Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 29 of 235
Found at i:9211615 original size:48 final size:48
Alignment explanation
Indices: 9211557--9211732 Score: 343
Period size: 48 Copynumber: 3.7 Consensus size: 48
9211547 ATATACACAC
*
9211557 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
9211605 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
9211653 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
9211701 ATCTCATACATATTTCACACTAGCCATTCGGC
1 ATCTCATACATATTTCACACTAGCCATTCGGC
9211733 CTAGCCATTC
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 127 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:9211738 original size:13 final size:13
Alignment explanation
Indices: 9211720--9211745 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9211710 ATATTTCACA
9211720 CTAGCCATTCGGC
1 CTAGCCATTCGGC
9211733 CTAGCCATTCGGC
1 CTAGCCATTCGGC
9211746 TTTACCACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.23, T:0.23
Consensus pattern (13 bp):
CTAGCCATTCGGC
Found at i:9211744 original size:61 final size:63
Alignment explanation
Indices: 9211672--9211801 Score: 183
Period size: 69 Copynumber: 2.0 Consensus size: 63
9211662 ATATTTCACA
9211672 CTAGCCATTCGGC-T-TTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGC
1 CTAGCCATTCGGCTTATTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGC
*
9211733 CTAGCCATTCGGCTTTACCACATTACCACATATACATATCTCATACATATTTCACATTAGCCATT
1 CTAGCCATTCGGC-TT-----ATTACCACATATACATATCTCATACATATTTCACACTAGCCATT
9211798 CGGC
60 CGGC
9211802 TTTACCACAT
Statistics
Matches: 60, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
61 13 0.22
63 1 0.02
69 46 0.77
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (63 bp):
CTAGCCATTCGGCTTATTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGC
Found at i:9211810 original size:48 final size:48
Alignment explanation
Indices: 9211755--9211867 Score: 199
Period size: 48 Copynumber: 2.4 Consensus size: 48
9211745 CTTTACCACA
*
9211755 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCT
1 TTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCT
9211803 TTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCT
1 TTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCT
* *
9211851 TTACCACACATATATAT
1 TTACCACATATACATAT
9211868 ATTTATCTTG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (48 bp):
TTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCT
Found at i:9211844 original size:117 final size:117
Alignment explanation
Indices: 9211638--9211849 Score: 415
Period size: 117 Copynumber: 1.8 Consensus size: 117
9211628 CCATTCGGCT
9211638 TTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
1 TTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
9211703 CTCATACATATTTCACACTAGCCATTCGGCCTAGCCATTCGGCTTTACCACA
66 CTCATACATATTTCACACTAGCCATTCGGCCTAGCCATTCGGCTTTACCACA
*
9211755 TTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 TTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
9211820 CTCATACATATTTCACACTAGCCATTCGGC
66 CTCATACATATTTCACACTAGCCATTCGGC
9211850 TTTACCACAC
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 94 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.33
Consensus pattern (117 bp):
TTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
CTCATACATATTTCACACTAGCCATTCGGCCTAGCCATTCGGCTTTACCACA
Found at i:9219047 original size:29 final size:29
Alignment explanation
Indices: 9218989--9219087 Score: 128
Period size: 29 Copynumber: 3.4 Consensus size: 29
9218979 CTATATCTGA
* * *
9218989 CCCATTAAGCCC-AATCATATTTATATGG
1 CCCATTAGGCCCAAATCACATGTATATGG
* *
9219017 CCCATTAGGCCCAAATCACCTGTATAAGG
1 CCCATTAGGCCCAAATCACATGTATATGG
*
9219046 CCCATTAGGCCCAAATCACATTTATATGG
1 CCCATTAGGCCCAAATCACATGTATATGG
*
9219075 CCCGTTAGGCCCA
1 CCCATTAGGCCCA
9219088 GTCACATTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 11 0.18
29 50 0.82
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
CCCATTAGGCCCAAATCACATGTATATGG
Found at i:9219181 original size:17 final size:18
Alignment explanation
Indices: 9219159--9219204 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
9219149 TGCCTATTAT
9219159 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
9219176 GGGCCCATTTAGCCCATTC
1 GGGCCCATATAGCCCA-TC
*
9219195 TGGCCCATAT
1 GGGCCCATAT
9219205 GGCCAAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.29
18 7 0.29
19 10 0.42
ACGTcount: A:0.20, C:0.37, G:0.22, T:0.22
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:9219335 original size:16 final size:16
Alignment explanation
Indices: 9219311--9219345 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9219301 GTAGCCAAAC
* *
9219311 TTTCGGCTTTTTGGCA
1 TTTCAGCTTTTCGGCA
9219327 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
9219343 TTT
1 TTT
9219346 TGGCATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.20, G:0.20, T:0.51
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:9219341 original size:24 final size:24
Alignment explanation
Indices: 9219311--9219361 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
9219301 GTAGCCAAAC
*
9219311 TTTCGGCTTTTTGGCATTTCAGCT
1 TTTCGGCATTTTGGCATTTCAGCT
*
9219335 TTTCGGCATTTTGGCATTTCGGCT
1 TTTCGGCATTTTGGCATTTCAGCT
9219359 TTT
1 TTT
9219362 GTCGATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.08, C:0.20, G:0.22, T:0.51
Consensus pattern (24 bp):
TTTCGGCATTTTGGCATTTCAGCT
Found at i:9223576 original size:28 final size:29
Alignment explanation
Indices: 9223536--9223648 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 29
9223526 CATGTATCTA
* *
9223536 GCCCATTAAGCCC-AATCATATTCATATG
1 GCCCATTAGGCCCAAATCACATTCATATG
* *
9223564 GCCCATTTGGCCCAAATCACCTAT-ATATG
1 GCCCATTAGGCCCAAATCACAT-TCATATG
* *
9223593 GCACATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAATCACATTCATATG
* *
9223622 GCCCGTTAGGCCC-AGTCACATTCATAT
1 GCCCATTAGGCCCAAATCACATTCATAT
9223649 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 24 0.34
29 46 0.65
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.27
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATTCATATG
Found at i:9223883 original size:16 final size:16
Alignment explanation
Indices: 9223859--9223905 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
9223849 GTAGCCAAAC
* *
9223859 TTTCAGCTTTTTGGCA
1 TTTCGGCTTTTCGGCA
*
9223875 TTTCGGCTTTTCGGTA
1 TTTCGGCTTTTCGGCA
9223891 TTTCGG-TATTTCGGC
1 TTTCGGCT-TTTCGGC
9223906 TTTTGCCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 1 0.04
16 25 0.96
ACGTcount: A:0.09, C:0.19, G:0.23, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:9225176 original size:16 final size:16
Alignment explanation
Indices: 9225151--9225182 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9225141 AAGTTCGGGA
*
9225151 TTTCAGGATTTTTGGG
1 TTTCAAGATTTTTGGG
9225167 TTTCAAGATTTTTGGG
1 TTTCAAGATTTTTGGG
9225183 GCGTTACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.28, T:0.50
Consensus pattern (16 bp):
TTTCAAGATTTTTGGG
Found at i:9232364 original size:43 final size:42
Alignment explanation
Indices: 9232316--9232419 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 42
9232306 AGATATCGTG
*
9232316 TAAGACCATGTCTGGGACACCGACCTCG-AT-TGAGATTTAAGTA
1 TAAGACCATGTCTGGGACACCGACATCGTATCT--GATTTAA-TA
* ** *
9232359 TAAGACCATGCCTGGGACATTGACATCGTATCTGATTTCATA
1 TAAGACCATGTCTGGGACACCGACATCGTATCTGATTTAATA
*
9232401 TAAGACCTTGTCTGGGACA
1 TAAGACCATGTCTGGGACA
9232420 GAGGCGTCGA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 19 0.37
43 30 0.58
44 2 0.04
45 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACACCGACATCGTATCTGATTTAATA
Found at i:9242615 original size:39 final size:40
Alignment explanation
Indices: 9242570--9242740 Score: 204
Period size: 39 Copynumber: 4.3 Consensus size: 40
9242560 GCTCCTCGTT
* * *
9242570 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* *
9242610 C-AATGCCTTCGGGACATAACCTGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
9242649 CGAATGCCTTCGGG-CTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
9242688 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
9242728 CAAATGCCTTCGG
1 CAAATGCCTTCGG
9242741 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 67 0.58
40 45 0.39
41 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:9242709 original size:79 final size:79
Alignment explanation
Indices: 9242570--9242740 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 79
9242560 GCTCCTCGTT
* * * *
9242570 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCTGG-
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
9242634 ATTTAATAACTCGCA
66 ATTT-ATAACTCGCA
* * * * * *
9242649 CGAATGCCTTCGGG-CTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG
* *
9242713 AATTTGTATCTCGCA
65 AATTTATAACTCGCA
9242728 CAAATGCCTTCGG
1 CAAATGCCTTCGG
9242741 ATCTTAGTCC
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 21 0.27
79 52 0.68
80 4 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
ATTTATAACTCGCA
Found at i:9242802 original size:41 final size:41
Alignment explanation
Indices: 9242725--9242802 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
9242715 TTTGTATCTC
* * *
9242725 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
9242766 GCACAAA-GCCTTCGAGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTCG-GATCTTAGCCCGGACA-CATTCA
9242803 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 18 0.56
41 14 0.44
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:9250562 original size:39 final size:40
Alignment explanation
Indices: 9250517--9250688 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
9250507 GCTCCTCGTT
* * *
9250517 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
9250557 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
9250596 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
9250636 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
9250676 CAAATGCCTTCGG
