Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 201 of 378
Found at i:59301454 original size:17 final size:17
Alignment explanation
Indices: 59301432--59301465 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
59301422 GCAAGCTTAA
59301432 ATAAATATAAAAAAATT
1 ATAAATATAAAAAAATT
* *
59301449 ATAAATTTATAAAAATT
1 ATAAATATAAAAAAATT
59301466 TATTTCACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAATATAAAAAAATT
Found at i:59302455 original size:29 final size:29
Alignment explanation
Indices: 59302422--59302485 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
59302412 CCAAATTAAA
59302422 CACCCCACTAAACCGA-CCACTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* *
59302451 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
59302480 CACCCC
1 CACCCC
59302486 CACACCCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.31, C:0.52, G:0.02, T:0.16
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:59302498 original size:37 final size:37
Alignment explanation
Indices: 59302451--59302525 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
59302441 CTAACTCCAT
59302451 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
** *
59302488 CACCCTACTAAACTGTCCATTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
59302525 C
1 C
59302526 TACCTCCATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.28, C:0.52, G:0.01, T:0.19
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:59302993 original size:61 final size:60
Alignment explanation
Indices: 59302869--59302993 Score: 130
Period size: 61 Copynumber: 2.0 Consensus size: 60
59302859 TATTTTACTG
* * * *
59302869 TTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTGTTTTTTTTATTTTCTA
1 TTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATATTTCTTTTTTATATATTCTA
* *
59302930 TTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATTATCTATTTATTATATATT-TA
1 TTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATATT-TCT-TTT-TTATATATTCTA
59302991 TTA
1 TTA
59302994 TGTAAATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
59 15 0.28
60 6 0.11
61 26 0.48
62 7 0.13
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (60 bp):
TTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATATTTCTTTTTTATATATTCTA
Found at i:59303326 original size:18 final size:16
Alignment explanation
Indices: 59303282--59303328 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
59303272 TAGCACAATG
59303282 TTTATTACATTATTGTA
1 TTTATTA-ATTATTGTA
*
59303299 TTTATT-ATTATTGTTGT
1 TTTATTAATTATTG-T-A
59303316 TTTATTAATTATT
1 TTTATTAATTATT
59303329 TCTATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.27
16 1 0.04
17 12 0.46
18 6 0.23
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTATTAATTATTGTA
Found at i:59303701 original size:126 final size:125
Alignment explanation
Indices: 59303471--59303708 Score: 404
Period size: 126 Copynumber: 1.9 Consensus size: 125
59303461 ATCTTCTCTC
* * * *
59303471 AAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCTGCTCTAACGTAC
1 AAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCTGCCCTAAAGTAC
59303536 TGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCAAATATCCTCTTACCAGTTCATTCTA
66 TGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCAAATATCCTCTTACCAGTTCATTCTA
59303596 AAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTAAAGTA
1 AAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATC-TGCCCTAAAGTA
* * *
59303661 TTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
65 CTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCAAATATCCTCTTA
59303709 AGGCTAAAAC
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
125 50 0.48
126 55 0.52
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (125 bp):
AAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCTGCCCTAAAGTAC
TGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCAAATATCCTCTTACCAGTTCATTCTA
Found at i:59315193 original size:45 final size:45
Alignment explanation
Indices: 59314997--59315205 Score: 165
Period size: 45 Copynumber: 4.6 Consensus size: 45
59314987 TATCATCAGC
* *
59314997 CTTATCTTCACTGAGCAGGAATGGAGCAGGCTAAACATACCCGAT
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCCGAT
* * ** ***
59315042 CTTATCTTCACTAAGCAGGAGTGAAGCA-GATCAAATTTTGGCGAGT
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGGCT-AAACATACCCGA-T
* ** * * * * *
59315088 CTTATCTTCACTGAGTAGGAGTGAAGCAGATTTCAGC-CACCAG-C
1 CTTATCTTCACTGAGCAGGAGTGAAGCAG-GCTAAACATACCCGAT
* *
59315132 CTTATCTTCA-TGGAGCAGGAGTGGAGTAGGCTAAACATACCCGAT
1 CTTATCTTCACT-GAGCAGGAGTGAAGCAGGCTAAACATACCCGAT
* *
59315177 CTTTTCTTCACTGAGCAAGAGTGAAGCAG
1 CTTATCTTCACTGAGCAGGAGTGAAGCAG
59315206 ATCAAATTGT
Statistics
Matches: 120, Mismatches: 36, Indels: 16
0.70 0.21 0.09
Matches are distributed among these distances:
43 4 0.03
44 30 0.25
45 55 0.46
46 29 0.24
47 1 0.01
48 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (45 bp):
CTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCCGAT
Found at i:59315251 original size:135 final size:135
Alignment explanation
Indices: 59314988--59315475 Score: 556
Period size: 135 Copynumber: 3.6 Consensus size: 135
59314978 AAAGATAGAT
* * *
59314988 ATCATCAGCCTTATCTTCACTGAGCAGGAATGGAGCAGGCTAAACATACCCGATCTTATCTTCAC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
* * * *
59315053 TAAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTTCACTG-AGT-AG-GAGTGAAGC
66 TGAGCAAGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCA-TGTA-TCAGCGA-TGGAGC
59315115 AGATTTCA
128 AGATTTCA
** * * * * *
59315123 GCCACCAGCCTTATCTTCA-TGGAGCAGGAGTGGAGTAGGCTAAACATACCCGATCTTTTCTTCA
1 ATCATCAGCCTTATCTTCACT-GAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCA
* *
59315187 CTGAGCAAGAGTGAAGCAGATCAAATTGTGGCGAGTCTTATCTCCATGTATCAGCCATGGAGCAG
65 CTGAGCAAGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCATGTATCAGCGATGGAGCAG
59315252 A-TTCTA
130 ATTTC-A
* * * *
59315258 ATCATCAGCCTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAATATAGCAGATCTTATCTTCGC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
* * * * * * *
59315323 TGAGCAGGAGCGGAGCAGATCGAATTTTGGTGAATCTTATCTCCCTGTA-CTAGCGATGGAGCAG
66 TGAGCAAGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCATGTATC-AGCGATGGAGCAG
*
59315387 ATTCCA
130 ATTTCA
* * * * * *
59315393 ATCATCAGACTTATCTTCACTGAGCAAGAGTGAAGCAGGCTAAATATATCAGATCTTATCTCCGC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
* *
59315458 TGAACAAGAGTGGAGCAG
66 TGAGCAAGAGTGAAGCAG
59315476 GTCAGATACA
Statistics
Matches: 304, Mismatches: 41, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
134 8 0.03
135 292 0.96
136 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (135 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
TGAGCAAGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCATGTATCAGCGATGGAGCAGA
TTTCA
Found at i:59315340 original size:45 final size:46
Alignment explanation
Indices: 59315267--59315520 Score: 161
Period size: 45 Copynumber: 5.6 Consensus size: 46
59315257 AATCATCAGC
* * *
59315267 CTTATCTTCACTGAGTAGGAGTGAAGCAGGCT-AAATATAGCAGAT
1 CTTATCTTCGCTGAGCAGGAGTGGAGCAGGCTCAAATATAGCAGAT
* * * * * **
59315312 CTTATCTTCGCTGAGCAGGAGCGGAGCA-GATCGAATTTTGGTGAAT
1 CTTATCTTCGCTGAGCAGGAGTGGAGCAGGCTCAAATATAGCAG-AT
* ** *
59315358 CTTATC-TCCCTGTA-CTAGCGA-TGGAGCAGATTCCAATCAT--CAGA-
1 CTTATCTTCGCTG-AGC-AG-GAGTGGAGCAGGCTCAAAT-ATAGCAGAT
* * * *
59315402 CTTATCTTCACTGAGCAAGAGTGAAGCAGGCT-AAATATATCAGAT
1 CTTATCTTCGCTGAGCAGGAGTGGAGCAGGCTCAAATATAGCAGAT
* * * * *
59315447 CTTATCTCCGCTGAACAAGAGTGGAGCAGG-TCAGATACAGC-GAAT
1 CTTATCTTCGCTGAGCAGGAGTGGAGCAGGCTCAAATATAGCAG-AT
*
59315492 CTTATCTTCGCTGAGCAGGAGCGGAGCAG
1 CTTATCTTCGCTGAGCAGGAGTGGAGCAG
59315521 ATCAAATTTT
Statistics
Matches: 159, Mismatches: 35, Indels: 30
0.71 0.16 0.13
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
44 24 0.15
45 102 0.64
46 18 0.11
47 7 0.04
48 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (46 bp):
CTTATCTTCGCTGAGCAGGAGTGGAGCAGGCTCAAATATAGCAGAT
Found at i:59315469 original size:270 final size:270
Alignment explanation
Indices: 59314988--59315475 Score: 640
Period size: 270 Copynumber: 1.8 Consensus size: 270
59314978 AAAGATAGAT
* *
59314988 ATCATCAGCCTTATCTTCACTGAGCAGGAATGGAGCAGGCTAAACATACCCGATCTTATCTTCAC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAATGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
* * *
59315053 TAAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTTCACTGAGTAGGAGTGAAGCAGA
66 TAAGCAGGAGCGAAGCAGATCAAATTTTGGCGAATCTTATCTTCACTGACTAGGAGTGAAGCAGA
* * * * * * * *
59315118 TTTCAGCCACCAGCCTTATCTTCATGGAGCAGGAGTGGAGTAGGCTAAACATACCCGATCTTTTC
131 TTCCAACCACCAGACTTATCTTCATGGAGCAAGAGTGAAGCAGGCTAAACATACCAGATCTTATC
* *
59315183 TTCACTGAGCAAGAGTGAAGCAGATCAAATTGTGGCGAGTCTTATCTCCATGTATCAGCCATGGA
196 TCCACTGAACAAGAGTGAAGCAGATCAAATTGTGGCGAGTCTTATCTCCATGTATCAGCCATGGA
59315248 GCAGATTCTA
261 GCAGATTCTA
* * * * *
59315258 ATCATCAGCCTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAATATAGCAGATCTTATCTTCGC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAATGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
* * * * * *
59315323 TGAGCAGGAGCGGAGCAGATCGAATTTTGGTGAATCTTATC-TCCCTGTACTAGCGA-TGGAGCA
66 TAAGCAGGAGCGAAGCAGATCAAATTTTGGCGAATCTTATCTTCACTG-ACTAG-GAGTGAAGCA
* * * *
59315386 GATTCCAATCATCAGACTTATCTTCACT-GAGCAAGAGTGAAGCAGGCTAAATATATCAGATCTT
129 GATTCCAACCACCAGACTTATCTTCA-TGGAGCAAGAGTGAAGCAGGCTAAACATACCAGATCTT
* *
59315450 ATCTCCGCTGAACAAGAGTGGAGCAG
193 ATCTCCACTGAACAAGAGTGAAGCAG
59315476 GTCAGATACA
Statistics
Matches: 183, Mismatches: 32, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
269 5 0.03
270 175 0.96
271 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (270 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAATGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
TAAGCAGGAGCGAAGCAGATCAAATTTTGGCGAATCTTATCTTCACTGACTAGGAGTGAAGCAGA
TTCCAACCACCAGACTTATCTTCATGGAGCAAGAGTGAAGCAGGCTAAACATACCAGATCTTATC
