Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold247
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: 686337
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 24263 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:461428 original size:15 final size:15
Alignment explanation
Indices: 461408--461440 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
461398 AGAATTTTTT
*
461408 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
461423 ATAAATTTAATACTA
1 ATAAATTTAATACTA
461438 ATA
1 ATA
461441 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:461605 original size:15 final size:15
Alignment explanation
Indices: 461585--461617 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
461575 AGAATTTTTT
*
461585 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
461600 ATAAATTTAATACTA
1 ATAAATTTAATACTA
461615 ATA
1 ATA
461618 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:461782 original size:15 final size:15
Alignment explanation
Indices: 461762--461794 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
461752 AGAATTTTTT
*
461762 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
461777 ATAAATTTAATACTA
1 ATAAATTTAATACTA
461792 ATA
1 ATA
461795 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:461959 original size:15 final size:15
Alignment explanation
Indices: 461939--461971 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
461929 AGAATTTTTT
*
461939 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
461954 ATAAATTTAATACTA
1 ATAAATTTAATACTA
461969 ATA
1 ATA
461972 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:462136 original size:15 final size:15
Alignment explanation
Indices: 462116--462148 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
462106 AGAATTTTTT
*
462116 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
462131 ATAAATTTAATACTA
1 ATAAATTTAATACTA
462146 ATA
1 ATA
462149 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:462313 original size:15 final size:15
Alignment explanation
Indices: 462293--462325 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
462283 AGAATTTTTT
*
462293 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
462308 ATAAATTTAATACTA
1 ATAAATTTAATACTA
462323 ATA
1 ATA
462326 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:462490 original size:15 final size:15
Alignment explanation
Indices: 462470--462502 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
462460 AGAATTTTTT
*
462470 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
462485 ATAAATTTAATACTA
1 ATAAATTTAATACTA
462500 ATA
1 ATA
462503 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:462667 original size:15 final size:15
Alignment explanation
Indices: 462647--462679 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
462637 AGAATTTTTT
*
462647 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
462662 ATAAATTTAATACTA
1 ATAAATTTAATACTA
462677 ATA
1 ATA
462680 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:462844 original size:15 final size:15
Alignment explanation
Indices: 462824--462856 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
462814 AGAATTTTTT
*
462824 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
462839 ATAAATTTAATACTA
1 ATAAATTTAATACTA
462854 ATA
1 ATA
462857 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:463021 original size:15 final size:15
Alignment explanation
Indices: 463001--463033 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
462991 AGAATTTTTT
*
463001 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
463016 ATAAATTTAATACTA
1 ATAAATTTAATACTA
463031 ATA
1 ATA
463034 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:464448 original size:24 final size:26
Alignment explanation
Indices: 464420--464467 Score: 82
Period size: 24 Copynumber: 1.9 Consensus size: 26
464410 CTGGGGGAAT
464420 AGGAATTGGGG-GGAA-ATGAAATCG
1 AGGAATTGGGGAGGAATATGAAATCG
464444 AGGAATTGGGGAGGAATATGAAAT
1 AGGAATTGGGGAGGAATATGAAAT
464468 GGGAAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
26 7 0.32
ACGTcount: A:0.40, C:0.02, G:0.40, T:0.19
Consensus pattern (26 bp):
AGGAATTGGGGAGGAATATGAAATCG
Found at i:465041 original size:22 final size:22
Alignment explanation
Indices: 465015--465063 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
465005 CCCTAAGTTT
*
465015 AACCCGTAACCTTTATACTTTA
1 AACCCGTAACCTTTAAACTTTA
465037 AACCCGTAACCTTTAAACTTTA
1 AACCCGTAACCTTTAAACTTTA
465059 AACCC
1 AACCC
465064 TAAACTACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.31
Consensus pattern (22 bp):
AACCCGTAACCTTTAAACTTTA
Found at i:466023 original size:233 final size:239
Alignment explanation
Indices: 465722--466152 Score: 633
Period size: 233 Copynumber: 1.8 Consensus size: 239
465712 GTTTTGGTTC
*
465722 AGATATTTTGCGGCGTTTTCATATAAGCGCCACTAAATGTAACATAGCTTAAGACAAACCACTGC
1 AGATATTTTGCGGCGTTTTCACATAAGCGCCACTAAATGTAACATAGCTTAAGACAAACCACTGC
* * * *
465787 GTTTTGTTAAGATACGTTGCGGCGCTTTACCCAAAGCGCCGCTAAATATATTCTTTAACGGCGTT
66 GTTTTCTTAAGATAAGTTGCGGCGCTTCACCCAAAGCGCCGCTAAAGATATTCTTTAACGGCGTT
* * *
465852 TTCTAGTAAGCG-C-C-ACTA-A-TATA-ATCAAAATTAAAACTATGCATTTTAGTTAAGATATT
131 TTCTAGTAAGCGTCACTAATATAGTATACATCAAAATTAAAACTACGCATTTTAGTAAAGATATT
465911 TTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCG
196 TTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCG
* * * *
465955 AGATTTTTTGCGGCGTTTTCCCATAAGCGCCACTAAATGTAACATGGCTTAAGACCAAA-CATTG
1 AGATATTTTGCGGCGTTTTCACATAAGCGCCACTAAATGTAACATAGCTTAAGA-CAAACCACTG
** * *
466019 CGTTTTCTTAAGATAAGTTGCGGCGCTTCGTCTAAATCGCCGCTAAAGATATTCTTTAACGGCGT
65 CGTTTTCTTAAGATAAGTTGCGGCGCTTCACCCAAAGCGCCGCTAAAGATATTCTTTAACGGCGT
* *
466084 TTTCTTGTAAGCGTCACTAATATTAGTATACATCAAAATTAAAACTACGCGTTTTAGTAAAGATA
130 TTTCTAGTAAGCGTCACTAATA-TAGTATACATCAAAATTAAAACTACGCATTTTAGTAAAGATA
466149 TTTT
194 TTTT
466153 ACGGTGATTT
Statistics
Matches: 172, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
233 123 0.72
234 5 0.03
235 1 0.01
236 3 0.02
238 1 0.01
239 4 0.02
240 35 0.20
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (239 bp):
AGATATTTTGCGGCGTTTTCACATAAGCGCCACTAAATGTAACATAGCTTAAGACAAACCACTGC
GTTTTCTTAAGATAAGTTGCGGCGCTTCACCCAAAGCGCCGCTAAAGATATTCTTTAACGGCGTT
TTCTAGTAAGCGTCACTAATATAGTATACATCAAAATTAAAACTACGCATTTTAGTAAAGATATT
TTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCG
Found at i:467715 original size:23 final size:23
Alignment explanation
Indices: 467685--467728 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
467675 AAATAAATTA
*
467685 TTTAAAAAATTCATAAAATTGTT
1 TTTAAAAAATACATAAAATTGTT
*
467708 TTTAAAAAATAGATAAAATTG
1 TTTAAAAAATACATAAAATTG
467729 GTTCAATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (23 bp):
TTTAAAAAATACATAAAATTGTT
Found at i:468048 original size:9 final size:9
Alignment explanation
Indices: 467999--468064 Score: 53
Period size: 9 Copynumber: 7.2 Consensus size: 9
467989 AGGAAGAAGG
467999 AAAATAGAAA
1 AAAATA-AAA
*
468009 AAAA-AAGA
1 AAAATAAAA
* *
468017 AAGATAAAT
1 AAAATAAAA
*
468026 AATATAAAA
1 AAAATAAAA
468035 TAAAATAAAA
1 -AAAATAAAA
468045 AAAATAAAA
1 AAAATAAAA
* *
468054 GAATTAAAA
1 AAAATAAAA
468063 AA
1 AA
468065 TAATTTTTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
8 5 0.11
9 27 0.61
10 12 0.27
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (9 bp):
AAAATAAAA
Found at i:469200 original size:22 final size:22
Alignment explanation
Indices: 469158--469200 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
469148 GGCCAGGCCT
*
469158 ATTTTTTTAATAAACACAAAAA
1 ATTTTTTTAATAAACAAAAAAA
*
469180 ATTTATTTTAA-AAATAAAAAA
1 ATTT-TTTTAATAAACAAAAAA
469201 TAAAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTTTTTAATAAACAAAAAAA
Found at i:469217 original size:29 final size:30
Alignment explanation
Indices: 469175--469243 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 30
469165 TAATAAACAC
*
469175 AAAAAAT-TTATTTTAAAAATA-AAAAATA
1 AAAAAATAATATTTTAAAAATATAAAAATA
469203 AAAAAATAATATTTTAAAAATATTTTAAAAATA
1 AAAAAATAATATTTTAAAAATA---TAAAAATA
469236 AAAAAATA
1 AAAAAATA
469244 TTTATTATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 7 0.20
29 13 0.37
33 15 0.43
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAAAATAATATTTTAAAAATATAAAAATA
Found at i:469224 original size:11 final size:11
Alignment explanation
Indices: 469210--469235 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
469200 ATAAAAAAAT
469210 AATATTTTAAA
1 AATATTTTAAA
469221 AATATTTTAAA
1 AATATTTTAAA
469232 AATA
1 AATA
469236 AAAAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AATATTTTAAA
Found at i:474712 original size:16 final size:16
Alignment explanation