1 CAAATGCCTTCGG
9250689 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:9250617 original size:40 final size:39
Alignment explanation
Indices: 9250519--9250741 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
9250509 TCCTCGTTCA
* * * *
9250519 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
9250558 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
9250597 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
9250637 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
9250677 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
9250718 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
9250742 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:9250701 original size:80 final size:79
Alignment explanation
Indices: 9250517--9250741 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
9250507 GCTCCTCGTT
* * * * *
9250517 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
9250581 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
9250596 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
9250661 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
9250676 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
9250740 GA
63 GA
9250742 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:9250750 original size:41 final size:41
Alignment explanation
Indices: 9250673--9250750 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
9250663 TTTGTATCTC
* * *
9250673 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
9250714 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
9250751 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:9251167 original size:47 final size:47
Alignment explanation
Indices: 9251113--9251212 Score: 200
Period size: 47 Copynumber: 2.1 Consensus size: 47
9251103 TGCAAAAATC
9251113 ATGCATCAACACAACATATTAGCTAATTTCTTTCCCCTTGGCCGAAT
1 ATGCATCAACACAACATATTAGCTAATTTCTTTCCCCTTGGCCGAAT
9251160 ATGCATCAACACAACATATTAGCTAATTTCTTTCCCCTTGGCCGAAT
1 ATGCATCAACACAACATATTAGCTAATTTCTTTCCCCTTGGCCGAAT
9251207 ATGCAT
1 ATGCAT
9251213 GTCTATTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (47 bp):
ATGCATCAACACAACATATTAGCTAATTTCTTTCCCCTTGGCCGAAT
Found at i:9253231 original size:27 final size:27
Alignment explanation
Indices: 9253169--9253246 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
9253159 TGGCATATTC
9253169 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
9253196 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
9253223 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
9253247 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:9253435 original size:54 final size:54
Alignment explanation
Indices: 9253377--9253516 Score: 190
Period size: 54 Copynumber: 2.6 Consensus size: 54
9253367 TGTAAATCAG
9253377 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * * * * *
9253431 GGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* ** *
9253485 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
9253517 AAACAGTAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:9253436 original size:110 final size:108
Alignment explanation
Indices: 9253267--9253465 Score: 256
Period size: 110 Copynumber: 1.8 Consensus size: 108
9253257 CATCTTACAA
* *** *
9253267 GGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-
1 GGGTATTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTT-TG
* *
9253331 ATAATTTTTAGAAAGTCAAGGGTATTTCTATAACTTTGTAAATCAG
65 ATAA-TTTTACAAACT-AAGGGTATTTCTATAACTTTGTAAATCAG
* * * * *
9253377 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGA
1 GGGTATTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTTGA
9253442 TAATTTTACAAACTAAGGGTATTT
66 TAATTTTACAAACTAAGGGTATTT
9253466 TGGTAATTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
108 10 0.13
109 10 0.13
110 56 0.74
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (108 bp):
GGGTATTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTTGA
TAATTTTACAAACTAAGGGTATTTCTATAACTTTGTAAATCAG
Found at i:9253514 original size:27 final size:27
Alignment explanation
Indices: 9253292--9253570 Score: 172
Period size: 27 Copynumber: 10.3 Consensus size: 27
9253282 TCTACAAACT
* * *
9253292 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTATAAATC
* *
9253319 AATGGTATTTCTA-TAATTTTTAGAAAGTC
1 AAGGGTATTT-TAGTAA-TTTTATAAA-TC
* *
9253348 AAGGGTATTTCTA-TAACTTTGTAAATC
1 AAGGGTATTT-TAGTAATTTTATAAATC
* * * *
9253375 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTATAAATC
* ** * * *
9253402 GAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTTAGTAATTTTATAAATC
*
9253429 AAGGGTATTTT-GATAATTTTACAAA-C
1 AAGGGTATTTTAG-TAATTTTATAAATC
* *
9253455 TAAGGGTATTTTGGTAATTTTACAAA-C
1 -AAGGGTATTTTAGTAATTTTATAAATC
*
9253482 TAAGGGTATTTTAGTAATTTTGTAAATC
1 -AAGGGTATTTTAGTAATTTTATAAATC
* **** * *
9253510 GAGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTATAAATC
*** *
9253537 AAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTATAAATC
9253564 AAGGGTA
1 AAGGGTA
9253571 AAACTGTAAT
Statistics
Matches: 208, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.01
27 173 0.83
28 16 0.08
29 16 0.08
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTATAAATC
Found at i:9253515 original size:81 final size:80
Alignment explanation
Indices: 9253264--9253516 Score: 217
Period size: 81 Copynumber: 3.1 Consensus size: 80
9253254 TTTCATCTTA
* * * * ** ** * *
9253264 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
9253329 CTA-TAATTTTTAGAAAGT
66 -TAGTAATTTTT--AAA-T
* * * *
9253347 CAAGGGTATTTCT-ATAACTTTGTA-AATC-AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
1 CAAGGGTATTT-TGATAA-TTT-TACAAACTAAGGGTATTTTGGTAATTTTACAAACTAAGGGTA
** ** *
9253409 TTTCGGTAATTTCACAAAC
63 TTTTAGTAATTT-TTAAAT
9253428 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
1 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
9253493 TAGTAATTTTGTAAAT
66 TAGTAATTTT-TAAAT
*
9253509 CGAGGGTA
1 CAAGGGTA
9253517 AAACAGTAAT
Statistics
Matches: 132, Mismatches: 29, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
79 2 0.02
80 7 0.05
81 66 0.50
82 3 0.02
83 47 0.36
84 5 0.04
85 2 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (80 bp):
CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
TAGTAATTTTTAAAT
Found at i:9253571 original size:27 final size:27
Alignment explanation
Indices: 9253494--9253753 Score: 281
Period size: 27 Copynumber: 9.6 Consensus size: 27
9253484 AGGGTATTTT
*
9253494 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
9253521 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
9253548 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
9253575 TGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
9253602 GGTAATTCTATAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
9253629 -GATAATTATGTAAAT-TAGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
9253656 GGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * ** *
9253683 AATAATTTTAAAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
9253710 GGTAATTCTATAAATCGATGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
9253737 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
9253754 GGAGTACTTT
Statistics
Matches: 198, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.01
27 195 0.98
28 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:9253755 original size:81 final size:81
Alignment explanation
Indices: 9253495--9253753 Score: 329
Period size: 81 Copynumber: 3.2 Consensus size: 81
9253485 GGGTATTTTA
* * * **
9253495 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
*
9253560 AATCAAGGGTAAAACT
66 AATCAAGGGTAAAACG
* * * * *
9253576 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAGTCGAGGGTAAAACGATAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
* *
9253641 AATTAGGGGTAAAACG
66 AATCAAGGGTAAAACG
* * * * * *
9253657 GTAATTATGTAAATCGGGGGTAAAACAATAATTTTAAAAATTGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
* *
9253722 AATCGATGGTAAAACG
66 AATCAAGGGTAAAACG
9253738 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
9253754 GGAGTACTTT
Statistics
Matches: 149, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 149 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
AATCAAGGGTAAAACG
Found at i:9258167 original size:20 final size:20
Alignment explanation
Indices: 9258124--9258167 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
9258114 GGAAGCCATG
* *
9258124 TGTGAATTTAAAATGCCATG
1 TGTGAATTTAAAATGACATA
9258144 TGTGAATTTAAAATGTAC-TA
1 TGTGAATTTAAAATG-ACATA
9258164 TGTG
1 TGTG
9258168 GTAGCAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTGAATTTAAAATGACATA
Found at i:9258167 original size:22 final size:20
Alignment explanation
Indices: 9258118--9258158 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
9258108 TGAATTGGAA
9258118 GCCATGTGTGAATTTAAAAT
1 GCCATGTGTGAATTTAAAAT
9258138 GCCATGTGTGAATTTAAAAT
1 GCCATGTGTGAATTTAAAAT
9258158 G
1 G
9258159 TACTATGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (20 bp):
GCCATGTGTGAATTTAAAAT
Found at i:9259446 original size:40 final size:41
Alignment explanation
Indices: 9259402--9259527 Score: 107
Period size: 40 Copynumber: 3.0 Consensus size: 41
9259392 GTGCGTTTCA
*
9259402 AAATAGCTTCGGCTATAAAT-A-GCACTAAGTGTG-AAAATTG
1 AAATAGCTTCGGCTAT--ATGAGGCACTAAGTGTGCAAAATCG
* * *
9259442 AAATAGATTCGGCTATATGAGGCACTAAGTGTGCGATATCG
1 AAATAGCTTCGGCTATATGAGGCACTAAGTGTGCAAAATCG
* * *
9259483 AAATAGCTTCAG-TTTATTGAGATGGCACTAAGTGTGCAAGATCG
1 AAATAGCTTCGGCTATA-T--GA-GGCACTAAGTGTGCAAAATCG
9259527 A
1 A
9259528 TTTGGCTTTG
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
38 2 0.03
39 1 0.01
40 30 0.43
41 15 0.21
43 2 0.03
44 20 0.29
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (41 bp):
AAATAGCTTCGGCTATATGAGGCACTAAGTGTGCAAAATCG
Found at i:9263317 original size:9 final size:9
Alignment explanation
Indices: 9263305--9263336 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
