252 original size:64 final size:64
Alignment explanation
Indices: 27347103--27347277 Score: 233
Period size: 64 Copynumber: 2.7 Consensus size: 64
27347093 TTTATGAGTG
* * * *
27347103 TCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCGGACACAAACGCAACTCTTTGTGAGCG
1 TCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACAC-AACACAACTATTTGTGAGCA
* * **
27347168 TCCTGTTATATGATCAGTTGTGATCCTGCATATATTGCAGACACAACATAGTTATTTGTGAGCA
1 TCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAACACAACTATTTGTGAGCA
* * * *
27347232 TCCTGTTATATGATCGGTTGTGATTCTACATATGTTGTAGACACAA
1 TCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAA
27347278 ATGCAGCTCT
Statistics
Matches: 97, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
64 55 0.57
65 42 0.43
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (64 bp):
TCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAACACAACTATTTGTGAGCA
Found at i:27347387 original size:26 final size:26
Alignment explanation
Indices: 27347347--27347404 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
27347337 CCGGAGCTCT
* *
27347347 TGATTAAAGGCTCTTTGTGACCTTCC
1 TGATTAAAAGCTCTTTGTGAACTTCC
*
27347373 TGATTAAAAGTTCTTTGTGAACTTCC
1 TGATTAAAAGCTCTTTGTGAACTTCC
*
27347399 TAATTA
1 TGATTA
27347405 TGGCTCGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (26 bp):
TGATTAAAAGCTCTTTGTGAACTTCC
Found at i:27364565 original size:29 final size:28
Alignment explanation
Indices: 27364531--27364633 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
27364521 TACTCAATCA
* *
27364531 CGCACACTTTGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
27364560 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
*
27364589 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
27364618 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
27364634 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:27371869 original size:40 final size:40
Alignment explanation
Indices: 27371825--27371902 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
27371815 ACACAACATT
*
27371825 TGGGGATAAAATCAACCCA-CCTATCCCTACACACCATATA
1 TGGGGATAAAATCAACCCATCC-AACCCTACACACCATATA
* * *
27371865 TGGGGGTAAAATCGACCCATCCAACCTTACACACCATA
1 TGGGGATAAAATCAACCCATCCAACCCTACACACCATA
27371903 AAGTACCGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 31 0.94
41 2 0.06
ACGTcount: A:0.36, C:0.32, G:0.13, T:0.19
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCATCCAACCCTACACACCATATA
Found at i:27374258 original size:49 final size:49
Alignment explanation
Indices: 27374198--27374360 Score: 209
Period size: 49 Copynumber: 3.5 Consensus size: 49
27374188 TACATATGTG
* * *
27374198 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
27374247 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
27374290 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
27374336 TGTGATAAGGCCTAATGGCTAATGT
1 TGTGATAAGGCCTAATGGCCAATGT
27374361 AAAATATATG
Statistics
Matches: 99, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
40 33 0.33
41 2 0.02
42 1 0.01
43 2 0.02
44 2 0.02
45 2 0.02
46 2 0.02
47 1 0.01
48 2 0.02
49 52 0.53
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:27374296 original size:40 final size:40
Alignment explanation
Indices: 27374252--27374333 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
27374242 GTATATGTGA
27374252 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
27374292 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
27374332 TA
1 TA
27374334 TATGTGATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.28, C:0.10, G:0.34, T:0.28
Consensus pattern (40 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
Found at i:27374506 original size:37 final size:37
Alignment explanation
Indices: 27374456--27374540 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
27374446 GGAATATGTT
*
27374456 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
27374493 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
27374530 CCGGGTAAGAC
1 CCGGGTAAGAC
27374541 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:27376416 original size:40 final size:40
Alignment explanation
Indices: 27376361--27376605 Score: 355
Period size: 40 Copynumber: 6.1 Consensus size: 40
27376351 GAGAATTGAG
*
27376361 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
*
27376401 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
*
27376441 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
* * * *
27376481 AGTGATGTATCCGGGCAAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
* * * *
27376521 AGTGATGTATCCGGGCAAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
* * * *
27376561 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
27376601 AGTGA
1 AGTGA
27376606 CGTGTATTCG
Statistics
Matches: 196, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 196 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
Found at i:27376821 original size:29 final size:29
Alignment explanation
Indices: 27376779--27376971 Score: 341
Period size: 29 Copynumber: 6.7 Consensus size: 29
27376769 CGAATGAATA
27376779 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
27376808 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
27376837 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
27376866 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
27376895 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
* *
27376924 GAGGCACTACGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
27376953 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
27376972 TTTTTCAACA
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 158 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:27380409 original size:49 final size:49
Alignment explanation
Indices: 27380349--27380511 Score: 209
