Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 87 of 126
Found at i:26394455 original size:26 final size:25
Alignment explanation
Indices: 26394417--26394472 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 25
26394407 CTTATTCTTT
*
26394417 AAAAAAAAGAAGCAAAAAGCGCAAA
1 AAAAAAAAAAAGCAAAAAGCGCAAA
26394442 AAAAAAGAAAAAGCAAAAAGCGCAAA
1 AAAAAA-AAAAAGCAAAAAGCGCAAA
26394468 AAAAA
1 AAAAA
26394473 CCGCAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.75, C:0.11, G:0.14, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAAGCAAAAAGCGCAAA
Found at i:26397823 original size:90 final size:90
Alignment explanation
Indices: 26397670--26397849 Score: 333
Period size: 90 Copynumber: 2.0 Consensus size: 90
26397660 CATGTTGGGC
* *
26397670 ATGTTAAATTAGTATTGGATGTGTTAAGGCATGAACGACTCTTTGCTAATCTTGAAAAATGCACC
1 ATGTTAAATTAGTATTGAATGTGTTAAGGCATGAACGACTATTTGCTAATCTTGAAAAATGCACC
26397735 TTTTGTATGGATAAGCTTGTTTTTT
66 TTTTGTATGGATAAGCTTGTTTTTT
*
26397760 ATGTTAAATTAGTATTGAATGTGTTAAGGCATGAATGACTATTTGCTAATCTTGAAAAATGCACC
1 ATGTTAAATTAGTATTGAATGTGTTAAGGCATGAACGACTATTTGCTAATCTTGAAAAATGCACC
26397825 TTTTGTATGGATAAGCTTGTTTTTT
66 TTTTGTATGGATAAGCTTGTTTTTT
26397850 TGGGTTTTGT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (90 bp):
ATGTTAAATTAGTATTGAATGTGTTAAGGCATGAACGACTATTTGCTAATCTTGAAAAATGCACC
TTTTGTATGGATAAGCTTGTTTTTT
Found at i:26400148 original size:31 final size:31
Alignment explanation
Indices: 26400112--26400173 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
26400102 AGATAATTTT
26400112 AAAGAGTTTTATTAAGATTCAATTACTCTTG
1 AAAGAGTTTTATTAAGATTCAATTACTCTTG
*
26400143 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAAGATTCAATTACTCTTG
26400174 TAATTTTCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAAGATTCAATTACTCTTG
Found at i:26402305 original size:25 final size:25
Alignment explanation
Indices: 26402264--26402327 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
26402254 TGCACTTAAA
*
26402264 ACATTC-AATCTCACGAGTCCTCTTC
1 ACATTCGAATCAC-CGAGTCCTCTTC
26402289 ACATTCGAATCACCGAGTCCTCTTC
1 ACATTCGAATCACCGAGTCCTCTTC
* *
26402314 ATATTTGAATCACC
1 ACATTCGAATCACC
26402328 TAAATTGGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 30 0.86
26 5 0.14
ACGTcount: A:0.27, C:0.33, G:0.09, T:0.31
Consensus pattern (25 bp):
ACATTCGAATCACCGAGTCCTCTTC
Found at i:26406432 original size:225 final size:225
Alignment explanation
Indices: 26406041--26406490 Score: 900
Period size: 225 Copynumber: 2.0 Consensus size: 225
26406031 CCACTTTAAC
26406041 AATTTGGCCTGATTTTCAACTAAGTATGATTTGACTTCTTGGTTGGGCTTGAAATCCTCTTATTC
1 AATTTGGCCTGATTTTCAACTAAGTATGATTTGACTTCTTGGTTGGGCTTGAAATCCTCTTATTC
26406106 GGCCTTGCTTTCAAAAACTTGGGCTTGTAGTCCATCTCCTACCGAAATTGGTTCGTTGATGCTCG
66 GGCCTTGCTTTCAAAAACTTGGGCTTGTAGTCCATCTCCTACCGAAATTGGTTCGTTGATGCTCG
26406171 TAACGGAGATCCAATGAGCTTTCGCTGCAAGATTCAGTTTCTTGGACCAAGATTTCCAAGATTTG
131 TAACGGAGATCCAATGAGCTTTCGCTGCAAGATTCAGTTTCTTGGACCAAGATTTCCAAGATTTG
26406236 AAATCTTGATTTTCTTGATTCTTGAAATCG
196 AAATCTTGATTTTCTTGATTCTTGAAATCG
26406266 AATTTGGCCTGATTTTCAACTAAGTATGATTTGACTTCTTGGTTGGGCTTGAAATCCTCTTATTC
1 AATTTGGCCTGATTTTCAACTAAGTATGATTTGACTTCTTGGTTGGGCTTGAAATCCTCTTATTC
26406331 GGCCTTGCTTTCAAAAACTTGGGCTTGTAGTCCATCTCCTACCGAAATTGGTTCGTTGATGCTCG
66 GGCCTTGCTTTCAAAAACTTGGGCTTGTAGTCCATCTCCTACCGAAATTGGTTCGTTGATGCTCG
26406396 TAACGGAGATCCAATGAGCTTTCGCTGCAAGATTCAGTTTCTTGGACCAAGATTTCCAAGATTTG
131 TAACGGAGATCCAATGAGCTTTCGCTGCAAGATTCAGTTTCTTGGACCAAGATTTCCAAGATTTG
26406461 AAATCTTGATTTTCTTGATTCTTGAAATCG
196 AAATCTTGATTTTCTTGATTCTTGAAATCG
26406491 CTCCAAACAG
Statistics
Matches: 225, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
225 225 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (225 bp):
AATTTGGCCTGATTTTCAACTAAGTATGATTTGACTTCTTGGTTGGGCTTGAAATCCTCTTATTC
GGCCTTGCTTTCAAAAACTTGGGCTTGTAGTCCATCTCCTACCGAAATTGGTTCGTTGATGCTCG
TAACGGAGATCCAATGAGCTTTCGCTGCAAGATTCAGTTTCTTGGACCAAGATTTCCAAGATTTG
AAATCTTGATTTTCTTGATTCTTGAAATCG
Found at i:26411755 original size:13 final size:13
Alignment explanation
Indices: 26411737--26411771 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
26411727 AAATCAACTA
26411737 ATTTTTTATATAT
1 ATTTTTTATATAT
26411750 ATTTTTTATATAT
1 ATTTTTTATATAT
*
26411763 AATTTTTAT
1 ATTTTTTAT
26411772 GAATCAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTTTATATAT
Found at i:26412162 original size:110 final size:108
Alignment explanation
Indices: 26412046--26412244 Score: 242
Period size: 109 Copynumber: 1.8 Consensus size: 108
26412036 AAAATTATAA
* * *
26412046 TTGAAATAATCATTTAATTTTTTAATATTAGAATCTATC-ATAC-CTACAATGTAGGTGGAAAAA
1 TTGAAATAATCAATTAATTTTTT-ATATTAAAATCTA-CGATACTC-ACAATGTACGT-GAAAAA
* * * *
26412109 TATAAATAT-TTACATATAAAAGTTATATTTATTAAAATCAATAATAT
62 AATAAACATATAACATA-AAAAATTATATTTATTAAAATCAATAATAT
* * *
26412156 TTGAAATGATTAATTAATTTTTTATATTAAAATTTACGATACTCACAATGTACGTGAAAAAAATA
1 TTGAAATAATCAATTAATTTTTTATATTAAAATCTACGATACTCACAATGTACGTGAAAAAAATA
26412221 AACATATAACATAAAAAATTATAT
66 AACATATAACATAAAAAATTATAT
26412245 ATAAAGAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
108 24 0.32
109 31 0.41
110 21 0.28
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (108 bp):
TTGAAATAATCAATTAATTTTTTATATTAAAATCTACGATACTCACAATGTACGTGAAAAAAATA
AACATATAACATAAAAAATTATATTTATTAAAATCAATAATAT
Found at i:26412529 original size:27 final size:27
Alignment explanation
Indices: 26412498--26412569 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 27
26412488 AACATAATGA
*
26412498 ATAATATAAAAATT-TTATTTTTATTAT
1 ATAATATAAAAATTATTATTTTT-CTAT
* *
26412525 ATAAT-TACATATTATTATTTTTCTAT
1 ATAATATAAAAATTATTATTTTTCTAT
26412551 ATAA-ATAAAGAAATTATTA
1 ATAATAT-AA-AAATTATTA
26412570 ATTAAAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
26 14 0.39
27 14 0.39
28 8 0.22
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (27 bp):
ATAATATAAAAATTATTATTTTTCTAT
Found at i:26413371 original size:3 final size:3
Alignment explanation
Indices: 26413363--26413392 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
26413353 TCTAAACTTG
26413363 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
26413393 TATTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:26415468 original size:15 final size:15
Alignment explanation
Indices: 26415445--26415487 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
26415435 AAACGAGATT
*
26415445 GATTATATGCGAATA
1 GATTGTATGCGAATA
26415460 GATTGTATGCGAATA
1 GATTGTATGCGAATA
26415475 GATTGTATGCGAA
1 GATTGTATGCGAA
26415488 CCACCTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.33
Consensus pattern (15 bp):
GATTGTATGCGAATA
Found at i:26419534 original size:25 final size:25
Alignment explanation
Indices: 26419489--26419586 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 25
26419479 GTCATTAGGG
* **
26419489 TTACCGATTC-CAGCTTTTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
26419513 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
* * * *
26419538 TTACCGTTATTCAGCTCGGAGGAGC
1 TTACCGATACTCAGCTCGTATGAGC
* *
26419563 TTATCGTATA-TC-GCTTGTATGAGC
1 TTACCG-ATACTCAGCTCGTATGAGC
26419587 ATACATGTAT
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
24 18 0.30
25 40 0.67
26 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (25 bp):
TTACCGATACTCAGCTCGTATGAGC
Found at i:26429663 original size:21 final size:21
Alignment explanation
Indices: 26429639--26429731 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
26429629 GTTACAGGGG
*
26429639 TACACGACCATGTGGCTGAGA
1 TACACGACCGTGTGGCTGAGA
*
26429660 TACACGGCCGTGTGGCTGAGA
1 TACACGACCGTGTGGCTGAGA
* * *
26429681 TACACGGCCGTGTGGCTAAGG
1 TACACGACCGTGTGGCTGAGA
* * *
26429702 TACACAACCGTGTGACTGAGG
1 TACACGACCGTGTGGCTGAGA
*
26429723 TATACGACC
1 TACACGACC
26429732 TTATAGGCAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (21 bp):
TACACGACCGTGTGGCTGAGA
Found at i:26434810 original size:29 final size:29
Alignment explanation
Indices: 26434768--26434833 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
26434758 ATAATCAAGG
26434768 TCATAAGTTCATTTAATTGCCTATACACA
1 TCATAAGTTCATTTAATTGCCTATACACA
26434797 TCATAAGTTCATTTAATTGCCTATACACA
1 TCATAAGTTCATTTAATTGCCTATACACA
26434826 TCATAAGT
1 TCATAAGT
26434834 CTCACAAGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.38
Consensus pattern (29 bp):
TCATAAGTTCATTTAATTGCCTATACACA
Found at i:26436557 original size:18 final size:18
Alignment explanation
Indices: 26436534--26436569 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
26436524 GATACTTAAC
26436534 GATTTACCAAAACCACTT
1 GATTTACCAAAACCACTT
26436552 GATTTACCAAAACCACTT
1 GATTTACCAAAACCACTT
26436570 CACTTTGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.06, T:0.28
Consensus pattern (18 bp):
GATTTACCAAAACCACTT
Found at i:26439874 original size:17 final size:16
Alignment explanation
Indices: 26439848--26439893 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
26439838 ATTTCTCACT
26439848 TCATCC-CTCATCTCA
1 TCATCCTCTCATCTCA
26439863 TCATCCCTCTCATCTC-
1 TCAT-CCTCTCATCTCA
26439879 TCATCCTCTC-TCTCA
1 TCATCCTCTCATCTCA
26439894 ACTCTCTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.14
15 10 0.36
16 6 0.21
17 8 0.29
ACGTcount: A:0.15, C:0.48, G:0.00, T:0.37
Consensus pattern (16 bp):
TCATCCTCTCATCTCA
Found at i:26439882 original size:19 final size:19
Alignment explanation
Indices: 26439858--26439899 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
26439848 TCATCCCTCA
*
26439858 TCTCATCATCCCTCTCATC
1 TCTCATCATCCCTCTCAAC
* *
26439877 TCTCATCCTCTCTCTCAAC
1 TCTCATCATCCCTCTCAAC
26439896 TCTC
1 TCTC
26439900 TTAGCTCTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.14, C:0.48, G:0.00, T:0.38
Consensus pattern (19 bp):
TCTCATCATCCCTCTCAAC
Found at i:26444793 original size:45 final size:45
Alignment explanation
Indices: 26444701--26444918 Score: 237
Period size: 45 Copynumber: 4.9 Consensus size: 45
26444691 CCATTACACG
* * *
26444701 GTGG-ATCAGCACATAGC-ACCACCCTTATAATCAATTATATT-CG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGAT-TTCCA
* **
26444744 GTGGAATCAGCATATAGCAACCACCTTTATTTTCAATGATTTCCA
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATTTCCA
* * * * ** *
26444789 GTGGAGTCAACACATAGCAACCACCTTTATAATTAATGGTACCCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATTTCCA
* * *
26444834 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATG-GTACTGA
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATTTC-CA
*
26444879 GTGGAATCAACACATAGCAACCACCTTTATAATCAATGAT
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGAT
26444919 ACTCAGTACA
Statistics
Matches: 144, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
43 4 0.03
44 15 0.10
45 125 0.87
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATTTCCA
Found at i:26444871 original size:90 final size:89
Alignment explanation
Indices: 26444701--26444920 Score: 282
Period size: 90 Copynumber: 2.5 Consensus size: 89
26444691 CCATTACACG
* * * ** *
26444701 GTGGATCAGCACATAGC-ACCACCCTTATAATCAATTATATTCGGTGGAATCAGCATATAGCAAC
1 GTGGATCAACACATAGCAACCACCTTTATAATCAATGATACCCGGTGGAATCAGCACATAGCAAC
** * *
26444765 CACCTTTATTTTCAATGAT-TTCCA
66 CACCTTTATAATCAATGGTACT-CA
* *
26444789 GTGGAGTCAACACATAGCAACCACCTTTATAATTAATGGTACCCGGTGGAATCAGCACATAGCAA
1 GTGGA-TCAACACATAGCAACCACCTTTATAATCAATGATACCCGGTGGAATCAGCACATAGCAA
*
26444854 CCACCTTTATAATCAATGGTACTGA
65 CCACCTTTATAATCAATGGTACTCA
26444879 GTGGAATCAACACATAGCAACCACCTTTATAATCAATGATAC
1 GTGG-ATCAACACATAGCAACCACCTTTATAATCAATGATAC
26444921 TCAGTACACG
Statistics
