Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 366 of 410
Found at i:112313841 original size:14 final size:15
Alignment explanation
Indices: 112313822--112313854 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
112313812 GTTGATTTTG
*
112313822 AAAAACGGAAATT-A
1 AAAAACAGAAATTGA
112313836 AAAAACAGAAATTGA
1 AAAAACAGAAATTGA
112313851 AAAA
1 AAAA
112313855 GCTCAACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.70, C:0.06, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAAACAGAAATTGA
Found at i:112313871 original size:68 final size:67
Alignment explanation
Indices: 112313787--112313920 Score: 207
Period size: 68 Copynumber: 2.0 Consensus size: 67
112313777 ATGACCTGAG
* *
112313787 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACGGAAATTAAAAAACAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAA-GAAAATT-AAAAACAGAAATTGA
112313851 AAAA
64 AAAA
* *
112313855 GCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAATAAAATTGAAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAAGAAAATTAAAAACAGAAATTGAAA
112313920 A
66 A
112313921 TACCTCACCG
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
67 17 0.28
68 34 0.56
69 10 0.16
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (67 bp):
GCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAAGAAAATTAAAAACAGAAATTGAAA
AA
Found at i:112313994 original size:14 final size:15
Alignment explanation
Indices: 112313975--112314007 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
112313965 GTTGATTTTG
112313975 AAAAACAGAAATT-A
1 AAAAACAGAAATTGA
112313989 AAAAACAGAAATTGA
1 AAAAACAGAAATTGA
112314004 AAAA
1 AAAA
112314008 GCTCAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (15 bp):
AAAAACAGAAATTGA
Found at i:112314019 original size:68 final size:69
Alignment explanation
Indices: 112313940--112314142 Score: 340
Period size: 69 Copynumber: 3.0 Consensus size: 69
112313930 GTGTCCTGAG
* *
112313940 GCTCAACTCACCTCTCACAATATAAGTTGA-TTTTGAAAAACAGAAATTAAAAAACAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAACAGAAATTGA
112314004 AAAA
66 AAAA
* *
112314008 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACGGAAATTAAAAAACAGAAATTGG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAACAGAAATTGA
112314073 AAAA
66 AAAA
*
112314077 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG-AATT-GAAAACAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAACAGAAATTGA
112314140 AAA
66 AAA
112314143 TACCTCATCG
Statistics
Matches: 127, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
67 16 0.13
68 32 0.25
69 79 0.62
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (69 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAACAGAAATTGA
AAAA
Found at i:112314067 original size:222 final size:225
Alignment explanation
Indices: 112313785--112314319 Score: 803
Period size: 222 Copynumber: 2.3 Consensus size: 225
112313775 TCATGACCTG
112313785 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACGGAAATTAAAAAACAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACGGAAATTAAAAAACAGAAATTG
*
112313850 AAAAAGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAATAAAATTGAAAACAGAAAT
66 AAAAAGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAACAAAATTGAAAACAGAAAT
112313915 TGAAAATACCTCACCGTGTCCTGAGGCTCAACTCACCTCTCACAATATAAGTTGA-TTTTGAAAA
131 TGAAAATACCTCACCGTGTCCTGAGGCTCAACTCACCTCTCACAATATAAGTTGATTTTTGAAAA
112313979 ACAGAAATTAAAAAACAGAAATTG-AA-A-A-
196 ACAG-AATT-AAAAACAGAAATTGAAATACAT
112314007 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACGGAAATTAAAAAACAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACGGAAATTAAAAAACAGAAATT
* * *
112314071 GGAAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAATTGAAAACAGAAA
65 GAAAAAGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAACAAAATTGAAAACAGAAA
* * * *
112314136 TTGAAAATACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAA
130 TTGAAAATACCTCACCGTGTCCTGAGGCTCAACTCACCTCTCACAATATAAGTTGATTTTTGAAA
*
112314201 AACAGAATTGAAAACAGAAATTGAAAATACCTCATCGTGTCCT
195 AACAGAATTAAAAACAGAAATTG-AAATA---CA--------T
112314244 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACGGAAATTAAAAAACAGAAATT
1 -AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACGGAAATTAAAAAACAGAAATT
112314309 GAAAAAGCTCA
65 GAAAAAGCTCA
112314320 GAGTACCAAA
Statistics
Matches: 283, Mismatches: 10, Indels: 24
0.89 0.03 0.08
Matches are distributed among these distances:
221 43 0.15
222 151 0.53
223 14 0.05
224 1 0.00
228 1 0.00
238 43 0.15
239 30 0.11
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (225 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACGGAAATTAAAAAACAGAAATTG
AAAAAGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAACAAAATTGAAAACAGAAAT
TGAAAATACCTCACCGTGTCCTGAGGCTCAACTCACCTCTCACAATATAAGTTGATTTTTGAAAA
ACAGAATTAAAAACAGAAATTGAAATACAT
Found at i:112314128 original size:13 final size:14
Alignment explanation
Indices: 112314110--112314142 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
112314100 GAGTTGATTT
112314110 TTGAAAAACAG-AA
1 TTGAAAAACAGAAA
112314123 TTG-AAAACAGAAA
1 TTGAAAAACAGAAA
112314136 TTGAAAA
1 TTGAAAA
112314143 TACCTCATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.39
13 8 0.44
14 3 0.17
ACGTcount: A:0.61, C:0.06, G:0.15, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:112314181 original size:85 final size:85
Alignment explanation
Indices: 112314077--112314313 Score: 422
Period size: 85 Copynumber: 2.8 Consensus size: 85
112314067 AATTGGAAAA
112314077 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAATTGAAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAATTGAAAACAGAAATTGAAA
112314142 ATACCTCATCGTGTCCTGAG
66 ATACCTCATCGTGTCCTGAG
*
112314162 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAACAGAATTGAAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAATTGAAAACAGAAATTGAAA
112314227 ATACCTCATCGTGTCCTGAG
66 ATACCTCATCGTGTCCTGAG
* *
112314247 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACGGAAATTAAAAAACAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG-AATT-GAAAACAGAAATTGA
112314311 AAA
64 AAA
112314314 AGCTCAGAGT
Statistics
Matches: 146, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
84 11 0.08
85 118 0.81
86 17 0.12
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (85 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAATTGAAAACAGAAATTGAAA
ATACCTCATCGTGTCCTGAG
Found at i:112314215 original size:12 final size:13
Alignment explanation
Indices: 112314198--112314227 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
112314188 TTGATTTTTG
112314198 GAAAACAG-AATT
1 GAAAACAGAAATT
112314210 GAAAACAGAAATT
1 GAAAACAGAAATT
112314223 GAAAA
1 GAAAA
112314228 TACCTCATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.63, C:0.07, G:0.17, T:0.13
Consensus pattern (13 bp):
GAAAACAGAAATT
Found at i:112314301 original size:14 final size:15
Alignment explanation
Indices: 112314282--112314314 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
112314272 GTTGATTTTG
*
112314282 AAAAACGGAAATT-A
1 AAAAACAGAAATTGA
112314296 AAAAACAGAAATTGA
1 AAAAACAGAAATTGA
112314311 AAAA
1 AAAA
112314315 GCTCAGAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.70, C:0.06, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAAACAGAAATTGA
Found at i:112316931 original size:15 final size:15
Alignment explanation
Indices: 112316911--112316961 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
112316901 CATATCTTCC
112316911 ATGACTTTGCTTTTG
1 ATGACTTTGCTTTTG
** **
112316926 ATGAC-TCACATTTCC
1 ATGACTTTGC-TTTTG
112316941 ATGACTTTGCTTTTG
1 ATGACTTTGCTTTTG
112316956 ATGACT
1 ATGACT
112316962 CACATTCTTA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 2 0.08
15 22 0.85
16 2 0.08
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.45
Consensus pattern (15 bp):
ATGACTTTGCTTTTG
Found at i:112316943 original size:30 final size:30
Alignment explanation
Indices: 112316907--112316967 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
112316897 AAAGCATATC
112316907 TTCCATGACTTTGCTTTTGATGACTCACAT
1 TTCCATGACTTTGCTTTTGATGACTCACAT
112316937 TTCCATGACTTTGCTTTTGATGACTCACAT
1 TTCCATGACTTTGCTTTTGATGACTCACAT
112316967 T
1 T
112316968 CTTATTTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (30 bp):
TTCCATGACTTTGCTTTTGATGACTCACAT
Found at i:112326393 original size:21 final size:25
Alignment explanation
Indices: 112326382--112326438 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 25
112326372 AAAAATAACA
112326382 ATATATACATAAAATACATATACAT
1 ATATATACATAAAATACATATACAT
* * *
112326407 ATATAT--AT-ATATATATATATAT
1 ATATATACATAAAATACATATACAT
112326429 ATATATACAT
1 ATATATACAT
112326439 GACATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 17 0.63
23 2 0.07
24 2 0.07
25 6 0.22
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATATACATAAAATACATATACAT
Found at i:112326412 original size:2 final size:2
Alignment explanation
Indices: 112326399--112326435 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
112326389 CATAAAATAC
*
112326399 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112326436 CATGACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:112327003 original size:21 final size:20
Alignment explanation
Indices: 112326977--112327021 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
112326967 TAAAATGCAC
*
112326977 ATAATAATAATATATGTATAT
1 ATAATAATAAAATATG-ATAT
*
112326998 ATAATAGTAAAATATGATAT
1 ATAATAATAAAATATGATAT
112327018 ATAA
1 ATAA
112327022 AGTTAACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (20 bp):
ATAATAATAAAATATGATAT
Found at i:112327153 original size:2 final size:2
Alignment explanation
Indices: 112327146--112327177 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
112327136 ATACCAAAAC
112327146 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112327178 GAATGTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112327251 original size:14 final size:14
Alignment explanation
Indices: 112327232--112327258 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
112327222 ATAATAATTG
112327232 ATACTAAAATAATA
1 ATACTAAAATAATA
112327246 ATACTAAAATAAT
1 ATACTAAAATAAT
112327259 TAGCTCAAAT
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:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
ATACTAAAATAATA
Found at i:112329428 original size:15 final size:15
Alignment explanation
Indices: 112329408--112329459 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
112329398 ACTACAAAAC
112329408 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
112329423 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
112329442 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
112329457 ATT
1 ATT
112329460 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:112331863 original size:127 final size:128
Alignment explanation
Indices: 112331684--112332001 Score: 408
Period size: 128 Copynumber: 2.5 Consensus size: 128
112331674 CGAAAGACTG
* * * * * ** *
112331684 AAACCCAGCATGGTAGGGTACGATTCCTCGAACTTT-CAAACATTGAACATTGCATTGTTTTAGA
1 AAACCCAGCACGATAGGGCACGATTCC-CCAAATTTCCAAACATCAAACATTGCCTTGTTTTAGA
* * * *
112331748 ATTTA-AAGAATACGAATGAAATTCTAAAGGAATA-TTTGATTATTTTGAACAAACGAGAAATCG
65 ATTTAGAAAAACACGAATGAAATTCTAAAGGAA-AGTTCGATTATTTTGAACAAACGAGAAATCA
* *
112331811 AAACCCAGCACGATAGGGCACGGTTCCCCAAATTTCCAAGCATCAAACATTGCCTTGTTTTAGAA
1 AAACCCAGCACGATAGGGCACGATTCCCCAAATTTCCAAACATCAAACATTGCCTTGTTTTAGAA
* * *