TCCACTGAACAAGAGTGAAGCAGATCAAATTGTGGCGAGTCTTATCTCCATGTATCAGCCATGGA
GCAGATTCTA
Found at i:59315775 original size:29 final size:29
Alignment explanation
Indices: 59315742--59315805 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
59315732 CCAAATTAAA
*
59315742 CACCCCACTAAACCGA-CCATTAAC-TCCAT
1 CACCCCACTAAACC-ATCCACT-ACTTCCAT
*
59315771 CACCCTACTAAACCATCCACTACTTCCAT
1 CACCCCACTAAACCATCCACTACTTCCAT
59315800 CACCCC
1 CACCCC
59315806 CACACCCTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 3 0.10
29 27 0.90
ACGTcount: A:0.31, C:0.48, G:0.02, T:0.19
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTACTTCCAT
Found at i:59315818 original size:37 final size:37
Alignment explanation
Indices: 59315771--59315842 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
59315761 TTAACTCCAT
*
59315771 CACCCTACTAAACCATCCACTACTTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
** *
59315808 CACCCTACTAAACTGTCCACTACCTCTATCACCCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCCC
59315843 TACTACCTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.28, C:0.50, G:0.01, T:0.21
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:59315862 original size:17 final size:18
Alignment explanation
Indices: 59315826--59315863 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
59315816 TAAACTGTCC
*
59315826 ACTACCTCTATCACCCCT
1 ACTACCTCCATCACCCCT
59315844 ACTACCTCCATCA-CCCT
1 ACTACCTCCATCACCCCT
59315861 ACT
1 ACT
59315864 TGTTATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.24, C:0.50, G:0.00, T:0.26
Consensus pattern (18 bp):
ACTACCTCCATCACCCCT
Found at i:59316321 original size:17 final size:14
Alignment explanation
Indices: 59316281--59316311 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
59316271 CATATTATTA
*
59316281 TATTATCTATTTAT
1 TATTATATATTTAT
59316295 TATTATATATTTAT
1 TATTATATATTTAT
59316309 TAT
1 TAT
59316312 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:59317009 original size:126 final size:126
Alignment explanation
Indices: 59316779--59317022 Score: 461
Period size: 126 Copynumber: 1.9 Consensus size: 126
59316769 CATTGATCTT
*
59316779 CTCTCAAAAATTTTCAAAATAAAGACAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGACAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
59316844 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
*
59316905 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGACAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
*
59316970 ACGTACTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
59317023 AGGCTAAAAC
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 115 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGACAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:59317514 original size:21 final size:22
Alignment explanation
Indices: 59317479--59317529 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
59317469 GACACACTTT
59317479 ATATCAAAGGGTTATAAAAATC
1 ATATCAAAGGGTTATAAAAATC
* * *
59317501 ATATTAAA-GGTTATTAAAATT
1 ATATCAAAGGGTTATAAAAATC
59317522 ATATCAAA
1 ATATCAAA
59317530 AGCTACCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (22 bp):
ATATCAAAGGGTTATAAAAATC
Found at i:59325667 original size:16 final size:17
Alignment explanation
Indices: 59325646--59325691 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
59325636 AATTGGGTTG
59325646 AGAAAATT-ATTTAATT
1 AGAAAATTAATTTAATT
59325662 AGAAAATTAATTT-ATT
1 AGAAAATTAATTTAATT
59325678 -G-AAATTAATTTAAT
1 AGAAAATTAATTTAAT
59325692 AAATAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.36
15 3 0.11
16 11 0.39
17 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (17 bp):
AGAAAATTAATTTAATT
Found at i:59336056 original size:21 final size:21
Alignment explanation
Indices: 59336030--59336072 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
59336020 TCAATCATAG
*
59336030 CTGAGTTAAAAGCTATACCAA
1 CTGAGTTAAAAGCTAGACCAA
59336051 CTGAGTTAAAAGCTAGACCAA
1 CTGAGTTAAAAGCTAGACCAA
59336072 C
1 C
59336073 GTTCTTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (21 bp):
CTGAGTTAAAAGCTAGACCAA
Found at i:59343277 original size:90 final size:90
Alignment explanation
Indices: 59343117--59343281 Score: 224
Period size: 90 Copynumber: 1.8 Consensus size: 90
59343107 ATTTCAAAGC
** * * *
59343117 CATGTCCCAAACATGGTCTTACATGGGTTTACATATCGATGCCATATCCCAGATACAGTCTTATA
1 CATGTCCCAAACATGGTCTTACATGGGCCTACACATCGATGCCATATCCCAGACACAGTCTTACA
59343182 CGAAATCTCACGTCGGTGCCGATGT
66 CGAAATCTCACGTCGGTGCCGATGT
* * **
59343207 CATGTCCCAGACATGGTCTTACATGGGACCT-CACATCGATGCCATGTCCCAGACATGGTCTTAC
1 CATGTCCCAAACATGGTCTTACATGGG-CCTACACATCGATGCCATATCCCAGACACAGTCTTAC
*
59343271 ATGAAATCTCA
65 ACGAAATCTCA
59343282 TATCAATGTC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
90 63 0.98
91 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (90 bp):
CATGTCCCAAACATGGTCTTACATGGGCCTACACATCGATGCCATATCCCAGACACAGTCTTACA
CGAAATCTCACGTCGGTGCCGATGT
Found at i:59343299 original size:42 final size:42
Alignment explanation
Indices: 59343211--59343325 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
59343201 CGATGTCATG
** * * * *
59343211 TCCCAGACATGGTCTTACATGGGACCTCACATCGATGCCATG
1 TCCCAGACATGGTCTTACATGAAATCTCATATCAATGCCATA
* *
59343253 TCCCAGACATGGTCTTACATGAAATCTCATATCAATGTCGTA
1 TCCCAGACATGGTCTTACATGAAATCTCATATCAATGCCATA
* * *
59343295 TCCCAGATATGGTCTTGCATGAAATCACATA
1 TCCCAGACATGGTCTTACATGAAATCTCATA
59343326 CCGAGGCCGA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGAAATCTCATATCAATGCCATA
Found at i:59343372 original size:48 final size:50
Alignment explanation
Indices: 59343293--59343411 Score: 129
Period size: 48 Copynumber: 2.5 Consensus size: 50
59343283 ATCAATGTCG
* * *
59343293 TATCCCAGATATGGTCTTGCA--TGAAATCACATACCGAGGCCGACGCTA
1 TATCCCAGATATGGTCTTACACTTGAAATCACATACCAAGGCCGACGCCA
* * * *
59343341 TATCCCAGATATGGTCTTACACTTG-CA-CACATATCAATGCCGATGCCA
1 TATCCCAGATATGGTCTTACACTTGAAATCACATACCAAGGCCGACGCCA
* *
59343389 TGTCCCAGACATGGTCTTACACT
1 TATCCCAGATATGGTCTTACACT
59343412 AGCTATCATA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
48 57 0.95
49 1 0.02
50 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.26
Consensus pattern (50 bp):
TATCCCAGATATGGTCTTACACTTGAAATCACATACCAAGGCCGACGCCA
Found at i:59343422 original size:48 final size:48
Alignment explanation
Indices: 59343343--59343457 Score: 169
Period size: 48 Copynumber: 2.4 Consensus size: 48
59343333 CGACGCTATA
* * *
59343343 TCCCAGATATGGTCTTACACTTGCACACATATCAATGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATG
* *
59343391 TCCCAGACATGGTCTTACACTAGCTA-TCATATCAACGCTGATGCCATG
1 TCCCAGACATGGTCTTACACTAGC-ACACATATCAACGCCGATGCCATG
59343439 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
59343458 TTGGCTCTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 60 0.98
49 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
TCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATG
Found at i:59344248 original size:25 final size:25
Alignment explanation
Indices: 59344220--59344268 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
59344210 GACTAAAGTA
59344220 TACCCATTTCACATGCCAAGTTACT
1 TACCCATTTCACATGCCAAGTTACT
59344245 TACCCATTTCACATGCCAAGTTAC
1 TACCCATTTCACATGCCAAGTTAC
59344269 CATGAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.08, T:0.31
Consensus pattern (25 bp):
TACCCATTTCACATGCCAAGTTACT
Found at i:59345308 original size:12 final size:12
Alignment explanation
Indices: 59345291--59345316 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
59345281 TCTATTCAAG
59345291 TATCATAATATA
1 TATCATAATATA
59345303 TATCATAATATA
1 TATCATAATATA
59345315 TA
1 TA
59345317 CATTATCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATCATAATATA
Found at i:59357479 original size:21 final size:20
Alignment explanation
Indices: 59357455--59357493 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
59357445 TAGGGATTAA
59357455 ATTGTGAAATGTGTAAAATTC
1 ATTGTGAAAT-TGTAAAATTC
* *
59357476 ATTGTTAAATTGTGAAAT
1 ATTGTGAAATTGTAAAAT
59357494 AAATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTGTGAAATTGTAAAATTC
Found at i:59362840 original size:25 final size:26
Alignment explanation
Indices: 59362812--59362865 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
59362802 TGTGTTACAT
* *
59362812 ATTTTAATGCTTTAA-TGTTAT-ATGA
1 ATTTAAATGC-TTAATTGCTATCATGA
59362837 ATTTAAATGCTTAATTGCTATCATGA
1 ATTTAAATGCTTAATTGCTATCATGA
59362863 ATT
1 ATT
59362866 ATATGCCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.16
25 14 0.56
26 7 0.28
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTAAATGCTTAATTGCTATCATGA
Found at i:59367603 original size:27 final size:27
Alignment explanation
Indices: 59367573--59367628 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
59367563 CTAGTTATAG
59367573 CTATATTAAATGTTAAAGTGAGGTTTT
1 CTATATTAAATGTTAAAGTGAGGTTTT
59367600 CTATATTAAATGTTAAAGTGAGGTTTT
1 CTATATTAAATGTTAAAGTGAGGTTTT
59367627 CT
1 CT
59367629 TTGCGAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (27 bp):
CTATATTAAATGTTAAAGTGAGGTTTT
Found at i:59369484 original size:25 final size:26
Alignment explanation
Indices: 59369456--59369509 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
59369446 TGTGTTACAT
* *
59369456 ATTTTAATGCTTAAATGTTAT-ATGA
1 ATTTAAATGCTTAAATGCTATCATGA
*
59369481 ATTTAAATGCTTAATTGCTATCATGA
1 ATTTAAATGCTTAAATGCTATCATGA
59369507 ATT
1 ATT
59369510 ATATGCCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (26 bp):
ATTTAAATGCTTAAATGCTATCATGA
Found at i:59371292 original size:2 final size:2
Alignment explanation
Indices: 59371285--59371329 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
59371275 TATTTGCTTG
59371285 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59371327 AT A
1 AT A
59371330 ATGGACATGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:59387509 original size:40 final size:40
Alignment explanation
Indices: 59387457--59387606 Score: 212
Period size: 40 Copynumber: 3.8 Consensus size: 40
59387447 GGATTTAGCT
* *
