Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 299 of 322
Found at i:99365467 original size:32 final size:32
Alignment explanation
Indices: 99365431--99365513 Score: 90
Period size: 32 Copynumber: 2.8 Consensus size: 32
99365421 ATTTAAAAAA
99365431 TATATAAAAATAAATATTAAAAATTTTAAATT
1 TATATAAAAATAAATATTAAAAATTTTAAATT
*
99365463 TATATTAATAAAT--ATAATAAAAATTTTAAATT
1 TATA-TAA-AAATAAATATTAAAAATTTTAAATT
99365495 T-T-T---AATAAATATTAAAAAT
1 TATATAAAAATAAATATTAAAAAT
99365514 ATATAAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
25 3 0.07
27 10 0.22
29 1 0.02
31 1 0.02
32 23 0.51
33 3 0.07
34 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
TATATAAAAATAAATATTAAAAATTTTAAATT
Found at i:99365518 original size:40 final size:43
Alignment explanation
Indices: 99365426--99365526 Score: 120
Period size: 39 Copynumber: 2.4 Consensus size: 43
99365416 CTAAAATTTA
**
99365426 AAAAATATATAAAAATAAATATTAAAAATTTTAAATTTATATT
1 AAAAATATATAAAAATAAATATTAAAAATTTTAAATAAATATT
* * * *
99365469 AATAA-ATATAATAA-AAAT-TT-TAAATTTTTAATAAATATT
1 AAAAATATATAAAAATAAATATTAAAAATTTTAAATAAATATT
99365508 AAAAATATATAAAAATAAA
1 AAAAATATATAAAAATAAA
99365527 AATTCCTCCA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
39 19 0.40
40 10 0.21
41 7 0.15
42 8 0.17
43 4 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (43 bp):
AAAAATATATAAAAATAAATATTAAAAATTTTAAATAAATATT
Found at i:99365701 original size:67 final size:67
Alignment explanation
Indices: 99365630--99365829 Score: 391
Period size: 67 Copynumber: 3.0 Consensus size: 67
99365620 AAAATAATAA
99365630 ATAATAAATTTATATTTATATTAAATAAAATAAAAATCCCTCCACCTCCCTCTCTCCTCTCCCCT
1 ATAATAAATTTATATTTATATTAAATAAAATAAAAATCCCTCCACCTCCCTCTCTCCTCTCCCCT
99365695 CC
66 CC
99365697 ATAATAAATTTATATTTATATTAAATAAAATAAAAATCCCTCCACCTCCCTCTCTCCTCTCCCCT
1 ATAATAAATTTATATTTATATTAAATAAAATAAAAATCCCTCCACCTCCCTCTCTCCTCTCCCCT
99365762 CC
66 CC
*
99365764 ATAATAAATTTATATTTATATTAAATAAAATAAAAATCCCTCCACCTCCCTCTCTCCTCTCTCCT
1 ATAATAAATTTATATTTATATTAAATAAAATAAAAATCCCTCCACCTCCCTCTCTCCTCTCCCCT
99365829 C
66 C
99365830 TCCCCTCCCC
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 132 1.00
ACGTcount: A:0.34, C:0.30, G:0.00, T:0.35
Consensus pattern (67 bp):
ATAATAAATTTATATTTATATTAAATAAAATAAAAATCCCTCCACCTCCCTCTCTCCTCTCCCCT
CC
Found at i:99370658 original size:21 final size:21
Alignment explanation
Indices: 99370634--99370705 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
99370624 GACATATAAA
* *
99370634 GTGCCTAAAATGACACACAAG
1 GTGCCTGATATGACACACAAG
* *
99370655 GTGCCTGATACGACACACGAG
1 GTGCCTGATATGACACACAAG
* *
99370676 GTGTCTGATATGACACATATA-
1 GTGCCTGATATGACACACA-AG
99370697 GTGCCTGAT
1 GTGCCTGAT
99370706 CGGCAAAGCC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 40 0.98
22 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (21 bp):
GTGCCTGATATGACACACAAG
Found at i:99371827 original size:33 final size:33
Alignment explanation
Indices: 99371785--99371849 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
99371775 ATTTATTTAT
99371785 TTTATACTTAATTAA-TTAA-TAATTATAAATATC
1 TTTATACTTAA--AATTTAAGTAATTATAAATATC
*
99371818 TTTATACTTAAAATTTAAGTAATTATATATAT
1 TTTATACTTAAAATTTAAGTAATTATAAATAT
99371850 TTATTTTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 2 0.07
32 4 0.14
33 23 0.79
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.49
Consensus pattern (33 bp):
TTTATACTTAAAATTTAAGTAATTATAAATATC
Found at i:99372108 original size:25 final size:24
Alignment explanation
Indices: 99372076--99372122 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
99372066 ATCTTATAAT
*
99372076 ATAATTAT-TTTAAATTAATTAAAC
1 ATAATTATATCTAAA-TAATTAAAC
99372100 ATAATTTATATCTAAATAATTAA
1 ATAA-TTATATCTAAATAATTAA
99372123 TTATATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 11 0.55
26 5 0.25
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
ATAATTATATCTAAATAATTAAAC
Found at i:99375974 original size:4 final size:4
Alignment explanation
Indices: 99375965--99375999 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
99375955 TAATTTTCCC
99375965 TTCT TTCT TTCT TTCT TTCT TTCT TTCCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TT-CT TTCT TT
99376000 TTCCCCTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTCT
Found at i:99380375 original size:19 final size:21
Alignment explanation
Indices: 99380331--99380410 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
99380321 TACACATGGG
99380331 CGTGTGTCTTGGCCACACAGA
1 CGTGTGTCTTGGCCACACAGA
*
99380352 CGTGTGTCTTGTCCACAC-GA
1 CGTGTGTCTTGGCCACACAGA
* * * *
99380372 GTGTGTGTCCTT-ACCAGACGGA
1 -CGTGTGT-CTTGGCCACACAGA
*
99380394 TGTGTGTCTTGGCCACA
1 CGTGTGTCTTGGCCACA
99380411 TGGTCATGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
20 5 0.10
21 39 0.80
22 5 0.10
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (21 bp):
CGTGTGTCTTGGCCACACAGA
Found at i:99380491 original size:21 final size:21
Alignment explanation
Indices: 99380465--99380512 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
99380455 GCCTGCTCAA
*
99380465 ACGGGCGTGTCCCTCAGCCAT
1 ACGGGCGTGTCCCTCAACCAT
*
99380486 ACGGGCGTGTCCCTCAATCAT
1 ACGGGCGTGTCCCTCAACCAT
99380507 ACGGGC
1 ACGGGC
99380513 TTGTGGCTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.35, G:0.29, T:0.19
Consensus pattern (21 bp):
ACGGGCGTGTCCCTCAACCAT
Found at i:99383440 original size:29 final size:29
Alignment explanation
Indices: 99383354--99383442 Score: 142
Period size: 29 Copynumber: 3.1 Consensus size: 29
99383344 TGTACTAAAC
*
99383354 GATGGTCGTAACCATCCCTTTTCATATTC
1 GATGGTCGTAACCATCCCTTTTCATATTT
* *
99383383 GATGGTCGTCACTATCCCTTTTCATATTT
1 GATGGTCGTAACCATCCCTTTTCATATTT
*
99383412 GATGGTCGAAACCATCCCTTTTCATATTT
1 GATGGTCGTAACCATCCCTTTTCATATTT
99383441 GA
1 GA
99383443 GGATTGTCGA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (29 bp):
GATGGTCGTAACCATCCCTTTTCATATTT
Found at i:99385337 original size:51 final size:51
Alignment explanation
Indices: 99385277--99385381 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 51
99385267 TCCTAATTGA
*
99385277 TTCAAGTCTTGATTAATTGAAGGACTAAAGCTTGAAAAGCTCAAACCCTCT
1 TTCAAGTCTTGATTAATTGAAGGACTAAAACTTGAAAAGCTCAAACCCTCT
*
99385328 TTCAAGTCTTGATTAATTGAAGGACTAAAACTTTAAAAGCTCAAACCCTCT
1 TTCAAGTCTTGATTAATTGAAGGACTAAAACTTGAAAAGCTCAAACCCTCT
99385379 TTC
1 TTC
99385382 TCACCCACCC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (51 bp):
TTCAAGTCTTGATTAATTGAAGGACTAAAACTTGAAAAGCTCAAACCCTCT
Found at i:99385493 original size:11 final size:12
Alignment explanation
Indices: 99385469--99385501 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
99385459 AGTTTAACTC
99385469 TTAATTAACTTAA
1 TTAATTAAC-TAA
99385482 TTAATTAA-TAA
1 TTAATTAACTAA
99385493 TTAATTAAC
1 TTAATTAAC
99385502 ACTAATCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
13 8 0.42
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (12 bp):
TTAATTAACTAA
Found at i:99386761 original size:25 final size:25
Alignment explanation
Indices: 99386733--99386815 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 25
99386723 ATCTTAATCA
99386733 ATCTAATTTCTTTTTTTGGATCGAT
1 ATCTAATTTCTTTTTTTGGATCGAT
* *
99386758 ATCTCAACAATTTC-ATTGTTGAGAT--AT
1 ATCT----AATTTCTTTTTTTG-GATCGAT
99386785 CAATCTAATTTCTTTTTTTGGATCGAT
1 --ATCTAATTTCTTTTTTTGGATCGAT
99386812 ATCT
1 ATCT
99386816 CAACAATTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 20
0.65 0.06 0.29
Matches are distributed among these distances:
25 17 0.39
26 5 0.11
27 4 0.09
28 5 0.11
29 13 0.30
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.49
Consensus pattern (25 bp):
ATCTAATTTCTTTTTTTGGATCGAT
Found at i:99386823 original size:29 final size:29
Alignment explanation
Indices: 99386737--99386827 Score: 104
Period size: 29 Copynumber: 3.3 Consensus size: 29
99386727 TAATCAATCT
99386737 AATTTCTTTTTTTGGATCGATATCTCAAC
1 AATTTCTTTTTTTGGATCGATATCTCAAC
* *
99386766 AATTTC-ATTGTT-GA--GATA--TCAATC
1 AATTTCTTTTTTTGGATCGATATCTCAA-C
99386790 TAATTTCTTTTTTTGGATCGATATCTCAAC
1 -AATTTCTTTTTTTGGATCGATATCTCAAC
99386820 AATTTCTT
1 AATTTCTT
99386828 AATTTAATCG
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
23 4 0.08
24 1 0.02
25 10 0.20
26 4 0.08
27 4 0.08
28 4 0.08
29 18 0.36
30 1 0.02
31 4 0.08
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.48
Consensus pattern (29 bp):
AATTTCTTTTTTTGGATCGATATCTCAAC
Found at i:99390864 original size:18 final size:18
Alignment explanation
Indices: 99390837--99390878 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
99390827 CCTATATCCA
* *
99390837 CCTCTACCTCTACCTGTT
1 CCTCTTCCTCTACCTCTT
*
99390855 CCTCTTCCTCTGCCTCTT
1 CCTCTTCCTCTACCTCTT
99390873 CCTCTT
1 CCTCTT
99390879 GCACCAAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.48, G:0.05, T:0.43
Consensus pattern (18 bp):
CCTCTTCCTCTACCTCTT
Found at i:99396915 original size:25 final size:26
Alignment explanation
Indices: 99396856--99396915 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
99396846 TTTTTCCCCA
*
99396856 AACTATTTTTACAATTTTTAATTTTAT
1 AACT-TTTTTACAATTATTAATTTTAT
**
99396883 TCCTTTTTTA-AATTATTAATTTTAGT
1 AACTTTTTTACAATTATTAATTTTA-T
99396909 AACTTTT
1 AACTTTT
99396916 ATTTTATTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
25 13 0.48
26 12 0.44
27 2 0.07
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (26 bp):
AACTTTTTTACAATTATTAATTTTAT
Found at i:99422588 original size:23 final size:25
Alignment explanation
Indices: 99422555--99422600 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
99422545 ATGACTTTAA
99422555 AAAATACTCAT-ATTTA-TATAATT
1 AAAATACTCATAATTTACTATAATT
*
99422578 AAAATATTCATAATTTACTATAA
1 AAAATACTCATAATTTACTATAA
99422601 AACATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 5 0.25
