Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005355.1 Hibiscus syriacus cultivar Beakdansim tig00012164_pilon, whole genome shotgun sequence
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: 204580
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:1510 original size:17 final size:18
Alignment explanation
Indices: 1473--1513 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1463 ATATTATGTA
*
1473 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
1491 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
1508 TTTACT
1 TTTACT
1514 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:10563 original size:67 final size:67
Alignment explanation
Indices: 10455--10593 Score: 269
Period size: 67 Copynumber: 2.1 Consensus size: 67
10445 AAGGGGATTT
10455 TTCTTATCAAGGAGTCATTTTTTTCCAGCTCAAATTTTCCAATCATTCATCATAAGTTAAGGTAA
1 TTCTTATCAAGGAGTCATTTTTTTCCAGCTCAAATTTTCCAATCATTCATCATAAGTTAAGGTAA
10520 GC
66 GC
*
10522 TTCTTATCAAGGAGTCATTTTTTTCTAGCTCAAATTTTCCAATCATTCATCATAAGTTAAGGTAA
1 TTCTTATCAAGGAGTCATTTTTTTCCAGCTCAAATTTTCCAATCATTCATCATAAGTTAAGGTAA
10587 GC
66 GC
10589 TTCTT
1 TTCTT
10594 CTTCATCTCT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 71 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.41
Consensus pattern (67 bp):
TTCTTATCAAGGAGTCATTTTTTTCCAGCTCAAATTTTCCAATCATTCATCATAAGTTAAGGTAA
GC
Found at i:13507 original size:16 final size:16
Alignment explanation
Indices: 13488--13522 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
13478 GATACATATG
*
13488 CAATCCATTTGTTATA
1 CAATCCATCTGTTATA
13504 CAATCCATCTGTTATA
1 CAATCCATCTGTTATA
13520 CAA
1 CAA
13523 CTTATTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (16 bp):
CAATCCATCTGTTATA
Found at i:14408 original size:2 final size:2
Alignment explanation
Indices: 14401--14426 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14391 GAATTGATTA
14401 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14427 TAGTTAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14543 original size:20 final size:20
Alignment explanation
Indices: 14501--14563 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
14491 GAATGTTGTG
* *
14501 GAAGGTTTTGGAAC-ATCATA
1 GAAGGTTTTAGAACTATGA-A
14521 GAAGGTTTTAGAACTATGAA
1 GAAGGTTTTAGAACTATGAA
*
14541 GAAGATTTTAGAA-TACTGAA
1 GAAGGTTTTAGAACTA-TGAA
14561 GAA
1 GAA
14564 ACTCATGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 2 0.05
20 33 0.87
21 3 0.08
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (20 bp):
GAAGGTTTTAGAACTATGAA
Found at i:14882 original size:17 final size:19
Alignment explanation
Indices: 14862--14898 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
14852 GTTGACTTAA
14862 TCATTAAG-A-CAAGAGAC
1 TCATTAAGAAGCAAGAGAC
14879 TCATTAAGAAGCAAGAGAC
1 TCATTAAGAAGCAAGAGAC
14898 T
1 T
14899 ATGTGTCGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 1 0.06
19 9 0.50
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (19 bp):
TCATTAAGAAGCAAGAGAC
Found at i:17064 original size:68 final size:69
Alignment explanation
Indices: 16984--17120 Score: 267
Period size: 68 Copynumber: 2.0 Consensus size: 69
16974 TAAGCTAATA
16984 GAACTAGTGAATAAGTCAATGACACTAGTTGGTGAAATTTGCCTAGAAATTATG-TTTGAACAGT
1 GAACTAGTGAATAAGTCAATGACACTAGTTGGTGAAATTTGCCTAGAAATTATGTTTTGAACAGT
17048 AAGT
66 AAGT
17052 GAACTAGTGAATAAGTCAATGACACTAGTTGGTGAAATTTGCCTAGAAATTATGTTTTGAACAGT
1 GAACTAGTGAATAAGTCAATGACACTAGTTGGTGAAATTTGCCTAGAAATTATGTTTTGAACAGT
17117 AAGT
66 AAGT
17121 TTAAAGAATT
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 54 0.79
69 14 0.21
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (69 bp):
GAACTAGTGAATAAGTCAATGACACTAGTTGGTGAAATTTGCCTAGAAATTATGTTTTGAACAGT
AAGT
Found at i:17417 original size:2 final size:2
Alignment explanation
Indices: 17405--17438 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
17395 TAAATTTTCA
*
17405 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17439 TAATACAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17814 original size:18 final size:18
Alignment explanation
Indices: 17746--17816 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 18
17736 AATGAATTCT
*
17746 AGATA-TTTAAAGTTATC
1 AGATATTTTACAGTTATC
*
17763 AGATGATTTT-TAGTTATC
1 AGAT-ATTTTACAGTTATC
* ** *
17781 AGCT-GGTTACAATTATC
1 AGATATTTTACAGTTATC
17798 AGATATTTTACAGTTATC
1 AGATATTTTACAGTTATC
17816 A
1 A
17817 AACGTAGATT
Statistics
Matches: 40, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
16 2 0.05
17 13 0.32
18 22 0.55
19 3 0.08
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (18 bp):
AGATATTTTACAGTTATC
Found at i:32578 original size:2 final size:2
Alignment explanation
Indices: 32571--32601 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
32561 ATACATATGA
32571 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32602 AATTTGTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32663 original size:2 final size:2
Alignment explanation
Indices: 32658--32692 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
32648 GTGTGTTTTT
32658 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32693 CAGATATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33158 original size:2 final size:2
Alignment explanation
Indices: 33153--33177 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33143 ATACACACAC
33153 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
33178 ACTATAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34055 original size:182 final size:182
Alignment explanation
Indices: 33748--34299 Score: 1086
Period size: 182 Copynumber: 3.0 Consensus size: 182
33738 ATACTTAAAT
33748 CAATGGTTTACATTGTGAAATCAAAAGCATGATCACTTTCAAATCAGAAACTTTTTTGAGTACTC
1 CAATGGTTTACATTGTGAAATCAAAAGCATGATCACTTTCAAATCAGAAACTTTTTTGAGTACTC
*
33813 CAACTATTTCTCCACAGTTTTGGAGTACTATGTTTCGAAAGACCTCCAAAACTAAACCTTCTTCT
66 CACCTATTTCTCCACAGTTTTGGAGTACTATGTTTCGAAAGACCTCCAAAACTAAACCTTCTTCT
33878 TCTTTGTACAAGTCTACTATGTTCCATATTTTATGAGCTAGGAAGATATTGA
131 TCTTTGTACAAGTCTACTATGTTCCATATTTTATGAGCTAGGAAGATATTGA
33930 CAATGGTTTACATTGTGAAATCAAAAGCATGATCACTTTCAAATCAGAAACTTTTTTGAGTACTC
1 CAATGGTTTACATTGTGAAATCAAAAGCATGATCACTTTCAAATCAGAAACTTTTTTGAGTACTC
33995 CACCTATTTCTCCACAGTTTTGGAGTACTATGTTTCGAAAGACCTCCAAAACTAAACCTTCTTCT
66 CACCTATTTCTCCACAGTTTTGGAGTACTATGTTTCGAAAGACCTCCAAAACTAAACCTTCTTCT
34060 TCTTTGTACAAGTCTACTATGTTCCATATTTTATGAGCTAGGAAGATATTGA
131 TCTTTGTACAAGTCTACTATGTTCCATATTTTATGAGCTAGGAAGATATTGA
34112 CAATGGTTTACATTGTGAAATCAAAAGCATGATCACTTTCAAATCAGAAACTTTTTTGAGTACTC
1 CAATGGTTTACATTGTGAAATCAAAAGCATGATCACTTTCAAATCAGAAACTTTTTTGAGTACTC
34177 CACCTATTTCTCCACAGTTTTGGAGTACTATGTTTCGAAAGACCTCCAAAACTAAACCTTCTTCT
66 CACCTATTTCTCCACAGTTTTGGAGTACTATGTTTCGAAAGACCTCCAAAACTAAACCTTCTTCT
*
34242 TCTTTGTACAAGTCTACTATGTTCCATATTTTATGAGCTTGGAAGATATTGA
131 TCTTTGTACAAGTCTACTATGTTCCATATTTTATGAGCTAGGAAGATATTGA
34294 CAATGG
1 CAATGG
34300 GATTTCATGC