Indices: 474677--474727 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
474667 TGAATTACCG
*
474677 ATTACAGTTCTA-TTC
1 ATTACAATTCTATTTC
474692 TATTACAATTCTATTTC
1 -ATTACAATTCTATTTC
* * *
474709 ATTATAATCCTATTCC
1 ATTACAATTCTATTTC
474725 ATT
1 ATT
474728 TTCCCAACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 27 0.90
17 3 0.10
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTACAATTCTATTTC
Found at i:482011 original size:12 final size:12
Alignment explanation
Indices: 481994--482018 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
481984 CTTGAAATGC
481994 CTTCTCTTCACT
1 CTTCTCTTCACT
482006 CTTCTCTTCACT
1 CTTCTCTTCACT
482018 C
1 C
482019 CTTTCTGCTG
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:0.08, C:0.44, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTCTCTTCACT
Found at i:487821 original size:17 final size:17
Alignment explanation
Indices: 487793--487827 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
487783 TAATTTTACT
487793 ATAATGACAAAAGACTGA
1 ATAATGACAAAAGA-TGA
487811 ATAAT-ACAAAAGATGA
1 ATAATGACAAAAGATGA
487827 A
1 A
487828 CACAAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (17 bp):
ATAATGACAAAAGATGA
Found at i:488003 original size:24 final size:24
Alignment explanation
Indices: 487976--488027 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
487966 TTTGTAAGTG
*
487976 AAATAAATTATACAAATAAATGCT
1 AAATAAATTATACAAATAAATACT
* *
488000 AAATATATTATACTAATAAATACT
1 AAATAAATTATACAAATAAATACT
488024 AAAT
1 AAAT
488028 CTTCTACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACAAATAAATACT
Found at i:493622 original size:20 final size:20
Alignment explanation
Indices: 493597--493645 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
493587 TGAACCATTA
*
493597 ATATCGATACCAAAGAAATT
1 ATATCGATACCAAAGAAAAT
*
493617 ATATCGATACCAAATAAAAT
1 ATATCGATACCAAAGAAAAT
*
493637 GTATCGATA
1 ATATCGATA
493646 TCGTATCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (20 bp):
ATATCGATACCAAAGAAAAT
Found at i:500455 original size:21 final size:21
Alignment explanation
Indices: 500408--500455 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
500398 CTGAAAAAGT
* *
500408 TAGTTAAAAGGAGTTAGTTAG
1 TAGTTAAAAGGAATTAGTTAA
*
500429 TTGTTAAACA-GAATTAGTTAA
1 TAGTTAAA-AGGAATTAGTTAA
500450 TAGTTA
1 TAGTTA
500456 GCTATTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.38
Consensus pattern (21 bp):
TAGTTAAAAGGAATTAGTTAA
Found at i:508097 original size:19 final size:17
Alignment explanation
Indices: 508073--508109 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
508063 GAGGTGCAAA
508073 TCAATTATTATTCTAGTCT
1 TCAATTATT-TTCTA-TCT
508092 TCAATTATTTTCTATCT
1 TCAATTATTTTCTATCT
508109 T
1 T
508110 AAAACTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.24, C:0.16, G:0.03, T:0.57
Consensus pattern (17 bp):
TCAATTATTTTCTATCT
Found at i:512202 original size:21 final size:21
Alignment explanation
Indices: 512177--512216 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
512167 TACCTTTCTA
* *
512177 AAGTTAAATGTCAAAACTATT
1 AAGTTAAAAGGCAAAACTATT
512198 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
512217 CGTTGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATT
Found at i:519194 original size:35 final size:35
Alignment explanation
Indices: 519155--519224 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
519145 TAAGCATCAC
519155 TTAAGATATTTAAAACGACGCAATCCAATGCTGAA
1 TTAAGATATTTAAAACGACGCAATCCAATGCTGAA
519190 TTAAGATATTTAAAACGACGCAATCCAATGCTGAA
1 TTAAGATATTTAAAACGACGCAATCCAATGCTGAA
519225 AATTAACTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (35 bp):
TTAAGATATTTAAAACGACGCAATCCAATGCTGAA
Found at i:527582 original size:15 final size:15
Alignment explanation
Indices: 527562--527598 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
527552 CCTTTAACCA
527562 AGGTTTTGCCCCATT
1 AGGTTTTGCCCCATT
527577 AGGTTTTGCCCCATT
1 AGGTTTTGCCCCATT
527592 AGGTTTT
1 AGGTTTT
527599 CCTGGTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.43
Consensus pattern (15 bp):
AGGTTTTGCCCCATT
Found at i:530412 original size:18 final size:18
Alignment explanation
Indices: 530343--530417 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 18
530333 ATAATAGTTC
* *
530343 TATTTTTAAATAAATAAAA
1 TATTTTTAAATATAT-AAT
*
530362 TATTTTTAACTA-ATAAT
1 TATTTTTAAATATATAAT
* **
530379 TGTAAATTAAAT-TATAAT
1 TAT-TTTTAAATATATAAT
530397 TATTTTTAAATATATAAT
1 TATTTTTAAATATATAAT
530415 TAT
1 TAT
530418 CACAACTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
17 10 0.23
18 23 0.52
19 11 0.25
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (18 bp):
TATTTTTAAATATATAAT
Found at i:535137 original size:19 final size:18
Alignment explanation
Indices: 535113--535150 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
535103 ATATCTCTCA
535113 GGCAAAGTAGAGTGATAAT
1 GGCAAA-TAGAGTGATAAT
*
535132 GGCAAATGGAGTGATAAT
1 GGCAAATAGAGTGATAAT
535150 G
1 G
535151 CCCGGCCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.39, C:0.05, G:0.34, T:0.21
Consensus pattern (18 bp):
GGCAAATAGAGTGATAAT
Found at i:539042 original size:113 final size:112
Alignment explanation
Indices: 538889--539548 Score: 585
Period size: 113 Copynumber: 5.8 Consensus size: 112
538879 AAATCACAAG
* * * *
538889 ACCAACACGCAGCGTTCTGGTCTTGATGTATATTAGAATTAGTGGCGCTTACAAACAAACGCCGG
1 ACCAAAACGCAGAGTT-TGGTCTTGATGTATATTAGAATTAGTGGCGCTTA-AGA-AAACGCCGC
* *
538954 TAATGCATAGTATTAGCGGCGCTTAGTAG-AAGCGCCGCAAAAGATGTTA
63 TAATGCATAGTATTAGCGGCGCTTAGTGGTAAGCGCCGCAAAAGATATTA
*
539003 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTACAATTAGTGGCGCTTATAAAGAAAACGCCGC
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGC-T-T-AAGAAAACGCCGC
* * * * * * * *
539068 TAATGTATAGTATTAGCGACGCTGAGCGTTAAACGCCACAAAACATATTA
63 TAATGCATAGTATTAGCGGCGCTTAGTGGTAAGCGCCGCAAAAGATATTA
* * * * *
539118 ACCAAAACGCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGTTTAAGGAAAACGCCACT
1 ACCAAAACGCAGAG-TTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTAA-GAAAACGCCGCT
* * * * * * * *
539183 AAAGCATAGTAATAGCAGCGTTTGGTGGTAAGCGCCTCAAAATATCTTA
64 AATGCATAGTATTAGCGGCGCTTAGTGGTAAGCGCCGCAAAAGATATTA
* * *
539232 ACCAAAACGCGGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATTGGAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTA--AGAAAACGCCGCT
* * * * *
539297 AA-ACTACAGTAGTAGCGGCG-TTTGTGGAAAGCGCCGC-AAAG-TATCCTA
64 AATGC-ATAGTATTAGCGGCGCTTAGTGGTAAGCGCCGCAAAAGATAT--TA
* * * ** * *
539345 ACCAAAACGCAGAGTTTGGCCTTGACGTATATTAGAGTTAGTGGCGCTTATTTCAAAATGCTGCT
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTA--AGAAAACGCCGCT
* * * * * *
539410 AATGCTTACTATTTGCGACGCTTTGTGGTAAGCGCTGCCAAAAGATATTA
64 AATGCATAGTATTAGCGGCGCTTAGTGGTAAGCGCCG-CAAAAGATATTA
* * * * * * **
539460 ACGAAAACACAGCGTTTAGTTCTTGATGTATACTGGAATTAGTGGCGCACACAGGAAAACGCCGC
1 ACCAAAACGCAGAGTTT-GGTCTTGATGTATATTAGAATTAGTGGCGCTTA-A-GAAAACGCCGC
539525 TGAA-GCATAGTATTAGCGGCGCTT
63 T-AATGCATAGTATTAGCGGCGCTT
539549 TTCCCGAAAT
Statistics
Matches: 439, Mismatches: 88, Indels: 36
0.78 0.16 0.06
Matches are distributed among these distances:
111 2 0.00
112 3 0.01
113 149 0.34
114 145 0.33
115 50 0.11
116 85 0.19
117 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (112 bp):
ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTAAGAAAACGCCGCTAA
TGCATAGTATTAGCGGCGCTTAGTGGTAAGCGCCGCAAAAGATATTA
Found at i:541155 original size:44 final size:44
Alignment explanation
Indices: 541088--541174 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
541078 AGCGACTGCA
* * *
541088 TTTTGACTTACAGTTAGTGGCGCTTAGTTTAAAACGCCGCAAAG
1 TTTTGACTTACAGTTAGTAGCGCTTAGCTTAAAACACCGCAAAG
* * *
541132 TTTTGACTTATAGTTTGTAGCGCTTTGCTTAAAACACCGCAAA
1 TTTTGACTTACAGTTAGTAGCGCTTAGCTTAAAACACCGCAAA
541175 AATGTTTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (44 bp):
TTTTGACTTACAGTTAGTAGCGCTTAGCTTAAAACACCGCAAAG
Found at i:542636 original size:16 final size:16
Alignment explanation
Indices: 542615--542650 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
542605 GTATTTATAA
542615 TTATCGATTTTCAATT
1 TTATCGATTTTCAATT
542631 TTATCGATTTTCAATT
1 TTATCGATTTTCAATT
542647 TTAT
1 TTAT
542651 TTCAATTAAT
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:0.11, G:0.06, T:0.58
Consensus pattern (16 bp):
TTATCGATTTTCAATT
Found at i:543706 original size:21 final size:21
Alignment explanation
Indices: 543682--543728 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
543672 CTACAACTTA
*
543682 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGAG
*
543703 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
543724 AAGCA
1 AAGCA