Matches: 113, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
88 5 0.04
89 11 0.10
90 95 0.84
91 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.27
Consensus pattern (89 bp):
GTGGATCAACACATAGCAACCACCTTTATAATCAATGATACCCGGTGGAATCAGCACATAGCAAC
CACCTTTATAATCAATGGTACTCA
Found at i:26447341 original size:17 final size:17
Alignment explanation
Indices: 26447321--26447364 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
26447311 ACGAAAAGTT
*
26447321 AAAAGTTAAAAAAAATG
1 AAAAATTAAAAAAAATG
26447338 AAAAATTAAAAAAAATG
1 AAAAATTAAAAAAAATG
26447355 AAAAATTAAA
1 AAAAATTAAA
26447365 TTAAAGACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (17 bp):
AAAAATTAAAAAAAATG
Found at i:26452110 original size:26 final size:28
Alignment explanation
Indices: 26452079--26452134 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
26452069 CTATACATCG
*
26452079 TACATTT-A-GAATTTAGTCCCCCTACT
1 TACATTTAAGGAACTTAGTCCCCCTACT
*
26452105 TACATTTCAAGGAACTTAGTCCCTCTACT
1 TACATTT-AAGGAACTTAGTCCCCCTACT
26452134 T
1 T
26452135 TCAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.28
28 1 0.04
29 17 0.68
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.38
Consensus pattern (28 bp):
TACATTTAAGGAACTTAGTCCCCCTACT
Found at i:26457438 original size:125 final size:126
Alignment explanation
Indices: 26457119--26457471 Score: 548
Period size: 126 Copynumber: 2.8 Consensus size: 126
26457109 TAATTTCGAG
** * *
26457119 TTGACGTTTCTGATAAAATAGCATAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
26457184 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAAATATTTTT
* * * *
26457245 TTGATGTTTCTGAGCAAATAGTATAAAATCTCTTCTAGCAAGATGCTATTTAAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * *
26457310 AAATCGCGGCCTCGT-CAGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAAAT-TTTTT
66 AAATCGCGCCCTCGTGGA-CGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAAATATTTTT
* *
26457370 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
26457435 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
26457472 CATGTTTGGG
Statistics
Matches: 204, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
125 98 0.48
126 106 0.52
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAAATATTTTT
Found at i:26460685 original size:116 final size:116
Alignment explanation
Indices: 26460481--26460698 Score: 400
Period size: 116 Copynumber: 1.9 Consensus size: 116
26460471 TGATAAATTG
*
26460481 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATAGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
26460546 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAATACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* *
26460597 TATTAAGTCAAAAAATTGTATTAATAGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATAGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
26460662 TAATACCAGTCAAAACATTTTTCCAAATCTAACATTA
66 TAATACCAGTCAAAACATTTTTCCAAATCTAACATTA
26460699 CGTTAAGGTT
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 98 1.00
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATAGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAATACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:26460735 original size:22 final size:20
Alignment explanation
Indices: 26460700--26460745 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
26460690 CTAACATTAC
26460700 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
26460720 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
26460742 -TTAA
1 GTTAA
26460746 ATTAGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:26460763 original size:29 final size:31
Alignment explanation
Indices: 26460716--26460796 Score: 121
Period size: 29 Copynumber: 2.6 Consensus size: 31
26460706 GTTAGGGTTT
26460716 TTAAGTTAAGGGTTTAGGGTTTTTAATTAA-A
1 TTAAGTT-AGGGTTTAGGGTTTTTAATTAATA
* *
26460747 TTAGGTTAGGG-TTAGGGTTTTTAATTAATT
1 TTAAGTTAGGGTTTAGGGTTTTTAATTAATA
26460777 TTAAGTTAGGGTTTAGGGTT
1 TTAAGTTAGGGTTTAGGGTT
26460797 AAATTAGGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
29 17 0.38
30 14 0.31
31 14 0.31
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (31 bp):
TTAAGTTAGGGTTTAGGGTTTTTAATTAATA
Found at i:26460840 original size:25 final size:25
Alignment explanation
Indices: 26460812--26460949 Score: 137
Period size: 25 Copynumber: 5.7 Consensus size: 25
26460802 AGGTTAGGGT
26460812 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
26460837 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *** *
26460860 --AAATAAC-TCGAAAT-TTTTTTTA
1 TTTTATTACATC-AAATAAACTTCTA
26460882 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
26460907 TTTCATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
26460932 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
26460950 TATCAAAATA
Statistics
Matches: 90, Mismatches: 15, Indels: 16
0.74 0.12 0.13
Matches are distributed among these distances:
20 2 0.02
21 9 0.10
22 2 0.02
23 2 0.02
24 12 0.13
25 63 0.70
ACGTcount: A:0.41, C:0.14, G:0.01, T:0.43
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:26460899 original size:45 final size:44
Alignment explanation
Indices: 26460822--26461009 Score: 182
Period size: 44 Copynumber: 4.1 Consensus size: 44
26460812 TTTTATTACA
*
26460822 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAAT-AATTTCTATTTTATTACATCAAATAATATCAAAATAAC
** * ** *
26460867 TCGAAATTTTTTTTATTTTATTACATCAAATAA-ACTTCTATTTCATTAC
1 TC-AAATAATTTCTATTTTATTACATCAAATAATA--TC-A--AAATAAC
*
26460916 ATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 -TCAAAT-AATTTCTATTTTATTACATCAAATAATATCAAAATAAC
* * *
26460962 TCAAAAAATTTCTATTTTTTTACATAAAATAATATCAAAATAA-
1 TCAAATAATTTCTATTTTATTACATCAAATAATATCAAAATAAC
26461005 TCAAA
1 TCAAA
26461010 ATATTTGTAC
Statistics
Matches: 116, Mismatches: 18, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
43 5 0.04
44 35 0.30
45 29 0.25
46 10 0.09
47 1 0.01
48 1 0.01
49 10 0.09
50 24 0.21
51 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.40
Consensus pattern (44 bp):
TCAAATAATTTCTATTTTATTACATCAAATAATATCAAAATAAC
Found at i:26461449 original size:18 final size:18
Alignment explanation
Indices: 26461426--26461460 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26461416 TGGAAAAGGA
*
26461426 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
26461444 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
26461461 AAATACACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:26463046 original size:22 final size:22
Alignment explanation
Indices: 26463021--26463076 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
26463011 AAATATGGAT
*
26463021 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGAAAA
26463043 TTGAGAGAATTTTGGAAGAAAA
1 TTGAGAGAATTTTGGAAGAAAA
26463065 TTGAGAGGAATT
1 TTGAGA-GAATT
26463077 GAGAGGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGAAAA
Found at i:26463093 original size:12 final size:11
Alignment explanation
Indices: 26463062--26463095 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
26463052 TTTTGGAAGA
26463062 AAATTGAGAGG
1 AAATTGAGAGG
26463073 -AATTGAGAGG
1 AAATTGAGAGG
26463083 AAATATGAGAGG
1 AAAT-TGAGAGG
26463095 A
1 A
26463096 TTTGTTTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.48
11 3 0.14
12 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.35, T:0.18
Consensus pattern (11 bp):
AAATTGAGAGG
Found at i:26464233 original size:21 final size:20
Alignment explanation
Indices: 26464195--26464234 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
26464185 AATTTTAAAA
*
26464195 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTT
26464215 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
26464235 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:26465193 original size:22 final size:22
Alignment explanation
Indices: 26465111--26465190 Score: 94
Period size: 22 Copynumber: 3.7 Consensus size: 22
26465101 AATCTTCAAG
*
26465111 GATATGCAATCTT---AGTTAT
1 GATATGCAATCTTAGAAGATAT
*
26465130 GATATGCAATCTTAGAAGATGT
1 GATATGCAATCTTAGAAGATAT
26465152 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
26465174 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
26465191 GATTTAATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 13 0.25
22 27 0.52
23 12 0.23
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:26465484 original size:15 final size:16
Alignment explanation
Indices: 26465458--26465489 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
26465448 TTTTCCCTTA
26465458 TCATTCATTTTCAAAT
1 TCATTCATTTTCAAAT
26465474 TCATT-ATTTTCAAAT
1 TCATTCATTTTCAAAT
26465489 T
1 T
26465490 TGTTTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (16 bp):
TCATTCATTTTCAAAT
Found at i:26465794 original size:36 final size:37
Alignment explanation
Indices: 26465719--26465794 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 37
26465709 CATACATACG
** *
26465719 TTTTATAATATATACATATACGTACACATTTTTTAAT
1 TTTTATAATATATACATATACACACACATTTTATAAT
* *
26465756 TTTTATAA-ATATATATATACACATACA-TTTATATAT
1 TTTTATAATATATACATATACACACACATTTTATA-AT
26465792 TTT
1 TTT
26465795 CTATGTTTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
35 5 0.15
36 20 0.61
37 8 0.24
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.50
Consensus pattern (37 bp):
TTTTATAATATATACATATACACACACATTTTATAAT
Found at i:26466074 original size:3 final size:3
Alignment explanation
Indices: 26466066--26466092 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
26466056 TTATCTTTTC
26466066 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
26466093 TTTGTTCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:26470449 original size:50 final size:50
Alignment explanation
Indices: 26470394--26470496 Score: 179
Period size: 50 Copynumber: 2.1 Consensus size: 50
26470384 ATGTAGGCGA
* * *
26470394 AAAACAATTTATGTAACAAATACATTTATTAAAAATTTGATATAAATAAT
1 AAAACAAATTATATAACAAATACATTTATAAAAAATTTGATATAAATAAT
26470444 AAAACAAATTATATAACAAATACATTTATAAAAAATTTGATATAAATAAT
1 AAAACAAATTATATAACAAATACATTTATAAAAAATTTGATATAAATAAT
26470494 AAA
1 AAA
26470497 TAATAAATTG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (50 bp):
AAAACAAATTATATAACAAATACATTTATAAAAAATTTGATATAAATAAT
Found at i:26471190 original size:11 final size:12
Alignment explanation
Indices: 26471127--26471191 Score: 68
Period size: 11 Copynumber: 5.8 Consensus size: 12
26471117 AACTAATCCT
26471127 CTCTCAAATTTC
1 CTCTCAAATTTC
26471139 CTCTC-AATTTC
1 CTCTCAAATTTC
*
26471150 CTCTC-AATTTG
1 CTCTCAAATTTC
*
26471161 CTATCAAA-TTC
1 CTCTCAAATTTC
26471172 CT-TCCAAATTT-
1 CTCT-CAAATTTC
26471183 CTCTCAAAT
1 CTCTCAAAT
26471192 CCATATTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
10 1 0.02
11 35 0.76
12 10 0.22
ACGTcount: A:0.26, C:0.31, G:0.02, T:0.42
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:26472109 original size:7 final size:7
Alignment explanation
Indices: 26472097--26472129 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
26472087 TAGTCGATTG
26472097 GTATTTA
1 GTATTTA
26472104 GTATTTA
1 GTATTTA
26472111 GTATTTA
1 GTATTTA
26472118 GTATTTA
1 GTATTTA
26472125 GTATT
1 GTATT
26472130 ATGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:26473319 original size:23 final size:22
Alignment explanation
Indices: 26473289--26475031 Score: 1289
Period size: 23 Copynumber: 78.0 Consensus size: 22
26473279 GAGTTATTAC
26473289 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
26473312 TTAAAAACCATAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
26473334 TTAAAAA-CCTTAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