Statistics
Matches: 368, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 368 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.36
Consensus pattern (182 bp):
CAATGGTTTACATTGTGAAATCAAAAGCATGATCACTTTCAAATCAGAAACTTTTTTGAGTACTC
CACCTATTTCTCCACAGTTTTGGAGTACTATGTTTCGAAAGACCTCCAAAACTAAACCTTCTTCT
TCTTTGTACAAGTCTACTATGTTCCATATTTTATGAGCTAGGAAGATATTGA
Found at i:35934 original size:14 final size:13
Alignment explanation
Indices: 35906--35933 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35896 ACGTGCATCC
35906 TTACGTAACTTTT
1 TTACGTAACTTTT
35919 TTACGTAACTTTT
1 TTACGTAACTTTT
35932 TT
1 TT
35934 TTGACAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (13 bp):
TTACGTAACTTTT
Found at i:40639 original size:2 final size:2
Alignment explanation
Indices: 40632--40679 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
40622 TTTATACTCG
40632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
40674 AT AT AT
1 AT AT AT
40680 TTTAACGTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47455 original size:21 final size:21
Alignment explanation
Indices: 47429--47473 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
47419 GATTTCTGGG
* *
47429 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
47450 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
47471 CAA
1 CAA
47474 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:48235 original size:31 final size:31
Alignment explanation
Indices: 48141--48235 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
48131 AGTCGAGGGT
*
48141 TTTACCTATG-TCTTTCGAGACATATGGACAG
1 TTTACCTATGTTCTTT-GGGACATATGGACAG
* ** *
48172 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTATGTTCTTTGGGACATATGGACAG
* *
48203 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTATGTTCTTTGGGACATATGGACAG
48234 TT
1 TT
48236 GTCGAGGTTC
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 49 0.94
32 3 0.06
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (31 bp):
TTTACCTATGTTCTTTGGGACATATGGACAG
Found at i:52330 original size:21 final size:21
Alignment explanation
Indices: 52304--52348 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
52294 GATTTCTGGG
* *
52304 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
52325 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
52346 CAA
1 CAA
52349 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:53122 original size:31 final size:31
Alignment explanation
Indices: 53028--53135 Score: 103
Period size: 31 Copynumber: 3.5 Consensus size: 31
53018 AGTCGAGGGT
* *
53028 TTTACCTATG-TCTTTCGAGACATATGGACAG
1 TTTACCTAGGTTCTTT-GGGACATATGGACAG
* * ** *
53059 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
53090 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
* *
53121 -TTGCCGAGGTTCTTT
1 TTTACCTAGGTTCTTT
53136 ATGACCTCTG
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
30 13 0.21
31 47 0.75
32 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:53142 original size:30 final size:30
Alignment explanation
Indices: 53050--53156 Score: 90
Period size: 31 Copynumber: 3.5 Consensus size: 30
53040 TTTCGAGACA
* * * *
53050 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCGAGGTTCTTTAGG-ACC
* *
53081 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAG-TTACCGAGGTTCTTTAGGACC
* *
53112 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
53142 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
53157 GGGTCTGTGT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
30 29 0.46
31 30 0.48
32 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:54173 original size:100 final size:100
Alignment explanation
Indices: 54000--54205 Score: 385
Period size: 100 Copynumber: 2.1 Consensus size: 100
53990 CTCGTATGTC
*
54000 CATGTACTCCCTAAACACACAACAGTATTTCTCTTTATTAGCAAATATTAATGTTAACATTAGAG
1 CATGTCCTCCCTAAACACACAACAGTATTTCTCTTTATTAGCAAATATTAATGTTAACATTAGAG
54065 AAAAATAAAAAGTAAATAATTACATATGTACCTGT
66 AAAAATAAAAAGTAAATAATTACATATGTACCTGT
*
54100 CATGTCCTCCTTAAACACACAACAGTATTTCTCTTTATTAGCAAATATTAATGTTAACATTAGAG
1 CATGTCCTCCCTAAACACACAACAGTATTTCTCTTTATTAGCAAATATTAATGTTAACATTAGAG
*
54165 AAAAATAAAAAGTAAATAATTACATATGTATCTGT
66 AAAAATAAAAAGTAAATAATTACATATGTACCTGT
54200 CATGTC
1 CATGTC
54206 TTTATTTTGA
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 103 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (100 bp):
CATGTCCTCCCTAAACACACAACAGTATTTCTCTTTATTAGCAAATATTAATGTTAACATTAGAG
AAAAATAAAAAGTAAATAATTACATATGTACCTGT
Found at i:54465 original size:95 final size:95
Alignment explanation
Indices: 54302--54491 Score: 337
Period size: 95 Copynumber: 2.0 Consensus size: 95
54292 AAGGCTTCCA
*
54302 ATGCTTCGTGTGACAATAAAAAGTTAGAAGAAAAATAGAATTATCATTAAGCTTTAATTTCATAA
1 ATGCTTCGCGTGACAATAAAAAGTTAGAAGAAAAATAGAATTATCATTAAGCTTTAATTTCATAA
54367 AGCAAGAGCTAAGATCATTGCAAAAAGATG
66 AGCAAGAGCTAAGATCATTGCAAAAAGATG
* *
54397 ATGCTTCGCGTGACAATGAAAAGTTAGAAGAAAAATAGAATTAAT-ATTAAGGTTTAATTTCATA
1 ATGCTTCGCGTGACAATAAAAAGTTAGAAGAAAAATAGAATT-ATCATTAAGCTTTAATTTCATA
54461 AAGCAAGAGCTAAGATCATTGCAAAAAGATG
65 AAGCAAGAGCTAAGATCATTGCAAAAAGATG
54492 TACGAGAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 89 0.98
96 2 0.02
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.27
Consensus pattern (95 bp):
ATGCTTCGCGTGACAATAAAAAGTTAGAAGAAAAATAGAATTATCATTAAGCTTTAATTTCATAA
AGCAAGAGCTAAGATCATTGCAAAAAGATG
Found at i:54786 original size:17 final size:17
Alignment explanation
Indices: 54764--54803 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
54754 ACTTAATTAA
54764 ATATTTAATAAATTTTT
1 ATATTTAATAAATTTTT
54781 ATATTTAATAAATTTTT
1 ATATTTAATAAATTTTT
54798 ATATTT
1 ATATTT
54804 TTTAGTTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATTTAATAAATTTTT
Found at i:54866 original size:17 final size:17
Alignment explanation
Indices: 54825--54869 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
54815 CCCTATTTGA
54825 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
** **
54842 TTTTATATTTTTTAAAT
1 TTAAATATTTAATAAAT
54859 TTAAATATTTA
1 TTAAATATTTA
54870 TTTTTACATG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Found at i:60790 original size:2 final size:2
Alignment explanation
Indices: 60785--60820 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
60775 TATGTACTTG
60785 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60821 TGGATAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64178 original size:63 final size:63
Alignment explanation
Indices: 64079--64353 Score: 505
Period size: 63 Copynumber: 4.4 Consensus size: 63
64069 ATAATACCTT
*
64079 CTCCACTCCCAAGACTTCCGCCATTACCTTTTCCAGTCATTCCACCATTACCATCTTTGCTTC
1 CTCCACTCCCAAGACTTCCGCCATTACCTTTGCCAGTCATTCCACCATTACCATCTTTGCTTC
*
64142 CTCCAATCCCAAGACTTCCGCCATTACCTTTGCCAGTCATTCCACCATTACCATCTTTGCTTC
1 CTCCACTCCCAAGACTTCCGCCATTACCTTTGCCAGTCATTCCACCATTACCATCTTTGCTTC
64205 CTCCACTCCCAAGACTTCCGCCATTACCTTTGCCAGTCATTCCACCATTACCATCTTTGCTTC
