Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold233
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: 993233
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.30
Warning! 80272 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:457704 original size:79 final size:79
Alignment explanation
Indices: 457604--457968 Score: 499
Period size: 79 Copynumber: 4.7 Consensus size: 79
457594 TATATCGCAT
** * * * *
457604 TACACATATAATCGTAGAACATTTAAGCATATATCACAATA-TACATAGAATCACATAACATTTA
1 TACACATATAATCACATAACATTCAAGCATATATCACAATACT-CATATAATCACATAACATTCA
*
457668 GGCATATATCACTAA
65 AGCATATATCACTAA
*
457683 TACACATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATAACATAACATGT-A
1 TACACATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATCACATAACAT-TCA
* *
457747 GGCATATATCACCAA
65 AGCATATATCACTAA
* * *
457762 TGCACATATAATCACATAACATTCAAGCATATATCACAATGCTCATATAATCTCATAACATTCAA
1 TACACATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATCACATAACATTCAA
457827 GCATATATCAC-AA
66 GCATATATCACTAA
* *
457840 TACTCATATAATCA-ATAACATTCAAGCATATATCATAATACTCATATAATCA-ATAACATTCAA
1 TACACATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATCACATAACATTCAA
457903 GCATATATCA-TAA
66 GCATATATCACTAA
* * * *
457916 TACTCATATAATCACATAAAATTCAAGCATATATCACAATACACACATAATCA
1 TACACATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATCA
457969 TGTTTATAGA
Statistics
Matches: 260, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
76 37 0.14
77 69 0.27
78 15 0.06
79 137 0.53
80 2 0.01
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (79 bp):
TACACATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATCACATAACATTCAA
GCATATATCACTAA
Found at i:460834 original size:23 final size:23
Alignment explanation
Indices: 460804--460896 Score: 91
Period size: 23 Copynumber: 4.0 Consensus size: 23
460794 ATCGAAATAG
*
460804 AGCCTTTGTGGCGTATTTTGATT
1 AGCCTTTGTGGCGTATTCTGATT
* **
460827 AGACTTTGTGGCACATTCTGATT
1 AGCCTTTGTGGCGTATTCTGATT
*
460850 AGCCTTTGT-GCTGTACTCTGATT
1 AGCCTTTGTGGC-GTATTCTGATT
* *
460873 AGCCTGTT-TGGTGTATTTTGATT
1 AGCCT-TTGTGGCGTATTCTGATT
460896 A
1 A
460897 ACCTCTTTTG
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
22 2 0.04
23 51 0.91
24 3 0.05
ACGTcount: A:0.16, C:0.15, G:0.24, T:0.45
Consensus pattern (23 bp):
AGCCTTTGTGGCGTATTCTGATT
Found at i:462826 original size:48 final size:48
Alignment explanation
Indices: 462762--462854 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
462752 ACACCATCTG
* *
462762 TGGACAAGCCAGCACATAAATGCCGATAAACGACCAAATAA-CACATTA
1 TGGACAAGCCACCACATAAATACCGAT-AACGACCAAATAATCACATTA
* * *
462810 TGGACAAGCCACCACATAATTATCGATAACGACCACATAATCACA
1 TGGACAAGCCACCACATAAATACCGATAACGACCAAATAATCACA
462855 GATAAGCTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 12 0.31
48 27 0.69
ACGTcount: A:0.44, C:0.27, G:0.13, T:0.16
Consensus pattern (48 bp):
TGGACAAGCCACCACATAAATACCGATAACGACCAAATAATCACATTA
Found at i:462832 original size:22 final size:21
Alignment explanation
Indices: 462806--462850 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
462796 CAAATAACAC
*
462806 ATTATGGACAAGCCACCACATA
1 ATTATCGACAA-CCACCACATA
* *
462828 ATTATCGATAACGACCACATA
1 ATTATCGACAACCACCACATA
462849 AT
1 AT
462851 CACAGATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.22
Consensus pattern (21 bp):
ATTATCGACAACCACCACATA
Found at i:463945 original size:17 final size:17
Alignment explanation
Indices: 463923--463961 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
463913 TGATAACTGA
463923 TGGTGGCAATCCGACGG
1 TGGTGGCAATCCGACGG
*
463940 TGGTGGCGATCCGACGG
1 TGGTGGCAATCCGACGG
463957 TGGTG
1 TGGTG
463962 AGAAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.46, T:0.21
Consensus pattern (17 bp):
TGGTGGCAATCCGACGG
Found at i:466302 original size:15 final size:13
Alignment explanation
Indices: 466273--466298 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
466263 ATACATGGGA
466273 CACATGGCCATGT
1 CACATGGCCATGT
466286 CACATGGCCATGT
1 CACATGGCCATGT
466299 GTCATACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
CACATGGCCATGT
Found at i:467892 original size:16 final size:14
Alignment explanation
Indices: 467869--467909 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
467859 TATCATCAAG
467869 TTGTGAAAAAAAAA
1 TTGTGAAAAAAAAA
467883 TTTCGTG-AAAAAAAA
1 -TT-GTGAAAAAAAAA
467898 TTGTGAAAAAAA
1 TTGTGAAAAAAA
467910 GAAGCTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.12
14 8 0.33
15 10 0.42
16 3 0.12
ACGTcount: A:0.59, C:0.02, G:0.15, T:0.24
Consensus pattern (14 bp):
TTGTGAAAAAAAAA
Found at i:467895 original size:15 final size:13
Alignment explanation
Indices: 467869--467909 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 13
467859 TATCATCAAG
467869 TTGTGAAAAAAAAA
1 TTGTG-AAAAAAAA
467883 TTTCGTGAAAAAAAA
1 -TT-GTGAAAAAAAA
467898 TTGTGAAAAAAA
1 TTGTGAAAAAAA
467910 GAAGCTAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.40
14 2 0.08
15 10 0.40
16 3 0.12
ACGTcount: A:0.59, C:0.02, G:0.15, T:0.24
Consensus pattern (13 bp):
TTGTGAAAAAAAA
Found at i:475456 original size:25 final size:25
Alignment explanation
Indices: 475405--475494 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
475395 GTACATGTAT
* * *
475405 GCTCATTCGAGCTG-TTAATGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
475429 GCTCCT-CTGAGCTGAATAACGGTAA
1 GCTCATAC-GAGCTGAATAACGGTAA
* *
475454 GCTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
475479 GCTCATAAGAGTTGAA
1 GCTCATACGAGCTGAA
475495 ATTGGTAACC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
23 1 0.02
24 11 0.20
25 41 0.76
26 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:480443 original size:50 final size:50
Alignment explanation
Indices: 480363--480466 Score: 154
Period size: 50 Copynumber: 2.1 Consensus size: 50
480353 CCTAATGATA
* * *
480363 GCACTTAGACTCACAATTGAGAACACGACACCTAACACATAATTTTAAAC
1 GCACATAGACTCACAATTGAGAACAAGACACCTAACACATAATTTGAAAC
* * *
480413 GCACATAGACTCACGATTGGGAACAAGACACTTAACACATAATTTGAAAC
1 GCACATAGACTCACAATTGAGAACAAGACACCTAACACATAATTTGAAAC
480463 GCAC
1 GCAC
480467 GATATCATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.41, C:0.25, G:0.13, T:0.20
Consensus pattern (50 bp):
GCACATAGACTCACAATTGAGAACAAGACACCTAACACATAATTTGAAAC
Found at i:482079 original size:15 final size:16
Alignment explanation
Indices: 482054--482107 Score: 69
Period size: 15 Copynumber: 3.5 Consensus size: 16
482044 ACTTTATCCA
482054 TCATC-CATCATCC-C
1 TCATCTCATCATCCTC
482068 TCATCTCATCATCCCTC
1 TCATCTCATCAT-CCTC
482085 TCATCTC-TCATCCTC
1 TCATCTCATCATCCTC
*
482100 TCCTCTCA
1 TCATCTCA
482108 ACTCCTTAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 5 0.14
15 16 0.46
16 6 0.17
17 8 0.23
ACGTcount: A:0.17, C:0.48, G:0.00, T:0.35
Consensus pattern (16 bp):
TCATCTCATCATCCTC
Found at i:492572 original size:15 final size:15
Alignment explanation
Indices: 492552--492581 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
492542 TTAATTAATT
492552 AAGTAAATTGATTAA
1 AAGTAAATTGATTAA
492567 AAGTAAATTGATTAA
1 AAGTAAATTGATTAA
492582 TTAAAGTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (15 bp):
AAGTAAATTGATTAA
Found at i:493023 original size:15 final size:16
Alignment explanation
Indices: 492983--493030 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
492973 TCATTTTATC
*
492983 CATCATCC-CTCATCA
1 CATCATCCTCTCATCT
492998 CATCATCCCTCTCATCT
1 CATCAT-CCTCTCATCT
493015 C-TCATCCTCTC-TCT
1 CATCATCCTCTCATCT
493029 CA
1 CA
493031 ACTATCTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 4 0.14
15 12 0.41
16 6 0.21
17 7 0.24
ACGTcount: A:0.19, C:0.48, G:0.00, T:0.33
Consensus pattern (16 bp):
CATCATCCTCTCATCT
Found at i:506328 original size:9 final size:9
Alignment explanation
Indices: 506314--506343 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
506304 TTTCTAATGT
506314 TTTCTTACC
1 TTTCTTACC
506323 TTTCTTACC
1 TTTCTTACC
506332 TTTCTTACC
1 TTTCTTACC
506341 TTT
1 TTT
506344 TAGAACTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.30, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTCTTACC
Found at i:508126 original size:13 final size:13
Alignment explanation
Indices: 508108--508137 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
508098 AATCCAAGTC
508108 AAATAAAATAAAT
1 AAATAAAATAAAT
*
508121 AAATAAGATAAAT
1 AAATAAAATAAAT
508134 AAAT
1 AAAT
508138 CAATAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:513683 original size:13 final size:14
Alignment explanation
Indices: 513665--513697 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
513655 CTTTTTCTAC
*
513665 TCTTTTTG-CTTTT
1 TCTTTTTGTATTTT
513678 TCTTTTTGTATTTT
1 TCTTTTTGTATTTT
513692 TCTTTT
1 TCTTTT
513698 ATTTGACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.79
Consensus pattern (14 bp):
TCTTTTTGTATTTT
Found at i:516759 original size:51 final size:50
Alignment explanation
Indices: 516696--516830 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 50
516686 ATGAACAAAT
* *
516696 GAGTTACTTAATGCATGACTTCATTTAAGATGCAAACATTAACTATCATGA
1 GAGTTACATAATGCATGACTTCATTTAAGATGCAAAC-TTAACTAACATGA
* * * *
516747 GAGTTACATAATGCATGTCATAATTTATGATGCAAACTTAACTAACATGA
1 GAGTTACATAATGCATGACTTCATTTAAGATGCAAACTTAACTAACATGA
* *
516797 GAGTTTCATAATTCATGACTTCA-TTAA-ATGCAAA
1 GAGTTACATAATGCATGACTTCATTTAAGATGCAAA
516831 ACACATTATG
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
48 7 0.10
49 3 0.04
50 30 0.42
51 32 0.44
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (50 bp):
GAGTTACATAATGCATGACTTCATTTAAGATGCAAACTTAACTAACATGA
Found at i:531751 original size:8 final size:8
Alignment explanation
Indices: 531733--531761 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
531723 TGAATGTTTT
531733 TAAAA-GG
1 TAAAATGG
531740 TAAAATGG
1 TAAAATGG
531748 TAAAATGG
1 TAAAATGG
531756 TAAAAT
1 TAAAAT
531762 AAGATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (8 bp):
TAAAATGG
Found at i:535267 original size:34 final size:35
Alignment explanation
Indices: 535229--535299 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 35
535219 CTCTCTTTCC
* * *
535229 TTTCTTTCA-CTCTCTTTTTCTT-TTTCAATTTCTT
1 TTTCTCTCATCTCT-TTTTTCTTCTCTCAAATTCTT
*
535263 TTTCTCTCATTTCTTTTTTCTTCTCTCAAATTCTT
1 TTTCTCTCATCTCTTTTTTCTTCTCTCAAATTCTT
535298 TT
1 TT
535300 AGTTTTCTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.66
Consensus pattern (35 bp):
TTTCTCTCATCTCTTTTTTCTTCTCTCAAATTCTT
Found at i:535288 original size:19 final size:19
Alignment explanation
Indices: 535262--535313 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
535252 TTCAATTTCT
535262 TTTTCTCTCATTTCTTTT-
1 TTTTCTCTCATTTCTTTTA
*
535280 TTCTTCTCTCAAATTCTTTTA
1 TT-TTCTCTC-ATTTCTTTTA
535301 GTTTTCTCTCATT
1 -TTTTCTCTCATT
535314 ATCAACTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 2 0.07
19 7 0.25
20 10 0.36
21 7 0.25
22 2 0.07
ACGTcount: A:0.12, C:0.23, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTCTCTCATTTCTTTTA
Found at i:536000 original size:25 final size:25
Alignment explanation
Indices: 535966--536016 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
535956 GTTAGGACCT
535966 GAATAAGGAACACTTCCAACAGTCA
1 GAATAAGGAACACTTCCAACAGTCA
535991 GAATAAGGAACACTTCCAACAGTCA
1 GAATAAGGAACACTTCCAACAGTCA
536016 G
1 G
536017 TTAGAAGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (25 bp):
GAATAAGGAACACTTCCAACAGTCA
Found at i:537513 original size:51 final size:50