25 5 0.25
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAATACTCATAATTTACTATAATT
Found at i:99422767 original size:30 final size:33
Alignment explanation
Indices: 99422726--99422787 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
99422716 TAAAAATTTA
99422726 TTATTAAAAT-A-AAATT-TAATATTAAATATT
1 TTATTAAAATAATAAATTATAATATTAAATATT
* *
99422756 TTATTAGAATAATAAATTATATTATTAAATAT
1 TTATTAAAATAATAAATTATAATATTAAATAT
99422788 AAATAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 9 0.33
31 1 0.04
32 5 0.19
33 12 0.44
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (33 bp):
TTATTAAAATAATAAATTATAATATTAAATATT
Found at i:99422771 original size:20 final size:19
Alignment explanation
Indices: 99422743--99422796 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
99422733 AATAAAATTT
* *
99422743 AATATTAAATATTTTATTA
1 AATAATAAATATATTATTA
99422762 GAATAATAAATTATATTATTA
1 -AATAATAAA-TATATTATTA
99422783 AAT-ATAAATA-ATTA
1 AATAATAAATATATTA
99422797 AATATGTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 4 0.13
18 2 0.06
19 5 0.16
20 11 0.35
21 9 0.29
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AATAATAAATATATTATTA
Found at i:99424323 original size:12 final size:12
Alignment explanation
Indices: 99424278--99424335 Score: 68
Period size: 12 Copynumber: 4.9 Consensus size: 12
99424268 TTTAGGTAGT
99424278 AGAAGAA-AAA-
1 AGAAGAAGAAAG
99424288 AGAAGAAGAAAG
1 AGAAGAAGAAAG
*
99424300 AGAAGCAGAGAAGG
1 AGAAG-A-AGAAAG
99424314 AGAAGAAGAAAG
1 AGAAGAAGAAAG
99424326 AGAAG-AGAAA
1 AGAAGAAGAAA
99424336 AATTGAGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
10 7 0.17
11 8 0.19
12 15 0.36
13 2 0.05
14 10 0.24
ACGTcount: A:0.66, C:0.02, G:0.33, T:0.00
Consensus pattern (12 bp):
AGAAGAAGAAAG
Found at i:99429617 original size:39 final size:39
Alignment explanation
Indices: 99429574--99429670 Score: 151
Period size: 39 Copynumber: 2.5 Consensus size: 39
99429564 ATTCACTTTT
* *
99429574 AAGCATGTATCACATTAC-ACATATAATCACATAACAGTC
1 AAGCATATATCACAATACTA-ATATAATCACATAACAGTC
*
99429613 AAGCATATATCACAATACTAATATAATCACATAACATTC
1 AAGCATATATCACAATACTAATATAATCACATAACAGTC
99429652 AAGCATATATCACAATACT
1 AAGCATATATCACAATACT
99429671 CAAAAACATG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
39 53 0.98
40 1 0.02
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (39 bp):
AAGCATATATCACAATACTAATATAATCACATAACAGTC
Found at i:99429626 original size:22 final size:21
Alignment explanation
Indices: 99429593--99429665 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 21
99429583 TCACATTACA
99429593 CATATAATCACATAACAGTCAAG
1 CATAT-ATCACATAACA-TCAAG
99429616 CATATATCACA-ATAC-T-AA-
1 CATATATCACATA-ACATCAAG
*
99429634 TATA-ATCACATAACATTCAAG
1 CATATATCACATAACA-TCAAG
99429655 CATATATCACA
1 CATATATCACA
99429666 ATACTCAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 15
0.71 0.03 0.26
Matches are distributed among these distances:
17 8 0.20
18 4 0.10
19 3 0.07
20 3 0.07
21 4 0.10
22 14 0.34
23 5 0.12
ACGTcount: A:0.48, C:0.22, G:0.04, T:0.26
Consensus pattern (21 bp):
CATATATCACATAACATCAAG
Found at i:99431408 original size:34 final size:34
Alignment explanation
Indices: 99431395--99431467 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 34
99431385 CAGTGGCAAG
99431395 ATCAGTGTGGGCCTTAGCCCATTACAGTAACAGT
1 ATCAGTGTGGGCCTTAGCCCATTACAGTAACAGT
*
99431429 ATCAGTGTGGGCCTTAGCCCCATTTCAGT-ACAGT
1 ATCAGTGTGGGCCTTAG-CCCATTACAGTAACAGT
99431463 ATCAG
1 ATCAG
99431468 AGATGCATAC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
34 27 0.73
35 10 0.27
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (34 bp):
ATCAGTGTGGGCCTTAGCCCATTACAGTAACAGT
Found at i:99440354 original size:26 final size:26
Alignment explanation
Indices: 99440314--99440365 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
99440304 GAAGGGGAGT
99440314 AAGCTATAATGCTTATTAAGTTCATA
1 AAGCTATAATGCTTATTAAGTTCATA
*
99440340 AAGCTATAATTCTTATTAAGTTCATA
1 AAGCTATAATGCTTATTAAGTTCATA
99440366 TGAAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (26 bp):
AAGCTATAATGCTTATTAAGTTCATA
Found at i:99450688 original size:40 final size:40
Alignment explanation
Indices: 99450614--99450795 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
99450604 AACCCAAGTA
* *
99450614 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
99450653 CCTTCGGGTCTTAGCCTGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
99450693 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
99450733 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
99450773 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
99450796 CATTCGAATA
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.09
40 116 0.89
41 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:99457557 original size:13 final size:13
Alignment explanation
Indices: 99457539--99457565 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
99457529 GCTCGACAGG
99457539 GACATGCCCGTGT
1 GACATGCCCGTGT
99457552 GACATGCCCGTGT
1 GACATGCCCGTGT
99457565 G
1 G
99457566 CGATTGCTTC
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:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACATGCCCGTGT
Found at i:99465774 original size:29 final size:29
Alignment explanation
Indices: 99465732--99465788 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
99465722 TCCTCATTGG
*
99465732 TAAGTTTTTGCTTGTTGTTCGTAAACATT
1 TAAGTTTTTGCTTGTCGTTCGTAAACATT
99465761 TAAGTTTTTGCTTGTCGTTCGTAAACAT
1 TAAGTTTTTGCTTGTCGTTCGTAAACAT
99465789 CGTTTGATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.49
Consensus pattern (29 bp):
TAAGTTTTTGCTTGTCGTTCGTAAACATT
Found at i:99466780 original size:40 final size:40
Alignment explanation
Indices: 99466718--99466794 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
99466708 ATGGAACCAT
* **
99466718 TTGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATAC
1 TTGGTGTGTAGGGTAGGATGGGTCAATTTTATCCCCATAC
*
99466758 TTGGTTTGTAGGGATAGG-TGGGTCAATTTTATCCCCA
1 TTGGTGTGTAGGG-TAGGATGGGTCAATTTTATCCCCA
99466795 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 29 0.91
41 3 0.09
ACGTcount: A:0.17, C:0.13, G:0.31, T:0.39
Consensus pattern (40 bp):
TTGGTGTGTAGGGTAGGATGGGTCAATTTTATCCCCATAC
Found at i:99469963 original size:139 final size:139
Alignment explanation
Indices: 99469713--99470077 Score: 631
Period size: 139 Copynumber: 2.6 Consensus size: 139
99469703 TGTAACCTGC
** * * * * ** *
99469713 CCATAAGTGGACTCAGACTCAACTCAAAGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
1 CCATAAGTCAACTCGGACTCAACTCAACGAGTTTGGATGTTCGCATCCATAAGTGAACTCAGACT
99469778 CAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTTGGACTCAACTTAACGAGTTCGGA
66 CAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTTGGACTCAACTTAACGAGTTCGGA
99469843 CGTTCGCAT
131 CGTTCGCAT
99469852 CCATAAGTCAACTCGGACTCAACTCAACGAGTTTGGATGTTCGCATCCATAAGTGAACTCAGACT
1 CCATAAGTCAACTCGGACTCAACTCAACGAGTTTGGATGTTCGCATCCATAAGTGAACTCAGACT
99469917 CAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTTGGACTCAACTTAACGAGTTCGGA
66 CAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTTGGACTCAACTTAACGAGTTCGGA
99469982 CGTTCGCAT
131 CGTTCGCAT
99469991 CCATAAGTCAACTCGGACTCAACTCAACGAGTTTGGATGTTCGCATCCATAAGTGAACTCAGACT
1 CCATAAGTCAACTCGGACTCAACTCAACGAGTTTGGATGTTCGCATCCATAAGTGAACTCAGACT
* *
99470056 CAACTCAATGAGTTCGGATGCC
66 CAACTCAACGAGCTCGGATGCC
99470078 AAAATATCCG
Statistics
Matches: 215, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
139 215 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (139 bp):
CCATAAGTCAACTCGGACTCAACTCAACGAGTTTGGATGTTCGCATCCATAAGTGAACTCAGACT
CAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTTGGACTCAACTTAACGAGTTCGGA
CGTTCGCAT
Found at i:99470075 original size:46 final size:46
Alignment explanation
Indices: 99469713--99470075 Score: 351
Period size: 46 Copynumber: 7.8 Consensus size: 46
99469703 TGTAACCTGC
* * * * **
99469713 CCATAAGTGGACTCAGACTCAACTCAAAGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* **
99469759 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCGCAT
* * * * *
99469809 -C-TCA-CGAACTTGGACTCAACTTAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* *
99469852 CCATAAGTCAACTCGGACTCAACTCAACGAGTTTGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * **
99469898 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCGCAT
* * * * *
99469948 -C-TCA-CGAACTTGGACTCAACTTAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* *
99469991 CCATAAGTCAACTCGGACTCAACTCAACGAGTTTGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* *
99470037 CCATAAGTGAACTCAGACTCAACTCAATGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
99470076 CCAAAATATC
Statistics
Matches: 255, Mismatches: 48, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
43 8 0.03
44 2 0.01
45 6 0.02
46 170 0.67
47 53 0.21
48 6 0.02
49 2 0.01
50 8 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:99472829 original size:30 final size:29
Alignment explanation
Indices: 99472787--99472843 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
99472777 AAAGATAACA
*
99472787 AGAAAACCGAATAAAGAAATCCAAGATTG
1 AGAAAACCGAATAAAGAAACCCAAGATTG
*
99472816 AGAAACCCAGAATAAAGAAACCCAAGAT
1 AGAAAACC-GAATAAAGAAACCCAAGAT
99472844 ACGATACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.56, C:0.18, G:0.16, T:0.11
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAACCCAAGATTG
Found at i:99475666 original size:46 final size:46
Alignment explanation
Indices: 99475585--99475706 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
99475575 TTACATCTCA
* *
99475585 TGAACTCGAACTCAACTCAACGAGTACGAACGTTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGAACGTTCGCATCCATAAG
* * *
99475631 TGATCTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGAACGTTCGCATCCATAAG
*
99475677 TGAACTCAGACTCAACTCAACGAGTTCGAA
1 TGAACTCGGACTCAACTCAACGAGTTCGAA
99475707 TGCCCAAATA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGAACGTTCGCATCCATAAG
Found at i:99478947 original size:95 final size:95
Alignment explanation
Indices: 99478777--99479803 Score: 1900
Period size: 95 Copynumber: 10.8 Consensus size: 95
99478767 GTAATTGAGA
* * * ** *
99478777 CATGCCCCAGACATGTCTTACACTGGCTT--ACATCTTGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
99478840 TTACACTAGCTCTCGTCTCAATGCCGGTGC
66 TTACACTAGCTCTCGTCTCAATGCCGGTGC
99478870 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
* * * * *
99478935 TTACACTGGCTCTCATACT--GTGGCTGATGC
66 TTACACTAGCTCTCGT-CTCAAT-GCCGGTGC
99478965 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
99479030 TTACACTAGCTCTCGTCTCAATGCCGGTGC
66 TTACACTAGCTCTCGTCTCAATGCCGGTGC
99479060 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
99479125 TTACACTAGCTCTCGTCTCAATGCCGGTGC
66 TTACACTAGCTCTCGTCTCAATGCCGGTGC
99479155 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
99479220 TTACACTAGCTCTCGTCTCAATGCCGGTGC
66 TTACACTAGCTCTCGTCTCAATGCCGGTGC
99479250 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
99479315 TTACACTAGCTCTCGTCTCAATGCCGGTGC
66 TTACACTAGCTCTCGTCTCAATGCCGGTGC
99479345 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
99479410 TTACACTAGCTCTCGTCTCAATGCCGGTGC
66 TTACACTAGCTCTCGTCTCAATGCCGGTGC
99479440 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
99479505 TTACACTAGCTCTCGTCTCAATGCCGGTGC
66 TTACACTAGCTCTCGTCTCAATGCCGGTGC
99479535 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
99479600 TTACACTAGCTCTCGTCTCAATGCCGGTGC
66 TTACACTAGCTCTCGTCTCAATGCCGGTGC
99479630 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
99479695 TTACACTAGCTCTCGTCTCAATGCCGGTGC
66 TTACACTAGCTCTCGTCTCAATGCCGGTGC
99479725 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
*
99479790 TTACACTGGCTCTC
66 TTACACTAGCTCTC
99479804 ATACTGTGGC
Statistics
Matches: 911, Mismatches: 17, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
93 27 0.03
94 3 0.00
95 878 0.96
96 3 0.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (95 bp):
CATGTCCCAGACATGCCTTACACTGGCTTAAATATCACGAGGCCGGTGCATGTCCCAGACATGTC
TTACACTAGCTCTCGTCTCAATGCCGGTGC
Found at i:99480246 original size:189 final size:189
Alignment explanation
Indices: 99479914--99480286 Score: 615
Period size: 189 Copynumber: 2.0 Consensus size: 189
99479904 AAGTCTTTAC
99479914 TACGTAAGTTTCTCAACATGTATTCTCATATTCCAAAACCAAGACAATTTATGCCAGATCAACTC
1 TACGTAAGTTTCTCAACATGTATTCTCATATTCCAAAACCAAGACAATTTATGCCAGATCAACTC
* * * *
99479979 AAATACACATTTAAAGATATAGTCGCATTATTAACATCCACCTTCCCTTAGATTACAAAATATAG
66 AAATACACATTTAAAGATATAGTCGCATTATTAACATACAACTTACCTGAGATTACAAAATATAG
*
99480044 TCGACATCTCGGCTTAGTCCACTTGCTTCGCTTTTCCCCGGTCTAGGCCCGGATTTTGT
131 TCGACAGCTCGGCTTAGTCCACTTGCTTCGCTTTTCCCCGGTCTAGGCCCGGATTTTGT
* *
99480103 TACGTAAGTTTCTCAACATGTATTCTCATATTCCAATACCAAGACAATTTATGCCATATCAACTC
1 TACGTAAGTTTCTCAACATGTATTCTCATATTCCAAAACCAAGACAATTTATGCCAGATCAACTC
*
99480168 AAATACACATTTAAAGATATAGTTGCATTATTAACATACAACTTACCTCGA-ATTACAAAA-ATA
66 AAATACACATTTAAAGATATAGTCGCATTATTAACATACAACTTACCT-GAGATTACAAAATATA
* * *
99480231 GTCGACTAGCTCGGCTTAGTCCACTTGCTTTGCTTTTCCTCGGTCTAGGCCTGGAT
130 GTCGAC-AGCTCGGCTTAGTCCACTTGCTTCGCTTTTCCCCGGTCTAGGCCCGGAT
99480287 AATGTAACTC
Statistics
Matches: 171, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
188 9 0.05
189 161 0.94
190 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (189 bp):
TACGTAAGTTTCTCAACATGTATTCTCATATTCCAAAACCAAGACAATTTATGCCAGATCAACTC
AAATACACATTTAAAGATATAGTCGCATTATTAACATACAACTTACCTGAGATTACAAAATATAG
TCGACAGCTCGGCTTAGTCCACTTGCTTCGCTTTTCCCCGGTCTAGGCCCGGATTTTGT
Found at i:99487486 original size:48 final size:48
Alignment explanation
Indices: 99487430--99487632 Score: 397
Period size: 48 Copynumber: 4.2 Consensus size: 48
99487420 CACGTCCTAA
99487430 ACATGTCTTACACTGGCTTAAATATCACGAGTTCGATGCATGTCCCAG
1 ACATGTCTTACACTGGCTTAAATATCACGAGTTCGATGCATGTCCCAG
99487478 ACATGTCTTACACTGGCTTAAATATCACGAGTTCGATGCATGTCCCAG
1 ACATGTCTTACACTGGCTTAAATATCACGAGTTCGATGCATGTCCCAG
99487526 ACATGTCTTACACTGGCTTAAATATCACGAGTTCGATGCATGTCCCAG
1 ACATGTCTTACACTGGCTTAAATATCACGAGTTCGATGCATGTCCCAG
99487574 ACATGTCTTACACTGGCTTAAATATCACGAGTTCGATGCATGTCCCAG
1 ACATGTCTTACACTGGCTTAAATATCACGAGTTCGATGCATGTCCCAG
*
99487622 ACATATCTTAC
1 ACATGTCTTAC
99487633 CCTAGCTCTC
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 154 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (48 bp):
ACATGTCTTACACTGGCTTAAATATCACGAGTTCGATGCATGTCCCAG
Found at i:99504238 original size:80 final size:80
Alignment explanation
Indices: 99504105--99504263 Score: 255
Period size: 80 Copynumber: 2.0 Consensus size: 80
99504095 TCTTTCCCAT
* ** *
99504105 TCTAAATTCTCTTGCTCTCTTGCTGATTTCTTCCCTTGGAAAAAGGGTGTTCATCAGCCATTTTG
1 TCTAAATTCTCTTGCTCTCTTCCCAATTTCTTCCCTTGGAAAAAGGGTGTTCATCAACCATTTTG
99504170 GAGCAACATTGAAGC
66 GAGCAACATTGAAGC
* * *
99504185 TCTAAATTCTCTTTCTTTCTTCCCAATTTCTTCCCTTGGAAAAGGGGTGTTCATCAACCATTTTG
1 TCTAAATTCTCTTGCTCTCTTCCCAATTTCTTCCCTTGGAAAAAGGGTGTTCATCAACCATTTTG
99504250 GAGCAACATTGAAG
66 GAGCAACATTGAAG
99504264 TGTTCGTAGT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 72 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (80 bp):
TCTAAATTCTCTTGCTCTCTTCCCAATTTCTTCCCTTGGAAAAAGGGTGTTCATCAACCATTTTG
GAGCAACATTGAAGC
Found at i:99506026 original size:35 final size:33
Alignment explanation
Indices: 99505958--99506023 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
99505948 CTGAGAATAA
99505958 ATTCTCTCTATTTTTTGGCAGAATAACAATCTC
1 ATTCTCTCTATTTTTTGGCAGAATAACAATCTC
99505991 ATTCTCTCTATTTTTTGGCAGAATAACAATCTC
1 ATTCTCTCTATTTTTTGGCAGAATAACAATCTC
99506024 TCAAAAGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.42
Consensus pattern (33 bp):
ATTCTCTCTATTTTTTGGCAGAATAACAATCTC
Found at i:99506386 original size:25 final size:26
Alignment explanation
Indices: 99506358--99506432 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 26
99506348 TTCTCACCCC
99506358 AATTTTAACCCT-ATAAAATTTTGAT
1 AATTTTAACCCTGATAAAATTTTGAT
99506383 AATTTT-ACCTCTGATAAAATTTTGAT
1 AATTTTAACC-CTGATAAAATTTTGAT
* * * *
99506409 GATTTTATCCCTGGTAAACTTTTG
1 AATTTTAACCCTGATAAAATTTTG
99506433 GAAAATTCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
24 3 0.07
25 8 0.19
26 30 0.70
27 2 0.05
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.45
Consensus pattern (26 bp):
AATTTTAACCCTGATAAAATTTTGAT
Found at i:99506587 original size:6 final size:6
Alignment explanation
Indices: 99506573--99506606 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
99506563 GGATTGCAAG
* *
99506573 TTTTCA TTTTAA TTTTCA TTTTCA TTTCCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
99506607 TGGAATACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTCA
Found at i:99509177 original size:26 final size:26
Alignment explanation
Indices: 99509110--99509177 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
99509100 TAGTTCTAGC
*
99509110 AGACTTCCACAGTTAAGATCGTCTTGAT
1 AGACTTCCACA-TT-AGATCGTCGTGAT
* *
99509138 AGAATTCCATATTAGATCGTCGTGAT
1 AGACTTCCACATTAGATCGTCGTGAT
* *
99509164 GGACTTCTACATTA
1 AGACTTCCACATTA
99509178 ATGGTAATGC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
26 22 0.67
27 2 0.06
28 9 0.27
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (26 bp):
AGACTTCCACATTAGATCGTCGTGAT
Found at i:99510461 original size:43 final size:43
Alignment explanation
Indices: 99510400--99510486 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
99510390 AGTGTGACAA
*
99510400 AGTGCACCATCAGATATACCAAAGCAATTTTACTGGCACACAC
1 AGTGCACCATCAGATATACCAAAGCAATTATACTGGCACACAC
* * * *
99510443 AGTGCATCATCAGATATACGAAAGTAGTTATACTGGCACACAC
1 AGTGCACCATCAGATATACCAAAGCAATTATACTGGCACACAC
99510486 A
1 A
99510487 TAGAGCACCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (43 bp):
AGTGCACCATCAGATATACCAAAGCAATTATACTGGCACACAC
Found at i:99510762 original size:11 final size:11
Alignment explanation
Indices: 99510732--99510762 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
99510722 ATCTCAACTC
*
99510732 ATTTCATACCA
1 ATTTCATATCA
99510743 ATTTCATATCA
1 ATTTCATATCA
99510754 ATTTCATAT
1 ATTTCATAT
99510763 ATCAAGTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTTCATATCA
Found at i:99517445 original size:23 final size:24
Alignment explanation
Indices: 99517419--99517510 Score: 125
Period size: 23 Copynumber: 3.9 Consensus size: 24
99517409 TAGCTCGTAA
99517419 GAGCTTACTGTTT-TAGCTCATTG
1 GAGCTTACTGTTTATAGCTCATTG
99517442 GAGCTTACTGTTT-TAGCTCATTG
1 GAGCTTACTGTTTATAGCTCATTG
* * * *
99517465 GAGCTTACCGTTTGTAGCTCAATA
1 GAGCTTACTGTTTATAGCTCATTG
99517489 GAGCTTACTGTTTATCAGCTCA
1 GAGCTTACTGTTTAT-AGCTCA
99517511 GGAGGAGCTT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 35 0.56
24 21 0.34
25 6 0.10
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (24 bp):
GAGCTTACTGTTTATAGCTCATTG
Found at i:99517495 original size:47 final size:49
Alignment explanation
Indices: 99517419--99517524 Score: 137
Period size: 47 Copynumber: 2.2 Consensus size: 49
99517409 TAGCTCGTAA
* * * **
99517419 GAGCTTACTGTTTTAGCTCATTGGAGCTTACTGTTT-T-AGCTCA-TTG
1 GAGCTTACCGTTTTAGCTCAATAGAGCTTACTGTTTATCAGCTCAGGAG
99517465 GAGCTTACCGTTTGTAGCTCAATAGAGCTTACTGTTTATCAGCTCAGGAG
1 GAGCTTACCGTTT-TAGCTCAATAGAGCTTACTGTTTATCAGCTCAGGAG
99517515 GAGCTTACCG
1 GAGCTTACCG
99517525 ACCATGACCC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
46 12 0.24
47 21 0.41
48 1 0.02
49 6 0.12
50 11 0.22
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (49 bp):