26473355 TTAAAAACACT-AACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
26473376 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
*** *
26473398 TTAAAAACCCTAAGATAATTTAA
1 TTAAAAACCCTAA-ACCCTTAAA
26473421 TTAAAAACCCTAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
26473443 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* * * *
26473466 TTAAAAACCATAAGCCATTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
26473488 TTAAAAACTCT-AACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
26473509 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
26473532 TTAAAAACCCTAAGCCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* ** *
26473554 TTAAAATCCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
26473577 TTAAAAACCCTAAAACCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
*
26473600 TTAAAAACCCTAAACCCTTAAT
1 TTAAAAACCCTAAACCCTTAAA
** *
26473622 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
26473645 TTAAAAACCATAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
*
26473668 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* * *
26473690 TCAAAAA-CCTTAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
26473711 TTAAAAATCCTAAA-CCGTAAA
1 TTAAAAACCCTAAACCCTTAAA
26473732 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
*
26473755 TTAAAAACCCTAAACCTTTAACTTAA
1 TTAAAAACCCTAAACCCTT-A---AA
** *
26473781 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
26473804 TTAAAAACCCTAAATCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
26473827 ATAAAAACCCTAAACCC-TAACCC
1 TTAAAAACCCTAAACCCTTAA--A
** *
26473850 TTAACTTAAAACCCTAAACTAATTTAA
1 TT-A---AAAACCCTAAAC-CCTTAAA
* * *
26473877 TTTAAAACCCTAAATCTTTAAA
1 TTAAAAACCCTAAACCCTTAAA
* *
26473899 CTTAAAAACTCT-AACCCTTAAC
1 -TTAAAAACCCTAAACCCTTAAA
** *
26473921 TTAAAAACCCTAAACAAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
26473944 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
26473966 TTAAAAA--TTAAACCCTAAACTAA
1 TTAAAAACCCTAAACCCT-TA--AA
* * *
26473989 TTCAATTAAAAACCCTAAACCTTTAAA
1 TT--A--AAAACCCT-AAACCCTTAAA
*
26474016 TTAAAAAACCTTAAACCC-TAAA
1 TT-AAAAACCCTAAACCCTTAAA
**** *
26474038 -CCCTAACCCTTAA--CTT-AA
1 TTAAAAACCCTAAACCCTTAAA
* *
26474056 --AA--ACGCTAAA--C-TAAT
1 TTAAAAACCCTAAACCCTTAAA
* *
26474071 TTAATTAA----AAACTCTTAAA
1 TTAA-AAACCCTAAACCCTTAAA
*
26474090 CTTAAAAACCCT-AACCCTTAAC
1 -TTAAAAACCCTAAACCCTTAAA
* ** *
26474112 TTAAAAACTCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
26474135 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
26474157 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
26474180 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
26474202 TTAAAAA-CCT-AACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
26474222 TTAAAAACCCTAAATCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
26474245 TTAAAAACCCTAAACCATTAAC
1 TTAAAAACCCTAAACCCTTAAA
26474267 TT-AAAACCCT-AACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
26474287 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
26474310 TTAAAAACACTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* **
26474332 TTCAAAACCCTAAACTAATTAAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
26474355 TTAAAAACCCTAACCCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
26474378 TTAAAAATCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
26474400 TTAAAAA-CCTTAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
26474421 TTAAAAACCCT-AACCCATAAA
1 TTAAAAACCCTAAACCCTTAAA
26474442 TTAAAAACCCTAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
* *
26474464 GTTAAAAACCATAAACCCTTAAC
1 -TTAAAAACCCTAAACCCTTAAA
* ** *
26474487 TTAAAAATCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
26474510 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
26474533 ATAAAAACCCTAAACCCTAACCCTTAAC
1 TTAAAAACCCT--A----AACCCTTAAA
* ** **
26474561 TTAAAAACCATAAACTAATTTCA
1 TTAAAAACCCTAAAC-CCTTAAA
* *
26474584 TTAAAGACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
26474606 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
**
26474629 TTAAAAATACTAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
26474651 TTAAAAAACCCTAAACCC-TAACCC
1 TT-AAAAACCCTAAACCCTTAA--A
** *
26474675 TTAACTTAAAACCCTAAACTAATTTAA
1 TT-A---AAAACCCTAAAC-CCTTAAA
* * * *
26474702 TTAAAAAATCATAAACTCTTAAC
1 TT-AAAAACCCTAAACCCTTAAA
** *
26474725 TT-AAAACCCTAAATGCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
26474746 TTAAAAACCAT-AACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
26474767 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
26474790 TTAAAAACCCTAAGCCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
26474812 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
* *
26474835 TTAAAAACCTTAAATCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
26474857 TTTAAAAACCCT-AACCCTTTAAC
1 -TTAAAAACCCTAAACCC-TTAAA
** *
26474880 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
* *
26474903 TTAAAAATCATAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
** *
26474925 CTTAAAAACCCT-AACTAATTTAA
1 -TTAAAAACCCTAAAC-CCTTAAA
* * *
26474948 TTTAAAACCTTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
26474970 TT-AAAACCCT-AACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
26474990 TTAAAAA-CCTTAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
26475011 TTAAAAACCCTTAACCCTTAA
1 TTAAAAACCCTAAACCCTTAA
26475032 CGTTAAAACT
Statistics
Matches: 1360, Mismatches: 260, Indels: 201
0.75 0.14 0.11
Matches are distributed among these distances:
14 1 0.00
15 8 0.01
16 3 0.00
17 2 0.00
18 4 0.00
19 6 0.00
20 61 0.04
21 238 0.17
22 378 0.28
23 548 0.40
24 20 0.01
25 2 0.00
26 20 0.01
27 40 0.03
28 11 0.01
29 12 0.01
30 6 0.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.26
Consensus pattern (22 bp):
TTAAAAACCCTAAACCCTTAAA
Found at i:26473337 original size:45 final size:44
Alignment explanation
Indices: 26473287--26475039 Score: 1305
Period size: 45 Copynumber: 39.2 Consensus size: 44
26473277 TTGAGTTATT
*
26473287 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCATAAACCCTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
* *
26473332 ACTTAAAAA-CCTTAACCCTTAAATTAAAAACACT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
* * ***
26473374 AATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAGATAATTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAA-A-CCCTTA
26473420 A-TTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTT-A
* * * * * *
26473464 AATTAAAAACCATAAGCCATTAACTTAAAAACTCT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
* *
26473507 AATTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAGCCCTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
* ** * *
26473552 ACTTAAAATCCCTAAACTAATTTAATTAAAAACCCTAAAACCTTAA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTT-A
* * **
26473598 AATTAAAAACCCTAAACCCTTAATTTAAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAAC--CCTTA
*
26473644 A-TTAAAAACCATAAACCCTTAAAATTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
* * * * *
26473688 ACTCAAAAA-CCTTAACCCTTAACTTAAAAATCCTAAA-CCGTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
* *
26473730 AATTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
** * *
26473775 ACTTAATTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAATCCTTAA
1 AC----TTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTT-A
** * **
26473825 AAATAAAAACCCTAAACCC-TAACCCTTAACTTAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCTAAACCCTTAA--ATT-A---AAAACCCTAAAC--CCTTA
* * * *
26473876 A-TTTAAAACCCTAAATCTTTAAACTTAAAAACTCT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAA-TTAAAAACCCTAAACCCTTA
** *
26473919 ACTTAAAAACCCTAAACAAATTTAATTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTTA
** * *
26473964 ACTTAAAAATTAAACCCTAAACTAATTCAATTAAAAACCCTAAACCTTTA
1 ACTT---AA--AAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTTA
* *
26474014 AATTAAAAAACCTTAAACCC------T--AAACCCT-AACCCTTA
1 ACTT-AAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
* * * *
26474050 ACTTAAAAACGCTAAA--C-TAATTTAATTAA----AAACTCTTAA
1 ACTTAAAAACCCTAAACCCTTAAATTAA-AAACCCTAAACCCTT-A
* * **
26474089 ACTTAAAAACCCT-AACCCTTAACTTAAAAACTCTAAACTAATTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAAC--CCTTA
* **
26474134 A-TTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAAC--CCTTA
*
26474179 A-TTAAAAACCCTAAACCCTTAACTTAAAAA-CCT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
* * *
26474220 AATTAAAAACCCTAAATCCTTAAAATTAAAAACCCTAAACCATTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
26474265 ACTT-AAAACCCT-AACCCTTAAATTAAAAACCCTAAACCCTTAA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTT-A
* * * * **
26474308 AATTAAAAACACTAAACCCTTAACTTCAAAACCCTAAACTAATTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAAC-CCTTA
* * *
26474353 AATTAAAAACCCTAACCCCTTAAAATTAAAAATCCTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
* * *
26474398 ACTTAAAAA-CCTTAACCCTTAACTTAAAAACCCT-AACCCATA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
* *
26474440 AATTAAAAACCCTAAACCCTTAAAGTTAAAAACCATAAACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAA-TTAAAAACCCTAAACCCTTA
* ** *
26474485 ACTTAAAAATCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTT-A
** * * **
26474531 AAATAAAAACCCTAAACCCTAACCCTTAACTTAAAAACCATAAACTAATT-
1 ACTTAAAAACCCT--A----AACCCTTAAATTAAAAACCCTAAAC-CCTTA
* * * **
26474581 TCATTAAAGACCCTAAACCCTTAACTTAAAAACCCTAAACTAATTTA
1 AC-TTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAAC--CCTTA
**
26474628 A-TTAAAAATACTAAACCCTTAAATTAAAAAACCCTAAACCC-TA
1 ACTTAAAAACCCTAAACCCTTAAATT-AAAAACCCTAAACCCTTA
** * * * *
26474671 ACCCTTAACTTAAAACCCTAAACTAATTTAATTAAAAAATCATAAACTCTTA
1 A--CTT-A---AAAACCCTAAAC-CCTTAAATT-AAAAACCCTAAACCCTTA
** * *
26474723 ACTT-AAAACCCTAAATGCTTAACTTAAAAACCAT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
* *
26474765 AATTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAGCCCTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
** * * *
26474810 ACTTAAAAACCCTAAACTAATTTAATTAAAAACCTTAAATCCTTAA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTT-A
* * **
26474856 ATTTAAAAACCCT-AACCCTTTAACTTAAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCTAAACCC-TTAAATTAAAAACCCTAAAC--CCTTA
* * **
26474902 A-TTAAAAATCATAAACCCTTAAACTTAAAAACCCT-AACTAATTTA
1 ACTTAAAAACCCTAAACCCTTAAA-TTAAAAACCCTAAAC--CCTTA
* * *
26474947 A-TTTAAAACCTTAAACCCTTAACTT-AAAACCCT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
* * *
26474988 ACTTAAAAA-CCTTAACCCTTAACTTAAAAACCCTTAACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
26475031 ACGTTAAAA
1 AC-TTAAAA
26475040 CTTTAAACTA
Statistics
Matches: 1382, Mismatches: 217, Indels: 219
0.76 0.12 0.12
Matches are distributed among these distances:
33 1 0.00
35 10 0.01
36 10 0.01
37 7 0.01
38 9 0.01
39 14 0.01
40 3 0.00
41 31 0.02
42 105 0.08
43 176 0.13
44 166 0.12
45 501 0.36
46 159 0.12
47 6 0.00
48 6 0.00
49 36 0.03
50 82 0.06
51 50 0.04
52 10 0.01
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.26
Consensus pattern (44 bp):
ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
Found at i:26473814 original size:65 final size:65
Alignment explanation
Indices: 26473743--26474324 Score: 273
Period size: 65 Copynumber: 8.8 Consensus size: 65
26473733 TAAAAACCCT
*
26473743 AAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAATTAAAAACCCTAAACTAATTTAATTAA
1 AAACCCTTAAAATTAAAAACCCTAAACCCTTAACTTAATTAAAAACCCTAAACTAATTTAATTAA
*