9263295 AATTTAACAT
9263305 TTTTTTTAC
1 TTTTTTTAC
9263314 -TTTTTTAC
1 TTTTTTTAC
9263322 TTTTTTTAC
1 TTTTTTTAC
9263331 TTTTTT
1 TTTTTT
9263337 ACCCTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:9263319 original size:8 final size:8
Alignment explanation
Indices: 9263306--9263338 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
9263296 ATTTAACATT
9263306 TTTTTTAC
1 TTTTTTAC
9263314 TTTTTTAC
1 TTTTTTAC
9263322 TTTTTTTAC
1 -TTTTTTAC
9263331 TTTTTTAC
1 TTTTTTAC
9263339 CCTTTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTAC
Found at i:9263325 original size:17 final size:17
Alignment explanation
Indices: 9263305--9263338 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9263295 AATTTAACAT
9263305 TTTTTTTACTTTTTTAC
1 TTTTTTTACTTTTTTAC
9263322 TTTTTTTACTTTTTTAC
1 TTTTTTTACTTTTTTAC
9263339 CCTTTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTTACTTTTTTAC
Found at i:9263344 original size:17 final size:17
Alignment explanation
Indices: 9263307--9263344 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9263297 TTTAACATTT
**
9263307 TTTTTACTTTTTTACTT
1 TTTTTACTTTTTTACCC
9263324 TTTTTACTTTTTTACCC
1 TTTTTACTTTTTTACCC
9263341 TTTT
1 TTTT
9263345 ATTAACATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTACTTTTTTACCC
Found at i:9265885 original size:28 final size:27
Alignment explanation
Indices: 9265819--9265885 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
9265809 TACATCTAAT
* *
9265819 ACTGATTCTG-TATTGGGCTTAGGCCC
1 ACTGATTCTGTTATTGGGCTAAGGCCA
*
9265845 ACTTGATTTTGTTATTGGGCTAAGGTCCA
1 AC-TGATTCTGTTATTGGGCTAAGG-CCA
*
9265874 ACTGATACTGTT
1 ACTGATTCTGTT
9265886 TCTATGATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 2 0.06
27 7 0.21
28 20 0.61
29 4 0.12
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (27 bp):
ACTGATTCTGTTATTGGGCTAAGGCCA
Found at i:9266858 original size:14 final size:14
Alignment explanation
Indices: 9266839--9266877 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
9266829 TTGTTTCACA
9266839 GAAAATGACTTT-TG
1 GAAAATGA-TTTCTG
9266853 GAAAATGATTTCTG
1 GAAAATGATTTCTG
9266867 GAAAATGATTT
1 GAAAATGATTT
9266878 ACTTTTCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 3 0.12
14 21 0.88
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (14 bp):
GAAAATGATTTCTG
Found at i:9267356 original size:15 final size:15
Alignment explanation
Indices: 9267336--9267387 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
9267326 ACTACAAAAC
9267336 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
9267351 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
9267370 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
9267385 ATT
1 ATT
9267388 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:9267507 original size:22 final size:22
Alignment explanation
Indices: 9267467--9267522 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
9267457 AATAAATTTG
*
9267467 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
9267487 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
9267509 TATTAATAATTTAT
1 AAATAATAAATTAT
9267523 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:9273043 original size:28 final size:28
Alignment explanation
Indices: 9272980--9273105 Score: 173
Period size: 28 Copynumber: 4.5 Consensus size: 28
9272970 ATATTAAGTC
*
9272980 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
9273007 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
9273035 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
9273063 CGCACACTTAGTGCTGTACAATTTAACCC
1 CGCACACTTAGTGCTATATAA-TCAAACT
9273092 CGCACACTTAGTGC
1 CGCACACTTAGTGC
9273106 CAATCTCATG
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 21 0.24
28 50 0.56
29 18 0.20
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:9278821 original size:29 final size:29
Alignment explanation
Indices: 9278784--9278843 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
9278774 ACTAATTAAA
9278784 TTAATTAACCTAAAATA-ACCTAATGGAAT
1 TTAATTAACCTAAAATATA-CTAATGGAAT
*
9278813 TTAATTAACCTAAGATATACTAATGGAAT
1 TTAATTAACCTAAAATATACTAATGGAAT
9278842 TT
1 TT
9278844 CATATTCCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (29 bp):
TTAATTAACCTAAAATATACTAATGGAAT
Found at i:9287721 original size:25 final size:25
Alignment explanation
Indices: 9287673--9287725 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
9287663 CTGTACATGT
*
9287673 ATGCTCACACAAGCTGTGAATCAGA
1 ATGCTCACACAAGCTATGAATCAGA
* **
9287698 ATGCTCACACGAGCTATGGGTCAGA
1 ATGCTCACACAAGCTATGAATCAGA
9287723 ATG
1 ATG
9287726 TAGCTACACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (25 bp):
ATGCTCACACAAGCTATGAATCAGA
Found at i:9289248 original size:17 final size:16
Alignment explanation
Indices: 9289221--9289252 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
9289211 ATAAATCACT
9289221 TATATAAAAACATTTC
1 TATATAAAAACATTTC
9289237 TATATCAAAAACATTT
1 TATAT-AAAAACATTT
9289253 TTAAAACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (16 bp):
TATATAAAAACATTTC
Found at i:9293404 original size:27 final size:27
Alignment explanation
Indices: 9292446--9293402 Score: 1725
Period size: 27 Copynumber: 35.4 Consensus size: 27
9292436 AGCGACCATC
* *
9292446 AACAGTCATTTTACCTCATGAAGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
* * * * * *
9292473 AATAGTCATTGTACCACATAAGTGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
* * * * * *
9292500 AATAATCATTTTACCACATCAAGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
*
9292527 AACAGTCATTTTACCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
* *
9292554 AACGGTCATTTTACCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292581 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
*
9292608 AACAGTCATTTTACCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292635 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292662 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292689 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292716 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292743 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292770 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292797 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292824 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292851 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292878 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292905 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292932 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292959 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9292986 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9293013 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9293040 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9293067 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9293094 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9293121 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9293148 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9293175 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9293202 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9293229 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9293256 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9293283 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9293310 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
9293337 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
* *
9293364 AACAGTCATTTTACCTCATGAGGGTAA
1 AACAGTCATTTTGCCTCATGAGGGCAA
*
9293391 AATAGTCATTTT
1 AACAGTCATTTT
9293403 ACATTACAGG
Statistics
Matches: 906, Mismatches: 24, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 906 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (27 bp):
AACAGTCATTTTGCCTCATGAGGGCAA
Found at i:9293452 original size:27 final size:26
Alignment explanation
Indices: 9293422--9293561 Score: 192
Period size: 27 Copynumber: 5.2 Consensus size: 26
9293412 GGGTATAACA
9293422 GTCATTTTACCCTATGGGGTTATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
*
9293449 GTCATTTTACCCTATGAGGGTA-TTCA
1 GTCATTTTACCCTATG-GGGTATTTCG
* *
9293475 ATCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
9293502 GTCATTTTACCCTATAGGGGTCTTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
9293529 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
9293556 GTCATT
1 GTCATT
9293562 ATTTCGTCCC
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
26 22 0.22
27 76 0.75
28 3 0.03
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:9293453 original size:54 final size:51
Alignment explanation
Indices: 9293395--9293561 Score: 190
Period size: 54 Copynumber: 3.1 Consensus size: 51
9293385 GGGTAAAATA
** *
9293395 GTCATTTTACATTACAGGGGTATAACAGTCATTTTACCCTATGGGGTTATTTCG
1 GTCATTTTACCCTA-AGGGGTAT-TCAGTCATTTTACCCTATGGGG-TATTTCG
* * *
9293449 GTCATTTTACCCTATGAGGGTATTCAATCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTAAG-GGGTATTCAGTCATTTTACCCTAT-GGGGTATTTCG
* *
9293502 GTCATTTTACCCTATAGGGGTCTTTCGGTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTA-AGGGGT-ATTCAGTCATTTTACCCTAT-GGGGTATTTCG
9293556 GTCATT
1 GTCATT
9293562 ATTTCGTCCC
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
53 41 0.42
54 56 0.58
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (51 bp):
GTCATTTTACCCTAAGGGGTATTCAGTCATTTTACCCTATGGGGTATTTCG
Found at i:9293491 original size:53 final size:53
Alignment explanation
Indices: 9293423--9293561 Score: 192
Period size: 53 Copynumber: 2.6 Consensus size: 53
9293413 GGTATAACAG
9293423 TCATTTTACCCTATGGGGTTATTTCGGTCATTTTACCCTAT-GAGGGT-ATTCAA
1 TCATTTTACCCTATGGGG-TATTTCGGTCATTTTACCCTATAG-GGGTCATTCAA
* * **
9293476 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTCTTTCGG
1 TCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATAGGGGTCATTCAA
9293530 TCATTTTACCCTATAGGGGTATTTCGGTCATT
