Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 56 of 318
Found at i:20013807 original size:53 final size:52
Alignment explanation
Indices: 20013749--20013850 Score: 132
Period size: 53 Copynumber: 1.9 Consensus size: 52
20013739 CACATATATT
* *
20013749 ACCGATGCCATATATCAGATATGGTCTTATACGGAAGCACATAATCACATTAC
1 ACCGATGCCATAGACCAGATATGGTCTTATACGGAAGCACAT-ATCACATTAC
* * * * *
20013802 ACCGATGTCATAGCCCTGCTATGTTCTTATACGGAAGCACATATCACAT
1 ACCGATGCCATAGACCAGATATGGTCTTATACGGAAGCACATATCACAT
20013851 GTTGCCATGG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
52 7 0.17
53 35 0.83
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (52 bp):
ACCGATGCCATAGACCAGATATGGTCTTATACGGAAGCACATATCACATTAC
Found at i:20014911 original size:12 final size:12
Alignment explanation
Indices: 20014896--20014921 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20014886 TAAAACTTAG
20014896 TAGGCAATATAA
1 TAGGCAATATAA
20014908 TAGGCAATATAA
1 TAGGCAATATAA
20014920 TA
1 TA
20014922 TGTTTTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (12 bp):
TAGGCAATATAA
Found at i:20017524 original size:5 final size:5
Alignment explanation
Indices: 20017514--20017556 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
20017504 ATAAATAAGA
20017514 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATA
20017557 ACTAAACTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:20022093 original size:43 final size:43
Alignment explanation
Indices: 20022035--20022229 Score: 284
Period size: 43 Copynumber: 4.5 Consensus size: 43
20022025 CATTATAACA
* *
20022035 TGCTAGGCTCAAAGGCCCGAATACACATCACCGGCACGAAACC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACC
* *
20022078 TGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACC
* * *
20022121 TGCTAGGCACGAAGGCTCGAATACACATCACCAGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACC
* * *
20022164 TGCTAGGCATGAAGGGCCGAATACACATCACCGGCAC-AAAGCA
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA-CC
20022207 TGCTAGGCACGAAGGCCCGAATA
1 TGCTAGGCACGAAGGCCCGAATA
20022230 TAGTACCAGC
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 2 0.01
43 134 0.99
ACGTcount: A:0.32, C:0.31, G:0.25, T:0.12
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACC
Found at i:20024231 original size:19 final size:20
Alignment explanation
Indices: 20024202--20024245 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
20024192 CTAGTAAATT
20024202 TAAAGATAAAACCAAAAGTG
1 TAAAGATAAAACCAAAAGTG
*
20024222 TAAA-ATAAAACCGAAAGTG
1 TAAAGATAAAACCAAAAGTG
20024241 TAAAG
1 TAAAG
20024246 GTTTAAGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.59, C:0.09, G:0.16, T:0.16
Consensus pattern (20 bp):
TAAAGATAAAACCAAAAGTG
Found at i:20027401 original size:22 final size:23
Alignment explanation
Indices: 20027375--20027419 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
20027365 ACCTGATCAG
20027375 AATACGACACAT-AAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
20027397 AATACGACACATAAAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
20027420 TCAGTAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (23 bp):
AATACGACACATAAAGTGCCTGA
Found at i:20027655 original size:28 final size:29
Alignment explanation
Indices: 20027622--20027708 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 29
20027612 AAAACACACC
*
20027622 AGTATAATCC-TCCAAAACACACCAGTAT
1 AGTATAATCCATCCAAAACACACCAGAAT
* * *
20027650 CGTATAATCCTTCC-AGACACACCAGAAT
1 AGTATAATCCATCCAAAACACACCAGAAT
*
20027678 AATATAATCCATCCAAAACACACCAGAAT
1 AGTATAATCCATCCAAAACACACCAGAAT
20027707 AG
1 AG
20027709 CACAAAGTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.44, C:0.29, G:0.08, T:0.20
Consensus pattern (29 bp):
AGTATAATCCATCCAAAACACACCAGAAT
Found at i:20027879 original size:16 final size:15
Alignment explanation
Indices: 20027858--20027901 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
20027848 CACTTTCCAG
20027858 TTTCAATCAATACACA
1 TTTCAATCAAT-CACA
*
20027874 TTTCAATTAATCACA
1 TTTCAATCAATCACA
20027889 TATTCATATCAAT
1 T-TTCA-ATCAAT
20027902 TTCATCACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 14 0.58
17 5 0.21
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (15 bp):
TTTCAATCAATCACA
Found at i:20036100 original size:20 final size:21
Alignment explanation
Indices: 20036063--20036111 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
20036053 AATTTTAATT
**
20036063 AAAATTATTATATTACAATAA
1 AAAATTATTATAAAACAATAA
20036084 AAAATTATT-TAAAACAATAA
1 AAAATTATTATAAAACAATAA
20036104 ATAAATTA
1 A-AAATTA
20036112 AAATTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATTATTATAAAACAATAA
Found at i:20036516 original size:26 final size:24
Alignment explanation
Indices: 20036455--20036520 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
20036445 CTAACTTAGG
20036455 TTTGAATGT-ATTTTGATTACGTT
1 TTTGAATGTAATTTTGATTACGTT
* *
20036478 TAT-AATGATTAATTTTTATTATCGTT
1 TTTGAATG--TAATTTTGATTA-CGTT
20036504 ATTTGAATGTAATTTTG
1 -TTTGAATGTAATTTTG
20036521 TAATTGATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
22 4 0.12
23 2 0.06
24 1 0.03
25 9 0.27
26 11 0.33
27 2 0.06
28 4 0.12
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (24 bp):
TTTGAATGTAATTTTGATTACGTT
Found at i:20040222 original size:34 final size:34
Alignment explanation
Indices: 20040179--20040248 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
20040169 AAGGAAAAAA
20040179 ATAGAATAAAAATTAAAAACAACAATCATAGCTT
1 ATAGAATAAAAATTAAAAACAACAATCATAGCTT
20040213 ATAGAATAAAAATTAAAAACAACAATCATAGCTT
1 ATAGAATAAAAATTAAAAACAACAATCATAGCTT
20040247 AT
1 AT
20040249 CTTCAAGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.59, C:0.11, G:0.06, T:0.24
Consensus pattern (34 bp):
ATAGAATAAAAATTAAAAACAACAATCATAGCTT
Found at i:20043858 original size:19 final size:20
Alignment explanation
Indices: 20043804--20043860 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
20043794 TGTCATATTA
* *
20043804 TTTTTTATATATTTATATTG
1 TTTTTTATATAATTATATAG
*
20043824 TTTTATTTTAATAATTA-ATAG
1 TTTT-TTAT-ATAATTATATAG
20043845 TTTTTTATATAATTAT
1 TTTTTTATATAATTAT
20043861 CTTAACTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 7 0.23
20 7 0.23
21 10 0.33
22 6 0.20
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTTTATATAATTATATAG
Found at i:20050302 original size:24 final size:24
Alignment explanation
Indices: 20050270--20050342 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 24
20050260 TAAGTGATCA
20050270 TTATTTCTCATGTTCTTTTACCTT
1 TTATTTCTCATGTTCTTTTACCTT
* *
20050294 TTATTTCTCATCCTTTGCCCTTTACCTT
1 TTATTTCTCAT--GTT--CTTTTACCTT
20050322 TTATTTCTCATGTTCTTTTAC
1 TTATTTCTCATGTTCTTTTAC
20050343 TCTCTTATGG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
24 17 0.41
26 4 0.10
28 20 0.49
ACGTcount: A:0.12, C:0.25, G:0.04, T:0.59
Consensus pattern (24 bp):
TTATTTCTCATGTTCTTTTACCTT
Found at i:20055846 original size:6 final size:6
Alignment explanation
Indices: 20055835--20055901 Score: 98
Period size: 6 Copynumber: 11.2 Consensus size: 6
20055825 AAATAGTTTA
*
20055835 CAATTC CAATTC CAATTC CAATCC CAATTC CAATTC CAATTC CAATTC
1 CAATTC CAATTC CAATTC CAATTC CAATTC CAATTC CAATTC CAATTC
* * *
20055883 CCATTC CCATTC CCATTC C
1 CAATTC CAATTC CAATTC C
20055902 CCTTCCTCTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.28, C:0.40, G:0.00, T:0.31
Consensus pattern (6 bp):
CAATTC
Found at i:20056321 original size:12 final size:12
Alignment explanation
Indices: 20056304--20056330 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20056294 CCTACAAAAA
20056304 TATTTCCCCTTT
1 TATTTCCCCTTT
20056316 TATTTCCCCTTT
1 TATTTCCCCTTT
20056328 TAT
1 TAT
20056331 CTTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.11, C:0.30, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTTCCCCTTT
Found at i:20060236 original size:21 final size:21
Alignment explanation
Indices: 20060210--20060250 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20060200 ATCTGCTCAA
* *
20060210 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
20060231 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
20060251 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:20069890 original size:2 final size:2
Alignment explanation
Indices: 20069883--20069926 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
20069873 CAGCACTACT
20069883 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
20069925 TC
1 TC
20069927 ATGCATGCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:20071320 original size:10 final size:10
Alignment explanation
Indices: 20071307--20071368 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
20071297 AATATTAAAA
20071307 AATAATTTTT
1 AATAATTTTT
*
20071317 AAT-ATATTT
1 AATAATTTTT
20071326 AA-ATATTTTT
1 AATA-ATTTTT
20071336 -ATAATTTTT
1 AATAATTTTT
*
20071345 AAAATATTTTT
1 AATA-ATTTTT
*
20071356 AATGATTTTT
1 AATAATTTTT
20071366 AAT
1 AAT
20071369 TTTGAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
9 14 0.33
10 20 0.48
11 8 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
AATAATTTTT
Found at i:20071329 original size:20 final size:21
Alignment explanation
Indices: 20071306--20071367 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 21
20071296 AAATATTAAA
20071306 AAATAATTTTTAAT-ATATTT
1 AAATAATTTTTAATAATATTT
*
20071326 AAAT-ATTTTT-ATAATTTTT
1 AAATAATTTTTAATAATATTT
* *
20071345 AAA-ATATTTTTAATGATTTTT
1 AAATA-ATTTTTAATAATATTT
20071366 AA
1 AA
20071368 TTTTGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
18 2 0.06
19 14 0.39
20 10 0.28
21 10 0.28
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
AAATAATTTTTAATAATATTT
Found at i:20071368 original size:28 final size:27
Alignment explanation
Indices: 20071309--20071405 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 27
20071299 TATTAAAAAA
* *
20071309 TAATTTTTAATATA-TTTAAATATTTTT
1 TAATTTTTAAAATATTTTTAATA-TTTT