26473808 AAACCCTAAATCCTTAAAAATAAAAACCCTAAACCC-TAACCCTTAACTT-AAAACCCTAAACTA
1 AAA--C-----CCTTAAAATTAAAAACCCTAAACCCTTAA--CTTAA-TTAAAAACCCTAAACTA
*
26473871 ATTTAATTTA
56 ATTTAATTAA
** * ** *
26473881 AAACCC-T-AAATCTTTAAA-CTTAAAAACTCTAACCCTTAACTTAAAAACCCTAAACAAATTTA
1 AAACCCTTAAAAT-TAAAAACCCTAAACCCT-TAA--CTTAA-TTAAAAACCCTAAACTAATTTA
26473943 ATTAA
61 ATTAA
* * *
26473948 AAACCCTAAACCCTTAACTTAAAAA--TTAAACCCTAAACTAATTCAATTAAAAACCCTAAACCT
1 AAACCCTTAA-----AA-TTAAAAACCCTAAACCCTTAAC---TT-AATTAAAAACCCTAAA-CT
*
26474011 --TTAAATTAA
55 AATTTAATTAA
* ** *
26474020 AAAACCTTAAACCCT--AAACCCT-AACCCTTAAC----TTAAAAACGCTAAACTAATTTAATTA
1 AAACCCTTAAA-ATTAAAAACCCTAAACCCTTAACTTAATTAAAAACCCTAAACTAATTTAATTA
26474078 A
65 A
* * *
26474079 AAACTCTTAAACTTAAAAACCCT-AACCCTTAAC----TTAAAAACTCTAAACTAATTTAATTAA
1 AAACCCTTAAAATTAAAAACCCTAAACCCTTAACTTAATTAAAAACCCTAAACTAATTTAATTAA
* *
26474139 AAACCCTAAACCCTTAACTTAAAAACCCTAAA--C-TAATTTAATTAAAAACCCTAAACCCTTAA
1 AAACCCTTAA-----AA-TTAAAAACCCTAAACCCTTAACTTAATTAAAAACCCTAAA--C-TAA
*
26474201 CTTAA--AA
57 TTTAATTAA
* *
26474208 ACCTAACCCTT-AAATTAAAAACCCTAAATCCTTAA---AATTAAAAACCCTAAAC-CA-TTAAC
1 A---AACCCTTAAAATTAAAAACCCTAAACCCTTAACTTAATTAAAAACCCTAAACTAATTTAA-
26474267 TTAAA
62 TT-AA
*
26474272 ACCCTAACCCTT-AAATTAAAAACCCTAAACCCTTAA---AATTAAAAACACTAAAC
1 A----AACCCTTAAAATTAAAAACCCTAAACCCTTAACTTAATTAAAAACCCTAAAC
26474325 CCTTAACTTC
Statistics
Matches: 417, Mismatches: 41, Indels: 118
0.72 0.07 0.20
Matches are distributed among these distances:
57 2 0.00
58 15 0.04
59 17 0.04
60 55 0.13
61 1 0.00
63 1 0.00
64 15 0.04
65 92 0.22
66 37 0.09
67 35 0.08
68 16 0.04
69 4 0.01
70 2 0.00
71 12 0.03
72 47 0.11
73 54 0.13
74 11 0.03
75 1 0.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.26
Consensus pattern (65 bp):
AAACCCTTAAAATTAAAAACCCTAAACCCTTAACTTAATTAAAAACCCTAAACTAATTTAATTAA
Found at i:26474074 original size:60 final size:59
Alignment explanation
Indices: 26473994--26474152 Score: 209
Period size: 60 Copynumber: 2.7 Consensus size: 59
26473984 ACTAATTCAA
*
26473994 TTAAAAACCCTAAACCT--TTAAATTAAAAAACCTTAAACCCT-AAACCCTAACCCTTAAC
1 TTAAAAACCCTAAA-CTAATTTAATT-AAAAACCTTAAACCCTAAAACCCTAACCCTTAAC
* *
26474052 TTAAAAACGCTAAACTAATTTAATTAAAAACTCTTAAA-CTTAAAAACCCTAACCCTTAAC
1 TTAAAAACCCTAAACTAATTTAATTAAAAAC-CTTAAACCCT-AAAACCCTAACCCTTAAC
* *
26474112 TTAAAAACTCTAAACTAATTTAATTAAAAACCCTAAACCCT
1 TTAAAAACCCTAAACTAATTTAATTAAAAACCTTAAACCCT
26474153 TAACTTAAAA
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
57 2 0.02
58 21 0.24
59 17 0.19
60 49 0.55
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.27
Consensus pattern (59 bp):
TTAAAAACCCTAAACTAATTTAATTAAAAACCTTAAACCCTAAAACCCTAACCCTTAAC
Found at i:26474939 original size:68 final size:67
Alignment explanation
Indices: 26474091--26475021 Score: 609
Period size: 68 Copynumber: 13.8 Consensus size: 67
26474081 ACTCTTAAAC
* * ** *
26474091 TTAAAAACCCT-AACCCTT-AACTTAAAAACTCTAAACTAATTTAA-TTAAAAACCCTAAAC--C
1 TTAAAAACCATAAACCCTTAAACTTAAAAACCCT-AAC--CCTTAACTTAAAAACCCTAAACTAA
*
26474151 CTTAA
63 TTTAA
* ** * **
26474156 CTTAAAAACCCTAAACTAATTTAA-TTAAAAACCCTAAACCCTTAACTTAAAAA-CCT-AAC-CC
1 -TTAAAAACCATAAAC-CCTTAAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAAACTAA
*
26474217 TTAAA
63 TTTAA
* * * * **
26474222 TTAAAAACCCTAAATCCTTAAAATTAAAAACCCTAAACCATTAACTT-AAAACCCT-AAC-CCTT
1 TTAAAAACCATAAACCCTTAAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAAACTAATT
*
26474284 AAA
65 TAA
* * * *
26474287 TTAAAAACCCTAAACCCTTAAAATTAAAAACACTAAACCCTTAACTTCAAAACCCTAAACTAATT
1 TTAAAAACCATAAACCCTTAAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAAACTAATT
*
26474352 AAA
65 TAA
* * * * * **
26474355 TTAAAAACCCTAACCCCTTAAAATTAAAAATCCTAAACCCTTAACTTAAAAA-CCTTAAC--CCT
1 TTAAAAACCATAAACCCTTAAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAAACTAATT
26474417 TAA
65 TAA
* * * * *
26474420 CTTAAAAACCCT-AACCCATAAA-TTAAAAACCCTAAACCCTTAAAGTTAAAAACCATAAAC--C
1 -TTAAAAACCATAAACCCTTAAACTTAAAAACCCT-AACCCTT-AACTTAAAAACCCTAAACTAA
*
26474481 CTTAA
63 TTTAA
** * **
26474486 CTTAAAAATCC-TAAACTAATTTAA-TTAAAAACCCTAAACCCTTAAAAATAAAAACCCTAAACC
1 -TTAAAAA-CCATAAAC-CCTTAAACTTAAAAACCCT-AACCCTT-AACTTAAAAACCCTAAA--
*
26474549 CTAACCCTTAA
59 CTAA--TTTAA
** ** *
26474560 CTTAAAAACCATAAACTAATTTCA-TTAAAGACCCTAAACCCTTAACTTAAAAACCCTAAACTAA
1 -TTAAAAACCATAAAC-CCTTAAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAAACTAA
26474624 TTTAA
63 TTTAA
*
26474629 TTAAAAA-TACTAAACCCTTAAA-TTAAAAAACCCTAAACCC-TAACCCTTAACTTAAAACCCTA
1 TTAAAAACCA-TAAACCCTTAAACTT-AAAAACCCT-AACCCTTAA--CTT-A---AAAACCCTA
26474691 AACTAATTTAA
57 AACTAATTTAA
* * ** * **
26474702 TTAAAAAATCATAAACTCTT-AACTT-AAAACCCTAAATGCTTAACTTAAAAACCAT-AAC-CCT
1 TT-AAAAACCATAAACCCTTAAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAAACTAAT
*
26474763 TAAA
64 TTAA
* *
26474767 TTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAAACTAATT
1 TTAAAAACCATAAACCCTTAAACTTAAAAACCCTAA-CCCTTAACTTAAAAACCCTAAACTAATT
26474832 TAA
65 TAA
* * *
26474835 TTAAAAACCTTAAATCCTTAAATTTAAAAACCCTAACCCTTTAACTTAAAAACCCTAAACTAATT
1 TTAAAAACCATAAACCCTTAAACTTAAAAACCCTAACCC-TTAACTTAAAAACCCTAAACTAATT
26474900 TAA
65 TAA
* ** * * **
26474903 TTAAAAATCATAAACCCTTAAACTTAAAAACCCTAACTAATTTAA-TTTAAAACCTTAAAC--CC
1 TTAAAAACCATAAACCCTTAAACTTAAAAACCCTAAC--CCTTAACTTAAAAACCCTAAACTAAT
26474965 TTAA
64 TTAA
* *
26474969 CTT-AAAACCCT-AACCCTT-AACTTAAAAACCTTAACCCTTAACTTAAAAACCCT
1 -TTAAAAACCATAAACCCTTAAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT
26475022 TAACCCTTAA
Statistics
Matches: 732, Mismatches: 88, Indels: 93
0.80 0.10 0.10
Matches are distributed among these distances:
62 4 0.01
63 9 0.01
64 56 0.08
65 136 0.19
66 98 0.13
67 48 0.07
68 243 0.33
69 13 0.02
70 3 0.00
71 7 0.01
72 12 0.02
73 44 0.06
74 58 0.08
75 1 0.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.26
Consensus pattern (67 bp):
TTAAAAACCATAAACCCTTAAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACTAATTT
AA
Found at i:26475040 original size:22 final size:21
Alignment explanation
Indices: 26474719--26475040 Score: 181
Period size: 22 Copynumber: 14.6 Consensus size: 21
26474709 ATCATAAACT
* **
26474719 CTTAACTTAAAACCCTAAATG
1 CTTAACTTAAAACCCTTAACC
* *
26474740 CTTAACTTAAAAACCATAACC
1 CTTAACTTAAAACCCTTAACC
* *
26474761 CTTAAATTAAAAACCCTAAACC
1 CTTAACTT-AAAACCCTTAACC
*
26474783 CTTAAAATTAAAAACCC-TAAGCC
1 CTT-AACTT-AAAACCCTTAA-CC
* *
26474806 CTTAACTTAAAAACCCTAAACTAA
1 CTTAACTT-AAAACCCTTAAC--C
* * *
26474830 TTTAA-TTAAAAACCTTAAATC
1 CTTAACTTAAAACCCTT-AACC
*
26474851 CTTAAATTTAAAAACCC-TAACC
1 CTT-AACTT-AAAACCCTTAACC
* *
26474873 CTTTAACTTAAAAACCCTAAACTAA
1 C-TTAACTT-AAAACCCTTAAC--C
* * * *
26474898 TTTAA-TTAAAAATCATAAACC
1 CTTAACTT-AAAACCCTTAACC
*
26474919 CTTAAACTTAAAAACCC-TAACTAA
1 CTT-AACTT-AAAACCCTTAAC--C
* *
26474943 TTTAATTTAAAA-CCTTAAACC
1 CTTAACTTAAAACCCTT-AACC
26474964 CTTAACTTAAAACCC-TAACC
1 CTTAACTTAAAACCCTTAACC
*
26474984 CTTAACTTAAAAACCTTAACC
1 CTTAACTTAAAACCCTTAACC
26475005 CTTAACTTAAAAACCCTTAACC
1 CTTAACTT-AAAACCCTTAACC
26475027 CTTAACGTTAAAAC
1 CTTAAC-TTAAAAC
26475041 TTTAAACTAG
Statistics
Matches: 237, Mismatches: 40, Indels: 47
0.73 0.12 0.15
Matches are distributed among these distances:
20 18 0.08
21 53 0.22
22 88 0.37
23 62 0.26
24 16 0.07
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAACTTAAAACCCTTAACC
Found at i:26478476 original size:125 final size:124
Alignment explanation
Indices: 26478254--26478630 Score: 619
Period size: 125 Copynumber: 3.0 Consensus size: 124
26478244 CCAAACATGT
* * * * * *
26478254 TACTGTAGTAAAAGTGCGTCCACGAGGGTACGCTTTCACAAATTATTCTCAAATAGCATCTTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAACAGCATC-TGCT
*
26478319 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCATGACC
65 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACC
*
26478379 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAACAGCATACTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAACAGCAT-CTGCT
26478444 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACC
65 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACC
* * *
26478504 TACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTATCAAACAACATTCTTCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAACAGCA-TCTGCT
*
26478569 AGAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACC
65 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACC
26478629 TA
1 TA
26478631 AAAGCCCTAA
Statistics
Matches: 237, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
125 235 0.99
126 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (124 bp):
TACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAACAGCATCTGCTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACC
Found at i:26478641 original size:9 final size:9
Alignment explanation
Indices: 26478627--26478682 Score: 61
Period size: 9 Copynumber: 6.8 Consensus size: 9
26478617 TCTTCCAGGA
26478627 CCTAAAAGC
1 CCTAAAAGC
26478636 CCTAAAAAGC
1 CCT-AAAAGC
26478646 CC--AAA-C
1 CCTAAAAGC
26478652 CCT-AAA-C
1 CCTAAAAGC
26478659 CCTAAAAGC
1 CCTAAAAGC
26478668 CCTAAAAGC
1 CCTAAAAGC
26478677 CC-AAAA
1 CCTAAAA
26478683 AACCTAACGG
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
6 3 0.07
7 10 0.23
8 7 0.16
9 15 0.35
10 8 0.19
ACGTcount: A:0.48, C:0.36, G:0.07, T:0.09
Consensus pattern (9 bp):
CCTAAAAGC
Found at i:26492671 original size:13 final size:13
Alignment explanation
Indices: 26492636--26492665 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
26492626 TTTGGTCTTG
26492636 AAGTACCATATCT
1 AAGTACCATATCT
26492649 AAGTACCATATCT
1 AAGTACCATATCT
26492662 AAGT
1 AAGT
26492666 GTCATAGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (13 bp):
AAGTACCATATCT
Found at i:26513607 original size:9 final size:8
Alignment explanation
Indices: 26513591--26513615 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26513581 ACCCACAAAA
26513591 TATTTTTT
1 TATTTTTT
26513599 TATTTTTT
1 TATTTTTT
26513607 TATTTTTT
1 TATTTTTT
26513615 T
1 T
26513616 CGTATTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TATTTTTT
Found at i:26517433 original size:34 final size:34
Alignment explanation
Indices: 26517390--26517472 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
26517380 TACGATGTGG
*
26517390 TATGAATGAATTATTATATTGAATGAAATGTTA-
1 TATGCATGAATTATTATATTGAATGAAATGTTAT
* * * *
26517423 TATTGTATGAACTATTATATTGAATGAACTGTTCT
1 TA-TGCATGAATTATTATATTGAATGAAATGTTAT
26517458 TATGCATGAATTATT
1 TATGCATGAATTATT
26517473 TTTTTCATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 2 0.05
34 38 0.90
35 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (34 bp):
TATGCATGAATTATTATATTGAATGAAATGTTAT
Found at i:26517451 original size:17 final size:17
Alignment explanation
Indices: 26517392--26517452 Score: 86
Period size: 17 Copynumber: 3.6 Consensus size: 17
26517382 CGATGTGGTA
*
26517392 TGAATGAATTATTATAT
1 TGAATGAACTATTATAT
* *
26517409 TGAATGAAATGTTATAT
1 TGAATGAACTATTATAT
*
26517426 TGTATGAACTATTATAT
1 TGAATGAACTATTATAT
26517443 TGAATGAACT
1 TGAATGAACT
26517453 GTTCTTATGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (17 bp):
TGAATGAACTATTATAT
Found at i:26521190 original size:21 final size:21
Alignment explanation
Indices: 26521166--26521215 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
26521156 CTAATCTCAC
*
26521166 CTCACCGTTACAGT-ATCTAAT
1 CTCACCGCTACAGTAAT-TAAT
**
26521187 CTCAAAGCTACAGTAATTAAT
1 CTCACCGCTACAGTAATTAAT
26521208 CTCACCGC
1 CTCACCGC
26521216 CACCACTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.32, C:0.30, G:0.10, T:0.28
