Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 96 of 163
Found at i:27263822 original size:13 final size:13
Alignment explanation
Indices: 27263804--27263828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27263794 GCGTCTCTTT
27263804 TTTTAAATATTTA
1 TTTTAAATATTTA
27263817 TTTTAAATATTT
1 TTTTAAATATTT
27263829 TTACTATACT
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:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTAAATATTTA
Found at i:27268920 original size:23 final size:23
Alignment explanation
Indices: 27268823--27268923 Score: 123
Period size: 23 Copynumber: 4.3 Consensus size: 23
27268813 ACACTAGCGC
* *
27268823 GCTCTCTGTTTAGCAC-ATCTCGT
1 GCTCTCTGATTAGCACTATGT-GT
*
27268846 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTATGTGT
* *
27268871 GCTATCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTATGTGT
27268894 GCTCTCTGATTAGCACTATGTGT
1 GCTCTCTGATTAGCACTATGTGT
27268917 GCTCTCT
1 GCTCTCT
27268924 ATTGCCCAGC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
23 50 0.74
25 16 0.24
26 2 0.03
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.42
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTATGTGT
Found at i:27270564 original size:14 final size:13
Alignment explanation
Indices: 27270543--27270577 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
27270533 AATAAATATT
27270543 AATTAATTAATCTA
1 AATTAATTAATC-A
*
27270557 ATTTAATTAATCA
1 AATTAATTAATCA
27270570 AATTAATT
1 AATTAATT
27270578 TCTCAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTAATTAATCA
Found at i:27270576 original size:18 final size:18
Alignment explanation
Indices: 27270541--27270578 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
27270531 AAAATAAATA
*
27270541 TTAATTAATTAATCTAAT
1 TTAATTAATAAATCTAAT
27270559 TTAATTAATCAAAT-TAAT
1 TTAATTAAT-AAATCTAAT
27270577 TT
1 TT
27270579 CTCAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAATTAATAAATCTAAT
Found at i:27274512 original size:21 final size:22
Alignment explanation
Indices: 27274485--27274531 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
27274475 AGGTATTATG
* *
27274485 CCCCCCATGAAAAGGTATCACA
1 CCCCCAATGAAAAGGTACCACA
27274507 CCCCCAATGAAAAGGTACCACA
1 CCCCCAATGAAAAGGTACCACA
27274529 CCC
1 CCC
27274532 ATCCCATCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.40, G:0.13, T:0.11
Consensus pattern (22 bp):
CCCCCAATGAAAAGGTACCACA
Found at i:27275145 original size:6 final size:6
Alignment explanation
Indices: 27275117--27275190 Score: 57
Period size: 6 Copynumber: 12.8 Consensus size: 6
27275107 CCCAGTGAGA
* * * ** *
27275117 TAAATT TAGATT T-ATTT TGAATT TAAATT TGCA-T AAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
27275163 T--ATT ATAAATT TAAATT TAAATT TAAAT
1 TAAATT -TAAATT TAAATT TAAATT TAAAT
27275191 GTCCAATCCA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
4 3 0.06
5 6 0.12
6 40 0.77
7 3 0.06
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (6 bp):
TAAATT
Found at i:27275156 original size:17 final size:17
Alignment explanation
Indices: 27275116--27275181 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
27275106 GCCCAGTGAG
*
27275116 ATAAATTTAGATTTATT
1 ATAAATTTAAATTTATT
* *
27275133 TTGAATTTAAATTTGCA-T
1 ATAAATTTAAATTT--ATT
27275151 A-AAATTTAAATTTATT
1 ATAAATTTAAATTTATT
27275167 ATAAATTTAAATTTA
1 ATAAATTTAAATTTA
27275182 AATTTAAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
15 1 0.03
16 2 0.05
17 35 0.88
18 1 0.03
19 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (17 bp):
ATAAATTTAAATTTATT
Found at i:27275162 original size:23 final size:20
Alignment explanation
Indices: 27275136--27275187 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 20
27275126 ATTTATTTTG
27275136 AATTTAAATTTGCATAAAATTTA
1 AATTTAAATTT--AT-AAATTTA
27275159 AATTT--A-TTATAAATTTA
1 AATTTAAATTTATAAATTTA
27275176 AATTTAAATTTA
1 AATTTAAATTTA
27275188 AATGTCCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
17 12 0.46
18 2 0.08
19 1 0.04
20 5 0.19
21 1 0.04
23 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
AATTTAAATTTATAAATTTA
Found at i:27275975 original size:14 final size:13
Alignment explanation
Indices: 27275930--27275975 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
27275920 ACTTATATTA
27275930 TAATAAAATTTAT
1 TAATAAAATTTAT
27275943 TAATAATAA--TAT
1 TAATAA-AATTTAT
*
27275955 TAGTAAAATTTTAT
1 TAATAAAA-TTTAT
27275969 TAATAAA
1 TAATAAA
27275976 TGGAGATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
11 2 0.07
12 8 0.30
13 6 0.22
14 11 0.41
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
TAATAAAATTTAT
Found at i:27276908 original size:30 final size:29
Alignment explanation
Indices: 27276874--27277094 Score: 147
Period size: 30 Copynumber: 7.5 Consensus size: 29
27276864 CAAACTTTCT
27276874 AAAATTCCATTTTCAACCCCGATTTCACCA
1 AAAATTCCATTTT-AACCCCGATTTCACCA
27276904 AAAATTACCATTTT-ACCCCGAACTTT--CC-
1 AAAATT-CCATTTTAACCCCG-A-TTTCACCA
*
27276932 AAAATCCCATTTTAACCCCGATTTCACCA
1 AAAATTCCATTTTAACCCCGATTTCACCA
* * ** * *
27276961 AAAATCACCATTTTACCCCCGAACTC-TCT
1 AAAAT-TCCATTTTAACCCCGATTTCACCA
*
27276990 AAAA-TCCGATATTTAACCCCGATTTTACCA
1 AAAATTCC-AT-TTTAACCCCGATTTCACCA
**
27277020 AAAACCACCATTTT-ACCCCAGAACTTT--CC-
1 AAAA-TTCCATTTTAACCCC-G-A-TTTCACCA
*
27277049 AAAATCCCATTTTTTAACCCCGATTTCACCA
1 AAAATTCCA--TTTTAACCCCGATTTCACCA
27277080 AAAATTACCATTTTA
1 AAAATT-CCATTTTA
27277095 CCCTCGAACA
Statistics
Matches: 150, Mismatches: 18, Indels: 46
0.70 0.08 0.21
Matches are distributed among these distances:
26 3 0.02
27 10 0.07
28 21 0.14
29 39 0.26
30 46 0.31
31 23 0.15
32 8 0.05
ACGTcount: A:0.34, C:0.32, G:0.04, T:0.30
Consensus pattern (29 bp):
AAAATTCCATTTTAACCCCGATTTCACCA
Found at i:27276922 original size:59 final size:58
Alignment explanation
Indices: 27276853--27277097 Score: 323
Period size: 58 Copynumber: 4.2 Consensus size: 58
27276843 TAGAAATTAT
* * *
27276853 ATTTTGACCCCCAAACTTTCTAAAATTCCATTTTCAACCCCGATTTCACCAAAAATTACC
1 ATTTT-ACCCCCAAACTTTCCAAAATCCCATTTT-AACCCCGATTTCACCAAAAATCACC
*
27276913 ATTTTA-CCCCGAACTTTCCAAAATCCCATTTTAACCCCGATTTCACCAAAAATCACC
1 ATTTTACCCCCAAACTTTCCAAAATCCCATTTTAACCCCGATTTCACCAAAAATCACC
* * * * * *
27276970 ATTTTACCCCCGAACTCTCTAAAATCCGATATTTAACCCCGATTTTACCAAAAACCACC
1 ATTTTACCCCCAAACTTTCCAAAATCCCAT-TTTAACCCCGATTTCACCAAAAATCACC
*
27277029 ATTTTA-CCCCAGAACTTTCCAAAATCCCATTTTTTAACCCCGATTTCACCAAAAATTACC
1 ATTTTACCCCCA-AACTTTCCAAAATCCCA--TTTTAACCCCGATTTCACCAAAAATCACC
27277089 ATTTTACCC
1 ATTTTACCC
27277098 TCGAACATCT
Statistics
Matches: 163, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
57 30 0.18
58 47 0.29
59 47 0.29
60 36 0.22
61 3 0.02
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.30
Consensus pattern (58 bp):
ATTTTACCCCCAAACTTTCCAAAATCCCATTTTAACCCCGATTTCACCAAAAATCACC
Found at i:27289713 original size:200 final size:201
Alignment explanation
Indices: 27289134--27289942 Score: 1248
Period size: 200 Copynumber: 4.0 Consensus size: 201
27289124 AGTAGTTTGA
*
27289134 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAA
1 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAACTCAGCGCTCAAA
* * * *
27289199 CGCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTTGAGGCAATAAAAA
66 CACGAGCAAATCTTCGAACCCAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAA
* * * * *
27289264 GGTCATCTTCCTGAGGAGACACAGAGAAGTAAACCAGATTCATCTTCCTGAGGAGATCTAGAGAA
131 GGTTAGCTTCCTGATGAGACACAGAGAAGTGAACCAGATTCATTTTCCTGAGGAGATCTAGAGAA
* *
27289329 GCAAAT
196 ACGAAT
* *
27289335 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAATTCATCGCTCAAA
1 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAACTCAGCGCTCAAA
* *
27289400 CACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGCAATAAAAA
66 CACGAGCAAATCTTCGAACCCAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAA
* * * *
27289465 GGTTAGCTTCCTGATGAGACACAGAGAAGCGGACCAAATTCGTTTTCCTGAGGAGATCTAGAGAA
131 GGTTAGCTTCCTGATGAGACACAGAGAAGTGAACCAGATTCATTTTCCTGAGGAGATCTAGAGAA
27289530 ACGAAT
196 ACGAAT
*
27289536 CAAAATAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAACTCAGCGCTC-AA
1 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAACTCAGCGCTCAAA
*
27289600 CACGAGCAAATCTTCGAACCCAGCTTCCAGATGAGACACTGAGAAGCAAGTCGGAGCAATAAAAA
66 CACGAGCAAATCTTCGAACCCAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAA
* * *
27289665 GGTTAGCTTCCTGATGAGACATAGAGAAGTGAACCAGATCCATTTTCCTGAGGAGATCCAGAGAA
131 GGTTAGCTTCCTGATGAGACACAGAGAAGTGAACCAGATTCATTTTCCTGAGGAGATCTAGAGAA
27289730 ACGAAT
196 ACGAAT
27289736 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACA-AGAAAGAACACTAACTCAGCGCTC-A
1 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAG-AAGAACACTAACTCAGCGCTCAA
*
27289799 ACACGAGCAAATCTTCGAACCCAGCTTCCAGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
65 ACACGAGCAAATCTTCGAACCCAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAA
* ** * * * * *
27289864 AGGTTAGCTTCCTGATAAGACACA-AGGAAGTGGGCCAGATTCGTCTTCTTGAGAAGATCCAGAG
130 AGGTTAGCTTCCTGATGAGACACAGA-GAAGTGAACCAGATTCATTTTCCTGAGGAGATCTAGAG
*
27289928 AAGCGAAT
194 AAACGAAT
*
27289936 TAAAACA
1 CAAAACA
27289943 GATGATTGCA
Statistics
Matches: 561, Mismatches: 45, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
199 3 0.01
200 316 0.56
201 242 0.43
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (201 bp):
CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAACTCAGCGCTCAAA
CACGAGCAAATCTTCGAACCCAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAA
GGTTAGCTTCCTGATGAGACACAGAGAAGTGAACCAGATTCATTTTCCTGAGGAGATCTAGAGAA
ACGAAT
Found at i:27290360 original size:17 final size:16
Alignment explanation
Indices: 27290338--27290382 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
27290328 ATTTATTTTG
*
27290338 AATTTAAATTTGCATA
1 AATTTAAATTTACATA
*
27290354 AATTTTAAATTTATATA
1 AA-TTTAAATTTACATA
27290371 AATTTAAATTTA
1 AATTTAAATTTA
27290383 AAATTAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (16 bp):
AATTTAAATTTACATA
Found at i:27291191 original size:26 final size:24
Alignment explanation
Indices: 27291134--27291191 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 24
27291124 TTATATTATA
* *
27291134 ATAAATTTTATTAATAATAATATT
1 ATAAATTTTATTAATAATAAGATG
27291158 AGTAAAATTTTATTAATAAATAGAGATG
1 A-T-AAATTTTATTAAT-AATA-AGATG
27291186 ATAAAT
1 ATAAAT
27291192 GGCATTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 1 0.04
25 1 0.04
26 17 0.61
27 5 0.18
28 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (24 bp):
ATAAATTTTATTAATAATAAGATG
Found at i:27292349 original size:29 final size:28
Alignment explanation
Indices: 27292265--27292407 Score: 82
Period size: 29 Copynumber: 4.9 Consensus size: 28
27292255 TTGACCCCCG
*
27292265 AACTTTCCAAAATTCCATTTTTAACCTC
1 AACTTTCCAAAATACCATTTTTAACCTC
*
27292293 GA-TTTCACCACAAATTACCA-TTTT-ACCTC
1 AACTTT--CCA-AAA-TACCATTTTTAACCTC
*
27292322 AAACTTTCCAAAATCCCATTTTTAACCTC
1 -AACTTTCCAAAATACCATTTTTAACCTC
* * *
27292351 GA-TTTCACCAAAAATTACCA-TTTTACCCCTG
1 AACTTT--CC-AAAA-TACCATTTTTA-ACCTC
*
27292382 AACTTTCTAAAAT-CTCATTTTTAACC
1 AACTTTCCAAAATAC-CATTTTTAACC
27292408 CCGATTTCAC
Statistics
Matches: 88, Mismatches: 11, Indels: 32
0.67 0.08 0.24
Matches are distributed among these distances:
27 11 0.12
28 14 0.16
29 27 0.31
30 18 0.20
31 15 0.17
32 3 0.03
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.36
Consensus pattern (28 bp):
AACTTTCCAAAATACCATTTTTAACCTC
Found at i:27292415 original size:59 final size:59
Alignment explanation
Indices: 27292241--27292555 Score: 402
Period size: 58 Copynumber: 5.4 Consensus size: 59
27292231 CTTGAACTTT
* * *
27292241 CCAAAAATTA-TATTTTGACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTT-ACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * * *
27292300 CCACAAATTACCATTTTA-CCTCAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * *
27292358 CCAAAAATTACCATTTTACCCCTGAACTTTCTAAAATCTCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * * * * * *
27292417 CCAAAAA-TACCATTTTACCCCCAAACTCTCTAAAATCCTATATTTAATCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
** *
27292475 CCAAAAACCACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTCTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTT-TAACCCCGATTTCA
*
27292535 CCAAAAATTACCATTTCACCC
1 CCAAAAATTACCATTTTACCC
27292556 TCGGGCATCC
Statistics
Matches: 220, Mismatches: 32, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
58 104 0.47
59 81 0.37
60 35 0.16
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.32
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
Found at i:27292422 original size:29 final size:29
Alignment explanation
Indices: 27292329--27292422 Score: 72
Period size: 29 Copynumber: 3.2 Consensus size: 29
27292319 CTCAAACTTT
* *
27292329 CCAAAATCCCATTTTTAACCTCGATTTCA
1 CCAAAATCTCATTTTTAACCCCGATTTCA
27292358 CCAAAAAT-TACCA-TTTT-ACCCCTGAACTTT--
1 CC-AAAATCT--CATTTTTAACCCC-G-A-TTTCA
*
27292388 CTAAAATCTCATTTTTAACCCCGATTTCA
1 CCAAAATCTCATTTTTAACCCCGATTTCA
27292417 CCAAAA
1 CCAAAA
27292423 ATACCATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 22
0.66 0.05 0.29
Matches are distributed among these distances:
27 3 0.06
28 3 0.06
29 21 0.42
30 17 0.34
31 3 0.06
32 3 0.06
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (29 bp):
CCAAAATCTCATTTTTAACCCCGATTTCA
Found at i:27292452 original size:117 final size:117
Alignment explanation
Indices: 27292241--27292555 Score: 397
Period size: 117 Copynumber: 2.7 Consensus size: 117
27292231 CTTGAACTTT
* * *
27292241 CCAAAAATTA-TATTTTGACCCCCGAACTTTCCAAAAT-TCCATTTTTAACCTCGATTTCACCAC
1 CCAAAAATTACCATTTT-ACCCCTGAACTTTCCAAAATCT-CATTTTTAACCCCGATTTCACCA-
* * * * *
27292304 AAATTACCATTTTA-CCTCAAACTTTCCAAAATCCCATTTTTAA-CCTCGATTTCA
63 AAAATACCATTTTACCCCCAAACTCTCCAAAATCCCATATTTAATCC-CAATTTCA
*
27292358 CCAAAAATTACCATTTTACCCCTGAACTTTCTAAAATCTCATTTTTAACCCCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCTCATTTTTAACCCCGATTTCACCAAAA
* *
27292423 ATACCATTTTACCCCCAAACTCTCTAAAATCCTATATTTAATCCCAATTTCA
66 ATACCATTTTACCCCCAAACTCTCCAAAATCCCATATTTAATCCCAATTTCA
** *
27292475 CCAAAAACCACCATTTTA-CCCTCGAACTTTCCAAAATCCCATTTTCTAACCCCGATTTCACCAA
1 CCAAAAATTACCATTTTACCCCT-GAACTTTCCAAAATCTCATTTT-TAACCCCGATTTCACCAA
*
27292539 AAATTACCATTTCACCC
64 AAA-TACCATTTTACCC
27292556 TCGGGCATCC
Statistics
Matches: 175, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
116 17 0.10
117 117 0.67
118 29 0.17
119 12 0.07
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.32
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCTCATTTTTAACCCCGATTTCACCAAAA
ATACCATTTTACCCCCAAACTCTCCAAAATCCCATATTTAATCCCAATTTCA
Found at i:27302182 original size:58 final size:57
Alignment explanation
Indices: 27302078--27302231 Score: 220
Period size: 58 Copynumber: 2.6 Consensus size: 57
27302068 TCTAATATTA
* *
27302078 TATATTATGATTTTATT-AATTCATATTTTAATAATAATTATATTAAAAATATTATTAAAT
1 TATA-TATTATTTTATTAAATT-ATA-TTTAATAATAATTATATT-AAAATATAATTAAAT
*
27302138 TATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATAATTAAAT
1 TATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAAT
*
27302195 TATTTATTATTTCTATTAAATTATATTTAATAATAAT
1 TATATATTATTT-TATTAAATTATATTTAATAATAAT
27302232 AATCATTTAC
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
57 25 0.28
58 41 0.47
59 14 0.16
60 8 0.09
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (57 bp):
TATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAAT
Found at i:27302368 original size:44 final size:46
Alignment explanation
Indices: 27302305--27302399 Score: 126
Period size: 44 Copynumber: 2.1 Consensus size: 46
27302295 TATTACAGCA
27302305 CCATTCCATTCAACCAAACACAAT-AA-TACT-ATTACAG-CTCTATT
1 CCATTCCATTCAACCAAACA-AATGAATTACTGATTACAGTC-CTATT
* *
27302349 CCATTCCATTTAACCAAACAACTGAATTACTGATTACAGTCCTATT
1 CCATTCCATTCAACCAAACAAATGAATTACTGATTACAGTCCTATT
27302395 CCATT
1 CCATT
27302400 ACAATCTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
43 2 0.04
44 21 0.47
45 4 0.09
46 17 0.38
47 1 0.02
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.32
Consensus pattern (46 bp):
CCATTCCATTCAACCAAACAAATGAATTACTGATTACAGTCCTATT
Found at i:27303348 original size:26 final size:23
Alignment explanation
Indices: 27303298--27303365 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 23
27303288 AAAGTTAAAC
27303298 AAAAAAATTCAAATCTCAATATA
1 AAAAAAATTCAAATCTCAATATA
27303321 AAAAAAATTACTAAATACTCAACT-TAA
1 AAAAAAATT-C-AAAT-CTCAA-TAT-A
27303348 ATTAAAAAATTCAAATCT
1 A--AAAAAATTCAAATCT
27303366 AAATTTAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
23 9 0.24
24 1 0.03
25 4 0.11
26 8 0.21
27 7 0.18
28 1 0.03
29 8 0.21
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAAAAATTCAAATCTCAATATA
Found at i:27303373 original size:26 final size:24
Alignment explanation
Indices: 27303298--27303373 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 24
27303288 AAAGTTAAAC
*
27303298 AAAAAAATTCAAATCTCAATAT-A
1 AAAAAAATTCAAATCTCAATTTAA
*
27303321 AAAAAAATTACTAAATACTCAACTTAA
1 AAAAAAATT-C-AAAT-CTCAATTTAA
*
27303348 ATTAAAAAATTCAAATCTAAATTTAA
1 A--AAAAAATTCAAATCTCAATTTAA
27303374 GCAAAAAGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
23 9 0.21
24 1 0.02
25 4 0.09
26 14 0.33
27 6 0.14
28 1 0.02
29 8 0.19
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAAAAATTCAAATCTCAATTTAA
Found at i:27304068 original size:14 final size:14
Alignment explanation
Indices: 27304049--27304085 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
27304039 TTAATTTATG
27304049 GATTTGATTTTGAT
1 GATTTGATTTTGAT
27304063 GATTTGATTTTGAT
1 GATTTGATTTTGAT
27304077 GATTTGATT
1 GATTTGATT
27304086 AATTTTCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.57
Consensus pattern (14 bp):
GATTTGATTTTGAT
Found at i:27306148 original size:17 final size:19
Alignment explanation
Indices: 27306126--27306160 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
27306116 GAGGTACAAT
27306126 TTTGAAC-ATG-AATTAGC
1 TTTGAACTATGTAATTAGC
27306143 TTTGAACTATGTAATTAG
1 TTTGAACTATGTAATTAG
27306161 AGAGAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (19 bp):
TTTGAACTATGTAATTAGC
Found at i:27310583 original size:29 final size:29
Alignment explanation
Indices: 27310542--27310946 Score: 247
Period size: 29 Copynumber: 14.0 Consensus size: 29
27310532 AACGAAGTCA
* * *
27310542 AAAAT-GTGATTTTTGGATGCTCGAGGGT
1 AAAATGGTAATTTTTGGAAGTTCGAGGGT
*
27310570 AAAATGGTAATTTTTGCAAAGTTCGA-GGT
1 AAAATGGTAATTTTTG-GAAGTTCGAGGGT
* *
27310599 AAAAAAT-GTGA-TTTTGGACA-TTCGAGGGC
1 --AAAATGGTAATTTTTGGA-AGTTCGAGGGT
* *
27310628 AACATGATAATTTTTGGAAAGTTCGAGGG-
1 AAAATGGTAATTTTTGG-AAGTTCGAGGGT
** * *
27310657 AAAAAAGTAAATTTTGGACA-TTCGGGGGT
1 AAAATGGTAATTTTTGGA-AGTTCGAGGGT
*
27310686 AAAATGGTAATTTTTGGAAAGTT-TAGGGT
1 AAAATGGTAATTTTTGG-AAGTTCGAGGGT
* * *
27310715 CAAAAATAG-AATTTTTGGAAATT-TAGGGGT
1 --AAAATGGTAATTTTTGGAAGTTCGA-GGGT
*
27310745 AAAATGGTAA-TTTTGGAAAGTT-TAGGGTT
1 AAAATGGTAATTTTTGG-AAGTTCGAGGG-T
* *
27310774 AAAAT-GTAATTTTTGGAAATT-TAGGGTT
1 AAAATGGTAATTTTTGGAAGTTCGAGGG-T
*
27310802 AAAAATGG-AATTTTTGGAAAGTT-TAGGGTT
1 -AAAATGGTAATTTTTGG-AAGTTCGAGGG-T
* *
27310832 AAAATGG-AATTTTTGGAAATTCAAGGGT
1 AAAATGGTAATTTTTGGAAGTTCGAGGGT
27310860 AAAATGGTAATTTTTGGAAAGTTCGA-GGT
1 AAAATGGTAATTTTTGG-AAGTTCGAGGGT
*
27310889 CAAAAATGG-AATTTTTGGAAGTTCGAGAGT
1 --AAAATGGTAATTTTTGGAAGTTCGAGGGT
* * **
27310919 CAAAAT-ATGATTTTTGGAAAATCGAGGG
1 -AAAATGGTAATTTTTGGAAGTTCGAGGG
27310947 ACAAAATTTA
Statistics
Matches: 308, Mismatches: 38, Indels: 61
0.76 0.09 0.15
Matches are distributed among these distances:
27 4 0.01
28 63 0.20
29 160 0.52
30 63 0.20
31 18 0.06
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGAAGTTCGAGGGT
Found at i:27310613 original size:30 final size:29
Alignment explanation
Indices: 27310541--27310613 Score: 69
Period size: 30 Copynumber: 2.5 Consensus size: 29
27310531 AAACGAAGTC
* *
27310541 AAAAATGTGATTTTTGGATGCTCGAGGGT
1 AAAAATGTGATTTTTGAAAGCTCGAGGGT
* *
27310570 -AAAATGGTAATTTTTGCAAAGTTCGA-GGT
1 AAAAAT-GTGATTTTTG-AAAGCTCGAGGGT
27310599 AAAAAATGTGATTTT
1 -AAAAATGTGATTTT
27310614 GGACATTCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
28 5 0.14
29 12 0.34
30 13 0.37
31 5 0.14
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (29 bp):
AAAAATGTGATTTTTGAAAGCTCGAGGGT
Found at i:27310624 original size:58 final size:58
Alignment explanation
Indices: 27310541--27310962 Score: 380
Period size: 58 Copynumber: 7.3 Consensus size: 58
27310531 AAACGAAGTC
* *** *
27310541 AAAAATGTGATTTTTGGATGCTCGAGGGTAAAATGGTAATTTTTGCAAAGTTCGA-GGT
1 AAAAATGTAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTGGAAAGTT-GAGGGT
* * * * *
27310599 AAAAAATGTGA-TTTTGGACATTCGAGGGCAACATGATAATTTTTGGAAAGTTCGAGGG-
1 -AAAAATGTAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTGGAAAGTT-GAGGGT
* * * * *
27310657 AAAAAAGTAAATTTTGGACATTCGGGGGTAAAATGGTAATTTTTGGAAAGTTTAGGGT
1 AAAAATGTAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTGGAAAGTTGAGGGT
* *
27310715 CAAAAATAG-AATTTTTGGAAATT-TAGGGGTAAAATGGTAA-TTTTGGAAAGTTTAGGGT
1 -AAAAAT-GTAATTTTTGGAAATTCGA-GGGTAAAATGGTAATTTTTGGAAAGTTGAGGGT
* * *
27310773 TAAAATGTAATTTTTGGAAATT-TAGGGTTAAAAATGG-AATTTTTGGAAAGTTTAGGGT
1 AAAAATGTAATTTTTGGAAATTCGAGGG-T-AAAATGGTAATTTTTGGAAAGTTGAGGGT
* * *
27310831 TAAAATGGAATTTTTGGAAATTCAAGGGTAAAATGGTAATTTTTGGAAAGTTCGA-GGT
1 AAAAATGTAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTGGAAAGTT-GAGGGT
* * * * * * *
27310889 CAAAAATGGAATTTTTGGAAGTTCGAGAGTCAAAAT-ATGATTTTTGGAAAATCGAGGG-
1 -AAAAATGTAATTTTTGGAAATTCGAGGGT-AAAATGGTAATTTTTGGAAAGTTGAGGGT
*
27310947 ACAAAATTTAATTTTT
1 A-AAAATGTAATTTTT
27310963 AAGAAGTTTG
Statistics
Matches: 313, Mismatches: 33, Indels: 35
0.82 0.09 0.09
Matches are distributed among these distances:
56 4 0.01
57 44 0.14
58 171 0.55
59 88 0.28
60 6 0.02
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (58 bp):
AAAAATGTAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTGGAAAGTTGAGGGT
Found at i:27310701 original size:87 final size:89
Alignment explanation
Indices: 27310636--27310915 Score: 324
Period size: 87 Copynumber: 3.2 Consensus size: 89
27310626 GCAACATGAT
* *
27310636 AATTTTTGGAAAGTTCGAGGG-AAAAAAGTAAATTTTGGACATTCGGGGGTAAAATGGTAATTTT
1 AATTTTTGGAAAGTTCGAGGGTAAAAAAGTAAATTTTGGAAATTCAGGGGTAAAATGGTAATTTT
* *
27310700 TGGAAAGTTTAGGGTCAAAAATAG
66 TGGAAAGTTGAGGGTCAAAAATGG
* * ** * *
27310724 AATTTTTGGAAATTTAG-GGGTAAAATGGT-AATTTTGGAAAGTTTAGGGTTAAAAT-GTAATTT
1 AATTTTTGGAAAGTTCGAGGGTAAAAAAGTAAATTTTGGAAA-TTCAGGGGTAAAATGGTAATTT
* *
27310786 TTGGAAA-TTTAGGGTTAAAAATGG
65 TTGGAAAGTTGAGGGTCAAAAATGG
* * * * * *
27310810 AATTTTTGGAAAGTT-TAGGGTTAAAATGGAATTTTTGGAAATTCAAGGGTAAAATGGTAATTTT
1 AATTTTTGGAAAGTTCGAGGGTAAAAAAGTAAATTTTGGAAATTCAGGGGTAAAATGGTAATTTT
27310874 TGGAAAGTTCGA-GGTCAAAAATGG
66 TGGAAAGTT-GAGGGTCAAAAATGG
27310898 AATTTTTGG-AAGTTCGAG
1 AATTTTTGGAAAGTTCGAG
27310916 AGTCAAAATA
Statistics
Matches: 161, Mismatches: 23, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
86 48 0.30
87 56 0.35
88 56 0.35
89 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (89 bp):
AATTTTTGGAAAGTTCGAGGGTAAAAAAGTAAATTTTGGAAATTCAGGGGTAAAATGGTAATTTT
TGGAAAGTTGAGGGTCAAAAATGG
Found at i:27310951 original size:29 final size:29
Alignment explanation
Indices: 27310542--27310995 Score: 156
Period size: 29 Copynumber: 15.6 Consensus size: 29
27310532 AACGAAGTCA
* ***
27310542 AAAATGTGATTTTTGGATGCTCGAGGGT-
1 AAAATATGATTTTTGGAAATTCGAGGGTC
* * * *
27310570 AAAATGGTAATTTTTGCAAAGTTCGA-GGTAA
1 AAAAT-ATGATTTTTGGAAA-TTCGAGGGT-C
* *
27310601 AAAATGTGA-TTTTGGACATTCGAGGG-C
1 AAAATATGATTTTTGGAAATTCGAGGGTC
* *
27310628 AACATGATAATTTTTGGAAAGTTCGAGGG--
1 AAAAT-ATGATTTTTGGAAA-TTCGAGGGTC