Period size: 49 Copynumber: 3.5 Consensus size: 49
27380339 TACATATGTG
* * *
27380349 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
27380398 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
27380441 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
27380487 TGTGATAAGGCCTAATGGCTAATGT
1 TGTGATAAGGCCTAATGGCCAATGT
27380512 AAAATATATG
Statistics
Matches: 99, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
40 33 0.33
41 2 0.02
42 1 0.01
43 2 0.02
44 2 0.02
45 2 0.02
46 2 0.02
47 1 0.01
48 2 0.02
49 52 0.53
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:27380447 original size:40 final size:40
Alignment explanation
Indices: 27380403--27380484 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
27380393 GTATATGTGA
27380403 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
27380443 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
27380483 TA
1 TA
27380485 TATGTGATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.28, C:0.10, G:0.34, T:0.28
Consensus pattern (40 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
Found at i:27380657 original size:37 final size:37
Alignment explanation
Indices: 27380607--27380691 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
27380597 GGAATATGTT
*
27380607 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
27380644 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
27380681 CCGGGTAAGAC
1 CCGGGTAAGAC
27380692 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:27387586 original size:49 final size:49
Alignment explanation
Indices: 27387459--27387668 Score: 347
Period size: 49 Copynumber: 4.4 Consensus size: 49
27387449 CCCTTCGGGA
* *
27387459 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27387506 CCTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27387553 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27387602 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27387651 CTTATCACATATATATAC
1 CTTATCACATATATATAC
27387669 CTCATACAAA
Statistics
Matches: 151, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
46 1 0.01
47 47 0.31
49 103 0.68
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27387663 original size:96 final size:94
Alignment explanation
Indices: 27387459--27387665 Score: 342
Period size: 96 Copynumber: 2.2 Consensus size: 94
27387449 CCCTTCGGGA
* * *
27387459 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
27387524 CTTCACATTCATCACATCGGCCATTAGGC
66 CTTCACATTCATCACATCGGCCATTAGGC
*
27387553 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
27387618 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 AC-C-TTCACATTCATCACATCGGCCATTAGGC
27387651 CTTATCACATATATA
1 CTTATCACATATATA
27387666 TACCTCATAC
Statistics
Matches: 105, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
94 8 0.08
96 60 0.57
97 1 0.01
98 36 0.34
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Found at i:27391753 original size:47 final size:47
Alignment explanation
Indices: 27391695--27391906 Score: 253
Period size: 47 Copynumber: 4.7 Consensus size: 47
27391685 TTAACATGTA
*
27391695 TAACCGTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
27391742 TAACCATGGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
27391780 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
27391827 TAACCATGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTG
1 TAACCGTGGCATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
* * *
27391875 TAATCGTGGTATATCCATTTAGCACCACGTTA
1 TAACCGTGGCATATCCACTTAGCACCACGTTA
27391907 CACGTATAAC
Statistics
Matches: 140, Mismatches: 15, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
38 27 0.19
39 2 0.01
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 57 0.41
48 40 0.29
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (47 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:27391794 original size:38 final size:40
Alignment explanation
Indices: 27391738--27391940 Score: 153
Period size: 38 Copynumber: 4.8 Consensus size: 40
27391728 TAAATCAATA
* *
27391738 TATGTAACCATGGCATATCCACTTAGCACCACGTTACATG
1 TATGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
*
27391778 T-T-TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATA
1 TATGTAACCGTGGTATATCCACTTAGCACCACG-T--T--A-C-ATG
* * *
27391823 TATGTAACCATGGCATATCCACTTAGCACCATGTTACATG
1 TATGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
* * *
27391863 TATCAATATGTGTAATCGTGGTATATCCATTTAGCACCACGTTACACG
1 ------TA--TGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
*
27391911 TA--TAACCGTGGTATATCCACTTAGTACCAC
1 TATGTAACCGTGGTATATCCACTTAGCACCAC
27391941 ATTTTTTTAT
Statistics
Matches: 130, Mismatches: 16, Indels: 36
0.71 0.09 0.20
Matches are distributed among these distances:
38 52 0.40
39 2 0.02
40 3 0.02
41 2 0.02
42 3 0.02
43 1 0.01
44 2 0.02
45 3 0.02
46 4 0.03
47 26 0.20
48 32 0.25
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (40 bp):
TATGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
Found at i:27391831 original size:85 final size:85
Alignment explanation
Indices: 27391688--27391865 Score: 320
Period size: 85 Copynumber: 2.1 Consensus size: 85
27391678 TTTCAAATTA
27391688 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTAACCATGGCA
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTAACCATGGCA
27391753 TATCCACTTAGCACCACGTT
66 TATCCACTTAGCACCACGTT
* * *
27391773 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGGCA
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTAACCATGGCA
*
27391838 TATCCACTTAGCACCATGTT
66 TATCCACTTAGCACCACGTT
27391858 ACATGTAT
1 ACATGTAT
27391866 CAATATGTGT
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (85 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTAACCATGGCA
TATCCACTTAGCACCACGTT
Found at i:27391889 original size:48 final size:48
Alignment explanation
Indices: 27391775--27391913 Score: 190
Period size: 48 Copynumber: 2.9 Consensus size: 48
27391765 ACCACGTTAC
* *
27391775 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * * *
27391822 ATATGTAACCATGGCATATCCACTTAGCACCATGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
27391870 ATGTGTAATCGTGGTATATCCATTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
27391914 AACCGTGGTA
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 32 0.41
48 46 0.59
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:27391900 original size:133 final size:132
Alignment explanation
Indices: 27391695--27391940 Score: 375
Period size: 133 Copynumber: 1.9 Consensus size: 132
27391685 TTAACATGTA
*
27391695 TAACCGTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTAACCATGGCATATCCAC
1 TAACCATGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTAACCATGGCATATCCAC
* *
27391760 TTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATA
66 TTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATA
27391825 TG
131 TG
* ** * * * *
27391827 TAACCATGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
1 TAACCATGGCATATCCACTTAGCACCACGTTA-ATAAATCAATATATGTAACCATGGCATATCCA
* *
27391892 TTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGTACCAC
65 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCAC
27391941 ATTTTTTTAT
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
132 30 0.30
133 71 0.70
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (132 bp):
TAACCATGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTAACCATGGCATATCCAC
TTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATA
TG
Found at i:27392263 original size:31 final size:31
Alignment explanation
Indices: 27392225--27392286 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
27392215 TCCATCAAAT
27392225 TTCTATTAACATCAAATTCAATACAATTATA
1 TTCTATTAACATCAAATTCAATACAATTATA
27392256 TTCTATTAACATCAAATTCAATACAATTATA
1 TTCTATTAACATCAAATTCAATACAATTATA
27392287 ACAAATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (31 bp):
TTCTATTAACATCAAATTCAATACAATTATA
Found at i:27398350 original size:31 final size:31
Alignment explanation
Indices: 27398312--27398416 Score: 192
Period size: 31 Copynumber: 3.4 Consensus size: 31
27398302 ACAGTTACTA
*
27398312 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTATCATAAATCATATCACTG
27398343 GGCCGAAGCCTTATCATAAATCATATCACTG
1 GGCCGAAGCCTTATCATAAATCATATCACTG
*
27398374 GGCCGAAGCCTTATCATAAATCATATCTCTG
1 GGCCGAAGCCTTATCATAAATCATATCACTG
27398405 GGCCGAAGCCTT
1 GGCCGAAGCCTT
27398417 TATTGTAAAC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (31 bp):
GGCCGAAGCCTTATCATAAATCATATCACTG
Found at i:27398680 original size:26 final size:26
Alignment explanation
Indices: 27398635--27398784 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
27398625 CCTCTTTAAT
27398635 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
27398660 AACTGGGGCATAAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
27398686 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
27398712 AACTGGGGTATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
27398738 AACTAGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
27398764 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
27398785 GTACTTCCTC
Statistics
Matches: 112, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
25 10 0.09
26 102 0.91
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:27399616 original size:27 final size:26
Alignment explanation
Indices: 27399581--27399664 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 26
27399571 GGGCATATTC
*
27399581 GTCATTTTACCATACAAGGG-TATTACG
1 GTCACTTTACCATAC-AGGGCT-TTACG
*
27399608 GTCACTTTACCCTACAGGGCCTTTACG
1 GTCACTTTACCATACAGGG-CTTTACG
* *
27399635 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCATACA-GGGCTTTACG
27399662 GTC
1 GTC
27399665 TTTTTACCTA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
26 4 0.08
27 43 0.84
28 4 0.08
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.32
Consensus pattern (26 bp):
GTCACTTTACCATACAGGGCTTTACG
Found at i:27399670 original size:27 final size:27
Alignment explanation
Indices: 27399603--27399681 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
27399593 TACAAGGGTA
* *
27399603 TTACGGTCACTTTACCCTACAGGGCCT
1 TTACGGTCACTTTACCCTATAGGGGCT
27399630 TTACGGTCACTTTACCCTATAGGGGCT
1 TTACGGTCACTTTACCCTATAGGGGCT
**
27399657 TTACGGTCTTTTTA-CCTAATAGGGG
1 TTACGGTCACTTTACCCT-ATAGGGG
27399682 TATTTTAGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
26 3 0.06
27 44 0.94
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
TTACGGTCACTTTACCCTATAGGGGCT
Found at i:27399756 original size:27 final size:27
Alignment explanation
Indices: 27399726--27400034 Score: 103
Period size: 27 Copynumber: 11.4 Consensus size: 27
27399716 GTAAATCTAC
*
27399726 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
27399753 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTT-TAGTAATTTTGT
* * *
27399779 AGAAAGTCAATGGTATTTCT-GTAATTCTGT
1 --AAA-CCAAGGGTATTT-TAGTAATTTTGT
** *
27399809 AAA-TTAGGGTATTTTGGTAATTTTAG-
1 AAACCAAGGGTATTTTAGTAATTTT-GT
*** ** ***
27399835 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
* * **
27399862 AAACC-AGTGGTATTTTGGTAACTTTAC
1 AAACCAAG-GGTATTTTAGTAATTTTGT
* * * **
27399889 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
* * **
27399916 AAACCAGGGGTATTTTAGCAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
* * *
27399943 AGACC-AGGGTATTTTGGTAATTTTACT
1 AAACCAAGGGTATTTTAGTAATTTT-GT
* * *
27399970 -GATCGAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
** **** *
27399996 AAATTAAGGGTAAAACAGTAATTCTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