1 TCATTTTACCCTAT-GGGGTATTTCGGTCATT
9293562 ATTTCGTCCC
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
53 39 0.51
54 38 0.49
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (53 bp):
TCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATAGGGGTCATTCAA
Found at i:9293803 original size:27 final size:27
Alignment explanation
Indices: 9293762--9293865 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 27
9293752 AGCTTTGAAG
**
9293762 TTACCCTAT-GAGGGTATTTCAATCATT
1 TTACCCTATAG-GGGTATTTCGGTCATT
* * **
9293789 TTACCCTATGGGGGTATTTTGGTTTTT
1 TTACCCTATAGGGGTATTTCGGTCATT
*
9293816 TTACCCTATAGGGGTCTTTCGGTCATT
1 TTACCCTATAGGGGTATTTCGGTCATT
9293843 TTACCCTATAGGGGTATTTCGGT
1 TTACCCTATAGGGGTATTTCGGT
9293866 TATTATTTCG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 64 0.98
28 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
TTACCCTATAGGGGTATTTCGGTCATT
Found at i:9293844 original size:54 final size:54
Alignment explanation
Indices: 9293762--9293866 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 54
9293752 AGCTTTGAAG
* *
9293762 TTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGGGGTATTTTGGTTTTT
1 TTACCCTATGAGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTTTTT
* **
9293816 TTACCCTAT-AGGGGTCTTTCGGTCATTTTACCCTATAGGGGTATTTCGGTT
1 TTACCCTATGA-GGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTT
9293867 ATTATTTCGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
53 1 0.02
54 44 0.98
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (54 bp):
TTACCCTATGAGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTTTTT
Found at i:9294029 original size:308 final size:307
Alignment explanation
Indices: 9293455--9294072 Score: 1164
Period size: 308 Copynumber: 2.0 Consensus size: 307
9293445 TTCGGTCATT
9293455 TTACCCTATGAGGGTATTCAATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGG
1 TTACCCTATGAGGGTATTCAATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGG
9293520 GGTCTTTCGGTCATTTTACCCTATAGGGGTATTTCGGTCATTATTTCGTCCCAACATGGCCCAAA
66 GGTCTTTCGGTCATTTTACCCTATAGGGGTATTTCGGTCATTATTTCGTCCCAACATGGCCCAAA
*
9293585 ACGGCCTAAGCCCATGAGATCAGCCATGATGGCCTCTCGTAATCCAGTACCCACGTTTTATGCGT
131 ACGGCCTAAGCCCATGAGATCAGCCATGATGGCCTCTCGTAATCCAGTACCCACATTTTATGCGT
9293650 TTAGGGTTACCACACGAGCGATTGCACGCCCATGTGGCATCAACGATCCTATTTTATAAGTTTTG
196 TTAGGGTTACCACACGAGCGATTGCACGCCCATGTGGCATCAACGATCCTATTTTATAAGTTTTG
9293715 CCGATTTACGGTTAAGACAGTGATTACACACCTGACGAGCTTTGAAG
261 CCGATTTACGGTTAAGACAGTGATTACACACCTGACGAGCTTTGAAG
**
9293762 TTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGGGGTATTTTGGTTTTTTTACCCTATAG
1 TTACCCTATGAGGGTA-TTCAATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAG
*
9293827 GGGTCTTTCGGTCATTTTACCCTATAGGGGTATTTCGGTTATTATTTCGTCCCAACATGGCCCAA
65 GGGTCTTTCGGTCATTTTACCCTATAGGGGTATTTCGGTCATTATTTCGTCCCAACATGGCCCAA
9293892 AACGGCCTAAGCCCATGAGATCAGCCATGATGGCCTCTCGTAATCCAGTACCCACATTTTATGCG
130 AACGGCCTAAGCCCATGAGATCAGCCATGATGGCCTCTCGTAATCCAGTACCCACATTTTATGCG
* * *
9293957 TTTAGGGTTACCACACGAGTGATTGCACGCCCATGTGGCATCAACGATCCTATTTTCTGAGTTTT
195 TTTAGGGTTACCACACGAGCGATTGCACGCCCATGTGGCATCAACGATCCTATTTTATAAGTTTT
9294022 GCCGATTTACGGTTAAGACAGTGATTACACACCTGACGAGCTTTGAAG
260 GCCGATTTACGGTTAAGACAGTGATTACACACCTGACGAGCTTTGAAG
9294070 TTA
1 TTA
9294073 ACCGTGCTCT
Statistics
Matches: 303, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
307 16 0.05
308 287 0.95
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (307 bp):
TTACCCTATGAGGGTATTCAATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGG
GGTCTTTCGGTCATTTTACCCTATAGGGGTATTTCGGTCATTATTTCGTCCCAACATGGCCCAAA
ACGGCCTAAGCCCATGAGATCAGCCATGATGGCCTCTCGTAATCCAGTACCCACATTTTATGCGT
TTAGGGTTACCACACGAGCGATTGCACGCCCATGTGGCATCAACGATCCTATTTTATAAGTTTTG
CCGATTTACGGTTAAGACAGTGATTACACACCTGACGAGCTTTGAAG
Found at i:9303127 original size:24 final size:24
Alignment explanation
Indices: 9303068--9303308 Score: 405
Period size: 24 Copynumber: 10.0 Consensus size: 24
9303058 GGAGGAAGTG
9303068 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
9303092 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
9303117 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
9303141 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
9303165 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
9303189 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
9303213 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
9303237 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
9303261 TAAAAGGGCTT-TACCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
9303284 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
9303309 ATGATAAAGC
Statistics
Matches: 206, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
23 17 0.08
24 159 0.77
25 30 0.15
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:9303541 original size:31 final size:30
Alignment explanation
Indices: 9303502--9303565 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 30
9303492 CGTTTACAGT
9303502 AAAAGCTTCGGCCCAGTAATATGAAATATG
1 AAAAGCTTCGGCCCAGTAATATGAAATATG
**
9303532 AAAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAA-GCTTCGGCCCAGTAATATGAAATATG
9303563 AAA
1 AAA
9303566 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (30 bp):
AAAAGCTTCGGCCCAGTAATATGAAATATG
Found at i:9311249 original size:20 final size:20
Alignment explanation
Indices: 9311183--9311249 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
9311173 ATTTTGATAA
*
9311183 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* * *
9311203 ATATGACATGTATGATAGGC
1 ACATGATATGTATGATATGC
9311223 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
9311243 ACATGAT
1 ACATGAT
9311250 GTATTCGTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:9311357 original size:24 final size:24
Alignment explanation
Indices: 9311298--9311514 Score: 375
Period size: 24 Copynumber: 9.0 Consensus size: 24
9311288 GGAGGAAGTG
9311298 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
9311322 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
9311347 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
9311371 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
9311395 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
9311419 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
9311443 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
9311467 TAAAAGGGCTTAT-CCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
9311490 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
9311515 ATGATAAAGC
Statistics
Matches: 186, Mismatches: 3, Indels: 7
0.95 0.02 0.04
Matches are distributed among these distances:
23 18 0.10
24 137 0.74
25 31 0.17
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:9311743 original size:31 final size:31
Alignment explanation
Indices: 9311708--9311771 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
9311698 CATTTACAGT
* *
9311708 AAAGGCTTCGGCCCAGTAATATTAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
**
9311739 AAAGGCTTCGGCCCAATGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
9311770 AA
1 AA
9311772 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:9315768 original size:54 final size:53
Alignment explanation
Indices: 9315693--9315877 Score: 154
Period size: 54 Copynumber: 3.4 Consensus size: 53
9315683 TTACCCTCGA
* * * * *
9315693 TTGTGAAATTACTGAAATACCCTTGTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCGAAATACCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* ** * * *
9315747 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAATACCACTGGT
1 TTGTAAAATTACCGAAATA-CCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* * ** * *
9315801 TTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCGAAATACCCT-AGTAGGTAAAATTACCAAAATACCACTAGT
*** *
9315855 TTACCAAATTACAGAAATACCCT
1 TTGTAAAATTACCGAAATACCCT
9315878 TGACTTTCTA
Statistics
Matches: 105, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
53 4 0.04
54 94 0.90
55 7 0.07
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (53 bp):
TTGTAAAATTACCGAAATACCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:9315866 original size:27 final size:27
Alignment explanation
Indices: 9315726--9315852 Score: 175
Period size: 27 Copynumber: 4.7 Consensus size: 27
9315716 TGTAGGATAG
9315726 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
9315753 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
9315780 AATTATCGAAATACCACTGGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
9315807 AATTATCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
9315834 AATTACCAAAATACCCCTA
1 AATTACCAAAATACCCCTA
9315853 ATTTACCAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.03
27 82 0.92
28 4 0.04
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:9316057 original size:27 final size:27
Alignment explanation
Indices: 9315980--9316057 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
9315970 AAATGACTAA
* *
9315980 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
9316007 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
9316034 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
9316058 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:9316904 original size:25 final size:25
Alignment explanation
Indices: 9316864--9316932 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
9316854 GGGGGAAGTG
* *
9316864 CAAAAATGGCTATGCCCCAATTTAC
1 CAAAAAGGGCTTTGCCCCAATTTAC
* * * *
9316889 CGAAAAGGGCTTTGCCGCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAATTTAC
*
9316914 CAAAAAGGGATTTGCCCCA
1 CAAAAAGGGCTTTGCCCCA
9316933 GTTATTAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAATTTAC
Found at i:9317202 original size:32 final size:32
Alignment explanation
Indices: 9317166--9317228 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
9317156 ATGCTTCAGT
9317166 CAGTGATATGATTTATGAAAAGGCTTCGGCCC
1 CAGTGATATGATTTATGAAAAGGCTTCGGCCC
*
