Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004637.1 Hibiscus syriacus cultivar Beakdansim tig00010381_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: 155859
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1144 original size:16 final size:17
Alignment explanation
Indices: 1113--1144 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1103 TTCTCTATGA
1113 TTTCTTATTGCTTGATG
1 TTTCTTATTGCTTGATG
1130 TTTCTTATT-CTTGAT
1 TTTCTTATTGCTTGAT
1145 CAATGGCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.62
Consensus pattern (17 bp):
TTTCTTATTGCTTGATG
Found at i:9290 original size:16 final size:17
Alignment explanation
Indices: 9259--9290 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9249 TTCTCTATGA
9259 TTTCTTATTGCTTGATG
1 TTTCTTATTGCTTGATG
9276 TTTCTTATT-CTTGAT
1 TTTCTTATTGCTTGAT
9291 CAATGGCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.62
Consensus pattern (17 bp):
TTTCTTATTGCTTGATG
Found at i:18742 original size:20 final size:21
Alignment explanation
Indices: 18717--18755 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18707 CAGAACCCCA
18717 GGGGGG-ATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
18737 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
18756 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.26, G:0.41, T:0.23
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:18784 original size:19 final size:20
Alignment explanation
Indices: 18738--18797 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
18728 TTCCCCTGTG
18738 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
18761 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
18780 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
18798 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:22634 original size:22 final size:21
Alignment explanation
Indices: 22592--22631 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22582 GAGTTTGTTT
*
22592 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
22613 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
22632 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:38829 original size:19 final size:19
Alignment explanation
Indices: 38802--38846 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
38792 TGCAATAAAA
*
38802 GACATTGTAAAACATATAG
1 GACACTGTAAAACATATAG
38821 GACACTGTAAAACATATAG
1 GACACTGTAAAACATATAG
38840 GACACTG
1 GACACTG
38847 CAACAAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (19 bp):
GACACTGTAAAACATATAG
Found at i:38856 original size:21 final size:19
Alignment explanation
Indices: 38810--38859 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 19
38800 AAGACATTGT
*
38810 AAAACATATAGGACACTGT
1 AAAACATATAGGACACTGA
38829 AAAACATATAGGACACTGCA
1 AAAACATATAGGACACTG-A
38849 ACAAACATATA
1 A-AAACATATA
38860 TATACCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 18 0.64
20 1 0.04
21 9 0.32
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (19 bp):
AAAACATATAGGACACTGA
Found at i:45504 original size:23 final size:24
Alignment explanation
Indices: 45464--45509 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
45454 CTATAAAATA
*
45464 ATTTTTTATAATTCTAAA-TTAAG
1 ATTTTTTATAATTATAAAGTTAAG
*
45487 ATTTTTTATATTTATAAAGTTAA
1 ATTTTTTATAATTATAAAGTTAA
45510 ATAAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTTTTTATAATTATAAAGTTAAG
Found at i:51722 original size:2 final size:2
Alignment explanation
Indices: 51715--51772 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
51705 GTTTCACTTA
51715 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
51757 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
51773 TTAATAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53223 original size:15 final size:15
Alignment explanation
Indices: 53203--53231 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
53193 CAGACTGAAC
53203 AAATATTTTATTTTA
1 AAATATTTTATTTTA
53218 AAATATTTTATTTT
1 AAATATTTTATTTT
53232 TCACGCTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AAATATTTTATTTTA
Found at i:54606 original size:25 final size:25
Alignment explanation
Indices: 54569--54640 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 25
54559 TTAAATTCAT
*
54569 AATATTATATATATATTAACTTAAAA
1 AATATT-TTTATATATTAACTTAAAA
**
54595 AATA-TTTT-TATATTAACTTATTA
1 AATATTTTTATATATTAACTTAAAA
54618 AATATATTTTAT-TATTAACTTAA
1 AATAT-TTTTATATATTAACTTAA
54641 TTTAAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 17 0.44
24 2 0.05
25 15 0.38
26 5 0.13
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
AATATTTTTATATATTAACTTAAAA
Found at i:54610 original size:23 final size:24
Alignment explanation
Indices: 54580--54640 Score: 88
Period size: 23 Copynumber: 2.5 Consensus size: 24
54570 ATATTATATA