27400023 AAATCAAGGGTA
1 AAACCAAGGGTA
27400035 AAATAGTAAT
Statistics
Matches: 226, Mismatches: 41, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.00
26 41 0.18
27 156 0.69
28 8 0.04
29 19 0.08
30 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTGT
Found at i:27399828 original size:26 final size:27
Alignment explanation
Indices: 27399790--27399857 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
27399780 GAAAGTCAAT
27399790 GGTATTTCT-GTAATTCT-GTAAATT-AG
1 GGTATTT-TGGTAATTCTAG-AAATTGAG
*
27399816 GGTATTTTGGTAATTTTAGAAATTGAG
1 GGTATTTTGGTAATTCTAGAAATTGAG
*
27399843 GGTATTTCGGTAATT
1 GGTATTTTGGTAATT
27399858 TCACAAACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
25 1 0.03
26 19 0.51
27 17 0.46
ACGTcount: A:0.26, C:0.04, G:0.24, T:0.46
Consensus pattern (27 bp):
GGTATTTTGGTAATTCTAGAAATTGAG
Found at i:27399874 original size:54 final size:54
Alignment explanation
Indices: 27399815--27399965 Score: 180
Period size: 54 Copynumber: 2.8 Consensus size: 54
27399805 CTGTAAATTA
* *
27399815 GGGTATTTTGGTAATTTTAGAAA-TTGAGGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAACCAG
* * * *
27399869 TGGTATTTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAG
* * * * *
27399923 GGGTATTTTAGCAATTTTACAGACCA-GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTT
27399966 TACTGATCGA
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 17 0.20
54 65 0.77
55 2 0.02
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAG
Found at i:27399914 original size:81 final size:80
Alignment explanation
Indices: 27399814--27400007 Score: 212
Period size: 80 Copynumber: 2.4 Consensus size: 80
27399804 TCTGTAAATT
* * *
27399814 AGGGTATTTTGGTAATTTTAGAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTG
1 AGGGTATTTTGGTAATTTTAGAAATTAAGGGTATTTCAGCAATTTCACAAACCAG-GGTATTTTG
27399879 GTAACTTTACAAACTAG
65 GTAACTTTACAAA-TAG
* ** * * * *
27399896 -GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTACAGACCAGGGTATTTTGG
1 AGGGTATTTTGGTAATTTTAGAAATTAAGGGTATTTCAGCAATTTCACAAACCAGGGTATTTTGG
* ** *
27399960 TAATTTTACTGATCG
66 TAACTTTACAAATAG
*
27399975 AGGGTATTTTAGTAATTTT-GTAAATTAAGGGTA
1 AGGGTATTTTGGTAATTTTAG-AAATTAAGGGTA
27400008 AAACAGTAAT
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
79 2 0.02
80 45 0.49
81 44 0.48
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTAGAAATTAAGGGTATTTCAGCAATTTCACAAACCAGGGTATTTTGG
TAACTTTACAAATAG
Found at i:27400061 original size:81 final size:81
Alignment explanation
Indices: 27399971--27400155 Score: 244
Period size: 81 Copynumber: 2.3 Consensus size: 81
27399961 AATTTTACTG
* * * *
27399971 ATCGAGGGTATTTTAGTAATTTTGTAAATTAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAA
*
27400036 AATAGTAATTCTATAA
66 AACAGTAATTCTATAA
*** * * *
27400052 ATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAA
*
27400117 AACAGTAATTCTGTAA
66 AACAGTAATTCTATAA
* *
27400133 ATCGGGGGTACTTTGGTAATTTT
1 ATCGAGGGTAATTTGGTAATTTT
27400156 ACAAGTCGAG
Statistics
Matches: 87, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 87 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (81 bp):
ATCGAGGGTAATTTGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAA
AACAGTAATTCTATAA
Found at i:27400142 original size:27 final size:27
Alignment explanation
Indices: 27399985--27400135 Score: 203
Period size: 27 Copynumber: 5.6 Consensus size: 27
27399975 AGGGTATTTT
* *
27399985 AGTAATTTTGTAAATTAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
27400012 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
27400039 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
27400066 GGTAATTTTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
27400093 AGTAATTTTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
27400120 AGTAATTCTGTAAATC
1 AGTAATTCTGTAAATC
27400136 GGGGGTACTT
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:27400169 original size:54 final size:54
Alignment explanation
Indices: 27399984--27400135 Score: 250
Period size: 54 Copynumber: 2.8 Consensus size: 54
27399974 GAGGGTATTT
* **
27399984 TAGTAATTTTGTAAATTAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAA
* * *
27400038 TAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAA
1 TAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAA
27400092 TAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATC
1 TAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATC
27400136 GGGGGTACTT
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (54 bp):
TAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAA
Found at i:27400376 original size:9 final size:9
Alignment explanation
Indices: 27400362--27400395 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
27400352 ATTGGGCCCG
27400362 TAGGCCCAT
1 TAGGCCCAT
*
27400371 TAGGCCC-G
1 TAGGCCCAT
27400379 TAGGCCCAT
1 TAGGCCCAT
27400388 TAGGCCCA
1 TAGGCCCA
27400396 CATGACCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (9 bp):
TAGGCCCAT
Found at i:27400378 original size:17 final size:17
Alignment explanation
Indices: 27400356--27400394 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
27400346 TATCCAATTG
27400356 GGCCCGTAGGCCCATTA
1 GGCCCGTAGGCCCATTA
27400373 GGCCCGTAGGCCCATTA
1 GGCCCGTAGGCCCATTA
27400390 GGCCC
1 GGCCC
27400395 ACATGACCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (17 bp):
GGCCCGTAGGCCCATTA
Found at i:27402342 original size:37 final size:37
Alignment explanation
Indices: 27402289--27402379 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
27402279 TATAAAAGAA
27402289 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
27402326 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
27402363 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
