Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 87 of 150
Found at i:27322916 original size:49 final size:49
Alignment explanation
Indices: 27322859--27323197 Score: 386
Period size: 49 Copynumber: 7.0 Consensus size: 49
27322849 TAAAGCATAC
* * *
27322859 TTGCATTCATAAATAAAGTTGTTTTATTTATGATTTATTGATTGTTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTA
* *
27322908 TTGCATTCATAAATAAAGTTGCTTTATTTATGCTTCATTGATTGTTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTA
* * * *
27322957 CTACATTCATAAATAAAATTG---CA---ATGCTTCATTGATTGTTTTA
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTA
* * * *
27323000 TTGCATTCATAAATAGAGTTGTTTTATTTATGCTTCATTCATTGTTCTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTA
* *
27323049 TTGCATTCATAAATAAAGTGGTGTTTTAATTATGATTCATTGATTGTTTTA
1 TTGCATTCATAAATAAAGT--TGTTTTATTTATGCTTCATTGATTGTTTTA
* * * * *
27323100 TTGCATCCATAAATAGAGTTGCTTCATTTATGCTTCATTGATTGTTCTA
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTA
* *
27323149 TTGCATTCAAAAATAAAGTGGTGTTTTAATTATGCTTCATT-ATTTGTTT
1 TTGCATTCATAAATAAAGT--TGTTTTATTTATGCTTCATTGA-TTGTTT
27323198 GTTTTTTGTT
Statistics
Matches: 243, Mismatches: 36, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
43 36 0.15
46 2 0.01
49 140 0.58
50 1 0.00
51 64 0.26
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (49 bp):
TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTA
Found at i:27323004 original size:92 final size:95
Alignment explanation
Indices: 27322887--27323165 Score: 339
Period size: 100 Copynumber: 2.9 Consensus size: 95
27322877 TTGTTTTATT
* * *
27322887 TATGATTTATTGATTGTTTTGTTGCATTCATAAATAAAGTTGCTTTATTTATGCTTCATTGATTG
1 TATGATTCATTGATTGTTTTATTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTGATTG
* *
27322952 TTTTGCTACATTCATAAATAAAAT-TG-CA
66 TTCTGCTACATTCATAAATAAAATGTGTAA
* * *
27322980 -ATGCTTCATTGATTGTTTTATTGCATTCATAAATAGAGTTGTTTTATTTATGCTTCATTCATTG
1 TATGATTCATTGATTGTTTTATTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTGATTG
* * *
27323044 TTCTGTTGCATTCATAAATAAAGTGGTGTTTTAA
66 TTCTGCTACATTCATAAATAAAAT-GTG---TAA
* *
27323078 TTATGATTCATTGATTGTTTTATTGCATCCATAAATAGAGTTGCTTCATTTATGCTTCATTGATT
1 -TATGATTCATTGATTGTTTTATTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTGATT
** * *
27323143 GTTCTATTGCATTCAAAAATAAA
65 GTTCTGCTACATTCATAAATAAA
27323166 GTGGTGTTTT
Statistics
Matches: 160, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
92 78 0.49
94 2 0.01
98 1 0.01
100 79 0.49
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.48
Consensus pattern (95 bp):
TATGATTCATTGATTGTTTTATTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTGATTG
TTCTGCTACATTCATAAATAAAATGTGTAA
Found at i:27323100 original size:100 final size:100
Alignment explanation
Indices: 27322984--27323197 Score: 349
Period size: 100 Copynumber: 2.1 Consensus size: 100
27322974 ATTGCAATGC
* * * *
27322984 TTCATTGATTGTTTTATTGCATTCATAAATAGAGTTGTTTTATTTATGCTTCATTCATTGTTCTG
1 TTCATTGATTGTTTTATTGCATCCATAAATAGAGTTGCTTCATTTATGCTTCATTCATTGTTCTA
*
27323049 TTGCATTCATAAATAAAGTGGTGTTTTAATTATGA
66 TTGCATTCAAAAATAAAGTGGTGTTTTAATTATGA
*
27323084 TTCATTGATTGTTTTATTGCATCCATAAATAGAGTTGCTTCATTTATGCTTCATTGATTGTTCTA
1 TTCATTGATTGTTTTATTGCATCCATAAATAGAGTTGCTTCATTTATGCTTCATTCATTGTTCTA
*
27323149 TTGCATTCAAAAATAAAGTGGTGTTTTAATTATGC
66 TTGCATTCAAAAATAAAGTGGTGTTTTAATTATGA
27323184 TTCATT-ATTTGTTT
1 TTCATTGA-TTGTTT
27323198 GTTTTTTGTT
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
99 1 0.01
100 105 0.99
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (100 bp):
TTCATTGATTGTTTTATTGCATCCATAAATAGAGTTGCTTCATTTATGCTTCATTCATTGTTCTA
TTGCATTCAAAAATAAAGTGGTGTTTTAATTATGA
Found at i:27326435 original size:21 final size:21
Alignment explanation
Indices: 27326409--27326460 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
27326399 AAAAAAAAGA
27326409 AAAAGAAAAAGAGCATGAGGG
1 AAAAGAAAAAGAGCATGAGGG
27326430 AAAAGAAAAAGAGCATGAGGG
1 AAAAGAAAAAGAGCATGAGGG
27326451 AAAAGAAAAA
1 AAAAGAAAAA
27326461 AATAAAAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.63, C:0.04, G:0.29, T:0.04
Consensus pattern (21 bp):
AAAAGAAAAAGAGCATGAGGG
Found at i:27329460 original size:28 final size:27
Alignment explanation
Indices: 27329375--27329460 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 27
27329365 CATACTTGCA
* *
27329375 TTCAAAAATAAAGTTGTTTTATTTATAC
1 TTCATAAATAAAGTTG-TTTATTTATGC
** * *
27329403 TTCATTGAT--TGTTGTTT-TTTTTGC
1 TTCATAAATAAAGTTGTTTATTTATGC
27329427 GTTCATAAATAAAGTTGCTTTATTTATGC
1 -TTCATAAATAAAGTTG-TTTATTTATGC
27329456 TTCAT
1 TTCAT
27329461 TGATTGTTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
24 5 0.12
25 10 0.23
26 4 0.09
27 4 0.09
28 14 0.33
29 6 0.14
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.52
Consensus pattern (27 bp):
TTCATAAATAAAGTTGTTTATTTATGC
Found at i:27329481 original size:49 final size:49
Alignment explanation
Indices: 27329370--27329618 Score: 336
Period size: 49 Copynumber: 5.0 Consensus size: 49
27329360 TAAAGCATAC
* * *
27329370 TTGCATTCAAAAATAAAGTTGTTTTATTTATACTTCATTGATTGTTGTTTTTT
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGA---TTG-TTTTG
* *
27329423 TTGCGTTCATAAATAAAGTTGCTTTATTTATGCTTCATTGATTGTTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
* * * *
27329472 TTGCATTCATTAATAGAGTTGTTTTATTTATGCTTCATTCATTGTTATG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
*
27329521 TTGCATTCATAAATAAAGTGGTGTTTTAATTATGCTTCATTGATTGTTTTG
1 TTGCATTCATAAATAAAGT--TGTTTTATTTATGCTTCATTGATTGTTTTG
* *
27329572 TTGCATTCATAAATAGAGTTGTTTCATTTATGCTTCATTGATTGTTT
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTT
27329619 GTTTTTTGTT
Statistics
Matches: 175, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
49 90 0.51
50 3 0.02
51 45 0.26
53 37 0.21
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (49 bp):
TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
Found at i:27329587 original size:100 final size:97
Alignment explanation
Indices: 27329370--27329621 Score: 342
Period size: 100 Copynumber: 2.5 Consensus size: 97
27329360 TAAAGCATAC
* * * * *
27329370 TTGCATTCAAAAATAAAGTTGTTTTATTTATACTTCATTGATTGTTGTTTTTTTTGCGTTCATAA
1 TTGCATTCATAAATAGAGTTGTTTTATTTATGCTTCATTGA---TTG--TTTGTTGCATTCATAA
*
27329435 ATAAAGTTGCTTTATTTATGCTTCATTGATTGTTTTG
61 ATAAAGTTGCTTTAATTATGCTTCATTGATTGTTTTG
* *
27329472 TTGCATTCATTAATAGAGTTGTTTTATTTATGCTTCATTCATTGTTATGTTGCATTCATAAATAA
1 TTGCATTCATAAATAGAGTTGTTTTATTTATGCTTCATTGATTGTT-TGTTGCATTCATAAATAA
*
27329537 AGTGGTGTTTTAATTATGCTTCATTGATTGTTTTG
65 AGT--TGCTTTAATTATGCTTCATTGATTGTTTTG
*
27329572 TTGCATTCATAAATAGAGTTGTTTCATTTATGCTTCATTGATTGTTTGTT
1 TTGCATTCATAAATAGAGTTGTTTTATTTATGCTTCATTGATTGTTTGTT
27329622 TTTTGTTGCA
Statistics
Matches: 135, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
97 2 0.01
98 19 0.14
99 7 0.05
100 71 0.53
102 36 0.27
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (97 bp):
TTGCATTCATAAATAGAGTTGTTTTATTTATGCTTCATTGATTGTTTGTTGCATTCATAAATAAA
GTTGCTTTAATTATGCTTCATTGATTGTTTTG
Found at i:27331187 original size:47 final size:47
Alignment explanation
Indices: 27331136--27331229 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
27331126 GTTGAGATTC
** *
27331136 AAAAAATGGATTGACTGGTTAAACAACATCTGCATCTGATTCTCTTT
1 AAAAAATGGATTGACTGGCCAAACAACATATGCATCTGATTCTCTTT
*
27331183 AAAAAATGGATTGACTGGCCAAACAACATATGCATCTGGTTCTCTTT
1 AAAAAATGGATTGACTGGCCAAACAACATATGCATCTGATTCTCTTT
27331230 TATATTTCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (47 bp):
AAAAAATGGATTGACTGGCCAAACAACATATGCATCTGATTCTCTTT
Found at i:27349963 original size:12 final size:12
Alignment explanation
Indices: 27349941--27349978 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
27349931 TATTTTCTCA
27349941 ATTTATTTTCTTC
1 ATTT-TTTTCTTC
27349954 ATTTTTTTCTTC
1 ATTTTTTTCTTC
27349966 -TTTTGTTTCTTC
1 ATTTT-TTTCTTC
27349978 A
1 A
27349979 CTTTCTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.17
12 15 0.65
13 4 0.17
ACGTcount: A:0.11, C:0.16, G:0.03, T:0.71
Consensus pattern (12 bp):
ATTTTTTTCTTC
Found at i:27354099 original size:16 final size:16
Alignment explanation
Indices: 27354074--27354104 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27354064 TCCTATTAAT
27354074 TTATTAAAATAAAAAC
1 TTATTAAAATAAAAAC
*
27354090 TTATTTAAATAAAAA
1 TTATTAAAATAAAAA
27354105 TATGATCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TTATTAAAATAAAAAC
Found at i:27363148 original size:16 final size:16
Alignment explanation
Indices: 27363123--27363153 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27363113 TGCTATTAAT
27363123 TTATTAAAATAAAAAC
1 TTATTAAAATAAAAAC
*
27363139 TTATTTAAATAAAAA
1 TTATTAAAATAAAAA
27363154 TATGATCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TTATTAAAATAAAAAC
Found at i:27370713 original size:39 final size:38
Alignment explanation
Indices: 27370664--27370766 Score: 120
Period size: 39 Copynumber: 2.7 Consensus size: 38
27370654 CGAATATAAT
*
27370664 AATTATAATTACCATAATTATAATAATGTTTGA-CAAAAA
1 AATTATAATTACCATAATTATAATAATATTTGATC--AAA
* **
27370703 AATTACAATTA-CAGTAATTATAATAATATTTGATCCTA
1 AATTATAATTACCA-TAATTATAATAATATTTGATCAAA
*
27370741 AATTATAATTACAATAATTATAATAA
1 AATTATAATTACCATAATTATAATAA
27370767 GGATTTTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
38 25 0.45
39 29 0.53
40 1 0.02
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (38 bp):
AATTATAATTACCATAATTATAATAATATTTGATCAAA
Found at i:27377712 original size:21 final size:20
Alignment explanation
Indices: 27377674--27377712 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
27377664 TCAATTAACA
* *
27377674 CACCAATATTGTGGACAACC
1 CACCAATAATGTAGACAACC
27377694 CACCAGATAATGTAGACAA
1 CACCA-ATAATGTAGACAA
27377713 GCTACCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.18
Consensus pattern (20 bp):
CACCAATAATGTAGACAACC
Found at i:27383946 original size:21 final size:21
Alignment explanation
Indices: 27383922--27383962 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27383912 AAGATAAAAA
*
27383922 TTGTTTTAATCTTTCTTTAAT
1 TTGTTTTAATCTTTCATTAAT
*
27383943 TTGTTTTAATTTTTCATTAA
1 TTGTTTTAATCTTTCATTAA
27383963 ATTACAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (21 bp):
TTGTTTTAATCTTTCATTAAT
Found at i:27385590 original size:15 final size:15
Alignment explanation
Indices: 27385564--27385611 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
27385554 TAGTCACAAT
*
27385564 TTTCACTATCTAAAG
1 TTTCACAATCTAAAG
* * *
27385579 TTTCATAGTCTATAG
1 TTTCACAATCTAAAG
27385594 TTTCACAATCTAAAG
1 TTTCACAATCTAAAG
27385609 TTT
1 TTT
27385612 TAGTATATAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (15 bp):