54580 TATATTAACTTAAAAAATAT-TTT
1 TATATTAACTTAAAAAATATATTT
**
54603 TATATTAACTTATTAAATATATTT
1 TATATTAACTTAAAAAATATATTT
54627 TATTATTAACTTAA
1 TA-TATTAACTTAA
54641 TTTAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 18 0.55
24 5 0.15
25 10 0.30
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (24 bp):
TATATTAACTTAAAAAATATATTT
Found at i:54657 original size:25 final size:24
Alignment explanation
Indices: 54584--54658 Score: 62
Period size: 25 Copynumber: 2.9 Consensus size: 24
54574 TATATATATA
54584 TTAACTTAAAAAATATTTTTATATTAAC
1 TTAA-TTAAAAAATA--TTT-TATTAAC
* *
54612 TT-ATTAAATATATTTTATTATTAAC
1 TTAATTAAA-AAATATT-TTATTAAC
54637 TTAATTTAAAAAATATTTTATT
1 TTAA-TTAAAAAATATTTTATT
54659 TTAAATTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
25 16 0.41
26 12 0.31
27 9 0.23
28 2 0.05
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (24 bp):
TTAATTAAAAAATATTTTATTAAC
Found at i:54679 original size:27 final size:26
Alignment explanation
Indices: 54649--54700 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
54639 AATTTAAAAA
* *
54649 ATATTTTATTTTAAATTTTCATTTAAT
1 ATATTTTATGTGAAATTTT-ATTTAAT
54676 ATATTTTATGTGAAATTTTATTTAA
1 ATATTTTATGTGAAATTTTATTTAA
54701 AAGTATGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (26 bp):
ATATTTTATGTGAAATTTTATTTAAT
Found at i:55612 original size:19 final size:19
Alignment explanation
Indices: 55588--55652 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
55578 CAACAACAAC
55588 ATATATTTGAGGAACATTT
1 ATATATTTGAGGAACATTT
* ** **
55607 ATATATTTAAAACAACA-AC
1 ATATATTT-GAGGAACATTT
55626 ATATATTTGAGGAACATTT
1 ATATATTTGAGGAACATTT
55645 ATATATTT
1 ATATATTT
55653 TACCCCAAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
18 5 0.15
19 24 0.71
20 5 0.15
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (19 bp):
ATATATTTGAGGAACATTT
Found at i:55628 original size:38 final size:38
Alignment explanation
Indices: 55579--55652 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
55569 GGGACAAAAC
55579 AACAACAACATATATTTGAGGAACATTTATATATTTAA
1 AACAACAACATATATTTGAGGAACATTTATATATTTAA
55617 AACAACAACATATATTTGAGGAACATTTATATATTT
1 AACAACAACATATATTTGAGGAACATTTATATATTT
55653 TACCCCAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (38 bp):
AACAACAACATATATTTGAGGAACATTTATATATTTAA
Found at i:58042 original size:171 final size:173
Alignment explanation
Indices: 57709--58030 Score: 490
Period size: 171 Copynumber: 1.9 Consensus size: 173
57699 GTTTAAAACT
* * *
57709 GAAAATGTTATGATCTTATATAAGAAATATGGTTGTGCTCAATAATGTCATGGCTCAATAATAAT
1 GAAAATGTTATGATCTTATATAAGAAATACGGTTCTACTCAATAATGTCATGGCTCAATAATAAT
* * *
57774 AAAAAAGGTTATAATCTGGAATGTTAATACTTTTAATAATAAAACATGTTGCGACGATAATGTTA
66 AAAAAAGGTTATAATCTGGAATATTAATACTTTTAATAATAAAACAGGTTGCGACGAAAATGTTA
*
57839 TCAGAGTTTAAGCTGATGGAGCGTTAGATTATCACATTATAAG
131 TCAGAGTTTAAGCTGACGGAGCGTTAGATTATCACATTATAAG
* *
57882 GAAAATGTTATGAT-TATATATAAGAAATACGGTTACTAC-CAATAATGTCGTGGTTCAATAATA
1 GAAAATGTTATGATCT-TATATAAGAAATACGGTT-CTACTCAATAATGTCATGGCTCAATAATA
* * *
57945 A-AAAAAA-GTTGTAATCTGGAATATTAATACTTTTAATAATAAAATAGGTTGCGCCGAAAATGT
64 ATAAAAAAGGTTATAATCTGGAATATTAATACTTTTAATAATAAAACAGGTTGCGACGAAAATGT
58008 TATCAGAGTTTAAGCTGACGGAG
129 TATCAGAGTTTAAGCTGACGGAG
58031 TCTTGGATTA
Statistics
Matches: 135, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
171 72 0.53
172 7 0.05
173 54 0.40
174 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (173 bp):
GAAAATGTTATGATCTTATATAAGAAATACGGTTCTACTCAATAATGTCATGGCTCAATAATAAT
AAAAAAGGTTATAATCTGGAATATTAATACTTTTAATAATAAAACAGGTTGCGACGAAAATGTTA
TCAGAGTTTAAGCTGACGGAGCGTTAGATTATCACATTATAAG
Found at i:58654 original size:372 final size:376
Alignment explanation
Indices: 57882--58685 Score: 964
Period size: 372 Copynumber: 2.1 Consensus size: 376
57872 ACATTATAAG
* * *
57882 GAAAATGTTATGATTATATATAAGAAATACGGTTAC-TACCAATAATGTCGTGGTTCAATAATAA
1 GAAAATGTTATGATCATATATAAGAAATACGGTTGCGT-CCAATAATGTCATGGTTCAATAAT-A
* * *
57946 AAAAAAGTTGTAATCTGGAATATTAATACTTTTAATAATAAAATAGGTTGCGCCGAAAATGTTAT
64 AAAAAAGTTGTAATATGGAATATTAATACTTTTAATAATAAAATAGGTTACGCCGAAAATATTAT
* * ** * * *
58011 CAGAGTTTAAGCTGACGGAGTCTTGGATTATCCAAGTATAAGTAAATAATTTTGAAACTGAAAAT
129 CAAAGTTTAAGCTGACGGAGTCTTGAATTATCCAAGTATAACAAAATAATGTTAAAACTAAAAAT
* * *
58076 GTCATGAACATATATATAATAAATACGGTTGCGCCCAATAATGTAATGGTTCAATAATAAAAAAA
194 GTCATGAACA-ATATATAAGAAATACGGTTGCGCCCAATAATGTAATAGCTCAATAAT--AAAAA
* * * ** *
58141 AAGGTTGTAATCTGAAATGTTAATAATTTTAACAATTAAGTATGATGTGCCAAAAATATTATCAG
256 AAGGTTGTAATCTGAAATGTTAATAATTTTAACAATAAAATAGGATACGCCAAAAATATTATCAA
* * *
58206 AGTTTAAGCTGATGGAGCATTGAATTATCCTAGAATAAGAAATTAAGTTTAAAATT
321 AGTTTAAGCTGATGGAGCATTGAATGATCCTAGAATAAGAAAATAAGTTTAAAACT
* *
58262 GAAAATGCTATGATCATATATAAGAAATACGATTGCGTCCAATAATGTCATGGTTCAATAAT-AA