27402380 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:27402530 original size:49 final size:49
Alignment explanation
Indices: 27402475--27402778 Score: 473
Period size: 49 Copynumber: 6.4 Consensus size: 49
27402465 TTTTACATTA
27402475 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
27402524 GCCATTAGGCCTTATCACATATACATACACTTTTACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
27402573 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
27402613 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
27402662 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
27402711 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
27402760 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
27402779 CACATATGTA
Statistics
Matches: 236, Mismatches: 10, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
40 36 0.15
41 1 0.00
42 1 0.00
43 1 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 194 0.82
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:27402589 original size:89 final size:89
Alignment explanation
Indices: 27402496--27402773 Score: 421
Period size: 89 Copynumber: 3.0 Consensus size: 89
27402486 TTATCACATA
*
27402496 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTTACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
27402561 TTCACCACATCGGCCATTAGGCCT
66 TTCACCACATCGGCCATTAGGCCT
27402585 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
27402650 TTCACCACATCGGCCATTAGGCCT
66 TTCACCACATCGGCCATTAGGCCT
*
27402674 CATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATAC
1 --T-AC--AT--A--CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATAC
* * * *
27402739 ACTTTCACATTCATCGCATTGGCCATTCGGCCT
57 ACTTTCACATTCACCACATCGGCCATTAGGCCT
27402772 TA
1 TA
27402774 TCACACACAT
Statistics
Matches: 174, Mismatches: 6, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
89 88 0.51
91 1 0.01
92 2 0.01
94 2 0.01
95 1 0.01
96 2 0.01
98 78 0.45
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (89 bp):
TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
TTCACCACATCGGCCATTAGGCCT
Found at i:27402723 original size:138 final size:138
Alignment explanation
Indices: 27402475--27402724 Score: 464
Period size: 138 Copynumber: 1.8 Consensus size: 138
27402465 TTTTACATTA
*
27402475 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
*
27402540 ACATATACATACACTTTTACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
27402605 CCACATCG
131 CCACATCG
27402613 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
* *
27402678 ACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTA
27402725 TCACATATAC
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 108 1.00
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (138 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
CCACATCG
Found at i:27406189 original size:29 final size:29
Alignment explanation
Indices: 27406153--27406403 Score: 448
Period size: 29 Copynumber: 8.7 Consensus size: 29
27406143 TGTTGAAAAA
*
27406153 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
27406182 CTCGCACACGTAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
27406211 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
27406240 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
27406269 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
27406298 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
27406327 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
27406356 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
27406385 CTCGCACACATAGTGCCTC
1 CTCGCACACATAGTGCCTC
27406404 TATTCATTCG
Statistics
Matches: 214, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 214 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACTGAT
Found at i:27406634 original size:40 final size:40
Alignment explanation
Indices: 27406577--27406780 Score: 284
Period size: 40 Copynumber: 5.1 Consensus size: 40
27406567 CGAATACACG
* *
27406577 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
27406617 TCACTAGCACGAATGCTCTTCGGGACTTTGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
27406657 TCACTAGCACGAATGCTCTTC-GGACTTTGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
27406696 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * *
27406736 TCACTAGCATGAATGCTCTTCGGAACTTAGTCTGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
27406776 TCACT
1 TCACT
27406781 CTCAATTCTC
Statistics
Matches: 153, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 38 0.25
40 115 0.75
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:27406703 original size:79 final size:79
Alignment explanation
Indices: 27406577--27406759 Score: 276
Period size: 79 Copynumber: 2.3 Consensus size: 79
27406567 CGAATACACG
* *
27406577 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTC-GGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
*
27406642 CTTTGCCCGGATACA
65 CTTAGCCCGGATACA
* * * *
27406657 TCACTAGCACGAATGCTCTTCGGACTTTGCCCGGATACATCACTAGCATGAATGCTCTTCGGAAC
1 TCACTAGCATGAATGCTCTTCGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
27406722 TTAGTCCGGATATA
66 TTAGCCCGGATACA
27406736 TCACTAGCATGAATGCTCTTCGGA
1 TCACTAGCATGAATGCTCTTCGGA
27406760 ACTTAGTCTG
Statistics
Matches: 93, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 74 0.80
80 19 0.20
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (79 bp):
TCACTAGCATGAATGCTCTTCGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
TTAGCCCGGATACA
Found at i:27410138 original size:40 final size:40
Alignment explanation
Indices: 27409975--27410165 Score: 192
Period size: 40 Copynumber: 4.8 Consensus size: 40
27409965 TGAAAGATGT
* * * *
27409975 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAC
* * * *