543729 AAGCAGAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.19, G:0.43, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:544117 original size:42 final size:42
Alignment explanation
Indices: 544048--544336 Score: 479
Period size: 42 Copynumber: 6.8 Consensus size: 42
544038 ATTTTTGTAT
* **
544048 AAAAGCGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
544090 AAAAACGCCGCTAAAGACCATGCTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
544132 AATAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AA-AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
544175 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* * *
544217 AATAAACGCCCCGAAAGACCATGTTCTTTAGCGGCGCTTAGTA
1 AA-AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
544260 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
544302 ATAAACGCCGCTAAAGACCATGTTCTTTAGAGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
544337 TTTCTTTCTA
Statistics
Matches: 232, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
42 152 0.66
43 80 0.34
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:544148 original size:85 final size:85
Alignment explanation
Indices: 544053--544336 Score: 498
Period size: 85 Copynumber: 3.4 Consensus size: 85
544043 TGTATAAAAG
** *
544053 CGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGCTCTTT
1 CGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTT
544118 AGCGGCGCTTAGAAAATAAA
66 AGCGGCGCTTAGAAAATAAA
544138 CGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTT
1 CGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTT
544203 AGCGGCGCTTAGAAAATAAA
66 AGCGGCGCTTAGAAAATAAA
* * *
544223 CGCCCCGAAAGACCATGTTCTTTAGCGGCGCTTAGTAAAAAACGCCGCTAAAGACCATGTTCTTT
1 CGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTT
544288 AGCGGCGCTTAG-AAATAAA
66 AGCGGCGCTTAGAAAATAAA
*
544307 CGCCGCTAAAGACCATGTTCTTTAGAGGCG
1 CGCCGCTAAAGACCATGTTCTTTAGCGGCG
544337 TTTCTTTCTA
Statistics
Matches: 190, Mismatches: 9, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
84 34 0.18
85 156 0.82
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (85 bp):
CGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTT
AGCGGCGCTTAGAAAATAAA
Found at i:544279 original size:127 final size:127
Alignment explanation
Indices: 544048--544336 Score: 481
Period size: 127 Copynumber: 2.3 Consensus size: 127
544038 ATTTTTGTAT
* ** * *
544048 AAAAGCGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGC
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCCCGAAAGACCATGC
544113 TCTTTAGCGGCGCTTAGAAAATAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
66 TCTTTAGCGGCGCTTAGAAAATAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
544175 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAATAAACGCCCCGAAAGACCATG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAA-AAACGCCCCGAAAGACCATG
* *
544240 TTCTTTAGCGGCGCTTAGTAAA-AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
65 CTCTTTAGCGGCGCTTAGAAAATAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
544302 ATAAACGCCGCTAAAGACCATGTTCTTTAGAGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
544337 TTTCTTTCTA
Statistics
Matches: 152, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
127 114 0.75
128 38 0.25
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (127 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCCCGAAAGACCATGC
TCTTTAGCGGCGCTTAGAAAATAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:544735 original size:17 final size:17
Alignment explanation
Indices: 544707--544741 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
544697 TAATTTTACT
544707 ATAATGACAAAAGACTGA
1 ATAATGACAAAAGA-TGA
544725 ATAAT-ACAAAAGATGA
1 ATAATGACAAAAGATGA
544741 A
1 A
544742 GACAAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (17 bp):
ATAATGACAAAAGATGA
Found at i:550902 original size:50 final size:50
Alignment explanation
Indices: 550848--551029 Score: 158
Period size: 50 Copynumber: 3.6 Consensus size: 50
550838 ACACTGTCAG
* **
550848 GGAAGTAAGATTTGCTGTTGTAGCTTCAATCTTTTGAACTGTAATGCCGT
1 GGAAGCAAGATTCACTGTTGTAGCTTCAATCTTTTGAACTGTAATGCCGT
** ** * *
550898 GGAAGCAAGATTCACCATTGT-GACTTCAATCTTTTCCATTG-CAT-CATC-T
1 GGAAGCAAGATTCACTGTTGTAG-CTTCAATCTTTTGAACTGTAATGC--CGT
* * * *
550947 AGGAAGTAAGATTCACTGCTGTAGCTTCAATCTTTTGAACTGTAATGTCGG
1 -GGAAGCAAGATTCACTGTTGTAGCTTCAATCTTTTGAACTGTAATGCCGT
*
550998 GGAAGCAAGATTCACCGTTGT-GACTTCAATCT
1 GGAAGCAAGATTCACTGTTGTAG-CTTCAATCT
551030 ATTCCACTGC
Statistics
Matches: 101, Mismatches: 22, Indels: 18
0.72 0.16 0.13
Matches are distributed among these distances:
48 1 0.01
49 5 0.05
50 92 0.91
51 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (50 bp):
GGAAGCAAGATTCACTGTTGTAGCTTCAATCTTTTGAACTGTAATGCCGT
Found at i:550952 original size:100 final size:100
Alignment explanation
Indices: 550784--551065 Score: 363
Period size: 100 Copynumber: 2.8 Consensus size: 100
550774 TAATCTGCTT
* * * * * * * *
550784 AACTGTGATGTCGGGGAAGCAAGATTCGCCATTGT-AGCTTCAATTTGTTCCCCTACA-C-TGTC
1 AACTGTAATGCCGGGGAAGCAAGATTCACCATTGTGA-CTTCAATCTATTCCACTGCATCATCT-
*
550846 AGGGAAGTAAGATTTGCTGTTGTAGCTTCAATCTTTTG
64 A-GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTG
* * *
550884 AACTGTAATGCCGTGGAAGCAAGATTCACCATTGTGACTTCAATCTTTTCCATTGCATCATCTAG
1 AACTGTAATGCCGGGGAAGCAAGATTCACCATTGTGACTTCAATCTATTCCACTGCATCATCTAG
* *
550949 GAAGTAAGATTCACTGCTGTAGCTTCAATCTTTTG
66 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTG
* * *
550984 AACTGTAATGTCGGGGAAGCAAGATTCACCGTTGTGACTTCAATCTATTCCACTGCATCGTCTAG
1 AACTGTAATGCCGGGGAAGCAAGATTCACCATTGTGACTTCAATCTATTCCACTGCATCATCTAG
551049 GAAGTAAGATTCGCTGT
66 GAAGTAAGATTCGCTGT
551066 CTTCGATCTG
Statistics
Matches: 158, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
100 153 0.97
101 3 0.02
102 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (100 bp):
AACTGTAATGCCGGGGAAGCAAGATTCACCATTGTGACTTCAATCTATTCCACTGCATCATCTAG
GAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTG
Found at i:551052 original size:50 final size:50
Alignment explanation
Indices: 550898--551060 Score: 177
Period size: 50 Copynumber: 3.3 Consensus size: 50
550888 GTAATGCCGT
* * *
550898 GGAAGCAAGATTCACCATTGTGACTTCAATCTTTTCCATTGCATCATCTA
1 GGAAGCAAGATTCACCGTTGTGACTTCAATCTTTTCCACTGCATCGTCTA
* * * ** * **
550948 GGAAGTAAGATTCACTGCTGT-AGCTTCAATCTTTTGAACTGTAAT-GTCGG
1 GGAAGCAAGATTCACCGTTGTGA-CTTCAATCTTTTCCACTG-CATCGTCTA
*
550998 GGAAGCAAGATTCACCGTTGTGACTTCAATCTATTCCACTGCATCGTCTA
1 GGAAGCAAGATTCACCGTTGTGACTTCAATCTTTTCCACTGCATCGTCTA
*
551048 GGAAGTAAGATTC
1 GGAAGCAAGATTC
551061 GCTGTCTTCG
Statistics
Matches: 88, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
49 3 0.03
50 82 0.93
51 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (50 bp):
GGAAGCAAGATTCACCGTTGTGACTTCAATCTTTTCCACTGCATCGTCTA
Found at i:551125 original size:44 final size:44
Alignment explanation
Indices: 551077--551170 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
551067 TTCGATCTGT
* ** *
551077 TCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTAC
1 TCCACTACTACTTAAGGAGATAAGATCTACAATCTTCAACCTAC
** * *
551121 TCCACTACTGTTTAAGGAGATAAGGTCTACAATCTTCAACCTAT
1 TCCACTACTACTTAAGGAGATAAGATCTACAATCTTCAACCTAC
551165 TCCACT
1 TCCACT
551171 GCTGTCCAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (44 bp):
TCCACTACTACTTAAGGAGATAAGATCTACAATCTTCAACCTAC
Found at i:551185 original size:44 final size:44
Alignment explanation
Indices: 551092--551186 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 44
551082 TACTACTTAG
** * **
551092 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGTTTAA
1 GGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGTCCAA
* * *
551136 GGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTCC-A
1 GGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGTCCAA
551179 GAGAGATA
1 G-GAGATA
551187 GGGTTTGTGG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (44 bp):
GGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGTCCAA
Found at i:551348 original size:44 final size:44
Alignment explanation
Indices: 551250--551523 Score: 171
Period size: 44 Copynumber: 6.2 Consensus size: 44
551240 CTTCGATCTG
* * * *
551250 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTA
* *
551294 CTCTACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTA
* * * * * * ***** * * *
551338 TTCCATTGCTG-TCCAGAGATATAGGGT-TTGTGGCTTAAATCTG
1 CTCCACTGCTGCT-CAGGGAGATAAGATCTACAATCTTCAACCTA
* * * ** * *
551381 CTTCC-CTACTCCT-GGGGAAGATAAGAT-TCACCGTCTTCAATCTG
1 C-TCCACTGCTGCTCAGGG-AGATAAGATCT-ACAATCTTCAACCTA
* * * * *
551425 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCCACCTA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTA
*
551469 CTCCACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTA
*
551513 TTCCACTGCTG
1 CTCCACTGCTG
551524 TCCAGAGAGA
Statistics
Matches: 172, Mismatches: 50, Indels: 16
0.72 0.21 0.07
Matches are distributed among these distances:
42 2 0.01
43 22 0.13
44 144 0.84
45 4 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTA
Found at i:551482 original size:175 final size:175
Alignment explanation
Indices: 551048--551666 Score: 1001
Period size: 175 Copynumber: 3.5 Consensus size: 175
551038 GCATCGTCTA
* * * * *
551048 GGAAG-TAAGATTCGCTGTCTTCGATCTGTTCCACTACTACTTAGGGAGATAAGATCTGTAATTT
1 GGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
* * * *
551112 TCAACCTACTCCACTACTGTTTAAGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTC
66 TCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTC
*
551177 CAGAGAGATAGGGTTTGTGGCTTAAATCTACTTCCCTACTCCT-G
131 CAGAGAGATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTCCTGG
*
551221 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
1 GGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
* *
551286 TCAACCTACTCTACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTATTCCATTGCTGTC
66 TCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTC
*
551351 CAGAGATATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTCCTGG
131 CAGAGAGATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTCCTGG
*
551396 GGAAGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
1 GGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
*
551461 TCCACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTC
66 TCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTC
*
551526 CAGAGAGATAGGATTTGTGGCTTAAATCTGCTTCCCTACTCCTGG
131 CAGAGAGATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTCCTGG
* * * * *
551571 GGAAGATAAGATTCGA-AGTCCTCGATTTGTTCCACTATTGCTTAGGGAGATAAGATCTGCAATT
1 GGAAGATAAGATTC-ACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATT
*
551635 TTCAACCTACTCCACTGCTGCTCAGAGAGATA
65 TTCAACCTACTCCACTGCTGCTCAGGGAGATA
551667 GAGTTTGTGG
Statistics
Matches: 416, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
173 5 0.01
174 155 0.37
175 255 0.61
176 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (175 bp):
GGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
TCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTC
CAGAGAGATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTCCTGG
Found at i:551554 original size:131 final size:130
Alignment explanation
Indices: 551419--551797 Score: 462
Period size: 131 Copynumber: 2.9 Consensus size: 130
551409 CACCGTCTTC
* * * * * *
551419 AATCTGC-TCCACTACTGCTTAGGG-AGATAAGATCTGCAATTTTCCACCTACTCCACTGCTGCT
1 AATCTGCTTCC-CTACT-CCTAGGGAAGATAAGAT-TGCAATCTTCGATCTGCTCCACTACTGCT
* * * * *
551482 CAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTG-TCCAGAGAGATAG-GATTTGTG
63 TAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCT-CAGAGAGATAGAG-TTTGTG
551545 GCTTA
126 GCTTA
* * * * *
551550 AATCTGCTTCCCTACTCCTGGGGAAGATAAGATT-CGAAGTCCTCGATTTGTTCCACTATTGCTT
1 AATCTGCTTCCCTACTCCTAGGGAAGATAAGATTGC-AA-TCTTCGATCTGCTCCACTACTGCTT
551614 AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAGAGTTTGTGGCT
64 AGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAGAGTTTGTGGCT
551679 TA
129 TA
* ** *
551681 AATCTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTA
1 AATCTGCTTCCCTACTCCTAGGGAAGATAAGATT-GCAATCTTCGATCTGCTCCACTACTGCTTA
*
551746 GGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATA
65 GGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGATA
551798 AGACTAGTCT
Statistics
Matches: 214, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
129 1 0.00
130 8 0.04
131 199 0.93
132 5 0.02
133 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (130 bp):
AATCTGCTTCCCTACTCCTAGGGAAGATAAGATTGCAATCTTCGATCTGCTCCACTACTGCTTAG
GGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAGAGTTTGTGGCTTA
Found at i:551649 original size:44 final size:44
Alignment explanation
Indices: 551601--551990 Score: 148
Period size: 44 Copynumber: 9.0 Consensus size: 44
551591 CTCGATTTGT
* *
551601 TCCACTATTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTAC
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTAC
* * * * *** * *
551645 TCCACTGCTGCTCAGAGAGAT-AGAGTTTG-TGGCTTAAATCTAC
1 TCCACTACTGCTTAGGGAGATAAGA-TCTGCAATCTTCAACCTAC
* ** * * *
551688 TTCC-CTACT-CCTAGGGAAGATAAGAT-TCGCCGTCTTCGATCTGC
1 -TCCACTACTGCTTAGGG-AGATAAGATCT-GCAATCTTCAACCTAC
* *
551732 TCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAACCTAC
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTAC
* * * * *
551776 TCCACTGCTGCTCAGGGAGATAAGA-CT--AGTCTTTAACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTAC
* * * *** * * *
551817 TCCA--A-TGCTATCAAAGGAGATAGGATTTG-TGGCTTAAATCTGC
1 TCCACTACTGCT-T--AGGGAGATAAGATCTGCAATCTTCAACCTAC
* * ** * *
551860 TTCC-CTACT-CTTGGGGAAGATAAGAT-TCCCCGTCTTCGATCC-GC
1 -TCCACTACTGCTTAGGG-AGATAAGATCT-GCAATCTTC-AACCTAC
* * *
551904 TCCACTACTACTTAGGGAGATAAGATCTCCAATTTTCAACCTAC
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTAC
* * *
551948 TCCACTGA-TGCTCAGGGAGATAAGGTCTACAATCTTCAACCTA
1 TCCACT-ACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTA
551991 TCTCACTGTT
Statistics
Matches: 254, Mismatches: 65, Indels: 54
0.68 0.17 0.14
Matches are distributed among these distances:
38 4 0.02
41 24 0.09
42 9 0.04
43 48 0.19
44 148 0.58
45 20 0.08
46 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTAC
Found at i:551732 original size:175 final size:175
Alignment explanation
Indices: 551212--552102 Score: 611
Period size: 175 Copynumber: 5.1 Consensus size: 175
551202 ATCTACTTCC
** *
551212 CTACTCCT-GGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 CTACTCCTAGGGAAGATAAGATTCGAAGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGA
* * ***** * *
551276 TCTGCAATTTTCAACCTACTCTACTGCTGCTCAGGGAGATA-AGGTCTACAATCTTCAACCTA-T
66 TCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAGA-GT-TTGTGGCTTAAATCTACT
* * * * * * * * * **
551339 TCCATTGCTGTCC-AGAG-ATATAGGGTTTG-TGGCTTAAATCTGCTTCC-
129 TCC-CTAC--TCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGC-TCCA
* *
551386 CTACTCCTGGGGAAGATAAGATTC-ACCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAG
1 CTACTCCTAGGGAAGATAAGATTCGA-AGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAG
* * ***** * *
551450 ATCTGCAATTTTCCACCTACTCCACTGCTGCTCAGGGAGATA-AGGTCTACAATCTTCAACCTA-
65 ATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAGA-GT-TTGTGGCTTAAATCTAC
* * * * * * **
551513 TTCCACTGCTGTCC-AGAG-AGATAGGATTTG-TGGCTTAAATCTGCTTCC-
128 TTCC-CTAC--TCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGC-TCCA
* * * * * *
551561 CTACTCCTGGGGAAGATAAGATTCGAAGTCCTCGATTTGTTCCACTATTGCTTAGGGAGATAAGA
1 CTACTCCTAGGGAAGATAAGATTCGAAGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGA
551626 TCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAGAGTTTGTGGCTTAAATCTACTTC
66 TCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAGAGTTTGTGGCTTAAATCTACTTC
551691 CCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCA
131 CCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCA
* * * * * *
551736 CTACTACTTAGGG-AGATAAGA-TCTGCAA-TTTTCAACCTACTCCACTGCTGCTCAGGGAGATA
1 CTACT-CCTAGGGAAGATAAGATTC-G-AAGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATA
* * * * *
551798 AGA-CT--AGTCTTT-AACCTATTCCAATGCT-ATCAAAGGAGATAG-GATTTGTGGCTTAAATC
63 AGATCTGCAAT-TTTCAACCTACTCCACTGCTGCTCAGA-GAGATAGAG-TTTGTGGCTTAAATC
* * * * *
551857 TGCTTCCCTACTCTTGGGGAAGATAAGATTCCCCGTCTTCGATCCGCTCCA
125 TACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCA
* * * * * *
551908 CTACTACTTAGGG-AGATAAGATCTCCAA-TTTTCAACCTACTCCACTGA-TGCTCAGGGAGATA
1 CTACT-CCTAGGGAAGATAAGAT-TCGAAGTCTTCAATCTGCTCCACT-ACTGCTTAGGGAGATA
* * * *
551970 AGGTCTACAATCTTCAACCTA-TCTCACTGTTG-TCCAG-GAAGATAG-GATTTGTGGCTTAAAT
63 AGATCTGCAATTTTCAACCTACTC-CACTGCTGCT-CAGAG-AGATAGAG-TTTGTGGCTTAAAT
* * * *
552031 CTGCTTCTCTACTCCTAGGGAAGATAAGATTCACCATCTTCGATCTGCTCCA
124 CTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCA
*
552083 CTACTACTTAGGG-AGATAAG
1 CTACT-CCTAGGGAAGATAAG
552103 TTCTACAATT
Statistics
Matches: 625, Mismatches: 66, Indels: 51
0.84 0.09 0.07
Matches are distributed among these distances:
171 5 0.01
172 144 0.23
173 8 0.01
174 44 0.07
175 413 0.66
176 11 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (175 bp):
CTACTCCTAGGGAAGATAAGATTCGAAGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGA
TCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAGAGTTTGTGGCTTAAATCTACTTC
CCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCA
Found at i:551865 original size:172 final size:173
Alignment explanation
Indices: 551661--552112 Score: 660
