Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 258 of 310
Found at i:85054601 original size:34 final size:34
Alignment explanation
Indices: 85054527--85054639 Score: 136
Period size: 34 Copynumber: 3.3 Consensus size: 34
85054517 AAATGTATAT
* * *
85054527 ATATATATTCACCTTCGGTTATATCAAACCATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
* *
85054561 ATATATATATTCACTTTCGATTATACCAAGCTATAC
1 --ATATATATTCACCTTCGATTATACCAAGCCATAC
** *
85054597 ATATATAAACACCTTCGATTATGCCAAGCCATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
85054631 ATATATATT
1 ATATATATT
85054640 TATGTACTTC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 36 0.55
36 29 0.45
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.35
Consensus pattern (34 bp):
ATATATATTCACCTTCGATTATACCAAGCCATAC
Found at i:85057267 original size:93 final size:93
Alignment explanation
Indices: 85057155--85057326 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
85057145 CGCCCATAAG
* *
85057155 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
85057220 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
85057248 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
85057313 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
85057327 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:85057323 original size:46 final size:46
Alignment explanation
Indices: 85057148--85057323 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
85057138 TGTAACCCGC
* * *
85057148 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
85057194 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
85057244 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
85057287 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
85057324 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:85063582 original size:28 final size:28
Alignment explanation
Indices: 85063546--85063647 Score: 98
Period size: 28 Copynumber: 3.5 Consensus size: 28
85063536 TAAAGATAAA
85063546 CTCGCACACTTAGTGCTCATTAACCGAT
1 CTCGCACACTTAGTGCTCATTAACCGAT
* * * * *
85063574 CTCGTACACTTAGTACTTAGT-ACCAATTT
1 CTCGCACACTTAGTGCTCATTAACCGA--T
85063603 CATTTCGCACACTTAGTGCTCATTAACCGAT
1 C---TCGCACACTTAGTGCTCATTAACCGAT
*
85063634 CTCGTACACTTAGT
1 CTCGCACACTTAGT
85063648 ACTTAGTACC
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
27 4 0.07
28 29 0.51
29 2 0.04
31 2 0.04
32 16 0.28
33 4 0.07
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.33
Consensus pattern (28 bp):
CTCGCACACTTAGTGCTCATTAACCGAT
Found at i:85063617 original size:32 final size:32
Alignment explanation
Indices: 85063579--85063679 Score: 113
Period size: 32 Copynumber: 3.3 Consensus size: 32
85063569 CCGATCTCGT
85063579 ACACTTAGTACTTAGTACCAATTTCATTTCGC
1 ACACTTAGTACTTAGTACCAATTTCATTTCGC
* * * * *
85063611 ACACTTAGTGCTCATTAACCGA--TC---TCGT
1 ACACTTAGTACTTAGT-ACCAATTTCATTTCGC
85063639 ACACTTAGTACTTAGTACCAATTTCATTTCGC
1 ACACTTAGTACTTAGTACCAATTTCATTTCGC
85063671 ACACTTAGT
1 ACACTTAGT
85063680 GCTCATCTCA
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
27 4 0.08
28 16 0.30
29 2 0.04
31 2 0.04
32 25 0.47
33 4 0.08
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.36
Consensus pattern (32 bp):
ACACTTAGTACTTAGTACCAATTTCATTTCGC
Found at i:85063640 original size:60 final size:60
Alignment explanation
Indices: 85063547--85063685 Score: 278
Period size: 60 Copynumber: 2.3 Consensus size: 60
85063537 AAAGATAAAC
85063547 TCGCACACTTAGTGCTCATTAACCGATCTCGTACACTTAGTACTTAGTACCAATTTCATT
1 TCGCACACTTAGTGCTCATTAACCGATCTCGTACACTTAGTACTTAGTACCAATTTCATT
85063607 TCGCACACTTAGTGCTCATTAACCGATCTCGTACACTTAGTACTTAGTACCAATTTCATT
1 TCGCACACTTAGTGCTCATTAACCGATCTCGTACACTTAGTACTTAGTACCAATTTCATT
85063667 TCGCACACTTAGTGCTCAT
1 TCGCACACTTAGTGCTCAT
85063686 CTCAAGCTTA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 79 1.00
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (60 bp):
TCGCACACTTAGTGCTCATTAACCGATCTCGTACACTTAGTACTTAGTACCAATTTCATT
Found at i:85063799 original size:36 final size:36
Alignment explanation
Indices: 85063758--85063871 Score: 160
Period size: 36 Copynumber: 3.2 Consensus size: 36
85063748 ATAAATGAAT
* * *
85063758 ATATATATATTCACCTTCGGTTATATCAAACTATAC
1 ATATATATATTCACCTTCGATTATACCAAGCTATAC
*
85063794 ATATATATATTCACTTTCGATTATACCAAGCTATAC
1 ATATATATATTCACCTTCGATTATACCAAGCTATAC
* *
85063830 ATATATA-A-TCACCTTCGATTATGCCAAGCCATAC
1 ATATATATATTCACCTTCGATTATACCAAGCTATAC
85063864 ATATATAT
1 ATATATAT
85063872 TTATGTACTT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
34 30 0.43
35 1 0.01
36 39 0.56
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (36 bp):
ATATATATATTCACCTTCGATTATACCAAGCTATAC
Found at i:85063834 original size:34 final size:34
Alignment explanation
Indices: 85063760--85063872 Score: 145
Period size: 34 Copynumber: 3.3 Consensus size: 34
85063750 AAATGAATAT
* * *
85063760 ATATATATTCACCTTCGGTTATATCAAACTATAC
1 ATATATATTCACCTTCGATTATACCAAGCTATAC
*
85063794 ATATATATATTCACTTTCGATTATACCAAGCTATAC
1 --ATATATATTCACCTTCGATTATACCAAGCTATAC
* * *
85063830 ATATATAATCACCTTCGATTATGCCAAGCCATAC
1 ATATATATTCACCTTCGATTATACCAAGCTATAC
85063864 ATATATATT
1 ATATATATT
85063873 TATGTACTTC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
34 38 0.56
36 30 0.44
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.37
Consensus pattern (34 bp):
ATATATATTCACCTTCGATTATACCAAGCTATAC
Found at i:85065728 original size:43 final size:43
Alignment explanation
Indices: 85065516--85065717 Score: 271
Period size: 43 Copynumber: 4.7 Consensus size: 43
85065506 ATATCGTACA
* * *
85065516 ATGCCATCGTCCCAGACATGGTCTTACATGCAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* * **
85065559 ATGCC-ACTGTCCTAGACGGGGTCTTACAAATAATCACATATCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCACATATCG
* * *
85065602 ATGCCAACGTCCCAAACGTGGTCTTATAGGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* *
85065645 ATGCCAACGTCCCAGACATGGTTTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
*
85065688 ATGCCAACGTCCTAGACGTGGTCTTACATG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG
85065718 CACACACATA
Statistics
Matches: 136, Mismatches: 21, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 133 0.98
44 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:85066489 original size:28 final size:26
Alignment explanation
Indices: 85066432--85066483 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
85066422 CAATTATTAT
*
85066432 ATTAACATTATTTAATATATGAAAAA
1 ATTAACATTATTTAAAATATGAAAAA
*
85066458 ATTAACCATTGTTATAAAATATGAAA
1 ATTAA-CATTATT-TAAAATATGAAA
85066484 CCATTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 6 0.27
28 11 0.50
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (26 bp):
ATTAACATTATTTAAAATATGAAAAA
Found at i:85068686 original size:26 final size:28
Alignment explanation
Indices: 85068629--85068707 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 28
85068619 TTTGAAAGTC
* *
85068629 AAGGGTATTTCTGTAAC-TTTCCAAATT
1 AAGGGTATTTCGGTAACTTTTCAAAATT
85068656 AAGGGTATTTCGGT-ACTTTTCAAAATT
1 AAGGGTATTTCGGTAACTTTTCAAAATT
* * *
85068683 AGGGGTATTTTGGTAACTTTACAAA
1 AAGGGTATTTCGGTAACTTTTCAAA
85068708 TAGCGGATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.04
27 34 0.76
28 9 0.20
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.39
Consensus pattern (28 bp):
AAGGGTATTTCGGTAACTTTTCAAAATT
Found at i:85068745 original size:27 final size:27
Alignment explanation
Indices: 85068715--85068787 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
85068705 AAATAGCGGA
*
85068715 TATTTCGATAATTTTACAAGTCGAAGG
1 TATTTCGGTAATTTTACAAGTCGAAGG
* *
85068742 TATTTCGGTAATTTTACAGGTCGAGGG
1 TATTTCGGTAATTTTACAAGTCGAAGG
*
85068769 TATTTCGGTAATTTCACAA
1 TATTTCGGTAATTTTACAA
85068788 ATCAGGNAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (27 bp):
TATTTCGGTAATTTTACAAGTCGAAGG
Found at i:85071878 original size:33 final size:33
Alignment explanation
Indices: 85071835--85072061 Score: 233
Period size: 33 Copynumber: 6.9 Consensus size: 33
85071825 TCTTTCCGAG
* * ** *
85071835 TGGTACACACAAAGTATTCCTTTCCTTTTAAAA
1 TGGTATACACAAAGTATACCTAACCTTTTCAAA
* * *
85071868 TGGTATACACAAAGTATACCTAACCTCTCCAAG
1 TGGTATACACAAAGTATACCTAACCTTTTCAAA
* * * **
85071901 T-GTACACATAAAGTGTAAATAACCTTTTCAAA
1 TGGTATACACAAAGTATACCTAACCTTTTCAAA
* * *
85071933 TGGTATGCACAAAGTATACCTAACCTTTCCAAG
1 TGGTATACACAAAGTATACCTAACCTTTTCAAA
* * *
85071966 T-GTACACACAAAGTGTACATAACCTTTTCAAA
1 TGGTATACACAAAGTATACCTAACCTTTTCAAA
* *
85071998 TGGTATACACAAAGTATACCTAATCTTTCCAAA
1 TGGTATACACAAAGTATACCTAACCTTTTCAAA
**
85072031 TGGTATACACAAAGTATACCTTTCCTTTTCA
1 TGGTATACACAAAGTATACCTAACCTTTTCA
85072062 CATTCAATTG
Statistics
Matches: 153, Mismatches: 39, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
32 50 0.33
33 103 0.67
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.31
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTAACCTTTTCAAA
Found at i:85071906 original size:65 final size:65
Alignment explanation
Indices: 85071826--85072049 Score: 295
Period size: 65 Copynumber: 3.4 Consensus size: 65
85071816 GTGTACGTTT
* * * ** *
85071826 CTTTCCGAGTGGTACACACAAAGTATTCCTTTCCTTTTAAAATGGTATACACAAAGTATACCTAA
1 CTTTCCAAGT-GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAA
85071891 C
65 C
* * * * *
85071892 CTCTCCAAGTGTACACATAAAGTGTAAATAACCTTTTCAAATGGTATGCACAAAGTATACCTAAC