GAGCTTACCGTTTTAGCTCAATAGAGCTTACTGTTTATCAGCTCAGGAG
Found at i:99520823 original size:27 final size:27
Alignment explanation
Indices: 99520711--99520822 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
99520701 AGCATGGCTG
* ** *
99520711 CCAGAACAGATAA-TGTGATAGAGTCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
*
99520737 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAT-CAGATAATTGTGGCAGAGCCA
* *
99520765 CCAGAACAGA-AGTATGTGGCAGAGCCA
1 CCAGATCAGATAAT-TGTGGCAGAGCCA
* *
99520792 CCAGGTCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
99520819 CCAG
1 CCAG
99520823 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.10
27 47 0.67
28 16 0.23
ACGTcount: A:0.36, C:0.22, G:0.26, T:0.16
Consensus pattern (27 bp):
CCAGATCAGATAATTGTGGCAGAGCCA
Found at i:99524427 original size:17 final size:15
Alignment explanation
Indices: 99524414--99524456 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
99524404 CTGTTATATT
99524414 TATATTTTTATTATA
1 TATATTTTTATTATA
*
99524429 TATATTATTTATTCTA
1 TATATT-TTTATTATA
99524445 CTATATTTTTAT
1 -TATATTTTTAT
99524457 ATGTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 6 0.24
16 13 0.52
17 6 0.24
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (15 bp):
TATATTTTTATTATA
Found at i:99524449 original size:21 final size:21
Alignment explanation
Indices: 99524391--99524450 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 21
99524381 TTTTGTTTTG
*
99524391 TATATTATTTATTCT-GT-TA
1 TATATTATTTATTCTACTATA
*
99524410 TAT-TTATATT-TT-TATTATA
1 TATATTAT-TTATTCTACTATA
99524429 TATATTATTTATTCTACTATA
1 TATATTATTTATTCTACTATA
99524450 T
1 T
99524451 TTTTATATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
17 1 0.03
18 7 0.21
19 12 0.36
20 6 0.18
21 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (21 bp):
TATATTATTTATTCTACTATA
Found at i:99535563 original size:55 final size:55
Alignment explanation
Indices: 99535502--99535640 Score: 242
Period size: 55 Copynumber: 2.5 Consensus size: 55
99535492 GAGGAGAATT
99535502 CAAGGTGAAAACCCGCAAAGGGCGCCTTGAGTTTTCGAAAAAAAAATGGAGAGGC
1 CAAGGTGAAAACCCGCAAAGGGCGCCTTGAGTTTTCGAAAAAAAAATGGAGAGGC
* * *
99535557 CAAGGTGAAAACCCACAAAGGACGCCTTGAGTTTTCGAAAAAAAATTGGAGAGGC
1 CAAGGTGAAAACCCGCAAAGGGCGCCTTGAGTTTTCGAAAAAAAAATGGAGAGGC
*
99535612 CAAGGTGAAAACCTGCAAAGGGCGCCTTG
1 CAAGGTGAAAACCCGCAAAGGGCGCCTTG
99535641 TGACCAAAGG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 78 1.00
ACGTcount: A:0.37, C:0.19, G:0.28, T:0.15
Consensus pattern (55 bp):
CAAGGTGAAAACCCGCAAAGGGCGCCTTGAGTTTTCGAAAAAAAAATGGAGAGGC
Found at i:99536226 original size:30 final size:30
Alignment explanation
Indices: 99536190--99536250 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
99536180 AATTATTCGA
*
99536190 TCCTAAGAGAGGATCATCTTACAGACATTT
1 TCCTAAGAAAGGATCATCTTACAGACATTT
99536220 TCCTAAGAAAGGATCATCTTACAGACATTT
1 TCCTAAGAAAGGATCATCTTACAGACATTT
99536250 T
1 T
99536251 TGGTGGGTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (30 bp):
TCCTAAGAAAGGATCATCTTACAGACATTT
Found at i:99536635 original size:78 final size:78
Alignment explanation
Indices: 99536536--99537633 Score: 1812
Period size: 78 Copynumber: 14.1 Consensus size: 78
99536526 GTAACAGGCT
* * * *
99536536 AAGACATAGCAGATCAGACCTTCATTAAAGTAGATCCAAGATGATTTGGCATCTTTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
99536601 AGGA-AGCAGATTG
66 -GGAGAGCAGATCG
* * *
99536614 AAGACACAGTAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCGTCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
99536679 GG-GAAGCAGATCG
66 GGAG-AGCAGATCG
* *
99536692 AAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCGTCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
99536757 GG-GAAGCAGATCG
66 GGAG-AGCAGATCG
*
99536770 AAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
99536835 GGAGAGCAGATCG
66 GGAGAGCAGATCG
*
99536848 AAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
99536913 GGAGAGCAGATCG
66 GGAGAGCAGATCG
*
99536926 AAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
99536991 GGAGAGCAGATCG
66 GGAGAGCAGATCG
*
99537004 AAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
99537069 GGAGAGCAGATCG
66 GGAGAGCAGATCG
*
99537082 AAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
99537147 GGAGAGCAGATCG
66 GGAGAGCAGATCG
*
99537160 AAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
99537225 AGG-GAGCAAATCG
66 -GGAGAGCAGATCG
* * *
99537238 AAGACATAGCAAATCTGACCTTCATTGAAACCGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
* *
99537303 GGGGAGCAGATCA
66 GGAGAGCAGATCG
* *
99537316 AAGACATAACAGAT-TGGACCTTCATTGAAGCAGATCCAACATGATTTGGCATCTCTGTATTAGA
1 AAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGA
* *
99537380 CGGGGAGCAGATTG
65 CGGAGAGCAGATCG
* * *
99537394 AAGACATAGCAAATCTGACCTTCATTGAAACCGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
99537459 GGAGAGCAGATCG
66 GGAGAGCAGATCG
*
99537472 AAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
99537537 GGAGAGCAGATCG
66 GGAGAGCAGATCG
99537550 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
* *
99537615 AGG-GAGCAGAGCA
66 -GGAGAGCAGATCG
99537628 AAGACA
1 AAGACA
99537634 GCAGATATCG
Statistics
Matches: 972, Mismatches: 40, Indels: 16
0.95 0.04 0.02
Matches are distributed among these distances:
77 5 0.01
78 961 0.99
79 6 0.01
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
GGAGAGCAGATCG
Found at i:99536727 original size:37 final size:37
Alignment explanation
Indices: 99536681--99536810 Score: 95
Period size: 37 Copynumber: 3.4 Consensus size: 37
99536671 TATTAGACGG
*
99536681 GAAGCAGATCGAAGACACAGCAGATCTGACCTTCATT
1 GAAGCAGATCCAAGACACAGCAGATCTGACCTTCATT
* ** * * **
99536718 GAAGCAGATCCAAGATGATTTGGC-GTCTCTGTA--TTAGACG
1 GAAGCAGATCCAAGA-CA--CAGCAG-ATCTG-ACCTT-CATT
*
99536758 GGAAGCAGATCGAAGACACAGCAGATCTGACCTTCATT
1 G-AAGCAGATCCAAGACACAGCAGATCTGACCTTCATT
99536796 GAAGCAGATCCAAGA
1 GAAGCAGATCCAAGA
99536811 TGATTTGGCA
Statistics
Matches: 66, Mismatches: 17, Indels: 20
0.64 0.17 0.19
Matches are distributed among these distances:
37 28 0.42
38 9 0.14
39 6 0.09
40 9 0.14
41 14 0.21
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (37 bp):
GAAGCAGATCCAAGACACAGCAGATCTGACCTTCATT
Found at i:99537873 original size:13 final size:12
Alignment explanation
Indices: 99537840--99537878 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
99537830 ATAATTAAAT
*
99537840 AAATAAAACCAA
1 AAATAAAAACAA
99537852 AAA-AAAAACAA
1 AAATAAAAACAA
99537863 AACATAAAAACAA
1 AA-ATAAAAACAA
99537876 AAA
1 AAA
99537879 AAATGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 9 0.38
12 5 0.21
13 10 0.42
ACGTcount: A:0.82, C:0.13, G:0.00, T:0.05
Consensus pattern (12 bp):
AAATAAAAACAA
Found at i:99539228 original size:22 final size:22
Alignment explanation
Indices: 99539193--99539248 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
99539183 TTTATTCTGT
*
99539193 TATATT-TATATTTATA-T-TA
1 TATATTATATATTTTTATTATA
*
99539212 TATGTTATATATTTTTATTATA
1 TATATTATATATTTTTATTATA
*
99539234 TATATTATTTATTTT
1 TATATTATATATTTT
99539249 ACTATATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.17
20 9 0.30
21 1 0.03
22 15 0.50
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TATATTATATATTTTTATTATA
Found at i:99539237 original size:29 final size:29
Alignment explanation
Indices: 99539197--99539263 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 29
99539187 TTCTGTTATA
*
99539197 TTTATATTTATATTA-TATGTTATATATT
1 TTTATATATATATTATTATGTTATATATT
*
99539225 TTTATTATATATATTATTTATTTTACTATATT
1 TTTA-TATATATATTA-TTATGTTA-TATATT
99539257 TTTATAT
1 TTTATAT
99539264 GTAAAATACT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 4 0.12
29 10 0.30
31 9 0.27
32 10 0.30
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (29 bp):
TTTATATATATATTATTATGTTATATATT
Found at i:99539254 original size:17 final size:15
Alignment explanation
Indices: 99539217--99539261 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
99539207 TATTATATGT
99539217 TATATATTTTTATTA
1 TATATATTTTTATTA
*
99539232 TATATATTATTTATTT
1 TATATATT-TTTATTA
99539248 TACTATATTTTTAT
1 TA-TATATTTTTAT
99539262 ATGTAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 8 0.30
16 13 0.48
17 6 0.22
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TATATATTTTTATTA
Found at i:99539255 original size:58 final size:58
Alignment explanation
Indices: 99539158--99539366 Score: 140
Period size: 61 Copynumber: 3.6 Consensus size: 58
99539148 TTATCATATA
* * * * **
99539158 TATATATTTTTTGTTTTGTATATTATTTATTCTGTTATATTTATATTTATATTATATGT
1 TATATA-TTTTTATTATATATATTATTTATTATACTATATTTATATTTATATTATATGT
* * * *
99539217 TATATATTTTTATTATATATATTATTTATTTTACTATATTTTTATATGTAAAATACT-TGT
1 TATATATTTTTATTATATATATTATTTATTATACTATA--TTTATATTTATATTA-TATGT
* * ** * * * *
99539277 TATATCATTATTATTCTATATATTCCTTATCATACTATATTT-CA-TTATATTTTAT-C
1 TATAT-ATTTTTATTATATATATTATTTATTATACTATATTTATATTTATATTATATGT
* *
99539333 TACATATTTTTATTACATAT-TATATTTTATTATA
1 TATATATTTTTATTATATATAT-TA-TTTATTATA
99539367 TATTATTCAT
Statistics
Matches: 115, Mismatches: 28, Indels: 17
0.72 0.17 0.11
Matches are distributed among these distances:
54 1 0.01
55 13 0.11
56 12 0.10
57 5 0.04
58 27 0.23
59 9 0.08
60 20 0.17
61 28 0.24
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (58 bp):
TATATATTTTTATTATATATATTATTTATTATACTATATTTATATTTATATTATATGT
Found at i:99539362 original size:17 final size:17
Alignment explanation
Indices: 99539320--99539372 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
99539310 ACTATATTTC
99539320 ATTATATTTTATCTAC--
1 ATTATATTTTAT-TACAT
99539336 A-TAT-TTTTATTACAT
1 ATTATATTTTATTACAT
*
99539351 ATTATATTTTATTATAT
1 ATTATATTTTATTACAT
99539368 ATTAT