1 CTCCACTCCCAAGACTTCCGCCATTACCTTTGCCAGTCATTCCACCATTACCATCTTTGCTTC
*
64268 CTCCACTCCCAAGACTTCCGCCATTACCTTTGCCAGTCATTCCACCATTACCATCTTTTCTTC
1 CTCCACTCCCAAGACTTCCGCCATTACCTTTGCCAGTCATTCCACCATTACCATCTTTGCTTC
* *
64331 CTCCATTCCCAAGACCTCCGCCA
1 CTCCACTCCCAAGACTTCCGCCA
64354 GTCATAATTC
Statistics
Matches: 206, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 206 1.00
ACGTcount: A:0.20, C:0.42, G:0.07, T:0.31
Consensus pattern (63 bp):
CTCCACTCCCAAGACTTCCGCCATTACCTTTGCCAGTCATTCCACCATTACCATCTTTGCTTC
Found at i:65281 original size:19 final size:19
Alignment explanation
Indices: 65257--65296 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
65247 ACCCTAAATT
65257 AATT-AAAAAATAAATATTA
1 AATTAAAAAAATAAAT-TTA
65276 AATTAAAAAAATAAATTTA
1 AATTAAAAAAATAAATTTA
65295 AA
1 AA
65297 CAAAGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTAAAAAAATAAATTTA
Found at i:70090 original size:3 final size:3
Alignment explanation
Indices: 70082--70130 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
70072 TCTCTATATT
*
70082 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
70129 AT
1 AT
70131 TATTCAATCT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:77208 original size:192 final size:191
Alignment explanation
Indices: 76879--77286 Score: 672
Period size: 192 Copynumber: 2.1 Consensus size: 191
76869 TGTAAAGATG
*
76879 AGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGAATAGATCA
1 AGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTAGCTTTATGAATAGATCA
* *
76944 CATTCAAACCATGACATTGCTCGGACACTTGGCGATTCGGTGTTTGCTCTACTGCTTTTGTCAGG
66 CATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTTTGTCAGG
* * **
77009 TTGAAGACTTTGTGATGAGATGAACCCTTCAGTTAAGCCTAATAAAGGTGATTATAATATTA
131 CTGAAGACTTTGTGATGAGATGAACCCTTCAGTTAAACCTAATAAAAAT-ATTATAATATTA
**
77071 AGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTAGCTTTATGAATAGATTG
1 AGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTAGCTTTATGAATAGATCA
*
77136 CATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTTTGTTAGG
66 CATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTTTGTCAGG
*
77201 CTGAAGACTTTGTGATGAGATGAACCCTTCAGTTAAACCTGATAAAAATATTATAATATTA
131 CTGAAGACTTTGTGATGAGATGAACCCTTCAGTTAAACCTAATAAAAATATTATAATATTA
* * * *
77262 AGCTGTCCCTCTAAAGCAATTGGTT
1 AGCTATTCCACTAAGGCAATTGGTT
77287 GAACGCCCCA
Statistics
Matches: 201, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
191 33 0.16
192 168 0.84
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (191 bp):
AGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTAGCTTTATGAATAGATCA
CATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTTTGTCAGG
CTGAAGACTTTGTGATGAGATGAACCCTTCAGTTAAACCTAATAAAAATATTATAATATTA
Found at i:78424 original size:36 final size:36
Alignment explanation
Indices: 78382--78485 Score: 91
Period size: 36 Copynumber: 2.9 Consensus size: 36
78372 ATATACTTTG
78382 TCTCACTTGAGACTGTTTTTCTCGAAAGAAGATTTA
1 TCTCACTTGAGACTGTTTTTCTCGAAAGAAGATTTA
* ** * ** * *
78418 TTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTG
1 TCTCACTTGAGACTGTTTTTCTCGAAAGAAGATTTA
* ** *
78454 TCTCGCTTGAGACCATTTTCACTCGAAAGAAG
1 TCTCACTTGAGACTGTTTT-TCTCGAAAGAAG
78486 GCATTTCATC
Statistics
Matches: 48, Mismatches: 19, Indels: 1
0.71 0.28 0.01
Matches are distributed among these distances:
36 40 0.83
37 8 0.17
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (36 bp):
TCTCACTTGAGACTGTTTTTCTCGAAAGAAGATTTA
Found at i:78435 original size:72 final size:73
Alignment explanation
Indices: 78343--78485 Score: 184
Period size: 72 Copynumber: 2.0 Consensus size: 73
78333 ATGCAGATGA
* * ** *
78343 TTATCTCACTCAAATTTGTTTTTCTTAAAATATA-CTTTGTCTCACTTGAGACTGTTTT-TCTCG
1 TTATCTCACTCAAATTTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCATTTTCACTCG
78406 AAAGAAGAT
65 AAAGAAGAT
* *
78415 TTATTTCACTCAAGA-TTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCATTTTCACTCG
1 TTATCTCACTCAA-ATTTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCATTTTCACTCG
78479 AAAGAAG
65 AAAGAAG
78486 GCATTTCATC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
71 1 0.02
72 48 0.79
73 12 0.20
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (73 bp):
TTATCTCACTCAAATTTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCATTTTCACTCGA
AAGAAGAT
Found at i:78666 original size:39 final size:39
Alignment explanation
Indices: 78609--78687 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
78599 CCTTGAAATT
* *
78609 AATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACATAA
1 AATTTTGTCTCTCCTGAGACAGTTTCCCTCGAAACATAA
* *
78648 AATTTTGTCTC-CCTTGAGACAGTTTCTCTTGAAACATAA
1 AATTTTGTCTCTCC-TGAGACAGTTTCCCTCGAAACATAA
78687 A
1 A
78688 CATTGAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 33 0.94
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (39 bp):
AATTTTGTCTCTCCTGAGACAGTTTCCCTCGAAACATAA
Found at i:78702 original size:104 final size:103
Alignment explanation
Indices: 78586--78903 Score: 505
Period size: 104 Copynumber: 3.1 Consensus size: 103
78576 ACAGTTTCTC
* *
78586 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACATAAAAT
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACA-AAAAT
78651 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
65 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
*
78690 TTGAAAACATTTCCCTTGAAATGATTTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAAT
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACA-AAAAT
*
78755 TTTGTCTCCCTTAAGACAGTTTCTCTTGAAACATAAACA
65 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * * *
78794 TTGAAAACATTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC--GAATT
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAAAAATT
** *
78857 TTGTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 TTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
78895 TTGAAAACA
1 TTGAAAACA
78904 ATTTAACGAA
Statistics
Matches: 200, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
101 47 0.23
104 153 0.76
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (103 bp):
TTGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAAAAATT
TTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:78850 original size:36 final size:36
Alignment explanation
Indices: 78803--78878 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
78793 ATTGAAAACA
* * *
78803 TTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
*
78839 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
78875 TTTC
1 TTTC
78879 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:79297 original size:105 final size:105
Alignment explanation
Indices: 79078--79706 Score: 928
Period size: 105 Copynumber: 6.0 Consensus size: 105
79068 ATATCGTGAC
* * * * * * *
79078 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGATGGTTGTCAACAACAACTTCTC-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
