Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 165 of 226
Found at i:50965251 original size:16 final size:16
Alignment explanation
Indices: 50965230--50965349 Score: 78
Period size: 16 Copynumber: 7.9 Consensus size: 16
50965220 ATAATTAAGC
50965230 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
50965246 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
*
50965262 TATG-AA---A---AC
1 TATGTAAGTTATGTAT
*
50965271 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
50965287 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
*
50965301 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
50965319 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
50965335 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
50965350 AGTTATTTAT
Statistics
Matches: 76, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
9 5 0.07
10 2 0.03
12 1 0.01
14 10 0.13
15 2 0.03
16 44 0.58
17 1 0.01
18 11 0.14
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.45
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:50965274 original size:25 final size:25
Alignment explanation
Indices: 50965244--50965380 Score: 118
Period size: 25 Copynumber: 5.6 Consensus size: 25
50965234 TAAGTTATGT
50965244 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* * *
50965269 ACTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* * *
50965294 ATTATGCTATGTAAGTTA-TAT--AA
1 ATTATG-TAAGTTATTTATTATGAAA
* * * * *
50965317 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
50965342 GTTATGTAAGTTATTTATTATGCAA
1 ATTATGTAAGTTATTTATTATGAAA
*
50965367 ATTAAGTAAGTTAT
1 ATTATGTAAGTTAT
50965381 GTAAGTTATG
Statistics
Matches: 86, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
22 7 0.08
23 8 0.09
25 65 0.76
26 6 0.07
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATTTATTATGAAA
Found at i:50965424 original size:43 final size:43
Alignment explanation
Indices: 50965323--50965449 Score: 109
Period size: 43 Copynumber: 2.9 Consensus size: 43
50965313 ATAAGTCATA
* * *
50965323 TAAGTTATGT-ATTATGTAAGTTATGTA-AGTTATTTATTATGC
1 TAAGTTATGTAATTATGTAAGTTATGTATA-ATATTAATTATAC
* *
50965365 -AAATTAAGTAAGTTATGTAAGTTATGTATAATATTAATTA-AC
1 TAAGTTATGTAA-TTATGTAAGTTATGTATAATATTAATTATAC
*
50965407 TAAGTTATGTAATTTATGTATAATATTTATGTATAATATTAAT
1 TAAGTTATGTAA-TTATG--T-A-AGTTATGTATAATATTAAT
50965450 GTAAGTTATG
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
41 7 0.10
42 2 0.03
43 38 0.56
44 1 0.01
45 1 0.01
46 1 0.01
47 18 0.26
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.47
Consensus pattern (43 bp):
TAAGTTATGTAATTATGTAAGTTATGTATAATATTAATTATAC
Found at i:50965436 original size:13 final size:13
Alignment explanation
Indices: 50965418--50965452 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
50965408 AAGTTATGTA
50965418 ATTTATGTATAAT
1 ATTTATGTATAAT
50965431 ATTTATGTATAAT
1 ATTTATGTATAAT
*
50965444 ATTAATGTA
1 ATTTATGTA
50965453 AGTTATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
ATTTATGTATAAT
Found at i:50965501 original size:34 final size:33
Alignment explanation
Indices: 50965339--50965501 Score: 184
Period size: 34 Copynumber: 4.8 Consensus size: 33
50965329 ATGTATTATG
* * ***
50965339 TAAGTTATGTAAGTTATTTATTATGCAAATTAA
1 TAAGTTATGTAAGTTATGTATAATATTAATTAA
50965372 GTAAGTTATGTAAGTTATGTATAATATTAATTAA
1 -TAAGTTATGTAAGTTATGTATAATATTAATTAA
* *
50965406 CTAAGTTATGTAATTTATGTATAATATTTATGT-A
1 -TAAGTTATGTAAGTTATGTATAATATTAAT-TAA
*
50965440 TAATATTAATGTAAGTTATGTATAATATTAATTAA
1 TAA-GTT-ATGTAAGTTATGTATAATATTAATTAA
*
50965475 TTAAGTTATGTAATTTATGTATAATAT
1 -TAAGTTATGTAAGTTATGTATAATAT
50965502 CACATCACTC
Statistics
Matches: 111, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
33 3 0.03
34 79 0.71
35 26 0.23
36 3 0.03
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (33 bp):
TAAGTTATGTAAGTTATGTATAATATTAATTAA
Found at i:50965584 original size:13 final size:15
Alignment explanation
Indices: 50965565--50965605 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
50965555 CATATAAGTT
50965565 TATGTAAGTTATG-A
1 TATGTAAGTTATGTA
50965579 -ATGTAAGTTATGTA
1 TATGTAAGTTATGTA
50965593 TTATGTAAGTTAT
1 -TATGTAAGTTAT
50965606 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (15 bp):
TATGTAAGTTATGTA
Found at i:50965600 original size:16 final size:16
Alignment explanation
Indices: 50965564--50965642 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
50965554 ACATATAAGT
50965564 TTATGTAAGTTATG-A
1 TTATGTAAGTTATGTA
50965579 --ATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
50965593 TTATGTAAGTTATTTAAA
1 TTATGTAAGTTATGT--A
* *
50965611 TTATTTAAGTTGTGTA
1 TTATGTAAGTTATGTA
* *
50965627 TTATATAAGTCATGTA
1 TTATGTAAGTTATGTA
50965643 GGCTATGTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
13 12 0.23
14 1 0.02
16 26 0.50
18 13 0.25
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:50968171 original size:27 final size:27
Alignment explanation
Indices: 50968139--50968190 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
50968129 TCTTACTTTT
* *
50968139 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
50968166 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
50968191 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:50968281 original size:8 final size:10
Alignment explanation
Indices: 50968258--50968294 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
50968248 TAATAACTAT
50968258 ATATATATCC
1 ATATATATCC
*
50968268 ATATATATTC
1 ATATATATCC
50968278 ATATATATCC
1 ATATATATCC
50968288 ATATATA
1 ATATATA
50968295 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:50970743 original size:81 final size:82
Alignment explanation
Indices: 50970615--50970852 Score: 300
Period size: 81 Copynumber: 2.9 Consensus size: 82
50970605 CTAAAGGTAG
* * * *
50970615 CATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGTCAGAGTATTAGTGGCGCTCAGATAAAAA
1 CATTAGCGGCGCTTAGACA-AAAACGCCGCTAAAGGACAGAGAATTAGTGGCGCTCAGATAAAAA
50970680 CGCCACTAAAAACACGAA
65 CGCCACTAAAAACACGAA
* * * * *
50970698 CTTTAGCGGCGCTTAGA-AAAAACGCCGCTAAAGAACGGAGAATTAGTGGCGCTCAGACAATAAC
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGACAGAGAATTAGTGGCGCTCAGATAAAAAC
** * *
50970762 GCCACTAATGATACGAG
66 GCCACTAAAAACACGAA
*
50970779 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGA-ACATTAGTGGCGCTCAGATAAAAA
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGACAGAGA-ATTAGTGGCGCTCAGATAAAAA
* *
50970843 CACCGCTAAA
65 CGCCACTAAA
50970853 GATCGGAGAA
Statistics
Matches: 132, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
81 70 0.53
82 47 0.36
83 15 0.11
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (82 bp):
CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGACAGAGAATTAGTGGCGCTCAGATAAAAAC
GCCACTAAAAACACGAA
Found at i:50970835 original size:82 final size:81
Alignment explanation
Indices: 50970613--50970895 Score: 320
Period size: 82 Copynumber: 3.5 Consensus size: 81
50970603 CGCTAAAGGT
* * *
50970613 AGCATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGTCAGAGTATTAGTGGCGCTCAGATAAA
1 AGCATTAGCGGCGCTTAGATA-AAAACGCCGCTAAAGGACAGA-AATTAGTGGCGCTCAGATAAA
* *
50970678 AACGCCACTAAAAACACG
64 AACGCCACTAAAGATACG
* * * * * *
50970696 AACTTTAGCGGCGCTTAGA-AAAAACGCCGCTAAAGAACGGAGAATTAGTGGCGCTCAGACAATA
1 AGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGACAGA-AATTAGTGGCGCTCAGATAAAA
*
50970760 ACGCCACTAATGATACG
65 ACGCCACTAAAGATACG
* *
50970777 AGCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGAACATTAGTGGCGCTCAGATAAAA
1 AGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGACAGAA-ATTAGTGGCGCTCAGATAAAA
* *
50970842 ACACCGCTAAAGAT-CGG
65 ACGCCACTAAAGATAC-G
* * *
50970859 AGAATTAGTGGCGC-TAAAGTAAAAACGCCGCTAAAGG
1 AGCATTAGCGGCGCTTAGA-TAAAAACGCCGCTAAAGG
50970896 TTTAAAAATC
Statistics
Matches: 170, Mismatches: 26, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
81 74 0.44
82 80 0.47
83 16 0.09
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (81 bp):
AGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGACAGAAATTAGTGGCGCTCAGATAAAAA
CGCCACTAAAGATACG
Found at i:50970853 original size:41 final size:41
Alignment explanation
Indices: 50970578--50970895 Score: 226
Period size: 41 Copynumber: 7.8 Consensus size: 41
50970568 TTTTGTTACT
* *
50970578 ATTAGCGGCGCTTCGGA-AAAAACGCCGCTAAAGG-TAG--C
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGGACAGAAC
* * * **
50970616 ATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGTCAGAGT
1 ATTAGCGGCGCTCAGATA-AAAACGCCGCTAAAGGACAGAAC
* * *
50970658 ATTAGTGGCGCTCAGATAAAAACGCCACTAAA-AACACGAAC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACA-GAAC
* * * *
50970699 TTTAGCGGCGCTTAGA-AAAAACGCCGCTAAAGAACGGAGA-
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACAGA-AC
* * * * * * *
50970739 ATTAGTGGCGCTCAGACAATAACGCCACT-AATGATACGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACA-GAAC
* * *
50970780 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGAAC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACAGAAC
* * *
50970821 ATTAGTGGCGCTCAGATAAAAACACCGCTAAA-GATCGGAGA-
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGA-CAGA-AC
* *
50970862 ATTAGTGGCGCT-AAAGTAAAAACGCCGCTAAAGG
1 ATTAGCGGCGCTCAGA-TAAAAACGCCGCTAAAGG
50970896 TTTAAAAATC
Statistics
Matches: 220, Mismatches: 44, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
37 2 0.01
38 12 0.05
39 16 0.07
40 39 0.18
41 130 0.59
42 21 0.10
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (41 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGACAGAAC
Found at i:50976082 original size:23 final size:26
Alignment explanation
Indices: 50976020--50976081 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
50976010 AATAAAAAAA
50976020 ATTAAAATATTATAATTTTTTTATTT
1 ATTAAAATATTATAATTTTTTTATTT
50976046 ATTAAAATATTATAATTTTTTTATTT
1 ATTAAAATATTATAATTTTTTTATTT
*
50976072 ATCAAAATAT
1 ATTAAAATAT
50976082 ACCAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTAAAATATTATAATTTTTTTATTT
Found at i:50976156 original size:27 final size:27
Alignment explanation
Indices: 50976125--50976183 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
50976115 CACCCTGGTC
*
50976125 GTGCCAAGGTGATTGGCGGCACCAAAG
1 GTGCCAAAGTGATTGGCGGCACCAAAG
*