1 CTTTCCAAGTGTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAC
* *
85071957 CTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAT
1 CTTTCCAAGTGTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAC
* *
85072022 CTTTCCAAATGGTATACACAAAGTATAC
1 CTTTCCAAGT-GTACACACAAAGTATAC
85072050 CTTTCCTTTT
Statistics
Matches: 138, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
65 115 0.83
66 23 0.17
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (65 bp):
CTTTCCAAGTGTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAC
Found at i:85072058 original size:98 final size:98
Alignment explanation
Indices: 85071825--85072058 Score: 245
Period size: 98 Copynumber: 2.4 Consensus size: 98
85071815 GGTGTACGTT
* * * * * * *
85071825 TCTTTCCGAGTGGTACACACAAAGTATTCCTTTCCTTTTAAAATGGTATACACAAAGTATACCTA
1 TCTTTCCAAATGGTATACACAAAGTATACCTTTCCTTTCAAAATGGTACACACAAAGTATACATA
* * *
85071890 ACCTCTCCAAGTGTACACATAAAGTGTAAATAA
66 ACCTCTCCAAATGTACACACAAAGTATAAATAA
* * * ** * * *
85071923 CCTTTTCAAATGGTATGCACAAAGTATACCTAACCTTTCCAAGT-GTACACACAAAGTGTACATA
1 TCTTTCCAAATGGTATACACAAAGTATACCTTTCCTTTCAAAATGGTACACACAAAGTATACATA
* * * **
85071987 ACCTTTTCAAATGGTATACACAAAGTATACCTAA
66 ACCTCTCCAAAT-GTACACACAAAGTATAAATAA
85072021 TCTTTCCAAATGGTATACACAAAGTATACCTTTCCTTT
1 TCTTTCCAAATGGTATACACAAAGTATACCTTTCCTTT
85072059 TCACATTCAA
Statistics
Matches: 107, Mismatches: 28, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
97 26 0.24
98 81 0.76
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.31
Consensus pattern (98 bp):
TCTTTCCAAATGGTATACACAAAGTATACCTTTCCTTTCAAAATGGTACACACAAAGTATACATA
ACCTCTCCAAATGTACACACAAAGTATAAATAA
Found at i:85072096 original size:29 final size:29
Alignment explanation
Indices: 85072054--85072123 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
85072044 GTATACCTTT
* * *
85072054 CCTTTTCACATTCAATTGCTGAAGCTATC
1 CCTTTTCACATTCAATAGCCGAAACTATC
85072083 CCTTTTCACATTCAATAGCCGAAACTATC
1 CCTTTTCACATTCAATAGCCGAAACTATC
85072112 CCTTTTCACATT
1 CCTTTTCACATT
85072124 ATACATGCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.37
Consensus pattern (29 bp):
CCTTTTCACATTCAATAGCCGAAACTATC
Found at i:85080482 original size:27 final size:27
Alignment explanation
Indices: 85080398--85080484 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
85080388 ATTTCCATTA
* * * * *
85080398 TAAGATAATCCTAATAGACCTCCTATC
1 TAAGATCATCCTAATGGGCTTCCCATC
* * *
85080425 TAAGATCATCCTGACGGGCTT-CCATAT
1 TAAGATCATCCTAATGGGCTTCCCAT-C
85080452 TAAGATCATCCTAATGGGCTTCCCATC
1 TAAGATCATCCTAATGGGCTTCCCATC
85080479 TAAGAT
1 TAAGAT
85080485 TGTCCTGGCA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 3 0.06
27 40 0.85
28 4 0.09
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (27 bp):
TAAGATCATCCTAATGGGCTTCCCATC
Found at i:85081770 original size:15 final size:15
Alignment explanation
Indices: 85081750--85081782 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
85081740 GGGGTGGGTG
85081750 CAAGGCGAACGATTT
1 CAAGGCGAACGATTT
85081765 CAAGGCGAACGATTT
1 CAAGGCGAACGATTT
85081780 CAA
1 CAA
85081783 AGCCATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.18
Consensus pattern (15 bp):
CAAGGCGAACGATTT
Found at i:85082854 original size:70 final size:70
Alignment explanation
Indices: 85082732--85082873 Score: 266
Period size: 70 Copynumber: 2.0 Consensus size: 70
85082722 ATATTAAACT
85082732 AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTAGATTACTCACGCAAGCTATCTA
1 AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTAGATTACTCACGCAAGCTATCTA
85082797 ACTCA
66 ACTCA
* *
85082802 AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTGGATTGCTCACGCAAGCTATCTA
1 AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTAGATTACTCACGCAAGCTATCTA
85082867 ACTCA
66 ACTCA
85082872 AG
1 AG
85082874 TTTGCTCATA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (70 bp):
AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTAGATTACTCACGCAAGCTATCTA
ACTCA
Found at i:85083475 original size:17 final size:18
Alignment explanation
Indices: 85083432--85083475 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
85083422 TAACAATTAA
85083432 AATAAAAAATAATACAAT
1 AATAAAAAATAATACAAT
*
85083450 -ATAATAAAAT-ATACCAT
1 AATAA-AAAATAATACAAT
85083467 AATAAAAAA
1 AATAAAAAA
85083476 AGTAAGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAAAAAATAATACAAT
Found at i:85083476 original size:18 final size:18
Alignment explanation
Indices: 85083435--85083476 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
85083425 CAATTAAAAT
85083435 AAAAAATAATACAATATA
1 AAAAAATAATACAATATA
* *
85083453 ATAAAAT-ATACCATAATA
1 AAAAAATAATACAAT-ATA
85083471 AAAAAA
1 AAAAAA
85083477 GTAAGTTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAAATAATACAATATA
Found at i:85085174 original size:20 final size:18
Alignment explanation
Indices: 85085149--85085187 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
85085139 TATATGATAT
85085149 ATATTAAGTTAATAAAGTAA
1 ATATTAAG-TAATAAA-TAA
85085169 ATATTAAGTAATAAATAA
1 ATATTAAGTAATAAATAA
85085187 A
1 A
85085188 GAAAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
ATATTAAGTAATAAATAA
Found at i:85092747 original size:36 final size:36
Alignment explanation
Indices: 85092699--85092768 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
85092689 TCTTGTATTA
85092699 CCCTTAATATTAACCTTTAA-CCCATTATTGTTGAAAT
1 CCCTTAATATTAA--TTTAACCCCATTATTGTTGAAAT
*
85092736 CCCTTAA-ATTAATTTAAGCCCCATTTTTGTTGA
1 CCCTTAATATTAATTTAA-CCCCATTATTGTTGA
85092769 GATTTGAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 5 0.17
36 18 0.60
37 7 0.23
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.41
Consensus pattern (36 bp):
CCCTTAATATTAATTTAACCCCATTATTGTTGAAAT
Found at i:85096150 original size:20 final size:20
Alignment explanation
Indices: 85096136--85096195 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
85096126 AATTTATTTT
85096136 CTTACCATTCCATTTACTTA
1 CTTACCATTCCATTTACTTA
*
85096156 CTTTA-CATTTCATTTACTTA
1 C-TTACCATTCCATTTACTTA
* *
85096176 CTTTCCATTCCATTCACTTA
1 CTTACCATTCCATTTACTTA
85096196 GCATTAGCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.85
21 3 0.09
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.48
Consensus pattern (20 bp):
CTTACCATTCCATTTACTTA
Found at i:85098082 original size:16 final size:16
Alignment explanation
Indices: 85098044--85098082 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
85098034 ATGTATCAGT
* *
85098044 AAAAGCCGAAATGCTG
1 AAAAGCTGAAATGCCG
85098060 AAAAGCTGAAATGCCG
1 AAAAGCTGAAATGCCG
85098076 AAAAGCT
1 AAAAGCT
85098083 AAAAGTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (16 bp):
AAAAGCTGAAATGCCG
Found at i:85098352 original size:29 final size:28
Alignment explanation
Indices: 85098297--85098417 Score: 134
Period size: 29 Copynumber: 4.2 Consensus size: 28
85098287 ATAAGCATGA
* * *
85098297 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
85098325 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
85098354 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
** * *
85098383 ATACGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
85098411 AGATAAA
1 ATATAAA
85098418 GGCAAGTGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 30 0.38
29 48 0.62
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:85112711 original size:30 final size:30
Alignment explanation
Indices: 85112676--85112735 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
85112666 CAAGAAAATC
* *
85112676 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAAATAAAGAAACCCA
85112706 GAATAAAGAAATCCAAAATAAAGAAACCCA
1 GAATAAAGAAATCCAAAATAAAGAAACCCA
85112736 AGATACGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.17, G:0.13, T:0.10
Consensus pattern (30 bp):
GAATAAAGAAATCCAAAATAAAGAAACCCA
Found at i:85112736 original size:15 final size:15
Alignment explanation
Indices: 85112677--85112736 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
85112667 AAGAAAATCG
*
85112677 AATAAAGAAATCCAA
1 AATAAAGAAACCCAA
* * *
85112692 GATAGAGAAACCCAG
1 AATAAAGAAACCCAA
*
85112707 AATAAAGAAATCCAA
1 AATAAAGAAACCCAA
85112722 AATAAAGAAACCCAA
1 AATAAAGAAACCCAA
85112737 GATACGATAC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.62, C:0.17, G:0.12, T:0.10
Consensus pattern (15 bp):
AATAAAGAAACCCAA
Found at i:85121863 original size:42 final size:42
Alignment explanation
Indices: 85121811--85121973 Score: 272
Period size: 42 Copynumber: 3.9 Consensus size: 42
85121801 TTATCTAAAA
85121811 AAACACCGCTAAAGGTCATGACCTTTAGCGGCGCTTTCCCAC
1 AAACACCGCTAAAGGTCATGACCTTTAGCGGCGCTTTCCCAC
* * *
85121853 AAACATCGCTAAAAGTCATGACCTTTAGTGGCGCTTTCCCAC
1 AAACACCGCTAAAGGTCATGACCTTTAGCGGCGCTTTCCCAC
* *
85121895 AAACGCCGCTAAAGGTCATGACCTTTAGTGGCGCTTTCCCAC
1 AAACACCGCTAAAGGTCATGACCTTTAGCGGCGCTTTCCCAC
*
85121937 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTT
1 AAACACCGCTAAAGGTCATGACCTTTAGCGGCGCTTT
85121974 TCTTAAAAAT
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 114 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (42 bp):
AAACACCGCTAAAGGTCATGACCTTTAGCGGCGCTTTCCCAC
Found at i:85129509 original size:3 final size:3
Alignment explanation
Indices: 85129503--85129558 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
85129493 TTTTTCTCTT
85129503 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
85129551 TTA TTA TT
1 TTA TTA TT