1 GAAAATGTTATGATCATATATAAGAAATACGGTTGCGTCCAATAATGTCATGGTTCAATAATAAA
* * *
58326 AAAAGTTGTAATATGGAATGTTAATATTTTTAATAATAAAGTA-GTTACGCCGAAAATATTATCA
66 AAAAGTTGTAATATGGAATATTAATACTTTTAATAATAAAATAGGTTACGCCGAAAATATTATCA
*
58390 AAGTTTAAGCTGATGGAG-CGTTGAATTATCCCAA-TATAAACAAAATAA-GTTAAAACTAAAAA
131 AAGTTTAAGCTGACGGAGTC-TTGAATTAT-CCAAGTAT-AACAAAATAATGTTAAAACTAAAAA
* ** * *
58452 TGTTATGTTC-ATATATAAGAAATATGGTTGCGCCCAATAATGTCATAGCTCAATAAT-AAAAAA
193 TGTCATGAACAATATATAAGAAATACGGTTGCGCCCAATAATGTAATAGCTCAATAATAAAAAAA
* * * * *
58515 GGTTGTAATCT-AGAATGTTAATACTTTTAATAATAAAATAGGTTACGCCGAAAATGTTATCAAA
258 GGTTGTAATCTGA-AATGTTAATAATTTTAACAATAAAATAGGATACGCCAAAAATATTATCAAA
* * * * * * *
58579 TTTTAAG-TGGATGGGGCCTTGGATGAT-TTGAGTATAGGAAAATAAGTTTAAAACT
322 GTTTAAGCT-GATGGAGCATTGAATGATCCT-AGAATAAGAAAATAAGTTTAAAACT
* * * *
58634 GAAAATATTATGAACATATATAAGAAATACGGTTGCGCCCATTAATGTCATG
1 GAAAATGTTATGATCATATATAAGAAATACGGTTGCGTCCAATAATGTCATG
58686 AGTTACTAAG
Statistics
Matches: 363, Mismatches: 54, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
371 3 0.01
372 144 0.40
375 42 0.12
376 1 0.00
377 64 0.18
378 53 0.15
380 55 0.15
381 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (376 bp):
GAAAATGTTATGATCATATATAAGAAATACGGTTGCGTCCAATAATGTCATGGTTCAATAATAAA
AAAAGTTGTAATATGGAATATTAATACTTTTAATAATAAAATAGGTTACGCCGAAAATATTATCA
AAGTTTAAGCTGACGGAGTCTTGAATTATCCAAGTATAACAAAATAATGTTAAAACTAAAAATGT
CATGAACAATATATAAGAAATACGGTTGCGCCCAATAATGTAATAGCTCAATAATAAAAAAAGGT
TGTAATCTGAAATGTTAATAATTTTAACAATAAAATAGGATACGCCAAAAATATTATCAAAGTTT
AAGCTGATGGAGCATTGAATGATCCTAGAATAAGAAAATAAGTTTAAAACT
Found at i:58660 original size:187 final size:187
Alignment explanation
Indices: 57882--58685 Score: 927
Period size: 192 Copynumber: 4.3 Consensus size: 187
57872 ACATTATAAG
* * ** *
57882 GAAAATGTTATGATTATATATAAGAAATACGGTTACTACCAATAATGTCGTGGTTCAATAATAAA
1 GAAAATGTTATGATCATATATAAGAAATACGGTTGCGCCCAATAATGTCATGGTTCAATAATAAA
* * * *
57947 AAAAAGTTGTAATCTGGAATATTAATACTTTTAATAATAAAATAGGTTGCGCCGAAAATGTTATC
66 AAAAGGTTGTAATCTGGAATGTTAATACTTTTAATAATAAAATAGGTTACGCCGAAAATATTATC
* * * * * * *
58012 AGAGTTTAAGCTGACGGAGTCTTGGATTATCCAAGTATAAGTAAATAATTTTGAAACT
131 AAAGTTTAAGCTGATGGAGCCTTGAATTATCC-AGTATAAGAAAATAAGTTTAAAACT
* * * *
58070 GAAAATGTCATGAACATATATATAATAAATACGGTTGCGCCCAATAATGTAATGGTTCAATAATA
1 GAAAATGTTATGATC--ATATATAAGAAATACGGTTGCGCCCAATAATGTCATGGTTCAATAAT-
* * * * * * * ** *
58135 AAAAAAAAGGTTGTAATCTGAAATGTTAATAATTTTAACAATTAAGTATGATGTGCCAAAAATAT
63 -AAAAAAAGGTTGTAATCTGGAATGTTAATACTTTTAATAATAAAATAGGTTACGCCGAAAATAT
* * * * *
58200 TATCAGAGTTTAAGCTGATGGAGCATTGAATTATCCTAGAATAAGAAATTAAGTTTAAAATT
127 TATCAAAGTTTAAGCTGATGGAGCCTTGAATTATCC-AGTATAAGAAAATAAGTTTAAAACT
* * *
58262 GAAAATGCTATGATCATATATAAGAAATACGATTGCGTCCAATAATGTCATGGTTCAATAAT-AA
1 GAAAATGTTATGATCATATATAAGAAATACGGTTGCGCCCAATAATGTCATGGTTCAATAATAAA
* * *
58326 AAAA-GTTGTAATATGGAATGTTAATATTTTTAATAATAAAGTA-GTTACGCCGAAAATATTATC
66 AAAAGGTTGTAATCTGGAATGTTAATACTTTTAATAATAAAATAGGTTACGCCGAAAATATTATC
* * *
58389 AAAGTTTAAGCTGATGGAGCGTTGAATTATCCCAATATAAACAAAATAAG-TTAAAACT
131 AAAGTTTAAGCTGATGGAGCCTTGAATTAT-CCAGTAT-AAGAAAATAAGTTTAAAACT
* * * * *
58447 AAAAATGTTATGTTCATATATAAGAAATATGGTTGCGCCCAATAATGTCATAGCTCAATAAT-AA
1 GAAAATGTTATGATCATATATAAGAAATACGGTTGCGCCCAATAATGTCATGGTTCAATAATAAA
* *
58511 AAAAGGTTGTAATCTAGAATGTTAATACTTTTAATAATAAAATAGGTTACGCCGAAAATGTTATC
66 AAAAGGTTGTAATCTGGAATGTTAATACTTTTAATAATAAAATAGGTTACGCCGAAAATATTATC
* * * * ** *
58576 AAATTTTAAG-TGGATGGGGCCTTGGATGATTTGAGTATAGGAAAATAAGTTTAAAACT
131 AAAGTTTAAGCT-GATGGAGCCTTGAATTA-TCCAGTATAAGAAAATAAGTTTAAAACT
* * *
58634 GAAAATATTATGAACATATATAAGAAATACGGTTGCGCCCATTAATGTCATG
1 GAAAATGTTATGATCATATATAAGAAATACGGTTGCGCCCAATAATGTCATG
58686 AGTTACTAAG
Statistics
Matches: 520, Mismatches: 85, Indels: 23
0.83 0.14 0.04
Matches are distributed among these distances:
185 114 0.22
186 90 0.17
187 104 0.20
188 13 0.03
190 84 0.16
192 115 0.22
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (187 bp):
GAAAATGTTATGATCATATATAAGAAATACGGTTGCGCCCAATAATGTCATGGTTCAATAATAAA
AAAAGGTTGTAATCTGGAATGTTAATACTTTTAATAATAAAATAGGTTACGCCGAAAATATTATC
AAAGTTTAAGCTGATGGAGCCTTGAATTATCCAGTATAAGAAAATAAGTTTAAAACT
Found at i:63261 original size:200 final size:202
Alignment explanation
Indices: 62865--63331 Score: 475
Period size: 200 Copynumber: 2.3 Consensus size: 202
62855 GATTGTACAT
* * * *
62865 TATAACCTAAACGGTTGACAATATAAGAAGGAGCTACCTGTATTGTTATAAATATTACCCTTTTT
1 TATAACATAAACGGTTGACAATATAAAAAGGAGCTACCTGTATTGTTATAAATATTAACCTTGTT
62930 TTATCTTACATAAGCATAATGAAAATGATTTCACACATATAACTTAAACGATTGACAATATAAGA
66 TTATCTTACATAAGCATAATGAAAATGATTTCACACATATAACTTAAACGATTGACAATATAAGA
* * * *** *
62995 AGGCGATATACATGTTGTTATAAATTTAGACCTTCTTTTTGTACATTGTATTAATAAAAAATGTT