1 ATTAT
99539373 TCATTATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.09
14 6 0.19
15 4 0.12
16 4 0.12
17 15 0.47
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTATATTTTATTACAT
Found at i:99539425 original size:23 final size:22
Alignment explanation
Indices: 99539394--99539460 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 22
99539384 TCTTTCTTTC
99539394 TTTTA-TATATATATTATATACA
1 TTTTATTATATATATTATATA-A
*
99539416 TTTTATTATATATATTTATATAT
1 TTTTATTATATATA-TTATATAA
99539439 TATTTATTATATGAT-TTATATA
1 T-TTTATTATAT-ATATTATATA
99539461 TTTATATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
22 5 0.12
23 16 0.40
24 17 0.43
25 2 0.05
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (22 bp):
TTTTATTATATATATTATATAA
Found at i:99539435 original size:29 final size:28
Alignment explanation
Indices: 99539397--99539475 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 28
99539387 TTCTTTCTTT
*
99539397 TATATATATATTATATACATTTTATTATA
1 TATATTTATATTATATA-ATTTTATTATA
99539426 TATATTTATA-TAT-T-A-TTTATTATA
1 TATATTTATATTATATAATTTTATTATA
99539450 TGAT-TTATATATT-TATATATTTTATT
1 T-ATATT-TATATTATATA-ATTTTATT
99539476 TGTAAATTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
24 12 0.29
25 8 0.19
26 2 0.05
27 1 0.02
28 4 0.10
29 15 0.36
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (28 bp):
TATATTTATATTATATAATTTTATTATA
Found at i:99539436 original size:31 final size:31
Alignment explanation
Indices: 99539401--99539470 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
99539391 TTCTTTTATA
* *
99539401 TATATATTATATA-CATTTTATTATATATATT
1 TATATATTATATATCATATGATT-TATATATT
* *
99539432 TATATATTATTTATTATATGATTTATATATT
1 TATATATTATATATCATATGATTTATATATT
99539463 TATATATT
1 TATATATT
99539471 TTATTTGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 28 0.82
32 6 0.18
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (31 bp):
TATATATTATATATCATATGATTTATATATT
Found at i:99539465 original size:24 final size:24
Alignment explanation
Indices: 99539417--99539462 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
99539407 TTATATACAT
*
99539417 TTTATTATATATATTTATATATTA
1 TTTATTATATAGATTTATATATTA
99539441 TTTATTATAT-GATTTATATATT
1 TTTATTATATAGATTTATATATT
99539463 TATATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTATTATATAGATTTATATATTA
Found at i:99539491 original size:33 final size:33
Alignment explanation
Indices: 99539424--99539507 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 33
99539414 CATTTTATTA
* *
99539424 TATATATTTATATA--TTATTTATTATATGATT
1 TATATATTTATATATTTTATTTAGTAAATGATT
*
99539455 TATATATTTATATATTTTATTT-GTAAATTATGT
1 TATATATTTATATATTTTATTTAGTAAATGAT-T
* *
99539488 TATACACTATATATATTTTA
1 TATATA-TTTATATATTTTA
99539508 CCATATTTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
31 14 0.32
32 6 0.14
33 12 0.27
34 12 0.27
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (33 bp):
TATATATTTATATATTTTATTTAGTAAATGATT
Found at i:99545696 original size:10 final size:10
Alignment explanation
Indices: 99545681--99545748 Score: 61
Period size: 10 Copynumber: 6.7 Consensus size: 10
99545671 TAATATAGGG
99545681 AATAATATAT
1 AATAATATAT
99545691 AATAATATAT
1 AATAATATAT
*
99545701 GATAAGTA-AT
1 AATAA-TATAT
99545711 AA-AATATAT
1 AATAATATAT
*
99545720 AAATAAAATAT
1 -AATAATATAT
99545731 AATGAA-ATAT
1 AAT-AATATAT
99545741 AAATAATA
1 -AATAATA
99545749 CAATAAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
8 2 0.04
9 4 0.08
10 28 0.58
11 14 0.29
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.32
Consensus pattern (10 bp):
AATAATATAT
Found at i:99545712 original size:17 final size:16
Alignment explanation
Indices: 99545689--99545769 Score: 59
Period size: 15 Copynumber: 5.2 Consensus size: 16
99545679 GGAATAATAT
99545689 ATAATAATATATGATAA
1 ATAATAATATAT-ATAA
* *
99545706 GTAATAAAATATATAA
1 ATAATAATATATATAA
99545722 ATAA-AATATA-ATGAA
1 ATAATAATATATAT-AA
99545737 AT-ATAA-ATA-ATACA
1 ATAATAATATATATA-A
99545751 AT-A-AATATCATATAA
1 ATAATAATAT-ATATAA
99545766 ATAA
1 ATAA
99545770 GGATAGTACA
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
13 3 0.06
14 14 0.26
15 15 0.28
16 11 0.21
17 10 0.19
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (16 bp):
ATAATAATATATATAA
Found at i:99545953 original size:17 final size:18
Alignment explanation
Indices: 99545888--99545980 Score: 56
Period size: 17 Copynumber: 5.4 Consensus size: 18
99545878 TAGGAATAGT
*
99545888 ATATATAATAACAT-ATA
1 ATATATAATAATATAATA
* *
99545905 ATATATAATAAAATTTATA
1 ATATATAATAATA-TAATA
**
99545924 A-ATA-AATTGTATAATA
1 ATATATAATAATATAATA
*
99545940 ATATA-AATAATATAATGG
1 ATATATAATAATATAAT-A
99545958 ATA-ATATATAA-A-AATA
1 ATATATA-ATAATATAATA
99545974 ATATATA
1 ATATATA
99545981 CTATTTTATA
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
16 8 0.13
17 35 0.58
18 9 0.15
19 8 0.13
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (18 bp):
ATATATAATAATATAATA
Found at i:99545969 original size:203 final size:199
Alignment explanation
Indices: 99545581--99545951 Score: 447
Period size: 203 Copynumber: 1.8 Consensus size: 199
99545571 TATAATAACA
* *
99545581 ATATATATTAATTTATAATAATTTAAAATTTTAATTTTTATATACTAATAAATAATAAATAATGA
1 ATATATATTAATTTATAATAATTTAAAATTTTAAATTTTAGATACTAATAAATAATAAATAATGA
* *
99545646 AATAATATATATAATAAAAGGAAGATAATATAGGGAATAATATATAATAATATATGATAAGTAAT
66 AATAATATATATAATAAAAGGAAGATAATATAGGGAATAATATATAATAACATATAATAAGTAAT
99545711 AAAATATATAAATAAAATATAATGAAATATAAATAATACAATAAATATCATATAAATAAGGATAG
131 AAAATATATAAATAAAATATAAT-AAATATAAATAATACAATAAATATCATATAAATAAGGATAG
99545776 TACAT
195 TACAT
* *
99545781 ATATACTATT-ATTTAATAATAATTTTTAAAATATTTAAAATTTTAGATAATTAATGAATAATAA
1 ATATA-TATTAATTT-ATAATAA--TTTAAAAT-TTT-AAATTTTAGAT-ACTAATAAATAAT-A
* *
99545845 AATAAT-ACATAAT-T-TATAATAAAA-TAA-A-AATACTA-GGAATAGTATATATAATAACATA
58 AATAATGAAATAATATATATAATAAAAGGAAGATAATA-TAGGGAATA--ATATATAATAACATA
* *
99545903 TAATATA-TAATAAAATTTATAAATAAATTGTATAAT-AATATAAATAATA
120 TAATA-AGTAATAAAATATATAAATAAA--ATATAATAAATATAAATAATA
99545952 TAATGGATAA
Statistics
Matches: 147, Mismatches: 10, Indels: 25
0.81 0.05 0.14
Matches are distributed among these distances:
200 9 0.06
201 21 0.14
202 3 0.02
203 60 0.41
204 14 0.10
205 16 0.11
206 17 0.12
207 7 0.05
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (199 bp):
ATATATATTAATTTATAATAATTTAAAATTTTAAATTTTAGATACTAATAAATAATAAATAATGA
AATAATATATATAATAAAAGGAAGATAATATAGGGAATAATATATAATAACATATAATAAGTAAT
AAAATATATAAATAAAATATAATAAATATAAATAATACAATAAATATCATATAAATAAGGATAGT
ACAT
Found at i:99552427 original size:40 final size:40
Alignment explanation
Indices: 99552375--99552457 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
99552365 GATTTTCACC
* *
99552375 TCTTTCCTTTCCTCTAGGGCTACATTCTCTATTGCCTCTT
1 TCTTTCCCTTCCTCCAGGGCTACATTCTCTATTGCCTCTT
*
99552415 TCTTTCCCTTCCTCCAGGGCTACATTCTCTATTGCCTTTT
1 TCTTTCCCTTCCTCCAGGGCTACATTCTCTATTGCCTCTT
99552455 TCT
1 TCT
99552458 CATGGGGCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.10, C:0.34, G:0.10, T:0.47
Consensus pattern (40 bp):
TCTTTCCCTTCCTCCAGGGCTACATTCTCTATTGCCTCTT
Found at i:99560011 original size:40 final size:40
Alignment explanation
Indices: 99559928--99560150 Score: 213
Period size: 40 Copynumber: 5.6 Consensus size: 40
99559918 TTGAATGCTG
* * * * *
99559928 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* * *
99559968 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
* **
99560008 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
**
99560048 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TACTAAA
* * *
99560088 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* *
99560127 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
99560151 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 34 0.21
40 114 0.72
41 10 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:99560065 original size:80 final size:79
Alignment explanation
Indices: 99559928--99560152 Score: 242
Period size: 80 Copynumber: 2.8 Consensus size: 79
99559918 TTGAATGCTG
* * * * * *
99559928 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
99559991 TTGTGCGAGA-TACTAAA
63 TTGTGCGA-ATTACTAAA
* *
99560008 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTT
**
99560073 GTGCGAATTGTTAAA
65 GTGCGAATTACTAAA
* * * *
99560088 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
99560152 G
65 G
99560153 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 37 0.30
80 81 0.65
81 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:99560170 original size:79 final size:80
Alignment explanation
Indices: 99560003--99560185 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
99559993 GTGCGAGATA
** *
99560003 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
99560068 CATTCGTGCGAATTG
66 CATTCGAACGAAGAG
* * * *
99560083 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
* *
99560147 CATTTGAACGAGGAG
66 CATTCGAACGAAGAG
* *
99560162 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
99560186 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAAGAG
Found at i:99560170 original size:119 final size:120
Alignment explanation
Indices: 99559928--99560185 Score: 281
Period size: 119 Copynumber: 2.2 Consensus size: 120
99559918 TTGAATGCTG
* * * * *
99559928 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
* ** ** *
99559993 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
* * * *
99560048 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTG-TTAAATCCGGGTTATG-TCCCGAAGG-CA
1 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCGAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCCA
* * * * *
99560110 TTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
