Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 250 of 290
Found at i:86255614 original size:76 final size:76
Alignment explanation
Indices: 86255514--86255701 Score: 227
Period size: 76 Copynumber: 2.5 Consensus size: 76
86255504 GCAACGATGG
** *
86255514 CTTACCACCTT-GGATTGCCCGGCTATGATGGTTTTCTCATTCAATAATGTCACCCTGGGTTGCT
1 CTTACCA-CTTCGGATTGCCCGGCTATGATGGTTTTCTCATTCAATAATACCACCCTGGATTGC-
86255578 CAG-CAATAATGA
64 CAGACAATAATGA
** * *
86255590 CTTACCACTTCGGATTGCCCGGCTATGATGGTTTTCTCATTCAATTCTACCATCCTGGATTGCCT
1 CTTACCACTTCGGATTGCCCGGCTATGATGGTTTTCTCATTCAATAATACCACCCTGGATTGCCA
86255655 GACAATAATGA
66 GACAATAATGA
** * ***
86255666 CTTACCACCCCGAATTGCCCGAAAATGATGGTTTTC
1 CTTACCACTTCGGATTGCCCGGCTATGATGGTTTTC
86255702 ACTATTCATT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
75 5 0.05
76 92 0.95
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (76 bp):
CTTACCACTTCGGATTGCCCGGCTATGATGGTTTTCTCATTCAATAATACCACCCTGGATTGCCA
GACAATAATGA
Found at i:86257640 original size:37 final size:37
Alignment explanation
Indices: 86257599--86257673 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
86257589 ATATAAACAT
86257599 AATTAAAACAACTATAAAAACACTCTAAACCACTCTA
1 AATTAAAACAACTATAAAAACACTCTAAACCACTCTA
86257636 AATTAAAACAACTATAAAAACACTCTAAACCACTCTA
1 AATTAAAACAACTATAAAAACACTCTAAACCACTCTA
86257673 A
1 A
86257674 CTTGATTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (37 bp):
AATTAAAACAACTATAAAAACACTCTAAACCACTCTA
Found at i:86269629 original size:26 final size:26
Alignment explanation
Indices: 86269582--86269634 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
86269572 GAAATAGTAA
* * *
86269582 ATTATATTTATTTATATTAATATTTT
1 ATTATATTTATTAATATAAATAATTT
86269608 ATTATA-TTATTAAGTATAAATAATTT
1 ATTATATTTATTAA-TATAAATAATTT
86269634 A
1 A
86269635 ACATGTATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTATATTTATTAATATAAATAATTT
Found at i:86275737 original size:17 final size:19
Alignment explanation
Indices: 86275696--86275738 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
86275686 AGCAATACAT
86275696 ATATTATTATATACATATG
1 ATATTATTATATACATATG
*
86275715 ATTATTATT-TTTACATATG
1 A-TATTATTATATACATATG
86275734 -TATTA
1 ATATTA
86275739 ATCCAACACC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
19 10 0.45
20 7 0.32
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATATTATTATATACATATG
Found at i:86276585 original size:28 final size:28
Alignment explanation
Indices: 86276552--86276605 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
86276542 TAGGTGAAAT
* *
86276552 TTTGTATTAGTATCAAATTAAAATTAAA
1 TTTGTATTACTATCAAAATAAAATTAAA
*
86276580 TTTGTATTACTATTAAAATAAAATTA
1 TTTGTATTACTATCAAAATAAAATTA
86276606 TTTATATAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (28 bp):
TTTGTATTACTATCAAAATAAAATTAAA
Found at i:86289181 original size:40 final size:40
Alignment explanation
Indices: 86289111--86289328 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
86289101 AAGTCAGGTA
* * * *
86289111 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
86289150 CCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
86289190 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
86289230 CCTTCGAGACTTAACCCGGATATAGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
86289270 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
86289310 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
86289329 TTATCATCCA
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.08
40 146 0.92
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:86291448 original size:31 final size:31
Alignment explanation
Indices: 86291413--86291473 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
86291403 TTAGTGATTC
* *
86291413 AAATAAAAAATTTCAAATAGTTTAATGACTT
1 AAATAAAAAATTTCAAATAATTCAATGACTT
* *
86291444 AAATAAAAACTTTCGAATAATTCAATGACT
1 AAATAAAAAATTTCAAATAATTCAATGACT
86291474 ATTTTGTAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (31 bp):
AAATAAAAAATTTCAAATAATTCAATGACTT
Found at i:86292272 original size:6 final size:6
Alignment explanation
Indices: 86292261--86292292 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
86292251 TTTTTTATAA
86292261 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TT
86292293 AAAAGTGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTAAT
Found at i:86295790 original size:17 final size:16
Alignment explanation
Indices: 86295762--86295793 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
86295752 AACTTAAAAA
86295762 ATTTAAATATATTTAT
1 ATTTAAATATATTTAT
86295778 ATTTAACATATATTTA
1 ATTTAA-ATATATTTA
86295794 CAAAATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTAAATATATTTAT
Found at i:86295877 original size:3 final size:3
Alignment explanation
Indices: 86295869--86295902 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
86295859 AATCACTCTT
86295869 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
86295903 AATTGGCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:86299598 original size:21 final size:21
Alignment explanation
Indices: 86299574--86299615 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
86299564 AAAATAAGTA
86299574 GATTTTTATTTTATTTCAATC
1 GATTTTTATTTTATTTCAATC
86299595 GATTTTTATTTTATTTCAATC
1 GATTTTTATTTTATTTCAATC
86299616 TTGGCATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.62
Consensus pattern (21 bp):
GATTTTTATTTTATTTCAATC
Found at i:86302640 original size:46 final size:46
Alignment explanation
Indices: 86302466--86302647 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
86302456 TTTGACATGA
* * * * * *
86302466 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * *
86302512 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
86302558 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
86302604 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
86302648 AGAGCACATT
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 119 0.97
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:86304480 original size:11 final size:11
Alignment explanation
Indices: 86304464--86304488 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
86304454 CTTTATATGC
86304464 TAATAAAATAA
1 TAATAAAATAA
86304475 TAATAAAATAA
1 TAATAAAATAA
86304486 TAA
1 TAA
86304489 AATATCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:86306848 original size:14 final size:13
Alignment explanation
Indices: 86306829--86306859 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
86306819 TTCTTTCCCT
86306829 TTTCTTTCTTTTTC
1 TTTCTTTC-TTTTC
86306843 TTTCTTTCTTTTC
1 TTTCTTTCTTTTC
86306856 TTTC
1 TTTC
86306860 AAATTTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTCTTTCTTTTC
Found at i:86308099 original size:62 final size:62
Alignment explanation
Indices: 86308017--86308142 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
86308007 TTTTACAACA
*
86308017 TCAACAGGACCTGTAACATGCTCAAGTTCAACATTTGCAACATGCTTAGGCAAGAACTGGAC
1 TCAACAGAACCTGTAACATGCTCAAGTTCAACATTTGCAACATGCTTAGGCAAGAACTGGAC
* *
86308079 TCAACAGAACCTGTAGCATGCTCAAGTTCAACATTTGCAACATGTTTAGGCAAGAACTGGAC
1 TCAACAGAACCTGTAACATGCTCAAGTTCAACATTTGCAACATGCTTAGGCAAGAACTGGAC
86308141 TC
1 TC
86308143 CAGTGTCGAG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (62 bp):
TCAACAGAACCTGTAACATGCTCAAGTTCAACATTTGCAACATGCTTAGGCAAGAACTGGAC
Found at i:86309020 original size:21 final size:21
Alignment explanation
Indices: 86308986--86309026 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
86308976 ATGTTTACTT
*
86308986 ATTATATAAGTATATTATTAA
1 ATTATATAAGTATAATATTAA
* *
86309007 ATTATATTATTATAATATTA
1 ATTATATAAGTATAATATTA
86309027 TTATAAAGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTATATAAGTATAATATTAA
Found at i:86309077 original size:19 final size:19
Alignment explanation
Indices: 86309040--86309094 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
86309030 TAAAGCAAAT
86309040 GAAACAAATGAAATA-AAAA
1 GAAACAAA-GAAATAGAAAA
*
86309059 GAAATAAAGAAATAGAAAA
1 GAAACAAAGAAATAGAAAA
*
86309078 GAAACAAAGAAACAGAA
1 GAAACAAAGAAATAGAA
86309095 TATGAAACGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 6 0.19
19 26 0.81
ACGTcount: A:0.73, C:0.05, G:0.15, T:0.07
Consensus pattern (19 bp):
GAAACAAAGAAATAGAAAA
Found at i:86309141 original size:19 final size:19
Alignment explanation
Indices: 86309117--86309157 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
86309107 ACAGAGAAGA
*
86309117 AAAGAAGGAAAGAAAGGG-G
1 AAAGAAAGAAA-AAAGGGAG
86309136 AAAGAAAGAAAAAAGGGAG
1 AAAGAAAGAAAAAAGGGAG
86309155 AAA
1 AAA
86309158 TTGAGGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAAAAAGGGAG
Found at i:86310311 original size:44 final size:44
Alignment explanation
Indices: 86310262--86310356 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
86310252 TGTTCAGGGA
*
86310262 TACTTCGACCTT-GAGTCGATGAGGCA-CTATAAGTGTCGTACTGT
1 TACTTCGA-CTTCAAGTCGATGAGGCACCT-TAAGTGTCGTACTGT
* **
86310306 TACTTCGACTTCAAGTTGATGAGGCACCTTGTGTGTCGTACTGT
1 TACTTCGACTTCAAGTCGATGAGGCACCTTAAGTGTCGTACTGT
86310350 TACTTCG
1 TACTTCG
86310357 GATGATTCCG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 3 0.07
44 40 0.89
45 2 0.04