Alignment explanation
Indices: 537447--537572 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 50
537437 ATGAACAAAT
* * *
537447 GAGTTACTTAATGCATGACTTCATTTAAGATGCAAACATTAACTATCATGA
1 GAGTTACATAATGCATGACTTCATTTAAGATGCAAAC-TTAACTACCATAA
* * * * *
537498 GAGTTACATAATGCATGTCATAATTTATGATGCAATCTTAACTACCATAA
1 GAGTTACATAATGCATGACTTCATTTAAGATGCAAACTTAACTACCATAA
* *
537548 GAGTTTCATAATTCATGACTTCATT
1 GAGTTACATAATGCATGACTTCATT
537573 AAATGAAAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 31 0.50
51 31 0.50
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (50 bp):
GAGTTACATAATGCATGACTTCATTTAAGATGCAAACTTAACTACCATAA
Found at i:538292 original size:38 final size:38
Alignment explanation
Indices: 538248--538323 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
538238 AACAAAAAGT
*
538248 TTAGGAAAAACATACAAAAATTGGAAAACAAGGGTCAC
1 TTAGGAAAAACATACAAAAATTAGAAAACAAGGGTCAC
*
538286 TTAGGAAAAACATGCAAAAATTAGAAAACAAGGGTCAC
1 TTAGGAAAAACATACAAAAATTAGAAAACAAGGGTCAC
538324 ACGGCCGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.53, C:0.13, G:0.18, T:0.16
Consensus pattern (38 bp):
TTAGGAAAAACATACAAAAATTAGAAAACAAGGGTCAC
Found at i:539852 original size:20 final size:21
Alignment explanation
Indices: 539829--539873 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
539819 CATAACAGAA
**
539829 GCACCAAA-GTGCTGACAGGG
1 GCACCAAATGTGCAAACAGGG
539849 GCA-CAAATGTGCAAACAGGG
1 GCACCAAATGTGCAAACAGGG
539869 GCACC
1 GCACC
539874 GTAGTGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 4 0.19
20 16 0.76
21 1 0.05
ACGTcount: A:0.33, C:0.27, G:0.31, T:0.09
Consensus pattern (21 bp):
GCACCAAATGTGCAAACAGGG
Found at i:559106 original size:29 final size:29
Alignment explanation
Indices: 558937--559146 Score: 199
Period size: 29 Copynumber: 7.2 Consensus size: 29
558927 TATCAACGAG
* **
558937 CATCGATTAATGAAAAGGGATGGTGACAAC
1 CATCGAAT-ATGAAAAGGGATGGTTTCAAC
*
558967 CATCGAATATGAAAAGGGATGGTTTCGAC
1 CATCGAATATGAAAAGGGATGGTTTCAAC
* *
558996 CATTGAATATGAAAAGGGATGG--TGAAGGC
1 CATCGAATATGAAAAGGGATGGTTTCAA--C
* * ** **
559025 CATTGAATATAAAAAGGGATGGTGACGGC
1 CATCGAATATGAAAAGGGATGGTTTCAAC
*
559054 CATAGAATATGAAAAGGGATGGTTTCAAC
1 CATCGAATATGAAAAGGGATGGTTTCAAC
* *
559083 CTTCGAATATGAAAAGGGATGGTTTCGAC
1 CATCGAATATGAAAAGGGATGGTTTCAAC
* * * *
559112 CATCGATTAAAGAAAATGGATGGTTTCGAC
1 CATCGAAT-ATGAAAAGGGATGGTTTCAAC
559142 CATCG
1 CATCG
559147 TTTAGCATAC
Statistics
Matches: 150, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
27 2 0.01
29 117 0.78
30 31 0.21
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.23
Consensus pattern (29 bp):
CATCGAATATGAAAAGGGATGGTTTCAAC
Found at i:566361 original size:20 final size:21
Alignment explanation
Indices: 566317--566364 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
566307 TTAGATTGGT
* *
566317 TCAGCTCACATAAGTGTTAAT
1 TCAGCTCACATAAGTCTTAAC
*
566338 TCAGCTCACATGAG-CTTAAC
1 TCAGCTCACATAAGTCTTAAC
566358 TCAGCTC
1 TCAGCTC
566365 GTTTGAGCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (21 bp):
TCAGCTCACATAAGTCTTAAC
Found at i:569937 original size:18 final size:18
Alignment explanation
Indices: 569914--569949 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
569904 TTAAAAACTC
569914 TTTATTCCCTCTATTCCA
1 TTTATTCCCTCTATTCCA
**
569932 TTTATTCTTTCTATTCCA
1 TTTATTCCCTCTATTCCA
569950 ATTTCAACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATTCCCTCTATTCCA
Found at i:572437 original size:17 final size:17
Alignment explanation
Indices: 572417--572474 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
572407 ATTTCATGAC
572417 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
572434 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
572453 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
572471 TTAT
1 TTAT
572475 CTAGTGATTC
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
17 13 0.43
18 4 0.13
19 4 0.13
20 9 0.30
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.52
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:572455 original size:37 final size:37
Alignment explanation
Indices: 572414--572486 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
572404 TTAATTTCAT
*
572414 GACTTATGTAATGTTTTTAATTATGTAGTGATTCAAA
1 GACTTATGTAATGTTTTTAATTATCTAGTGATTCAAA
572451 GACTTATGTAATGTTTTTAATTATCTAGTGATTCAA
1 GACTTATGTAATGTTTTTAATTATCTAGTGATTCAA
572487 TTCGGGTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.47
Consensus pattern (37 bp):
GACTTATGTAATGTTTTTAATTATCTAGTGATTCAAA
Found at i:572499 original size:9 final size:9
Alignment explanation
Indices: 572485--572560 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
572475 CTAGTGATTC
572485 AATTCGGGT
1 AATTCGGGT
*
572494 AATTCGAGT
1 AATTCGGGT
*
572503 AATTCGGAT
1 AATTCGGGT
*
572512 AATTTGGGT
1 AATTCGGGT
572521 AATTCGGGT
1 AATTCGGGT
* *
572530 AACTCGGTT
1 AATTCGGGT
572539 AATTCGGGT
1 AATTCGGGT
*
572548 AATTCGGTT
1 AATTCGGGT
572557 AATT
1 AATT
572561 TTTAACCAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (9 bp):
AATTCGGGT
Found at i:578673 original size:24 final size:24
Alignment explanation
Indices: 578639--578684 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
578629 ACTTGTGACC
*
578639 AAAAAATATTTAAGTACCAATATA
1 AAAAAAAATTTAAGTACCAATATA
*
578663 AAAAAAAATTTAGGTACCAATA
1 AAAAAAAATTTAAGTACCAATA
578685 GACTGGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.59, C:0.09, G:0.07, T:0.26
Consensus pattern (24 bp):
AAAAAAAATTTAAGTACCAATATA
Found at i:578911 original size:20 final size:20
Alignment explanation
Indices: 578866--578912 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
578856 TTTCTTTAAA
* *
578866 CTTTTCTTATAATTTTTATAT
1 CTTTT-TTAGAATTTTTATAC
*
578887 ATTTTTTAGAATTTTTATAC
1 CTTTTTTAGAATTTTTATAC
578907 CTTTTT
1 CTTTTT
578913 ATATTCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (20 bp):
CTTTTTTAGAATTTTTATAC
Found at i:585446 original size:38 final size:38
Alignment explanation
Indices: 585403--585479 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
585393 CTAGGAAAAG
585403 AGTGTAAATTAGTGGTCCCTAAGATAATTAAATGTTTT
1 AGTGTAAATTAGTGGTCCCTAAGATAATTAAATGTTTT
585441 AGTGTAAATTAGTGGTCCCTAAGATAATTAAATGTTTT
1 AGTGTAAATTAGTGGTCCCTAAGATAATTAAATGTTTT
585479 A
1 A
585480 CTTCCAAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (38 bp):
AGTGTAAATTAGTGGTCCCTAAGATAATTAAATGTTTT
Found at i:592314 original size:19 final size:18
Alignment explanation
Indices: 592275--592316 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
592265 TTTAGTAATA
*
592275 TTTTTATCTTAAAAGTAT
1 TTTTTATCCTAAAAGTAT
592293 TTTTTATCCTAAAAGTAT
1 TTTTTATCCTAAAAGTAT
592311 TTTTTA
1 TTTTTA
592317 GAAGTAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTTTATCCTAAAAGTAT
Found at i:594053 original size:26 final size:28
Alignment explanation
Indices: 594008--594062 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
593998 TGAGTTATTA
*
594008 AATTTCTTTTTGAGTATTCTTTT-GAAG
1 AATTTCTTCTTGAGTATTCTTTTAGAAG
*
594035 AATTTC-TCTTGAGTTTTCTTTTAGAAG
1 AATTTCTTCTTGAGTATTCTTTTAGAAG
594062 A
1 A
594063 GTTTTAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.53
Consensus pattern (28 bp):
AATTTCTTCTTGAGTATTCTTTTAGAAG
Found at i:596049 original size:18 final size:17
Alignment explanation
Indices: 596016--596055 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
596006 GAAAATAATA
*
596016 ATTTTCTTTTTATTATT
1 ATTTTATTTTTATTATT
596033 ATTTTATTTTCTATTATT
1 ATTTTATTTT-TATTATT
*
596051 GTTTT
1 ATTTT
596056 CAAAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (17 bp):
ATTTTATTTTTATTATT
Found at i:603219 original size:52 final size:53
Alignment explanation
Indices: 603133--603238 Score: 205
Period size: 52 Copynumber: 2.0 Consensus size: 53
603123 AATAGATGGC
603133 TTATTTTATATTAATTTGAATATATTATATTTTTGAAGACATAAAGTGGGCCA
1 TTATTTTATATTAATTTGAATATATTATATTTTTGAAGACATAAAGTGGGCCA
603186 TTATTTTATATTAATTT-AATATATTATATTTTTGAAGACATAAAGTGGGCCA
1 TTATTTTATATTAATTTGAATATATTATATTTTTGAAGACATAAAGTGGGCCA
603238 T
1 T
603239 GCATGATTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 36 0.68
53 17 0.32
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (53 bp):
TTATTTTATATTAATTTGAATATATTATATTTTTGAAGACATAAAGTGGGCCA
Found at i:610812 original size:85 final size:85
Alignment explanation
Indices: 610709--610893 Score: 370
Period size: 85 Copynumber: 2.2 Consensus size: 85
610699 AGAAATCAGA
610709 ATCCAGTAAGTTAGGGTTCAATTTCTCAAAATTCTTAAACATCAAATATTTCCGTTATTTTAAAA
1 ATCCAGTAAGTTAGGGTTCAATTTCTCAAAATTCTTAAACATCAAATATTTCCGTTATTTTAAAA
610774 CCGAGATAACAAAATGTCGT
66 CCGAGATAACAAAATGTCGT
610794 ATCCAGTAAGTTAGGGTTCAATTTCTCAAAATTCTTAAACATCAAATATTTCCGTTATTTTAAAA
1 ATCCAGTAAGTTAGGGTTCAATTTCTCAAAATTCTTAAACATCAAATATTTCCGTTATTTTAAAA
610859 CCGAGATAACAAAATGTCGT
66 CCGAGATAACAAAATGTCGT
610879 ATCCAGTAAGTTAGG
1 ATCCAGTAAGTTAGG
610894 ATCCAGCATT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 100 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (85 bp):
ATCCAGTAAGTTAGGGTTCAATTTCTCAAAATTCTTAAACATCAAATATTTCCGTTATTTTAAAA
CCGAGATAACAAAATGTCGT
Found at i:613002 original size:41 final size:41
Alignment explanation
Indices: 612957--613091 Score: 146
Period size: 41 Copynumber: 3.2 Consensus size: 41
612947 CAAGATCGGG
612957 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGA
1 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGA
* *** ** * * *
612998 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGT-AGTCTCAGG
1 GAGATAAGA-CC-TGA-TGCGATCTACTCTACTGTAACT-TCAGA
613042 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGA
1 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGA
613083 GAGATAAGA
1 GAGATAAGA
613092 TCCTTTATTT
Statistics
Matches: 71, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
41 34 0.48
42 6 0.08
43 6 0.08
44 25 0.35
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (41 bp):
GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGA
Found at i:613044 original size:85 final size:85
Alignment explanation
Indices: 612955--613403 Score: 397
Period size: 85 Copynumber: 5.1 Consensus size: 85
612945 CGCAAGATCG
612955 GGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 GGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
*
613020 TCCGCTCCACTGTAGTCTCA
66 TCCGCTCCACTGTAATCTCA
613040 GGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 GGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
*
613105 TCCGCTACACTGTAATCTCA
66 TCCGCTCCACTGTAATCTCA
* * * * * *
613125 GGGAGATAGGATTACTAACTTCAATCTGCTCTACTGTAA-TCTCAG-GAAGATAAGATTTCTGGC
1 GGGAGATAAGA--CCTGA-TGCGATCTACTCTACTGTAACT-TCAGAG-AGATAAGA--TC---C
* * ** *
613188 TTCAATCTGATGTGATCTACTCTACTGTAA-CTTCA
56 TT-TAT-T--T-TAATCCGCTCCACTGTAATC-TCA
* * *** * * * * ***
613223 GAGAGATAAGATCCTTTATTTTAAT-TCGCTCTACTGTAA-TCTCAGGGAGATAGGATTACTAGC
1 GGGAGATAAGA-CC-TGA-TGCGATCT-ACTCTACTGTAACT-TCAGAGAGATAAGA-TCCTTTA
* * *
613286 TTCT-ATCAGCTCTACTGTAATCTCA
60 TTTTAATCCGCTCCACTGTAATCTCA
613311 GGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 GGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
*
613376 TCCGCTCCACTGTATTCTCA
66 TCCGCTCCACTGTAATCTCA
613396 GGGAGATA
1 GGGAGATA
613404 GGATTACTAG
Statistics
Matches: 297, Mismatches: 44, Indels: 46
0.77 0.11 0.12
Matches are distributed among these distances:
84 6 0.02
85 145 0.49
86 4 0.01
87 7 0.02
88 56 0.19
89 2 0.01
90 2 0.01
92 1 0.00
93 4 0.01