* * * * *
27310657 AAAAAAGTAAATTTTGGACATTCGGGGGT-
1 AAAATA-TGATTTTTGGAAATTCGAGGGTC
* * *
27310686 AAAATGGTAATTTTTGGAAAGTT-TAGGGTC
1 AAAAT-ATGATTTTTGGAAA-TTCGAGGGTC
*
27310716 AAAA-ATAGAATTTTTGGAAATT-TAGGGGT-
1 AAAATAT-G-ATTTTTGGAAATTCGA-GGGTC
* * * *
27310745 AAAAT-GGTAATTTTGGAAAGTT-TAGGGTT
1 AAAATATG-ATTTTTGGAAA-TTCGAGGGTC
* * * *
27310774 AAAATGTAATTTTTGGAAATT-TAGGGTT
1 AAAATATGATTTTTGGAAATTCGAGGGTC
* *
27310802 AAAA-ATGGAATTTTTGGAAAGTT-TAGGGTT
1 AAAATAT-G-ATTTTTGGAAA-TTCGAGGGTC
* *
27310832 AAAAT-GGAATTTTTGGAAATTCAAGGGT-
1 AAAATATG-ATTTTTGGAAATTCGAGGGTC
* *
27310860 AAAATGGTAATTTTTGGAAAGTTCGA-GGTC
1 AAAAT-ATGATTTTTGGAAA-TTCGAGGGTC
* *
27310890 AAAA-ATGGAATTTTTGGAAGTTCGAGAGTC
1 AAAATAT-G-ATTTTTGGAAATTCGAGGGTC
* *
27310920 AAAATATGATTTTTGGAAAATCGAGGGAC
1 AAAATATGATTTTTGGAAATTCGAGGGTC
* * * * * *
27310949 AAAATTTAATTTTTAAGAAGTTTGAGAGTC
1 AAAATATGATTTTT-GGAAATTCGAGGGTC
*
27310979 AAAATATGATTTCTGGA
1 AAAATATGATTTTTGGA
27310996 CAGTTTAGGG
Statistics
Matches: 333, Mismatches: 59, Indels: 67
0.73 0.13 0.15
Matches are distributed among these distances:
27 5 0.02
28 57 0.17
29 169 0.51
30 95 0.29
31 7 0.02
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (29 bp):
AAAATATGATTTTTGGAAATTCGAGGGTC
Found at i:27310952 original size:59 final size:58
Alignment explanation
Indices: 27310832--27310995 Score: 170
Period size: 59 Copynumber: 2.8 Consensus size: 58
27310822 GTTTAGGGTT
* * * * * * *
27310832 AAAATGGAATTTTTGGAAATTCAAGGGT-AAAATGGTAATTTTTGGAAAGTTCGAGGTC
1 AAAATGGAATTTTTGGAAGTTCGAGAGTCAAAAT-ATGATTTTTGGAAAGATCGAGGAC
27310890 AAAAATGGAATTTTTGGAAGTTCGAGAGTCAAAATATGATTTTTGGAAA-ATCGAGGGAC
1 -AAAATGGAATTTTTGGAAGTTCGAGAGTCAAAATATGATTTTTGGAAAGATCGA-GGAC
** * * *
27310949 AAAATTTAATTTTTAAGAAGTTTGAGAGTCAAAATATGATTTCTGGA
1 AAAATGGAATTTTT-GGAAGTTCGAGAGTCAAAATATGATTTTTGGA
27310996 CAGTTTAGGG
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
58 16 0.18
59 69 0.77
60 5 0.06
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.33
Consensus pattern (58 bp):
AAAATGGAATTTTTGGAAGTTCGAGAGTCAAAATATGATTTTTGGAAAGATCGAGGAC
Found at i:27310983 original size:88 final size:88
Alignment explanation
Indices: 27310686--27310982 Score: 236
Period size: 88 Copynumber: 3.4 Consensus size: 88
27310676 ATTCGGGGGT
* * * * *
27310686 AAAATGGTAATTTTTGGAAAGTT-TAGGGTCAAAAATAGAATTTTTGGAAA-TTTAGGGGT-AAA
1 AAAATGGTAATTTTTAGAAAGTTCGA-GGTCAAAAATGGAATTTTTGGAAAGTTGA-GAGTCAAA
* ** *
27310748 ATGGTAA-TTTTGGAAAGTTTAGGGTT
64 ATGG-AATTTTTGGAAAATCAAGGG-C
* * * * * * *
27310774 AAAAT-GTAATTTTTGGAAATTTAG-GGTTAAAAATGGAATTTTTGGAAAGTTTAGGGTTAAAAT
1 AAAATGGTAATTTTTAGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAAGTTGAGAGTCAAAAT
* *
27310837 GGAATTTTTGGAAATTCAAGGGT
66 GGAATTTTTGGAAAATCAAGGGC
*
27310860 AAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAATGGAATTTTTGG-AAGTTCGAGAGTCAAAA
1 AAAATGGTAATTTTTAGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAAGTT-GAGAGTCAAAA
* *
27310924 TATG-ATTTTTGGAAAATCGAGGGAC
65 T-GGAATTTTTGGAAAATCAAGGG-C
* *
27310949 AAAAT-TTAATTTTTA-AGAAGTTTGAGAGTCAAAA
1 AAAATGGTAATTTTTAGA-AAGTTCGAG-GTCAAAA
27310983 TATGATTTCT
Statistics
Matches: 178, Mismatches: 20, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
86 34 0.19
87 64 0.36
88 67 0.38
89 13 0.07
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (88 bp):
AAAATGGTAATTTTTAGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAAGTTGAGAGTCAAAAT
GGAATTTTTGGAAAATCAAGGGC
Found at i:27311975 original size:28 final size:26
Alignment explanation
Indices: 27311936--27311991 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 26
27311926 CTCTTTTATT
*
27311936 TTTATTAAAATATTATTTAATATTTA
1 TTTATTAAAATATTATTTAATACTTA
*
27311962 TTTATTAATTAATATTGTTTAATACTTA
1 TTTATTAA--AATATTATTTAATACTTA
27311990 TT
1 TT
27311992 AATTGTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 8 0.31
28 18 0.69
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTATTAAAATATTATTTAATACTTA
Found at i:27312593 original size:6 final size:6
Alignment explanation
Indices: 27312582--27312654 Score: 80
Period size: 6 Copynumber: 12.7 Consensus size: 6
27312572 GCTTTTAAGA
* * *
27312582 TAAATT TAAATT TAAA-A TAAATT TAAACT TAAATT TAAATT TAAA-A
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* *
27312628 TAAATT TAAACT TAAA-G TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAA
27312655 AATAAATTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
5 12 0.22
6 43 0.78
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (6 bp):
TAAATT
Found at i:27312601 original size:17 final size:17
Alignment explanation
Indices: 27312575--27312654 Score: 89
Period size: 17 Copynumber: 5.0 Consensus size: 17
27312565 TAATTGGGCT
*
27312575 TTTAAGATAAATTTAAA
1 TTTAAAATAAATTTAAA
27312592 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
*
27312609 -CT----TAAATTTAAA
1 TTTAAAATAAATTTAAA
27312621 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
* *
27312638 CTTAAAGTAAATTTAAA
1 TTTAAAATAAATTTAAA
27312655 AATAAATTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
12 10 0.19
13 1 0.02
16 1 0.02
17 41 0.77
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:27312616 original size:29 final size:29
Alignment explanation
Indices: 27312582--27312662 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
27312572 GCTTTTAAGA
27312582 TAAATTTAAATTTAAAATAAATTTAAACT
1 TAAATTTAAATTTAAAATAAATTTAAACT
27312611 TAAATTTAAATTTAAAATAAATTTAAACT
1 TAAATTTAAATTTAAAATAAATTTAAACT
*
27312640 TAAA-GTAAATTTAAAAATAAATT
1 TAAATTTAAATTT-AAAATAAATT
27312663 AAAGCTTGAG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 7 0.14
29 43 0.86
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (29 bp):
TAAATTTAAATTTAAAATAAATTTAAACT
Found at i:27312660 original size:17 final size:17
Alignment explanation
Indices: 27312576--27312665 Score: 73
Period size: 17 Copynumber: 5.6 Consensus size: 17
27312566 AATTGGGCTT
* *
27312576 TTAAGATAAATTTAAAT
1 TTAAAATAAATTTAAAA
27312593 TTAAAATAAATTT-AAA
1 TTAAAATAAATTTAAAA
* *
27312609 CT----TAAATTTAAAT
1 TTAAAATAAATTTAAAA
*
27312622 TTAAAATAAATTTAAAC
1 TTAAAATAAATTTAAAA
*
27312639 TTAAAGTAAATTTAAAA
1 TTAAAATAAATTTAAAA
* *
27312656 ATAAATTAAA
1 TTAAAATAAA
27312666 GCTTGAGCCT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
12 7 0.12
13 3 0.05
16 3 0.05
17 45 0.78
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
TTAAAATAAATTTAAAA
Found at i:27313417 original size:209 final size:209
Alignment explanation
Indices: 27313045--27313840 Score: 919
Period size: 201 Copynumber: 3.8 Consensus size: 209
27313035 AGAAAAACGG
* * * * * * * *
27313045 ATTTGGTTCACTTCTCTACATCTCATCAGGAAGATGACCATGTTATTGCTTCGACCTGCTTTTTC
1 ATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTTA
* * * * * * * *
27313110 GTATCTCATCGGGAAGCTGTGGTTTGAAG-TTTCGCTCGCATCAAGCTTCGATTTCTTTGATTTG
66 GTATCTCATCAGGAAGCTGGGGTTCGAAGATTT-ACTCACTTCGAGCCT-GATTTCTTTGATTTG
* * ** *
27313174 GTCTACTTCTCAATATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTATGT
129 GTATACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTATAT
*
27313239 CTCATCAGGAAGACGG
194 CTCATCAGGAAGACGA
* * ** * * ** * *
27313255 ATCTGGTTCACTTCTCTGTATCTCATCAAGAAGGTAACCGCTTTATTGCTTTGACCTACTTCTTA
1 ATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTTA
** * * * * *
27313320 GTATCTCATTTGGAAGTTGGGGTTCAAAGATTTGCTCACTTCGAGCCTGGTTTCATTGATTTGGT
66 GTATCTCATCAGGAAGCTGGGGTTCGAAGATTTACTCACTTCGAGCCTGATTTCTTTGATTTGGT
* * *
27313385 TTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCGCTTGCTTCAATCCACTTCTCTATATCT
131 ATACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTATATCT
* *
27313450 CATTAGGAAGACAA
196 CATCAGGAAGACGA
*
27313464 ATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCA
1 ATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTTA
* * * *
27313529 GTATCTCATCAGGAAGTTGAGGTTTTGAAGATTTACTCACTT------TGA--TC-TTGAGTTGG
66 GTATCTCATCAGGAAGCTG-GGGTTCGAAGATTTACTCACTTCGAGCCTGATTTCTTTGATTTGG
* * * * *
27313585 TATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTTTGTATC
130 TATACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTATATC
27313650 TCATCAGGAAGACGA
195 TCATCAGGAAGACGA
* * *
27313665 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCCGCTTCTAA
1 ATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTTA
* *
27313730 GTATCTCATCAGGAAGCTGGGGTTCGAAGATTCACTCACTTTGAGCCTTGATTTCTTTGATTTGG
66 GTATCTCATCAGGAAGCTGGGGTTCGAAGATTTACTCACTTCGAGCC-TGATTTCTTTGATTTGG
* * * *
27313795 TATACTTCTCTGTATCTTATCAGGAAGACGACCGAATCACTTGTTT
130 TATACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTT
27313841 TGGATAATTG
Statistics
Matches: 498, Mismatches: 76, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
200 19 0.04
201 158 0.32
202 2 0.00
204 2 0.00
207 3 0.01
209 157 0.32
210 154 0.31
211 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (209 bp):
ATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTTA
GTATCTCATCAGGAAGCTGGGGTTCGAAGATTTACTCACTTCGAGCCTGATTTCTTTGATTTGGT
ATACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTATATCT
CATCAGGAAGACGA
Found at i:27322768 original size:29 final size:28
Alignment explanation
Indices: 27322735--27323326 Score: 313
Period size: 29 Copynumber: 20.4 Consensus size: 28
27322725 GAAAAATGCG
*
27322735 ATTTTTGGATGCTTGAGGGTAAAATGGTA
1 ATTTTTGGAAG-TTGAGGGTAAAATGGTA
*
27322764 ATTTTTGGAAAGTT-AGGGTAAAAAAT-GTG
1 ATTTTTGG-AAGTTGAGGGT--AAAATGGTA
* *
27322793 A-TTTTAGACA-TATGAGAGTAAAATGGTA
1 ATTTTTGGA-AGT-TGAGGGTAAAATGGTA
*
27322821 ATTTTTGGAAAGTTAGGGGGTAACAAT-GTA
1 ATTTTTGG-AAGTT-GAGGGTAA-AATGGTA
* * *
27322851 AATTTTAGACA-TTCGAGTGTAAAATGGTA
1 ATTTTTGGA-AGTT-GAGGGTAAAATGGTA
**
27322880 ATTTTTGGAAGTTCGA-GGTAAAA-AATA
1 ATTTTTGGAAGTT-GAGGGTAAAATGGTA
* *
27322907 GATTTTTGGACATTTGAGGGTAAAAAGGTA
1 -ATTTTTGGA-AGTTGAGGGTAAAATGGTA
* *
27322937 ATTTTTGGAAACTTCAGGGTCAAAAATGG-A
1 ATTTTTGG-AAGTTGAGGGT--AAAATGGTA
* * *
27322967 ATTTTTGGAAATTTAAGGTTAAAATGGTA
1 ATTTTTGG-AAGTTGAGGGTAAAATGGTA
*
27322996 ATTTTTGGAAAGTTTAGGGTCAAAAATGG-A
1 ATTTTTGG-AAGTTGAGGGT--AAAATGGTA
* *
27323026 ATTTTTAGAAATTTGAGGGTAAAATGGTA
1 ATTTTT-GGAAGTTGAGGGTAAAATGGTA
*
27323055 ATTTTTGGAAGTTCGA-GGTCAAAAAT-GAA
1 ATTTTTGGAAGTT-GAGGGT--AAAATGGTA
* * *
27323084 ATTTTTGGAAACTTAAGTGTAAAATGGTA
1 ATTTTTGG-AAGTTGAGGGTAAAATGGTA
** *
27323113 ACCTTT-GAAGAATTCAGGGTTAAAAATGG-A
1 ATTTTTGGAAG--TTGAGGG-T-AAAATGGTA
*
27323143 ATTTTTGGAAATTCGAGGGTAAAATGGTA
1 ATTTTTGGAAGTT-GAGGGTAAAATGGTA
** *
27323172 ATTTTTAAAAAGTT-TGGGTCAAAATGG-A
1 ATTTTT-GGAAGTTGAGGGT-AAAATGGTA
* *
27323200 ATTTTTGAAAGTTTAGGGATAAAAATGG-A
1 ATTTTTGGAAGTTGAGGG-T-AAAATGGTA
* *
27323229 ATTTTTGGAAATTTAAGGGTAAAATGGTA
1 ATTTTTGG-AAGTTGAGGGTAAAATGGTA
* * *
27323258 ATTTTTAGAAAGTTCAAGGTCAAAAATGG-A
1 ATTTTT-GGAAGTTGAGGGT--AAAATGGTA
* * *
27323288 ATTTTTGGAAGTTCGGGGGTTAAAAT-ATG
1 ATTTTTGGAAGTT-GAGGG-TAAAATGGTA
27323317 ATTTTTGGAA
1 ATTTTTGGAA
27323327 AATTTAGGGG
Statistics
Matches: 442, Mismatches: 69, Indels: 104
0.72 0.11 0.17
Matches are distributed among these distances:
27 17 0.04
28 92 0.21
29 193 0.44
30 105 0.24
31 35 0.08
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.35
Consensus pattern (28 bp):
ATTTTTGGAAGTTGAGGGTAAAATGGTA
Found at i:27322873 original size:59 final size:58
Alignment explanation
Indices: 27322747--27323297 Score: 455
Period size: 59 Copynumber: 9.5 Consensus size: 58
27322737 TTTTGGATGC
* *
27322747 TTGAGGGTAAAATGGTAATTTTTGGAAAGTTAGGGTAAAAAATGTGA-TTTTAGACAT
1 TTGAGGGTAAAATGGTAATTTTTGGAAAGTTAGGGTCAAAAATGTAATTTTTAGACAT
* * * *
27322804 ATGAGAGTAAAATGGTAATTTTTGGAAAGTTAGGGGGT-AACAATGTAAATTTTAGACAT
1 TTGAGGGTAAAATGGTAATTTTTGGAAAGTTA--GGGTCAAAAATGTAATTTTTAGACAT
* * * * *
27322863 TCGAGTGTAAAATGGTAATTTTTGG-AAGTTCGAGGT-AAAAA-ATAGATTTTTGGACAT
1 TTGAGGGTAAAATGGTAATTTTTGGAAAGTTAG-GGTCAAAAATGTA-ATTTTTAGACAT
* * * * *