85129559 TACTAAAATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:85130364 original size:8 final size:7
Alignment explanation
Indices: 85130340--85130498 Score: 68
Period size: 7 Copynumber: 21.7 Consensus size: 7
85130330 CTAATTTCCT
85130340 TAAACCC
1 TAAACCC
85130347 TAAACCC
1 TAAACCC
85130354 TAAACCCC
1 TAAA-CCC
85130362 T-AACCC
1 TAAACCC
* *
85130368 TTAACCT
1 TAAACCC
* **
85130375 TTAACTG
1 TAAACCC
*
85130382 TTAACCC
1 TAAACCC
***
85130389 ATGTCCCC
1 -TAAACCC
85130397 TAAGACCC
1 TAA-ACCC
*
85130405 ATACACACC
1 -TAAAC-CC
*
85130414 TAAATCC
1 TAAACCC
85130421 TAAACCC
1 TAAACCC
85130428 TAAACCC
1 TAAACCC
*
85130435 TATAACCTG
1 TA-AACC-C
85130444 TAAACCC
1 TAAACCC
* *
85130451 TTAACTC
1 TAAACCC
*
85130458 TTAACCC
1 TAAACCC
85130465 TTAAACCC
1 -TAAACCC
* *
85130473 TAAGCCA
1 TAAACCC
* *
85130480 TAAAACA
1 TAAACCC
85130487 TAAACCC
1 TAAACCC
85130494 TAAAC
1 TAAAC
85130499 TTCTACCCTT
Statistics
Matches: 116, Mismatches: 27, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
6 4 0.03
7 76 0.66
8 30 0.26
9 6 0.05
ACGTcount: A:0.38, C:0.36, G:0.03, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:85130447 original size:23 final size:22
Alignment explanation
Indices: 85130421--85130475 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
85130411 ACCTAAATCC
85130421 TAAACCCTAAACCCTATAA-CCT
1 TAAACCCTAAACCCT-TAACCCT
* *
85130443 GTAAACCCTTAACTCTTAACCCT
1 -TAAACCCTAAACCCTTAACCCT
85130466 TAAACCCTAA
1 TAAACCCTAA
85130476 GCCATAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.38, C:0.35, G:0.02, T:0.25
Consensus pattern (22 bp):
TAAACCCTAAACCCTTAACCCT
Found at i:85131081 original size:38 final size:37
Alignment explanation
Indices: 85130996--85131081 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 37
85130986 GGTTTAAGGT
* * *
85130996 TTTAGAGGTTATAGTTTAGTCTTTATGGTTTTTTAGGG
1 TTTAG-GGTTATAGATTAGTCTTTATGATTTTTGAGGG
* *
85131034 TTTAGGGGTTATAGATTAGTGTTTATGATTTTTGGGGGG
1 TTTA-GGGTTATAGATTAGTCTTTATGATTTTT-GAGGG
85131073 TTTAGGGTT
1 TTTAGGGTT
85131082 TTAGGAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 33 0.80
39 8 0.20
ACGTcount: A:0.17, C:0.01, G:0.31, T:0.50
Consensus pattern (37 bp):
TTTAGGGTTATAGATTAGTCTTTATGATTTTTGAGGG
Found at i:85131214 original size:41 final size:41
Alignment explanation
Indices: 85131098--85131268 Score: 179
Period size: 41 Copynumber: 4.2 Consensus size: 41
85131088 ATTATATGAC
* ** * *
85131098 TTTTAGCGGCATTTTGACCACAAACGCCATTATTGCTTTATT
1 TTTTAGCGGCATTTT-ACCAAAAACGCCGCTATTGCTCTGTT
* * *
85131140 TTTTAGCGGCGTTTT---AAAAACACCGCTATTGCTCTGGT
1 TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTGTT
*
85131178 TTTTAGCGGCATTTTACCAAAAACGCCGCTAATGCTCTGTT
1 TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTGTT
** * * *
85131219 TTTTAGCGGTGTTTTACCAAAAATGCCGCTATTACTCT-AT
1 TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTGTT
85131259 TTTTAGCGGC
1 TTTTAGCGGC
85131269 GTTATTGCTC
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
38 30 0.28
40 10 0.09
41 53 0.50
42 14 0.13
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTGTT
Found at i:85131233 original size:79 final size:80
Alignment explanation
Indices: 85131098--85131268 Score: 204
Period size: 79 Copynumber: 2.1 Consensus size: 80
85131088 ATTATATGAC
* * * *
85131098 TTTTAGCGGCATTTTGACCACAAACGCCATTATTGCTTTATTTTTTAGCGGCGTTTTA-AAAACA
1 TTTTAGCGGCATTTTGACCAAAAACGCCACTAATGCTCTATTTTTTAGCGGCGTTTTACAAAA-A
* *
85131162 -CCGCTATTGCTCTGGT
65 GCCGCTATTACTCT-AT
* * *
85131178 TTTTAGCGGCATTTT-ACCAAAAACGCCGCTAATGCTCTGTTTTTTAGCGGTGTTTTACCAAAAA
1 TTTTAGCGGCATTTTGACCAAAAACGCCACTAATGCTCTATTTTTTAGCGGCGTTTTA-CAAAAA
85131242 TGCCGCTATTACTCTAT
65 -GCCGCTATTACTCTAT
85131259 TTTTAGCGGC
1 TTTTAGCGGC
85131269 GTTATTGCTC
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
79 35 0.45
80 16 0.21
81 15 0.19
82 12 0.15
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (80 bp):
TTTTAGCGGCATTTTGACCAAAAACGCCACTAATGCTCTATTTTTTAGCGGCGTTTTACAAAAAG
CCGCTATTACTCTAT
Found at i:85131279 original size:23 final size:23
Alignment explanation
Indices: 85131248--85131300 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
85131238 AAAATGCCGC
* *
85131248 TATTACTCTATTTTTAGCGGCGT
1 TATTGCTCTATTTTAAGCGGCGT
*
85131271 TATTGCTCTGTTTTAAGCGGCGT
1 TATTGCTCTATTTTAAGCGGCGT
*
85131294 TTTTGCT
1 TATTGCT
85131301 AAAAAGCCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.13, C:0.17, G:0.21, T:0.49
Consensus pattern (23 bp):
TATTGCTCTATTTTAAGCGGCGT
Found at i:85133795 original size:31 final size:31
Alignment explanation
Indices: 85133757--85133835 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
85133747 TTTAACGGTT
85133757 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
85133788 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
85133819 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
85133836 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:85133906 original size:42 final size:42
Alignment explanation
Indices: 85133859--85133950 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
85133849 TGGCCCTTAG
* ** *
85133859 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
85133901 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
85133943 GCCCATTT
1 GCCCATTT
85133951 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:85134138 original size:26 final size:26
Alignment explanation
Indices: 85134095--85134180 Score: 129
Period size: 26 Copynumber: 3.3 Consensus size: 26
85134085 TCTCTTTAAT
85134095 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
85134120 ACCTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
85134146 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
85134172 AACTGGGGC
1 AACTGGGGC
85134181 CAATTTTAGC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 9 0.17
26 43 0.83
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:85134552 original size:27 final size:27
Alignment explanation
Indices: 85134522--85134586 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
85134512 GGGCATATTC
85134522 GTCATTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCCTACAGGGGCTTTACG
* *
85134549 GTCACTTTACCCTACATGGGCTTTACG
1 GTCATTTTACCCTACAGGGGCTTTACG
*
85134576 GTCTTTTTACC
1 GTCATTTTACC
85134587 TAATAGGGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCTTTACG
Found at i:85134670 original size:27 final size:27
Alignment explanation
Indices: 85134593--85134868 Score: 173
Period size: 27 Copynumber: 10.2 Consensus size: 27
85134583 TACCTAATAG
* **
85134593 GGGTATTTTAGTCATTTTAT-CCTACAA
1 GGGTATTTTAGTAATTTTATAAAT-CAA
* * * * * *
85134620 GGGTGTTTTGGTAAATCTACAAACCAA
1 GGGTATTTTAGTAATTTTATAAATCAA
* * *
85134647 GGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTATAAATCAA
* *
85134674 TGGTATTTCTA-TAATTTTTAGAAAGTCAA
1 GGGTATTT-TAGTAA-TTTTATAAA-TCAA
* * *
85134703 GGGTATTTCT-GTAACTTTGTAAATCAG
1 GGGTATTT-TAGTAATTTTATAAATCAA
* * *
85134730 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTAGTAATTTTATAAATCAA
* * *
85134757 GGGTATTTTTGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTATAAATCAA
* * * *
85134784 GGGTATTTTAGCAATTTTACAGA-CTA
1 GGGTATTTTAGTAATTTTATAAATCAA
*
85134810 GGGTATTTTAGTAATTTTGTAAATCAA
1 GGGTATTTTAGTAATTTTATAAATCAA
**** * *
85134837 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCAA
85134864 GGGTA
1 GGGTA
85134869 AAACGGTAAT
Statistics
Matches: 192, Mismatches: 50, Indels: 14
0.75 0.20 0.05
Matches are distributed among these distances:
26 22 0.11
27 141 0.73
28 14 0.07
29 15 0.08
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTATAAATCAA
Found at i:85134788 original size:54 final size:54
Alignment explanation
Indices: 85134617--85134841 Score: 202
Period size: 54 Copynumber: 4.1 Consensus size: 54
85134607 TTTTATCCTA
* * *
85134617 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
* * * * * * *
85134671 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-CCAAGGGTATTTCAGTAATTTTGTAAAC
* ** ** **
85134727 CAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTTGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
* * * * * *
85134781 CAAGGGTATTTTAGCAATTTTACAGA-CTAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
85134834 CAAGGGTA
1 CAAGGGTA
85134842 AAACAGTAAT
Statistics
Matches: 137, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
53 29 0.21
54 56 0.41
55 16 0.12
56 36 0.26
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
Found at i:85134869 original size:27 final size:27
Alignment explanation
Indices: 85134820--85135003 Score: 251
Period size: 27 Copynumber: 6.8 Consensus size: 27
85134810 GGGTATTTTA
* * *
85134820 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
85134847 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
85134874 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
85134901 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
85134928 GTAATTATGTAAATCGGGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
85134955 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
85134982 GTAATTCTATAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
85135004 CTTTGGTAAT
Statistics
Matches: 142, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:85135030 original size:27 final size:27
Alignment explanation
Indices: 85135009--85135098 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
85134999 GGGTACTTTG
*