94 4 0.01
95 1 0.00
97 7 0.02
98 57 0.19
99 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (85 bp):
GGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
TCCGCTCCACTGTAATCTCA
Found at i:613046 original size:44 final size:44
Alignment explanation
Indices: 612980--613545 Score: 255
Period size: 44 Copynumber: 12.5 Consensus size: 44
612970 ATGCGATCTA
*
612980 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCTACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCCG
* * * *** **
613024 CTCCACTGTAGTCTCAGGGAGATAAGA-CC-TGA-TGCGATCTA
1 CTCTACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCG
*
613065 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCTACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCCG
* * * * * *
613109 CTAC-ACTGTAATCTCAGGGAGATAGGATTAC-TAACTTCAATCTG
1 CT-CTACTGTAATCTCAGGGAGATAAGA-TCCTTTATTTTAATCCG
* * * **
613153 CTCTACTGTAATCTCAGGAAGATAAGATTTCTGGCTTCAATCTGATGTGATCTA
1 CTCTACTGTAATCTCAGGGAGATAAGA--TC---CTT-TAT-T--T-TAATCCG
* *
613207 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATTCG
1 CTCTACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCCG
* * *** * *
613251 CTCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCT-ATCAG
1 CTCTACTGTAATCTCAGGGAGATAAGA-TCCTTTATTTTAATCCG
* *** **
613295 CTCTACTGTAATCTCAGGGAGATAAGA-CC-TGA-TGCGATCTA
1 CTCTACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCG
*
613336 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCTACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCCG
* * * * * * *
613380 CTCCACTGTATTCTCAGGGAGATAGGAT--TACTAGCTTCAATCTG
1 CTCTACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTTAATCCG
** * * * * **
613424 CTCCGCTGTAATCTCAGGAAGATAAGATTTTTGGCTTCAATTTGATGTGATCTA
1 CTCTACTGTAATCTCAGGGAGATAAGA----T-CCTT-TA-TT--T-TAATCCG
*
613478 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCTACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCCG
* *
613522 CTCCACTATAATCTCAGGGAGATA
1 CTCTACTGTAATCTCAGGGAGATA
613546 GGATTACTAG
Statistics
Matches: 385, Mismatches: 94, Indels: 86
0.68 0.17 0.15
Matches are distributed among these distances:
40 3 0.01
41 54 0.14
42 8 0.02
43 9 0.02
44 213 0.55
45 18 0.05
47 3 0.01
48 5 0.01
49 7 0.02
50 3 0.01
51 4 0.01
52 2 0.01
53 4 0.01
54 52 0.14
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (44 bp):
CTCTACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCG
Found at i:613308 original size:142 final size:142
Alignment explanation
Indices: 613052--613737 Score: 1065
Period size: 142 Copynumber: 4.9 Consensus size: 142
613042 GAGATAAGAC
* *
613052 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTACACTG
1 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* ** *
613117 TAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCTACTGTAATCTCAGGAAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
613182 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* *
613194 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATTCGCTCTACTG
1 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* * **
613259 TAATCTCAGGGAGATAGGATTACTAGCTTCTATCAGCTCTACTGTAATCTCAGGGAGATAAGA--
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
613322 --------C---
131 TCTGGCTTCAAT
*
613323 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
613388 TATTCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGAAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
613453 TTTGGCTTCAAT
131 TCTGGCTTCAAT
* *
613465 TTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
1 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
613530 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGTTGTAATCTTAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
613595 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* * *
613607 CTGATGTGGTCTACTGTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
1 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
613672 TAATCTCAGGGAGATAGGATTACTAGCTTCAATATGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
613737 T
131 T
613738 GTGACTTAAA
Statistics
Matches: 500, Mismatches: 31, Indels: 26
0.90 0.06 0.05
Matches are distributed among these distances:
129 119 0.24
132 1 0.00
139 1 0.00
142 379 0.76
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (142 bp):
CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:613463 original size:271 final size:271
Alignment explanation
Indices: 613018--613737 Score: 1107
Period size: 271 Copynumber: 2.6 Consensus size: 271
613008 CCTTTATTTT
* *
613018 AATCCGCTCCACTGTAGTCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGA
1 AATCAGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGA
* *
613083 GAGATAAGATCCTTTATTTTAATCCGCTACACTGTAATCTCAGGGAGATAGGATTACTAACTTCA
66 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCA
**
613148 ATCTGCTCTACTGTAATCTCAGGAAGATAAGATTTCTGGCTTCAATCTGATGTGATCTACTCTAC
131 ATCTGCTCCGCTGTAATCTCAGGAAGATAAGATTTCTGGCTTCAATCTGATGTGATCTACTCTAC
* * *
613213 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATTCGCTCTACTGTAATCTCAGGGAGATAGGA
196 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAATCTCAGGGAGATAGGA
613278 TTACTAGCTTC
261 TTACTAGCTTC
* *
613289 TATCAGCTCTACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGA
1 AATCAGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGA
*
613354 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTATTCTCAGGGAGATAGGATTACTAGCTTCA
66 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCA
* *
613419 ATCTGCTCCGCTGTAATCTCAGGAAGATAAGATTTTTGGCTTCAATTTGATGTGATCTACTCTAC
131 ATCTGCTCCGCTGTAATCTCAGGAAGATAAGATTTCTGGCTTCAATCTGATGTGATCTACTCTAC
613484 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAATCTCAGGGAGATAGGA
196 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAATCTCAGGGAGATAGGA
613549 TTACTAGCTTC
261 TTACTAGCTTC
* ** * * * *
613560 AATCTGCTCCGTTGTAATCTTAGGGAGATAAGATTTCTGGCTTCAATCTGATGTGGTCTACTGTA
1 AATCAGCTCCACTGTAATCTCAGGGAGATAAGA----------C---CTGATGCGATCTACTCTA
*
613625 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAATCTCAGGGAGATAGG
53 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
* *
613690 ATTACTAGCTTCAATATGCTCCGCTGTAATCTCAGGGAGATAAGATTT
118 ATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGAAGATAAGATTT
613738 GTGACTTAAA
Statistics
Matches: 409, Mismatches: 27, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
271 284 0.69
281 1 0.00
284 124 0.30
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (271 bp):
AATCAGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGA
GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCA
ATCTGCTCCGCTGTAATCTCAGGAAGATAAGATTTCTGGCTTCAATCTGATGTGATCTACTCTAC
TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAATCTCAGGGAGATAGGA
TTACTAGCTTC
Found at i:622720 original size:13 final size:13
Alignment explanation
Indices: 622704--622760 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
622694 AAAAAAAATC
622704 AAAAAAATTCG-A
1 AAAAAAATTCGAA
*
622716 AAAAAAA-TCAAA
1 AAAAAAATTCGAA
622728 AAAGAAAATTCGAA
1 AAA-AAAATTCGAA
*
622742 AAAAAAATTTGAA
1 AAAAAAATTCGAA
622755 AAAAAA
1 AAAAAA
622761 TAATTGTGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
11 2 0.05
12 11 0.28
13 19 0.49
14 7 0.18
ACGTcount: A:0.74, C:0.05, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAAAAATTCGAA
Found at i:622745 original size:10 final size:10
Alignment explanation
Indices: 622694--622730 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
622684 TAGTTTCTCG
622694 AAAAAAAATC
1 AAAAAAAATC
*
622704 AAAAAAATTC
1 AAAAAAAATC
622714 GAAAAAAAATC
1 -AAAAAAAATC
622725 AAAAAA
1 AAAAAA
622731 GAAAATTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.78, C:0.08, G:0.03, T:0.11
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:622747 original size:25 final size:21
Alignment explanation
Indices: 622691--622730 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
622681 TAGTAGTTTC
622691 TCGAAAAAAAATCAAAAAAAT
1 TCGAAAAAAAATCAAAAAAAT
622712 TCGAAAAAAAATCAAAAAA
1 TCGAAAAAAAATCAAAAAA
622731 GAAAATTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.72, C:0.10, G:0.05, T:0.12
Consensus pattern (21 bp):
TCGAAAAAAAATCAAAAAAAT
Found at i:622757 original size:14 final size:14
Alignment explanation
Indices: 622725--622777 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
622715 AAAAAAAATC
*
622725 AAAAAAGAAAATTCG
1 AAAAAA-AAAATTTG
622740 -AAAAAAAAATTTG
1 AAAAAAAAAATTTG
622753 AAAAAAAATAATTGTG
1 AAAAAAAA-AATT-TG
622769 AAAAAAAAA
1 AAAAAAAAA
622778 GAGAGCTAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
13 7 0.21
14 12 0.35
15 5 0.15
16 10 0.29
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (14 bp):
AAAAAAAAAATTTG
Found at i:622759 original size:16 final size:16
Alignment explanation
Indices: 622740--622777 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
622730 AGAAAATTCG
622740 AAAAAAAAATT-TGAA
1 AAAAAAAAATTGTGAA
*
622755 AAAAAATAATTGTGAA
1 AAAAAAAAATTGTGAA
622771 AAAAAAA
1 AAAAAAA
622778 GAGAGCTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (16 bp):
AAAAAAAAATTGTGAA
Found at i:622761 original size:25 final size:24
Alignment explanation
Indices: 622691--622747 Score: 84
Period size: 25 Copynumber: 2.5 Consensus size: 24
622681 TAGTAGTTTC
622691 TCGAAAAAAAATC---AAAAAAAT
1 TCGAAAAAAAATCAAAAAAAAAAT
622712 TCGAAAAAAAATCAAAAAAGAAAAT
1 TCGAAAAAAAATCAAAAAA-AAAAT
622737 TCGAAAAAAAA
1 TCGAAAAAAAA
622748 ATTTGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 13 0.41
24 3 0.09
25 16 0.50
ACGTcount: A:0.72, C:0.09, G:0.07, T:0.12
Consensus pattern (24 bp):
TCGAAAAAAAATCAAAAAAAAAAT
Found at i:623727 original size:18 final size:17
Alignment explanation
Indices: 623706--623750 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
623696 GAGTGACGAG
623706 AGAAAAAGAAACTGAAAA
1 AGAAAAA-AAACTGAAAA
*
623724 AGAAACAAAAATTGAAAA
1 AGAAA-AAAAACTGAAAA
623742 AGAGAAAAA
1 AGA-AAAAA
623751 GATTGGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.73, C:0.04, G:0.16, T:0.07
Consensus pattern (17 bp):
AGAAAAAAAACTGAAAA
Found at i:623755 original size:18 final size:18
Alignment explanation
Indices: 623704--623755 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
623694 AAGAGTGACG
*
623704 AGAGAAAAAGAAACTGAAAA
1 AGAGAAAAAG--ATTGAAAA
*
623724 AGA-AACAAAAATTGAAAA
1 AGAGAA-AAAGATTGAAAA
623742 AGAGAAAAAGATTG
1 AGAGAAAAAGATTG
623756 GAGAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 17 0.63
19 4 0.15
20 6 0.22
ACGTcount: A:0.67, C:0.04, G:0.19, T:0.10
Consensus pattern (18 bp):
AGAGAAAAAGATTGAAAA
Found at i:641078 original size:50 final size:50
Alignment explanation
Indices: 641003--641214 Score: 271
Period size: 50 Copynumber: 4.1 Consensus size: 50
640993 CCCANNNNNN
* * *
641003 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
1 TCTCATCTTGGTGCAAACGGCATGTCCCAGACATGGTCTTACATGGGACC
*
641053 TCTCATCTTGGTGCAAACGGCATGTCCCAGACATGGTCCTACATGGGACC
1 TCTCATCTTGGTGCAAACGGCATGTCCCAGACATGGTCTTACATGGGACC
* * * * *
641103 TCTCATAATGTCAATGATGCCAATGACATGTCCCAGACATGGTCTTACATGGGACC
1 TCTC---A--TC-TTGGTGCAAACGGCATGTCCCAGACATGGTCTTACATGGGACC
* *
641159 TCTCATCTTGGTGCAAACGGCATGTACTAGACATGGTCTTACATGGGACC
1 TCTCATCTTGGTGCAAACGGCATGTCCCAGACATGGTCTTACATGGGACC
641209 TCTCAT
1 TCTCAT
641215 AATGTCAATG
Statistics
Matches: 139, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
50 92 0.66
51 2 0.01
53 2 0.01
55 2 0.01
56 41 0.29
