Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008018.1 Hibiscus syriacus cultivar Beakdansim tig00110485_pilon, whole genome shotgun sequence
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: 927418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:653575 original size:12 final size:13
Alignment explanation
Indices: 653543--653576 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
653533 CCGACTAATA
653543 AAATATTGTAGTT
1 AAATATTGTAGTT
653556 AAAATATTGTAGTT
1 -AAATATTGTAGTT
653570 -AATATTG
1 AAATATTG
653577 AAAACTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
14 13 0.65
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (13 bp):
AAATATTGTAGTT
Found at i:653742 original size:14 final size:14
Alignment explanation
Indices: 653723--653752 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
653713 AACCAAAAAA
653723 AAAATATTGTAGTT
1 AAAATATTGTAGTT
653737 AAAATATTGTAGTT
1 AAAATATTGTAGTT
653751 AA
1 AA
653753 TATTGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (14 bp):
AAAATATTGTAGTT
Found at i:653756 original size:12 final size:13
Alignment explanation
Indices: 653724--653757 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
653714 ACCAAAAAAA
653724 AAATATTGTAGTT
1 AAATATTGTAGTT
653737 AAAATATTGTAGTT
1 -AAATATTGTAGTT
653751 -AATATTG
1 AAATATTG
653758 AAAAATTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
14 13 0.65
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (13 bp):
AAATATTGTAGTT
Found at i:653912 original size:12 final size:13
Alignment explanation
Indices: 653889--653919 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
653879 TGTAAAGATA
653889 TTTGATTACTAAT
1 TTTGATTACTAAT
653902 TTTGATT-CTAAT
1 TTTGATTACTAAT
653914 TTTGAT
1 TTTGAT
653920 CATTACCCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (13 bp):
TTTGATTACTAAT
Found at i:653954 original size:14 final size:14
Alignment explanation
Indices: 653935--653982 Score: 82
Period size: 14 Copynumber: 3.6 Consensus size: 14
653925 CCCCGACTAA
653935 TAAAATATTGTAGT
1 TAAAATATTGTAGT
653949 TAAAATATTGTAGT
1 TAAAATATTGTAGT
653963 T--AATATTGTAGT
1 TAAAATATTGTAGT
653975 TAAAATAT
1 TAAAATAT
653983 GATACTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.38
14 20 0.62
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (14 bp):
TAAAATATTGTAGT
Found at i:653969 original size:12 final size:12
Alignment explanation
Indices: 653938--653977 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
653928 CGACTAATAA
653938 AATATTGTAGTT
1 AATATTGTAGTT
653950 AAAATATTGTAGTT
1 --AATATTGTAGTT
653964 AATATTGTAGTT
1 AATATTGTAGTT
653976 AA
1 AA
653978 AATATGATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 14 0.54
14 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (12 bp):
AATATTGTAGTT
Found at i:658944 original size:3 final size:3
Alignment explanation
Indices: 658936--659010 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
658926 ACGAGTACAA
658936 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
658984 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
659011 GTAAAGGAGA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:660817 original size:30 final size:30
Alignment explanation
Indices: 660730--660807 Score: 140
Period size: 30 Copynumber: 2.6 Consensus size: 30
660720 TTTAAGAGAT
660730 GAACACGGCAA-CCCGATTCAACTCACCGAC
1 GAACACGGCAACCCCG-TTCAACTCACCGAC
660760 GAACACGGCAACCCCGTTCAACTCACCGAC
1 GAACACGGCAACCCCGTTCAACTCACCGAC
660790 GAACACGGCAACCCCGTT
1 GAACACGGCAACCCCGTT
660808 TATGTCACCG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 43 0.91
31 4 0.09
ACGTcount: A:0.31, C:0.41, G:0.18, T:0.10
Consensus pattern (30 bp):
GAACACGGCAACCCCGTTCAACTCACCGAC
Found at i:662346 original size:15 final size:15
Alignment explanation
Indices: 662326--662356 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
662316 AATGAGGTCC
662326 TTGCTCTAAATGAAT
1 TTGCTCTAAATGAAT
662341 TTGCTCTAAATGAAT
1 TTGCTCTAAATGAAT
662356 T
1 T
662357 AGCTAAGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (15 bp):
TTGCTCTAAATGAAT
Found at i:672046 original size:2 final size:2
Alignment explanation
Indices: 671992--672031 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
671982 AATTGAATTA
671992 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
672032 TAAGTACATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:672930 original size:43 final size:44
Alignment explanation
Indices: 672772--672996 Score: 147
Period size: 43 Copynumber: 5.1 Consensus size: 44
672762 TGCTTCTTAG
* * * *
672772 TTTTTCAATCTCAATTTATACTTTTTTAATTAAAGCC-CATAA-T
1 TTTTTAAATCTCAATTTATACCTTTATAATTAAGGCCTC-TAAGT
* * * * *
672815 TTTTTTAATCTCACTTTTTTAAC-TTATAATTGAGGTCCTC-AAGTTT
1 TTTTTAAATCTCA-ATTTATACCTTTATAATTAAGG-CCTCTAAG--T
* * * * * *
672861 TTTTTCAATCACACTTTCTATCTTTATAATTAAGGCCTCTACGT
1 TTTTTAAATCTCAATTTATACCTTTATAATTAAGGCCTCTAAGT
* * * * *
672905 TTTTTCAATCTCGA-TTATACCTTTATAATTGAGACC-CTAATTT
1 TTTTTAAATCTCAATTTATACCTTTATAATTAAGGCCTCTAA-GT
* * *
672948 TTTTTAAATCTCAATTTTTACCTTTATAATTAAAGTCTCTAAGT
1 TTTTTAAATCTCAATTTATACCTTTATAATTAAGGCCTCTAAGT
672992 TTTTT
1 TTTTT
672997 TTCATAAAAT
Statistics
Matches: 139, Mismatches: 32, Indels: 21
0.72 0.17 0.11
Matches are distributed among these distances:
42 3 0.02
43 54 0.39
44 42 0.30
45 15 0.11
46 25 0.18
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.50
Consensus pattern (44 bp):
TTTTTAAATCTCAATTTATACCTTTATAATTAAGGCCTCTAAGT
Found at i:677599 original size:46 final size:48
Alignment explanation
Indices: 677532--677626 Score: 176
Period size: 46 Copynumber: 2.0 Consensus size: 48
677522 ATGAGTGACT
677532 AAATATATATTTTATCCTTTAATTTAAGTTATCAAATAATGATTATCA
1 AAATATATATTTTATCCTTTAATTTAAGTTATCAAATAATGATTATCA
677580 AAAT-TATA-TTTATCCTTTAATTTAAGTTATCAAATAATGATTATCA
1 AAATATATATTTTATCCTTTAATTTAAGTTATCAAATAATGATTATCA
677626 A
1 A
677627 CATTGAATGG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 39 0.83
47 4 0.09
48 4 0.09
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.45
Consensus pattern (48 bp):
AAATATATATTTTATCCTTTAATTTAAGTTATCAAATAATGATTATCA
Found at i:677665 original size:16 final size:15
Alignment explanation
Indices: 677644--677677 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
677634 TGGAATAGAT
677644 TAATTAAATTAAAAAA
1 TAATTAAA-TAAAAAA
*
677660 TAATTAAATAAGAAA
1 TAATTAAATAAAAAA
677675 TAA
1 TAA
677678 AAATTATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (15 bp):
TAATTAAATAAAAAA
Found at i:680648 original size:59 final size:55
Alignment explanation
Indices: 680583--680715 Score: 160
Period size: 59 Copynumber: 2.3 Consensus size: 55
680573 AAAAACAAAG
* *
680583 TGAAGAGTTTGAGAACTTGTTGTTAGTTATATTTCTCAAAAGTAAATTCCCTTG-TATAT
1 TGAAGAGTTTGAGAACTTGTTGGTAGTTATACTTCTC---A--AAATTCCCTTGTTATAT
* *
680642 TGAAGAGTTTGAGAACTTCTTGGTAGTTATACTTGTCAAAATTCCCTTGTTATAT
1 TGAAGAGTTTGAGAACTTGTTGGTAGTTATACTTCTCAAAATTCCCTTGTTATAT
* *
680697 GGAAGAGTTTAAGAACTTG
1 TGAAGAGTTTGAGAACTTG
680716 CCTAAATTGA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
54 11 0.17
55 21 0.32
56 1 0.02
59 33 0.50
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.40
Consensus pattern (55 bp):
TGAAGAGTTTGAGAACTTGTTGGTAGTTATACTTCTCAAAATTCCCTTGTTATAT
Found at i:682299 original size:65 final size:65
Alignment explanation
Indices: 682212--682336 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 65
682202 TCTTTTTCAG
* *
682212 CACTGATAATTAAGAAGTTATAAATCGGTCACTAACATTATCGTTTGTTACAAATTGATCATGGT
1 CACTGATAATTAAAAAGTTATAAATCGGTCACTAACATTACCGTTTGTTACAAATTGATCATGGT
** * *
682277 CACTGATGTTTAAAAAGTTATAAATTGGTCATTAACATTACCGTTTGTTACAAATTGATC
1 CACTGATAATTAAAAAGTTATAAATCGGTCACTAACATTACCGTTTGTTACAAATTGATC
682337 GTTTGACGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (65 bp):
CACTGATAATTAAAAAGTTATAAATCGGTCACTAACATTACCGTTTGTTACAAATTGATCATGGT
Found at i:683657 original size:13 final size:13
Alignment explanation
Indices: 683639--683676 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
683629 CATATTAGCT
*
683639 AAAAATATAATAA
1 AAAAATAAAATAA
*
683652 ATAAATAAAATAA
1 AAAAATAAAATAA
683665 AAAAATAAAATA
1 AAAAATAAAATA
683677 GAAAGAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAAATAA
Found at i:685708 original size:603 final size:603
Alignment explanation
Indices: 684564--685771 Score: 2398
Period size: 603 Copynumber: 2.0 Consensus size: 603
684554 TCAGATTTTT
684564 TAAACAAAAATATTAACGGGTTTCGGTGATGAAAATTCTAGTGATAAGTGCGATTATCGATAAGT
1 TAAACAAAAATATTAACGGGTTTCGGTGATGAAAATTCTAGTGATAAGTGCGATTATCGATAAGT
684629 ATCGATAAATTAATTTATAAAACGTTAAAATTATAAAGTATTCTATGTTTATAATTTAGTTGAAA
66 ATCGATAAATTAATTTATAAAACGTTAAAATTATAAAGTATTCTATGTTTATAATTTAGTTGAAA
684694 ATCTAATTGTAATTTATTTAAAATACAATATTAATTAAATTAATTTTTTAATCTTATATTTTATC
131 ATCTAATTGTAATTTATTTAAAATACAATATTAATTAAATTAATTTTTTAATCTTATATTTTATC
684759 ATAATCAGATCAAAAGTAACCCTAAATTGAAAAACTTGAATTTGTTTTAAAGCTTTGAACTTTGA
196 ATAATCAGATCAAAAGTAACCCTAAATTGAAAAACTTGAATTTGTTTTAAAGCTTTGAACTTTGA
684824 ACTTCTCGCCATTGTCATTGTCGTCGCTGTCACCACCGGTATCCTCTGTCGCCGTCGATTTAATA
261 ACTTCTCGCCATTGTCATTGTCGTCGCTGTCACCACCGGTATCCTCTGTCGCCGTCGATTTAATA
684889 TTGGATTCATCCCTCCCAACGTGGATGCCATTCACCGTCGTTCGCTCAAACAACCCATGAAGGTA
326 TTGGATTCATCCCTCCCAACGTGGATGCCATTCACCGTCGTTCGCTCAAACAACCCATGAAGGTA
684954 AGCTTGATTAATTTTATTTTGTTGCGAATTTGGACCAAACCGTCACTGGCGGGTGATGGCTCACC
391 AGCTTGATTAATTTTATTTTGTTGCGAATTTGGACCAAACCGTCACTGGCGGGTGATGGCTCACC
*
685019 GGTTGTCGGTGCCATCACCAGCAATGACTGTGGATGCTGGTGTGAGAGTGCCTTTTAATCATCCT
456 GATTGTCGGTGCCATCACCAGCAATGACTGTGGATGCTGGTGTGAGAGTGCCTTTTAATCATCCT
685084 TCCCTAATCCCCTTATTTCTAAACCCTAACCTTAATTTTTCCAATTAATCCAATTATAGAACCTT
521 TCCCTAATCCCCTTATTTCTAAACCCTAACCTTAATTTTTCCAATTAATCCAATTATAGAACCTT
685149 AATTTCAAAATAGCTTAC
586 AATTTCAAAATAGCTTAC
685167 TAAACAAAAATATTAACGGGTTTCGGTGATGAAAATTCTAGTGATAAGTGCGATTATCGATAAGT
1 TAAACAAAAATATTAACGGGTTTCGGTGATGAAAATTCTAGTGATAAGTGCGATTATCGATAAGT
685232 ATCGATAAATTAATTTATAAAACGTTAAAATTATAAAGTATTCTATGTTTATAATTTAGTTGAAA
66 ATCGATAAATTAATTTATAAAACGTTAAAATTATAAAGTATTCTATGTTTATAATTTAGTTGAAA
685297 ATCTAATTGTAATTTATTTAAAATACAATATTAATTAAATTAATTTTTTAATCTTATATTTTATC
131 ATCTAATTGTAATTTATTTAAAATACAATATTAATTAAATTAATTTTTTAATCTTATATTTTATC
685362 ATAATCAGATCAAAAGTAACCCTAAATTGAAAAACTTGAATTTGTTTTAAAGCTTTGAACTTTGA
196 ATAATCAGATCAAAAGTAACCCTAAATTGAAAAACTTGAATTTGTTTTAAAGCTTTGAACTTTGA
*
685427 ACTTCTCGCCATTGTCATTGTCGTTGCTGTCACCACCGGTATCCTCTGTCGCCGTCGATTTAATA
261 ACTTCTCGCCATTGTCATTGTCGTCGCTGTCACCACCGGTATCCTCTGTCGCCGTCGATTTAATA
685492 TTGGATTCATCCCTCCCAACGTGGATGCCATTCACCGTCGTTCGCTCAAACAACCCATGAAGGTA
326 TTGGATTCATCCCTCCCAACGTGGATGCCATTCACCGTCGTTCGCTCAAACAACCCATGAAGGTA
685557 AGCTTGATTAATTTTATTTTGTTGCGAATTTGGACCAAACCGTCACTGGCGGGTGATGGCTCACC
391 AGCTTGATTAATTTTATTTTGTTGCGAATTTGGACCAAACCGTCACTGGCGGGTGATGGCTCACC
685622 GATTGTCGGTGCCATCACCAGCAATGACTGTGGATGCTGGTGTGAGAGTGCCTTTTAATCATCCT
456 GATTGTCGGTGCCATCACCAGCAATGACTGTGGATGCTGGTGTGAGAGTGCCTTTTAATCATCCT
685687 TCCCTAATCCCCTTATTTCTAAACCCTAACCTTAATTTTTCCAATTAATCCAATTATAGAACCTT
521 TCCCTAATCCCCTTATTTCTAAACCCTAACCTTAATTTTTCCAATTAATCCAATTATAGAACCTT
685752 AATTTCAAAATAGCTTAC
586 AATTTCAAAATAGCTTAC
685770 TA
1 TA
685772 TAATTCCCAA
Statistics
Matches: 603, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