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (44 bp):
TACTTCGACTTCAAGTCGATGAGGCACCTTAAGTGTCGTACTGT
Found at i:86310528 original size:18 final size:18
Alignment explanation
Indices: 86310505--86310616 Score: 100
Period size: 18 Copynumber: 6.2 Consensus size: 18
86310495 TAAATAAAAG
* *
86310505 TACTGAATGACTGATTGT
1 TACTGAATAATTGATTGT
*
86310523 TACTGAATAATTGATCGT
1 TACTGAATAATTGATTGT
* *
86310541 TACTGAAGAATTGATTGC
1 TACTGAATAATTGATTGT
** *
86310559 TACTGAGCAAATGATTGT
1 TACTGAATAATTGATTGT
* * *
86310577 TACTAAATAACTAATTGCT
1 TACTGAATAATTGATTG-T
*
86310596 T-CTGAATAATTGAATGT
1 TACTGAATAATTGATTGT
86310613 TACT
1 TACT
86310617 AAATGAAATT
Statistics
Matches: 73, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
17 2 0.03
18 69 0.95
19 2 0.03
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TACTGAATAATTGATTGT
Found at i:86312264 original size:17 final size:18
Alignment explanation
Indices: 86312242--86312275 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
86312232 AAAATTTATA
86312242 AAAATTAATTTA-AAAAC
1 AAAATTAATTTAGAAAAC
86312259 AAAATTAATTTAGAAAA
1 AAAATTAATTTAGAAAA
86312276 AAACATACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAATTAATTTAGAAAAC
Found at i:86312474 original size:24 final size:25
Alignment explanation
Indices: 86312415--86312478 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
86312405 ATTTAATTTA
86312415 AAAAAACTAATATTTTTTTCATTCTT
1 AAAAAACTAATA-TTTTTTCATTCTT
** *
86312441 TTAAAA--AATATTTTTTCCTT-TT
1 AAAAAACTAATATTTTTTCATTCTT
86312463 AAAAAACTAATATTTT
1 AAAAAACTAATATTTT
86312479 AAATTTTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
22 6 0.19
23 9 0.29
24 12 0.39
26 4 0.13
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (25 bp):
AAAAAACTAATATTTTTTCATTCTT
Found at i:86312645 original size:16 final size:16
Alignment explanation
Indices: 86312624--86312659 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
86312614 TTTGGTTCGC
86312624 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
86312640 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
86312656 TGTA
1 TGTA
86312660 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:86312724 original size:44 final size:45
Alignment explanation
Indices: 86312640--86312730 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
86312630 GGATTAGAGG
* * *
86312640 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
86312685 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
86312729 TG
1 TG
86312731 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:86312916 original size:18 final size:17
Alignment explanation
Indices: 86312895--86312929 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
86312885 TTATTATTAA
*
86312895 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
86312913 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
86312930 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:86313036 original size:18 final size:17
Alignment explanation
Indices: 86313015--86313049 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
86313005 TTATTATTAA
*
86313015 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
86313033 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
86313050 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:86313156 original size:18 final size:17
Alignment explanation
Indices: 86313135--86313169 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
86313125 TTATTATTAA
*
86313135 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
86313153 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
86313170 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:86313541 original size:120 final size:120
Alignment explanation
Indices: 86312878--86313530 Score: 1103
Period size: 120 Copynumber: 5.4 Consensus size: 120
86312868 ATCATATTTA
86312878 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
86312943 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
86312998 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
86313063 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
86313118 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
86313183 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* * *
86313238 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAGTAAAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
* * * * * *
86313302 ATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTT
65 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* * *
86313358 AAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * * * *
86313423 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
86313478 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
86313531 TAAAATAATT
Statistics
Matches: 511, Mismatches: 19, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
119 3 0.01
120 503 0.98
121 5 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:86313584 original size:101 final size:93
Alignment explanation
Indices: 86313471--86313754 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
86313461 ACTATAAAAG
* * * *
86313471 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
*
86313535 ATAATTACAACTAATAAATTATCTTATATGAATTTGT
62 -T-ATT--AA-TAATAAATTATCTTATATGAATTTAT
* * *
86313572 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTATT
* *
86313635 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* * *
86313663 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTATT
* *
86313726 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
86313754 A
1 A
86313755 CAATAGATAT
Statistics
Matches: 168, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
91 112 0.67
92 1 0.01
94 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTATT
AATAATAAATTATCTTATATGAATTTAT
Found at i:86313600 original size:26 final size:28
Alignment explanation
Indices: 86313571--86313631 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
86313561 TATGAATTTG
*
86313571 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
86313597 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
86313625 TAAAATT
1 TATAATT
86313632 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:86313629 original size:47 final size:46
Alignment explanation
Indices: 86313578--86313721 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
86313568 TTGTATAATT
86313578 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
86313625 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
86313669 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
86313716 TAAAAT
1 TAAAAT
86313722 TCTTGATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:86313641 original size:91 final size:91
Alignment explanation
Indices: 86313546--86313758 Score: 372
Period size: 91 Copynumber: 2.3 Consensus size: 91
86313536 TAATTACAAC
* * * * *
86313546 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
86313611 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
86313637 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
86313702 GATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
86313728 TAATAAATTTTCTTATATGAATTTATACAAT
1 TAATAAATTTTCTTATATGAATTTATACAAT
86313759 AGATATTTAA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 116 1.00
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTGA
Found at i:86313735 original size:47 final size:47
Alignment explanation
Indices: 86313596--86313735 Score: 139
Period size: 47 Copynumber: 3.0 Consensus size: 47
86313586 TTATTATTAC
*
86313596 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
* * * ** * *
86313643 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTGATAATAA
86313687 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
86313734 AT
1 AT
86313736 TTTCTTATAT
Statistics
Matches: 69, Mismatches: 15, Indels: 18
0.68 0.15 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
Found at i:86319606 original size:18 final size:19
Alignment explanation
Indices: 86319579--86319630 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
86319569 TGATTGATAT
86319579 AATA-AAAATTAATTTTAA
1 AATATAAAATTAATTTTAA
* * *
86319597 ACT-TAAAATTAGTTATAA
1 AATATAAAATTAATTTTAA
*
86319615 AATATAAAATTTATTT
1 AATATAAAATTAATTT
86319631 AATATTTTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 3
0.71 0.20 0.09
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
AATATAAAATTAATTTTAA
Found at i:86324473 original size:16 final size:16
Alignment explanation
Indices: 86324452--86324482 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
86324442 GGCTGGGAAA
86324452 AACAGACTGCAGATAT
1 AACAGACTGCAGATAT
86324468 AACAGACTGCAGATA
1 AACAGACTGCAGATA
86324483 AGTGATCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.16
Consensus pattern (16 bp):
AACAGACTGCAGATAT
Found at i:86325076 original size:21 final size:20
Alignment explanation
Indices: 86325052--86325097 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
86325042 AATTTTTAAG
86325052 TTTTAAGTTTTTTATTTTTAT
1 TTTTAA-TTTTTTATTTTTAT
*
86325073 TTTTTATTTTTTATTTTTTAT
1 TTTTAATTTTTTA-TTTTTAT
86325094 TTTT
1 TTTT
86325098 TTACTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (20 bp):
TTTTAATTTTTTATTTTTAT