79142 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
79182 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
79247 ATTTCATAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
79287 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
79352 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
79392 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
79457 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
79497 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
* *
79558 A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* ** * * * * *
79597 ACTCGAGACAACATAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACAACTTCCC
** * * * *
79662 GGTTCCAGAGCCAATTTCAACTTCACGATGGAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
79703 ACTC
1 ACTC
79707 GGAACAATGC
Statistics
Matches: 483, Mismatches: 35, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
100 80 0.17
101 3 0.01
102 3 0.01
103 4 0.01
104 61 0.13
105 296 0.61
106 36 0.07
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:80300 original size:37 final size:37
Alignment explanation
Indices: 80244--80347 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
80234 ACATTTCGTC
80244 CTACT-AGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
* * * * * *
80280 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
* * *
80317 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAAGATTCAAACTCCTAAAAATAGGAT
80348 CCACAAGCAC
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
36 3 0.06
37 51 0.94
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.31
Consensus pattern (37 bp):
CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:80739 original size:28 final size:28
Alignment explanation
Indices: 80678--80758 Score: 69
Period size: 28 Copynumber: 2.9 Consensus size: 28
80668 TAAAAATCTA
*
80678 TATTAGTCATTTTATTTATTATATGGAT
1 TATTATTCATTTTATTTATTATATGGAT
* *
80706 TTTTATTCATTTATTTTTATTATCAT-G-T
1 TATTATTCATTT-TATTTATTAT-ATGGAT
*
80734 TATTATT-ATTATATGTTATATATAT
1 TATTATTCATTTTAT-TTAT-TATAT
80759 ATATATATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
26 2 0.05
27 9 0.21
28 20 0.47
29 10 0.23
30 2 0.05
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (28 bp):
TATTATTCATTTTATTTATTATATGGAT
Found at i:82776 original size:14 final size:14
Alignment explanation
Indices: 82757--82786 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
82747 GGCAAACACT
82757 TGGCAATGTGGAAG
1 TGGCAATGTGGAAG
82771 TGGCAATGTGGAAG
1 TGGCAATGTGGAAG
82785 TG
1 TG
82787 ATTTAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.43, T:0.23
Consensus pattern (14 bp):
TGGCAATGTGGAAG
Found at i:83858 original size:68 final size:71
Alignment explanation
Indices: 83768--83902 Score: 213
Period size: 68 Copynumber: 1.9 Consensus size: 71
83758 AACGTGCTGG
** * *
83768 ACATTGATACATGAATGTACCAAAGCTGATATGATAACA-TGATAC-C-AATGTACCAAAGCTGA
1 ACATTGATACACAAATATACCAAAGCTGATATAATAACATTGATACACAAATGTACCAAAGCTGA
83830 TATGAT
66 TATGAT
83836 ACATTGATACACAAATATACCAAAGCTGATATAATAACATTGATACACAAATGTACCAAAGCTGA
1 ACATTGATACACAAATATACCAAAGCTGATATAATAACATTGATACACAAATGTACCAAAGCTGA
83901 TA
66 TA
83903 ATGGATAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
68 35 0.58
69 6 0.10
70 1 0.02
71 18 0.30
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (71 bp):
ACATTGATACACAAATATACCAAAGCTGATATAATAACATTGATACACAAATGTACCAAAGCTGA
TATGAT
Found at i:83883 original size:36 final size:36
Alignment explanation
Indices: 83768--83902 Score: 206
Period size: 36 Copynumber: 3.9 Consensus size: 36
83758 AACGTGCTGG
**
83768 ACATTGATACATGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACAAATGTACCAAAGCTGATATGATA
83804 ACA-TGATAC-C-AATGTACCAAAGCTGATATGAT-
1 ACATTGATACACAAATGTACCAAAGCTGATATGATA
* *
83836 ACATTGATACACAAATATACCAAAGCTGATATAATA
1 ACATTGATACACAAATGTACCAAAGCTGATATGATA
83872 ACATTGATACACAAATGTACCAAAGCTGATA
1 ACATTGATACACAAATGTACCAAAGCTGATA
83903 ATGGATAAAT
Statistics
Matches: 91, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
32 3 0.03
33 28 0.31
34 1 0.01
35 26 0.29
36 33 0.36
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (36 bp):
ACATTGATACACAAATGTACCAAAGCTGATATGATA
Found at i:94532 original size:13 final size:13
Alignment explanation
Indices: 94516--94542 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
94506 AAAATTAAAT
94516 AATATGATATTAA
1 AATATGATATTAA
94529 AATATGATATTAA
1 AATATGATATTAA
94542 A
1 A
94543 CTTCATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (13 bp):
AATATGATATTAA
Found at i:95097 original size:27 final size:27
Alignment explanation
Indices: 95067--95140 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
95057 AATTTTTTAA
95067 AGAATAAGTTTGGATCAAGTTTTCTAG
1 AGAATAAGTTTGGATCAAGTTTTCTAG
*
95094 AGAATATA-TTT-GAGTCAAGTTTTTTAG
1 AGAATA-AGTTTGGA-TCAAGTTTTCTAG
95121 AGAATAAGTTTGGATCAAGT
1 AGAATAAGTTTGGATCAAGT
95141 CATATTCGAG
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
26 3 0.07
27 36 0.86
28 3 0.07
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (27 bp):
AGAATAAGTTTGGATCAAGTTTTCTAG
Found at i:96940 original size:20 final size:20
Alignment explanation
Indices: 96915--96956 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
96905 GTCATCAAGC
96915 AACTAAAGGAAGATGATGAA
1 AACTAAAGGAAGATGATGAA
*
96935 AACTAAAGGGAGATGATGAA
1 AACTAAAGGAAGATGATGAA
96955 AA
1 AA
96957 ATGAATACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.26, T:0.14
Consensus pattern (20 bp):
AACTAAAGGAAGATGATGAA
Found at i:97476 original size:17 final size:18
Alignment explanation
Indices: 97451--97485 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
97441 ATACTACTAA
97451 TTATCTTTTTTAATAAAT
1 TTATCTTTTTTAATAAAT
*
97469 TTAT-TTTTTTCATAAAT
1 TTATCTTTTTTAATAAAT
97486 ATAAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATCTTTTTTAATAAAT
Found at i:103196 original size:21 final size:21
Alignment explanation
Indices: 103152--103222 Score: 101
Period size: 21 Copynumber: 3.5 Consensus size: 21
103142 TAACATTGGG
* *
103152 GAGTATGAATACTC-AAC-CA
1 GAGTATGAATGCTCAAACAAA
103171 GAGTATGAATGCTCAAACAAA
1 GAGTATGAATGCTCAAACAAA
103192 GAGTATGAATGCTCAAACAAA
1 GAGTATGAATGCTCAAACAAA
*
103213 GAGCATGAAT
1 GAGTATGAAT
103223 ACTTGATACT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 13 0.28
20 3 0.06
21 31 0.66
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (21 bp):
GAGTATGAATGCTCAAACAAA
Found at i:103264 original size:20 final size:20
Alignment explanation
Indices: 103227--103264 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
103217 ATGAATACTT
*
103227 GATACTTGAGTAAGAATATG
1 GATACTTGAGTAACAATATG
*
103247 GATACTTGAGTATCAATA
1 GATACTTGAGTAACAATA
103265 CTCACTCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (20 bp):
GATACTTGAGTAACAATATG
Found at i:103405 original size:20 final size:20
Alignment explanation