603 603 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (603 bp):
TAAACAAAAATATTAACGGGTTTCGGTGATGAAAATTCTAGTGATAAGTGCGATTATCGATAAGT
ATCGATAAATTAATTTATAAAACGTTAAAATTATAAAGTATTCTATGTTTATAATTTAGTTGAAA
ATCTAATTGTAATTTATTTAAAATACAATATTAATTAAATTAATTTTTTAATCTTATATTTTATC
ATAATCAGATCAAAAGTAACCCTAAATTGAAAAACTTGAATTTGTTTTAAAGCTTTGAACTTTGA
ACTTCTCGCCATTGTCATTGTCGTCGCTGTCACCACCGGTATCCTCTGTCGCCGTCGATTTAATA
TTGGATTCATCCCTCCCAACGTGGATGCCATTCACCGTCGTTCGCTCAAACAACCCATGAAGGTA
AGCTTGATTAATTTTATTTTGTTGCGAATTTGGACCAAACCGTCACTGGCGGGTGATGGCTCACC
GATTGTCGGTGCCATCACCAGCAATGACTGTGGATGCTGGTGTGAGAGTGCCTTTTAATCATCCT
TCCCTAATCCCCTTATTTCTAAACCCTAACCTTAATTTTTCCAATTAATCCAATTATAGAACCTT
AATTTCAAAATAGCTTAC
Found at i:686054 original size:66 final size:66
Alignment explanation
Indices: 685948--686072 Score: 207
Period size: 66 Copynumber: 1.9 Consensus size: 66
685938 CGTGTATCAG
* *
685948 TACTATTATTCTACACTATTTTTTTCTGGGGAGTACGTGTACCAATACACTATGATAGTTAATCG
1 TACTATTATTCTACACTATTTTTTTCTGGGAAGTACGTGTACCAATACACTATAATAGTTAATCG
686013 A
66 A
*
686014 TACTATTATTCTACACTGTTTTTGTTC-GGGAAGTACGTGTACCAATACACTATAATAGT
1 TACTATTATTCTACACTATTTTT-TTCTGGGAAGTACGTGTACCAATACACTATAATAGT
686073 GTATTGATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 52 0.95
67 3 0.05
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (66 bp):
TACTATTATTCTACACTATTTTTTTCTGGGAAGTACGTGTACCAATACACTATAATAGTTAATCG
A
Found at i:686785 original size:2 final size:2
Alignment explanation
Indices: 686778--686813 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
686768 TATTAACTTC
686778 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
686814 ATGTTCATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:689320 original size:62 final size:62
Alignment explanation
Indices: 689248--689394 Score: 251
Period size: 62 Copynumber: 2.4 Consensus size: 62
689238 AAATATGTTC
689248 TGATACGCACCGTGTACAGATACTAATAAATTATGTGAAATTGTAGTGTGTTTCAACGGTAT
1 TGATACGCACCGTGTACAGATACTAATAAATTATGTGAAATTGTAGTGTGTTTCAACGGTAT
*
689310 TGATACGCACCGTGTACCA-ATACTAATAAATTATGTGAAATTGTAGTGTGTTTCAATGGTAT
1 TGATACGCACCGTGTA-CAGATACTAATAAATTATGTGAAATTGTAGTGTGTTTCAACGGTAT
* *
689372 TGATACGCACCATGTACCGATAC
1 TGATACGCACCGTGTACAGATAC
689395 ACTGAATTTA
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
61 1 0.01
62 77 0.96
63 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (62 bp):
TGATACGCACCGTGTACAGATACTAATAAATTATGTGAAATTGTAGTGTGTTTCAACGGTAT
Found at i:691521 original size:20 final size:19
Alignment explanation
Indices: 691489--691533 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
691479 ACTTTACCCC
*
691489 AAAAAA-ATGAGTATTTAA
1 AAAAAAGATGAGTACTTAA
691507 AAAAAAGATGCAGTACTTAA
1 AAAAAAGATG-AGTACTTAA
*
691527 AATAAAG
1 AAAAAAG
691534 TTGAAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 6 0.26
19 3 0.13
20 14 0.61
ACGTcount: A:0.60, C:0.04, G:0.13, T:0.22
Consensus pattern (19 bp):
AAAAAAGATGAGTACTTAA
Found at i:705483 original size:21 final size:21
Alignment explanation
Indices: 705457--705499 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
705447 TAGCTTCTTT
705457 TTATAT-ATTTCATTTATTTAA
1 TTATATAATTT-ATTTATTTAA
705478 TTATATAATTTATTTATTTAA
1 TTATATAATTTATTTATTTAA
705499 T
1 T
705500 GGTAAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATATAATTTATTTATTTAA
Found at i:705562 original size:16 final size:16
Alignment explanation
Indices: 705524--705571 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
705514 CAAATTGATT
*
705524 TATA-TTAAATAT-CA
1 TATATTTAATTATACA
705538 TAT-TTTAATTATACA
1 TATATTTAATTATACA
*
705553 TATATTTAATTATATA
1 TATATTTAATTATACA
705569 TAT
1 TAT
705572 TATTATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 10 0.34
15 5 0.17
16 14 0.48
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (16 bp):
TATATTTAATTATACA
Found at i:705569 original size:29 final size:28
Alignment explanation
Indices: 705524--705578 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
705514 CAAATTGATT
*
705524 TATATTAAATATCATATTTTAATTATACA
1 TATATTAAATATCATATATT-ATTATACA
*
705553 TATATTTAATTAT-ATATATTATTATA
1 TATA-TTAAATATCATATATTATTATA
705579 ATAATTCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 6 0.26
29 10 0.43
30 7 0.30
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (28 bp):
TATATTAAATATCATATATTATTATACA
Found at i:705571 original size:14 final size:15
Alignment explanation
Indices: 705524--705572 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 15
705514 CAAATTGATT
*
705524 TATA-TTAAATATCA
1 TATATTTAATTATCA
705538 TAT-TTTAATTATACA
1 TATATTTAATTAT-CA
705553 TATATTTAATTAT-A
1 TATATTTAATTATCA
705567 TATATT
1 TATATT
705573 ATTATAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 17 0.55
15 5 0.16
16 9 0.29
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATTTAATTATCA
Found at i:705692 original size:21 final size:23
Alignment explanation
Indices: 705656--705709 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
705646 ATAAAAATAT
* *
705656 TTAATTTATATATAAATTATTTTA
1 TTAATTT-TATATAAATCATGTTA
705680 TT-ATTTTAT-TAAATCATGTTA
1 TTAATTTTATATAAATCATGTTA
705701 TTAATTTTA
1 TTAATTTTA
705710 ACAGATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 12 0.44
22 9 0.33
23 4 0.15
24 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TTAATTTTATATAAATCATGTTA
Found at i:705898 original size:17 final size:18
Alignment explanation
Indices: 705876--705915 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
705866 ATAAAAGTAT
705876 AAATTTTAATT-AAATTA
1 AAATTTTAATTCAAATTA
* *
705893 AAATTTTATTTCATATTA
1 AAATTTTAATTCAAATTA
705911 AAATT
1 AAATT
705916 ACAAACGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATTTTAATTCAAATTA
Found at i:707678 original size:34 final size:33
Alignment explanation
Indices: 707640--707720 Score: 128
Period size: 34 Copynumber: 2.5 Consensus size: 33
707630 TATGAACCTG
*
707640 AAAATATTTTATATATAATTAATATAAAATATAT
1 AAAATATTATATATATAATTAATAT-AAATATAT
707674 AAAATATTATATATATAATTAATATAAATATAT
1 AAAATATTATATATATAATTAATATAAATATAT
*
707707 AATATA-TATATATA
1 AAAATATTATATATA
707721 ATCGGGGCGG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 8 0.18
33 13 0.29
34 24 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
AAAATATTATATATATAATTAATATAAATATAT
Found at i:707713 original size:9 final size:9
Alignment explanation
Indices: 707649--707720 Score: 66
Period size: 9 Copynumber: 8.4 Consensus size: 9
707639 GAAAATATTT
707649 TATATATAA
1 TATATATAA
707658 T-TAATATAA
1 TAT-ATATAA
*
707667 AATATATAA
1 TATATATAA
*
707676 -A-ATATTA
1 TATATATAA
707683 TATATATAA
1 TATATATAA
707692 T-TAATATAA
1 TAT-ATATAA
707701 -ATATATAA
1 TATATATAA
707709 TATATAT-A
1 TATATATAA
707717 TATA
1 TATA
707721 ATCGGGGCGG
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
7 5 0.09
8 15 0.28
9 32 0.60
10 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TATATATAA
Found at i:708807 original size:11 final size:11
Alignment explanation
Indices: 708793--708818 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
708783 TAATATATGA
708793 TATATATTATT
1 TATATATTATT
708804 TATATATTATT
1 TATATATTATT
708815 TATA
1 TATA
708819 AATTTCATTA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATATTATT
Found at i:709212 original size:22 final size:21
Alignment explanation
Indices: 709184--709230 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
709174 AATATAAATA
709184 TATATATATATTAAATA-AAGAG
1 TATATAT-TATTAAATATAAG-G
709206 TATATATTATTAAATATAAGG
1 TATATATTATTAAATATAAGG
709227 TATA
1 TATA
709231 GATTTGTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (21 bp):
TATATATTATTAAATATAAGG
Found at i:712789 original size:21 final size:21
Alignment explanation
Indices: 712763--712812 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
712753 TCGCCAACTT
712763 TTCAGGCCGAGCTAAACGATA
1 TTCAGGCCGAGCTAAACGATA
712784 TTCAGGCCGAGCTAAACGATA
1 TTCAGGCCGAGCTAAACGATA
712805 TTCAGGCC
1 TTCAGGCC
712813 ACAAACTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (21 bp):
TTCAGGCCGAGCTAAACGATA
Found at i:720656 original size:36 final size:36
Alignment explanation
Indices: 720623--720690 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
720613 TACAAATTGT
720623 AAAATATTTATAT-ATTTTCTTTA-AAAATTAAATTC
1 AAAATATTTATATAATTTT-TTTACAAAATTAAATTC
*
720658 ATAATATTTATATAATTTTTTTACAAAATTAAA
1 AAAATATTTATATAATTTTTTTACAAAATTAAA
720691 AATATAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (36 bp):
AAAATATTTATATAATTTTTTTACAAAATTAAATTC
Found at i:721725 original size:23 final size:23
Alignment explanation
Indices: 721699--721746 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
721689 ATAAAGTACA
*
721699 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
721722 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
721745 AT
1 AT
721747 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:722202 original size:23 final size:23
Alignment explanation
Indices: 722176--722238 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
722166 ATATAACCAC
722176 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
722199 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
722222 TACCTATTACATCATAT
1 TACCTATTACATTATAT
722239 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:722630 original size:23 final size:23
Alignment explanation
Indices: 722604--722666 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
722594 ATATAACCAC
722604 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
722627 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
722650 TACCTATTACATCATAT
1 TACCTATTACATTATAT
722667 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:722986 original size:430 final size:430
Alignment explanation
Indices: 721813--724154 Score: 4401
Period size: 430 Copynumber: 5.5 Consensus size: 430
721803 TATTACATTA
* * *
721813 TATTATATTAAAAGTGTCCATACTTTTTATAAAAAAGGATCCATACTTCTTTTAAAGTTATGTAA
1 TATTATATTGAAAGTGTCCATACTTTTTAT-AAAAATGATCGATACTTCTTTTAAAGTTATGTAA
*
721878 TTTATGTTTCAATTTTTTTTTAATAGTGTTTCATGTTTTCCACCAACAATATTAATTTAATAATT
65 TTTATGTTTCAA-TTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATT
*
721943 TCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
129 TCATTTGCACAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
*
722008 TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGATGCCTATAATTACTAAATTAAT
193 TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
*
722073 ATCTTAAAACTCACTCAAAATATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
258 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
722138 CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
323 CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
722203 TATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
388 TATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
* *
722246 TATTATATTGAAAGTGTCAATACTTTTTATAAAAATGATCGATACTTCTGTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
*
722311 TTATGTTTCAA--TTTTTTAATAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
722374 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
722439 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
722504 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