Found at i:86325105 original size:9 final size:8
Alignment explanation
Indices: 86325066--86325107 Score: 54
Period size: 7 Copynumber: 5.5 Consensus size: 8
86325056 AAGTTTTTTA
86325066 TTTTTA-T
1 TTTTTATT
86325073 TTTTTA-T
1 TTTTTATT
86325080 TTTTTA-T
1 TTTTTATT
86325087 TTTTTATT
1 TTTTTATT
86325095 TTTTTACTT
1 TTTTTA-TT
86325104 TTTT
1 TTTT
86325108 GAAGATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 20 0.61
8 7 0.21
9 6 0.18
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTATT
Found at i:86325125 original size:7 final size:7
Alignment explanation
Indices: 86325059--86325098 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
86325049 AAGTTTTAAG
86325059 TTTTTTA
1 TTTTTTA
86325066 -TTTTTA
1 TTTTTTA
86325072 TTTTTTA
1 TTTTTTA
86325079 TTTTTTA
1 TTTTTTA
86325086 TTTTTTA
1 TTTTTTA
86325093 TTTTTT
1 TTTTTT
86325099 TACTTTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:86325125 original size:8 final size:8
Alignment explanation
Indices: 86325039--86325131 Score: 54
Period size: 8 Copynumber: 11.8 Consensus size: 8
86325029 ATATTAAATA
*
86325039 TTAAATTT
1 TTAATTTT
*
86325047 TTAA-GTT
1 TTAATTTT
86325054 TTAAGTTTT
1 TTAA-TTTT
86325063 TT-A-TTT
1 TTAATTTT
86325069 TT-ATTTT
1 TTAATTTT
86325076 TT-ATTTT
1 TTAATTTT
86325083 TT-ATTTT
1 TTAATTTT
*
86325090 TTATTTTT
1 TTAATTTT
*
86325098 TTACTTTT
1 TTAATTTT
86325106 TTGAAGATTTTT
1 TT--A-A-TTTT
86325118 TTAATTTT
1 TTAATTTT
*
86325126 TAAATT
1 TTAATT
86325132 ATCATATAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 16
0.76 0.06 0.17
Matches are distributed among these distances:
6 6 0.08
7 25 0.35
8 27 0.38
9 5 0.07
10 2 0.03
12 6 0.08
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.72
Consensus pattern (8 bp):
TTAATTTT
Found at i:86325724 original size:15 final size:15
Alignment explanation
Indices: 86325691--86325733 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
86325681 TTATCTCTTA
*
86325691 CATAA-CCATAAA-T
1 CATAATCCATAAACC
*
86325704 CATAATCCCTAAACC
1 CATAATCCATAAACC
86325719 CATAATCCATAAACC
1 CATAATCCATAAACC
86325734 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 14 0.56
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:86325738 original size:22 final size:22
Alignment explanation
Indices: 86325696--86325782 Score: 52
Period size: 22 Copynumber: 4.0 Consensus size: 22
86325686 TCTTACATAA
*
86325696 CCATAAATCATAATCCCTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
86325718 CCAT-AATCCATAAACCTTAAAA
1 CCATAAAT-CATAAACCCTAAAC
** * * **
86325740 TAATAACTCATACACTTTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
86325762 CC-TAAACCCTAAACCCTAAAC
1 CCATAAATCATAAACCCTAAAC
86325783 TATAATGATA
Statistics
Matches: 46, Mismatches: 17, Indels: 5
0.68 0.25 0.07
Matches are distributed among these distances:
21 16 0.35
22 28 0.61
23 2 0.04
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (22 bp):
CCATAAATCATAAACCCTAAAC
Found at i:86325769 original size:7 final size:7
Alignment explanation
Indices: 86325757--86325782 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
86325747 TCATACACTT
86325757 TAAACCC
1 TAAACCC
86325764 TAAACCC
1 TAAACCC
86325771 TAAACCC
1 TAAACCC
86325778 TAAAC
1 TAAAC
86325783 TATAATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:86325903 original size:15 final size:15
Alignment explanation
Indices: 86325879--86325920 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
86325869 CACTAACTAA
86325879 TCTAAACCCTAAACT
1 TCTAAACCCTAAACT
* *
86325894 TCTAATCCCTAAACC
1 TCTAAACCCTAAACT
*
86325909 T-TAAACCTTAAA
1 TCTAAACCCTAAA
86325921 ACATAAGCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.40, C:0.31, G:0.00, T:0.29
Consensus pattern (15 bp):
TCTAAACCCTAAACT
Found at i:86325952 original size:21 final size:21
Alignment explanation
Indices: 86325928--86325970 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
86325918 AAAACATAAG
86325928 CCCTGAA-CCATGAACCCCTAA
1 CCCTGAACCCAT-AACCCCTAA
* *
86325949 CCCTTAACCCCTAACCCCTAA
1 CCCTGAACCCATAACCCCTAA
86325970 C
1 C
86325971 ACTTAAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.30, C:0.49, G:0.05, T:0.16
Consensus pattern (21 bp):
CCCTGAACCCATAACCCCTAA
Found at i:86325957 original size:14 final size:14
Alignment explanation
Indices: 86325940--86325997 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
86325930 CTGAACCATG
86325940 AACCCCTAACCCTT
1 AACCCCTAACCCTT
*
86325954 AACCCCTAACCCCT
1 AACCCCTAACCCTT
* * **
86325968 AACACTTAAATCTT
1 AACCCCTAACCCTT
86325982 AAACCCC-AACCCTT
1 -AACCCCTAACCCTT
86325996 AA
1 AA
86325998 ATGACCTTTA
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
13 2 0.06
14 27 0.82
15 4 0.12
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (14 bp):
AACCCCTAACCCTT
Found at i:86325970 original size:7 final size:7
Alignment explanation
Indices: 86325940--86325970 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
86325930 CTGAACCATG
86325940 AACCCCT
1 AACCCCT
*
86325947 AACCCTT
1 AACCCCT
86325954 AACCCCT
1 AACCCCT
86325961 AACCCCT
1 AACCCCT
86325968 AAC
1 AAC
86325971 ACTTAAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCCT
Found at i:86326334 original size:41 final size:40
Alignment explanation
Indices: 86326257--86326343 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 40
86326247 TCAAATACAT
86326257 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATA
* * * **
86326298 TTAAAACAATTATTAAAACAATAGACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
*
86326338 ATAAAA
1 TTAAAA
86326344 AGTGATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 8 0.20
41 32 0.80
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.23
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:86326685 original size:81 final size:80
Alignment explanation
Indices: 86326534--86326780 Score: 316
Period size: 81 Copynumber: 3.0 Consensus size: 80
86326524 ATTATATGAC
* * *
86326534 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGTTCTAGTTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCGGCGTTTTACCAAAAGC
86326599 GCCGCTAATGCTCTGGT
65 GCCGCTAATGCTCT-GT
* * *
86326616 TTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGTTTTTAACGGCGTTTTACCAAAAGTG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGGCGTTTTACCAAAAGCG
*
86326681 CCGCTAATGTTCTGT
66 CCGCTAATGCTCTGT
* * * * * * *
86326696 TTTTAGAGGCGTTTTAACAAAAAACGCTGCTATTGCTCTATTTTTAGCGGCGTTTTACCAAAAAC
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGGCGTTTTACCAAAAGC
*
86326761 GCCGCTATTGCT-TCGT
65 GCCGCTAATGCTCT-GT
86326777 TTTT
1 TTTT
86326781 TATAATTTTT
Statistics
Matches: 144, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
80 17 0.12
81 93 0.65
82 34 0.24
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (80 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGGCGTTTTACCAAAAGCG
CCGCTAATGCTCTGT
Found at i:86326782 original size:41 final size:40
Alignment explanation
Indices: 86326534--86326780 Score: 316
Period size: 41 Copynumber: 6.1 Consensus size: 40
86326524 ATTATATGAC
* * *
86326534 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGTTCTAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
86326575 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
*
86326616 TTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * *
86326656 TTTTAACGGCGTTTTACCAAAAGTGCCGCTAATGTTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * * * * *
86326696 TTTTAGAGGCGTTTTAACAAAAAACGCTGCTATTGCTCTAT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGT
* *
86326737 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCT-TCGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
86326777 TTTT
1 TTTT
86326781 TATAATTTTT
Statistics
Matches: 182, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 75 0.41
41 106 0.58
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:86330357 original size:35 final size:35
Alignment explanation
Indices: 86330330--86330495 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
86330320 CATGGCAAAG
*
86330330 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
86330365 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
86330400 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
86330440 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
86330475 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
86330496 TTCAATAAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:86330449 original size:75 final size:75
Alignment explanation
Indices: 86330330--86330500 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
86330320 CATGGCAAAG
** *
86330330 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
86330389 CCATACTGAGC
65 CCATACCGAGC
86330400 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
86330465 CATACCGAGT
66 CATACCGAGC
**
86330475 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
86330501 TAAGGAAAAT
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:86344070 original size:29 final size:29
Alignment explanation
Indices: 86344028--86344087 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
86344018 GTAAAAGAAG
86344028 TCAGTTATTTTCCCTCTTATGGTTGTTCA
1 TCAGTTATTTTCCCTCTTATGGTTGTTCA