112331876 TTTAGAAAAACACGAGTGAATTTCTAAAGGAAAGTTCGATTATTTTGAACAAACGGGAAATCA
66 TTTAGAAAAACACGAATGAAATTCTAAAGGAAAGTTCGATTATTTTGAACAAACGAGAAATCA
* * *
112331939 AAACCCAGCACGGTAGGGCACGATTTCCCGAATTTCCAAACATCAAACATTGCCTTCGTTTTA
1 AAACCCAGCACGATAGGGCACGATTCCCCAAATTTCCAAACATCAAACATTGCCTT-GTTTTA
112332002 AGGAATTTTT
Statistics
Matches: 165, Mismatches: 22, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
126 6 0.04
127 53 0.32
128 100 0.61
129 6 0.04
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (128 bp):
AAACCCAGCACGATAGGGCACGATTCCCCAAATTTCCAAACATCAAACATTGCCTTGTTTTAGAA
TTTAGAAAAACACGAATGAAATTCTAAAGGAAAGTTCGATTATTTTGAACAAACGAGAAATCA
Found at i:112332862 original size:2 final size:2
Alignment explanation
Indices: 112332855--112332891 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
112332845 ATAAATACCA
112332855 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112332892 CGTATAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:112337623 original size:7 final size:7
Alignment explanation
Indices: 112337613--112337765 Score: 88
Period size: 7 Copynumber: 22.0 Consensus size: 7
112337603 TTTAAAATTG
112337613 TATATAA
1 TATATAA
112337620 TATAATAA
1 TAT-ATAA
*
112337628 AATATAA
1 TATATAA
*
112337635 -ATAAAA
1 TATATAA
*
112337641 TATAAAA
1 TATATAA
112337648 TA-ATAA
1 TATATAA
112337654 TATAATAA
1 TAT-ATAA
112337662 T-TA-ATA
1 TATATA-A
*
112337668 TAGTAAAA
1 TA-TATAA
112337676 TATAGTAA
1 TATA-TAA
*
112337684 TAAATAA
1 TATATAA
112337691 TATATAA
1 TATATAA
*
112337698 -A-ATTA
1 TATATAA
*
112337703 TAAATAA
1 TATATAA
112337710 TATATAA
1 TATATAA
112337717 TATATAA
1 TATATAA
112337724 TATAATAA
1 TAT-ATAA
*
112337732 -AT-TATG
1 TATATA-A
*
112337738 TATAAAA
1 TATATAA
*
112337745 TATAAAA
1 TATATAA
*
112337752 TATAAAA
1 TATATAA
112337759 TATATAA
1 TATATAA
112337766 GAATTTTATA
Statistics
Matches: 118, Mismatches: 13, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
5 6 0.05
6 15 0.13
7 70 0.59
8 26 0.22
9 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (7 bp):
TATATAA
Found at i:112337636 original size:26 final size:25
Alignment explanation
Indices: 112337613--112337765 Score: 135
Period size: 26 Copynumber: 6.3 Consensus size: 25
112337603 TTTAAAATTG
112337613 TATATAATATAATAAAATATAAATAA
1 TATATAATAT-ATAAAATATAAATAA
*
112337639 AATATAA-A-ATAATAATAT-AAT-A
1 TATATAATATATAA-AATATAAATAA
*
112337661 -AT-TAATATAGTAAAATAT-AGTAA
1 TATATAATATA-TAAAATATAAATAA
*
112337684 TAAATAATATATAAAATTATAAATAA
1 TATATAATATATAAAA-TATAAATAA
* *
112337710 TATATAATATATAATATAATAAATTA
1 TATATAATATATAAAAT-ATAAATAA
* *
112337736 TGTATAAAATATAAAATAT-AA-AA
1 TATATAATATATAAAATATAAATAA
112337759 TATATAA
1 TATATAA
112337766 GAATTTTATA
Statistics
Matches: 105, Mismatches: 12, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
20 3 0.03
21 3 0.03
22 9 0.09
23 18 0.17
24 13 0.12
25 14 0.13
26 45 0.43
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
TATATAATATATAAAATATAAATAA
Found at i:112337709 original size:12 final size:11
Alignment explanation
Indices: 112337618--112337750 Score: 87
Period size: 12 Copynumber: 11.7 Consensus size: 11
112337608 AATTGTATAT
112337618 AATAT-AATAA
1 AATATAAATAA
112337628 AATATAAATAA
1 AATATAAATAA
112337639 AATATAAAATAA
1 AATAT-AAATAA
112337651 TAATAT-AATAA
1 -AATATAAATAA
*
112337662 TTAATAT-AGTAA
1 --AATATAAATAA
112337674 AATATAGTAAT-A
1 AATATA--AATAA
*
112337686 AATAATATATAA
1 AAT-ATAAATAA
112337698 AATTATAAATAA
1 AA-TATAAATAA
* *
112337710 TATATAATATAT
1 AATATAA-ATAA
112337722 AATAT-AATAA
1 AATATAAATAA
* **
112337732 ATTATGTATAA
1 AATATAAATAA
112337743 AATATAAA
1 AATATAAA
112337751 ATATAAAATA
Statistics
Matches: 98, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
10 17 0.17
11 32 0.33
12 38 0.39
13 11 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
AATATAAATAA
Found at i:112340589 original size:27 final size:27
Alignment explanation
Indices: 112340535--112340645 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
112340525 AGCATGGCTG
*
112340535 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGACAGAGCCA
* *
112340561 CCAGATCAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGACAGAGCCA
*
112340588 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGACAGAGCCA
* *
112340615 CCAGATCAGATAATTGTGACATAGCCA
1 CCAGAACAGATAATTGTGACAGAGCCA
112340642 CCAG
1 CCAG
112340646 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 59 0.79
28 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGACAGAGCCA
Found at i:112340617 original size:54 final size:53
Alignment explanation
Indices: 112340535--112340645 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 53
112340525 AGCATGGCTG
* *
112340535 CCAGAACAGATAATGTGACAGAGTCACCAGATCAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTGTGACAGAGCCA
* *
112340588 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGACATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTGTGACAGAGCCA
112340642 CCAG
1 CCAG
112340646 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 12 0.23
54 41 0.77
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTGTGACAGAGCCA
Found at i:112342254 original size:26 final size:26
Alignment explanation
Indices: 112342218--112342327 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
112342208 CATGAAATTC
112342218 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
112342244 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* **
112342270 TTATCATGGAACATTTACCTAACTTA
1 TTATCATGAAACATTTACCTAACCCA
* *
112342296 TTATCATGTAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
112342322 TTATCA
1 TTATCA
112342328 ATTTGTACCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:112342880 original size:39 final size:39
Alignment explanation
Indices: 112342837--112342972 Score: 218
Period size: 39 Copynumber: 3.5 Consensus size: 39
112342827 GGTCTTTAAC
** * *
112342837 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGATCTCATGT
* *
112342876 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGATCTCATGT
112342915 CCGGATATTTTTCCAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGATCTCATGT
112342954 CCGGATATTTTTCCAGCAT
1 CCGGATATTTTTCCAGCAT
112342973 CTCATGTCCG
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGATCTCATGT
Found at i:112342974 original size:26 final size:26
Alignment explanation
Indices: 112342945--112342998 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
112342935 TAGCCTGCGG
112342945 ATCTCATGTCCGGATATTTTTCCAGC
1 ATCTCATGTCCGGATATTTTTCCAGC
112342971 ATCTCATGTCCGGATATTTTTCCAGC
1 ATCTCATGTCCGGATATTTTTCCAGC
112342997 AT
1 AT
112342999 ATAGCCTGCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (26 bp):
ATCTCATGTCCGGATATTTTTCCAGC
Found at i:112342987 original size:65 final size:65
Alignment explanation
Indices: 112342906--112343029 Score: 239
Period size: 65 Copynumber: 1.9 Consensus size: 65
112342896 TAGCCTGCGG
*
112342906 ATCTCATGTCCGGATATTTTTCCAGCATATAGCCTGCGGATCTCATGTCCGGATATTTTTCCAGC
1 ATCTCATGTCCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATTTTTCCAGC
112342971 ATCTCATGTCCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATTTT
1 ATCTCATGTCCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATTTT
112343030 CAATCTCATA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (65 bp):
ATCTCATGTCCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATTTTTCCAGC
Found at i:112346186 original size:127 final size:127
Alignment explanation
Indices: 112345954--112347150 Score: 1955
Period size: 127 Copynumber: 9.4 Consensus size: 127
112345944 ATCAGCTATA
* * *
112345954 TCTTTGATCTGCTCCCTGTTGAATACAGAAGGATAAGATCTGTCATCTTGGATCTACTCCCCGTC
1 TCTTCGATCTGCTCCCTGTCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTACTCCCCGTC
*
112346019 CATTACAGAGAGATAAGATCCGTCATCTTGGATCTGCCCTGATGAAGGTCAGATCTGCTACG
66 CATTACAGAGAGATAAGATCCGCCATCTTGGATCTGCCCTGATGAAGGTCAGATCTGCTACG
112346081 TCTTCGATCTGCTCCCTGTCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTACTCCCCGTC
1 TCTTCGATCTGCTCCCTGTCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTACTCCCCGTC
* * * * **
112346146 CATTATAGAGAGATAAGATCCGCCATCTTCGATCTACCCTGATGAAGGTCAGATCAGCTATA
66 CATTACAGAGAGATAAGATCCGCCATCTTGGATCTGCCCTGATGAAGGTCAGATCTGCTACG
* * * *
112346208 TCTTTGATCTGCTCCCTGTTGAATACAGAAGGATAAGATCTGTCATCTTGGATCTACTCCCCATC
1 TCTTCGATCTGCTCCCTGTCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTACTCCCCGTC
112346273 CATTACAGAGAGATAAGATCCGCCATCTTGGATCTGCCCTGATGAAGGTCAGATCTGCTACG
66 CATTACAGAGAGATAAGATCCGCCATCTTGGATCTGCCCTGATGAAGGTCAGATCTGCTACG
112346335 TCTTCGATCTGCTCCCTGTCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTACTCCCCGTC
1 TCTTCGATCTGCTCCCTGTCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTACTCCCCGTC
* * * *
112346400 CATTACAGAAAGATAAGATCCGTCATCTTGGATCTACCCTGATGAAGGTCAGATCTGCTATG
66 CATTACAGAGAGATAAGATCCGCCATCTTGGATCTGCCCTGATGAAGGTCAGATCTGCTACG
* * *
112346462 TCTTCGATCTGCTCCCTGTCGAATACAGAAAGACAAGATCTATCATCTTGGATCTACTCCCCATC
1 TCTTCGATCTGCTCCCTGTCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTACTCCCCGTC
* * *
112346527 CATTATAGAGAGATAAGATCCGCCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATG
66 CATTACAGAGAGATAAGATCCGCCATCTTGGATCTGCCCTGATGAAGGTCAGATCTGCTACG
* * * *
112346589 TCTTTGATCTGCTCCCCGTTGAATACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTC
1 TCTTCGATCTGCTCCCTGTCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTACTCCCCGTC
* *
112346654 CATTACAGAGAGGTAAGATCCGTCATCTTGGATCTGCCCTGATGAAGGTCAGATCTGCTACG
66 CATTACAGAGAGATAAGATCCGCCATCTTGGATCTGCCCTGATGAAGGTCAGATCTGCTACG
*
112346716 TCTTCGATTTGCTCCCTGTCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTACT-CCCGTC
1 TCTTCGATCTGCTCCCTGTCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTACTCCCCGTC
*
112346780 CATTACAGAGAGATAAGATCCGCCATCTTGGATCTGCCCTGATGAAGGTTAGATCTGCTACG
66 CATTACAGAGAGATAAGATCCGCCATCTTGGATCTGCCCTGATGAAGGTCAGATCTGCTACG
* * *
112346842 TTTTCGATCTGCTCCCTGTCGAATACAGAAAGACAAGATCTGTCATCTTGGATCTACTCCCCATC
1 TCTTCGATCTGCTCCCTGTCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTACTCCCCGTC
* *
112346907 CATTATAGAGAGATAAGATCCGCCATCTTGGATCTTCCCTGATGAAGGTCAGATCTGCTACG
66 CATTACAGAGAGATAAGATCCGCCATCTTGGATCTGCCCTGATGAAGGTCAGATCTGCTACG
* * **
112346969 TCTTCAATCTGCTCCCTGTCGAATACAGAAAGACAAGATCTGTCATCTTGGATCTACTCCCTATC
1 TCTTCGATCTGCTCCCTGTCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTACTCCCCGTC
* * * *
112347034 CATTATAGAGAGATAAGATCCGCCATCTTAGATCTGCCCCGATGAAGGTCAGATCTGCTATG
66 CATTACAGAGAGATAAGATCCGCCATCTTGGATCTGCCCTGATGAAGGTCAGATCTGCTACG
* * *
112347096 TCTTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTGGATCT
1 TCTTCGATCTGCTCCCTGTCGAATACAGAAAGATAAGATCTGTCATCTTGGATCT
112347151 GCCCCGATGA
Statistics
Matches: 994, Mismatches: 75, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
126 120 0.12
127 874 0.88
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (127 bp):
TCTTCGATCTGCTCCCTGTCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTACTCCCCGTC
CATTACAGAGAGATAAGATCCGCCATCTTGGATCTGCCCTGATGAAGGTCAGATCTGCTACG
Found at i:112354345 original size:5 final size:5
Alignment explanation
Indices: 112354335--112354548 Score: 72
Period size: 5 Copynumber: 42.6 Consensus size: 5
112354325 TTAAAATTGT
* * *
112354335 ATATA ATATA ATA-A ATATA A-ATA AAATA AAATA AAATA A-ATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
** * * * * *
112354381 ATAGC AT-TT A-ATA ATACA AAATA ATATA TGTTAAA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA
* * * * *
112354431 CA-ACA AAATA ATATA ACCAATA ATATT ATAAA ATAATA ATATA ATAATTA
1 -ATATA ATATA ATATA A--TATA ATATA ATATA AT-ATA ATATA AT-A-TA
* * * *
112354481 ATATA GTAAA ATATA GTAATA A-ATA ATAT- ATAAA ATTATA A-ATA ATAT-
1 ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA A-TATA ATATA ATATA
112354529 ATAATA TATATA ATATA ATA
1 AT-ATA -ATATA ATATA ATA
112354549 AATTATGTAT
Statistics
Matches: 157, Mismatches: 29, Indels: 46
0.68 0.12 0.20
Matches are distributed among these distances:
4 32 0.20
5 95 0.61
6 17 0.11
7 13 0.08
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (5 bp):
ATATA
Found at i:112354455 original size:15 final size:14
Alignment explanation
Indices: 112354423--112354474 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
112354413 AAAATATAAT
*
112354423 ATAAT-ATACAACA
1 ATAATAATATAACA
112354436 A-AATAATATAACCA
1 ATAATAATATAA-CA
*
112354450 ATAATATTATAA-A
1 ATAATAATATAACA
112354463 ATAATAATATAA
1 ATAATAATATAA
112354475 TAATTAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 3 0.09
13 18 0.55
14 3 0.09
15 9 0.27
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAATAATATAACA
Found at i:112354482 original size:28 final size:26
Alignment explanation
Indices: 112354451--112354551 Score: 100
Period size: 28 Copynumber: 3.8 Consensus size: 26
112354441 ATATAACCAA
112354451 TAATATTATAAAATAATAATATAATAAT
1 TAATA-TATAAAATAATAA-ATAATAAT
* *
112354479 TAATATAGTAAAAT-AT-AGTAATAAA
1 TAATATA-TAAAATAATAAATAATAAT
*
112354504 TAATATATAAAATTATAAATAAT-AT
1 TAATATATAAAATAATAAATAATAAT
112354529 ATAATATATATAATATAATAAAT
1 -TAATATATA-AA-ATAATAAAT
112354552 TATGTATAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
24 6 0.10
25 16 0.26
26 15 0.24
27 6 0.10
28 19 0.31
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
TAATATATAAAATAATAAATAATAAT
Found at i:112354492 original size:53 final size:51
Alignment explanation
Indices: 112354435--112354545 Score: 129
Period size: 52 Copynumber: 2.2 Consensus size: 51
112354425 AATATACAAC
*
112354435 AAAATAATA-TAACCAATAATATTATAAAATAATAATATAATA-ATTAATATAGT
1 AAAAT-ATAGTAACAAATAATA-TATAAAATAATAA-ATAATATA-TAATATAGT
* *
112354488 AAAATATAGTAATAAATAATATATAAAATTATAAATAATATATAATATA-T
1 AAAATATAGTAACAAATAATATATAAAATAATAAATAATATATAATATAGT
*
112354538 ATAATATA
1 AAAATATA
112354546 ATAAATTATG
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
50 8 0.15
51 13 0.25
52 16 0.31
53 15 0.29
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (51 bp):
AAAATATAGTAACAAATAATATATAAAATAATAAATAATATATAATATAGT
Found at i:112354513 original size:7 final size:7
Alignment explanation
Indices: 112354450--112354574 Score: 64
Period size: 7 Copynumber: 17.6 Consensus size: 7
112354440 AATATAACCA
112354450 ATAATATT
1 ATAATA-T
112354458 ATAA-A-
1 ATAATAT
112354463 ATAATAAT
1 ATAAT-AT
112354471 ATAATA-
1 ATAATAT
112354477 ATTAATAT
1 A-TAATAT
112354485 AGTAAAATAT
1 A-T--AATAT
*
112354495 AGTAATAA
1 A-TAATAT
112354503 ATAATAT
1 ATAATAT
112354510 ATAA-A-
1 ATAATAT
* *
112354515 ATTATAA
1 ATAATAT
112354522 ATAATAT
1 ATAATAT
112354529 ATAATAT
1 ATAATAT
112354536 AT-ATAAT
1 ATAAT-AT
*
112354543 ATAATAA
1 ATAATAT
* *
112354550 ATTATGT
1 ATAATAT
*
112354557 ATAAAAT
1 ATAATAT
*
112354564 ATAAAAT
1 ATAATAT
112354571 ATAA
1 ATAA
112354575 AATAAATAAG
Statistics
Matches: 93, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
5 7 0.08
6 5 0.05
7 55 0.59
8 18 0.19
10 8 0.09
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (7 bp):
ATAATAT
Found at i:112354559 original size:28 final size:28
Alignment explanation
Indices: 112354470--112354574 Score: 88
Period size: 28 Copynumber: 3.7 Consensus size: 28
112354460 AAAATAATAA
* *
112354470 TATAATA-AT-TAATATAGTAAAATATAG
1 TATAATATATATAATATAATAAATTAT-G
* * * *
112354497 TAATAAATAATATATAAAATTATAAATAATA
1 T-AT-AAT-ATATATAATATAATAAATTATG
112354528 TATAATATATATAATATAATAAATTATG
1 TATAATATATATAATATAATAAATTATG
* *
112354556 TATAAAATATAAAATATAA
1 TATAATATATATAATATAA
112354575 AATAAATAAG
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
27 1 0.02
28 37 0.61
29 6 0.10
30 3 0.05
31 3 0.05
32 11 0.18
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (28 bp):
TATAATATATATAATATAATAAATTATG
Found at i:112357217 original size:16 final size:14
Alignment explanation
Indices: 112357187--112357216 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
112357177 ATTATTTAAG
112357187 TAAATATTATTATA
1 TAAATATTATTATA
*
112357201 TAAATATTATTTTA
1 TAAATATTATTATA
112357215 TA
1 TA
112357217 TTGATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAAATATTATTATA
Found at i:112358545 original size:18 final size:18
Alignment explanation
Indices: 112358519--112358562 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
112358509 AAAATAAAGG
*
112358519 TACTAAATAATTGACTGC
1 TACTGAATAATTGACTGC
* *
112358537 TACTGAATATTTGACTGT
1 TACTGAATAATTGACTGC
112358555 TACTGAAT
1 TACTGAAT
112358563 TACTGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
TACTGAATAATTGACTGC
Found at i:112359294 original size:55 final size:55
Alignment explanation
Indices: 112359227--112359339 Score: 208
Period size: 55 Copynumber: 2.1 Consensus size: 55
112359217 TATAAAATGT
* *
112359227 GTTTGGATTGGTTTAGTATTGGTATTTGCATTGGTTAGGGTTTGAAATTTGCAGG
1 GTTTGCATTGGTTTAGTATTGGTATTTGCATTGGTTAAGGTTTGAAATTTGCAGG
112359282 GTTTGCATTGGTTTAGTATTGGTATTTGCATTGGTTAAGGTTTGAAATTTGCAGG
1 GTTTGCATTGGTTTAGTATTGGTATTTGCATTGGTTAAGGTTTGAAATTTGCAGG
112359337 GTT
1 GTT
112359340 AGCTAGTAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (55 bp):
GTTTGCATTGGTTTAGTATTGGTATTTGCATTGGTTAAGGTTTGAAATTTGCAGG
Found at i:112359331 original size:23 final size:23
Alignment explanation
Indices: 112359283--112359334 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
112359273 ATTTGCAGGG
* **
112359283 TTTGCATTGGTTTAGTATTGGTA
1 TTTGCATTGGTTAAGTATTGAAA
112359306 TTTGCATTGGTTAAGGT-TTGAAA
1 TTTGCATTGGTTAA-GTATTGAAA
112359329 TTTGCA
1 TTTGCA
112359335 GGGTTAGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.21, C:0.06, G:0.25, T:0.48
Consensus pattern (23 bp):
TTTGCATTGGTTAAGTATTGAAA
Found at i:112359643 original size:22 final size:21
Alignment explanation
Indices: 112359615--112359673 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 21
112359605 ACACGGTGTG
112359615 GCCACACAGGCGTGT-CACATAA
1 GCCACAC-GGCGTGTCCA-ATAA
112359637 GCCACACGAGCGTGTCCAATAA
1 GCCACACG-GCGTGTCCAATAA
112359659 GCCACACGGGCGTGT
1 GCCACAC-GGCGTGT
112359674 GGTACTGTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 1 0.03
22 30 0.88
23 3 0.09
ACGTcount: A:0.27, C:0.32, G:0.27, T:0.14
Consensus pattern (21 bp):
GCCACACGGCGTGTCCAATAA
Found at i:112360529 original size:30 final size:30
Alignment explanation
Indices: 112360490--112360556 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
112360480 ATTAAAACCA
*
112360490 AATTATAAAATTTTTGAGAGATCAAAATGT
1 AATTTTAAAATTTTTGAGAGATCAAAATGT
112360520 AATTTTAAAATTTTTGAGAGATCAAAATGT
1 AATTTTAAAATTTTTGAGAGATCAAAATGT
112360550 AATTTTA
1 AATTTTA
112360557 TCTTATATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (30 bp):
AATTTTAAAATTTTTGAGAGATCAAAATGT
Found at i:112361562 original size:19 final size:19
Alignment explanation
Indices: 112361537--112361588 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
112361527 AATTATAGAA
112361537 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
*
112361556 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
112361575 AAAAATTTCAAAAT
1 AAAAA-TTCAAAAT
112361589 TTATCTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 17 0.59
20 8 0.28
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:112364839 original size:30 final size:30
Alignment explanation
Indices: 112364803--112364918 Score: 144
Period size: 30 Copynumber: 3.9 Consensus size: 30
112364793 AAAACCTTAG
*
112364803 CCACCTTAACTCCCACTTGCACCT-CTTCCA
1 CCACCTTATCTCCCACTTGCACCTAC-TCCA
* *
112364833 CCACCTTGTCTCCCACTTGCACTTACTCCA
1 CCACCTTATCTCCCACTTGCACCTACTCCA
* ** *
112364863 CTACCTTGCCTCCCACTTACACCTACTCCA
1 CCACCTTATCTCCCACTTGCACCTACTCCA
*
112364893 CCACCTTATCTCCCACTTGTACCTAC
1 CCACCTTATCTCCCACTTGCACCTAC
112364919 ACTATCAAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
30 72 0.99
31 1 0.01
ACGTcount: A:0.19, C:0.48, G:0.04, T:0.28
Consensus pattern (30 bp):
CCACCTTATCTCCCACTTGCACCTACTCCA
Found at i:112366452 original size:131 final size:131
Alignment explanation
Indices: 112366218--112366453 Score: 282
Period size: 131 Copynumber: 1.8 Consensus size: 131
112366208 CCCTATCATA
* * *
112366218 TTGGGTTGTGATTTCTCGTTTATTCAAAACAACCGAATATTCCTTTAGGTTTTCACTCGTGTTTA
1 TTGGGTTGTGATTTCTCGTTTATTCAAAACAACCGAAGATTCCTTGAAGTTTTCACTCGTGTTTA
* * **
112366283 TTAAAAACCTTCCAAAACGAAGACAATACTCGGTGTTTGATAATTTGGGAATCGTGCCCTAATGT
66 TTAAAAACCTTCAAAAACAAAGACAATACTCGACGTTTGATAATTTGGGAATCGTGCCCTAATGT
112366348 G
131 G
** *
112366349 TTGGGTTGTGATTTCTCGTTT-TTTTAAACAATCGAAGATTCCTTCGAAG-TTTCACT-GATGTT
1 TTGGGTTGTGATTTCTCGTTTATTCAAAACAACCGAAGATTCCTT-GAAGTTTTCACTCG-TGTT
* * * *
112366411 T-TCTAAAAACCCTTTAAAAACAAAGGCGATATTCGACGTTTGA
64 TAT-TAAAAA-CCTTCAAAAACAAAGACAATACTCGACGTTTGA
112366454 CGATTCGGGA
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
129 2 0.02
130 37 0.43
131 48 0.55
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (131 bp):
TTGGGTTGTGATTTCTCGTTTATTCAAAACAACCGAAGATTCCTTGAAGTTTTCACTCGTGTTTA
TTAAAAACCTTCAAAAACAAAGACAATACTCGACGTTTGATAATTTGGGAATCGTGCCCTAATGT
G
Found at i:112369896 original size:27 final size:26
Alignment explanation
Indices: 112369859--112369973 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
112369849 AGCATGGCTG
* *
112369859 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
112369885 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
112369913 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
112369940 CCAGATCATATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
112369967 CCAGAAC
1 CCAGAAC
112369974 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 5 0.06
27 57 0.72
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:112369918 original size:54 final size:54
Alignment explanation
Indices: 112369859--112369973 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
112369849 AGCATGGCTG
*
112369859 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
112369913 CCAGAACAGATATATGTGGCAGAGCCACCAGATCATATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
112369967 CCAGAAC
1 CCAGAAC
112369974 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:112370103 original size:26 final size:26
Alignment explanation
Indices: 112370074--112370125 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
112370064 CAAAATTAAC
112370074 CCTACGGG-TATAACGA-TAATTTTCCA
1 CCTA-GGGATATAA-GAGTAATTTTCCA
*
112370100 CCTAGGGATATAATAGTAATTTTCCA
1 CCTAGGGATATAAGAGTAATTTTCCA
112370126 TACATAGGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (26 bp):
CCTAGGGATATAAGAGTAATTTTCCA
Found at i:112370143 original size:28 final size:26
Alignment explanation
Indices: 112370090--112370147 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
112370080 GGTATAACGA
*
112370090 TAATTTTCCACCTAGGGATATAATAG
1 TAATTTTCCACATAGGGATATAATAG
* *
112370116 TAATTTTCCATACATAGGGGTATTATAG
1 TAATTTTCC--ACATAGGGATATAATAG
112370144 TAAT
1 TAAT
112370148 GTAGCTACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (26 bp):
TAATTTTCCACATAGGGATATAATAG
Found at i:112371627 original size:26 final size:26
Alignment explanation