20071336 ATAATTTTTAAAATATTTTTAATGATTTT
1 -TAATTTTTAAAATATTTTTAAT-ATTTT
*
20071365 TAATTTTGAAAAATAATTTTTATATATTTT
1 TAATTTT-TAAAAT-ATTTTTA-ATATTTT
*
20071395 TAAATTTTAAA
1 TAATTTTTAAA
20071406 TTTTAAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
28 20 0.34
29 18 0.31
30 19 0.32
31 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TAATTTTTAAAATATTTTTAATATTTT
Found at i:20071408 original size:38 final size:40
Alignment explanation
Indices: 20071336--20071421 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 40
20071326 AAATATTTTT
* *
20071336 ATAATTTTTAAAATATTTTTAATGATTTTTAATTTTGAAAA
1 ATAATTTTTAAAATATTTTTAA-GATTTTAAATTTTAAAAA
*
20071377 ATAATTTTT-ATATATTTTTAA-ATTTTAAATTTTAAAAA
1 ATAATTTTTAAAATATTTTTAAGATTTTAAATTTTAAAAA
20071415 ATTAATT
1 A-TAATT
20071422 AAATGTTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
38 16 0.39
39 5 0.12
40 11 0.27
41 9 0.22
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (40 bp):
ATAATTTTTAAAATATTTTTAAGATTTTAAATTTTAAAAA
Found at i:20072707 original size:21 final size:19
Alignment explanation
Indices: 20072682--20072735 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 19
20072672 TTTTTTAAAT
20072682 TATAAAAATAATTTAAAAAA
1 TATAAAAATAATTT-AAAAA
*
20072702 TAATAAAAAT-GTTTAAAAA
1 T-ATAAAAATAATTTAAAAA
20072721 TATAAAAATATATTT
1 TATAAAAATA-ATTT
20072736 TTAATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 8 0.28
19 6 0.21
20 7 0.24
21 8 0.28
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TATAAAAATAATTTAAAAA
Found at i:20074974 original size:15 final size:16
Alignment explanation
Indices: 20074956--20074988 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
20074946 TTTATTTTTA
*
20074956 TTTTATTTTTTAC-TT
1 TTTTACTTTTTACGTT
20074971 TTTTACTTTTTACGTT
1 TTTTACTTTTTACGTT
20074987 TT
1 TT
20074989 CTTGTGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTACTTTTTACGTT
Found at i:20076768 original size:10 final size:10
Alignment explanation
Indices: 20076753--20076798 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
20076743 TAATCTTAGG
20076753 ATTTAT-TTT
1 ATTTATCTTT
20076762 CATTTATCTTT
1 -ATTTATCTTT
*
20076773 AATTATCTTT
1 ATTTATCTTT
20076783 ATTTAT-TTGT
1 ATTTATCTT-T
20076793 ATTTAT
1 ATTTAT
20076799 GTTTTAGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:20080840 original size:25 final size:25
Alignment explanation
Indices: 20080810--20080972 Score: 247
Period size: 25 Copynumber: 6.5 Consensus size: 25
20080800 GACCTCAGCA
*
20080810 TGCTCTCTGATTATTAGCACGTCAG
1 TGCTCTCTGATTATTAGCACGCCAG
*
20080835 TGCTCTCTGATTATTAGCATGCCAG
1 TGCTCTCTGATTATTAGCACGCCAG
*
20080860 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTGATTATTAGCACGCCAG
*
20080885 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTGATTATTAGCACGCCAG
*
20080910 TGCTCTCTAATTATTAGCACGCCAG
1 TGCTCTCTGATTATTAGCACGCCAG
* *
20080935 TGTTCTCTGA-TATTTAGCACGTCAG
1 TGCTCTCTGATTA-TTAGCACGCCAG
20080960 TGCTCTCTGATTA
1 TGCTCTCTGATTA
20080973 GCACATTTGT
Statistics
Matches: 126, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
24 2 0.02
25 122 0.97
26 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.34
Consensus pattern (25 bp):
TGCTCTCTGATTATTAGCACGCCAG
Found at i:20081013 original size:22 final size:21
Alignment explanation
Indices: 20080948--20081014 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
20080938 TCTCTGATAT
*
20080948 TTAGCACGTCAGTGCTCTCTG
1 TTAGCACTTCAGTGCTCTCTG
*
20080969 ATTAGCACATT-TGTGCTCTCTG
1 -TTAGCAC-TTCAGTGCTCTCTG
20080991 TGTAGCACTTCAGTGCTCTCTG
1 T-TAGCACTTCAGTGCTCTCTG
20081013 TT
1 TT
20081015 CATTAGTGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 4 0.10
22 34 0.87
23 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (21 bp):
TTAGCACTTCAGTGCTCTCTG
Found at i:20089169 original size:51 final size:50
Alignment explanation
Indices: 20089058--20089284 Score: 355
Period size: 51 Copynumber: 4.5 Consensus size: 50
20089048 TTTGAGTAAT
* * *
20089058 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
* *
20089108 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAG-CTTAGCTACACTTA
* * *
20089159 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
*
20089209 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGC-TTAGCTACACTTA
20089260 TCTGATCAGTGACAAGTGATAAATG
1 TCTGATCAGTGACAAGTGATAAATG
20089285 TGATCAGTGT
Statistics
Matches: 160, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
50 79 0.49
51 81 0.51
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (50 bp):
TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
Found at i:20089233 original size:101 final size:101
Alignment explanation
Indices: 20089058--20089284 Score: 418
Period size: 101 Copynumber: 2.2 Consensus size: 101
20089048 TTTGAGTAAT
20089058 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
1 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
20089123 GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
66 GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
20089159 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
1 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
* *
20089224 GTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTA
66 GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
* *
20089260 TCTGATCAGTGACAAGTGATAAATG
1 TCTGATCAGTGATAAGTGACAAATG
20089285 TGATCAGTGT
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 122 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (101 bp):
TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
Found at i:20095873 original size:49 final size:50
Alignment explanation
Indices: 20095768--20095982 Score: 320
Period size: 49 Copynumber: 4.4 Consensus size: 50
20095758 TTTGAGTAAT
* *
20095768 TCTGATCAGTG--AAGTGACAA-TGATAAGTGGTAGC-TAGCTACTCTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
20095814 TCTGATCAGTGACAAGTGA-AAGTGATAAGTGGTAGCTCAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
20095863 TCTGATCAGTGATAAGTGATAAATGATAAGTGGTAGCTTAGCTAC-CTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTA
20095912 TCTGATCAGTGACAAGTGATAAGTGATAAGTGG-AGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGC-TTAGCTACACTTA
20095962 TCTGAT-AGTGACAAGTGATAA
1 TCTGATCAGTGACAAGTGATAA
20095983 ATGTGATCAG
Statistics
Matches: 155, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
46 11 0.07
47 2 0.01
48 23 0.15
49 86 0.55
50 33 0.21
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.30
Consensus pattern (50 bp):
TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:20097722 original size:44 final size:44
Alignment explanation
Indices: 20097656--20097831 Score: 167
Period size: 44 Copynumber: 4.0 Consensus size: 44
20097646 AATCACCATG
* * *
20097656 GCGAATCTTGTCTCCCTAAAGTTGTAGTGGAACAGATTGAAGCC
1 GCGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCA
* * *
20097700 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGTTA
1 GCGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAG-CA
* * *
20097745 -C-AGATCTTATCTCCCTAAAGTTGCAGTGGAATAGATCGAAGATA
1 GCGA-ATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAG-CA
** * * * * *
20097789 GAAAATCTCATTTCCTTGAAGTTGCAGTGGAACAGATTAAAGC
1 GCGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGC
20097832 TATGAGTTAC
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
43 1 0.01
44 77 0.70
45 31 0.28
46 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
GCGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCA
Found at i:20097774 original size:88 final size:89
Alignment explanation
Indices: 20097660--20097826 Score: 219
Period size: 88 Copynumber: 1.9 Consensus size: 89
20097650 ACCATGGCGA
* * * * ** *
20097660 ATCTTGTCTCCCTAAAGTTGTAGTGGAACAGATTGAAG-CCGCGAATCTTATCTCCCTGAAGTTG
1 ATCTTATCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACAGAAAATCTCATCTCCCTGAAGTTG
*
20097724 CAGTGGAATAGATTGAAGTTACAG
66 CAGTGGAACAGATTGAAGTTACAG
* * * *
20097748 ATCTTATCTCCCTAAAGTTGCAGTGGAATAGATCGAAGATAGAAAATCTCATTTCCTTGAAGTTG
1 ATCTTATCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACAGAAAATCTCATCTCCCTGAAGTTG
20097813 CAGTGGAACAGATT
66 CAGTGGAACAGATT
20097827 AAAGCTATGA
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
88 34 0.52
89 32 0.48
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (89 bp):
ATCTTATCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACAGAAAATCTCATCTCCCTGAAGTTG
CAGTGGAACAGATTGAAGTTACAG
Found at i:20098109 original size:94 final size:94
Alignment explanation
Indices: 20097935--20098171 Score: 262
Period size: 94 Copynumber: 2.5 Consensus size: 94
20097925 GCTAAAGATA
* * * * *
20097935 GCAAATCTTATCTTTCTGAAGTTGCAGTAGAGCATATTAAAGCTACAAATCCTATACCTCTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATCCTATACCTCTGAAA
* *
20098000 TTGCAGTAGGTCGGATCAAA-TCTATCATG
66 TTGCAGTAGGACGGATCAAAGT-TACCATG
* * * * *
20098029 GCGAATCTTATCTCCCTGACGTTGCGGTAGAGCAGATTGAAGCCACTAATCCTATACC-CGTGAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATCCTATACCTC-TGAA
* * * *
20098093 ATTGTAGTGGGACGGATTAAAGTTACCTTG
65 ATTGCAGTAGGACGGATCAAAGTTACCATG
* * * *
20098123 GCAAATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATTGAAGACACAAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAA
20098172 CCTTGTCTCC
Statistics
Matches: 116, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
93 1 0.01
94 114 0.98
95 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (94 bp):
GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATCCTATACCTCTGAAA
TTGCAGTAGGACGGATCAAAGTTACCATG
Found at i:20101078 original size:179 final size:181
Alignment explanation
Indices: 20100768--20101131 Score: 493
Period size: 179 Copynumber: 2.0 Consensus size: 181
20100758 TCTTCTCTCG
20100768 TTTTCTCTATTATGTTATCACGCTCATCAAAACAAAATCAAGTAGAAAAAAAGAAAGAAAGAGGG
1 TTTTCTCTATTATGTTATCACGCTCATCAAAACAAAATCAAGTAGAAAAAAAG-AAGAAAGA-GG