50976152 TTGCCAAAGTGATTGGCGGCACCAAAG
1 GTGCCAAAGTGATTGGCGGCACCAAAG
50976179 GTGCC
1 GTGCC
50976184 TTTTTGGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.24, G:0.34, T:0.17
Consensus pattern (27 bp):
GTGCCAAAGTGATTGGCGGCACCAAAG
Found at i:50976507 original size:19 final size:18
Alignment explanation
Indices: 50976465--50976507 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
50976455 ATTATTATTG
50976465 TTAGT-ATTAAGATGTTA
1 TTAGTAATTAAGATGTTA
50976482 TTAAGTAATTAAGATGTTA
1 TT-AGTAATTAAGATGTTA
50976501 CTTAGTA
1 -TTAGTA
50976508 GTATTATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.09
18 3 0.13
19 16 0.70
20 2 0.09
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.44
Consensus pattern (18 bp):
TTAGTAATTAAGATGTTA
Found at i:50977348 original size:17 final size:18
Alignment explanation
Indices: 50977319--50977357 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
50977309 GATATGGTTA
50977319 GTGGTGAAAAAGAAGGTG
1 GTGGTGAAAAAGAAGGTG
50977337 GTGGTG-AAAAGAAGGTG
1 GTGGTGAAAAAGAAGGTG
50977354 GTGG
1 GTGG
50977358 CGATCATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.49, T:0.18
Consensus pattern (18 bp):
GTGGTGAAAAAGAAGGTG
Found at i:50982440 original size:29 final size:28
Alignment explanation
Indices: 50982396--50982534 Score: 75
Period size: 28 Copynumber: 5.1 Consensus size: 28
50982386 TAAAATTTAC
50982396 CTTTTTTTCTTCCTTC-CCTCTT-CTTCTT
1 CTTTTTTTCTTCCTTCTCCT-TTCCTT-TT
*
50982424 CTTTTTTTTTTCTCTTCTCCTTTCCTTTT
1 CTTTTTTTCTTC-CTTCTCCTTTCCTTTT
**
50982453 CTTTCCTTCTT--TT-T-CTTT-CTTTT
1 CTTTTTTTCTTCCTTCTCCTTTCCTTTT
* * * *
50982476 -TTCTTCTCCTTTCC-TCTTC-TTCTTCTTT
1 CTT-TTTTTC-TTCCTTCTCCTTTCCT-TTT
*
50982504 CTTTTTTT-TCCCTTCTCCTTTCCTTTT
1 CTTTTTTTCTTCCTTCTCCTTTCCTTTT
50982531 CTTT
1 CTTT
50982535 CCTTCTTTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 29
0.67 0.10 0.23
Matches are distributed among these distances:
22 2 0.02
23 9 0.11
24 6 0.07
25 2 0.02
26 8 0.09
27 13 0.15
28 21 0.25
29 18 0.21
30 6 0.07
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTTTTTCTTCCTTCTCCTTTCCTTTT
Found at i:50982471 original size:4 final size:4
Alignment explanation
Indices: 50982450--50982595 Score: 87
Period size: 4 Copynumber: 37.0 Consensus size: 4
50982440 CTCCTTTCCT
*
50982450 TTTC TTTC CTTC -TT- TTTC TTTC TTT- TTTC TTCTCC TTTCC TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C T-TTC
* * * *
50982495 -TTC -TTC TTTC TTT- TTT- TTCC CTTC -TCC TTTCC TTTTC TTTC CTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT-C -TTTC TTTC TTTC
* *
50982540 -TT- TTTC TTTC TTTCC TCTCC TTCC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
50982588 TTTC TTTC
1 TTTC TTTC
50982596 CCTCTCCTTC
Statistics
Matches: 118, Mismatches: 9, Indels: 30
0.75 0.06 0.19
Matches are distributed among these distances:
3 24 0.20
4 73 0.62
5 12 0.10
6 9 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTC
Found at i:50982537 original size:78 final size:79
Alignment explanation
Indices: 50982397--50982604 Score: 277
Period size: 78 Copynumber: 2.7 Consensus size: 79
50982387 AAAATTTACC
* *
50982397 TTTTT-TTCTTCCTTCCCTCTTCTTCTTC-TT-TTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCC
1 TTTTTCTTCTTCCTTTCCTCTTCTTCTTCTTTCTTTTTTTTCCCTTCTCCTTTCCTTTTCTTTCC
50982459 TTCTTTTTCTTTCT
66 TTCTTTTTCTTTCT
50982473 TTTTTCTTC-TCCTTTCCTCTTCTTCTTCTTTCTTTTTTTTCCCTTCTCCTTTCCTTTTCTTTCC
1 TTTTTCTTCTTCCTTTCCTCTTCTTCTTCTTTCTTTTTTTTCCCTTCTCCTTTCCTTTTCTTTCC
50982537 TTCTTTTTCTTTCT
66 TTCTTTTTCTTTCT
** *
50982551 TTCCTCTCCTTCCTTT-CT-TTCTTTCTTTCTTTCTTTCTTTCTTTCCC-TCTCCTT
1 TTTTTCTTCTTCCTTTCCTCTTC-TTC-TTCTTTC-TT-TTT-TTTCCCTTCTCCTT
50982605 CTCCCCCCAA
Statistics
Matches: 118, Mismatches: 5, Indels: 13
0.87 0.04 0.10
Matches are distributed among these distances:
76 23 0.19
77 8 0.07
78 56 0.47
79 13 0.11
80 2 0.02
81 10 0.08
82 6 0.05
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (79 bp):
TTTTTCTTCTTCCTTTCCTCTTCTTCTTCTTTCTTTTTTTTCCCTTCTCCTTTCCTTTTCTTTCC
TTCTTTTTCTTTCT
Found at i:50982677 original size:27 final size:27
Alignment explanation
Indices: 50982639--50982690 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
50982629 TATTATAACA
**
50982639 TTGGTGCCGCCAATGTCTTTGGCACCT
1 TTGGTGCCGCCAATCACTTTGGCACCT
50982666 TTGGTGCCGCCAATCACTTTGGCAC
1 TTGGTGCCGCCAATCACTTTGGCAC
50982691 AACCAGTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.13, C:0.31, G:0.25, T:0.31
Consensus pattern (27 bp):
TTGGTGCCGCCAATCACTTTGGCACCT
Found at i:50982786 original size:26 final size:27
Alignment explanation
Indices: 50982754--50982813 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 27
50982744 TGTTTTTGGT
50982754 ATATTTTGGTAAATAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
* *
50982780 TTATTTTGGTAATTAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
50982807 ATATTTT
1 ATATTTT
50982814 AATTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:50986438 original size:161 final size:160
Alignment explanation
Indices: 50986206--50986525 Score: 496
Period size: 161 Copynumber: 2.0 Consensus size: 160
50986196 GGGTGGTCAA
** *
50986206 AATGAAAGTGTAATTATAATGTGGAGTGTATAATTAACCTTCGTTAGAGATATAATAGTTGAATG
1 AATGAAAGTGTAAAAATAATGTGGAGTGTACAATTAACCTTCGTTAGAGATATAATAGTTGAATG
* ** * *
50986271 ATTAAAATGAAAGCGCCTTAAAAGTTGGGTGACGAAATTACAAGAATTTTATTTTGAGTGGCCAA
66 ATTAAAATGAAAGCACAGTAAAAGTTGGGTGACGAAATTACAAGAATTTGATTTTGAGTGACCAA
50986336 AATGAAAGTACACTAAAAGTGATGTGACCAC
131 AATGAAAGTACACTAAAAGTGAT-TGACCAC
* * * *
50986367 AATGAAAGTGTAAAAATGATGTGGAGTGTACAGTTAACTTTTGTTAGAGATATAATAGTTGAATG
1 AATGAAAGTGTAAAAATAATGTGGAGTGTACAATTAACCTTCGTTAGAGATATAATAGTTGAATG
* *
50986432 ATTAAAATGAAAGCATAGTAAAAGTTGGGTGACGAAATTGCAAGAATTTGATTTTGAGTGACCAA
66 ATTAAAATGAAAGCACAGTAAAAGTTGGGTGACGAAATTACAAGAATTTGATTTTGAGTGACCAA
*
50986497 AATGAAAGTGCACTAAAAGTGATTGACCA
131 AATGAAAGTACACTAAAAGTGATTGACCA
50986526 GATGGGTAGT
Statistics
Matches: 144, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
160 6 0.04
161 138 0.96
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (160 bp):
AATGAAAGTGTAAAAATAATGTGGAGTGTACAATTAACCTTCGTTAGAGATATAATAGTTGAATG
ATTAAAATGAAAGCACAGTAAAAGTTGGGTGACGAAATTACAAGAATTTGATTTTGAGTGACCAA
AATGAAAGTACACTAAAAGTGATTGACCAC
Found at i:51001951 original size:13 final size:13
Alignment explanation
Indices: 51001935--51001960 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51001925 TTTTTTAACA
51001935 TTATTTAATTTTT
1 TTATTTAATTTTT
51001948 TTATTTAATTTTT
1 TTATTTAATTTTT
51001961 ATAACTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTAATTTTT
Found at i:51002624 original size:54 final size:55
Alignment explanation
Indices: 51002566--51002684 Score: 204
Period size: 57 Copynumber: 2.1 Consensus size: 55
51002556 AAACGGCCCA
51002566 CTTCCATAAATAATTTCAGAAATGA-ACCTTTATTGATACTAAACCCTATTTAAG
1 CTTCCATAAATAATTTCAGAAATGACACCTTTATTGATACTAAACCCTATTTAAG
*
51002620 CTTCCATAAATAATTTCAGAAATGAGCCTCCTTTATTGATACTAAACCCTATTTAAG
1 CTTCCATAAATAATTTCAGAAATGA--CACCTTTATTGATACTAAACCCTATTTAAG
51002677 CTTCCATA
1 CTTCCATA
51002685 CATGTAATTC
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
54 25 0.41
57 36 0.59
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (55 bp):
CTTCCATAAATAATTTCAGAAATGACACCTTTATTGATACTAAACCCTATTTAAG
Found at i:51006885 original size:16 final size:16
Alignment explanation
Indices: 51006861--51006898 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
51006851 ATAACTATAC
* *
51006861 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
51006877 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
51006893 TGTAAT
1 TGTAAT
51006899 AGTAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:51006933 original size:45 final size:44
Alignment explanation
Indices: 51006877--51006974 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
51006867 GGATTAGAGG
* *
51006877 TGTAATGGAATAGAGGTGTAATAGTAAATCAAT-TGTTTGATTGAA
1 TGTAATAGAATAGAGGCGTAATAGT-AATC-ATGTGTTTGATTGAA
* *
51006922 TGTAATAGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAGTAATCATGTGTTTGATTGAA
*
51006966 TCTAATAGA
1 TGTAATAGA
51006975 GGTGTAATAG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 23 0.49
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (44 bp):
TGTAATAGAATAGAGGCGTAATAGTAATCATGTGTTTGATTGAA
Found at i:51007153 original size:18 final size:17
Alignment explanation
Indices: 51007132--51007166 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51007122 TTATTATTAA
*
51007132 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
51007150 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
51007167 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:51007220 original size:157 final size:157
Alignment explanation
Indices: 51007019--51007335 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
51007009 TAGAATACCC
*
51007019 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
51007084 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
51007149 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
51007176 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
51007241 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
51007306 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
51007333 TTA
1 TTA
51007336 ATATTCTTAT
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:51007306 original size:16 final size:16
Alignment explanation
Indices: 51007269--51007310 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
51007259 TTAATCATAT
*
51007269 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
51007285 TT-AAATATATTATAA
1 TTAAAATATATTATAA
51007300 TTAAAATATAT
1 TTAAAATATAT
51007311 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:51007317 original size:14 final size:15
Alignment explanation
Indices: 51007278--51007319 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
51007268 TTTAAACATA
*
51007278 ATTATTATTAAATAT
1 ATTATAATTAAATAT
51007293 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
51007307 A-TATAATTTAATA
1 ATTATAATTAAATA
51007320 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:51007407 original size:120 final size:121
Alignment explanation
Indices: 51007267--51007564 Score: 503
Period size: 120 Copynumber: 2.5 Consensus size: 121
51007257 ATTTAATCAT