Indices: 103358--103409 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
103348 TTGAACTATT
103358 CAATATCGATATTGTCCAAGG
1 CAATATCGATATTGTCCAA-G
* *
103379 GAATATCGATATTGTTCATA-
1 CAATATCGATATTGTCCA-AG
103399 CAATATCGATA
1 CAATATCGATA
103410 GTACATGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.37
21 16 0.59
22 1 0.04
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
CAATATCGATATTGTCCAAG
Found at i:111422 original size:2 final size:2
Alignment explanation
Indices: 111415--111441 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
111405 GGCTTGTATG
111415 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
111442 CACACAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:113366 original size:22 final size:23
Alignment explanation
Indices: 113335--113381 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
113325 TAATCGCGAG
113335 TTTAGAAGATACGA-TTCTGGGC
1 TTTAGAAGATACGATTTCTGGGC
* *
113357 TTTAGCAGATACGATTTTTGGGC
1 TTTAGAAGATACGATTTCTGGGC
113380 TT
1 TT
113382 ATTTAGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (23 bp):
TTTAGAAGATACGATTTCTGGGC
Found at i:115629 original size:2 final size:2
Alignment explanation
Indices: 115617--115652 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
115607 CCACAAACAC
115617 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
115653 ATTAAGCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:118084 original size:60 final size:60
Alignment explanation
Indices: 117962--118105 Score: 166
Period size: 60 Copynumber: 2.4 Consensus size: 60
117952 TCATCCTCAT
**
117962 ACTTTTGAATATTAC-AATTTCATCCCTAAACTATGACTCTCAATCTAAATTAATACTTAA
1 ACTTTTGAATATT-CTAATTTCATCCCTAAACTATGACTCTCAATCTAAATTAATACCCAA
* * * ** *
118022 ACTTTTGATTATTCTAATTTTATCCCTAAACTATGACTCT-ATTTCTAAATTGGTTCCCAA
1 ACTTTTGAATATTCTAATTTCATCCCTAAACTATGACTCTCA-ATCTAAATTAATACCCAA
* *
118082 ACTTTTAAATAGTCTAATTTCATC
1 ACTTTTGAATATTCTAATTTCATC
118106 TTCAAATTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 2 0.03
60 68 0.97
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.42
Consensus pattern (60 bp):
ACTTTTGAATATTCTAATTTCATCCCTAAACTATGACTCTCAATCTAAATTAATACCCAA
Found at i:126378 original size:38 final size:38
Alignment explanation
Indices: 126334--126414 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
126324 GGTTTATTTA
*
126334 AATTAAATT-TAAAATTATCATTTTACTAATCAAAATAT
1 AATTAAATTGTAAAATTATAATTTT-CTAATCAAAATAT
** * *
126372 AATTAAATTGTAACTTTATAATTTTTTAATCATAATAT
1 AATTAAATTGTAAAATTATAATTTTCTAATCAAAATAT
126410 AATTA
1 AATTA
126415 TATGATAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 25 0.68
39 12 0.32
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (38 bp):
AATTAAATTGTAAAATTATAATTTTCTAATCAAAATAT
Found at i:133412 original size:38 final size:38
Alignment explanation
Indices: 133343--133421 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
133333 AATTTTATAC
* *
133343 CTTTTAAATTTTTAATATAACTTCTTTAAAAATTTACA
1 CTTTTAAACTTTTAATATAACATCTTTAAAAATTTACA
* *
133381 CTTTCTAAACTTTTAATTTAACATC-TTAAAAATTTAGA
1 CTTT-TAAACTTTTAATATAACATCTTTAAAAATTTACA
133419 CTT
1 CTT
133422 ATAATATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
38 19 0.53
39 17 0.47
ACGTcount: A:0.38, C:0.13, G:0.01, T:0.48
Consensus pattern (38 bp):
CTTTTAAACTTTTAATATAACATCTTTAAAAATTTACA
Found at i:138853 original size:911 final size:911
Alignment explanation
Indices: 137093--138912 Score: 3640
Period size: 911 Copynumber: 2.0 Consensus size: 911
137083 TCTTCTTATG
137093 CTCCACAAATTTGAAATTTTTCAAGAGATACTTTCTTAGAAATCCACAGGATTCAACCCAAATGT
1 CTCCACAAATTTGAAATTTTTCAAGAGATACTTTCTTAGAAATCCACAGGATTCAACCCAAATGT
137158 GTTTCTTATTATAAAAATCTAATATTTTAATCTGCATTAAAATAGAAGAAGTTATGATCCAAAAA
66 GTTTCTTATTATAAAAATCTAATATTTTAATCTGCATTAAAATAGAAGAAGTTATGATCCAAAAA
137223 AATTATGTATTATAATTTACATAATGTACTTTCATACATACATACATACATACCAATCTCTTAGC
131 AATTATGTATTATAATTTACATAATGTACTTTCATACATACATACATACATACCAATCTCTTAGC
137288 ATCCTTCACTCTCTGTTTAGCTGCTTCAGTTGTAAACATACTATCATATATTGTTGCAACACGAT
196 ATCCTTCACTCTCTGTTTAGCTGCTTCAGTTGTAAACATACTATCATATATTGTTGCAACACGAT
137353 CTACCATATCCAACACTAACAGATACCAATGTGAATTATGGTAGTTTATTGTGATCATGATCTGC
261 CTACCATATCCAACACTAACAGATACCAATGTGAATTATGGTAGTTTATTGTGATCATGATCTGC
137418 AACAAATTTCACACCTAATTTGACAAAATTCAACATTCTATAACCGAAAACATCATTTGCAATTG
326 AACAAATTTCACACCTAATTTGACAAAATTCAACATTCTATAACCGAAAACATCATTTGCAATTG
137483 GTATGGTGTCTTACCTTCTCACAGTCGGTGAATTTCACATAGTTATTCAATATGGGACCCCAGAA
391 GTATGGTGTCTTACCTTCTCACAGTCGGTGAATTTCACATAGTTATTCAATATGGGACCCCAGAA
137548 AGTGGCAATACTCTCAACACTTTCTTTGTTGTTGGCATCCAACGCCTGCTGCTGCAATTACGCAA
456 AGTGGCAATACTCTCAACACTTTCTTTGTTGTTGGCATCCAACGCCTGCTGCTGCAATTACGCAA
137613 CAAACATTATTAATTTACCGTCTATAACACTATTTATCTCCATTTATTAATTTAACTCACCGCTA
521 CAAACATTATTAATTTACCGTCTATAACACTATTTATCTCCATTTATTAATTTAACTCACCGCTA
137678 AGTGGTATGGAAGGTAGCCAATCCTCCGGAGTGACTTCTGAGAATCGTAGCATATTGTCCAGGCG
586 AGTGGTATGGAAGGTAGCCAATCCTCCGGAGTGACTTCTGAGAATCGTAGCATATTGTCCAGGCG
137743 AGCAAATCAATAACCTAACAAAATTAATTACACAATCATAACATATTCAATAAGTTTTAACATTT
651 AGCAAATCAATAACCTAACAAAATTAATTACACAATCATAACATATTCAATAAGTTTTAACATTT
137808 TCTACTTTCTACTTACCATACCGCCAACCCATTCCGTAGGCTTCAACGTTGCAACGTCGTATACA
716 TCTACTTTCTACTTACCATACCGCCAACCCATTCCGTAGGCTTCAACGTTGCAACGTCGTATACA
137873 CTAGCGAATTGATTTCTCATTGAGATTACAGAATATATGTATGAATCATTAGGATTAATATGTTG
781 CTAGCGAATTGATTTCTCATTGAGATTACAGAATATATGTATGAATCATTAGGATTAATATGTTG
137938 TCATGAAACATTTAAATATAACTCACAAAGCAATATATTTCACTTACTCCGATTCTAACTCACTT
846 TCATGAAACATTTAAATATAACTCACAAAGCAATATATTTCACTTACTCCGATTCTAACTCACTT
138003 A
911 A
138004 CTCCACAAATTTGAAATTTTTCAAGAGATACTTTCTTAGAAATCCACAGGATTCAACCCAAATGT
1 CTCCACAAATTTGAAATTTTTCAAGAGATACTTTCTTAGAAATCCACAGGATTCAACCCAAATGT
138069 GTTTCTTATTATAAAAATCTAATATTTTAATCTGCATTAAAATAGAAGAAGTTATGATCCAAAAA
66 GTTTCTTATTATAAAAATCTAATATTTTAATCTGCATTAAAATAGAAGAAGTTATGATCCAAAAA
138134 AATTATGTATTATAATTTACATAATGTACTTTCATACATACATACATACATACCAATCTCTTAGC
131 AATTATGTATTATAATTTACATAATGTACTTTCATACATACATACATACATACCAATCTCTTAGC
138199 ATCCTTCACTCTCTGTTTAGCTGCTTCAGTTGTAAACATACTATCATATATTGTTGCAACACGAT
196 ATCCTTCACTCTCTGTTTAGCTGCTTCAGTTGTAAACATACTATCATATATTGTTGCAACACGAT
138264 CTACCATATCCAACACTAACAGATACCAATGTGAATTATGGTAGTTTATTGTGATCATGATCTGC
261 CTACCATATCCAACACTAACAGATACCAATGTGAATTATGGTAGTTTATTGTGATCATGATCTGC
138329 AACAAATTTCACACCTAATTTGACAAAATTCAACATTCTATAACCGAAAACATCATTTGCAATTG
326 AACAAATTTCACACCTAATTTGACAAAATTCAACATTCTATAACCGAAAACATCATTTGCAATTG
138394 GTATGGTGTCTTACCTTCTCACAGTCGGTGAATTTCACATAGTTATTCAATATGGGACCCCAGAA
391 GTATGGTGTCTTACCTTCTCACAGTCGGTGAATTTCACATAGTTATTCAATATGGGACCCCAGAA
138459 AGTGGCAATACTCTCAACACTTTCTTTGTTGTTGGCATCCAACGCCTGCTGCTGCAATTACGCAA
456 AGTGGCAATACTCTCAACACTTTCTTTGTTGTTGGCATCCAACGCCTGCTGCTGCAATTACGCAA
138524 CAAACATTATTAATTTACCGTCTATAACACTATTTATCTCCATTTATTAATTTAACTCACCGCTA
521 CAAACATTATTAATTTACCGTCTATAACACTATTTATCTCCATTTATTAATTTAACTCACCGCTA