64 TTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
*
99560167 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
99560186 TACGTGATTT
Statistics
Matches: 115, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
118 15 0.13
119 51 0.44
120 39 0.34
121 10 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
Found at i:99563362 original size:10 final size:10
Alignment explanation
Indices: 99563347--99563414 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 10
99563337 TAATATAGGG
99563347 AATAATATAT
1 AATAATATAT
*
99563357 AATAATCTAT
1 AATAATATAT
*
99563367 GATAAGTA-AT
1 AATAA-TATAT
99563377 AA-AATATAT
1 AATAATATAT
*
99563386 AAATAAAATAT
1 -AATAATATAT
99563397 AATGAA-ATAT
1 AAT-AATATAT
99563407 AAATAATA
1 -AATAATA
99563415 CAATAAATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
8 2 0.04
9 4 0.09
10 27 0.59
11 13 0.28
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (10 bp):
AATAATATAT
Found at i:99568788 original size:25 final size:25
Alignment explanation
Indices: 99568746--99568822 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
99568736 CGTATGAGTT
*
99568746 TACCGATT-ACAGCTCGTAAAAGCA
1 TACCGATTCATAGCTCGTAAAAGCA
99568770 TACCGATTCATAGCTCGTAAAAGCA
1 TACCGATTCATAGCTCGTAAAAGCA
* * **
99568795 TACCGACTCGTAGCTCGTATGAGCA
1 TACCGATTCATAGCTCGTAAAAGCA
99568820 TAC
1 TAC
99568823 ATGACAGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 8 0.17
25 39 0.83
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (25 bp):
TACCGATTCATAGCTCGTAAAAGCA
Found at i:99573166 original size:31 final size:31
Alignment explanation
Indices: 99573128--99573186 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
99573118 GATTAAATCC
99573128 AACCAAAAACAGCAAATATAGCATAAAATGA
1 AACCAAAAACAGCAAATATAGCATAAAATGA
* *
99573159 AACCAAAAACAGCAAATTTAGCTTAAAA
1 AACCAAAAACAGCAAATATAGCATAAAA
99573187 AATACAACTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.59, C:0.17, G:0.08, T:0.15
Consensus pattern (31 bp):
AACCAAAAACAGCAAATATAGCATAAAATGA
Found at i:99573940 original size:13 final size:14
Alignment explanation
Indices: 99573914--99573942 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
99573904 ACTAATGACG
99573914 AATTAAACCATTAT
1 AATTAAACCATTAT
99573928 AATTAAA-CATTAT
1 AATTAAACCATTAT
99573941 AA
1 AA
99573943 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:99579007 original size:9 final size:9
Alignment explanation
Indices: 99578993--99579124 Score: 174
Period size: 9 Copynumber: 14.7 Consensus size: 9
99578983 TAAGTATAAA
99578993 TAAGTTATG
1 TAAGTTATG
99579002 TAAGTTATG
1 TAAGTTATG
99579011 TAAGTTATG
1 TAAGTTATG
*
99579020 TGAGTTATG
1 TAAGTTATG
99579029 TAAGTTATG
1 TAAGTTATG
*
99579038 TAAGTTATA
1 TAAGTTATG
* *
99579047 TGAGTTACG
1 TAAGTTATG
*
99579056 TGAGTTATG
1 TAAGTTATG
* *
99579065 TGAGCTATG
1 TAAGTTATG
99579074 TAAGTTATG
1 TAAGTTATG
*
99579083 TAAGTTATA
1 TAAGTTATG
99579092 TAAGTTATG
1 TAAGTTATG
*
99579101 TAACTTATG
1 TAAGTTATG
*
99579110 TTAGTTATG
1 TAAGTTATG
99579119 TAAGTT
1 TAAGTT
99579125 CAAGTATATA
Statistics
Matches: 107, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 107 1.00
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:99579457 original size:29 final size:29
Alignment explanation
Indices: 99579394--99579459 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
99579384 TCAGATGGAA
* *
99579394 AAAAAATATTTTAATTAAATAATATTTAT
1 AAAAATTATATTAATTAAATAATATTTAT
*
99579423 AAAAATTATATTAATTTAATAATATTTA-
1 AAAAATTATATTAATTAAATAATATTTAT
99579451 AATAAATTA
1 AA-AAATTA
99579460 ATCCAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 2 0.06
29 31 0.94
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
AAAAATTATATTAATTAAATAATATTTAT
Found at i:99580260 original size:67 final size:67
Alignment explanation
Indices: 99580152--99580356 Score: 401
Period size: 67 Copynumber: 3.1 Consensus size: 67
99580142 CATACACCTG
99580152 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAATGGCTAATCTTAGATGTCTATGTGGTTT
1 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAATGGCTAATCTTAGATGTCTATGTGGTTT
99580217 GC
66 GC
99580219 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAATGGCTAATCTTAGATGTCTATGTGGTTT
1 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAATGGCTAATCTTAGATGTCTATGTGGTTT
99580284 GC
66 GC
*
99580286 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAATGGCTAATCTTAGTTGTCTATGTGGTTT
1 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAATGGCTAATCTTAGATGTCTATGTGGTTT
99580351 GC
66 GC
99580353 CATT
1 CATT
99580357 ATAAATTGAG
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 137 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (67 bp):
CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAATGGCTAATCTTAGATGTCTATGTGGTTT
GC
Found at i:99581868 original size:27 final size:28
Alignment explanation
Indices: 99581819--99581874 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
99581809 TACAGCAGAT
*
99581819 GAGTACGACGGTGACGCAGCAGATGGTC
1 GAGTACGACGGTGACGCAACAGATGGTC
* *
99581847 GAGT-CGATGGTGATGCAACAGATGGTC
1 GAGTACGACGGTGACGCAACAGATGGTC
99581874 G
1 G
99581875 GGTCCAGCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.25, C:0.18, G:0.39, T:0.18
Consensus pattern (28 bp):
GAGTACGACGGTGACGCAACAGATGGTC
Found at i:99581949 original size:13 final size:13
Alignment explanation
Indices: 99581931--99581962 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
99581921 TGGGGTTAGG
99581931 GGGAAAATTTTAA
1 GGGAAAATTTTAA
*
99581944 GGGAAAATTTTAG
1 GGGAAAATTTTAA
99581957 GGGAAA
1 GGGAAA
99581963 GACCTAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (13 bp):
GGGAAAATTTTAA
Found at i:99582694 original size:27 final size:26
Alignment explanation
Indices: 99582597--99582690 Score: 136
Period size: 26 Copynumber: 3.6 Consensus size: 26
99582587 AAGAATTAGA
* *
99582597 TAAATTTTGAAATATTGAAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
99582623 TAAAATTTGAAATCTTGAAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
* *
99582649 TAAAATTTTAATTCTTGAAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
99582675 CT-AAATTTGAAATCTT
1 -TAAAATTTGAAATCTT
99582691 TGAATTTTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 60 0.98
27 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (26 bp):
TAAAATTTGAAATCTTGAAAATTATT
Found at i:99582760 original size:30 final size:30
Alignment explanation
Indices: 99582726--99582790 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
99582716 ATTAAAAAAC
* * *
99582726 AACCCCT-AAACCTTGTCCCTTTAATCCTAT
1 AACCCCTAAAACC-TATCCCTTTAAACCCAT
99582756 AACCCCTAAAACCTATCCCTTTAAACCCAT
1 AACCCCTAAAACCTATCCCTTTAAACCCAT
99582786 AACCC
1 AACCC
99582791 ATAACCCCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 26 0.84
31 5 0.16
ACGTcount: A:0.32, C:0.40, G:0.02, T:0.26
Consensus pattern (30 bp):
AACCCCTAAAACCTATCCCTTTAAACCCAT
Found at i:99583064 original size:15 final size:15
Alignment explanation
Indices: 99583044--99583082 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
99583034 AAACCACAAC
99583044 CCCTAAACCCATAAT
1 CCCTAAACCCATAAT
*
99583059 CCCTAAACACATAAT
1 CCCTAAACCCATAAT
99583074 CCCTAAACC
1 CCCTAAACC
99583083 TTAAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (15 bp):
CCCTAAACCCATAAT
Found at i:99589207 original size:15 final size:15
Alignment explanation
Indices: 99589187--99589217 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
99589177 CAATACTAAG
99589187 TATTTATATATTTTT
1 TATTTATATATTTTT
99589202 TATTTATATATTTTT
1 TATTTATATATTTTT
99589217 T
1 T
99589218 CAGAATAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTATATATTTTT
Found at i:99589769 original size:17 final size:17
Alignment explanation
Indices: 99589747--99589782 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
99589737 ATGCACTAAC
*
99589747 ATAAAAATGTAATGACA
1 ATAAAAATGCAATGACA
99589764 ATAAAAATGCAATGACA
1 ATAAAAATGCAATGACA
99589781 AT
1 AT
99589783 GTATACTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.22
Consensus pattern (17 bp):
ATAAAAATGCAATGACA
Found at i:99591346 original size:26 final size:26
Alignment explanation
Indices: 99591312--99591363 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
99591302 CTCTAACTCG
99591312 TTATAATAAAGGTTAGCATAAAAACT
1 TTATAATAAAGGTTAGCATAAAAACT
*
99591338 TTATCATAAAGGTTAGCATAAAAACT
1 TTATAATAAAGGTTAGCATAAAAACT
99591364 AACATACCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.31
Consensus pattern (26 bp):
TTATAATAAAGGTTAGCATAAAAACT
Found at i:99599694 original size:65 final size:65
Alignment explanation
Indices: 99599608--99599752 Score: 202
Period size: 65 Copynumber: 2.2 Consensus size: 65
99599598 TATTGGGCCG
* * *
99599608 CTCATAAAGAGCTGCGTTTGTGTCCACAACATATGCAGGATCACAACCTATC-GTATAGTAGGAC
1 CTCATAAAGAGCTGCGTTTGTGTCCACAACATATGCAGGATCACAACCAATCAATA-AGCAGGAC
99599672 A
65 A
* ** * *
99599673 CTCACAAAGAGCTGCGTTTGTGTCTGCAACATATGTAGGATCACAACCAATCAATAAGCAGGACG
1 CTCATAAAGAGCTGCGTTTGTGTCCACAACATATGCAGGATCACAACCAATCAATAAGCAGGACA
99599738 CTCATAAAGAGCTGC
1 CTCATAAAGAGCTGC
99599753 TGTAGTTGCA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
65 68 0.97
66 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (65 bp):
CTCATAAAGAGCTGCGTTTGTGTCCACAACATATGCAGGATCACAACCAATCAATAAGCAGGACA
Found at i:99603345 original size:16 final size:16
Alignment explanation
Indices: 99603324--99603355 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
99603314 TTAAATTTCA
99603324 AAAATAAAATAATATC
1 AAAATAAAATAATATC
*
99603340 AAAATAAAATATTATC
1 AAAATAAAATAATATC
99603356 TAAACTACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATAAAATAATATC
Found at i:99618052 original size:206 final size:206