*
51007267 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
51007332 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
51007389 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
51007452 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* * * *
51007508 ATTTGAA-ATAATTAATATTAAATATATTTTAACTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
51007565 TAAAATAATT
Statistics
Matches: 168, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
119 3 0.02
120 160 0.95
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:51007437 original size:14 final size:15
Alignment explanation
Indices: 51007388--51007439 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
51007378 GTAAAATATA
51007388 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
51007403 TATTAAATATATTAT
1 AATTAAATATATTAT
51007418 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
51007431 AATTTAATA
1 AATTAAATA
51007440 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:51007650 original size:15 final size:15
Alignment explanation
Indices: 51007605--51007658 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
51007595 TATGAATTTG
51007605 TATAATTTAA-AATA
1 TATAATTTAATAATA
* *
51007619 -ATAA-TT-ATTACA
1 TATAATTTAATAATA
51007631 TATAATTTAATAATA
1 TATAATTTAATAATA
*
51007646 TATAATTTCATAA
1 TATAATTTAATAA
51007659 AATTCTTGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
11 1 0.03
12 4 0.13
13 8 0.26
14 2 0.06
15 16 0.52
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAATTTAATAATA
Found at i:51007721 original size:87 final size:88
Alignment explanation
Indices: 51007580--51007781 Score: 273
Period size: 87 Copynumber: 2.3 Consensus size: 88
51007570 TAATTATAAC
* * * * * *
51007580 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAATAATTATTACATATAATTTAATA-A
1 TAATAAATTTTCTTATATGAA-TTATACAATTTAAAATAATAATTATTAAATATAATTTAATAGA
*
51007644 TATATAATTTCATAAAATTCTTGA
65 TATATAATTTCATAAAATTCTTAA
51007668 TAATAAATTTTCTTATATGAATTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAGT
1 TAATAAATTTTCTTATATGAATTATACAATTTAAAATAA-TAATTATTAAATATAATTTAATA--
51007732 GATATATAATTTCATAAAATTCTTAA
63 GATATATAATTTCATAAAATTCTTAA
*
51007758 TAATAAAATGTTCTTATATGAATT
1 TAAT-AAATTTTCTTATATGAATT
51007782 TACTAAAATC
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
87 34 0.34
88 21 0.21
90 28 0.28
91 18 0.18
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (88 bp):
TAATAAATTTTCTTATATGAATTATACAATTTAAAATAATAATTATTAAATATAATTTAATAGAT
ATATAATTTCATAAAATTCTTAA
Found at i:51016738 original size:59 final size:57
Alignment explanation
Indices: 51016660--51016818 Score: 146
Period size: 59 Copynumber: 2.8 Consensus size: 57
51016650 TTCAAAGTCC
* * * * *
51016660 AAAAATATTTTTTGGGTGCTGAGACACTAATGGCCGGCA-CCTCTATACCCGATTTTTTA
1 AAAAAAATTATTTGAGTGCTGAGACACTAATGGCCGGCACCCT-TATACCAGA--TTTGA
* * *
51016719 AAAAAAATTGTTTGAGTGCT-AGGACACTAATGGTCGGCACCCTTGTACCAGATTTGA
1 AAAAAAATTATTTGAGTGCTGA-GACACTAATGGCCGGCACCCTTATACCAGATTTGA
* * *
51016776 AAAAAAA--ACTTGAGTGCTGGGACACTAATGGCCGACACACCTT
1 AAAAAAATTATTTGAGTGCTGAGACACTAATGGCCGGCAC-CCTT
51016819 TACTATATAA
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
55 25 0.30
56 4 0.05
57 11 0.13
58 1 0.01
59 40 0.48
60 3 0.04
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (57 bp):
AAAAAAATTATTTGAGTGCTGAGACACTAATGGCCGGCACCCTTATACCAGATTTGA
Found at i:51020996 original size:43 final size:43
Alignment explanation
Indices: 51020930--51021058 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 43
51020920 AACTAATACA
** ** * *
51020930 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCACAGATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACATAAACACAAATCG
* *
51020973 ATGCCACTGTCCCAGACAG-GGTCTTACACATAAACACAAATTG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACATAAACACAAATCG
* * * *
51021016 ATGCCAATGTCCCAGACGTGATCTTATACGTAAACACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACATAAACACAAATCG
51021059 GAAATCCTAT
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 68 0.97
44 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACATAAACACAAATCG
Found at i:51027739 original size:26 final size:26
Alignment explanation
Indices: 51027703--51027752 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
51027693 AAGAAGAAAA
51027703 AGAAAATCGTGCCAAGCGGCAGACAG
1 AGAAAATCGTGCCAAGCGGCAGACAG
51027729 AGAAAATCGTGCCAAGCGGCAGAC
1 AGAAAATCGTGCCAAGCGGCAGAC
51027753 TTATATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.24, G:0.30, T:0.08
Consensus pattern (26 bp):
AGAAAATCGTGCCAAGCGGCAGACAG
Found at i:51030638 original size:31 final size:29
Alignment explanation
Indices: 51030564--51030621 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
51030554 GAATTGGATC
* *
51030564 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATC-AAAGTTCATGTATAAAATTACACA
*
51030594 AAATCAAAGTTCATGTATACAATTACAC
1 AAATCAAAGTTCATGTATAAAATTACAC
51030622 TTTAAATCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (29 bp):
AAATCAAAGTTCATGTATAAAATTACACA
Found at i:51030848 original size:21 final size:21
Alignment explanation
Indices: 51030822--51030876 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
51030812 AACAGCGGTG
*
51030822 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
51030843 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
51030864 GCGGTGAGATTAG
1 GCGGTGAGATTAG
51030877 AAATAATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:51034807 original size:16 final size:16
Alignment explanation
Indices: 51034768--51034808 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
51034758 TTCTCCATTC
51034768 CCATCTCCCCTCTTCCA
1 CCAT-TCCCCTCTTCCA
*
51034785 TCATTCCCCTCTTCCA
1 CCATTCCCCTCTTCCA
*
51034801 CCGTTCCC
1 CCATTCCC
51034809 TCCTCCCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.10, C:0.56, G:0.02, T:0.32
Consensus pattern (16 bp):
CCATTCCCCTCTTCCA
Found at i:51034871 original size:58 final size:58
Alignment explanation
Indices: 51034756--51034948 Score: 230
Period size: 60 Copynumber: 3.3 Consensus size: 58
51034746 ATACAATGCA
* * *
51034756 ATTTCTCCATTCCCATCTCCCCTCTTCCATCATTCCCCTCTTCCACCGTTCCCTCCTCCC
1 ATTTC-CCATTCCCATCTACCCTATTCCA-CATTCCCCTCTTCCACCGTGCCCTCCTCCC
* * *
51034816 ATTTCCTATTCCCATGCAATACCC-ATTCCA-ATTTCCC-CTTCCACCGTGCCGTCCTCCC
1 ATTTCCCATTCCCAT-C--TACCCTATTCCACATTCCCCTCTTCCACCGTGCCCTCCTCCC
* *
51034874 ATTTCCCATTCCCATCTCCCCTCTTCCATCGATTCCCCTCTTCCACCGTGCCCTCCTCCC
1 ATTTCCCATTCCCATCTACCCTATTCCA-C-ATTCCCCTCTTCCACCGTGCCCTCCTCCC
51034934 ATTTCCCATTCCCAT
1 ATTTCCCATTCCCAT
51034949 TCCCATTATC
Statistics
Matches: 114, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
55 4 0.04
56 5 0.04
57 1 0.01
58 33 0.29
59 21 0.18
60 41 0.36
61 5 0.04
62 4 0.04
ACGTcount: A:0.13, C:0.50, G:0.04, T:0.33
Consensus pattern (58 bp):
ATTTCCCATTCCCATCTACCCTATTCCACATTCCCCTCTTCCACCGTGCCCTCCTCCC
Found at i:51034879 original size:28 final size:28
Alignment explanation
Indices: 51034846--51034945 Score: 85
Period size: 28 Copynumber: 3.4 Consensus size: 28
51034836 ACCCATTCCA
* *
51034846 ATTTCCCCTTCCACCGTGCCGTCCTCCC
1 ATTTCCCATTCCACCGTGCCCTCCTCCC
* * *
51034874 ATTTCCCATTCCCATC-TCCCCTCTTCCATC
1 ATTTCCCATT-CCACCGTGCCCTCCTCC--C
* *
51034904 GATTCCCCTCTTCCACCGTGCCCTCCTCCC
1 -ATTTCCC-ATTCCACCGTGCCCTCCTCCC
51034934 ATTTCCCATTCC
1 ATTTCCCATTCC
51034946 CATTCCCATT
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
28 21 0.39
29 10 0.19
30 2 0.04
31 10 0.19
32 11 0.20
ACGTcount: A:0.10, C:0.52, G:0.06, T:0.32
Consensus pattern (28 bp):
ATTTCCCATTCCACCGTGCCCTCCTCCC
Found at i:51037487 original size:21 final size:20
Alignment explanation
Indices: 51037463--51037525 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
51037453 GAACAAAGTA
*
51037463 AAAAAGAGGGGAGAAACTAGC
1 AAAAAGA-GGGAGAAACCAGC
* *
51037484 AAAAATGAGGGACAAACCAGT
1 AAAAA-GAGGGAGAAACCAGC
*
51037505 AAACA-AGGGAGAAACCAGC
1 AAAAAGAGGGAGAAACCAGC
51037524 AA
1 AA
51037526 GAACGAGGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 14 0.40
21 19 0.54
22 2 0.06
ACGTcount: A:0.54, C:0.14, G:0.27, T:0.05
Consensus pattern (20 bp):
AAAAAGAGGGAGAAACCAGC
Found at i:51039473 original size:42 final size:42
Alignment explanation
Indices: 51039394--51039747 Score: 466
Period size: 42 Copynumber: 8.4 Consensus size: 42
51039384 ACATCGCTAA
* *
51039394 CTTTTGCGGCGCTTACATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
*
51039438 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTGAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
51039480 CTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
51039522 CTTTAGCGGCGCTTAGAAAAAAAACGTCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGATCATGTT
* *
51039565 CTCTAGCGGCGCTTAG-AAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
51039606 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* ** * *
51039648 CTGTAGCGGCGCTTTAGAGGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* **
51039691 CTATAGCGGCGCTT-GTTCAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGA-TCA-TGTT
51039733 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
51039748 TTTCACAAAC
Statistics
Matches: 280, Mismatches: 23, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
41 40 0.14
42 153 0.55
43 74 0.26
44 13 0.05
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:51039760 original size:85 final size:85
Alignment explanation
Indices: 51039415--51039746 Score: 349
Period size: 85 Copynumber: 3.9 Consensus size: 85
51039405 CTTACATAAA
* * * *
51039415 AAAACGCCGCT-AAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTGAAGATCATGT
1 AAAACGCCTCTAAAAG-TAATGTTCTATAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
* **
51039479 TCTTTAGCGGCGC-TTAGAAA
65 TCTGTAGCGGCGCTTTAGAGC
* * * *
51039499 AAAACGCCACT-AAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGTCGCTAAAGATCATG
1 AAAACGCCTCTAAAAG-TAATGTTCTATAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGATCATG
* *
51039563 TTCTCTAGCGGCGC-TTAGA-A
64 TTCTGTAGCGGCGCTTTAGAGC
* * * *
51039583 AAAATGCCGCT-AAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAACGCCTCTAAAAG-TAATGTTCTATAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
*
51039647 TCTGTAGCGGCGCTTTAGAGG