86344057 TCAGTTATTTTCCCTCTTATGGTTGTTCA
1 TCAGTTATTTTCCCTCTTATGGTTGTTCA
86344086 TC
1 TC
86344088 TTACAATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.13, C:0.22, G:0.13, T:0.52
Consensus pattern (29 bp):
TCAGTTATTTTCCCTCTTATGGTTGTTCA
Found at i:86345456 original size:33 final size:33
Alignment explanation
Indices: 86345411--86345499 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 33
86345401 TGAATACTCC
*
86345411 TAATTTGGATGCAAATTAAAGA-TTAACAACTTA
1 TAATTTGAATGCAAATTAAA-ATTTAACAACTTA
* *
86345444 TAATTTGAATGCAACTTAAAATTTAAGAAC-T-
1 TAATTTGAATGCAAATTAAAATTTAACAACTTA
* *
86345475 T-ATTTGAGTGCTAATTAAAATTTAA
1 TAATTTGAATGCAAATTAAAATTTAA
86345500 AGGCTTATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
30 21 0.43
31 1 0.02
32 2 0.04
33 25 0.51
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (33 bp):
TAATTTGAATGCAAATTAAAATTTAACAACTTA
Found at i:86346501 original size:24 final size:24
Alignment explanation
Indices: 86346465--86346513 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
86346455 TACGGGTAAA
* *
86346465 ATCAAGTGATACTAGCCAAAATTT
1 ATCAACTGATACTAACCAAAATTT
*
86346489 ATCAACTGGTACTAACCAAAATTT
1 ATCAACTGATACTAACCAAAATTT
86346513 A
1 A
86346514 CACCTGAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (24 bp):
ATCAACTGATACTAACCAAAATTT
Found at i:86353608 original size:33 final size:33
Alignment explanation
Indices: 86353571--86353638 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
86353561 CCGTGGCCTT
*
86353571 TTATTC-ACATGCCATAACCCAATTATGGTCTTA
1 TTATTCGA-ATGCCATAACCCAACTATGGTCTTA
* * *
86353604 TTATTCGATTGCCATAGCCCAGCTATGGTCTTA
1 TTATTCGAATGCCATAACCCAACTATGGTCTTA
86353637 TT
1 TT
86353639 TGGTAACTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (33 bp):
TTATTCGAATGCCATAACCCAACTATGGTCTTA
Found at i:86365944 original size:60 final size:59
Alignment explanation
Indices: 86365817--86365955 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 59
86365807 TTTAGTGTTA
* *
86365817 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTAT
* *
86365878 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TAT
* *
86365938 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
86365956 TAANNNNNNN
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
59 3 0.04
60 51 0.74
61 12 0.17
62 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACAGAGTAT
Found at i:86376386 original size:93 final size:93
Alignment explanation
Indices: 86376276--86376447 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
86376266 CGCCCATAAG
* *
86376276 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
86376341 ACAAGCTCGGATGCCTAGTTACGTCTCA
66 ACAAGCTCGGATGCCTAGTTACGTCTCA
* *
86376369 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
* *
86376434 ACGAGTTCGGATGC
66 ACAAGCTCGGATGC
86376448 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACGTCTCA
Found at i:86376444 original size:46 final size:46
Alignment explanation
Indices: 86376269--86376444 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
86376259 TGTAACCCGC
* *
86376269 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
** *
86376315 CCATAAATGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACG--T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TT-CGCAT
* *
86376365 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
86376408 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
86376445 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 11, Indels: 22
0.77 0.08 0.16
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 2 0.02
44 2 0.02
45 2 0.02
46 62 0.57
47 27 0.25
48 2 0.02
49 2 0.02
50 1 0.01
51 2 0.02
52 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:86378703 original size:39 final size:39
Alignment explanation
Indices: 86378660--86378738 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
86378650 AACATCACAG
*
86378660 GAATGCCAAACAAACACGGATAGGCTTATTGTAATATAA
1 GAATGCCAAACAAACACGAATAGGCTTATTGTAATATAA
86378699 GAATGCCAAACAAACACGAATAGGCTTATTGTAATATAA
1 GAATGCCAAACAAACACGAATAGGCTTATTGTAATATAA
86378738 G
1 G
86378739 CTTTCATTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (39 bp):
GAATGCCAAACAAACACGAATAGGCTTATTGTAATATAA
Found at i:86379358 original size:20 final size:20
Alignment explanation
Indices: 86379333--86379377 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
86379323 GTGTGGTTAC
*
86379333 ACATGCCCGTGTGGCTTGGG
1 ACATGCCCGTGTAGCTTGGG
86379353 ACATGCCCGTGTAGCTTGGG
1 ACATGCCCGTGTAGCTTGGG
86379373 ACATG
1 ACATG
86379378 TCCATGTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (20 bp):
ACATGCCCGTGTAGCTTGGG
Found at i:86381030 original size:72 final size:72
Alignment explanation
Indices: 86380951--86381118 Score: 205
Period size: 72 Copynumber: 2.3 Consensus size: 72
86380941 TGGGTCTGGG
* * **
86380951 TACACAAAGTTAGCACCC-AGACCCCAAAGCATTATCATG-TAATGCCCGCTCATTGAGCTACTC
1 TACACAAAGTCAGCACCCGAG-CCCCAAAGCATTAACATGAT-ATGCCCGCTCAGCGAGCTACTC
86381014 ACAGGTTTA
64 ACAGGTTTA
* * * *
86381023 TACACAAAGTCAGTACCCGAGCCCCAAAGCATTAACATGATATGCTCGCTCAGCGAGTTACTCAT
1 TACACAAAGTCAGCACCCGAGCCCCAAAGCATTAACATGATATGCCCGCTCAGCGAGCTACTCAC
*
86381088 GGGTTTA
66 AGGTTTA
* *
86381095 TACACAAAGTCAGTACCCGGGCCC
1 TACACAAAGTCAGCACCCGAGCCC
86381119 ACATTACATA
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
72 81 0.96
73 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (72 bp):
TACACAAAGTCAGCACCCGAGCCCCAAAGCATTAACATGATATGCCCGCTCAGCGAGCTACTCAC
AGGTTTA
Found at i:86383804 original size:19 final size:18
Alignment explanation
Indices: 86383769--86383808 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
86383759 AGTTTAACTT
86383769 TTAATTAAACATAATTAA
1 TTAATTAAACATAATTAA
*
86383787 TTAATTAAATCTTAATTAA
1 TTAATTAAA-CATAATTAA
86383806 TTA
1 TTA
86383809 GGATTTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAATTAAACATAATTAA
Found at i:86384971 original size:17 final size:18
Alignment explanation
Indices: 86384946--86384983 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
86384936 ATTGAAAAAT
*
86384946 TTTCAAATTCAAT-TTAA
1 TTTCAAATTAAATGTTAA
*
86384963 TTTCGAATTAAATGTTAA
1 TTTCAAATTAAATGTTAA
86384981 TTT
1 TTT
86384984 GAAACATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (18 bp):
TTTCAAATTAAATGTTAA
Found at i:86391570 original size:22 final size:22
Alignment explanation
Indices: 86391544--86391592 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
86391534 TTTCTATTTG
*
86391544 ATAAAAAAATTGA-AAAATAAAA
1 ATAAAAAAA-TCATAAAATAAAA
*
86391566 ATAAAAATATCATAAAATAAAA
1 ATAAAAAAATCATAAAATAAAA
86391588 ATAAA
1 ATAAA
86391593 TTTATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (22 bp):
ATAAAAAAATCATAAAATAAAA
Found at i:86391886 original size:29 final size:29
Alignment explanation
Indices: 86391841--86391896 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
86391831 AAAAATAATA
*
86391841 ACAAAAATGGGTCAATTTTGA-AAAAATTG
1 ACAAAAATGGCTCAATTTT-ACAAAAATTG
86391870 ACAAAAATAGGCT-AATTTTACAAAAAT
1 ACAAAAAT-GGCTCAATTTTACAAAAAT
86391897 GAGTCCAGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 1 0.04
29 20 0.83
30 3 0.12
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (29 bp):
ACAAAAATGGCTCAATTTTACAAAAATTG
Found at i:86392113 original size:76 final size:76
Alignment explanation
Indices: 86392032--86392174 Score: 261
Period size: 76 Copynumber: 1.9 Consensus size: 76
86392022 CATTCTCTCT
*
86392032 CCCCCCCAACGATAAAAAAA-ATAAAAAATATAAACCCTCAACACCTTCTTCTCACTCACATTTC
1 CCCCCCCAACGATAAAAAAATA-AAAAAATATAAACCCCCAACACCTTCTTCTCACTCACATTTC
86392096 TCATAGTCGTTG
65 TCATAGTCGTTG
86392108 CCCCCCCAACGATAAAAAAATAAAAAAATATAAACCCCCAACACCTTCTTCTCACTCACATTTCT
1 CCCCCCCAACGATAAAAAAATAAAAAAATATAAACCCCCAACACCTTCTTCTCACTCACATTTCT
86392173 CA
66 CA
86392175 CAATTCTCTC
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
76 64 0.98
77 1 0.02
ACGTcount: A:0.40, C:0.34, G:0.03, T:0.23
Consensus pattern (76 bp):
CCCCCCCAACGATAAAAAAATAAAAAAATATAAACCCCCAACACCTTCTTCTCACTCACATTTCT
CATAGTCGTTG
Found at i:86395326 original size:12 final size:12
Alignment explanation
Indices: 86395309--86395333 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
86395299 GCCGACTACT
86395309 GTTACTGTTACC
1 GTTACTGTTACC
86395321 GTTACTGTTACC
1 GTTACTGTTACC
86395333 G
1 G
86395334 ATTCAACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:86395436 original size:53 final size:53
Alignment explanation
Indices: 86395372--86395472 Score: 157
Period size: 53 Copynumber: 1.9 Consensus size: 53
86395362 TACTGTTACC
*
86395372 GTTACTGTTACTATTTCAAATTTGTTCCAATGAGGTACTCTGTGTACCGGAAT
1 GTTACTATTACTATTTCAAATTTGTTCCAATGAGGTACTCTGTGTACCGGAAT
** **
86395425 GTTACTATTACTATTTCGGATTTGTTCTGATGAGGTACTCTGTGTACC
1 GTTACTATTACTATTTCAAATTTGTTCCAATGAGGTACTCTGTGTACC
86395473 TACTGCTACT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.42
Consensus pattern (53 bp):
GTTACTATTACTATTTCAAATTTGTTCCAATGAGGTACTCTGTGTACCGGAAT
Found at i:86395675 original size:18 final size:18
Alignment explanation
Indices: 86395610--86395680 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
86395600 TGGAAAGATC
86395610 GACTGTTACTGAATAATTT
1 GACTGTTACTGAATAA-TT
* * * *