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (50 bp):
TCTCATCTTGGTGCAAACGGCATGTCCCAGACATGGTCTTACATGGGACC
Found at i:641139 original size:56 final size:50
Alignment explanation
Indices: 641014--641267 Score: 265
Period size: 50 Copynumber: 4.8 Consensus size: 50
641004 CTCATCTCGG
* * *
641014 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCATGA
* * *
641064 TGCAAACGGCATGTCCCAGACATGGTCCTACATGGGACCTCTCATAATGTCAATGA
1 TGCCAACGACATGTCCCAGACATGGTCTTACATGGGACCTCTC---A--TC-ATGA
* * *
641120 TGCCAATGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCATGA
* * * *
641170 TGCAAACGGCATGTACTAGACATGGTCTTACATGGGACCTCTCATAATGTCAATGA
1 TGCCAACGACATGTCCCAGACATGGTCTTACATGGGACCTCTC---A--TC-ATGA
* *
641226 TGCCAATGACATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGACATGTCCCAGACATGGTCTTACATGGGACCTCT
641268 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 24, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
50 80 0.48
51 2 0.01
53 3 0.02
55 4 0.02
56 79 0.47
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCATGA
Found at i:641202 original size:106 final size:106
Alignment explanation
Indices: 641014--641267 Score: 454
Period size: 106 Copynumber: 2.4 Consensus size: 106
641004 CTCATCTCGG
* * *
641014 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCAAACGGCATGTC
1 TGCCAATGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCAAACGGCATGTA
641079 CCAGACATGGTCCTACATGGGACCTCTCATAATGTCAATGA
66 CCAGACATGGTCCTACATGGGACCTCTCATAATGTCAATGA
641120 TGCCAATGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCAAACGGCATGTA
1 TGCCAATGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCAAACGGCATGTA
* *
641185 CTAGACATGGTCTTACATGGGACCTCTCATAATGTCAATGA
66 CCAGACATGGTCCTACATGGGACCTCTCATAATGTCAATGA
*
641226 TGCCAATGACATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGACATGTCCCAGACATGGTCTTACATGGGACCTCT
641268 TTACCCAAAT
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 142 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (106 bp):
TGCCAATGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCAAACGGCATGTA
CCAGACATGGTCCTACATGGGACCTCTCATAATGTCAATGA
Found at i:642492 original size:27 final size:27
Alignment explanation
Indices: 642449--642756 Score: 409
Period size: 27 Copynumber: 11.4 Consensus size: 27
642439 CCTCAAACTA
*
642449 GGTAAAATGACCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * *
642476 GATAAAATAACCAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
642503 GGTAAAATGACCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* *
642530 GGTAAAATAACCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
642557 GGTAGAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
642584 GGTAGAATGACCGAAATACTCCAATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
642611 GGTAGAATGATCGAAATACACCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
642638 GGTAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
642665 GGTAGAATGACTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
642692 GGTAGAATGATCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
642719 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
642746 GGTAAAATGAC
1 GGTAAAATGAC
642757 TGTTATACCC
Statistics
Matches: 249, Mismatches: 32, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 249 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:646467 original size:13 final size:14
Alignment explanation
Indices: 646449--646477 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
646439 GATTTCGGGG
646449 TTTCTTTTTC-TTT
1 TTTCTTTTTCATTT
646462 TTTCTTTTTCATTT
1 TTTCTTTTTCATTT
646476 TT
1 TT
646478 GTTGGTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTCTTTTTCATTT
Found at i:647372 original size:21 final size:19
Alignment explanation
Indices: 647348--647398 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
647338 CATTAATATT
647348 TTTTTATAATTGTTGTTATCA
1 TTTTTA-AATTGTT-TTATCA
*
647369 TTTTCAAAGTTGTTTTATCA
1 TTTTTAAA-TTGTTTTATCA
*
647389 TATTTAAATT
1 TTTTTAAATT
647399 TGTCTTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.08
20 14 0.54
21 10 0.38
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (19 bp):
TTTTTAAATTGTTTTATCA
Found at i:652216 original size:21 final size:21
Alignment explanation
Indices: 652192--652231 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
652182 AGAATTGCCA
* *
652192 AAATAGTTTGAGGAGAAATGG
1 AAATAGATTGAAGAGAAATGG
*
652213 AAATGGATTGAAGAGAAAT
1 AAATAGATTGAAGAGAAAT
652232 TTAGGGCAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (21 bp):
AAATAGATTGAAGAGAAATGG
Found at i:656837 original size:65 final size:65
Alignment explanation
Indices: 656755--656884 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
656745 GGAAAGGGCA
*
656755 ATATACTATCTCAGCAAGAAATTCACTGATTGTGAAATGAGGTACTCGTCCATTGAGAAGTTGTG
1 ATATACTACCTCAGCAAGAAATTCACTGATTGTGAAATGAGGTACTCGTCCATTGAGAAGTTGTG
656820 ATATACTACCTCAGCAAGAAATTCACTGATTGTGAAATGAGGTACTCGTCCATTGAGAAGTTGTG
1 ATATACTACCTCAGCAAGAAATTCACTGATTGTGAAATGAGGTACTCGTCCATTGAGAAGTTGTG
656885 TTGTGCTTTA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (65 bp):
ATATACTACCTCAGCAAGAAATTCACTGATTGTGAAATGAGGTACTCGTCCATTGAGAAGTTGTG
Found at i:660391 original size:45 final size:44
Alignment explanation
Indices: 660332--660716 Score: 160
Period size: 44 Copynumber: 8.8 Consensus size: 44
660322 AAAGTTGCAA
* * *
660332 TGGAGCAGACCGAAGAATTACAAATCTTATCTTCCTAAGCAGTAG
1 TGGAGCAGATCGAAG-ATGACAAATCTTATCTCCCTAAGCAGTAG
* *
660377 TGGAGCAGATCGAAGATGGCATATCTTATCTCCCTAAGCAGTAG
1 TGGAGCAGATCGAAGATGACAAATCTTATCTCCCTAAGCAGTAG
* * ** * * ** * *
660421 TGCAGCAGATTGAAG-CCA-ATAATCCTATCTCCTTGAAGTTGCAT
1 TGGAGCAGATCGAAGATGACA-AATCTTATCTCCCT-AAGCAGTAG
* * * * * ** *
660465 TGGAGCGGAT-TAAAAT-AAAAGATCTTATCTCTCTGAAGTTGCAG
1 TGGAGCAGATCGAAGATGACAA-ATCTTATCTCCCT-AAGCAGTAG
* * * * * * ** *
660509 TAGAGTAGTTTG--TAT--CAAGTCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGATCGAAGATGACAAATCTTATCTCCCT-AAGCAGTAG
* ** * * * *
660550 CGGAGCAGGCCGAAGAATTACGGAA-CTTATCTTCCTAAGCAATAG
1 TGGAGCAGATCGAAG-ATGAC-AAATCTTATCTCCCTAAGCAGTAG
* * * * * *
660595 TGGGGCAGATCGAGGATGGCAGATCTTACCTCCCTAAGCAGCAG
1 TGGAGCAGATCGAAGATGACAAATCTTATCTCCCTAAGCAGTAG
* * *
660639 TGGAGCAGATCGAGGATGGCAGATCTTATCTCCCTAAGCAGTAG
1 TGGAGCAGATCGAAGATGACAAATCTTATCTCCCTAAGCAGTAG
* * **
660683 TGGAGCAGATTGAAGCTG-GTAATCTTATCTCCCT
1 TGGAGCAGATCGAAGATGACAAATCTTATCTCCCT
660717 TAGGTTGCAG
Statistics
Matches: 256, Mismatches: 71, Indels: 28
0.72 0.20 0.08
Matches are distributed among these distances:
41 27 0.11
42 3 0.01
43 31 0.12
44 154 0.60
45 29 0.11
46 11 0.04
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
TGGAGCAGATCGAAGATGACAAATCTTATCTCCCTAAGCAGTAG
Found at i:660565 original size:218 final size:218
Alignment explanation
Indices: 660178--660648 Score: 719
Period size: 218 Copynumber: 2.2 Consensus size: 218
660168 AATGAAATTA
* *
660178 CAGATCGTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCAGTAATCCTATCTCCTTGAAGTT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCTTGAAGTT
* * *
660243 GAAGTGGAGTGGATTAAAATAAAAGATCTTTTCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTA
66 GAAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCA
* *
660308 GGTCTTATCTCCCTAAAGTTGCAATGGAGCAGACCGAAGAATTAC-AAATCTTATCTTCCTAAGC
131 AGTCTTATCTCCCTAAAGTTGCAACGGAGCAGACCGAAGAATTACGAAA-CTTATCTTCCTAAGC
*
660372 AGTAGTGGAGCAGATCGAAGATGG
195 AATAGTGGAGCAGATCGAAGATGG
* *
660396 CATATCTTATCTCCCTAAGCAGTAGTGCAGCAGATTGAAGCCAATAATCCTATCTCCTTGAAGTT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCTTGAAGTT
* * * * *
660461 GCATTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGTTTGTATCA
66 GAAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCA
* * * *
660526 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGGCCGAAGAATTACGGAACTTATCTTCCTAAGCA
131 AGTCTTATCTCCCTAAAGTTGCAACGGAGCAGACCGAAGAATTACGAAACTTATCTTCCTAAGCA
* *
660591 ATAGTGGGGCAGATCGAGGATGG
196 ATAGTGGAGCAGATCGAAGATGG
* *
660614 CAGATCTTACCTCCCTAAGCAGCAGTGGAGCAGAT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
660649 CGAGGATGGC
Statistics
Matches: 227, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
218 225 0.99
219 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (218 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCTTGAAGTT
GAAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCA
AGTCTTATCTCCCTAAAGTTGCAACGGAGCAGACCGAAGAATTACGAAACTTATCTTCCTAAGCA
ATAGTGGAGCAGATCGAAGATGG
Found at i:660726 original size:218 final size:218
Alignment explanation
Indices: 660178--660734 Score: 593
Period size: 218 Copynumber: 2.6 Consensus size: 218
660168 AATGAAATTA
* * * * * * * **
660178 CAGATCGTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCAGTAATCCTATCTCCTTGAAGTT
1 CAGATCTTACCTCCCTAAGCAGCAGTGCAGCAGATCGAAGCCAATAATCCTATCTCCCTGAAGCA
* ** * * *
660243 GAAGTGGAGTGGATTAAAATAAAAGATCTTTTCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTA
66 GCAGTGGAGCAGATTAAAATAAAAGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATCGCATCA
* *
660308 GGTCTTATCTCCCTAAAGTTGCAATGGAGCAGACCGAAGAATTACAAATCTTATCTTCCTAAGCA
131 AGTCTTATCTCCCTAAAGTTGCAACGGAGCAGACCGAAGAATTACAAATCTTATCTTCCTAAGCA
*
660373 GTAGTGGAGCAGATCGAAGATGG
196 ATAGTGGAGCAGATCGAAGATGG
* * * * * **
660396 CATATCTTATCTCCCTAAGCAGTAGTGCAGCAGATTGAAGCCAATAATCCTATCTCCTTGAAGTT
1 CAGATCTTACCTCCCTAAGCAGCAGTGCAGCAGATCGAAGCCAATAATCCTATCTCCCTGAAGCA
* * * * * *
660461 GCATTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGTTTGTATCA
66 GCAGTGGAGCAGATTAAAATAAAAGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATCGCATCA
* * * *
660526 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGGCCGAAGAATTACGGAA-CTTATCTTCCTAAGC
131 AGTCTTATCTCCCTAAAGTTGCAACGGAGCAGACCGAAGAATTAC-AAATCTTATCTTCCTAAGC
* *
660590 AATAGTGGGGCAGATCGAGGATGG
195 AATAGTGGAGCAGATCGAAGATGG
* * * *
660614 CAGATCTTACCTCCCTAAGCAGCAGTGGAGCAGATCGAGGATGGC-A-GATCTTATCTCCCT-AA
1 CAGATCTTACCTCCCTAAGCAGCAGTGCAGCAGATCGA--A-GCCAATAATCCTATCTCCCTGAA
* ** *** * *
660676 GCAGTAGTGGAGCAGATTGAAGCTGGTA-ATCTTATCTCCCTTAGGTTGCAGTAGAGTAG
63 GCAGCAGTGGAGCAGATT-AAAATAAAAGATCTTATCTCCCTGAAGTTGCAGTAGAGTAG
660735 GTTGAAGCAC
Statistics
Matches: 291, Mismatches: 43, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
218 270 0.93
219 17 0.06
220 2 0.01
221 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (218 bp):
CAGATCTTACCTCCCTAAGCAGCAGTGCAGCAGATCGAAGCCAATAATCCTATCTCCCTGAAGCA
GCAGTGGAGCAGATTAAAATAAAAGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATCGCATCA
AGTCTTATCTCCCTAAAGTTGCAACGGAGCAGACCGAAGAATTACAAATCTTATCTTCCTAAGCA
ATAGTGGAGCAGATCGAAGATGG
Found at i:661778 original size:17 final size:17
Alignment explanation
Indices: 661745--661778 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
661735 TTCTTCTGGG
661745 AAATTCAAAAATAAAAT
1 AAATTCAAAAATAAAAT
661762 AAATT-AAAAATACAAAT
1 AAATTCAAAAATA-AAAT
661779 CTTATCTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATTCAAAAATAAAAT
Found at i:667851 original size:39 final size:39
Alignment explanation
Indices: 667811--667946 Score: 137
Period size: 39 Copynumber: 3.5 Consensus size: 39
667801 ATTCACTTTT
* * * * *
667811 AAGCATATATCATATTACACATATAATCACAAAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * * **
667850 AACCATGTATCACAATACTCATATAATTACATAATGTTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
667889 AAGCACATATCGCAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