131 AGGCGATATACATATTGTTATAAATATAGACCATCTTTTTGTACATAACACTAATAAAAAATGTT
*
63060 TCGA-ATA
196 TC-ACACA
* * * *
63067 TATAACATAAACGATTGACACTATAAAAAGGTGCTACCTTTATTGTTATAAATA-TAACCTTGTT
1 TATAACATAAACGGTTGACAATATAAAAAGGAGCTACCTGTATTGTTATAAATATTAACCTTGTT
* * * * * * * *
63131 TTGTTTTGCATAA-CTCTAATGAACATG-TTTCGCACATATAACTTAAACGTTTGACACTATAA-
66 TTATCTTACATAAGC-ATAATGAAAATGATTTCACACATATAACTTAAACGATTGACAATATAAG
** * * * * * * *
63193 AAGGCTCTAT-CTTTATTGTTATAAATATA-ATCATGTTTTGTCTTACATAACCCTAATGAAACA
130 AAGGCGATATAC-ATATTGTTATAAATATAGACCATCTTTT-T-GTACATAACACTAATAAAAAA
63256 TGTTTCACACA
192 TGTTTCACACA
* * * * * *
63267 TATAACTTAAACGGTTGACAATAT-AAAAGGCGCTACCTGTAATGTTTTAAAT-TTAAACGTGTT
1 TATAACATAAACGGTTGACAATATAAAAAGGAGCTACCTGTATTGTTATAAATATTAACCTTGTT
63330 TT
66 TT
63332 CTATAACAGA
Statistics
Matches: 217, Mismatches: 42, Indels: 15
0.79 0.15 0.05
Matches are distributed among these distances:
198 8 0.04
199 58 0.27
200 75 0.35
201 28 0.13
202 48 0.22
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (202 bp):
TATAACATAAACGGTTGACAATATAAAAAGGAGCTACCTGTATTGTTATAAATATTAACCTTGTT
TTATCTTACATAAGCATAATGAAAATGATTTCACACATATAACTTAAACGATTGACAATATAAGA
AGGCGATATACATATTGTTATAAATATAGACCATCTTTTTGTACATAACACTAATAAAAAATGTT
TCACACA
Found at i:63330 original size:100 final size:100
Alignment explanation
Indices: 62865--63331 Score: 408
Period size: 100 Copynumber: 4.7 Consensus size: 100
62855 GATTGTACAT
* * * ** *
62865 TATAACCTAAACGGTTGACAATATAAGAAGGAGCTACCTGTATTGTTATAAATATTACCCTTTTT
1 TATAACTTAAACGATTGACAATATAA-AAGGCGCTACCTGTATTGTTATAAAT-TTAAACTTGTT
* * *
62930 TTATCTTACATAAGCATAATGAAA-ATGATTTCACACA
64 TTGTCTTACATAACCCTAATGAAACATG-TTTCACACA
* * * *
62967 TATAACTTAAACGATTGACAATATAAGAAGGCGATATACATG--TTGTTATAAATTTAGACCTTC
1 TATAACTTAAACGATTGACAATATAA-AAGGCG--CTACCTGTATTGTTATAAATTTA-AACTTG
* ***** * * *
63030 TTTT-T-GTACATTGTATTAATAAAAAATGTTTCGA-ATA
62 TTTTGTCTTACATAACCCTAATGAAACATGTTTC-ACACA
* * * * * *
63067 TATAACATAAACGATTGACACTATAAAAAGGTGCTACCTTTATTGTTATAAATATAACCTTGTTT
1 TATAACTTAAACGATTGACAATAT-AAAAGGCGCTACCTGTATTGTTATAAATTTAAACTTGTTT
* * * *
63132 TGTTTTGCATAACTCTAATG-AACATGTTTCGCACA
65 TGTCTTACATAACCCTAATGAAACATGTTTCACACA
* * * * * * * *
63167 TATAACTTAAACGTTTGACACTATAAAAGGCTCTATCTTTATTGTTATAAATATAATCATGTTTT
1 TATAACTTAAACGATTGACAATATAAAAGGCGCTACCTGTATTGTTATAAATTTAAACTTGTTTT
63232 GTCTTACATAACCCTAATGAAACATGTTTCACACA
66 GTCTTACATAACCCTAATGAAACATGTTTCACACA
* * * *
63267 TATAACTTAAACGGTTGACAATATAAAAGGCGCTACCTGTAATGTTTTAAATTTAAACGTGTTTT
1 TATAACTTAAACGATTGACAATATAAAAGGCGCTACCTGTATTGTTATAAATTTAAACTTGTTTT
63332 CTATAACAGA
Statistics
Matches: 298, Mismatches: 55, Indels: 26
0.79 0.15 0.07
Matches are distributed among these distances:
98 4 0.01
99 61 0.20
100 161 0.54
101 18 0.06
102 49 0.16
104 5 0.02
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (100 bp):
TATAACTTAAACGATTGACAATATAAAAGGCGCTACCTGTATTGTTATAAATTTAAACTTGTTTT
GTCTTACATAACCCTAATGAAACATGTTTCACACA
Found at i:67689 original size:13 final size:13
Alignment explanation
Indices: 67673--67697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67663 ATTGAAAAAT
67673 AAATATATTTTTA
1 AAATATATTTTTA
67686 AAATATATTTTT
1 AAATATATTTTT
67698 TTATTAAGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAATATATTTTTA
Found at i:67747 original size:23 final size:23
Alignment explanation
Indices: 67714--67757 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
67704 AGAGTAATTT
* **
67714 ATAAAATTAAATTTATAAATAGG
1 ATAAAAATAAATAAATAAATAGG
67737 ATAAAAATAAATAAATAAATA
1 ATAAAAATAAATAAATAAATA
67758 TTATTTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (23 bp):
ATAAAAATAAATAAATAAATAGG
Found at i:67785 original size:3 final size:3
Alignment explanation
Indices: 67779--67809 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
67769 ACATATATTT
*
67779 ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
67810 ATGTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:69205 original size:2 final size:2
Alignment explanation
Indices: 69198--69230 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
69188 ATGTAATTTG
69198 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 T
69231 TTAATAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:69240 original size:3 final size:3
Alignment explanation
Indices: 69232--69276 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
69222 TATATATATT
* *
69232 TAA TAA TAAA TAA TAA TAA TAA TAA TATA TTA TAT TAA TAA TAA T
1 TAA TAA T-AA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA T
69277 TATTATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 31 0.86
4 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:69253 original size:16 final size:18
Alignment explanation
Indices: 69199--69276 Score: 70