Indices: 112371591--112371700 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
112371581 CATGAAATTC
112371591 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
112371617 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
112371643 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
112371669 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
112371695 TTATCA
1 TTATCA
112371701 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:112372209 original size:23 final size:22
Alignment explanation
Indices: 112372183--112372226 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
112372173 CATTTGGCCC
*
112372183 TTCCTCATTTTTTTGCTTTTAAA
1 TTCCT-ATTTTTTTACTTTTAAA
*
112372206 TTCCTTTTTTTTTACTTTTAA
1 TTCCTATTTTTTTACTTTTAA
112372227 TTTATGCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.16, C:0.16, G:0.02, T:0.66
Consensus pattern (22 bp):
TTCCTATTTTTTTACTTTTAAA
Found at i:112372488 original size:3 final size:3
Alignment explanation
Indices: 112372480--112372567 Score: 110
Period size: 3 Copynumber: 30.0 Consensus size: 3
112372470 TTCTAATGCC
* *
112372480 ATT ATT ATT ATC ACTT CT- ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
112372525 ATT ATT ATT ATT ATT ATT ATT A-T ATT -TT ACT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
112372568 TTTTTCATAT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
2 5 0.07
3 67 0.92
4 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:112372674 original size:16 final size:15
Alignment explanation
Indices: 112372653--112372692 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
112372643 GTTACTAATG
*
112372653 TATTATTATTACTAGT
1 TATTATTATTACTA-A
*
112372669 TATTATTATTTCTAA
1 TATTATTATTACTAA
112372684 TATTATTAT
1 TATTATTAT
112372693 ATATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (15 bp):
TATTATTATTACTAA
Found at i:112372740 original size:18 final size:18
Alignment explanation
Indices: 112372692--112372746 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
112372682 AATATTATTA
112372692 TATATATAATATCAGTGTATG
1 TATATAT-ATAT-A-TGTATG
*
112372713 T-TTTATTATATATGTATG
1 TATATA-TATATATGTATG
112372731 TATATATATATA-GTAT
1 TATATATATATATGTAT
112372747 TATTTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 4 0.13
18 13 0.43
19 4 0.13
20 7 0.23
21 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (18 bp):
TATATATATATATGTATG
Found at i:112373796 original size:2 final size:2
Alignment explanation
Indices: 112373784--112373813 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
112373774 TTTTATGTAC
*
112373784 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112373814 TTGTACATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112373931 original size:37 final size:37
Alignment explanation
Indices: 112373889--112373988 Score: 91
Period size: 37 Copynumber: 2.6 Consensus size: 37
112373879 CTAATATTTT
112373889 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
112373926 CTTTTATTATACGCATA-TATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATATTAT-TAT-TATTATTATGTACATA
*
112373967 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
112373989 CCAAATATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 16 0.30
38 7 0.13
39 6 0.11
40 11 0.21
41 11 0.21
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:112375689 original size:12 final size:12
Alignment explanation
Indices: 112375672--112375707 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
112375662 ATTCATTTGA
112375672 CATTCATGCATT
1 CATTCATGCATT
112375684 CATTCATGCATT
1 CATTCATGCATT
*
112375696 CATTCATACATT
1 CATTCATGCATT
112375708 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:112379078 original size:59 final size:58
Alignment explanation
Indices: 112378981--112379093 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 58
112378971 AAAAAAAGAA
112378981 AAAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGGAAAG
1 AAAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGGAAAG
* ***
112379039 AAAAGAAAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAAGAAAAAAAA-ATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
112379094 GAAAAGGGGG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
58 15 0.31
59 30 0.62
60 3 0.06
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (58 bp):
AAAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGGAAAG
Found at i:112380355 original size:40 final size:40
Alignment explanation
Indices: 112380289--112380455 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
112380279 AAATTGAATG
* * *
112380289 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
112380328 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
112380368 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGGGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTGGTAATT
* * ** *
112380408 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
112380448 ATATCCGG
1 ATATCCGG
112380456 TTATATTCCG
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:112380422 original size:80 final size:79
Alignment explanation
Indices: 112380289--112380439 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 79
112380279 AAATTGAATG
* *
112380289 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCGGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
112380354 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * ** *
112380368 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGGGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCGGGAAATTATATCCGGGCTAAGACCCGAAGGC
*
112380432 ATTTGTGC
64 AATTGTGC
112380440 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCGGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:112386709 original size:18 final size:18
Alignment explanation
Indices: 112386674--112386707 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
112386664 GTACAAGAGC
112386674 CTCAACGCAAGGACAAAG
1 CTCAACGCAAGGACAAAG
*
112386692 CTCAAC-CAAGGGCAAA
1 CTCAACGCAAGGACAAA
112386708 AGAGTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.29, G:0.21, T:0.06
Consensus pattern (18 bp):
CTCAACGCAAGGACAAAG
Found at i:112387216 original size:76 final size:75
Alignment explanation
Indices: 112387025--112387248 Score: 286
Period size: 77 Copynumber: 2.9 Consensus size: 75
112387015 GTTTTATTTC
* * * * * *
112387025 AAAATTCAATTCATATTGCTAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
***
112387090 TCGTTTGTTTCA
66 T-G-TTGTAAAA
*
112387102 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
112387167 TGTTGTAAAAA
66 TGTTGT-AAAA
* * *
112387178 AAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
112387243 TCTGTT
64 TCTGTT
112387249 TTTCAATTTC
Statistics
Matches: 130, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
75 4 0.03
76 41 0.32
77 59 0.45
78 26 0.20
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTGTAAAA
Found at i:112387253 original size:14 final size:14
Alignment explanation
Indices: 112387234--112387260 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
112387224 CGCCGAGGTA
112387234 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
112387248 TTTTCAATTTCTG
1 TTTTCAATTTCTG
112387261 CCTTTCAAAA
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:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:112387266 original size:14 final size:14
Alignment explanation
Indices: 112387235--112387268 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
112387225 GCCGAGGTAT
**
112387235 TTTCAATTTCTGTT
1 TTTCAATTTCTGCC
112387249 TTTCAATTTCTGCC
1 TTTCAATTTCTGCC
112387263 TTTCAA
1 TTTCAA
112387269 AAAAAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCTGCC
Found at i:112387374 original size:74 final size:75
Alignment explanation
Indices: 112387267--112387410 Score: 227
Period size: 74 Copynumber: 1.9 Consensus size: 75
112387257 TCTGCCTTTC
* *
112387267 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAA
1 AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAA
112387331 TTTCTATTGT
66 TTTCTATTGT
* * *
112387341 AAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCA
112387406 ATTTC
65 ATTTC
112387411 CGTTTTTCAA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 41 0.65
76 22 0.35
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (75 bp):
AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAA
TTTCTATTGT
Found at i:112387376 original size:166 final size:165
Alignment explanation
Indices: 112387101--112388969 Score: 1241
Period size: 166 Copynumber: 11.7 Consensus size: 165
112387091 CGTTTGTTTC
*
112387101 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACACGCTGAGGTATTTTCAATTT
* * *
112387166 CTGTTGTAAAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAG
65 CTGTT-T-TAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAG
112387231 GTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAA
128 GTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAA
*
112387269 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACACGCTGAGGTATTTTCAATTT
* * * * *
112387334 CTATTGTAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGT
65 CTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGT
*
112387399 ATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
130 ATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTC-AA
* * * *
112387436 AAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG---ACACGCTGAGGTATTTTCAAT
* * * * *
112387501 TTTTGTCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGATCACACGCCAA
63 TTCTGT-TTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
112387566 GGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAAAA
127 GGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTC--AA
* * * *
112387607 AAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG---ACACGCTGAGGTATTTTCAAT
* * * * * **
112387672 TTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCACACACTAA
63 TTCTGT-TTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
** * ***
112387737 GGTATTTT---TTT-T-TACTTCAATTTATATTTTTC--
127 GGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAA
* * * * ** *
112387769 -AAAAATCAACTCATATTGCAAAAGGTGAGTTGAGCCTTGAGTCACATATCGAGGTATTTTCAAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAG-GACAC-GCT-GAGGTATTTTCAAT
* * *
112387833 ATCTGCTTTTCAAGATTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACG
63 TTCTG-TTTT-AA-A---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACA
* *
112387897 CGCTGAGCTATTTTCAATTTCTG--------TTT-T--C--T--A
121 CGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAA
* ** * *
112387927 AAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACACGCTGAGGTATTTTCAATTT
* * *
112387992 CTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGT
65 CTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGT
112388055 ATTTTCAATTTCTG----------T-T---TTTC--
130 ATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAA
* * * * *
112388075 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCATGCTGAGGTATTGTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACACGCTGAGGTATTTTCAATTT
* * * **
112388139 TTGTGTTTCAATCTATTTTTTGAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGG--A
65 CTGT-TTT-AA---A------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
* *
112388202 CACGCTGAGGTAATTTCAATTTCTG---------TT-TG----TC--
119 CACGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAA
* *
112388233 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAATTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT--AGGACACGCTGAGGTATTTTCAATT