667928 AAGAATATTTCGCAATACT
1 AAGCATATATCACAATACT
667947 TAGAAACATG
Statistics
Matches: 77, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.30
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:679724 original size:114 final size:113
Alignment explanation
Indices: 679518--679847 Score: 489
Period size: 114 Copynumber: 2.9 Consensus size: 113
679508 ATTGGAACCA
* * * *
679518 TTCATGGTGTAGCCTCTAGTAAGCTAAAACTGGAATGGCAAAACACGATACATGAATATGTGTAA
1 TTCATGGTGTAGCCTCTAGTAAGATGAAACTGGAATGGCAAAACA-AATACATGAATGTGTGTAA
* *
679583 GACCATGTGGTTAATACCCATGACATGATATGATATGGCTGTATGAATG
65 GACCATGTGGTTAAGACCCATGGCATGATATGATATGGCTGTATGAATG
* ** *
679632 TTCATGGTGTAGCCTCTAGTAAGATGAAACTAGAATGAAAAAACAATATACATGAATGTGTATAA
1 TTCATGGTGTAGCCTCTAGTAAGATGAAACTGGAATGGCAAAACAA-ATACATGAATGTGTGTAA
* *
679697 GACCATGTGGTTAAGACCCTTGGCATGATATGATATGGTTGTATGAATG
65 GACCATGTGGTTAAGACCCATGGCATGATATGATATGGCTGTATGAATG
* * * *
679746 TTCATAGTGTAGCCTCCAGTAAGATGAAACTGGAATGGCAGAACACAGTACATGAATGTGTGTAA
1 TTCATGGTGTAGCCTCTAGTAAGATGAAACTGGAATGGCAAAACA-AATACATGAATGTGTGTAA
679811 GACCATGTGGTTAAGACCCATGGCATGATATGATATG
65 GACCATGTGGTTAAGACCCATGGCATGATATGATATG
679848 ACTATGATTG
Statistics
Matches: 193, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
114 192 0.99
115 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (113 bp):
TTCATGGTGTAGCCTCTAGTAAGATGAAACTGGAATGGCAAAACAAATACATGAATGTGTGTAAG
ACCATGTGGTTAAGACCCATGGCATGATATGATATGGCTGTATGAATG
Found at i:686465 original size:16 final size:17
Alignment explanation
Indices: 686436--686467 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
686426 CAATTTAGTC
686436 CAAAATTCATACTTTTT
1 CAAAATTCATACTTTTT
686453 CAAAATT-ATACTTTT
1 CAAAATTCATACTTTT
686468 GCCCCTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (17 bp):
CAAAATTCATACTTTTT
Found at i:695414 original size:5 final size:5
Alignment explanation
Indices: 695395--695428 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
695385 GAATTTAACA
695395 TCAAT TCATAT TCAAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCA-AT TCAAT TCAAT TCAAT TCAAT TCA
695429 CATTTTTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:701297 original size:17 final size:17
Alignment explanation
Indices: 701275--701307 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
701265 TACACTAATG
*
701275 AATACAAACAATCAATT
1 AATACAAACAAACAATT
701292 AATACAAACAAACAAT
1 AATACAAACAAACAAT
701308 ACCGTATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (17 bp):
AATACAAACAAACAATT
Found at i:703353 original size:20 final size:21
Alignment explanation
Indices: 703322--703360 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
703312 TTTATGGTTT
703322 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTTGGGTAAAAA
*
703343 TAAAT-ATTTTTGGTTAAA
1 TAAATAATTTTTGGGTAAA
703361 TTGGAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
TAAATAATTTTTGGGTAAAAA
Found at i:703728 original size:13 final size:13
Alignment explanation
Indices: 703698--703722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
703688 TCTAAACCTT
703698 TTCTCTCCAAAAA
1 TTCTCTCCAAAAA
703711 TTCTCTCCAAAA
1 TTCTCTCCAAAA
703723 TCTCTCGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (13 bp):
TTCTCTCCAAAAA
Found at i:704292 original size:190 final size:191
Alignment explanation
Indices: 703958--704338 Score: 755
Period size: 190 Copynumber: 2.0 Consensus size: 191
703948 TTAATTTTGA
703958 GTTGAAATCCAAATATTAATGGATGTCTAAGCTCAAAATAGGTTTAATAAGAGGTTTTTATCTTA
1 GTTGAAATCCAAATATTAATGGATGTCTAAGCTCAAAATAGGTTTAATAAGAGGTTTTTATCTTA
704023 AATCAAAAGATCAAACATGTTTTATGGATCAATTATGAGAAATTCGAATTTGATCAATAACATGG
66 AATCAAAAGATCAAACATGTTTTATGGATCAATTATGAGAAATTCGAATTTGATCAATAACATGG
704088 ATGATTTTTCTAAAAATTTATAAAACAGATTAAATGATAAAATTAACACTTATAATACATG
131 ATGATTTTTCTAAAAATTTATAAAACAGATTAAATGATAAAATTAACACTTATAATACATG
704149 GTTGAAATCC-AATATTAATGGATGTCTAAGCTCAAAATAGGTTTAATAAGAGGTTTTTATCTTA
1 GTTGAAATCCAAATATTAATGGATGTCTAAGCTCAAAATAGGTTTAATAAGAGGTTTTTATCTTA
704213 AATCAAAAGATCAAACATGTTTTATGGATCAATTATGAGAAATTCGAATTTGATCAATAACATGG
66 AATCAAAAGATCAAACATGTTTTATGGATCAATTATGAGAAATTCGAATTTGATCAATAACATGG
704278 ATGATTTTTCTAAAAATTTATAAAACAGATTAAATGATAAAATTAACACTTATAATACATG
131 ATGATTTTTCTAAAAATTTATAAAACAGATTAAATGATAAAATTAACACTTATAATACATG
704339 TTATTGGACT
Statistics
Matches: 190, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
190 180 0.95
191 10 0.05
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (191 bp):
GTTGAAATCCAAATATTAATGGATGTCTAAGCTCAAAATAGGTTTAATAAGAGGTTTTTATCTTA
AATCAAAAGATCAAACATGTTTTATGGATCAATTATGAGAAATTCGAATTTGATCAATAACATGG
ATGATTTTTCTAAAAATTTATAAAACAGATTAAATGATAAAATTAACACTTATAATACATG
Found at i:705469 original size:15 final size:13
Alignment explanation
Indices: 705438--705463 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
705428 CTACATTGGA
705438 CACATGGCCATGT
1 CACATGGCCATGT
705451 CACATGGCCATGT
1 CACATGGCCATGT
705464 GTCACACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
CACATGGCCATGT
Found at i:713875 original size:29 final size:30
Alignment explanation
Indices: 713821--713883 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
713811 CAATGGAAAG
*
713821 GGATAGCTTCGGCTGTCAAACTATGAAAAA
1 GGATAGCTTCGGCTATCAAACTATGAAAAA
* *
713851 GGATAGCTTCGGCTATC-GATTATGAAAAA
1 GGATAGCTTCGGCTATCAAACTATGAAAAA
713880 GGAT
1 GGAT
713884 GGTAATGACC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (30 bp):
GGATAGCTTCGGCTATCAAACTATGAAAAA
Found at i:713932 original size:57 final size:58
Alignment explanation
Indices: 713871--714041 Score: 197
Period size: 57 Copynumber: 2.9 Consensus size: 58
713861 GGCTATCGAT
* *
713871 TATGAAAAAGGATGGTAATGACCAACAACTATGAAAAGGGATGGTGA-GACCATC-AAC
1 TATGAAAAGGGATGGT-ATGACCATCAACTATGAAAAGGGATGGTGACGACCATCTAAC
* * * *
713928 TATGAAAAGGGATAGTGATGACCATCAACTATAAAAAGGGATGGTGACGACCA-CTGAT
1 TATGAAAAGGGATGGT-ATGACCATCAACTATGAAAAGGGATGGTGACGACCATCTAAC
* *
713986 TAATGAAAAGGGATGGTTTCGACCATCGAA-TATGAAAAGGGATGGTTACGACCATC
1 T-ATGAAAAGGGATGGTAT-GACCATC-AACTATGAAAAGGGATGGTGACGACCATC
714042 GTTTAACACA
Statistics
Matches: 97, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
57 43 0.44
58 8 0.08
59 43 0.44
60 3 0.03
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.20
Consensus pattern (58 bp):
TATGAAAAGGGATGGTATGACCATCAACTATGAAAAGGGATGGTGACGACCATCTAAC
Found at i:714042 original size:29 final size:30
Alignment explanation
Indices: 713871--714042 Score: 178
Period size: 29 Copynumber: 5.9 Consensus size: 30
713861 GGCTATCGAT
* * * *
713871 TATGAAAAAGGATGGTAATGACCAAC-AAC
1 TATGAAAAGGGATGGTGACGACCATCGAAC
713900 TATGAAAAGGGATGGTGA-GACCATC-AAC
1 TATGAAAAGGGATGGTGACGACCATCGAAC
* *
713928 TATGAAAAGGGATAGTGATGACCATC-AAC
1 TATGAAAAGGGATGGTGACGACCATCGAAC
* *
713957 TATAAAAAGGGATGGTGACGACCA-CTG-AT
1 TATGAAAAGGGATGGTGACGACCATC-GAAC
**
713986 TAATGAAAAGGGATGGTTTCGACCATCGAA-
1 T-ATGAAAAGGGATGGTGACGACCATCGAAC
*
714016 TATGAAAAGGGATGGTTACGACCATCG
1 TATGAAAAGGGATGGTGACGACCATCG
714043 TTTAACACAC
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
28 27 0.22
29 74 0.59
30 22 0.18
31 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.20
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATCGAAC
Found at i:718068 original size:51 final size:50
Alignment explanation
Indices: 717939--718068 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 50
717929 NNNNNNNNNN
* * * **
717939 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAAACA
** *
717989 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG-AAACA
*
718040 TCCCATGTAAGACCATGTCTGTGACATGG
1 TCCCATGTAAGACCATGTCTGGGACATGG
718069 ATTTGGCATG
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 40 0.59
51 28 0.41
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAAACA
Found at i:721386 original size:50 final size:50
Alignment explanation
Indices: 721306--721430 Score: 162
Period size: 50 Copynumber: 2.5 Consensus size: 50
721296 GGTCACGTGC
* * * *
721306 GTAGTACTATGTGCAGGCTACTACGTGTACCGGA-ATGATAGGTCGCATGT
1 GTAGTACTATGTGCAGGCTACTACGCGTACCGGATA-GATAGATCACATAT
* * * *
721356 GTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTCGATCACGTAT
1 GTAGTACTATGTGCAGGCTACTACGCGTACCGGATAGATAGATCACATAT
721406 GTAGTACTATGTGCAGGCTACTACG
1 GTAGTACTATGTGCAGGCTACTACG
721431 TGTATCGGNN
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
50 64 0.98
51 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (50 bp):
GTAGTACTATGTGCAGGCTACTACGCGTACCGGATAGATAGATCACATAT
Found at i:725967 original size:30 final size:30
Alignment explanation
Indices: 725933--725997 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
725923 ATTTATTTTA
725933 TTGTTAATTTTGTTATTATTGTAGAGACAT
1 TTGTTAATTTTGTTATTATTGTAGAGACAT
*
725963 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTGTAGAGACAT
725993 TTGTT
1 TTGTT
725998 TGTTAAGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.25, C:0.03, G:0.15, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTGTAGAGACAT
Found at i:728987 original size:43 final size:43
Alignment explanation
Indices: 728933--729208 Score: 251
Period size: 43 Copynumber: 6.4 Consensus size: 43
728923 ACGTTTATTT
*
728933 CAAA-AAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGCTTAC
1 CAAACAAACGCCGCTAAAGGTCATGATCTTTAGCGGCGCTTAC
* * *
728975 CACACAAACGCCGCTAAAGGTCATGGTCTTTAGTGGCGCTTAC
1 CAAACAAACGCCGCTAAAGGTCATGATCTTTAGCGGCGCTTAC
* * *
729018 AAAACAAACGCCGCTGAAGGTCATGGA-ATTTAGCGGCGCTTAC
1 CAAACAAACGCCGCTAAAGGTCAT-GATCTTTAGCGGCGCTTAC
* * * *
729061 CAAACAAACGCCGCTAAA-GACAACGACCTTTAGCGGCGCTTCC
1 CAAACAAACGCCGCTAAAGGTC-ATGATCTTTAGCGGCGCTTAC
** *** * *
729104 CTTACAAACGCCGCTAAATACCCTGATCTATAGCGGCGCTT-C
1 CAAACAAACGCCGCTAAAGGTCATGATCTTTAGCGGCGCTTAC
* ** *
729146 TGCATA-AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTTAC
1 --CAAACAAACGCCGCTAAAGGTCATGATCTTTAGCGGCGC--TTAC
729192 C--ACAAACGCCGCTAAAG
1 CAAACAAACGCCGCTAAAG
729209 ACCATTACCT
Statistics
Matches: 198, Mismatches: 25, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
42 9 0.05
43 180 0.91
44 6 0.03
45 2 0.01
46 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (43 bp):
CAAACAAACGCCGCTAAAGGTCATGATCTTTAGCGGCGCTTAC
Found at i:729371 original size:10 final size:10
Alignment explanation
Indices: 729349--729385 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
729339 CAATAAATCT
729349 ATAATATAT-A
1 ATAA-ATATCA
729359 ATAAATATCA
1 ATAAATATCA
729369 ATAAATATCA
1 ATAAATATCA
729379 ATAAATA
1 ATAAATA
729386 AAATAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 4 0.15
10 22 0.85
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (10 bp):
ATAAATATCA
Found at i:729394 original size:20 final size:20
Alignment explanation
Indices: 729349--729394 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
729339 CAATAAATCT
* *
729349 ATAATATATAATAAATATCA
1 ATAAAATATAATAAATATAA
729369 AT-AAATATCAATAAATA-AA
1 ATAAAATAT-AATAAATATAA
729388 ATAAAAT
1 ATAAAAT
729395 TCGTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAAAATATAATAAATATAA
Found at i:729582 original size:21 final size:21
Alignment explanation
Indices: 729556--729605 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
729546 TTTTACGCTG
*
729556 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCACTGCAGC
* *
729577 CTCTGCTTCTCTCACTGCCGC
1 CTCTGCTTCCCTCACTGCAGC
*
729598 ATCTGCTT
1 CTCTGCTT