138589 AGTGGTATGGAAGGTAGCCAATCCTCCGGAGTGACTTCTGAGAATCGTAGCATATTGTCCAGGCG
586 AGTGGTATGGAAGGTAGCCAATCCTCCGGAGTGACTTCTGAGAATCGTAGCATATTGTCCAGGCG
138654 AGCAAATCAATAACCTAACAAAATTAATTACACAATCATAACATATTCAATAAGTTTTAACATTT
651 AGCAAATCAATAACCTAACAAAATTAATTACACAATCATAACATATTCAATAAGTTTTAACATTT
138719 TCTACTTTCTACTTACCATACCGCCAACCCATTCCGTAGGCTTCAACGTTGCAACGTCGTATACA
716 TCTACTTTCTACTTACCATACCGCCAACCCATTCCGTAGGCTTCAACGTTGCAACGTCGTATACA
138784 CTAGCGAATTGATTTCTCATTGAGATTACAGAATATATGTATGAATCATTAGGATTAATATGTTG
781 CTAGCGAATTGATTTCTCATTGAGATTACAGAATATATGTATGAATCATTAGGATTAATATGTTG
138849 TCATGAAACATTTAAATATAACTCACAAAGCAATATATTTCACTTACTCCGATTCTAACTCACT
846 TCATGAAACATTTAAATATAACTCACAAAGCAATATATTTCACTTACTCCGATTCTAACTCACT
138913 ATTCTATAAA
Statistics
Matches: 909, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
911 909 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (911 bp):
CTCCACAAATTTGAAATTTTTCAAGAGATACTTTCTTAGAAATCCACAGGATTCAACCCAAATGT
GTTTCTTATTATAAAAATCTAATATTTTAATCTGCATTAAAATAGAAGAAGTTATGATCCAAAAA
AATTATGTATTATAATTTACATAATGTACTTTCATACATACATACATACATACCAATCTCTTAGC
ATCCTTCACTCTCTGTTTAGCTGCTTCAGTTGTAAACATACTATCATATATTGTTGCAACACGAT
CTACCATATCCAACACTAACAGATACCAATGTGAATTATGGTAGTTTATTGTGATCATGATCTGC
AACAAATTTCACACCTAATTTGACAAAATTCAACATTCTATAACCGAAAACATCATTTGCAATTG
GTATGGTGTCTTACCTTCTCACAGTCGGTGAATTTCACATAGTTATTCAATATGGGACCCCAGAA
AGTGGCAATACTCTCAACACTTTCTTTGTTGTTGGCATCCAACGCCTGCTGCTGCAATTACGCAA
CAAACATTATTAATTTACCGTCTATAACACTATTTATCTCCATTTATTAATTTAACTCACCGCTA
AGTGGTATGGAAGGTAGCCAATCCTCCGGAGTGACTTCTGAGAATCGTAGCATATTGTCCAGGCG
AGCAAATCAATAACCTAACAAAATTAATTACACAATCATAACATATTCAATAAGTTTTAACATTT
TCTACTTTCTACTTACCATACCGCCAACCCATTCCGTAGGCTTCAACGTTGCAACGTCGTATACA
CTAGCGAATTGATTTCTCATTGAGATTACAGAATATATGTATGAATCATTAGGATTAATATGTTG
TCATGAAACATTTAAATATAACTCACAAAGCAATATATTTCACTTACTCCGATTCTAACTCACTT
A
Found at i:142238 original size:34 final size:32
Alignment explanation
Indices: 142176--142241 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 32
142166 AAATAGATGG
*
142176 AGTGGTAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
142208 AGTGGTGAAAGAAGTTGGGGGTGTTAAGGGGTGA
1 AGTGGT-AAAGAAG-TAGAGGTGTTAAGGGGTGA
142242 TATTAAGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 6 0.21
33 7 0.24
34 16 0.55
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (32 bp):
AGTGGTAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:144055 original size:19 final size:19
Alignment explanation
Indices: 144009--144057 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
143999 AATGCAGGGT
*
144009 TAATTTTGCATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
144028 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
144047 TAATTTTGTAT
1 TAATTTTGTAT
144058 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:144450 original size:200 final size:200
Alignment explanation
Indices: 144107--144776 Score: 1119
Period size: 200 Copynumber: 3.4 Consensus size: 200
144097 ATGTTGATAC
* * *
144107 ATTTTTCAATCTAATCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTTTAAATAATGTATCG
1 ATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTATCG
*
144172 ACACTTTTGTAGTTTGTGTCGATATTTTTGATCCAGAATGAATGGCAAACAGGGTGCAACAATAA
66 ACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAA
* * *
144237 AGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAATATCGAAACTCATAAGTATAATGTAAT
131 AGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAAT
144302 AGGTA
196 AGGTA
*
144307 ATTTTTCAATATAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTATCG
1 ATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTATCG
* *
144372 ACATTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGACAAACAGGGTGCAACAATAA
66 ACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAA
144437 AGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAAT
131 AGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAAT
144502 AGGTA
196 AGGTA
* * * *
144507 ATTTTTCAATCTAACCGGTACAAGTATACCTGCTTTATGAGAGAATATTTCTAAATAATGTGTCG
1 ATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTATCG
* *
144572 ACACTTTTGTAGTTTGTGTCGATATTTTTGGTCTAGAATGAATGGCAAACAGGGTGCAACCATAA
66 ACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAA
* *
144637 AGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTATT
131 AGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAAT
144702 AGGTA
196 AGGTA
* * *
144707 ATTTTTCAATCTAACCGGTATAAGTATACCGGTTTTATGGGAGAAT-TGGTATATAAT-ATGTAT
1 ATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAT-GTCTA-AATAATGTAT
144770 CGACACT
64 CGACACT
144777 GTTTAATGTT
Statistics
Matches: 440, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
199 1 0.00
200 436 0.99
201 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (200 bp):
ATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTATCG
ACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAA
AGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAAT
AGGTA
Found at i:146274 original size:12 final size:12
Alignment explanation
Indices: 146252--146285 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
146242 CAAGCGGTCA
*
146252 ATGAAGATGAAG
1 ATGACGATGAAG
*
146264 CTGACGATGAAG
1 ATGACGATGAAG
146276 ATGACGATGA
1 ATGACGATGA
146286 CAACGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.32, T:0.18
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:146286 original size:18 final size:18
Alignment explanation
Indices: 146252--146286 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
146242 CAAGCGGTCA
*
146252 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGATGACG
*
146270 ATGAAGATGACGATGAC
1 ATGAAGATGAAGATGAC
146287 AACGATGATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.11, G:0.31, T:0.17
Consensus pattern (18 bp):
ATGAAGATGAAGATGACG
Found at i:148278 original size:29 final size:29
Alignment explanation
Indices: 148239--148294 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
148229 GTGCATATAG
148239 ATTTTTACACCCAAGTTGATACCTAAAGA
1 ATTTTTACACCCAAGTTGATACCTAAAGA
* *
148268 ATTTTTCCACCCAAGTTGATATCTAAA
1 ATTTTTACACCCAAGTTGATACCTAAA
148295 CTAGACACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (29 bp):
ATTTTTACACCCAAGTTGATACCTAAAGA
Found at i:149819 original size:20 final size:20
Alignment explanation
Indices: 149796--149865 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
149786 ACAGGTTCCA
*
149796 AAATCGCAACGCGAATAGGT
1 AAATCGCAACGCGAATATGT
**
149816 AAATCGCAACGATAATATGT
1 AAATCGCAACGCGAATATGT
149836 AAATCGCAACGCGAATATGT
1 AAATCGCAACGCGAATATGT
149856 AAATCGCAAC
1 AAATCGCAAC
149866 ACATAAGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGAATATGT
Found at i:149823 original size:40 final size:39
Alignment explanation
Indices: 149794--149887 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 39
149784 ACACAGGTTC
*
149794 CAAAATCGCAACGCGAATAGGTAAATCGCAACGATAATAT
1 CAAAATCGCAACGCGAATAGGTAAATCGCAAC-ACAATAT