20100833 CAACAACTTGCAATCCAAAATACCATAAAAGAAAGTTGAATGTTAGTATTCCCTTCCTACTCAAT
64 --A-AACTTGCAATCCAAAATACCATAAAAGAAAGTTGAATGTTAGTATTCCCTTCCTACTCAAT
* * **
20100898 AGTCTAACTAGTACCTTTTTATTTCTTTGTCTCGTTCCTCTTCTTTGACTCTACTC
126 AGTCTAACTAGTAACTTTTTATTTCTTTGTCTAGTTCCTCTTCTTCAACTCTACTC
* *
20100954 TTTTCTCTATTATGTTTATCATGCTCATCAAAACAAAATCAAGTA-AAAAAAAG-AGAACGA-G-
1 TTTTCTCTATTATG-TTATCACGCTCATCAAAACAAAATCAAGTAGAAAAAAAGAAGAAAGAGGA
* ** * *
20101015 AACTTTCAATCCAAAATACTGTAAAAGGAAAGTTGAATGTTAGTATTCCTTTCCTAGTCAATAGT
65 AACTTGCAATCCAAAATACCATAAAA-GAAAGTTGAATGTTAGTATTCCCTTCCTACTCAATAGT
* * * * *
20101080 CTAATTGGTAAGTTTTTCTTTCTTTGTTTAGTTCCTCTTCTTCAACTCTACT
129 CTAACTAGTAACTTTTTATTTCTTTGTCTAGTTCCTCTTCTTCAACTCTACT
20101132 ATTGTTTGTT
Statistics
Matches: 160, Mismatches: 16, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
178 23 0.14
179 79 0.49
182 1 0.01
184 6 0.04
186 22 0.14
187 29 0.18
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.36
Consensus pattern (181 bp):
TTTTCTCTATTATGTTATCACGCTCATCAAAACAAAATCAAGTAGAAAAAAAGAAGAAAGAGGAA
ACTTGCAATCCAAAATACCATAAAAGAAAGTTGAATGTTAGTATTCCCTTCCTACTCAATAGTCT
AACTAGTAACTTTTTATTTCTTTGTCTAGTTCCTCTTCTTCAACTCTACTC
Found at i:20101301 original size:216 final size:213
Alignment explanation
Indices: 20100930--20101347 Score: 656
Period size: 216 Copynumber: 1.9 Consensus size: 213
20100920 TTCTTTGTCT
*
20100930 CGTTCCTCTTCTTTGACTCTACTCTTTTCTCTATTATGTTTATCATGCTCATCAAAACAAAATCA
1 CGTTCCTCTTCTCTGACTCTACTCTTTTCTCTATTATGTTTATCATGCTCATCAAAACAAAATCA
* * * ** *
20100995 AGTAAAAAAAAGAGAACGAGAACTTTCAATCCAAAATACTGTAAAAGGAAAGTTGAATGTTAGTA
66 AGTAAAAAAAAAAGAACGACAACTTACAATCCAAAATACCATAAAAGAAAAGTTGAATGTTAGTA
* *
20101060 TTCCTTTCCTAGTCAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTTTAGTTCCTCTTCTTCAA
131 TTCCTTTCCTAGTCAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTCTAGTTCCTCTTCTCCAA
20101125 CTCTACTATTGTTTGTTC
196 CTCTACTATTGTTTGTTC
* *
20101143 CGTTCCTCTTCTCTGACTCTACTTTTGTTTTCTCTATTATGTTTATCATGCTCATCTAAACAAAA
1 CGTTCCTCTTCTCTGACTCTAC---TCTTTTCTCTATTATGTTTATCATGCTCATCAAAACAAAA
* * *
20101208 TCAAGTAAAAAAAAAAGGATGACAACTTACAATCCAAAATACCATAGAAGAAAAGTTGAATGTTA
63 TCAAGTAAAAAAAAAAGAACGACAACTTACAATCCAAAATACCATAAAAGAAAAGTTGAATGTTA
* *
20101273 GTATTCCTTTCCTAGTTAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTCTCGTTCCTCTTCTC
128 GTATTCCTTTCCTAGTCAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTCTAGTTCCTCTTCTC
*
20101338 CGACTCTACT
193 CAACTCTACT
20101348 CTCGTTTTCT
Statistics
Matches: 185, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
213 21 0.11
216 164 0.89
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (213 bp):
CGTTCCTCTTCTCTGACTCTACTCTTTTCTCTATTATGTTTATCATGCTCATCAAAACAAAATCA
AGTAAAAAAAAAAGAACGACAACTTACAATCCAAAATACCATAAAAGAAAAGTTGAATGTTAGTA
TTCCTTTCCTAGTCAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTCTAGTTCCTCTTCTCCAA
CTCTACTATTGTTTGTTC
Found at i:20102738 original size:17 final size:18
Alignment explanation
Indices: 20102697--20102741 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
20102687 TATAATATGC
20102697 TAATAAATATATAGTATTA
1 TAAT-AATATATAGTATTA
* *
20102716 TTATAATATATA-TATTG
1 TAATAATATATAGTATTA
20102733 TAATAATAT
1 TAATAATAT
20102742 GATTTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 12 0.52
18 8 0.35
19 3 0.13
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (18 bp):
TAATAATATATAGTATTA
Found at i:20102804 original size:28 final size:28
Alignment explanation
Indices: 20102751--20102804 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
20102741 TGATTTTATT
* *
20102751 AAAATAAATAAATTCAATGGATAATTAA
1 AAAATAAATAAATTAAATGGAAAATTAA
*
20102779 AAAATAAATAAATTAAATGTAAAATT
1 AAAATAAATAAATTAAATGGAAAATT
20102805 GGAGAAATCG
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:0.63, C:0.02, G:0.06, T:0.30
Consensus pattern (28 bp):
AAAATAAATAAATTAAATGGAAAATTAA
Found at i:20102969 original size:24 final size:23
Alignment explanation
Indices: 20102911--20102969 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
20102901 AGTTAAAATG
*
20102911 TATTTAAATT-ATTTTATAATTT
1 TATTTAAATTAATTTTATAATTA
** *
20102933 TGCTTAAATTTAATTTTATGATTAA
1 TATTTAAA-TTAATTTTATAATT-A
20102958 TATTTAAATTAA
1 TATTTAAATTAA
20102970 ATAAATGCAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 6 0.21
23 2 0.07
24 14 0.50
25 6 0.21
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (23 bp):
TATTTAAATTAATTTTATAATTA
Found at i:20118810 original size:51 final size:50
Alignment explanation
Indices: 20118699--20118925 Score: 355
Period size: 51 Copynumber: 4.5 Consensus size: 50
20118689 TTTGAGTAAT
* * *
20118699 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
* *
20118749 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAG-CTTAGCTACACTTA
* * *
20118800 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
*
20118850 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGC-TTAGCTACACTTA
20118901 TCTGATCAGTGACAAGTGATAAATG
1 TCTGATCAGTGACAAGTGATAAATG
20118926 TGATCAGTGT
Statistics
Matches: 160, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
50 79 0.49
51 81 0.51
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (50 bp):
TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
Found at i:20118874 original size:101 final size:101
Alignment explanation
Indices: 20118699--20118925 Score: 418
Period size: 101 Copynumber: 2.2 Consensus size: 101
20118689 TTTGAGTAAT
20118699 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
1 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
20118764 GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
66 GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
20118800 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
1 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
* *
20118865 GTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTA
66 GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
* *
20118901 TCTGATCAGTGACAAGTGATAAATG
1 TCTGATCAGTGATAAGTGACAAATG
20118926 TGATCAGTGT
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 122 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (101 bp):
TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
Found at i:20125572 original size:51 final size:50
Alignment explanation
Indices: 20125461--20125687 Score: 355
Period size: 51 Copynumber: 4.5 Consensus size: 50
20125451 TTTGAGTAAT
* * *
20125461 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
* *
20125511 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAG-CTTAGCTACACTTA
* * *
20125562 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
*
20125612 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGC-TTAGCTACACTTA
20125663 TCTGATCAGTGACAAGTGATAAATG
1 TCTGATCAGTGACAAGTGATAAATG
20125688 TGATCAGTGT
Statistics
Matches: 160, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
50 79 0.49
51 81 0.51
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (50 bp):
TCTGATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTA
Found at i:20125636 original size:101 final size:101
Alignment explanation
Indices: 20125461--20125687 Score: 418
Period size: 101 Copynumber: 2.2 Consensus size: 101
20125451 TTTGAGTAAT
20125461 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
1 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
20125526 GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
66 GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
20125562 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
1 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
* *
20125627 GTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTA
66 GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
* *
20125663 TCTGATCAGTGACAAGTGATAAATG
1 TCTGATCAGTGATAAGTGACAAATG
20125688 TGATCAGTGT
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 122 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (101 bp):
TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACAA
GTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
Found at i:20132638 original size:10 final size:10
Alignment explanation
Indices: 20132625--20132666 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
20132615 TAATATTAGG
20132625 ATTTATTTTT
1 ATTTATTTTT
*
20132635 ATTTATCTTT
1 ATTTATTTTT
*
20132645 ATTTATTTGT
1 ATTTATTTTT
20132655 ATTTATCTTTT
1 ATTTAT-TTTT
20132666 A
1 A
20132667 GAATTTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 23 0.85
11 4 0.15
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:20132650 original size:20 final size:20
Alignment explanation
Indices: 20132625--20132664 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
20132615 TAATATTAGG
*
20132625 ATTTATTTTTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
20132645 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
20132665 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:20138264 original size:29 final size:28
Alignment explanation
Indices: 20138229--20138336 Score: 155
Period size: 28 Copynumber: 3.8 Consensus size: 28
20138219 TTGTGCTATT
* *
20138229 CTGGTGTGTTTTGGATGGATTATATTATT
1 CTGGTGTGTTTTGGA-GGATTATATGATA
20138258 CTGGTGTG-TTTGGAAGGATTATATGATA
1 CTGGTGTGTTTTGG-AGGATTATATGATA
*
20138286 CTGGTGTGTTTGGGAGGATTATATGATA
1 CTGGTGTGTTTTGGAGGATTATATGATA
*
20138314 CTAGTGTGTTTTGGAGGATTATA
1 CTGGTGTGTTTTGGAGGATTATA
20138337 CTGGTGTGTT
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
28 59 0.82
29 13 0.18
ACGTcount: A:0.21, C:0.04, G:0.31, T:0.44
Consensus pattern (28 bp):
CTGGTGTGTTTTGGAGGATTATATGATA
Found at i:20138278 original size:23 final size:23
Alignment explanation
Indices: 20138252--20138373 Score: 59
Period size: 28 Copynumber: 4.9 Consensus size: 23
20138242 GATGGATTAT
20138252 ATTATTCTGGTGTGTTTGGAAGG
1 ATTATTCTGGTGTGTTTGGAAGG
*
20138275 ATTATATGATACTGGTGTGTTTGGGAGG
1 A-T-TAT--T-CTGGTGTGTTTGGAAGG
*
20138303 ATTATATGATACTAGTGTGTTTTGG-AGG