27322920 TTGAGGGTAAAAAGGTAATTTTTGGAAACTTCAGGGTCAAAAATGGAATTTTTGGAAAT
1 TTGAGGGTAAAATGGTAATTTTTGGAAAGTT-AGGGTCAAAAATGTAATTTTTAGACAT
* * * *
27322979 TTAAGGTTAAAATGGTAATTTTTGGAAAGTTTAGGGTCAAAAATGGAATTTTTAGAAAT
1 TTGAGGGTAAAATGGTAATTTTTGGAAAG-TTAGGGTCAAAAATGTAATTTTTAGACAT
* * * * *
27323038 TTGAGGGTAAAATGGTAATTTTTGG-AAGTTCGAGGTCAAAAATGAAATTTTTGGAAAC
1 TTGAGGGTAAAATGGTAATTTTTGGAAAGTTAG-GGTCAAAAATGTAATTTTTAGACAT
* * ** * * * * *
27323096 TTAAGTGTAAAATGGTAACCTTT-GAAGAATTCAGGGTTAAAAATGGAATTTTTGGAAAT
1 TTGAGGGTAAAATGGTAATTTTTGGAA-AGTT-AGGGTCAAAAATGTAATTTTTAGACAT
* ** * * *
27323155 TCGAGGGTAAAATGGTAATTTTTAAAAAGTTTGGGTC-AAAATGGAATTTTT-GAAAGT
1 TTGAGGGTAAAATGGTAATTTTTGGAAAGTTAGGGTCAAAAATGTAATTTTTAGACA-T
* * *
27323212 TT-AGGGATAAAAATGG-AATTTTTGGAAATTTAAGGGT--AAAATGGTAATTTTTAGAAAG
1 TTGAGGG-T-AAAATGGTAATTTTTGGAAAGTT-AGGGTCAAAAAT-GTAATTTTTAGACAT
* *
27323270 TTCAAGGTCAAAAATGG-AATTTTTGGAA
1 TTGAGGGT--AAAATGGTAATTTTTGGAA
27323298 GTTCGGGGGT
Statistics
Matches: 414, Mismatches: 57, Indels: 44
0.80 0.11 0.09
Matches are distributed among these distances:
56 11 0.03
57 107 0.26
58 91 0.22
59 199 0.48
60 6 0.01
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (58 bp):
TTGAGGGTAAAATGGTAATTTTTGGAAAGTTAGGGTCAAAAATGTAATTTTTAGACAT
Found at i:27323321 original size:59 final size:60
Alignment explanation
Indices: 27322871--27323377 Score: 170
Period size: 59 Copynumber: 8.6 Consensus size: 60
27322861 ATTCGAGTGT
* * * * *
27322871 AAAATGGTAATTTTTGGAAGTTCGA-GG-TAAAAAATAGATTTTTGGACATTTGAG-GGT-A
1 AAAATGG-AATTTTTGGAAGTTCGAGGGTTAAAATAT-GATTTTTAGAAAATTCAGAGGTCA
* * * * *
27322929 AAAA-GGTAATTTTTGGAAACTTC-AGGGTCAAAA-ATGGAATTTTT-GGAAATTTA-AGGT-T
1 AAAATGG-AATTTTTGG-AAGTTCGAGGGTTAAAATAT-G-ATTTTTAGAAAATTCAGAGGTCA
* * * *
27322987 AAAATGGTAATTTTTGGAAAGTT-TAGGGTCAAAA-ATGGAATTTTTAGAAATTTGAG-GGT--
1 AAAATGG-AATTTTTGG-AAGTTCGAGGGTTAAAATAT-G-ATTTTTAGAAAATTCAGAGGTCA
* * *
27323046 AAAATGGTAATTTTTGGAAGTTCGA-GGTCAAAA-ATGAAATTTTTGGAAACTT-A-AGTGT--
1 AAAATGG-AATTTTTGGAAGTTCGAGGGTTAAAATATG--ATTTTTAGAAAATTCAGAG-GTCA
** *
27323104 AAAATGGTAACCTTT-GAAGAATTC-AGGGTTAAAA-ATGGAATTTTT-GGAAATTC-GAGGGT-
1 AAAATGG-AATTTTTGGAAG--TTCGAGGGTTAAAATAT-G-ATTTTTAGAAAATTCAGA-GGTC
27323163 -
60 A
** * * * * *
27323163 AAAATGGTAATTTTTAAAAAGTT--TGGGTCAAAAT-GGAATTTTT-GAAAGTTTAG-GGAT-A
1 AAAATGG-AATTTTT-GGAAGTTCGAGGGTTAAAATATG-ATTTTTAGAAAATTCAGAGG-TCA
* ** * * *
27323221 AAAATGGAATTTTTGGAAATTTAAGGG-TAAAATGGTAATTTTTAGAAAGTTCA-AGGTCA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTTAAAAT-ATGATTTTTAGAAAATTCAGAGGTCA
* * * *
27323280 AAAATGGAATTTTTGGAAGTTCGGGGGTTAAAATATGATTTTTGGAAAATTTAGGGGTC-
1 AAAATGGAATTTTTGGAAGTTCGAGGGTTAAAATATGATTTTTAGAAAATTCAGAGGTCA
* *
27323339 AAAATGAAATTTTTAAGAAGTTCGAGGGTTAAAATATGA
1 AAAATGGAATTTTT-GGAAGTTCGAGGGTTAAAATATGA
27323378 GTTCTGGACA
Statistics
Matches: 363, Mismatches: 50, Indels: 70
0.75 0.10 0.14
Matches are distributed among these distances:
56 6 0.02
57 46 0.13
58 101 0.28
59 164 0.45
60 43 0.12
61 3 0.01
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (60 bp):
AAAATGGAATTTTTGGAAGTTCGAGGGTTAAAATATGATTTTTAGAAAATTCAGAGGTCA
Found at i:27324456 original size:28 final size:26
Alignment explanation
Indices: 27324417--27324472 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 26
27324407 CTCTTTTATT
*
27324417 TTTATTAAAATATTATTTAATATTTA
1 TTTATTAAAATATTATTTAATACTTA
*
27324443 TTTATTAATTAATATTGTTTAATACTTA
1 TTTATTAA--AATATTATTTAATACTTA
27324471 TT
1 TT
27324473 AATTGTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 8 0.31
28 18 0.69
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTATTAAAATATTATTTAATACTTA
Found at i:27325094 original size:6 final size:6
Alignment explanation
Indices: 27325083--27325138 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
27325073 GCTTTTAAGA
* * * *
27325083 TAAATT TAAATT TAAA-A TAAATT TAAAAT TAAATT TAAACT TAAA-G
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
27325129 TAAATT TAAA
1 TAAATT TAAA
27325139 AATAAATTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
5 8 0.20
6 33 0.80
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (6 bp):
TAAATT
Found at i:27325102 original size:17 final size:17
Alignment explanation
Indices: 27325076--27325115 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
27325066 TAATTGGGCT
*
27325076 TTTAAGATAAATTTAAA
1 TTTAAAATAAATTTAAA
27325093 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
*
27325110 ATTAAA
1 TTTAAA
27325116 TTTAAACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:27325117 original size:29 final size:29
Alignment explanation
Indices: 27325082--27325146 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
27325072 GGCTTTTAAG
*
27325082 ATAAATTTAAATTTAAAATAAATTTAAAA
1 ATAAATTTAAACTTAAAATAAATTTAAAA
* *
27325111 TTAAATTTAAACTTAAAGTAAATTTAAAA
1 ATAAATTTAAACTTAAAATAAATTTAAAA
27325140 ATAAATT
1 ATAAATT
27325147 AAAGCTTGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (29 bp):
ATAAATTTAAACTTAAAATAAATTTAAAA
Found at i:27325138 original size:11 final size:11
Alignment explanation
Indices: 27325089--27325121 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
27325079 AAGATAAATT
27325089 TAAATTTAAAA
1 TAAATTTAAAA
27325100 TAAATTTAAAA
1 TAAATTTAAAA
27325111 TTAAATTTAAA
1 -TAAATTTAAA
27325122 CTTAAAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:27325144 original size:12 final size:12
Alignment explanation
Indices: 27325089--27325146 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 12
27325079 AAGATAAATT
27325089 TAAATTT-AAAA
1 TAAATTTAAAAA
*
27325100 TAAATTTAAAAT
1 TAAATTTAAAAA
27325112 TAAATTTAAACTTAAA
1 TAAATTT-AA---AAA
27325128 GTAAATTTAAAAA
1 -TAAATTTAAAAA
27325141 TAAATT
1 TAAATT
27325147 AAAGCTTGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
11 7 0.18
12 16 0.41
13 5 0.13
16 4 0.10
17 7 0.18
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (12 bp):
TAAATTTAAAAA
Found at i:27330194 original size:21 final size:21
Alignment explanation
Indices: 27330164--27330216 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
27330154 CAGATTATTC
*
27330164 CCTTCACTCATCATTCTCTC-T
1 CCTTCTCTCAT-ATTCTCTCAT
*
27330185 TCTTCTCTCA-ATTCTCTCAT
1 CCTTCTCTCATATTCTCTCAT
27330205 CCTTCCTCTCAT
1 CCTT-CTCTCAT
27330217 TTTCCATCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 8 0.31
20 4 0.15
21 14 0.54
ACGTcount: A:0.13, C:0.42, G:0.00, T:0.45
Consensus pattern (21 bp):
CCTTCTCTCATATTCTCTCAT
Found at i:27332766 original size:21 final size:22
Alignment explanation
Indices: 27332721--27332766 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
27332711 CAATTTCAAG
*
27332721 ATAAAATATGACATGCAAATAA
1 ATAAAATATCACATGCAAATAA
27332743 ATAAAATATCA-ATG-AAATTAA
1 ATAAAATATCACATGCAAA-TAA
27332764 ATA
1 ATA
27332767 TAAAAGAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 9 0.41
22 10 0.45
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.26
Consensus pattern (22 bp):
ATAAAATATCACATGCAAATAA
Found at i:27332829 original size:26 final size:26
Alignment explanation
Indices: 27332782--27332833 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
27332772 GAGTAACCCA
*
27332782 TAAATAAATAATAAGTAATAATAAAT
1 TAAATAAATAATAAATAATAATAAAT
* **
27332808 TAAATAAATATTAAATGCTAATAAAT
1 TAAATAAATAATAAATAATAATAAAT
27332834 AATAATAGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (26 bp):
TAAATAAATAATAAATAATAATAAAT
Found at i:27333009 original size:15 final size:15
Alignment explanation
Indices: 27332982--27333034 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
27332972 AGTACAATTT
27332982 AATAAGCAAATATATA
1 AATAA-CAAATATATA
* *
27332998 AATAATAAATATATG
1 AATAACAAATATATA
27333013 AATAACAAATAATAATA
1 AATAACAAAT-AT-ATA
27333030 AATAA
1 AATAA
27333035 AATAAATAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 17 0.55
16 7 0.23
17 7 0.23
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (15 bp):
AATAACAAATATATA
Found at i:27333040 original size:9 final size:10
Alignment explanation
Indices: 27332990--27333043 Score: 56
Period size: 11 Copynumber: 5.2 Consensus size: 10
27332980 TTAATAAGCA
27332990 AATATATAAAT
1 AATA-ATAAAT
*
27333001 AATAAATATAT
1 AAT-AATAAAT
*
27333012 GAATAACAAAT
1 -AATAATAAAT
27333023 AATAATAAAT
1 AATAATAAAT
27333033 AA-AATAAAT
1 AATAATAAAT
27333042 AA
1 AA
27333044 CTAAAATCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 9 0.24
10 11 0.30
11 13 0.35
12 4 0.11
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
AATAATAAAT
Found at i:27333041 original size:19 final size:22
Alignment explanation
Indices: 27332990--27333048 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 22
27332980 TTAATAAGCA
*
27332990 AATATATAAATAATAAATATATG
1 AATA-ATAAATAATAAATAAATG
*
27333013 AATAACAAATAAT-AATAAAT-
1 AATAATAAATAATAAATAAATG
27333033 AA-AATAAATAACTAAA
1 AATAATAAATAA-TAAA
27333049 ATCATGCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 8 0.26
20 3 0.10
21 8 0.26
22 8 0.26
23 4 0.13
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (22 bp):
AATAATAAATAATAAATAAATG
Found at i:27334305 original size:15 final size:17
Alignment explanation
Indices: 27334285--27334317 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27334275 GCAATTTTAT
27334285 TTGGG-TTGT-AACAAA
1 TTGGGTTTGTAAACAAA
27334300 TTGGGTTTGTAAACAAA
1 TTGGGTTTGTAAACAAA
27334317 T
1 T
27334318 AAATGAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 4 0.25
17 7 0.44
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (17 bp):
TTGGGTTTGTAAACAAA
Found at i:27334748 original size:42 final size:42
Alignment explanation
Indices: 27334622--27334920 Score: 282
Period size: 39 Copynumber: 7.2 Consensus size: 42
27334612 GGTGTTGTAA
* * *
27334622 CTTCAATATGCCCCTCTGGATTACGGGTAAGAGATTGGATGAT-G
1 CTTCAATCTG-CCCTCTTG-TTA-GGGTAAGAGATTGGATGGTAG
* * *
27334666 ACTTTAATCTGCCCTCTAGATTAGGGTAAGAGATTAGATGGTAG
1 -CTTCAATCTGCCCTCTTG-TTAGGGTAAGAGATTGGATGGTAG
* * * * *
27334710 CTTCAATTTTCTCTCTTATTTA-GGTAAGAGATTGGATGGTGG
1 CTTCAATCTGCCCTCTT-GTTAGGGTAAGAGATTGGATGGTAG
*
27334752 CTTCAATCTGCCCTCTTGTTAGGGTAAAAGATTGGAT-G--G
1 CTTCAATCTGCCCTCTTGTTAGGGTAAGAGATTGGATGGTAG
* * *
27334791 CTTCAATCTGCCC-CATGGTTGGGGTAAGAGATTAGATGGT-G
1 CTTCAATCTGCCCTC-TTGTTAGGGTAAGAGATTGGATGGTAG
*
27334832 TCTTCAATCTGCCCTCTTGTTAGGGTAAAAGATTGGAT-G-A-
1 -CTTCAATCTGCCCTCTTGTTAGGGTAAGAGATTGGATGGTAG
*
27334872 CTTCAATCTGCCCTCTTGTTAGGGTAAAAGATTGGAT-G-A-
1 CTTCAATCTGCCCTCTTGTTAGGGTAAGAGATTGGATGGTAG
27334911 CTTCAATCTG
1 CTTCAATCTG
27334921 TCCCATGGTC
Statistics
Matches: 219, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
38 1 0.00
39 81 0.37
40 1 0.00
41 6 0.03
42 77 0.35
43 33 0.15
44 12 0.05
45 8 0.04
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (42 bp):
CTTCAATCTGCCCTCTTGTTAGGGTAAGAGATTGGATGGTAG
Found at i:27334897 original size:81 final size:81
Alignment explanation
Indices: 27334621--27334920 Score: 322
Period size: 81 Copynumber: 3.7 Consensus size: 81
27334611 TGGTGTTGTA
* * * *
27334621 ACTTCAATATGCCCCTCTGGATTACGGGTAAGAGATTGGATGATGACTTTAATCTGCCCTCTAGA
1 ACTTCAATCTG-CCCTCTGG-TTA-GGGTAAGAGATTGGATGGTGACTTCAATCTGCCCTCTTG-
* *
27334686 TTAGGGTAAGAGATTAGATGG
62 TTAGGGTAAAAGATTGGAT-G
* * * ** *
27334707 TAGCTTCAATTTTCTCTCTTATTTA-GGTAAGAGATTGGATGGTGGCTTCAATCTGCCCTCTTGT
1 -A-CTTCAATCTGCCCTC-TGGTTAGGGTAAGAGATTGGATGGTGACTTCAATCTGCCCTCTTGT
27334771 TAGGGTAAAAGATTGGATG
63 TAGGGTAAAAGATTGGATG
* * * *
27334790 GCTTCAATCTGCCC-CATGGTTGGGGTAAGAGATTAGATGGTGTCTTCAATCTGCCCTCTTGTTA
1 ACTTCAATCTGCCCTC-TGGTTAGGGTAAGAGATTGGATGGTGACTTCAATCTGCCCTCTTGTTA
27334854 GGGTAAAAGATTGGATG
65 GGGTAAAAGATTGGATG
* *
27334871 ACTTCAATCTGCCCTCTTGTTAGGGTAAAAGATTGGA---TGACTTCAATCTG
1 ACTTCAATCTGCCCTCTGGTTAGGGTAAGAGATTGGATGGTGACTTCAATCTG
27334921 TCCCATGGTC
Statistics
Matches: 182, Mismatches: 27, Indels: 17
0.81 0.12 0.08