59387457 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAGCAACTCGCACAAATGCCTTCGGGTCATAGCCC
*
59387497 GGATATAGCAACTCGCACAAATGCCTTCGGGTCAGAGCCC
1 GGATATAGCAACTCGCACAAATGCCTTCGGGTCATAGCCC
* * * *
59387537 GGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCC
1 GGATAT-AGCAACTCGCACAAATGCCTTCGGGTCATAGCCC
*
59387577 GGATATAGCAACTCGCACGAATGCCTTCGG
1 GGATATAGCAACTCGCACAAATGCCTTCGG
59387607 ATCTTAGTCC
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 92 0.96
41 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (40 bp):
GGATATAGCAACTCGCACAAATGCCTTCGGGTCATAGCCC
Found at i:59387590 original size:80 final size:80
Alignment explanation
Indices: 59387457--59387606 Score: 239
Period size: 80 Copynumber: 1.9 Consensus size: 80
59387447 GGATTTAGCT
* * *
59387457 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCC
1 GGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGCC
59387522 TTCGGGTCAGAGCCC
66 TTCGGGTCAGAGCCC
* *
59387537 GGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 GGATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
59387601 CTTCGG
65 CTTCGG
59387607 ATCTTAGTCC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
80 63 0.98
81 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (80 bp):
GGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGCC
TTCGGGTCAGAGCCC
Found at i:59395375 original size:40 final size:40
Alignment explanation
Indices: 59395301--59395511 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
59395291 TCTTCGGAAT
** * *
59395301 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
59395339 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
59395379 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
59395419 TTAGCCCGGGTATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * * *
59395459 TTAGTCCGGAAATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
59395499 TTAGCCCGGATAT
1 TTAGCCCGGATAT
59395512 CATTCGAATA
Statistics
Matches: 144, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
38 4 0.03
39 16 0.11
40 123 0.85
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:59398592 original size:42 final size:41
Alignment explanation
Indices: 59398543--59398694 Score: 169
Period size: 42 Copynumber: 3.6 Consensus size: 41
59398533 AGACTAAATC
* * *
59398543 TAAGACCATATCCAGGATATGGCATCAATATGAGACTACGTG
1 TAAGACCATAT-CAGGATATGGCATCGATATGAGATTACATG
* * *
59398585 TACGACCATATCTGGTATATGGCATCGATATGAGATTTCATG
1 TAAGACCATATCAGG-ATATGGCATCGATATGAGATTACATG
* * *
59398627 TAAGACCATAGCTAGGCTATTGGCATCGATACGAGATTACATG
1 TAAGACCATATC-AGGATA-TGGCATCGATATGAGATTACATG
*
59398670 TAAGACCATATCTGAGATATGGCAT
1 TAAGACCATATCAG-GATATGGCAT
59398695 TGGTATGGTA
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 3 0.03
42 51 0.56
43 37 0.41
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (41 bp):
TAAGACCATATCAGGATATGGCATCGATATGAGATTACATG
Found at i:59400573 original size:21 final size:21
Alignment explanation
Indices: 59400548--59400587 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
59400538 CATTTTAAGC
*
59400548 ATATAACATCATAAAATACAA
1 ATATAACATAATAAAATACAA
* *
59400569 ATATACCATAATCAAATAC
1 ATATAACATAATAAAATAC
59400588 TATCATAAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.25
Consensus pattern (21 bp):
ATATAACATAATAAAATACAA
Found at i:59400897 original size:43 final size:42
Alignment explanation
Indices: 59400846--59400969 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
59400836 TCCCAGATGT
* *
59400846 GGTCTTACACGTAATCAAATATCGATTCCACTGTCCCAAACAA
1 GGTCTTACACGTAATCAAATA-CGATGCCAATGTCCCAAACAA
** * * *
59400889 GGTCTTACACAAAATCAAATAGGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATACGATGCCAATGTCCCAAACAA
* *
59400931 GGTCTTACGCGTAAATCTCAAAT-CGGTGCCAATGTCCCA
1 GGTCTTACACGT-AA--TCAAATACGATGCCAATGTCCCA
59400970 GATGTGGTCT
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 25 0.38
43 21 0.32
44 14 0.21
45 6 0.09
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGCCAATGTCCCAAACAA
Found at i:59404242 original size:12 final size:13
Alignment explanation
Indices: 59404218--59404246 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
59404208 GGGCTATAAC
59404218 TATTGCATTTATT
1 TATTGCATTTATT
59404231 TATTGC-TTTATT
1 TATTGCATTTATT
59404243 TATT
1 TATT
59404247 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:59409236 original size:30 final size:30
Alignment explanation
Indices: 59409202--59409262 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
59409192 CACTATGAAT
59409202 ATGTTTCTTGGATTATTATGTAATTGTCAC
1 ATGTTTCTTGGATTATTATGTAATTGTCAC
59409232 ATGTTTCTTGGATTATTATGTAATTGTCAC
1 ATGTTTCTTGGATTATTATGTAATTGTCAC
59409262 A
1 A
59409263 ACATTACTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.49
Consensus pattern (30 bp):
ATGTTTCTTGGATTATTATGTAATTGTCAC
Found at i:59414828 original size:14 final size:14
Alignment explanation
Indices: 59414809--59414837 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59414799 ATAGAATCAT
59414809 TCAATCTAGAAAAA
1 TCAATCTAGAAAAA
59414823 TCAATCTAGAAAAA
1 TCAATCTAGAAAAA
59414837 T
1 T
59414838 AAAGGCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (14 bp):
TCAATCTAGAAAAA
Found at i:59418128 original size:28 final size:27
Alignment explanation
Indices: 59418096--59418186 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 27
59418086 TATATACGTG
59418096 CATATGGCCCACTTGGCCCAATCTCATT
1 CATATGGCCCA-TTGGCCCAATCTCATT
* *
59418124 CATATGGCCCATCAGGCCCAGT-TCATATT
1 CATATGGCCCAT-TGGCCCAATCTC--ATT
*
59418153 CATATAGCCCATTAGGCCCAATCTCATT
1 CATATGGCCCATT-GGCCCAATCTCATT
59418181 CATATG
1 CATATG
59418187 TGCATATGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
27 3 0.06
28 26 0.50
29 21 0.40
30 2 0.04
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (27 bp):
CATATGGCCCATTGGCCCAATCTCATT
Found at i:59421743 original size:16 final size:16
Alignment explanation
Indices: 59421691--59421734 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
59421681 GTAGATCGGT
59421691 AAAAGCTGAAATACCG
1 AAAAGCTGAAATACCG
59421707 AAAAGCTGAAATACCG
1 AAAAGCTGAAATACCG
59421723 AAAAGCTGAAAT
1 AAAAGCTGAAAT
59421735 GCTGAAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.52, C:0.16, G:0.18, T:0.14
Consensus pattern (16 bp):
AAAAGCTGAAATACCG
Found at i:59421871 original size:19 final size:19
Alignment explanation
Indices: 59421847--59421883 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
59421837 CTTTGGTTGT
59421847 GAATAGGCCAAATGGGCCG
1 GAATAGGCCAAATGGGCCG
*
59421866 GAATAGGCTAAATGGGCC
1 GAATAGGCCAAATGGGCC
59421884 CGAGGGGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.35, T:0.14
Consensus pattern (19 bp):
GAATAGGCCAAATGGGCCG
Found at i:59422002 original size:29 final size:29
Alignment explanation
Indices: 59421973--59422077 Score: 121
Period size: 28 Copynumber: 3.7 Consensus size: 29
59421963 ATAATGTGAT
59421973 TTGGG-CTGGATGGGCCATATAAATGAGA
1 TTGGGCCTGGATGGGCCATATAAATGAGA
* *
59422001 TTGGGCCT-AATGGGCCATATGAACGTGA-A
1 TTGGGCCTGGATGGGCCATAT-AA-ATGAGA
*
59422030 TTGGACC-GGATGGGCCATATAAATGAGA
1 TTGGGCCTGGATGGGCCATATAAATGAGA
*
59422058 TTGGGCCTAG-TGGGCCATAT
1 TTGGGCCTGGATGGGCCATAT
59422078 GCCTGTATGT
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
27 3 0.05
28 35 0.55
29 23 0.36
30 3 0.05
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (29 bp):
TTGGGCCTGGATGGGCCATATAAATGAGA
Found at i:59424487 original size:29 final size:29
Alignment explanation
Indices: 59424452--59424582 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
59424442 GTGACGAGAT
59424452 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
59424481 TGGCACTAAGTGTGCATGCT-GAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
59424509 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
59424538 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
59424567 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
59424583 GGCTTAAATC
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 28 0.32
29 59 0.68
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:59424513 original size:28 final size:29
Alignment explanation
Indices: 59424452--59424544 Score: 152
Period size: 29 Copynumber: 3.2 Consensus size: 29
59424442 GTGACGAGAT
*
59424452 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59424481 TGGCACTAAGTGTGCATGCT-GAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
59424509 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
59424538 CGGCACT
1 TGGCACT
59424545 GGGTGTGCGA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 28 0.47
29 32 0.53
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:59432509 original size:29 final size:29
Alignment explanation
Indices: 59432474--59432604 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
59432464 GTGACGAGAT
59432474 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
59432503 TGGCACTAAGTGTGCATGCT-GAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
59432531 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
59432560 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
59432589 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
59432605 GGCTTAAATC
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 28 0.32
29 59 0.68
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:59432535 original size:28 final size:29
Alignment explanation
Indices: 59432474--59432566 Score: 152
Period size: 29 Copynumber: 3.2 Consensus size: 29
59432464 GTGACGAGAT
*
59432474 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59432503 TGGCACTAAGTGTGCATGCT-GAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
59432531 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
59432560 CGGCACT
1 TGGCACT
59432567 GGGTGTGCGA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 28 0.47
29 32 0.53
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:59434872 original size:56 final size:56
Alignment explanation
Indices: 59434810--59434922 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