722569 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
722634 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
722674 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
*
722739 TTATGTTTCAATTTTTTTTAATACTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
722804 ATTTTCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
722869 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
722934 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATTGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
722999 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
*
723064 TACATTATATAAGCGCTACCTATTACATCATAGTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
723104 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
723169 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
723234 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
723299 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
* *
723364 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATTGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
723429 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
723494 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
723534 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
723599 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
723663 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAA-TTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
723727 ATAAT-A-ATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
723789 TTAAAACTCACTCAAAAAATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
* *
723854 TTATAAAAAGGATAGACGCTTTACAATATAACCACTACCTATTACATTATTTAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
723919 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
723959 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
*
724024 TTATGTTTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
724089 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
724154 A
196 A
724155 CAACAATAAC
Statistics
Matches: 1873, Mismatches: 32, Indels: 14
0.98 0.02 0.01
Matches are distributed among these distances:
425 282 0.15
426 119 0.06
427 12 0.01
428 362 0.19
429 180 0.10
430 847 0.45
432 43 0.02
433 28 0.01
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (430 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:723060 original size:23 final size:23
Alignment explanation
Indices: 723034--723091 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
723024 ATATAACCAC
723034 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
723057 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
723080 TACCTATTACAT
1 TACCTATTACAT
723092 CATAGTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:723490 original size:23 final size:23
Alignment explanation
Indices: 723464--723526 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
723454 ATATAACCAC
723464 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
723487 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
723510 TACCTATTACATCATAT
1 TACCTATTACATTATAT
723527 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:723916 original size:23 final size:23
Alignment explanation
Indices: 723889--723951 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
723879 ATATAACCAC
*
723889 TACCTATTACATTATTTAAACGA
1 TACCTATTACATTATATAAACGA
* *
723912 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
723935 TACCTATTACATCATAT
1 TACCTATTACATTATAT
723952 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:724428 original size:39 final size:39
Alignment explanation
Indices: 724374--724459 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
724364 CAAGTTGTAG
* *
724374 ATTTTGATTTTCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
724413 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
724452 ATTTTGAT
1 ATTTTGAT
724460 GAGCATCGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.50
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:724773 original size:24 final size:24
Alignment explanation
Indices: 724718--724763 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
724708 CGAAATATAT
724718 ATTGAAATTCAAACTCAAATTAAA
1 ATTGAAATTCAAACTCAAATTAAA
* *
724742 ATTTAAATTCAAACTCCAATTA
1 ATTGAAATTCAAACTCAAATTA
724764 CATATGAAAT
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:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (24 bp):
ATTGAAATTCAAACTCAAATTAAA
Found at i:725218 original size:23 final size:23
Alignment explanation
Indices: 725192--725254 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
725182 ATATAACCAC
725192 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
725215 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
725238 TACCTATTACATCATAT
1 TACCTATTACATTATAT
725255 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:725654 original size:25 final size:25
Alignment explanation
Indices: 725597--725662 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
725587 CACTCAAAAG
*
725597 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
725622 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
725647 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
725663 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:727857 original size:20 final size:19
Alignment explanation
Indices: 727811--727857 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
727801 TCCGGTATCA
*
727811 TTTTACCGGTTTTATCATT
1 TTTTACCGATTTTATCATT
*
727830 TTGATACCGATTTTATCATAT
1 TT-TTACCGATTTTATCAT-T
727851 TTTTACC
1 TTTTACC
727858 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCGATTTTATCATT
Found at i:728019 original size:20 final size:20
Alignment explanation
Indices: 727992--728038 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
727982 TCTGGTAACG
727992 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
728011 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
728032 TTTTACC
1 TTTTACC
728039 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:728942 original size:229 final size:229
Alignment explanation
Indices: 728087--729027 Score: 1661
Period size: 229 Copynumber: 4.1 Consensus size: 229
728077 ACTTTTATAC
728087 GTATGGACACTTTTATAAAAATGATATATAC-TTTTTTTAAAGTTATGTAATTTATGTTTCAATT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAATT
728151 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
728216 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
728281 TATAATAATAAATATGTTTTCCACAGTGAAATAA
196 TATAATAATAAATATGTTTTCCACAGTGAAATAA
* *
728315 GTATGTACACTTTTATAAAAATGATATATATTTTTTTTTAAAGTTATGTAATTTATGTTTCAATT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAATT
*
728380 TTTTTAATAGTATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC--AAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
728443 --A----ATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
728502 TATAATAATAAATATGTTTTCCACAGTGAAATAA
196 TATAATAATAAATATGTTTTCCACAGTGAAATAA
*
728536 GTATGTACACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAATT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAATT
728601 TTTTTAATAAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
66 TTTTTAAT-AGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
728666 ATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
130 ATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
*
728731 AAATAATAATAAATATGTTTTCCACAGTGAAATAA
195 ATATAATAATAAATATGTTTTCCACAGTGAAATAA
* *
728766 GTATGGACACTTTTATAAAAATGATATATA-ATTTTTTTAAAGTTATGTAATTTACGTTTCAATT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAA-T
* *
728830 TTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAA
65 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
*
728895 ATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
130 ATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
* *
728960 AGATAATAATAAATATATTTT-CACAGTGAAATAA
195 ATATAATAATAAATATGTTTTCCACAGTGAAATAA
* *
728994 GTATGGACACTTTTATAAAAAGGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
729028 ACAATATAAC
Statistics
Matches: 684, Mismatches: 17, Indels: 23
0.94 0.02 0.03
Matches are distributed among these distances:
221 164 0.24
222 50 0.07
224 4 0.01
225 1 0.00
226 1 0.00
227 4 0.01
228 70 0.10
229 260 0.38
230 130 0.19
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (229 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAATT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
TATAATAATAAATATGTTTTCCACAGTGAAATAA
Found at i:742111 original size:160 final size:159
Alignment explanation
Indices: 741807--742119 Score: 567
Period size: 162 Copynumber: 2.0 Consensus size: 159
741797 TAACCTTAAA
741807 ACACTAGTCAAATTTATTAGTTGTCAATTATTCTATACCAAAATTCTCGACATATTTTCTGCATG
1 ACACTAGTCAAATTTATTAGTTGTCAATTATTCTATACCAAAATTCTCGACATATTTTCTGCATG
741872 TGGCATGCTGTTCATTATTTACTTTTACGTCTGTAGATCCTATGAATGTGTTTTTCTAAATGGGT
66 TGGCATGCTGTTCATTATTTACTTTTACGTCTGTAGATCCTATGAA-GTGTTTTTCTAAATGGGT
741937 TATTGTTGCACTTTGCAGACAACTTAAAAC
130 TATTGTTGCACTTTGCAGACAACTTAAAAC
*
741967 ACACTAGTCAATTGGTTATTAGTTGTC-ATTATTCTATACCAAAAATTCTCGACATATTTTCTGC
1 ACACTAGTCAAAT--TTATTAGTTGTCAATTATTCTATACC-AAAATTCTCGACATATTTTCTGC
742031 ATGTGGCATGCTGTTCATTATTTACTTTTACGTCTGTAGATCCTATGAA-TGTTTTTCTAAATGG
63 ATGTGGCATGCTGTTCATTATTTACTTTTACGTCTGTAGATCCTATGAAGTGTTTTTCTAAATGG
742095 GTTATTGTTGCACTTTGCAGACAAC
128 GTTATTGTTGCACTTTGCAGACAAC
742120 AAACCTTTGC
Statistics
Matches: 149, Mismatches: 1, Indels: 6
0.96 0.01 0.04
Matches are distributed among these distances:
160 52 0.35
161 13 0.09
162 84 0.56
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (159 bp):
ACACTAGTCAAATTTATTAGTTGTCAATTATTCTATACCAAAATTCTCGACATATTTTCTGCATG
TGGCATGCTGTTCATTATTTACTTTTACGTCTGTAGATCCTATGAAGTGTTTTTCTAAATGGGTT
ATTGTTGCACTTTGCAGACAACTTAAAAC
Found at i:743427 original size:23 final size:23
Alignment explanation
Indices: 743350--743411 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
743340 TGATTGGACG
743350 CTGCTGACTGAACCTTCTAGAAA
1 CTGCTGACTGAACCTTCTAGAAA
* *
743373 CTACTGACTGAACCTTCTAAAAA
1 CTGCTGACTGAACCTTCTAGAAA
743396 CTGCTGACTGAACCTT
1 CTGCTGACTGAACCTT
743412 TTGGAAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (23 bp):
CTGCTGACTGAACCTTCTAGAAA
Found at i:743579 original size:19 final size:19
Alignment explanation
Indices: 743552--743595 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
743542 ATGCACACAT
*
743552 AAATCATGTAAAAACGCTC
1 AAATCATGTAAAAACGCCC
*
743571 AAATTATGTAAAAACGCCC
1 AAATCATGTAAAAACGCCC
743590 AAATCA
1 AAATCA
743596 ACAATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.50, C:0.20, G:0.09, T:0.20
Consensus pattern (19 bp):
AAATCATGTAAAAACGCCC
Found at i:744525 original size:40 final size:41
Alignment explanation
Indices: 744481--744569 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 41
744471 CGAGTTGACA
* * *
744481 TCGAATTTTATGATTCAAAATTTATTTGAAATTTTTTCAG-
1 TCGAATTTTATCACTCAAAATTTATTTGAAATTCTTTCAGC
* * *
744521 TCGAA-TTTGTCACTCAAATTTTATTTGAAATTCTTTCGGC
1 TCGAATTTTATCACTCAAAATTTATTTGAAATTCTTTCAGC
744561 TCGAATTTT
1 TCGAATTTT
744570 GCTTACTCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 28 0.68
40 10 0.24
41 3 0.07
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.48
Consensus pattern (41 bp):