85135009 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
85135036 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
85135063 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
85135090 GTAATTTTA
1 GTAATTTTA
85135099 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:85135112 original size:27 final size:27
Alignment explanation
Indices: 85135009--85135113 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
85134999 GGGTACTTTG
* *
85135009 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
85135036 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
85135063 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
85135090 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
85135114 CTAAACAGGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:85137913 original size:43 final size:43
Alignment explanation
Indices: 85137866--85137986 Score: 120
Period size: 42 Copynumber: 2.8 Consensus size: 43
85137856 CCTTGATTGA
*
85137866 GATTTACGTATAAGACCATGTCTGGGACATCGGCATC-GTATCT
1 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCAATAT-T
* * **
85137909 GATTT-CGTGTAAGACCCTGTCTGGGACAGAGGCATCAATATT
1 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCAATATT
** * * * *
85137951 GAACTACATATAAGACCACGTTTGGGACGTCGGCAT
1 GATTTACGTATAAGACCATGTCTGGGACATCGGCAT
85137987 TGTACTTGTT
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
42 31 0.51
43 30 0.49
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (43 bp):
GATTTACGTATAAGACCATGTCTGGGACATCGGCATCAATATT
Found at i:85139513 original size:20 final size:20
Alignment explanation
Indices: 85139445--85139504 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
85139435 AAGTTAATGC
*
85139445 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGTAAG
85139465 TAAGTAAATGAAAT-GTATAG
1 TAAGTAAATGAAATGGTA-AG
*
85139485 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGAAATGGTAAG
85139505 AAAATAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 31 0.86
21 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (20 bp):
TAAGTAAATGAAATGGTAAG
Found at i:85140797 original size:10 final size:10
Alignment explanation
Indices: 85140784--85140822 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
85140774 ATATATGAAT
85140784 ATATCATGGC
1 ATATCATGGC
85140794 ATATCATGTGC
1 ATATCATG-GC
85140805 ATATCATGGC
1 ATATCATGGC
85140815 ATATCATG
1 ATATCATG
85140823 TACAAATCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:85140810 original size:21 final size:21
Alignment explanation
Indices: 85140784--85140823 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
85140774 ATATATGAAT
85140784 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
85140805 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
85140824 ACAAATCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:85140831 original size:21 final size:21
Alignment explanation
Indices: 85140786--85140831 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
85140776 ATATGAATAT
* *
85140786 ATCATGGCATATCATGTGCAT
1 ATCATGGCATATCATGTACAA
85140807 ATCATGGCATATCATGTACAA
1 ATCATGGCATATCATGTACAA
85140828 ATCA
1 ATCA
85140832 GTATCACATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (21 bp):
ATCATGGCATATCATGTACAA
Found at i:85151795 original size:27 final size:27
Alignment explanation
Indices: 85151754--85151806 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
85151744 AGTCATACAT
* *
85151754 CTCATAAGGGCATAATAATTATTTTAC
1 CTCAAAAGGGCATAATAATCATTTTAC
* *
85151781 CTCAAAAGGGTATAATAGTCATTTTA
1 CTCAAAAGGGCATAATAATCATTTTA
85151807 TCAATTTGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (27 bp):
CTCAAAAGGGCATAATAATCATTTTAC
Found at i:85158907 original size:40 final size:39
Alignment explanation
Indices: 85158752--85158915 Score: 267
Period size: 39 Copynumber: 4.2 Consensus size: 39
85158742 GAAGGCACTC
*
85158752 GTGCTGGTGTTATATCCGGGC-AAAGTCCCGCAGGCTTT
1 GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
*
85158790 GTGCTGGTATTATATCCGGGCTAAAGTCCCACAGGCTTT
1 GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
85158829 GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
1 GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
* *
85158868 GTGTTGGTATTATATCCGGGCTTAAAGTCCCGCATGCTTT
1 GTGCTGGTATTATATCCGGGC-TAAAGTCCCGCAGGCTTT
*
85158908 GTGGTGGT
1 GTGCTGGT
85158916 GATTGGATTT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
38 20 0.17
39 74 0.63
40 24 0.20
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.32
Consensus pattern (39 bp):
GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
Found at i:85162983 original size:27 final size:27
Alignment explanation
Indices: 85162951--85163003 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
85162941 AGTCATACAT
* *
85162951 CTCATAAGGGCATAATAGTCATTTTAC
1 CTCATAAGGGCATAACAATCATTTTAC
*
85162978 CTCATAGGGGCATAACAATCATTTTA
1 CTCATAAGGGCATAACAATCATTTTA
85163004 TCAATTTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (27 bp):
CTCATAAGGGCATAACAATCATTTTAC
Found at i:85167513 original size:27 final size:27
Alignment explanation
Indices: 85167481--85167534 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
85167471 ACCACCTAAT
*
85167481 TGATAAAATGACTATTACGCCCCTATG
1 TGATAAAATAACTATTACGCCCCTATG
* *
85167508 TGATAAAATAACTGTTATGCCCCTATG
1 TGATAAAATAACTATTACGCCCCTATG
85167535 AGATGAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (27 bp):
TGATAAAATAACTATTACGCCCCTATG
Found at i:85167604 original size:5 final size:5
Alignment explanation
Indices: 85167597--85167627 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
85167587 TGTTATTATT
*
85167597 ACATT ACATG ACATG ACATG ACATG ACATG A
1 ACATG ACATG ACATG ACATG ACATG ACATG A
85167628 TGCATGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (5 bp):
ACATG
Found at i:85173799 original size:27 final size:27
Alignment explanation
Indices: 85173767--85173820 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
85173757 ACCACCTAAT
*
85173767 TGATAAAATGACTATTACGCCCCTATG
1 TGATAAAATAACTATTACGCCCCTATG
* *
85173794 TGATAAAATAACTGTTATGCCCCTATG
1 TGATAAAATAACTATTACGCCCCTATG
85173821 AGATGAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (27 bp):
TGATAAAATAACTATTACGCCCCTATG
Found at i:85173890 original size:5 final size:5
Alignment explanation
Indices: 85173883--85173913 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
85173873 TGTTATTATT
*
85173883 ACATT ACATG ACATG ACATG ACATG ACATG A
1 ACATG ACATG ACATG ACATG ACATG ACATG A
85173914 TGCATGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (5 bp):
ACATG
Found at i:85194970 original size:33 final size:33
Alignment explanation
Indices: 85194933--85195002 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
85194923 TGAATAACAT
* *
85194933 AGTATCAGCATAGTCTGGGCCAAAGCCCTATTC
1 AGTATCAGCACAGTCTGGGCCAAAGCCCTATAC
* *
85194966 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
1 AGTATCAGCACAGTCTGGGCCAAAGCCCTATAC
85194999 AGTA
1 AGTA
85195003 GCAGTGTGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (33 bp):
AGTATCAGCACAGTCTGGGCCAAAGCCCTATAC
Found at i:85195029 original size:28 final size:27
Alignment explanation
Indices: 85194971--85195030 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
85194961 TATTCAGTAT
* * *
85194971 CAGTACAGTCTGGGCCTAAGCCCTATA
1 CAGTACAGTCTGAGCCTAAACCCAATA
* *
85194998 CAGTAGCAGTGTGAGCCTAAACCCAATG
1 CAGTA-CAGTCTGAGCCTAAACCCAATA
85195026 CAGTA
1 CAGTA
85195031 ACAATACAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGTACAGTCTGAGCCTAAACCCAATA
Found at i:85195195 original size:27 final size:27
Alignment explanation
Indices: 85195165--85195236 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
85195155 AACAAAGCTG
85195165 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGAAACAGTAAATGTGGCAAAGCCA
* * * * *
85195192 CCAGTATCAATAATTGTGGCATAGCCA
1 CCAGAAACAGTAAATGTGGCAAAGCCA
*
85195219 CCAGTAAA-AGTGAATGTG
1 CCAG-AAACAGTAAATGTG
85195237 ACATAATCAC
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGAAACAGTAAATGTGGCAAAGCCA
Found at i:85195422 original size:27 final size:27
Alignment explanation
Indices: 85195392--85195496 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
85195382 GGGCATAATT
*
85195392 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
85195419 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTACCCTAC-AGGGGTATTACG
**
85195446 GTCATTTTACCCTACAGGGACATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
85195473 GTCTTTTTA-CCTATTAGGGGTATT
1 GTCATTTTACCCTA-CAGGGGTATT
85195497 TTAGTCATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
26 8 0.12
27 52 0.80
28 5 0.08
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:85195564 original size:27 final size:27
Alignment explanation
Indices: 85195514--85195749 Score: 163
Period size: 27 Copynumber: 8.7 Consensus size: 27
85195504 TTTCATCCTA
* * *
85195514 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
85195541 CAAGGGTATTTTAGTAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * ** *
85195568 CAATGGTATTTCT-ATAATTTTTGAAAGT
1 CAAGGGTATTT-TGGTAATTTTACAAA-C
* *
85195596 CAAGGGTATTTTTGTAATTTT-CTAAAT
1 CAAGGGTATTTTGGTAATTTTAC-AAAC
* * * *
85195623 TAAGGGTATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
85195650 CAGGGGTATTTTGGTAACTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
85195677 CGAGGGTGTTTTGGTAATTTTACAAGTC