59434800 ATTGAAACTA
59434810 ACTAAAACTTCATAAAATTTTTAATCCAAACAATACGTCCATCGACGATGAGTGCT
1 ACTAAAACTTCATAAAATTTTTAATCCAAACAATACGTCCATCGACGATGAGTGCT
59434866 ACTAAAACTTCATAAAATTTTTAATCCAAACAATACGTCCATCGACGATGAGTGCT
1 ACTAAAACTTCATAAAATTTTTAATCCAAACAATACGTCCATCGACGATGAGTGCT
59434922 A
1 A
59434923 GAAGAGGTGC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (56 bp):
ACTAAAACTTCATAAAATTTTTAATCCAAACAATACGTCCATCGACGATGAGTGCT
Found at i:59437707 original size:19 final size:19
Alignment explanation
Indices: 59437683--59437719 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
59437673 CTTGGGTTGT
*
59437683 GAATAGGCCAAATGGGCCA
1 GAATAGGCAAAATGGGCCA
59437702 GAATAGGCAAAATGGGCC
1 GAATAGGCAAAATGGGCC
59437720 CGAGGGGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.32, T:0.11
Consensus pattern (19 bp):
GAATAGGCAAAATGGGCCA
Found at i:59437882 original size:29 final size:28
Alignment explanation
Indices: 59437809--59437948 Score: 147
Period size: 29 Copynumber: 4.9 Consensus size: 28
59437799 ATAATTTGAT
* * *
59437809 TTGGGCCGGATGGGCCATATAAATGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
59437837 TTAGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTGATGGGCCATATGAATGTG-A
* *
59437866 TTGGGCCTGATAGGCCATATGAACGTGAA
1 TTGGGCCTGATGGGCCATATGAATGTG-A
* * *
59437895 TTGGGCCGGATGGGCCATATAAATGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
59437923 TTGGGCCT-AGTGGGCCATATGCATGT
1 TTGGGCCTGA-TGGGCCATATGAATGT
59437949 ATGTAGGGGT
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
27 1 0.01
28 43 0.47
29 48 0.52
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:59450103 original size:43 final size:43
Alignment explanation
Indices: 59450037--59450181 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
59450027 AGCTCGTACA
59450037 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGTAATCAAATATCG
* * * *
59450080 ATGCCACTGTCCCAAACAGGGTCTTACATGAAATCAAGTA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
* * * *
59450122 ATTCTAATGTCCCAGACATGGTCTTACATGTAAATCATAA-GTCG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGT-AATCA-AATATCG
*
59450166 ATGCCAACGTCCCAGA
1 ATGCCAATGTCCCAGA
59450182 TGTGGTCTTA
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 27 0.33
43 39 0.47
44 17 0.20
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
Found at i:59453067 original size:46 final size:45
Alignment explanation
Indices: 59453017--59453192 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
59453007 TGTTTGGGCA
59453017 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
59453063 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
59453110 TCCGAGCTCGTTGAGTTGAGTTCGATTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
59453156 -CCCAAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59453193 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 60 0.58
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:59453172 original size:93 final size:93
Alignment explanation
Indices: 59453013--59453184 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
59453003 AGGATGTTTG
* *
59453013 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAG
59453078 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
59453106 GGCATCCGAGCTCGTTGAGTTGAGTTCGATTTCACTTATGGATGCGAACG-CCCAAGCTTGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGA
*
59453170 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
59453185 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:59463192 original size:21 final size:20
Alignment explanation
Indices: 59463163--59463202 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
59463153 CATGTATTTT
59463163 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
59463184 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
59463203 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:59463210 original size:20 final size:21
Alignment explanation
Indices: 59463168--59463210 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
59463158 ATTTTAATGA
*
59463168 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
59463189 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
59463209 TT
1 TT
59463211 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:59481442 original size:40 final size:40
Alignment explanation
Indices: 59481270--59481435 Score: 262
Period size: 40 Copynumber: 4.2 Consensus size: 40
59481260 AACCAAAGTA
* **
59481270 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59481309 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59481349 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
59481389 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59481429 CCTTCGG
1 CCTTCGG
59481436 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 12 0.10
40 106 0.90
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59504039 original size:43 final size:43
Alignment explanation
Indices: 59503978--59504064 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
59503968 GATTCCAATA
59503978 TTCAGATATCTTAAAAGAAAACAATGAACAAATAAACTAAAAC
1 TTCAGATATCTTAAAAGAAAACAATGAACAAATAAACTAAAAC
59504021 TTCAGATATCTTAAAAGAAAACAATGAACAAATAAACTAAAAC
1 TTCAGATATCTTAAAAGAAAACAATGAACAAATAAACTAAAAC
59504064 T
1 T
59504065 ATCGAAACCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.22
Consensus pattern (43 bp):
TTCAGATATCTTAAAAGAAAACAATGAACAAATAAACTAAAAC
Found at i:59506721 original size:40 final size:40
Alignment explanation
Indices: 59506636--59506726 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 40
59506626 TATGTTTGGT
* * *
59506636 ACTTAGTGTGCGTATAGAGATAGCTTCGGCTATATAAAGC
1 ACTTAGTGTGCGAATAGAAATACCTTCGGCTATATAAAGC
* * * **
59506676 TCTTAGTTTGCGAATCGAAATACCTTCGGCTATATATGGC
1 ACTTAGTGTGCGAATAGAAATACCTTCGGCTATATAAAGC
59506716 ACTTAGTGTGC
1 ACTTAGTGTGC
59506727 TAGACCTAGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (40 bp):
ACTTAGTGTGCGAATAGAAATACCTTCGGCTATATAAAGC
Found at i:59509617 original size:93 final size:93
Alignment explanation
Indices: 59509505--59509676 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
59509495 GCCCATAAGT
* *
59509505 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59509570 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
59509598 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
59509663 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
59509677 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:59509672 original size:46 final size:46
Alignment explanation
Indices: 59509497--59509672 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
59509487 TGTAACCCGC
* *
59509497 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
59509543 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
59509589 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
59509636 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
59509673 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:59512075 original size:15 final size:15
Alignment explanation
Indices: 59512046--59512095 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
59512036 CAAAGATAAC
*
59512046 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
59512060 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
59512075 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
59512090 AAGAAA
1 AAGAAA
59512096 CCAAGATACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:59515142 original size:93 final size:93
Alignment explanation
Indices: 59515030--59515201 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
59515020 GCCCATAAGT
* *
59515030 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59515095 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
59515123 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
59515188 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
59515202 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:59515197 original size:46 final size:46
Alignment explanation
Indices: 59515022--59515197 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
59515012 TGTAACCCGC
* *
59515022 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
59515068 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
59515114 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
59515161 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
59515198 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:59529012 original size:24 final size:24
Alignment explanation
Indices: 59528985--59529047 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
59528975 CTTATTATGT
59528985 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
59529009 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
59529033 TCGCACACATAGTGC
1 TCGCACACATAGTGC
59529048 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:59536824 original size:24 final size:24
Alignment explanation
Indices: 59536792--59536852 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
59536782 ACCCAATGTT
59536792 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
59536816 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
*
59536840 ACACACATAGTGC
1 GCACACATAGTGC
59536853 ATTTGAGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAATC
Found at i:59559334 original size:39 final size:39
Alignment explanation
Indices: 59559290--59559369 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
59559280 TGAAGCTAGA
*
59559290 GATGTTTGAAAAAGATCTTCTGGTAGAGCATCTCAATCT
1 GATGTTTGAAAAAGATCTTCGGGTAGAGCATCTCAATCT
*
59559329 GATGTTTGAAAGAGATCTTCGGGTAGAGCATCTCAATCT
1 GATGTTTGAAAAAGATCTTCGGGTAGAGCATCTCAATCT
59559368 GA
1 GA
59559370 GTCAAAGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (39 bp):
GATGTTTGAAAAAGATCTTCGGGTAGAGCATCTCAATCT
Found at i:59565490 original size:19 final size:19
Alignment explanation
Indices: 59565461--59565503 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
59565451 CGTTATGGGC
59565461 CTCGT-TGGGCCAAGATAGG
1 CTCGTGTGGGCCAA-ATAGG
*
59565480 C-CGTGTGGGCCCAATAGG
1 CTCGTGTGGGCCAAATAGG