TCGAATTTTATCACTCAAAATTTATTTGAAATTCTTTCAGC
Found at i:747084 original size:4 final size:4
Alignment explanation
Indices: 746975--747065 Score: 51
Period size: 4 Copynumber: 21.5 Consensus size: 4
746965 ATATAATAGT
* *
746975 AATA AATA AAAA AACTA AA-A AACTA AATA AATA AATA ACTA TAATCA
1 AATA AATA AATA AA-TA AATA AA-TA AATA AATA AATA AATA -AAT-A
* * **
747022 AATA TGTACA AATAA AATA AA-A AAGG AATA AATA AATA AATA AA
1 AATA --AATA AAT-A AATA AATA AATA AATA AATA AATA AATA AA
747066 ACAATGGTGA
Statistics
Matches: 67, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
3 6 0.09
4 43 0.64
5 15 0.22
6 3 0.04
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:749419 original size:105 final size:105
Alignment explanation
Indices: 748962--750085 Score: 1897
Period size: 105 Copynumber: 10.7 Consensus size: 105
748952 ATATAGCTCA
**** * *
748962 TTCGTCGTGAAGTTGAACTTATACTGTCTTGAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
* * * *
749027 CTCTGAAGTTGGGAAGTTATTTATTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAAG-TGTTTGTTGACAACCAGCGGTCCC
* *
749068 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
* *
749133 CTCTGAAATTGAGAATTTGTTTGTTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAA-GTGTTTGTTGACAACCAGCGGTCCC
* * *
749174 TTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
* *
749239 CTCTGAAATTGAGAAGTTATTTGTTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAAG-TGTTTGTTGACAACCAGCGGTCCC
* *
749280 TTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
* *
749345 CTCTGAATTTGAGAAATGTTCGTTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAAGTGTTTGTTGACAACCAGCGGTCCC
*
749385 TTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
749450 CTCTGAATTTGAGAAGTGTTTTGTTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAAGTG-TTTGTTGACAACCAGCGGTCCC
*
749491 TTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
749556 CTCTGAATTTGAGAAGTGTTTGTTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAAGTGTTTGTTGACAACCAGCGGTCCC
*
749596 TTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
749661 CTCTGAATTTGAGAAGTGTTTGTTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAAGTGTTTGTTGACAACCAGCGGTCCC
* *
749701 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTCGTTAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
* *
749766 CTCTGAATTTGAGAAATGTTCGTTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAAGTGTTTGTTGACAACCAGCGGTCCC
*
749806 TTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
749871 CTCTGAATTTGAGAAGTGTTTGTTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAAGTGTTTGTTGACAACCAGCGGTCCC
*
749911 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
* *
749976 CTCTGAATTTGAGAAATGTTCGTTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAAGTGTTTGTTGACAACCAGCGGTCCC
*
750016 TTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
750081 CTCTG
66 CTCTG
750086 GGTAAAACCT
Statistics
Matches: 967, Mismatches: 48, Indels: 7
0.95 0.05 0.01
Matches are distributed among these distances:
105 599 0.62
106 368 0.38
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (105 bp):
TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
CTCTGAATTTGAGAAGTGTTTGTTGACAACCAGCGGTCCC
Found at i:750910 original size:1 final size:1
Alignment explanation
Indices: 750900--750952 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
750890 CGTTCTTCTC
* * * * *
750900 TTTTTGTTTTTTTTTGTTTTTTTTTGTTTTTTTTTGTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
750953 AACTTAGGAC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:750915 original size:10 final size:10
Alignment explanation
Indices: 750900--750952 Score: 92
Period size: 10 Copynumber: 5.5 Consensus size: 10
750890 CGTTCTTCTC
750900 TTTTTGTTTT
1 TTTTTGTTTT
750910 TTTTTGTTTT
1 TTTTTGTTTT
750920 TTTTTGTTTT
1 TTTTTGTTTT
750930 TTTTTG--TT
1 TTTTTGTTTT
750938 TTTTTGTTTT
1 TTTTTGTTTT
750948 TTTTT
1 TTTTT
750953 AACTTAGGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.20
10 33 0.80
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:750925 original size:20 final size:18
Alignment explanation
Indices: 750900--750952 Score: 88
Period size: 18 Copynumber: 2.8 Consensus size: 18
750890 CGTTCTTCTC
750900 TTTTTGTTTTTTTTTGTTTT
1 TTTTTGTTTTTTTTTG--TT
750920 TTTTTGTTTTTTTTTGTT
1 TTTTTGTTTTTTTTTGTT
750938 TTTTTGTTTTTTTTT
1 TTTTTGTTTTTTTTT
750953 AACTTAGGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 17 0.52
20 16 0.48
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (18 bp):
TTTTTGTTTTTTTTTGTT
Found at i:773734 original size:21 final size:21
Alignment explanation
Indices: 773710--773753 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
773700 TCATTCCTAT
* *
773710 TTTAGTCACTACATTTTTTAA
1 TTTAATCACTAAATTTTTTAA
*
773731 TTTAATCATTAAATTTTTTAA
1 TTTAATCACTAAATTTTTTAA
773752 TT
1 TT
773754 GCATTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTAATCACTAAATTTTTTAA
Found at i:774584 original size:34 final size:32
Alignment explanation
Indices: 774539--774601 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
774529 CAGTAATTTT
*
774539 TTTTTATAAATATAGAATATATAAAATAAATTTAC
1 TTTTTATAAATATA-AAAAT-TAAAA-AAATTTAC
774574 TTTTTA-AAATATAAAAATTAAAAAAATT
1 TTTTTATAAATATAAAAATTAAAAAAATT
774602 CAAATTCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 5 0.19
32 5 0.19
33 4 0.15
34 7 0.26
35 6 0.22
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (32 bp):
TTTTTATAAATATAAAAATTAAAAAAATTTAC
Found at i:774964 original size:108 final size:108
Alignment explanation
Indices: 774834--775097 Score: 528
Period size: 108 Copynumber: 2.4 Consensus size: 108
774824 TTCAACTATA
774834 ATTAAACATAAAACTTGTTTATTTACATAAATATAACAAAGTATTTTTACAAAAATCGGATCATT
1 ATTAAACATAAAACTTGTTTATTTACATAAATATAACAAAGTATTTTTACAAAAATCGGATCATT
774899 TAACTACATGCCAACTAAAACTTAATACAACAAAACACATACT
66 TAACTACATGCCAACTAAAACTTAATACAACAAAACACATACT
774942 ATTAAACATAAAACTTGTTTATTTACATAAATATAACAAAGTATTTTTACAAAAATCGGATCATT
1 ATTAAACATAAAACTTGTTTATTTACATAAATATAACAAAGTATTTTTACAAAAATCGGATCATT
775007 TAACTACATGCCAACTAAAACTTAATACAACAAAACACATACT
66 TAACTACATGCCAACTAAAACTTAATACAACAAAACACATACT
775050 ATTAAACATAAAACTTGTTTATTTACATAAATATAACAAAGTATTTTT
1 ATTAAACATAAAACTTGTTTATTTACATAAATATAACAAAGTATTTTT
775098 CTACTGTTAA
Statistics
Matches: 156, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 156 1.00
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.33
Consensus pattern (108 bp):
ATTAAACATAAAACTTGTTTATTTACATAAATATAACAAAGTATTTTTACAAAAATCGGATCATT
TAACTACATGCCAACTAAAACTTAATACAACAAAACACATACT
Found at i:776863 original size:2 final size:2
Alignment explanation
Indices: 776856--776905 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
776846 ATTATCACAA
776856 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
776898 AT A- AT AT A
1 AT AT AT AT A
776906 CATCGTTTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:782036 original size:34 final size:34
Alignment explanation
Indices: 781968--782097 Score: 111
Period size: 34 Copynumber: 3.7 Consensus size: 34
781958 AATGTTTTCT
* * * * *
781968 AAGCATATAATATATTATTTTAAAATTTGGTTTAA
1 AAGCATATTATATAGT-TTTGAAAATATGATTTAA
*
782003 AAGCATATTATATGGTTTTGAAAATATGATTTAA
1 AAGCATATTATATAGTTTTGAAAATATGATTTAA
* *
782037 AAACATA-TATTATAGTTTTGAAAACTCAT-TTTTGAA
1 AAGCATATTA-TATAGTTTTGAAAA-T-ATGATTT-AA
*
782073 AACGTATATTATATAGTTTTGAAAA
1 AA-GCATATTATATAGTTTTGAAAA
782098 ACATTTTTGA
Statistics
Matches: 78, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
33 2 0.03
34 34 0.44
35 17 0.22
36 6 0.08
37 17 0.22
38 2 0.03
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (34 bp):
AAGCATATTATATAGTTTTGAAAATATGATTTAA
Found at i:782147 original size:35 final size:35
Alignment explanation
Indices: 782101--782167 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
782091 TTGAAAAACA
*
782101 TTTTTGAAAACATATATAT-TATATGATTTTGATTT
1 TTTTTAAAAACATATATATAT-TATGATTTTGATTT
*
782136 TTTTTAAAAACATATATATATTATGGTTTTGA
1 TTTTTAAAAACATATATATATTATGATTTTGA
782168 AAAACAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 28 0.97
36 1 0.03
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (35 bp):
TTTTTAAAAACATATATATATTATGATTTTGATTT
Found at i:782190 original size:37 final size:37
Alignment explanation
Indices: 782007--782286 Score: 211
Period size: 39 Copynumber: 7.6 Consensus size: 37
781997 GTTTAAAAGC
* * *
782007 ATAT-TATATGGTTTTGAAAA-TATGATTTAAAAACAT
1 ATATATATATGGTTTTGAAAACAAT-TTTTGAAAACAT
* *
782043 ATAT-TATA--GTTTTGAAAACTCATTTTTGAAAACGT
1 ATATATATATGGTTTTGAAAAC-AATTTTTGAAAACAT
*
782078 ATAT-TATATAGTTTTGAAAA-ACATTTTTGAAAACAT
1 ATATATATATGGTTTTGAAAACA-ATTTTTGAAAACAT
* *** *
782114 ATATATTATATGATTTTG---ATTTTTTTTAAAAACAT
1 ATATA-TATATGGTTTTGAAAACAATTTTTGAAAACAT
*
782149 ATATATATTATGGTTTTGAAAAACAATTTTTCAAAACAT
1 ATATATA-TATGGTTTTG-AAAACAATTTTTGAAAACAT
* *
782188 ATATATGCTATGGTTTTGGAAAGCAATTTTTGAAAACAT
1 ATATAT-ATATGGTTTT-GAAAACAATTTTTGAAAACAT
** * *
782227 ATATATTATATAATTTTGAAAATAATTTTTGAAATCAT
1 ATATA-TATATGGTTTTGAAAACAATTTTTGAAAACAT
* * *
782265 ATGTAATATATAGTTTTAAAAA
1 ATAT-ATATATGGTTTTGAAAA
782287 TGATTTTTTT
Statistics
Matches: 199, Mismatches: 28, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
34 12 0.06
35 44 0.22
36 27 0.14
37 10 0.05
38 45 0.23
39 59 0.30
40 2 0.01
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.44
Consensus pattern (37 bp):
ATATATATATGGTTTTGAAAACAATTTTTGAAAACAT
Found at i:782205 original size:74 final size:71
Alignment explanation
Indices: 782065--782205 Score: 192
Period size: 74 Copynumber: 1.9 Consensus size: 71
782055 TGAAAACTCA
* * * *
782065 TTTTTGAAAACGTATATTATATAGTTTTGAAAAACATTTTTGAAAACATATATATTATATGATTT
1 TTTTTAAAAACATATATTATATAGTTTTGAAAAACATTTTTCAAAACATATATATGATATGATTT
782130 TGATTT
66 TGATTT
* * *
782136 TTTTTAAAAACATATATATATTATGGTTTTGAAAAACAATTTTTCAAAACATATATATGCTATGG
1 TTTTTAAAAACATATAT-TA-TATAGTTTTGAAAAAC-ATTTTTCAAAACATATATATGATATGA
782201 TTTTG
63 TTTTG
782206 GAAAGCAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
71 15 0.25
72 2 0.03
73 15 0.25
74 28 0.47
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (71 bp):
TTTTTAAAAACATATATTATATAGTTTTGAAAAACATTTTTCAAAACATATATATGATATGATTT
TGATTT
Found at i:782287 original size:38 final size:38
Alignment explanation
Indices: 782064--782320 Score: 143
Period size: 39 Copynumber: 6.7 Consensus size: 38
782054 TTGAAAACTC
* * *
782064 ATTTTTGAAAACGTATAT--TATATAGTTTTGAAAAA-C
1 ATTTTTGAAAACATATATAATATATAATTTT-AAAAATA
* * * *
782100 ATTTTTGAAAACATATATATTATATGATTTT---GATT
1 ATTTTTGAAAACATATATAATATATAATTTTAAAAATA
* * ** *
782135 TTTTTTAAAAACATATAT-ATATTATGGTTTTGAAAAACA
1 ATTTTTGAAAACATATATAATA-TATAATTTT-AAAAATA
* * ** * **
782174 ATTTTTCAAAACATATAT-ATGCTATGGTTTTGGAAAGCA
1 ATTTTTGAAAACATATATAAT-ATATAATTTT-AAAAATA
* *
782213 ATTTTTGAAAACATATATATTATATAATTTTGAAAATA
1 ATTTTTGAAAACATATATAATATATAATTTTAAAAATA
* * *
782251 ATTTTTGAAATCATATGTAATATATAGTTTTAAAAATGA
1 ATTTTTGAAAACATATATAATATATAATTTTAAAAAT-A
* *
782290 TTTTTTTGTGAAAACCTATATAATATATAAT
1 --ATTTT-TGAAAACATATATAATATATAAT
782321 ATTTGAAGAC
Statistics
Matches: 173, Mismatches: 34, Indels: 22
0.76 0.15 0.10
Matches are distributed among these distances:
34 3 0.02
35 24 0.14
36 17 0.10
38 46 0.27
39 59 0.34
40 1 0.01
41 4 0.02