TTTCACAATCTAAAG
Found at i:27392915 original size:50 final size:50
Alignment explanation
Indices: 27392854--27393026 Score: 190
Period size: 50 Copynumber: 3.5 Consensus size: 50
27392844 GAGGTCTCAC
* * *
27392854 GTAAGACCATGTCTGGGACGTGGCATTGGCACCGAGATGAGAAGTCCCCT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCAT
* * * *
27392904 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGGGAACTCTCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCAT
* * * * *
27392954 GTAAGACCATATCTGGGATATGGCATTGGTA--GTACAGGA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAAC-TCCCAT
*
27393003 GTAAGACCATGTCTAGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
27393027 TTTGACATGT
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
48 4 0.04
49 29 0.28
50 70 0.68
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCAT
Found at i:27397689 original size:73 final size:73
Alignment explanation
Indices: 27397570--27397715 Score: 265
Period size: 73 Copynumber: 2.0 Consensus size: 73
27397560 TGACATTGTT
* *
27397570 GTTGAGCCTTGAGGTAGTGTGAGCACATCACATCCATAGGTCTGAAATTGGGCCTTGAGACTCAC
1 GTTGAGCCTTGAGGTAGTGTGAGCAAATCACATACATAGGTCTGAAATTGGGCCTTGAGACTCAC
27397635 ATCATTCC
66 ATCATTCC
*
27397643 GTTGAGCCTTGAGGTAGTGTGAGCAAATCACATACATAGGTCTGAAATTGGGCCTTGAGACTCGC
1 GTTGAGCCTTGAGGTAGTGTGAGCAAATCACATACATAGGTCTGAAATTGGGCCTTGAGACTCAC
27397708 ATCATTCC
66 ATCATTCC
27397716 CCCTTCCTCA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (73 bp):
GTTGAGCCTTGAGGTAGTGTGAGCAAATCACATACATAGGTCTGAAATTGGGCCTTGAGACTCAC
ATCATTCC
Found at i:27400193 original size:16 final size:15
Alignment explanation
Indices: 27400160--27400202 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
27400150 CCACAAAATA
*
27400160 TTTTTATTTTTATTT
1 TTTTTATTTTTATAT
*
27400175 TTTCTTATTTTTCTAT
1 TTT-TTATTTTTATAT
27400191 TTTTGTATTTTT
1 TTTT-TATTTTT
27400203 TTCACTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (15 bp):
TTTTTATTTTTATAT
Found at i:27400596 original size:23 final size:22
Alignment explanation
Indices: 27400571--27400614 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
27400561 GTCTGGTAAA
27400571 AAAATTAAAATA-AATAACTAAG
1 AAAATTAAAATAGAATAA-TAAG
27400593 AAAATTAAAATAGAATAATAAG
1 AAAATTAAAATAGAATAATAAG
27400615 TCTACAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (22 bp):
AAAATTAAAATAGAATAATAAG
Found at i:27402307 original size:27 final size:26
Alignment explanation
Indices: 27402270--27402326 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 26
27402260 TAAAATTTAA
*
27402270 CAAACATATTTGCGAACAAAGTTCGC
1 CAAACATATTTGCAAACAAAGTTCGC
*
27402296 CAAATCATATTTGCAAACATAGTTCGC
1 CAAA-CATATTTGCAAACAAAGTTCGC
27402323 CAAA
1 CAAA
27402327 AGACATCCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (26 bp):
CAAACATATTTGCAAACAAAGTTCGC
Found at i:27402820 original size:41 final size:41
Alignment explanation
Indices: 27402774--27402854 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
27402764 GGCTCACAAC
* *
27402774 TTATGAGGGTTCGCATGCATAACAAGTAAGGGTTCGCATGA
1 TTATGAGGGTTCGCATACATAACAAGTAAGGGTTCACATGA
* *
27402815 TTATGAGGGTTCGCATACATAATAGGTAAGGGTTCACATG
1 TTATGAGGGTTCGCATACATAACAAGTAAGGGTTCACATG
27402855 TCAGTTCGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (41 bp):
TTATGAGGGTTCGCATACATAACAAGTAAGGGTTCACATGA
Found at i:27407576 original size:101 final size:100
Alignment explanation
Indices: 27407457--27407683 Score: 257
Period size: 101 Copynumber: 2.2 Consensus size: 100
27407447 TGTGGCATGG
* * * * *
27407457 ACTATGTGTAGGCCACTATGTGAAAG-TGAAATT-GATGGTCTCGTGTGTAGTACTATGTGCAGG
1 ACTATGTGCAGGCTACTATGTGAAAGAT-AAATTCGA---TCACATGTGTAGTACTATATGCAGG
*
27407520 CTACTACGTGTA-CTAGA-A-TGATAGGTCGCATGTGTAGT
62 CTACTACGTGTATC-AGATAGTGAT-GGTCACATGTGTAGT
* * **
27407558 ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGATCACATGTGTAGTACTATATGCAGGCT
1 ACTATGTGCAGGCTACTATGTG-A-AAGATAAATTCGATCACATGTGTAGTACTATATGCAGGCT
27407623 ACTACGTGTATCAGATAGTGATGGTCACATGTGTAGT
64 ACTACGTGTATCAGATAGTGATGGTCACATGTGTAGT
27407660 ACTATGTGCAGGCTACTATGTGAA
1 ACTATGTGCAGGCTACTATGTGAA
27407684 CCGGTATCAT
Statistics
Matches: 107, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
101 57 0.53
102 38 0.36
103 9 0.08
104 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (100 bp):
ACTATGTGCAGGCTACTATGTGAAAGATAAATTCGATCACATGTGTAGTACTATATGCAGGCTAC
TACGTGTATCAGATAGTGATGGTCACATGTGTAGT
Found at i:27407624 original size:51 final size:49
Alignment explanation
Indices: 27407500--27407677 Score: 223
Period size: 51 Copynumber: 3.5 Consensus size: 49
27407490 GATGGTCTCG
* * *
27407500 TGTGTAGTACTATGTGCAGGCTACTACGTGTACTAGA-ATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATA-G-TTGGTCACA
* * *
27407550 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-TT-GGTCACA
* *
27407601 TGTGTAGTACTATATGCAGGCTACTACGTGTATCAGATAGTGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT--TGGTCACA
27407652 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
27407678 TGTGAACCGG
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
50 37 0.33
51 73 0.66
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTTGGTCACA
Found at i:27407774 original size:46 final size:43
Alignment explanation
Indices: 27407683--27407780 Score: 108
Period size: 46 Copynumber: 2.2 Consensus size: 43
27407673 TACTATGTGA
* *
27407683 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGTTGATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
* *
27407726 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAAT-CC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTG-ATCCC
27407772 ACCGTGTAT
1 ACCG-GTAT
27407781 TTGTTATTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.24
45 2 0.04
46 25 0.54
47 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
Found at i:27409967 original size:18 final size:19
Alignment explanation
Indices: 27409935--27409972 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
27409925 CTATATGATC
27409935 CCCTATTTTGAAAAT-TTT
1 CCCTATTTTGAAAATGTTT
27409953 CCCTACTTTTG-AAATGTTT
1 CCCTA-TTTTGAAAATGTTT
27409972 C
1 C
27409973 TAATATGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (19 bp):
CCCTATTTTGAAAATGTTT
Found at i:27420646 original size:49 final size:49
Alignment explanation
Indices: 27420577--27420683 Score: 115
Period size: 49 Copynumber: 2.2 Consensus size: 49
27420567 GTGTTATGAA
* * * * * *
27420577 ACTTGAACTCGTGACTGCATAACCATCATTAACTGGGGGGCCCAGTTAT
1 ACTTAAACCCGTGACCGCATAACCACCATCAACTGGGAGGCCCAGTTAT
* * ** *
27420626 ACTTAAACCCGTGACCGCATAATCACCGTCAACTGGGAGTTCTAGTTAT
1 ACTTAAACCCGTGACCGCATAACCACCATCAACTGGGAGGCCCAGTTAT
27420675 ACTTAAACC
1 ACTTAAACC
27420684 TATGACCATA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
ACTTAAACCCGTGACCGCATAACCACCATCAACTGGGAGGCCCAGTTAT
Found at i:27422000 original size:31 final size:29
Alignment explanation
Indices: 27421959--27422037 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
27421949 AACTAACGGC
* * *
27421959 TAAGTCACTAAAATGTTACAACGTGATAACA
1 TAAGTGACTAAAATGTAAC-ACGTCA-AACA
* **
27421990 TAAGTGACTAAAACGTAACATTTCAAACA
1 TAAGTGACTAAAATGTAACACGTCAAACA
27422019 TAAGTGACTAAAATGTAAC
1 TAAGTGACTAAAATGTAAC
27422038 CTGAGCCAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 22 0.54
30 3 0.07
31 16 0.39
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.25
Consensus pattern (29 bp):
TAAGTGACTAAAATGTAACACGTCAAACA
Found at i:27422386 original size:75 final size:75
Alignment explanation
Indices: 27422294--27422450 Score: 278
Period size: 75 Copynumber: 2.1 Consensus size: 75
27422284 AATTTTCACA
*
27422294 TTTGCAAAGATGCACATTTTAAAATCACATAACTTTATTTCTCAAGCTAAGATAAATCAAAACAT
1 TTTG-AAAGATGCACATTTTAAAATCACATAACATTATTTCTCAAGCTAAGATAAATCAAAACAT
*
27422359 ACAACAAATCT
65 AAAACAAATCT
*
27422370 TTTGAAAGATGTACATTTTAAAATCACATAACATTATTTCTCAAGCTAAGATAAATCAAAACATA
1 TTTGAAAGATGCACATTTTAAAATCACATAACATTATTTCTCAAGCTAAGATAAATCAAAACATA
27422435 AAACAAATCT
66 AAACAAATCT
27422445 TTTGAA
1 TTTGAA
27422451 GCACTAGAGT
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
75 74 0.95
76 4 0.05
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (75 bp):
TTTGAAAGATGCACATTTTAAAATCACATAACATTATTTCTCAAGCTAAGATAAATCAAAACATA
AAACAAATCT
Found at i:27427847 original size:46 final size:46
Alignment explanation
Indices: 27427769--27427905 Score: 222
Period size: 46 Copynumber: 3.0 Consensus size: 46
27427759 ACATTGCTAT
*
27427769 AACTCAGTATGGTTTTCTTCA-TGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACT-GAAACACCATACCTACTTTTCAC
*
27427815 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTAATTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
27427861 AACTCAGTATGGTTTTCTTCACTAAAACACCATACCTACATTTCA
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCA
27427906 TACTTTGTCA
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
46 84 0.99
47 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:27429175 original size:16 final size:17
Alignment explanation
Indices: 27429129--27429176 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
27429119 AAATTCTTTT
27429129 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
27429146 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
27429163 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
27429177 TTCTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:27430567 original size:95 final size:97
Alignment explanation
Indices: 27430444--27430627 Score: 291
Period size: 96 Copynumber: 1.9 Consensus size: 97
27430434 CCAAATGAAA
* * *
27430444 GGAGAAATACGATTGAGATATCACCTTTTGTGCACTGTTACTGGTG-AGTTCAAAAGATCATAAG
1 GGAGAAATACAATTGAGATATCACCTTTTGTGCAATGTTACTAGTGTAGTTCAAAAGATCATAAG
*
27430508 AGCTTCCAGTGTCCAATTAAATATCCAAATAG
66 AGCTTCCAATGTCCAATTAAATATCCAAATAG
*
27430540 GGAG-AATACAATTGAGATATCACCTTTTGTGCAATGTTATTAGTGTAGTTCAAAAGATCATAAG
1 GGAGAAATACAATTGAGATATCACCTTTTGTGCAATGTTACTAGTGTAGTTCAAAAGATCATAAG
* *
27430604 GGTTTCCAATGTCCAATTAAATAT
66 AGCTTCCAATGTCCAATTAAATAT
27430628 TTAACTAGAG
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 37 0.46
96 43 0.54
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (97 bp):
GGAGAAATACAATTGAGATATCACCTTTTGTGCAATGTTACTAGTGTAGTTCAAAAGATCATAAG
AGCTTCCAATGTCCAATTAAATATCCAAATAG
Found at i:27436921 original size:17 final size:17
Alignment explanation
Indices: 27436899--27436953 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
27436889 ACTTAAAATT
27436899 ATTGTTAAAACCAAGTA
1 ATTGTTAAAACCAAGTA
* *
27436916 ATTGTTTAATA--AA-TT
1 ATTG-TTAAAACCAAGTA
*
27436931 GTTGTTAAAACCAAGTA
1 ATTGTTAAAACCAAGTA
27436948 ATTGTT