Period size: 172 Copynumber: 2.6 Consensus size: 173
551651 GCTGCTCAGA
* *
551661 GAGATA-GAGTTTGTGGCTTAAATCTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTC
1 GAGATAGGA-TTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCACCGTCTTC
* *
551725 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCA
65 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGATGCTCA
* *
551790 GGGAGATAA-GACT-AGTCTTTAACCTAT-TCCAATGCTATCAAAG
130 GGGAGATAAGGACTAAATCTTCAACCTATCT-CAATGCTATC-AAG
* * *
551833 GAGATAGGATTTGTGGCTTAAATCTGCTTCCCTACTCTTGGGGAAGATAAGATTCCCCGTCTTCG
1 GAGATAGGATTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCACCGTCTTCG
* *
551898 ATCCGCTCCACTACTACTTAGGGAGATAAGATCTCCAATTTTCAACCTACTCCACTGATGCTCAG
66 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGATGCTCAG
* * * * *
551963 GGAGATAAGGTCTACAATCTTCAACCTATCTCACTGTTGTCCAG
131 GGAGATAAGGACTA-AATCTTCAACCTATCTCAATGCTATCAAG
* *
552007 GAAGATAGGATTTGTGGCTTAAATCTGCTTCTCTACTCCTAGGGAAGATAAGATTCACCATCTTC
1 G-AGATAGGATTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCACCGTCTTC
*
552072 GATCTGCTCCACTACTACTTAGGGAGATAAGTTCTACAATT
65 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATT
552113 CCATTGATCT
Statistics
Matches: 252, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
172 128 0.51
173 5 0.02
174 3 0.01
175 115 0.46
176 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (173 bp):
GAGATAGGATTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCACCGTCTTCG
ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGATGCTCAG
GGAGATAAGGACTAAATCTTCAACCTATCTCAATGCTATCAAG
Found at i:552013 original size:44 final size:44
Alignment explanation
Indices: 551921--552013 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
551911 CTACTTAGGG
* * *
551921 AGATAAGATCTCCAATTTTCAACCTACTCCACTGATGCTCAGGG
1 AGATAAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGGA
* *
551965 AGATAAGGTCTACAATCTTCAACCTA-TCTCACTGTTG-TCCAGGA
1 AGATAAGATCTACAATCTTCAACCTACTC-CACTGATGCT-CAGGA
552009 AGATA
1 AGATA
552014 GGATTTGTGG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 3 0.07
44 39 0.93
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
AGATAAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGGA
Found at i:560043 original size:21 final size:21
Alignment explanation
Indices: 560004--560043 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
559994 ATTGCCCTAA
* *
560004 ATTTCTCTTCAATCCATTTCC
1 ATTTCTCCTCAAACCATTTCC
*
560025 ATTTCTCCTCAAACTATTT
1 ATTTCTCCTCAAACCATTT
560044 TGGCAATTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTCTCCTCAAACCATTTCC
Found at i:566049 original size:5 final size:5
Alignment explanation
Indices: 566033--566121 Score: 115
Period size: 5 Copynumber: 17.8 Consensus size: 5
566023 TTCATACTAG
* * * *
566033 TCATA TCTTA TCATA TCATA ACGTA TCATA ACATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
* * *
566083 TCATA CCAAA TCATA TCATA TCATA TTATA TCATA TCAT
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCAT
566122 TACATGTCCT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 70 1.00
ACGTcount: A:0.40, C:0.20, G:0.01, T:0.38
Consensus pattern (5 bp):
TCATA
Found at i:566686 original size:49 final size:48
Alignment explanation
Indices: 566624--566781 Score: 149
Period size: 49 Copynumber: 3.2 Consensus size: 48
566614 AAAGCTAGCG
* * *
566624 TGTGGTCCACATGGACTACCCATACGGTCTGTAAAGTTTCACACGGCCT
1 TGTGCTCCACATGG-CTACCCACACAGTCTGTAAAGTTTCACACGGCCT
** ****
566673 TGTGCTCCACATGGCTAAGACACACAAG-CTGTAAAAACACACACGG-CT
1 TGTGCTCCACATGGCT-ACCCACAC-AGTCTGTAAAGTTTCACACGGCCT
* * *
566721 GTGTGCTCCACACGGCCTACCCACACAGTCTGCAAAGTTTTACACGGCCT
1 -TGTGCTCCACATGG-CTACCCACACAGTCTGTAAAGTTTCACACGGCCT
566771 TGTGCTCCACA
1 TGTGCTCCACA
566782 AGGCCAAGAC
Statistics
Matches: 85, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
48 6 0.07
49 74 0.87
50 5 0.06
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (48 bp):
TGTGCTCCACATGGCTACCCACACAGTCTGTAAAGTTTCACACGGCCT
Found at i:566792 original size:98 final size:98
Alignment explanation
Indices: 566622--566836 Score: 268
Period size: 98 Copynumber: 2.2 Consensus size: 98
566612 AAAAAGCTAG
* * * * * * *
566622 CGTGTGGTCCACATGGACTACCCATACGGTCTGTAAAGTTTCACACGGCCTTGTGCTCCACATGG
1 CGTGTGCTCCACACGGCCTACCCACACAGTCTGCAAAGTTTCACACGGCCTTGTGCTCCACAAGG
* * * *
566687 CTAAGACACACAAGCTGTAAAAACACACACGGC
66 CCAAGACACACAAGCTGCAAAAAAACACACGAC
* *
566720 TGTGTGCTCCACACGGCCTACCCACACAGTCTGCAAAGTTTTACACGGCCTTGTGCTCCACAAGG
1 CGTGTGCTCCACACGGCCTACCCACACAGTCTGCAAAGTTTCACACGGCCTTGTGCTCCACAAGG
* * * *
566785 CCAAGACACATAGGTTGCAAAAAAACACATGAC
66 CCAAGACACACAAGCTGCAAAAAAACACACGAC
*
566818 CGTGTGCTCCGCACGGCCT
1 CGTGTGCTCCACACGGCCT
566837 GACACACGGC
Statistics
Matches: 98, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.20
Consensus pattern (98 bp):
CGTGTGCTCCACACGGCCTACCCACACAGTCTGCAAAGTTTCACACGGCCTTGTGCTCCACAAGG
CCAAGACACACAAGCTGCAAAAAAACACACGAC
Found at i:566804 original size:49 final size:48
Alignment explanation
Indices: 566656--566805 Score: 131
Period size: 49 Copynumber: 3.1 Consensus size: 48
566646 TACGGTCTGT
* * * *
566656 AAAGTTTCACACGGCCTTGTGCTCCACATGGCTAAGACACACAAGCTGT
1 AAAGTTTCACACGGCCTTGTGCTCCACAAGGCCAAGACACAC-AGTTGC
**** * * **
566705 AAAAACACACACGG-CTGTGTGCTCCACACGGCCTACCCACACAGTCTGC
1 AAAGTTTCACACGGCCT-TGTGCTCCACAAGGCCAAGACACACAGT-TGC
* *
566754 AAAGTTTTACACGGCCTTGTGCTCCACAAGGCCAAGACACATAGGTTGC
1 AAAGTTTCACACGGCCTTGTGCTCCACAAGGCCAAGACACACA-GTTGC
566803 AAA
1 AAA
566806 AAAACACATG
Statistics
Matches: 76, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
48 4 0.05
49 68 0.89
50 4 0.05
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (48 bp):
AAAGTTTCACACGGCCTTGTGCTCCACAAGGCCAAGACACACAGTTGC
Found at i:569262 original size:29 final size:29
Alignment explanation
Indices: 569172--569265 Score: 77
Period size: 31 Copynumber: 3.2 Consensus size: 29
569162 TTTATTTAAA
*
569172 TATGTAT-AA-ATGAATCAAAATCAAAGTT
1 TATGTATAAATATGAA-CCAAATCAAAGTT
* **
569200 TCATGTATACATATGAACCACAATTCAATTTT
1 T-ATGTATAAATATGAACCA-AA-TCAAAGTT
*
569232 TATGTATATAAT-TGTACCAAATCAAAGTT
1 TATGTATA-AATATGAACCAAATCAAAGTT
569261 TATGT
1 TATGT
569266 GTCAAATTGC
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
28 1 0.02
29 17 0.33
30 5 0.10
31 20 0.38
32 9 0.17
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (29 bp):
TATGTATAAATATGAACCAAATCAAAGTT
Found at i:573409 original size:20 final size:22
Alignment explanation
Indices: 573384--573434 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
573374 GGCTCCATAT
*
573384 CTCGAACCTTG-AATTTG-AAC
1 CTCGAACCTTGAAACTTGAAAC
573404 CTCGAACC-TGAAACTTGAAAC
1 CTCGAACCTTGAAACTTGAAAC
*
573425 CTTGAACCTT
1 CTCGAACCTT
573435 AGACTACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 13 0.50
21 10 0.38
22 1 0.04
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (22 bp):
CTCGAACCTTGAAACTTGAAAC
Found at i:573832 original size:17 final size:16
Alignment explanation
Indices: 573812--573861 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
573802 TTATTTTTAA
573812 AATTTTTATATTATTTT
1 AATTTTTATATT-TTTT
*
573829 AA-TTTAATATTTTTT
1 AATTTTTATATTTTTT
573844 -ATTTATTGATATTTTTT
1 AATTT-TT-ATATTTTTT
573861 A
1 A
573862 TATAGTCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 1 0.04
15 6 0.22
16 9 0.33
17 11 0.41
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
AATTTTTATATTTTTT
Found at i:598180 original size:44 final size:44
Alignment explanation
Indices: 598069--598357 Score: 169
Period size: 44 Copynumber: 6.6 Consensus size: 44
598059 GAAGAATTAC
** *** **
598069 AGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCCAGT
1 AGATCTTATCTCCCTGAGATTACAGTGGAACAGATT-AAAATAAA
* * * *
598114 A-ATCCTATTTCCCTAAGATTACAGTGGAACGGATTAAAATAAA
1 AGATCTTATCTCCCTGAGATTACAGTGGAACAGATTAAAATAAA
* * * *** *
598157 AGATCTTATCTCTCTGA-AGTTACAGTAGAGCAGA-TCGCAT-CA
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAACAGATTAAAATAAA
* * * * * *
598199 CG-TCTTATCTCCCTGAGCTTACAGTGGAATAGACTGAAGAATTAC
1 AGATCTTATCTCCCTGAGATTACAGTGGAACAGA-TTAA-AATAAA
* * *** *
598244 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAAT
1 AGATCTTATCTCCCTGAGATTACAGTGGAACAGATT-AAAATAAA
* *
598289 A-ATCCTATTTCCCTGAGATTACAGTGGAACAGATTAAAATAAA
1 AGATCTTATCTCCCTGAGATTACAGTGGAACAGATTAAAATAAA
* *
598332 GGATCTTATCTCTCTGA-AGTTACAGT
1 AGATCTTATCTCCCTGAGA-TTACAGT
598358 AGAGTAGATC
Statistics
Matches: 176, Mismatches: 57, Indels: 23
0.69 0.22 0.09
Matches are distributed among these distances:
41 25 0.14
42 2 0.01
43 13 0.07
44 102 0.58
45 5 0.03
46 29 0.16
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAACAGATTAAAATAAA
Found at i:598349 original size:175 final size:174
Alignment explanation
Indices: 598058--598432 Score: 597
Period size: 175 Copynumber: 2.1 Consensus size: 174
598048 AACAGATCAG
* * *
598058 TGAAGAATTACAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCCAGTAATCCTATT
1 TGAAGAATTACAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAATAATCCTATT
*
598123 TCCCTAAGATTACAGTGGAACGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGC
66 TCCCTAAGATTACAGTGGAACAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGC
* * *
598188 AGATCGCATCACGTCTTATCTCCCTGAGCTTACAGTGGAATAGAC
131 AGATCGCATCACGTCTT-TCTCCATGAGATTAAAGTGGAATAGAC
598233 TGAAGAATTACAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAATAATCCTATT
1 TGAAGAATTACAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAATAATCCTATT
* * *
598298 TCCCTGAGATTACAGTGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
66 TCCCTAAGATTACAGTGGAACAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGC
*
598363 AGATCGCATCAGGTCTTTCTCCATGAGATTAAAGTGGAATAGAC
131 AGATCGCATCACGTCTTTCTCCATGAGATTAAAGTGGAATAGAC
* * * * *
598407 CGAAGAACTATAGATCCTGTCTCCCT
1 TGAAGAATTACAGATCTTATCTCCCT
598433 AAGCAGTAGC
Statistics
Matches: 184, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
174 45 0.24
175 139 0.76
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (174 bp):
TGAAGAATTACAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAATAATCCTATT
TCCCTAAGATTACAGTGGAACAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGC
AGATCGCATCACGTCTTTCTCCATGAGATTAAAGTGGAATAGAC
Found at i:598566 original size:44 final size:44
Alignment explanation
Indices: 598503--598597 Score: 154
Period size: 44 Copynumber: 2.2 Consensus size: 44
598493 TTAAGCTGCG
* *
598503 AGTCCTATCTCCTTGACCAGCAGTGGAATAGGTTGAAGATCGCA
1 AGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATCACA
* *
598547 AGTCCTATCTCCCTGACCAGTAGTGGAATAGGTTGAAGATTACA
1 AGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATCACA
598591 AGTCCTA
1 AGTCCTA
598598 ACCCACAGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
AGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATCACA
Found at i:601028 original size:104 final size:105
Alignment explanation
Indices: 600709--601182 Score: 539
Period size: 105 Copynumber: 4.6 Consensus size: 105
600699 TTGTTAGGAT
* * **
600709 TTGTGATCATAAATCAGCTAACTC-AATAAACTTAGGTTATGATCTTAAATCAACTAACC-TT-T
1 TTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAACTAACCTTTAT
** ** *
600771 AATATCAGTTGTGAATGTAGGTTAGTGAGCTATTTATG-AG
66 AATATCAACTGTGAACATAGGTTAGCGAGCTATTTA-GAAG
** * * * * *
600811 TTACGATCTTAAATAAACTAACTCAAATAAATTTGGGTTACGATCTTAAATCAGCTAACCTTTAT
1 TTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAACTAACCTTTAT
* * * * *
600876 AATATTAGCTGTGAACGTAGGTCAGCGAGCTATTTAGGAG
66 AATATCAACTGTGAACATAGGTTAGCGAGCTATTTAGAAG
* * * * *
600916 TTGAGATCTTAAATCAACTAACTCAAATAGACTTAGGTTTCAATCTTAAATCAATTAACC-TTAT
1 TTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAACTAACCTTTAT
* *
600980 AATATTAACTGTGAACAAAGGTTAGCGAGCTATTTAGAAG
66 AATATCAACTGTGAACATAGGTTAGCGAGCTATTTAGAAG
* * * * * *
601020 TTGTGATCTTAAAT-AGCTAAGTCAAATAAACTTAGGTCGCGATCTTAAATCAGCTACCCTTTAA
1 TTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAACTAACCTTTAT
* *
601084 AATATCAACCGTGAACATAGGTTAGTGAGCTATTTA-AGAG
66 AATATCAACTGTGAACATAGGTTAGCGAGCTATTTAGA-AG
* *
601124 TTGTGATCTTAAATCAACTTACTCAAATAAACTTAGGTTGCGATATTAAATCAACTAAC
1 TTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAACTAAC
601183 TCAAATAAAC
Statistics
Matches: 314, Mismatches: 51, Indels: 11
0.84 0.14 0.03
Matches are distributed among these distances:
102 19 0.06
103 68 0.22
104 106 0.34
105 121 0.39
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (105 bp):
TTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAACTAACCTTTAT
AATATCAACTGTGAACATAGGTTAGCGAGCTATTTAGAAG
Found at i:601116 original size:208 final size:208
Alignment explanation
Indices: 600702--601182 Score: 601
Period size: 208 Copynumber: 2.3 Consensus size: 208
600692 AGATAAGTTG
* * *
600702 TTAGGATTTGTGATCATAAATCAGCTAACTC-AATAAACTTAGGTTAT-GATCTTAAATCAACTA
1 TTAGGAGTTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTT-TCGATCTTAAATCAACTA
** *** *
600765 ACCTTTAATATCAGTTGTGAATGTAGGTTAGTGAGCTATTTATGAGTTACGATCTTAAATAAACT
65 ACCTTTAATATCAACTGTGAACAAAGGTTAGCGAGCTATTTATGAGTTACGATCTTAAATAAACT
* * * * * * * *
600830 AACTCAAATAAATTTGGGTTACGATCTTAAATCAGCTAACCTTTATAATATTAGCTGTGAACGTA
130 AACTCAAATAAACTTAGGTCACGATCTTAAATCAGCTAACCTTTAAAATATCAACCGTGAACATA
600895 GGTCAGCGAGCTAT
195 GGTCAGCGAGCTAT
* * * *
600909 TTAGGAGTTGAGATCTTAAATCAACTAACTCAAATAGACTTAGGTTTCAATCTTAAATCAATTAA
1 TTAGGAGTTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTTCGATCTTAAATCAACTAA
* ** *
600974 CCTTATAATATTAACTGTGAACAAAGGTTAGCGAGCTATTTA-GAAGTTGTGATCTTAAAT-AGC
66 CCTT-TAATATCAACTGTGAACAAAGGTTAGCGAGCTATTTATG-AGTTACGATCTTAAATAAAC
* * *
601037 TAAGTCAAATAAACTTAGGTCGCGATCTTAAATCAGCTACCCTTTAAAATATCAACCGTGAACAT
129 TAACTCAAATAAACTTAGGTCACGATCTTAAATCAGCTAACCTTTAAAATATCAACCGTGAACAT
* *
601102 AGGTTAGTGAGCTAT
194 AGGTCAGCGAGCTAT
* * * *
601117 TTAAGAGTTGTGATCTTAAATCAACTTACTCAAATAAACTTAGGTTGCGATATTAAATCAACTAA
1 TTAGGAGTTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTTCGATCTTAAATCAACTAA
601182 C
66 C
601183 TCAAATAAAC
Statistics
Matches: 232, Mismatches: 38, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
207 28 0.12
208 160 0.69
209 44 0.19
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (208 bp):
TTAGGAGTTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTTCGATCTTAAATCAACTAA
CCTTTAATATCAACTGTGAACAAAGGTTAGCGAGCTATTTATGAGTTACGATCTTAAATAAACTA
ACTCAAATAAACTTAGGTCACGATCTTAAATCAGCTAACCTTTAAAATATCAACCGTGAACATAG
GTCAGCGAGCTAT
Found at i:601185 original size:37 final size:37
Alignment explanation
Indices: 601123--601360 Score: 154
Period size: 37 Copynumber: 6.6 Consensus size: 37
601113 CTATTTAAGA
* * * *
601123 GTTGTGATCTTAAATCAACTTACTCAAATAAACTTAG
1 GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAG
*
601160 GTTGCGATATTAAATCAACTAACTCAAATAAACTTAG
1 GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAG
* * * *
601197 GTTGCAATCTTAAATTAGCTAACCTC-TAT-AACATTA-
1 GTTGCGATATTAAATCAGCTAA-CTCAAATAAAC-TTAG
* * * * * * ***
601233 GTTGTG--A--ACAT-AGGTTA-GCAAGT-TGTTTAGG
1 GTTGCGATATTAAATCAGCTAACTCAAATAAACTTA-G
* *
601264 AGTTGCGATTTTAAATCAGGTAACTCAAATAAACTTAG
1 -GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAG
*
601302 GTTGCGATATTAAATCAGCTAACTCAAATTAACTTAG
1 GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAG
* * *
601339 GTTGTGATCTTAAATCAACTAA
1 GTTGCGATATTAAATCAGCTAA
601361 GCTTTATAAT
Statistics
Matches: 153, Mismatches: 35, Indels: 26
0.71 0.16 0.12
Matches are distributed among these distances:
29 4 0.03
30 1 0.01
31 4 0.03
32 8 0.05
36 10 0.07
37 115 0.75
38 8 0.05
39 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (37 bp):
GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAG
Found at i:601297 original size:142 final size:142
Alignment explanation
Indices: 601019--601445 Score: 561
Period size: 142 Copynumber: 3.0 Consensus size: 142
601009 CTATTTAGAA
* * * * *
601019 GTTGTGATCTTAAAT-AGCTAAGTCAAATAAACTTAGGTCGCGATCTTAAATCAGCTACCCTTTA
1 GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAGCTAACCTTTA
* * * * * * * *
601083 AAATATCA-ACCGTGAACATAGGTTAGTGAGCTATTTAAGAGTTGTGATCTTAAATCAACTTACT
66 TAATATTAGA-TGTGAACATAGGTTAGCGAGCTGTTTAGGAGTTGCGATCTTAAATCAACTAACT
601147 CAAATAAACTTAG
130 CAAATAAACTTAG
* * * *
601160 GTTGCGATATTAAATCAACTAACTCAAATAAACTTAGGTTGCAATCTTAAATTAGCTAACCTCTA
1 GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAGCTAACCTTTA
* * * * * **
601225 TAACATTAGTTGTGAACATAGGTTAGCAAGTTGTTTAGGAGTTGCGATTTTAAATCAGGTAACTC
66 TAATATTAGATGTGAACATAGGTTAGCGAGCTGTTTAGGAGTTGCGATCTTAAATCAACTAACTC
601290 AAATAAACTTAG
131 AAATAAACTTAG
* * * *
601302 GTTGCGATATTAAATCAGCTAACTCAAATTAACTTAGGTTGTGATCTTAAATCAACTAAGCTTTA
1 GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAGCTAACCTTTA
* *
601367 TAATATTAGATGTGAACATAGGTCAGCGAGCTGTTTAGGAGTTGCGATCTTAAATTAACTAACTC
66 TAATATTAGATGTGAACATAGGTTAGCGAGCTGTTTAGGAGTTGCGATCTTAAATCAACTAACTC
601432 AAATAAACTTAG
131 AAATAAACTTAG
601444 GT
1 GT
601446 ATGAACATTT
Statistics
Matches: 243, Mismatches: 41, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
141 13 0.05
142 230 0.95
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (142 bp):
GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAGCTAACCTTTA
TAATATTAGATGTGAACATAGGTTAGCGAGCTGTTTAGGAGTTGCGATCTTAAATCAACTAACTC
AAATAAACTTAG
Found at i:601512 original size:10 final size:10
Alignment explanation
Indices: 601497--601527 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