Alignment explanation
Indices: 99617691--99618203 Score: 742
Period size: 206 Copynumber: 2.5 Consensus size: 206
99617681 AATCTGATTC
* *
99617691 TTCGATTTGTTCTCTGACAATACAGAGTTTCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
* * * *
99617756 CGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAACCATCTTG
* ** * *
99617821 GAGCTACTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTTTGCCCTCCGTCGAATATGG
131 GAGCTACTTCAGTATAATCATCTGAAGGCCAGATCTGCTATGTATCTGCCCTCCGTCGAATATGG
99617886 AGACGCCAAAA
196 AGACGCCAAAA
* * ** *
99617897 TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCCGCGTAAGCAAG
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
* * *
99617962 TGAAAGCTAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
66 TGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAACCATCTT
* * * * *
99618026 GGATCTGCTTCAGTATAAAT-ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCTTCGGATAT
130 GGAGCTACTTCAGTAT-AATCATCTGAAGGCCAGATCTGCTATGTATCTGCCCTCCGTCGAATAT
* *
99618090 GGAGAGGCCAAAC
194 GGAGACGCCAAAA
* *
99618103 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGTACG
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
99618168 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCT
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCT
99618204 CAGAGATGCC
Statistics
Matches: 271, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
205 1 0.00
206 266 0.98
207 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (206 bp):
TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAACCATCTTG
GAGCTACTTCAGTATAATCATCTGAAGGCCAGATCTGCTATGTATCTGCCCTCCGTCGAATATGG
AGACGCCAAAA
Found at i:99619137 original size:18 final size:17
Alignment explanation
Indices: 99619098--99619138 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
99619088 TGGCCTCTCC
*
99619098 ATTTTTCTTTTTTTTCT
1 ATTTTTCTTTTTTTTCG
*
99619115 CTTTTCTCTTTTTTTTCG
1 ATTTT-TCTTTTTTTTCG
99619133 ATTTTT
1 ATTTTT
99619139 GAAACCTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (17 bp):
ATTTTTCTTTTTTTTCG
Found at i:99622474 original size:29 final size:29
Alignment explanation
Indices: 99622441--99622498 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
99622431 TCTACTGCCT
*
99622441 CTTTCTCATGCGACATAATTCATTTTTCC
1 CTTTCTCATACGACATAATTCATTTTTCC
*
99622470 CTTTCTCATACGGCATAATTCATTTTTCC
1 CTTTCTCATACGACATAATTCATTTTTCC
99622499 TCCTGTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.45
Consensus pattern (29 bp):
CTTTCTCATACGACATAATTCATTTTTCC
Found at i:99630353 original size:28 final size:27
Alignment explanation
Indices: 99630315--99630383 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
99630305 TTCAAATTAG
* *
99630315 ATATAAAAATAATAATGTGAATAATAAT-
1 ATATGAAAATAATAAT-AG-ATAATAATA
99630343 ATATGAAAATATATAATAGATAATAATA
1 ATATGAAAATA-ATAATAGATAATAATA
99630371 ATATG-AAATAATA
1 ATATGAAAATAATA
99630384 TATTGTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 3 0.08
27 13 0.35
28 16 0.43
29 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (27 bp):
ATATGAAAATAATAATAGATAATAATA
Found at i:99630492 original size:86 final size:86
Alignment explanation
Indices: 99630362--99630545 Score: 194
Period size: 86 Copynumber: 2.1 Consensus size: 86
99630352 TATATAATAG
* * *
99630362 ATAAT-AATAATATGAAATAATATATTGTTAAAATGCAAAATAATATAATACTATAAAAATAT-A
1 ATAATAAATAATAAGAAATAATATATTGTTAAAATACAAAATAATATAATACTAGAAAAATATGA
* *
99630425 AATATTATGTGATAAAATAAAAT
66 AATA--ATATAATAAAATAAAAT
* * * * * * *
99630448 ATAATAAATAATAAGTAATGATATA-TGTTAAAATATATATTAATATGATAGTAGAAAAATATGA
1 ATAATAAATAATAAGAAATAATATATTGTTAAAATACAAAATAATATAATACTAGAAAAATATGA
* *
99630512 AGTAATATAATATAATAAAAT
66 AATAATATAATAAAATAAAAT
99630533 ATAAGTAAATAAT
1 ATAA-TAAATAAT
99630546 TATAAAATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
85 18 0.22
86 43 0.53
87 20 0.25
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.34
Consensus pattern (86 bp):
ATAATAAATAATAAGAAATAATATATTGTTAAAATACAAAATAATATAATACTAGAAAAATATGA
AATAATATAATAAAATAAAAT
Found at i:99630769 original size:68 final size:68
Alignment explanation
Indices: 99630686--99630821 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 68
99630676 TTTAAAAAAA
99630686 ATTGAAATCGGACCTAATTGAAAC-AGCCACTAAAACCCTAGGGATTCATCAGGAAATTTTCCCT
1 ATTGAAATCGGACCTAATTGAAACGA-CCACTAAAACCCTAGGGATTCATCAGGAAATTTTCCCT
99630750 TGTC
65 TGTC
* **
99630754 ATTGAAATCGGACCTAATTGAAACGACCACTAAAACCCTAGGGGTTCATTGGGAAATTTTCCCTT
1 ATTGAAATCGGACCTAATTGAAACGACCACTAAAACCCTAGGGATTCATCAGGAAATTTTCCCTT
99630819 GTC
66 GTC
99630822 CTTAAACGTC
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 63 0.98
69 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (68 bp):
ATTGAAATCGGACCTAATTGAAACGACCACTAAAACCCTAGGGATTCATCAGGAAATTTTCCCTT
GTC
Found at i:99634162 original size:35 final size:35
Alignment explanation
Indices: 99634120--99634199 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
99634110 GGGAAAATCA
** *
99634120 AAGGGATTTCGGGATTTTGA-TTTGGGGAAAAAATT
1 AAGGGATTTCGGGATTTCAATTTTAGGGAAAAAA-T
*
99634155 AAGGGATTTGGGGATTTCAATTTTTAGGGAAAAAAT
1 AAGGGATTTCGGGATTTCAA-TTTTAGGGAAAAAAT
99634191 AAGGGATTT
1 AAGGGATTT
99634200 TGGGGTTACG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
35 17 0.44
36 10 0.26
37 12 0.31
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.34
Consensus pattern (35 bp):
AAGGGATTTCGGGATTTCAATTTTAGGGAAAAAAT
Found at i:99634483 original size:15 final size:14
Alignment explanation
Indices: 99634469--99634509 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
99634459 TGCCCAAAAC
99634469 CAAAAATAAATAAA
1 CAAAAATAAATAAA
*
99634483 CAAGATATAAA-AAA
1 CAA-AAATAAATAAA
99634497 CAAAAATAAATAA
1 CAAAAATAAATAA
99634510 TAATAGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 6 0.26
14 11 0.48
15 6 0.26
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (14 bp):
CAAAAATAAATAAA
Found at i:99635894 original size:4 final size:4
Alignment explanation
Indices: 99635878--99635935 Score: 66
Period size: 4 Copynumber: 15.0 Consensus size: 4
99635868 ATAAGCAGTT
* * *
99635878 TTTA TTT- TTTA TTTA TTTA TTCA TTTA TTTA TTTA -TTA CTTC TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
99635924 TTTA TTTT TTTA
1 TTTA TTTA TTTA
99635936 CACTTAAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
3 6 0.13
4 39 0.87
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:99635908 original size:27 final size:27
Alignment explanation
Indices: 99635878--99635935 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
99635868 ATAAGCAGTT
* *
99635878 TTTATTTTTTATTTATTTATTCATTTA
1 TTTATTTATTACTTATTTATTCATTTA
* * *
99635905 TTTATTTATTACTTCTTTATTTATTTT
1 TTTATTTATTACTTATTTATTCATTTA
99635932 TTTA
1 TTTA
99635936 CACTTAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (27 bp):
TTTATTTATTACTTATTTATTCATTTA
Found at i:99635987 original size:18 final size:19
Alignment explanation
Indices: 99635964--99636003 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
99635954 TATACATGCT
*
99635964 TTTATTAGTG-CATTTTTA
1 TTTATTAGTGTCATTATTA
*
99635982 TTTATTATTGTCATTATTA
1 TTTATTAGTGTCATTATTA
99636001 TTT
1 TTT
99636004 TTTTGGTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (19 bp):
TTTATTAGTGTCATTATTA
Found at i:99636159 original size:26 final size:26
Alignment explanation
Indices: 99636129--99636179 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
99636119 TTTACTTATT
99636129 TATTATTACTATAA-TATGATTATTAA
1 TATTATTACTATAATTAT-ATTATTAA
*
99636155 TATTATTATTATAATTATATTATTA
1 TATTATTACTATAATTATATTATTA
99636180 TAGCATTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (26 bp):
TATTATTACTATAATTATATTATTAA
Found at i:99637934 original size:26 final size:26
Alignment explanation
Indices: 99637905--99637960 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
99637895 GGATAAAAAT
99637905 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99637931 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99637957 TGAT
1 TGAT
99637961 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:99639359 original size:18 final size:18
Alignment explanation
Indices: 99639317--99639359 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
99639307 GCCCATTCCG
* *
99639317 AAGTATATATATATACAT
1 AAGTATGTATATACACAT
99639335 ATA-TATGTATATACACAT
1 A-AGTATGTATATACACAT
99639353 AAGTATG
1 AAGTATG
99639360 CCCATTCGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATACACAT
Found at i:99639894 original size:56 final size:56
Alignment explanation
Indices: 99639803--99639925 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
99639793 GAGATTGGCG
* * *
99639803 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
99639860 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
99639915 CTGAGTGTGCG
1 CTAAGTGTGCG
99639926 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:99639912 original size:27 final size:28
Alignment explanation
Indices: 99639803--99639925 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
99639793 GAGATTGGCG
* * * *
99639803 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
99639832 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
99639860 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
99639888 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
99639915 CTGAGTGTGCG
1 CTAAGTGTGCG
99639926 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:99639939 original size:29 final size:27
Alignment explanation
Indices: 99639828--99639939 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
99639818 TAAATTGTAC
* * *
99639828 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
99639856 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