1 A-T-TAT--T-CTGGTGTG-TTTGGAAGG
* **
20138331 ATTATACTGGTGTGTTTTGGTTGG
1 ATTATTCTGGTGTG-TTTGGAAGG
* *
20138355 A-CATTTTGGTGTGTTTGGA
1 ATTATTCTGGTGTGTTTGGA
20138374 TGGAATCCGT
Statistics
Matches: 83, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
22 5 0.06
23 23 0.28
24 4 0.05
25 3 0.04
26 3 0.04
27 2 0.02
28 38 0.46
29 5 0.06
ACGTcount: A:0.19, C:0.04, G:0.33, T:0.44
Consensus pattern (23 bp):
ATTATTCTGGTGTGTTTGGAAGG
Found at i:20138570 original size:23 final size:22
Alignment explanation
Indices: 20138540--20138605 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 22
20138530 GCTTTACTGA
20138540 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCAC-TTATGTGTCGTATT
**
20138563 TCAGGCACCTCGTGTGTCG--TT
1 TCAGGCA-CTTATGTGTCGTATT
20138584 TCAGGCACTTATGTGTCGTATT
1 TCAGGCACTTATGTGTCGTATT
20138606 CTGATCAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
20 9 0.25
21 9 0.25
22 2 0.06
23 15 0.42
24 1 0.03
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.39
Consensus pattern (22 bp):
TCAGGCACTTATGTGTCGTATT
Found at i:20143029 original size:19 final size:19
Alignment explanation
Indices: 20143005--20143049 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
20142995 AAATGAATCG
20143005 GTAACTCCAGTAATGCTCC
1 GTAACTCCAGTAATGCTCC
*
20143024 GTAACTCCGGTAATGCTCC
1 GTAACTCCAGTAATGCTCC
20143043 GTAACTC
1 GTAACTC
20143050 TATTCTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
GTAACTCCAGTAATGCTCC
Found at i:20150221 original size:23 final size:23
Alignment explanation
Indices: 20150189--20150249 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
20150179 CCAAAAATAT
* * ** *
20150189 AAAATCATAAATTAACATATAAC
1 AAAATTATAATTTAACAGTTAAA
20150212 AAAATTATAATTTAACAGTTAAA
1 AAAATTATAATTTAACAGTTAAA
20150235 AAAATTATAATTTAA
1 AAAATTATAATTTAA
20150250 TTTTAAACCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAATTATAATTTAACAGTTAAA
Found at i:20152909 original size:2 final size:2
Alignment explanation
Indices: 20152902--20152937 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
20152892 CAGCACTACT
20152902 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
20152938 ATGCATGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:20153466 original size:17 final size:17
Alignment explanation
Indices: 20153444--20153477 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20153434 ATCCACTAAT
*
20153444 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
20153461 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
20153478 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:20158105 original size:17 final size:17
Alignment explanation
Indices: 20158083--20158116 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20158073 ATCCACTAAT
*
20158083 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
20158100 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
20158117 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:20167380 original size:237 final size:234
Alignment explanation
Indices: 20167088--20168287 Score: 954
Period size: 237 Copynumber: 4.9 Consensus size: 234
20167078 CATTCTTATC
* * * * *
20167088 ATATATTATTGTTTATTGTTATATTGGTTGAAATATGTTTTAAGTCCCTATACTTTTTGTACATT
1 ATATATTATTATATATTATTATATTGGTTGAAATATGCTTTAAGTCCCTATACTTTTCGTACATT
* * * *
20167153 TGATAGTTAGCCATCCTATTATATTACATAATGTTATATCATATCATATAATATATAATACATTA
66 TGAAAGTTAGCC-TCCTACTATATTACATAATGCTATATCATATCATATAATATATAATATA-TA
* * *
20167218 ATAGTTTATACATATGCATCAATGATTAAACATTATAATATCATATAGTATTATACATTTTATTA
129 ATA-TTTAT--ATATGCATCAATGATTAAACATTATAATATCATGTAATACTATACATTTTATTA
* * *
20167283 TGATTTATAATATAATAATAGTTATACATAATAGTAGTACA-TT
191 TAATCTATAATATAATAATAGTTATATATAATAGTAGTACATTT
20167326 ATATATTA-T-TATATTATTATATTGGTTGAAATATGCTTTTAAGTCCCTATACTTTTCGTACAT
1 ATATATTATTATATATTATTATATTGGTTGAAATATGC-TTTAAGTCCCTATACTTTTCGTACAT
* * * * **
20167389 TTGAAAGTTAGCTCTCTTATTATATTACATAATGCTATATCATACCATGTGGTATATAATATATT
65 TTGAAAGTTAGC-CTCCTACTATATTACATAATGCTATATCATATCATATAATATATAATATA-T
*
20167454 AATAGTTTATATATGCATCAATGATTAAACA-TATAATATCATGTAATACTATATATTTTATTAT
128 AATA-TTTATATATGCATCAATGATTAAACATTATAATATCATGTAATACTATACATTTTATTAT
*
20167518 AATTTATAATATAATAATAGTTATATATAATAGTAGTACATTAT
192 AATCTATAATATAATAATAGTTATATATAATAGTAGTACATT-T
** ** *
20167562 ATATAAATTATTATACATTATTGTTTATTATTATTCTAATTGAAATATGCTCCAAGTCCTTATAC
1 ATAT--ATTATTAT--A-TA----TTATTA-TA-T-TGGTTGAAATATGCTTTAAGTCCCTATAC
* * * * * *
20167627 TTTTCGTACATCTAAAAGTTAACCCTTCTACTATATTATATATTGCTATATCATATAGCATATAA
54 TTTTCGTACATTTGAAAGTT-AGCCTCCTACTATATTACATAATGCTATATCATAT--CATATAA
* * * * * *
20167692 CATAT--TA-ATAAT-TTTGTATATGCATCAATGATTGAACATTAAAATATTATGTAATTTTCTA
116 TATATAATATATAATATTTATATATGCATCAATGATTAAACATTATAATATCATGTAA--TACTA
20167753 T-C-TTTTATTATAATCTATAATATAATAATA-TTAATATATAATAGTAGTATACATTATTT
179 TACATTTTATTATAATCTATAATATAATAATAGTT-ATATATAATAGTAG--TAC---ATTT
* * * * ** * * *
20167812 ATTACATATTATTGTTTATTATTATAGTGGTTGAAATTTGCTTTAAGTTTCTATGC-TTTCATGC
1 A-T--ATATTATTATATATTATTATATTGGTTGAAATATGCTTTAAGTCCCTATACTTTTCGTAC
* * * *
20167876 ATTTGGAAGTTAGCCTTCCTACTATATTATATAATGCTATATCATATCACATATTAATATTTTAT
63 ATTTGAAAGTTAGCC-TCCTACTATATTACATAATGCTATATCATAT--CATA-TAATATATAAT
* * * * * **
20167941 ATAT-ATGTATATATATGTATAAATGATT-AACATTATAATATCATGTAATACCATATTTTTTAT
124 ATATAATATTTATATATGCATCAATGATTAAACATTATAATATCATGTAATACTATACATTTTAT
* * *
20168004 TATAATCTATATTATATTAATAGTTATATATAATAGTAGTCCATTAT
189 TATAATCTATAATATAATAATAGTTATATATAATAGTAGTACATT-T
* * * * **
20168051 ATATTACTTATTGTTGTATATTATTGTTTATTGTTACAATAGTTAAAATATGTTTTAAGTCTTTA
1 ATA-TA-TTA---TTATATATTA-T-TATATTG--------GTTGAAATATGCTTTAAGTCCCTA
* * * ** * ** *
20168116 TATTTTTCATACATTTGAAAGTTAACCCTATTACTATATTATATAATATTATATCATATCATAAA
51 TACTTTTCGTACATTTGAAAGTT-AGCCTCCTACTATATTACATAATGCTATATCATATCATATA
* * * * * * * *
20168181 ATATATTAATGGTTTATATATATATATATGTATCGATAATTAAACATTACAATATCATGTAATAT
115 ATATA-TAAT-ATATA-ATATTTATATATGCATCAATGATTAAACATTATAATATCATGTAATAC
* *
20168246 TATATC-TTTTACTATAATCTATATTATAATAATAGTTATATA
177 TATA-CATTTTATTATAATCTATAATATAATAATAGTTATATA
20168288 CATGTTAATA
Statistics
Matches: 785, Mismatches: 111, Indels: 116
0.78 0.11 0.11
Matches are distributed among these distances:
234 67 0.09
235 22 0.03
236 30 0.04
237 93 0.12
238 20 0.03
239 6 0.01
240 48 0.06
241 41 0.05
242 2 0.00
243 71 0.09
244 27 0.03
245 26 0.03
246 54 0.07
247 10 0.01
248 13 0.02
249 64 0.08
250 23 0.03
251 41 0.05
252 44 0.06
253 25 0.03
254 58 0.07
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (234 bp):
ATATATTATTATATATTATTATATTGGTTGAAATATGCTTTAAGTCCCTATACTTTTCGTACATT
TGAAAGTTAGCCTCCTACTATATTACATAATGCTATATCATATCATATAATATATAATATATAAT
ATTTATATATGCATCAATGATTAAACATTATAATATCATGTAATACTATACATTTTATTATAATC
TATAATATAATAATAGTTATATATAATAGTAGTACATTT
Found at i:20167547 original size:16 final size:17
Alignment explanation
Indices: 20167521--20167554 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
20167511 TTATTATAAT
20167521 TTATAATATAATAATAG
1 TTATAATATAATAATAG
*
20167538 TTAT-ATATAATAGTAG
1 TTATAATATAATAATAG
20167554 T
1 T
20167555 ACATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
TTATAATATAATAATAG
Found at i:20167968 original size:489 final size:480
Alignment explanation
Indices: 20167193--20168287 Score: 1190
Period size: 489 Copynumber: 2.2 Consensus size: 480
20167183 ATGTTATATC
* * * * *
20167193 ATATCATATAATATATAATACATTAATAGTTTATACATATGCATCAATGATTAAACATTATAATA
1 ATATCATAT-ACATATAATATATTAATAATTT-TATATATGCATCAATGATTAAACATTAAAATA
* * * * *
20167258 TCATATAGTATTATA-CATTTTATTATGATTTATAATATAATAATAGTTATACATAATAGTAGTA
64 TCATGTAATATTATATC-TTTTATTATAATCTATAATATAATAATAGTTATATATAATAGTAGTA
* *
20167322 CATTATATATTATTATATTATTATATTGGTTGAAATATGCTTTTAAGTCCCTATACTTTTCGTAC
128 CATTATATATTATTATATTATTATAGTGGTTGAAATATGCTTTTAAGTCCCTATACTTTTCATAC
* * *
20167387 ATTTGAAAGTTAGCTCTCTTATTATATTACATAATGCTATATCATACCATGTGGTATATAATATA
193 ATTTGAAAGTTAGCTCTCCTACTATATTACATAATGCTATATCATACCATAT-GTATATAATATA
* * *
20167452 TTAATAGTTTATATATGCATCAATGATTAAACA-TATAATATCATGTAATACTATATATTTTATT
257 TTAATAGTATATATATGCATAAATGATT-AACATTATAATATCATGTAATACCATATATTTTATT
*
20167516 ATAATTTATAATATAATAATAGTTATATATAATAGTAGTACATTATATA-TA-AATTATTATACA
321 ATAATCTATAATATAATAATAGTTATATATAATAGTAGTACATTATATATTACAATTATTATACA
*** * *
20167579 TTATTGTTTATTATTATTCTAATTGAAATATGCTCCAAGTCCTTATACTTTTCGTACATCTAAAA
386 TTATTGTTTATTATTACAATAATTAAAATATGCTCCAAGTCCTTATACTTTTCATACATCTAAAA
* *
20167644 GTTAACCCT-TCTACTATATTATATATTGCT
451 GTTAACCCTAT-TACTATATTATATAATACT
* * *
20167674 ATATCATATAGCATATAACATATTAATAATTTTGTATATGCATCAATGATTGAACATTAAAATAT
1 ATATCATATA-CATATAATATATTAATAATTTTATATATGCATCAATGATTAAACATTAAAATAT
* * *
20167739 TATGTAATTTTCTATCTTTTATTATAATCTATAATATAATAATA-TTAATATATAATAGTAGTAT
65 CATGTAATATTATATCTTTTATTATAATCTATAATATAATAATAGTT-ATATATAATAGTAG--T
* * ** *
20167803 ACATTATTTATTACATATTATTGTTTATTATTATAGTGGTTGAAATTTGC-TTTAAGTTTCTATG
127 AC---A-TTA-T--ATATTA-T-TATATTATTATAGTGGTTGAAATATGCTTTTAAGTCCCTATA
* * *
20167867 C-TTTCATGCATTTGGAAGTTAGC-CTTCCTACTATATTATATAATGCTATATCATATCACATAT
183 CTTTTCATACATTTGAAAGTTAGCTC-TCCTACTATATTACATAATGCTATATCATA-C-CATAT
* * *
20167930 -TA-ATATTTTA-TATATATGTATATATATGTATAAATGATTAACATTATAATATCATGTAATAC
245 GTATATAATATATTA-ATA-GTATATATATGCATAAATGATTAACATTATAATATCATGTAATAC
* * * *
20167992 CATATTTTTTATTATAATCTATATTATATTAATAGTTATATATAATAGTAGTCCATTATATATTA
308 CATATATTTTATTATAATCTATAATATAATAATAGTTATATATAATAGTAGTACATTATATATTA
* * * * * * * ** * *
20168057 CTTATTGTTGTATATTATTGTTTATTGTTACAATAGTTAAAATATGTTTTAAGTCTTTATATTTT
373 C-AATTATTATACATTATTGTTTATTATTACAATAATTAAAATATGCTCCAAGTCCTTATACTTT
* * *
20168122 TCATACATTTGAAAGTTAACCCTATTACTATATTATATAATATT
437 TCATACATCTAAAAGTTAACCCTATTACTATATTATATAATACT
* * * * *
20168166 ATATCATAT-CATAAAATATATTAATGGTTTATATATATATATATGTATCGATAATTAAACATTA
1 ATATCATATACATATAATATATTAA-----TA-AT-TTTATATATGCATCAATGATTAAACATTA