1 CAAGGGTATTTTGGTAATTTTACAA-AC
* * **
85195705 GAA-GGTATTTTGATAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
85195731 TAATGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
85195750 CTACCCTACA
Statistics
Matches: 164, Mismatches: 38, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
26 3 0.02
27 138 0.84
28 23 0.14
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:85195768 original size:27 final size:27
Alignment explanation
Indices: 85195744--85195813 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
85195734 TGGTATTTTG
85195744 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* *
85195771 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* * *
85195798 ATAATGCTAGCCTACA
1 GTAATTCTACCCTACA
85195814 AATATGAGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGCATTTCA
Found at i:85205177 original size:48 final size:48
Alignment explanation
Indices: 85205106--85205201 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
85205096 ATGGTCAATC
85205106 CGAGCGGATAATTCAGGTACTCGAGGATATGCTGAGATGCTGCATCCT
1 CGAGCGGATAATTCAGGTACTCGAGGATATGCTGAGATGCTGCATCCT
85205154 CGAGCGGATAATTCAGGTACTCGAGGATATGCTGAGATGCTGCATCCT
1 CGAGCGGATAATTCAGGTACTCGAGGATATGCTGAGATGCTGCATCCT
85205202 TGAGTTNNNN
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (48 bp):
CGAGCGGATAATTCAGGTACTCGAGGATATGCTGAGATGCTGCATCCT
Found at i:85205600 original size:28 final size:26
Alignment explanation
Indices: 85205569--85205632 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
85205559 AATTACTTGA
* *
85205569 ATACCCCTATGTATGGAAAATTACTACT
1 ATACCCCTA-G-ATGCAAAATTACAACT
* *
85205597 ATACCCCTAGGTGCAAAATTACAATT
1 ATACCCCTAGATGCAAAATTACAACT
85205623 ATACCCCTAG
1 ATACCCCTAG
85205633 GGTTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACAACT
Found at i:85205841 original size:54 final size:54
Alignment explanation
Indices: 85205737--85205857 Score: 147
Period size: 54 Copynumber: 2.2 Consensus size: 54
85205727 AGGAAGCGTC
* *
85205737 CTGGTGGCCATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCCATGCCACAATTATCTAATCTAGTGACTCTGCCACATATATCTGTT
* * *
85205791 CTGGTGGCTC-TGCCACGATTATCTGTATCTAGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGC-CATGCCACAATTATCT-AATCTAGTGACTCTGCCACATATATCTGTT
**
85205845 CTGGAAGCCATGC
1 CTGGTGGCCATGC
85205858 TGCATATTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
53 1 0.02
54 38 0.67
55 18 0.32
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (54 bp):
CTGGTGGCCATGCCACAATTATCTAATCTAGTGACTCTGCCACATATATCTGTT
Found at i:85205842 original size:27 final size:27
Alignment explanation
Indices: 85205737--85205848 Score: 124
Period size: 27 Copynumber: 4.1 Consensus size: 27
85205727 AGGAAGCGTC
*
85205737 CTGGTGGC-CATGCCACAATTATCT-AAT
1 CTGGTGGCTC-TGCCAC-ATTATCTGTAT
85205764 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
85205791 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* * *
85205819 CTAGTGACTCTGTCACATTATCTGT-T
1 CTGGTGGCTCTGCCACATTATCTGTAT
85205845 CTGG
1 CTGG
85205849 AAGCCATGCT
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:85210576 original size:33 final size:33
Alignment explanation
Indices: 85210539--85210604 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
85210529 TGGTGGCCTG
* *
85210539 GGCTTAAACGAGAAGTAACGGAGTGTGTAGGGA
1 GGCTTAAACGAGAAGGAACGGAGGGTGTAGGGA
85210572 GGCTTAAACGAGAAGGAACGGAGGGTGTAGGGA
1 GGCTTAAACGAGAAGGAACGGAGGGTGTAGGGA
85210605 AATGTCTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.09, G:0.42, T:0.15
Consensus pattern (33 bp):
GGCTTAAACGAGAAGGAACGGAGGGTGTAGGGA
Found at i:85213667 original size:27 final size:26
Alignment explanation
Indices: 85213635--85213746 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
85213625 AGGAAGCGTC
*
85213635 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
85213662 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
85213689 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
85213717 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
85213743 CTGG
1 CTGG
85213747 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 7 0.09
27 52 0.68
28 17 0.22
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:85213739 original size:54 final size:54
Alignment explanation
Indices: 85213635--85213746 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
85213625 AGGAAGCGTC
*
85213635 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
85213689 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
85213743 CTGG
1 CTGG
85213747 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:85219397 original size:42 final size:42
Alignment explanation
Indices: 85219248--85219410 Score: 168
Period size: 42 Copynumber: 3.9 Consensus size: 42
85219238 ATACCAATGT
** *
85219248 CATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGC
1 CATATCCCAGATATGGTCTTACATGAAATCTCATAACGATGC
* * * * * * *
85219290 TAATAGCCCAGCTATGGTTTTACACG-ATTCTCATATCGATGC
1 -CATATCCCAGATATGGTCTTACATGAAATCTCATAACGATGC
* * *
85219332 CATGTCCCAGACATGGTTTTACATGAAATCTCATAACGATGC
1 CATATCCCAGATATGGTCTTACATGAAATCTCATAACGATGC
*
85219374 CATATCTCAGATATGGTCTTACATGTAAA-CTCATAAC
1 CATATCCCAGATATGGTCTTACATG-AAATCTCATAAC
85219411 CCTAATGTCA
Statistics
Matches: 99, Mismatches: 19, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
41 19 0.19
42 57 0.58
43 23 0.23
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACATGAAATCTCATAACGATGC
Found at i:85224596 original size:37 final size:37
Alignment explanation
Indices: 85224546--85224624 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
85224536 TTATTACGAA
* * *
85224546 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
85224583 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
85224620 GTCTT
1 GTCTT
85224625 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:85224821 original size:47 final size:47
Alignment explanation
Indices: 85224745--85225834 Score: 1099
Period size: 49 Copynumber: 21.8 Consensus size: 47
85224735 CTTCGGGACT
* * * * **
85224745 TATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* * *
85224792 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
** * *
85224839 TATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
*
85224886 TATCACATAT-TAGGC-CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCC
1 TATCACATATATA--CACTT-T--CACAT-T-CA---T--C-------ACATCGGCCACTAAGCC
*
85224949 T
47 C
*
85224950 TATCACATAT-TAGGC-CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCC
1 TATCACATATATA--CACTT-T--CACAT-T-CA---T--C----A-C--ATCGGCCACTAAGCC
*
85225013 T
47 C
* *
85225014 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225061 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225110 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225159 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225208 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225257 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225306 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225355 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225404 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225453 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225502 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225551 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225600 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225649 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225698 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
* *
85225747 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
85225796 TATCACATATATACACTTTCACATTCATCACATCGGCCA
1 TATCACATATATACACTTTCACATTCATCACATCGGCCA
85225835 TTAGGCATTA
Statistics
Matches: 1001, Mismatches: 16, Indels: 52
0.94 0.01 0.05
Matches are distributed among these distances:
46 2 0.00
47 148 0.15
48 2 0.00
49 734 0.73
50 6 0.01
51 1 0.00
52 2 0.00
54 1 0.00
55 1 0.00
56 1 0.00
57 1 0.00
59 2 0.00
60 1 0.00
61 8 0.01
62 1 0.00
63 2 0.00
64 86 0.09
65 2 0.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAAGCCC
Found at i:85224916 original size:64 final size:64
Alignment explanation
Indices: 85224830--85225023 Score: 361
Period size: 64 Copynumber: 3.0 Consensus size: 64
85224820 CACATCGGCC
* * *
85224830 ATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAT
1 ATTAGGCCTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAT
85224894 ATTAGGCCTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAT
1 ATTAGGCCTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAT
85224958 ATTAGGCCTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAT
1 ATTAGGCCTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAT
85225022 AT
1 AT
85225024 ATACACTTTC
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 127 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.31
Consensus pattern (64 bp):
ATTAGGCCTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAT
Found at i:85225092 original size:49 final size:49
Alignment explanation
Indices: 85224975--85225849 Score: 1704
Period size: 49 Copynumber: 17.9 Consensus size: 49
85224965 CTTATCGCAC