Period size: 19 Copynumber: 4.1 Consensus size: 18
69189 TGTAATTTGT
69199 ATATATATATATATATATATA
1 ATATATATA-ATA-ATA-ATA
*
69220 TATATATATATTTAATAATA
1 -ATATATATA-ATAATAATA
69240 A-ATA-ATAATAATAATA
1 ATATATATAATAATAATA
*
69256 ATATATTATATTAATAATA
1 ATATA-TATAATAATAATA
69275 AT
1 AT
69277 TATTATTATA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
16 9 0.18
17 6 0.12
18 3 0.06
19 14 0.28
20 3 0.06
21 3 0.06
22 12 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATATATAATAATAATA
Found at i:69283 original size:16 final size:16
Alignment explanation
Indices: 69231--69288 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
69221 ATATATATAT
* *
69231 TTAATAATAAATAATA
1 TTAATAATAATTATTA
*
69247 ATAATAATAATATATTATA
1 TTAATAATAAT-TA-T-TA
69266 TTAATAATAATTATTA
1 TTAATAATAATTATTA
69282 TT-ATAAT
1 TTAATAAT
69289 TATGAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
15 5 0.14
16 13 0.37
17 3 0.09
18 2 0.06
19 12 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAATAATAATTATTA
Found at i:69290 original size:22 final size:23
Alignment explanation
Indices: 69241--69290 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
69231 TTAATAATAA
69241 ATAA-TAATAATAATAATATATT
1 ATAATTAATAATAATAATATATT
*
69263 AT-ATTAATAATAATTAT-TATT
1 ATAATTAATAATAATAATATATT
69284 ATAATTA
1 ATAATTA
69291 TGAAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAATTAATAATAATAATATATT
Found at i:69566 original size:45 final size:45
Alignment explanation
Indices: 69411--70082 Score: 948
Period size: 45 Copynumber: 14.8 Consensus size: 45
69401 GATGGAAATG
*
69411 TTTGAAAACATCATGCACCGAAGGGCTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
* *
69457 TTTGAAAACATCATGCACTGAAGGACTTACAGATAACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
* * *
69503 TTTGATAACATCAAGCACTGAAGGGCTTACAGATGACCCGGAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* * *
69548 TTTGAAAACATCAAGCACTGAAGGACTTACAGATGAGCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
* * *
69594 TTTGATAACATCAAGCACTGAAGGGCTTACAAATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* * *
69639 TTTGAAAACATCAAGCACTGAAGGGATTACAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* * * *
69684 TTTGAAAACATCATGCACTAAAGGACTTATAGATGACCAGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
69729 TTTGATAACATCATGCACTGAAGGGCTTACAGATGACACGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
* * **
69775 TTTGATAACATCATGCACTGAAGGACTTACAGATGACAAGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
69820 TTTGATAACATCATGCACTGAAGGGATTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* * * *
69865 TTTTAAAACATCATGCACTGAAGGACTTACAGATAACCAGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
69910 TTTGATAACATCATGCACTGAAGGGCTTACAGATGACTCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
* * *
69956 TTTGATAACATCATGCACTGAAGGACTTACAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
70001 TTTGAAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
1 TTTG-AAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
70047 TTTGAAAAACATCATGCACTGAAGGGCTTACAGATG
1 TTTG-AAAACATCATGCACTGAAGGGCTTACAGATG
70083 TGGGAAATAG
Statistics
Matches: 565, Mismatches: 57, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
45 283 0.50
46 282 0.50
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
Found at i:69751 original size:181 final size:181
Alignment explanation
Indices: 69411--70082 Score: 1017
Period size: 181 Copynumber: 3.7 Consensus size: 181
69401 GATGGAAATG
* * *
69411 TTTGAAAACATCATGCACCGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACT
1 TTTGATAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTTGAAAACATCATGCACT
* * * *
69476 GAAGGACTTACAGATAACCCGAAGGTTTTTGATAACATCAAGCACTGAAGGGCTTACAGATGACC
65 GAAGGACTTACAGATGACCCGAAGG-TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACC
* * * * *
69541 CGGAGGTTTTGAAAACATCAAGCACTGAAGGACTTACAGATGAGC-CGAAGGTT
129 AGAAGGTTTTGATAACATCATGCACTGAAGGGCTTACAGATGA-CACGAAGGTT
* * * *
69594 TTTGATAACATCAAGCACTGAAGGGCTTACAAATGACCCGAAGGTTTTGAAAACATCAAGCACTG
1 TTTGATAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
* * *
69659 AAGGGA-TTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTAAAGGACTTATAGATGACCA
66 AA-GGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCA
69723 GAAGGTTTTGATAACATCATGCACTGAAGGGCTTACAGATGACACGAAGGTT
130 GAAGGTTTTGATAACATCATGCACTGAAGGGCTTACAGATGACACGAAGGTT
** *
69775 TTTGATAACATCATGCACTGAAGGACTTACAGATGACAAGAAGGTTTTGATAACATCATGCACTG
1 TTTGATAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
* *
69840 AAGGGA-TTACAGATGACCCGAAGGTTTTTAAAACATCATGCACTGAAGGACTTACAGATAACCA
66 AA-GGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCA
*
69904 GAAGGTTTTGATAACATCATGCACTGAAGGGCTTACAGATGACTCGAAGGTT