112388296 TCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
64 TCTG--------TTT-TA------AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * *
112388361 AGG--ACACGCTGAGGTAATTTCAATTTCTG----------T-TG----TAAA
113 AGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAA
** * *
112388397 AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACACGCTGAGGTATTTTCAATTT
* * * *
112388462 TTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGG
65 CTGT-TTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGG
*
112388525 TAATTTCAATTTCTG--------TTT-T--C--T--A
129 TATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAA
* ** * *
112388547 AAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACACGCTGAGGTATTTTCAATTT
* * * * *
112388612 TTGTTTTCAGAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGT
65 CTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGT
112388675 ATTTTCAATTTCTG----------T-T---TTTC--
130 ATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAA
* * * *
112388695 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTGTCAATTTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGACACGCTGAGGTATTTTCAATTTC
* * * * * * * *
112388759 TGTTTGT--CAAAAATCAACTTATACTGCGAGAGGAGAGTTGAGCCTCGGGTCACATGTCAAGGT
66 TGTTT-TAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGT
* *
112388822 ATTTTCAA-ATCTGTTTTTCAGA-TTCTG-TTTTC--
130 ATTTTCAATTTCTGTTTTTCA-ATTTCTGCCTTTCAA
* * * *
112388854 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG-ACAC--GCTGAGGTATTTTCAAT
* * *
112388918 TTCTATTTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
63 TTC---TGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
112388970 TTTAATTTCT
Statistics
Matches: 1460, Mismatches: 148, Indels: 188
0.81 0.08 0.10
Matches are distributed among these distances:
145 38 0.03
146 31 0.02
147 112 0.08
148 5 0.00
149 94 0.06
150 128 0.09
151 43 0.03
152 6 0.00
154 1 0.00
155 1 0.00
156 5 0.00
157 20 0.01
158 123 0.08
159 84 0.06
160 4 0.00
161 55 0.04
162 29 0.02
163 63 0.04
164 3 0.00
165 64 0.04
166 192 0.13
167 40 0.03
168 71 0.05
169 25 0.02
170 87 0.06
171 136 0.09
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (165 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTA
TTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAA
Found at i:112387512 original size:93 final size:93
Alignment explanation
Indices: 112387341--112387513 Score: 231
Period size: 93 Copynumber: 1.9 Consensus size: 93
112387331 TTTCTATTGT
* * *
112387341 AAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCA
*
112387406 ATTTCCGTTTTTCAATTTCTGCCTTTCA
66 ATTTCCGTCTTTCAATTTCTGCCTTTCA
* * * * *
112387434 AAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTC
1 AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGCCGAGCTATTTTC
**
112387498 AATTTTTGTCTTTCAA
65 AATTTCCGTCTTTCAA
112387514 AAAAATCAAC
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
92 2 0.03
93 66 0.97
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (93 bp):
AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCA
ATTTCCGTCTTTCAATTTCTGCCTTTCA
Found at i:112387589 original size:14 final size:14
Alignment explanation
Indices: 112387570--112387596 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
112387560 CGCCAAGGTA
112387570 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
112387584 TTTTCAATTTCTG
1 TTTTCAATTTCTG
112387597 CCTTTCAAAA
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:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:112387602 original size:14 final size:14
Alignment explanation
Indices: 112387571--112387604 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
112387561 GCCAAGGTAT
**
112387571 TTTCAATTTCTGTT
1 TTTCAATTTCTGCC
112387585 TTTCAATTTCTGCC
1 TTTCAATTTCTGCC
112387599 TTTCAA
1 TTTCAA
112387605 AAAAAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCTGCC
Found at i:112387666 original size:94 final size:94
Alignment explanation
Indices: 112387512--112387684 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 94
112387502 TTTGTCTTTC
*
112387512 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGATCACACGCCAAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGATCACACGCCAAGCTATTTTCAA
*
112387577 TTTCTGTTTTTCAATTTCTGCCTTTCAAA
66 TTTCTGTCTTTCAATTTCTGCCTTTCAAA
* * ** * * **
112387606 AAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGATCACACGCCAAGCTATTTTCAA
112387671 TTTCTGTCTTTCAA
66 TTTCTGTCTTTCAA
112387685 AAAAATCAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 69 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (94 bp):
AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGATCACACGCCAAGCTATTTTCAA
TTTCTGTCTTTCAATTTCTGCCTTTCAAA
Found at i:112387989 original size:75 final size:74
Alignment explanation
Indices: 112387851--112388969 Score: 840
Period size: 75 Copynumber: 14.5 Consensus size: 74
112387841 TTCAAGATTC
* * *
112387851 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAAT
112387915 TTCTGTTTTCTA
63 TTCTGTTTTCTA
** * *
112387927 AAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
*
112387992 CTGTTTTCAA
65 CTGTTTTCTA
*
112388002 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
112388067 TGTTTT-TC
66 TGTTTTCTA
* * * * *
112388075 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCATGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA--TT
*
112388140 TGTGTTTCAATCTA
64 TCTGTTT---TCTA
* * ** *
112388154 TTTTTTGAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 ------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
112388219 AATTTCTGTTTGTC--
60 AATTTCTGTTT-TCTA
* *
112388233 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTCAATTT
112388297 CTGCTTTTCAATTTA
65 CTG-TTTTC----TA
* * * * * * * * ** * *
112388312 TATTTTTCAAAA-AAATTCA-ACT-C-ATATTGCGAGAGGTGAG-TTGAGCCTCAGGAC--ACGC
1 -A------AAAATCAACTCATATTGCGAGA--G-GTGAGTTGAGCCTCAG-GACACG-CTGA-GG
** * *
112388370 TGA-GGT-AATTTCAATTTCTGTTGTAAAA
53 T-ATTTTCAATTTC--TGT-T-TTCT---A
** * * *
112388398 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
112388463 TGTCTTTCAA
66 TGT-TTTCTA
* *
112388473 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
112388538 TGTTTTCTA
66 TGTTTTCTA
** * *
112388547 AAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
*
112388612 TTGTTTTC-A
65 CTGTTTTCTA
*
112388621 GAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
*
112388686 CTGTTTT-TC
65 CTGTTTTCTA
* * *
112388695 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
112388759 TGTTTGTC--
66 TGTTT-TCTA
* * * * * *
112388767 AAAAATCAACTTATACTGCGAGAGGAGAGTTGAGCCTCGGGTCACATG-TCAAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCT-GAGGTATTTTC-AA
* * *
112388831 TCTGTTTTTCAGATTCTGTTTTC
62 ------TTTCTG--T-T-TTCTA
* * * *
112388854 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGGTATTTTCAAT
* *
112388918 TTCTATTTTTTTCA
63 TTCT-GTTTTCT-A
112388932 AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
112388970 TTTAATTTCT
Statistics
Matches: 836, Mismatches: 126, Indels: 159
0.75 0.11 0.14
Matches are distributed among these distances:
72 63 0.08
73 155 0.19
74 139 0.17
75 181 0.22
76 7 0.01
77 34 0.04
78 10 0.01
79 43 0.05
80 23 0.03
81 12 0.01
82 7 0.01
83 14 0.02
84 12 0.01
85 77 0.09
86 13 0.02
87 45 0.05
88 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTCTA
Found at i:112388124 original size:73 final size:73
Alignment explanation
Indices: 112387848--112388804 Score: 802
Period size: 73 Copynumber: 12.6 Consensus size: 73
112387838 CTTTTCAAGA
* * *
112387848 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTC
1 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTC
112387912 AATTTCTGTTT
63 AATTTCTGTTT
* ** * *
112387923 TCTAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 T-TCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
112387988 ATTTCTG-TT
64 ATTTCTGTTT
*
112387997 TTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
1 TTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
112388062 ATTTCTGTTT
64 ATTTCTGTTT
* * * * *
112388072 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCATGCTGAGGTATTGTCAAT
1 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
*
112388137 TTTTGTGTT
66 TTCTGT-TT
* **
112388146 TCAATCTATTTTTTGAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 T---TC-A-------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
112388211 GTAATTTCAATTTCTGTTT
55 GTATTTTCAATTTCTGTTT
* * *
112388230 GTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAATTTCAA
1 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTCAA
*
112388294 TTTCTGCTT
65 TTTCTGTTT
* ** * * * * * * * * ** *
112388303 TTCAATTTATATTTTTCAA-AAAAATTCAACTCATATTGCGAGAGGTGAG-TTGAGCCTCAGGAC
1 TTCAA---A-A---ATCAACTCATATT--GC-GAGA--G-GTGAGTTGAGCCTCAG-GACACG-C
* ** *
112388366 --ACGCTGA-GGT-AATTTCAATTTCTGT
51 TGA-GGT-ATTTTCAATTTC--TGT-T-T
* ** * *
112388391 TGTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
1 T-T---CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
* *
112388456 CAATTTTTGTCT
62 CAATTTCTGTTT
* *
112388468 TTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
112388533 ATTTCTGTTT
64 ATTTCTGTTT
* ** * *
112388543 TCTAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 T-TCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
*
112388608 ATTTTTG-TT
64 ATTTCTGTTT
*
112388617 TTCAGAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
1 TTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
112388682 ATTTCTGTTT
64 ATTTCTGTTT
* *
112388692 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTGTCAAT
1 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
*
112388756 TTTTGTTT
66 TTCTGTTT
* * * *
112388764 GTCAAAAATCAACTTATACTGCGAGAGGAGAGTTGAGCCTC
1 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
112388805 GGGTCACATG
Statistics
Matches: 711, Mismatches: 113, Indels: 119
0.75 0.12 0.13
Matches are distributed among these distances:
72 65 0.09
73 164 0.23
74 130 0.18
75 162 0.23
76 9 0.01
77 35 0.05
78 2 0.00
79 8 0.01
80 18 0.03
81 11 0.02
82 2 0.00
83 4 0.01
84 12 0.02
85 75 0.11
86 6 0.01
87 1 0.00
88 3 0.00
89 2 0.00
92 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.33
Consensus pattern (73 bp):
TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
TTCTGTTT
Found at i:112388200 original size:158 final size:148
Alignment explanation
Indices: 112387752--112388969 Score: 1130
Period size: 158 Copynumber: 7.9 Consensus size: 148
112387742 TTTTTTTTAC
* * * * ** * **
112387752 TTCAATTTATATTTTTCAAAAATCAACTCATATTGCAAAAGGTGAGTTGAGCCTTGAGTCACATA
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCAC-GC
* ** *
112387817 TCGAGGTATTTTCAAAATCTGCTTTTCAAGATTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
65 T-GAGGTATTGTCAATTTTTG-TTTTC-A-A-T-AAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * *
112387882 GAGCCT-TGGCTCACGCGCTGAGCTATT
124 GAGCCTCAGG---ACACGCTGAGGTAAT
* ** *
112387909 TTCAATTTCTGTTTTCTAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTCAATTTCTGTTTT-TCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACG
* * * *
112387974 TTGAGGTATTTTCAATTTCTGTTTTCAA-AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCC
64 CTGAGGTATTGTCAATTTTTGTTTTCAATAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
112388038 TCAGGACACGCTGAGGTATT
129 TCAGGACACGCTGAGGTAAT
* ** *