65 TCTGTAGCGGCGCTTTAGAGC
**
51039668 AAAACGCCTCTAAAAGTAATGTTCTATAGCGGCGCTT-GTTCAAAAACGCCGCTAAA-AGT-AGT
1 AAAACGCCTCTAAAAGTAATGTTCTATAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGA-TCA-T
*
51039730 GTTCTTTAGCGGCGCTT
63 GTTCTGTAGCGGCGCTT
51039747 ATTTCACAAA
Statistics
Matches: 225, Mismatches: 16, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
83 36 0.16
84 84 0.37
85 101 0.45
86 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (85 bp):
AAAACGCCTCTAAAAGTAATGTTCTATAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
CTGTAGCGGCGCTTTAGAGC
Found at i:51039788 original size:44 final size:44
Alignment explanation
Indices: 51039734--51039851 Score: 209
Period size: 44 Copynumber: 2.7 Consensus size: 44
51039724 AGTAGTGTTC
51039734 TTTAGCGGCGCTTATTTCACAAACGCCACTGTTTTGATATGACT
1 TTTAGCGGCGCTTATTTCACAAACGCCACTGTTTTGATATGACT
51039778 TTTAGCGGCGCTTATTTCACAAACGCCACTGTTTTGATATGACT
1 TTTAGCGGCGCTTATTTCACAAACGCCACTGTTTTGATATGACT
* * *
51039822 TTTAGCGGCGCTTTTTTAAAAAACGCCACT
1 TTTAGCGGCGCTTATTTCACAAACGCCACT
51039852 AATTTTGGGA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 71 1.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.36
Consensus pattern (44 bp):
TTTAGCGGCGCTTATTTCACAAACGCCACTGTTTTGATATGACT
Found at i:51040276 original size:20 final size:20
Alignment explanation
Indices: 51040239--51040278 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
51040229 TCTCTCGCTG
* *
51040239 CTTCTCTCGCTACGGCCTCT
1 CTTCCCTCGCTACCGCCTCT
*
51040259 CTTCCCTCGCTGCCGCCTCT
1 CTTCCCTCGCTACCGCCTCT
51040279 GCTTTAAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.50, G:0.15, T:0.33
Consensus pattern (20 bp):
CTTCCCTCGCTACCGCCTCT
Found at i:51045723 original size:9 final size:9
Alignment explanation
Indices: 51045698--51045836 Score: 107
Period size: 9 Copynumber: 15.9 Consensus size: 9
51045688 GATTTAGGAA
51045698 TAAGTTATG
1 TAAGTTATG
51045707 T-A-TTATG
1 TAAGTTATG
51045714 TAAGTTATG
1 TAAGTTATG
51045723 TAAGTTATG
1 TAAGTTATG
*
51045732 TAAGTTGTG
1 TAAGTTATG
*
51045741 TAAGTTGTG
1 TAAGTTATG
*
51045750 TAAGTTGTG
1 TAAGTTATG
51045759 T-A-TTATG
1 TAAGTTATG
* *
51045766 AAACTTATG
1 TAAGTTATG
*
51045775 TACGTTATG
1 TAAGTTATG
*
51045784 T--CTTATG
1 TAAGTTATG
51045791 TAAGTTATG
1 TAAGTTATG
51045800 TATTA-TTATG
1 TA--AGTTATG
51045810 TAGAG-TATG
1 TA-AGTTATG
51045819 TATTA-TTATG
1 TA--AGTTATG
51045829 TAAGTTAT
1 TAAGTTAT
51045837 TATGTAAGTA
Statistics
Matches: 108, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
7 16 0.15
8 5 0.05
9 72 0.67
10 14 0.13
11 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:51045727 original size:25 final size:25
Alignment explanation
Indices: 51045698--51045801 Score: 127
Period size: 25 Copynumber: 4.1 Consensus size: 25
51045688 GATTTAGGAA
51045698 TAAGTTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
51045723 TAAGTTATGTAAGTTGTGTAAGTTGTG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* * *
51045750 TAAGTTGTGTATTATGAAACTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
51045775 TACGTTATGTCTTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
51045800 TA
1 TA
51045802 TTATTATGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
25 42 0.65
26 2 0.03
27 21 0.32
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGTTATG
Found at i:51045751 original size:27 final size:26
Alignment explanation
Indices: 51045698--51045836 Score: 117
Period size: 25 Copynumber: 5.3 Consensus size: 26
51045688 GATTTAGGAA
51045698 TAAGTTATGT-ATTATGTAAGTTATG
1 TAAGTTATGTAATTATGTAAGTTATG
* *
51045723 TAAGTTATGTAAGTTGTGTAAGTTGTG
1 TAAGTTATGTAA-TTATGTAAGTTATG
* * *
51045750 TAAGTTGTGT-ATTATGAAACTTATG
1 TAAGTTATGTAATTATGTAAGTTATG
* *
51045775 TACGTTATGT-CTTATGTAAGTTATG
1 TAAGTTATGTAATTATGTAAGTTATG
*
51045800 TATTA-TTATGTAGAGTATGTATTA-TTATG
1 TA--AGTTATGTA-ATTATGTA--AGTTATG
51045829 TAAGTTAT
1 TAAGTTAT
51045837 TATGTAAGTA
Statistics
Matches: 90, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
25 42 0.47
26 8 0.09
27 22 0.24
28 10 0.11
29 7 0.08
30 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.47
Consensus pattern (26 bp):
TAAGTTATGTAATTATGTAAGTTATG
Found at i:51045788 original size:16 final size:16
Alignment explanation
Indices: 51045769--51045805 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
51045759 TATTATGAAA
*
51045769 CTTATGTACGTTATGT
1 CTTATGTAAGTTATGT
51045785 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
*
51045801 ATTAT
1 CTTAT
51045806 TATGTAGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.51
Consensus pattern (16 bp):
CTTATGTAAGTTATGT
Found at i:51045810 original size:19 final size:19
Alignment explanation
Indices: 51045786--51045836 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
51045776 ACGTTATGTC
51045786 TTATGTAAGTTATGTATTA
1 TTATGTAAGTTATGTATTA
51045805 TTATGTAGAG-TATGTATTA
1 TTATGTA-AGTTATGTATTA
51045824 TTATGTAAGTTAT
1 TTATGTAAGTTAT
51045837 TATGTAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.07
19 26 0.87
20 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAAGTTATGTATTA
Found at i:51045980 original size:15 final size:12
Alignment explanation
Indices: 51045821--51045982 Score: 88
Period size: 12 Copynumber: 13.8 Consensus size: 12
51045811 AGAGTATGTA
51045821 TTATTATGTAAG
1 TTATTATGTAAG
51045833 TTATTATGTAAG
1 TTATTATGTAAG
** *
51045845 -TAGGGATGTAGG
1 TTA-TTATGTAAG
*
51045857 ATATTATGTAAG
1 TTATTATGTAAG
51045869 ---TTATGTAAG
1 TTATTATGTAAG
* * * **
51045878 TTTTTGTTTTTG
1 TTATTATGTAAG
*
51045890 TGTATTATGTAAC
1 T-TATTATGTAAG
* *
51045903 TTATTTAATTTATGG
1 TTA-TT-ATGTA-AG
* *
51045918 ATGTTATGT-A-
1 TTATTATGTAAG
51045928 TTATTATGT-A-
1 TTATTATGTAAG
51045938 TTATTATGTAAG
1 TTATTATGTAAG
51045950 TTATTATGTAAG
1 TTATTATGTAAG
51045962 TTATTATGTAAG
1 TTATTATGTAAG
*
51045974 TCATTATGT
1 TTATTATGT
51045983 TGGTTATGTA
Statistics
Matches: 113, Mismatches: 26, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
9 9 0.08
10 17 0.15
11 3 0.03
12 64 0.57
13 13 0.12
14 6 0.05
15 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.19, T:0.51
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:51046142 original size:19 final size:19
Alignment explanation
Indices: 51046118--51046155 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
51046108 ATGTATCAAT
51046118 TTTTAAAAATATATATAAA
1 TTTTAAAAATATATATAAA
*
51046137 TTTTAAATATATATATAAA
1 TTTTAAAAATATATATAAA
51046156 CTATATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTAAAAATATATATAAA
Found at i:51046187 original size:9 final size:9
Alignment explanation
Indices: 51046173--51046253 Score: 51
Period size: 9 Copynumber: 9.0 Consensus size: 9
51046163 TAAATATTAA
51046173 TAAGTTATG
1 TAAGTTATG
51046182 TAAGTTATG
1 TAAGTTATG
* *
51046191 TATTA-TAAATT
1 TA--AGT-TATG
*
51046202 TAAGTTGTG
1 TAAGTTATG
51046211 TAAGTTATG
1 TAAGTTATG
51046220 -AA-TTATG
1 TAAGTTATG
*
51046227 TAAGATATG
1 TAAGTTATG
* *
51046236 TAAATTACG
1 TAAGTTATG
*
51046245 TAAGATATG
1 TAAGTTATG
51046254 AAATTTGAAC
Statistics
Matches: 53, Mismatches: 13, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
7 5 0.09
8 4 0.08
9 37 0.70
10 2 0.04
11 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (9 bp):
TAAGTTATG
Found at i:51046247 original size:18 final size:17
Alignment explanation
Indices: 51046210--51046258 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
51046200 TTTAAGTTGT
* *
51046210 GTAAGTTATG-AATTAT
1 GTAAGATATGAAATTAC
51046226 GTAAGATATGTAAATTAC
1 GTAAGATATG-AAATTAC
51046244 GTAAGATATGAAATT
1 GTAAGATATGAAATT
51046259 TGAACTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 9 0.31
17 5 0.17
18 15 0.52
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.37
Consensus pattern (17 bp):
GTAAGATATGAAATTAC
Found at i:51046324 original size:35 final size:34
Alignment explanation
Indices: 51046266--51046357 Score: 132
Period size: 34 Copynumber: 2.7 Consensus size: 34
51046256 ATTTGAACTT
* * *
51046266 TTAAAAAAAAT-TAATATCTAAAAATATTCGTGA
1 TTAAAAAAAATAAAATATTTAAAAAAATTCGTGA
51046299 TTAAAAAAAATAAAATATTTAAAAAAATTCGTGA
1 TTAAAAAAAATAAAATATTTAAAAAAATTCGTGA
*
51046333 TTAAAATAAAATAAAAAATTTAAAA
1 TTAAAA-AAAATAAAATATTTAAAA
51046358 TATAACTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 11 0.21
34 25 0.47
35 17 0.32
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (34 bp):
TTAAAAAAAATAAAATATTTAAAAAAATTCGTGA
Found at i:51047490 original size:37 final size:37
Alignment explanation
Indices: 51047435--51047519 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
51047425 AGATTTCTAC
*
51047435 AAAACAGTAACAGACCAGTATGCCTAAAAAATGCAGG
1 AAAACAGTAACAGACCAGTATGCCAAAAAAATGCAGG
*
51047472 AAAATAGTAACAGACCAGTATGCCAAAAAAATGCAGG
1 AAAACAGTAACAGACCAGTATGCCAAAAAAATGCAGG
51047509 AAAACAGTAAC
1 AAAACAGTAAC
51047520 CCATCGACAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.52, C:0.18, G:0.18, T:0.13
Consensus pattern (37 bp):
AAAACAGTAACAGACCAGTATGCCAAAAAAATGCAGG
Found at i:51049289 original size:7 final size:7
Alignment explanation
Indices: 51049277--51049325 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
51049267 TTAAGCAGTC
51049277 TAAACCT
1 TAAACCT
*
51049284 TAAACCC
1 TAAACCT
*
51049291 TAAACTT
1 TAAACCT
51049298 TAAACCT
1 TAAACCT
*
51049305 CAAACTCT
1 TAAAC-CT
*
51049313 TAAACCC
1 TAAACCT
51049320 TAAACC
1 TAAACC
51049326 CAAAACACCA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCT
Found at i:51049295 original size:14 final size:14
Alignment explanation
Indices: 51049276--51049325 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
51049266 TTTAAGCAGT
51049276 CTAAACCTTAAACC
1 CTAAACCTTAAACC
*
51049290 CTAAACTTTAAA-C
1 CTAAACCTTAAACC
51049303 CTCAAACTCTTAAACC
1 CT-AAAC-CTTAAACC
51049319 CTAAACC
1 CTAAACC
51049326 CAAAACACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 3 0.10
14 16 0.52
15 9 0.29
16 3 0.10
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (14 bp):
CTAAACCTTAAACC
Found at i:51049970 original size:88 final size:88
Alignment explanation
Indices: 51049817--51049979 Score: 290
Period size: 88 Copynumber: 1.9 Consensus size: 88
51049807 AAGCGCAGCT
* *
51049817 AATAATATGATTTAGCGGCGATTTCTCGTAAACGCCACTAATTCCAGTATACGTCAAGATCTAAA
1 AATAATATGATTTAGCGGCGATTTCTCGTAAACGCCACTAACTCCAGTATACATCAAGATCTAAA