27410015 CCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAC
*
27410055 CTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAC
* * *
27410094 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGCTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAC
** *
27410134 CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
27410166 CGTTATATCC
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 33 0.26
40 84 0.67
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAC
Found at i:27410140 original size:79 final size:80
Alignment explanation
Indices: 27409974--27410165 Score: 221
Period size: 79 Copynumber: 2.4 Consensus size: 80
27409964 TTGAAAGATG
* * *
27409974 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
27410038 CGTGCGAGTTAATAAA
65 CGTGCGAGTTAATAAA
* * **
27410054 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
**
27410117 CGTGCGAGTTGCTATAA
65 CGTGCGAGTTAATA-AA
** *
27410134 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
27410166 CGTTATATCC
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.58
80 39 0.41
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:27410189 original size:79 final size:78
Alignment explanation
Indices: 27409974--27410191 Score: 199
Period size: 79 Copynumber: 2.7 Consensus size: 78
27409964 TTGAAAGATG
* * *
27409974 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-GAGTCACTATATCCGGA-TAA-ATTCCGAAGGCAT
27410037 TCGTGCGAGTTAATAAA
62 TCGTGCGAGTTAATAAA
* * * * * * * *
27410054 TCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTATATCC-GGATAAATTCCGAAGGCATTCG
**
27410119 TGCGAGTTGCTATAA
65 TGCGAGTTAATA-AA
** **
27410134 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGTCGTTATATCCGGATAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCGAGTCACTATATCCGGATAAATTCCGAAGG
27410192 TACGTGATTC
Statistics
Matches: 111, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
79 65 0.59
80 46 0.41
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTATATCCGGATAAATTCCGAAGGCATTCGT
GCGAGTTAATAAA
Found at i:27419501 original size:40 final size:40
Alignment explanation
Indices: 27419418--27419636 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
27419408 ACCCAAGTAT
** * *
27419418 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
27419456 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
27419496 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
27419536 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
27419576 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
27419616 CTTCGGGACTTAGCCC-GATAT
1 CTTCGGGTCTTAGCCCGGATAT
27419637 CATTCGAATA
Statistics
Matches: 153, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 21 0.14
40 119 0.78
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:27434714 original size:13 final size:13
Alignment explanation
Indices: 27434696--27434720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27434686 AAAAACCCTA
27434696 AACCTCATATTTC
1 AACCTCATATTTC
27434709 AACCTCATATTT
1 AACCTCATATTT
27434721 GTGATCCCGA
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:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (13 bp):
AACCTCATATTTC
Found at i:27435240 original size:26 final size:26
Alignment explanation
Indices: 27435211--27435266 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
27435201 TGATACAAAT
27435211 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27435237 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27435263 TGAT
1 TGAT
27435267 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27441984 original size:27 final size:27
Alignment explanation
Indices: 27441936--27441990 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
27441926 TATAAAATTT
* *
27441936 TAAAAAAATAAAATATTATAAAAGTCA
1 TAAAAAAATAAAAAAATATAAAAGTCA
*
27441963 TAAAAAATATAAAAAAAT-TAAAATTCA
1 TAAAAAA-ATAAAAAAATATAAAAGTCA
27441990 T
1 T
27441991 TATCAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (27 bp):
TAAAAAAATAAAAAAATATAAAAGTCA
Found at i:27442870 original size:21 final size:22
Alignment explanation
Indices: 27442838--27442890 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
27442828 CAACTTTCAG
27442838 ACACCATAAA-TTGCAGCATTTA
1 ACACC-TAAATTTGCAGCATTTA
*
27442860 ACACCTAAATTTTCAGCATTTA
1 ACACCTAAATTTGCAGCATTTA
*
27442882 ACACATAAA
1 ACACCTAAA
27442891 ATGGTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (22 bp):
ACACCTAAATTTGCAGCATTTA
Found at i:27448647 original size:7 final size:7
Alignment explanation
Indices: 27448635--27448770 Score: 89
Period size: 7 Copynumber: 19.1 Consensus size: 7
27448625 ACTAATTAAT
27448635 CTAAACC
1 CTAAACC
27448642 CTAAACC
1 CTAAACC
*
27448649 TCTTAACCC
1 -C-TAAACC
*
27448658 CT-ATCC
1 CTAAACC
*
27448664 CATAAACA
1 C-TAAACC
*
27448672 CTAAACA
1 CTAAACC
27448679 CTAAACC
1 CTAAACC
*
27448686 ATAAACC
1 CTAAACC
*
27448693 CTTAACC
1 CTAAACC
*
27448700 CTTAAGCC
1 C-TAAACC
27448708 C-AAACC
1 CTAAACC
*
27448714 CTTACACC
1 C-TAAACC
* *
27448722 TTAAACT
1 CTAAACC
27448729 CT-AACC
1 CTAAACC
27448735 CTAAACC
1 CTAAACC
27448742 CTAAACC
1 CTAAACC
27448749 CTAAACC
1 CTAAACC
* * *
27448756 ATAATCA
1 CTAAACC
27448763 CTAAACC
1 CTAAACC
27448770 C
1 C
27448771 ATAATTCAGC
Statistics
Matches: 98, Mismatches: 23, Indels: 16
0.72 0.17 0.12
Matches are distributed among these distances:
6 14 0.14
7 65 0.66
8 14 0.14
9 5 0.05
ACGTcount: A:0.40, C:0.39, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:27448825 original size:14 final size:14
Alignment explanation
Indices: 27448808--27448838 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27448798 AATTAACTCC
27448808 TAAACCTTAAACCA
1 TAAACCTTAAACCA
*
27448822 TAAACCTTAAACTA
1 TAAACCTTAAACCA
27448836 TAA
1 TAA
27448839 TGATAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:27449061 original size:41 final size:41