601487 ATCTTTCATA
601497 CATTATATTT
1 CATTATATTT
601507 CATTATATTT
1 CATTATATTT
601517 CATTATATTT
1 CATTATATTT
601527 C
1 C
601528 TTCAGATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (10 bp):
CATTATATTT
Found at i:612002 original size:41 final size:41
Alignment explanation
Indices: 611953--612033 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
611943 ATTACGAAGT
611953 TAGTATGAAAAATATATTAAAGATCAATTAAGTAATTAAAC
1 TAGTATGAAAAATATATTAAAGATCAATTAAGTAATTAAAC
**
611994 TAGTATGAAAAATATATTAAAGATCGGTTAAGTAATTAAA
1 TAGTATGAAAAATATATTAAAGATCAATTAAGTAATTAAA
612034 TTGAGAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.32
Consensus pattern (41 bp):
TAGTATGAAAAATATATTAAAGATCAATTAAGTAATTAAAC
Found at i:616900 original size:7 final size:7
Alignment explanation
Indices: 616888--616938 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
616878 TAGTTTACAT
616888 TTTTTTA
1 TTTTTTA
616895 TTTTTTA
1 TTTTTTA
616902 -TTTTTA
1 TTTTTTA
**
616908 TAATTTA
1 TTTTTTA
616915 TTTTTATAA
1 TTTTT-T-A
*
616924 TTTTTAA
1 TTTTTTA
616931 TTTTTTA
1 TTTTTTA
616938 T
1 T
616939 CATTTTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
6 6 0.17
7 22 0.63
8 1 0.03
9 6 0.17
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTTA
Found at i:616916 original size:20 final size:20
Alignment explanation
Indices: 616891--616958 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
616881 TTTACATTTT
616891 TTTATTTTTTATTTTTATAA
1 TTTATTTTTTATTTTTATAA
*
616911 TTTATTTTTATAATTTT-TAA
1 TTTATTTTT-TATTTTTATAA
* *
616931 TTT-TTTATCATTTTTA-AA
1 TTTATTTTTTATTTTTATAA
616949 -TTATTTTTTA
1 TTTATTTTTTA
616959 ATGTAACATA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
17 2 0.05
18 12 0.31
19 4 0.10
20 15 0.38
21 6 0.15
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTATTTTTTATTTTTATAA
Found at i:616934 original size:36 final size:35
Alignment explanation
Indices: 616888--616960 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 35
616878 TAGTTTACAT
* *
616888 TTTTTTATTTTTTAT-TTTTATAATTTATTTTTATAA
1 TTTTTAATTTTTTATATTTT-TAAATTATTTTT-TAA
616924 TTTTTAATTTTTTATCATTTTTAAATTATTTTTTAA
1 TTTTTAATTTTTTAT-ATTTTTAAATTATTTTTTAA
616960 T
1 T
616961 GTAACATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 18 0.55
37 11 0.33
38 4 0.12
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (35 bp):
TTTTTAATTTTTTATATTTTTAAATTATTTTTTAA
Found at i:624549 original size:21 final size:21
Alignment explanation
Indices: 624523--624580 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
624513 CCAGCTTCCA
624523 GCGGGGGTTCTGGTTGCTCCG
1 GCGGGGGTTCTGGTTGCTCCG
* *
624544 GCGGGGATTCTGGTTCCTCCG
1 GCGGGGGTTCTGGTTGCTCCG
** *
624565 GTAGGGGATCTGGTTG
1 GCGGGGGTTCTGGTTG
624581 TCGGTGTTAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.05, C:0.21, G:0.45, T:0.29
Consensus pattern (21 bp):
GCGGGGGTTCTGGTTGCTCCG
Found at i:626149 original size:11 final size:11
Alignment explanation
Indices: 626135--626191 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
626125 TTTTTTAAAT
*
626135 AGGAATTTGAG
1 AGGAAATTGAG
*
626146 AGGAAATTCAG
1 AGGAAATTGAG
626157 AGGAAATTGAG
1 AGGAAATTGAG
626168 A-GAATATT-AG
1 AGGAA-ATTGAG
626178 AGAGAAATTGAG
1 AG-GAAATTGAG
626190 AG
1 AG
626192 AAAGGATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 6 0.15
11 26 0.67
12 7 0.18
ACGTcount: A:0.46, C:0.02, G:0.32, T:0.21
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:626192 original size:22 final size:21
Alignment explanation
Indices: 626135--626194 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 21
626125 TTTTTTAAAT
*
626135 AGGAATTTGAGAGGAAATTCAG
1 AGGAAATTGAGA-GAAATTCAG
626157 AGGAAATTGAGAGAATATT-AG
1 AGGAAATTGAGAGAA-ATTCAG
626178 AGAGAAATTGAGAGAAA
1 AG-GAAATTGAGAGAAA
626195 GGATTAAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
21 8 0.23
22 27 0.77
ACGTcount: A:0.48, C:0.02, G:0.30, T:0.20
Consensus pattern (21 bp):
AGGAAATTGAGAGAAATTCAG
Found at i:627521 original size:29 final size:27
Alignment explanation
Indices: 627472--627530 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
627462 AATCTATCCT
*
627472 TTTTATTTATTTATTTATTATTTAACTAA
1 TTTTATTTATTTAGTTATTATTT--CTAA
*
627501 TTTTATTTATTCTCGTT-TTATTTCTAA
1 TTTTATTTATT-TAGTTATTATTTCTAA
627528 TTT
1 TTT
627531 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTATTTATTTAGTTATTATTTCTAA
Found at i:635248 original size:209 final size:210
Alignment explanation
Indices: 634877--635297 Score: 835
Period size: 209 Copynumber: 2.0 Consensus size: 210
634867 AATATATTAT
634877 ATCTTTATAATTTTTAGAGGATTAAATTAAATTTTTATTATTTTTAAGGGATAAAAGTATAATTT
1 ATCTTTATAATTTTTAGAGGATTAAATTAAATTTTTATTATTTTTAAGGGATAAAAGTATAATTT
634942 TACTATTACTATTGTAAAATTTTATAAACTATACAAAGTAAATTTTTTATTTTAGGGAACAGTAC
66 TACTATTACTATTGTAAAATTTTATAAACTATACAAAGTAAATTTTTTATTTTAGGGAACAGTAC
635007 CCTGCCCCAGATACACCCCTGAACTAATAGGACATGATTGTTGCGCTTAAAAAGAAACCACAGCC
131 CCTGCCCCAGATACACCCCTGAACTAATAGGACATGATTGTTGCGCTTAAAAAGAAACCACAGCC
635072 CAAAAATGAAATAAC
196 CAAAAATGAAATAAC
635087 ATCTTTATAA-TTTTAGAGGATTAAATTAAATTTTTATTATTTTTAAGGGATAAAAGTATAATTT
1 ATCTTTATAATTTTTAGAGGATTAAATTAAATTTTTATTATTTTTAAGGGATAAAAGTATAATTT
635151 TACTATTACTATTGTAAAATTTTATAAACTATACAAAGTAAATTTTTTATTTTAGGGAACAGTAC
66 TACTATTACTATTGTAAAATTTTATAAACTATACAAAGTAAATTTTTTATTTTAGGGAACAGTAC
635216 CCTGCCCCAGATACACCCCTGAACTAATAGGACATGATTGTTGCGCTTAAAAAGAAACCACAGCC
131 CCTGCCCCAGATACACCCCTGAACTAATAGGACATGATTGTTGCGCTTAAAAAGAAACCACAGCC
635281 CAAAAATGAAATAAC
196 CAAAAATGAAATAAC
635296 AT
1 AT
635298 TGTGCGAGAA
Statistics
Matches: 211, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
209 201 0.95
210 10 0.05
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (210 bp):
ATCTTTATAATTTTTAGAGGATTAAATTAAATTTTTATTATTTTTAAGGGATAAAAGTATAATTT
TACTATTACTATTGTAAAATTTTATAAACTATACAAAGTAAATTTTTTATTTTAGGGAACAGTAC
CCTGCCCCAGATACACCCCTGAACTAATAGGACATGATTGTTGCGCTTAAAAAGAAACCACAGCC
CAAAAATGAAATAAC
Found at i:639107 original size:3 final size:3
Alignment explanation
Indices: 639101--639152 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
639091 AATTTATAGC
* *
639101 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAG AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
639148 AAT AA
1 AAT AA
639153 AAATGCATCA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:643503 original size:45 final size:45
Alignment explanation
Indices: 643429--643544 Score: 160
Period size: 45 Copynumber: 2.6 Consensus size: 45
643419 CTACGTGTAG
* * **
643429 CGAGTATCACTGATTATAAAGGTGGTTGCTATGTGTTGATTCCAC
1 CGAGTACCATTGATTATAAAGGTGGTTGCTATGTACTGATTCCAC
*
643474 CGGGTACCATTGATTATAAAGGTGGTTGCTATGTACTGATTCCAC
1 CGAGTACCATTGATTATAAAGGTGGTTGCTATGTACTGATTCCAC
* * *
643519 CGAGTATCATTGCTTATAAGGGTGGT
1 CGAGTACCATTGATTATAAAGGTGGT
643545 GTTGTGTGCT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (45 bp):
CGAGTACCATTGATTATAAAGGTGGTTGCTATGTACTGATTCCAC
Found at i:654958 original size:27 final size:27
Alignment explanation
Indices: 654919--654971 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
654909 AAACTTGACC
654919 CTTAAACCCCAAA-CACAAACCCTAAAT
1 CTTAAACCCCAAATC-CAAACCCTAAAT
* * *
654946 CTTAAATCTCAAATCCAAACCTTAAA
1 CTTAAACCCCAAATCCAAACCCTAAA
654972 CCTCATAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (27 bp):
CTTAAACCCCAAATCCAAACCCTAAAT
Found at i:660831 original size:51 final size:51
Alignment explanation
Indices: 660766--660901 Score: 146
Period size: 51 Copynumber: 2.7 Consensus size: 51
660756 CAATGAGATG
* * * * * *
660766 AGATTCGTTACCTTCAACTTTAATCTGCTCCGCTACAACGCCAGGGAAATA
1 AGATTCGCTGCCTTCAGCTTTAATCTACTCCACTACAACGCCAAGGAAATA
* * *
660817 AGATTCGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAGGAGATA
1 AGATTCGCTGCCTTCAGCTTTAATCTACTCCACTACAACGCCAAGGAAATA
* * ** *
660868 GGATTTGCTGTATTCAGCTTTAATCCACTCCACT
1 AGATTCGCTGCCTTCAGCTTTAATCTACTCCACT
660902 TCAGCTTTAA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.30
Consensus pattern (51 bp):
AGATTCGCTGCCTTCAGCTTTAATCTACTCCACTACAACGCCAAGGAAATA
Found at i:660906 original size:21 final size:21
Alignment explanation
Indices: 660880--660922 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
660870 ATTTGCTGTA
660880 TTCAGCTTTAATCCACTCCAC
1 TTCAGCTTTAATCCACTCCAC
*
660901 TTCAGCTTTAATCCATTCCAC
1 TTCAGCTTTAATCCACTCCAC
660922 T
1 T
660923 GCAATGCCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.35, G:0.05, T:0.37
Consensus pattern (21 bp):
TTCAGCTTTAATCCACTCCAC
Found at i:661103 original size:45 final size:45
Alignment explanation
Indices: 661047--661143 Score: 122
Period size: 45 Copynumber: 2.2 Consensus size: 45
661037 GTCTTCTTTA
* * * * *