51049882 TGCAGCGTTTAAGAAGTGCCGCA
66 TGCAGCGTTTAAGAAGTGCCGCA
* *
51049905 AATAATATGATTTAGCGGCGATTTCTCGTGAACGCCACTAACTCCAGTATACATCAAGATTTAAA
1 AATAATATGATTTAGCGGCGATTTCTCGTAAACGCCACTAACTCCAGTATACATCAAGATCTAAA
51049970 TGCAGCGTTT
66 TGCAGCGTTT
51049980 GCTAATAGCA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 71 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (88 bp):
AATAATATGATTTAGCGGCGATTTCTCGTAAACGCCACTAACTCCAGTATACATCAAGATCTAAA
TGCAGCGTTTAAGAAGTGCCGCA
Found at i:51052334 original size:41 final size:41
Alignment explanation
Indices: 51052277--51052408 Score: 167
Period size: 41 Copynumber: 3.2 Consensus size: 41
51052267 TTCATGTGCT
*
51052277 GCTAATGCTCAGATCTTTAGGGGCGTTTTTGAAAAAGCGCC
1 GCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCC
* * * *
51052318 GCTAATGCTCAGATCTTTAGTGGCGATTTTGGAAAAGCACC
1 GCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCC
** * * *
51052359 GCTAATGCTC-GGGCTTTAGCAGCGTTTTTTAAGAAGCGCC
1 GCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCC
51052399 GCTAATGCTC
1 GCTAATGCTC
51052409 GGGGATTTAA
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 31 0.40
41 47 0.60
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (41 bp):
GCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCC
Found at i:51052401 original size:40 final size:39
Alignment explanation
Indices: 51052299--51052411 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 39
51052289 ATCTTTAGGG
** **
51052299 GCGTTTTTGAAAAAGCGCCGCTAATGCTCAGATCTTTAGTG
1 GCGTTTTTG-AAAAGCGCCGCTAATGCTC-GGGCTTTAGCA
* *
51052340 GCGATTTTGGAAAAGCACCGCTAATGCTCGGGCTTTAGCA
1 GCG-TTTTTGAAAAGCGCCGCTAATGCTCGGGCTTTAGCA
*
51052380 GCGTTTTTTAAGAAGCGCCGCTAATGCTCGGG
1 GCGTTTTTGAA-AAGCGCCGCTAATGCTCGGG
51052412 GATTTAACAT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 6 0.10
40 29 0.48
41 21 0.34
42 5 0.08
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
GCGTTTTTGAAAAGCGCCGCTAATGCTCGGGCTTTAGCA
Found at i:51052850 original size:14 final size:15
Alignment explanation
Indices: 51052824--51052853 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
51052814 GGTTTATAGG
51052824 TTATGGAATTAGGGA
1 TTATGGAATTAGGGA
51052839 TTATGG-ATTAGGGA
1 TTATGGAATTAGGGA
51052853 T
1 T
51052854 CCTGATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (15 bp):
TTATGGAATTAGGGA
Found at i:51053033 original size:6 final size:6
Alignment explanation
Indices: 51053002--51053044 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
51052992 ATAATGTTTA
*
51053002 AGGGTT AGGGATT CAGGG-T CGGGTT AGGGTT AGGGTT AGGGTT
1 AGGGTT AGGG-TT -AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT
51053045 TATGATTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 3 0.09
6 23 0.72
7 2 0.06
8 4 0.12
ACGTcount: A:0.16, C:0.05, G:0.49, T:0.30
Consensus pattern (6 bp):
AGGGTT
Found at i:51053553 original size:17 final size:16
Alignment explanation
Indices: 51053520--51053553 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51053510 ATATTAGATT
*
51053520 TAAAAAAATTAATAAA
1 TAAAAAAATTAACAAA
51053536 TAAAAAAATGTAACAAA
1 TAAAAAAAT-TAACAAA
51053553 T
1 T
51053554 TGATACGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAACAAA
Found at i:51057838 original size:43 final size:43
Alignment explanation
Indices: 51057743--51057839 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 43
51057733 GTTATGTTTT
* *
51057743 TAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAGGTCGTGGTCTA
* * *
51057786 TTGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAGGTCGTGGTCTA
*
51057829 TAGCAGCGTTT
1 TAGCGGCGTTT
51057840 TTTGCGGCGC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.19, C:0.19, G:0.35, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAGGTCGTGGTCTA
Found at i:51058846 original size:114 final size:113
Alignment explanation
Indices: 51058703--51059248 Score: 813
Period size: 115 Copynumber: 4.8 Consensus size: 113
51058693 ACAGTACAAA
*
51058703 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAATTAAAATTTTTTTT
1 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAA-TTTTTTT
*
51058768 TCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CTAAA-
65 T-TTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAT
*
51058816 TTTTTTTTTATTTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATTTAAATTTTTT
1 TTTTTTTTTA-TTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAA--TAAAATTTTT
*
51058881 TTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAT
63 TTT-TTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAT
51058933 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAAT-AAA----TTTT
1 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAATTTTTTTT
51058993 TTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAAAT
66 TTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCA--CCAAAAT
**
51059043 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAAACTTTTTT
1 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAATTTTTTTT
*
51059108 TTTGTACTGTGTACTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAAT
66 TTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAAAT
* ***
51059157 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACATGAAAAAATAAAATAAAA--AAA
1 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACG--AAAA-AAAATAAAATTTTT
*
51059220 TTTTTTGTACTGTGTACTGGGTGCTGGCC
63 TTTTTTGTACTGTGTACTGGGTGCCGGCC
51059249 TGTCAAAAAT
Statistics
Matches: 406, Mismatches: 12, Indels: 28
0.91 0.03 0.06
Matches are distributed among these distances:
108 41 0.10
109 4 0.01
110 59 0.15
111 3 0.01
113 12 0.03
114 93 0.23
115 121 0.30
116 54 0.13
117 19 0.05
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (113 bp):
TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAATTTTTTTT
TTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAT
Found at i:51058905 original size:115 final size:113
Alignment explanation
Indices: 51058703--51059206 Score: 806
Period size: 114 Copynumber: 4.4 Consensus size: 113
51058693 ACAGTACAAA
*
51058703 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAATTAAAATTTTTTTT
1 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAAT-AAATTTTTTTT
*
51058768 TCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CTAAA-
65 T-TTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAT
51058816 TTTTTTTTTATTTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATTTAAATTTTTT
1 TTTTTTTTTA-TTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAA--TAAATTTTTT
*
51058881 TTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAT
63 TTT-TTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAT
51058933 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAA-----TTTT
1 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTT
51058993 TTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAAAT
66 TTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCA--CCAAAAT
***
51059043 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAAACTTTTTT
1 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTT
*
51059108 TTTGTACTGTGTACTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAAT
66 TTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAAAT
*
51059157 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACATGAAAAAA
1 TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAA
51059207 TAAAATAAAA
Statistics
Matches: 374, Mismatches: 5, Indels: 23
0.93 0.01 0.06
Matches are distributed among these distances:
108 41 0.11
109 4 0.01
110 62 0.17
113 10 0.03
114 102 0.27
115 98 0.26
116 47 0.13
117 10 0.03
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (113 bp):
TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTT
TTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAT
Found at i:51059130 original size:223 final size:223
Alignment explanation
Indices: 51058699--51059248 Score: 831
Period size: 223 Copynumber: 2.4 Consensus size: 223
51058689 GTACACAGTA
*
51058699 CAAA-TTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAATTAAAATTT
1 CAAATTTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAA---
*
51058763 TTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACTAAATTTTTTTTTATT
63 --TTTT-TTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACAAAATTTTTTTTTATT
***
51058828 TTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATTTAAATTTTTTTTTCTTTGTACT
125 TTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAA-TTAAAAACTTTTTTCTTTGTACT
*
51058893 GTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC
189 GTGTACTAGGTGCCGGCCATTGACAGGCCAGCACC
51058928 CAAATTTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAAT-AAATTT
1 CAAATTTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAATTT
51058992 TTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAAATTTTTTTTT-TATTT
66 TTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCA---CAAAATTTTTTTTTAT-TTT
51059056 TTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAA-TAAAAACTTTTTT-TTTGTACTGTG
127 TTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATTAAAAACTTTTTTCTTTGTACTGTG
51059119 TACTAGGTGCCGGCCATTGACAGGCCAGCACC
192 TACTAGGTGCCGGCCATTGACAGGCCAGCACC
*
51059151 CAAAATTTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACATGAAAAAATAAAATAAA
1 C-AAATTTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACG--AAAA-AAAAT--A
* *
51059216 AAAATTTTTTGTACTGTGTACTGGGTGCTGGCC
60 AAATTTTTTTGTACTGTGTACTGGGTGCCGGCC
51059249 TGTCAAAAAT
Statistics
Matches: 300, Mismatches: 9, Indels: 23
0.90 0.03 0.07
Matches are distributed among these distances:
223 84 0.28
224 61 0.20
225 1 0.00
226 59 0.20
227 5 0.02
229 7 0.02
230 83 0.28
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (223 bp):
CAAATTTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAATTT
TTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACAAAATTTTTTTTTATTTTTTTT
CGTATTTTTATATCTGATTCTGACACGAAAAAAAATTAAAAACTTTTTTCTTTGTACTGTGTACT
AGGTGCCGGCCATTGACAGGCCAGCACC
Found at i:51066814 original size:13 final size:13
Alignment explanation
Indices: 51066796--51066820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51066786 TTTTATTTGT
51066796 TTATTCCCACCGA
1 TTATTCCCACCGA
51066809 TTATTCCCACCG
1 TTATTCCCACCG