* * *
20168230 CAATATCATGTAATATTATATCTTTTACTATAATCTATATTATAATAATAGTTATATA
59 AAATATCATGTAATATTATATCTTTTATTATAATCTATAATATAATAATAGTTATATA
20168288 CATGTTAATA
Statistics
Matches: 507, Mismatches: 75, Indels: 48
0.80 0.12 0.08
Matches are distributed among these distances:
479 2 0.00
480 78 0.15
481 27 0.05
482 3 0.01
485 1 0.00
486 3 0.01
487 3 0.01
488 14 0.03
489 147 0.29
490 29 0.06
491 28 0.06
492 93 0.18
493 1 0.00
495 2 0.00
496 2 0.00
497 72 0.14
498 2 0.00
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (480 bp):
ATATCATATACATATAATATATTAATAATTTTATATATGCATCAATGATTAAACATTAAAATATC
ATGTAATATTATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATAGTAGTACAT
TATATATTATTATATTATTATAGTGGTTGAAATATGCTTTTAAGTCCCTATACTTTTCATACATT
TGAAAGTTAGCTCTCCTACTATATTACATAATGCTATATCATACCATATGTATATAATATATTAA
TAGTATATATATGCATAAATGATTAACATTATAATATCATGTAATACCATATATTTTATTATAAT
CTATAATATAATAATAGTTATATATAATAGTAGTACATTATATATTACAATTATTATACATTATT
GTTTATTATTACAATAATTAAAATATGCTCCAAGTCCTTATACTTTTCATACATCTAAAAGTTAA
CCCTATTACTATATTATATAATACT
Found at i:20169633 original size:66 final size:66
Alignment explanation
Indices: 20169527--20169658 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
20169517 GAGTTAAATC
* *
20169527 TAGTTTTTCCGAGTCAAAACATGTAAAGGGATTTTATATTATGTATATAACTATATATACCTGGA
1 TAGTTTTTCCGAGTCAAAACATGTAAACGGATTATATATTATGTATATAACTATATATACCTGGA
20169592 T
66 T
20169593 TAGTTTTTCCGAGTCAAAACATGTAAACGGATTATATATTATGTATATAACTATATATACCTGGA
1 TAGTTTTTCCGAGTCAAAACATGTAAACGGATTATATATTATGTATATAACTATATATACCTGGA
20169658 T
66 T
20169659 ACGGAGATAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (66 bp):
TAGTTTTTCCGAGTCAAAACATGTAAACGGATTATATATTATGTATATAACTATATATACCTGGA
T
Found at i:20173036 original size:16 final size:18
Alignment explanation
Indices: 20173015--20173051 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
20173005 TTAATCAAAT
20173015 AAGTTTAG-AAAAAA-AA
1 AAGTTTAGCAAAAAAGAA
*
20173031 AAGTTTGGCAAAAAAGAA
1 AAGTTTAGCAAAAAAGAA
20173049 AAG
1 AAG
20173052 ATATACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 6 0.33
18 5 0.28
ACGTcount: A:0.62, C:0.03, G:0.19, T:0.16
Consensus pattern (18 bp):
AAGTTTAGCAAAAAAGAA
Found at i:20180167 original size:20 final size:20
Alignment explanation
Indices: 20180142--20180180 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20180132 TGCTGGAACT
* *
20180142 TGCATTTTGGCTTTTTTTAG
1 TGCATTTTAGCTTGTTTTAG
20180162 TGCATTTTAGCTTGTTTTA
1 TGCATTTTAGCTTGTTTTA
20180181 TTTGTTTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.18, T:0.59
Consensus pattern (20 bp):
TGCATTTTAGCTTGTTTTAG
Found at i:20182520 original size:16 final size:16
Alignment explanation
Indices: 20182499--20182533 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
20182489 TATTAAATGA
20182499 TATAAAACATTTTTGG
1 TATAAAACATTTTTGG
20182515 TATAAAACATTTTTGG
1 TATAAAACATTTTTGG
20182531 TAT
1 TAT
20182534 GGTTAGAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (16 bp):
TATAAAACATTTTTGG
Found at i:20182589 original size:27 final size:27
Alignment explanation
Indices: 20182551--20182604 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
20182541 GACTATCAAA
20182551 CCAAAAGTTCATTATCTAACAGTTGTC
1 CCAAAAGTTCATTATCTAACAGTTGTC
20182578 CCAAAAGTTCATTATCTAACAGTTGTC
1 CCAAAAGTTCATTATCTAACAGTTGTC
20182605 AAAATTAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (27 bp):
CCAAAAGTTCATTATCTAACAGTTGTC
Found at i:20183012 original size:10 final size:9
Alignment explanation
Indices: 20182960--20183281 Score: 133
Period size: 10 Copynumber: 34.7 Consensus size: 9
20182950 CCAACAAATG
20182960 AATTTTTAT
1 AATTTTTAT
*
20182969 ATATTTTTTT
1 A-ATTTTTAT
*
20182979 TATATTTTATT
1 AAT-TTTTA-T
**
20182990 AAAATTTAT
1 AATTTTTAT
20182999 -ATTTTTAAT
1 AATTTTT-AT
*
20183008 AATTTATTAG
1 AATTT-TTAT
*
20183018 AACTTATTAT
1 AA-TTTTTAT
*
20183028 GATTTTTTAT
1 -AATTTTTAT
*
20183038 AAGTTTTAT
1 AATTTTTAT
*
20183047 AATTATTGAT
1 AATT-TTTAT
20183057 AA-TTTTAT
1 AATTTTTAT
20183065 AA-TTTTAT
1 AATTTTTAT
20183073 AA--TTTAT
1 AATTTTTAT
*
20183080 -ATTTTATTT
1 AATTTT-TAT
20183089 GAATTTTTAT
1 -AATTTTTAT
20183099 -ATTTTTAT
1 AATTTTTAT
* *
20183107 GATATTTAT
1 AATTTTTAT
*
20183116 TATTTTTAT
1 AATTTTTAT
* *
20183125 AATATTTAC
1 AATTTTTAT
*
20183134 AAATTTTAT
1 AATTTTTAT
** *
20183143 AAGTTCATAGA
1 AA-TTTTTA-T
* *
20183154 AAGTTTTAA
1 AATTTTTAT
20183163 ATATTTTTA-
1 A-ATTTTTAT
20183172 ACATGTTTTAT
1 A-AT-TTTTAT
*
20183183 -TTTTTTAT
1 AATTTTTAT
* *
20183191 AATTAATTAG
1 AATT-TTTAT
20183201 AATTTTTAT
1 AATTTTTAT
*
20183210 AATATTTAT
1 AATTTTTAT
20183219 AAGTTTTTAT
1 AA-TTTTTAT
20183229 GAATTTTTAT
1 -AATTTTTAT
* *
20183239 TAGTTTTAT
1 AATTTTTAT
20183248 AATTTTTTAT
1 AA-TTTTTAT
*
20183258 AA-TATTAT
1 AATTTTTAT
*
20183266 AAGTTTATAT
1 AA-TTTTTAT
20183276 AATTTT
1 AATTTT
20183282 GTAATATTTT
Statistics
Matches: 232, Mismatches: 54, Indels: 54
0.68 0.16 0.16
Matches are distributed among these distances:
6 1 0.00
7 5 0.02
8 41 0.18
9 79 0.34
10 90 0.39
11 16 0.07
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (9 bp):
AATTTTTAT
Found at i:20183024 original size:26 final size:26
Alignment explanation
Indices: 20182974--20183024 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
20182964 TTTATATATT
* * *
20182974 TTTTTTATATTTTATTAAAATTTATA
1 TTTTTAATAATTTATTAAAACTTATA
*
20183000 TTTTTAATAATTTATTAGAACTTAT
1 TTTTTAATAATTTATTAAAACTTAT
20183025 TATGATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTTTAATAATTTATTAAAACTTATA
Found at i:20183080 original size:7 final size:8
Alignment explanation
Indices: 20183032--20183144 Score: 77
Period size: 9 Copynumber: 13.0 Consensus size: 8
20183022 TATTATGATT
20183032 TTTTATAA
1 TTTTATAA
20183040 GTTTTATAA
1 -TTTTATAA
20183049 TTATTGATAA
1 TT-TT-ATAA
20183059 TTTTATAA
1 TTTTATAA
20183067 TTTTATAA
1 TTTTATAA
20183075 -TTTAT-A
1 TTTTATAA
20183081 TTTTATTTGAA
1 TTTTA--T-AA
*
20183092 TTTTTATAT
1 -TTTTATAA
*
20183101 TTTTATGA
1 TTTTATAA
*
20183109 TATTTATTAT
1 T-TTTA-TAA
20183119 TTTTATAA
1 TTTTATAA
*
20183127 TATTTACAAA
1 T-TTTA-TAA
20183137 TTTTATAA
1 TTTTATAA
20183145 GTTCATAGAA
Statistics
Matches: 84, Mismatches: 8, Indels: 25
0.72 0.07 0.21
Matches are distributed among these distances:
6 1 0.01
7 9 0.11
8 26 0.31
9 30 0.36
10 12 0.14
11 1 0.01
12 5 0.06
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.61
Consensus pattern (8 bp):
TTTTATAA
Found at i:20183097 original size:19 final size:20
Alignment explanation
Indices: 20183075--20183125 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
20183065 AATTTTATAA
*
20183075 TTTATATTTTATTTGA-ATT
1 TTTATATTTTATATGATATT
20183094 TTTATATTTT-TATGATATT
1 TTTATATTTTATATGATATT
20183113 TATTAT-TTTTATA
1 T-TTATATTTTATA
20183126 ATATTTACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.14
19 18 0.64
20 6 0.21
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTATATTTTATATGATATT
Found at i:20183225 original size:18 final size:18
Alignment explanation
Indices: 20183185--20183290 Score: 67
Period size: 18 Copynumber: 5.8 Consensus size: 18
20183175 TGTTTTATTT
* *
20183185 TTTTATAATTAATTAGAA
1 TTTTATAATTATTTATAA
20183203 TTTTTATAA-TATTTATAA
1 -TTTTATAATTATTTATAA
*
20183221 GTTTTTATGAATT-TTTATTAG
1 --TTTTAT-AATTATTTA-TAA
*
20183242 TTTTATAATTTTTTATAA
1 TTTTATAATTATTTATAA
* *
20183260 TATTATAAGTT-TATATAA
1 TTTTATAA-TTATTTATAA
*
20183278 TTTTGTAA-TATTT
1 TTTTATAATTATTT
20183291 TATTTTTTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
16 1 0.01
17 2 0.03
18 32 0.45
19 27 0.38
20 6 0.08
21 3 0.04
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTTATAATTATTTATAA
Found at i:20183225 original size:19 final size:19
Alignment explanation
Indices: 20183184--20183250 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
20183174 ATGTTTTATT
* *
20183184 TTTTTATAATTAATTAGAA-
1 TTTTTATAA-TATTTATAAG
20183203 TTTTTATAATATTTATAAG
1 TTTTTATAATATTTATAAG
* *
20183222 TTTTTATGAATTTTTATTAG
1 TTTTTAT-AATATTTATAAG
20183242 -TTTTATAAT
1 TTTTTATAAT
20183251 TTTTTATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
18 10 0.24
19 22 0.52
20 10 0.24
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (19 bp):
TTTTTATAATATTTATAAG
Found at i:20183246 original size:29 final size:28
Alignment explanation
Indices: 20183177--20183281 Score: 85
Period size: 29 Copynumber: 3.8 Consensus size: 28
20183167 TTTTAACATG
* *
20183177 TTTTATT-TTTTTATAATTAATTA-GAAT
1 TTTTATTAGTTTTATAATT-TTTATGAAT
*
20183204 TTTTA-TAATATTTATAAGTTTTTATGAAT
1 TTTTATTAGT-TTTATAA-TTTTTATGAAT
20183233 TTTTATTAGTTTTATAATTTTTTAT-AA-
1 TTTTATTAGTTTTATAA-TTTTTATGAAT
* *
20183260 TATTATAAGTTTATATAATTTT
1 TTTTATTAGTTT-TATAATTTT
20183282 GTAATATTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
26 1 0.02
27 20 0.30
28 17 0.26
29 25 0.38
30 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (28 bp):
TTTTATTAGTTTTATAATTTTTATGAAT
Found at i:20183254 original size:19 final size:19
Alignment explanation
Indices: 20183031--20183259 Score: 80
Period size: 18 Copynumber: 12.5 Consensus size: 19
20183021 TTATTATGAT
20183031 TTTTTATAAG-TTTTATAA
1 TTTTTATAAGTTTTTATAA
*
20183049 TTATTGATAA--TTTTATAA
1 TT-TTTATAAGTTTTTATAA
20183067 -TTTTATAA---TTTAT-A
1 TTTTTATAAGTTTTTATAA
*
20183081 TTTTATTTGAA-TTTTTAT-A
1 TTTT-TAT-AAGTTTTTATAA
* * *
20183100 TTTTTATGA-TATTTATTA
1 TTTTTATAAGTTTTTATAA
* *
20183118 TTTTTATAA-TATTTACAA
1 TTTTTATAAGTTTTTATAA
* ** *
20183136 ATTTTATAAGTTCATAGAAA
1 TTTTTATAAGTTTTTA-TAA
* *
20183156 GTTTTA-AATATTTTTA-ACA
1 TTTTTATAA-GTTTTTATA-A
*
20183175 TGTTTTAT--TTTTTTATAA
1 T-TTTTATAAGTTTTTATAA
* *
20183193 TTAATTAGAA-TTTTTATAA
1 TT-TTTATAAGTTTTTATAA
*
20183212 TATTTATAAGTTTTTATGAA
1 TTTTTATAAGTTTTTAT-AA
*
20183232 TTTTTATTAG-TTTTATAA
1 TTTTTATAAGTTTTTATAA
20183250 TTTTTTATAA
1 -TTTTTATAA
20183260 TATTATAAGT
Statistics
Matches: 163, Mismatches: 28, Indels: 39
0.71 0.12 0.17