Alignment explanation
Indices: 27449004--27449264 Score: 416
Period size: 41 Copynumber: 6.4 Consensus size: 41
27448994 GTTATATGAC
* *
27449004 TTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
**
27449045 TTTTAGCGTTGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
27449086 ATTTAGCAGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
*
27449127 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAAT-CTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
*
27449167 TTTTAGCGGCGTTTTAACGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
27449208 TTTTAGCGGCGTTTTACCGAAAGCGCCTCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
*
27449249 TTTTAGCGGCATTTTA
1 TTTTAGCGGCGTTTTA
27449265 GTAAAAAACA
Statistics
Matches: 202, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 38 0.19
41 164 0.81
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
Found at i:27449222 original size:122 final size:123
Alignment explanation
Indices: 27449004--27449264 Score: 418
Period size: 122 Copynumber: 2.1 Consensus size: 123
27448994 GTTATATGAC
* ** *
27449004 TTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGTTGTTTTACCGAAAGC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTAACGAAAGC
*
27449069 GCCGCTAATGCTCTGGTATTTAGCAGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
66 GCCGCTAATGCTCTGGTATTTAGCAGCGTTTTACCGAAAGCGCCGCTAATGCTCTAGT
27449127 TTTTAGCGGCGTTTTA-CAGAAAGCGCCGCTAAT-CTCTGGTTTTTAGCGGCGTTTTAACGAAAG
1 TTTTAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTAACGAAAG
* * *
27449190 CGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCTCTAATGCTCTAGT
65 CGCCGCTAATGCTCTGGTATTTAGCAGCGTTTTACCGAAAGCGCCGCTAATGCTCTAGT
*
27449249 TTTTAGCGGCATTTTA
1 TTTTAGCGGCGTTTTA
27449265 GTAAAAAACA
Statistics
Matches: 128, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
122 99 0.77
123 29 0.23
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (123 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTAACGAAAGC
GCCGCTAATGCTCTGGTATTTAGCAGCGTTTTACCGAAAGCGCCGCTAATGCTCTAGT
Found at i:27451865 original size:2 final size:2
Alignment explanation
Indices: 27451858--27451891 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
27451848 CTCATTCTCC
*
27451858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27451892 TTGATCGCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:27463042 original size:13 final size:13
Alignment explanation
Indices: 27463024--27463049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27463014 CTCAGCAGGA
27463024 ACACGCCCGTGTG
1 ACACGCCCGTGTG
27463037 ACACGCCCGTGTG
1 ACACGCCCGTGTG
27463050 CGATTGCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGCCCGTGTG
Found at i:27470068 original size:25 final size:25
Alignment explanation
Indices: 27470017--27470068 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
27470007 GATGCCCAAT
*
27470017 ATAACATCAAATTCATCGAACAGCA
1 ATAACATCAAATTCATCGAACAACA
27470042 ATAACATC-AATTCAGTCGGAA-AACA
1 ATAACATCAAATTCA-TC-GAACAACA
27470067 AT
1 AT
27470069 GATCTCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 6 0.25
25 15 0.62
26 3 0.12
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (25 bp):
ATAACATCAAATTCATCGAACAACA
Found at i:27474966 original size:70 final size:70
Alignment explanation
Indices: 27474853--27474993 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
27474843 ATATTTATAC
*
27474853 TGACCATAAAAGTTTGAAATATCTGATGACTCAAAAAGACTTCAATTTGTGACAGCGGAGATGGT
1 TGACCATAAAAGTTTGAAATATCTGATGACTCAAAAAAACTTCAATTTGTGACAGCGGAGATGGT
27474918 TAGCA
66 TAGCA
27474923 TGACCATAAAAGTTTGAAATATCTGATGACTCAAAAAAACTTCAATTTGTGACAGCGGAGATGGT
1 TGACCATAAAAGTTTGAAATATCTGATGACTCAAAAAAACTTCAATTTGTGACAGCGGAGATGGT
27474988 TAGCA
66 TAGCA
27474993 T
1 T
27474994 TACTAAAATA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (70 bp):
TGACCATAAAAGTTTGAAATATCTGATGACTCAAAAAAACTTCAATTTGTGACAGCGGAGATGGT
TAGCA
Found at i:27475023 original size:70 final size:70
Alignment explanation
Indices: 27474853--27475010 Score: 237
Period size: 70 Copynumber: 2.3 Consensus size: 70
27474843 ATATTTATAC
* * *
27474853 TGACCATAAAAGTTTGAAATATCTGATGACTCAAAAAGACTTCAATTTGTGACAGCGGAGATGGT
1 TGACCATAAAACTATGAAATATCTGATGACTCAAAAAAACTTCAATTTGTGACAGCGGAGATGGT
27474918 TAGCA
66 TAGCA
* *
27474923 TGACCATAAAAGTTTGAAATATCTGATGACTCAAAAAAACTTCAATTTGTGACAGCGGAGATGGT
1 TGACCATAAAACTATGAAATATCTGATGACTCAAAAAAACTTCAATTTGTGACAGCGGAGATGGT
27474988 TAGCA
66 TAGCA
* *
27474993 TTACTA-AAATACTATGAA
1 TGACCATAAA-ACTATGAA
27475011 TTAGTGATTG
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
69 3 0.04
70 79 0.96
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (70 bp):
TGACCATAAAACTATGAAATATCTGATGACTCAAAAAAACTTCAATTTGTGACAGCGGAGATGGT
TAGCA
Found at i:27485280 original size:40 final size:39
Alignment explanation
Indices: 27485231--27485438 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 39
27485221 TCTTCGGAAT
** *
27485231 TTAG-CCGGATATAACCGCAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAA-TGCCTTCGGGTC
* * *** *
27485270 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
27485310 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
* *
27485350 TTGGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
* *
27485390 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCA-CAATGCCTTCGGGTC
27485430 TTAGCCCGG
1 TTAGCCCGG
27485439 GTATCATTCA
Statistics
Matches: 144, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.02
40 138 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTC
Found at i:27485358 original size:80 final size:80
Alignment explanation
Indices: 27485231--27485438 Score: 249
Period size: 80 Copynumber: 2.6 Consensus size: 80
27485221 TCTTCGGAAT
* * * * * * *** *