1 ATTGTT
27436954 TAATAAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 5 0.18
15 4 0.14
16 4 0.14
17 10 0.36
18 5 0.18
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (17 bp):
ATTGTTAAAACCAAGTA
Found at i:27436936 original size:32 final size:32
Alignment explanation
Indices: 27436894--27436963 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
27436884 TTTTTACTTA
27436894 AAATTATTGTTAAAACCAAGTAATTGTTTAAT
1 AAATTATTGTTAAAACCAAGTAATTGTTTAAT
*
27436926 AAATTGTTGTTAAAACCAAGTAATTGTTTAAT
1 AAATTATTGTTAAAACCAAGTAATTGTTTAAT
27436958 AAATTA
1 AAATTA
27436964 ATGAAATATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (32 bp):
AAATTATTGTTAAAACCAAGTAATTGTTTAAT
Found at i:27437474 original size:19 final size:19
Alignment explanation
Indices: 27437452--27437489 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
27437442 TAACTCATCC
27437452 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
27437471 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
27437490 ACTCTCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:27443093 original size:3 final size:3
Alignment explanation
Indices: 27443085--27443123 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
27443075 AAATATAAAT
27443085 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
27443124 CCAAATTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:27443094 original size:12 final size:13
Alignment explanation
Indices: 27443079--27443123 Score: 62
Period size: 12 Copynumber: 3.8 Consensus size: 13
27443069 AAATATAAAT
27443079 ATAAAT-ATAATA
1 ATAAATAATAATA
27443091 AT-AATAATAATA
1 ATAAATAATAATA
27443103 AT-AATAATAATA
1 ATAAATAATAATA
27443115 AT-AATAATA
1 ATAAATAATA
27443124 CCAAATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 3 0.09
12 29 0.91
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAAATAATAATA
Found at i:27444158 original size:59 final size:59
Alignment explanation
Indices: 27444062--27444179 Score: 168
Period size: 58 Copynumber: 2.0 Consensus size: 59
27444052 GCCTCTCTAG
* *
27444062 TTTTACTTTTTTTTATTTTTTTGGACTCAAAGCGCCCTTTG-CGGGTTTCACCTTGGTC
1 TTTTACTTTTTTTTATTTTTTTGGACTCAAAGCGCCCTCTGTAGGGTTTCACCTTGGTC
* *
27444120 TTTTTCTTTTTTTCT-TTTTTTTAGGACTCAAAGCGCCCTCTGTAGGTTTTCACCTTGGTC
1 TTTTACTTTTTTT-TATTTTTTT-GGACTCAAAGCGCCCTCTGTAGGGTTTCACCTTGGTC
27444180 CCTTCTTCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
58 19 0.36
59 19 0.36
60 15 0.28
ACGTcount: A:0.12, C:0.21, G:0.16, T:0.51
Consensus pattern (59 bp):
TTTTACTTTTTTTTATTTTTTTGGACTCAAAGCGCCCTCTGTAGGGTTTCACCTTGGTC
Found at i:27444186 original size:59 final size:58
Alignment explanation
Indices: 27444067--27444195 Score: 154
Period size: 59 Copynumber: 2.2 Consensus size: 58
27444057 TCTAGTTTTA
* * **
27444067 CTTTTTTT-TATTTTTTTGGACTCAAAGCGCCCTTTGCGGGTTTCACCTTGGTCTTTTT
1 CTTTTTTTCT-TTTTTTTGGACTCAAAGCGCCCTCTGAGGGTTTCACCTTGGTCTCCTT
*
27444125 CTTTTTTTCTTTTTTTTAGGACTCAAAGCGCCCTCTGTAGGTTTTCACCTTGGTC-CCTT
1 CTTTTTTTCTTTTTTTT-GGACTCAAAGCGCCCTCTG-AGGGTTTCACCTTGGTCTCCTT
*
27444184 CTTCTTCTTCTT
1 CTT-TTTTTCTT
27444196 CAGGTGCAGT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
58 15 0.25
59 24 0.39
60 22 0.36
ACGTcount: A:0.10, C:0.24, G:0.15, T:0.51
Consensus pattern (58 bp):
CTTTTTTTCTTTTTTTTGGACTCAAAGCGCCCTCTGAGGGTTTCACCTTGGTCTCCTT
Found at i:27445067 original size:6 final size:6
Alignment explanation
Indices: 27445058--27445098 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
27445048 TTGGCCTCTC
* *
27445058 CTTTTT C-TTTT CTTTTT CTTTTT CCTTTG C-TTTT CTTTTT C
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C
27445099 CATCATTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
5 9 0.30
6 21 0.70
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (6 bp):
CTTTTT
Found at i:27445072 original size:11 final size:11
Alignment explanation
Indices: 27445058--27445098 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
27445048 TTGGCCTCTC
27445058 CTTTTTCTTTT
1 CTTTTTCTTTT
27445069 CTTTTTCTTTTT
1 CTTTTTC-TTTT
* *
27445081 CCTTTGCTTTT
1 CTTTTTCTTTT
27445092 CTTTTTC
1 CTTTTTC
27445099 CATCATTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:27445099 original size:17 final size:18
Alignment explanation
Indices: 27445058--27445099 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
27445048 TTGGCCTCTC
*
27445058 CTTTTT-CTTTTCTTTTT
1 CTTTTTCCTTTGCTTTTT
27445075 CTTTTTCCTTTGC-TTTT
1 CTTTTTCCTTTGCTTTTT
27445092 CTTTTTCC
1 CTTTTTCC
27445100 ATCATTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (18 bp):
CTTTTTCCTTTGCTTTTT
Found at i:27445140 original size:18 final size:18
Alignment explanation
Indices: 27445119--27445160 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
27445109 ATTTTCATTT
27445119 TTTTTTGATTTTTTTTGA
1 TTTTTTGATTTTTTTTGA
27445137 TTTTTTGATTTTTTTTGA
1 TTTTTTGATTTTTTTTGA
27445155 TTTTTT
1 TTTTTT
27445161 TGAAACTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.81
Consensus pattern (18 bp):
TTTTTTGATTTTTTTTGA
Found at i:27445163 original size:9 final size:10
Alignment explanation
Indices: 27445117--27445161 Score: 76
Period size: 10 Copynumber: 4.7 Consensus size: 10
27445107 TCATTTTCAT
27445117 TTTTTTTTGA
1 TTTTTTTTGA
27445127 TTTTTTTTGA
1 TTTTTTTTGA
27445137 --TTTTTTGA
1 TTTTTTTTGA
27445145 TTTTTTTTGA
1 TTTTTTTTGA
27445155 TTTTTTT
1 TTTTTTT
27445162 GAAACTCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.24
10 25 0.76
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (10 bp):
TTTTTTTTGA
Found at i:27448406 original size:51 final size:50
Alignment explanation
Indices: 27448341--27448518 Score: 209
Period size: 51 Copynumber: 3.5 Consensus size: 50
27448331 AAAGGTCGCA
27448341 TGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGCTTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAG-TTTGATCACG
** * * *
27448392 TGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATA-TTAATGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTT--TGATCACG
* * *
27448443 TGTGTAGTACTATGTGCAAGCTA-T-TACATGAACCGGAAAGTTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCAT--ACCGGATAGTTTGATCACG
*
27448493 TGTGTAGTACTATGTGAAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
27448519 CGTGTATTGA
Statistics
Matches: 105, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
49 4 0.04
50 29 0.28
51 70 0.67
52 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTTTGATCACG
Found at i:27448554 original size:101 final size:102
Alignment explanation
Indices: 27448286--27448562 Score: 325
Period size: 101 Copynumber: 2.7 Consensus size: 102
27448276 AAAGCGATGG
* * *
27448286 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACTGGAATGA-AA-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TTGAATGATAATGGTCACATGTGTAGT
* *
27448349 ACTATGTGCAGGCTACTATGCATACCGGATAGCTTTGA
65 ACTATGTGCAAGCTACTATGCATACCGGAAAGCTTTGA
* * * *
27448387 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTA-TCAGAT-ATTAATGGTCACGTGTGTAG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATTGA-ATGA-TAATGGTCACATGTGTAG
*
27448450 TACTATGTGCAAGCTA-T-TACATGAACCGGAAAG-TTTGA
64 TACTATGTGCAAGCTACTATGCAT--ACCGGAAAGCTTTGA
* * * * *
27448488 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATTGAATGATAATAGTTAAATGAGTGGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATTGAATGATAATGGTCACATGTGTAGTA
27448553 CTATGTGCAA
66 CTATGTGCAA
27448563 ACCACTGAAT
Statistics
Matches: 150, Mismatches: 18, Indels: 16
0.82 0.10 0.09
Matches are distributed among these distances:
99 2 0.01
100 6 0.04
101 104 0.69
102 38 0.25
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATTGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAAGCTACTATGCATACCGGAAAGCTTTGA
Found at i:27462057 original size:19 final size:20
Alignment explanation
Indices: 27462014--27462050 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
27462004 ATAGATTTTA
27462014 ATTAATAAATTAATAAATAG
1 ATTAATAAATTAATAAATAG
*
27462034 GTTAA-AAATTAATAAAT
1 ATTAATAAATTAATAAAT
27462051 CTATTAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
ATTAATAAATTAATAAATAG
Found at i:27463901 original size:31 final size:30
Alignment explanation
Indices: 27463844--27463932 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 30
27463834 TCAAAAAAGT
***
27463844 ATATATAAAAAATTATTTTAAA-AAAAATTA
1 ATATATAAAAAATTA-AAAAAATAAAAATTA
*
27463874 ATATATAAAGAAATTAAAAAAATAAAAAATA
1 ATATATAAA-AAATTAAAAAAATAAAAATTA
**
27463905 ATATATAAAAAATTAAAACTATAAAAAT
1 ATATATAAAAAATTAAAAAAATAAAAAT
27463933 ATATAAAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 28 0.56
31 22 0.44
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (30 bp):
ATATATAAAAAATTAAAAAAATAAAAATTA
Found at i:27463927 original size:16 final size:15
Alignment explanation
Indices: 27463846--27463946 Score: 78
Period size: 15 Copynumber: 6.5 Consensus size: 15
27463836 AAAAAAGTAT
**
27463846 ATATAAAAAATTATT
1 ATATAAAAAATTAAA
* * *
27463861 TTAAAAAAAATTAAT
1 ATATAAAAAATTAAA
27463876 ATATAAAGAAATTAAAA
1 ATATAAA-AAATT-AAA
* *
27463893 AAATAAAAAA-TAAT
1 ATATAAAAAATTAAA
27463907 ATATAAAAAATTAAA
1 ATATAAAAAATTAAA
27463922 ACTATAAAAATATATAAA
1 A-TATAAAAA-AT-TAAA
*
27463940 AAATAAA
1 ATATAAA
27463947 CCTTAAACCC
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
14 11 0.16
15 22 0.32
16 16 0.23
17 15 0.22
18 5 0.07
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (15 bp):
ATATAAAAAATTAAA
Found at i:27476721 original size:15 final size:17
Alignment explanation
Indices: 27476691--27476723 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27476681 AATTACTATT
27476691 TCAAATAACATAATTTA
1 TCAAATAACATAATTTA
27476708 TCAAATAA-AT-ATTTA
1 TCAAATAACATAATTTA
27476723 T
1 T
27476724 TATAATACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 2 0.12
17 8 0.50
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (17 bp):
TCAAATAACATAATTTA
Found at i:27477291 original size:37 final size:37
Alignment explanation
Indices: 27477247--27477328 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
27477237 GTCGATAAGG
* *
27477247 CACTGGGTTCCAATTTACTTTGGTTTAACCGATGAGA
1 CACTGGGTTCCAATTTACTTCGATTTAACCGATGAGA
* *
27477284 CACTGGGTTCCAATTTGCTTCGATTTAACTGATGAGA
1 CACTGGGTTCCAATTTACTTCGATTTAACCGATGAGA
*
27477321 CATTGGGT
1 CACTGGGT
27477329 GTCAAACTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (37 bp):
CACTGGGTTCCAATTTACTTCGATTTAACCGATGAGA
Found at i:27477526 original size:18 final size:18
Alignment explanation
Indices: 27477480--27477536 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
27477470 TCAAGATATT
27477480 TGATAT-TGAAATGGAAAAA
1 TGATATGTGAAATGG--AAA
*