59565498 CTCGTG
1 CTCGTG
59565504 GGCCCTACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.16, C:0.26, G:0.37, T:0.21
Consensus pattern (19 bp):
CTCGTGTGGGCCAAATAGG
Found at i:59566174 original size:28 final size:31
Alignment explanation
Indices: 59566121--59566199 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 31
59566111 CTGCACTGTT
*
59566121 CTGATACTGAATTGGGCTTAGACCC-A-TG-
1 CTGATACTGAATAGGGCTTAGACCCAACTGA
*
59566149 CTGATACTGAATAGGG-TTAAGTCCCAGACTGTA
1 CTGATACTGAATAGGGCTT-AGACCCA-ACTG-A
59566182 CTGATACTGAATAGGGCT
1 CTGATACTGAATAGGGCT
59566200 CAGGCCTAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 2 0.05
28 20 0.48
30 1 0.02
31 2 0.05
33 16 0.38
34 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (31 bp):
CTGATACTGAATAGGGCTTAGACCCAACTGA
Found at i:59566211 original size:33 final size:34
Alignment explanation
Indices: 59566149--59566218 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
59566139 TAGACCCATG
* *
59566149 CTGATACTGAATAGGGTTAAGTCCCAGACTG-TA
1 CTGATACTGAATAGGGCTAAGGCCCAGACTGTTA
* *
59566182 CTGATACTGAATAGGGCTCAGGCCTAGACTGTTA
1 CTGATACTGAATAGGGCTAAGGCCCAGACTGTTA
59566216 CTG
1 CTG
59566219 CATGCACTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (34 bp):
CTGATACTGAATAGGGCTAAGGCCCAGACTGTTA
Found at i:59573932 original size:28 final size:29
Alignment explanation
Indices: 59573900--59573979 Score: 69
Period size: 28 Copynumber: 2.9 Consensus size: 29
59573890 TTGGAGGAAG
59573900 TACTG-TATTAGTGGCTTTGCCACGTAAT
1 TACTGCTATTAGTGGCTTTGCCACGTAAT
* * * *
59573928 TACTGCT-CTGGTGCCTTTGCCAC--ATT
1 TACTGCTATTAGTGGCTTTGCCACGTAAT
* * *
59573954 TACTGTTATTAGTAGCTTTGCTACGT
1 TACTGCTATTAGTGGCTTTGCCACGT
59573980 TACTGTTAGC
Statistics
Matches: 38, Mismatches: 10, Indels: 7
0.69 0.18 0.13
Matches are distributed among these distances:
26 8 0.21
27 11 0.29
28 18 0.47
29 1 0.03
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.41
Consensus pattern (29 bp):
TACTGCTATTAGTGGCTTTGCCACGTAAT
Found at i:59574161 original size:28 final size:29
Alignment explanation
Indices: 59574108--59574208 Score: 89
Period size: 28 Copynumber: 3.4 Consensus size: 29
59574098 CTGCACTGTT
* * * *
59574108 CTGATATTGAATTGGGCTTAGACCCACG-
1 CTGATACTGAATAGGGCTAAGGCCCACGA
59574136 CTGATACTGAATAGGGCTAAGGCCCAGACTGTA
1 CTGATACTGAATAGGGCTAAGGCCC--AC-G-A
* *
59574169 CTGATATTGAATAGGGCTCAGGCCCA-GA
1 CTGATACTGAATAGGGCTAAGGCCCACGA
*
59574197 CTGTTACTGAAT
1 CTGATACTGAAT
59574209 GCACGGTTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
28 32 0.53
29 1 0.02
30 2 0.03
31 2 0.03
33 23 0.38
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (29 bp):
CTGATACTGAATAGGGCTAAGGCCCACGA
Found at i:59574180 original size:33 final size:34
Alignment explanation
Indices: 59574136--59574206 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 34
59574126 TAGACCCACG
59574136 CTGATACTGAATAGGGCTAAGGCCCAGACTG-TA
1 CTGATACTGAATAGGGCTAAGGCCCAGACTGTTA
* *
59574169 CTGATATTGAATAGGGCTCAGGCCCAGACTGTTA
1 CTGATACTGAATAGGGCTAAGGCCCAGACTGTTA
59574203 CTGA
1 CTGA
59574207 ATGCACGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (34 bp):
CTGATACTGAATAGGGCTAAGGCCCAGACTGTTA
Found at i:59575090 original size:16 final size:15
Alignment explanation
Indices: 59575066--59575095 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
59575056 AACTGTTTTA
59575066 TTACAAATTTCACTC
1 TTACAAATTTCACTC
59575081 TTACATAATTTCACT
1 TTACA-AATTTCACT
59575096 TACTTTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:59575363 original size:49 final size:49
Alignment explanation
Indices: 59575300--59575529 Score: 187
Period size: 49 Copynumber: 4.6 Consensus size: 49
59575290 AGCTATCTGG
*
59575300 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCAG-
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAAT-CAGA
* * * * * *
59575349 TTCACGTAGTAGCCTGCACTTACTACTACACATGTGACTAACCATCTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCAGA
* * * * **
59575398 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGACGTTGTCGAGTA
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAC--AATC-AG-A
* * * * * *
59575451 TGCA--TAGTAGCCTGCACTTAGTACTACACATACAACCTAACTATCTGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCAGA
* * *
59575499 TACACGTATTAGCCTGTACTTGGTACTACAC
1 TACACGTAGTAGCCTGCACTTAGTACTACAC
59575530 CTGACCTACA
Statistics
Matches: 143, Mismatches: 30, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
48 5 0.03
49 76 0.53
50 25 0.17
51 30 0.21
52 3 0.02
53 4 0.03
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCAGA
Found at i:59578622 original size:20 final size:23
Alignment explanation
Indices: 59578573--59578622 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 23
59578563 GCTAAATTCA
59578573 TGAACCATTTTTAATGTATTAGTG
1 TGAA-CATTTTTAATGTATTAGTG
*
59578597 TAAACATTTTT-AT-TATT-GTG
1 TGAACATTTTTAATGTATTAGTG
59578617 TGAACA
1 TGAACA
59578623 CATAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 8 0.33
21 4 0.17
22 2 0.08
23 7 0.29
24 3 0.12
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (23 bp):
TGAACATTTTTAATGTATTAGTG
Found at i:59578625 original size:22 final size:25
Alignment explanation
Indices: 59578573--59578625 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 25
59578563 GCTAAATTCA
59578573 TGAAC-CATTTTTAATGTATTAGTG
1 TGAACACATTTTTAATGTATTAGTG
59578597 T-AA-ACATTTTT-AT-TATT-GTG
1 TGAACACATTTTTAATGTATTAGTG
59578617 TGAACACAT
1 TGAACACAT
59578626 AGATGCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
20 4 0.15
21 6 0.23
22 6 0.23
23 9 0.35
24 1 0.04
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.45
Consensus pattern (25 bp):
TGAACACATTTTTAATGTATTAGTG
Found at i:59582342 original size:19 final size:21
Alignment explanation
Indices: 59582320--59582364 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
59582310 CTAAAACTAT
*
59582320 CAAAACTTA-ATAAA-GAAAA
1 CAAAACTAATATAAAGGAAAA
59582339 CAAAACTAATATAAAGGAAAA
1 CAAAACTAATATAAAGGAAAA
*
59582360 AAAAA
1 CAAAA
59582365 GATGTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 5 0.23
21 9 0.41
ACGTcount: A:0.71, C:0.09, G:0.07, T:0.13
Consensus pattern (21 bp):
CAAAACTAATATAAAGGAAAA
Found at i:59582354 original size:20 final size:20
Alignment explanation
Indices: 59582320--59582363 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
59582310 CTAAAACTAT
*
59582320 CAAAACTTAATAAA-GAAAA
1 CAAAACTAAATAAAGGAAAA
59582339 CAAAACTAATATAAAGGAAAA
1 CAAAACTAA-ATAAAGGAAAA
59582360 -AAAA
1 CAAAA
59582364 AGATGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 9 0.41
21 5 0.23
ACGTcount: A:0.70, C:0.09, G:0.07, T:0.14
Consensus pattern (20 bp):
CAAAACTAAATAAAGGAAAA
Found at i:59602979 original size:43 final size:43
Alignment explanation
Indices: 59602932--59603045 Score: 158
Period size: 43 Copynumber: 2.7 Consensus size: 43
59602922 TCGATTCTAT
* * * * *
59602932 TGTCCTAAACAGGGTCTTACATGTAATTG-ATTAACGATGCCAA
1 TGTCCCAAACATGGTCTTACATGTAATCGCAAT-ACAATGCCAA
59602975 TGTCCCAAACATGGTCTTACATGTAATCGCAATACAATGCCAA
1 TGTCCCAAACATGGTCTTACATGTAATCGCAATACAATGCCAA
*
59603018 TGTCCCAGACATGGTCTTACATGTAATC
1 TGTCCCAAACATGGTCTTACATGTAATC
59603046 ACATCTCGGT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 62 0.97
44 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (43 bp):
TGTCCCAAACATGGTCTTACATGTAATCGCAATACAATGCCAA
Found at i:59608706 original size:40 final size:40
Alignment explanation
Indices: 59608651--59608894 Score: 301
Period size: 40 Copynumber: 6.1 Consensus size: 40
59608641 TGAATGATAC
* * * * **
59608651 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
59608691 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
59608731 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
59608771 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
59608811 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * ** *
59608851 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
59608891 CCGG
1 CCGG
59608895 TTGTATTCCG
Statistics
Matches: 182, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 180 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:59613874 original size:23 final size:23
Alignment explanation
Indices: 59613848--59613896 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
59613838 GGTGAAAGCA
59613848 AAATTTTCGGGGTGGATTTGATT
1 AAATTTTCGGGGTGGATTTGATT
59613871 AAATTTTCGGGGTGGATTTGATT
1 AAATTTTCGGGGTGGATTTGATT
59613894 AAA
1 AAA
59613897 GATGCTGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.29, T:0.41
Consensus pattern (23 bp):
AAATTTTCGGGGTGGATTTGATT
Found at i:59616034 original size:40 final size:40
Alignment explanation
Indices: 59615999--59616207 Score: 278
Period size: 40 Copynumber: 5.2 Consensus size: 40
59615989 ATGCTAGTAA
* * * * *
59615999 TTATATCCAGGTTAAGACCCGAAGGCAATTGTGCTAG-TG
1 TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
*
59616038 ACTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
1 -TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
59616079 TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
1 TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
*
59616119 TTATATCC-GGCTAATACCCGAAGGCATTTGTGCAAGTCG
1 TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
* * * ** *
59616158 TTATATCCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGG
1 TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
59616198 TTATATCCGG
1 TTATATCCGG
59616208 TTGTATTCCG
Statistics
Matches: 153, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
39 38 0.25
40 113 0.74
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
Found at i:59616220 original size:79 final size:79
Alignment explanation
Indices: 59615999--59616207 Score: 285
Period size: 79 Copynumber: 2.6 Consensus size: 79
59615989 ATGCTAGTAA
* * * **
59615999 TTATATCCAGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTATATCCGGGCTAATACCCGAAG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGGTTATATCC-GGCTAATACCCGAAG
*
59616063 GCATTTGTGCAAGTTG