** *
149834 GTAAATCGCAACGCGAATATGTAAATCGCAACAC-ATAAGT
1 CAAAATCGCAACGCGAATAGGTAAATCGCAACACAAT-A-T
*
149874 CAAATTCGCAACGC
1 CAAAATCGCAACGC
149888 TAATTACCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
38 2 0.04
39 2 0.04
40 41 0.91
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (39 bp):
CAAAATCGCAACGCGAATAGGTAAATCGCAACACAATAT
Found at i:150073 original size:20 final size:20
Alignment explanation
Indices: 150048--150092 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
150038 TATTTACCTA
150048 TTCGCGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
*
150068 TTCGCGTTGCGATTTTGACT
1 TTCGCGTTGCGAATTTGACT
150088 TTCGC
1 TTCGC
150093 AACGTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.11, C:0.22, G:0.24, T:0.42
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTGACT
Found at i:150391 original size:20 final size:20
Alignment explanation
Indices: 150368--150425 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
150358 AAATTTGAGA
150368 ATTAGTGTTGCGATTTACAT
1 ATTAGTGTTGCGATTTACAT
*
150388 ATTA-TCGTTGCGATTTACCT
1 ATTAGT-GTTGCGATTTACAT
* *
150408 ATTCGCGTTGCGAATTTA
1 ATTAGTGTTGCG-ATTTA
150426 AAAAATCGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 1 0.03
20 26 0.81
21 5 0.16
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (20 bp):
ATTAGTGTTGCGATTTACAT
Found at i:150548 original size:20 final size:20
Alignment explanation
Indices: 150519--150582 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
150509 GGAGAATTTG
*
150519 CGTTGTGATTTACATATTAT
1 CGTTGCGATTTACATATTAT
* **
150539 CGTTGCGATTTACCTATTCG
1 CGTTGCGATTTACATATTAT
*
150559 CGTTGCGAATTACATATTAT
1 CGTTGCGATTTACATATTAT
150579 CGTT
1 CGTT
150583 ACAATTTAAC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTTACATATTAT
Found at i:150563 original size:40 final size:40
Alignment explanation
Indices: 150518--150609 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
150508 TGGAGAATTT
* * * * *
150518 GCGTTGTGATTTACATATTATCGTTGCGATTTACCTATTC
1 GCGTTGCGAATTACATATTATCGTTACAATTTAACTATTC
150558 GCGTTGCGAATTACATATTATCGTTACAATTTAACTATTC
1 GCGTTGCGAATTACATATTATCGTTACAATTTAACTATTC
*
150598 GTGTTGCGAATT
1 GCGTTGCGAATT
150610 TAACTTTCGC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.42
Consensus pattern (40 bp):
GCGTTGCGAATTACATATTATCGTTACAATTTAACTATTC
Found at i:150623 original size:20 final size:21
Alignment explanation
Indices: 150539--150626 Score: 87
Period size: 20 Copynumber: 4.4 Consensus size: 21
150529 TACATATTAT
*
150539 CGTTGCG-ATTTACCTATTCG
1 CGTTGCGAATTTAACTATTCG
**
150559 CGTTGCGAA-TT-ACATATTAT
1 CGTTGCGAATTTAAC-TATTCG
*
150579 CGTTAC-AATTTAACTATTCG
1 CGTTGCGAATTTAACTATTCG
*
150599 TGTTGCGAATTTAACT-TTCG
1 CGTTGCGAATTTAACTATTCG
150619 CGTTGCGA
1 CGTTGCGA
150627 TTTTGAAACC
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.06
20 39 0.72
21 12 0.22
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (21 bp):
CGTTGCGAATTTAACTATTCG
Found at i:153250 original size:21 final size:21
Alignment explanation
Indices: 153212--153251 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
153202 CCTTTGCAGA
*
153212 CACAAAATAAACATAAATATT
1 CACAAAATAAACAGAAATATT
* *
153233 CACAAAATCATCAGAAATA
1 CACAAAATAAACAGAAATA
153252 AAAAATATAA
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:0.60, C:0.17, G:0.03, T:0.20
Consensus pattern (21 bp):
CACAAAATAAACAGAAATATT
Found at i:165860 original size:60 final size:60
Alignment explanation
Indices: 165792--165979 Score: 202
Period size: 60 Copynumber: 3.1 Consensus size: 60
165782 GCATCATATG
* * *
165792 TCCCCAAACTATAATCCTCATTTTAAATTAGTCCTTAAACTTTTTAATATTTCAATTCCA
1 TCCCCAAACTATGATCCTCATTTTAAATTAGTCCTTAAACTTTTGAATATTTCAATTTCA
* *
165852 TCCCCAAACTATGA-CTCTCATTCTAAATTAGTCTTTAAACTTTTGAATA-TTCTAATTTCA
1 TCCCCAAACTATGATC-CTCATTTTAAATTAGTCCTTAAACTTTTGAATATTTC-AATTTCA
* * * * * ** * *
165912 TTCCTAAACTATGTTTCTC-TTTCTAAATTGGTCCCCAAACTTTTGAATATTCCATTTTCA
1 TCCCCAAACTATGATCCTCATTT-TAAATTAGTCCTTAAACTTTTGAATATTTCAATTTCA
165972 TCCCCAAA
1 TCCCCAAA
165980 TTCATCCAAA
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
59 6 0.06
60 97 0.92
61 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.41
Consensus pattern (60 bp):
TCCCCAAACTATGATCCTCATTTTAAATTAGTCCTTAAACTTTTGAATATTTCAATTTCA
Found at i:175250 original size:18 final size:18
Alignment explanation
Indices: 175229--175275 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
175219 GTTGTGGTTA
175229 AAATAAAAAAT-ATGAATT
1 AAATAAAAAATAAT-AATT
175247 AAAT-AAAAATAATAATT
1 AAATAAAAAATAATAATT
175264 AAATAAACAAAT
1 AAATAAA-AAAT
175276 TAAAGAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 14 0.54
18 8 0.31
19 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AAATAAAAAATAATAATT
Found at i:175988 original size:64 final size:64
Alignment explanation
Indices: 175863--175988 Score: 168
Period size: 64 Copynumber: 2.0 Consensus size: 64
175853 TAAAACATCT
* * *
175863 TAAATCCTAATTAAAACACTTAAAATTATTTAAACTAAAATACCTAAAAAATAATATAATATTC
1 TAAATCCTAATTAAAACACTTAAAAATATTTAAACTAAAATACCTAAAAAAAAATAAAATATTC
*
175927 TAAATCCTAATTAAAATAC-TAAAACATATTTAAACTAAAATA-C-AAAGAAAAAGATAAAATAT
1 TAAATCCTAATTAAAACACTTAAAA-ATATTTAAACTAAAATACCTAAA-AAAAA-ATAAAATAT
175989 AAAAATAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
62 3 0.05
63 10 0.18
64 42 0.76
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (64 bp):
TAAATCCTAATTAAAACACTTAAAAATATTTAAACTAAAATACCTAAAAAAAAATAAAATATTC
Found at i:176071 original size:76 final size:75
Alignment explanation
Indices: 175918--176060 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 75
175908 AAAAAATAAT
* * *
175918 ATAATATTCTAAATCCTAATTAAAATACTAAAACATATTTAAACTAAAATACAAAGAAAAAGATA
1 ATAATATCCTAAAACTTAATTAAAATACTAAAACATATTTAAACTAAAATACAAAGAAAAAGATA
175983 AAATATAAAA
66 AAATATAAAA
* * *
175993 ATAATATCTTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
1 ATAATATCCTAAAACTTAATTAAAATACT-AAAACATATTTAAACTAAAATACAAAGA-AAAAGA
176058 TAA
64 TAA
176061 TGTTTAAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 25 0.42
76 27 0.45
77 8 0.13
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.28
Consensus pattern (75 bp):
ATAATATCCTAAAACTTAATTAAAATACTAAAACATATTTAAACTAAAATACAAAGAAAAAGATA
AAATATAAAA
Found at i:177890 original size:20 final size:20
Alignment explanation
Indices: 177852--177898 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
177842 AAGTTTGCTA
177852 AAAAATAAAAAAAATAAAAC
1 AAAAATAAAAAAAATAAAAC
*
177872 GAAAAT-AAAAAAATAAAAAC
1 AAAAATAAAAAAAAT-AAAAC
177892 AAAAATA
1 AAAAATA
177899 TAACGAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.11
Consensus pattern (20 bp):
AAAAATAAAAAAAATAAAAC
Found at i:177895 original size:19 final size:20
Alignment explanation
Indices: 177853--177889 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
177843 AGTTTGCTAA
177853 AAAATAAAAAAAATAAAACG
1 AAAATAAAAAAAATAAAACG