51066821 GCCGAATGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.08, T:0.32
Consensus pattern (13 bp):
TTATTCCCACCGA
Found at i:51068319 original size:12 final size:12
Alignment explanation
Indices: 51068302--51068335 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
51068292 GTTATTTATT
51068302 TTCTTTTGCTCG
1 TTCTTTTGCTCG
*
51068314 TTCTTTGGCTCG
1 TTCTTTTGCTCG
51068326 TTCTTTTGCT
1 TTCTTTTGCT
51068336 TAAAATGCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.24, G:0.18, T:0.59
Consensus pattern (12 bp):
TTCTTTTGCTCG
Found at i:51068385 original size:10 final size:10
Alignment explanation
Indices: 51068370--51068394 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
51068360 GTGGATTGGC
51068370 TGATTGACTG
1 TGATTGACTG
51068380 TGATTGACTG
1 TGATTGACTG
51068390 TGATT
1 TGATT
51068395 CCTTTGTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.44
Consensus pattern (10 bp):
TGATTGACTG
Found at i:51071550 original size:49 final size:49
Alignment explanation
Indices: 51071493--51071596 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
51071483 TCATGTGTTA
* * ** * *
51071493 TAATTTTATACAGTGTTGAGTTTTTTATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
*
51071542 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
51071591 TAATTT
1 TAATTT
51071597 GTTTTTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:51073105 original size:54 final size:54
Alignment explanation
Indices: 51073042--51073237 Score: 135
Period size: 57 Copynumber: 3.4 Consensus size: 54
51073032 TAAGAATAAG
* * * * *
51073042 AATTTTATTTAATTATTTATTATTATTAAATTATATTGAATAATAATTATTTTA
1 AATTATATTAAATTATATATTATTATTAAATTATATTTAATAACAATTATTTTA
* * ** *
51073096 AATTATATTTTAGTATTATATATTATGATTTTATTAGTAAATTTATATAAGAA-TATTTATTAA
1 AATTATA--TTA-AATTATATATTATTATTAAATTA-T--ATTTA-ATAACAATTA-TT-TT-A
* * *
51073159 CAATTTTATTAAATTATATATT-TTATTAAATTATATTTTATAACAATTATGTTA
1 -AATTATATTAAATTATATATTATTATTAAATTATATTTAATAACAATTATTTTA
* *
51073213 AAATATGATTAAATTATTTATTATT
1 AATTAT-ATTAAATTATATATTATT
51073238 TATATTAATA
Statistics
Matches: 108, Mismatches: 20, Indels: 27
0.70 0.13 0.17
Matches are distributed among these distances:
53 4 0.04
54 21 0.19
55 4 0.04
56 9 0.08
57 24 0.22
58 1 0.01
59 1 0.01
60 14 0.13
61 18 0.17
62 5 0.05
63 1 0.01
64 6 0.06
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (54 bp):
AATTATATTAAATTATATATTATTATTAAATTATATTTAATAACAATTATTTTA
Found at i:51073175 original size:108 final size:106
Alignment explanation
Indices: 51072954--51073169 Score: 282
Period size: 109 Copynumber: 2.0 Consensus size: 106
51072944 TAATAAAGTA
*
51072954 TATTA-TAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATT
1 TATTATTAAATTATATTGAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATT
* *
51073018 TTAGTAAATTCATATAAGAATAAGAATTTTATTTAATTATTTAT
66 TTAGTAAATTCATATAAGAAT---AATTTTATTAAAATATTTAT
51073062 TATTATTAAATTATATTGAATAATAATTATTTTAAATTATA-TTT-TAGTATTATATATTATGAT
1 TATTATTAAATTATATTGAATAATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGA-
*
51073125 TTTATTAGTAAATTTATATAAGAAT-A-TTTATTAACAAT-TTTAT
64 -TT-TTAGTAAATTCATATAAGAATAATTTTATTAA-AATATTTAT
51073168 TA
1 TA
51073170 AATTATATAT
Statistics
Matches: 98, Mismatches: 4, Indels: 14
0.84 0.03 0.12
Matches are distributed among these distances:
106 14 0.14
107 3 0.03
108 23 0.23
109 25 0.26
110 13 0.13
111 20 0.20
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (106 bp):
TATTATTAAATTATATTGAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATT
TTAGTAAATTCATATAAGAATAATTTTATTAAAATATTTAT
Found at i:51073199 original size:15 final size:17
Alignment explanation
Indices: 51073161--51073194 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
51073151 TTTATTAACA
51073161 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
51073178 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
51073195 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:51073208 original size:16 final size:15
Alignment explanation
Indices: 51073161--51073208 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
51073151 TTTATTAACA
*
51073161 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
51073178 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
51073193 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
51073209 GTTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:51073386 original size:39 final size:41
Alignment explanation
Indices: 51073341--51073446 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 41
51073331 TTTCCTTATG
* *
51073341 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
51073381 C-ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTAC
51073426 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
51073447 ACGCCTCTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
39 13 0.23
40 2 0.04
41 4 0.07
44 19 0.33
45 5 0.09
46 14 0.25
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:51073421 original size:44 final size:46
Alignment explanation
Indices: 51073358--51073448 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
51073348 ACCTCTATTC
*
51073358 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
51073402 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
51073448 C
1 C
51073449 GCCTCTATTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 19 0.43
45 4 0.09
46 21 0.48
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
Found at i:51073449 original size:16 final size:16
Alignment explanation
Indices: 51073428--51073464 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
51073418 AGAATTACCT
51073428 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
51073444 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
51073460 ATTAC
1 ATTAC
51073465 AGCGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.35, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:51084199 original size:22 final size:22
Alignment explanation
Indices: 51084171--51084240 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
51084161 TATACACTAT
51084171 TAAATAGAGAGCACTAAAGTGC
1 TAAATAGAGAGCACTAAAGTGC
* * *
51084193 TATATAGAGAGCACAAAATGTGT
1 TAAATAGAGAGCACTAAA-GTGC
* *
51084216 TAAATGGAGAGCACTAATGTGC
1 TAAATAGAGAGCACTAAAGTGC
51084238 TAA
1 TAA
51084241 TAATTGGAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 22 0.56
23 17 0.44
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (22 bp):
TAAATAGAGAGCACTAAAGTGC
Found at i:51087121 original size:14 final size:14
Alignment explanation
Indices: 51087102--51087141 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
51087092 TTGATTGCCA
51087102 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
51087116 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
51087130 GGAAAATGTTTT
1 GTAAAATGTTTT
51087142 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:51087150 original size:20 final size:20
Alignment explanation
Indices: 51087125--51087164 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
51087115 CGTAAAATGA
*
51087125 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGGTTTACT
*
51087145 TTTCTGTAAAATGGTTTACT
1 TTTCTGGAAAATGGTTTACT
51087165 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGGTTTACT
Found at i:51087154 original size:34 final size:35
Alignment explanation
Indices: 51087110--51087176 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
51087100 CAGTAAAATG
*
51087110 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
51087144 TTTTCTGTAAAATGGTTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
51087177 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:51092422 original size:5 final size:5
Alignment explanation
Indices: 51092412--51092436 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
51092402 ACTAAATTAT
51092412 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
51092437 TGAAACTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:51094798 original size:51 final size:50
Alignment explanation
Indices: 51094722--51094917 Score: 216
Period size: 51 Copynumber: 3.9 Consensus size: 50
51094712 GATACCGATT
* * ***
51094722 CACGTAGTAGCCTACACATAGTACTACACATGTGACCATCACTGTCCAATA
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT-TCTGGTA
* **
51094773 CACGTAGTAGCCTGCACATAGTACTACACACGTGA-TAGAAGCTATCTGGTA
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CT-TCTGGTA
* * * *
51094824 CGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-TTCTGGTA
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTTCTGGTA
* *
51094874 CACGTAGTAGCCTGCATATAGTACTACACACGTGACCACCACTT
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTT
51094918 TCACTTTCAC
Statistics
Matches: 119, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
49 3 0.03
50 43 0.36
51 71 0.60
53 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
CACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTCTGGTA
Found at i:51094902 original size:101 final size:102
Alignment explanation
Indices: 51094726--51094908 Score: 289
Period size: 101 Copynumber: 1.8 Consensus size: 102
51094716 CCGATTCACG
*
51094726 TAGTAGCCTACACATAGTACTACACATGTGACCATCACTGTCCAATACACGTAGTAGCCTGCACA
1 TAGTAGCCTACACATAGTACTACACATGCGACCATCACTGTCCAATACACGTAGTAGCCTGCACA
51094791 TAGTACTACACACGTGATAGAAGCTATCTGGTACGCA
66 TAGTACTACACACGTGATAGAAGCTATCTGGTACGCA
* *** *
51094828 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGCAT
1 TAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTGTCCAATACACGTAGTAGCCTGCAC
51094891 ATAGTACTACACACGTGA
65 ATAGTACTACACACGTGA
51094909 CCACCACTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 38 0.51
102 32 0.43
103 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (102 bp):
TAGTAGCCTACACATAGTACTACACATGCGACCATCACTGTCCAATACACGTAGTAGCCTGCACA
TAGTACTACACACGTGATAGAAGCTATCTGGTACGCA
Found at i:51094931 original size:101 final size:102
Alignment explanation
Indices: 51094720--51094942 Score: 254
Period size: 101 Copynumber: 2.2 Consensus size: 102
51094710 ATGATACCGA
* *
51094720 TTCACGTAGTAGCCTACACATAGTACTACACATGTGACCATCACTGTCCAATACACGTAGTAGCC
1 TTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTGTCCAATACACGTAGTAGCC
* * **
51094785 TGCACATAGTACTACACACGTGATAGAAGCTATCTGG
66 TGCACATAGTACTACACACGTGACACAAGCTATCACG