27477499 TG-T-TGAGAAATGGAAA
1 TGATATGTGAAATGGAAA
27477515 TGATATGTGAAATGGAATA
1 TGATATGTGAAATGGAA-A
27477534 TGA
1 TGA
27477537 AATGGTGAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 5 0.16
17 2 0.06
18 19 0.59
19 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (18 bp):
TGATATGTGAAATGGAAA
Found at i:27481237 original size:18 final size:18
Alignment explanation
Indices: 27481199--27481240 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
27481189 TGAGACTCTA
* *
27481199 GTGGAGAAAATTAAGATT
1 GTGGAAAAAATTAAGAGT
*
27481217 GTGGAAAAAATTAAGCGT
1 GTGGAAAAAATTAAGAGT
27481235 GTGGAA
1 GTGGAA
27481241 TATGAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.24
Consensus pattern (18 bp):
GTGGAAAAAATTAAGAGT
Found at i:27489756 original size:21 final size:21
Alignment explanation
Indices: 27489694--27489756 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
27489684 ATCTGCAAAC
27489694 ACTGGTGGTTTATCCACAACTT
1 ACTGGTGGTTTATCCACAA-TT
* *** **
27489716 ACTAGCAATTTATCTGCAATT
1 ACTGGTGGTTTATCCACAATT
*
27489737 GCTGGTGGTTTATCCACAAT
1 ACTGGTGGTTTATCCACAAT
27489757 ACGATGCGTA
Statistics
Matches: 28, Mismatches: 13, Indels: 1
0.67 0.31 0.02
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (21 bp):
ACTGGTGGTTTATCCACAATT
Found at i:27494112 original size:34 final size:35
Alignment explanation
Indices: 27494065--27494131 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
27494055 CAGTAAAATA
* *
27494065 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
* *
27494099 TTTTCTGTGAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
27494132 CTGCTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:27496486 original size:50 final size:50
Alignment explanation
Indices: 27496426--27496686 Score: 227
Period size: 50 Copynumber: 5.2 Consensus size: 50
27496416 GTGATGTCGG
* ** * * *
27496426 GGAAGCAAGATTCGCCATTGTAGCCTTAATCTGTTCCACTGCACCGCCTA
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGA
* * * ** * *
27496476 GGAAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGA
* * *
27496526 GGAAGCT-TGATTCGCTGTTGTGGCTTTAATCTGTTTCACTGCACCGCCCA
1 GGAAG-TAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGA
* * * * ** * *
27496576 GGAAGTAATATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGA
* * * * * * *
27496626 GGAAGCATGATTCGCTGTTGTGGCTTTAACCTGTTCCACTGTACCGCCTA
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGA
27496676 GGAAGTAAGAT
1 GGAAGTAAGAT
27496687 CTATAATTCT
Statistics
Matches: 158, Mismatches: 51, Indels: 4
0.74 0.24 0.02
Matches are distributed among these distances:
49 1 0.01
50 156 0.99
51 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (50 bp):
GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGA
Found at i:27496572 original size:100 final size:100
Alignment explanation
Indices: 27496399--27496686 Score: 423
Period size: 100 Copynumber: 2.9 Consensus size: 100
27496389 TAACTCGTAA
** ** * ** * *
27496399 CTTTAATCTGCTTAACTGTGATGTCGGGGAAGCAAGATTCGCCATTGTAGCCTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCTGTTGTGGCTTTAATCTGTTCCA
**
27496464 CTGCACCGCCTAGGAAGTAAGATTCGTTGTTGTAG
66 CTGCACCGCCTAGGAAGTAAGATTCACTGTTGTAG
* *
27496499 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCTTGATTCGCTGTTGTGGCTTTAATCTGTTTCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCTGTTGTGGCTTTAATCTGTTCCA
* *
27496564 CTGCACCGCCCAGGAAGTAATATTCACTGTTGTAG
66 CTGCACCGCCTAGGAAGTAAGATTCACTGTTGTAG
*
27496599 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCTGTTGTGGCTTTAACCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCTGTTGTGGCTTTAATCTGTTCCA
*
27496664 CTGTACCGCCTAGGAAGTAAGAT
66 CTGCACCGCCTAGGAAGTAAGAT
27496687 CTATAATTCT
Statistics
Matches: 167, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 167 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCTGTTGTGGCTTTAATCTGTTCCA
CTGCACCGCCTAGGAAGTAAGATTCACTGTTGTAG
Found at i:27496990 original size:41 final size:42
Alignment explanation
Indices: 27496920--27497253 Score: 143
Period size: 44 Copynumber: 7.8 Consensus size: 42
27496910 AATTCTTCGG
* * * *
27496920 TCTATTCCACTGTAATCCCAGAGACATAAGA-CCTGATGCGA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGATCCTGATGCAA
* * * **
27496961 TCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGATCC-TGA-TGCAA
* * * *
27497005 TCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAGAAT-CAA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGA-TCCT-G-ATGCAA
* ** * *
27497049 TCTGCTCCGTTGTAATCTCAGGGAGATAAGA-CCTGATGCGA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGATCCTGATGCAA
* * * * * * **
27497090 TATACTCTACTGTAATTTTAGAGAGATGAGATCCTTTATTTTAA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGATCC-TGA-TGCAA
** * * * * * *
27497134 TCCGCTCCACTGTAATCTCAGCGAAATAGGATTACTAGCTTCAA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGA-TCCT-GATGCAA
* * * * * * * *
27497178 TCTGCCCCGCTGTAATCTTAGGGAGATAAGATTTCTGGCTTCAA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGA-TCCT-GATGCAA
* * *
27497222 TCTGCTCCACTGTAACCTCAGGGAGATAAGAT
1 TCTACTCCACTGTAATCTCAGAGAGATAAGAT
27497254 TCACCATTTT
Statistics
Matches: 217, Mismatches: 64, Indels: 22
0.72 0.21 0.07
Matches are distributed among these distances:
40 2 0.01
41 51 0.24
42 6 0.03
43 5 0.02
44 147 0.68
45 5 0.02
46 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (42 bp):
TCTACTCCACTGTAATCTCAGAGAGATAAGATCCTGATGCAA
Found at i:27497065 original size:219 final size:219
Alignment explanation
Indices: 27496681--27497079 Score: 674
Period size: 219 Copynumber: 1.8 Consensus size: 219
27496671 GCCTAGGAAG
* ** * * *
27496681 TAAGATCTATAATTCTTCGGTCTATTCCACTGTAATCTTAGGGAGATAAGAACTGATGTGATCTA
1 TAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCCCAGAGACATAAGAACTGATGCGATCTA
27496746 CTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAA
66 CTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAA
** *
27496811 ATAGGATTACTAGCTTCAATCTGCTTCGCTGTAATCTCAGGGAGATAAGATTCACCATTTTCGAT
131 ATAGGATTACTAGAATCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTCACCATTTTCGAT
27496876 TAGTTCCACTACTGCTTAGGGAGA
196 TAGTTCCACTACTGCTTAGGGAGA
*
27496900 TAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCCCAGAGACATAAGACCTGATGCGATCTA
1 TAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCCCAGAGACATAAGAACTGATGCGATCTA
27496965 CTCTACTGTAA-TTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGA
66 CTCTACTGTAACTTT-AGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGA
* *
27497029 GATAGGATTACTAGAATCAATCTGCTCCGTTGTAATCTCAGGGAGATAAGA
130 AATAGGATTACTAGAATCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
27497080 CCTGATGCGA
Statistics
Matches: 167, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
218 3 0.02
219 164 0.98
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (219 bp):
TAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCCCAGAGACATAAGAACTGATGCGATCTA
CTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAA
ATAGGATTACTAGAATCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTCACCATTTTCGAT
TAGTTCCACTACTGCTTAGGGAGA
Found at i:27497098 original size:129 final size:129
Alignment explanation
Indices: 27496929--27497208 Score: 434
Period size: 129 Copynumber: 2.2 Consensus size: 129
27496919 GTCTATTCCA
* * * *
27496929 CTGTAATCCCAGAGACATAAGACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGACCTGATGCGATATACTCTACTGTAATTTCAGAGAGATAAGATC
* * *
27496994 CTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAGAATCAATCTGCTCCG
66 CTTTATTTTAATCCACTCCACTGTAATCTCAGCGAAATAGGATTACTAGAATCAATCTGCCCCG
* * *
27497058 TTGTAATCTCAGGGAGATAAGACCTGATGCGATATACTCTACTGTAATTTTAGAGAGATGAGATC
1 CTGTAATCTCAGGGAGATAAGACCTGATGCGATATACTCTACTGTAATTTCAGAGAGATAAGATC
* **
27497123 CTTTATTTTAATCCGCTCCACTGTAATCTCAGCGAAATAGGATTACTAGCTTCAATCTGCCCCG
66 CTTTATTTTAATCCACTCCACTGTAATCTCAGCGAAATAGGATTACTAGAATCAATCTGCCCCG
*
27497187 CTGTAATCTTAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
27497209 TTTCTGGCTT
Statistics
Matches: 136, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 136 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (129 bp):
CTGTAATCTCAGGGAGATAAGACCTGATGCGATATACTCTACTGTAATTTCAGAGAGATAAGATC
CTTTATTTTAATCCACTCCACTGTAATCTCAGCGAAATAGGATTACTAGAATCAATCTGCCCCG
Found at i:27497423 original size:44 final size:44
Alignment explanation
Indices: 27497370--27497486 Score: 155
Period size: 44 Copynumber: 2.7 Consensus size: 44
27497360 TTTTAATCCA
* * * * *
27497370 CTCCACTGTAATCTTAGGGAAATATGATTAT-TGGCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATT-TCTGGCTTCAATCTG
* *
27497414 CTCCGCTGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATTTG
1 CTCCACTGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTG
27497458 CTCCACTGTAACCTCAGGGAGATAAGATT
1 CTCCACTGTAACCTCAGGGAGATAAGATT
27497487 CACCATTTTC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 1 0.02
44 63 0.98
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (44 bp):
CTCCACTGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTG
Found at i:27497476 original size:232 final size:232
Alignment explanation
Indices: 27497058--27497502 Score: 710
Period size: 232 Copynumber: 1.9 Consensus size: 232
27497048 ATCTGCTCCG
* * * ** *
27497058 TTGTAATCTCAGGGAGATAAGACCTGATGCGATATACTCTACTGTAATTTTAGAGAGATGAGATC
1 TTGTAACCTCAAGGAGATAAGACCTGATACGATATACTCTACTGTAATTGCAGAGAGATAAGATC
*
27497123 CTTTATTTTAATCCGCTCCACTGTAATCTCAGCGAAATAGGATTACTAGCTTCAATCTGCCCCGC
66 CTTTATTTTAATCCACTCCACTGTAATCTCAGCGAAATAGGATTACTAGCTTCAATCTGCCCCGC
* *
27497188 TGTAATCTTAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGA
131 TGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGA
27497253 TTCACCATTTTCGATTAGGAATTCTTGGTCTATTCCA
196 TTCACCATTTTCGATTAGGAATTCTTGGTCTATTCCA
* * *
27497290 TTGTAACCTCAAGGAGATAAGACCTGGTACGATCTACTCTACTGTAATTGCAGATAGATAAGATC
1 TTGTAACCTCAAGGAGATAAGACCTGATACGATATACTCTACTGTAATTGCAGAGAGATAAGATC
* * * * * * *
27497355 CTTTATTTTAATCCACTCCACTGTAATCTTAGGGAAATATGATTATTGGCTTCGATCTGCTCCGC
66 CTTTATTTTAATCCACTCCACTGTAATCTCAGCGAAATAGGATTACTAGCTTCAATCTGCCCCGC
*
27497420 TGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATTTGCTCCACTGTAACCTCAGGGAGATAAGA
131 TGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGA
27497485 TTCACCATTTTCGATTAG
196 TTCACCATTTTCGATTAG
27497503 CTCCACTACT
Statistics
Matches: 193, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
232 193 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (232 bp):
TTGTAACCTCAAGGAGATAAGACCTGATACGATATACTCTACTGTAATTGCAGAGAGATAAGATC
CTTTATTTTAATCCACTCCACTGTAATCTCAGCGAAATAGGATTACTAGCTTCAATCTGCCCCGC
TGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGA
TTCACCATTTTCGATTAGGAATTCTTGGTCTATTCCA
Found at i:27497924 original size:119 final size:120
Alignment explanation
Indices: 27497713--27497950 Score: 397
Period size: 119 Copynumber: 2.0 Consensus size: 120
27497703 CGCCGTCTTC
* * *
27497713 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGATC
1 GATCTGCTCCGATACTACTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACC
*
27497778 AGGGATATAGGACTTGTGGCTTAAATCTGCTTC-TTACACTTGAAGATAAGATTT
66 AGGGATATAGGACTTGTGGCTTAAATCTGCTTCTTTACACGTGAAGATAAGATTT
* * *
27497832 GATCTGCTCCGATATTACTTAGGGAGACAAGATCTGTAATTTCCCTACCTATTCCACTGTTGACC
1 GATCTGCTCCGATACTACTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACC
*
27497897 AGGGATATAGGACTTGTGGCTTAAATCTGCTTCTTTACTCGTGAAGATAAGATT
66 AGGGATATAGGACTTGTGGCTTAAATCTGCTTCTTTACACGTGAAGATAAGATT
27497951 CGCTGTCTTC
Statistics
Matches: 110, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
119 92 0.84
120 18 0.16
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (120 bp):
GATCTGCTCCGATACTACTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACC
AGGGATATAGGACTTGTGGCTTAAATCTGCTTCTTTACACGTGAAGATAAGATTT
Found at i:27499242 original size:7 final size:7
Alignment explanation
Indices: 27499223--27499267 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
27499213 TTAGCCTCTC
27499223 CATTTTT
1 CATTTTT
27499230 -ACTTTTT
1 CA-TTTTT
27499237 CATTTTTT
1 CA-TTTTT
27499245 CATTTTT
1 CATTTTT
27499252 CA-TTTT
1 CATTTTT
27499258 CATTTTT
1 CATTTTT
27499265 CAT
1 CAT
27499268 CATTTTTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
6 7 0.21
7 19 0.56
8 8 0.24
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:27499243 original size:8 final size:8
Alignment explanation
Indices: 27499232--27499282 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
27499222 CCATTTTTAC
27499232 TTTTTCAT
1 TTTTTCAT
27499240 TTTTTCA-
1 TTTTTCAT
27499247 TTTTTCA-
1 TTTTTCAT
27499254 -TTTTCAT
1 TTTTTCAT
27499261 TTTTCATCAT
1 TTTT--TCAT
*
27499271 TTTTTCCT
1 TTTTTCAT
27499279 TTTT
1 TTTT
27499283 CTTTTACTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
6 6 0.16
7 7 0.18
8 17 0.45
10 8 0.21
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTTCAT
Found at i:27499250 original size:15 final size:15
Alignment explanation
Indices: 27499223--27499267 Score: 60
Period size: 13 Copynumber: 3.2 Consensus size: 15
27499213 TTAGCCTCTC
*
27499223 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
27499237 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
27499252 CA--TTTTCATTTTT
1 CATTTTTTCATTTTT
27499265 CAT
1 CAT
27499268 CATTTTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 13 0.46
14 8 0.29
15 7 0.25
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:27500195 original size:34 final size:35
Alignment explanation
Indices: 27500157--27500248 Score: 105
Period size: 34 Copynumber: 2.6 Consensus size: 35
27500147 TTCCTTTTTC
*
27500157 TTTTTTATTTTCATTTTTTTGATTTTGA-TTGATT
1 TTTTTTATTTTCATTTTTTTGACTTTGATTTGATT
* *
27500191 TTTTTCATTTTCATTTTTTCGACTTTGATTTTGATT
1 TTTTTTATTTTCATTTTTTTGACTTTGA-TTTGATT
* *
27500227 TTTTCTTTTTCTTCCTTTTTTT
1 TTTT-TTATT-TTCATTTTTTT
27500249 TGAATCAGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
34 25 0.53
36 10 0.21
37 3 0.06
38 9 0.19
ACGTcount: A:0.11, C:0.10, G:0.07, T:0.73
Consensus pattern (35 bp):
TTTTTTATTTTCATTTTTTTGACTTTGATTTGATT
Found at i:27515747 original size:30 final size:30
Alignment explanation
Indices: 27515711--27515771 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
27515701 ACTAGTGCTG
27515711 CGATTATCTGAAACTAGACTGAAAAGGTAT
1 CGATTATCTGAAACTAGACTGAAAAGGTAT
*
27515741 CGATTATCTGAAACTAGTCTGAAAAGGTAT
1 CGATTATCTGAAACTAGACTGAAAAGGTAT
27515771 C
1 C
27515772 ATAACTTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (30 bp):
CGATTATCTGAAACTAGACTGAAAAGGTAT
Found at i:27534851 original size:22 final size:22
Alignment explanation
Indices: 27534820--27534861 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
27534810 TACACCAAAA
* *
27534820 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCACTTTTT
27534842 TAGGCCTTTAGCGGCACTTT
1 TAGGCCTTTAGCGGCACTTT
27534862 GAGAAGTGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.21, G:0.26, T:0.40
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCACTTTTT
Found at i:27534973 original size:43 final size:43
Alignment explanation
Indices: 27534925--27535151 Score: 321
Period size: 43 Copynumber: 5.3 Consensus size: 43
27534915 TTTCAGAAAA
* *
27534925 AAACGCCGCGAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* *
27534968 AAACGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
*
27535011 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* * *
27535054 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* * * * * *
27535097 AAATGCCGCTAAAGAACAA-ACTTTTAGCGGCGCTTCTAGCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
27535139 AAACGCCGCTAAA
1 AAACGCCGCTAAA
27535152 AACATAATCT
Statistics
Matches: 168, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
42 31 0.18
43 137 0.82
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
Found at i:27540395 original size:82 final size:82
Alignment explanation
Indices: 27540233--27540408 Score: 244
Period size: 82 Copynumber: 2.1 Consensus size: 82
27540223 CCCTAAACCA
* * *
27540233 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACATTAATTAATCTAAATCATAAACCCT
1 CTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCT
*
27540298 AACCCGACCCCGAATCC
66 AACCCGACACCGAATCC
* * *
27540315 CTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAATCTAAACCTTAAACCTT
1 CTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCT
** *
27540380 AACTTGACACTGAATCC
66 AACCCGACACCGAATCC
* *
27540397 ATAAACCCTAAA
1 CTAACCCCTAAA
27540409 TCCCTAACTC
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.28
Consensus pattern (82 bp):
CTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCT
AACCCGACACCGAATCC
Found at i:27540973 original size:41 final size:41
Alignment explanation
Indices: 27540909--27541225 Score: 427
Period size: 41 Copynumber: 7.7 Consensus size: 41
27540899 AAATGTTTTT
* ** *
27540909 GCGGCGCTTTTTCAAAAATGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* ** *
27540950 GTGGCGCTTTTTGTAAAACGCCGCTAAAGATCTGAGCAGTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
27540991 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGAATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * * *
27541032 GCGGTGCTTTTCCAAAAACGCCGCTAATGATCTGAGAATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
27541073 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
27541114 GCGGCGCTTTTTCAAAAATGCCGCTAAATATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
** * *
27541155 GCGGCGCTTTTTCAAAAAATCTGCTAAAGATCTAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
27541196 GTGGCGCTTTTTTTAAAAACGCCGCTAAAG
1 GCGGCGC-TTTTTCAAAAACGCCGCTAAAG
27541226 CCCCGAAAGG
Statistics
Matches: 243, Mismatches: 32, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
41 225 0.93
42 18 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:27541312 original size:40 final size:41
Alignment explanation
Indices: 27541262--27541358 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
27541252 TGGGCTTAGG
* *
27541262 TTTTTTGCGGCGTTTTTCCA-AAAAATGCCGCTAATGCTC-A
1 TTTTTAGCGGCGTTTTT-CATAAAAACGCCGCTAATGCTCGA
* *
27541302 TTTTTAGCGGCG-CTTTCATAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTCATAAAAACGCCGCTAATGCTCGA
27541342 TTTTTAGCGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
27541359 TGTCCAAATG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
38 2 0.04
39 20 0.41
40 24 0.49
41 3 0.06
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTTCATAAAAACGCCGCTAATGCTCGA
Found at i:27543453 original size:21 final size:21
Alignment explanation
Indices: 27543427--27543490 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
27543417 TTCGGGTGGA
*
27543427 TCAGCTCTTTTGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
27543448 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
* * * *
27543469 TTAGCTTTTATCAGCTTTTGT
1 TCAGCTCTTATGAGCTTCTGT
27543490 T
1 T
27543491 GGAGGACCAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.12, C:0.20, G:0.17, T:0.50
Consensus pattern (21 bp):
TCAGCTCTTATGAGCTTCTGT
Found at i:27546042 original size:26 final size:25
Alignment explanation
Indices: 27545973--27546058 Score: 65
Period size: 26 Copynumber: 3.4 Consensus size: 25
27545963 ACATGGTGAT
*
27545973 AATAATAATAAATAAGAAAT--AC-
1 AATAATAATAAATAATAAATAAACG
* *
27545995 AATAAATAAT-CATACATTAATAAACG
1 AAT-AATAATAAATA-ATAAATAAACG
27546021 AATAATAATAAATAGATAAATAAGA-G
1 AATAATAATAAATA-ATAAATAA-ACG
27546047 TAATAATAATAA
1 -AATAATAATAA
27546059 TAGTAGTAGT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
22 6 0.12
23 10 0.20
25 8 0.16
26 14 0.28
27 12 0.24
ACGTcount: A:0.64, C:0.05, G:0.06, T:0.26
Consensus pattern (25 bp):
AATAATAATAAATAATAAATAAACG
Found at i:27546135 original size:18 final size:18
Alignment explanation
Indices: 27546112--27546151 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27546102 TGAACAATAG
*
27546112 TAATAACAGTACTAAACA
1 TAATAACAGTACTAAAAA
* *
27546130 TAATAATAGTAGTAAAAA
1 TAATAACAGTACTAAAAA
27546148 TAAT
1 TAAT
27546152 GATAACATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.28
Consensus pattern (18 bp):
TAATAACAGTACTAAAAA
Found at i:27557915 original size:5 final size:5
Alignment explanation
Indices: 27557905--27557931 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
27557895 AAAATAATCG
27557905 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
27557932 ATATGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:27571261 original size:95 final size:96
Alignment explanation
Indices: 27571159--27571342 Score: 237
Period size: 95 Copynumber: 1.9 Consensus size: 96
27571149 GTTTGTTAAT
*** * * ** * *
27571159 TAAATTAATCATAAATTTTTCAAAATTGGATTAGG-TTTCGTGTTTATTGTTTTTTAAGGAAAAA
1 TAAATTAATCATAAATTTAAAAAAAATAGATTAGGCTTTAATGTTTA-GGGTTTTTAAGGAAAAA
27571223 -TCAAATAAATTAGGGTTCGGGGTTACTTGAG
65 CTCAAATAAATTAGGGTTCGGGGTTACTTGAG
* *
27571254 TAAATTAATTATAAATTTAAAAAAAATAGATTAGGCTTTAATGTTTAGGGTTTTTAAGTAAAAAC
1 TAAATTAATCATAAATTTAAAAAAAATAGATTAGGCTTTAATGTTTAGGGTTTTTAAGGAAAAAC
*
27571319 TCAAATAAATTAGGGTTTGGGGTT
66 TCAAATAAATTAGGGTTCGGGGTT
27571343 TAGGGTTAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
95 43 0.57
96 32 0.43
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.40
Consensus pattern (96 bp):