729606 TAAGCTGCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.06, C:0.44, G:0.16, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCACTGCAGC
Found at i:729687 original size:66 final size:66
Alignment explanation
Indices: 729576--729743 Score: 223
Period size: 66 Copynumber: 2.5 Consensus size: 66
729566 CTCGCTGCAG
* * * *
729576 CCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATA-CTTTCGTTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGCTGCTGGAGTTCTTCATATCTTT-GTTG
729640 AA
65 AA
*
729642 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTG-TCGCTGGAGTTCTTCATATCTTTTTTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGCT-GCTGGAGTTCTTCATATCTTTGTTG
729706 AA
65 AA
* * * *
729708 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTT
729744 TTGTAATTTG
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
65 1 0.01
66 86 0.95
67 4 0.04
ACGTcount: A:0.13, C:0.29, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGCTGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:734712 original size:16 final size:16
Alignment explanation
Indices: 734691--734740 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
734681 GTATTATGTC
*
734691 GTATTATGTAAGTTAT
1 GTATTATATAAGTTAT
734707 GTATTATATAAGTTAT
1 GTATTATATAAGTTAT
*
734723 GAATTA-ATAAGTTAT
1 GTATTATATAAGTTAT
734738 GTA
1 GTA
734741 ATGTATGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
15 11 0.35
16 20 0.65
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (16 bp):
GTATTATATAAGTTAT
Found at i:735378 original size:15 final size:15
Alignment explanation
Indices: 735355--735385 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
735345 TAAAAGGAAA
*
735355 AGTAGAAATGAAAAC
1 AGTACAAATGAAAAC
735370 AGTACAAATGAAAAC
1 AGTACAAATGAAAAC
735385 A
1 A
735386 AATTGGTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.10, G:0.16, T:0.13
Consensus pattern (15 bp):
AGTACAAATGAAAAC
Found at i:754465 original size:41 final size:41
Alignment explanation
Indices: 754415--754628 Score: 218
Period size: 41 Copynumber: 5.2 Consensus size: 41
754405 GCTCAGGTAT
*
754415 TTAGCGGCGCTTTTTAAGAAACGCTGCTAAAGACCGGAGCA
1 TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGACCGGAGCA
* * * * *
754456 TTAGTGGCGCTTTCTGAGAAACGCCGCTGAAGACCGTAGCA
1 TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGACCGGAGCA
* * * *
754497 TTAGCGGCGCCTCTTACA-AAGCGCCGCTAAAGACCTGAGCA
1 TTAGCGGCGCTTTTTA-AGAAACGCCGCTAAAGACCGGAGCA
* * * *
754538 TTAGCAGCGCATCTT-AGAAAACGCCGCTAAAGACCGCAGCA
1 TTAGCGGCGCTTTTTAAG-AAACGCCGCTAAAGACCGGAGCA
* * * *
754579 TTAGCGGCGATTATTCAA-AAACGCCACTAAAGACAGGAGCA
1 TTAGCGGCGCTT-TTTAAGAAACGCCGCTAAAGACCGGAGCA
754620 TTAGCGGCG
1 TTAGCGGCG
754629 TGGTTTGAAA
Statistics
Matches: 140, Mismatches: 28, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
39 1 0.01
41 136 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGACCGGAGCA
Found at i:754786 original size:41 final size:40
Alignment explanation
Indices: 754715--754825 Score: 111
Period size: 41 Copynumber: 2.8 Consensus size: 40
754705 ATTTGTAAAT
* * * *
754715 GCCGCTAACGCTTG-TTTTTAGCGGCGTTTTAC-AAATAGC
1 GCCGCTAATGCTCGATTTTTTGCGGCATTTTACGAAA-AGC
* *
754754 GTCGCTAATGCTCG-TTTCTTTGGCGGCATTTTACGTAAAGC
1 GCCGCTAATGCTCGATTT-TTT-GCGGCATTTTACGAAAAGC
*
754795 GCCGCTAATGCTCGATTTTTTGTGGCATTTT
1 GCCGCTAATGCTCGATTTTTTGCGGCATTTT
754826 TTTGTCCAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
39 14 0.23
40 11 0.18
41 30 0.50
42 5 0.08
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (40 bp):
GCCGCTAATGCTCGATTTTTTGCGGCATTTTACGAAAAGC
Found at i:772333 original size:29 final size:29
Alignment explanation
Indices: 772300--772446 Score: 183
Period size: 29 Copynumber: 5.1 Consensus size: 29
772290 TGGAATCACA
* *
772300 ATGGTCGTCACCATCCCATTTCATAGTTG
1 ATGGTCGTCACCATCCCTTTTCATAATTG
772329 ATGGTCGTCACCATCCCTTTTCATAATTG
1 ATGGTCGTCACCATCCCTTTTCATAATTG
* * *
772358 ATAG-C-TGAAGCTATCCCTTTTCAT-ATTCG
1 ATGGTCGT-CA-CCATCCCTTTTCATAATT-G
* *
772387 ATGGTCGTCACCACCCCTTTTCATAGTTG
1 ATGGTCGTCACCATCCCTTTTCATAATTG
772416 ATGGTCGTCACCATCCCTTTTCATAATTG
1 ATGGTCGTCACCATCCCTTTTCATAATTG
772445 AT
1 AT
772447 AGCTGAAGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
27 1 0.01
28 5 0.05
29 89 0.89
30 4 0.04
31 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (29 bp):
ATGGTCGTCACCATCCCTTTTCATAATTG
Found at i:772446 original size:87 final size:87
Alignment explanation
Indices: 772300--772475 Score: 316
Period size: 87 Copynumber: 2.0 Consensus size: 87
772290 TGGAATCACA
*
772300 ATGGTCGTCACCATCCCATTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGCTG
1 ATGGTCGTCACCACCCCATTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGCTG
*
772365 AAGCTATCCCTTTTCATATTCG
66 AAGCTATCCCTTTTCATAATCG
*
772387 ATGGTCGTCACCACCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGCTG
1 ATGGTCGTCACCACCCCATTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGCTG
*
772452 AAGCTATCCTTTTTCATAATCG
66 AAGCTATCCCTTTTCATAATCG
772474 AT
1 AT
772476 AGCCGAAGCT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (87 bp):
ATGGTCGTCACCACCCCATTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGCTG
AAGCTATCCCTTTTCATAATCG
Found at i:772460 original size:29 final size:29
Alignment explanation
Indices: 772341--772507 Score: 137
Period size: 29 Copynumber: 5.8 Consensus size: 29
772331 GGTCGTCACC
772341 ATCCCTTTTCATAATTGATAGCTGAAGCT
1 ATCCCTTTTCATAATTGATAGCTGAAGCT
* * *
772370 ATCCCTTTTCAT-ATTCGAT-GGTCGTCA-CC
1 ATCCCTTTTCATAATT-GATAGCT-G-AAGCT
* * * * *
772399 ACCCCTTTTCATAGTTGAT-GGTCGTCA-CC
1 ATCCCTTTTCATAATTGATAGCT-G-AAGCT
772428 ATCCCTTTTCATAATTGATAGCTGAAGCT
1 ATCCCTTTTCATAATTGATAGCTGAAGCT
* * *
772457 ATCCTTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTGATAGCTGAAGCT
* *
772486 ATCCTTTTTCATAATCGATAGC
1 ATCCCTTTTCATAATTGATAGC
772508 CCTTTTCATA
Statistics
Matches: 119, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
28 6 0.05
29 108 0.91
30 5 0.04
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAATTGATAGCTGAAGCT
Found at i:773538 original size:11 final size:11
Alignment explanation
Indices: 773522--773547 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
773512 TTGCAAACGG
773522 TAATAATAAAA
1 TAATAATAAAA
773533 TAATAATAAAA
1 TAATAATAAAA
773544 TAAT
1 TAAT
773548 TATTCACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:790393 original size:20 final size:20
Alignment explanation
Indices: 790368--790414 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
790358 AGCTCGTTTC
790368 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCGAGCTCAAGT
* * * *
790388 CAGCTCATTCGAGTTGAATT
1 CAGCTCACTCGAGCTCAAGT
790408 CAGCTCA
1 CAGCTCA
790415 ACCTCAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (20 bp):
CAGCTCACTCGAGCTCAAGT
Found at i:795820 original size:26 final size:26
Alignment explanation
Indices: 795791--795840 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
795781 TCATGTGCCC
795791 GGCACTAGTCAAATAAACTGATAGCG
1 GGCACTAGTCAAATAAACTGATAGCG
795817 GGCACTAGTCAAATAAACTGATAG
1 GGCACTAGTCAAATAAACTGATAG
795841 AAGTAGTGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (26 bp):
GGCACTAGTCAAATAAACTGATAGCG
Found at i:800423 original size:20 final size:20
Alignment explanation
Indices: 800398--800436 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
800388 TGAGTTATTT
800398 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
800418 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
800437 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:801205 original size:180 final size:180
Alignment explanation
Indices: 800945--805642 Score: 9301
Period size: 180 Copynumber: 26.1 Consensus size: 180
800935 AGAATTAAAT
*
800945 CTTATTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
801010 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
801075 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
801125 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
801190 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
801255 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
801305 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
801370 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
801435 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
801485 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
801550 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
801615 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
801665 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
801730 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
801795 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
801845 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
801910 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
801975 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
802025 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
802090 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
802155 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
802205 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
802270 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
802335 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
802385 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
802450 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
802515 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
802565 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
802630 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
802695 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
802745 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
802810 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
802875 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
802925 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
802990 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
803055 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
803105 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
803170 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
803235 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
803285 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
803350 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
803415 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
803465 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
803530 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
803595 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
803645 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
803710 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
803775 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
803825 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
803890 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
803955 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
804005 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
804070 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
804135 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
804185 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
804250 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
804315 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
804365 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
804430 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
804495 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