85224975 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--AT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225022 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225071 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225120 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225169 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225218 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225267 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225316 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225365 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225414 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225463 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225512 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225561 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225610 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225659 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225708 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
85225757 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--AT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
* *
85225804 ATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACA
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA
85225850 ATTTAGAATT
Statistics
Matches: 823, Mismatches: 2, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
47 90 0.11
49 733 0.89
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (49 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
Found at i:85231037 original size:47 final size:47
Alignment explanation
Indices: 85230979--85231279 Score: 521
Period size: 47 Copynumber: 6.4 Consensus size: 47
85230969 CAGCCAAGAC
*
85230979 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
85231026 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
85231073 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
85231120 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
85231167 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
85231214 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
85231261 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
85231280 TCCCGAAGGG
Statistics
Matches: 243, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 243 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:85231454 original size:37 final size:37
Alignment explanation
Indices: 85231398--85231476 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
85231388 CCGAGCTCTA
* * *
85231398 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
85231435 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
85231472 AAGAC
1 AAGAC
85231477 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:85238638 original size:22 final size:22
Alignment explanation
Indices: 85238613--85238659 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
85238603 CGGGATAGAG
*
85238613 TATATGTATCGAAAAATGAACT
1 TATATGTAACGAAAAATGAACT
85238635 TATATGTAACGAAAAATGAACT
1 TATATGTAACGAAAAATGAACT
85238657 TAT
1 TAT
85238660 TCAGAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.32
Consensus pattern (22 bp):
TATATGTAACGAAAAATGAACT
Found at i:85239679 original size:13 final size:13
Alignment explanation
Indices: 85239661--85239688 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
85239651 TCAACAGAGT
85239661 TAGAAAGGATTCA
1 TAGAAAGGATTCA
85239674 TAGAAAGGATTCA
1 TAGAAAGGATTCA
85239687 TA
1 TA
85239689 ATATGTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (13 bp):
TAGAAAGGATTCA
Found at i:85242379 original size:40 final size:39
Alignment explanation
Indices: 85242319--85242397 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 39
85242309 GGCGTGTCCC
*
85242319 ATATCCACACGAGCGGGTGACCCCTGTTTGGTGAAAAAT
1 ATATCCACACGAGCGGGTGACCCCTGTTTGGGGAAAAAT
*
85242358 NATATCCACACGAGCGTGTGACCCCTGTTTGGGGAAAAAT
1 -ATATCCACACGAGCGGGTGACCCCTGTTTGGGGAAAAAT
85242398 TTTCTAAGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (39 bp):
ATATCCACACGAGCGGGTGACCCCTGTTTGGGGAAAAAT
Found at i:85248829 original size:40 final size:40
Alignment explanation
Indices: 85248773--85249210 Score: 732
Period size: 40 Copynumber: 10.9 Consensus size: 40
85248763 TGAGCATTGG
*
85248773 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
* *
85248813 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
* *
85248853 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
* *
85248893 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
*
85248933 AATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
*
85248973 AATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
*
85249013 AATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
*
85249053 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGGT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
* * *
85249093 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGGGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
* *
85249133 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
85249173 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
85249211 NNNNNNNNNN
Statistics
Matches: 380, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 380 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
Found at i:85253260 original size:40 final size:40
Alignment explanation
Indices: 85253182--85253405 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
85253172 ACCCAAGTAT
* *
85253182 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
85253221 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
85253261 CTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
85253301 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
85253344 CTTTGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
85253384 CCTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
85253406 CATCCGAATA
Statistics
Matches: 161, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 12 0.07
40 113 0.70
41 1 0.01
43 35 0.22
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:85253378 original size:83 final size:80
Alignment explanation
Indices: 85253182--85253405 Score: 290
Period size: 83 Copynumber: 2.8 Consensus size: 80
85253172 ACCCAAGTAT
* * * *
85253182 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
85253246 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* * *
85253261 CTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
85253325 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
85253344 CTTTGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCCTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
85253406 CATCCGAATA
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 13 0.10
80 48 0.38
83 64 0.51
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:85256507 original size:57 final size:58
Alignment explanation
Indices: 85256419--85256533 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 58
85256409 TATCCTAACC
* *
85256419 TTTTCGCTGGTAAGATTTTCGGGGACGAAAATTTCTAAGGGG-GGAGAATTCTGACAG
1 TTTTCGCTAGTAAGATTTTCGGGGACAAAAATTTCTAAGGGGAGGAGAATTCTGACAG
*
85256476 TTTTCGCTAGTAAGATTTTCGGGGACAAAAATTTCTAAGGGGAGGAGAGTTCTGACAG
1 TTTTCGCTAGTAAGATTTTCGGGGACAAAAATTTCTAAGGGGAGGAGAATTCTGACAG
85256534 CCCTAATTTG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 40 0.74
58 14 0.26
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (58 bp):
TTTTCGCTAGTAAGATTTTCGGGGACAAAAATTTCTAAGGGGAGGAGAATTCTGACAG
Found at i:85258796 original size:39 final size:39
Alignment explanation
Indices: 85258742--85258898 Score: 201
Period size: 39 Copynumber: 4.0 Consensus size: 39
85258732 TTCAGTGATG
* * *
85258742 ATTATATCCGGACTTAGGGTTCGCAGGGTATATGTTGGA
1 ATTATATCCGGACTTAGGGTTCGCAGGCTATGTGCTGGA
* *
85258781 ATTATATCCGGACTTAGGGTCCACAGGCTATGTGCTGGA
1 ATTATATCCGGACTTAGGGTTCGCAGGCTATGTGCTGGA
*
85258820 ATTATATCCGGACTTAAGG-TCTGCAGGCTATGTGCTGGA
1 ATTATATCCGGACTTAGGGTTC-GCAGGCTATGTGCTGGA
* * *
85258859 ATTATAACCGGACTTAAGG-TCTGCAGGCTACGTGCTGGA
1 ATTATATCCGGACTTAGGGTTC-GCAGGCTATGTGCTGGA
85258898 A
1 A
85258899 ATACGTCCGG
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 106 0.99
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (39 bp):
ATTATATCCGGACTTAGGGTTCGCAGGCTATGTGCTGGA
Found at i:85258924 original size:78 final size:78
Alignment explanation
Indices: 85258763--85258926 Score: 177
Period size: 78 Copynumber: 2.1 Consensus size: 78
85258753 ACTTAGGGTT
* * * * * * *
85258763 CGCAGGGTATATGTTGGAATTATATCCGGACTTAGGGTCCACAGGCTATGTGCTGGAATTATATC
1 CGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGTCCACAGGCTACGTGCTGGAAATACATC
**
85258828 CGGACTTAAGGTC
66 CGGACTTAAAATC
* * ** *
85258841 TGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAATACGTC
1 CGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGTCCACAGGCTACGTGCTGGAAATACATC
*
85258906 CGGGC-TAAAATCC
66 CGGACTTAAAAT-C
85258919 CGCAGGCT
1 CGCAGGCT
85258927 TCGAGCTGGT
Statistics
Matches: 69, Mismatches: 16, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
77 4 0.06
78 65 0.94
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (78 bp):
CGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGTCCACAGGCTACGTGCTGGAAATACATC
CGGACTTAAAATC
Found at i:85260884 original size:12 final size:12
Alignment explanation
Indices: 85260869--85260904 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
85260859 TATCAAATTA
*
85260869 AATTAAATTAAT
1 AATTAATTTAAT
85260881 AATTAATTTAAT
1 AATTAATTTAAT
85260893 AATTAATTTAAT
1 AATTAATTTAAT
85260905 TCATGTGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAATTTAAT
Found at i:85265412 original size:30 final size:30
Alignment explanation