99639884 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
99639911 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
99639940 TTTTGAATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 23 0.30
28 49 0.64
29 5 0.06
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:99639939 original size:56 final size:56
Alignment explanation
Indices: 99639803--99639939 Score: 161
Period size: 55 Copynumber: 2.4 Consensus size: 56
99639793 GAGATTGGCG
* * * * *
99639803 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGCTT-AATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
* *
99639860 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGCTTAATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
*
99639915 CTGAGTGTGCG-GACTTAATATATAT
1 CTAAGTGTGCGAG-CTTAAT-TATAT
99639940 TTTTGAATCA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
54 1 0.01
55 27 0.39
56 27 0.39
57 15 0.21
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGCTTAATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:99647990 original size:28 final size:28
Alignment explanation
Indices: 99647950--99648159 Score: 386
Period size: 28 Copynumber: 7.5 Consensus size: 28
99647940 TAAATTGTAC
99647950 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
99647978 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
99648006 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
99648034 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
99648062 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
99648090 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
99648118 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
99648145 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
99648160 GACTTAATAT
Statistics
Matches: 180, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
27 24 0.13
28 156 0.87
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:99648067 original size:84 final size:84
Alignment explanation
Indices: 99647925--99648159 Score: 391
Period size: 84 Copynumber: 2.8 Consensus size: 84
99647915 GAGATTGGCG
* * * *
99647925 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGT
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGT
99647990 GCGAGTTTGATTATGTAGCA
65 GCGAGTTTGATTATGTAGCA
*
99648010 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
99648075 CGAGTTTGATTATGTAGCA
66 CGAGTTTGATTATGTAGCA
* *
99648094 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
99648158 CG
66 CG
99648160 GACTTAATAT
Statistics
Matches: 142, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
83 23 0.16
84 104 0.73
85 15 0.11
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (84 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
CGAGTTTGATTATGTAGCA
Found at i:99648173 original size:56 final size:56
Alignment explanation
Indices: 99647925--99648159 Score: 382
Period size: 56 Copynumber: 4.2 Consensus size: 56
99647915 GAGATTGGCG
* * * *
99647925 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
99647982 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
99648038 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
99648094 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
99648149 CTGAGTGTGCG
1 CTAAGTGTGCG
99648160 GACTTAATAT
Statistics
Matches: 170, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
55 23 0.14
56 132 0.78
57 15 0.09
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:99655619 original size:18 final size:18
Alignment explanation
Indices: 99655579--99655619 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
99655569 GCCCATTCCG
* *
99655579 AAGTATATATATACATAT
1 AAGTATGTATATACACAT
99655597 -A-TATGTATATACACAT
1 AAGTATGTATATACACAT
99655613 AAGTATG
1 AAGTATG
99655620 CCCATTCGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
16 13 0.68
17 2 0.11
18 4 0.21
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATACACAT
Found at i:99656128 original size:28 final size:28
Alignment explanation
Indices: 99656088--99656241 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
99656078 TAAATTGTAC
99656088 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
99656116 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
99656144 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
99656172 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
99656200 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
99656227 GGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
99656242 GACTTAATAT
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 23 0.19
28 98 0.81
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:99656255 original size:56 final size:56
Alignment explanation
Indices: 99656063--99656241 Score: 261
Period size: 56 Copynumber: 3.2 Consensus size: 56
99656053 GAGATTGGTG
* * * * *
99656063 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
*
99656120 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
* *
99656176 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATGGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
*
99656231 CTGAGTGTGCG
1 CTAAGTGTGCG
99656242 GACTTAATAT
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
55 22 0.20
56 75 0.67
57 15 0.13
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCA
Found at i:99659987 original size:27 final size:27
Alignment explanation
Indices: 99659957--99660048 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
99659947 ATTACCAAAG
* *
99659957 TACCCTCGATTTATAGAATCACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
99659984 TACCCTTGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
99660011 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
99660038 TACCCTCGATT
1 TACCCTCGATT
99660049 GTGAAATTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:99660110 original size:27 final size:27
Alignment explanation
Indices: 99660080--99660208 Score: 91
Period size: 27 Copynumber: 4.7 Consensus size: 27
99660070 TATAGGGTAG
*
99660080 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCTTGATTTACAA
99660107 AATTA-CAGAAATACCCTTGACTTT-CTAAA
1 AATTACCA-AAATACCCTTGA-TTTAC--AA
** * *
99660136 AATTATAAAAATACCATTGGTTTACAA
1 AATTACCAAAATACCCTTGATTTACAA
** * ** *
99660163 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTACAA
* *
99660190 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
99660209 TAGGATGAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
26 2 0.02
27 54 0.67
28 6 0.07
29 18 0.22
30 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTACAA
Found at i:99660269 original size:27 final size:27
Alignment explanation
Indices: 99660226--99660299 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
99660216 AAATGACTAA
* *
99660226 AATACCCCTAATA-GGTAAAAAGATCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
99660253 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
*
99660280 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
99660300 TAACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:99661145 original size:25 final size:25
Alignment explanation
Indices: 99661107--99661176 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
99661097 AGGAAGTGCT
* *
99661107 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
99661132 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
99661157 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
99661177 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:99661189 original size:24 final size:24
Alignment explanation
Indices: 99661106--99661189 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
99661096 GAGGAAGTGC
* *
99661106 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
99661131 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
99661155 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
99661179 TAAAAGAGGCT
1 TAAAAG-GGCT
99661190 AGGCCTCTAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.15
25 39 0.75
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:99661465 original size:29 final size:28
Alignment explanation
Indices: 99661431--99661485 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
99661421 AGACTGAATT
* *
99661431 AGGGCTTAGGCCCATACTGCTACTGTTTA
1 AGGGCTAAGGCCCAGACTG-TACTGTTTA
99661460 AGGGCTAAGGCCCAGACTGTACTGTT
1 AGGGCTAAGGCCCAGACTGTACTGTT
99661486 ACTGAATAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (28 bp):
AGGGCTAAGGCCCAGACTGTACTGTTTA
Found at i:99661505 original size:33 final size:33
Alignment explanation
Indices: 99661423--99661516 Score: 90
Period size: 33 Copynumber: 2.9 Consensus size: 33
99661413 ATATGTCGAG
*
99661423 ACTGAATTAGGGCTTAGGCCCATACTGCTACTGTT
1 ACTGAA-TAGGGCTTAGGCCCAAACTG-TACTGTT
* *
99661458 --T--A-AGGGCTAAGGCCCAGACTGTACTGTT
1 ACTGAATAGGGCTTAGGCCCAAACTGTACTGTT
* *
99661486 ACTGAATAGGGCTTTGGCCCAAATTGTACTG
1 ACTGAATAGGGCTTAGGCCCAAACTGTACTG
99661517 ACACTGTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
28 7 0.15
29 17 0.35
30 1 0.02
31 1 0.02
32 1 0.02
33 21 0.44
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (33 bp):
ACTGAATAGGGCTTAGGCCCAAACTGTACTGTT
Found at i:99673437 original size:21 final size:21
Alignment explanation
Indices: 99673411--99673490 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 21
99673401 TGTGAAAAAG
99673411 GGCACACGGCCGTGTGACTGA
1 GGCACACGGCCGTGTGACTGA
** * * *
99673432 GGCACACACCCATTTGAAGTGA
1 GGCACACGGCCGTGTG-ACTGA
* ** *
99673454 GGCACATGGTTGTGTGACTAA
1 GGCACACGGCCGTGTGACTGA
*
99673475 GGCACACGTCCGTGTG
1 GGCACACGGCCGTGTG
99673491 GACCAAGGAC
Statistics
Matches: 40, Mismatches: 18, Indels: 2
0.67 0.30 0.03
Matches are distributed among these distances:
21 27 0.68
22 13 0.32
ACGTcount: A:0.23, C:0.25, G:0.33, T:0.20
Consensus pattern (21 bp):
GGCACACGGCCGTGTGACTGA
Done.