804545 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
804610 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
804675 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
804725 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
804790 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
804855 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
804905 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
804970 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
805035 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
805085 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
805150 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
805215 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
805265 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
805330 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
805395 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
131 TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
805445 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
1 CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
* *
805510 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTTCCCTATTTTGATTTTAGGAAA-TC
66 TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAG-TCCCTATTTTGACTTTA-GAAAGGC
* *
805574 ATTAAAAATTGTACAGAAG-GAATTATGAGTCATAATTTATATGTCTAGATTA
129 ATTAAAAATTGTAGA-AAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
*
805626 CTTAGTGAGTCTCTTTT
1 CTTAGTGAGTCTATTTT
805643 GAAAATAAAT
Statistics
Matches: 4509, Mismatches: 6, Indels: 5
1.00 0.00 0.00
Matches are distributed among these distances:
180 4423 0.98
181 79 0.02
182 7 0.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (180 bp):
CTTAGTGAGTCTATTTTCACATGAAAGAAACGGTGTAGGCAAAAGAATTATATATTATGATATAT
TTTAATTTTAGTGAGACAGGGTAAGAATGGTTTTTGAAGTCCCTATTTTGACTTTAGAAAGGCAT
TAAAAATTGTAGAAAGAGTATTATGAGTCATAATTTATATGTCTAGATTA
Found at i:807752 original size:13 final size:14
Alignment explanation
Indices: 807734--807764 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
807724 TATAAAATTA
807734 CCAAAATTTAA-GT
1 CCAAAATTTAATGT
807747 CCAAAATTTAATGT
1 CCAAAATTTAATGT
807761 CCAA
1 CCAA
807765 TGTCCATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (14 bp):
CCAAAATTTAATGT
Found at i:814229 original size:12 final size:12
Alignment explanation
Indices: 814212--814238 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
814202 TCAGGCTGTT
814212 ACACGGCCTAGC
1 ACACGGCCTAGC
814224 ACACGGCCTAGC
1 ACACGGCCTAGC
814236 ACA
1 ACA
814239 TGGGTGTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.41, G:0.22, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:839566 original size:42 final size:42
Alignment explanation
Indices: 839514--839604 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
839504 AATGTCAATC
*
839514 TTAGCTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
1 TTAGTTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
* *
839556 TTAGTTAGCTAATTCAGCTGTTGGAATAAGACTTAAACTCTT
1 TTAGTTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
839598 TTAGTTA
1 TTAGTTA
839605 TTTTAATCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (42 bp):
TTAGTTAGCTAATTCAACTGCTGGAATAAGACTTAAACTCTT
Found at i:847779 original size:26 final size:26
Alignment explanation
Indices: 847750--847800 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
847740 TATAATTTAG
847750 AAATCATGTATC-TATATATCATGTAC
1 AAATCAT-TATCATATATATCATGTAC
* *
847776 AAATCATTTTCATATATCTCATGTA
1 AAATCATTATCATATATATCATGTA
847801 AATACCTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (26 bp):
AAATCATTATCATATATATCATGTAC
Found at i:847986 original size:25 final size:25
Alignment explanation
Indices: 847958--848016 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
847948 ACGAGTTGTA
*
847958 AACGGTAAGCTCTTCTGAGATGAAT
1 AACGGTAAGCTCCTCTGAGATGAAT
* *
847983 AACGGTAAGCTCCTCTGAGCTGAGT
1 AACGGTAAGCTCCTCTGAGATGAAT
*
848008 AACGATAAG
1 AACGGTAAG
848017 GTCATAAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (25 bp):
AACGGTAAGCTCCTCTGAGATGAAT
Found at i:855606 original size:24 final size:25
Alignment explanation
Indices: 855579--855625 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
855569 ACTGGTCATA
*
855579 GAGAGAATTGAGGA-AGGATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
*
855603 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAGAGAATATT
855626 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:856674 original size:27 final size:27
Alignment explanation
Indices: 856633--857110 Score: 495
Period size: 27 Copynumber: 17.9 Consensus size: 27
856623 TCTAAGAGGT
*
856633 CGAAATACCCTTATAGGGTAAAATGAC
1 CGAAATACCCCTATAGGGTAAAATGAC
*
856660 CAAAATACCCCTATAGGGTAAAATGAC
1 CGAAATACCCCTATAGGGTAAAATGAC
* * *
856687 CAAAATACCCCTATAAGATAAAATGAC
1 CGAAATACCCCTATAGGGTAAAATGAC
*
856714 CGAAATACCCCCATAGGGTAAAATGAC
1 CGAAATACCCCTATAGGGTAAAATGAC
* *
856741 C-AAATACCCTTATAAGGTAAAATGAC
1 CGAAATACCCCTATAGGGTAAAATGAC
856767 CGAAATACCCCTATAGGGT-AAATGAC
1 CGAAATACCCCTATAGGGTAAAATGAC
* * * * *
856793 CAAAATACCCCCATAAGGTTAAATGAT
1 CGAAATACCCCTATAGGGTAAAATGAC
*
856820 CGGAATACCCC-ATAGGGTAAAATGAC
1 CGAAATACCCCTATAGGGTAAAATGAC
** * * *
856846 TAAAATACCAC-ATAGGGTAAAATAAA
1 CGAAATACCCCTATAGGGTAAAATGAC
* *
856872 CGAAATACCCCCATAGGGTAAAATGAT
1 CGAAATACCCCTATAGGGTAAAATGAC
* *
856899 CGAAATACCCTTATAGGGTAAAATGAT
1 CGAAATACCCCTATAGGGTAAAATGAC
* * *
856926 CAAAATACCCCCATAGGGTAAAATGAT
1 CGAAATACCCCTATAGGGTAAAATGAC
*
856953 TGAAATACCCC-ATAGGGTAAAATG-C
1 CGAAATACCCCTATAGGGTAAAATGAC
* * * * *
856978 CTTAAATACCCCCATAAGGTAAAATAAT
1 C-GAAATACCCCTATAGGGTAAAATGAC
* *
857006 CGAAATACCCTTATAGGGTAAAATAAC
1 CGAAATACCCCTATAGGGTAAAATGAC
* *
857033 CGAAGGAT-CCTC-ATAAGGTAAAATGAC
1 CGAA--ATACCCCTATAGGGTAAAATGAC
* * *
857060 CGAAATACCCTTATAGCGTAAAATGAT
1 CGAAATACCCCTATAGGGTAAAATGAC
* * *
857087 CGAAATGCCCCCATAAGGTAAAAT
1 CGAAATACCCCTATAGGGTAAAAT
857111 AACTGTTACA
Statistics
Matches: 376, Mismatches: 65, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
25 2 0.01
26 110 0.29
27 259 0.69
28 3 0.01
29 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
CGAAATACCCCTATAGGGTAAAATGAC
Found at i:857136 original size:81 final size:78
Alignment explanation
Indices: 856646--857140 Score: 296
Period size: 80 Copynumber: 6.2 Consensus size: 78
856636 AATACCCTTA
* * * * * * *
856646 TAGG-GTAAAATGACCAAAATACCCCTATAGGGTAAAATGACCAAAATACCCCTATAAGATAAAA
1 TAGGAGTAAAATGACCGAAATACCCTTATA-GGTAAAATGATCGAAATACCCCCATAGGGTAAAA
* * *
856710 TGACCGAAATACCCCC
65 TAACTG-AACA-CCCC
* *
856726 ATAGG-GTAAAATGACC-AAATACCCTTATAAGGTAAAATGACCGAAATACCCCTATAGGGT-AA
1 -TAGGAGTAAAATGACCGAAATACCCTTAT-AGGTAAAATGATCGAAATACCCCCATAGGGTAAA
* ** *
856788 ATGACCAAAATACCCCC
64 AT-AACTGAACA-CCCC
* * * * * * *
856805 ATAAG-GTTAAATGATCGGAATACCC-CATAGGGTAAAATGA-CTAAAATA-CCACATAGGGTAA
1 -TAGGAGTAAAATGACCGAAATACCCTTATA-GGTAAAATGATC-GAAATACCCCCATAGGGTAA
*
856866 AATAAAC-GAAATACCCCC
63 AAT-AACTG-AACA-CCCC
* *
856884 ATAGG-GTAAAATGATCGAAATACCCTTATAGGGTAAAATGATCAAAATACCCCCATAGGGTAAA
1 -TAGGAGTAAAATGACCGAAATACCCTTATA-GGTAAAATGATCGAAATACCCCCATAGGGTAAA
* * *
856948 ATGATTGAAATACCCC
64 ATAACTG-AACACCCC
* ** * **
856964 ATAGG-GTAAAATG-CCTTAAATACCCCCATAAGGTAAAATAATCGAAATACCCTTATAGGGTAA
1 -TAGGAGTAAAATGACC-GAAATACCCTTAT-AGGTAAAATGATCGAAATACCCCCATAGGGTAA
* * *
857027 AATAACCGAAGGATCCTCA
63 AATAACTGAA-CA-CC-CC
* * *
857046 TAAG-GTAAAATGACCGAAATACCCTTATAGCGTAAAATGATCGAAATGCCCCCATAAGGTAAAA
1 TAGGAGTAAAATGACCGAAATACCCTTATAG-GTAAAATGATCGAAATACCCCCATAGGGTAAAA
*
857110 TAACTGTTACACCCC
65 TAACTG-AACACCCC
857125 TAGGAGATAAAATGAC
1 TAGGAG-TAAAATGAC
857141 AGTTATAGCC
Statistics
Matches: 340, Mismatches: 53, Indels: 42
0.78 0.12 0.10
Matches are distributed among these distances:
78 11 0.03
79 87 0.26
80 133 0.39
81 105 0.31
82 4 0.01
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.20
Consensus pattern (78 bp):
TAGGAGTAAAATGACCGAAATACCCTTATAGGTAAAATGATCGAAATACCCCCATAGGGTAAAAT
AACTGAACACCCC
Found at i:857568 original size:28 final size:29
Alignment explanation
Indices: 857528--857617 Score: 150
Period size: 28 Copynumber: 3.2 Consensus size: 29
857518 TTATTGTACT
857528 ACACT-ATTACTGTATTGGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
857556 ACACTGATT-CTGTATTGGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
*
857584 ACACTG-TTACTGTACTGGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
857612 ACACTG
1 ACACTG
857618 TACTACCACT
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
27 2 0.03
28 54 0.92
29 3 0.05
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (29 bp):
ACACTGATTACTGTATTGGGCTAAGGCCC
Found at i:862736 original size:9 final size:9
Alignment explanation
Indices: 862722--862750 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
862712 ACAGCCATAT
862722 AATTAATTG
1 AATTAATTG
862731 AATTAATTG
1 AATTAATTG
862740 AATTAATTG
1 AATTAATTG
862749 AA
1 AA
862751 GGGGGTAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (9 bp):
AATTAATTG
Found at i:867179 original size:37 final size:37
Alignment explanation
Indices: 867129--867199 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
867119 TCGAAGCAAA
867129 GCTGCCAGTAATCAAAATGGATAAGAGCCGTAAATAG
1 GCTGCCAGTAATCAAAATGGATAAGAGCCGTAAATAG
* *
867166 GCTGCCAGTAATCAAAATGGCTAATAGCCGTAAA
1 GCTGCCAGTAATCAAAATGGATAAGAGCCGTAAA
867200 CAGGATAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (37 bp):
GCTGCCAGTAATCAAAATGGATAAGAGCCGTAAATAG
Found at i:867232 original size:22 final size:22
Alignment explanation
Indices: 867196--867237 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
867186 CTAATAGCCG
* *
867196 TAAACAGGATAGCTATAAGCTC
1 TAAACAGAATAGCTACAAGCTC
*
867218 TAAACAGAATGGCTACAAGC
1 TAAACAGAATAGCTACAAGC
867238 CATAAGTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (22 bp):
TAAACAGAATAGCTACAAGCTC
Found at i:867286 original size:32 final size:32
Alignment explanation
Indices: 867234--867402 Score: 207
Period size: 32 Copynumber: 5.3 Consensus size: 32
867224 GAATGGCTAC
* *
867234 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
867265 AAGCCATTAGTAACGGTAATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * * *
867297 AAGACATCAGTAAC-GATAATATAATCAGTACA
1 AAGCCATCAGTAACAG-TAATATGATCGGCACA
* *
867329 AAGCCATCAGTAATAGTAATATGATCAGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
867361 AAGCCATCAGTAACAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
867393 AAGCCATCAG
1 AAGCCATCAG
867403 GGGTACTTCA
Statistics
Matches: 120, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
31 11 0.09
32 108 0.90
33 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:867475 original size:24 final size:24
Alignment explanation
Indices: 867448--867495 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
867438 CAGACAAAGC
* *
867448 CATCATAGACAAATCAGTCATTTA
1 CATCACAGACAAATCAATCATTTA
867472 CATCACAGACAAATCAATCATTTA
1 CATCACAGACAAATCAATCATTTA
867496 ACCTCGAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.27
Consensus pattern (24 bp):
CATCACAGACAAATCAATCATTTA
Found at i:867584 original size:27 final size:27
Alignment explanation
Indices: 867538--867862 Score: 341
Period size: 27 Copynumber: 12.1 Consensus size: 27
867528 AGGGGCATTA
* *
867538 CGGTCATTTTA-CATTACAGGGGTATTT
1 CGGTCATTTTACCCTT-CAGGGGTAATT
* *
867565 TGGTTATTTTACCCTTCAGGGGTAATT
1 CGGTCATTTTACCCTTCAGGGGTAATT