Consensus pattern (21 bp):
CTCACCGCTACAGTAATTAAT
Found at i:26522538 original size:36 final size:36
Alignment explanation
Indices: 26522498--26522576 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
26522488 GGCGGTGGTC
26522498 TTGGGCCAGCTGTTGGGCGTGATTATGGGCACAATT
1 TTGGGCCAGCTGTTGGGCGTGATTATGGGCACAATT
* * * * * *
26522534 TTGGGCCATCTTTTGTGCGTGGTTTTGGGCGCAATT
1 TTGGGCCAGCTGTTGGGCGTGATTATGGGCACAATT
26522570 TTGGGCC
1 TTGGGCC
26522577 GTATGTTGGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.11, C:0.18, G:0.35, T:0.35
Consensus pattern (36 bp):
TTGGGCCAGCTGTTGGGCGTGATTATGGGCACAATT
Found at i:26533382 original size:16 final size:16
Alignment explanation
Indices: 26533361--26533395 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
26533351 TGCTACTTGT
26533361 TTTCATT-TTATTTTTA
1 TTTCATTGTTA-TTTTA
26533377 TTTCATTGTTATTTTA
1 TTTCATTGTTATTTTA
26533393 TTT
1 TTT
26533396 ACTCATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTCATTGTTATTTTA
Found at i:26550522 original size:18 final size:19
Alignment explanation
Indices: 26550501--26550542 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
26550491 ATCAAGGACT
* *
26550501 AATTTGAAATAAA-CAGAA
1 AATTTGAAAAAAATCAAAA
*
26550519 AATTTTAAAAAAATCAAAA
1 AATTTGAAAAAAATCAAAA
26550538 AATTT
1 AATTT
26550543 TAGAAACAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (19 bp):
AATTTGAAAAAAATCAAAA
Found at i:26551797 original size:45 final size:45
Alignment explanation
Indices: 26551748--26551910 Score: 152
Period size: 45 Copynumber: 3.6 Consensus size: 45
26551738 CCCGAAGTAG
* *
26551748 TGTCATAGTATCTTTCAACTATGGTTTTGA-TC--GTTACTGATGTGA
1 TGTCATAGTATCTTTCAACTATGGTCTT-ATTCGTGTTA--GATGTAA
*
26551793 TGTCATAGTATCTTTCAACTATGGTCTTATTCGTGTTAGATTTAA
1 TGTCATAGTATCTTTCAACTATGGTCTTATTCGTGTTAGATGTAA
* * ** * * * * * *
26551838 TGTCATAATATCTTTCAACTATGGCCTTACACATATTCGGTTTAG
1 TGTCATAGTATCTTTCAACTATGGTCTTATTCGTGTTAGATGTAA
*
26551883 TGCCATAGTATCTTTCAACTATGGTCTT
1 TGTCATAGTATCTTTCAACTATGGTCTT
26551911 TATCATTTCG
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.01
45 95 0.95
47 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.44
Consensus pattern (45 bp):
TGTCATAGTATCTTTCAACTATGGTCTTATTCGTGTTAGATGTAA
Found at i:26551941 original size:44 final size:45
Alignment explanation
Indices: 26551796--26551960 Score: 144
Period size: 45 Copynumber: 3.7 Consensus size: 45
26551786 GATGTGATGT
* * * * * *
26551796 CATAGTATCTTTCAACTATGGTC-TTATTCGTGTTAGATTTAATGT
1 CATA-TATCTTTCAACTATGGTCTTTACTCATATTCGGTTTAATGC
* * *
26551841 CATAATATCTTTCAACTATGG-CCTTACACATATTCGGTTTAGTGC
1 CAT-ATATCTTTCAACTATGGTCTTTACTCATATTCGGTTTAATGC
* *
26551886 CATAGTATCTTTCAACTATGGTCTTTA-TCAT-TTCGGGTTAATAC
1 CATA-TATCTTTCAACTATGGTCTTTACTCATATTCGGTTTAATGC
26551930 CATGATATCTTTCAA-TCATGGTCTTT-CTCAT
1 CAT-ATATCTTTCAACT-ATGGTCTTTACTCAT
26551961 TTCTCAATCC
Statistics
Matches: 100, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 38 0.38
45 56 0.56
46 5 0.05
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (45 bp):
CATATATCTTTCAACTATGGTCTTTACTCATATTCGGTTTAATGC
Found at i:26560377 original size:12 final size:13
Alignment explanation
Indices: 26560360--26560390 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
26560350 AGAAAATTAT
26560360 TTAATTGAGA-AA
1 TTAATTGAGATAA
26560372 TTAATTGAGATAA
1 TTAATTGAGATAA
26560385 TTAATT
1 TTAATT
26560391 TAATTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (13 bp):
TTAATTGAGATAA
Found at i:26564513 original size:4 final size:4
Alignment explanation
Indices: 26564504--26564532 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
26564494 ACATAGTAAG
26564504 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
26564533 ATATTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:26565676 original size:41 final size:41
Alignment explanation
Indices: 26565619--26565814 Score: 266
Period size: 41 Copynumber: 4.8 Consensus size: 41
26565609 TTATATAAAA
* * * * * *
26565619 CACCGGCATAAAGCCTGCTAGACACAAAGTCCGATACATTT
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCCAATACATTT
* **
26565660 CACCGGCACAGAGCCTGCTAGGCATAAATCCTGATACATTT
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCCAATACATTT
* *
26565701 CACCAGTACAGAGCCTGCTAGGCATAAAGCCCAATACATTT
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCCAATACATTT
*
26565742 CACTGGCACAGAGCCTGCTAGGCATAAAGCCCAATACATTT
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCCAATACATTT
* *
26565783 CATCAGCACAGAGCCTGCTAGGCATAAAGCCC
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCC
26565815 GAACTTACAA
Statistics
Matches: 137, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 137 1.00
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (41 bp):
CACCGGCACAGAGCCTGCTAGGCATAAAGCCCAATACATTT
Found at i:26566021 original size:47 final size:47
Alignment explanation
Indices: 26565951--26566299 Score: 252
Period size: 47 Copynumber: 6.9 Consensus size: 47
26565941 AAATATATAT
*
26565951 ATATACATTCAGCCATAGTTTAATTCATTTCTCTGCATAACAATTAC
1 ATATACATTCAGCCATAGATTAATTCATTTCTCTGCATAACAATTAC
* ** * *
26565998 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATAT
1 ATATACATTCAGCCATAGATTAATTCATTTCTCTGCATAAC--A-AT-TAC
* * *
26566049 ATATACATTCGGCCATAGTTTAATTTATTTCTCTGCATAACAATTAC
1 ATATACATTCAGCCATAGATTAATTCATTTCTCTGCATAACAATTAC
* ** * *
26566096 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATATAT
1 ATATACATTCAGCCATAGATTAATTCATTTCTCTGCATAAC----A-AT-TAC
* * * * *
26566149 ATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAACAAATAT
1 ATATACATTCAGCCAT-A--GAT-TAA-TTC-----A-TT-TCTC--TGCATAACAATTAC
* *
26566210 ATATACATTC-GTCCATAGTTTAATTCATTTCTCTGTATAACAATTAC
1 ATATACATTCAG-CCATAGATTAATTCATTTCTCTGCATAACAATTAC
*
26566257 ATATACATTCAGCTATAGATTAATTCATTT-TCATGCATAACAA
1 ATATACATTCAGCCATAGATTAATTCATTTCTC-TGCATAACAA
26566300 ATATATTTAT
Statistics
Matches: 236, Mismatches: 39, Indels: 54
0.72 0.12 0.16
Matches are distributed among these distances:
46 2 0.01
47 118 0.50
48 3 0.01
49 5 0.02
50 4 0.02
51 38 0.16
52 2 0.01
53 16 0.07
54 1 0.00
56 5 0.02
57 6 0.03
58 4 0.02
60 2 0.01
61 17 0.07
62 1 0.00
63 2 0.01
64 2 0.01
65 1 0.00
67 7 0.03
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (47 bp):
ATATACATTCAGCCATAGATTAATTCATTTCTCTGCATAACAATTAC
Found at i:26566089 original size:98 final size:98
Alignment explanation
Indices: 26565920--26566165 Score: 438
Period size: 98 Copynumber: 2.5 Consensus size: 98
26565910 TAACTTCAAA
* * *
26565920 TAATTTATTTCAATGCATAACAAATATATATATATACATTCAGCCATAGTTTAATTCATTTCTCT
1 TAATTCATTTCAATGTATAACAAATATATATATATACATTCGGCCATAGTTTAATTCATTTCTCT
26565985 GCATAACAATTACATATACATTCAGCTATAGAT
66 GCATAACAATTACATATACATTCAGCTATAGAT
*
26566018 TAATTCATTTCAATGTATAACAAATATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
1 TAATTCATTTCAATGTATAACAAATATATATATATACATTCGGCCATAGTTTAATTCATTTCTCT
26566083 GCATAACAATTACATATACATTCAGCTATAGAT
66 GCATAACAATTACATATACATTCAGCTATAGAT
26566116 TAATTCATTTCAATGTATAACAAATATATATATATATACATTCGGCCATA
1 TAATTCATTTCAATGTATAAC-AA-ATATATATATATACATTCGGCCATA
26566166 ACCTATGTAA
Statistics
Matches: 142, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
98 115 0.81
99 2 0.01
100 25 0.18
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (98 bp):
TAATTCATTTCAATGTATAACAAATATATATATATACATTCGGCCATAGTTTAATTCATTTCTCT
GCATAACAATTACATATACATTCAGCTATAGAT
Found at i:26566299 original size:161 final size:165
Alignment explanation
Indices: 26566018--26566319 Score: 488
Period size: 161 Copynumber: 1.8 Consensus size: 165
26566008 AGCTATAGAT
* *
26566018 TAATTCATTTCAATGTATAACAAATATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
1 TAATTCATTTCAATGCATAAC-AATATATATATATACATTCGGCCATAGTTTAATTCATTTCTCT
*
26566083 GCATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATA-TAT
65 GCATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAATGCATAACAAATATATTAT
26566147 ATATATACATTCGGCCATAACCTATGTAATTTCAAA
130 ATATATACATTCGGCCATAACCTATGTAATTTCAAA
* *
26566183 TAATTTATTTCAATGCATAAC-A-A-ATATATATACATTCGTCCATAGTTTAATTCATTTCTCTG
1 TAATTCATTTCAATGCATAACAATATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTG
*
26566245 TATAACAATTACATATACATTCAGCTATAGATTAATTCATTTTC-ATGCATAACAAATATATTTA
66 CATAACAATTACATATACATTCAGCTATAGATTAATTCA-TTTCAATGCATAACAAATATA-TTA
26566309 TATATATACAT
129 TATATATACAT
26566320 ACGTAGTTAA
Statistics
Matches: 128, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
161 90 0.70
162 5 0.04
163 14 0.11
165 19 0.15
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (165 bp):
TAATTCATTTCAATGCATAACAATATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTG
CATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAATGCATAACAAATATATTATA
TATATACATTCGGCCATAACCTATGTAATTTCAAA
Found at i:26579779 original size:20 final size:20
Alignment explanation
Indices: 26579748--26579804 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
26579738 TCATTATAAT
26579748 ATAATATAATATATATACTTA
1 ATAAT-TAATATATATACTTA
*
26579769 ATAATTAATATATAATATTTA
1 ATAATTAATATAT-ATACTTA
26579790 AT-ATTACA-ATATATA
1 ATAATTA-ATATATATA
26579805 TTTTAACTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.09
20 16 0.48
21 14 0.42
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAATTAATATATATACTTA
Found at i:26588495 original size:20 final size:20
Alignment explanation
Indices: 26588466--26588508 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
26588456 AAATTTAACA
*
26588466 TTAATAATATTTTTAA-ATT
1 TTAATAATATTCTTAATATT
26588485 TTAAGTAATATTCTTAATATT
1 TTAA-TAATATTCTTAATATT
26588506 TTA
1 TTA
26588509 CTAGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATATTCTTAATATT
Found at i:26588627 original size:24 final size:26
Alignment explanation
Indices: 26588585--26588633 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
26588575 AATTGTTCAT
26588585 AATATAAATTATGAATATTT-TTTAG
1 AATATAAATTATGAATATTTGTTTAG
**
26588610 AATATAAA-TATGGTTATTTGTTTA
1 AATATAAATTATGAATATTTGTTTA
26588634 TATCCTACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (26 bp):
AATATAAATTATGAATATTTGTTTAG
Found at i:26589301 original size:21 final size:20
Alignment explanation
Indices: 26589277--26589338 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 20
26589267 TATTTTACAC
26589277 AAAATC-ATTTATACATAAAAA
1 AAAATCAATTT-T-CATAAAAA
*
26589298 AAAATCAACTTTTTCAAAAAAA
1 AAAATCAA--TTTTCATAAAAA
*
26589320 AAAATCTATTTCTCATAAA
1 AAAATCAATTT-TCATAAA
26589339 TTATTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
20 3 0.09
21 12 0.35
22 15 0.44
23 1 0.03
24 3 0.09
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATCAATTTTCATAAAAA
Found at i:26592720 original size:162 final size:162
Alignment explanation
Indices: 26592453--26592776 Score: 567
Period size: 162 Copynumber: 2.0 Consensus size: 162
26592443 AAATTTTTTG
* * *
26592453 AGTGGCTAACTTTTGATTTATTGCTTCAAAGTTCAGCTTGTTTAGCTTTGCCTTTATACATTATG
1 AGTGGCTAACTTTTGATTTATCGCTTCAAAGCTCAGCTTGTTTAGCTCTGCCTTTATACATTATG
**
26592518 TAGTGGAATGTATAACTTGTCCTTTATTACGAATGTAGTTGTCATGTTGAGTTGACAGATGAGTG
66 TAGTGGAATGTATAACTCATCCTTTATTACGAATGTAGTTGTCATGTTGAGTTGACAGATGAGTG
*
26592583 ATGTTAGATTGGTCTTGTTAATTTTCAGGATT
131 ATGCTAGATTGGTCTTGTTAATTTTCAGGATT
26592615 AGTGGCTAACTTTTGATTTATCGCTTCAAAGCTCAGCTTGTTTAGCTCTGCCTTTATACATTATG
1 AGTGGCTAACTTTTGATTTATCGCTTCAAAGCTCAGCTTGTTTAGCTCTGCCTTTATACATTATG
*
26592680 TAGTGGAATGTATAACTCATCCTTTATTATGAATGTAGTTGTCATGTTGAGTTGACAGATGAGTG
66 TAGTGGAATGTATAACTCATCCTTTATTACGAATGTAGTTGTCATGTTGAGTTGACAGATGAGTG
* *