112388058 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCATGCT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCT
* **
112388123 GAGGTATTGTCAATTTTTGTGTTTCAATCTATTTTTTGAAAATCAACTCATATTACGAGAAATGA
66 GAGGTATTGTCAATTTTTGT-TTTCAA--TA-------AAAATCAACTCATATTGCGAGAGGTGA
112388188 GTTGAGCCTCAGGACACGCTGAGGTAAT
121 GTTGAGCCTCAGGACACGCTGAGGTAAT
* *
112388216 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCT
*
112388281 GAGGTAATT-TCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAG
66 GAGGT-ATTGTCAATTTTTG-TTTTC-----A-A----T---AAAAA-TCAACTCATATTGCGAG
112388345 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
115 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
*** ** * *
112388379 TTCAATTTCTGTTGTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATG
1 TTCAATTTCTGTT-T-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACG
* *
112388444 CTGAGGTATTTTCAATTTTTGTCTTTCAA-AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGC
64 CTGAGGTATTGTCAATTTTTGT-TTTCAATAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
112388508 CTCAGGACACGCTGAGGTAAT
128 CTCAGGACACGCTGAGGTAAT
* ** *
112388529 TTCAATTTCTGTTTTCTAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTCAATTTCTGTTTT-TCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACG
* * * *
112388594 TTGAGGTATTTTCAATTTTTGTTTTC-AGAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCC
64 CTGAGGTATTGTCAATTTTTGTTTTCAATAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
112388658 TCAGGACACGCTGAGGTATT
129 TCAGGACACGCTGAGGTAAT
*
112388678 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCT
* * *
112388742 GAGGTATTGTCAATTTTTGTTTGTC---AAAAATCAACTTATACTGCGAGAGGAGAGTTGAGCCT
66 GAGGTATTGTCAATTTTTGTTT-TCAATAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * * *
112388804 CGGGTCACATG-TCAAGGTATT
130 CAGG--ACACGCT-GAGGTAAT
* *
112388825 TTCAAATCTGTTTTTCAGATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTC-AA------TTTC----TGT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * * * *
112388890 T--TGGCTCACGTGCTGAGCTATTTTCAATTTCTATTTTTTTCAA-AAAATTCAACTCATATTGC
54 TCAAGG--CAC--GCTGAGGTATTGTCAA-TT-T-TTGTTTTCAATAAAAATCAACTCATATTGC
112388952 GAGAGGTGAGTTGAGCCT
112 GAGAGGTGAGTTGAGCCT
112388970 TTTAATTTCT
Statistics
Matches: 917, Mismatches: 84, Indels: 111
0.82 0.08 0.10
Matches are distributed among these distances:
145 38 0.04
146 28 0.03
147 100 0.11
148 21 0.02
149 107 0.12
150 124 0.14
151 42 0.05
152 2 0.00
154 5 0.01
155 1 0.00
156 5 0.01
157 30 0.03
158 138 0.15
159 79 0.09
160 4 0.00
162 18 0.02
163 64 0.07
164 9 0.01
165 66 0.07
166 35 0.04
169 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (148 bp):
TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCT
GAGGTATTGTCAATTTTTGTTTTCAATAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
AGGACACGCTGAGGTAAT
Found at i:112388989 original size:159 final size:157
Alignment explanation
Indices: 112388676--112388969 Score: 385
Period size: 159 Copynumber: 1.8 Consensus size: 157
112388666 CGCTGAGGTA
*
112388676 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGC
* *
112388741 TGAGGTATTGTCAATTTTTGTTTGTCAAAAATCAACTTATACTGCGAGAGGAGAGTTGAGCCTCG
66 TGAGCTATTGTCAATTTTTGTTTGTCAAAAATCAACTCATACTGCGAGAGGAGAGTTGAGCCT--
112388806 GGTCACATGTCAAGGTATTTTCAAATCTGT
129 GGTCACATGTC-AGGTATTTTCAAATCTGT
* *
112388836 TTTTCAGA-TTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCAC
1 TTTTCA-ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG-GCAC
* * * * *
112388899 GTGCTGAGCTATTTTCAATTTCTATTTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
64 --GCTGAGCTATTGTCAATTT-T-TGTTTGTC-AAAAA-TCAACTCATACTGCGAGAGGAGAGTT
112388964 GAGCCT
123 GAGCCT
112388970 TTTAATTTCT
Statistics
Matches: 116, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
159 43 0.37
160 14 0.12
161 1 0.01
162 17 0.15
163 1 0.01
164 6 0.05
165 5 0.04
166 29 0.25
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (157 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGC
TGAGCTATTGTCAATTTTTGTTTGTCAAAAATCAACTCATACTGCGAGAGGAGAGTTGAGCCTGG
TCACATGTCAGGTATTTTCAAATCTGT
Found at i:112389001 original size:56 final size:56
Alignment explanation
Indices: 112388910--112389079 Score: 254
Period size: 56 Copynumber: 3.0 Consensus size: 56
112388900 TGCTGAGCTA
*
112388910 TTTTCAATTTCTATTTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTT-AATTTCTA--TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* **
112388969 TTTTAATTTCTGTTTTTCAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
112389025 TTTTAATTTCTATTTTTC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
112389079 T
1 T
112389080 CGAGTCACAT
Statistics
Matches: 103, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
54 34 0.33
56 58 0.56
58 7 0.07
59 4 0.04
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (56 bp):
TTTTAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:112391468 original size:31 final size:31
Alignment explanation
Indices: 112391430--112391493 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
112391420 CCTTTTCATA
*
112391430 TTTCATATTTCATAATACTGGGCTGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
112391461 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
112391492 TT
1 TT
112391494 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:112391732 original size:24 final size:24
Alignment explanation
Indices: 112391686--112391828 Score: 202
Period size: 24 Copynumber: 6.0 Consensus size: 24
112391676 GCTTTATCAT
*
112391686 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
112391711 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
112391735 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
112391758 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
112391782 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
112391806 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
112391829 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
23 25 0.23
24 73 0.66
25 13 0.12
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:112391765 original size:47 final size:48
Alignment explanation
Indices: 112391686--112391827 Score: 200
Period size: 47 Copynumber: 3.0 Consensus size: 48
112391676 GCTTTATCAT
*
112391686 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
**
112391735 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
112391782 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
112391828 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
46 2 0.02
47 42 0.48
48 31 0.36
49 12 0.14
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:112391791 original size:71 final size:72
Alignment explanation
Indices: 112391685--112391828 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 72
112391675 TGCTTTATCA
*
112391685 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCAATAACTGGGGCATA
112391749 AGCCCTTT
65 AGCCCTTT
* **
112391757 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
112391820 AGCCCTTT
65 AGCCCTTT
112391828 T
1 T
112391829 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
70 2 0.03
71 51 0.77
72 13 0.20
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:112391904 original size:20 final size:20
Alignment explanation
Indices: 112391879--112391938 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
112391869 TATGATTACC
112391879 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
112391899 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
112391919 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
112391939 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:112391909 original size:11 final size:11
Alignment explanation
Indices: 112391879--112391933 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
112391869 TATGATTACC
112391879 TCATGTGCATA
1 TCATGTGCATA
*
112391890 TCA--TACATA
1 TCATGTGCATA
112391899 TCATGTGCATA
1 TCATGTGCATA
* *
112391910 TCA--TACATT
1 TCATGTGCATA
112391919 TCATGTGCATA
1 TCATGTGCATA
112391930 TCAT
1 TCAT
112391934 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:112392013 original size:25 final size:25
Alignment explanation
Indices: 112391981--112392028 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
112391971 ATACATAAAC
* * *
112391981 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
112392006 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
112392029 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:112394518 original size:23 final size:22
Alignment explanation
Indices: 112394492--112394672 Score: 109
Period size: 22 Copynumber: 7.7 Consensus size: 22
112394482 TTTTCTTTTA
*
112394492 ATATTTTATATATTATTATGTAC
1 ATATTTT-TATATTATTATGTAT
* *
112394515 ATATTTTGATATCATTA-GTTAT
1 ATATTTTTATATTATTATG-TAT
112394537 ATATTTTTATA-TATTATGTAT
1 ATATTTTTATATTATTATGTAT
*
112394558 ATTTCTTTTACTATT-TTATGTAT
1 ATAT-TTTTA-TATTATTATGTAT
112394581 ATATTTTTAT-TTCATCTCATGTAT
1 ATATTTTTATATT-AT-T-ATGTAT
* * *
112394605 AAATTTTTGAATACTATGTTATATAT
1 ATATTTTT--ATA-T-TATTATGTAT
* *
112394631 ATATTTTTAATACCATCTTATGTAT
1 ATATTTTT-ATA--TTATTATGTAT
*
112394656 ATATTATTATATCTATT
1 ATATTTTTATAT-TATT
112394673 TTATTCCTAT
Statistics
Matches: 125, Mismatches: 17, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
20 2 0.02
21 12 0.10
22 32 0.26
23 24 0.19
24 17 0.14
25 19 0.15
26 15 0.12
27 1 0.01
28 2 0.02
29 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (22 bp):
ATATTTTTATATTATTATGTAT
Found at i:112394676 original size:25 final size:25
Alignment explanation
Indices: 112394534--112394676 Score: 99
Period size: 25 Copynumber: 6.0 Consensus size: 25
112394524 TATCATTAGT
112394534 TATATATTTTTATA--TA--TTATG
1 TATATATTTTTATATCTATCTTATG
*
112394555 TATAT-TTCTTT-TA-CTATTTTATG
1 TATATATT-TTTATATCTATCTTATG
* *
112394578 TATATATTTTTATTTC-ATCTCATG
1 TATATATTTTTATATCTATCTTATG
* * *
112394602 TATAAATTTTTGA-ATACTATGTTATA
1 TATATATTTTT-ATAT-CTATCTTATG
*
112394628 TATATATTTTTA-ATACCATCTTATG
1 TATATATTTTTATAT-CTATCTTATG
* *
112394653 TATATATTATTATATCTATTTTAT
1 TATATATTTTTATATCTATCTTAT
112394677 TCCTATTATA
Statistics
Matches: 96, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
20 4 0.04
21 10 0.10
23 13 0.14
24 20 0.21
25 32 0.33
26 17 0.18
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (25 bp):
TATATATTTTTATATCTATCTTATG
Found at i:112394931 original size:3 final size:3
Alignment explanation
Indices: 112394857--112394912 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
112394847 CGTATGCATC
112394857 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
112394905 TTA TTA TT
1 TTA TTA TT
112394913 TTTAGAATAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:112395070 original size:13 final size:13
Alignment explanation
Indices: 112395052--112395076 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112395042 TTTACAAAAA
112395052 ATGTATATATATT
1 ATGTATATATATT
112395065 ATGTATATATAT
1 ATGTATATATAT
112395077 ATTTAACATT
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
ATGTATATATATT
Found at i:112398720 original size:19 final size:19
Alignment explanation
Indices: 112398662--112398889 Score: 100
Period size: 19 Copynumber: 11.7 Consensus size: 19
112398652 TAACCTTATT
*
112398662 TTTATATTATATATTATATA
1 TTTATATTAT-TATTATTTA
* *
112398682 ATTATTTTATTA-TATATTA
1 TTTATATTATTATTAT-TTA
*
112398701 TTTACATTATTATTATTTA
1 TTTATATTATTATTATTTA
112398720 TTATATATT-TCT-TTA-TTA
1 TT-TATATTAT-TATTATTTA
112398738 TTTATA-TATTATTATTATA
1 TTTATATTATTATTATT-TA
* * * *
112398757 TTTTTACTT-GTCTTATATA