Indices: 85265378--85265441 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
85265368 AGATAAATTA
85265378 AGACTTCAAACCACTTATTTGACATTTCCC
1 AGACTTCAAACCACTTATTTGACATTTCCC
85265408 AGACTTCAAACCACTTATTTGACATTTCCC
1 AGACTTCAAACCACTTATTTGACATTTCCC
85265438 AGAC
1 AGAC
85265442 AAGCTGCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (30 bp):
AGACTTCAAACCACTTATTTGACATTTCCC
Found at i:85265583 original size:230 final size:229
Alignment explanation
Indices: 85265177--85265603 Score: 809
Period size: 230 Copynumber: 1.9 Consensus size: 229
85265167 GAGGTGTTAA
85265177 CAGACTTCAAACCACTTATTTGACATTTCCCAGACAAGCTGCCAATCTGCGTACTAGTCGCTTTA
1 CAGACTTCAAACCACTTATTTGACATTTCCCAGACAAGCTGCCAATCTGCGTACTAGTCGCTTTA
*
85265242 AAAATCATATCTTGAGTTCTGAAACTCGAAATCTAGTTCCGTAAATTTTCCCTGGAACTAGACTC
66 AAAATCATATCTTGAGTTCTGAAACTCGAAATCCAGTTCCGTAAATTTTCCCTGGAACTAGACTC
*
85265307 ATATACCTATATGGTAGAATTTTTGTAGAATTTTTGGTCTGGCCAATTAGTACAGTTTATTAGAT
131 ATATACCTATATGGTAGAATTTTTGTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAG-T
85265372 AAATTAAGACTTCAAACCACTTATTTGACATTTCC
195 AAATTAAGACTTCAAACCACTTATTTGACATTTCC
85265407 CAGACTTCAAACCACTTATTTGACATTTCCCAGACAAGCTGCCAATCTGCGTACTAGTCGCTTTA
1 CAGACTTCAAACCACTTATTTGACATTTCCCAGACAAGCTGCCAATCTGCGTACTAGTCGCTTTA
*
85265472 AAAATCATATCTTGAGTTCTGAAACTTGAAATCCAGTTCCGTAAATTTTCCCTGGAACTAGACTC
66 AAAATCATATCTTGAGTTCTGAAACTCGAAATCCAGTTCCGTAAATTTTCCCTGGAACTAGACTC
*
85265537 ATATACCTATATGGTAGAATTTTTGTATAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTA
131 ATATACCTATATGGTAGAATTTTTGTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTA
85265602 AA
196 AA
85265604 AGTCTCCCAT
Statistics
Matches: 193, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
229 4 0.02
230 189 0.98
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (229 bp):
CAGACTTCAAACCACTTATTTGACATTTCCCAGACAAGCTGCCAATCTGCGTACTAGTCGCTTTA
AAAATCATATCTTGAGTTCTGAAACTCGAAATCCAGTTCCGTAAATTTTCCCTGGAACTAGACTC
ATATACCTATATGGTAGAATTTTTGTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTA
AATTAAGACTTCAAACCACTTATTTGACATTTCC
Found at i:85304533 original size:22 final size:23
Alignment explanation
Indices: 85304483--85304534 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
85304473 ATGTTGTTCC
*
85304483 TTTTATTTTAGTTTAAGACTACT
1 TTTTATTTTACTTTAAGACTACT
*
85304506 TTTTATTTTTCTTTAAG-CTTA-T
1 TTTTATTTTACTTTAAGAC-TACT
85304528 TTTTATT
1 TTTTATT
85304535 AGGTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.21, C:0.08, G:0.06, T:0.65
Consensus pattern (23 bp):
TTTTATTTTACTTTAAGACTACT
Found at i:85315013 original size:15 final size:15
Alignment explanation
Indices: 85314995--85315024 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
85314985 GTAATCCCGA
85314995 TACAAAATCCATAGT
1 TACAAAATCCATAGT
85315010 TACAAAATCCATAGT
1 TACAAAATCCATAGT
85315025 AATTCTTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (15 bp):
TACAAAATCCATAGT
Found at i:85333192 original size:22 final size:23
Alignment explanation
Indices: 85333142--85333193 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
85333132 ATGTTGTTCC
*
85333142 TTTTATTTTAGTTTAAGACTACT
1 TTTTATTTTACTTTAAGACTACT
*
85333165 TTTTATTTTTCTTTAAG-CTTA-T
1 TTTTATTTTACTTTAAGAC-TACT
85333187 TTTTATT
1 TTTTATT
85333194 AGGTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.21, C:0.08, G:0.06, T:0.65
Consensus pattern (23 bp):
TTTTATTTTACTTTAAGACTACT
Found at i:85342855 original size:22 final size:22
Alignment explanation
Indices: 85342825--85342867 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
85342815 ATTTTTCTGA
*
85342825 CTCAGATTTGTGTTCCCGAAAG
1 CTCAAATTTGTGTTCCCGAAAG
85342847 CTCAAATTTGTGTTCCCGAAA
1 CTCAAATTTGTGTTCCCGAAA
85342868 CCACTATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (22 bp):
CTCAAATTTGTGTTCCCGAAAG
Found at i:85349293 original size:18 final size:17
Alignment explanation
Indices: 85349268--85349301 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
85349258 TTTATTTCAA
85349268 TTTCAATTTTTATTTTC
1 TTTCAATTTTTATTTTC
*
85349285 TTTCTAATTTTTCTTTT
1 TTTC-AATTTTTATTTT
85349302 TCCTTTTGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCAATTTTTATTTTC
Found at i:85359551 original size:46 final size:46
Alignment explanation
Indices: 85359484--85359608 Score: 205
Period size: 46 Copynumber: 2.7 Consensus size: 46
85359474 TGGGGAGGCC
* * * * *
85359484 AAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCAT
85359530 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCAT
85359576 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
85359609 TGCCCAAATA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCAT
Found at i:85368590 original size:47 final size:47
Alignment explanation
Indices: 85368521--85368613 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
85368511 CCTTCAGGAG
*
85368521 TTTTGGGTTTTCTTATGTTTTGTTCTATTTATGCTTTTGAGATGTTC
1 TTTTGGGTTTTCTTATGTTTTGTTATATTTATGCTTTTGAGATGTTC
85368568 TTTTGGGTTTTCTTATGTTTTGTTATATTTATGCTTTTGAGATGTT
1 TTTTGGGTTTTCTTATGTTTTGTTATATTTATGCTTTTGAGATGTT
85368614 TTCTTTCATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.12, C:0.06, G:0.19, T:0.62
Consensus pattern (47 bp):
TTTTGGGTTTTCTTATGTTTTGTTATATTTATGCTTTTGAGATGTTC
Found at i:85372357 original size:18 final size:18
Alignment explanation
Indices: 85372315--85372357 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
85372305 GCCCATTCCG
*
85372315 AAGTATATATATACACAT
1 AAGTATGTATATACACAT
*
85372333 ATA-TATGTATATATACAT
1 A-AGTATGTATATACACAT
85372351 AAGTATG
1 AAGTATG
85372358 CCCATTCGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATACACAT
Found at i:85372912 original size:27 final size:28
Alignment explanation
Indices: 85372828--85372925 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
85372818 TAAATTGTAC
*
85372828 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
85372856 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
85372884 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
85372911 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85372926 GAATTAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 24 0.36
28 43 0.64
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:85372936 original size:27 final size:27
Alignment explanation
Indices: 85372828--85372938 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
85372818 TAAATTGTAC
* * *
85372828 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGAATATAT
* *
85372856 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-ATTGAATATAT
* *
85372884 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGAATATAT
*
85372911 AGCACTGAGTGTGCGGAATT-AATATAT
1 AGCACTAAGTGTGC-GAATTGAATATAT
85372938 A
1 A
85372939 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 30 0.39
28 46 0.61
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGAATATAT
Found at i:85377943 original size:21 final size:21
Alignment explanation
Indices: 85377919--85377960 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
85377909 TCATCAGATC
*
85377919 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
85377940 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
85377961 AGGTGGGGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:85384085 original size:16 final size:16
Alignment explanation
Indices: 85384064--85384095 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
85384054 CTACGAAGGT
85384064 TGAAAGGCTGAAAAGC
1 TGAAAGGCTGAAAAGC
*
85384080 TGAAAGGCTGACAAGC
1 TGAAAGGCTGAAAAGC
85384096 CAGAAAAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.16, G:0.31, T:0.12
Consensus pattern (16 bp):
TGAAAGGCTGAAAAGC
Found at i:85392630 original size:27 final size:27
Alignment explanation
Indices: 85392592--85392789 Score: 263
Period size: 27 Copynumber: 7.3 Consensus size: 27
85392582 TTGGGTTGGG
* *
85392592 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
85392619 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
85392646 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
85392673 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
85392700 CCCTCGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
85392727 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
85392754 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCGTTTTA
85392781 CCCTCGATT
1 CCCTCGATT
85392790 GTGAAATTAT
Statistics
Matches: 151, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 149 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:85392730 original size:81 final size:81
Alignment explanation
Indices: 85392592--85392789 Score: 299
Period size: 81 Copynumber: 2.4 Consensus size: 81
85392582 TTGGGTTGGG
* *
85392592 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTA
* *
85392657 CAAAATTATCGTTTTA
66 CAAAATTACCATTTTA
* *
85392673 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTA
85392738 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * *
85392754 CCCTC-AGTTTACAAAATTACCGTTTTACCCTCGATT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCGATT
85392790 GTGAAATTAT
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 106 0.99
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTA
CAAAATTACCATTTTA
Found at i:85392811 original size:27 final size:27
Alignment explanation
Indices: 85392802--85392943 Score: 189
Period size: 27 Copynumber: 5.3 Consensus size: 27
85392792 GAAATTATTG