64 GCATTTGTGCAAGTCG
* * *
59616079 TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGCTAATACCCGAAGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATATCCGGCTAATACCCGAAGGC
59616144 ATTTGTGCAAGTCG
66 ATTTGTGCAAGTCG
* **
59616158 TTATATCCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATATCCGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATATCCGG
59616208 TTGTATTCCG
Statistics
Matches: 114, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
79 77 0.68
80 37 0.32
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (79 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATATCCGGCTAATACCCGAAGGC
ATTTGTGCAAGTCG
Found at i:59627193 original size:18 final size:18
Alignment explanation
Indices: 59627170--59627204 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
59627160 ATTTTCTCTC
59627170 ATTTCCCTTCACTAATAT
1 ATTTCCCTTCACTAATAT
59627188 ATTTCCCTTCACTAATA
1 ATTTCCCTTCACTAATA
59627205 ACACACCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCCCTTCACTAATAT
Found at i:59627937 original size:15 final size:17
Alignment explanation
Indices: 59627919--59627950 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
59627909 TTAATGTTAC
59627919 TTTTAT-TA-AATTATT
1 TTTTATCTAGAATTATT
59627934 TTTTATCTAGAATTATT
1 TTTTATCTAGAATTATT
59627951 ATAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTATCTAGAATTATT
Found at i:59640180 original size:39 final size:39
Alignment explanation
Indices: 59640126--59640389 Score: 402
Period size: 39 Copynumber: 6.8 Consensus size: 39
59640116 TTTCCAACAA
*
59640126 GAATGCCTTCGGGACTTAGCCCGGATATAACATCAGCAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
**
59640165 GAATGCCTTTAGGACTTAGCCCGGATATAACACCAGCAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
* * * *
59640204 AAATACCTTCGAGACTTAGCCTGGATATAACACCAGCAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
*
59640243 GAATGCCTTCGGGACTTAGCCTGGATATAACACCAGCAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
* * *
59640282 GAATGCCTTCGGGACTTAGCCCGAACATAACACCAGAAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
** *
59640321 GAATGCCTTCAAGACTTAGCCCGGATATAACGCCAGCAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
59640360 GAATGCCTTCGGGACTTAGCCCGGATATAA
1 GAATGCCTTCGGGACTTAGCCCGGATATAA
59640390 ATCTTACACA
Statistics
Matches: 201, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 201 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (39 bp):
GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
Found at i:59643648 original size:55 final size:55
Alignment explanation
Indices: 59643561--59643817 Score: 227
Period size: 55 Copynumber: 4.8 Consensus size: 55
59643551 ATTAGGGTTT
*
59643561 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
* * *
59643616 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAA-GTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTT--TCTAAGGC
* * * *
59643671 AAAGG-T-CCAATGTAAGACAATACCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGC
1 -AAGGATACC-ATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTC-TAAGGC
* * * *
59643724 AAGGATACCATGTAAAACCATGTCGAGACATGACAA-TGGT-AGGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
* * * *
59643773 AAGGATACCAAGTATGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT
59643818 ACCCGTGTAT
Statistics
Matches: 166, Mismatches: 25, Indels: 27
0.76 0.11 0.12
Matches are distributed among these distances:
49 33 0.20
50 4 0.02
52 8 0.05
53 33 0.20
54 16 0.10
55 68 0.41
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
Found at i:59647816 original size:40 final size:39
Alignment explanation
Indices: 59647633--59647816 Score: 149
Period size: 40 Copynumber: 4.6 Consensus size: 39
59647623 ACGACTCGCT
** * **
59647633 CAAATGCCTTCGGGACGAAGCCCGGTTATAGCGACTTGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
59647673 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
59647713 CAATGCCTTCGGG-CTTAGCCCGGAGT-TATTAACTCGTA
1 CAAAGCCTTCGGGACTTAGCCCGGA-TATAGTAACTTGCA
* * *
59647751 CAAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 CAAA-GCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
59647792 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
59647817 CATCATTCGA
Statistics
Matches: 114, Mismatches: 22, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
38 23 0.20
39 20 0.18
40 60 0.53
41 11 0.10
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:59650787 original size:50 final size:50
Alignment explanation
Indices: 59650703--59651220 Score: 440
Period size: 50 Copynumber: 10.8 Consensus size: 50
59650693 TGATGCTAGG
* * *
59650703 GATATATGAGAGCTGGTGTAAGACCATGTCTGGGACATGGCATCGGCACC
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT
* * * *
59650753 GATAGATGAGGGCTAGTGTAAAACCATGTTTGGGACATGGCATCGGC-TT
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT
* * *
59650802 GAT--ATGTG-TC-AGTGTAAGACCATGTCAGGGACATGGCATCGGCACT
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT
* * * * *
59650848 GATAGATGAGAGCTAGTGTAAGACCTTGTTTGGGACATGACATCAGC-TT
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT
* * ** *
59650897 GAT--AT--GTGTTAGTGTAAGACCATGTCTGGGGTATGGTATCGGCACT
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT
*
59650943 GATAGATGAGAGCTAGTGTAAGACCATGTCTAGGG-CATGGCATCGGC-TT
1 GATAGATGAGAGCTAGTGTAAGACCATGTCT-GGGACATGGCATCGGCACT
* * * *
59650992 GAT--ATG-TATC-AGTGTAAGACCATGTCTGGGACATGGCATCGACACC
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT
* * *
59651038 GATAGATGAGAGCTAGCGTAAGACCATGTCTAGGACATGGCATCGGC-TT
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT
* * *
59651087 GAT--ATGTG-TC-AATGTAAGACCATGTCTGGGACATGGCATCGGC-CTT
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-T
* * * * * *
59651133 GATATACGAGAGGC-AGTGTAAG-CCATGTCTGTGACATGGTATCGACATT
1 GATAGATGAGA-GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT
* * * * * *
59651182 GAT-G-GGTGAGCCAATGTAAGACCATGTCCGAGACATGGC
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
59651221 GTTGGCACCT
Statistics
Matches: 374, Mismatches: 69, Indels: 52
0.76 0.14 0.11
Matches are distributed among these distances:
44 3 0.01
45 117 0.31
46 21 0.06
47 23 0.06
48 27 0.07
49 42 0.11
50 138 0.37
51 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (50 bp):
GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT
Found at i:59650881 original size:95 final size:95
Alignment explanation
Indices: 59650718--59651176 Score: 647
Period size: 95 Copynumber: 4.8 Consensus size: 95
59650708 ATGAGAGCTG
* * *
59650718 GTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATAGATGAGGGCTAGTGTAAAACCATGTT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGATGAGAGCTAGTGTAAGACCATGTT
59650783 TGGGACATGGCATCGGCTTGATATGTGTCA
66 TGGGACATGGCATCGGCTTGATATGTGTCA
* *
59650813 GTGTAAGACCATGTCAGGGACATGGCATCGGCACTGATAGATGAGAGCTAGTGTAAGACCTTGTT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGATGAGAGCTAGTGTAAGACCATGTT
* * *
59650878 TGGGACATGACATCAGCTTGATATGTGTTA
66 TGGGACATGGCATCGGCTTGATATGTGTCA
** *
59650908 GTGTAAGACCATGTCTGGGGTATGGTATCGGCACTGATAGATGAGAGCTAGTGTAAGACCATGTC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGATGAGAGCTAGTGTAAGACCATGT-
* *
59650973 TAGGG-CATGGCATCGGCTTGATATGTATCA
65 TTGGGACATGGCATCGGCTTGATATGTGTCA
* * * *
59651003 GTGTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATGAGAGCTAGCGTAAGACCATGTC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGATGAGAGCTAGTGTAAGACCATGTT
*
59651068 TAGGACATGGCATCGGCTTGATATGTGTCA
66 TGGGACATGGCATCGGCTTGATATGTGTCA
* * *
59651098 ATGTAAGACCATGTCTGGGACATGGCATCGGC-CTTGATATACGAGAGGC-AGTGTAAG-CCATG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCAC-TGATAGATGAGA-GCTAGTGTAAGACCATG
* * *
59651160 TCTGTGACATGGTATCG
64 TTTGGGACATGGCATCG
59651177 ACATTGATGG
Statistics
Matches: 323, Mismatches: 37, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
94 22 0.07
95 295 0.91
96 6 0.02
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (95 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGATGAGAGCTAGTGTAAGACCATGTT
TGGGACATGGCATCGGCTTGATATGTGTCA
Found at i:59657645 original size:42 final size:44
Alignment explanation
Indices: 59657591--59657691 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 44
59657581 AACAAATATT
* * *
59657591 GATGCCACTGTCCCAAAAAAGGGCTTACACG-AAATCATATA-C
1 GATGCCAATGTCCCAAAAAAGGGCTTACACGTAAATCACAAATC
* * * * *
59657633 GATGCCAATGTCCTAGACATGGTCTTACACGTAAATCACAAATC
1 GATGCCAATGTCCCAAAAAAGGGCTTACACGTAAATCACAAATC
59657677 GATGCCAATGTCCCA
1 GATGCCAATGTCCCA
59657692 GATGTGGTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
42 25 0.52
43 8 0.17
44 15 0.31
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (44 bp):
GATGCCAATGTCCCAAAAAAGGGCTTACACGTAAATCACAAATC
Found at i:59657687 original size:44 final size:42
Alignment explanation
Indices: 59657591--59657706 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 42
59657581 AACAAATATT
* * * * * * *
59657591 GATGCCACTGTCCCAAAAAAGGGCTTACACGAAATCATATAC
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAAAC
*
59657633 GATGCCAATGTCCTAGACATGGTCTTACACGTAAATCACAAATC
1 GATGCCAATGTCCCAGACATGGTCTTACACG-AAATCACAAA-C
**
59657677 GATGCCAATGTCCCAGATGTGGTCTTACAC
1 GATGCCAATGTCCCAGACATGGTCTTACAC
59657707 AATAACACAT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 25 0.41
43 8 0.13
44 28 0.46
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAAAC
Found at i:59662276 original size:40 final size:40
Alignment explanation
Indices: 59662221--59662426 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
59662211 TGAATGATAC
*
59662221 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
59662261 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
** *
59662301 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * ** *
59662341 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
59662381 CCGGGTTAAGA-CCGAAGGCAATTGTGCTTG-GGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
59662419 CC-GGCTAA
1 CCGGGCTAA
59662427 ATTCCGAAGA