42 19 0.11
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.44
Consensus pattern (38 bp):
ATTTTTGAAAACATATATAATATATAATTTTAAAAATA
Found at i:788601 original size:32 final size:31
Alignment explanation
Indices: 788522--788605 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 31
788512 GTTTTCTAAG
* *
788522 CATATATATAATTTTAAAAATTGGTTTAAAA
1 CATATATATAATTTTGAAAATTGATTTAAAA
**
788553 CATATTATATGGTTTTGAAAATATGATTTAAAAA
1 CATA-TATATAATTTTGAAAAT-TGATTT-AAAA
788587 CATATAT-TAATTTTGAAAA
1 CATATATATAATTTTGAAAA
788606 CACATTTTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
31 4 0.09
32 24 0.55
33 8 0.18
34 8 0.18
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (31 bp):
CATATATATAATTTTGAAAATTGATTTAAAA
Found at i:790771 original size:2 final size:2
Alignment explanation
Indices: 790764--790819 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
790754 AAATAAATAA
790764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
790806 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
790820 CAATATAACA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:795581 original size:35 final size:35
Alignment explanation
Indices: 795540--795730 Score: 96
Period size: 35 Copynumber: 5.4 Consensus size: 35
795530 AATGTTTTCT
*
795540 AAGCATATAATATATAATTTTAAAAAT-TGGTTTAA
1 AAGCATAT-ATATATAATTTTAAAAATATGATTTAA
** *
795575 AAGCATAT-TATATGGTTTTGAAAATATGATTTAA
1 AAGCATATATATATAATTTTAAAAATATGATTTAA
* * *
795609 AA-CATATAT-TATAGTTTTGAAAACACAT-TTTTGAA
1 AAGCATATATATATAATTTT-AAAA-ATATGATTT-AA
* * *
795644 AA-CGTATATTATATAGTTTTGAAAAACAT--TTTGAA
1 AAGCATATA-TATATAATTTT-AAAAATATGATTT-AA
*
795679 AA-CATATATATTATATGATTTTAAAAAATAAT-TTTTAA
1 AAGCATATATA-TATA--ATTTT-AAAAAT-ATGATTTAA
*
795717 AAACATATATATAT
1 AAGCATATATATAT
795731 TATGGTTTTG
Statistics
Matches: 130, Mismatches: 13, Indels: 23
0.78 0.08 0.14
Matches are distributed among these distances:
33 27 0.21
34 18 0.14
35 37 0.28
36 5 0.04
37 23 0.18
38 9 0.07
39 11 0.08
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (35 bp):
AAGCATATATATATAATTTTAAAAATATGATTTAA
Found at i:795615 original size:33 final size:33
Alignment explanation
Indices: 795540--795631 Score: 98
Period size: 33 Copynumber: 2.7 Consensus size: 33
795530 AATGTTTTCT
* * *
795540 AAGCATATAATATATAATTTTAAAAATTGGTTTAA
1 AAGCATAT-AT-TATAGTTTTGAAAATTGATTTAA
*
795575 AAGCATAT-TATATGGTTTTGAAAATATGATTTAA
1 AAGCATATAT-TATAGTTTTGAAAAT-TGATTTAA
795609 AA-CATATATTATAGTTTTGAAAA
1 AAGCATATATTATAGTTTTGAAAA
795632 CACATTTTTG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
33 32 0.64
34 10 0.20
35 8 0.16
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (33 bp):
AAGCATATATTATAGTTTTGAAAATTGATTTAA
Found at i:795668 original size:37 final size:36
Alignment explanation
Indices: 795579--795859 Score: 209
Period size: 39 Copynumber: 7.6 Consensus size: 36
795569 GTTTAAAAGC
* * *
795579 ATATTATATGGTTTTG-AAAATATGATTT-AAAACAT
1 ATATTATATAGTTTTGAAAAACAT-TTTTGAAAACAT
*
795614 ATA-T-TATAGTTTTGAAAACACATTTTTGAAAACGT
1 ATATTATATAGTTTTGAAAA-ACATTTTTGAAAACAT
795649 ATATTATATAGTTTTGAAAAACA-TTTTGAAAACAT
1 ATATTATATAGTTTTGAAAAACATTTTTGAAAACAT
* * *
795684 ATA-TATTATATGATTTTAAAAAATAATTTTTAAAAACAT
1 ATATTA-TATA-G-TTTTGAAAAA-CATTTTTGAAAACAT
*
795723 ATATATATTATGGTTTTGAAAAACAATTTTTGAAAACAT
1 ATAT-TA-TATAGTTTTGAAAAAC-ATTTTTGAAAACAT
* * * *
795762 ATATATGTTATGGTTTTGGAAAGCAATTTTTGAAAACATAT
1 ATAT-T-ATATAGTTTTGAAAAAC-ATTTTTGAAAAC--AT
* * *
795803 ATATTATATAATTTCGAAAATA-ATTTTTGAAATCAT
1 ATATTATATAGTTTTGAAAA-ACATTTTTGAAAACAT
*
795839 ATGTAATATATAGTTTT-AAAA
1 A--TATTATATAGTTTTGAAAA
795860 TGATTTTTTT
Statistics
Matches: 202, Mismatches: 25, Indels: 36
0.77 0.10 0.14
Matches are distributed among these distances:
33 9 0.04
34 9 0.04
35 33 0.16
36 8 0.04
37 27 0.13
38 23 0.11
39 79 0.39
40 2 0.01
41 12 0.06
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.42
Consensus pattern (36 bp):
ATATTATATAGTTTTGAAAAACATTTTTGAAAACAT
Found at i:795745 original size:39 final size:38
Alignment explanation
Indices: 795612--795859 Score: 233
Period size: 39 Copynumber: 6.5 Consensus size: 38
795602 GATTTAAAAC
* *
795612 ATATATTATAGTTTTGAAAACACATTTTTGAAAACGTAT
1 ATATATTATAGTTTTGAAAA-AAATTTTTGAAAACATAT
*
795651 AT-TA-TATAGTTTTGAAAAACA-TTTTGAAAAC--AT
1 ATATATTATAGTTTTGAAAAAAATTTTTGAAAACATAT
* *
795684 ATATATTATATGATTTTAAAAAATAATTTTTAAAAACATAT
1 ATATATTATA-G-TTTTGAAAAA-AATTTTTGAAAACATAT
*
795725 ATATATTATGGTTTTGAAAAACAATTTTTGAAAACATAT
1 ATATATTATAGTTTTGAAAAA-AATTTTTGAAAACATAT
* * **
795764 ATATGTTATGGTTTTGGAAAGCAATTTTTGAAAACATAT
1 ATATATTATAGTTTT-GAAAAAAATTTTTGAAAACATAT
* * * *
795803 ATAT-TATATAATTTCGAAAATAATTTTTGAAATCATAT
1 ATATAT-TATAGTTTTGAAAAAAATTTTTGAAAACATAT
*
795841 GTA-ATATATAGTTTT-AAAA
1 ATATAT-TATAGTTTTGAAAA
795860 TGATTTTTTT
Statistics
Matches: 179, Mismatches: 19, Indels: 24
0.81 0.09 0.11
Matches are distributed among these distances:
33 4 0.02
34 2 0.01
35 14 0.08
36 4 0.02
37 27 0.15
38 35 0.20
39 77 0.43
40 5 0.03
41 11 0.06
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (38 bp):
ATATATTATAGTTTTGAAAAAAATTTTTGAAAACATAT
Found at i:795868 original size:38 final size:38
Alignment explanation
Indices: 795635--795894 Score: 147
Period size: 39 Copynumber: 6.7 Consensus size: 38
795625 TTGAAAACAC
* * *
795635 ATTTTTGAAAACGTATAT--TATATAGTTTTGAAAA-A
1 ATTTTTGAAAACATATATAATATATAATTTCGAAAATA
* * **
795670 CA-TTTTGAAAACATATATATTATATGATTTTAAAAAATA
1 -ATTTTTGAAAACATATATAATATAT-AATTTCGAAAATA
* ** * *
795709 ATTTTTAAAAACATATAT-ATATTATGGTTTTGAAAAACA
1 ATTTTTGAAAACATATATAATA-TATAATTTCG-AAAATA
* ** * **
795748 ATTTTTGAAAACATATAT-ATGTTATGGTTTTGGAAAGCA
1 ATTTTTGAAAACATATATAAT-ATAT-AATTTCGAAAATA
*
795787 ATTTTTGAAAACATATATATTATATAATTTCGAAAATA
1 ATTTTTGAAAACATATATAATATATAATTTCGAAAATA
* * * *
795825 ATTTTTGAAATCATATGTAATATATAGTTT-TAAAATGA
1 ATTTTTGAAAACATATATAATATATAATTTCGAAAAT-A
* *
795863 TTTTTTTGGTGAAAACCTATATAATATATAAT
1 --ATTTT--TGAAAACATATATAATATATAAT
795895 ATTTGAAGAC
Statistics
Matches: 176, Mismatches: 33, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
35 15 0.09
36 1 0.01
37 10 0.06
38 49 0.28
39 72 0.41
40 10 0.06
42 19 0.11
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (38 bp):
ATTTTTGAAAACATATATAATATATAATTTCGAAAATA
Found at i:797168 original size:5 final size:5
Alignment explanation
Indices: 797160--797207 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
797150 TTTAATTCTC
* *
797160 TATTT TATTT TATTT TATTT CTTTTCT TTTTT TATTT TATTAT TATTT
1 TATTT TATTT TATTT TATTT -TATT-T TATTT TATTT TATT-T TATTT
797208 AACATTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 25 0.66
6 12 0.32
7 1 0.03
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:797175 original size:23 final size:23
Alignment explanation
Indices: 797143--797198 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
797133 TTTAATTCAA
*
797143 ATTTTCTTTTAATTCTCTATT-TT
1 ATTTTATTTTAATT-TCTATTCTT
*
797166 ATTTTATTTT-ATTTCTTTTCTT
1 ATTTTATTTTAATTTCTATTCTT
*
797188 TTTTTATTTTA
1 ATTTTATTTTA
797199 TTATTATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 5 0.18
22 14 0.50
23 9 0.32
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (23 bp):
ATTTTATTTTAATTTCTATTCTT
Found at i:797181 original size:32 final size:33
Alignment explanation
Indices: 797145--797207 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
797135 TAATTCAAAT
797145 TTTCTTTTAATTCTCTATTTTATT-TTATTTTA
1 TTTCTTTTAATTCTCTATTTTATTATTATTTTA
** * *
797177 TTTCTTTTCTTTTTTTATTTTATTATTATTT
1 TTTCTTTTAATTCTCTATTTTATTATTATTT
797208 AACATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (33 bp):
TTTCTTTTAATTCTCTATTTTATTATTATTTTA
Found at i:802186 original size:34 final size:34
Alignment explanation
Indices: 802101--802190 Score: 112
Period size: 34 Copynumber: 2.6 Consensus size: 34
802091 GTTTTCTAAG
* *
802101 CATATAATATATAATTTTAAAAATTGGTTTAAAAA
1 CATAT-ATATATAATTTTGAAAATTGATTTAAAAA
**
802136 CATAT-TATATGGTTTTGAAAATATGATTTAAAAA
1 CATATATATATAATTTTGAAAAT-TGATTTAAAAA
802170 CATATAT-TATAATTTTGAAAA
1 CATATATATATAATTTTGAAAA
802191 CACATTTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
33 14 0.30
34 27 0.57
35 6 0.13
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (34 bp):
CATATATATATAATTTTGAAAATTGATTTAAAAA
Found at i:802211 original size:35 final size:37
Alignment explanation
Indices: 802166--802248 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
802156 ATATGATTTA
*
802166 AAAACATATATTATA-A-TTTTG-AAAACACATTTTTG
1 AAAACATATATTATATAGTTTCGAAAAACA-ATTTTTG
*
802201 AAAACGTATATTATATAGTTTCGAAAAACAATTTTTG
1 AAAACATATATTATATAGTTTCGAAAAACAATTTTTG
802238 AAAACATATAT
1 AAAACATATAT
802249 ATTATATGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 14 0.33
36 1 0.02
37 21 0.50
38 6 0.14
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.37
Consensus pattern (37 bp):
AAAACATATATTATATAGTTTCGAAAAACAATTTTTG
Found at i:804338 original size:2 final size:2
Alignment explanation
Indices: 804331--804359 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
804321 CATAAATTAT
804331 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
804360 CAATATAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:809126 original size:35 final size:35
Alignment explanation
Indices: 809085--809276 Score: 96
Period size: 35 Copynumber: 5.4 Consensus size: 35
809075 AATGTTTTCT
*
809085 AAGCATATAATATATAATTTTAAAAAT-TGGTTTAA
1 AAGCATAT-ATATATAATTTTAAAAATATGATTTAA
** *
809120 AAGCATAT-TATATGGTTTTGAAAATATGATTTAA
1 AAGCATATATATATAATTTTAAAAATATGATTTAA
* * * *
809154 AAACATATAT-TATAGTTTTGAAAACACAT-TTTTGAA
1 AAGCATATATATATAATTTT-AAAA-ATATGATTT-AA
* * *
809190 AA-CGTATATTATATAGTTTTGAAAAACAT--TTTGAA
1 AAGCATATA-TATATAATTTT-AAAAATATGATTT-AA
*
809225 AA-CATATATATTATATGATTTTAAAAAATAAT-TTTTAA
1 AAGCATATATA-TATA--ATTTT-AAAAAT-ATGATTTAA
*
809263 AAACATATATATAT
1 AAGCATATATATAT
809277 TATGGTTTTG
Statistics
Matches: 130, Mismatches: 14, Indels: 23
0.78 0.08 0.14
Matches are distributed among these distances:
33 14 0.11
34 24 0.18
35 37 0.28
36 12 0.09
37 23 0.18
38 9 0.07
39 11 0.08
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (35 bp):
AAGCATATATATATAATTTTAAAAATATGATTTAA
Found at i:809210 original size:37 final size:36
Alignment explanation
Indices: 809124--809405 Score: 209
Period size: 39 Copynumber: 7.6 Consensus size: 36
809114 GTTTAAAAGC
* * * *
809124 ATATTATATGGTTTTG-AAAATATGATTTAAAAACAT
1 ATATTATATAGTTTTGAAAAACAT-TTTTGAAAACAT
*
809160 ATA-T-TATAGTTTTGAAAACACATTTTTGAAAACGT
1 ATATTATATAGTTTTGAAAA-ACATTTTTGAAAACAT
809195 ATATTATATAGTTTTGAAAAACA-TTTTGAAAACAT
1 ATATTATATAGTTTTGAAAAACATTTTTGAAAACAT
* * *
809230 ATA-TATTATATGATTTTAAAAAATAATTTTTAAAAACAT
1 ATATTA-TATA-G-TTTTGAAAAA-CATTTTTGAAAACAT
*
809269 ATATATATTATGGTTTTGAAAAACAATTTTTGAAAACAT
1 ATAT-TA-TATAGTTTTGAAAAAC-ATTTTTGAAAACAT
* * * *
809308 ATATATGTTATGGTTTTGGAAAGCAATTTTTGAAAACATAT
1 ATAT-T-ATATAGTTTTGAAAAAC-ATTTTTGAAAAC--AT
* * *
809349 ATATTATATAATTTCGAAAATA-ATTTTTGAAATCAT
1 ATATTATATAGTTTTGAAAA-ACATTTTTGAAAACAT
*
809385 ATGTAATATATAGTTTT-AAAA
1 A--TATTATATAGTTTTGAAAA
809406 TGATTTTTTT
Statistics
Matches: 202, Mismatches: 26, Indels: 35
0.77 0.10 0.13
Matches are distributed among these distances:
34 11 0.05
35 34 0.17
36 14 0.07