Matches are distributed among these distances:
78 12 0.07
80 4 0.02
81 96 0.53
82 1 0.01
83 1 0.01
84 17 0.09
85 34 0.19
87 8 0.04
88 9 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (81 bp):
ACTTCAATCTGCCCTCTGGTTAGGGTAAGAGATTGGATGGTGACTTCAATCTGCCCTCTTGTTAG
GGTAAAAGATTGGATG
Found at i:27334937 original size:39 final size:39
Alignment explanation
Indices: 27334752--27334949 Score: 202
Period size: 39 Copynumber: 5.0 Consensus size: 39
27334742 TGGATGGTGG
* * *
27334752 CTTCAATCTGCCCTCTTGTTAGGGTAAAAGATTGGATGG
1 CTTCAATCTGCCCTCATGGTAGGGTAAAAGATTGGATGA
* * * *
27334791 CTTCAATCTGCCC-CATGGTTGGGGTAAGAGATTAGATGGTGT
1 CTTCAATCTGCCCTCATGG-TAGGGTAAAAGATT-G--GATGA
* *
27334833 CTTCAATCTGCCCTCTTGTTAGGGTAAAAGATTGGATGA
1 CTTCAATCTGCCCTCATGGTAGGGTAAAAGATTGGATGA
* *
27334872 CTTCAATCTGCCCTCTTGTTAGGGTAAAAGATTGGATGA
1 CTTCAATCTGCCCTCATGGTAGGGTAAAAGATTGGATGA
* * *
27334911 CTTCAATCTGTCC-CATGGTCGAGGTAAGGAGATTGGATG
1 CTTCAATCTGCCCTCATGGTAG-GGTAA-AAGATTGGATG
27334950 GGATGATGTA
Statistics
Matches: 135, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
38 8 0.06
39 84 0.62
40 11 0.08
41 1 0.01
42 28 0.21
43 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (39 bp):
CTTCAATCTGCCCTCATGGTAGGGTAAAAGATTGGATGA
Found at i:27357894 original size:15 final size:15
Alignment explanation
Indices: 27357874--27357903 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27357864 AACATACATA
27357874 CAATAAAATGCAAAG
1 CAATAAAATGCAAAG
27357889 CAATAAAATGCAAAG
1 CAATAAAATGCAAAG
27357904 GATTACAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (15 bp):
CAATAAAATGCAAAG
Found at i:27358804 original size:14 final size:13
Alignment explanation
Indices: 27358777--27358808 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
27358767 TAATATAATT
27358777 AAAATAAAAAATA
1 AAAATAAAAAATA
27358790 AAAATAAAAACATA
1 AAAATAAAAA-ATA
27358804 AAAAT
1 AAAAT
27358809 GCCACATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:27358872 original size:15 final size:15
Alignment explanation
Indices: 27358852--27358914 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 15
27358842 TTAATAAAGC
27358852 AAATATATAAATAAT
1 AAATATATAAATAAT
* *
27358867 AAATATATGAATAAC
1 AAATATATAAATAAT
27358882 AAATA-AT-AATAAT
1 AAATATATAAATAAT
*
27358895 AAATAAAATAAATAACT
1 AAAT-ATATAAATAA-T
27358912 AAA
1 AAA
27358915 ATTATGCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
13 9 0.22
14 3 0.07
15 20 0.49
16 5 0.12
17 4 0.10
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (15 bp):
AAATATATAAATAAT
Found at i:27358908 original size:13 final size:12
Alignment explanation
Indices: 27358860--27358916 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 12
27358850 GCAAATATAT
27358860 AAATAATAAATA
1 AAATAATAAATA
*
27358872 TATGAATAACAAATA
1 -A--AATAATAAATA
27358887 ATAATAATAAATA
1 A-AATAATAAATA
*
27358900 AAATAAATAACTA
1 AAAT-AATAAATA
27358913 AAAT
1 AAAT
27358917 TATGCAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
12 3 0.08
13 23 0.62
14 1 0.03
15 10 0.27
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (12 bp):
AAATAATAAATA
Found at i:27358988 original size:35 final size:33
Alignment explanation
Indices: 27358899--27359002 Score: 117
Period size: 30 Copynumber: 3.1 Consensus size: 33
27358889 AATAATAAAT
*
27358899 AAAATAAATAACTAAAATTATGCAAATTAAACAAA
1 AAAAT-AATAA-TAAAATCATGCAAATTAAACAAA
*
27358934 TAAAAT-A-AAT--AATCCTGCAAATTAAACACAA
1 -AAAATAATAATAAAATCATGCAAATTAAACA-AA
27358965 AAAATAATAATTAAAATCATGCAAATTAAACAAA
1 AAAATAATAA-TAAAATCATGCAAATTAAACAAA
27358999 AAAA
1 AAAA
27359003 ATGTAGAGGG
Statistics
Matches: 59, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
30 21 0.36
31 3 0.05
32 3 0.05
33 3 0.05
34 7 0.12
35 17 0.29
36 5 0.08
ACGTcount: A:0.64, C:0.11, G:0.03, T:0.22
Consensus pattern (33 bp):
AAAATAATAATAAAATCATGCAAATTAAACAAA
Found at i:27359003 original size:35 final size:34
Alignment explanation
Indices: 27358899--27359004 Score: 121
Period size: 35 Copynumber: 3.1 Consensus size: 34
27358889 AATAATAAAT
* *
27358899 AAAATAAATAACTAAAATTATGCAAATTAAACAAAT
1 AAAAT-AATAA-TAAAATCATGCAAATTAAACAAAA
* *
27358935 AAAAT-A-AAT--AATCCTGCAAATTAAACACAA
1 AAAATAATAATAAAATCATGCAAATTAAACAAAA
27358965 AAAATAATAATTAAAATCATGCAAATTAAACAAAA
1 AAAATAATAA-TAAAATCATGCAAATTAAACAAAA
27359000 AAAAT
1 AAAAT
27359005 GTAGAGGGAC
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
30 22 0.37
31 1 0.02
32 3 0.05
33 3 0.05
34 1 0.02
35 24 0.41
36 5 0.08
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (34 bp):
AAAATAATAATAAAATCATGCAAATTAAACAAAA
Found at i:27360163 original size:16 final size:17
Alignment explanation
Indices: 27360142--27360175 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27360132 TTGCAATTTT
27360142 ATTT-GGATTCTAAACA
1 ATTTGGGATTCTAAACA
*
27360158 ATTTGGGATTGTAAACA
1 ATTTGGGATTCTAAACA
27360175 A
1 A
27360176 ATAAATGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (17 bp):
ATTTGGGATTCTAAACA
Found at i:27361745 original size:147 final size:146
Alignment explanation
Indices: 27361237--27361865 Score: 833
Period size: 149 Copynumber: 4.3 Consensus size: 146
27361227 TTACTACTTC
* *
27361237 ACTTTAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATTAAAACTTTGTTTAAAAATTTAA
1 ACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTAAAAATTTAA
* * ** *
27361302 ACTTTTTCTTTAAAATCACAAAAAATCATATTTTTATTTTT-TTAATCTAAATTTTCGTTCTTTT
66 ACTTTTTCTTTAAAATGACTAAAAA-CATATTTTTATTTTTAAAAATCTAAACTTTC--TCTTTT
* *
27361366 TAATAAAAAATCACTACTTT
128 TAA-AGAAAATCACTATTTT
* * * **
27361386 ACTTAAAAATTC-AAATTTTTATATCGAAATAGTTAAAAAAATCAAAATTTTGTTTGGAAATTTA
1 ACTTAAAAA-TCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTAAAAATTTA
* * *
27361450 AA-ATTTTATTTAAAATGACTAAAAACATATTTTTACTTTTAAAAATCTAAACTTT-TCCTTTTT
65 AACTTTTTCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTAAACTTTCT-C-TTTT
27361513 TAAAAAAGAAAATCACTATTTT
128 T---AAAGAAAATCACTATTTT
* **
27361535 ACTTAAAATTTTAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTAAAAATTTAA
1 ACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTAAAAATTTAA
27361600 ACTTTTTCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAAAT-TAAACTTTCTCTTTTTA
66 ACTTTTTCTTTAAAATGACTAAAAACATATTTTTATTTTT-AAAAATCTAAACTTTCTCTTTTTA
27361664 AAGAAAATCACTATTTT
130 AAGAAAATCACTATTTT
* * *
27361681 ACTTAAAAAATCCAAACTTTTATTTCGGAATAGTTAAAAAAATCAAAACTTTATTTAAAAATTTA
1 ACTT-AAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTAAAAATTTA
* *
27361746 AATTTTTTCTTTAAAATGACTAAAAGCATA-TTTTATTTTTAAAAATCTAAAC-TTCTCTTTTTA
65 AACTTTTTCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTA
*
27361809 AA-AAAATCAATATTTT
130 AAGAAAATCACTATTTT
* * *
27361825 TCTTAAAACTCAAAACTTTTATTTCGAAATTGTTAAAAAAA
1 ACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAA
27361866 AAATCAAAAC
Statistics
Matches: 427, Mismatches: 40, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
143 33 0.08
144 16 0.04
145 20 0.05
146 38 0.09
147 102 0.24
148 31 0.07
149 132 0.31
150 48 0.11
151 7 0.02
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.43
Consensus pattern (146 bp):
ACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTAAAAATTTAA
ACTTTTTCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTAA
AGAAAATCACTATTTT
Found at i:27362294 original size:3 final size:3
Alignment explanation
Indices: 27362286--27362354 Score: 102
Period size: 3 Copynumber: 23.0 Consensus size: 3
27362276 GAAACCCTAA
*
27362286 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** *
27362334 AAT AGC AAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
27362355 TTGGGCCTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27363419 original size:42 final size:42
Alignment explanation
Indices: 27362821--27363427 Score: 723
Period size: 42 Copynumber: 14.4 Consensus size: 42
27362811 TTATGCCTAA
* * * * *
27362821 GCCTCTAAAGGCAATAAAAAGTAAATGGACCTCTACACCTAG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGG
* * *
27362863 GTCTCTAAATGCGATAAAAAGTAAATGGACCTCCACACTTGG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGG
* * *
27362905 GCCTCTAAATGCAATTAAAAGTAAATGGGCCTCCACACTTAG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGG
* * ** *
27362947 GCCTCTAAATACGACAAAAAG-AATATGGGCCTCCACACTTGG
1 GCCTCTAAATGCAATGAAAAGTAA-ATGGACCTCCACACTTGG
* * *
27362989 GCCTCTAACTGTAATGAAAAGTAAATGGACCTTCACACTTGG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGG
*
27363031 ACCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGG
* * *
27363073 GCCTCTAAATGCAATGAAGAGTAAATAGACCTCTACACTTGG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGG
* * * * *
27363115 GCCTCTAAATGCAATGAAAAGTAGATGGACCTTCATACCTAG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGG
* * *
27363157 GCCTCTAAATGCAATGAAAAGTAAATAGACCTCTACACCTGG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGG
** * *
27363199 GCCTCTAAATGCAAATGAAAAGTAAAAAGACCTTCACACCTGG
1 GCCTCTAAATGC-AATGAAAAGTAAATGGACCTCCACACTTGG
* *
27363242 GCCTCTAAATGAAATGAAAAGTAAATGGACCTCAACA-TATGG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACT-TGG
* * * * *
27363284 GCCTATAAATGTAATGAAAAATAAATGGACCTCCACACCTAG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGG
* * * *
27363326 GTCTCTAAATGCAATGAAAAGCAAATGAACCTCCACTCTTGG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGG
* * *
27363368 GCCTCTAAATTCAATGAAATGTAAATGGACCTCCACACCTGG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGG
*
27363410 GCCTCTAAATGTAATGAA
1 GCCTCTAAATGCAATGAA
27363428 TGTTTTCCTT
Statistics
Matches: 481, Mismatches: 79, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
41 2 0.00
42 439 0.91
43 40 0.08
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (42 bp):
GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGG
Found at i:27363852 original size:19 final size:21
Alignment explanation
Indices: 27363829--27363875 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
27363819 GCTCTCATTA
27363829 TTTTTTCT-TC-TTTTTTGTT
1 TTTTTTCTCTCTTTTTTTGTT
27363848 GTTTTTTCTCTCTTTTTTTGTT
1 -TTTTTTCTCTCTTTTTTTGTT
27363870 TTTTTT
1 TTTTTT
27363876 GTTTTGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 8 0.32
21 8 0.32
22 9 0.36
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (21 bp):
TTTTTTCTCTCTTTTTTTGTT
Found at i:27363854 original size:22 final size:19
Alignment explanation
Indices: 27363829--27363875 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
27363819 GCTCTCATTA
27363829 TTTTTTCTTCT-TTTTTGTTG
1 TTTTTT-TTCTCTTTTT-TTG
*
27363849 TTTTTTCTCTCTTTTTTTG
1 TTTTTTTTCTCTTTTTTTG
27363868 TTTTTTTT
1 TTTTTTTT
27363876 GTTTTGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (19 bp):
TTTTTTTTCTCTTTTTTTG
Found at i:27363880 original size:14 final size:14
Alignment explanation
Indices: 27363863--27363889 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27363853 TTCTCTCTTT
27363863 TTTTGTTTTTTTTG
1 TTTTGTTTTTTTTG
27363877 TTTTGTTTTTTTT
1 TTTTGTTTTTTTT
27363890 ATTTAAACAA
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:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (14 bp):
TTTTGTTTTTTTTG
Found at i:27367256 original size:21 final size:20
Alignment explanation
Indices: 27367232--27367289 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
27367222 TAGTGCAGAC
27367232 TTCTACCAATACAAGTGAC-A
1 TTCTACCAA-ACAAGTGACTA
* *
27367252 GTTCTATCGACACAAGTGACTA
1 -TTCTA-CCAAACAAGTGACTA
27367274 TTCTACCGAAACAAGT
1 TTCTACC-AAACAAGT
27367290 CTTACTTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 26 0.87
22 3 0.10
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (20 bp):
TTCTACCAAACAAGTGACTA
Found at i:27373163 original size:19 final size:19
Alignment explanation
Indices: 27373127--27373165 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
27373117 TTCACTCATC
*
27373127 ATTCTCTCTTCTTCTCTCG