* * *
867592 CAGTCATTTTACCCTTTAAGGGTAATT
1 CGGTCATTTTACCCTTCAGGGGTAATT
*
867619 CGGTCATTTTACCCTTCGGGGGTAATT
1 CGGTCATTTTACCCTTCAGGGGTAATT
* *
867646 CGGTCATTTTACCCTTCAAGGGTACTT
1 CGGTCATTTTACCCTTCAGGGGTAATT
*
867673 CGGTCATTTTACCCTTCAAGGGTAATT
1 CGGTCATTTTACCCTTCAGGGGTAATT
** *
867700 TTGTCATTTTACCCTTCGGGGGTAATT
1 CGGTCATTTTACCCTTCAGGGGTAATT
** *
867727 TAGTCA-TTTACCCTTCGGGGGTAATT
1 CGGTCATTTTACCCTTCAGGGGTAATT
* * * *
867753 CTGTTATTTTACCTTTCGGGGGTAATT
1 CGGTCATTTTACCCTTCAGGGGTAATT
*
867780 CGATCATTTTACCCTTC-GAGGGTAATT
1 CGGTCATTTTACCCTTCAG-GGGTAATT
* * * **
867807 CGATCATTTTAACTTTTGGGGGTAATT
1 CGGTCATTTTACCCTTCAGGGGTAATT
* * *
867834 TGATCATTTTACCCTTCAGCGGTAATT
1 CGGTCATTTTACCCTTCAGGGGTAATT
867861 CG
1 CG
867863 ACCATTTTTT
Statistics
Matches: 254, Mismatches: 40, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
26 24 0.09
27 226 0.89
28 4 0.02
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.41
Consensus pattern (27 bp):
CGGTCATTTTACCCTTCAGGGGTAATT
Found at i:869484 original size:24 final size:24
Alignment explanation
Indices: 869452--869538 Score: 140
Period size: 24 Copynumber: 3.6 Consensus size: 24
869442 GAATCACAGT
869452 CAAATCAGTCATTTA-AGTCATAGA
1 CAAATCAGTCATTTACA-TCATAGA
869476 CAAATCAGTCATTTACATCATAGA
1 CAAATCAGTCATTTACATCATAGA
*
869500 CAAATCAGTCATTTACATCACAGA
1 CAAATCAGTCATTTACATCATAGA
*
869524 CAAATCAATCATTTA
1 CAAATCAGTCATTTA
869539 ACCTCGAGGG
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
24 59 0.98
25 1 0.02
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.29
Consensus pattern (24 bp):
CAAATCAGTCATTTACATCATAGA
Found at i:869628 original size:27 final size:27
Alignment explanation
Indices: 869613--870021 Score: 206
Period size: 27 Copynumber: 15.2 Consensus size: 27
869603 GATTTTGGTA
*
869613 ATTTTACCCTTTAGGGGTAATTCAGTC
1 ATTTTACCCTTTAGGGGGAATTCAGTC
** * *
869640 ATTTTACTGTTTAGGGGTAATTCAGTT
1 ATTTTACCCTTTAGGGGGAATTCAGTC
869667 ATTTTACCCTTTAGGGGGTAATTC-GATC
1 ATTTTACCCTTTAGGGGG-AATTCAG-TC
*
869695 ATTTTACCCTTT-GGGGGTAATTCGGTC
1 ATTTTACCCTTTAGGGGG-AATTCAGTC
* * * *
869722 ATGTTACCC-TTCGAGGGTAATTCATTC
1 ATTTTACCCTTTAG-GGGGAATTCAGTC
* * * *
869749 ATTTTA-CCATTCGAGGGTAATT-TGATC
1 ATTTTACCCTTTAG-GGGGAATTCAG-TC
* *
869776 ATTTTAACC-TTCGGGGGTAATTCAGTC
1 ATTTTACCCTTTAGGGGG-AATTCAGTC
* * * * *
869803 AATTTACCATTCAGGGGTAATT-TGATC
1 ATTTTACCCTTTAGGGGGAATTCAG-TC
* * *
869830 A-TTTA-CCTTTTGGGTGTAATTCGGTC
1 ATTTTACCCTTTAGGG-GGAATTCAGTC
* *
869856 AGTTTA-CCTTTTGGGGGTAATTCAGTC
1 ATTTTACCCTTTAGGGGG-AATTCAGTC
*
869883 ATTTTACCC-TTCGGGGGTAATTC-GCTC
1 ATTTTACCCTTTAGGGGG-AATTCAG-TC
* **
869910 ATTTTACCC-TTCGGGACTAATTCAGTC
1 ATTTTACCCTTTAGGG-GGAATTCAGTC
*
869937 A-TTTA-CC-ATACGGGGGTAATTCTA-TC
1 ATTTTACCCTTTA-GGGGG-AATTC-AGTC
* *
869963 ATTTTACCC-TTCGGGGGTAAGTCAGTC
1 ATTTTACCCTTTAGGGGG-AATTCAGTC
* * * *
869990 ATTTTACCCTTCAAGGGTAATTCGGTC
1 ATTTTACCCTTTAGGGGGAATTCAGTC
870017 ATTTT
1 ATTTT
870022 TTGACCTCTC
Statistics
Matches: 309, Mismatches: 46, Indels: 54
0.76 0.11 0.13
Matches are distributed among these distances:
25 9 0.03
26 39 0.13
27 221 0.72
28 40 0.13
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTTTAGGGGGAATTCAGTC
Found at i:869671 original size:54 final size:54
Alignment explanation
Indices: 869613--870021 Score: 359
Period size: 54 Copynumber: 7.6 Consensus size: 54
869603 GATTTTGGTA
* ** * *
869613 ATTTTACCCTTTAGGGGTAATTCAGTCATTTTACTGTTTAGGGGTAATTCAGTT
1 ATTTTACCCTTCAGGGGTAATTCAGTCATTTTACCCTTTGGGGGTAATTCAGTC
* *
869667 ATTTTACCCTTTAGGGGGTAATTC-GATCATTTTACCCTTTGGGGGTAATTCGGTC
1 ATTTTACCCTTCA-GGGGTAATTCAG-TCATTTTACCCTTTGGGGGTAATTCAGTC
* * * * * *
869722 ATGTTACCCTTC-GAGGGTAATTCATTCATTTTACCATTCGAGGGTAATT-TGATC
1 ATTTTACCCTTCAG-GGGTAATTCAGTCATTTTACCCTTTGGGGGTAATTCAG-TC
* * * * ** *
869776 ATTTTAACCTTCGGGGGTAATTCAGTCAATTTACCATTCAGGGGTAATT-TGATC
1 ATTTTACCCTTCAGGGGTAATTCAGTCATTTTACCCTTTGGGGGTAATTCAG-TC
** * * *
869830 A-TTTA-CCTTTTGGGTGTAATTCGGTCAGTTTACCTTTTGGGGGTAATTCAGTC
1 ATTTTACCCTTCAGGG-GTAATTCAGTCATTTTACCCTTTGGGGGTAATTCAGTC
* * **
869883 ATTTTACCCTTCGGGGGTAATTC-GCTCATTTTACCCTTCGGGACTAATTCAGTC
1 ATTTTACCCTTCAGGGGTAATTCAG-TCATTTTACCCTTTGGGGGTAATTCAGTC
* * * * *
869937 A-TTTACCATACGGGGGTAATTCTA-TCATTTTACCCTTCGGGGGTAAGTCAGTC
1 ATTTTACCCTTCAGGGGTAATTC-AGTCATTTTACCCTTTGGGGGTAATTCAGTC
* *
869990 ATTTTACCCTTCAAGGGTAATTCGGTCATTTT
1 ATTTTACCCTTCAGGGGTAATTCAGTCATTTT
870022 TTGACCTCTC
Statistics
Matches: 297, Mismatches: 43, Indels: 30
0.80 0.12 0.08
Matches are distributed among these distances:
52 7 0.02
53 84 0.28
54 154 0.52
55 52 0.18
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (54 bp):
ATTTTACCCTTCAGGGGTAATTCAGTCATTTTACCCTTTGGGGGTAATTCAGTC
Found at i:869879 original size:80 final size:80
Alignment explanation
Indices: 869613--870021 Score: 391
Period size: 80 Copynumber: 5.1 Consensus size: 80
869603 GATTTTGGTA
* ** * *
869613 ATTTTACCCTTTAGGGGTAATTCAGTCATTTTACTGTTTAGGGGTAATTCAGTTATTTTACCCTT
1 ATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTCAGGGGTAATTCAGTCATTTTA-CCTT
*
869678 TAGGGGGTAATTCGATC
65 T-CGGGGTAATTCGATC
* * * *
869695 ATTTTACCCTTTGGGGGTAATTCGGTCATGTTACCCTTC-GAGGGTAATTCATTCATTTTACCAT
1 ATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTCAG-GGGTAATTCAGTCATTTTACCTT
*
869759 TCGAGGGTAATTTGATC
65 TCG-GGGTAATTCGATC
* * * * *
869776 ATTTTAACCTTCGGGGGTAATTCAGTCAATTTACCATTCAGGGGTAATT-TGATCA-TTTACCTT
1 ATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTCAGGGGTAATTCAG-TCATTTTACCTT
* *
869839 TTGGGTGTAATTCGGTC
65 TCGGG-GTAATTCGATC
* * * *
869856 AGTTTACCTTTTGGGGGTAATTCAGTCATTTTACCCTTCGGGGGTAATTC-GCTCATTTTACCCT
1 ATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTCAGGGGTAATTCAG-TCATTTTACCTT
*
869920 TCGGGACTAATTC-AGTC
65 TCGGG-GTAATTCGA-TC
* ** * * *
869937 A-TTTACCATACGGGGGTAATTCTA-TCATTTTACCCTTCGGGGGTAAGTCAGTCATTTTACCCT
1 ATTTTACCCTTTGGGGGTAATTC-AGTCATTTTACCCTTCAGGGGTAATTCAGTCATTTTACCTT
* *
870000 TCAAGGGTAATTCGGTC
65 TC-GGGGTAATTCGATC
870017 ATTTT
1 ATTTT
870022 TTGACCTCTC
Statistics
Matches: 271, Mismatches: 43, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
79 2 0.01
80 130 0.48
81 88 0.32
82 51 0.19
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (80 bp):
ATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTCAGGGGTAATTCAGTCATTTTACCTTT
CGGGGTAATTCGATC
Found at i:869903 original size:161 final size:163
Alignment explanation
Indices: 869626--870013 Score: 434
Period size: 161 Copynumber: 2.4 Consensus size: 163
869616 TTACCCTTTA
* ** * *
869626 GGGGTAATTCAGTCATTTTACTGTTTAGGGGTAATTCAGTTATTTTACCCTTTAGGGGGTAATTC
1 GGGGTAATTCAGTCAATTTACCATTCAGGGGTAATTCAGTCATTTTACCCTTTAGGGGGTAATTC
* * *
869691 GATCATTTTACCCTTTGGGGGTAATTCGGTCATGTTACCCTTCGAGGGTAATTCATTCATTTTAC
66 GATCAGTTTACCCTTTGGGGGTAATTCAGTCATGTTACCCTTCGAGGGTAATTCACTCATTTTAC
869756 CATTCGAGGGTAATTTGATCATTTTAACCTTCG
131 CATTCGAGGGTAATTTGATCATTTTAACCTTCG
* * *
869789 GGGGTAATTCAGTCAATTTACCATTCAGGGGTAATT-TGATCA-TTTA-CCTTTTGGGTGTAATT
1 GGGGTAATTCAGTCAATTTACCATTCAGGGGTAATTCAG-TCATTTTACCCTTTAGGGGGTAATT
* * * * *
869851 CGGTCAGTTTACCTTTTGGGGGTAATTCAGTCATTTTACCCTTCGGGGGTAATTCGCTCATTTTA
65 CGATCAGTTTACCCTTTGGGGGTAATTCAGTCATGTTACCCTTCGAGGGTAATTCACTCATTTTA
* * * *
869916 CCCTTCG-GGACTAA-TTCAGTCA-TTT-ACCATACG
130 CCATTCGAGG-GTAATTTGA-TCATTTTAACC-TTCG
* * * * * *
869949 GGGGTAATTCTA-TCATTTTACCCTTCGGGGGTAAGTCAGTCATTTTACCCTTCA-AGGGTAATT
1 GGGGTAATTC-AGTCAATTTACCATTCAGGGGTAATTCAGTCATTTTACCCTTTAGGGGGTAATT
870012 CG
65 CG
870014 GTCATTTTTT
Statistics
Matches: 188, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
159 3 0.02
160 44 0.23
161 98 0.52
162 9 0.05
163 34 0.18
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (163 bp):
GGGGTAATTCAGTCAATTTACCATTCAGGGGTAATTCAGTCATTTTACCCTTTAGGGGGTAATTC
GATCAGTTTACCCTTTGGGGGTAATTCAGTCATGTTACCCTTCGAGGGTAATTCACTCATTTTAC
CATTCGAGGGTAATTTGATCATTTTAACCTTCG
Found at i:869916 original size:107 final size:104
Alignment explanation
Indices: 869615--870021 Score: 381
Period size: 107 Copynumber: 3.8 Consensus size: 104
869605 TTTTGGTAAT
* ** *
869615 TTTACCCTTTAGGGGTAATTCAGTCATTTTA-CTGTTTAGGGGTAATTCAGTTATTTTACCCTTT
1 TTTA-CCTTTCGGGGTAATTCAGTCATTTTACCT-TTCGGGGGTAATTCAGTCATTTTACCC-TT
* * * *
869679 AGGGGGTAATTCGATCATTTTACCCTTTGGGGGTAATTCGGTCA
63 CGGGGGTAATTCG-TCATTTTACCC-TTCGGGGTAATTTGATCA
* * * * * *
869723 TGTTACCCTTCGAGGGTAATTCATTCATTTTACCATTCGAGGGTAATT-TGATCATTTTAACCTT
1 T-TTACCTTTCG-GGGTAATTCAGTCATTTTACCTTTCGGGGGTAATTCAG-TCATTTTACCCTT
* *
869787 CGGGGGTAATTCAGTCAATTTACCATTCAGGGGTAATTTGATCA
63 CGGGGGTAATTC-GTCATTTTACCCTTC-GGGGTAATTTGATCA
* * * *
869831 TTTACCTTTTGGGTGTAATTCGGTCAGTTTACCTTTTGGGGGTAATTCAGTCATTTTACCCTTCG
1 TTTACCTTTCGGG-GTAATTCAGTCATTTTACCTTTCGGGGGTAATTCAGTCATTTTACCCTTCG
* *
869896 GGGGTAATTCGCTCATTTTACCCTTCGGGACTAA-TTCAGTCA
65 GGGGTAATTCG-TCATTTTACCCTTCGGG-GTAATTTGA-TCA
* * * *
869938 TTTACCATACGGGGGTAATTCTA-TCATTTTACCCTTCGGGGGTAAGTCAGTCATTTTACCCTTC
1 TTTACCTTTC-GGGGTAATTC-AGTCATTTTACCTTTCGGGGGTAATTCAGTCATTTTACCCTTC
**
870002 AAGGGTAATTCGGTCATTTT
64 GGGGGTAATTC-GTCATTTT
870022 TTGACCTCTC
Statistics
Matches: 245, Mismatches: 40, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
106 9 0.04
107 146 0.60
108 48 0.20
109 41 0.17
110 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (104 bp):
TTTACCTTTCGGGGTAATTCAGTCATTTTACCTTTCGGGGGTAATTCAGTCATTTTACCCTTCGG
GGGTAATTCGTCATTTTACCCTTCGGGGTAATTTGATCA
Found at i:873636 original size:17 final size:17
Alignment explanation
Indices: 873611--873645 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
873601 ATTGATGTTT
*
873611 TATTAATTTTTATGAAA
1 TATTAATTTTTATCAAA
*
873628 TATTTATTTTTATCAAA
1 TATTAATTTTTATCAAA
873645 T
1 T
873646 TATGGTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (17 bp):
TATTAATTTTTATCAAA
Found at i:875126 original size:57 final size:59
Alignment explanation
Indices: 875015--875143 Score: 174
Period size: 57 Copynumber: 2.2 Consensus size: 59
875005 AGAAATGATT
* * *
875015 AAAATGGAAAAATGGAATACATTTGGAAATGATTATGGTTTTCTCCAAATTAAAAATG-
1 AAAATGGAAAAATGGAATACATTTGGAAATGAATATGGTTATCTCCAAAATAAAAATGA
* * * *
875073 AAAATGGAAAAATGGAA-CCGTTTGGAAATGAATGTGGTTATCTTCAAAATAAAAATGA
1 AAAATGGAAAAATGGAATACATTTGGAAATGAATATGGTTATCTCCAAAATAAAAATGA
875131 AAAAT-GAAAAATG
1 AAAATGGAAAAATG
875144 ATAATGTCCT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 41 0.65
58 22 0.35
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (59 bp):
AAAATGGAAAAATGGAATACATTTGGAAATGAATATGGTTATCTCCAAAATAAAAATGA
Found at i:875362 original size:23 final size:23
Alignment explanation
Indices: 875335--875380 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
875325 TTAATAAAAG
875335 TAATCAAACTTAAATTTAAAACA
1 TAATCAAACTTAAATTTAAAACA
*
875358 TAATCAAACTTAAATTTCAAACA
1 TAATCAAACTTAAATTTAAAACA
875381 AACATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.30
Consensus pattern (23 bp):
TAATCAAACTTAAATTTAAAACA
Found at i:881111 original size:30 final size:30
Alignment explanation
Indices: 881075--881151 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
881065 AGAAATACCT
* *
881075 TCGTGTGCCTTACACGGCCGTGTGGCCAGG
1 TCGTGTGCCTCACACGGCCATGTGGCCAGG
*
881105 TCGTGTGCCTCACACGGCCATGTGGCTAGG
1 TCGTGTGCCTCACACGGCCATGTGGCCAGG
881135 TCGTGTGCCTCACACGG
1 TCGTGTGCCTCACACGG
881152 ATGAGACACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.12, C:0.31, G:0.34, T:0.23
Consensus pattern (30 bp):
TCGTGTGCCTCACACGGCCATGTGGCCAGG
Done.