TAAATTAATCATAAATTTAAAAAAAATAGATTAGGCTTTAATGTTTAGGGTTTTTAAGGAAAAAC
TCAAATAAATTAGGGTTCGGGGTTACTTGAG
Found at i:27571600 original size:126 final size:126
Alignment explanation
Indices: 27571385--27571786 Score: 682
Period size: 126 Copynumber: 3.2 Consensus size: 126
27571375 TAGCTCTTAC
* *
27571385 GTGGACGCGTTTTTGCTACAGTAGCTCCT-AAAAAATAATTTTGAGTAGACATTTCTGAGCAAAT
1 GTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTTCTGAGCAAAT
* *
27571449 AGTGTCAAAAAGGCTTTAAGCAGGATGCTTTGTCAACAATAGTACTGAAAGAAGCTCCCAT
66 AGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTGAAAGAAGCTCCCAT
*
27571510 GTGGACGCGCTTTTGCTATAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTTCTGAGCAAAT
1 GTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTTCTGAGCAAAT
27571575 AGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTGAAAGAAGCTCCCAT
66 AGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTGAAAGAAGCTCCCAT
* *
27571636 GTGGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTTGACTAGACGTTTCTGAGCAAAT
1 GTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTTCTGAGCAAAT
* * * *
27571701 GGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAGA-AGTACTGAAAGAAGCTCCTAC
66 AGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCA-ATAGTACTGAAAGAAGCTCCCAT
27571762 GTGGACGCGCTTTTGCTACAGTAGC
1 GTGGACGCGCTTTTGCTACAGTAGC
27571787 GCATGTTTGG
Statistics
Matches: 263, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
125 27 0.10
126 235 0.89
127 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (126 bp):
GTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTTCTGAGCAAAT
AGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTGAAAGAAGCTCCCAT
Found at i:27575476 original size:18 final size:18
Alignment explanation
Indices: 27575453--27575492 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
27575443 GACTAGAAAA
*
27575453 AGGAAACATATAAGGGTT
1 AGGAAACATATAAGGGCT
*
27575471 AGGAAACATGTAAGGGCT
1 AGGAAACATATAAGGGCT
27575489 AGGA
1 AGGA
27575493 TACGTACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.33, T:0.17
Consensus pattern (18 bp):
AGGAAACATATAAGGGCT
Found at i:27576160 original size:7 final size:7
Alignment explanation
Indices: 27576150--27576182 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
27576140 CATAATACAT
27576150 AATACTA
1 AATACTA
27576157 AATACTA
1 AATACTA
27576164 AATACTA
1 AATACTA
*
27576171 AATGCTA
1 AATACTA
27576178 AATAC
1 AATAC
27576183 CAATCGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:27577367 original size:11 final size:11
Alignment explanation
Indices: 27577353--27577398 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
27577343 TTTTTTAAAT
27577353 AGGAATTTGAG
1 AGGAATTTGAG
27577364 AGGAATTTGAG
1 AGGAATTTGAG
27577375 A-GAATATT-AG
1 AGGAAT-TTGAG
*
27577385 AGAGAAATTGAG
1 AG-GAATTTGAG
27577397 AG
1 AG
27577399 AAAGGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.23
11 16 0.53
12 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:27577397 original size:10 final size:10
Alignment explanation
Indices: 27577359--27577401 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
27577349 AAATAGGAAT
*
27577359 TTGAGAGGAAT
1 TTGAGA-GAAA
27577370 TTGAGAGAATA
1 TTGAGAGAA-A
27577381 TTAGAGAGAAA
1 TT-GAGAGAAA
27577392 TTGAGAGAAA
1 TTGAGAGAAA
27577402 GGATTTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 11 0.38
11 11 0.38
12 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:27584367 original size:61 final size:61
Alignment explanation
Indices: 27584298--27584420 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
27584288 GGGATAGATC
27584298 AACATTGGACGTCATGTTGCATGTCCGAGGTAGAGGTTCCGTATAAATTTGTTTCAAGCAT
1 AACATTGGACGTCATGTTGCATGTCCGAGGTAGAGGTTCCGTATAAATTTGTTTCAAGCAT
27584359 AACATTGGACGTCATGTTGCATGTCCGAGGTAGAGGTTCCGTATAAATTTGTTTCAAGCAT
1 AACATTGGACGTCATGTTGCATGTCCGAGGTAGAGGTTCCGTATAAATTTGTTTCAAGCAT
27584420 A
1 A
27584421 CTCGTCGTTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (61 bp):
AACATTGGACGTCATGTTGCATGTCCGAGGTAGAGGTTCCGTATAAATTTGTTTCAAGCAT
Found at i:27584658 original size:51 final size:51
Alignment explanation
Indices: 27584600--27584702 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
27584590 ACTAAATTTA
27584600 TCTGGCATTTTGGGTGGTAGCTATTGGCAAATTAGCCTTCAATTCTTTGGG
1 TCTGGCATTTTGGGTGGTAGCTATTGGCAAATTAGCCTTCAATTCTTTGGG
27584651 TCTGGCATTTTGGGTGGTAGCTATTGGCAAATTAGCCTTCAATTCTTTGGG
1 TCTGGCATTTTGGGTGGTAGCTATTGGCAAATTAGCCTTCAATTCTTTGGG
27584702 T
1 T
27584703 TCACTAGACT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.17, C:0.16, G:0.27, T:0.40
Consensus pattern (51 bp):
TCTGGCATTTTGGGTGGTAGCTATTGGCAAATTAGCCTTCAATTCTTTGGG
Found at i:27585028 original size:22 final size:21
Alignment explanation
Indices: 27584986--27585025 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27584976 ACAAGTATAC
*
27584986 TCAAAATATTATATATTTATT
1 TCAAAAAATTATATATTTATT
*
27585007 TCAAAAAATTA-ATAATTAT
1 TCAAAAAATTATATATTTAT
27585026 ATTAACAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
TCAAAAAATTATATATTTATT
Found at i:27585804 original size:33 final size:33
Alignment explanation
Indices: 27585754--27585828 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 33
27585744 AAACTAATCC
* * *
27585754 TCTCTCAAATTTTCTCTC-AATTTCTTCTAAATT
1 TCTCTC-AATTTGCTCTCAAATTCCTTCAAAATT
27585787 TCCTCTCAATTTGCTCTCAAATTCCTTCAAAATT
1 T-CTCTCAATTTGCTCTCAAATTCCTTCAAAATT
27585821 TCTCTCAA
1 TCTCTCAA
27585829 ATCCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 18 0.49
34 19 0.51
ACGTcount: A:0.25, C:0.28, G:0.01, T:0.45
Consensus pattern (33 bp):
TCTCTCAATTTGCTCTCAAATTCCTTCAAAATT
Found at i:27585811 original size:22 final size:22
Alignment explanation
Indices: 27585754--27585830 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 22
27585744 AAACTAATCC
*
27585754 TCTCTCAAATTTTCTCTCAATT
1 TCTCTCAAATTTCCTCTCAATT
27585776 TCT-TCTAAATTTCCTCTCAATT
1 TCTCTC-AAATTTCCTCTCAATT
27585798 TGCTCTCAAA-TTCCT-TCAAAATT
1 T-CTCTCAAATTTCCTCTC--AATT
27585821 TCTCTCAAAT
1 TCTCTCAAAT
27585831 CCATATTTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
21 4 0.08
22 32 0.67
23 10 0.21
24 2 0.04
ACGTcount: A:0.26, C:0.27, G:0.01, T:0.45
Consensus pattern (22 bp):
TCTCTCAAATTTCCTCTCAATT
Found at i:27585830 original size:11 final size:11
Alignment explanation
Indices: 27585754--27585830 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
27585744 AAACTAATCC
27585754 TCTCTCAAATTT
1 TCTCTCAAA-TT
27585766 TCTCTC-AATT
1 TCTCTCAAATT
27585776 TCT-TCTAAATT
1 TCTCTC-AAATT
27585787 TCCTCTC-AATT
1 T-CTCTCAAATT
27585798 TGCTCTCAAATT
1 T-CTCTCAAATT
*
27585810 CCT-TCAAAATT
1 TCTCTC-AAATT
27585821 TCTCTCAAAT
1 TCTCTCAAAT
27585831 CCATATTTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
9 2 0.04
10 7 0.13
11 30 0.55
12 14 0.25
13 2 0.04
ACGTcount: A:0.26, C:0.27, G:0.01, T:0.45
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:27585857 original size:51 final size:50
Alignment explanation
Indices: 27585792--27585888 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 50
27585782 AAATTTCCTC
27585792 TCAATTTGCTCTCAAATTCCT-TCAAAATTTCTCTCAAATCCATATTTATTT
1 TCAATTTGCTCTCAAATTCCTCT-AAAA-TTCTCTCAAATCCATATTTATTT
* * * *
27585843 TCAATTTGCTCTCAAGTTCCTCTTAAATTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCCTCTAAAATTCTCTCAAATCCATATTT
27585889 TTAAATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
50 17 0.41
51 23 0.56
52 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.03, T:0.45
Consensus pattern (50 bp):
TCAATTTGCTCTCAAATTCCTCTAAAATTCTCTCAAATCCATATTTATTT
Found at i:27587047 original size:7 final size:7
Alignment explanation
Indices: 27587035--27587060 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27587025 TAGTCGATTG
27587035 GTATTTA
1 GTATTTA
27587042 GTATTTA
1 GTATTTA
27587049 GTATTTA
1 GTATTTA
27587056 GTATT
1 GTATT
27587061 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:27587606 original size:18 final size:18
Alignment explanation
Indices: 27587563--27587606 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
27587553 ATGCCAGGTG
* *
27587563 TGTTTCCTAGCCCTTTTA
1 TGTTTCCTAACCCTTATA
* *
27587581 TATATCCTAACCCTTATA
1 TGTTTCCTAACCCTTATA
27587599 TGTTTCCT
1 TGTTTCCT
27587607 TTTTCGAGTC
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.27, G:0.07, T:0.48
Consensus pattern (18 bp):
TGTTTCCTAACCCTTATA
Found at i:27588186 original size:21 final size:21
Alignment explanation
Indices: 27588160--27588568 Score: 460
Period size: 21 Copynumber: 18.7 Consensus size: 21
27588150 ACAAACCTTA
*
27588160 AACCCTTAACCTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
*
27588181 AACCCTTAACTTAAAACCCCT
1 AACCCTTAACTTAAAAACCCT
*
27588202 AACCCCTAACCCCTTAACCTAAAAACCCT
1 AACCCTTAA---C-T----TAAAAACCCT
27588231 AACCCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
* *
27588252 AACCCTTAAATTAAAAACCAT
1 AACCCTTAACTTAAAAACCCT
* *
27588273 AAACCCTTAACCTAAAAACCAT
1 -AACCCTTAACTTAAAAACCCT
* *
27588295 AACCCATAACCTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
27588316 AGA-CCTTAACTTAAAAACCCT
1 A-ACCCTTAACTTAAAAACCCT
27588337 AAACCCTTAACTTAAAAACCCT
1 -AACCCTTAACTTAAAAACCCT
* *
27588359 AACCTTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
*
27588380 AAGCCCTTAACTTTAAAACCCT
1 AA-CCCTTAACTTAAAAACCCT
*
27588402 AAACCCTTAACTTAAAATCCCT
1 -AACCCTTAACTTAAAAACCCT
*
27588424 AACCCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCT
*
27588445 AAACCCTTAACCTAAAAACCCT
1 -AACCCTTAACTTAAAAACCCT
* * * *
27588467 AAACTTTAACCTGAAAACCCT
1 AACCCTTAACTTAAAAACCCT
*
27588488 AAACCCTTAACTTTAAAACCCT
1 -AACCCTTAACTTAAAAACCCT
* *
27588510 AGACCTTTAACTTTAAAACCCT
1 A-ACCCTTAACTTAAAAACCCT
27588532 AAACCCTTAACTTAAAAACCCT
1 -AACCCTTAACTTAAAAACCCT
27588554 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
27588569 TATAATTTAA
Statistics
Matches: 336, Mismatches: 34, Indels: 36
0.83 0.08 0.09
Matches are distributed among these distances:
21 167 0.50
22 145 0.43
23 3 0.01
24 1 0.00
25 2 0.01
26 1 0.00
29 17 0.05
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.23
Consensus pattern (21 bp):
AACCCTTAACTTAAAAACCCT
Found at i:27588215 original size:29 final size:29
Alignment explanation
Indices: 27588177--27588240 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
27588167 AACCTAAAAA
* *
27588177 CCCTAA-CCCTTAACTTAAAACCCCTAAC
1 CCCTAACCCCTTAACCTAAAAACCCTAAC
27588205 CCCTAACCCCTTAACCTAAAAACCCTAAC
1 CCCTAACCCCTTAACCTAAAAACCCTAAC
*
27588234 CCTTAAC
1 CCCTAAC
27588241 TTAAAAACCC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.20
Consensus pattern (29 bp):
CCCTAACCCCTTAACCTAAAAACCCTAAC