1 ATTCTCTCTCCTTCTCTCG
27373146 ATTCTCTCATCCTTTCTCTC
1 ATTCTCTC-TCC-TTCTCTC
27373166 ATTTTCCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 2 0.12
21 7 0.41
ACGTcount: A:0.08, C:0.38, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTCTCTCTCCTTCTCTCG
Found at i:27379764 original size:18 final size:18
Alignment explanation
Indices: 27379743--27379777 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27379733 AATATTATAC
27379743 AATAAAATAATTATTTTA
1 AATAAAATAATTATTTTA
* *
27379761 AATATAATTATTATTTT
1 AATAAAATAATTATTTT
27379778 TATATGAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATAAAATAATTATTTTA
Found at i:27385854 original size:342 final size:345
Alignment explanation
Indices: 27385220--27385906 Score: 999
Period size: 342 Copynumber: 2.0 Consensus size: 345
27385210 TAGCACTTTC
* * *
27385220 ATCACTATTTCTTGAGTTTAATGCGTGTTGTGTTAGCCTTTTAGGCAGCATGTTTTTTGCATGAG
1 ATCACTATTTCTTGAGTTAAATACATGTTGTGTTAGCCTTTTAGGCAGCATGTTTTTTGCATGAG
* ** * * *
27385285 AAGGTTCACTTATGTGATTGAATTTTGAGACAATCATAGGAGCTGTTTTTAGTTGCATCATGATT
66 AAGGTTCACTTATGTGATTGAATTTTGAGACAATCACACCAGCTGATTTCAGTTGCATCATGACT
* * *
27385350 TTCTGGACCACACATACAGTCCTGTTCTTTTCTCCACTACTAGCATTATATCTTTTCACAACTAT
131 TTCTGGACCACACATACAGTCCTATTCTTTCCTCCACTACTAGCATCATATCTTTTCACAACTAT
*
27385415 ATTTTCATTTTGTTGACTCACTTGGCATCGTACATCATTAAATCTTCTAAAATGATGTCCAACTG
196 ATTTTCATTTTGTTGACTCACTTGGCATCGTACATCATTAAATCTGCTAAAATGATGTCCAACTG
* *
27385480 TCTGATCTGCATTGTGTGAGCAGTAATGTGTGCTTCTCCAGCCACCTTTTCCTACAAAGCATGCA
261 CCTGATCTGCATTGTCTGAGCAGTAATGTGTGCTTCTCCAGCCACCTTTTCCTACAAAGCATGCA
*
27385545 TCTCTATTTGAATCACCAAA
326 TCTCTAGTTGAATCACCAAA
* * *
27385565 ATCACTATTTCTTGAGTTAAATACATGTTTTGTTTGCCTTTTAGGCAGTATGTTTTTTGCACT-A
1 ATCACTATTTCTTGAGTTAAATACATGTTGTGTTAGCCTTTTAGGCAGCATGTTTTTTGCA-TGA
* * *
27385629 GAAGGTTCACTTCTTTGGTTGAATTTTGAGACAATCACACCAGCT-ATTTCAGTTGCATCATGAC
65 GAAGGTTCACTTATGTGATTGAATTTTGAGACAATCACACCAGCTGATTTCAGTTGCATCATGAC
* * * *
27385693 TTTCTGGCCCATCACATGA-GGTCCTATTGTTTCCT-C-C-ACTAGCATCATCTCTTTTCACAAC
130 TTTCTGGACCA-CACAT-ACAGTCCTATTCTTTCCTCCACTACTAGCATCATATCTTTTCACAAC
* * *
27385754 TATATTTTCATTTTGTTGACTCACTTGGCATCGTATATTATTAAATCTGCTGAAATGATGTCCAA
193 TATATTTTCATTTTGTTGACTCACTTGGCATCGTACATCATTAAATCTGCTAAAATGATGTCCAA
** * * *
27385819 CTGCCTGATCTGCATTGTCTGAGTGGTAGTGTGTGCTTCTCCAGCCACCTTTTTCTTCAAAGCAT
258 CTGCCTGATCTGCATTGTCTGAGCAGTAATGTGTGCTTCTCCAGCCACCTTTTCCTACAAAGCAT
27385884 GCATCTCTAGTTGAATCACCAAA
323 GCATCTCTAGTTGAATCACCAAA
27385907 CCATTAGCTT
Statistics
Matches: 305, Mismatches: 34, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
342 163 0.53
343 1 0.00
344 27 0.09
345 112 0.37
346 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (345 bp):
ATCACTATTTCTTGAGTTAAATACATGTTGTGTTAGCCTTTTAGGCAGCATGTTTTTTGCATGAG
AAGGTTCACTTATGTGATTGAATTTTGAGACAATCACACCAGCTGATTTCAGTTGCATCATGACT
TTCTGGACCACACATACAGTCCTATTCTTTCCTCCACTACTAGCATCATATCTTTTCACAACTAT
ATTTTCATTTTGTTGACTCACTTGGCATCGTACATCATTAAATCTGCTAAAATGATGTCCAACTG
CCTGATCTGCATTGTCTGAGCAGTAATGTGTGCTTCTCCAGCCACCTTTTCCTACAAAGCATGCA
TCTCTAGTTGAATCACCAAA
Found at i:27388011 original size:2 final size:2
Alignment explanation
Indices: 27388004--27388033 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27387994 AGCTTAGAAG
27388004 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
27388034 TTACAGCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:27388818 original size:24 final size:23
Alignment explanation
Indices: 27388791--27388860 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
27388781 CCATTAACAT
*
27388791 TGTTCGTGAACATATTCAATTATA
1 TGTTCGTGAACATATTCGATTA-A
* * *
27388815 TGTTCATGAACATGTTCGGTTAA
1 TGTTCGTGAACATATTCGATTAA
*
27388838 TGCTCGTGAACATATTCGATTAA
1 TGTTCGTGAACATATTCGATTAA
27388861 ATAAACATGA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (23 bp):
TGTTCGTGAACATATTCGATTAA
Found at i:27390449 original size:24 final size:24
Alignment explanation
Indices: 27390421--27390473 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
27390411 TTTTTTACGG
**
27390421 TTTTGGTGCTGCTTTTGCTGTTAT
1 TTTTGGTGCTGCTTTTGCTACTAT
* * *
27390445 TTTTGTTGTTGTTTTTGCTACTAT
1 TTTTGGTGCTGCTTTTGCTACTAT
27390469 TTTTG
1 TTTTG
27390474 TTGTTTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.06, C:0.09, G:0.21, T:0.64
Consensus pattern (24 bp):
TTTTGGTGCTGCTTTTGCTACTAT
Found at i:27390474 original size:24 final size:24
Alignment explanation
Indices: 27390433--27390478 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
27390423 TTGGTGCTGC
**
27390433 TTTTGCTGTTATTTTTGTTGTTGT
1 TTTTGCTACTATTTTTGTTGTTGT
27390457 TTTTGCTACTATTTTTGTTGTT
1 TTTTGCTACTATTTTTGTTGTT
27390479 TTTATTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.07, C:0.07, G:0.17, T:0.70
Consensus pattern (24 bp):
TTTTGCTACTATTTTTGTTGTTGT
Found at i:27393373 original size:27 final size:27
Alignment explanation
Indices: 27393299--27393376 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
27393289 ATGGTATACT
* **
27393299 CCATGTTTATTATCCTGGCGGACTATC
1 CCATGTTTATTGTCCTGATGGACTATC
* **
27393326 CCATGTTTACTGTCCCAATGGACTATC
1 CCATGTTTATTGTCCTGATGGACTATC
*
27393353 CCATGTTTATTGTCTTGATGGACT
1 CCATGTTTATTGTCCTGATGGACT
27393377 TCATTGGTTG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.38
Consensus pattern (27 bp):
CCATGTTTATTGTCCTGATGGACTATC
Found at i:27395017 original size:21 final size:21
Alignment explanation
Indices: 27394975--27395021 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
27394965 AGTGGATGTC
* *
27394975 ATTAAAATTAAATTATTGAAG
1 ATTAAAATTAAATTAATCAAG
27394996 ATTAAAATCTAAA-TAATCAAG
1 ATTAAAAT-TAAATTAATCAAG
27395017 ATTAA
1 ATTAA
27395022 GTTAATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (21 bp):
ATTAAAATTAAATTAATCAAG
Found at i:27397919 original size:12 final size:12
Alignment explanation
Indices: 27397870--27397929 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
27397860 TTGTTTATTA
*
27397870 TTCATTAACATTG
1 TTCATGAACA-TG
*
27397883 TTCGTGAACATG
1 TTCATGAACATG
* *
27397895 TTCAAT-TATATG
1 TTC-ATGAACATG
27397907 TTCATGAACATG
1 TTCATGAACATG
*
27397919 TTCGTGAACAT
1 TTCATGAACAT
27397930 ATTCGATTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
11 2 0.05
12 26 0.70
13 9 0.24
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (12 bp):
TTCATGAACATG
Found at i:27397956 original size:35 final size:36
Alignment explanation
Indices: 27397876--27397964 Score: 119
Period size: 35 Copynumber: 2.5 Consensus size: 36
27397866 ATTATTCATT
* *
27397876 AACATTGTTCGTGAACATGTTCAATTATATGTTCATG
1 AACA-TGTTCGTGAACATATTCAATTATATGTTAATG
*
27397913 AACATGTTCGTGAACATATTCGATTA-A-GTTAAATG
1 AACATGTTCGTGAACATATTCAATTATATGTT-AATG
27397948 AACATGTTCGTGAACAT
1 AACATGTTCGTGAACAT
27397965 TAAAAAAAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
34 3 0.06
35 21 0.44
36 20 0.42
37 4 0.08
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (36 bp):
AACATGTTCGTGAACATATTCAATTATATGTTAATG
Found at i:27398021 original size:28 final size:28
Alignment explanation
Indices: 27397971--27398026 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
27397961 ACATTAAAAA
* *
27397971 AAACGAACATGAACACATAATTTTAAAT
1 AAACGAACATGAACACAAAATTTGAAAT
27397999 AAACGAACATGAACA-AAACATTTGAAAT
1 AAACGAACATGAACACAAA-ATTTGAAAT
27398027 TCTTAACGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.55, C:0.14, G:0.09, T:0.21
Consensus pattern (28 bp):
AAACGAACATGAACACAAAATTTGAAAT
Found at i:27405011 original size:57 final size:57
Alignment explanation
Indices: 27404913--27405137 Score: 239
Period size: 57 Copynumber: 3.9 Consensus size: 57
27404903 TTTTTGAGAA
*
27404913 AAAAAATTTCAAAATTTTTTAT-TGTTAGCCATCAAATGGCCGACACTCCTTTTCCCGAG
1 AAAAAATTTC-AAATTTTTT-TGTGTTGGCCATCAAATGGCCGACACTCCTTTT-CCGAG
* *
27404972 AAAAAATTTC-AATTTTTTTGTGTGGGCCATCAAATGGCCGACACTCTTTTTTCTCGAG
1 AAAAAATTTCAAATTTTTTTGTGTTGGCCATCAAATGGCCGACACTC-CTTTTC-CGAG
* * * *
27405030 AAAAAAATTTCAAATTTTTTTGATGTTGGTCATCAAATGACCGACACCCCCTATTT---AA
1 -AAAAAATTTCAAATTTTTTTG-TGTTGGCCATCAAATGGCCGACA-CTCCT-TTTCCGAG
* *
27405088 AAAAAATTT-AAATTTTTTGGTGTTGACCATCAAATGGCCGACAC-CCTTTT
1 AAAAAATTTCAAATTTTTTTGTGTTGGCCATCAAATGGCCGACACTCCTTTT
27405138 TTCTCGGATA
Statistics
Matches: 145, Mismatches: 13, Indels: 23
0.80 0.07 0.13
Matches are distributed among these distances:
52 3 0.02
53 3 0.02
54 1 0.01
55 20 0.14
56 11 0.08
57 42 0.29
58 9 0.06
59 20 0.14
60 10 0.07
61 21 0.14
62 5 0.03
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (57 bp):
AAAAAATTTCAAATTTTTTTGTGTTGGCCATCAAATGGCCGACACTCCTTTTCCGAG
Found at i:27405118 original size:116 final size:117
Alignment explanation
Indices: 27404912--27405168 Score: 308
Period size: 116 Copynumber: 2.2 Consensus size: 117
27404902 CTTTTTGAGA
* * * *
27404912 AAAAAAATTTCAAAATTTTTT-ATTGTTAGCCATCAAATGGCCGACACTCCTTTTCCCGAGAAAA
1 AAAAAAATTTCAAATTTTTTTGATTGTTAGCCATCAAATGACCGACACCCCTTTT--C-AAAAAA
* * * *
27404976 AATTTCAATTTTTTTGTGTGGGCCATCAAATGGCCGACACTCTTTTTTCTC-GAG
63 AATTTAAATTTTTTGGTGTGGACCATCAAATGGCCGACACCCTTTTTTCTCGGAG
* *
27405030 AAAAAAATTTCAAATTTTTTTGA-TGTTGGTCATCAAATGACCGACACCCCCTATTT-AAAAAAA
1 AAAAAAATTTCAAATTTTTTTGATTGTTAGCCATCAAATGACCGACA-CCCCT-TTTCAAAAAAA
* *
27405093 ATTTAAATTTTTTGGTGTTGACCATCAAATGGCCGACACCCTTTTTTCTCGGAT
64 ATTTAAATTTTTTGGTGTGGACCATCAAATGGCCGACACCCTTTTTTCTCGGAG
*
27405147 AAAAAAATTGT-AATTTTTTTTG
1 AAAAAAATT-TCAAATTTTTTTG
27405169 GTATTGGCCA
Statistics
Matches: 121, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
116 51 0.42
117 21 0.17
118 41 0.34
119 5 0.04
120 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (117 bp):
AAAAAAATTTCAAATTTTTTTGATTGTTAGCCATCAAATGACCGACACCCCTTTTCAAAAAAAAT
TTAAATTTTTTGGTGTGGACCATCAAATGGCCGACACCCTTTTTTCTCGGAG
Found at i:27408953 original size:12 final size:12
Alignment explanation
Indices: 27408911--27408958 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
27408901 ATTTGTGTAA
*
27408911 AAATTAATTTGA
1 AAATTAATTTGG
27408923 AAATTAATTTAAGTTG
1 AAATTAATTT--G--G
27408939 AAATTAATTTGG
1 AAATTAATTTGG
27408951 AAATTAAT
1 AAATTAAT
27408959 GAACATGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 19 0.61
14 2 0.06
16 10 0.32
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (12 bp):
AAATTAATTTGG
Found at i:27409173 original size:80 final size:80
Alignment explanation
Indices: 27409080--27409251 Score: 231
Period size: 80 Copynumber: 2.1 Consensus size: 80
27409070 AAAAAGATAG
*
27409080 TTATTATATTACAATTTATATCAAATATTGTGAT-AATTGACAATACATTATTTATCAAATTTT-
1 TTATTATATTACAATTTATATCAAATAATGTGATGAATTGACAATACATTATTTAT-AAATTTTA
*
27409143 CATATTTAAAGTACAAA
65 CATATTTAAA-TAAAAA
* * * * * *
27409160 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
1 TTATTATATTACAATTTATATCAAATAATGTGATGAATTGACAATACATTATTTATAAATTTTAC
27409225 ATATTTAAATAAAAA
66 ATATTTAAATAAAAA
27409240 TTATTATTATTA
1 TTATTA-TATTA
27409252 TTATATTACA
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
80 47 0.58
81 34 0.42
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (80 bp):
TTATTATATTACAATTTATATCAAATAATGTGATGAATTGACAATACATTATTTATAAATTTTAC
ATATTTAAATAAAAA
Found at i:27409313 original size:89 final size:89
Alignment explanation
Indices: 27409159--27409452 Score: 477
Period size: 92 Copynumber: 3.3 Consensus size: 89
27409149 TAAAGTACAA
*
27409159 ATTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTA
1 ATTATTATATTACAATTTTTATCATATAATGTGTTGATTTGATAATACATTATTTATTAATTTTA
*
27409224 TATATTTAAATAAAAATTATTATT
66 TATCTTTAAATAAAAATTATTATT
* * *
27409248 ATTATTATATTACAATTTTCATCATATAATGTGTTGATTTAATAATACATTATTTATTAAATTTA
1 ATTATTATATTACAATTTTTATCATATAATGTGTTGATTTGATAATACATTATTTATTAATTTTA
27409313 TATCTTTAAATAAAATTTATTATTATT
66 TATCTTTAAATAAAA---ATTATTATT
*
27409340 ATTATTATATTACAATTTTTATCATATAATGTGTTGATTTGATAATATATTATTTATTAATTTTA