37 27 0.13
38 23 0.11
39 79 0.39
40 2 0.01
41 12 0.06
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.42
Consensus pattern (36 bp):
ATATTATATAGTTTTGAAAAACATTTTTGAAAACAT
Found at i:809291 original size:39 final size:39
Alignment explanation
Indices: 809158--809386 Score: 222
Period size: 39 Copynumber: 6.0 Consensus size: 39
809148 ATTTAAAAAC
* * *
809158 ATATATTATAGTTTTGAAAACA-CATTTTTGAAAACGTAT
1 ATATATTATGGTTTTGAAAA-ATAATTTTTGAAAACATAT
* *
809197 AT-TA-TATAGTTTTGAAAAA-CA-TTTTGAAAACATAT
1 ATATATTATGGTTTTGAAAAATAATTTTTGAAAACATAT
* * *
809232 ATAT-TATATGATTTTAAAAAATAATTTTTAAAAACATAT
1 ATATAT-TATGGTTTTGAAAAATAATTTTTGAAAACATAT
*
809271 ATATATTATGGTTTTGAAAAACAATTTTTGAAAACATAT
1 ATATATTATGGTTTTGAAAAATAATTTTTGAAAACATAT
* * **
809310 ATATGTTATGGTTTTGGAAAGCAATTTTTGAAAACATAT
1 ATATATTATGGTTTTGAAAAATAATTTTTGAAAACATAT
** * *
809349 ATAT-TATATAATTTCG-AAAATAATTTTTGAAATCATAT
1 ATATAT-TATGGTTTTGAAAAATAATTTTTGAAAACATAT
809387 GTAATATATA
Statistics
Matches: 164, Mismatches: 19, Indels: 15
0.83 0.10 0.08
Matches are distributed among these distances:
35 15 0.09
36 4 0.02
37 26 0.16
38 23 0.14
39 95 0.58
40 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (39 bp):
ATATATTATGGTTTTGAAAAATAATTTTTGAAAACATAT
Found at i:809305 original size:78 final size:78
Alignment explanation
Indices: 809158--809405 Score: 248
Period size: 78 Copynumber: 3.3 Consensus size: 78
809148 ATTTAAAAAC
* *
809158 ATATATTATA-G-TTTT-GAAAACACATTTTTGAAAACGTATAT-TA-TATAGTTTTGAAAAAC-
1 ATATATTATATGATTTTAAAAAACA-ATTTTTGAAAACATATATATATTATAGTTTTGAAAAACA
809217 A-TTTTGAAAACAT
65 ATTTTTGAAAACAT
* * *
809230 ATATATTATATGATTTTAAAAAATAATTTTTAAAAACATATATATATTATGGTTTTGAAAAACAA
1 ATATATTATATGATTTTAAAAAACAATTTTTGAAAACATATATATATTATAGTTTTGAAAAACAA
809295 TTTTTGAAAACAT
66 TTTTTGAAAACAT
* ** * * * *
809308 ATATATGT-TATGGTTTTGGAAAGCAATTTTTGAAAACATATATAT-TATATAATTTCG-AAAAT
1 ATATAT-TATATGATTTTAAAAAACAATTTTTGAAAACATATATATAT-TATAGTTTTGAAAAAC
*
809370 AATTTTTGAAATCAT
64 AATTTTTGAAAACAT
* *
809385 ATGTAATATAT-AGTTTTAAAA
1 ATATATTATATGA-TTTTAAAA
809406 TGATTTTTTT
Statistics
Matches: 144, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
72 10 0.07
73 1 0.01
74 20 0.14
75 7 0.05
76 16 0.11
77 33 0.23
78 56 0.39
79 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (78 bp):
ATATATTATATGATTTTAAAAAACAATTTTTGAAAACATATATATATTATAGTTTTGAAAAACAA
TTTTTGAAAACAT
Found at i:809414 original size:38 final size:38
Alignment explanation
Indices: 809181--809440 Score: 147
Period size: 39 Copynumber: 6.7 Consensus size: 38
809171 TTGAAAACAC
* * *
809181 ATTTTTGAAAACGTATAT--TATATAGTTTTGAAAA-A
1 ATTTTTGAAAACATATATAATATATAATTTCGAAAATA
* * **
809216 CA-TTTTGAAAACATATATATTATATGATTTTAAAAAATA
1 -ATTTTTGAAAACATATATAATATAT-AATTTCGAAAATA
* ** * *
809255 ATTTTTAAAAACATATAT-ATATTATGGTTTTGAAAAACA
1 ATTTTTGAAAACATATATAATA-TATAATTTCG-AAAATA
* ** * **
809294 ATTTTTGAAAACATATAT-ATGTTATGGTTTTGGAAAGCA
1 ATTTTTGAAAACATATATAAT-ATAT-AATTTCGAAAATA
*
809333 ATTTTTGAAAACATATATATTATATAATTTCGAAAATA
1 ATTTTTGAAAACATATATAATATATAATTTCGAAAATA
* * * *
809371 ATTTTTGAAATCATATGTAATATATAGTTT-TAAAATGA
1 ATTTTTGAAAACATATATAATATATAATTTCGAAAAT-A
* *
809409 TTTTTTTGGTGAAAACCTATATAATATATAAT
1 --ATTTT--TGAAAACATATATAATATATAAT
809441 ATTTGAAGAC
Statistics
Matches: 176, Mismatches: 33, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
35 15 0.09
36 1 0.01
37 10 0.06
38 49 0.28
39 72 0.41
40 10 0.06
42 19 0.11
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (38 bp):
ATTTTTGAAAACATATATAATATATAATTTCGAAAATA
Found at i:810714 original size:5 final size:5
Alignment explanation
Indices: 810706--810753 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
810696 TTTAATTCTC
* *
810706 TATTT TATTT TATTT TATTT CTTTTCT TTTTT TATTT TATTAT TATTT
1 TATTT TATTT TATTT TATTT -TATT-T TATTT TATTT TATT-T TATTT
810754 AACATTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 25 0.66
6 12 0.32
7 1 0.03
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:810721 original size:23 final size:23
Alignment explanation
Indices: 810689--810744 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
810679 TTTAATTCAA
*
810689 ATTTTCTTTTAATTCTCTATT-TT
1 ATTTTATTTTAATT-TCTATTCTT
*
810712 ATTTTATTTT-ATTTCTTTTCTT
1 ATTTTATTTTAATTTCTATTCTT
*
810734 TTTTTATTTTA
1 ATTTTATTTTA
810745 TTATTATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 5 0.18
22 14 0.50
23 9 0.32
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (23 bp):
ATTTTATTTTAATTTCTATTCTT
Found at i:810727 original size:32 final size:33
Alignment explanation
Indices: 810691--810753 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
810681 TAATTCAAAT
810691 TTTCTTTTAATTCTCTATTTTATT-TTATTTTA
1 TTTCTTTTAATTCTCTATTTTATTATTATTTTA
** * *
810723 TTTCTTTTCTTTTTTTATTTTATTATTATTT
1 TTTCTTTTAATTCTCTATTTTATTATTATTT
810754 AACATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (33 bp):
TTTCTTTTAATTCTCTATTTTATTATTATTTTA
Found at i:815849 original size:77 final size:76
Alignment explanation
Indices: 815713--815935 Score: 213
Period size: 77 Copynumber: 2.9 Consensus size: 76
815703 ATTTAAAAAC
* * * * *
815713 ATATATTATAGTTTTGAAAACACATTTTTGAAAACGTTTAT-TATATATTTTCGAAAAACAATTT
1 ATATATAATGGTTTTGAAAA-ACATTTTTGAAAACATATATACATATATTTTCGAAAAACAA--T
*
815777 TTTTGAAAACGTAT
63 TTTTGAAAACATAT
* *
815791 AT-TA-AATTGTTTTGAAAAACATTTTTGAAAACATATATACAT-TATGGTTTTGAAAAACAATT
1 ATATATAATGGTTTTGAAAAACATTTTTGAAAACATATATACATATAT--TTTCGAAAAACAATT
815853 TTTGAAAACATAT
64 TTTGAAAACATAT
* * * * * * *
815866 ATATATTATGGTTCTGGAAAGCAATTTTTGAAAACATATATATTATATAGTTTCG-AAAATAATT
1 ATATATAATGGTTTTGAAAAAC-ATTTTTGAAAACATATATA-CATATATTTTCGAAAAACAATT
815930 TTTGAA
64 TTTGAA
815936 TTCATATGTA
Statistics
Matches: 121, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
75 37 0.31
76 16 0.13
77 39 0.32
78 25 0.21
79 2 0.02
80 2 0.02
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (76 bp):
ATATATAATGGTTTTGAAAAACATTTTTGAAAACATATATACATATATTTTCGAAAAACAATTTT
TGAAAACATAT
Found at i:815868 original size:39 final size:39
Alignment explanation
Indices: 815713--815935 Score: 212
Period size: 39 Copynumber: 5.8 Consensus size: 39
815703 ATTTAAAAAC
* * *
815713 ATATATTATAGTTTTG-AAAACACATTTTTGAAAACGTTT
1 ATATATTATGGTTTTGAAAAACA-ATTTTTGAAAACATAT
* *
815752 AT-TATATAT--TTTCGAAAAACAATTTTTTTGAAAACGTAT
1 ATATAT-TATGGTTTTGAAAAACAA--TTTTTGAAAACATAT
* *
815791 AT-TA-AATTGTTTTGAAAAAC-ATTTTTGAAAACATAT
1 ATATATTATGGTTTTGAAAAACAATTTTTGAAAACATAT
*
815827 ATACATTATGGTTTTGAAAAACAATTTTTGAAAACATAT
1 ATATATTATGGTTTTGAAAAACAATTTTTGAAAACATAT
* * *
815866 ATATATTATGGTTCTGGAAAGCAATTTTTGAAAACATAT
1 ATATATTATGGTTTTGAAAAACAATTTTTGAAAACATAT
* * *
815905 ATAT-TATATAGTTTCG-AAAATAATTTTTGAA
1 ATATAT-TATGGTTTTGAAAAACAATTTTTGAA
815936 TTCATATGTA
Statistics
Matches: 157, Mismatches: 17, Indels: 21
0.81 0.09 0.11
Matches are distributed among these distances:
36 16 0.10
37 8 0.05
38 38 0.24
39 95 0.61
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (39 bp):
ATATATTATGGTTTTGAAAAACAATTTTTGAAAACATAT
Found at i:815951 original size:38 final size:38
Alignment explanation
Indices: 815736--815970 Score: 126
Period size: 39 Copynumber: 6.2 Consensus size: 38
815726 TTGAAAACAC
* * * *
815736 ATTTTTGAAAACGT-T-TATTATATATTTTCGAAAAACA
1 ATTTTTGAAAACATATATAATATATAGTTTC-AAAAATA
* * *
815773 ATTTTTTTGAAAACGTATATTAA-AT-T-GTTTTGAAAAA-C
1 A--TTTTTGAAAACATATA-TAATATATAG-TTTCAAAAATA
* * *
815811 ATTTTTGAAAACATATATACAT-TATGGTTTTGAAAAACA
1 ATTTTTGAAAACATATATA-ATATATAG-TTTCAAAAATA
* ** **
815850 ATTTTTGAAAACATATAT-ATATTATGGTTCTGGAAAGCA
1 ATTTTTGAAAACATATATAATA-TATAGTT-TCAAAAATA
* *
815889 ATTTTTGAAAACATATATATTATATAGTTTCGAAAATA
1 ATTTTTGAAAACATATATAATATATAGTTTCAAAAATA
** * * * *
815927 ATTTTTGAATTCATATGTAATATATATTTTTAAAAATG
1 ATTTTTGAAAACATATATAATATATAGTTTCAAAAATA
815965 ATTTTT
1 ATTTTT
815971 TTGTGGAAAC
Statistics
Matches: 162, Mismatches: 21, Indels: 29
0.76 0.10 0.14
Matches are distributed among these distances:
35 2 0.01
36 17 0.10
37 4 0.02
38 56 0.35
39 72 0.44
40 7 0.04
41 2 0.01
42 2 0.01
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (38 bp):
ATTTTTGAAAACATATATAATATATAGTTTCAAAAATA
Found at i:817213 original size:5 final size:5
Alignment explanation
Indices: 817203--817279 Score: 50
Period size: 5 Copynumber: 14.8 Consensus size: 5
817193 TTTAATTCAA
* * *
817203 ATTTT ATTTT AATTCTCT ATTTT A-TTT GTTTT -TTTT GTTTT GTTTT
1 ATTTT ATTTT -ATT-T-T ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
* *
817249 GTTTTT TTTTT ATTTT ATTTT ATTATT ATTT
1 -ATTTT ATTTT ATTTT ATTTT ATT-TT ATTT
817280 AACATTAATT
Statistics
Matches: 62, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
4 7 0.11
5 37 0.60
6 13 0.21
7 4 0.06
8 1 0.02
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:817239 original size:9 final size:9
Alignment explanation
Indices: 817222--817257 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
817212 TAATTCTCTA
*
817222 TTTTATTTG
1 TTTTTTTTG
817231 TTTTTTTTG
1 TTTTTTTTG
817240 TTTTGTTTTG
1 TTTT-TTTTG
817250 TTTTTTTT
1 TTTTTTTT
817258 TTATTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:817269 original size:13 final size:13
Alignment explanation
Indices: 817204--817275 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
817194 TTAATTCAAA
*
817204 TTTTATTTTAATT
1 TTTTATTTTATTT
* *
817217 CTCTATTTTATTT
1 TTTTATTTTATTT
*
817230 GTTTT-TTTTGTTT
1 -TTTTATTTTATTT
817243 TGTTT-TGTTT-TTT
1 T-TTTAT-TTTATTT
817256 TTTTATTTTATTT
1 TTTTATTTTATTT
*
817269 TATTATT
1 TTTTATT
817276 ATTTAACATT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
12 7 0.15
13 35 0.74
14 5 0.11
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:817280 original size:10 final size:10
Alignment explanation
Indices: 817203--817279 Score: 50
Period size: 11 Copynumber: 7.4 Consensus size: 10
817193 TTTAATTCAA
817203 ATTTTATTTT
1 ATTTTATTTT
817213 AATTCTCTATTTT
1 -ATT-T-TATTTT
*
817226 A-TTTGTTTT
1 ATTTTATTTT
*
817235 -TTTTGTTTT
1 ATTTTATTTT
* *
817244 GTTTTGTTTTT
1 ATTTT-ATTTT
*
817255 TTTTTATTTT
1 ATTTTATTTT
817265 ATTTTATTATT
1 ATTTTATT-TT
817276 ATTT
1 ATTT
817280 AACATTAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
9 13 0.24
10 16 0.29
11 18 0.33
12 2 0.04
13 6 0.11
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (10 bp):
ATTTTATTTT
Found at i:817996 original size:3 final size:3
Alignment explanation
Indices: 817988--818025 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
817978 ATCTGTTTGG
817988 TCT TCT TCT TCT TCT TCT TCT TCGT T-T TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TC
818026 ACACTAGGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 29 0.88
4 2 0.06
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:827505 original size:30 final size:31
Alignment explanation
Indices: 827452--827519 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
827442 TTTTTTTAAT
*
827452 ATTCTAATCTCATCCTCAAACTATGGCTCTC
1 ATTCTAATCTCATCCTCAAACTATGACTCTC
*
827483 ATTCTAATTTCATCCT-AAACTATGACTCTC
1 ATTCTAATCTCATCCTCAAACTATGACTCTC
*
827513 TTTCTAA
1 ATTCTAA
827520 ATTAGTCCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 19 0.56
31 15 0.44
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (31 bp):
ATTCTAATCTCATCCTCAAACTATGACTCTC