9317198 CAGTGATATGATTTATGAAAAGGCTTTGGCC
1 CAGTGATATGATTTATGAAAAGGCTTCGGCC
9317229 GAGTATATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (32 bp):
CAGTGATATGATTTATGAAAAGGCTTCGGCCC
Found at i:9319605 original size:27 final size:27
Alignment explanation
Indices: 9319575--9319662 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
9319565 ATTACCAAAG
* * * *
9319575 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCAATTTACAAAATTACCATTT
*
9319602 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCAATTTACAAAATTACCATTT
*
9319629 TACCCTCAGTTTACAAAATTACCATTT
1 TACCCTCAATTTACAAAATTACCATTT
9319656 TACCCTC
1 TACCCTC
9319663 GATTGTGAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.39
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCATTT
Found at i:9319607 original size:54 final size:53
Alignment explanation
Indices: 9319548--9319676 Score: 143
Period size: 54 Copynumber: 2.4 Consensus size: 53
9319538 ATTACAGAAA
* * * *
9319548 TACCCTCGACTTGTAAAATTACCAAAGTACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGA-TTGTAAAATTACCAAAGTACCCTCAATTTACAAAATTACCATTT
*** *
9319602 TACCCTCGATT-TACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCATTT
1 TACCCTCGATTGT--AAAATTACCAAAGTACCCTCAATTTACAAAATTACCATTT
*
9319656 TACCCTCGATTGTGAAATTAC
1 TACCCTCGATTGTAAAATTAC
9319677 TGAAATACCC
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
52 1 0.02
53 9 0.14
54 52 0.83
55 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.36
Consensus pattern (53 bp):
TACCCTCGATTGTAAAATTACCAAAGTACCCTCAATTTACAAAATTACCATTT
Found at i:9319688 original size:27 final size:26
Alignment explanation
Indices: 9319658--9319848 Score: 136
Period size: 27 Copynumber: 7.1 Consensus size: 26
9319648 TACCATTTTA
* **
9319658 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* *
9319685 CCCTG-TAGGATAGAATTACCAAAATAC
1 CCCTGAT-TG-TAAAATTACCAAAATAC
*
9319712 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* * *
9319739 CCCTAGTTTTTAAAATTATCAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* * * *
9319766 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCT-GATTGTAAAATTACCAAAATAC
*
9319792 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTAAAATTACCAAAATAC
*
9319820 CCCTGATT-TACAAAATTACAAAAATAC
1 CCCTGATTGT--AAAATTACCAAAATAC
9319847 CC
1 CC
9319849 TTTACTTTAT
Statistics
Matches: 133, Mismatches: 23, Indels: 16
0.77 0.13 0.09
Matches are distributed among these distances:
25 2 0.02
26 7 0.05
27 117 0.88
28 6 0.05
29 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (26 bp):
CCCTGATTGTAAAATTACCAAAATAC
Found at i:9319739 original size:54 final size:51
Alignment explanation
Indices: 9319665--9319848 Score: 154
Period size: 54 Copynumber: 3.4 Consensus size: 51
9319655 TTACCCTCGA
* ** * *
9319665 TTGTGAAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTGT-TG-TAAAATTACCAAAATACCCCT-GT
* * *
9319719 TTGTAAAATTACCAAAATACCCCTAGTTTTTAAAATTATCAAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCT-G-TTGTAAAATTACCAAAATACCCCT-GT
* *
9319773 TTGTGAAATTACCGAAATACCCTCAAT-TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCC-C--TGTTGTAAAATTACCAAAATACCCCTG-T
** *
9319827 TTACAAAATTACAAAAATACCC
1 TTGTAAAATTACCAAAATACCC
9319849 TTTACTTTAT
Statistics
Matches: 105, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
53 1 0.01
54 100 0.95
55 2 0.02
56 1 0.01
57 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (51 bp):
TTGTAAAATTACCAAAATACCCCTGTTGTAAAATTACCAAAATACCCCTGT
Found at i:9319835 original size:81 final size:81
Alignment explanation
Indices: 9319698--9319847 Score: 216
Period size: 81 Copynumber: 1.9 Consensus size: 81
9319688 TGTAGGATAG
* **
9319698 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTTTAAAATTATC-AAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTA-CAAAA
9319762 ATACCACTGGTTTGTGA
65 ATACCACTGGTTTGTGA
*
9319779 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTACAAA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACAAA
9319842 AATACC
64 AATACC
9319848 CTTTACTTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
80 6 0.10
81 56 0.90
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAAAAA
TACCACTGGTTTGTGA
Found at i:9319849 original size:54 final size:54
Alignment explanation
Indices: 9319698--9319905 Score: 170
Period size: 54 Copynumber: 3.8 Consensus size: 54
9319688 TGTAGGATAG
* ** * *
9319698 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTTTAA
1 AATTACCAAAATACCACTGA-TTTACAAAATTACCAAAATACCCTC-AATTTATAA
* * *** * *
9319752 AATTATCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCACTGATTTACAAAATTACCAAAATACCCTCAATTTATAA
* * * *
9319806 AATTACCAAAATACCCCTGATTTACAAAATTACAAAAATACCCTTTACTTTATAAA
1 AATTACCAAAATACCACTGATTTACAAAATTACCAAAATACCC-TCAATTTAT-AA
* * * *
9319862 AATTA-TAGAAATACCATTGGTTTACAAAATTACTAAAATACCCT
1 AATTACCA-AAATACCACTGATTTACAAAATTACCAAAATACCCT
9319906 TGGTTTGTAG
Statistics
Matches: 126, Mismatches: 23, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
54 79 0.63
55 9 0.07
56 38 0.30
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCACTGATTTACAAAATTACCAAAATACCCTCAATTTATAA
Found at i:9319900 original size:27 final size:27
Alignment explanation
Indices: 9319698--9319911 Score: 110
Period size: 27 Copynumber: 7.9 Consensus size: 27
9319688 TGTAGGATAG
* * * **
9319698 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTACAA
* * * **
9319725 AATTACCAAAATACCCCTAGTTTTTAA
1 AATTACTAAAATACCCTTGGTTTACAA
***
9319752 AATTA-TCAAAATACCAC-TGGTTTGTGA
1 AATTACT-AAAATACC-CTTGGTTTACAA
** *** **
9319779 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACTAAAATACCCTTGGTTTACAA
* * *
9319806 AATTACCAAAATACCCCTGATTTACAA
1 AATTACTAAAATACCCTTGGTTTACAA
* ** *
9319833 AATTACAAAAATACCCTTTACTTTATAAA
1 AATTACTAAAATACCC-TTGGTTTA-CAA
*
9319862 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACTA-AAATACCCTTGGTTTACAA
9319889 AATTACTAAAATACCCTTGGTTT
1 AATTACTAAAATACCCTTGGTTT
9319912 GTAGATTTAC
Statistics
Matches: 151, Mismatches: 28, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
26 1 0.01
27 121 0.80
28 15 0.10
29 14 0.09
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGGTTTACAA
Found at i:9320040 original size:27 final size:28
Alignment explanation
Indices: 9319965--9320041 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 28
9319955 ACCCCTAATA
*
9319965 GGTAAAAAGACCGTAA-AGCCCTTGTAG
1 GGTAAAATGACCGTAATAGCCCTTGTAG
* *
9319992 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAATAGCCCTTGTAG
9320019 GGTAAAATGA-CG-AATATGCCCTT
1 GGTAAAATGACCGTAATA-GCCCTT
9320042 ATGTTCCGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
25 4 0.09
26 2 0.05
27 36 0.84
28 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (28 bp):
GGTAAAATGACCGTAATAGCCCTTGTAG
Found at i:9320876 original size:25 final size:25
Alignment explanation
Indices: 9320836--9320907 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
9320826 GGAAGAAGTG
* *
9320836 CAAAAAGGGCTATGCCCTAGTTTA-
1 CAAAAAGGGCTTTGCCCCAGTTTAT
*
9320860 CTGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAAGGGCTTTGCCCCAGTTTAT
9320886 CAAAAAGGGCTTTGCCCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTT
9320908 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 1 0.02
25 40 0.95
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAT
Found at i:9320920 original size:24 final size:24
Alignment explanation
Indices: 9320863--9320934 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
9320853 TAGTTTACTG
9320863 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
9320887 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
9320911 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
9320935 ATGATAAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:9320931 original size:50 final size:50
Alignment explanation
Indices: 9320836--9320932 Score: 117
Period size: 50 Copynumber: 1.9 Consensus size: 50
9320826 GGAAGAAGTG
* **
9320836 CAAAAAGGGCTATGCCCTAGTTTACTGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTATGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTAT
* *
9320886 CAAAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 CAAAAAGGGCTATGCCCCAGTTTACTGAAAAG-GGCTAGGCC-CCAGTT
9320933 ATATGATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 6 0.15
49 10 0.25
50 24 0.60
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (50 bp):
CAAAAAGGGCTATGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTAT
Found at i:9321101 original size:31 final size:31
Alignment explanation
Indices: 9321055--9321132 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
9321045 CGCTTACAGT
*
9321055 AAAGGCTTCAG-CCAGTGATAAGATTTATGA
1 AAAGGCTTCGGCCCAGTGATAAGATTTATGA
* *
9321085 AAAGGGTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATAAGATTTATGA
*
9321116 AAAGGCTTTGGCCCAGT
1 AAAGGCTTCGGCCCAGT
9321133 ATATGTCGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 9 0.21
31 33 0.79
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATAAGATTTATGA
Found at i:9330824 original size:24 final size:24
Alignment explanation
Indices: 9330775--9330852 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
9330765 TCGGTAAGCT
* * * *
9330775 AGCTG-AAACAGTAAGCTCTAATG
1 AGCTGAAAATAGTAAGTTCTTACG
9330798 AGCTGAAAATAGTAAGTTCTTACG
1 AGCTGAAAATAGTAAGTTCTTACG
* * *
9330822 AGCTGATATATTGATAAGTTCATACG
1 AGCTGA-AAATAG-TAAGTTCTTACG
9330848 AGCTG
1 AGCTG
9330853 TGATGATTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 5 0.11
24 20 0.44
25 4 0.09
26 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (24 bp):
AGCTGAAAATAGTAAGTTCTTACG
Found at i:9332709 original size:36 final size:36
Alignment explanation
Indices: 9332657--9332726 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
9332647 AATTGAAGAT
* *
9332657 GTGCTAGTAAGGGTAGATAAATTTGTTTTTCCTAAC
1 GTGCTAGTAAGAGTAGATAAATTTATTTTTCCTAAC
9332693 GTGCTAGTAAGAGTAGATAAATTTATTTTTCCTA