86395629 AATTGTTATTGTAT-ATCT
1 GACTGTTACTGAATAAT-T
* *
86395647 GATTTTTACTGAATAATT
1 GACTGTTACTGAATAATT
*
86395665 GACTGTTACTGGATAA
1 GACTGTTACTGAATAA
86395681 CCGATCAGTT
Statistics
Matches: 39, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
17 1 0.03
18 26 0.67
19 12 0.31
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.45
Consensus pattern (18 bp):
GACTGTTACTGAATAATT
Found at i:86395712 original size:18 final size:19
Alignment explanation
Indices: 86395689--86395757 Score: 56
Period size: 18 Copynumber: 3.8 Consensus size: 19
86395679 AACCGATCAG
86395689 TTGATTGA-TACTGAACAA
1 TTGATTGATTACTGAACAA
* *
86395707 TTGATT-ATTATTGAATAA
1 TTGATTGATTACTGAACAA
* *
86395725 TTGATTG-TTACCGAATAA
1 TTGATTGATTACTGAACAA
* *
86395743 CTGACT-ATTACTGAA
1 TTGATTGATTACTGAA
86395758 TAAATAATTG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 1 0.02
18 40 0.98
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.39
Consensus pattern (19 bp):
TTGATTGATTACTGAACAA
Found at i:86395752 original size:36 final size:36
Alignment explanation
Indices: 86395689--86395769 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
86395679 AACCGATCAG
* * * * *
86395689 TTGATTGATACTGAACAATTGATTATTATTGAATAA
1 TTGATTGTTACCGAACAACTGACTATTACTGAATAA
*
86395725 TTGATTGTTACCGAATAACTGACTATTACTGAATAA
1 TTGATTGTTACCGAACAACTGACTATTACTGAATAA
* *
86395761 ATAATTGTT
1 TTGATTGTT
86395770 CTGATTGTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.41
Consensus pattern (36 bp):
TTGATTGTTACCGAACAACTGACTATTACTGAATAA
Found at i:86395758 original size:18 final size:18
Alignment explanation
Indices: 86395697--86395760 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
86395687 AGTTGATTGA
*
86395697 TACTGAACAATTGATTAT
1 TACTGAATAATTGATTAT
* *
86395715 TATTGAATAATTGATTGT
1 TACTGAATAATTGATTAT
* * *
86395733 TACCGAATAACTGACTAT
1 TACTGAATAATTGATTAT
86395751 TACTGAATAA
1 TACTGAATAA
86395761 ATAATTGTTC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (18 bp):
TACTGAATAATTGATTAT
Found at i:86397181 original size:41 final size:41
Alignment explanation
Indices: 86397124--86397207 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
86397114 TATCAACATG
86397124 TAGAACAATATGTATGATTTTTTACCTACTCGTGAACCTAT
1 TAGAACAATATGTATGATTTTTTACCTACTCGTGAACCTAT
86397165 TAGAACAATATGTATGATTTTTTACCTACTCGTGAACCTAT
1 TAGAACAATATGTATGATTTTTTACCTACTCGTGAACCTAT
86397206 TA
1 TA
86397208 TCATTCCAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (41 bp):
TAGAACAATATGTATGATTTTTTACCTACTCGTGAACCTAT
Found at i:86401529 original size:18 final size:19
Alignment explanation
Indices: 86401513--86401563 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
86401503 ACTAATTAAT
86401513 AAACACTTAAAAATTAAATA
1 AAACAC-TAAAAATTAAATA
*
86401533 AAACACT-AAAATCCTAATTA
1 AAACACTAAAAAT--TAAATA
86401553 AAACACTAAAA
1 AAACACTAAAA
86401564 CCCTAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.19
19 1 0.04
20 18 0.67
21 3 0.11
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.22
Consensus pattern (19 bp):
AAACACTAAAAATTAAATA
Found at i:86401534 original size:19 final size:18
Alignment explanation
Indices: 86401506--86401563 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 18
86401496 CCAAAACACT
86401506 AATTAAT-AAACACTTAAA
1 AATTAATAAAACAC-TAAA
86401524 AATTAAATAAAACACT-AA
1 AATT-AATAAAACACTAAA
86401542 AATCCTAATTAAAACACTAAA
1 AAT--TAA-TAAAACACTAAA
86401563 A
1 A
86401564 CCCTAATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
18 9 0.26
19 6 0.18
20 16 0.47
21 3 0.09
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.24
Consensus pattern (18 bp):
AATTAATAAAACACTAAA
Found at i:86401554 original size:20 final size:20
Alignment explanation
Indices: 86401531--86401652 Score: 81
Period size: 20 Copynumber: 6.0 Consensus size: 20
86401521 AAAAATTAAA
*
86401531 TAAAACACTAAAATCCTAAT
1 TAAAACACTAAAACCCTAAT
86401551 TAAAACACTAAAACCCTAATT
1 TAAAACACTAAAACCCTAA-T
* **
86401572 TAATAA-ACCATAAACTATAAT
1 TAA-AACACTA-AAACCCTAAT
*
86401593 TAAAACA-TTAAACCCTAATT
1 TAAAACACTAAAACCCTAA-T
* *
86401613 TAATAACCCCT-AAACCTTAAT
1 TAA-AA-CACTAAAACCCTAAT
*
86401634 T-AAACAATTAAAACCCTAA
1 TAAAAC-ACTAAAACCCTAA
86401653 AAAAAGGGGA
Statistics
Matches: 79, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
18 1 0.01
19 10 0.13
20 33 0.42
21 16 0.20
22 18 0.23
23 1 0.01
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAACACTAAAACCCTAAT
Found at i:86401612 original size:41 final size:41
Alignment explanation
Indices: 86401547--86401652 Score: 135
Period size: 41 Copynumber: 2.5 Consensus size: 41
86401537 ACTAAAATCC
*
86401547 TAATTAAAACACTAAAACCCTAATTTAATAAACCATAAA-CT
1 TAATTAAAACA-TTAAACCCTAATTTAATAAACCATAAACCT
* *
86401588 ATAATTAAAACATTAAACCCTAATTTAATAACCCCTAAACCT
1 -TAATTAAAACATTAAACCCTAATTTAATAAACCATAAACCT
86401630 TAATT-AAACAATTAAAACCCTAA
1 TAATTAAAAC-ATT-AAACCCTAA
86401653 AAAAAGGGGA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
40 4 0.07
41 32 0.55
42 22 0.38
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (41 bp):
TAATTAAAACATTAAACCCTAATTTAATAAACCATAAACCT
Found at i:86401627 original size:22 final size:21
Alignment explanation
Indices: 86401561--86401634 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
86401551 TAAAACACTA
86401561 AAACCCTAATTTAATAAACCAT
1 AAACCCTAATTTAAT-AACCAT
**
86401583 AAACTATAA-TTAA-AA-CATT
1 AAACCCTAATTTAATAACCA-T
*
86401602 AAACCCTAATTTAATAACCCCT
1 AAACCCTAATTTAATAA-CCAT
*
86401624 AAACCTTAATT
1 AAACCCTAATT
86401635 AAACAATTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
18 2 0.05
19 10 0.24
20 4 0.10
21 6 0.15
22 18 0.44
23 1 0.02
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (21 bp):
AAACCCTAATTTAATAACCAT
Found at i:86402071 original size:23 final size:22
Alignment explanation
Indices: 86402003--86402072 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 22
86401993 TGCTTCCTTT
* *
86402003 AATTAATATTTTATTAAACTAA
1 AATTAATAATTTATTAAACTTA
* *
86402025 ATATTAATAA-TT-TT-AATTTT
1 A-ATTAATAATTTATTAAACTTA
86402045 AATTAATTAATTTATTAAACTTA
1 AATTAA-TAATTTATTAAACTTA
86402068 AATTA
1 AATTA
86402073 TTTATCCAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
19 5 0.14
20 7 0.19
21 4 0.11
22 5 0.14
23 16 0.43
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTAATAATTTATTAAACTTA
Found at i:86404069 original size:54 final size:54
Alignment explanation
Indices: 86403959--86404149 Score: 278
Period size: 54 Copynumber: 3.6 Consensus size: 54
86403949 CCATATGTCG
*
86403959 TTACAGGGGATTTAACCTGGACTGGT-ATCTCGATGACATTCTATGAGTTTATA
1 TTACGGGGGATTTAACCTGGACTGGTAATCTCGATGACATTCTATGAGTTTATA
* *
86404012 TTACGGGGGATTTAACCTGGACTGGTAATTTTGACT-ACATTCTATGAGTTTATA
1 TTACGGGGGATTTAACCTGGACTGGTAATCTCGA-TGACATTCTATGAGTTTATA
* * *
86404066 TTACGAGGGATTTAACTTGGACTGGTAATCCCGATGACATTCTATGAGTTTATA
1 TTACGGGGGATTTAACCTGGACTGGTAATCTCGATGACATTCTATGAGTTTATA
* * *
86404120 TTACGGGGGATTTAGCTTGGACTAGTAATC
1 TTACGGGGGATTTAACCTGGACTGGTAATC
86404150 CTGCTGTAGG
Statistics
Matches: 124, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
53 26 0.21
54 97 0.78
55 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (54 bp):
TTACGGGGGATTTAACCTGGACTGGTAATCTCGATGACATTCTATGAGTTTATA
Found at i:86409493 original size:67 final size:66
Alignment explanation
Indices: 86409385--86409596 Score: 280
Period size: 67 Copynumber: 3.2 Consensus size: 66
86409375 ATGGGCTGTA
** * * **
86409385 ATGGGGTATAATGTGTAAGATTATAGTTTGAATATGGCAACATAGAGAGTCCACCAAGGCATTAA
1 ATGGGGTATAATGTGTAAGAACATAGCTTGACTATGGCAACATAGAGAGTCTGCC-AGGCATTAA
86409450 AC
65 AC
* * *
86409452 ATGGGGTATAATGTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGTCTGTCGAGACATTAA
1 ATGGGGTATAATGTGTAAGAACATAGCTTGACTATGGCAACATAGAGAGTCTG-CCAGGCATTAA
86409517 AC
65 AC
* * *
86409519 ATGGGGTATAATGTGTAAGAACATAGCTCGACTATGGAAAACATAGAAAGTCTGCCAGGACATTA
1 ATGGGGTATAATGTGTAAGAACATAGCTTGACTATGG-CAACATAGAGAGTCTGCCAGG-CATTA
86409584 AAC
64 AAC
86409587 ATGGGGTATA
1 ATGGGGTATA
86409597 GAAAGTCTGC
Statistics
Matches: 128, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
67 95 0.74
68 33 0.26
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (66 bp):
ATGGGGTATAATGTGTAAGAACATAGCTTGACTATGGCAACATAGAGAGTCTGCCAGGCATTAAA
C
Found at i:86409603 original size:33 final size:33
Alignment explanation
Indices: 86409561--86409629 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
86409551 TATGGAAAAC
*
86409561 ATAGAAAGTCTGCCAGGACATTAAACATGGGGT
1 ATAGAAAGTCTGCCAGGACATTAAACATGAGGT
86409594 ATAGAAAGTCTGCCAGGACATTAAACATGAGGT
1 ATAGAAAGTCTGCCAGGACATTAAACATGAGGT
86409627 ATA
1 ATA
86409630 ATGTGTAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (33 bp):
ATAGAAAGTCTGCCAGGACATTAAACATGAGGT
Found at i:86409710 original size:67 final size:67
Alignment explanation
Indices: 86409608--86410063 Score: 386
Period size: 67 Copynumber: 6.8 Consensus size: 67
86409598 AAAGTCTGCC
* * * *
86409608 AGGACATTAAACATGAGGTATAATGTGTAAGACCATAGCTGGACTATGGCAACATAAAAAGTCCA
1 AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCCA
86409673 CT
66 CT
* * * * *
86409675 AGGACATTAAACATGGGGTATAATGTGTAAAACCATAGTTC-AATAATTGCAATATAGAGAGT-C