661047 ATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCCTCG
1 ATCTACTTCGCTGCCAATACAAGAAGACAAGATCTACTATCCTCG
* * *
661092 ATCTACTTCGCTGCCAATACAGGAAGATAAGATCTACTATCTTCG
1 ATCTACTTCGCTGCCAATACAAGAAGACAAGATCTACTATCCTCG
661137 ATCTACT
1 ATCTACT
661144 CCACTGCTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (45 bp):
ATCTACTTCGCTGCCAATACAAGAAGACAAGATCTACTATCCTCG
Found at i:661289 original size:129 final size:129
Alignment explanation
Indices: 661122--661468 Score: 561
Period size: 129 Copynumber: 2.7 Consensus size: 129
661112 AGGAAGATAA
* * * *
661122 GATCTAC-TATCTTCGATCTACTCCACTGCTACTCAGGGAGATAGGACTAGTGGCTTAAATCTGC
1 GATCTACAT-TCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGC
*
661186 TTCCCTACTACCTTGGAAAGATAAGGTTCGCCTTTGATCTGCTCCACTACTGCTTAGGGAGACGG
65 TTCCCTACTACCTTGGAAAGATAAGGTTCGCCTTTGATCTGCTCCACTACTGCTTAGGGAGACAG
*
661251 GATCTACATTCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCT
1 GATCTACATTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCT
661316 TCCCTACTACCTTGGAAAGATAAGGTTCGCCTTTGATCTGCTCCACTACTGCTTAGGGAGACAG
66 TCCCTACTACCTTGGAAAGATAAGGTTCGCCTTTGATCTGCTCCACTACTGCTTAGGGAGACAG
* * * *
661380 GATCTACAATCTTCAACCTAATCCACTGTTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGTT
1 GATCTACATTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCT
* * *
661445 TCCCTACTTCTTTGGGAAGATAAG
66 TCCCTACTACCTTGGAAAGATAAG
661469 ATTCACCGCC
Statistics
Matches: 203, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
129 202 1.00
130 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (129 bp):
GATCTACATTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCT
TCCCTACTACCTTGGAAAGATAAGGTTCGCCTTTGATCTGCTCCACTACTGCTTAGGGAGACAG
Found at i:662382 original size:7 final size:7
Alignment explanation
Indices: 662370--662408 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
662360 GGATGTATAT
662370 AAAAATA
1 AAAAATA
662377 AAAAATA
1 AAAAATA
662384 AAAAATA
1 AAAAATA
662391 AAAAATA
1 AAAAATA
662398 AAAAATA
1 AAAAATA
662405 AAAA
1 AAAA
662409 GGGAACTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAATA
Found at i:662509 original size:18 final size:18
Alignment explanation
Indices: 662486--662520 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
662476 TTCTAGGGAC
662486 AACAAGTTCAATATAAAA
1 AACAAGTTCAATATAAAA
*
662504 AACAAGTTCAATTTAAA
1 AACAAGTTCAATATAAA
662521 TAGTATGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (18 bp):
AACAAGTTCAATATAAAA
Found at i:664640 original size:30 final size:28
Alignment explanation
Indices: 664605--664730 Score: 103
Period size: 30 Copynumber: 4.2 Consensus size: 28
664595 CAAAAAATAA
* *
664605 AAAATTGCATTTTGA-CCCATAAATTTTCCT
1 AAAATTACATTTTAAGCCC-TAAATTTT--T
*
664635 AAAATTATATTTTAAGCCCTAAACTGTTTT
1 AAAATTACATTTTAAGCCCTAAA-T-TTTT
* * *
664665 GAAATTACATTTTGA-CCCATCAACTTTTT
1 AAAATTACATTTTAAGCCC-T-AAATTTTT
664694 AAAATTACATTTTAAGCCCTAAATTTTCTT
1 AAAATTACATTTTAAGCCCTAAA-TTT-TT
664724 AAAATTA
1 AAAATTA
664731 TGTTTTGACC
Statistics
Matches: 78, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
28 2 0.03
29 24 0.31
30 43 0.55
31 6 0.08
32 3 0.04
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.41
Consensus pattern (28 bp):
AAAATTACATTTTAAGCCCTAAATTTTT
Found at i:664729 original size:59 final size:59
Alignment explanation
Indices: 664605--664751 Score: 172
Period size: 59 Copynumber: 2.5 Consensus size: 59
664595 CAAAAAATAA
* *
664605 AAAATTGCATTTTGACCCATAAATTTTCCTAAAATTATATTTTAAGCCCTAAACTGTTTT
1 AAAATTACATTTTGACCCATAAATTTT-CTAAAATTACATTTTAAGCCCTAAACTGTTTT
* * *
664665 GAAATTACATTTTGACCCATCAACTTTT-TAAAATTACATTTTAAGCCCTAAA-TTTTCTT
1 AAAATTACATTTTGACCCAT-AAATTTTCTAAAATTACATTTTAAGCCCTAAACTGTT-TT
** *
664724 AAAATTATGTTTTGACCCTATAAGTTTT
1 AAAATTACATTTTGACCC-ATAAATTTT
664752 GCTACATTTG
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
58 3 0.04
59 46 0.61
60 20 0.27
61 6 0.08
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (59 bp):
AAAATTACATTTTGACCCATAAATTTTCTAAAATTACATTTTAAGCCCTAAACTGTTTT
Found at i:665233 original size:18 final size:19
Alignment explanation
Indices: 665198--665233 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
665188 GCCCAATCAA
*
665198 AAAAAAAAGAAATTAAGCC
1 AAAAAAAAGAAATAAAGCC
665217 AAAAAAAAGAAA-AAAGC
1 AAAAAAAAGAAATAAAGC
665234 AACACAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.75, C:0.08, G:0.11, T:0.06
Consensus pattern (19 bp):
AAAAAAAAGAAATAAAGCC
Found at i:665463 original size:13 final size:13
Alignment explanation
Indices: 665431--665467 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
665421 CAGTCCAAAA
665431 AAAGAAAAAAGAG
1 AAAGAAAAAAGAG
665444 AAA-AAAAAAG-G
1 AAAGAAAAAAGAG
665455 AAAGGAAAAAAGA
1 AAA-GAAAAAAGA
665468 AAAAAAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.19
12 7 0.33
13 10 0.48
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAGAG
Found at i:677871 original size:14 final size:15
Alignment explanation
Indices: 677852--677891 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
677842 TTTCTTTACA
677852 CTAAATCCTA-AATC
1 CTAAATCCTAGAATC
677866 CTAAAT-CTAGAATC
1 CTAAATCCTAGAATC
*
677880 CCAAAT-CTAGAA
1 CTAAATCCTAGAA
677892 CCCCAAACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 3 0.12
14 21 0.88
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (15 bp):
CTAAATCCTAGAATC
Found at i:677896 original size:14 final size:14
Alignment explanation
Indices: 677868--677898 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
677858 CCTAAATCCT
*
677868 AAATCTAGAATCCC
1 AAATCTAGAACCCC
677882 AAATCTAGAACCCC
1 AAATCTAGAACCCC
677896 AAA
1 AAA
677899 CCCAAAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.29, G:0.06, T:0.16
Consensus pattern (14 bp):
AAATCTAGAACCCC
Found at i:678031 original size:20 final size:20
Alignment explanation
Indices: 678019--678072 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
678009 AACCTCGAAC
678019 CCCGAACC-CGAACCCCAAA
1 CCCGAACCTCGAACCCCAAA
* * *
678038 CCCAAAACTCGAACACCAAA
1 CCCGAACCTCGAACCCCAAA
678058 CCCGTAACCTCGAAC
1 CCCG-AACCTCGAAC
678073 TCTTGAATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 6 0.21
20 13 0.46
21 9 0.32
ACGTcount: A:0.39, C:0.46, G:0.09, T:0.06
Consensus pattern (20 bp):
CCCGAACCTCGAACCCCAAA
Found at i:678138 original size:138 final size:139
Alignment explanation
Indices: 677889--678165 Score: 466
Period size: 138 Copynumber: 2.0 Consensus size: 139
677879 CCCAAATCTA
677889 GAACCCCAAACCCAAAACTCGAACAACAAACCCGTAACCTCAAACTCTTTGAACCATAAATCAAA
1 GAACCCCAAACCCAAAACTCGAACAACAAACCCGTAACCTCAAACTCTTTGAACCATAAATCAAA
* * * *
677954 ATCCTAACCCCCAAACTTATAACACATAACCCCAAACCATTGAACCTTAAGCTTGAACCTCGAAC
66 ACCCTAAACCCCAAACTTATAACACATAACCCCAAACCATTGAACCTTAAACTTGAACCTCAAAC
678019 CCCGAACCC
131 CCCGAACCC
* * *
678028 GAACCCCAAACCCAAAACTCGAACACCAAACCCGTAACCTCGAACTC-TTGAATCATAAATCAAA
1 GAACCCCAAACCCAAAACTCGAACAACAAACCCGTAACCTCAAACTCTTTGAACCATAAATCAAA
* *
678092 ACCCTAAACCCCAAACTTATAACACATAACCCCAAACTATTGAACCTTAAACTTGAACTTCAAAC
66 ACCCTAAACCCCAAACTTATAACACATAACCCCAAACCATTGAACCTTAAACTTGAACCTCAAAC
678157 CCCGAACCC
131 CCCGAACCC
678166 CAAACCCTTG
Statistics
Matches: 129, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
138 84 0.65
139 45 0.35
ACGTcount: A:0.42, C:0.36, G:0.06, T:0.16
Consensus pattern (139 bp):
GAACCCCAAACCCAAAACTCGAACAACAAACCCGTAACCTCAAACTCTTTGAACCATAAATCAAA
ACCCTAAACCCCAAACTTATAACACATAACCCCAAACCATTGAACCTTAAACTTGAACCTCAAAC
CCCGAACCC
Found at i:678222 original size:14 final size:13
Alignment explanation
Indices: 678188--678238 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
678178 TCCTAATCTT
678188 AAACATTGAACCCC
1 AAAC-TTGAACCCC
*
678202 AAACTTGAACCTC
1 AAACTTGAACCCC
678215 AAATCTTGAACCCC
1 AAA-CTTGAACCCC
* *
678229 GAACCTGAAC
1 AAACTTGAAC
678239 ATTGAACCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 17 0.53
14 15 0.47
ACGTcount: A:0.39, C:0.33, G:0.10, T:0.18
Consensus pattern (13 bp):
AAACTTGAACCCC
Found at i:681301 original size:5 final size:5
Alignment explanation
Indices: 681286--681327 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
681276 NNNNNNATTT
* *
681286 TAATA -AATA TAATA TAATA TAATA TAATA TAACA TAACA TAA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAA
681328 GTATTAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (5 bp):
TAATA
Found at i:686120 original size:18 final size:19
Alignment explanation
Indices: 686090--686126 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
686080 CATGAGCATA
686090 TGTATCATAACA-TTCATT
1 TGTATCATAACATTTCATT
686108 TGTATACAT-ACATTTCATT
1 TGTAT-CATAACATTTCATT
686127 CAATGTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.46
Consensus pattern (19 bp):
TGTATCATAACATTTCATT
Done.