85392802 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCCTAGTTTGTAAAATTACCA
85392829 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCCTAGTTTGTAAAATTACCA
*
85392856 AAATATCCCC-AGTTTGTAAAATTACCG
1 AAATA-CCCCTAGTTTGTAAAATTACCA
* * *
85392883 AAATACCACTGGTTTGTGAAATTACCA
1 AAATACCCCTAGTTTGTAAAATTACCA
* * *
85392910 AAATA-CCCTCAATTTCTAAAATTACCG
1 AAATACCCCT-AGTTTGTAAAATTACCA
85392937 AAATACC
1 AAATACC
85392944 ATTACTTTTT
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.06
27 89 0.89
28 5 0.05
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATACCCCTAGTTTGTAAAATTACCA
Found at i:85395692 original size:40 final size:40
Alignment explanation
Indices: 85395598--85395729 Score: 169
Period size: 40 Copynumber: 3.3 Consensus size: 40
85395588 TATTCGAATG
* *
85395598 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGGGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* *
85395639 ATAAT-CGGACTAAGAT-CTGAAGGCATTTGTGCTAGTGACT
1 AT-ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* *
85395679 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
85395719 ATATCCGGGCT
1 ATATCCGGGCT
85395730 GACCTTTGTT
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
39 3 0.04
40 47 0.59
41 26 0.33
42 3 0.04
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:85398741 original size:28 final size:27
Alignment explanation
Indices: 85398694--85398839 Score: 125
Period size: 27 Copynumber: 5.4 Consensus size: 27
85398684 TGGATAAGTT
*
85398694 ATAGAATTA-CTAAATACCCTTGTAAGG
1 ATAGAATTACCGAAATACCCTTGT-AGG
* *
85398721 -TAGAATTATCGAAATACCCCTGTAGG
1 ATAGAATTACCGAAATACCCTTGTAGG
* * *
85398747 ATAAAATTATCGAAATACCCTTATAGG
1 ATAGAATTACCGAAATACCCTTGTAGG
* * * *
85398774 CTAGAAATACCAAAATACCCCTGTAGGG
1 ATAGAATTACCGAAATACCCTTGTA-GG
* * *
85398802 GTAGAATTACCGAGATACCCTTGTGGG
1 ATAGAATTACCGAAATACCCTTGTAGG
* *
85398829 GTAAAATTACC
1 ATAGAATTACC
85398840 ATTTTACCCC
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
26 11 0.11
27 65 0.67
28 21 0.22
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
ATAGAATTACCGAAATACCCTTGTAGG
Found at i:85398779 original size:54 final size:55
Alignment explanation
Indices: 85398705--85398823 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 55
85398695 TAGAATTACT
* * * * *
85398705 AAATACCCTTGTAAGGTAGAATTATCGAAATACCCCTGTA-GGATAAAATTATCG
1 AAATACCCTTATAAGGTAGAAATACCAAAATACCCCTGTAGGGATAAAATTACCG
* *
85398759 AAATACCCTTAT-AGGCTAGAAATACCAAAATACCCCTGTAGGGGTAGAATTACCG
1 AAATACCCTTATAAGG-TAGAAATACCAAAATACCCCTGTAGGGATAAAATTACCG
*
85398814 AGATACCCTT
1 AAATACCCTT
85398824 GTGGGGTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 3 0.05
54 32 0.58
55 20 0.36
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (55 bp):
AAATACCCTTATAAGGTAGAAATACCAAAATACCCCTGTAGGGATAAAATTACCG
Found at i:85399285 original size:8 final size:8
Alignment explanation
Indices: 85399269--85399301 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
85399259 ATGGGCTGAA
85399269 AACGGGCC
1 AACGGGCC
*
85399277 AATGGGCC
1 AACGGGCC
85399285 AACGGGCC
1 AACGGGCC
85399293 AACGGGCC
1 AACGGGCC
85399301 A
1 A
85399302 CTTTGGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.27, C:0.33, G:0.36, T:0.03
Consensus pattern (8 bp):
AACGGGCC
Found at i:85399598 original size:27 final size:26
Alignment explanation
Indices: 85399554--85399605 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
85399544 CTCACTGCAA
*
85399554 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
85399581 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
85399606 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:85399643 original size:67 final size:69
Alignment explanation
Indices: 85399535--85399679 Score: 222
Period size: 67 Copynumber: 2.1 Consensus size: 69
85399525 GAGGAAGCGT
* * *
85399535 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCCAC-ATATATCTGT-TCTGGTGACTTCGTCAC
1 TCTGGCAGCCTCACTACAATCTGGTGGCCTCGCCACAATATATATGTATCTAGTGACTTCGTCAC
85399598 AATA
66 AATA
* *
85399602 TCTGGCAGCCTCGCTACAATCTGGTGGCTTCGCCACATATATATATGTATCTAGTGACTTCGTCA
1 TCTGGCAGCCTCACTACAATCTGGTGGCCTCGCCACA-ATATATATGTATCTAGTGACTTCGTCA
85399667 CAATA
65 CAATA
85399672 TCTGGCAG
1 TCTGGCAG
85399680 TCTTCTGCAA
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
67 33 0.47
69 9 0.13
70 28 0.40
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (69 bp):
TCTGGCAGCCTCACTACAATCTGGTGGCCTCGCCACAATATATATGTATCTAGTGACTTCGTCAC
AATA
Found at i:85403358 original size:32 final size:32
Alignment explanation
Indices: 85403317--85403381 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
85403307 TTGAGCTGTT
85403317 CCCTTGGGTTGGGTTCAGTATTACTTGGCAAA
1 CCCTTGGGTTGGGTTCAGTATTACTTGGCAAA
85403349 CCCTTGGGTTGGGTTCAGTATTACTTGGCAAA
1 CCCTTGGGTTGGGTTCAGTATTACTTGGCAAA
85403381 C
1 C
85403382 TACCTTGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (32 bp):
CCCTTGGGTTGGGTTCAGTATTACTTGGCAAA
Found at i:85417460 original size:27 final size:27
Alignment explanation
Indices: 85417437--85417626 Score: 227
Period size: 27 Copynumber: 7.0 Consensus size: 27
85417427 CAAAATTATT
*
85417437 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
85417464 GAAATACCCCTATATGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
85417491 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
85417518 GAAATACCCCTATAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
85417545 AAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
85417572 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * * *
85417599 TAGATACCCTTGTGGGGGTAAAATTACC
1 GAAATACCCCTGT-AGGGTAGAATTACC
85417627 ATTTTGCCCC
Statistics
Matches: 138, Mismatches: 24, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
27 126 0.91
28 12 0.09
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:85418055 original size:22 final size:22
Alignment explanation
Indices: 85418030--85418078 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
85418020 ATGGCTTTAC
85418030 GCCAACCT-ACATATGGCTCTGT
1 GCCAACCTGA-ATATGGCTCTGT
* *
85418052 GCCAACCTGATTATGGCTGTGT
1 GCCAACCTGAATATGGCTCTGT
85418074 GCCAA
1 GCCAA
85418079 ACGTATTCGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (22 bp):
GCCAACCTGAATATGGCTCTGT
Found at i:85418317 original size:27 final size:26
Alignment explanation
Indices: 85418286--85418344 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
85418276 CAAATATCTA
*
85418286 TTCTGGTGGCTCTGCCACAATACCTG
1 TTCTGGTGACTCTGCCACAATACCTG
* *
85418312 TATCTGGTGACTCTGTCACAATATCTG
1 T-TCTGGTGACTCTGCCACAATACCTG
85418339 TTCTGG
1 TTCTGG
85418345 CAGCCGTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
TTCTGGTGACTCTGCCACAATACCTG
Found at i:85418471 original size:6 final size:6
Alignment explanation
Indices: 85418462--85418549 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
85418452 TTGCATTCAC
* *
85418462 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TGTCCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT-T-CTG
* *
85418512 ATTCTG ATTCTG ATTCTT ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
85418550 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 4 0.06
6 53 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:85418493 original size:25 final size:25
Alignment explanation
Indices: 85418465--85418528 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
85418455 CATTCACATT
*
85418465 CTGATTCTGATTCTGT-TACCTGATA
1 CTGATTCTGATTCTGTGT-CCTAATA
*
85418490 CTGATTCTGATTCTGTGTCCTAATT
1 CTGATTCTGATTCTGTGTCCTAATA
85418515 CTGATTCTGATTCT
1 CTGATTCTGATTCT
85418529 TATTTTGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTGTCCTAATA
Found at i:85418597 original size:31 final size:32
Alignment explanation
Indices: 85418562--85418626 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 32
85418552 TGTTTCTTAT
* *
85418562 TCTG-TAATGGGCTAAGGCCCATTTGGTACTG
1 TCTGTTAATGGGCTAAGGCCCAATTGATACTG
85418593 TCTGTTATAATGGGCTAAGGCCCAATTGATACTG
1 TCTG-T-TAATGGGCTAAGGCCCAATTGATACTG
85418627 AAACTGTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 4 0.14
34 25 0.86
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (32 bp):
TCTGTTAATGGGCTAAGGCCCAATTGATACTG
Found at i:85423108 original size:13 final size:13
Alignment explanation
Indices: 85423090--85423118 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
85423080 GGTTGTTTAT
85423090 TAAACTAATTAAC
1 TAAACTAATTAAC
85423103 TAAACTAATTAAC
1 TAAACTAATTAAC
85423116 TAA
1 TAA
85423119 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:85427727 original size:11 final size:11
Alignment explanation
Indices: 85427719--85427744 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
85427709 AGGAAAAATG
85427719 GAGGGAAAAGT
1 GAGGGAAAAGT
85427730 GAGGGAAAAGT
1 GAGGGAAAAGT
85427741 GAGG
1 GAGG
85427745 ATTGATGCAG
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:0.42, C:0.00, G:0.50, T:0.08
Consensus pattern (11 bp):
GAGGGAAAAGT
Found at i:85430709 original size:28 final size:28
Alignment explanation
Indices: 85430670--85430727 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
85430660 GGCCTTGGTA
85430670 AAATGCTTGATTAAGTGGAATCATGCCT
1 AAATGCTTGATTAAGTGGAATCATGCCT
85430698 AAATGCTTGATTAAGTGGAATCATGCCT
1 AAATGCTTGATTAAGTGGAATCATGCCT
85430726 AA
1 AA
85430728 GTTATTCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (28 bp):
AAATGCTTGATTAAGTGGAATCATGCCT
Done.