Matches are distributed among these distances:
14 1 0.01
15 8 0.05
16 8 0.05
17 11 0.07
18 55 0.34
19 54 0.33
20 26 0.16
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTATAAGTTTTTATAA
Found at i:20183729 original size:9 final size:9
Alignment explanation
Indices: 20183712--20183765 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
20183702 ATATATTACC
*
20183712 AATTCAGTT
1 AATTTAGTT
20183721 AATTTAGTT
1 AATTTAGTT
20183730 AATTTCAGTT
1 AATTT-AGTT
20183740 AA-TT--TT
1 AATTTAGTT
*
20183746 AATTTGGTT
1 AATTTAGTT
*
20183755 AATTCAGTT
1 AATTTAGTT
20183764 AA
1 AA
20183766 ATGAACATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 4 0.11
7 2 0.05
9 26 0.68
10 6 0.16
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (9 bp):
AATTTAGTT
Found at i:20183741 original size:10 final size:10
Alignment explanation
Indices: 20183714--20183744 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
20183704 ATATTACCAA
20183714 TTCAGTTAAT
1 TTCAGTTAAT
20183724 TT-AGTTAAT
1 TTCAGTTAAT
20183733 TTCAGTTAAT
1 TTCAGTTAAT
20183743 TT
1 TT
20183745 TAATTTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (10 bp):
TTCAGTTAAT
Found at i:20183749 original size:25 final size:24
Alignment explanation
Indices: 20183719--20183765 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
20183709 ACCAATTCAG
20183719 TTAATTTAGTTAATTTCAGTTAATT
1 TTAATTTAGTTAA-TTCAGTTAATT
*
20183744 TTAATTTGGTTAATTCAGTTAA
1 TTAATTTAGTTAATTCAGTTAA
20183766 ATGAACATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.53
Consensus pattern (24 bp):
TTAATTTAGTTAATTCAGTTAATT
Found at i:20187926 original size:2 final size:2
Alignment explanation
Indices: 20187919--20187943 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20187909 TTCTCTGCAA
20187919 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
20187944 TTTGAAGCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:20201421 original size:2 final size:2
Alignment explanation
Indices: 20201416--20201444 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20201406 TCTACATTGA
20201416 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
20201445 GTTTTTGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:20205327 original size:28 final size:28
Alignment explanation
Indices: 20205287--20205342 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
20205277 TGTGGGGCAT
20205287 AGCTTGTTATGAATGAGGAGACGAAAAA
1 AGCTTGTTATGAATGAGGAGACGAAAAA
20205315 AGCTTGTTATGAATGAGGAGACGAAAAA
1 AGCTTGTTATGAATGAGGAGACGAAAAA
20205343 GTAGTTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (28 bp):
AGCTTGTTATGAATGAGGAGACGAAAAA
Found at i:20233741 original size:44 final size:44
Alignment explanation
Indices: 20233689--20233783 Score: 147
Period size: 44 Copynumber: 2.2 Consensus size: 44
20233679 ATTCATAGAT
*
20233689 AAAA-TAATATTAAAATAACCTACACTAATTAAAATTTAAGTAA
1 AAAATTAATATTAAAATAACCTACACTAATTAAAATTTAAATAA
* **
20233732 AAATTTAATATTAAAATAATTTACACTAATTAAAATTTAAATAA
1 AAAATTAATATTAAAATAACCTACACTAATTAAAATTTAAATAA
20233776 AAAATTAA
1 AAAATTAA
20233784 AAATATAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 3 0.07
44 43 0.93
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (44 bp):
AAAATTAATATTAAAATAACCTACACTAATTAAAATTTAAATAA
Found at i:20251401 original size:48 final size:48
Alignment explanation
Indices: 20251345--20251438 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
20251335 AGGGAATTCT
* * *
20251345 GTTGAATCCTTTATTGTTGCG-AATT-GAGCTAACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTG-GAAATTAG-GCTAACTTAGGCATTTTTACG
*
20251393 GTTGAATCCATTATTGGTGGAAATTAGGCTGACTTAGGCATTTTTA
1 GTTGAATCCATTATTGGTGGAAATTAGGCTAACTTAGGCATTTTTA
20251439 AGCCAAAGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 1 0.03
48 38 0.95
49 1 0.03
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGGAAATTAGGCTAACTTAGGCATTTTTACG
Found at i:20253906 original size:48 final size:48
Alignment explanation
Indices: 20253850--20253943 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
20253840 AGGGAATTCT
* * *
20253850 GTTGAATCCTTTATTGTTGCG-AATT-GAGCTAACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTG-GAAATTAG-GCTAACTTAGGCATTTTTACG
*
20253898 GTTGAATCCATTATTGGTGGAAATTAGGCTGACTTAGGCATTTTTA
1 GTTGAATCCATTATTGGTGGAAATTAGGCTAACTTAGGCATTTTTA
20253944 AGCCAAAGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 1 0.03
48 38 0.95
49 1 0.03
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGGAAATTAGGCTAACTTAGGCATTTTTACG
Found at i:20254754 original size:4 final size:4
Alignment explanation
Indices: 20254745--20254770 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
20254735 CAAGAAGGAC
20254745 GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GT
20254771 CATTCAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:20256796 original size:5 final size:5
Alignment explanation
Indices: 20256786--20256825 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
20256776 TCATAGTGAA
*
20256786 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAA ATAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAA
20256826 AACACAGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:20259720 original size:5 final size:5
Alignment explanation
Indices: 20259712--20259792 Score: 50
Period size: 5 Copynumber: 17.0 Consensus size: 5
20259702 ATATATATTA
* *
20259712 TATAT TATAT TA-AT T-TAA TAT-T TAAGTAT TA-AT ATATAA TATAT
1 TATAT TATAT TATAT TATAT TATAT T-A-TAT TATAT -TATAT TATAT
* *
20259756 CATA- T-TAT TATAT TATAT TATAT TATA- TATAA TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
20259793 AAAACATAAG
Statistics
Matches: 59, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
3 2 0.03
4 13 0.22
5 39 0.66
6 3 0.05
7 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (5 bp):
TATAT
Found at i:20259754 original size:39 final size:37
Alignment explanation
Indices: 20259703--20259792 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 37
20259693 AATATAAAAA
* *
20259703 TATATATTATATATTATATTAATT-TAATAT-TTAAGTAT
1 TATATATAATATATCATATT-ATTATAATATATT-A-TAT
*
20259741 TAATATATAATATATCATATTATTATATTATATTATAT
1 T-ATATATAATATATCATATTATTATAATATATTATAT
20259779 TATATATAATATAT
1 TATATATAATATAT
20259793 AAAACATAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
37 13 0.28
38 8 0.17
39 23 0.50
40 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (37 bp):
TATATATAATATATCATATTATTATAATATATTATAT
Found at i:20259784 original size:30 final size:30
Alignment explanation
Indices: 20259712--20259790 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
20259702 ATATATATTA
*
20259712 TATATTATATTA-ATTTAATATTTAAGTAT
1 TATATTATATTATATATAATATTTAAGTAT
* * *
20259741 TA-A-TATATAATATATCATATTATTA-TAT
1 TATATTATATTATATATAATATT-TAAGTAT
20259769 TATATTATATTATATATAATAT
1 TATATTATATTATATATAATAT
20259791 ATAAAACATA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
27 6 0.15
28 14 0.35
29 5 0.12
30 15 0.38
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (30 bp):
TATATTATATTATATATAATATTTAAGTAT
Found at i:20259793 original size:7 final size:7
Alignment explanation
Indices: 20259701--20259794 Score: 68
Period size: 7 Copynumber: 13.3 Consensus size: 7
20259691 TTAATATAAA
20259701 AATATAT
1 AATATAT
*
20259708 ATTATAT
1 AATATAT
*
20259715 ATTATATT
1 AATATA-T
20259723 AAT-T-T
1 AATATAT
*
20259728 AATATTT
1 AATATAT
20259735 AAGTAT-T
1 AA-TATAT
20259742 AATATAT
1 AATATAT
20259749 AATATAT
1 AATATAT
*
20259756 CATATTAT
1 AATA-TAT
*
20259764 TATATTAT
1 AATA-TAT
*
20259772 ATTATAT
1 AATATAT
*
20259779 TATATAT
1 AATATAT
20259786 AATATAT
1 AATATAT
20259793 AA
1 AA
20259795 AACATAAGTA
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
5 4 0.06
6 4 0.06
7 46 0.64
8 18 0.25
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (7 bp):
AATATAT
Found at i:20261019 original size:22 final size:22
Alignment explanation
Indices: 20260990--20261046 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
20260980 TAGCACGTTA
20260990 AGTGCTCTCTGTTTAGCAC-AT
1 AGTGCTCTCTGTTTAGCACTAT
* *
20261011 ATGTGCTCTCTGTATAGCACTTT
1 A-GTGCTCTCTGTTTAGCACTAT
20261034 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
20261047 CATTTGTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 28 0.90
23 2 0.06
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTAT
Found at i:20265001 original size:62 final size:62
Alignment explanation
Indices: 20264904--20265058 Score: 265
Period size: 62 Copynumber: 2.5 Consensus size: 62
20264894 GGAATTGACG
* * * *
20264904 GTAAAAAGGATCTAGCCCGGACAGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGT
1 GTAAAATGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGT
20264966 GTAAAATGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGT
1 GTAAAATGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGT
*
20265028 GTAAAATGGATTTAGCCCGGACGGGTAATCC
1 GTAAAATGGATTTAGCCCGGACGGGTGATCC
20265059 GAATTAGGGT
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 88 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (62 bp):
GTAAAATGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGT
Found at i:20277068 original size:46 final size:46
Alignment explanation
Indices: 20276997--20277214 Score: 339
Period size: 46 Copynumber: 4.7 Consensus size: 46
20276987 TGTCATAGTG
* * * * * *
20276997 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGATA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGCTGCCATGGTA
* *
20277043 TCTTTCAACTATAGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
20277089 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
20277135 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
*
20277181 TCTTTCAACCATGGCCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
20277215 AGAGCACACT
Statistics
Matches: 162, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 158 0.98
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