Found at i:829535 original size:45 final size:43
Alignment explanation
Indices: 829486--829622 Score: 127
Period size: 43 Copynumber: 3.1 Consensus size: 43
829476 TGAGAACAAA
* *
829486 AAACGCCGCAAAAGGTCGAGAT-CTATATCTGCGTTTTTTTGGA-AC
1 AAACGCCGCAAAAGGT-GAGATACT-TAGCGGCG--TTTTTGGACAC
* * *
829531 AAACGCCTCAAAAGGTTAGATAGTTAGCGGCGTTTTTGGACAC
1 AAACGCCGCAAAAGGTGAGATACTTAGCGGCGTTTTTGGACAC
* * * *
829574 AAACGCCGCAAAAGATCAGATA-TCTAGCGGCGTTTTTGAATAC
1 AAACGCCGCAAAAGGTGAGATACT-TAGCGGCGTTTTTGGACAC
829617 AAACGC
1 AAACGC
829623 TGCTAATTAC
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
42 9 0.11
43 44 0.56
44 10 0.13
45 16 0.20
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTGAGATACTTAGCGGCGTTTTTGGACAC
Found at i:829586 original size:43 final size:42
Alignment explanation
Indices: 829521--829622 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 42
829511 TATCTGCGTT
* * *
829521 TTTTTGGAACAAACGCCTCAAAAGGTTAGATAGT-TAGCGGCG
1 TTTTTGGAACAAACGCCGCAAAAGATCAGATA-TCTAGCGGCG
829563 TTTTTGGACACAAACGCCGCAAAAGATCAGATATCTAGCGGCG
1 TTTTTGGA-ACAAACGCCGCAAAAGATCAGATATCTAGCGGCG
*
829606 TTTTTGAATACAAACGC
1 TTTTTGGA-ACAAACGC
829623 TGCTAATTAC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
42 9 0.17
43 44 0.83
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (42 bp):
TTTTTGGAACAAACGCCGCAAAAGATCAGATATCTAGCGGCG
Found at i:829755 original size:18 final size:19
Alignment explanation
Indices: 829720--829756 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
829710 CTTTATATAA
*
829720 TTAACAACAACCATAAATT
1 TTAACAACAACAATAAATT
829739 TTAACAACAA-AATAAATT
1 TTAACAACAACAATAAATT
829757 AAAATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (19 bp):
TTAACAACAACAATAAATT
Found at i:832069 original size:4 final size:4
Alignment explanation
Indices: 832060--836026 Score: 6782
Period size: 4 Copynumber: 998.2 Consensus size: 4
832050 CTCTGCATAC
** * *
832060 ATGT ATGT ATGT ATGT ATGT ATGT ATAC ATGT ATGC ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
832108 AGGT ATAT ATGT AGGT ATGT ATGT AGGT AGGC ATGT ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * * * *
832156 AGGT AGGC ATGT ATGT AGGC ATGT AGGT AGGC ATGT ATGT AGGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * * *
832204 ATGT AGGC ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATAT AGGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * * *
832252 ATGT ATGT AGGA ATGT ATGT AGGA ATGT ATGT AGGC ATGT TTGT AGGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
832300 ATAT ATGT AGGC ATGT ATGT AGGC ATGT ATGT ATGT AGGC ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
832348 ATGT ATGT AGGC ATGT ATGT AGGC ATGT ATGT AGGC ATGT ATGT AGGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * * *
832396 ATGT AGGC ATGT ATGT AGGC ATGT ATGT AGGC ATGT ATGT AGGC ATAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
832444 ATGT AGGC ATGT ATGT AGGC ATGT ATGT ATGT ATGC ATGT ATAT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* **
832492 ATGT ATGT ATGT ATGT ATAT ACAT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
832540 ATAT ATAT ATGT AGGC ATGT ATGT AGGA ATGT ATGT ATGT ATGT AGGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
832588 ATGT ATGT AGGC ATGT ATGT AGGC ATGT ATGT ATGC ATGT ATGT AGGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
832636 ATGT TTGT AGGC ATGT ATGT ATGT ATG- AGGT AGGC ATGT ATGT AGGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
832683 ATGT ATAT AGGC ATGT ATGT AGGC ATAT ATGT AGGC ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
832731 ATGT ATGT ATAT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
832779 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
832827 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
832875 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
832923 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
832971 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
833018 ATGT ATGT ATGT ATGT ATAT ATGT ATG- -TGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833064 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833112 ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833158 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833206 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833254 ATGT ATGT ATGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833301 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833349 ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833395 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833443 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833491 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833539 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833587 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833635 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833683 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833731 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833779 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833827 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833875 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833921 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
833969 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834017 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834063 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834111 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834157 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834205 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834253 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834301 ATGT ATGT ATGT AGTGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT A-TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834350 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834396 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834444 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834490 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834538 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834586 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834634 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834682 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834730 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834778 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834826 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834874 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
834922 ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGG ATGT ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
834967 -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835014 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835062 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835110 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835157 -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835204 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835251 -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835298 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835346 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835394 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835442 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835490 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835538 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835586 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835634 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835682 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835730 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835778 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835826 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835874 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835922 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
835970 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
836018 ATGT ATGT A
1 ATGT ATGT A
836027 CCTCCTCCAT
Statistics
Matches: 3737, Mismatches: 198, Indels: 56
0.94 0.05 0.01
Matches are distributed among these distances:
2 24 0.01
3 8 0.00
4 3701 0.99
5 4 0.00
ACGTcount: A:0.25, C:0.01, G:0.26, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:838018 original size:42 final size:42
Alignment explanation
Indices: 837874--838018 Score: 170
Period size: 42 Copynumber: 3.5 Consensus size: 42
837864 AGTATCACGC
* *
837874 TACTTTAGTGGCGTTTTTAAGTAAAAACGCCGCTAAATACTCG
1 TACTTTAGTGGCGTTTTTAAG-ACAAACGCCGCTAAAGACTCG
* * * * * *
837917 TACTTTAGAGGCGTTTTTTAA-ACAAACACCGTTATAGAGTAG
1 TACTTTAGTGGCG-TTTTTAAGACAAACGCCGCTAAAGACTCG
837959 TACTTTAGTGGCG-TTTTAAGCACAAACGCCGCTAAAGACTCG
1 TACTTTAGTGGCGTTTTTAAG-ACAAACGCCGCTAAAGACTCG
838001 TA-TTTAGTGGCGTTTTTA
1 TACTTTAGTGGCGTTTTTA
838019 TATAAACGTT
Statistics
Matches: 84, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
40 6 0.07
41 10 0.12
42 49 0.58
43 12 0.14
44 7 0.08
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (42 bp):
TACTTTAGTGGCGTTTTTAAGACAAACGCCGCTAAAGACTCG
Found at i:838048 original size:41 final size:43
Alignment explanation
Indices: 837874--838056 Score: 139
Period size: 42 Copynumber: 4.4 Consensus size: 43
837864 AGTATCACGC
* * * * *
837874 TACTTTAGTGGCGTTTTTAAGTAAAAACGCCGCTAA-ATACTCG
1 TACTTTAGTGGCG-TTTTAAGCACAAACGCCGCTAATAGAGTAG
* * *
837917 TACTTTAGAGGCGTTTTTTAA--ACAAACACCG-TTATAGAGTAG
1 TACTTTAGTGGCG--TTTTAAGCACAAACGCCGCTAATAGAGTAG
* *
837959 TACTTTAGTGGCGTTTTAAGCACAAACGCCGCTAA-AGACTCG
1 TACTTTAGTGGCGTTTTAAGCACAAACGCCGCTAATAGAGTAG
* * * **
838001 TA-TTTAGTGGCGTTTTTA-TATAAACGTTGC-AATAGAGTAG
1 TACTTTAGTGGCGTTTTAAGCACAAACGCCGCTAATAGAGTAG
*
838041 TACTTTAGTGGTGTTT
1 TACTTTAGTGGCGTTT
838057 GTGCTTAAAA
Statistics
Matches: 113, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
39 2 0.02
40 21 0.19
41 29 0.26
42 40 0.35
43 14 0.12
44 7 0.06
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (43 bp):
TACTTTAGTGGCGTTTTAAGCACAAACGCCGCTAATAGAGTAG
Found at i:838068 original size:82 final size:80
Alignment explanation
Indices: 837874--838100 Score: 222
Period size: 82 Copynumber: 2.7 Consensus size: 80
837864 AGTATCACGC
* * *
837874 TACTTTAGTGGCGTTTTTAAGTAAAAACGCCGCTAAATACTCGTACTTTAGAGGCGTTTTTTAAA
1 TACTTTAGTGGCG-TTTT-AG-CAAAACGCCGCTAAAGACTCGTA-TTTAGTGGCG-TTTTTAAA
**
837939 CAAACACCGTTATAGAGTAG
61 CAAACACCGCAATAGAGTAG
* *
837959 TACTTTAGTGGCGTTTTAAGCACAAACGCCGCTAAAGACTCGTATTTAGTGGCGTTTTTATATAA
1 TACTTTAGTGGCGTTTT-AGCA-AAACGCCGCTAAAGACTCGTATTTAGTGGCGTTTTTAAACAA
***
838024 ACGTTGCAATAGAGTAG
64 ACACCGCAATAGAGTAG
* * **
838041 TACTTTAGTGGTGTTTGT-GCTTAAAACGCCTCTAAAGTACGAGTATTTAGTGGCGTTTTT
1 TACTTTAGTGGCGTTT-TAGC--AAAACGCCGCTAAAG-ACTCGTATTTAGTGGCGTTTTT
838101 GCTTAAAATG
Statistics
Matches: 123, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
81 2 0.02
82 49 0.40
83 32 0.26
84 27 0.22
85 13 0.11
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.35
Consensus pattern (80 bp):
TACTTTAGTGGCGTTTTAGCAAAACGCCGCTAAAGACTCGTATTTAGTGGCGTTTTTAAACAAAC
ACCGCAATAGAGTAG
Found at i:838090 original size:42 final size:42
Alignment explanation
Indices: 838039--838204 Score: 183