1 GTGCTAGTAAGAGTAGATAAATTTATTTTTCCTA
9332727 TAGATTTCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (36 bp):
GTGCTAGTAAGAGTAGATAAATTTATTTTTCCTAAC
Found at i:9335007 original size:40 final size:40
Alignment explanation
Indices: 9334952--9335034 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
9334942 TGATGACATA
*
9334952 TTGGCTAAAAATGGCACATAGTGTGTGGTTCGGAATAGCT
1 TTGGCTAAAAATGGCACATAGTGTGCGGTTCGGAATAGCT
** * *
9334992 TTGGCTAAATTTGGCACTTAGTGTGCGGTTCGGTATAGCT
1 TTGGCTAAAAATGGCACATAGTGTGCGGTTCGGAATAGCT
9335032 TTG
1 TTG
9335035 ACATATTAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (40 bp):
TTGGCTAAAAATGGCACATAGTGTGCGGTTCGGAATAGCT
Found at i:9338691 original size:27 final size:27
Alignment explanation
Indices: 9338661--9338837 Score: 176
Period size: 27 Copynumber: 6.5 Consensus size: 27
9338651 TATTGAGTCT
* *
9338661 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAATCAACTC
* *
9338688 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAATCAACTC
*
9338715 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAATC-AACTC
** ** *
9338743 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAATCAACTC
* ***
9338770 GCACACTTAGTGC-ATCATATTCGTTTC
1 GCACACTTAGTGCTA-CATAATCAACTC
* * *
9338797 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAATCAACTC
9338824 GCACACTTAGTGCT
1 GCACACTTAGTGCT
9338838 GTACAATTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAATCAACTC
Found at i:9342824 original size:98 final size:98
Alignment explanation
Indices: 9342652--9343077 Score: 248
Period size: 98 Copynumber: 4.4 Consensus size: 98
9342642 TAAAATGCTT
* * * * *
9342652 ATGCCATGTCCCGGACATGGTCTTATACTGGCTCCCATACATCGGTGTCGATGCCATGTTCCAAA
1 ATGCCATGTCCCGAACATGGTCTTACACTGGCTCCCATACATCAGTGCCAATGCCATGTTCCAAA
*
9342717 CATGGTCTTACACTAGCTTACATGTCGAGGCCG
66 CATGATCTTACACTAGCTTACATGTCGAGGCCG
* * * * * **
9342750 ATGCCATGTCCCGAACATGGTGTTGCACTGGCTCTCATACATTAGTGCCAATTCCATG-TCCTTG
1 ATGCCATGTCCCGAACATGGTCTTACACTGGCTCCCATACATCAGTGCCAATGCCATGTTCC-AA
* * *
9342814 ACATGATCTTACACT-GAC--ACATATAACAATGCCG
65 ACATGATCTTACACTAG-CTTACATGT--CGAGGCCG
* * * * * * * *
9342848 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATA-TTGAG-GTCAATGCCATGTCCCAGA
1 ATGCCATGTCCCGAACATGGTCTTACACTGGCTCCCATACATCAGTGCCAATGCCATGTTCCAAA
* * * * ** * ** *
9342911 CATGGTCTTACATTGGCTCACATAACAATACCA
66 CATGATCTTACACTAGCTTACATGTCGAGGCCG
* * * ** * * * * *
9342944 ATGCCATGTTCCAAACATGGTCTTAAACTGGCTCTTTATAC-T-GGTGTCGATTCCAAG-TCTCA
1 ATGCCATGTCCCGAACATGGTCTTACACTGGCTC-CCATACATCAGTGCCAATGCCATGTTC-CA
** * *
9343006 AACATGGCCTTACGCT-GAC--ACATATCGAGGCCG
64 AACATGATCTTACACTAG-CTTACATGTCGAGGCCG
*
9343039 ATGCCATGTCCC-AGACATGGTCTTACACTGGCTCTCATA
1 ATGCCATGTCCCGA-ACATGGTCTTACACTGGCTCCCATA
9343078 TCGCCATGGT
Statistics
Matches: 262, Mismatches: 52, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
94 5 0.02
95 39 0.15
96 72 0.27
97 38 0.15
98 108 0.41
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (98 bp):
ATGCCATGTCCCGAACATGGTCTTACACTGGCTCCCATACATCAGTGCCAATGCCATGTTCCAAA
CATGATCTTACACTAGCTTACATGTCGAGGCCG
Found at i:9342866 original size:48 final size:48
Alignment explanation
Indices: 9342652--9342977 Score: 224
Period size: 48 Copynumber: 6.7 Consensus size: 48
9342642 TAAAATGCTT
* ** * * ** * *
9342652 ATGCCATGTCCCGGACATGGTCTTATACTGGCTCCCATACATCGGTGTCG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA-A-CAATGCCA
* * ** * * *
9342702 ATGCCATGTTCCAAACATGGTCTTACACTAGCTTACATGTCGAGGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATGCCA
* * * * *
9342750 ATGCCATGTCCCGAACATGGTGTTGCACTGGCTCTCAT-ACATTAGTGCCA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACA--A-TGCCA
* ** * * * * *
9342800 ATTCCATG-TCCTTGACATGATCTTACACTGACACATATAACAATGCCG
1 ATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATAACAATGCCA
* *** * *
9342848 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGTCA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATGCCA
* * * *
9342896 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAACAATACCA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATGCCA
*
9342944 ATGCCATGTTCCAAACATGGTCTTAAACTGGCTC
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTC
9342978 TTTATACTGG
Statistics
Matches: 207, Mismatches: 63, Indels: 14
0.73 0.22 0.05
Matches are distributed among these distances:
47 1 0.00
48 138 0.67
49 7 0.03
50 58 0.28
51 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATGCCA
Found at i:9344882 original size:26 final size:27
Alignment explanation
Indices: 9344839--9344897 Score: 93
Period size: 26 Copynumber: 2.2 Consensus size: 27
9344829 ACATATTTTC
* *
9344839 TCAAAATTATTACTAAGGGTAAAATGA
1 TCAAAATTATTACCAAGGGTAAAATCA
9344866 TCAAAATT-TTACCAAGGGTAAAATCA
1 TCAAAATTATTACCAAGGGTAAAATCA
9344892 TCAAAA
1 TCAAAA
9344898 GGCCGAGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (27 bp):
TCAAAATTATTACCAAGGGTAAAATCA
Found at i:9346736 original size:43 final size:43
Alignment explanation
Indices: 9346689--9346777 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
9346679 CTCGATGAGA
*
9346689 TTGTCCCACGATGACTCATTTGTGATGCATGATGTAATAGGTG
1 TTGTCCCACGATGACTCATTTGTGATGCATCATGTAATAGGTG
9346732 TTGTCCCACGATGACTCATTTGTGATGCATCATGTAATAGGTG
1 TTGTCCCACGATGACTCATTTGTGATGCATCATGTAATAGGTG
9346775 TTG
1 TTG
9346778 AGTTGATGGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (43 bp):
TTGTCCCACGATGACTCATTTGTGATGCATCATGTAATAGGTG
Found at i:9348370 original size:17 final size:18
Alignment explanation
Indices: 9348328--9348362 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9348318 ATTTGGCCAT
9348328 ATGGG-CCGAATGGGCTAA
1 ATGGGCCCG-ATGGGCTAA
9348346 ATGGGCCCGATGGGCTA
1 ATGGGCCCGATGGGCTA
9348363 TTGGGCCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.23, C:0.20, G:0.40, T:0.17
Consensus pattern (18 bp):
ATGGGCCCGATGGGCTAA
Found at i:9348484 original size:29 final size:29
Alignment explanation
Indices: 9348442--9348518 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
9348432 TGAATATGGC
* * *
9348442 TGGGCCTAACGGGCCATGTAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
* *
9348471 TGGGACTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
9348500 TGGGCCTAATGGGCCATAT
1 TGGGCCTAATGGGCCATAT
9348519 GAATATGATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:9348527 original size:29 final size:29
Alignment explanation
Indices: 9348429--9348532 Score: 97
Period size: 29 Copynumber: 3.7 Consensus size: 29
9348419 GTGAGCACAA
** *
9348429 ATATGAATATG-GCTGGGCCTAACGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
* * * *
9348457 ATGTAAATGTGATTTGGGACTAATGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
**
9348486 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATATGATTTGGGCCTAATGGGCC
9348515 ATATGAATATGA-TTGGGC
1 ATATGAATATGATTTGGGC
9348533 TTAGTGGACT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
28 15 0.25
29 45 0.74
30 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (29 bp):
ATATGAATATGATTTGGGCCTAATGGGCC
Found at i:9361956 original size:16 final size:16
Alignment explanation
Indices: 9361935--9361978 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
9361925 ATGTATCAGC
*
9361935 AAAAGCCAAAATACCG
1 AAAAGCCAAAAAACCG
*
9361951 AAAAGCTAAAAAACCG
1 AAAAGCCAAAAAACCG
*
9361967 AAATGCCAAAAA
1 AAAAGCCAAAAA
9361979 GCTAAAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.61, C:0.20, G:0.11, T:0.07
Consensus pattern (16 bp):
AAAAGCCAAAAAACCG
Found at i:9363742 original size:62 final size:62
Alignment explanation
Indices: 9363671--9363792 Score: 235
Period size: 62 Copynumber: 2.0 Consensus size: 62
9363661 TTCATTTCGA
9363671 TAATAACACACATAGGTATAACACAATTTACTCATCAGTCTGAACCTACTAGGTATAGGCGG
1 TAATAACACACATAGGTATAACACAATTTACTCATCAGTCTGAACCTACTAGGTATAGGCGG
*
9363733 TAATAACACACATAGGTATAACATAATTTACTCATCAGTCTGAACCTACTAGGTATAGGC
1 TAATAACACACATAGGTATAACACAATTTACTCATCAGTCTGAACCTACTAGGTATAGGC
9363793 TCGAACCCCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (62 bp):
TAATAACACACATAGGTATAACACAATTTACTCATCAGTCTGAACCTACTAGGTATAGGCGG
Found at i:9364338 original size:28 final size:28
Alignment explanation
Indices: 9364307--9364463 Score: 136
Period size: 28 Copynumber: 5.5 Consensus size: 28
9364297 CTGACTGATT
*
9364307 TCGCACACATAGCGCTCAATTAAAGAAC
1 TCGCACACATAGTGCTCAATTAAAGAAC
* *
9364335 TCGCACACATAGTGACTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCAATTA-AAGAAC
* *
9364364 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCAATTAAAGAAC
* ** *
9364392 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCAATTAAAGAAC
* * ** *
9364421 TGGCACACATAGTACTCGGTTGAAGAAC
1 TCGCACACATAGTGCTCAATTAAAGAAC
* *
9364449 TTGCACACACAGTGC
1 TCGCACACATAGTGC
9364464 CTCATAACTC
Statistics
Matches: 100, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
27 1 0.01
28 54 0.54
29 44 0.44
30 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCAATTAAAGAAC
Found at i:9364366 original size:29 final size:28
Alignment explanation
Indices: 9364307--9364433 Score: 116
Period size: 29 Copynumber: 4.5 Consensus size: 28
9364297 CTGACTGATT
* *
9364307 TCGCACACATAGCGCTCAATTA-AAGAAC
1 TCGCACACATAGTGCTCAATTACAA-ATC
*
9364335 TCGCACACATAGTGACTCAATTACCAATC
1 TCGCACACATAGTG-CTCAATTACAAATC
*
9364364 TCGCACACATAGTGCTCGATTGA-AGAA-C
1 TCGCACACATAGTGCTCAATT-ACA-AATC
* **
9364392 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCAATTACAAATC
*
9364421 TGGCACACATAGT
1 TCGCACACATAGT
9364434 ACTCGGTTGA
Statistics
Matches: 82, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
28 36 0.44
29 45 0.55
30 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCAATTACAAATC
Found at i:9364433 original size:57 final size:57
Alignment explanation
Indices: 9364279--9364467 Score: 220
Period size: 57 Copynumber: 3.3 Consensus size: 57
9364269 GAAACACACT
* * * * *
9364279 TCGCATACACAGTGCC-C-ACTGACTGATTTCGCACACATAGCGCTCAATTAAAGAAC