Found at i:20279357 original size:8 final size:8
Alignment explanation
Indices: 20279344--20279368 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
20279334 ATATATATTA
20279344 AATAAAAT
1 AATAAAAT
20279352 AATAAAAT
1 AATAAAAT
20279360 AATAAAAT
1 AATAAAAT
20279368 A
1 A
20279369 TCATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:20279688 original size:29 final size:30
Alignment explanation
Indices: 20279631--20279698 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
20279621 CACGCTTAAA
* * *
20279631 ATATTTGCACTATTAGTCCTCCAACTTTTC
1 ATATTTACACTATTAATCCTCCAAATTTTC
* *
20279661 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTCCAAATTTTC
20279690 AGTATTTAC
1 A-TATTTAC
20279699 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.46
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTCCAAATTTTC
Found at i:20281487 original size:7 final size:7
Alignment explanation
Indices: 20281437--20281522 Score: 60
Period size: 7 Copynumber: 13.1 Consensus size: 7
20281427 ATATAAAAAT
*
20281437 ATATATG
1 ATATATA
*
20281444 ATATATT
1 ATATATA
20281451 ATAT-TA
1 ATATATA
20281457 AT-T-TA
1 ATATATA
*
20281462 ATATTTA
1 ATATATA
20281469 AGTAT-TA
1 A-TATATA
20281476 ATATATA
1 ATATATA
*
20281483 ATATATC
1 ATATATA
20281490 ATAT-T-
1 ATATATA
20281495 AT-TATA
1 ATATATA
* *
20281501 TTATATT
1 ATATATA
20281508 ATATATA
1 ATATATA
20281515 ATATATA
1 ATATATA
20281522 A
1 A
20281523 AACATAAGTA
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
4 1 0.02
5 8 0.12
6 9 0.14
7 44 0.68
8 3 0.05
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (7 bp):
ATATATA
Found at i:20281513 original size:20 final size:20
Alignment explanation
Indices: 20281437--20281522 Score: 72
Period size: 18 Copynumber: 4.4 Consensus size: 20
20281427 ATATAAAAAT
* *
20281437 ATATATGATATATTATATTA
1 ATATATAATATATCATATTA
* *
20281457 AT-T-TAATATTTAAGTATTA
1 ATATATAATATATCA-TATTA
20281476 ATATATAATATATCATATT-
1 ATATATAATATATCATATTA
* *
20281495 AT-TATATTATATTATATATA
1 ATATATAATATATCATAT-TA
20281515 ATATATAA
1 ATATATAA
20281523 AACATAAGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
18 20 0.38
19 11 0.21
20 9 0.17
21 12 0.23
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATATAATATATCATATTA
Found at i:20282746 original size:22 final size:22
Alignment explanation
Indices: 20282718--20282773 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
20282708 AGCACGTTAA
20282718 GTGCTCTCTGTTTAGCACATAT-
1 GTGCTCTCTGTTTAGCAC-TATC
* *
20282740 GTGCTCTCTGTATAGCACTTTC
1 GTGCTCTCTGTTTAGCACTATC
20282762 GTGCTCTCTGTT
1 GTGCTCTCTGTT
20282774 CATTTGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.12, C:0.25, G:0.20, T:0.43
Consensus pattern (22 bp):
GTGCTCTCTGTTTAGCACTATC
Found at i:20288607 original size:22 final size:22
Alignment explanation
Indices: 20288579--20288620 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
20288569 ATAGCTAATG
20288579 GAATTTATTCTAAAATTAAAAA
1 GAATTTATTCTAAAATTAAAAA
*
20288601 GAATTTATTTTAAAATTAAA
1 GAATTTATTCTAAAATTAAA
20288621 GCATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (22 bp):
GAATTTATTCTAAAATTAAAAA
Found at i:20292731 original size:56 final size:56
Alignment explanation
Indices: 20292645--20292773 Score: 195
Period size: 56 Copynumber: 2.3 Consensus size: 56
20292635 CGGCTGTGTC
* * *
20292645 AGTCAGTATGCTCACACAGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGACCTA
1 AGTCAGTATACTCACACAGCCTAGCACACGGGCGTATGGCTTGGCCGTGTGACCCA
* * *
20292701 AGTCAGTATACTCATACAGTCTAGCACACGGGCGTATGGTTTGGCCGTGTGACCCA
1 AGTCAGTATACTCACACAGCCTAGCACACGGGCGTATGGCTTGGCCGTGTGACCCA
*
20292757 AGTTAGTATACTCACAC
1 AGTCAGTATACTCACAC
20292774 GGGCATGGAC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 65 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.24
Consensus pattern (56 bp):
AGTCAGTATACTCACACAGCCTAGCACACGGGCGTATGGCTTGGCCGTGTGACCCA
Found at i:20294094 original size:19 final size:19
Alignment explanation
Indices: 20294067--20294127 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
20294057 CTTGTTAATG
*
20294067 GTGTTTGATTAGTGGAATT
1 GTGTCTGATTAGTGGAATT
* *
20294086 GTGTCTGATTAATGGAACT
1 GTGTCTGATTAGTGGAATT
* * *
20294105 GCGTGTGATTAGTAGAATT
1 GTGTCTGATTAGTGGAATT
20294124 GTGT
1 GTGT
20294128 ATGCATGAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.23, C:0.05, G:0.31, T:0.41
Consensus pattern (19 bp):
GTGTCTGATTAGTGGAATT
Found at i:20298368 original size:2 final size:2
Alignment explanation
Indices: 20298361--20298385 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20298351 AACGAAATTA
20298361 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
20298386 AATGCAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20300683 original size:19 final size:18
Alignment explanation
Indices: 20300656--20300695 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
20300646 TCTCATTTTA
*
20300656 TCATTTCATATTTCATTTC
1 TCATCTCATA-TTCATTTC
20300675 TCATCTCATATTCATTTC
1 TCATCTCATATTCATTTC
20300693 TCA
1 TCA
20300696 ACTTTGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.53
Consensus pattern (18 bp):
TCATCTCATATTCATTTC
Found at i:20307776 original size:29 final size:30
Alignment explanation
Indices: 20307714--20307776 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
20307704 AATTATATTT
* * *
20307714 TTATAATTTTTAAATGATTAAATCAAAATC
1 TTATAATTTTTAAAGGATAAAATCAAAATA
* *
20307744 TTATCATTTTTAAAGGATAAAAT-ATAATA
1 TTATAATTTTTAAAGGATAAAATCAAAATA
20307773 TTAT
1 TTAT
20307777 TATTAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (30 bp):
TTATAATTTTTAAAGGATAAAATCAAAATA
Found at i:20309777 original size:30 final size:28
Alignment explanation
Indices: 20309709--20309764 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
20309699 AACAATAATG
* *
20309709 TAAGTGACTAAAATGTAAAATTTTAAACA
1 TAAGTGACTAAAATCT-AAATTTAAAACA
20309738 TAAGTGACTAAAATCT-AATTTAAAACA
1 TAAGTGACTAAAATCTAAATTTAAAACA
20309765 AATAAAGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.40
29 15 0.60
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (28 bp):
TAAGTGACTAAAATCTAAATTTAAAACA
Found at i:20311177 original size:3 final size:3
Alignment explanation
Indices: 20311169--20311205 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
20311159 GAGATCATCT
20311169 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
20311206 TTAAAAGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:20324801 original size:46 final size:46
Alignment explanation
Indices: 20324695--20325015 Score: 426
Period size: 46 Copynumber: 7.0 Consensus size: 46
20324685 TTTGACATGA
* * * * ** * * *
20324695 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
** * *
20324742 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** *** * *
20324788 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
20324834 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
20324880 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
20324926 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
20324972 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
20325016 AGAGCACACT
Statistics
Matches: 250, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
46 221 0.88
47 29 0.12
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:20329931 original size:20 final size:20
Alignment explanation
Indices: 20329906--20329946 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
20329896 AACAAACCGT
20329906 ACGCTGAGTATGGTATACTC
1 ACGCTGAGTATGGTATACTC
20329926 ACGCTGAGTATGGTATACTC
1 ACGCTGAGTATGGTATACTC
20329946 A
1 A
20329947 GTGGTATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (20 bp):
ACGCTGAGTATGGTATACTC
Found at i:20330297 original size:13 final size:14
Alignment explanation
Indices: 20330281--20330316 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
20330271 CAATCTCATA
20330281 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
20330294 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
20330307 TCTC-ATTTCA
1 TCTCAATTTCA
20330317 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:20330306 original size:18 final size:19
Alignment explanation
Indices: 20330268--20330308 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
20330258 TGGTTCATGT
20330268 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
20330287 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
20330305 TTTC
1 TTTC
20330309 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:20330498 original size:39 final size:38
Alignment explanation
Indices: 20330431--20330565 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
20330421 ACCAATATGG
* * *
20330431 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
20330470 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
20330508 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
20330549 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
20330566 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:20330831 original size:18 final size:19
Alignment explanation
Indices: 20330805--20330843 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
20330795 TTTCAATTCA
20330805 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
20330824 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
20330842 AT
1 AT
20330844 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:20332171 original size:5 final size:5
Alignment explanation
Indices: 20332161--20332213 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
20332151 TTACTTATTT
* *
20332161 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
20332209 ATATA
1 ATATA
20332214 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:20332177 original size:12 final size:12
Alignment explanation
Indices: 20332160--20332215 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
20332150 TTTACTTATT
20332160 TATATAATATAA
1 TATATAATATAA
20332172 TATATAATATAATA