1 AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACT-ATGGCAACATAGAGAGTCC
**
86409738 TGT
65 ACT
* * * * * * * **
86409741 CAGGATATTAAACATGGGGCATAATGTGTGACACCATAACTTGACTATGGAAACATAGAGAGTTT
1 -AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCC
* *
86409806 GCC
65 ACT
* * *
86409809 AAGACATTAAACATGGGGTATAATGTGTAA-AGCAATAGCTCGACTATGGCAATATAGAGAGTCC
1 AGGACATTAAACATGGGGTATAATGTGTAAGA-CCATAGCTCGACTATGGCAACATAGAGAGTCC
*
86409873 ATT
65 ACT
** * * * * *
86409876 AGGACATTAAACATAAGGTTTAATGTGTAAGGCCATAGCTCGACTATGGCAAAATAAAGAGTCCG
1 AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCCA
*
86409941 CC
66 CT
* * * * * **
86409943 AAGACATTAAACATGGGATATAATGTGTAAGACCATAGCTC-AGTTATAGAAAGGTAGAGAGTCC
1 AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGA-CTATGGCAACATAGAGAGTCC
*
86410007 -GT
65 ACT
** * * * *
86410009 CAGGACATT-AACATGGTTTATGACGTGTAAGA-CATAGCTCGATTATGGCAGCATA
1 -AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATA
86410064 TGGACTTTTT
Statistics
Matches: 305, Mismatches: 75, Indels: 20
0.76 0.19 0.05
Matches are distributed among these distances:
65 16 0.05
66 26 0.09
67 261 0.86
68 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (67 bp):
AGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCCA
CT
Found at i:86409833 original size:134 final size:133
Alignment explanation
Indices: 86409593--86410056 Score: 486
Period size: 134 Copynumber: 3.5 Consensus size: 133
86409583 AAACATGGGG
* * * * *
86409593 TATAGAAAGTCTGCCAGGACATTAAACATGAGGTATAATGTGTAAGACCATAGCTGGACTATGGC
1 TATAGAGAGTCCGTCAGGACATTAAACATGAGGTATAATGTGTAAGACCATAGCTCGACTATGGA
* * * * * *
86409658 AACATAAAAAGTCCACTAGGACATTAAACATGGGGTATAATGTGTAAAACCATAGTTCAATAATT
66 AACATAAAGAGTCCGCCAAGACATTAAACATGGGGTATAATGTGTAAAACCATAGCTCAAT-ATA
86409723 GCAA
130 GCAA
* * * * * * * *
86409727 TATAGAGAGTCTGTCAGGATATTAAACATGGGGCATAATGTGTGACACCATAACTTGACTATGGA
1 TATAGAGAGTCCGTCAGGACATTAAACATGAGGTATAATGTGTAAGACCATAGCTCGACTATGGA
* ** * * * *
86409792 AACATAGAGAGTTTGCCAAGACATTAAACATGGGGTATAATGTGTAAAGCAATAGCTCGACTATG
66 AACATAAAGAGTCCGCCAAGACATTAAACATGGGGTATAATGTGTAAAACCATAGCTC-AATATA
86409857 GCAA
130 GCAA
* * * * *
86409861 TATAGAGAGTCCATTAGGACATTAAACATAAGGTTTAATGTGTAAGGCCATAGCTCGACTATGGC
1 TATAGAGAGTCCGTCAGGACATTAAACATGAGGTATAATGTGTAAGACCATAGCTCGACTATGG-
* * *
86409926 AAA-ATAAAGAGTCCGCCAAGACATTAAACATGGGATATAATGTGTAAGACCATAGCTCAGTTAT
65 AAACATAAAGAGTCCGCCAAGACATTAAACATGGGGTATAATGTGTAAAACCATAGCTCA-ATAT
*
86409990 AGAAA
129 AGCAA
** * * * *
86409995 GGTAGAGAGTCCGTCAGGACATT-AACATG-GTTTATGACGTGTAAGA-CATAGCTCGATTATGG
1 TATAGAGAGTCCGTCAGGACATTAAACATGAG-GTATAATGTGTAAGACCATAGCTCGACTATGG
86410057 CAGCATATGG
Statistics
Matches: 270, Mismatches: 56, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
132 16 0.06
133 16 0.06
134 233 0.86
135 5 0.02
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (133 bp):
TATAGAGAGTCCGTCAGGACATTAAACATGAGGTATAATGTGTAAGACCATAGCTCGACTATGGA
AACATAAAGAGTCCGCCAAGACATTAAACATGGGGTATAATGTGTAAAACCATAGCTCAATATAG
CAA
Found at i:86409955 original size:201 final size:201
Alignment explanation
Indices: 86409594--86409979 Score: 488
Period size: 201 Copynumber: 1.9 Consensus size: 201
86409584 AACATGGGGT
* * *
86409594 ATAGAAAGTCTGCCAGGACATTAAACATGAGGTATAATGTGTAAGACCATAGCTGGACTATGGCA
1 ATAGAAAGTCTGCCAAGACATTAAACATGAGGTATAATGTGTAAGACAATAGCTCGACTATGGCA
** * *
86409659 ACATAAAAAGTCCACTAGGACATTAAACATGGGGTATAATGTGTAAAACCATAGTTCAATAATTG
66 ACATAAAAAGTCCACTAGGACATTAAACATAAGGTATAATGTGTAAAACCATAGCTCAATAATGG
* * * * * * * *
86409724 CAATATAGAGAGTCTGTCAGGATATTAAACATGGGGCATAATGTGTGACACCATAACTTGACTAT
131 CAAAATAAAGAGTCCGCCAAGACATTAAACATGGGACATAATGTGTAACACCATAACTTGACTAT
86409789 GGAAAC
196 GGAAAC
* * *
86409795 ATAGAGAGTTTGCCAAGACATTAAACATGGGGTATAATGTGTAA-AGCAATAGCTCGACTATGGC
1 ATAGAAAGTCTGCCAAGACATTAAACATGAGGTATAATGTGTAAGA-CAATAGCTCGACTATGGC
* * * * * ** *
86409859 AATATAGAGAGTCCATTAGGACATTAAACATAAGGTTTAATGTGTAAGGCCATAGCTCGACT-AT
65 AACATAAAAAGTCCACTAGGACATTAAACATAAGGTATAATGTGTAAAACCATAGCTC-AATAAT
* *
86409923 GGCAAAATAAAGAGTCCGCCAAGACATTAAACATGGGATATAATGTGTAAGACCATA
129 GGCAAAATAAAGAGTCCGCCAAGACATTAAACATGGGACATAATGTGTAACACCATA
86409980 GCTCAGTTAT
Statistics
Matches: 155, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
200 1 0.01
201 152 0.98
202 2 0.01
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.25
Consensus pattern (201 bp):
ATAGAAAGTCTGCCAAGACATTAAACATGAGGTATAATGTGTAAGACAATAGCTCGACTATGGCA
ACATAAAAAGTCCACTAGGACATTAAACATAAGGTATAATGTGTAAAACCATAGCTCAATAATGG
CAAAATAAAGAGTCCGCCAAGACATTAAACATGGGACATAATGTGTAACACCATAACTTGACTAT
GGAAAC
Found at i:86410003 original size:201 final size:201
Alignment explanation
Indices: 86409594--86410063 Score: 484
Period size: 201 Copynumber: 2.3 Consensus size: 201
86409584 AACATGGGGT
* * * *
86409594 ATAGAAAGTCTGCCAGGACATTAAACATGAGGTATAATGTGTAAGACCATAGCTGGACTATGGCA
1 ATAGAGAGTCTGCCAAGACATTAAACATGAGGTATAATGTGTAAGACAATAGCTCGACTATGGCA
** * *
86409659 ACATAAAAAGTCCACTAGGACATTAAACATGGGGTATAATGTGTAAAACCATAGTTCAATAATTG
66 ACATAAAAAGTCCACTAGGACATTAAACATAAGGTATAATGTGTAAAACCATAGCTCAATAATGG
* * * * * * * * *
86409724 CAATATAGAGAGTCTGTCAGGATATTAAACATGGGGCATAATGTGTGACACCATAACTTGACTAT
131 CAAAATAAAGAGTCCGCCAAGACATTAAACATGGGACATAATGTGTAACACCATAACTAGACTAT
*
86409789 GGAAAC
196 AGAAAC
* *
86409795 ATAGAGAGTTTGCCAAGACATTAAACATGGGGTATAATGTGTAA-AGCAATAGCTCGACTATGGC
1 ATAGAGAGTCTGCCAAGACATTAAACATGAGGTATAATGTGTAAGA-CAATAGCTCGACTATGGC
* * * * * ** *
86409859 AATATAGAGAGTCCATTAGGACATTAAACATAAGGTTTAATGTGTAAGGCCATAGCTCGACT-AT
65 AACATAAAAAGTCCACTAGGACATTAAACATAAGGTATAATGTGTAAAACCATAGCTC-AATAAT
* * * *
86409923 GGCAAAATAAAGAGTCCGCCAAGACATTAAACATGGGATATAATGTGTAAGACCATAGCTCAG-T
129 GGCAAAATAAAGAGTCCGCCAAGACATTAAACATGGGACATAATGTGTAACACCATAACT-AGAC
*
86409987 TATAGAAAG
193 TATAGAAAC
* * * * * * * *
86409996 GTAGAGAGTCCGTCAGGACATT-AACATG-GTTTATGACGTGTAAGAC-ATAGCTCGATTATGGC
1 ATAGAGAGTCTGCCAAGACATTAAACATGAG-GTATAATGTGTAAGACAATAGCTCGACTATGGC
*
86410058 AGCATA
65 AACATA
86410064 TGGACTTTTT
Statistics
Matches: 220, Mismatches: 44, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
199 20 0.09
200 18 0.08
201 179 0.81
202 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (201 bp):
ATAGAGAGTCTGCCAAGACATTAAACATGAGGTATAATGTGTAAGACAATAGCTCGACTATGGCA
ACATAAAAAGTCCACTAGGACATTAAACATAAGGTATAATGTGTAAAACCATAGCTCAATAATGG
CAAAATAAAGAGTCCGCCAAGACATTAAACATGGGACATAATGTGTAACACCATAACTAGACTAT
AGAAAC
Found at i:86412084 original size:135 final size:135
Alignment explanation
Indices: 86411842--86412113 Score: 440
Period size: 135 Copynumber: 2.0 Consensus size: 135
86411832 CTTAATTGAT
*
86411842 ATAATTGTGGTAAATGCTATATTATTGAAATGAAATGTGAATGCTATTGATTATGATACTACGAA
1 ATAATTGTGGTAAATGCTATATTATTGAAATGAAATGTGAATGCTATTGAGTATGATACTACGAA
* *
86411907 AATGACCGATAGAGTTTCAATACAGCGAAAGTCCTTATTGAACCTTAGGAATAGATAGGATACAA
66 AATGACCGATAGAGTTTCAATACAGCGAAAGTCCTTATTGAACCGTAAGAATAGATAGGATACAA
86411972 ATGTC
131 ATGTC
*
86411977 ATAATTGTGGTAAATGCTATATTATTGAAATGAAATGTGAATGCTATTGAGTATGATACTACGTA
1 ATAATTGTGGTAAATGCTATATTATTGAAATGAAATGTGAATGCTATTGAGTATGATACTACGAA
* ** *
86412042 AATGATCGATAGAGTTTTGATACAAG-GAAAGT-CTTGGTTGAACCGTAAGAATAGATAGGATAC
66 AATGACCGATAGAGTTTCAATAC-AGCGAAAGTCCTT-ATTGAACCGTAAGAATAGATAGGATAC
86412105 AAATGTC
129 AAATGTC
86412112 AT
1 AT
86412114 GACATTAGGG
Statistics
Matches: 127, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
134 3 0.02
135 122 0.96
136 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.32
Consensus pattern (135 bp):
ATAATTGTGGTAAATGCTATATTATTGAAATGAAATGTGAATGCTATTGAGTATGATACTACGAA
AATGACCGATAGAGTTTCAATACAGCGAAAGTCCTTATTGAACCGTAAGAATAGATAGGATACAA
ATGTC
Found at i:86412227 original size:43 final size:42
Alignment explanation
Indices: 86412129--86412245 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 42
86412119 TAGGGTTACT
* * *
86412129 GAGATAACATGTAAAACCATATCTGGAATATGACATCGATAT
1 GAGATTACATGTAAGACCATATCTGGAATATGACATCGATAC
** * * *
86412171 GAGACTT-TGTGTAAGACCATAGCTGGACTATTGGCATCGATAC
1 GAGA-TTACATGTAAGACCATATCTGGAATA-TGACATCGATAC
*
86412214 GAGATTACATGTAAGACCATATCTGGGATATG
1 GAGATTACATGTAAGACCATATCTGGAATATG
86412246 GCATTGGTAC
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.27
Consensus pattern (42 bp):
GAGATTACATGTAAGACCATATCTGGAATATGACATCGATAC
Found at i:86420610 original size:13 final size:13
Alignment explanation
Indices: 86420592--86420616 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86420582 AACATACCAG
86420592 TACAAATTTGTAA
1 TACAAATTTGTAA
86420605 TACAAATTTGTA
1 TACAAATTTGTA
86420617 CAAATGGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
TACAAATTTGTAA
Found at i:86423325 original size:21 final size:21
Alignment explanation
Indices: 86423297--86423472 Score: 131
Period size: 21 Copynumber: 8.5 Consensus size: 21
86423287 ACATGAGTGC
* * *
86423297 TAAACAGAAACCCATAAGGGT
1 TAAACAAAAACTCATAAGAGT
* * * * *
86423318 TGAACAGAAGCACATAAGAGC
1 TAAACAAAAACTCATAAGAGT
*
86423339 TAAACAAAAACTCATAAGGGT
1 TAAACAAAAACTCATAAGAGT
*
86423360 TAAACAAAAACTCATATGAGT
1 TAAACAAAAACTCATAAGAGT
** * * *
86423381 T-AACTGAAGCTCATGAGAGC
1 TAAACAAAAACTCATAAGAGT
* *
86423401 TGAACAAAAACTCATAAGGGT