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
37 5 0.03
38 5 0.03
39 17 0.12
40 115 0.80
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:59670411 original size:40 final size:40
Alignment explanation
Indices: 59670356--59670561 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
59670346 TGAATGATAC
*
59670356 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
59670396 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
** *
59670436 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * ** *
59670476 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
59670516 CCGGGTTAAGA-CCGAAGGCAATTGTGCTTG-GGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
59670554 CC-GGCTAA
1 CCGGGCTAA
59670562 ATTCCGAAGA
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
37 5 0.03
38 5 0.03
39 17 0.12
40 115 0.80
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:59673060 original size:101 final size:101
Alignment explanation
Indices: 59672881--59673062 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
59672871 TGGTTTTAGG
* *
59672881 TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTAC
* *
59672946 TAATTACACGCTACTATGCGTACCCAACAACTTCAA
66 AAAGTACACGCTACTATGCGTACCCAACAACTTCAA
** * * *
59672982 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTAC
* *
59673047 AAAGTGCAGGCTACTA
66 AAAGTACACGCTACTA
59673063 CGTGTACCAG
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTAC
AAAGTACACGCTACTATGCGTACCCAACAACTTCAA
Found at i:59673110 original size:151 final size:152
Alignment explanation
Indices: 59672834--59673126 Score: 462
Period size: 151 Copynumber: 1.9 Consensus size: 152
59672824 TGAGAACACA
* * *
59672834 TGTGTAGTACTATGTACAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTACAGGCTACTATGTGTATAAGATGG-TTTAGGTCACGTGTGTAGTACAAA
* *
59672899 GTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAATTACACGCTACTATG
65 GTGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTACACGCTACTATG
59672964 CGTACCCAACAACTTCAATCACG
130 CGTACCCAACAACTTCAATCACG
* *
59672987 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGG-TTAGGTCACGTGTGTAGTACAAAG
1 TGTGTAGTACTAAGTACAGGCTACTATGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACAAAG
* * * *
59673051 TGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGC
66 TGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTACACGCTACTATGC
*
59673116 GTACCCGACAA
131 GTACCCAACAA
59673127 GGTACGGACA
Statistics
Matches: 128, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
151 92 0.72
153 36 0.28
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (152 bp):
TGTGTAGTACTAAGTACAGGCTACTATGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACAAAG
TGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTACACGCTACTATGC
GTACCCAACAACTTCAATCACG
Found at i:59673120 original size:50 final size:50
Alignment explanation
Indices: 59672830--59673120 Score: 280
Period size: 50 Copynumber: 5.8 Consensus size: 50
59672820 TTTGTGAGAA
* * *** *
59672830 CACATGTGTAGTACTATGTACAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGT
* * **
59672882 CACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * * * * *
59672932 CGCATGTGTAGTACTAATTACACGCTACTATGCGTACCCA-ACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGA-TAGTT-AGGT
* * *
59672983 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * *
59673033 CACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
** *
59673083 TGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
59673121 CGACAAGGTA
Statistics
Matches: 191, Mismatches: 43, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.01
50 117 0.61
51 38 0.20
52 35 0.18
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
Found at i:59675881 original size:40 final size:39
Alignment explanation
Indices: 59675836--59676002 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 39
59675826 CGGAATACAA
59675836 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
59675876 CCGGATAGATCGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
59675916 CCGGATGTAGCCACTAGCACAATTGCCTTC-GGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * *
59675955 CCGGATATAATTTCCA--GCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA---CCACTGCACAAATGCCTTCGGGTCTTAGC
59675995 CCGGATAT
1 CCGGATAT
59676003 CATTCAATTG
Statistics
Matches: 103, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
39 28 0.27
40 72 0.70
42 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:59683968 original size:40 final size:40
Alignment explanation
Indices: 59683923--59684089 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
59683913 CGGAATACAA
59683923 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
59683963 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
59684003 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
59684043 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
59684082 CCGGATAT
1 CCGGATAT
59684090 CATTCAATTG
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 25 0.24
40 80 0.76
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:59686137 original size:49 final size:50
Alignment explanation
Indices: 59686057--59686298 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 50
59686047 ATCTATTGTG
*
59686057 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
59686107 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
59686157 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
59686207 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACC-GAATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATT
** * *
59686257 -GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
59686299 AATAGCTTGT
Statistics
Matches: 162, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
49 78 0.48
50 46 0.28
51 38 0.23
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:59686319 original size:101 final size:101
Alignment explanation
Indices: 59686060--59686303 Score: 295
Period size: 100 Copynumber: 2.4 Consensus size: 101
59686050 TATTGTGAGG
*
59686060 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA-ATTGGTCGCA-TGTGTAGTA
1 TCAC-TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATTGGTCACAGTGTGTAGTA
*
59686123 CTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
65 CTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGA
* *
59686160 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GGTTAGGTCAC-GTGTGTAGT
1 TCAC-TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATT-GGTCACAGTGTGTAGT
* * * *
59686223 ACTAAGTGTAGGCTACTACGTGTA-CCGAATAA-TTGGT
64 ACTAAGTGCAGGCTACTACGCGTACCCG-ATAACTTCGA
* * *
59686260 TGCA-TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAATAG
1 T-CACTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
59686304 CTTGTCTACA
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
99 34 0.27
100 52 0.41
101 40 0.32
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (101 bp):
TCACTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATTGGTCACAGTGTGTAGTAC
TAAGTGCAGGCTACTACGCGTACCCGATAACTTCGA
Found at i:59688079 original size:29 final size:29
Alignment explanation
Indices: 59688039--59688112 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
59688029 GTTGAGAGAT
* *
59688039 TGGCACTGAGTGTGCGAGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
59688068 TGGCACTAAGTGTGCGAGTTTAAAGTATA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
59688097 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59688113 CGGCTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:59696129 original size:29 final size:29
Alignment explanation
Indices: 59696089--59696191 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
59696079 GTTGAGAGAT
*
59696089 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
59696118 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
59696147 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
59696176 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59696192 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:59698714 original size:123 final size:123
Alignment explanation
Indices: 59698495--59699079 Score: 1089
Period size: 123 Copynumber: 4.8 Consensus size: 123
59698485 GAATTATGTG
59698495 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
59698560 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
59698618 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
59698683 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
59698741 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
59698806 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
59698864 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
59698929 GCTAAGTCCTGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
* * * * *
59698987 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
59699052 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
59699080 AATTATATCC
Statistics
Matches: 452, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 452 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.35
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:59698723 original size:64 final size:64
Alignment explanation
Indices: 59698646--59698961 Score: 151
Period size: 64 Copynumber: 5.1 Consensus size: 64
59698636 TAATGATTAT
59698646 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
* * * ** * *** * *** * * *
59698710 TGATATGTTTGTGTTTGAG-CCTT--A--GTA-ACGAAAATGAAATATGGATGTGTAATGAT--T
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCG-GGCT-AAGTCCCGAAG-GCAATTATGCT
*
59698767 AT
63 AG
59698769 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
* * * ** * *** * *** * * *
59698833 TGATATGTTTGTGTTTGAG-CCTT--A--GTA-ACGAAAATGAAATATGGATGTGTAATGAT--T
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCG-GGCT-AAGTCCCGAAG-GCAATTATGCT
*
59698890 AT
63 AG
*
59698892 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCTGAAGGCAATTATGCTAG
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
59698956 TGATAT
1 TGATAT
59698962 GTTTGTGTTC