1 TATATAATAT-A-A
20332186 TACTATAATATAA
1 TA-TATAATATAA
*
20332199 TA-ATAATTTAA
1 TATATAATATAA
20332210 TATATA
1 TATATA
20332216 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:20332999 original size:46 final size:46
Alignment explanation
Indices: 20332893--20333213 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
20332883 TTTGACATGA
* * * * ** * *
20332893 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * *
20332940 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *** *** *
20332986 TGCCATAGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
20333032 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
20333078 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
20333124 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
20333170 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
20333214 AGAGCACACT
Statistics
Matches: 248, Mismatches: 26, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
46 219 0.88
47 29 0.12
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:20335387 original size:18 final size:20
Alignment explanation
Indices: 20335372--20335408 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20335362 TAATAATAAA
*
20335372 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
20335392 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
20335409 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:20337319 original size:93 final size:93
Alignment explanation
Indices: 20337159--20337330 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
20337149 AGGATATTTG
*
20337159 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAAATGCGAATGTCCGAACTCGTTAAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAAATGCGAATGCCCGAACTCGTTAAG
*
20337224 TTGAGGCCTAGTTCGAGAGATGTAACTA
66 TTGAGGCCGAGTTCGAGAGATGTAACTA
* ** * *
20337252 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAAATGCGAATGCCCGAACTCGTTAAG
*
20337317 TTGAGTCCGAGTTC
66 TTGAGGCCGAGTTC
20337331 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAAATGCGAATGCCCGAACTCGTTAAG
TTGAGGCCGAGTTCGAGAGATGTAACTA
Found at i:20337338 original size:46 final size:45
Alignment explanation
Indices: 20337164--20337337 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
20337154 ATTTGGGCAT
*
20337164 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAAATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
* * * *** *
20337209 TCCGAACTCGTTAAGTTGAGGCCTAGTTCGAGAGATGTAACTAG-GCAT-
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-AA-T-GCGAATG
* *
20337257 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
*
20337302 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
20337338 GGCGGGTTAC
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 64 0.62
47 27 0.26
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
Found at i:20357655 original size:23 final size:21
Alignment explanation
Indices: 20357607--20357673 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
20357597 TTAGTATTTA
* *
20357607 TTAATTTTTTTATTTTAAAAT
1 TTAAATTTTTTAGTTTAAAAT
20357628 TTAAATTTTTTAGTTTAAAAT
1 TTAAATTTTTTAGTTTAAAAT
** *
20357649 TACTAAATTTTAAAGGTTAAAAT
1 T--TAAATTTTTTAGTTTAAAAT
20357672 TT
1 TT
20357674 TTATTATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
21 21 0.54
23 18 0.46
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (21 bp):
TTAAATTTTTTAGTTTAAAAT
Found at i:20371916 original size:16 final size:16
Alignment explanation
Indices: 20371887--20371956 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
20371877 TTTGGTTCGC
*
20371887 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
20371903 CGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
* *
20371919 TGTAATTGATTAAAGG
1 TGTAATGGATTAGAGG
20371935 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
20371951 TGTAAT
1 TGTAAT
20371957 AGCAAATCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.33, C:0.01, G:0.33, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:20372001 original size:45 final size:44
Alignment explanation
Indices: 20371935--20372025 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
20371925 TGATTAAAGG
* * *
20371935 TGTAATGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAAAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
20371980 TGTAATGGAATAAAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAAAGGCGTAATAGAAATCAACTGTTTGGTTGAA
20372024 TG
1 TG
20372026 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAAAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:20372205 original size:16 final size:17
Alignment explanation
Indices: 20372168--20372205 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
20372158 ATTTAATCAT
20372168 ATTTAAACATAATTATA
1 ATTTAAACATAATTATA
*
20372185 A-TTAAATAT-ATTATA
1 ATTTAAACATAATTATA
20372200 ATTTAA
1 ATTTAA
20372206 TAAAATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 11 0.58
17 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAACATAATTATA
Found at i:20372241 original size:22 final size:21
Alignment explanation
Indices: 20372151--20372436 Score: 83
Period size: 22 Copynumber: 14.0 Consensus size: 21
20372141 ATTATCAATA
* *
20372151 ATAA-ATAATTTAATCATATT
1 ATAATATAATTTAATAAAATT
* *
20372171 -TAAACATAATTATAATTAAA-T
1 AT-AATATAATT-TAATAAAATT
*
20372192 ATATTATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
20372213 CTTATATGAATTTACTAAAATT
1 ATAATAT-AATTTAATAAAATT
**
20372235 ATAATAT-A--TAATAGTA-T
1 ATAATATAATTTAATAAAATT
*
20372252 AAAATATAATTTAAAATAATAATT
1 ATAATATAATTT--AATAA-AATT
20372276 ATTAAATATAATTTAAT-AAA--
1 A-T-AATATAATTTAATAAAATT
20372296 A-AATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
20372316 CTTA-AT-A-TTAA-AATATT
1 ATAATATAATTTAATAAAATT
* * * *
20372333 CTTATATGAATTTACTAAAATC
1 ATAATAT-AATTTAATAAAATT
*
20372355 ATAATAT-ATAATACTATAAAA-T
1 ATAATATAAT-TTA--ATAAAATT
* ** **
20372377 ATAATCTAAAATAATTATTATT
1 ATAATATAATTTAA-TAAAATT
*
20372399 A-AATATAATTTAATATAA--
1 ATAATATAATTTAATAAAATT
20372417 AT-ATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
20372437 CTTAGTATTA
Statistics
Matches: 195, Mismatches: 38, Indels: 66
0.65 0.13 0.22
Matches are distributed among these distances:
17 29 0.15
18 31 0.16
19 2 0.01
20 22 0.11
21 37 0.19
22 51 0.26
23 8 0.04
24 5 0.03
26 10 0.05
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (21 bp):
ATAATATAATTTAATAAAATT
Found at i:20372275 original size:13 final size:12
Alignment explanation
Indices: 20372251--20372291 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
20372241 TATAATAGTA
20372251 TAAAATATAATT
1 TAAAATATAATT
20372263 TAAAATAATAATT
1 TAAAAT-ATAATT
*
20372276 ATTAAATATAATT
1 -TAAAATATAATT
20372289 TAA
1 TAA
20372292 TAAAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:20372301 original size:17 final size:17
Alignment explanation
Indices: 20372279--20372313 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20372269 AATAATTATT
20372279 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
20372296 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
20372313 A
1 A
20372314 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:20372424 original size:18 final size:17
Alignment explanation
Indices: 20372401--20372435 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
20372391 TTATTATTAA
20372401 ATATAATTTAATATAAAT
1 ATATAATTTAATA-AAAT
20372419 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
20372436 TCTTAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:20372494 original size:61 final size:60
Alignment explanation
Indices: 20372206--20372496 Score: 192
Period size: 61 Copynumber: 4.8 Consensus size: 60
20372196 TATAATTTAA
* * *
20372206 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAA-T-ATAAT-T
1 TAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
** * * ** * * *
20372263 TAAAATAATAATTATTA-AATATAATTTAAT-AAAAAATATAAT-TTAATAAAATTCTTAATAT
1 T-AAAT-ATTCTTA-TAGAATTTACTAAAATCATAATATATAATACT-ATAAAATTCTTAATAT
* *
20372324 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-T-ATAATCT
1 T-AAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
* * * * ** * *
20372384 AAAATAATTATTATTA-AATATAATTTAAT-ATAAATATATAAT-TTAATAAAATTCTTAGTAT
1 TAAAT-ATTCTTA-TAGAATTTACTAAAATCAT-AATATATAATACT-ATAAAATTCTTAATAT
20372445 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAAT
1 TAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAAT
20372497 ATAATCTAAA
Statistics
Matches: 174, Mismatches: 38, Indels: 40
0.69 0.15 0.16
Matches are distributed among these distances:
57 2 0.01
58 22 0.13
59 43 0.25
60 32 0.18
61 55 0.32
62 19 0.11
63 1 0.01
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (60 bp):
TAAATATTCTTATAGAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
Found at i:20372512 original size:120 final size:119
Alignment explanation
Indices: 20372206--20372512 Score: 526
Period size: 120 Copynumber: 2.6 Consensus size: 119
20372196 TATAATTTAA
* * *
20372206 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAATTTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
*
20372270 ATAATTATTAAATATAATTTAATAAAAAATATAATTTAATAAAATTCTTAATAT
66 ATTATTATTAAATATAATTTAATAAAAAATATAATTTAATAAAATTCTTAATAT
20372324 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
1 T-AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
* *
20372389 AATTATTATTAAATATAATTTAATATAAATATATAATTTAATAAAATTCTTAGTAT
65 AATTATTATTAAATATAATTTAATA-AAAAATATAATTTAATAAAATTCTTAATAT
*
20372445 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
20372510 ATT
66 ATT
20372513 GATTTTGTGG
Statistics
Matches: 179, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
118 1 0.01
119 3 0.02
120 146 0.82
121 29 0.16
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (119 bp):
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
ATTATTATTAAATATAATTTAATAAAAAATATAATTTAATAAAATTCTTAATAT
Done.