1 TCGCACACACAGTGCCTCAACT-ACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* * * **
9364335 TCGCACACATAGTGACTCAATTACCAATCTCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* * * *
9364392 TCGCACACATAGTGCCTCAACTACTGATCTGGCACACATAGTACTCGGTTGAAGAAC
1 TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
*
9364449 TTGCACACACAGTGCCTCA
1 TCGCACACACAGTGCCTCA
9364468 TAACTCCAGC
Statistics
Matches: 112, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
56 13 0.12
57 97 0.87
58 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (57 bp):
TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
Found at i:9364539 original size:40 final size:40
Alignment explanation
Indices: 9364495--9364786 Score: 512
Period size: 40 Copynumber: 7.3 Consensus size: 40
9364485 CCTTCGAGGT
*
9364495 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
9364535 TTAGCCCGGATACATTACTAGCATGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
9364575 ATAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
9364615 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
9364655 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
9364695 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
9364735 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
9364775 TTAGCCCGGATA
1 TTAGCCCGGATA
9364787 TATATAACTC
Statistics
Matches: 240, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 240 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:9364960 original size:43 final size:43
Alignment explanation
Indices: 9364899--9364984 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
9364889 CAACTTTCAG
*
9364899 TTCCATAGCCACATACAAAGATCACATTTATAGTCATAACACT
1 TTCCATAGCCACATACAAAAATCACATTTATAGTCATAACACT
9364942 TTCCATAGCCACATACAAAAATCACATTTATAGTCATAACACT
1 TTCCATAGCCACATACAAAAATCACATTTATAGTCATAACACT
9364985 CTTTCAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.28
Consensus pattern (43 bp):
TTCCATAGCCACATACAAAAATCACATTTATAGTCATAACACT
Found at i:9373432 original size:40 final size:40
Alignment explanation
Indices: 9373377--9373525 Score: 271
Period size: 40 Copynumber: 3.7 Consensus size: 40
9373367 TGAGCATTGG
9373377 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
9373417 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
* *
9373457 GATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
*
9373497 GATATGTCCGGGCTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
9373526 ATGTGTTTGC
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
Found at i:9376732 original size:10 final size:11
Alignment explanation
Indices: 9376717--9376745 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
9376707 AACTCAAAAT
9376717 TTTTTTTTGA-
1 TTTTTTTTGAC
9376727 TTTTTTTTGAC
1 TTTTTTTTGAC
9376738 TTTTTTTT
1 TTTTTTTT
9376746 ACATTACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGAC
Found at i:9392642 original size:27 final size:28
Alignment explanation
Indices: 9392558--9392655 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
9392548 CATGAGATTG
* * * *
9392558 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
9392587 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
9392615 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
9392642 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
9392656 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:9392666 original size:27 final size:27
Alignment explanation
Indices: 9392586--9392668 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
9392576 TAAATTGTAC
* *
9392586 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
9392614 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
9392641 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
9392668 A
1 A
9392669 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:9392669 original size:29 final size:27
Alignment explanation
Indices: 9392558--9392669 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
9392548 CATGAGATTG
** * *
9392558 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
9392587 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
9392615 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
9392642 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
9392670 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:9395702 original size:17 final size:17
Alignment explanation
Indices: 9395674--9395721 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
9395664 GGCCATTTCT
*
9395674 AGGCTATGTGGGCCATGC
1 AGGCT-TGTGGGCCATAC
*
9395692 GGGCTTGTGGGCCATAC
1 AGGCTTGTGGGCCATAC
9395709 AGGCTTGTGGGCC
1 AGGCTTGTGGGCC
9395722 CACATGGGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.12, C:0.23, G:0.42, T:0.23
Consensus pattern (17 bp):
AGGCTTGTGGGCCATAC
Found at i:9402718 original size:35 final size:35
Alignment explanation
Indices: 9402674--9402747 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
9402664 ATTCAACTAC
*
9402674 ATGTGATGTTTTATTGAACTTGTATATTCGGTC-AT
1 ATGTAATGTTTTATTGAACTTGTATATTCGG-CAAT
*
9402709 ATGTAATGTTTTATTGTACTTGTATATTCGGCAAT
1 ATGTAATGTTTTATTGAACTTGTATATTCGGCAAT
9402744 ATGT
1 ATGT
9402748 GATGATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 1 0.03
35 35 0.97
ACGTcount: A:0.24, C:0.08, G:0.19, T:0.49
Consensus pattern (35 bp):
ATGTAATGTTTTATTGAACTTGTATATTCGGCAAT
Found at i:9405500 original size:40 final size:39
Alignment explanation
Indices: 9405375--9405508 Score: 115
Period size: 35 Copynumber: 3.6 Consensus size: 39
9405365 GGTTTTCCTC
* * *
9405375 ATTGA-AATACCATACCTATATTTTACAACTCGGTAT--
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
* ** * **
9405411 A-GGA-AATGTCATACCTACGTTTCTTAACTCAGTATGG
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
9405448 ATTTGATAATACCATACCTACATTTCACAACTCAGTATGG
1 A-TTGATAATACCATACCTACATTTCACAACTCAGTATGG
9405488 A-TG---ATACCATACCTACATTTC
1 ATTGATAATACCATACCTACATTTC
9405509 TCACTTTTCT
Statistics
Matches: 78, Mismatches: 15, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
35 43 0.55
36 1 0.01
37 1 0.01
38 2 0.03
39 2 0.03
40 29 0.37
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.34
Consensus pattern (39 bp):
ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:9411607 original size:21 final size:21
Alignment explanation
Indices: 9411582--9411625 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
9411572 CGACACTAAT
9411582 CAATAATTGCAGCAGAGCTGC
1 CAATAATTGCAGCAGAGCTGC
* *
9411603 CAATAATTGTAGTAGAGCTGC
1 CAATAATTGCAGCAGAGCTGC
9411624 CA
1 CA
9411626 GTACAGTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (21 bp):
CAATAATTGCAGCAGAGCTGC
Found at i:9418985 original size:19 final size:19
Alignment explanation
Indices: 9418961--9419005 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
9418951 TGGGCTATTT
* * *
9418961 TGGGCCGAACCGGGCCATG
1 TGGGCCCAACCGAGACATG
*
9418980 TGGGCCCTACCGAGACATG
1 TGGGCCCAACCGAGACATG
9418999 TGGGCCC
1 TGGGCCC
9419006 CACTTGGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.16, C:0.33, G:0.38, T:0.13
Consensus pattern (19 bp):
TGGGCCCAACCGAGACATG
Found at i:9421405 original size:24 final size:24
Alignment explanation
Indices: 9421364--9421423 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
9421354 GAAAAGGTTG
* *
9421364 AAAAGGTTATCAACGAAAACATCA
1 AAAAGGATACCAACGAAAACATCA
* ** *
9421388 AAAAGGATACCAATGAAAAGGTTA
1 AAAAGGATACCAACGAAAACATCA
9421412 AAAAGGATACCA
1 AAAAGGATACCA
9421424 TTATATCAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.55, C:0.13, G:0.17, T:0.15
Consensus pattern (24 bp):
AAAAGGATACCAACGAAAACATCA
Found at i:9426412 original size:42 final size:42
Alignment explanation
Indices: 9426244--9426412 Score: 115
Period size: 42 Copynumber: 3.9 Consensus size: 42
9426234 TAAGATCCCG
*
9426244 TATAAGACCATATCTGGGATATGGCATCGGCAT-TAGTATAAGTTATCA
1 TATAAGACCATATCTGGGATATGGCATC-G-ATAT-G-AGAA--T-TCA
* * * * * *
9426292 TGTAAGACCATATCTAGGATATGTCGTTGATATGAGATTTCA
1 TATAAGACCATATCTGGGATATGGCATCGATATGAGAATTCA
* * * * * * * * *
9426334 TGTAAGGCCATGTTTGGGACATGGCGTCAAAATGAGAATTCG
1 TATAAGACCATATCTGGGATATGGCATCGATATGAGAATTCA
*
9426376 TATAAGACCATATCTGGGATATGGCATCGATGTGAGA
1 TATAAGACCATATCTGGGATATGGCATCGATATGAGA
9426413 TCCCATGTAA
Statistics
Matches: 93, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
42 62 0.67
43 1 0.01
45 2 0.02
46 3 0.03
47 2 0.02
48 23 0.25
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (42 bp):
TATAAGACCATATCTGGGATATGGCATCGATATGAGAATTCA
Found at i:9434699 original size:23 final size:23
Alignment explanation
Indices: 9434672--9434719 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
9434662 AAGATTGAAA
*
9434672 TTGTGTAAGTTATGCCTATAAAT
1 TTGTGTAAGTTATGCCAATAAAT
9434695 TTGTGTAAGTTATGCCAATAAAT
1 TTGTGTAAGTTATGCCAATAAAT
9434718 TT
1 TT
9434720 ATGATAACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (23 bp):
TTGTGTAAGTTATGCCAATAAAT
Found at i:9438281 original size:20 final size:20
Alignment explanation
Indices: 9438223--9438282 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
9438213 AGGCTACTTG
* *
9438223 GAAATTTTTGTAAATCCTTA
1 GAAATTTTGGTAAATTCTTA
** *
9438243 GGTATGTTGGTATAA-TCTTA
1 GAAATTTTGGTA-AATTCTTA
9438263 GAAATTTTGGTAAATTCTTA
1 GAAATTTTGGTAAATTCTTA
9438283 AGTTTTTTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.45
Consensus pattern (20 bp):
GAAATTTTGGTAAATTCTTA
Found at i:9438542 original size:28 final size:28
Alignment explanation
Indices: 9438511--9438572 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
9438501 CAAATCCTTA
9438511 GAAAATTTGGTAAA-TCATTAGAAATGTT
1 GAAAATTTGGTAAATTC-TTAGAAATGTT
* *
9438539 GAAATTTTGGTAAATTCTTAGAAATTTT
1 GAAAATTTGGTAAATTCTTAGAAATGTT
*
9438567 GTAAAT
1 GAAAAT
9438573 ACATGTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.40
Consensus pattern (28 bp):
GAAAATTTGGTAAATTCTTAGAAATGTT
Found at i:9438545 original size:48 final size:47
Alignment explanation
Indices: 9438444--9438572 Score: 143