1 TTTATA-TTATTATTATTTA
*
112398776 TTTAT-TAATTATATATTTA
1 TTTATATTATTAT-TATTTA
*
112398795 -GTA-ATTATATATATATTATA
1 TTTATATTAT-TAT-TATT-TA
* * *
112398815 TATTAT-TTTTTACTCTTATA
1 T-TTATATTATTATTATT-TA
*
112398835 TTATATATTATAATTATTTTA
1 TT-TATATTATTATTA-TTTA
112398856 TTATATATTATTATGTCATTT-
1 TT-TATATTATTAT-T-ATTTA
112398877 TTTATATTATTAT
1 TTTATATTATTAT
112398890 ACATTTTTTA
Statistics
Matches: 158, Mismatches: 27, Indels: 46
0.68 0.12 0.20
Matches are distributed among these distances:
16 2 0.01
17 9 0.06
18 16 0.10
19 49 0.31
20 45 0.28
21 25 0.16
22 11 0.07
23 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTATATTATTATTATTTA
Found at i:112398845 original size:32 final size:31
Alignment explanation
Indices: 112398608--112398869 Score: 138
Period size: 32 Copynumber: 8.4 Consensus size: 31
112398598 TAACCCTATA
* *
112398608 TATTTATTATTATATA-TATATTTTATATTGT
1 TATTTA-TATTATATATTATATATTATATTTT
* **
112398639 TATTTGT-TT-TAT-TTA-ACCTTAT-TTTT
1 TATTTATATTATATATTATATATTATATTTT
* *
112398665 ATATTATATATTATATAATTATTTTATTATA-TAT
1 -TATT-TATATTATAT-ATTA-TATATTATATTTT
* * *
112398699 TATTTACATTAT-TATTATTTATTATATATT
1 TATTTATATTATATATTATATATTATATTTT
*
112398729 TCTTTATTATTTATATATTAT-TATTATATTTT
1 TATTTA-TA-TTATATATTATATATTATATTTT
* * *
112398761 TACTTGTCTTATATATT-TATTAATTATATATTT
1 TATTTATATTATATATTATA-T-ATTATAT-TTT
*
112398794 AGTAATTATA-TATATATTATATATTAT-TTTT
1 --TATTTATATTATATATTATATATTATATTTT
112398825 TACTCTTATATTATATATTATA-ATTAT-TTTAT
1 TA-T-TTATATTATATATTATATATTATATTT-T
*
112398857 TATATATTATTAT
1 TATTTA-TATTAT
112398870 GTCATTTTTT
Statistics
Matches: 181, Mismatches: 24, Indels: 52
0.70 0.09 0.20
Matches are distributed among these distances:
26 3 0.02
27 9 0.05
28 7 0.04
29 16 0.09
30 25 0.14
31 32 0.18
32 49 0.27
33 18 0.10
34 15 0.08
35 7 0.04
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.63
Consensus pattern (31 bp):
TATTTATATTATATATTATATATTATATTTT
Found at i:112398866 original size:64 final size:63
Alignment explanation
Indices: 112398664--112398851 Score: 169
Period size: 64 Copynumber: 3.0 Consensus size: 63
112398654 ACCTTATTTT
* * * *
112398664 TATATTATA-TATTATATA-ATTATT-TTATTATA-TATTATTTACATTAT-TA-TTATTTATTA
1 TATATT-TAGTATTATATATA-TATTATTATTATATTTTTACTTATATTATATATTTATTAATTA
** * * *
112398723 TATATTTCTTTATTATTTATATATTATTATTATATTTTTACTTGTCTTATATATTTATTAATTA
1 TATATTT-AGTATTATATATATATTATTATTATATTTTTACTTATATTATATATTTATTAATTA
112398787 TATATTTAGTAATTATATATATATTATATATTAT-TTTTTACTCTTATATTATATA-TTA-TAAT
1 TATATTTAGT-ATTATATATATATTAT-TATTATATTTTTA--CTTATATTATATATTTATTAAT
112398849 TA
62 TA
112398851 T
1 T
112398852 TTTATTATAT
Statistics
Matches: 105, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
58 1 0.01
59 6 0.06
60 12 0.11
61 9 0.09
62 10 0.10
63 3 0.03
64 44 0.42
65 9 0.09
66 11 0.10
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (63 bp):
TATATTTAGTATTATATATATATTATTATTATATTTTTACTTATATTATATATTTATTAATTA
Found at i:112398884 original size:20 final size:19
Alignment explanation
Indices: 112398859--112398900 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
112398849 TATTTTATTA
*
112398859 TATATTATTATGTCATTTTT
1 TATATTATTAT-ACATTTTT
112398879 TATATTATTATACATTTTT
1 TATATTATTATACATTTTT
112398898 TAT
1 TAT
112398901 CTATATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
TATATTATTATACATTTTT
Found at i:112398909 original size:25 final size:24
Alignment explanation
Indices: 112398799--112398918 Score: 76
Period size: 25 Copynumber: 4.9 Consensus size: 24
112398789 TATTTAGTAA
*
112398799 TTATATATATATTA-TATATTATTTT
1 TTAT-TATATATTATTATA-CATTTT
112398824 TTACTCTTATATTATATATTATA-ATTATT
1 TTA---TTATA-TAT-TATTATACATT-TT
*
112398853 TTATTATATATTATTATGTCA---T
1 TTATTATATATTATTAT-ACATTTT
112398875 TT-TT-TATATTATTATACATTTT
1 TTATTATATATTATTATACATTTT
112398897 TTATCTATATATTATTAT-CATT
1 TTAT-TATATATTATTATACATT
112398919 AAAGGTTTTT
Statistics
Matches: 78, Mismatches: 2, Indels: 31
0.70 0.02 0.28
Matches are distributed among these distances:
19 2 0.03
20 11 0.14
21 2 0.03
22 6 0.08
23 1 0.01
24 11 0.14
25 17 0.22
26 6 0.08
27 4 0.05
28 7 0.09
29 7 0.09
30 4 0.05
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.62
Consensus pattern (24 bp):
TTATTATATATTATTATACATTTT
Found at i:112399131 original size:19 final size:19
Alignment explanation
Indices: 112399107--112399146 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
112399097 ATTATAAATA
*
112399107 TAAATTCTTTTACA-TATTT
1 TAAATT-TTATACATTATTT
112399126 TAAATTTTATACATTATTT
1 TAAATTTTATACATTATTT
112399145 TA
1 TA
112399147 CTAAACCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (19 bp):
TAAATTTTATACATTATTT
Found at i:112399220 original size:28 final size:27
Alignment explanation
Indices: 112399167--112399221 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
112399157 ATATTTTATA
*
112399167 TTTTTTATAATTATTATTCTTATAAAT
1 TTTTTTATAATTATTATTATTATAAAT
*
112399194 TTTTTTATTATATATTA-TATTATTAAAT
1 TTTTTTATAAT-TATTATTATTA-TAAAT
112399222 ATCACATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTTTTATAATTATTATTATTATAAAT
Found at i:112403514 original size:26 final size:26
Alignment explanation
Indices: 112403485--112403592 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
112403475 TGATACAAAT
112403485 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
112403511 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112403537 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112403563 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112403589 TGAT
1 TGAT
112403593 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:112404259 original size:29 final size:29
Alignment explanation
Indices: 112404217--112404276 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
112404207 AGAAGCTGAA
112404217 TAAATTATGTAATTAAAGCTTAATGAGTC
1 TAAATTATGTAATTAAAGCTTAATGAGTC
112404246 TAAATTATGTAATTAAAGCTTAATGAGTC
1 TAAATTATGTAATTAAAGCTTAATGAGTC
112404275 TA
1 TA
112404277 GTTTCAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (29 bp):
TAAATTATGTAATTAAAGCTTAATGAGTC
Found at i:112405123 original size:26 final size:26
Alignment explanation
Indices: 112405093--112405145 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
112405083 TTTATAGTTT
112405093 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
112405119 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
112405145 T
1 T
112405146 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:112409356 original size:26 final size:26
Alignment explanation
Indices: 112409327--112409460 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
112409317 TGATACAAAT
112409327 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
112409353 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112409379 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112409405 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112409431 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112409457 TGAT
1 TGAT
112409461 GGGAATTTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:112410125 original size:29 final size:29
Alignment explanation
Indices: 112410083--112410142 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
112410073 AGAAGCTGAA
112410083 TAAATTATGTAATTAAAGCTTAATGAGTC
1 TAAATTATGTAATTAAAGCTTAATGAGTC
112410112 TAAATTATGTAATTAAAGCTTAATGAGTC
1 TAAATTATGTAATTAAAGCTTAATGAGTC
112410141 TA
1 TA
112410143 GTTTCAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (29 bp):
TAAATTATGTAATTAAAGCTTAATGAGTC
Found at i:112413264 original size:21 final size:21
Alignment explanation
Indices: 112413238--112413281 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
112413228 TTGGAGCATT
112413238 AATGTATCTTGCAAATAACAC
1 AATGTATCTTGCAAATAACAC
112413259 AATGTATCTTGCAAATAACAC
1 AATGTATCTTGCAAATAACAC
112413280 AA
1 AA
112413282 GACCTGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.27
Consensus pattern (21 bp):
AATGTATCTTGCAAATAACAC
Found at i:112419763 original size:16 final size:15
Alignment explanation
Indices: 112419738--112419767 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
112419728 TACCAGTTTG
112419738 AAAAAAAAATAAAAT
1 AAAAAAAAATAAAAT
112419753 AAAATAAAAATAAAA
1 AAAA-AAAAATAAAA
112419768 ATTAAGAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAAAAAAATAAAAT
Found at i:112420779 original size:27 final size:28
Alignment explanation
Indices: 112420742--112420881 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
112420732 AGCATGGCTG
* *
112420742 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
112420768 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
112420796 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
112420823 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
112420850 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
112420877 CCAGA
1 CCAGA
112420882 AAGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:112422529 original size:26 final size:26
Alignment explanation
Indices: 112422493--112422575 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
112422483 CATGAAATTC
112422493 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
112422519 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
112422545 TTATCATGGAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
112422570 TTATCA
1 TTATCA
112422576 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
25 9 0.16
26 47 0.84
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:112423831 original size:25 final size:27
Alignment explanation
Indices: 112423794--112423846 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
112423784 TCAAACATGC
112423794 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* *
112423820 ATTTCGGT-AATTTATCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
112423846 A
1 A
112423847 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:112427739 original size:24 final size:24
Alignment explanation
Indices: 112427476--112427737 Score: 438
Period size: 24 Copynumber: 11.0 Consensus size: 24
112427466 ATTGACATAA
* *
112427476 GGCACAATGTGTGCGA--CACTAT
1 GGCACTATGTGTGCGATTTACTAT
112427498 GGCACTATGTGTGCGATTTACTAT
1 GGCACTATGTGTGCGATTTACTAT
112427522 GGCACTATGTGTGCGATTTACTAT
1 GGCACTATGTGTGCGATTTACTAT
*
112427546 GGCACTATGTGTGCGATTCACTAT
1 GGCACTATGTGTGCGATTTACTAT
112427570 GGCACTATGTGTGCGATTTACTAT
1 GGCACTATGTGTGCGATTTACTAT
*
112427594 GGCACTATGTGTGCGATTCACTAT
1 GGCACTATGTGTGCGATTTACTAT
*
112427618 GGCACTATGTGTGCGATTCACTAT
1 GGCACTATGTGTGCGATTTACTAT
112427642 GGCACTATGTGTGCGATTTACTAT
1 GGCACTATGTGTGCGATTTACTAT
112427666 GGCACTATGTGTGCGATTTACTAT
1 GGCACTATGTGTGCGATTTACTAT
*
112427690 GGCACTATGTGTGCGATTTGCTAT
1 GGCACTATGTGTGCGATTTACTAT
* *
112427714 AGCACTATGTGTGCGATTTGCTAT
1 GGCACTATGTGTGCGATTTACTAT
112427738 AGTCACATTC
Statistics
Matches: 230, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
22 15 0.07
24 215 0.93
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (24 bp):
GGCACTATGTGTGCGATTTACTAT
Found at i:112435731 original size:24 final size:24
Alignment explanation
Indices: 112435466--112435729 Score: 456
Period size: 24 Copynumber: 11.0 Consensus size: 24
112435456 ATTGACATAA
* *
112435466 GGCACAATGTGTGCGATTCACTAT
1 GGCACTATGTGTGCGATTTACTAT
112435490 GGCACTATGTGTGCGATTTACTAT
1 GGCACTATGTGTGCGATTTACTAT
112435514 GGCACTATGTGTGCGATTTACTAT
1 GGCACTATGTGTGCGATTTACTAT
*
112435538 GGCACTATGTGTGCGATTCACTAT
1 GGCACTATGTGTGCGATTTACTAT