* * * ***
51094822 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGC
1 TTCACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTGTCCAATACACGTAGTAGC
* * * *
51094885 CTGCATATAGTACTACACACGTGACCACCA-CTTTCACT
65 CTGCACATAGTACTACACACGTGA-CACAAGCTATCACG
*
51094923 TTCACATAGTGGCCTACACA
1 TTCACATAGTAGCCTACACA
51094943 CAGTCCATGC
Statistics
Matches: 99, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
101 58 0.59
102 37 0.37
103 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (102 bp):
TTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTGTCCAATACACGTAGTAGCC
TGCACATAGTACTACACACGTGACACAAGCTATCACG
Found at i:51103614 original size:96 final size:96
Alignment explanation
Indices: 51103450--51103642 Score: 325
Period size: 96 Copynumber: 2.0 Consensus size: 96
51103440 GAGGAGTATT
* *
51103450 GAGAATGTGCCTTAGACTTGCTAAATAATAGGTGTAGACCAAGTATTTAGGGATTTGTTAATTTG
1 GAGAATGTGCCTTAGACTAGCCAAATAATAGGTGTAGACCAAGTATTTAGGGATTTGTTAATTTG
*
51103515 TGGCATGATTTTAGGAGTAAGTTAGGATGTG
66 TGGCATGATTTTAGGAATAAGTTAGGATGTG
*
51103546 GAGAATGTGCCTTAGACTAGCCAAATAATAGGTGTAGACCAAGTATTTAGGGAATTT-TTAGTTT
1 GAGAATGTGCCTTAGACTAGCCAAATAATAGGTGTAGACCAAGTATTTAGGG-ATTTGTTAATTT
*
51103610 GTGGCATGATTTTATGAATAAGTTAGGATGTG
65 GTGGCATGATTTTAGGAATAAGTTAGGATGTG
51103642 G
1 G
51103643 TTAGATATCA
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
96 87 0.96
97 4 0.04
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (96 bp):
GAGAATGTGCCTTAGACTAGCCAAATAATAGGTGTAGACCAAGTATTTAGGGATTTGTTAATTTG
TGGCATGATTTTAGGAATAAGTTAGGATGTG
Found at i:51104166 original size:102 final size:101
Alignment explanation
Indices: 51104033--51104243 Score: 269
Period size: 101 Copynumber: 2.1 Consensus size: 101
51104023 AAATTATTTG
* * * * * ** * *
51104033 GTTAAGTAGAAATATGAGATATAAATGAAACATTTTAAATTCAATGTTAAAAGAAAAACCCCTAA
1 GTTAAATAGAAAAATGAAAAATAAATCAAACATCATAAATTCAATGTTAAAA-AAAAACCACAAA
51104098 TACCTTAACTAATTACTAAATAGATAGTAATCAATCA
65 TACCTTAACTAATTACTAAATAGATAGTAATCAATCA
*** * **
51104135 GTTAAATAGAAAAATGAAAAATAAATCAAACATCATAAATTGGTTGTTAAAACAAAATTACAAAT
1 GTTAAATAGAAAAATGAAAAATAAATCAAACATCATAAATTCAATGTTAAAAAAAAACCACAAAT
*
51104200 ACCTTAACTAATTACTAAATAGATAGTAATCAATCG
66 ACCTTAACTAATTACTAAATAGATAGTAATCAATCA
51104236 GTTAAATA
1 GTTAAATA
51104244 AATTACAAAT
Statistics
Matches: 93, Mismatches: 16, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
101 51 0.55
102 42 0.45
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (101 bp):
GTTAAATAGAAAAATGAAAAATAAATCAAACATCATAAATTCAATGTTAAAAAAAAACCACAAAT
ACCTTAACTAATTACTAAATAGATAGTAATCAATCA
Found at i:51105372 original size:27 final size:27
Alignment explanation
Indices: 51105314--51105372 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
51105304 GACAACCAGT
*
51105314 GTAGTTTATCGGAATAGTAAACACGAG
1 GTAGTCTATCGGAATAGTAAACACGAG
* *
51105341 ATAGTCTATCAGGAA-AGTAAACACGTG
1 GTAGTCTATC-GGAATAGTAAACACGAG
51105368 GTAGT
1 GTAGT
51105373 TCCTCACGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (27 bp):
GTAGTCTATCGGAATAGTAAACACGAG
Found at i:51110950 original size:195 final size:193
Alignment explanation
Indices: 51110618--51111004 Score: 512
Period size: 195 Copynumber: 2.0 Consensus size: 193
51110608 ACATTAGTTA
* * * * * *
51110618 TACATTCAAGAACTTGAGTAACAAAAATCATAAATACTACTAACAAAGATAACCAAAAAAGGTGT
1 TACATTCAAGAACTTAAGTAAAAAAAAACATAAATACTACTAACAAACAAAACCAAAAAAGGTGC
*
51110683 TTGACCTCTATTCGTTTATAAAAATGGTGAATTTCACTATAATTCCTGTAAATTCAAAATTTTTA
66 CTGACCTCTATTCGTTTATAAAAATGGTGAATTTCACTATAATTCCTGTAAATTCAAAATTTTTA
** * *
51110748 CAAATAACTTTTAAGAAATTTCCAAATATCCTCCTTTAAATTATATATATATCTGGGTTCAATTC
131 CAAATAACTTAAAACAAATTTCCAAATATCCTCATTTAAA-T-TATATATATCTGGGTTCAATTC
*
51110813 TACATTCAAGAACTTAAGTAAAAAAAAACATAAATA-TGACTAACAAAACAAAACCAAAAATGGT
1 TACATTCAAGAACTTAAGTAAAAAAAAACATAAATACT-ACTAAC-AAACAAAACCAAAAAAGGT
* * * * *
51110877 GCCTGACCTCTATTCG-TTGTGAAGATGGT-AGATTTTACTGTAATTCCTGTAAATTCCAAAA-T
64 GCCTGACCTCTATTCGTTTATAAAAATGGTGA-ATTTCACTATAATTCCTGTAAATT-CAAAATT
* * *
51110939 TTTCCAAATAACTTAAAACACATTTCCAAATATCCTCATTTAAATTATATATATCTGGTTTCAAT
127 TTTACAAATAACTTAAAACAAATTTCCAAATATCCTCATTTAAATTATATATATCTGGGTTCAAT
51111004 T
192 T
51111005 AACATGTGTT
Statistics
Matches: 168, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
193 20 0.12
194 3 0.02
195 110 0.65
196 35 0.21
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (193 bp):
TACATTCAAGAACTTAAGTAAAAAAAAACATAAATACTACTAACAAACAAAACCAAAAAAGGTGC
CTGACCTCTATTCGTTTATAAAAATGGTGAATTTCACTATAATTCCTGTAAATTCAAAATTTTTA
CAAATAACTTAAAACAAATTTCCAAATATCCTCATTTAAATTATATATATCTGGGTTCAATTC
Found at i:51111554 original size:38 final size:34
Alignment explanation
Indices: 51111512--51111584 Score: 92
Period size: 38 Copynumber: 2.0 Consensus size: 34
51111502 AAATAGATAA
51111512 AAAATTTAAAAATTATTTTTTTATTAAATAAAAACATT
1 AAAATTTAAAAATTA-TTTTTTA--AAATAAAAA-ATT
* *
51111550 AAAATTTTAAATTTATTTTTTAAAATAAAAAATT
1 AAAATTTAAAAATTATTTTTTAAAATAAAAAATT
51111584 A
1 A
51111585 TGAAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 4 0.12
35 9 0.27
37 7 0.21
38 13 0.39
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (34 bp):
AAAATTTAAAAATTATTTTTTAAAATAAAAAATT
Found at i:51112653 original size:17 final size:18
Alignment explanation
Indices: 51112614--51112652 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
51112604 TAACATTGAG
*
51112614 TTTTT-AAATTTTTTTTA
1 TTTTTAAAATATTTTTTA
51112631 TTTTTAAAATATTTTTTA
1 TTTTTAAAATATTTTTTA
51112649 TTTT
1 TTTT
51112653 ATGAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTAAAATATTTTTTA
Found at i:51123938 original size:41 final size:41
Alignment explanation
Indices: 51123867--51124007 Score: 126
Period size: 41 Copynumber: 3.4 Consensus size: 41
51123857 TTTAAACAGA
* * * *
51123867 TTCACTGGCACTTCA-CCTGATAGACTTATAGTCTAATTCCG
1 TTCACTGGCACTT-AGCCTGCTAGACCTATAGCCTAATTCAG
* *
51123908 TTCACTGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACTGGCACTTAGCCTGCTAGACCTATAGCCTAATTCAG
* * * * *
51123949 TTCA-TCGGCACTTAGCCTGCTGGACATATAATCC-GATTCAA
1 TTCACT-GGCACTTAGCCTGCTAGACCTAT-AGCCTAATTCAG
*
51123990 TTCACCGGCACTTAGCCT
1 TTCACTGGCACTTAGCCT
51124008 ACTGGACGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
40 2 0.02
41 79 0.94
42 3 0.04
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (41 bp):
TTCACTGGCACTTAGCCTGCTAGACCTATAGCCTAATTCAG
Found at i:51124013 original size:41 final size:41
Alignment explanation
Indices: 51123908--51124040 Score: 162
Period size: 41 Copynumber: 3.2 Consensus size: 41
51123898 TCTAATTCCG
* * * *
51123908 TTCACTGGCACTTAGCCTGCTAGG-CCTAT-AGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCT-GGACATATAATCC-GATTCAA
*
51123949 TTCATCGGCACTTAGCCTGCTGGACATATAATCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTGGACATATAATCCGATTCAA
* * *
51123990 TTCACCGGCACTTAGCCTACTGGACGTATAGTCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTGGACATATAATCCGATTCAA
51124031 TTCACCGGCA
1 TTCACCGGCA
51124041 ATAAATCTGA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 2 0.02
41 76 0.94
42 3 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTGGACATATAATCCGATTCAA
Found at i:51128814 original size:65 final size:65
Alignment explanation
Indices: 51128741--51128870 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
51128731 TGGGATGTGG
*
51128741 AATTATATTTTTCAAATTCATATAAGAAACCATTTGTTGGAGATAACTTTTTTTTAACCATCTTT
1 AATTATATTTTTCAAATTCATATAAGAAACCATTTGTTGGAGATAACTGTTTTTTAACCATCTTT
*
51128806 AATTATATTTTTCAAATTCATATTAGAAACCATTTGTTGGAGATAACTGTTTTTTAACCATCTTT
1 AATTATATTTTTCAAATTCATATAAGAAACCATTTGTTGGAGATAACTGTTTTTTAACCATCTTT
51128871 CCATCTTCAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (65 bp):
AATTATATTTTTCAAATTCATATAAGAAACCATTTGTTGGAGATAACTGTTTTTTAACCATCTTT
Found at i:51135814 original size:20 final size:21
Alignment explanation
Indices: 51135777--51135815 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
51135767 GACAACAGGG
* *
51135777 AGGGAAGCAGGGGTAGCAGCA
1 AGGGAAGCAGAGGCAGCAGCA
51135798 AGGG-AGCAGAGGCAGCAG
1 AGGGAAGCAGAGGCAGCAG
51135816 AGGTATTAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.33, C:0.15, G:0.49, T:0.03
Consensus pattern (21 bp):
AGGGAAGCAGAGGCAGCAGCA
Found at i:51138694 original size:71 final size:71
Alignment explanation
Indices: 51138578--51138720 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
51138568 CTTAAAAGTA
51138578 TGTTCACATTAGGATAAGATTCTCTTATGAACACGGGTGATAGGTTCCATTTGAAGTGGGTCAGA
1 TGTTCACATTAGGATAAGATTCTCTTATGAACACGGGTGATAGGTTCCATTTGAAGTGGGTCAGA
51138643 TGATTG
66 TGATTG
51138649 TGTTCACATTAGGATAAGATTCTCTTATGAACACGGGTGATAGGTTCCATTTGAAGTGGGTCAGA
1 TGTTCACATTAGGATAAGATTCTCTTATGAACACGGGTGATAGGTTCCATTTGAAGTGGGTCAGA
51138714 TGATTG
66 TGATTG
51138720 T
1 T
51138721 TCTCAAAGGG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (71 bp):
TGTTCACATTAGGATAAGATTCTCTTATGAACACGGGTGATAGGTTCCATTTGAAGTGGGTCAGA
TGATTG
Found at i:51139080 original size:7 final size:7
Alignment explanation
Indices: 51139064--51139100 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
51139054 CACCGATTTC
51139064 TTTT-GA
1 TTTTAGA
51139070 TTTTAGA
1 TTTTAGA
51139077 TTTTAGA
1 TTTTAGA
51139084 TTTTAGA
1 TTTTAGA
*
51139091 TTTTATA
1 TTTTAGA
51139098 TTT
1 TTT
51139101 GGGCTTTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (7 bp):
TTTTAGA
Found at i:51143992 original size:21 final size:19
Alignment explanation
Indices: 51143964--51144013 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
51143954 AACATGGGAA
51143964 TTAAATTATGTAAC-AATATT
1 TTAAATTAT-T-ACTAATATT
51143984 TTAAGATTATTACTAATATT
1 TTAA-ATTATTACTAATATT
*
51144004 TTAACTTATT
1 TTAAATTATT
51144014 TTATTATTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (19 bp):
TTAAATTATTACTAATATT
Found at i:51153913 original size:50 final size:50
Alignment explanation
Indices: 51153831--51154007 Score: 203
Period size: 50 Copynumber: 3.4 Consensus size: 50
51153821 TATCCGAGAT
** * * * *
51153831 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCTGTGCCAATGCCATGTCCCAAAC
**
51153881 ATGGTCTTACGGGGGACCTCTCATCTCTGTGCCAACT-CCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATCTCTGTGCCAA-TGCCATGTCCCAAAC
51153931 ATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTC---ATCTC--TG-TGCCAATGCCATGTCCCAAAC