27485231 TTAG-CCGGATATAACCGCAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
27485295 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * *
27485310 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTCTTGGCCCGGATATAACAACTCGCA
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
*
27485374 CGAATGCCTTCGGGTC
65 CAAATGCCTTCGGGTC
* *
27485390 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
27485439 GTATCATTCA
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 5 0.05
80 102 0.94
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
AAATGCCTTCGGGTC
Found at i:27487957 original size:47 final size:46
Alignment explanation
Indices: 27487848--27487968 Score: 133
Period size: 47 Copynumber: 2.6 Consensus size: 46
27487838 TTATGAAAGC
*
27487848 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACAAGTG
1 CAGTGTAAGACCATGTCTGGGACATGG-ATCAACATTGAGACAAGTG
*
27487895 CTAGTGTAAGA-CATGTCTGGGACATGTG-TCAAC-TATGAGATGATAGT-
1 C-AGTGTAAGACCATGTCTGGGACATG-GATCAACAT-TGAGA-CA-AGTG
*
27487942 CAGTGTAAGACCATGTCTAGGACATGG
1 CAGTGTAAGACCATGTCTGGGACATGG
27487969 CATCGACACT
Statistics
Matches: 65, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
45 1 0.02
46 19 0.29
47 32 0.49
48 13 0.20
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGGATCAACATTGAGACAAGTG
Found at i:27488871 original size:40 final size:42
Alignment explanation
Indices: 27488827--27488905 Score: 119
Period size: 41 Copynumber: 1.9 Consensus size: 42
27488817 GGTTTTTGCT
27488827 CACGGGCTA-GGACACGGGCATG-T-CATGGCCGTGTGAAGGA
1 CACGGGCTAGGGACACGGGCATGTTCCA-GGCCGTGTGAAGGA
*
27488867 CACGGGCTAGGGACACTGGCATGTTCCAGGCCGTGTGAA
1 CACGGGCTAGGGACACGGGCATGTTCCAGGCCGTGTGAA
27488906 AACCCTTGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
40 9 0.26
41 12 0.34
42 12 0.34
43 2 0.06
ACGTcount: A:0.22, C:0.24, G:0.38, T:0.16
Consensus pattern (42 bp):
CACGGGCTAGGGACACGGGCATGTTCCAGGCCGTGTGAAGGA
Found at i:27490698 original size:47 final size:47
Alignment explanation
Indices: 27490645--27490750 Score: 203
Period size: 47 Copynumber: 2.3 Consensus size: 47
27490635 ATAGTACGAG
27490645 AACATAATAAAAGGGTTTTTAATATTTTCATAATGATAAAATAAAAT
1 AACATAATAAAAGGGTTTTTAATATTTTCATAATGATAAAATAAAAT
27490692 AACATAATAAAAGGGTTTTTAATATTTTCATAATGATAAAATAAAAT
1 AACATAATAAAAGGGTTTTTAATATTTTCATAATGATAAAATAAAAT
*
27490739 AACATAAAAAAA
1 AACATAATAAAA
27490751 ATTAAATTCA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.33
Consensus pattern (47 bp):
AACATAATAAAAGGGTTTTTAATATTTTCATAATGATAAAATAAAAT
Found at i:27493521 original size:13 final size:13
Alignment explanation
Indices: 27493505--27493562 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
27493495 TATTATTTTA
27493505 AATTAAATTATAC
1 AATTAAATTATAC
*
27493518 AATTAATTCTTATAAC
1 AATTAA--ATTAT-AC
*
27493534 AA--AAATTTTA-
1 AATTAAATTATAC
27493544 AATTAAATTATAC
1 AATTAAATTATAC
27493557 AATTAA
1 AATTAA
27493563 TTCTTATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
10 2 0.06
11 1 0.03
12 10 0.29
13 12 0.34
14 2 0.06
15 4 0.11
16 4 0.11
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTAAATTATAC
Found at i:27494867 original size:11 final size:11
Alignment explanation
Indices: 27494848--27494878 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
27494838 GTTTGTCATG
*
27494848 TTTTCTTTTCT
1 TTTTTTTTTCT
27494859 TTTTTTTTTCT
1 TTTTTTTTTCT
27494870 TTTTTTTTT
1 TTTTTTTTT
27494879 TGGGAGGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:27494869 original size:16 final size:15
Alignment explanation
Indices: 27494848--27494879 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
27494838 GTTTGTCATG
27494848 TTTTCTTTTCTTTTTT
1 TTTTCTTTT-TTTTTT
27494864 TTTTCTTTTTTTTTT
1 TTTTCTTTTTTTTTT
27494879 T
1 T
27494880 GGGAGGGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTCTTTTTTTTTT
Found at i:27497212 original size:11 final size:11
Alignment explanation
Indices: 27497196--27497234 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
27497186 TTATTTTTTC
*
27497196 TATTTTATTAT
1 TATTTTACTAT
27497207 TATTTTACTAT
1 TATTTTACTAT
* *
27497218 TATGTTACTAC
1 TATTTTACTAT
27497229 TATTTT
1 TATTTT
27497235 GTTGTTATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (11 bp):
TATTTTACTAT
Found at i:27497537 original size:15 final size:15
Alignment explanation
Indices: 27497507--27497545 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
27497497 AAACTCAATT
*
27497507 ATATTAATATTATTTA
1 ATATTAA-AATATTTA
*
27497523 ATTTTAAAATATTTA
1 ATATTAAAATATTTA
27497538 ATATTAAA
1 ATATTAAA
27497546 TAATAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATTAAAATATTTA
Found at i:27497602 original size:22 final size:21
Alignment explanation
Indices: 27497577--27497615 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
27497567 TACTATTAAT
27497577 AATAATA-TATT-ATAATTTA
1 AATAATATTATTAATAATTTA
27497596 AATAATATTATTAATAATTT
1 AATAATATTATTAATAATTT
27497616 CTTACAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATATTATTAATAATTTA
Found at i:27498086 original size:9 final size:9
Alignment explanation
Indices: 27498074--27498106 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
27498064 GAATTATTCG
27498074 AATCGAGTT
1 AATCGAGTT
27498083 AATCGAGTT
1 AATCGAGTT
*
27498092 AATCGAATT
1 AATCGAGTT
27498101 AATCGA
1 AATCGA
27498107 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:27498107 original size:9 final size:9
Alignment explanation
Indices: 27498074--27498119 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
27498064 GAATTATTCG
*
27498074 AATCGAGTT
1 AATCGAATT
*
27498083 AATCGAGTT
1 AATCGAATT
27498092 AATCGAATT
1 AATCGAATT
*
27498101 AATCGAATC
1 AATCGAATT
27498110 AACTCGAATT
1 AA-TCGAATT
27498120 TTTTTTTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Done.