130 GAAGGTTTTGATAACATCATGCACTGAAGGGCTTACAGATGACACGAAGGTT
*
69956 TTTGATAACATCATGCACTGAAGGACTTACAGATGACCCAAAGGTTTTGAAAAACATCATGCACT
1 TTTGATAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG-AAAACATCATGCACT
*
70021 GAAGGACTTACAGATGACCCGAAGGTTTTGAAAAACATCATGCACTGAAGGGCTTACAGATG
65 GAAGGACTTACAGATGACCCGAAGGTTTTG-AAAACATCATGCACTGAAGGACTTACAGATG
70083 TGGGAAATAG
Statistics
Matches: 447, Mismatches: 37, Indels: 10
0.90 0.07 0.02
Matches are distributed among these distances:
180 1 0.00
181 297 0.66
182 77 0.17
183 72 0.16
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (181 bp):
TTTGATAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
AAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCAG
AAGGTTTTGATAACATCATGCACTGAAGGGCTTACAGATGACACGAAGGTT
Found at i:70766 original size:22 final size:22
Alignment explanation
Indices: 70741--70817 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
70731 AATAAAGCTT
*
70741 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATATA
*
70763 TCATCTTTAAAAAGAGAATATA
1 TCATCTTTGAAAAGAGAATATA
70785 TCATCTTTGAAAAGAGAATATA
1 TCATCTTTGAAAAGAGAATATA
70807 TCATCTTTGAA
1 TCATCTTTGAA
70818 GAGTGTAGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATATA
Found at i:75477 original size:7 final size:7
Alignment explanation
Indices: 75467--75534 Score: 50
Period size: 7 Copynumber: 9.4 Consensus size: 7
75457 ATTTTTCCTT
75467 TTTTTTC
1 TTTTTTC
75474 -TTTTTC
1 TTTTTTC
75480 TTTTTTC
1 TTTTTTC
75487 TCATTTTTC
1 T--TTTTTC
*
75496 CTTTTTC
1 TTTTTTC
*
75503 ATCTCTTT-
1 -T-TTTTTC
75511 TTTTTTC
1 TTTTTTC
75518 TTTTTTC
1 TTTTTTC
* *
75525 CTTCTTC
1 TTTTTTC
75532 TTT
1 TTT
75535 CTTTGCTGGA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
6 10 0.21
7 28 0.58
9 10 0.21
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTTC
Found at i:75479 original size:16 final size:17
Alignment explanation
Indices: 75450--75501 Score: 72
Period size: 16 Copynumber: 3.1 Consensus size: 17
75440 CTTGATTCAA
75450 TTTCTCCATTTTTCCTTT
1 TTTCT-CATTTTTCCTTT
*
75468 TTTTTC-TTTTT-CTTT
1 TTTCTCATTTTTCCTTT
75483 TTTCTCATTTTTCCTTT
1 TTTCTCATTTTTCCTTT
75500 TT
1 TT
75502 CATCTCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 9 0.30
16 10 0.33
17 7 0.23
18 4 0.13
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTCTCATTTTTCCTTT
Found at i:78449 original size:36 final size:36
Alignment explanation
Indices: 78386--78455 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
78376 GCATAAATAC
* * *
78386 AAAAATAAGAATGCAAACTGTGTAATGCAAAGATGT
1 AAAAATAAGAATACAAAATGTGAAATGCAAAGATGT
*
78422 AAAAAGTAAGAATACAAAATG-GAAATGCACAGAT
1 AAAAA-TAAGAATACAAAATGTGAAATGCAAAGAT
78456 ACAAAATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 16 0.55
37 13 0.45
ACGTcount: A:0.54, C:0.09, G:0.19, T:0.19
Consensus pattern (36 bp):
AAAAATAAGAATACAAAATGTGAAATGCAAAGATGT
Found at i:79602 original size:52 final size:52
Alignment explanation
Indices: 79535--79638 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
79525 TTCATACAAC
* *
79535 TCTTTATATGATATAGGGATAGCATTAAAATGAGAACCACCTTTTCTCTTGG
1 TCTTTATATAATATAGGGATAGCATCAAAATGAGAACCACCTTTTCTCTTGG
79587 TCTTTATATAATATAGGGATAGCATCAAAATGAGAACCACCTTTTCTCTTGG
1 TCTTTATATAATATAGGGATAGCATCAAAATGAGAACCACCTTTTCTCTTGG
79639 ATTAAACCTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (52 bp):
TCTTTATATAATATAGGGATAGCATCAAAATGAGAACCACCTTTTCTCTTGG
Found at i:80863 original size:24 final size:22
Alignment explanation
Indices: 80820--80875 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
80810 TTTAATACTT
*
80820 GAAAATAA-AATAAAACATTAT
1 GAAAATAATAATAAAACATTAG
* *
80841 TAAAATAATATATATAAATATTAG
1 GAAAATAATA-ATA-AAACATTAG
80865 GAAAATAATAA
1 GAAAATAATAA
80876 GTATATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 7 0.25
22 1 0.04
23 4 0.14
24 16 0.57
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (22 bp):
GAAAATAATAATAAAACATTAG
Found at i:81714 original size:22 final size:23
Alignment explanation
Indices: 81675--81717 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
81665 AGAGTAATTT
**
81675 ATAAAATTAAATTTATAAATAGG
1 ATAAAATTAAATAAATAAATAGG
81698 ATAAAA-TAAATAAATAAATA
1 ATAAAATTAAATAAATAAATA
81718 TTATTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (23 bp):
ATAAAATTAAATAAATAAATAGG
Found at i:81748 original size:3 final size:3
Alignment explanation
Indices: 81742--81778 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
81732 TATATTTATT
81742 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
81779 ATGTATATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:82040 original size:10 final size:10
Alignment explanation
Indices: 82025--82055 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
82015 TTCAATTATT
82025 AAATTAAAAC