*
51153987 ATGGTCTTACATGGGATCTCT
1 ATGGTCTTACATGGGACCTCT
51154008 TTACCTAAAT
Statistics
Matches: 108, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
50 60 0.56
51 1 0.01
53 5 0.05
55 3 0.03
56 39 0.36
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCTGTGCCAATGCCATGTCCCAAAC
Found at i:51166367 original size:15 final size:16
Alignment explanation
Indices: 51166339--51166372 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
51166329 TTTCTTTAGG
51166339 TTTTGTTTTGGTTGTT
1 TTTTGTTTTGGTTGTT
51166355 TTTTGTTTT-GTTGTT
1 TTTTGTTTTGGTTGTT
51166370 TTT
1 TTT
51166373 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (16 bp):
TTTTGTTTTGGTTGTT
Found at i:51167126 original size:2 final size:2
Alignment explanation
Indices: 51167119--51167172 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
51167109 CCCCAAACAA
51167119 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
51167161 CT CT CT CT CT CT
1 CT CT CT CT CT CT
51167173 AAGGCAATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:51170198 original size:81 final size:81
Alignment explanation
Indices: 51170063--51170232 Score: 313
Period size: 81 Copynumber: 2.1 Consensus size: 81
51170053 GAAATTAAAA
51170063 CCAAAGAAGGATGCAGAGCTGAAGCCCATGAATGATACTTTTGGTGACAATTTAAATATAATAAA
1 CCAAAGAAGGATGCAGAGCTGAAGCCCATGAATGATACTTTTGGTGACAATTTAAATATAATAAA
*
51170128 GGACACTGAACCGAAG
66 AGACACTGAACCGAAG
*
51170144 CCAAAGAAGGATGCAGAGCTGAAGCCCATGAATGATATTTTTGGTGACAATTTAAATATAATAAA
1 CCAAAGAAGGATGCAGAGCTGAAGCCCATGAATGATACTTTTGGTGACAATTTAAATATAATAAA
*
51170209 AGACACTGAACTGAAG
66 AGACACTGAACCGAAG
51170225 CCAAAGAA
1 CCAAAGAA
51170233 TAATTCTTTC
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (81 bp):
CCAAAGAAGGATGCAGAGCTGAAGCCCATGAATGATACTTTTGGTGACAATTTAAATATAATAAA
AGACACTGAACCGAAG
Found at i:51170374 original size:24 final size:24
Alignment explanation
Indices: 51170347--51170401 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
51170337 AGTTCAATGT
51170347 ATTGAAGGATTACAAGGTGAAAAC
1 ATTGAAGGATTACAAGGTGAAAAC
51170371 ATTGAAGGATTACAAGGTGAAAAC
1 ATTGAAGGATTACAAGGTGAAAAC
51170395 ATTGAAG
1 ATTGAAG
51170402 ACTGCTGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.45, C:0.07, G:0.25, T:0.22
Consensus pattern (24 bp):
ATTGAAGGATTACAAGGTGAAAAC
Found at i:51180316 original size:25 final size:25
Alignment explanation
Indices: 51180287--51180334 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
51180277 TATAGCCCGG
51180287 ATAAGC-TTCTTGTTACATGGCTCAC
1 ATAAGCTTTC-TGTTACATGGCTCAC
*
51180312 ATAAGCTTTCTGTTATATGGCTC
1 ATAAGCTTTCTGTTACATGGCTC
51180335 GAGAGAATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (25 bp):
ATAAGCTTTCTGTTACATGGCTCAC
Found at i:51186475 original size:99 final size:99
Alignment explanation
Indices: 51186352--51186548 Score: 376
Period size: 99 Copynumber: 2.0 Consensus size: 99
51186342 CACTTGTAGC
51186352 GGATCCTCCCTTTCCAATAACCGATGAAACATCAACAGATGGTTATTAAAAGTCCACGAAGCTTC
1 GGATCCTCCCTTTCCAATAACCGATGAAACATCAACAGATGGTTATTAAAAGTCCACGAAGCTTC
51186417 ATCCACCACACGATCTATATCCACTTTAAATAAT
66 ATCCACCACACGATCTATATCCACTTTAAATAAT
* *
51186451 GGATCCTCCCTTTCCAATAACCGATGAAACATCAACAGATGGTTATTGAAAGTCCACGACGCTTC
1 GGATCCTCCCTTTCCAATAACCGATGAAACATCAACAGATGGTTATTAAAAGTCCACGAAGCTTC
51186516 ATCCACCACACGATCTATATCCACTTTAAATAA
66 ATCCACCACACGATCTATATCCACTTTAAATAA
51186549 AAATAAAATA
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.26
Consensus pattern (99 bp):
GGATCCTCCCTTTCCAATAACCGATGAAACATCAACAGATGGTTATTAAAAGTCCACGAAGCTTC
ATCCACCACACGATCTATATCCACTTTAAATAAT
Found at i:51187930 original size:42 final size:41
Alignment explanation
Indices: 51187848--51187971 Score: 140
Period size: 42 Copynumber: 3.0 Consensus size: 41
51187838 GAATGTCAAC
* * * * *
51187848 ACCACACGGCCAGGGACATTGGTGTGTGTTCAGGCTGTGTGA
1 ACCACACGGGCAAGGACATGGGCGTGTGTCCAGGC-GTGTGA
*
51187890 ACCATACGGGCAAGGACATGGGCGTGTGTCCAGGTCGTGTGA
1 ACCACACGGGCAAGGACATGGGCGTGTGTCCAGG-CGTGTGA
* * *
51187932 GCCACACGGGTAAGGACATGGGCGTATGTCCAGGCCGTGT
1 ACCACACGGGCAAGGACATGGGCGTGTGTCCAGG-CGTGT
51187972 TACTCATTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
42 69 0.99
43 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.37, T:0.20
Consensus pattern (41 bp):
ACCACACGGGCAAGGACATGGGCGTGTGTCCAGGCGTGTGA
Found at i:51194916 original size:20 final size:21
Alignment explanation
Indices: 51194891--51194932 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
51194881 AGTGGCAAGT
51194891 TATTTTATT-TAATTCTTTAA
1 TATTTTATTATAATTCTTTAA
*
51194911 TATTTTATTATAATTTTTTAA
1 TATTTTATTATAATTCTTTAA
51194932 T
1 T
51194933 TACTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTTTATTATAATTCTTTAA
Found at i:51201929 original size:22 final size:22
Alignment explanation
Indices: 51201901--51201943 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
51201891 GCTTATCAAT
51201901 TCAAAACAAATGAAATAAAGCA
1 TCAAAACAAATGAAATAAAGCA
51201923 TCAAAACAAATGAAATAAAGC
1 TCAAAACAAATGAAATAAAGC
51201944 GTCTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.63, C:0.14, G:0.09, T:0.14
Consensus pattern (22 bp):
TCAAAACAAATGAAATAAAGCA
Found at i:51205136 original size:14 final size:14
Alignment explanation
Indices: 51205117--51205167 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
51205107 GAAGAGAATG
51205117 GAAAAAAAGAAAAA
1 GAAAAAAAGAAAAA
*
51205131 GAAAAAAAG-GAAA
1 GAAAAAAAGAAAAA
* *
51205144 GTTAAAAAACATAAAA
1 G-AAAAAAAGA-AAAA
51205160 GAAAAAAA
1 GAAAAAAA
51205168 ACTAAATTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 4 0.14
14 15 0.52
15 6 0.21
16 4 0.14
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (14 bp):
GAAAAAAAGAAAAA
Found at i:51208498 original size:93 final size:93
Alignment explanation
Indices: 51208383--51208565 Score: 330
Period size: 93 Copynumber: 2.0 Consensus size: 93
51208373 ATGTAATTAT
*
51208383 TATTTGAATCTCATAAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAGGAAA
1 TATTTGAATCTCATAAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAAGAAA
*
51208448 CAAAAGATTAGTGCAAATATAGCTCCCA
66 CAAAAGATTAGTGCAAAAATAGCTCCCA
* *
51208476 TATTTGAATCTCGTCAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAAGAAA
1 TATTTGAATCTCATAAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAAGAAA
51208541 CAAAAGATTAGTGCAAAAATAGCTC
66 CAAAAGATTAGTGCAAAAATAGCTC
51208566 GACGTTGTGG
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 86 1.00
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.25
Consensus pattern (93 bp):
TATTTGAATCTCATAAGCAAATAAGAATGCAATTTAATAAGAATGTAAAACTCGAAGATAAGAAA
CAAAAGATTAGTGCAAAAATAGCTCCCA
Found at i:51208667 original size:17 final size:16
Alignment explanation
Indices: 51208640--51208676 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
51208630 ATTTACCGAG
*
51208640 ATGAAACTTGAAGATA
1 ATGAAACTTGAAGACA
51208656 ATGAAGACTTGAAGACA
1 ATGAA-ACTTGAAGACA
51208673 ATGA
1 ATGA
51208677 CCACACTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.49, C:0.08, G:0.22, T:0.22
Consensus pattern (16 bp):
ATGAAACTTGAAGACA
Found at i:51214656 original size:4 final size:4
Alignment explanation
Indices: 51214641--51214716 Score: 52
Period size: 4 Copynumber: 19.0 Consensus size: 4
51214631 ATAAGTAAAT
* *
51214641 AAAG AAAT AAAG AAAG AAAG ATAG AAACG AAACAG AAAG AAA- AAAG -AAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG
* *
51214690 GAA- AAAG AAA- AAGG AAAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG -AAAG AAAG AAAG
51214717 GAGAAAGATA
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
3 10 0.18
4 37 0.65
5 6 0.11
6 3 0.05
7 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.22, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:51224735 original size:16 final size:15
Alignment explanation
Indices: 51224703--51224744 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
51224693 TTCTGATGGG
51224703 ATTGTTAAAATATTA
1 ATTGTTAAAATATTA
51224718 ATTGTATAAAACTA-TA
1 ATTGT-TAAAA-TATTA
51224734 ATT-TTAAAATA
1 ATTGTTAAAATA
51224745 AACTTTTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.08
14 5 0.20
15 6 0.24
16 10 0.40
17 2 0.08
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (15 bp):
ATTGTTAAAATATTA
Found at i:51241468 original size:54 final size:54
Alignment explanation
Indices: 51241383--51241493 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
51241373 TCTCTTGGTC
* *
51241383 TATGACAATGTATAAATTATAGATTTGTAATAAAAATTATGTAATTTAGTTAAA
1 TATGACAATGTATAAATAATAGATTTATAATAAAAATTATGTAATTTAGTTAAA
*
51241437 TATGACCATGTATAAATAATAGATTTATAATAAAAATTATGTAATTTAGTTAAA
1 TATGACAATGTATAAATAATAGATTTATAATAAAAATTATGTAATTTAGTTAAA
51241491 TAT
1 TAT
51241494 TTAATAGGTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.41
Consensus pattern (54 bp):
TATGACAATGTATAAATAATAGATTTATAATAAAAATTATGTAATTTAGTTAAA
Found at i:51252072 original size:22 final size:22
Alignment explanation
Indices: 51252016--51252113 Score: 80
Period size: 22 Copynumber: 4.5 Consensus size: 22
51252006 AGTGTTTGGG
51252016 TGGCATTCT-A-TTAGCCTTTA
1 TGGCATTCTGATTTAGCCTTTA
*
51252036 TGG-AGTACTCTGATTTTGCCTTTA
1 TGGCA-T--TCTGATTTAGCCTTTA
*
51252060 TGGCATTCTGATTTAGCCTTTG
1 TGGCATTCTGATTTAGCCTTTA
* *
51252082 TGGCATATTCTG--TTAGACTTTG
1 TGGC--ATTCTGATTTAGCCTTTA
51252104 TGGCATTCTG
1 TGGCATTCTG
51252114 TAGCTTTTGT
Statistics
Matches: 66, Mismatches: 4, Indels: 16
0.77 0.05 0.19
Matches are distributed among these distances:
19 1 0.02
20 10 0.15
22 34 0.52
23 1 0.02
24 19 0.29
25 1 0.02
ACGTcount: A:0.16, C:0.17, G:0.21, T:0.45
Consensus pattern (22 bp):
TGGCATTCTGATTTAGCCTTTA
Found at i:51252124 original size:19 final size:19
Alignment explanation
Indices: 51252055--51252128 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 19
51252045 CTGATTTTGC
*
51252055 CTTTATGGCATTCTGATTTAG
1 CTTTGTGGCATTCTG--TTAG
51252076 CCTTTGTGGCATATTCTGTTAG
1 -CTTTGTGGC--ATTCTGTTAG
51252098 ACTTTGTGGCATTCTG-TAG
1 -CTTTGTGGCATTCTGTTAG
51252117 CTTTTGTGGCAT
1 C-TTTGTGGCAT
51252129 ATTTTGTATG
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.02
19 13 0.28
20 6 0.13
22 21 0.45
24 6 0.13
ACGTcount: A:0.15, C:0.16, G:0.23, T:0.46
Consensus pattern (19 bp):
CTTTGTGGCATTCTGTTAG
Done.