177873 AAAAT-AAAAAAATAAAA
1 AAAATAAAAAAAATAAAA
177890 ACAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (20 bp):
AAAATAAAAAAAATAAAACG
Found at i:183948 original size:12 final size:12
Alignment explanation
Indices: 183933--183962 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
183923 AAAAGTATGC
183933 GAAAAATAGAGA
1 GAAAAATAGAGA
*
183945 GAAAACTAGAGA
1 GAAAAATAGAGA
183957 GAAAAA
1 GAAAAA
183963 GAAGATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.07
Consensus pattern (12 bp):
GAAAAATAGAGA
Found at i:184211 original size:75 final size:76
Alignment explanation
Indices: 184116--184279 Score: 242
Period size: 76 Copynumber: 2.2 Consensus size: 76
184106 AAAAAATAAT
* *
184116 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAA-AT
184180 AAAAT-ATAAAA
65 AAAATGATAAAA
*
184191 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
1 ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
* * *
184256 TAATGTTTAAA
66 AAATGATAAAA
*
184267 ATATTATCCTAAA
1 ATAATATCCTAAA
184280 TTTGAGTTTA
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
75 32 0.40
76 48 0.60
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
AAATGATAAAA
Found at i:194331 original size:109 final size:109
Alignment explanation
Indices: 194140--194366 Score: 445
Period size: 109 Copynumber: 2.1 Consensus size: 109
194130 ATTATCTAAT
194140 ATAAATATTGATCCTAGCTTACGTCTCAATCTTCGCCAATGGGCTTTCAGATTACTTTGGTGATA
1 ATAAATATTGATCCTAGCTTACGTCTCAATCTTCGCCAATGGGCTTTCAGATTACTTTGGTGATA
*
194205 GGAATAGTCCGAGTCAACCTAGAGTGTGACATATTTCCATCTTA
66 GGAATAGTCCAAGTCAACCTAGAGTGTGACATATTTCCATCTTA
194249 ATAAATATTGATCCTAGCTTACGTCTCAATCTTCGCCAATGGGCTTTCAGATTACTTTGGTGATA
1 ATAAATATTGATCCTAGCTTACGTCTCAATCTTCGCCAATGGGCTTTCAGATTACTTTGGTGATA
194314 GGAATAGTCCAAGTCAACCTAGAGTGTGACATATTTCCATCTTA
66 GGAATAGTCCAAGTCAACCTAGAGTGTGACATATTTCCATCTTA
194358 ATAAATATT
1 ATAAATATT
194367 TAGCTTAATA
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 117 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (109 bp):
ATAAATATTGATCCTAGCTTACGTCTCAATCTTCGCCAATGGGCTTTCAGATTACTTTGGTGATA
GGAATAGTCCAAGTCAACCTAGAGTGTGACATATTTCCATCTTA
Found at i:195815 original size:42 final size:43
Alignment explanation
Indices: 195757--195942 Score: 290
Period size: 42 Copynumber: 4.4 Consensus size: 43
195747 AGTAAAAGAG
* *
195757 CCTGGGGAAACTGTAAGGCTTACCATTGCACACAGCAAAGGAA
1 CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGA
*
195800 CCT-GGGAAACTGTAAGGCTTATCCTTGCACACAGCAAAGGGA
1 CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGA
195842 CCTGGGG-AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGA
1 CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGA
*
195884 CCTGGGGGAAA-TGTAAGGCTTACCCTTGCACACAGCAAATGGA
1 CCT-GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGA
195927 CCTAGGGG-AACTGTAA
1 CCT-GGGGAAACTGTAA
195943 CAGTAATTAA
Statistics
Matches: 133, Mismatches: 6, Indels: 8
0.90 0.04 0.05
Matches are distributed among these distances:
42 78 0.59
43 53 0.40
44 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (43 bp):
CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGA
Found at i:195828 original size:85 final size:84
Alignment explanation
Indices: 195726--195942 Score: 278
Period size: 85 Copynumber: 2.5 Consensus size: 84
195716 GTAAAAACGA
* *
195726 TAAGGTCTTATACTTGCACATAGTAAAAGAG-CCTGGGGAAACTGTAAGGCTTACCATTGCACAC
1 TAAGG-CTTATCCTTGCACACAG-AAAAGAGACCTGGGG-AACTGTAAGGCTTACCATTGCACAC
195790 AGCAAAGGAACCT-GGGAAACTG
63 AGCAAAGGAACCTGGGGAAA-TG
* * *
195812 TAAGGCTTATCCTTGCACACAGCAAAGGGACCTGGGGAACTGTAAGGCTTACCCTTGCACACAGC
1 TAAGGCTTATCCTTGCACACAGAAAAGAGACCTGGGGAACTGTAAGGCTTACCATTGCACACAGC
*
195877 AAAGGGACCTGGGGGAAATG
66 AAAGGAACCT-GGGGAAATG
* *
195897 TAAGGCTTACCCTTGCACACAGCAAATG-GACCTAGGGGAACTGTAA
1 TAAGGCTTATCCTTGCACACAG-AAAAGAGACCT-GGGGAACTGTAA
195943 CAGTAATTAA
Statistics
Matches: 117, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
84 41 0.35
85 50 0.43
86 26 0.22
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.19
Consensus pattern (84 bp):
TAAGGCTTATCCTTGCACACAGAAAAGAGACCTGGGGAACTGTAAGGCTTACCATTGCACACAGC
AAAGGAACCTGGGGAAATG
Found at i:197899 original size:17 final size:18
Alignment explanation
Indices: 197868--197903 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
197858 AAACTAACAT
*
197868 TTTTTATGCACATCAATA
1 TTTTTATGCAAATCAATA
197886 TTTTTAT-CAAATCAATA
1 TTTTTATGCAAATCAATA
197903 T
1 T
197904 AAAATCCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTTTATGCAAATCAATA
Found at i:200130 original size:18 final size:19
Alignment explanation
Indices: 200098--200141 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
200088 TTTGAATTTA
200098 AAAAAATCAGAAAAAATAC
1 AAAAAATCAGAAAAAATAC
* *
200117 AAAAAATCA-TAAAATTAC
1 AAAAAATCAGAAAAAATAC
200135 AAAAAAT
1 AAAAAAT
200142 TAGTATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.73, C:0.09, G:0.02, T:0.16
Consensus pattern (19 bp):
AAAAAATCAGAAAAAATAC
Found at i:200223 original size:111 final size:108
Alignment explanation
Indices: 200083--200281 Score: 321
Period size: 110 Copynumber: 1.8 Consensus size: 108
200073 TCTAATAAAT
*
200083 ATCTATTTGAATTTAAAAAAATCAGAAAAAATACAAAAAATCAT-AAAATTACAAAAAATTAGTA
1 ATCTACTTGAATTTAAAAAAATCAGAAAAAATACAAAAAATCATAAAAATTACAAAAAA--AGTA
*
200147 TGTTTATTTATCTAATTTCAATGTATTTTTATTTATCTTGCAAATTA
64 TGTTTA--TATATAATTTCAATGTATTTTTATTTATCTTGCAAATTA
*
200194 ATCTACTTGAATTT-AAAAAATCAGAAAAAATACAAAAAATCATAAAAATTACAAAAAAATTATG
1 ATCTACTTGAATTTAAAAAAATCAGAAAAAATACAAAAAATCATAAAAATTACAAAAAAAGTATG
200258 TTTATATATAATTTCAATGTATTT
66 TTTATATATAATTTCAATGTATTT
200282 CATCTATTTA
Statistics
Matches: 84, Mismatches: 3, Indels: 6
0.90 0.03 0.06
Matches are distributed among these distances:
107 19 0.23
109 9 0.11
110 29 0.35
111 27 0.32
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (108 bp):
ATCTACTTGAATTTAAAAAAATCAGAAAAAATACAAAAAATCATAAAAATTACAAAAAAAGTATG
TTTATATATAATTTCAATGTATTTTTATTTATCTTGCAAATTA
Found at i:200230 original size:19 final size:19
Alignment explanation
Indices: 200208--200251 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
200198 ACTTGAATTT
200208 AAAAAATCAGAAAAAATAC
1 AAAAAATCAGAAAAAATAC
* *
200227 AAAAAATCATAAAAATTAC
1 AAAAAATCAGAAAAAATAC
200246 AAAAAA
1 AAAAAA
200252 ATTATGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.75, C:0.09, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAAATCAGAAAAAATAC
Found at i:201980 original size:23 final size:22
Alignment explanation
Indices: 201942--201988 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
201932 TACATGTGTA
*
201942 TTTTATACTATTTTTA-ACTTAT
1 TTTTATAATATTTTTAGAC-TAT
201964 TTTTATAAATATTTTTAGACTAT
1 TTTTAT-AATATTTTTAGACTAT
201987 TT
1 TT
201989 ATTAACATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 14 0.64
24 2 0.09
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTATAATATTTTTAGACTAT
Done.