26592745 ATGCTAGATTGGTCTTGTTGATTTTCGGGATT
131 ATGCTAGATTGGTCTTGTTAATTTTCAGGATT
26592777 CTAGATGCCT
Statistics
Matches: 153, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
162 153 1.00
ACGTcount: A:0.23, C:0.12, G:0.22, T:0.43
Consensus pattern (162 bp):
AGTGGCTAACTTTTGATTTATCGCTTCAAAGCTCAGCTTGTTTAGCTCTGCCTTTATACATTATG
TAGTGGAATGTATAACTCATCCTTTATTACGAATGTAGTTGTCATGTTGAGTTGACAGATGAGTG
ATGCTAGATTGGTCTTGTTAATTTTCAGGATT
Found at i:26606493 original size:22 final size:22
Alignment explanation
Indices: 26606465--26606506 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
26606455 CTTGGAGTTC
* *
26606465 ACAGAGAATGTCAGTACTAGGG
1 ACAGAGAATGCCAATACTAGGG
26606487 ACAGAGAATGCCAATACTAG
1 ACAGAGAATGCCAATACTAG
26606507 AGGCAGTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (22 bp):
ACAGAGAATGCCAATACTAGGG
Found at i:26609107 original size:71 final size:72
Alignment explanation
Indices: 26608991--26609143 Score: 254
Period size: 71 Copynumber: 2.1 Consensus size: 72
26608981 CGGGGAATCA
* *
26608991 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAAT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAAT
26609055 GGATATC
66 GGATATC
***
26609062 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAAT
26609127 GGATATC
66 GGATATC
26609134 GCACTTAGCA
1 GCACTTAGCA
26609144 CCACCAATGA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 46 0.61
72 30 0.39
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (72 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAAT
GGATATC
Found at i:26609188 original size:104 final size:104
Alignment explanation
Indices: 26609062--26609285 Score: 396
Period size: 104 Copynumber: 2.2 Consensus size: 104
26609052 AATGGATATC
*
26609062 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACGGT
*
26609127 GGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCA
66 GGATATCGCACATAGCACCACCAATGAATC-GGGGAATCA
26609166 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACGGT
26609231 GGATATCGCACATAGCACCACCAATGAATCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATGAATCGGGGAATCA
**
26609270 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
26609286 TTATGTACAA
Statistics
Matches: 115, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
104 114 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACGGT
GGATATCGCACATAGCACCACCAATGAATCGGGGAATCA
Found at i:26609647 original size:30 final size:29
Alignment explanation
Indices: 26609613--26609677 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
26609603 TAATCCACCA
26609613 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
26609643 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
26609673 CCCAA
1 CCCAA
26609678 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:26609651 original size:31 final size:30
Alignment explanation
Indices: 26609620--26609677 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
26609610 CCACCCAACT
26609620 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
26609650 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
26609678 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:26613704 original size:58 final size:58
Alignment explanation
Indices: 26613578--26613724 Score: 170
Period size: 58 Copynumber: 2.6 Consensus size: 58
26613568 TCTGCGAGTA
* * * * * *
26613578 ATTTTATACTTAA-AAAAATTTGAAAGATAACCAATTGGGGATGTGGATCCACGAGTT
1 ATTTTATACTTAAGAAAATTTTGAAAGATAACCAACTGGGGATATGAATCCAAGAGCT
* * * * * * *
26613635 GTTTCAGACTTAAGAAAATTTTGGAAGATAACTAGCTGGGGATATGAATCTAAGAGCT
1 ATTTTATACTTAAGAAAATTTTGAAAGATAACCAACTGGGGATATGAATCCAAGAGCT
26613693 ATTTTATACTTAAGAAAATTTTGAAAGATAAC
1 ATTTTATACTTAAGAAAATTTTGAAAGATAAC
26613725 ACAATTAGGA
Statistics
Matches: 72, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
57 10 0.14
58 62 0.86
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (58 bp):
ATTTTATACTTAAGAAAATTTTGAAAGATAACCAACTGGGGATATGAATCCAAGAGCT
Found at i:26613939 original size:69 final size:69
Alignment explanation
Indices: 26613749--26614125 Score: 416
Period size: 69 Copynumber: 5.5 Consensus size: 69
26613739 TCAACTTTTA
* * * * * * * * *
26613749 CTAACTATGTTGGAGGATGCAGTATTTATCCTACAAGCCTTAGTATGACAGGTAGGAGATTTGCT
1 CTAACTGTGTTGGAGGCTGTAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGCTTTGCT
*
26613814 CTTG
66 CTCG
* ** * * * *
26613818 CTAACTATGTTGGAGGC-GGCGATCTTGTCCT-CTGAGCCTTAGTATGACAGTTGGGAGCTTTGC
1 CTAACTGTGTTGGAGGCTGTAGTTTTTATCCTAC-GAGCCTTAATATGACAGTTGGGAGCTTTGC
*
26613881 TCTCA
65 TCTCG
* * * *
26613886 TTAATTGTGTTGGAAGCTGTAGTTTTTATCCTACGAGCCTTAATATGATAGTTGGGAGCTTTGCT
1 CTAACTGTGTTGGAGGCTGTAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGCTTTGCT
26613951 CTCG
66 CTCG
* * *
26613955 CTAACTATGTTGGAGGCTGTGGTTTTTATCCTACGAGCCTTAAGATGACAGTTGGGAGCTTTGCT
1 CTAACTGTGTTGGAGGCTGTAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGCTTTGCT
* *
26614020 TTTG
66 CTCG
* * *
26614024 CTAACTGTGTTGGAGGCTGCAGTTTTTTATCTTGCGAGCCTTAATATGACAGTTGGGAGCTTTGC
1 CTAACTGTGTTGGAGGCTGTAG-TTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGCTTTGC
26614089 TCTCG
65 TCTCG
* * **
26614094 CTAACTGTGTTAGAGGTTACAGTTTTTATCCT
1 CTAACTGTGTTGGAGGCTGTAGTTTTTATCCT
26614126 GAAAGCCTTA
Statistics
Matches: 258, Mismatches: 46, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
67 1 0.00
68 50 0.19
69 145 0.56
70 62 0.24
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (69 bp):
CTAACTGTGTTGGAGGCTGTAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGCTTTGCT
CTCG
Found at i:26614095 original size:139 final size:137
Alignment explanation
Indices: 26613743--26614141 Score: 455
Period size: 139 Copynumber: 2.9 Consensus size: 137
26613733 GAGTTTTCAA
* * * * * * * *
26613743 CTTTTACTAACTATGTTGGAGGATGCAGTATTTATCCTACAAGCCTTAGTATGACAGGTAGGAGA
1 CTTTTACTAACTGTGTTGGAGGCTGCAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGC
* * * *
26613808 TTTGCTCTTGCTAACTATGTTGGAGGC-GGCGATCTTGTCCT-CTGAGCCTT-AGTATGACAGTT
66 TTTGCTCTCGCTAACTATGTTGGAGGCTGG-GTTTTTATCCTAC-GAGCCTTAAG-ATGACAGTT
26613870 GGGAGCTTTG
128 GGGAGCTTTG
* * * * * * *
26613880 CTCTCATTAATTGTGTTGGAAGCTGTAGTTTTTATCCTACGAGCCTTAATATGATAGTTGGGAGC
1 CTTTTACTAACTGTGTTGGAGGCTGCAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGC
26613945 TTTGCTCTCGCTAACTATGTTGGAGGCTGTGGTTTTTATCCTACGAGCCTTAAGATGACAGTTGG
66 TTTGCTCTCGCTAACTATGTTGGAGGCTG-GGTTTTTATCCTACGAGCCTTAAGATGACAGTTGG
26614010 GAGCTTTG
130 GAGCTTTG
* * *
26614018 CTTTTGCTAACTGTGTTGGAGGCTGCAGTTTTTTATCTTGCGAGCCTTAATATGACAGTTGGGAG
1 CTTTTACTAACTGTGTTGGAGGCTGCAG-TTTTTATCCTACGAGCCTTAATATGACAGTTGGGAG
* * * ** *
26614083 CTTTGCTCTCGCTAACTGTGTTAGAGGTTACAGTTTTTATCCTGA-AAGCCTTAAGATGA
65 CTTTGCTCTCGCTAACTATGTTGGAGGCT-GGGTTTTTATCCT-ACGAGCCTTAAGATGA
26614142 TATAAATGTT
Statistics
Matches: 220, Mismatches: 35, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
137 76 0.35
138 56 0.25
139 87 0.40
140 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (137 bp):
CTTTTACTAACTGTGTTGGAGGCTGCAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGC
TTTGCTCTCGCTAACTATGTTGGAGGCTGGGTTTTTATCCTACGAGCCTTAAGATGACAGTTGGG
AGCTTTG
Found at i:26621138 original size:18 final size:19
Alignment explanation
Indices: 26621101--26621141 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
26621091 AATTCATATT
26621101 TTTTAAAAATATATTTTTA
1 TTTTAAAAATATATTTTTA
26621120 TTTTAGAAAATA-A-TTTTA
1 TTTTA-AAAATATATTTTTA
26621138 TTTT
1 TTTT
26621142 CTTTGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
19 6 0.29
20 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTAAAAATATATTTTTA
Found at i:26623996 original size:19 final size:20
Alignment explanation
Indices: 26623963--26624006 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
26623953 ACATTCTATT
26623963 AATTTGACTCTAAATATAAA
1 AATTTGACTCTAAATATAAA
26623983 AATTTGAC-CTAAATATAAA
1 AATTTGACTCTAAATATAAA
26624002 AATTT
1 AATTT
26624007 AACAAGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (20 bp):
AATTTGACTCTAAATATAAA
Found at i:26634172 original size:56 final size:58
Alignment explanation
Indices: 26634065--26634198 Score: 177
Period size: 56 Copynumber: 2.4 Consensus size: 58
26634055 ATAAAAATGG
* * *
26634065 TGAAAATGTAGAAATGAGAAACATTTGGAAATGATTATGGTTTTCTGCAAAATAAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGAAAATGATTATGGTTTTCTCCAAAATAAAAA
** *
26634123 TGAAAATGGAGAAATGA-AATTATTTGAAAATGA-TATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGAAAATGATTATGGTTTTCTCCAAAATAAAAA
26634179 TGAAAAT-GA-AAATGGAGAAA
1 TGAAAATGGAGAAAT-GAGAAA
26634199 TGGAATCATT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
54 4 0.06
55 4 0.06
56 30 0.45
57 13 0.19
58 16 0.24
ACGTcount: A:0.49, C:0.04, G:0.19, T:0.28
Consensus pattern (58 bp):
TGAAAATGGAGAAATGAGAAACATTTGAAAATGATTATGGTTTTCTCCAAAATAAAAA
Found at i:26634249 original size:63 final size:62
Alignment explanation
Indices: 26634113--26634264 Score: 202
Period size: 62 Copynumber: 2.5 Consensus size: 62
26634103 GGTTTTCTGC
* * * *
26634113 AAAATAAAAATGAAAATGGAGAAATGAAATTATTTGAAAATGATATGGTTTTCTCCAAAATG
1 AAAATGAAAATGAAAATGGAGAAATGAAATCATTCGAAAATGATATGGTTTTCTCCAAAACG
* *
26634175 AAAATGAAAATGAAAATGGAGAAATGGAATCATTCGGAAATGA-ACTTGGTTTTCTCCAAAACG
1 AAAATGAAAATGAAAATGGAGAAATGAAATCATTCGAAAATGATA--TGGTTTTCTCCAAAACG
*
26634238 GAAATGAAAATGAAAAT-GA-AAATGAAA
1 AAAATGAAAATGAAAATGGAGAAATGAAA
26634265 AATGAAACTG
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
61 8 0.10
62 40 0.50
63 32 0.40
ACGTcount: A:0.51, C:0.07, G:0.18, T:0.24
Consensus pattern (62 bp):
AAAATGAAAATGAAAATGGAGAAATGAAATCATTCGAAAATGATATGGTTTTCTCCAAAACG
Found at i:26634250 original size:6 final size:6
Alignment explanation
Indices: 26634239--26634276 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
26634229 TCCAAAACGG
*
26634239 AAATGA AAATGA AAATGA AAATGAA AAATGA AACTGA A
1 AAATGA AAATGA AAATGA AAATG-A AAATGA AAATGA A
26634277 TTTATGATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.66, C:0.03, G:0.16, T:0.16
Consensus pattern (6 bp):
AAATGA
Found at i:26634268 original size:13 final size:13
Alignment explanation
Indices: 26634239--26634276 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
26634229 TCCAAAACGG
26634239 AAATGAAAATG-A
1 AAATGAAAATGAA
26634251 AAATGAAAATGAA
1 AAATGAAAATGAA
*
26634264 AAATGAAACTGAA
1 AAATGAAAATGAA
26634277 TTTATGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.66, C:0.03, G:0.16, T:0.16
Consensus pattern (13 bp):
AAATGAAAATGAA
Found at i:26641287 original size:27 final size:27
Alignment explanation
Indices: 26641256--26641316 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 27
26641246 CTATTCAGTA
26641256 ACAGTACAATGTGGGCCTCAGCCCAAT
1 ACAGTACAATGTGGGCCTCAGCCCAAT
* *
26641283 ACAGTAATAATGTGGGCCTTAGCCCAAT
1 ACAGT-ACAATGTGGGCCTCAGCCCAAT
26641311 ACAGTA
1 ACAGTA
26641317 TCGGTACAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (27 bp):
ACAGTACAATGTGGGCCTCAGCCCAAT
Found at i:26641296 original size:28 final size:28
Alignment explanation
Indices: 26641263--26641316 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
26641253 GTAACAGTAC
26641263 AATGTGGGCCTCAGCCCAATACAGTAAT
1 AATGTGGGCCTCAGCCCAATACAGTAAT
*
26641291 AATGTGGGCCTTAGCCCAATACAGTA
1 AATGTGGGCCTCAGCCCAATACAGTA
26641317 TCGGTACAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (28 bp):
AATGTGGGCCTCAGCCCAATACAGTAAT
Found at i:26649459 original size:12 final size:11
Alignment explanation
Indices: 26649431--26649474 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
26649421 AGATAAATGT
*
26649431 TATTTAATTAA
1 TATTTTATTAA