Period size: 48 Copynumber: 2.7 Consensus size: 47
9438434 ATAACCATAT
*
9438444 AAATTTTGGCAAAGCCTTAGAAATTATGGTAAATCTATAAAAACATTG
1 AAATTTTGGCAAATCCTTAGAAATT-TGGTAAATCTATAAAAACATTG
* * * **
9438492 GAATTTTAGCAAATCCTTAGAAAATTTGGTAAATC-ATTAGAAATGTTG
1 AAATTTTGGCAAATCCTTAG-AAATTTGGTAAATCTA-TAAAAACATTG
* * *
9438540 AAATTTTGGTAAATTCTTAGAAATTTTGTAAAT
1 AAATTTTGGCAAATCCTTAGAAATTTGGTAAAT
9438573 ACATGTATAT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
47 13 0.19
48 50 0.74
49 5 0.07
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (47 bp):
AAATTTTGGCAAATCCTTAGAAATTTGGTAAATCTATAAAAACATTG
Found at i:9438744 original size:20 final size:20
Alignment explanation
Indices: 9438720--9438811 Score: 84
Period size: 20 Copynumber: 4.6 Consensus size: 20
9438710 AAATCCTTGG
9438720 AAATTTTGGTATAA-CCTAA
1 AAATTTTGGTATAATCCTAA
*
9438739 AGAATTTTGGTA-AATCTTTAA
1 A-AATTTTGGTATAATC-CTAA
* *
9438760 ATATTTTGGTATAA-CCTACT
1 AAATTTTGGTATAATCCTA-A
*
9438780 AAATTTTGGTA-AATCCTTAG
1 AAATTTTGGTATAATCC-TAA
9438800 AAATTTTGGTAT
1 AAATTTTGGTAT
9438812 GCCAAAATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
19 7 0.12
20 44 0.75
21 8 0.14
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (20 bp):
AAATTTTGGTATAATCCTAA
Found at i:9438751 original size:40 final size:40
Alignment explanation
Indices: 9438700--9438811 Score: 156
Period size: 40 Copynumber: 2.8 Consensus size: 40
9438690 AAACCCTTAG
* *
9438700 AAATATTGGTAAATCCTTGGAAATTTTGGTATAACCTA-A
1 AAATTTTGGTAAATCCTTAGAAATTTTGGTATAACCTACA
* *
9438739 AGAATTTTGGTAAATCTTTA-AATATTTTGGTATAACCTACT
1 A-AATTTTGGTAAATCCTTAGAA-ATTTTGGTATAACCTACA
9438780 AAATTTTGGTAAATCCTTAGAAATTTTGGTAT
1 AAATTTTGGTAAATCCTTAGAAATTTTGGTAT
9438812 GCCAAAATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
39 3 0.05
40 58 0.91
41 3 0.05
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (40 bp):
AAATTTTGGTAAATCCTTAGAAATTTTGGTATAACCTACA
Found at i:9438875 original size:20 final size:20
Alignment explanation
Indices: 9438850--9438914 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
9438840 GGCATTAAGA
*
9438850 AAATCTCTAGAAATATTGGT
1 AAATCTCTAGAAAAATTGGT
* * *
9438870 AAATCTTTAGAAACATCGGT
1 AAATCTCTAGAAAAATTGGT
9438890 AAAT-TCTTA-AAAAATTTGGT
1 AAATCTC-TAGAAAAA-TTGGT
9438910 AAATC
1 AAATC
9438915 CTTAGATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 5 0.14
20 31 0.86
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (20 bp):
AAATCTCTAGAAAAATTGGT
Found at i:9438918 original size:20 final size:21
Alignment explanation
Indices: 9438860--9438920 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
9438850 AAATCTCTAG
*
9438860 AAATATTGGTAAATCTTTAGAA
1 AAAT-TTGGTAAATCCTTAGAA
* * *
9438882 ACA-TCGGTAAATTCTTA-AA
1 AAATTTGGTAAATCCTTAGAA
9438901 AAATTTGGTAAATCCTTAGA
1 AAATTTGGTAAATCCTTAGA
9438921 TATTTTGATA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
19 4 0.13
20 23 0.77
21 1 0.03
22 2 0.07
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (21 bp):
AAATTTGGTAAATCCTTAGAA
Found at i:9438950 original size:33 final size:32
Alignment explanation
Indices: 9438906--9438972 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 32
9438896 TTAAAAAATT
9438906 TGGTAAATCCTTAGATATTTTGATATAACCTTA
1 TGGTAAATCCTTAGATATTTTGATA-AACCTTA
* * *
9438939 TGGTAATTCCTTGGTTATTTTGATAAACCTTA
1 TGGTAAATCCTTAGATATTTTGATAAACCTTA
9438971 TG
1 TG
9438973 TTGGTAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 9 0.29
33 22 0.71
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (32 bp):
TGGTAAATCCTTAGATATTTTGATAAACCTTA
Found at i:9448629 original size:48 final size:49
Alignment explanation
Indices: 9448547--9448677 Score: 156
Period size: 49 Copynumber: 2.7 Consensus size: 49
9448537 GTGGCCCGCT
* * * *
9448547 AACCTAGTTAACAACTTACATGTCCTACCAGTGGCCCGT-ATACACGCC
1 AACCTAGTTAGCAACTAACATGCCCTACCAGTGGCCCATCATACACGCC
* * * * *
9448595 AATCTGGTTAGCAACTAACATGCCCTACTAGTGGCCCATCATATACTCC
1 AACCTAGTTAGCAACTAACATGCCCTACCAGTGGCCCATCATACACGCC
* *
9448644 CACCTAGTTAGCAACTAGCATGCCCTACCAGTGG
1 AACCTAGTTAGCAACTAACATGCCCTACCAGTGG
9448678 TTTAGCACAT
Statistics
Matches: 68, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
48 32 0.47
49 36 0.53
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (49 bp):
AACCTAGTTAGCAACTAACATGCCCTACCAGTGGCCCATCATACACGCC
Found at i:9454288 original size:49 final size:47
Alignment explanation
Indices: 9454174--9454297 Score: 124
Period size: 47 Copynumber: 2.6 Consensus size: 47
9454164 GGTATAATGT
* * ** * *
9454174 CGACGTCATGTCCCAGACATGATCTTACACTGGCTCATCCATCACGT
1 CGACGCCATGTCCCAGACATGGTCTTACACTAACTCATCAATCACGC
* ** *
9454221 CGATGCCATGTCTTAGACATGGTCTTACACTAACT-ATCAAAATCGAGGC
1 CGACGCCATGTCCCAGACATGGTCTTACACTAACTCATC--AATC-ACGC
9454270 CGACGCCATGTCCCAGACATGGTCTTAC
1 CGACGCCATGTCCCAGACATGGTCTTAC
9454298 CCTAGCTCTC
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
46 3 0.05
47 28 0.46
48 3 0.05
49 27 0.44
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (47 bp):
CGACGCCATGTCCCAGACATGGTCTTACACTAACTCATCAATCACGC
Found at i:9454381 original size:92 final size:91
Alignment explanation
Indices: 9454243--9454572 Score: 307
Period size: 90 Copynumber: 3.6 Consensus size: 91
9454233 TTAGACATGG
* * * * *
9454243 TCTTACACTAACTATCAAAATCGAGGCCGACGCCATGTCCCAGACATGGTCTTACCCTAGCTCTC
1 TCTTACACTAGCTCTCATAATCGAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTC
*
9454308 GTCTCACTGTCAATTGTCCCAAACATTT
64 GTCTCAATGTCAATTGTCCCAAACATTT
* * * *
9454336 TCTTACACTAGCTCTCATAAT-GTGGCCGATGCCATGTCCTAGACATGGTCTTACAGTGACACCT
1 TCTTACACTAGCTCTCATAATCGAGGCCGATG-CATGTCCCAGACAT-GTCTTACACT---AGCT
* * ** ** * *
9454400 CTTGTAGTTGATG-C-A-TGTCTTAGACA-TA
61 CTCGT-CTCAATGTCAATTGTCCCAAACATTT
* * * *
9454428 TCTTACACTAGCT-TACAT-CTCAAAGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCG
1 TCTTACACTAGCTCT-CATAATCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCG
9454491 TCTCAATGTCAATTGTCCCAAACATTT
65 TCTCAATGTCAATTGTCCCAAACATTT
* *
9454518 TCTTACACTAGCTCTCATAAT-GTGGCCGATGCATGGCCCAGACATGTCTTACACT
1 TCTTACACTAGCTCTCATAATCGAGGCCGATGCATGTCCCAGACATGTCTTACACT
9454573 GGCACACAAA
Statistics
Matches: 187, Mismatches: 38, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
86 4 0.02
87 8 0.04
88 1 0.01
89 8 0.04
90 55 0.29
91 18 0.10
92 55 0.29
93 26 0.14
94 1 0.01
95 8 0.04
96 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (91 bp):
TCTTACACTAGCTCTCATAATCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGT
CTCAATGTCAATTGTCCCAAACATTT
Found at i:9456068 original size:19 final size:20
Alignment explanation
Indices: 9456029--9456070 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
9456019 AGTGTTACAA
*
9456029 GTAAATCTTTAAAAATGTTG
1 GTAAATCATTAAAAATGTTG
9456049 GTAAATCATTAAAAAT-TTG
1 GTAAATCATTAAAAATGTTG
9456068 GTA
1 GTA
9456071 TGAATGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (20 bp):
GTAAATCATTAAAAATGTTG
Found at i:9456145 original size:20 final size:20
Alignment explanation
Indices: 9456120--9456243 Score: 74
Period size: 20 Copynumber: 6.2 Consensus size: 20
9456110 ACAATTTTAG
9456120 AAATTTTGATAAATCCTTAA
1 AAATTTTGATAAATCCTTAA
* * *
9456140 AAATTTTGGTAATTCCTTAG
1 AAATTTTGATAAATCCTTAA
*
9456160 ATATTTT-AGTATAA-CCTTAGA
1 AAATTTTGA-TA-AATCCTTA-A
* * * *
9456181 AATTTTTG-TAAAACTTTAG
1 AAATTTTGATAAATCCTTAA
* * *
9456200 AAATTTTAATAAATTCTTAG
1 AAATTTTGATAAATCCTTAA
* * *
9456220 ATATTCTGGTAAATCCTTAA
1 AAATTTTGATAAATCCTTAA
9456240 AAAT
1 AAAT
9456244 ATTGGTTTCG
Statistics
Matches: 75, Mismatches: 23, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
19 8 0.11
20 61 0.81
21 6 0.08
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (20 bp):
AAATTTTGATAAATCCTTAA
Found at i:9456160 original size:40 final size:39
Alignment explanation
Indices: 9456116--9456243 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 39
9456106 CAAAACAATT
* *
9456116 TTAGAAATTTTGATAAATCCTTAAAAATTTTGGTAATTCC
1 TTAGAAATTTT-ATAAATCCTTAGAAATTTTGGTAAATCC
* * * *
9456156 TTAGATATTTTAGTATAA-CCTTAGAAATTTTTGTAAAACT
1 TTAGAAATTTTA-TA-AATCCTTAGAAATTTTGGTAAATCC
* * *
9456196 TTAGAAATTTTAATAAATTCTTAGATATTCTGGTAAATCC
1 TTAGAAATTTT-ATAAATCCTTAGAAATTTTGGTAAATCC
*
9456236 TTAAAAAT
1 TTAGAAAT
9456244 ATTGGTTTCG
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
39 3 0.04
40 64 0.91
41 3 0.04
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (39 bp):
TTAGAAATTTTATAAATCCTTAGAAATTTTGGTAAATCC
Found at i:9456238 original size:60 final size:61
Alignment explanation
Indices: 9456116--9456243 Score: 138
Period size: 60 Copynumber: 2.1 Consensus size: 61
9456106 CAAAACAATT
* ** *
9456116 TTAGAAA-TTTTGATAAATCCTTAAAAATTTTGGTAATTCCTTAGATATTTTAGTATAACC
1 TTAGAAATTTTTGATAAAACCTTAAAAATTTTAATAATTCCTTAGATATTCTAGTATAACC
* * *
9456176 TTAGAAATTTTTG-TAAAACTTTAGAAATTTTAATAAATT-CTTAGATATTCTGGTA-AATCC
1 TTAGAAATTTTTGATAAAACCTTAAAAATTTTAAT-AATTCCTTAGATATTCTAGTATAA-CC
*
9456236 TTAAAAAT
1 TTAGAAAT
9456244 ATTGGTTTCG
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
59 2 0.04
60 46 0.81
61 9 0.16
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (61 bp):
TTAGAAATTTTTGATAAAACCTTAAAAATTTTAATAATTCCTTAGATATTCTAGTATAACC
Found at i:9456867 original size:16 final size:16
Alignment explanation
Indices: 9456848--9456881 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9456838 TTCATTAAAA
9456848 TAATAAATTATATTAT
1 TAATAAATTATATTAT
**
9456864 TAATTCATTATATTAT
1 TAATAAATTATATTAT
9456880 TA
1 TA
9456882 TATATAAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATAAATTATATTAT
Found at i:9456950 original size:21 final size:21
Alignment explanation
Indices: 9456917--9456959 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9456907 TTAATAATAT
*
9456917 TTAACATTGTAATATTTGATA
1 TTAAAATTGTAATATTTGATA
* *
9456938 TTAAAATTTTAATATTTTATA
1 TTAAAATTGTAATATTTGATA
9456959 T
1 T
9456960 ATTTTCAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (21 bp):
TTAAAATTGTAATATTTGATA
Done.