Found at i:27588230 original size:22 final size:21
Alignment explanation
Indices: 27588205--27588568 Score: 451
Period size: 22 Copynumber: 16.9 Consensus size: 21
27588195 AACCCCTAAC
*
27588205 CCCTAACCCCTTAACCTAAAAA
1 CCCTAA-CCCTTAACTTAAAAA
27588227 CCCTAACCCTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAA
*
27588248 CCCTAACCCTTAAATTAAAAA
1 CCCTAACCCTTAACTTAAAAA
* *
27588269 CCATAAACCCTTAACCTAAAAA
1 CCCT-AACCCTTAACTTAAAAA
* * *
27588291 CCATAACCCATAACCTAAAAA
1 CCCTAACCCTTAACTTAAAAA
27588312 CCCTAGA-CCTTAACTTAAAAA
1 CCCTA-ACCCTTAACTTAAAAA
27588333 CCCTAAACCCTTAACTTAAAAA
1 CCCT-AACCCTTAACTTAAAAA
* *
27588355 CCCTAACCTTTAAATTAAAAA
1 CCCTAACCCTTAACTTAAAAA
*
27588376 CCCTAAGCCCTTAACTTTAAAA
1 CCCTAA-CCCTTAACTTAAAAA
*
27588398 CCCTAAACCCTTAACTTAAAAT
1 CCCT-AACCCTTAACTTAAAAA
*
27588420 CCCTAACCCTTAAATTAAAAA
1 CCCTAACCCTTAACTTAAAAA
*
27588441 CCCTAAACCCTTAACCTAAAAA
1 CCCT-AACCCTTAACTTAAAAA
* * * *
27588463 CCCTAAACTTTAACCTGAAAA
1 CCCTAACCCTTAACTTAAAAA
*
27588484 CCCTAAACCCTTAACTTTAAAA
1 CCCT-AACCCTTAACTTAAAAA
* *
27588506 CCCTAGACCTTTAACTTTAAAA
1 CCCTA-ACCCTTAACTTAAAAA
27588528 CCCTAAACCCTTAACTTAAAAA
1 CCCT-AACCCTTAACTTAAAAA
27588550 CCCTAACCCTTAACTTAAA
1 CCCTAACCCTTAACTTAAA
27588569 TATAATTTAA
Statistics
Matches: 302, Mismatches: 30, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
21 148 0.49
22 151 0.50
23 3 0.01
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.24
Consensus pattern (21 bp):
CCCTAACCCTTAACTTAAAAA
Found at i:27588234 original size:50 final size:50
Alignment explanation
Indices: 27588162--27588256 Score: 181
Period size: 50 Copynumber: 1.9 Consensus size: 50
27588152 AAACCTTAAA
*
27588162 CCCTTAACCTAAAAACCCTAACCCTTAACTTAAAACCCCTAACCCCTAAC
1 CCCTTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCCTAAC
27588212 CCCTTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
1 CCCTTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCC
27588257 TTAAATTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (50 bp):
CCCTTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCCTAAC
Found at i:27588234 original size:64 final size:63
Alignment explanation
Indices: 27588159--27588538 Score: 222
Period size: 65 Copynumber: 5.8 Consensus size: 63
27588149 GACAAACCTT
* *
27588159 AAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAAACCCCTAACCCCTAACCCCTTAACCTAA
1 AAACCCATAACCTAAAAACCCTAACCCTTAACTT-AAA-----AA-CCCTAACCCC-TAACCCAA
*
27588224 AAACCC
58 AAACCA
* * * * * * *
27588230 TAACCCTTAACTTAAAAACCCTAACCCTTAAATTAAAAACCATAAACCCTTAACCTAAAAACCA
1 AAACCCATAACCTAAAAACCCTAACCCTTAACTTAAAAACCCT-AACCCCTAACCCAAAAACCA
* * ** *
27588294 TAACCCATAACCTAAAAACCCTAGA-CCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC
1 AAACCCATAACCTAAAAACCCTA-ACCCTTAACTTAAAAACCCT-AACCCCTAACCCAAAAACCA
* ** ** * * ** * *
27588358 TAACCTTTAAATTAAAAACCCTAAGCCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAATCCC
1 AAACCCATAACCTAAAAACCCTAA-CCCTTAACTTAAAAACCCT-AACCCCTAACCCAAAAACCA
* * ** * * ** * * *
27588423 TAACCCTTAAATTAAAAACCCTAAACCCTTAACCTAAAAACCCTAAACTTTAACCTGAAAACCCT
1 AAACCCATAACCTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCCCTAACC-CAAAAACCA
* * * * * *
27588488 AAACCCTTAACTTTAAAACCCTAGACCTTTAACTTTAAAACCCTAAACCCT
1 AAACCCATAACCTAAAAACCCTA-ACCCTTAACTTAAAAACCCTAACCCCT
27588539 TAACTTAAAA
Statistics
Matches: 267, Mismatches: 35, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
63 1 0.00
64 100 0.37
65 130 0.49
66 2 0.01
70 3 0.01
71 31 0.12
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.23
Consensus pattern (63 bp):
AAACCCATAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCCTAACCCAAAAACCA
Found at i:27588278 original size:43 final size:43
Alignment explanation
Indices: 27588205--27588568 Score: 482
Period size: 43 Copynumber: 8.4 Consensus size: 43
27588195 AACCCCTAAC
*
27588205 CCCTAACCCCTTAACCTAAAAACCCT-AACCCTTAACTTAAAAA
1 CCCTAA-CCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAA
* * *
27588248 CCCTAACCCTTAAATTAAAAACCATAAACCCTTAACCTAAAAA
1 CCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAA
* * * *
27588291 CCATAACCCATAACCTAAAAACCCTAGA-CCTTAACTTAAAAA
1 CCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAA
* *
27588333 CCCTAAACCCTTAACTTAAAAACCCT-AACCTTTAAATTAAAAA
1 CCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAA
* *
27588376 CCCTAAGCCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAT
1 CCCTAA-CCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAA
* *
27588420 CCCTAACCCTTAAATTAAAAACCCTAAACCCTTAACCTAAAAA
1 CCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAA
* * * * *
27588463 CCCTAAACTTTAACCTGAAAACCCTAAACCCTTAACTTTAAAA
1 CCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAA
* *
27588506 CCCTAGACCTTTAACTTTAAAACCCTAAACCCTTAACTTAAAAA
1 CCCTA-ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAA
27588550 CCCTAACCCTTAACTTAAA
1 CCCTAACCCTTAACTTAAA
27588569 TATAATTTAA
Statistics
Matches: 277, Mismatches: 38, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
42 35 0.13
43 183 0.66
44 59 0.21
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.24
Consensus pattern (43 bp):
CCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAA
Found at i:27588284 original size:50 final size:50
Alignment explanation
Indices: 27588167--27588284 Score: 139
Period size: 50 Copynumber: 2.4 Consensus size: 50
27588157 TTAAACCCTT
* * ***
27588167 AACCTAAAAACCCTAACCCTTAACTTAAAACCCCTAACCCCTAACCCCTT
1 AACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCCTAAACCAAA
* **
27588217 AACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAAATTAAA
1 AACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCCTAAACCAAA
*
27588267 AACC-ATAAACCCTTAACC
1 AACCTAAAAACCC-TAACC
27588285 TAAAAACCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 7 0.12
50 51 0.88
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.20
Consensus pattern (50 bp):
AACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCCTAAACCAAA
Found at i:27588305 original size:50 final size:48
Alignment explanation
Indices: 27588160--27588464 Score: 175
Period size: 43 Copynumber: 6.8 Consensus size: 48
27588150 ACAAACCTTA
* * *
27588160 AACCCTTAACCTAAAAACCCTAACCCTTAACTTAAAACCCCTAACCCCT
1 AACCCTTAACCTAAAAACCCTAACCCTTAACCTAAAAACCATAA-CCCT
*
27588209 AACCCCTTAACCTAAAAACCCTAACCCTTAA-CT--TAA--A-AACCCT
1 AA-CCCTTAACCTAAAAACCCTAACCCTTAACCTAAAAACCATAACCCT
** *
27588252 AACCCTTAAATTAAAAACCATAAACCCTTAACCTAAAAACCATAACCC-
1 AACCCTTAACCTAAAAACCCT-AACCCTTAACCTAAAAACCATAACCCT
* *
27588300 -A----TAACCTAAAAACCCTAGA-CCTTAACTTAAAAACCCT-A----
1 AACCCTTAACCTAAAAACCCTA-ACCCTTAACCTAAAAACCATAACCCT
* * **
27588338 AACCCTTAACTTAAAAACCCTAACCTTTAA---ATTAA--A-AACCCT
1 AACCCTTAACCTAAAAACCCTAACCCTTAACCTAAAAACCATAACCCT
* * *
27588380 AAGCCCTTAACTTTAAAACCCTAAACCCTTAA-CT-TAAA--AT--CCCT
1 AA-CCCTTAACCTAAAAACCCT-AACCCTTAACCTAAAAACCATAACCCT
**
27588424 AACCCTTAAATTAAAAACCCTAAACCCTTAACCTAAAAACC
1 AACCCTTAACCTAAAAACCCT-AACCCTTAACCTAAAAACC
27588465 CTAAACTTTA
Statistics
Matches: 203, Mismatches: 24, Indels: 60
0.71 0.08 0.21
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 3 0.01
41 1 0.00
42 36 0.18
43 93 0.46
44 20 0.10
45 7 0.03
46 2 0.01
47 2 0.01
48 1 0.00
49 8 0.04
50 28 0.14
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.22
Consensus pattern (48 bp):
AACCCTTAACCTAAAAACCCTAACCCTTAACCTAAAAACCATAACCCT
Found at i:27589973 original size:126 final size:125
Alignment explanation
Indices: 27589714--27590280 Score: 685
Period size: 126 Copynumber: 4.5 Consensus size: 125
27589704 CCAAACATGT
* *
27589714 TACTGTAGCAAAAGCGCGTCCATGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTACT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * * *
27589779 AGAAGCG-ATTTTATGCTATTTGCTCAGAAATGTCAAGTCGAAATTATTTTTCCAGGACC
66 TGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
* * * * *
27589838 AACTATAGCAAAAGCGCGTCCACGAGGGGGCGATTTCACAAATTCTTCTCA-AATAGCATGCTGC
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGC
* * ** * *
27589902 TTGCAGCATTGTTTTATACTATTTTTTCAGAAACGTCAACTCAAAATTACGTTTT-CAGGACC
65 TTGAAGCGTT-TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTA-TTTTTCCAGGACC
* * *
27589964 TACTGTAGCAAAAGGGCGTCCACGTGGGCACGACTTT-ACAAATTCTTCTTATAAAGCATCCTGC
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGA-TTTCACAAATTCTTCTCATAAAGCATCCTGC
* * *
27590028 TTGAAGCGTTTTTTA-AGCTATTTGCTCAAAAATGTCAACTCGAAATTATTTCTTCTAGGACC
65 TTGAAGCGTTTTTTATA-CTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGACC
* * * * * *
27590090 AACTGTAGTAAAAGCGCGTCCACGAGGGCACAATTTCACAAATTCTTCTCACAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* *
27590155 TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACC
66 TGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
* * * * * * * *
27590215 TATTGTAGCAAAAGCGCGTACACGTGGGTGCGACTTCAAAAATCCTTCTGATAAATCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
27590280 T
66 T
27590281 TGATTTTATC
Statistics
Matches: 372, Mismatches: 60, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
123 2 0.01
124 62 0.17
125 97 0.26
126 201 0.54
127 10 0.03
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (125 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
TGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
Found at i:27590214 original size:251 final size:250
Alignment explanation
Indices: 27589714--27590280 Score: 764
Period size: 251 Copynumber: 2.3 Consensus size: 250
27589704 CCAAACATGT
* *
27589714 TACTGTAGCAAAAGCGCGTCCATGTGGGCGCGA-TTTCACAAATTCTTCTCATAAAGCATCCTAC
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGACTTT-ACAAATTCTTCTCATAAAGCATCCTGC
* * * *
27589778 TAGAAGCGATTTTATGCTATTTGCTCAGAAATGTCAAGTCGAAATTATTTTTCCAGGACCAACTA
65 TTGAAGCGATTTTAAGCTATTTGCTCAAAAATGTCAACTCGAAATTATTTTTCCAGGACCAACTA
** * * *
27589843 TAGCAAAAGCGCGTCCACGAGGGGGCGATTTCACAAATTCTTCTCAAATAGCATGCTGCTTGCAG
130 TAGCAAAAGCGCGTCCACGAGGGCACAATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAG
* **
27589908 CATTGTTTTATACTATTTTTTCAGAAACGTCAACTCAAAATTACGTTTTCAGGACC
195 CATTGTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTACGTTTTCAGGACC
* * *
27589964 TACTGTAGCAAAAGGGCGTCCACGTGGGCACGACTTTACAAATTCTTCTTATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGACTTTACAAATTCTTCTCATAAAGCATCCTGCT
* *
27590029 TGAAGCGTTTTTTAAGCTATTTGCTCAAAAATGTCAACTCGAAATTATTTCTTCTAGGACCAACT
66 TGAAGCG-ATTTTAAGCTATTTGCTCAAAAATGTCAACTCGAAATTATTT-TTCCAGGACCAACT
* *
27590094 GTAGTAAAAGCGCGTCCACGAGGGCACAATTTCACAAATTCTTCTCACAA-AGCATCCTGCTTGA
129 ATAGCAAAAGCGCGTCCACGAGGGCACAATTTCACAAATTCTTCTCA-AATAGCATCCTGCTTGA
* * * *