1 ATTATTATATTACAATTTTTATCATATAATGTGTTGATTTGATAATACATTATTTATTAATTTTA
27409405 TATCTTTAAAT-AAAA--ATTATT
66 TATCTTTAAATAAAAATTATTATT
*
27409426 ATTATTATATTATAATTTTTATCATAT
1 ATTATTATATTACAATTTTTATCATAT
27409453 TTTAAATTTA
Statistics
Matches: 192, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
86 32 0.17
88 1 0.01
89 75 0.39
91 3 0.02
92 81 0.42
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (89 bp):
ATTATTATATTACAATTTTTATCATATAATGTGTTGATTTGATAATACATTATTTATTAATTTTA
TATCTTTAAATAAAAATTATTATT
Found at i:27411352 original size:24 final size:24
Alignment explanation
Indices: 27411294--27411352 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
27411284 GCCAGAGGAT
**
27411294 GAGCCTAATGACGAGCCCGTGGAC
1 GAGCCTACGGACGAGCCCGTGGAC
* * *
27411318 AACCCTGCGGACGA-CCTCGTGGAC
1 GAGCCTACGGACGAGCC-CGTGGAC
27411342 GAGCCTACGGA
1 GAGCCTACGGA
27411353 GGAGGCCGAT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.24, C:0.32, G:0.32, T:0.12
Consensus pattern (24 bp):
GAGCCTACGGACGAGCCCGTGGAC
Found at i:27411918 original size:29 final size:30
Alignment explanation
Indices: 27411858--27411922 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
27411848 TCCCTTTACT
*
27411858 TTTTAAATTTAATTTGTAATTTCGTTTTTA
1 TTTTAAATTTAATTTGTAATTTCGTTTATA
27411888 TTTTAAATTTAATTTG-AATTTC-TTATATA
1 TTTTAAATTTAATTTGTAATTTCGTT-TATA
27411917 TTTTAA
1 TTTTAA
27411923 TTTTTCTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 2 0.06
29 15 0.45
30 16 0.48
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (30 bp):
TTTTAAATTTAATTTGTAATTTCGTTTATA
Found at i:27413002 original size:113 final size:113
Alignment explanation
Indices: 27412796--27413005 Score: 305
Period size: 114 Copynumber: 1.8 Consensus size: 113
27412786 ATCCAAGAAA
* *
27412796 AGGGAGTGTCGGCTATTTGATGGCCAACACAAAAAAAATTTAATTTTTTTCTTGAGAAAAGGGGG
1 AGGGAGTGTCGGCTATTTGATGGCCAACACAAAAAAAATTTAAATTTTTTCTCGAGAAAAGGGGG
* * *
27412861 TTTCGGCCATGCAATGGCCAACACCCAAAAATGCAATTTTTTTTAAAT
66 TGTCGACAATGCAATGGCCAACACCCAAAAATGCAATTTTTTTTAAAT
*
27412909 AGGGGGTGTCGGCTATTTGATGGCCAACATC-AAAAAAATTTGAAATTTTTTCTCGAGAAAAGGG
1 AGGGAGTGTCGGCTATTTGATGGCCAACA-CAAAAAAAATTT-AAATTTTTTCTCGAGAAAAGGG
*** *
27412973 GGTGTCGACAATTTGATGGCCAACACCAAAAAA
64 GGTGTCGACAATGCAATGGCCAACACCCAAAAA
27413006 ATTTGAAATT
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
113 38 0.45
114 47 0.55
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (113 bp):
AGGGAGTGTCGGCTATTTGATGGCCAACACAAAAAAAATTTAAATTTTTTCTCGAGAAAAGGGGG
TGTCGACAATGCAATGGCCAACACCCAAAAATGCAATTTTTTTTAAAT
Found at i:27413018 original size:114 final size:111
Alignment explanation
Indices: 27412796--27413009 Score: 290
Period size: 113 Copynumber: 1.9 Consensus size: 111
27412786 ATCCAAGAAA
* *
27412796 AGGGAGTGTCGGCTATTTGATGGCCAACACAAAAAAAATTTAATTTTTTTCTTGAGAAAAGGGGG
1 AGGGAGTGTCGGCTATTTGATGGCCAACACAAAAAAAATTTAAATTTTTTCTCGAGAAAAGGGGG
* * *
27412861 TTTCGGCCATGCAATGGCCAACACCCAAAAATGCAATTTTTTTTAAAT
66 TGTCGACAATGCAATGGCCAACACCCAAAAA--CAATTTTTTTTAAAT
*
27412909 AGGGGGTGTCGGCTATTTGATGGCCAACATC-AAAAAAATTTGAAATTTTTTCTCGAGAAAAGGG
1 AGGGAGTGTCGGCTATTTGATGGCCAACA-CAAAAAAAATTT-AAATTTTTTCTCGAGAAAAGGG
***
27412973 GGTGTCGACAATTTGATGGCCAACA-CCAAAAA-AATTT
64 GGTGTCGACAATGCAATGGCCAACACCCAAAAACAATTT
27413010 GAAATTTTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
110 5 0.06
113 45 0.50
114 40 0.44
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (111 bp):
AGGGAGTGTCGGCTATTTGATGGCCAACACAAAAAAAATTTAAATTTTTTCTCGAGAAAAGGGGG
TGTCGACAATGCAATGGCCAACACCCAAAAACAATTTTTTTTAAAT
Found at i:27413035 original size:61 final size:61
Alignment explanation
Indices: 27412771--27413066 Score: 294
Period size: 60 Copynumber: 5.0 Consensus size: 61
27412761 GAGAGGAAGT
* *
27412771 ATTTGCAAATTTTTTATC-C-AAGAAAAGGGAGTGTCGGCTATTTGATGGCCAACACAAAAAAA
1 ATTTG-AAATTTTTT-TCTCGAA-AAAAGGGGGTGTCGGCTATTTGATGGCCAACACCAAAAAA
* * * * *** *
27412833 ATTT--AATTTTTTTCTTGAGAAAAGGGGGTTTCGGCCATGCAATGGCCAACACC-CAAAA
1 ATTTGAAATTTTTTTCTCGAAAAAAGGGGGTGTCGGCTATTTGATGGCCAACACCAAAAAA
* * *
27412891 A--TGCAATTTTTTT-T---AAATAGGGGGTGTCGGCTATTTGATGGCCAACATCAAAAAA
1 ATTTGAAATTTTTTTCTCGAAAAAAGGGGGTGTCGGCTATTTGATGGCCAACACCAAAAAA
* * *
27412946 ATTTGAAA-TTTTTTCTCGAGAAAAGGGGGTGTCGACAATTTGATGGCCAACACCAAAAAA
1 ATTTGAAATTTTTTTCTCGAAAAAAGGGGGTGTCGGCTATTTGATGGCCAACACCAAAAAA
* * *
27413006 ATTTGAAATTTTTTTCTCGAAAAAAGGGGGTGTCGG-TCATTTGATGGTCAATACCCAAAAA
1 ATTTGAAATTTTTTTCTCGAAAAAAGGGGGTGTCGGCT-ATTTGATGGCCAACACCAAAAAA
27413067 TGTAAAAAAA
Statistics
Matches: 190, Mismatches: 31, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
54 27 0.14
55 5 0.03
56 7 0.04
57 6 0.03
58 16 0.08
59 35 0.18
60 45 0.24
61 45 0.24
62 4 0.02
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (61 bp):
ATTTGAAATTTTTTTCTCGAAAAAAGGGGGTGTCGGCTATTTGATGGCCAACACCAAAAAA
Found at i:27414046 original size:22 final size:22
Alignment explanation
Indices: 27414021--27414063 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27414011 TGTGATTTCA
* * *
27414021 ATTTTAGTTTTAATCCATTTAT
1 ATTTAAGTTATAATCAATTTAT
27414043 ATTTAAGTTATAATCAATTTA
1 ATTTAAGTTATAATCAATTTA
27414064 AAATAATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (22 bp):
ATTTAAGTTATAATCAATTTAT
Found at i:27419622 original size:21 final size:21
Alignment explanation
Indices: 27419596--27419646 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
27419586 ATAATAGTAT
*
27419596 AATCCAAATATAAAGTTTAAA
1 AATCCAAATATAAAATTTAAA
* *
27419617 AATCCAAACATAAAATTTATA
1 AATCCAAATATAAAATTTAAA
*
27419638 AATTCAAAT
1 AATCCAAAT
27419647 TACATAATTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (21 bp):
AATCCAAATATAAAATTTAAA
Found at i:27421956 original size:4 final size:4
Alignment explanation
Indices: 27421949--27421973 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
27421939 GCTAATGGAT
27421949 AACA AACA AACA AACA AACA AACA A
1 AACA AACA AACA AACA AACA AACA A
27421974 TAAATACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:27429976 original size:20 final size:18
Alignment explanation
Indices: 27429929--27429977 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
27429919 TAATATAAGC
27429929 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
27429946 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
27429966 ATTAAATTAATA
1 ATTAAATTAATA
27429978 AAATAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:27433059 original size:51 final size:52
Alignment explanation
Indices: 27432901--27433084 Score: 316
Period size: 52 Copynumber: 3.6 Consensus size: 52
27432891 AAATAGGTCT
**
27432901 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTATAGATTATGAGGTTC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTTC
*
27432953 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTTC
* *
27433005 GATGATTATATGTCATCGTGAGTATAT-AATCCTTTACGGATTATGAGGTTC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTTC
27433056 GATGACTATGTGTCATCGTGAGTATATGA
1 GATGACTATGTGTCATCGTGAGTATATGA
27433085 TTCCCAATAT
Statistics
Matches: 123, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
51 48 0.39
52 75 0.61
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (52 bp):
GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTTC
Found at i:27433107 original size:103 final size:103
Alignment explanation
Indices: 27432892--27433133 Score: 328
Period size: 103 Copynumber: 2.3 Consensus size: 103
27432882 CCGTGAATCA
* * *
27432892 AATAGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATAGATTATGAGGTTCGATG
1 AATAGGTCCGATGATTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTTCGATG
** *
27432957 ACTATGTGTCATCGTGAGTATATGAATCCTTTACGGAT
66 ACTATGTGTCATCGTGAGTATATGAATCCAATACGAAT
* * *
27432995 TATGAGGTCCGATGATTATATGTCATCGTGAGTATAT-AATCCTTTACGGATTATGAGGTTCGAT
1 AAT-AGGTCCGATGATTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTTCGAT
* *
27433059 GACTATGTGTCATCGTGAGTATATGATTCCCAATATGAACT
65 GACTATGTGTCATCGTGAGTATATGAAT-CCAATACGAA-T
27433100 AAT-GGTCCGATGACTT-TGTGTCATCGTGAGTATA
1 AATAGGTCCGATGA-TTATGTGTCATCGTGAGTATA
27433134 AAATATTCAT
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
103 81 0.66
104 38 0.31
105 3 0.02
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
AATAGGTCCGATGATTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTTCGATG
ACTATGTGTCATCGTGAGTATATGAATCCAATACGAAT
Found at i:27433823 original size:115 final size:116
Alignment explanation
Indices: 27433628--27433837 Score: 300
Period size: 115 Copynumber: 1.8 Consensus size: 116
27433618 TATCCAAGGA
* * * * *
27433628 TGTATCGGTAGAAGTACAGGGTAGGAGAGAGGTCATTCTCTAATTTGGGTTGTATCGGTAGTTGA
1 TGTATCGGTAGAAGTACAGGGTAGGAGAGAGGTCATTCACTAACTTAGGTTGTATCAGTAGATGA
* * *
27433693 ATAGCAAGTGTCGGTAGTTATGTATTTAGAGGTATCGGTATCTTGCATGTT
66 ATACCAAGTATCGGTAGTCATGTATTTAGAGGTATCGGTATCTTGCATGTT
*
27433744 TGTATCGGTAGAAGTACAGGGTAGGA-AGAGGTTGCA-T-ACTGACTTAGGTTGTATCAGTAGAT
1 TGTATCGGTAGAAGTACAGGGTAGGAGAGAGG-T-CATTCACTAACTTAGGTTGTATCAGTAGAT
27433806 GAATACCAAGTATCGGTAGTCATGTATTTAGA
64 GAATACCAAGTATCGGTAGTCATGTATTTAGA
27433838 AATACCGATA
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
115 53 0.64
116 28 0.34
117 2 0.02
ACGTcount: A:0.27, C:0.10, G:0.30, T:0.33
Consensus pattern (116 bp):
TGTATCGGTAGAAGTACAGGGTAGGAGAGAGGTCATTCACTAACTTAGGTTGTATCAGTAGATGA
ATACCAAGTATCGGTAGTCATGTATTTAGAGGTATCGGTATCTTGCATGTT
Found at i:27433864 original size:115 final size:115
Alignment explanation
Indices: 27433629--27433879 Score: 258
Period size: 115 Copynumber: 2.2 Consensus size: 115
27433619 ATCCAAGGAT
* * * * *
27433629 GTATCGGTAGAAGTACAGGGTAGGAGAGAGGTCATTCTCTAATTTGGGTTGTATCGGTAGTTGAA
1 GTATCGGTAGAAGTACAGGGTAGGAGAGAGGTCATTCACTAACTTAGGTTGTATCAGTAGATGAA
* * * ** * * * * * *
27433694 TAGCAAGTGTCGGTAGTTATGTATTTAGAGGTATCGGTATCTTGCATGTTT
66 TACCAAGTATCGGTAGTCATGTATTTAGAAATACCGATATCCTACA-GCTA
*
27433745 GTATCGGTAGAAGTACAGGGTAGGA-AGAGGTTGCA-T-ACTGACTTAGGTTGTATCAGTAGATG
1 GTATCGGTAGAAGTACAGGGTAGGAGAGAGG-T-CATTCACTAACTTAGGTTGTATCAGTAGATG
27433807 AATACCAAGTATCGGTAGTCATGTATTTAGAAATACCGATAGTTCCTACA-CTA
64 AATACCAAGTATCGGTAGTCATGTATTTAGAAATACCGATA--TCCTACAGCTA
*
27433860 GTATCGGTATAAGTAGCAGG
1 GTATCGGTAGAAGTA-CAGG
27433880 ATAAGATTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
115 74 0.66
116 31 0.28
117 7 0.06
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.31
Consensus pattern (115 bp):
GTATCGGTAGAAGTACAGGGTAGGAGAGAGGTCATTCACTAACTTAGGTTGTATCAGTAGATGAA
TACCAAGTATCGGTAGTCATGTATTTAGAAATACCGATATCCTACAGCTA
Found at i:27433950 original size:21 final size:21
Alignment explanation
Indices: 27433926--27433982 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
27433916 TAGAGGTGAA
27433926 ACTTGTATCGGTAGAA-GAGTC
1 ACTTGTATCGGTAGAACGA-TC
* * *
27433947 ACTTTTATCGATAGAACTATC
1 ACTTGTATCGGTAGAACGATC
27433968 ACTTGTATCGGTAGA
1 ACTTGTATCGGTAGA
27433983 TGTAACAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (21 bp):
ACTTGTATCGGTAGAACGATC
Found at i:27442734 original size:21 final size:21
Alignment explanation
Indices: 27442710--27442757 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
27442700 CATACTTGTT
27442710 TCGGTAGAACTCCTTCATGTA
1 TCGGTAGAACTCCTTCATGTA
27442731 TCGGTAGAACTCCTTCATGTA
1 TCGGTAGAACTCCTTCATGTA
27442752 TCGGTA
1 TCGGTA
27442758 TAAGTACAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (21 bp):
TCGGTAGAACTCCTTCATGTA
Found at i:27443530 original size:279 final size:277
Alignment explanation
Indices: 27443018--27443538 Score: 625
Period size: 279 Copynumber: 1.9 Consensus size: 277
27443008 TTGTTTACAA
* * ** * *
27443018 ACTTGACTACTACAGGTACTTGTCCAACAGGTATTGGTAGAAGTCTCCAAAAATCTTGGAAATGA
1 ACTTGACAACTACAGATACTTGTCCAACAGGTACCGGTAGAAGTCTCCAAAAATCTTAGAAATAA
* * * * * * * *
27443083 TCTTTTTGCCTTGTTGAATTCTGCTTGTAATCAAATAATGATATATATAACGTGTGGAATAAAAT
66 CCATTTTGCCTTGATAAATTATGCTTATAATCAAATAATGATATACATAACATGTGGAATAAAAT