1 TAAACAAAAACTCATAAGAGT
*
86423422 TAAACAAAAACTCATATGAGT
1 TAAACAAAAACTCATAAGAGT
** * * *
86423443 T-AACTGAAGCTCATGAGAGC
1 TAAACAAAAACTCATAAGAGT
86423463 TAAACAAAAA
1 TAAACAAAAA
86423473 GTAAACATGA
Statistics
Matches: 116, Mismatches: 37, Indels: 4
0.74 0.24 0.03
Matches are distributed among these distances:
20 28 0.24
21 88 0.76
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.18
Consensus pattern (21 bp):
TAAACAAAAACTCATAAGAGT
Found at i:86423332 original size:42 final size:42
Alignment explanation
Indices: 86423284--86423365 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
86423274 GTTGTATAGG
* * * *
86423284 AGCACATGAGTGCTAAACAGAAACCCATAAGGGTTGAACAGA
1 AGCACATAAGAGCTAAACAAAAACCCATAAGGGTTAAACAGA
*
86423326 AGCACATAAGAGCTAAACAAAAACTCATAAGGGTTAAACA
1 AGCACATAAGAGCTAAACAAAAACCCATAAGGGTTAAACA
86423366 AAAACTCATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.15
Consensus pattern (42 bp):
AGCACATAAGAGCTAAACAAAAACCCATAAGGGTTAAACAGA
Found at i:86423407 original size:62 final size:62
Alignment explanation
Indices: 86423297--86423472 Score: 271
Period size: 62 Copynumber: 2.8 Consensus size: 62
86423287 ACATGAGTGC
* * * * * * *
86423297 TAAACAGAAACCCATAAGGGTTGAACAGAAGCACATAAGAGCTAAACAAAAACTCATAAGGGT
1 TAAACAAAAACTCATATGAGTT-AACTGAAGCTCATGAGAGCTAAACAAAAACTCATAAGGGT
*
86423360 TAAACAAAAACTCATATGAGTTAACTGAAGCTCATGAGAGCTGAACAAAAACTCATAAGGGT
1 TAAACAAAAACTCATATGAGTTAACTGAAGCTCATGAGAGCTAAACAAAAACTCATAAGGGT
86423422 TAAACAAAAACTCATATGAGTTAACTGAAGCTCATGAGAGCTAAACAAAAA
1 TAAACAAAAACTCATATGAGTTAACTGAAGCTCATGAGAGCTAAACAAAAA
86423473 GTAAACATGA
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
62 86 0.83
63 18 0.17
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.18
Consensus pattern (62 bp):
TAAACAAAAACTCATATGAGTTAACTGAAGCTCATGAGAGCTAAACAAAAACTCATAAGGGT
Found at i:86423679 original size:7 final size:7
Alignment explanation
Indices: 86423667--86423705 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
86423657 CCATTCATCA
86423667 ATTTAAC
1 ATTTAAC
86423674 ATTTAAC
1 ATTTAAC
86423681 ATTTAAC
1 ATTTAAC
86423688 ATTTAA-
1 ATTTAAC
86423694 ATTTAACC
1 ATTTAA-C
86423702 ATTT
1 ATTT
86423706 GAACTTACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.20
7 20 0.67
8 4 0.13
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (7 bp):
ATTTAAC
Found at i:86424774 original size:13 final size:13
Alignment explanation
Indices: 86424756--86424801 Score: 92
Period size: 13 Copynumber: 3.5 Consensus size: 13
86424746 AATGCACACG
86424756 CCCGTGTCCCACA
1 CCCGTGTCCCACA
86424769 CCCGTGTCCCACA
1 CCCGTGTCCCACA
86424782 CCCGTGTCCCACA
1 CCCGTGTCCCACA
86424795 CCCGTGT
1 CCCGTGT
86424802 TGAGTTTCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.13, C:0.52, G:0.17, T:0.17
Consensus pattern (13 bp):
CCCGTGTCCCACA
Found at i:86426552 original size:12 final size:12
Alignment explanation
Indices: 86426535--86426559 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
86426525 TGCAATTAGG
86426535 TATATTATGAGT
1 TATATTATGAGT
86426547 TATATTATGAGT
1 TATATTATGAGT
86426559 T
1 T
86426560 TACTTTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TATATTATGAGT
Found at i:86430399 original size:16 final size:16
Alignment explanation
Indices: 86430378--86430409 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
86430368 TCAAAATGAA
86430378 GACTTAACCTCACTAT
1 GACTTAACCTCACTAT
86430394 GACTTAACCTCACTAT
1 GACTTAACCTCACTAT
86430410 TTAGTCCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (16 bp):
GACTTAACCTCACTAT
Found at i:86430649 original size:21 final size:21
Alignment explanation
Indices: 86430620--86430662 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
86430610 TTTAAAGCTC
*
86430620 TTGGCTATTGCTCCCTTCTAT
1 TTGGATATTGCTCCCTTCTAT
*
86430641 TTGGATATTGCTCCCTTTTAT
1 TTGGATATTGCTCCCTTCTAT
86430662 T
1 T
86430663 CTTTCTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.23, G:0.14, T:0.51
Consensus pattern (21 bp):
TTGGATATTGCTCCCTTCTAT
Found at i:86435483 original size:43 final size:43
Alignment explanation
Indices: 86435431--86435710 Score: 296
Period size: 43 Copynumber: 6.5 Consensus size: 43
86435421 GTAAAAATAG
*
86435431 GCCGCTATAGAACATGACCTTTAGCGGCTCTTTTTCCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
* ** *
86435474 GCCTCTATAGAACATGACCTTTAGTAGCGCTTTTTCTACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
* * * * * *
86435517 ACAGCTATAGAACGTTACCTTTAGCGACGCTTTTCCCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
** * * * *
86435560 ATCGCTAAAGAGCATAACCTTCAGCGGCGC-TTTTCCTACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCC-ACAAAC
* * * *
86435603 GCCGCTAAAGAACATAACCTTTAGTGGCGCTTTTCCCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
* *
86435646 GCGGCTATAAAACA-GACCTTTAGCGGCGC-TTTTCTCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTC-CACAAAC
* *
86435688 GCCGCTAAAGAACATGACGTTTA
1 GCCGCTATAGAACATGACCTTTA
86435711 AAAAATTTTA
Statistics
Matches: 193, Mismatches: 40, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
41 4 0.02
42 36 0.19
43 148 0.77
44 5 0.03
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (43 bp):
GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
Found at i:86435833 original size:34 final size:35
Alignment explanation
Indices: 86435795--86435862 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
86435785 TTTCTATTAA
*
86435795 AATTTAACTTTA-AAACTAAATATAA-AAATTAATG
1 AATTTAAATTTAGAAACTAAA-ATAATAAATTAATG
**
86435829 AATTTAAATTTAGAATTTAAAATAATAAATTAAT
1 AATTTAAATTTAGAAACTAAAATAATAAATTAAT
86435863 AACACAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 15 0.52
35 14 0.48
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (35 bp):
AATTTAAATTTAGAAACTAAAATAATAAATTAATG
Found at i:86435917 original size:12 final size:12
Alignment explanation
Indices: 86435902--86435972 Score: 63
Period size: 12 Copynumber: 5.7 Consensus size: 12
86435892 TTAGTTATCT
*
86435902 TAAATATTAAAA
1 TAAATATAAAAA
*
86435914 TAAAAATAAAAA
1 TAAATATAAAAA
86435926 TATAGATATCAAAAA
1 TA-A-ATAT-AAAAA
86435941 TAAA-ATAAATAA
1 TAAATATAAA-AA
* *
86435953 TAAATATTAAAT
1 TAAATATAAAAA
86435965 TAAATATA
1 TAAATATA
86435973 GAGATATCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
11 3 0.06
12 28 0.58
13 6 0.12
14 4 0.08
15 7 0.15
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (12 bp):
TAAATATAAAAA
Found at i:86439137 original size:46 final size:41
Alignment explanation
Indices: 86438993--86439148 Score: 170
Period size: 42 Copynumber: 3.6 Consensus size: 41
86438983 TCGTTTTCTC
** * *
86438993 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT
1 GATGCCATAGCCCAACTATGGTCTTACACATATTCATAT-AT
*
86439035 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATAT
1 GATGCCATAGCCCAACTATGGTCTTACACATATTCATATAT
86439076 CGATGCCATAGCCCAACTATGGTCTTACACGA-ATTACATACCTCACT
1 -GATGCCATAGCCCAACTATGGTCTTACAC-ATATT-CATA--T-A-T
* *
86439123 GATGCCATATCCCAAATATGGTCTTA
1 GATGCCATAGCCCAACTATGGTCTTA
86439149 TACAGTAGCA
Statistics
Matches: 99, Mismatches: 8, Indels: 10
0.85 0.07 0.09
Matches are distributed among these distances:
41 2 0.02
42 65 0.66
43 5 0.05
45 1 0.01
46 25 0.25
47 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (41 bp):
GATGCCATAGCCCAACTATGGTCTTACACATATTCATATAT
Found at i:86439626 original size:31 final size:31
Alignment explanation
Indices: 86439591--86439770 Score: 247
Period size: 31 Copynumber: 5.8 Consensus size: 31
86439581 CTTGTCACTT
* *
86439591 GTAGCCGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
86439622 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
86439653 GTAGCC-AGAGCTACCACTTTTCTCTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
86439684 GTAGCCAGAA-CTACCACTTTTCATTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
* *
86439715 GTAGCAGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
86439746 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
86439771 TGTCATTTGT
Statistics
Matches: 132, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
30 3 0.02
31 127 0.96
32 1 0.01
33 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:86444106 original size:29 final size:29
Alignment explanation
Indices: 86444043--86444110 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
86444033 TAATCAACCG
86444043 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
86444072 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
86444101 CGCACACTTA
1 CGCACACTTA
86444111 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:86444223 original size:174 final size:174
Alignment explanation
Indices: 86443932--86444259 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
86443922 AACTCAAGGT
* * *
86443932 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
86443997 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
86444062 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
86444106 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
86444171 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
86444236 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
86444260 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:86444251 original size:29 final size:30