26649442 TATTTTATTAA
1 TATTTTATTAA
* *
26649453 TATTTTTAGTAT
1 TA-TTTTATTAA
26649465 TATTTTATTA
1 TATTTTATTA
26649475 TTAAATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:26654753 original size:24 final size:24
Alignment explanation
Indices: 26654721--26654769 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
26654711 AAAACTCACA
26654721 TCCTTTACTTTGCATATCAAATTC
1 TCCTTTACTTTGCATATCAAATTC
26654745 TCCTTTACTTTGCATATCAAATTC
1 TCCTTTACTTTGCATATCAAATTC
26654769 T
1 T
26654770 TGGAATATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.47
Consensus pattern (24 bp):
TCCTTTACTTTGCATATCAAATTC
Found at i:26658398 original size:12 final size:12
Alignment explanation
Indices: 26658381--26658405 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26658371 TAGAGGCTAT
26658381 TAACAATATTTA
1 TAACAATATTTA
26658393 TAACAATATTTA
1 TAACAATATTTA
26658405 T
1 T
26658406 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:26661402 original size:17 final size:17
Alignment explanation
Indices: 26661375--26661416 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
26661365 CTACTTTATT
26661375 TTTTCAAAATATAATTAC
1 TTTT-AAAATATAATTAC
* *
26661393 TTTTAAAATATTATTAT
1 TTTTAAAATATAATTAC
26661410 TTTTAAA
1 TTTTAAA
26661417 TTTATCTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTAAAATATAATTAC
Found at i:26662880 original size:120 final size:120
Alignment explanation
Indices: 26662667--26662906 Score: 480
Period size: 120 Copynumber: 2.0 Consensus size: 120
26662657 AATTAATGCA
26662667 GGGCATGTAAATTTTTATATATTGAAATACATAAATAGTGTATGTATATTAATTTTAGATTATAA
1 GGGCATGTAAATTTTTATATATTGAAATACATAAATAGTGTATGTATATTAATTTTAGATTATAA
26662732 TTTATTTTTTAATGGAAATAGTGTTGCTTAACCTATGCCATTAAACTCAATCAAT
66 TTTATTTTTTAATGGAAATAGTGTTGCTTAACCTATGCCATTAAACTCAATCAAT
26662787 GGGCATGTAAATTTTTATATATTGAAATACATAAATAGTGTATGTATATTAATTTTAGATTATAA
1 GGGCATGTAAATTTTTATATATTGAAATACATAAATAGTGTATGTATATTAATTTTAGATTATAA
26662852 TTTATTTTTTAATGGAAATAGTGTTGCTTAACCTATGCCATTAAACTCAATCAAT
66 TTTATTTTTTAATGGAAATAGTGTTGCTTAACCTATGCCATTAAACTCAATCAAT
26662907 AATAGTATAG
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.42
Consensus pattern (120 bp):
GGGCATGTAAATTTTTATATATTGAAATACATAAATAGTGTATGTATATTAATTTTAGATTATAA
TTTATTTTTTAATGGAAATAGTGTTGCTTAACCTATGCCATTAAACTCAATCAAT
Found at i:26670393 original size:21 final size:20
Alignment explanation
Indices: 26670347--26670394 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
26670337 TTGTTTCACA
*
26670347 TTTGTTTCTTTTTTTTTCTT
1 TTTGTTTATTTTTTTTTCTT
26670367 TCTTGTTTATTTCTTTTGTT-TT
1 T-TTGTTTATTT-TTTT-TTCTT
26670389 TTTGTT
1 TTTGTT
26670395 CCATCATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 14 0.58
22 7 0.29
23 2 0.08
ACGTcount: A:0.02, C:0.08, G:0.08, T:0.81
Consensus pattern (20 bp):
TTTGTTTATTTTTTTTTCTT
Found at i:26672766 original size:21 final size:21
Alignment explanation
Indices: 26672729--26672779 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
26672719 AGTATTTGTC
26672729 AATATAAATATTTTTAAAAAGA
1 AATATAAATATTTTTAAAAA-A
*
26672751 AATATAATTA-TTTTAAAAAA
1 AATATAAATATTTTTAAAAAA
26672771 ATATATAAA
1 A-ATATAAA
26672780 GTAATGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 15 0.58
22 9 0.35
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AATATAAATATTTTTAAAAAA
Found at i:26673209 original size:14 final size:14
Alignment explanation
Indices: 26673190--26673218 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26673180 AAAATTATCG
26673190 TCCTATTTATGGAT
1 TCCTATTTATGGAT
26673204 TCCTATTTATGGAT
1 TCCTATTTATGGAT
26673218 T
1 T
26673219 AGGGAGGGAC
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:0.21, C:0.14, G:0.14, T:0.52
Consensus pattern (14 bp):
TCCTATTTATGGAT
Found at i:26673558 original size:3 final size:3
Alignment explanation
Indices: 26673550--26673580 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
26673540 TCTTAACCAT
26673550 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
26673581 TTATTTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:26676338 original size:21 final size:21
Alignment explanation
Indices: 26676314--26676356 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
26676304 GAAAAAAATG
*
26676314 AAAAAAATAATAATTACATAA
1 AAAAAAATAATAAATACATAA
* *
26676335 AAAATAATAATAAATACCTAA
1 AAAAAAATAATAAATACATAA
26676356 A
1 A
26676357 TTGAACTGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAAAATAATAAATACATAA
Found at i:26677113 original size:13 final size:13
Alignment explanation
Indices: 26677090--26677124 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
26677080 GTACTTTAGT
26677090 ATAGTAAAAAAATA
1 ATAG-AAAAAAATA
26677104 ATAGAAAAAAATA
1 ATAGAAAAAAATA
*
26677117 AAAGAAAA
1 ATAGAAAA
26677125 TAAAACGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (13 bp):
ATAGAAAAAAATA
Found at i:26684225 original size:43 final size:42
Alignment explanation
Indices: 26684174--26684265 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
26684164 TCCCAAACGT
** *
26684174 GGTCTTACATGTAATTACATATCAACGCCACTGTCCCAGACAG
1 GGTCTTACACATAATTACATA-CAACGCCAATGTCCCAGACAG
* * * *
26684217 GGTCTTACACATAATTATATACTACGCCAATGTCCCAGGCAT
1 GGTCTTACACATAATTACATACAACGCCAATGTCCCAGACAG
26684259 GGTCTTA
1 GGTCTTA
26684266 TACGTAAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 24 0.57
43 18 0.43
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
GGTCTTACACATAATTACATACAACGCCAATGTCCCAGACAG
Found at i:26684263 original size:42 final size:43
Alignment explanation
Indices: 26684164--26684265 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 43
26684154 AATGCCAACA
* * ** *
26684164 TCCCAAACGTGGTCTTACATGTAATTACATATCAACGCCACTG
1 TCCCAGACATGGTCTTACACATAATTACATATCAACGCCAATG
* * *
26684207 TCCCAGACAGGGTCTTACACATAATTATATA-CTACGCCAATG
1 TCCCAGACATGGTCTTACACATAATTACATATCAACGCCAATG
*
26684249 TCCCAGGCATGGTCTTA
1 TCCCAGACATGGTCTTA
26684266 TACGTAAATA
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
42 24 0.49
43 25 0.51
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACATAATTACATATCAACGCCAATG
Found at i:26693986 original size:45 final size:45
Alignment explanation
Indices: 26693920--26694010 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
26693910 ATGGCATGTC
26693920 TCCAAACGAAAATGTACCGTATAGGCATGTGAATGTTGTTTTGTG
1 TCCAAACGAAAATGTACCGTATAGGCATGTGAATGTTGTTTTGTG
* * * *
26693965 TCCAAATGCAAATGTATCGTATAGGTATGTGAATGTTGTTTTGTG
1 TCCAAACGAAAATGTACCGTATAGGCATGTGAATGTTGTTTTGTG
26694010 T
1 T
26694011 TGATCCTCCG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.37
Consensus pattern (45 bp):
TCCAAACGAAAATGTACCGTATAGGCATGTGAATGTTGTTTTGTG
Found at i:26699585 original size:64 final size:64
Alignment explanation
Indices: 26699505--26699636 Score: 219
Period size: 64 Copynumber: 2.1 Consensus size: 64
26699495 TTTGGCCTCA
*
26699505 AACTTGGCCACAATCCTATCCCCCTAAGTAAGGTTCATAAACTCGTGTCTACAAGCATCCACAT
1 AACTTGACCACAATCCTATCCCCCTAAGTAAGGTTCATAAACTCGTGTCTACAAGCATCCACAT
* ** *
26699569 AACTTGACCACAATCCTATCCCCTTGGGTAAGGTTCATAAACTCGTGTCTACGAGCATCCACAT
1 AACTTGACCACAATCCTATCCCCCTAAGTAAGGTTCATAAACTCGTGTCTACAAGCATCCACAT
26699633 AACT
1 AACT
26699637 CGCCCCCATA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (64 bp):
AACTTGACCACAATCCTATCCCCCTAAGTAAGGTTCATAAACTCGTGTCTACAAGCATCCACAT
Found at i:26712029 original size:23 final size:24
Alignment explanation
Indices: 26711983--26712045 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
26711973 ACATAATACA
*
26711983 TTTTT-CAATTAATATATATAAGTT
1 TTTTTACAATT-ATAAATATAAGTT
26712007 TTTTTACAATTATAAATAT-AGTT
1 TTTTTACAATTATAAATATAAGTT
***
26712030 ACATTACAATTATAAA
1 TTTTTACAATTATAAA
26712046 GAATACATCC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.50
24 12 0.35
25 5 0.15
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (24 bp):
TTTTTACAATTATAAATATAAGTT
Found at i:26717912 original size:13 final size:13
Alignment explanation
Indices: 26717894--26717920 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26717884 TTGGTGGCTT
26717894 AAATCTGCTTCCC
1 AAATCTGCTTCCC
26717907 AAATCTGCTTCCC
1 AAATCTGCTTCCC
26717920 A
1 A
26717921 CTATCTTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.37, G:0.07, T:0.30
Consensus pattern (13 bp):
AAATCTGCTTCCC
Found at i:26717980 original size:44 final size:44
Alignment explanation
Indices: 26717932--26718512 Score: 171
Period size: 44 Copynumber: 13.2 Consensus size: 44
26717922 TATCTTGGAA
*
26717932 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * **
26717976 AGATAAGATCT-CCAATCTTCAACCTACTCCGCTGCTGCTCCGGG
1 AGATAAGATTTGCC-GTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * * *
26718020 AGACAAGGCTTGGTGGCTTAAATCTACTTTCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC--TCCACTACTGCTTAGG-G
** * *
26718064 AGATAAGATTTTTCGTCTTCGATCTGCTCCACTACTGGTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * *
26718108 AGATAAGATCTACAATCTTCAACCTTCTCCACTACTGCTCAAGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
** ** * * *
26718152 AGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
** * * * *
26718196 AGATAAGATTTTTCGTCTTCGATCTGCTCCACCACTGGTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * * *
26718240 AGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTTAGAG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * * **
26718284 AGACAAGGCTTGGTGACTTTAAATCTACTTCCCACTA-T-CTTAGAA
1 AGATAAGATTTGCCGTC-TTCAATCTGC-T-CCACTACTGCTTAGGG
* * **
26718329 AGATAAGATTTTCCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * ** * * ** * *
26718373 AGGTAAGATCTACAATCTTCAACCTACTCCGTTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
26718417 AGACAAGGCTTTG-TGGCTTAAATCTGCTTCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGCCGTCTTCAATCTGC-TCCACTACTGCTTAGG-G
** * *
26718460 AGATAAGATTTGCCGTCTTTGATCTGCTCCACTATTGCTTATGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
26718504 AGATAAGAT
1 AGATAAGAT
26718513 CTACAATCTT
Statistics
Matches: 362, Mismatches: 149, Indels: 52
0.64 0.26 0.09
Matches are distributed among these distances:
42 32 0.09
43 28 0.08
44 247 0.68
45 38 0.10
46 13 0.04
47 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:26718146 original size:132 final size:132
Alignment explanation
Indices: 26717907--26718562 Score: 1008
Period size: 132 Copynumber: 5.0 Consensus size: 132
26717897 TCTGCTTCCC
*
26717907 AAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTT
1 AAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGATCTGCTCCACTACTGCTT
* *
26717972 AGGGAGATAAGATCTCCAATCTTCAACCTACTCCGCTGCTGCTCCGGGAGACAAGGCTTGGTGGC
66 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
26718037 TT
131 TT
* * * *
26718039 AAATCTACTTTCCACTATCTTGGAAAGATAAGATTTTTCGTCTTCGATCTGCTCCACTACTGGTT
1 AAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGATCTGCTCCACTACTGCTT
* * * * *
26718104 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTACTGCTCAAGGAGATAAGGCTTGGTGGC
66 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
26718169 TT
131 TT
* * * *
26718171 AAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCGTCTTCGATCTGCTCCACCACTGGTC
1 AAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGATCTGCTCCACTACTGCTT
* * *
26718236 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTTAGAGAGACAAGGCTTGGTGAC
66 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
26718301 TTT
131 -TT
* * * *
26718304 AAATCTACTTCCCACTATCTTAGAAAGATAAGATTTTCCATCTTTGATCTGCTCCACTACTGCTT
1 AAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGATCTGCTCCACTACTGCTT
* * *
26718369 AGGGAGGTAAGATCTACAATCTTCAACCTACTCCGTTGCTGCTCAGGGAGACAAGGCTTTGTGGC
66 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
26718434 TT
131 TT
* * *
26718436 AAATCTGCTT-CCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTATTGCTT
1 AAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGATCTGCTCCACTACTGCTT
* * *
26718500 ATGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTACTCAGGGAGACAAGGCTTGGTG
66 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
26718563 TTTCGCCGGT
Statistics
Matches: 474, Mismatches: 49, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
131 107 0.23
132 249 0.53
133 118 0.25
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (132 bp):
AAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTCGATCTGCTCCACTACTGCTT
AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
TT
Found at i:26721373 original size:161 final size:161
Alignment explanation
Indices: 26721108--26721430 Score: 646
Period size: 161 Copynumber: 2.0 Consensus size: 161
26721098 GGCTTCATGT
26721108 CGTTCAACTGATTTACTTTAATCATGGAAGCTAAAGTAGCAAGAGCATCAGCCATCTGATTTTCT
1 CGTTCAACTGATTTACTTTAATCATGGAAGCTAAAGTAGCAAGAGCATCAGCCATCTGATTTTCT
26721173 TCCCGTGGGAGATAACAGAAGGTAATGTTTCCAAACTATTTGATCAATTCCAAAACCAATCTCCG
66 TCCCGTGGGAGATAACAGAAGGTAATGTTTCCAAACTATTTGATCAATTCCAAAACCAATCTCCG
26721238 ATAACGGATCAACTTAGGGTCTCTTGTCTCC
131 ATAACGGATCAACTTAGGGTCTCTTGTCTCC
26721269 CGTTCAACTGATTTACTTTAATCATGGAAGCTAAAGTAGCAAGAGCATCAGCCATCTGATTTTCT
1 CGTTCAACTGATTTACTTTAATCATGGAAGCTAAAGTAGCAAGAGCATCAGCCATCTGATTTTCT
26721334 TCCCGTGGGAGATAACAGAAGGTAATGTTTCCAAACTATTTGATCAATTCCAAAACCAATCTCCG
66 TCCCGTGGGAGATAACAGAAGGTAATGTTTCCAAACTATTTGATCAATTCCAAAACCAATCTCCG
26721399 ATAACGGATCAACTTAGGGTCTCTTGTCTCC
131 ATAACGGATCAACTTAGGGTCTCTTGTCTCC
26721430 C
1 C
26721431 ATTCCCCTCT
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 162 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (161 bp):
CGTTCAACTGATTTACTTTAATCATGGAAGCTAAAGTAGCAAGAGCATCAGCCATCTGATTTTCT
TCCCGTGGGAGATAACAGAAGGTAATGTTTCCAAACTATTTGATCAATTCCAAAACCAATCTCCG
ATAACGGATCAACTTAGGGTCTCTTGTCTCC
Found at i:26731745 original size:23 final size:22
Alignment explanation
Indices: 26731719--26731765 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
26731709 TTATATTATT
* *
26731719 GATATAAATGAAAAAATTAAATA
1 GATAT-AACGAAAAAATAAAATA
*
26731742 GATATAACGGAAAAATAAAATA
1 GATATAACGAAAAAATAAAATA
26731764 GA
1 GA
26731766 ACTACAAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.64, C:0.02, G:0.13, T:0.21
Consensus pattern (22 bp):
GATATAACGAAAAAATAAAATA
Found at i:26732646 original size:28 final size:28
Alignment explanation
Indices: 26732603--26732662 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
26732593 TAATCCAAAC
* * *
26732603 AAAACATAAACGTAAAACAACTCTCTAT
1 AAAACATAAACATAAAACAACTCCCAAT
*
26732631 AAAACATAACCATAAAACAACTCCCAAT
1 AAAACATAAACATAAAACAACTCCCAAT
26732659 AAAA
1 AAAA
26732663 ATGAAAGCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.58, C:0.23, G:0.02, T:0.17
Consensus pattern (28 bp):
AAAACATAAACATAAAACAACTCCCAAT
Found at i:26735020 original size:26 final size:26
Alignment explanation
Indices: 26734968--26735053 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
26734958 GTACATAGTA
* *
26734968 CCTGCTAAATAAAACACCGGC-ACAAAG
1 CCTGCTAAAT-ATACACCGACTA-AAAG
*
26734995 CCTGCTAAATATACACCGACTTAAAG
1 CCTGCTAAATATACACCGACTAAAAG
* *
26735021 CCTACTAAATATACACTGA-TAAAAAG
1 CCTGCTAAATATACACCGACT-AAAAG
26735047 CCTGCTA
1 CCTGCTA
26735054 CACCCTAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.02
26 39 0.78
27 10 0.20
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.20
Consensus pattern (26 bp):
CCTGCTAAATATACACCGACTAAAAG
Found at i:26735363 original size:18 final size:18
Alignment explanation
Indices: 26735333--26735367 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
26735323 TTTCTTGATC
26735333 TAAATATAATAATTTAAT
1 TAAATATAATAATTTAAT
26735351 TAAAT-TAACTAATTTAA
1 TAAATATAA-TAATTTAA
26735368 ACATATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATATAATAATTTAAT
Found at i:26736130 original size:17 final size:18
Alignment explanation
Indices: 26736108--26736146 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
26736098 AGAGAAAACA
*
26736108 AAAATG-AAACTATAATT
1 AAAATGAAAACTATAAAT
26736125 AAAATGTAAAACTATAAAT
1 AAAATG-AAAACTATAAAT
26736144 AAA
1 AAA
26736147 TAAGGTGCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAATGAAAACTATAAAT
Found at i:26739912 original size:33 final size:32
Alignment explanation
Indices: 26739867--26740027 Score: 124
Period size: 33 Copynumber: 4.8 Consensus size: 32
26739857 ACATTTGTAG
* *
26739867 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAGAA
* *
26739900 TGCCATAGCCCAGCTATGGTCTTACATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTACAT-CAGA-A
* * * * * * *
26739934 CTGTCATGGTCCAACCATGGTCTTACATTCATAG
1 -TGCCATAGCCCAGCTATGGTCTTACA-TCAGAA
* **
26739968 TGCCATAACCCAATTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAGAA
* *
26740001 TGTCATAGCTCAGCTATGGTCTTACAT
1 TGCCATAGCCCAGCTATGGTCTTACAT
26740028 ATAAACACTG
Statistics
Matches: 98, Mismatches: 25, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
32 6 0.06
33 65 0.66
34 3 0.03
35 23 0.23
36 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (32 bp):
TGCCATAGCCCAGCTATGGTCTTACATCAGAA
Found at i:26740030 original size:101 final size:101
Alignment explanation
Indices: 26739855--26740094 Score: 408
Period size: 101 Copynumber: 2.4 Consensus size: 101
26739845 AATTCATCAT
** *
26739855 TTACATTTGTAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
*
26739920 CTTACATATAAACACTGTCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* *
26739956 TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGTCATAGCTCAGCTATGGT
1 TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
26740021 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* *
26740057 TTACGTTCATAGTGTCATAACCCAATTATGGTCTTATC
1 TTACATTCATAGTGCCATAACCCAATTATGGTCTTATC
26740095 CGTCAATTCA
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 131 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (101 bp):
TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:26740491 original size:19 final size:20
Alignment explanation
Indices: 26740453--26740491 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
26740443 TACAAATTCT
*
26740453 TTTAAATTCAATTTGTCTTA
1 TTTAAATTCAATTTGACTTA
*
26740473 TTTAATTTCAATTT-ACTTA
1 TTTAAATTCAATTTGACTTA
26740492 CCATTTTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTAAATTCAATTTGACTTA
Found at i:26741236 original size:15 final size:15
Alignment explanation
Indices: 26741216--26741245 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26741206 GAAATAGATT
*
26741216 TTTATTTTATTTATA
1 TTTATTATATTTATA
26741231 TTTATTATATTTATA
1 TTTATTATATTTATA
26741246 AATATAAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTATTATATTTATA
Found at i:26743472 original size:20 final size:20
Alignment explanation
Indices: 26743430--26743469 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
26743420 AAATAGTTTT
*
26743430 ATTATTTTTAAATTTTTATA
1 ATTATTTTTAAATTTTTAAA
*
26743450 ATTATTTTT-TATTTTTAAA
1 ATTATTTTTAAATTTTTAAA
26743469 A
1 A
26743470 ATTTAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTATTTTTAAATTTTTAAA
Found at i:26743474 original size:27 final size:29
Alignment explanation
Indices: 26743400--26743479 Score: 94
Period size: 27 Copynumber: 2.9 Consensus size: 29
26743390 TAGCAATTAA
*
26743400 TTATT-TTTTAAAAAATTTAAAAATAGTT
1 TTATTATTTTTAAAAATTTAAAAATAGTT
** * *
26743428 TTATTATTTTTAAATTTTTATAATTA-TT
1 TTATTATTTTTAAAAATTTAAAAATAGTT
26743456 TT-TTATTTTTAAAAATTTAAAAAT
1 TTATTATTTTTAAAAATTTAAAAAT
26743480 TAATTAATTG
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
27 18 0.43
28 9 0.21
29 15 0.36
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (29 bp):
TTATTATTTTTAAAAATTTAAAAATAGTT
Found at i:26749354 original size:2 final size:2
Alignment explanation
Indices: 26749347--26749377 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26749337 AATATGCGCA
26749347 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
26749378 AATTGAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:26752620 original size:18 final size:19
Alignment explanation
Indices: 26752583--26752624 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
26752573 TGAGATTGCA
*
26752583 AAATAAAATTAAGTGAATT
1 AAATAAAATTAAGGGAATT
*
26752602 AAATCAAATT-AGGGAATT
1 AAATAAAATTAAGGGAATT
26752620 AAATA
1 AAATA
26752625 TATTAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (19 bp):
AAATAAAATTAAGGGAATT
Found at i:26753404 original size:16 final size:16
Alignment explanation
Indices: 26753383--26753413 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
26753373 GTGTGTCCTC
26753383 AAGTATCACCAACACT
1 AAGTATCACCAACACT
26753399 AAGTATCACCAACAC
1 AAGTATCACCAACAC
26753414 ATTCCTCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.32, G:0.06, T:0.16
Consensus pattern (16 bp):
AAGTATCACCAACACT
Found at i:26757771 original size:27 final size:27
Alignment explanation
Indices: 26757717--26757771 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
26757707 TCTATAATAT
* *
26757717 TAAATATTTTAAAATTTAATTTTAACA
1 TAAATATTTTAAAAATTAATTATAACA
* *
26757744 TAAATTTTTTAAAAATTAATTATCACA
1 TAAATATTTTAAAAATTAATTATAACA
26757771 T
1 T
26757772 TTAGAAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (27 bp):
TAAATATTTTAAAAATTAATTATAACA
Found at i:26764815 original size:26 final size:26
Alignment explanation
Indices: 26764779--26764831 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
26764769 GAGGAACTTC
26764779 TTTTGTTAAATTCTCAGGCCCGTCTA
1 TTTTGTTAAATTCTCAGGCCCGTCTA
26764805 TTTTGTTAAATTCTCAGGCCCGTCTA
1 TTTTGTTAAATTCTCAGGCCCGTCTA
26764831 T
1 T
26764832 CTCTTTATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (26 bp):
TTTTGTTAAATTCTCAGGCCCGTCTA
Found at i:26767542 original size:101 final size:101
Alignment explanation
Indices: 26767361--26767588 Score: 282
Period size: 101 Copynumber: 2.3 Consensus size: 101
26767351 AATTGACGGA
* *** *
26767361 TAAGACCATGGTTGGACCATGGA-AATGTTTATTTGTAAGACCATAGCTGGGCTATGGCATTTTA
1 TAAGACCATGGTTGGACCAT-GACAATATTTATAAATAAGACCATAGCTGGGCTATGGCATTTAA
* **
26767425 ATGAAAAGAACGTAACTGGGTTAT-AGCACTTTGAACG
65 ATGAAAAGAACATAACTGGGTTATGA-CACTACGAACG
26767462 TAAGACCATGGTTGGACCATGACAATATTTATAAATAAGACCATAGCTGGGCTATGGCA-TTAAG
1 TAAGACCATGGTTGGACCATGACAATATTTATAAATAAGACCATAGCTGGGCTATGGCATTTAA-
* * **
26767526 ATGATAAGACCATAACTGGGTTATGACACTACGAATT
65 ATGAAAAGAACATAACTGGGTTATGACACTACGAACG
* *
26767563 TAAGACCATGGCTGGGCCATGACAAT
1 TAAGACCATGGTTGGACCATGACAAT
26767589 GCATGTGTAA
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
100 5 0.05
101 104 0.95
102 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAATATTTATAAATAAGACCATAGCTGGGCTATGGCATTTAAA
TGAAAAGAACATAACTGGGTTATGACACTACGAACG
Found at i:26773216 original size:41 final size:41
Alignment explanation
Indices: 26773171--26773315 Score: 236
Period size: 41 Copynumber: 3.5 Consensus size: 41
26773161 GACTTTAAGT
26773171 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
26773212 CTAGCAGGCTAAGTGTCGATGATCTGAATCAAGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
26773253 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
26773294 CTAGCAGGCTAATTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
26773316 ATATGTTAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Done.