* ** * ** * *
27443148 TATTTAGTAAAAGTAAAATTCGAATAGTATCATGTTAAAGATGAACAGTTATAAATGAATAGTAA
131 TATTTAATAAAAAAAAAAGTCGAATACAATCATGTTAAAGATGAACAGTGATAAATGAATAGAAA
* ** * * *
27443213 GACACCGGAACCCTAATCGGTGATGGTTTTTGGGTTTTGGGTGTTACCTTAGAAATCTGTACTAT
196 GACACCAGAACCCTAATCGACGATGGTTTCTAGGTTTTGAGTGTTACCTTAGAAATCTGTACTAT
27443278 TCTTGAACTATTTATTG
261 TCTTGAACTATTTATTG
* * *
27443295 ACTTGACAACTACCGATACTTGT-CAATCAGGTACCGGTAGAAGTCTCCAAAAATGTTAGAGATA
1 ACTTGACAACTACAGATACTTGTCCAA-CAGGTACCGGTAGAAGTCTCCAAAAATCTTAGAAATA
* *
27443359 ACCATTTTGCCCTTGATAAATTATGCTTATAATCAAATAATGAT-T-CATGACATGTGGAATGAA
65 ACCATTTTG-CCTTGATAAATTATGCTTATAATCAAATAATGATATACATAACATGTGGAATAAA
* * * *
27443422 ATTCTTTAATAAAAAAATAAAGTCTGAATAACAATTATGTTTAAGATGAACAGTGATGAATGAAT
129 ATTATTTAATAAAAAAA-AAAGTC-GAAT-ACAATCATGTTAAAGATGAACAGTGATAAATGAAT
* *
27443487 AGAAAGACACTAGAACCCTAATCGACGATTGTTTCTAGGTTTTGAGTGTTAC
191 AGAAAGACACCAGAACCCTAATCGACGATGGTTTCTAGGTTTTGAGTGTTAC
27443539 ATTTAGTGGT
Statistics
Matches: 200, Mismatches: 39, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
276 30 0.15
277 64 0.32
278 34 0.17
279 72 0.36
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (277 bp):
ACTTGACAACTACAGATACTTGTCCAACAGGTACCGGTAGAAGTCTCCAAAAATCTTAGAAATAA
CCATTTTGCCTTGATAAATTATGCTTATAATCAAATAATGATATACATAACATGTGGAATAAAAT
TATTTAATAAAAAAAAAAGTCGAATACAATCATGTTAAAGATGAACAGTGATAAATGAATAGAAA
GACACCAGAACCCTAATCGACGATGGTTTCTAGGTTTTGAGTGTTACCTTAGAAATCTGTACTAT
TCTTGAACTATTTATTG
Found at i:27446102 original size:52 final size:52
Alignment explanation
Indices: 27446016--27446203 Score: 243
Period size: 52 Copynumber: 3.6 Consensus size: 52
27446006 TAAATGAAAA
* *
27446016 AGGTCCGATGACTAAGTGTCATCGCGAGTATATGAATCCTTTATGGATTATG
1 AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
27446068 AGGTCTGATGACTAAGTGTTATCATGAGTTTATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * ** **
27446120 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATTTCTTTACGGAACAAA
1 AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAA-TCCTTTACGGATTATG
27446173 AGGTCCGATGACTATA-TGTCATCGTGAGTAT
1 AGGTCCGATGACTA-AGTGTCATCGTGAGTAT
27446204 TAAATGAAAT
Statistics
Matches: 117, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
52 77 0.66
53 40 0.34
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (52 bp):
AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:27452982 original size:51 final size:52
Alignment explanation
Indices: 27452874--27453045 Score: 206
Period size: 51 Copynumber: 3.3 Consensus size: 52
27452864 AATTGAAATG
* * **
27452874 ATGTCATCGTGAATATATGAATCTTTTAATGATTATGAGGTCAGATGACTA-
1 ATGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCAGATGACTAT
*
27452925 AGTGTCATCGTGAGTATATGAATCCATT-CGGATTATGAGGTTC-GATGACTAT
1 A-TGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGG-TCAGATGACTAT
* ** *
27452977 ATGTCATCGTGAGTATATGAATTCCTTTACGAAACAAGAGGTCAGATGACTAT
1 ATGTCATCGTGAGTATATGAA-TCCTTTACGGATTATGAGGTCAGATGACTAT
*
27453030 ATGTCATTGTGAGTAT
1 ATGTCATCGTGAGTAT
27453046 TAAATGAAAC
Statistics
Matches: 104, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
51 39 0.38
52 33 0.32
53 32 0.31
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (52 bp):
ATGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCAGATGACTAT
Found at i:27456754 original size:17 final size:17
Alignment explanation
Indices: 27456732--27456765 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27456722 GAGTAATACA
27456732 GATCTTGGAAGACATGT
1 GATCTTGGAAGACATGT
27456749 GATCTTGGAAGACATGT
1 GATCTTGGAAGACATGT
27456766 TACGATGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (17 bp):
GATCTTGGAAGACATGT
Found at i:27458772 original size:52 final size:52
Alignment explanation
Indices: 27458694--27458880 Score: 252
Period size: 52 Copynumber: 3.6 Consensus size: 52
27458684 TGAATCAAAT
27458694 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATG
*
27458746 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATG
* * * * ** *
27458798 AGGTCCTATGACTATGTGTCGTTGTGAGTATATGATTCCCAATACGGATTA--
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAAT-CCTTTACGAATTATG
* *
27458849 ATGGTCCGATGACTTTGTGTCATCATGAGTAT
1 A-GGTCCGATGACTATGTGTCATCGTGAGTAT
27458881 CAAAAGTGCA
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
51 1 0.01
52 109 0.92
53 9 0.08
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATG
Found at i:27459580 original size:116 final size:116
Alignment explanation
Indices: 27459376--27459586 Score: 309
Period size: 116 Copynumber: 1.8 Consensus size: 116
27459366 TATCCAAGGA
* * * *
27459376 TGTATCGGTAGAAGTACAGGGTAGGAGAGAGGTTGTTCTCTGATTTGGGTTGTATCAGTAGTTTA
1 TGTATCGGTAGAAGTACAGGGTAGGAGAGAGGTTGTTCTCTGAGTTAGGTTGTATCAGTAGATGA
* * *
27459441 ATAGCAAGTGTAGATAGTTATGTATTTAGAGGTATCAGTATCTTGCATGTT
66 ATACCAAGTATAGATAGTCATGTATTTAGAGGTATCAGTATCTTGCATGTT
*
27459492 TGTATCGGTAGAAGTACAGGGTAGGAGAGAGG-T-TTCATACTGAGTTAGGTTGTATCGGTAGAT
1 TGTATCGGTAGAAGTACAGGGTAGGAGAGAGGTTGTTC-T-CTGAGTTAGGTTGTATCAGTAGAT
*
27459555 GAATACCAAGTATCGATAGTCATGTATTTAGA
64 GAATACCAAGTATAGATAGTCATGTATTTAGA
27459587 AATATTGATA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
114 3 0.04
115 2 0.02
116 79 0.94
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (116 bp):
TGTATCGGTAGAAGTACAGGGTAGGAGAGAGGTTGTTCTCTGAGTTAGGTTGTATCAGTAGATGA
ATACCAAGTATAGATAGTCATGTATTTAGAGGTATCAGTATCTTGCATGTT
Found at i:27459618 original size:116 final size:115
Alignment explanation
Indices: 27459377--27459628 Score: 278
Period size: 116 Copynumber: 2.2 Consensus size: 115
27459367 ATCCAAGGAT
* * * *
27459377 GTATCGGTAGAAGTACAGGGTAGGAGAGAGGTTGTTCTCTGATTTGGGTTGTATCAGTAGTTTAA
1 GTATCGGTAGAAGTACAGGGTAGGAGAGAGGTTGTTCTCTGAGTTAGGTTGTATCAGTAGATGAA
* * * ** * *
27459442 TAGCAAGTGTAGATAGTTATGTATTTAGAGGTATCAGTATCTTGCATGTTT
66 TACCAAGTATAGATAGTCATGTATTTAGAAATATCAGTATCTTACA-GTTA
*
27459493 GTATCGGTAGAAGTACAGGGTAGGAGAGAGG-T-TTCATACTGAGTTAGGTTGTATCGGTAGATG
1 GTATCGGTAGAAGTACAGGGTAGGAGAGAGGTTGTTC-T-CTGAGTTAGGTTGTATCAGTAGATG
* *
27459556 AATACCAAGTATCGATAGTCATGTATTTAGAAATAT-TGATAGTTCTTACA-TTA
64 AATACCAAGTATAGATAGTCATGTATTTAGAAATATCAG-TA--TCTTACAGTTA
*
27459609 GTATAGGTAGAAGTAACAGG
1 GTATCGGTAGAAGT-ACAGG
27459629 ATAAGATTCC
Statistics
Matches: 115, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
114 3 0.03
115 3 0.03
116 98 0.85
117 5 0.04
118 6 0.05
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (115 bp):
GTATCGGTAGAAGTACAGGGTAGGAGAGAGGTTGTTCTCTGAGTTAGGTTGTATCAGTAGATGAA
TACCAAGTATAGATAGTCATGTATTTAGAAATATCAGTATCTTACAGTTA
Found at i:27469699 original size:28 final size:29
Alignment explanation
Indices: 27469645--27469699 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
27469635 TGTAAATATA
*
27469645 CTATAATTATATACTTATAATGAAATTTT
1 CTATAATTATATACTTATAATAAAATTTT
27469674 CTATAATTATATA-TTATAATAAAATT
1 CTATAATTATATACTTATAATAAAATT
27469700 CATGATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (29 bp):
CTATAATTATATACTTATAATAAAATTTT
Found at i:27469707 original size:28 final size:29
Alignment explanation
Indices: 27469633--27469698 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
27469623 TTTCATACAA
*
27469633 AATGTAAATATACTATAATTATATACTTAT
1 AATG-AAATATTCTATAATTATATACTTAT
*
27469663 AATGAAATTTTCTATAATTATATA-TTAT
1 AATGAAATATTCTATAATTATATACTTAT
*
27469691 AATAAAAT
1 AATGAAAT
27469699 TCATGATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 11 0.33
29 18 0.55
30 4 0.12
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (29 bp):
AATGAAATATTCTATAATTATATACTTAT
Found at i:27469779 original size:12 final size:12
Alignment explanation
Indices: 27469762--27469791 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27469752 TAAGTATTAC
27469762 ATAAATAATAAT
1 ATAAATAATAAT
*
27469774 ATAAATTATAAT
1 ATAAATAATAAT
27469786 ATAAAT
1 ATAAAT
27469792 GTACCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:27470799 original size:23 final size:23
Alignment explanation
Indices: 27470738--27470801 Score: 65
Period size: 25 Copynumber: 2.7 Consensus size: 23
27470728 ATGTAAACAT
* **
27470738 TAAAATTATTAAGGTAACTATATA
1 TAAAATTATTAA-ATAAAAATATA
*
27470762 TAAAATTTTAATAAATAAAAATATA
1 TAAAA--TTATTAAATAAAAATATA
27470787 TAAAATTATTAAATA
1 TAAAATTATTAAATA
27470802 TTTAATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
23 9 0.27
24 5 0.15
25 13 0.39
26 6 0.18
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (23 bp):
TAAAATTATTAAATAAAAATATA
Found at i:27470822 original size:23 final size:22
Alignment explanation
Indices: 27470788--27470833 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
27470778 AAAAATATAT
*
27470788 AAAATTATTAAATATTTAATTA
1 AAAATAATTAAATATTTAATTA
*
27470810 AAAATAATATAAATATTTATTTA
1 AAAATAAT-TAAATATTTAATTA
27470833 A
1 A
27470834 TCTTTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATAATTAAATATTTAATTA
Found at i:27477662 original size:3 final size:3
Alignment explanation
Indices: 27477654--27477730 Score: 138
Period size: 3 Copynumber: 26.0 Consensus size: 3
27477644 CCAAAACCAA
*
27477654 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27477702 AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27477731 GTAAATTTTG
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 69 0.97
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27479435 original size:12 final size:11
Alignment explanation
Indices: 27479403--27479463 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
27479393 AGATACGTCG
*
27479403 GAAAAAAGAAA
1 GAAAATAGAAA
*
27479414 G-AAATGGAAAA
1 GAAAATAG-AAA
27479425 GAAAATAGAAA
1 GAAAATAGAAA
27479436 G-AAATAAGAAA
1 GAAAAT-AGAAA
*
27479447 GGAAATGAGAAA
1 GAAAAT-AGAAA
27479459 GAAAA
1 GAAAA
27479464 GTGAAGGCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
10 8 0.20
11 15 0.37
12 18 0.44
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (11 bp):
GAAAATAGAAA
Found at i:27479451 original size:23 final size:22
Alignment explanation
Indices: 27479402--27479462 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
27479392 AAGATACGTC
* *
27479402 GGAAAAAAGAAAGAAATGGAAA
1 GGAAAATAGAAAGAAATAGAAA
*
27479424 AGAAAATAGAAAGAAATAAGAAA
1 GGAAAATAGAAAGAAAT-AGAAA
27479447 GG-AAATGAGAAAGAAA
1 GGAAAAT-AGAAAGAAA
27479463 AGTGAAGGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 19 0.58
23 14 0.42
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.07
Consensus pattern (22 bp):
GGAAAATAGAAAGAAATAGAAA
Found at i:27480923 original size:21 final size:21
Alignment explanation
Indices: 27480897--27480949 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
27480887 TTATTATGAG
27480897 TATCGATACTTAGGGTAAAAT
1 TATCGATACTTAGGGTAAAAT
*
27480918 TATCGATACTTGGGGTAAAAT
1 TATCGATACTTAGGGTAAAAT
*
27480939 TATTGATACTT
1 TATCGATACTT
27480950 TTTCAACGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (21 bp):
TATCGATACTTAGGGTAAAAT
Found at i:27485895 original size:22 final size:22
Alignment explanation
Indices: 27485863--27485914 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
27485853 TTGACCCAAT
*
27485863 CAAA-CCAAA-CCTTTAAAAATC
1 CAAACCCAAACCCTTT-AAAACC
27485884 CAAACCCAAACCCTTTAAAACC
1 CAAACCCAAACCCTTTAAAACC
27485906 CAAACCCAA
1 CAAACCCAA
27485915 TTGAACTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 4 0.14
22 19 0.68
23 5 0.18
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (22 bp):
CAAACCCAAACCCTTTAAAACC
Found at i:27487251 original size:6 final size:6
Alignment explanation
Indices: 27487226--27487264 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
27487216 ATTTTAACTA
*
27487226 TATACTT TATATT ATATATT TATATT TTTATT TATATT T
1 TATA-TT TATATT -TATATT TATATT TATATT TATATT T
27487265 GTGAATGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 19 0.66
7 10 0.34
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Done.