Alignment explanation
Indices: 86444212--86444290 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
86444202 CTTAATAATC
86444212 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
86444242 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
86444271 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
86444291 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:86450569 original size:22 final size:23
Alignment explanation
Indices: 86450553--86450597 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
86450543 AATTCATGCC
86450553 ACAAAATATACCAATTCATCATCA
1 ACAAAATATACCAATTCATCA-CA
*
86450577 ACAAAATGTACCAATTCATCA
1 ACAAAATATACCAATTCATCA
86450598 ACCTTATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (23 bp):
ACAAAATATACCAATTCATCACA
Found at i:86450597 original size:21 final size:21
Alignment explanation
Indices: 86450543--86450599 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
86450533 ATTATCATAT
*
86450543 AATTCATGCCACAAAATATACC
1 AATTCAT-CAACAAAATATACC
*
86450565 AATTCATCATCAACAAAATGTACC
1 AA-T--TCATCAACAAAATATACC
86450589 AATTCATCAAC
1 AATTCATCAAC
86450600 CTTATACCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 8 0.27
22 2 0.07
23 2 0.07
24 14 0.47
25 4 0.13
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.25
Consensus pattern (21 bp):
AATTCATCAACAAAATATACC
Found at i:86451540 original size:42 final size:42
Alignment explanation
Indices: 86451508--86451611 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
86451498 TAGCTTAGCT
86451508 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
* * *
86451550 ATGGTCTTACACGAATCTCATATCGATGCAAATGTCCCAGTC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
*
86451592 ATGGTCTTACATGAATCTCA
1 ATGGTCTTACACGAATCTCA
86451612 CATCCCGATA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
Found at i:86455759 original size:114 final size:115
Alignment explanation
Indices: 86455641--86455935 Score: 264
Period size: 115 Copynumber: 2.6 Consensus size: 115
86455631 CATTTAACCA
* *
86455641 AAAAACGCCACTAAAAAACCTACA-AAAA-GGCGCCATTTTGATTAAAACAAAATAACA-TTTTG
1 AAAAACGCCACTAAAAAACC-AAATAAAACAGCGCCATTTTGATTAAAACAAAATAA-ATTTTTG
* * *
86455703 CGGC-ATTTTTCACCTAGCGCCGCTA-AAGCCCGACCTATTGCGGCGTTTTAAC
64 CGGCGATTTTTCA-CTAGCACCGCTAGAA-CCCGACATATTGCGGCGTTTCAAC
** * * * * * *
86455755 AAAAATTCCACTAAAAAATCAAATAAAACAGTGTCGTTTTGATTAAAACATAATAAATTTTTGCT
1 AAAAACGCCACTAAAAAACCAAATAAAACAGCGCCATTTTGATTAAAACAAAATAAATTTTTGCG
* * * *
86455820 GCGTTTTTTGACTAGCACCGCTAGAACCCGACATATTGCGGTGTTTCACC
66 GCGATTTTTCACTAGCACCGCTAGAACCCGACATATTGCGGCGTTTCAAC
* * * * * **
86455870 AAAAACGCCATTAAGAAATCC-AATAGAAC-GACACCATTTTTATTAAAAC-AAATTGATTTTTG
1 AAAAACGCCACTAA-AAAACCAAATAAAACAG-CGCCATTTTGATTAAAACAAAATAAATTTTTG
86455932 CGGC
64 CGGC
86455936 CTTTGATACT
Statistics
Matches: 142, Mismatches: 32, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
113 2 0.01
114 36 0.25
115 92 0.65
116 12 0.08
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (115 bp):
AAAAACGCCACTAAAAAACCAAATAAAACAGCGCCATTTTGATTAAAACAAAATAAATTTTTGCG
GCGATTTTTCACTAGCACCGCTAGAACCCGACATATTGCGGCGTTTCAAC
Found at i:86456724 original size:21 final size:21
Alignment explanation
Indices: 86456700--86456752 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
86456690 ATTAATCTAA
86456700 ACCCTAAACCCCTAACCACTG
1 ACCCTAAACCCCTAACCACTG
* * * *
86456721 ACCCTTAACCCTTGACCCCTG
1 ACCCTAAACCCCTAACCACTG
86456742 ACCCTTAAACC
1 ACCC-TAAACC
86456753 TTAAACCCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.28, C:0.47, G:0.06, T:0.19
Consensus pattern (21 bp):
ACCCTAAACCCCTAACCACTG
Found at i:86456754 original size:21 final size:22
Alignment explanation
Indices: 86456713--86456773 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
86456703 CTAAACCCCT
* *
86456713 AACCACTGACCCTTAACCCTT-
1 AACCCCTGACCCTTAAACCTTA
*
86456734 GACCCCTGACCCTTAAACCTTA
1 AACCCCTGACCCTTAAACCTTA
*
86456756 AACCCC-AACCCTTAAACC
1 AACCCCTGACCCTTAAACC
86456774 ATAATCCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.31, C:0.44, G:0.05, T:0.20
Consensus pattern (22 bp):
AACCCCTGACCCTTAAACCTTA
Found at i:86456855 original size:14 final size:14
Alignment explanation
Indices: 86456742--86456848 Score: 74
Period size: 14 Copynumber: 7.5 Consensus size: 14
86456732 TTGACCCCTG
*
86456742 ACCCTTAAACCTTAA
1 ACCC-TAAACCATAA
* * *
86456757 ACCCCAACCCTTAA
1 ACCCTAAACCATAA
* *
86456771 ACCATAATCCATAA
1 ACCCTAAACCATAA
*
86456785 ACCTTAAA--ATAGTA
1 ACCCTAAACCATA--A
*
86456799 ACTCCTAAACCTTAA
1 AC-CCTAAACCATAA
*
86456814 ACCCTAAACCATAT
1 ACCCTAAACCATAA
*
86456828 ACTCTAAACCATAA
1 ACCCTAAACCATAA
86456842 ACCCTAA
1 ACCCTAA
86456849 CCTATAATGA
Statistics
Matches: 72, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
12 3 0.04
14 55 0.76
15 12 0.17
17 2 0.03
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.22
Consensus pattern (14 bp):
ACCCTAAACCATAA
Found at i:86457233 original size:49 final size:49
Alignment explanation
Indices: 86457179--86457285 Score: 160
Period size: 49 Copynumber: 2.2 Consensus size: 49
86457169 TAAAGCGCCG
*
86457179 CTAAAGCTCGATCTGTAGCGGCGTTTTTCAAAAAATGTCACTAATGCCA
1 CTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAATGTCACTAATGCCA
* * * * *
86457228 CTAAAGCTCGATCTATAGTGGTGTTTTTCAAAAAGTGTCGCTAGTGCCA
1 CTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAATGTCACTAATGCCA
86457277 CTAAAGCTC
1 CTAAAGCTC
86457286 ACGGCGTTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (49 bp):
CTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAATGTCACTAATGCCA
Found at i:86458648 original size:30 final size:29
Alignment explanation
Indices: 86458601--86458661 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
86458591 CAAGTAGCCG
86458601 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
*
86458630 AAGCTAGTTTAGATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
86458660 AA
1 AA
86458662 ACTTCCGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:86459885 original size:40 final size:40
Alignment explanation
Indices: 86459824--86459970 Score: 147
Period size: 40 Copynumber: 3.7 Consensus size: 40
86459814 ATTTTTTGCA
* **
86459824 GCATTTTTCAAAAAGTGCTGCTAATGCTCGATCTATAGCG
1 GCATTTTTAAAAAAGCACTGCTAATGCTCGATCTATAGCG
* * *
86459864 GCATTTTTAAAAAAGCACTGCTAATGCTTGATCAATAGCA
1 GCATTTTTAAAAAAGCACTGCTAATGCTCGATCTATAGCG
***
86459904 ATGTTTTTCAAAAAATGC-C-GCTAATGCTCGATCTATAGCG
1 GCATTTTT-AAAAAA-GCACTGCTAATGCTCGATCTATAGCG
* *
86459944 GCGA-TTTTCAAAAAGCACCGCTAATGC
1 GC-ATTTTTAAAAAAGCACTGCTAATGC
86459971 CACTAAAGCT
Statistics
Matches: 86, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
38 2 0.02
39 6 0.07
40 69 0.80
41 7 0.08
42 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (40 bp):
GCATTTTTAAAAAAGCACTGCTAATGCTCGATCTATAGCG
Found at i:86462492 original size:21 final size:21
Alignment explanation
Indices: 86462466--86462512 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
86462456 AAAATCACTT
86462466 AACAAATGTTGTTTATCTAGA
1 AACAAATGTTGTTTATCTAGA
86462487 AACAAATGTTGTTTATCTAGA
1 AACAAATGTTGTTTATCTAGA
86462508 AACAA
1 AACAA
86462513 TCATTCGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (21 bp):
AACAAATGTTGTTTATCTAGA
Found at i:86463883 original size:16 final size:18
Alignment explanation
Indices: 86463864--86463896 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
86463854 CATACGAATT
86463864 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
86463880 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
86463897 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:86464502 original size:43 final size:43
Alignment explanation
Indices: 86464433--86464600 Score: 241
Period size: 43 Copynumber: 4.0 Consensus size: 43
86464423 AAGTCTGAAC
*
86464433 TCAT-TCACCGGCATT-TCGCCTGCTAGGCTCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
* *
86464474 TCATCTCACCAGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
* * * *
86464517 TCATCTCACCGGTATTATAACATGCTAGGCTCGAAGCTCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
* *
86464560 TCATATCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGA
86464601 ATGTCACATT
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
41 4 0.04
42 10 0.09
43 96 0.87
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (43 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
Found at i:86470041 original size:16 final size:17
Alignment explanation
Indices: 86470010--86470042 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
86470000 GTGTCAGTAG
86470010 AGTTTTGATAGATTGAA
1 AGTTTTGATAGATTGAA
*
86470027 AGTTTTG-TTGATTGAA
1 AGTTTTGATAGATTGAA
86470043 GCACCTGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (17 bp):
AGTTTTGATAGATTGAA
Found at i:86472212 original size:17 final size:17
Alignment explanation
Indices: 86472178--86472215 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
86472168 GTTGATTTCT
*
86472178 AATAGCTATAGGGATCA
1 AATAGCTATAGGAATCA
86472195 AATAGCTAT-GGAATTCA
1 AATAGCTATAGGAA-TCA
86472212 AATA
1 AATA
86472216 TTGAGGTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (17 bp):
AATAGCTATAGGAATCA
Done.