Period size: 42 Copynumber: 4.0 Consensus size: 42
838029 GCAATAGAGT
* * * * *
838039 AGTACTTTAGTGGTGTTTGTGCTTAAAACGCCTCTAAAGTACG
1 AGTA-TTTAGCGGCGTTTGTACTTAAAATGCCACTAAAGTACG
* * * *
838082 AGTATTTAGTGGCGTTTTTGCTTAAAATGCCACTAAAGTACT
1 AGTATTTAGCGGCGTTTGTACTTAAAATGCCACTAAAGTACG
* * * *
838124 AGTCTTTAGCGGCGTTTGTAC-AAAAATGCCACGAAAGTATG
1 AGTATTTAGCGGCGTTTGTACTTAAAATGCCACTAAAGTACG
*
838165 AGT-TTTAGCGGCGTTTATACTTAAAATGCCACTAAAGTAC
1 AGTATTTAGCGGCGTTTGTACTTAAAATGCCACTAAAGTAC
838205 TACTCTATTG
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
40 16 0.15
41 35 0.33
42 50 0.48
43 4 0.04
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (42 bp):
AGTATTTAGCGGCGTTTGTACTTAAAATGCCACTAAAGTACG
Found at i:838162 original size:41 final size:41
Alignment explanation
Indices: 838063--838206 Score: 157
Period size: 41 Copynumber: 3.5 Consensus size: 41
838053 GTTTGTGCTT
* * * * * * *
838063 AAAACGCCTCTAAAGTACGAGTATTTAGTGGCGTTTTTGCTT
1 AAAATGCCACTAAAGTACTAGT-TTTAGCGGCGTTTATACTA
*
838105 AAAATGCCACTAAAGTACTAGTCTTTAGCGGCGTTTGTAC-A
1 AAAATGCCACTAAAGTACTAGT-TTTAGCGGCGTTTATACTA
* *
838146 AAAATGCCACGAAAGTA-TGAGTTTTAGCGGCGTTTATACTT
1 AAAATGCCACTAAAGTACT-AGTTTTAGCGGCGTTTATACTA
838187 AAAATGCCACTAAAGTACTA
1 AAAATGCCACTAAAGTACTA
838207 CTCTATTGCG
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
40 17 0.20
41 36 0.41
42 34 0.39
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (41 bp):
AAAATGCCACTAAAGTACTAGTTTTAGCGGCGTTTATACTA
Found at i:839096 original size:44 final size:44
Alignment explanation
Indices: 839033--839120 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
839023 TTAGAGATTT
839033 TGCCGGAAAAACCTGTCACCTTCGTAAAGACACACCCTACAAAC
1 TGCCGGAAAAACCTGTCACCTTCGTAAAGACACACCCTACAAAC
*
839077 TGCCGGAAAAACCTGTCACCTTCGTAAGGACACACCCTACAAAC
1 TGCCGGAAAAACCTGTCACCTTCGTAAAGACACACCCTACAAAC
839121 CGCGTCTTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.35, C:0.34, G:0.15, T:0.16
Consensus pattern (44 bp):
TGCCGGAAAAACCTGTCACCTTCGTAAAGACACACCCTACAAAC
Found at i:841835 original size:15 final size:15
Alignment explanation
Indices: 841815--841843 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
841805 GATCAAGGAA
841815 ACAGATGAAGAAGAC
1 ACAGATGAAGAAGAC
841830 ACAGATGAAGAAGA
1 ACAGATGAAGAAGA
841844 AATAGAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.28, T:0.07
Consensus pattern (15 bp):
ACAGATGAAGAAGAC
Found at i:842305 original size:21 final size:21
Alignment explanation
Indices: 842281--842330 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
842271 GGCTAGGGGG
842281 CATAAGTTGCACAGCCGGTGC
1 CATAAGTTGCACAGCCGGTGC
842302 CATAAGTTGCACAGCCGGTGC
1 CATAAGTTGCACAGCCGGTGC
842323 CATAAGTT
1 CATAAGTT
842331 TCAATGGCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (21 bp):
CATAAGTTGCACAGCCGGTGC
Found at i:850999 original size:10 final size:10
Alignment explanation
Indices: 850969--851190 Score: 128
Period size: 10 Copynumber: 22.2 Consensus size: 10
850959 GTAATTGATG
*
850969 CATATGCATA
1 CATATACATA
850979 CATATACACATA
1 CATAT--ACATA
* * *
850991 TACATACATG
1 CATATACATA
851001 CATATACATA
1 CATATACATA
* *
851011 TATATACATG
1 CATATACATA
851021 CATATACATA
1 CATATACATA
* *
851031 TATATACATG
1 CATATACATA
*
851041 CATATACACACA
1 CATAT--ACATA
*
851053 CATATATATA
1 CATATACATA
*
851063 TATATACATA
1 CATATACATA
* *
851073 TATATAGAT-
1 CATATACATA
** *
851082 TGTGTA-ATA
1 CATATACATA
851091 CATATAC--A
1 CATATACATA
*
851099 CATATACATG
1 CATATACATA
851109 CATATACATA
1 CATATACATA
* * *
851119 TATACATATA
1 CATATACATA
851129 CATATACATA
1 CATATACATA
* *
851139 TATATACATG
1 CATATACATA
*
851149 CATATATATA
1 CATATACATA
* * *
851159 TATACATATA
1 CATATACATA
*
851169 TATATACATA
1 CATATACATA
*
851179 TATATACATA
1 CATATACATA
851189 CA
1 CA
851191 CTCACACATA
Statistics
Matches: 160, Mismatches: 44, Indels: 16
0.73 0.20 0.07
Matches are distributed among these distances:
8 10 0.06
9 7 0.04
10 128 0.80
12 15 0.09
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.34
Consensus pattern (10 bp):
CATATACATA
Found at i:851011 original size:20 final size:20
Alignment explanation
Indices: 850986--851206 Score: 181
Period size: 20 Copynumber: 10.6 Consensus size: 20
850976 ATACATATAC
*
850986 ACATATACATACATGCATAT
1 ACATATATATACATGCATAT
851006 ACATATATATACATGCATAT
1 ACATATATATACATGCATAT
851026 ACATATATATACATGCATAT
1 ACATATATATACATGCATAT
* * * **
851046 ACACACACATATATATATATAT
1 --ACATATATATACATGCATAT
* **
851068 ACATATATATAGATTGTGTAAT
1 ACATATATATACA-TGCAT-AT
851090 ACATATACACATATACATGCATAT
1 ACATAT----ATATACATGCATAT
* * *
851114 ACATATATACATATACATAT
1 ACATATATATACATGCATAT
851134 ACATATATATACATGCATAT
1 ACATATATATACATGCATAT
* * * **
851154 ATATATATACATATATATAT
1 ACATATATATACATGCATAT
* *
851174 ACATATATATACATACACTCAC
1 ACATATATATACATGCA-T-AT
851196 ACATATATATA
1 ACATATATATA
851207 GATTGTGTAA
Statistics
Matches: 161, Mismatches: 30, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
20 105 0.65
21 4 0.02
22 35 0.22
24 8 0.05
25 3 0.02
26 6 0.04
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (20 bp):
ACATATATATACATGCATAT
Found at i:851204 original size:2 final size:2
Alignment explanation
Indices: 851054--851184 Score: 77
Period size: 2 Copynumber: 66.5 Consensus size: 2
851044 ATACACACAC
* * * * *
851054 AT AT AT AT AT AT AT AC AT AT AT AT AG AT -T GT GT A- AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * ** * * * *
851094 AT AC AC AT AT AC AT GC AT AT AC AT AT AT AC AT AT AC AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* ** * *
851136 AT AT AT AT AC AT GC AT AT AT AT AT AT AC AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
851178 AT AT AT A
1 AT AT AT A
851185 CATACACTCA
Statistics
Matches: 94, Mismatches: 33, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
1 2 0.02
2 92 0.98
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (2 bp):
AT
Found at i:854333 original size:3 final size:3
Alignment explanation
Indices: 854318--854402 Score: 71
Period size: 3 Copynumber: 28.0 Consensus size: 3
854308 ACCTTGGGTC
* * * * * *
854318 CTT CTT ATT CTT CTT CTC CTC CTC CTC CTT CTT CTT CTC CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* * * *
854366 CTT CTC CTC CTT CTT CTT CTC CTC CTT CTT CTAT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT-T CTT
854403 TCACTGTCGA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
3 68 0.96
4 3 0.04
ACGTcount: A:0.02, C:0.42, G:0.00, T:0.55
Consensus pattern (3 bp):
CTT
Found at i:854348 original size:18 final size:18
Alignment explanation
Indices: 854325--854402 Score: 99
Period size: 18 Copynumber: 4.4 Consensus size: 18
854315 GTCCTTCTTA
854325 TTCTTCTTCTCCTCCTCC
1 TTCTTCTTCTCCTCCTCC
*
854343 TCCTTCTTCT--T-CTCC
1 TTCTTCTTCTCCTCCTCC
*
854358 TTCTTCTTCTTCTCCTCC
1 TTCTTCTTCTCCTCCTCC
*
854376 TTCTTCTTCTCCTCCTTC
1 TTCTTCTTCTCCTCCTCC
854394 TTCTATCTT
1 TTCT-TCTT
854403 TCACTGTCGA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
15 13 0.25
16 1 0.02
17 1 0.02
18 33 0.63
19 4 0.08
ACGTcount: A:0.01, C:0.44, G:0.00, T:0.55
Consensus pattern (18 bp):
TTCTTCTTCTCCTCCTCC
Found at i:854357 original size:15 final size:15
Alignment explanation
Indices: 854339--854397 Score: 109
Period size: 15 Copynumber: 3.9 Consensus size: 15
854329 TCTTCTCCTC
854339 CTCCTCCTTCTTCTT
1 CTCCTCCTTCTTCTT
*
854354 CTCCTTCTTCTTCTT
1 CTCCTCCTTCTTCTT
854369 CTCCTCCTTCTTCTT
1 CTCCTCCTTCTTCTT
854384 CTCCTCCTTCTTCT
1 CTCCTCCTTCTTCT
854398 ATCTTTCACT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (15 bp):
CTCCTCCTTCTTCTT
Found at i:854641 original size:22 final size:22
Alignment explanation
Indices: 854615--854660 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
854605 AAAGGGGAAA
854615 GGCGAAAGGAGTGAATC-AAGCC
1 GGCGAAAGGAGTGAA-CGAAGCC
*
854637 GGCGAAGGGAGTGAACGAAGCC
1 GGCGAAAGGAGTGAACGAAGCC
854659 GG
1 GG
854661 TTTTGGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.33, C:0.17, G:0.43, T:0.07
Consensus pattern (22 bp):
GGCGAAAGGAGTGAACGAAGCC
Found at i:861609 original size:14 final size:14
Alignment explanation
Indices: 861590--861620 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
861580 CGGTCGATAA
861590 TATATTCGTTCATT
1 TATATTCGTTCATT
*
861604 TATATTCGTTCGTT
1 TATATTCGTTCATT
861618 TAT
1 TAT
861621 GTTCATTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.10, T:0.58
Consensus pattern (14 bp):
TATATTCGTTCATT
Found at i:861632 original size:14 final size:14
Alignment explanation
Indices: 861615--861642 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
861605 ATATTCGTTC
861615 GTTTATGTTCATTT
1 GTTTATGTTCATTT
861629 GTTTATGTTCATTT
1 GTTTATGTTCATTT
861643 ATGTTTAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.64
Consensus pattern (14 bp):
GTTTATGTTCATTT
Found at i:861903 original size:23 final size:24
Alignment explanation
Indices: 861874--861928 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
861864 TTCACGGTCG
* * *
861874 TTCGTTTACGTTCGTTTA-TTGTA
1 TTCGTTTACATCCGTTCATTTGTA
861897 TTCGTTTACATCCGTTCATTTGTA
1 TTCGTTTACATCCGTTCATTTGTA
861921 TTCGTTTA
1 TTCGTTTA
861929 TCATTTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.15, C:0.16, G:0.15, T:0.55
Consensus pattern (24 bp):
TTCGTTTACATCCGTTCATTTGTA
Found at i:872463 original size:25 final size:25
Alignment explanation
Indices: 872429--872480 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
872419 AGGTATTTTA
872429 TTTTCGAGATAATATAATACCTTTG
1 TTTTCGAGATAATATAATACCTTTG
* *
872454 TTTTCTAGATAATATGATACCTTTG
1 TTTTCGAGATAATATAATACCTTTG
872479 TT
1 TT
872481 GGCGCAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (25 bp):
TTTTCGAGATAATATAATACCTTTG
Found at i:873675 original size:60 final size:59
Alignment explanation
Indices: 873521--873675 Score: 168
Period size: 59 Copynumber: 2.6 Consensus size: 59
873511 ATGAAAGATC
* * * * **
873521 TAAAATTTTAGGGACCAATTTATAATGAGATTCATAGTTTCAGGATGAAAATGGAATGT
1 TAAAAATTTAGAGACCAATTTAAAATGAGATTCATAGTTTAAGGATGAAAATAAAATGT
* * * * *
873580 TAAAAATTTA-AGGACTAATTTAGAATGATATTCATAGTTTAAGGATGAAATTAAAATATT
1 TAAAAATTTAGA-GACCAATTTAAAATGAGATTCATAGTTTAAGGATGAAAATAAAAT-GT
* *
873640 TAAAAGTTTAGAGACCAATTTAAAATGAGAGTCATA
1 TAAAAATTTAGAGACCAATTTAAAATGAGATTCATA
873676 ATTAGGAGAC
Statistics
Matches: 78, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
59 47 0.60
60 30 0.38
61 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.34
Consensus pattern (59 bp):
TAAAAATTTAGAGACCAATTTAAAATGAGATTCATAGTTTAAGGATGAAAATAAAATGT
Found at i:879812 original size:31 final size:31
Alignment explanation
Indices: 879774--879989 Score: 398
Period size: 31 Copynumber: 7.0 Consensus size: 31
879764 GGGTCGAGGG
879774 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
879805 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
879836 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
879867 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
879898 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
879929 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
879960 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
879990 GTCCTTCGGG
Statistics
Matches: 182, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
31 181 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Done.