Statistics
Matches: 162, Mismatches: 68, Indels: 44
0.59 0.25 0.16
Matches are distributed among these distances:
58 4 0.02
59 44 0.27
60 16 0.10
61 14 0.09
62 14 0.09
63 16 0.10
64 50 0.31
65 4 0.02
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (64 bp):
TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
Found at i:59699103 original size:40 final size:40
Alignment explanation
Indices: 59699048--59699291 Score: 283
Period size: 40 Copynumber: 6.1 Consensus size: 40
59699038 TGAATGATAC
* * * * **
59699048 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
59699088 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
59699128 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
59699168 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTACAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * *
59699208 CCGGGCTAATACCCGAAGGCATTTGTGCATGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * ** *
59699248 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
59699288 CCGG
1 CCGG
59699292 TTGTATTTCG
Statistics
Matches: 180, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 178 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:59707341 original size:43 final size:42
Alignment explanation
Indices: 59707195--59707341 Score: 138
Period size: 44 Copynumber: 3.4 Consensus size: 42
59707185 TATGTGTTTT
* * * *
59707195 CGTGTAAGACCACGTCTGGGACGTTGGTATC-AACTTATGATTTA
1 CGTGTAAGACCACGTCTGAGAAGTTGGCATCGTA-TT-TGA-TTA
* * * *
59707239 CGTGTAAGACCACATCTAAGACGTTGGCATCGTATTTGATTT
1 CGTGTAAGACCACGTCTGAGAAGTTGGCATCGTATTTGATTA
59707281 CGTGTAAGACC-CTGTCTGAGATAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGAGA-AGTTGGCATCG-TATTTGATTA
*
59707324 CATGTAAGACCACGTCTG
1 CGTGTAAGACCACGTCTG
59707342 TGACATTAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 27 0.31
43 28 0.32
44 30 0.34
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGAGAAGTTGGCATCGTATTTGATTA
Found at i:59710887 original size:40 final size:39
Alignment explanation
Indices: 59710843--59710948 Score: 97
Period size: 39 Copynumber: 2.7 Consensus size: 39
59710833 AAGTGACTAT
* * *
59710843 ATCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAAAAA
1 ATCCGGACTAAG-CCCGAAGGCATTCGTGCAAGTTAAAAA
* * **
59710883 ATCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAA
1 ATCCGGACTAAGCCCGAAGGCATTCGTGCAAGTTAAAAA
* *
59710922 ACCCAGG-TTAAGTCCCGAAGGCATTCG
1 ATCC-GGACTAAG-CCCGAAGGCATTCG
59710949 GGCGAGTCAC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
39 29 0.54
40 25 0.46
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (39 bp):
ATCCGGACTAAGCCCGAAGGCATTCGTGCAAGTTAAAAA
Found at i:59710904 original size:39 final size:40
Alignment explanation
Indices: 59710857--59710955 Score: 119
Period size: 39 Copynumber: 2.5 Consensus size: 40
59710847 GGACTAGGAT
* *
59710857 CCGAAGGCATTCGTGCGAGTTAAAAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTAAAAAACCCAGGCTAAGTC
* * ** *
59710896 CCGAAGGCATTTGTGCAAGTTACTAAACCCAGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAAAAAACCCAGGCTAAGTC
*
59710936 CCGAAGGCATTCGGGCGAGT
1 CCGAAGGCATTCGTGCGAGT
59710956 CACTATAACC
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
39 31 0.63
40 18 0.37
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.20
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTAAAAAACCCAGGCTAAGTC
Found at i:59710968 original size:79 final size:81
Alignment explanation
Indices: 59710804--59710988 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 81
59710794 TCGAATGATG
* * *
59710804 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
* *
59710868 CGTGCGAGTTAAAAAA
66 CGGGCGAGTCAAAAAA
* *
59710884 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCAGG-TTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCC-GGACTAAGAT-CCGAAGGCA
* *
59710945 TTCGGGCGAGTCACTATAA
64 TTCGGGCGAGTCA-AAAAA
**
59710964 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59710989 AGCGAGTCGT
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
78 1 0.01
79 51 0.57
80 37 0.42
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGGGCGAGTCAAAAAA
Found at i:59717197 original size:16 final size:17
Alignment explanation
Indices: 59717176--59717208 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
59717166 ACTACTTTTT
59717176 ATTTTATTTTT-CTTTA
1 ATTTTATTTTTACTTTA
59717192 ATTTTATTTTTACTTTA
1 ATTTTATTTTTACTTTA
59717209 TCCTTAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTATTTTTACTTTA
Found at i:59717766 original size:13 final size:13
Alignment explanation
Indices: 59717748--59717775 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
59717738 GATTAATTTA
59717748 TTCTCAAATAATC
1 TTCTCAAATAATC
59717761 TTCTCAAATAATC
1 TTCTCAAATAATC
59717774 TT
1 TT
59717776 ATAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (13 bp):
TTCTCAAATAATC
Found at i:59720881 original size:12 final size:12
Alignment explanation
Indices: 59720864--59720896 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
59720854 TATATATATC
59720864 AGATAATTCTAA
1 AGATAATTCTAA
59720876 AGATAATTCTAA
1 AGATAATTCTAA
59720888 AGATAATTC
1 AGATAATTC
59720897 AGATTATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (12 bp):
AGATAATTCTAA
Found at i:59731171 original size:30 final size:30
Alignment explanation
Indices: 59731135--59731194 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
59731125 TTCCCAAGCC
*
59731135 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
59731165 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
59731195 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:59733861 original size:43 final size:43
Alignment explanation
Indices: 59733706--59733862 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
59733696 TGTGTTTTTG
* * * **
59733706 TGTAAGACCAAGTCTGGGACGTTGGCACCGACT-TTTGATTTATG
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGA-TTACA
* * * *
59733750 TGTAAGACCACATCTAGGACACTGGCATCG-TATTTGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
* * *
59733792 TGTAAAACC-CTGTCTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTACA
*
59733835 TGTAAGACCACGTCTGTGACATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
59733863 TGTATGAGCT
Statistics
Matches: 90, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 38 0.42
44 25 0.28
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
Found at i:59735208 original size:21 final size:23
Alignment explanation
Indices: 59735177--59735228 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
59735167 TGTAAGGGAC
59735177 TTTGT-AATGATG-TATG-ATTA
1 TTTGTGAATGATGTTATGAATTA
*
59735197 TTTGTGAATGATGTTTGTGAATTA
1 TTTGTGAATGATG-TTATGAATTA
59735221 TTTGTGAA
1 TTTGTGAA
59735229 ATGTTTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 5 0.19
21 7 0.26
23 3 0.11
24 12 0.44
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (23 bp):
TTTGTGAATGATGTTATGAATTA
Found at i:59737845 original size:30 final size:30
Alignment explanation
Indices: 59737809--59737865 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
59737799 GACCCTATGT
59737809 TCGATGGTCAAAACCATCCCTTTTCATTAA
1 TCGATGGTCAAAACCATCCCTTTTCATTAA
**
59737839 TCGATGGTCATCACCATCCCTTTTCAT
1 TCGATGGTCAAAACCATCCCTTTTCAT
59737866 AGTTGGTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.35
Consensus pattern (30 bp):
TCGATGGTCAAAACCATCCCTTTTCATTAA
Found at i:59737906 original size:29 final size:29
Alignment explanation
Indices: 59737821--59737906 Score: 109
Period size: 29 Copynumber: 2.9 Consensus size: 29
59737811 GATGGTCAAA
* *
59737821 ACCATCCCTTTTCATTAATCGATGGTCATC
1 ACCATCCCTTTTCA-TAATCGATGGCCGTC
* * *
59737851 ACCATCCCTTTTCATAGTTGGTGGCCGTC
1 ACCATCCCTTTTCATAATCGATGGCCGTC
*
59737880 ACCATCCCTTTTCATAATCGATAGCCG
1 ACCATCCCTTTTCATAATCGATGGCCG
59737907 AAGCTATCCT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 33 0.70
30 14 0.30
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (29 bp):
ACCATCCCTTTTCATAATCGATGGCCGTC
Found at i:59740904 original size:65 final size:65
Alignment explanation
Indices: 59740834--59740971 Score: 156
Period size: 66 Copynumber: 2.1 Consensus size: 65
59740824 CACGGTCCCA
*
59740834 CACACGGGAGTGTGA-TCGGCCGTGTGGTAC-AAGCCAGTATACCCCT-TAATTTTCACACGGCC
1 CACACGGGAGTGTGACTCGGCCGTGT--TACAAAGCCAGTATA-CCCTATAATTTTCACACGGCA
59740896 TAG
63 TAG
* * * * **
59740899 CACACGGGCGTGTGACTTGGCCGTGTTACATAAGCTAGTATACCCTATAGTTTTGGCACGGCATA
1 CACACGGGAGTGTGACTCGGCCGTGTTACA-AAGCCAGTATACCCTATAATTTTCACACGGCATA
59740964 G
65 G
59740965 CACACGG
1 CACACGG
59740972 CCTGGCATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
64 3 0.05
65 18 0.29
66 41 0.66
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.24
Consensus pattern (65 bp):
CACACGGGAGTGTGACTCGGCCGTGTTACAAAGCCAGTATACCCTATAATTTTCACACGGCATAG
Found at i:59746148 original size:9 final size:9
Alignment explanation
Indices: 59746134--59746165 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
59746124 TTCTTCAGAT
59746134 TGAATCAAA
1 TGAATCAAA
59746143 TGAATCAAA
1 TGAATCAAA
59746152 TGAATCAAA
1 TGAATCAAA
59746161 TGAAT
1 TGAAT
59746166 TGCCTGTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.25
Consensus pattern (9 bp):
TGAATCAAA
Found at i:59749811 original size:48 final size:48
Alignment explanation
Indices: 59749687--59749824 Score: 197
Period size: 48 Copynumber: 2.9 Consensus size: 48
59749677 TGTATCATAT
* * * * *
59749687 CGATGCCAATGCCATATCCTAGATATGGTCTTACAAGGGATC-AATAT
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAAATAC
*
59749734 CAATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAAATAC
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAAATAC
* *
59749782 CGATGCAAATGCCATGTCCCAGACGTGGTCTTACATGGGATCA
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
59749825 CACATAACCC
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 37 0.46
48 44 0.54
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (48 bp):
CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAAATAC
Done.