27590158 AGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTA-TTTTTCCAGGACC
193 AGCATTGTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTACGTTTT-CAGGACC
* * * * * * * *
27590215 TATTGTAGCAAAAGCGCGTACACGTGGGTGCGACTTCAAAAATCCTTCTGATAAATCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGACTTTACAAATTCTTCTCATAAAGCATCCTGCT
27590280 T
66 T
27590281 TGATTTTATC
Statistics
Matches: 277, Mismatches: 35, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
250 66 0.24
251 137 0.49
252 72 0.26
253 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (250 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGACTTTACAAATTCTTCTCATAAAGCATCCTGCT
TGAAGCGATTTTAAGCTATTTGCTCAAAAATGTCAACTCGAAATTATTTTTCCAGGACCAACTAT
AGCAAAAGCGCGTCCACGAGGGCACAATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAGC
ATTGTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTACGTTTTCAGGACC
Found at i:27591237 original size:20 final size:19
Alignment explanation
Indices: 27591192--27591238 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
27591182 AAAAAATTTG
27591192 ATAATTTTTCATGATTTTT
1 ATAATTTTTCATGATTTTT
**
27591211 ATAAATTTTTACATTTTTTTT
1 AT-AATTTTT-CATGATTTTT
27591232 ATAATTT
1 ATAATTT
27591239 AATTTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 10 0.42
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (19 bp):
ATAATTTTTCATGATTTTT
Found at i:27591840 original size:32 final size:32
Alignment explanation
Indices: 27591798--27591861 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
27591788 AATTAAATTT
* * *
27591798 TTTTTTGTTTCAAACAAATAAAATGGGAGAGA
1 TTTTTGGTTTCAAACAAAAAAAATAGGAGAGA
27591830 TTTTTGGTTTCAAACAAAAAAAATAGGAGAGA
1 TTTTTGGTTTCAAACAAAAAAAATAGGAGAGA
27591862 AAAAAAGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (32 bp):
TTTTTGGTTTCAAACAAAAAAAATAGGAGAGA
Found at i:27598944 original size:22 final size:23
Alignment explanation
Indices: 27598912--27598974 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 23
27598902 AGCTTGGAGG
* *
27598912 AAGAGAAAATCAAG-TAACCACC
1 AAGAGAGAATCAAGAAAACCACC
*
27598934 TAGAGAGAATCAAGGAAAACCACC
1 AAGAGAGAATCAA-GAAAACCACC
27598958 AAGAGAGAATCAAGAAA
1 AAGAGAGAATCAAGAAA
27598975 TAGAAGAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 11 0.31
23 5 0.14
24 19 0.54
ACGTcount: A:0.56, C:0.17, G:0.19, T:0.08
Consensus pattern (23 bp):
AAGAGAGAATCAAGAAAACCACC
Found at i:27603491 original size:24 final size:24
Alignment explanation
Indices: 27603446--27603491 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
27603436 TTTAATTAAT
* *
27603446 CAATTTACTTAATTAATTAAAACC
1 CAATTTACTTAATGAATAAAAACC
27603470 CAATTTA-TTAATGACATAAAAA
1 CAATTTACTTAATGA-ATAAAAA
27603492 ATGAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.50, C:0.13, G:0.02, T:0.35
Consensus pattern (24 bp):
CAATTTACTTAATGAATAAAAACC
Found at i:27614365 original size:23 final size:24
Alignment explanation
Indices: 27614322--27614366 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
27614312 TTTAATTAAT
* *
27614322 CAATTTACTTAATTAATTAAAACC
1 CAATTTACTTAATGAAATAAAACC
27614346 CAATTTA-TTAATGAAATAAAA
1 CAATTTACTTAATGAAATAAAA
27614367 AAATGAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (24 bp):
CAATTTACTTAATGAAATAAAACC
Found at i:27614367 original size:24 final size:24
Alignment explanation
Indices: 27614322--27614367 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
27614312 TTTAATTAAT
* *
27614322 CAATTTACTTAATTAATTAAAACC
1 CAATTTACTTAATAAATAAAAACC
27614346 CAATTTA-TTAATGAAATAAAAA
1 CAATTTACTTAAT-AAATAAAAA
27614368 AATGAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (24 bp):
CAATTTACTTAATAAATAAAAACC
Found at i:27621919 original size:37 final size:38
Alignment explanation
Indices: 27621865--27621937 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
27621855 TTTTCATAAT
* * *
27621865 TTCACTTTTTCACTTTCAA-TCACTATTTAATTCAAAA
1 TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAAAA
*
27621902 TTCACTTTGTCATTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAA
27621938 TTCCGCACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.45
Consensus pattern (38 bp):
TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAAAA
Found at i:27622207 original size:51 final size:51
Alignment explanation
Indices: 27622142--27622328 Score: 175
Period size: 51 Copynumber: 3.7 Consensus size: 51
27622132 CCGGTTCACA
*
27622142 TAGTAGCCTACACATAGTACTACACATGTGACCATCA-CTATCCAATACAAG
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT-AGCTATCCAATACAAG
* * * * * *
27622193 TAGTAACCTGCACATAGTACTACACACCTGATCGA-AGCTATCCGATACGCA-
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATAGCTATCCAATAC-AAG
* * * * * * * *
27622244 TAGTAGTCTGCACATAGTACTACACATGTGACC-TATCTTTCTAGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATAGCTATCCAATACAAG
*
27622294 TAGTAGCCTACACATAGTACTAGACACGTGACCAT
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT
27622329 CACTTTCACT
Statistics
Matches: 107, Mismatches: 23, Indels: 12
0.75 0.16 0.08
Matches are distributed among these distances:
50 39 0.36
51 65 0.61
52 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATAGCTATCCAATACAAG
Found at i:27625489 original size:19 final size:19
Alignment explanation
Indices: 27625451--27625490 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
27625441 TCTTGATTCT
* **
27625451 AAAAATTAAAAATATTTAA
1 AAAAATAAAAAATACATAA
27625470 AAAAATAAAAAATACATAA
1 AAAAATAAAAAATACATAA
27625489 AA
1 AA
27625491 TTGAAAACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATAAAAAATACATAA
Found at i:27626468 original size:4 final size:4
Alignment explanation
Indices: 27626461--27626487 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
27626451 TAGGCTCACT
27626461 CACC CACC CACC CACC CACC CACC CAC
1 CACC CACC CACC CACC CACC CACC CAC
27626488 TTGCCTTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.74, G:0.00, T:0.00
Consensus pattern (4 bp):
CACC
Found at i:27647498 original size:16 final size:16
Alignment explanation
Indices: 27647477--27647508 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27647467 TTTGGTTCGC
27647477 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
27647493 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
27647509 CGTAATAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:27647583 original size:44 final size:45
Alignment explanation
Indices: 27647493--27647583 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
27647483 GGATTAGAGG
* *
27647493 TGTATTGGATTAGAGGCGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAATCAACTGTTTGGTTGAA
* ***
27647538 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAATCAACTGTTTGGTTGAA
27647582 TG
1 TG
27647584 GAATAGATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.30, C:0.07, G:0.29, T:0.35
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCAAATCAACTGTTTGGTTGAA
Found at i:27650087 original size:33 final size:33
Alignment explanation
Indices: 27650048--27650157 Score: 136
Period size: 33 Copynumber: 3.3 Consensus size: 33
27650038 ATTATAAAGC
27650048 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
27650081 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
27650114 AATGT-T-ATTTACCCTAAAA-AACATTGTTGGTGT
1 -ATGTATAATTGA-CCTAAAATTA-ATTGTTGGTGT
27650147 ATGTATAATTG
1 ATGTATAATTG
27650158 TTGGTTTAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
32 9 0.14
33 49 0.75
34 7 0.11
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:27650180 original size:51 final size:51
Alignment explanation
Indices: 27650104--27650206 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
27650094 CTAAAATTAC
27650104 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
27650155 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
27650206 T
1 T
27650207 CTTTTAATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:27656903 original size:81 final size:81
Alignment explanation
Indices: 27656768--27656930 Score: 245
Period size: 81 Copynumber: 2.0 Consensus size: 81
27656758 AACAGACAAT
* * * *
27656768 GTAACTTGCGGTTTTGCTCTCATGAAAGGTAGGCCATTTTAGAACTCTTTTGTGCAATAAAGTAG
1 GTAACTTGCAGTTTTGCTCTCATGAAAGGTAGGCCATTTGAGAAATCTTCTGTGCAATAAAGTAG
*
27656833 TTACCATTTTGCCAAG
66 ATACCATTTTGCCAAG
* * *
27656849 GTAACTTGCAGTTTTGCTTTCATTAGAGGTAGGCCATTTGAGAAATCTTCTGTGCAATAAAGTAG
1 GTAACTTGCAGTTTTGCTCTCATGAAAGGTAGGCCATTTGAGAAATCTTCTGTGCAATAAAGTAG
*
27656914 ATACCATTTTTCCAAG
66 ATACCATTTTGCCAAG
27656930 G
1 G
27656931 CATTATTAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (81 bp):
GTAACTTGCAGTTTTGCTCTCATGAAAGGTAGGCCATTTGAGAAATCTTCTGTGCAATAAAGTAG
ATACCATTTTGCCAAG
Found at i:27661147 original size:9 final size:9
Alignment explanation
Indices: 27661130--27661179 Score: 66
Period size: 9 Copynumber: 5.4 Consensus size: 9
27661120 ATATTAAAAC
27661130 GAGAGTTGA
1 GAGAGTTGA
27661139 GAG-GCTTGA
1 GAGAG-TTGA
27661148 GAGAGTTTGA
1 GAGAG-TTGA
*
27661158 GAGAATTGA
1 GAGAGTTGA
27661167 GAGAGTTGA
1 GAGAGTTGA
27661176 GAGA
1 GAGA
27661180 AGAATGCGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 1 0.03
9 26 0.72
10 9 0.25
ACGTcount: A:0.34, C:0.02, G:0.42, T:0.22
Consensus pattern (9 bp):
GAGAGTTGA
Found at i:27661159 original size:19 final size:18
Alignment explanation
Indices: 27661130--27661180 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 18
27661120 ATATTAAAAC
**
27661130 GAGAGTTGAGAGGCTTGA
1 GAGAGTTGAGAGAATTGA
27661148 GAGAGTTTGAGAGAATTGA
1 GAGAG-TTGAGAGAATTGA
27661167 GAGAGTTGAGAGAA
1 GAGAGTTGAGAGAA
27661181 GAATGCGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.35, C:0.02, G:0.41, T:0.22
Consensus pattern (18 bp):
GAGAGTTGAGAGAATTGA
Found at i:27661478 original size:19 final size:20
Alignment explanation
Indices: 27661446--27661483 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
27661436 ATCATGTAAT
27661446 ATTTTTAATAAAAATATATC
1 ATTTTTAATAAAAATATATC
*
27661466 ATTTTTTAT-AAAATATAT
1 ATTTTTAATAAAAATATAT
27661484 AAATTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTTTAATAAAAATATATC
Found at i:27662791 original size:42 final size:42
Alignment explanation
Indices: 27662682--27662792 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 42
27662672 AATTAGGATC
*** *
27662682 TTTAGCGACGCTTTTTCCACAAACGCCGCTATAGTTGAAGACC
1 TTTAGCGACGC-TTTTCCACAAACGCCGCTATAGAACAAGACA
*
27662725 TTTAGCGGCGCTTTTACCACAAACGCCGCTATAGAACAA-ACA
1 TTTAGCGACGCTTTT-CCACAAACGCCGCTATAGAACAAGACA
*
27662767 TTTAGCGACGCTTCTTCCAAAAACGC
1 TTTAGCGACGCTT-TTCCACAAACGC
27662793 AACTAAAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (42 bp):
TTTAGCGACGCTTTTCCACAAACGCCGCTATAGAACAAGACA
Done.