112435562 GGCACTATGTGTGCGATTTACTAT
1 GGCACTATGTGTGCGATTTACTAT
*
112435586 GGCACTATGTGTGCGATTCACTAT
1 GGCACTATGTGTGCGATTTACTAT
*
112435610 GGCACTATGTGTGCGATTCACTAT
1 GGCACTATGTGTGCGATTTACTAT
112435634 GGCACTATGTGTGCGATTTACTAT
1 GGCACTATGTGTGCGATTTACTAT
112435658 GGCACTATGTGTGCGATTTACTAT
1 GGCACTATGTGTGCGATTTACTAT
*
112435682 GGCACTATGTGTGCGATTTGCTAT
1 GGCACTATGTGTGCGATTTACTAT
* *
112435706 AGCACTATGTGTGCGATTTGCTAT
1 GGCACTATGTGTGCGATTTACTAT
112435730 AGTCACATTC
Statistics
Matches: 232, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 232 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GGCACTATGTGTGCGATTTACTAT
Found at i:112443750 original size:40 final size:40
Alignment explanation
Indices: 112443650--112443825 Score: 300
Period size: 40 Copynumber: 4.4 Consensus size: 40
112443640 TGGAAGGTAA
*
112443650 TCGTGTGGGTTATTATAACCGGGTTAAGTCCCGAAGGCAT
1 TCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCAT
* *
112443690 TCGTG-GGGTTATTATAACCGGGTTAAGTCACGAAAGCAT
1 TCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCAT
112443729 TCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCAT
1 TCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCAT
112443769 TCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCAT
1 TCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCAT
* *
112443809 TCGTGCTGGTTGTTATA
1 TCGTGCGGGTTATTATA
112443826 TCCGAGCCAA
Statistics
Matches: 129, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
39 37 0.29
40 92 0.71
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (40 bp):
TCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCAT
Found at i:112452261 original size:32 final size:33
Alignment explanation
Indices: 112452220--112452298 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 33
112452210 TGTCAATCAT
112452220 TTCAATATCCAACAAGC-TT-AAAACATAATAAA
1 TTCAATATCCAACAA-CATTGAAAACATAATAAA
*
112452252 TTCAATATCCAAC-ACATTGAAAACATAATAAT
1 TTCAATATCCAACAACATTGAAAACATAATAAA
* *
112452284 TTTAAAATCCAACAA
1 TTCAATATCCAACAA
112452299 ACTAATTTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 1 0.02
31 3 0.07
32 36 0.88
33 1 0.02
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.27
Consensus pattern (33 bp):
TTCAATATCCAACAACATTGAAAACATAATAAA
Found at i:112453740 original size:21 final size:21
Alignment explanation
Indices: 112453715--112453757 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
112453705 CACACAAAAA
112453715 ATTACAAATCAATATGCAATT
1 ATTACAAATCAATATGCAATT
* *
112453736 ATTACAAGTCAATGTGCAATT
1 ATTACAAATCAATATGCAATT
112453757 A
1 A
112453758 ATTTGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (21 bp):
ATTACAAATCAATATGCAATT
Found at i:112455567 original size:27 final size:27
Alignment explanation
Indices: 112455530--112455595 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 27
112455520 CCCTTATCAG
112455530 ACTAT-AACATGGTAGCATAATTAGAA
1 ACTATCAACATGGTAGCATAATTAGAA
112455556 ACTATCAACATGGTAGCATAATTAGAA
1 ACTATCAACATGGTAGCATAATTAGAA
112455583 ACTATCAAACATG
1 ACTATC-AACATG
112455596 TTGGGTTCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 5 0.13
27 27 0.71
28 6 0.16
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (27 bp):
ACTATCAACATGGTAGCATAATTAGAA
Found at i:112461321 original size:71 final size:70
Alignment explanation
Indices: 112461201--112461362 Score: 193
Period size: 71 Copynumber: 2.3 Consensus size: 70
112461191 TTGCGCTTAG
* * *
112461201 CGCTGGTTGGTAGAACTAAC-AAAACTGTACCCAACATTGGTCGGTATAA-CTAACAATAAATGC
1 CGCTGGTTGGTAGAACTGACAAAAACTGTACCCAACATTGGTCGATATAACCGAA-AATAAATGC
112461264 ACCCTA
65 ACCCTA
* * ** * *
112461270 CGCTGGTTGGTAAAACTGACAAATAAGTGTGGCCAACATTGGTTGATATAACCGAAAATAATTGC
1 CGCTGGTTGGTAGAACTGACAAA-AACTGTACCCAACATTGGTCGATATAACCGAAAATAAATGC
*
112461335 GCCCTA
65 ACCCTA
*
112461341 CGTTGGTTGGTAGAACTGACAA
1 CGCTGGTTGGTAGAACTGACAA
112461363 TAATTGCAAC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
69 18 0.23
70 2 0.03
71 55 0.71
72 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (70 bp):
CGCTGGTTGGTAGAACTGACAAAAACTGTACCCAACATTGGTCGATATAACCGAAAATAAATGCA
CCCTA
Found at i:112461397 original size:35 final size:35
Alignment explanation
Indices: 112461238--112461390 Score: 90
Period size: 35 Copynumber: 4.3 Consensus size: 35
112461228 TACCCAACAT
* * * *
112461238 TGGTCGGTATAACTAACAATAAATGCACCCTACGC
1 TGGTCGGTAGAACTGACAATAATTGCAACCTACGC
* * * *** * **
112461273 TGGTTGGTAAAACTGACAAATAAGTGTGGCCAACAT
1 TGGTCGGTAGAACTGAC-AATAATTGCAACCTACGC
* * * * * ** *
112461309 TGGTTGATATAACCGAAAATAATTGCGCCCTACGT
1 TGGTCGGTAGAACTGACAATAATTGCAACCTACGC
* *
112461344 TGGTTGGTAGAACTGACAATAATTGCAACCTATGC
1 TGGTCGGTAGAACTGACAATAATTGCAACCTACGC
112461379 TGGTCGGTAGAA
1 TGGTCGGTAGAA
112461391 TCGACAAATA
Statistics
Matches: 89, Mismatches: 28, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
35 65 0.73
36 24 0.27
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (35 bp):
TGGTCGGTAGAACTGACAATAATTGCAACCTACGC
Found at i:112469772 original size:24 final size:25
Alignment explanation
Indices: 112469745--112469793 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
112469735 CAAATTACGT
112469745 ACCAAACCTTGCAAACCAA-GACAC
1 ACCAAACCTTGCAAACCAAGGACAC
*
112469769 ACCAAACCTTGCACACCAAGGACAC
1 ACCAAACCTTGCAAACCAAGGACAC
112469794 TAGAAACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.43, C:0.39, G:0.10, T:0.08
Consensus pattern (25 bp):
ACCAAACCTTGCAAACCAAGGACAC
Found at i:112471857 original size:47 final size:47
Alignment explanation
Indices: 112471787--112472128 Score: 603
Period size: 47 Copynumber: 7.3 Consensus size: 47
112471777 CCCTTCGGGA
* * * *
112471787 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
112471834 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
112471881 CTTATCACATATATACACATTCACATTCGTCACATTGGCCACTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
112471928 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
112471975 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
*
112472022 CTTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
112472069 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
112472116 TTTACCACATATA
1 CTTATCACATATA
112472129 CATATCTTAT
Statistics
Matches: 283, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 283 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
Found at i:112474152 original size:46 final size:46
Alignment explanation
Indices: 112474099--112474274 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
112474089 TATTTGGGCA
112474099 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
112474145 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
112474192 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
112474238 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
112474275 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:112474254 original size:93 final size:93
Alignment explanation
Indices: 112474095--112474266 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
112474085 GGGATATTTG
* *
112474095 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
112474160 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
112474188 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
112474253 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
112474267 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:112478025 original size:71 final size:71
Alignment explanation
Indices: 112477881--112478131 Score: 206
Period size: 71 Copynumber: 3.5 Consensus size: 71
112477871 GTGCTAGTCT
** * * ** *
112477881 GTAGAATTTAAAAATAAGTGT-CCCAACACTGGTTGGTATAACCGACAATAATTTTAC-CC-TAC
1 GTAGAATCGAAAAATAAGTGTGCCCAAAACTAGTCAGTATAACCGACAATAA--TTACGCCTTGC
** * *
112477943 ATTGGTCG
64 GCTAGTAG
* * * * * *
112477951 GTAGAGTCGAAAAATAAATGTGCCCAAAA-TTGATCTGTATAACTGACAATAATTATGCCTTGCG
1 GTAGAATCGAAAAATAAGTGTGCCCAAAACTAG-TCAGTATAACCGACAATAATTACGCCTTGCG
112478015 CTAGTAG
65 CTAGTAG
* ** *
112478022 GTAGAATC-AACAAATAAGTGTGCCTAGCACTAGTCAGTATAACCGACAATAATTGCGCCTTGCG
1 GTAGAATCGAA-AAATAAGTGTGCCCAAAACTAGTCAGTATAACCGACAATAATTACGCCTTGCG
* *
112478086 CTGGTCG
65 CTAGTAG
* *
112478093 GTAGAACCGAAAAATAAGTGTGCCCAACACTAGTCAGTA
1 GTAGAATCGAAAAATAAGTGTGCCCAAAACTAGTCAGTA
112478132 GAATCAAGAA
Statistics
Matches: 144, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
69 3 0.02
70 23 0.16
71 114 0.79
72 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (71 bp):
GTAGAATCGAAAAATAAGTGTGCCCAAAACTAGTCAGTATAACCGACAATAATTACGCCTTGCGC
TAGTAG
Found at i:112478046 original size:36 final size:36
Alignment explanation
Indices: 112478022--112478149 Score: 116
Period size: 36 Copynumber: 3.6 Consensus size: 36
112478012 GCGCTAGTAG
*
112478022 GTAGAATCAACAAATAAGTGTGCCTAGCACTAGTCA
1 GTAGAACCAACAAATAAGTGTGCCTAGCACTAGTCA
* * * * * * * *
112478058 GTATAACCGAC-AATAATTGCGCCTTGCGCTGGTCG
1 GTAGAACCAACAAATAAGTGTGCCTAGCACTAGTCA
* *
112478093 GTAGAACCGAA-AAATAAGTGTGCCCAACACTAGTCA
1 GTAGAACC-AACAAATAAGTGTGCCTAGCACTAGTCA
* *
112478129 GTAGAATCAAGAAATAAGTGT
1 GTAGAACCAACAAATAAGTGT
112478150 CCATTCGTTC
Statistics
Matches: 69, Mismatches: 20, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
35 27 0.39
36 42 0.61
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (36 bp):
GTAGAACCAACAAATAAGTGTGCCTAGCACTAGTCA
Found at i:112478101 original size:35 final size:35
Alignment explanation
Indices: 112477995--112478116 Score: 109
Period size: 36 Copynumber: 3.4 Consensus size: 35
112477985 CTGTATAACT
* * *
112477995 GACAATAATTATGCCTTGCGCTAGTAGGTAGAATC
1 GACAATAATTGTGCCTTGCGCTAGTCGGTAGAACC
* * * * * *
112478030 AACAAATAAGTGTGCCTAGCACTAGTCAGTATAACC
1 GAC-AATAATTGTGCCTTGCGCTAGTCGGTAGAACC
* *
112478066 GACAATAATTGCGCCTTGCGCTGGTCGGTAGAACC
1 GACAATAATTGTGCCTTGCGCTAGTCGGTAGAACC
* *
112478101 GAAAAATAAGTGTGCC
1 G-ACAATAATTGTGCC
112478117 CAACACTAGT
Statistics
Matches: 65, Mismatches: 20, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
35 28 0.43
36 37 0.57
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (35 bp):
GACAATAATTGTGCCTTGCGCTAGTCGGTAGAACC
Found at i:112479947 original size:2 final size:2
Alignment explanation
Indices: 112479940--112479982 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
112479930 GATCCCTCAT
* * *
112479940 AC AC AC AC AC AC AT AC AC GC AC AC AA AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
112479982 A
1 A
112479983 TATATATATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.44, G:0.02, T:0.02
Consensus pattern (2 bp):
AC
Found at i:112480016 original size:22 final size:22
Alignment explanation
Indices: 112479988--112480045 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
112479978 ACACATATAT
112479988 ATATATATACATATATATGTAC
1 ATATATATACATATATATGTAC
** *
112480010 ATATATATGTATATATATGTAT
1 ATATATATACATATATATGTAC
112480032 ATATATATGACATA
1 ATATATAT-ACATA
112480046 ATGAACATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 27 0.90
23 3 0.10
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (22 bp):
ATATATATACATATATATGTAC
Found at i:112480058 original size:2 final size:2
Alignment explanation
Indices: 112479982--112480039 Score: 71
Period size: 2 Copynumber: 29.0 Consensus size: 2
112479972 ACACACACAC
* * * *
112479982 AT AT AT AT AT AT AT AC AT AT AT AT GT AC AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
112480024 AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
112480040 GACATAATGA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Done.