1 AAATTAAAAC
82035 AAATTAAAAC
1 AAATTAAAAC
82045 AAATTAAAAC
1 AAATTAAAAC
82055 A
1 A
82056 TGTTGTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (10 bp):
AAATTAAAAC
Found at i:83201 original size:3 final size:3
Alignment explanation
Indices: 83193--83244 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
83183 ATATATATAT
* * * *
83193 ATA ATA ATAA ATA ATA ATA ATA TATT ATA TTA ATA ATA ATT ATA ATT
1 ATA ATA AT-A ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
83240 ATA AT
1 ATA AT
83245 TATGAAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
3 34 0.87
4 5 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
ATA
Found at i:83212 original size:16 final size:17
Alignment explanation
Indices: 83181--83244 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 17
83171 ATGTAATTTG
83181 TAATATATATATATAATAA
1 TAATATA-ATA-ATAATAA
83200 TAA-ATAATAATAATATA
1 TAATATAATAATAATA-A
* *
83217 TTATATTAATAATAATTA
1 TAATA-TAATAATAATAA
83235 TAATTATAAT
1 TAA-TATAAT
83245 TATGAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 6 0.16
17 6 0.16
18 11 0.29
19 15 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATATAATAATAATAA
Found at i:83228 original size:19 final size:21
Alignment explanation
Indices: 83202--83242 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
83192 TATAATAATA
*
83202 AATAATAATAATATATTATATT
1 AATAATAATTATA-ATTATATT
83224 AATAATAATTATAATTATA
1 AATAATAATTATAATTATA
83243 ATTATGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATAATAATTATAATTATATT
Found at i:84707 original size:295 final size:295
Alignment explanation
Indices: 84173--85051 Score: 1244
Period size: 295 Copynumber: 3.0 Consensus size: 295
84163 TTCATTTCAC
84173 CAATTTTCTTTTCAACCGATCCAAACAACTCTTTCACTTCTACCCTCAATTTACTCACTTCCTTA
1 CAATTTTCTTTTCAACCGATCCAAACAACTCTTTCACTTCTACCCTCAATTTACTCACTTCCTTA
* * * * ***** * *
84238 ACCTCCACACCCCTTCTCAGTTCCTCCATCCAATTAACAAAAAAAAAAATTCAAGGTCACCAATA
66 ACGT-CACACCCCTTTTCAGTTCATCCATCCCATTAAC---AAATTTTTTTCAAGATCACCAACA
* * * *
84303 GAACTCTTCATCCCCTCAATTTCACCCCTTATTTTATCAACTTATTCCACTACTCCAATAAATTT
127 GAACACTTCATCCCCTCAATTTCACCCCTTATTTTATCAACTTCTTCCACCACTCCAACAAATTT
* * ** **
84368 TGCATTACTTTTCTCCACAAACTCCATTCTATCATACTTTTGGGTCTCAAATTCTTCCTATATCC
192 TGCATTACTTTTCTCCACAAACTCTATTCCATCATACTTTTGGGTCTCAAACGCTTCCTCCATCC
84433 TCACTTGTCTTTCATGAACCTCAAAAACACTTCTACCCT
257 TCACTTGTCTTTCATGAACCTCAAAAACACTTCTACCCT
* * *
84472 CAATTTTCTTTTCAACCGATCCAAACAACTATTTCCCTTCTACCATCAA-TTACTCACTTCCTTA
1 CAATTTTCTTTTCAACCGATCCAAACAACTCTTTCACTTCTACCCTCAATTTACTCACTTCCTTA
* * * * *
84536 ATCGTTATACCCCTTTTCAATTCATCTATCCCATTAACAAATTTTTTTAAAGATCACCAACAGAA
66 A-CGTCACACCCCTTTTCAGTTCATCCATCCCATTAACAAATTTTTTTCAAGATCACCAACAGAA
*
84601 CACTTCATCCCCTCAATTTCACCTCTTATTTTATCAACTTCTTCCACCACTCCAACAAATTTTGC
130 CACTTCATCCCCTCAATTTCACCCCTTATTTTATCAACTTCTTCCACCACTCCAACAAATTTTGC
* *
84666 ATTAATTTTCTCCACAAACTCTATTCCATCATACTTTTGGGTCTCAAGCGCTTCCTCCATCCTCA
195 ATTACTTTTCTCCACAAACTCTATTCCATCATACTTTTGGGTCTCAAACGCTTCCTCCATCCTCA
* **
84731 CTTGTCTTTCATGAACCTCAGAAACACTTCTACTGT
260 CTTGTCTTTCATGAACCTCAAAAACACTTCTACCCT
* *
84767 CAATTTTCTTTTCAACCGATCCAAACAACTCTTTTACTTCTACCCTCAATTTACTGACTTCCTTA
1 CAATTTTCTTTTCAACCGATCCAAACAACTCTTTCACTTCTACCCTCAATTTACTCACTTCCTTA
* *
84832 ACTGTCACACCCCTTTTTAGTTCATCCAACCCATTAAC-AATTTTTTTCAAGATCACCAACAGAA
66 AC-GTCACACCCCTTTTCAGTTCATCCATCCCATTAACAAATTTTTTTCAAGATCACCAACAGAA
* * *
84896 CACTTTATCCCCTCAATTTCACCCCTT-TTTTAATCAACTTCTTCAACCACTCCAACAAATGTTG
130 CACTTCATCCCCTCAATTTCACCCCTTATTTT-ATCAACTTCTTCCACCACTCCAACAAATTTTG
* * *
84960 CAATACTTTTCTCCAAAAACTCTATTCCGTCATACTTTTGGGTCTCAAACGCTTCCTCCATCCTC
194 CATTACTTTTCTCCACAAACTCTATTCCATCATACTTTTGGGTCTCAAACGCTTCCTCCATCCTC
*
85025 ACTTGT-TTTTATGAACCTCAGAAAACA
259 ACTTGTCTTTCATGAACCTCA-AAAACA
85052 TTTGTTTGAT
Statistics
Matches: 517, Mismatches: 58, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
294 17 0.03
295 366 0.71
296 44 0.09
298 42 0.08
299 48 0.09
ACGTcount: A:0.28, C:0.32, G:0.05, T:0.36
Consensus pattern (295 bp):
CAATTTTCTTTTCAACCGATCCAAACAACTCTTTCACTTCTACCCTCAATTTACTCACTTCCTTA
ACGTCACACCCCTTTTCAGTTCATCCATCCCATTAACAAATTTTTTTCAAGATCACCAACAGAAC
ACTTCATCCCCTCAATTTCACCCCTTATTTTATCAACTTCTTCCACCACTCCAACAAATTTTGCA
TTACTTTTCTCCACAAACTCTATTCCATCATACTTTTGGGTCTCAAACGCTTCCTCCATCCTCAC
TTGTCTTTCATGAACCTCAAAAACACTTCTACCCT
Found at i:87146 original size:14 final size:14
Alignment explanation
Indices: 87127--87171 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
87117 GTTTTGATAT
87127 ATTTTTTATTAATA
1 ATTTTTTATTAATA
*
87141 ATTTTTTAATAATA
1 ATTTTTTATTAATA
87155 TATTTTTT-TT-ATA
1 -ATTTTTTATTAATA
87168 ATTT
1 ATTT
87172 AAAAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 14 0.50
15 7 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTTTATTAATA
Found at i:87163 original size:16 final size:15
Alignment explanation
Indices: 87123--87162 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
87113 AATCGTTTTG
*
87123 ATATATTTTTTATTA
1 ATATATTTTTTAATA
87138 ATA-ATTTTTTAATA
1 ATATATTTTTTAATA
87152 ATATATTTTTT
1 ATATATTTTTT
87163 TTATAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATATATTTTTTAATA
Found at i:87168 original size:16 final size:16
Alignment explanation
Indices: 87123--87169 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
87113 AATCGTTTTG
*
87123 ATATATTTTTTAT-TA
1 ATATATTTTTTTTATA
*
87138 ATA-A-TTTTTTAATA
1 ATATATTTTTTTTATA
87152 ATATATTTTTTTTATA
1 ATATATTTTTTTTATA
87168 AT
1 AT
87170 TTAAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
13 5 0.19
14 6 0.23
15 4 0.15
16 11 0.42
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATATATTTTTTTTATA
Found at i:87178 original size:27 final size:29
Alignment explanation
Indices: 87123--87178 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
87113 AATCGTTTTG
***
87123 ATATATTTTTTATTAATAATTTTTTAATA
1 ATATATTTTTTATTAATAATTTAAAAATA
87152 ATATATTTTTT-TT-ATAATTTAAAAATA
1 ATATATTTTTTATTAATAATTTAAAAATA
87179 TTTTTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 11 0.46
28 2 0.08
29 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
ATATATTTTTTATTAATAATTTAAAAATA
Found at i:87211 original size:37 final size:36
Alignment explanation
Indices: 87141--87211 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
87131 TTTATTAATA
*
87141 ATTTTTTAATAATATATTTTTTTTATAATTTAAAAAT
1 ATTTTTTAAT-ATATATTTTTTTTATAAGTTAAAAAT
*
87178 ATTTTTTAAT-TATGTTTTTTTTATATTAGTTAAA
1 ATTTTTTAATATATATTTTTTTTATA--AGTTAAA
87212 TCAGATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 14 0.47
37 16 0.53
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (36 bp):
ATTTTTTAATATATATTTTTTTTATAAGTTAAAAAT
Found at i:88413 original size:41 final size:41
Alignment explanation
Indices: 88357--88465 Score: 141
Period size: 41 Copynumber: 2.7 Consensus size: 41
88347 CGTTTATACC
** *
88357 ACAAACGCCGTAATAGTGTTAATCAATAGTGGCG-TTTTTA
1 ACAAACGCCAAAATAGTGTTAATCAATAGTGACGTTTTTTA
* * *
88397 GATAAACGCCACAATAGTTTTAATCAATAGTGACGTTTTTTA
1 -ACAAACGCCAAAATAGTGTTAATCAATAGTGACGTTTTTTA
88439 ACAAACGCCAAAATAGTG-TAATCAATA
1 ACAAACGCCAAAATAGTGTTAATCAATA
88466 ATGGAATTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
40 9 0.15
41 44 0.75
42 6 0.10
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (41 bp):
ACAAACGCCAAAATAGTGTTAATCAATAGTGACGTTTTTTA
Found at i:96242 original size:21 final size:21
Alignment explanation
Indices: 96188--96248 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
96178 TGAAGCAAGG
96188 GAAA-CAGAGAGAGCAGCAGC
1 GAAAGCAGAGAGAGCAGCAGC
***
96208 GAAAGCATCTAGAGCAGCAGC
1 GAAAGCAGAGAGAGCAGCAGC
*
96229 GAAAGCAGAGAGAGAAGCAG
1 GAAAGCAGAGAGAGCAGCAG
96249 TGGCAGCACA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.44, C:0.18, G:0.34, T:0.03
Consensus pattern (21 bp):
GAAAGCAGAGAGAGCAGCAGC
Found at i:96256 original size:21 final size:21
Alignment explanation
Indices: 96218--96287 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
96208 GAAAGCATCT
* ** *
96218 AGAGCAGCAGCGAAAGCAGAG
1 AGAGAAGCAGCGGCAGCACAG
*
96239 AGAGAAGCAGTGGCAGCACAG
1 AGAGAAGCAGCGGCAGCACAG
* *
96260 AGAGAGGCAGCGGCAGAACAG
1 AGAGAAGCAGCGGCAGCACAG
96281 AGAGAAG
1 AGAGAAG
96288 TAATAAATCA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.41, C:0.17, G:0.40, T:0.01
Consensus pattern (21 bp):
AGAGAAGCAGCGGCAGCACAG
Found at i:96680 original size:45 final size:41
Alignment explanation
Indices: 96627--96738 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 41
96617 CATACATTTA
* *
96627 GCGGCGTTTGTGATAAAAACGCCGCAAAATCTCAAGACATATTCT
1 GCGGCGTTTGTGA-AAAAACGCCGCAAAA-AT-AA-ACATATACT
* * *
96672 GCGGCGTTTGT-AGGAAAACGCCGGTAAAAATAAACATCTACT
1 GCGGCGTTTGTGA-AAAAACGCC-GCAAAAATAAACATATACT
96714 GCGGCGTTTGTGAAGAAAACGCCGC
1 GCGGCGTTTGTGAA-AAAACGCCGC
96739 TAAACATCAA
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
42 19 0.34
43 11 0.20
44 10 0.18
45 16 0.29
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.21
Consensus pattern (41 bp):
GCGGCGTTTGTGAAAAAACGCCGCAAAAATAAACATATACT
Found at i:96760 original size:43 final size:43
Alignment explanation
Indices: 96627--96767 Score: 130
Period size: 43 Copynumber: 3.3 Consensus size: 43
96617 CATACATTTA
*
96627 GCGGCGTTTGTGATA-AAAACGCCGCAAAATC-TCAA-GACATATTCT
1 GCGGCGTTTGTGA-AGAAAACGCCGCTAAA-CATCAACGAC-TA-T-T
* * * * *
96672 GCGGCGTTTGT-AGGAAAACGCCGGTAAAAATAAAC-ATCTACT
1 GCGGCGTTTGTGAAGAAAACGCCGCTAAACATCAACGA-CTATT
96714 GCGGCGTTTGTGAAGAAAACGCCGCTAAACATCAACGACTATT
1 GCGGCGTTTGTGAAGAAAACGCCGCTAAACATCAACGACTATT
*
96757 GCGGTGTTTGT
1 GCGGCGTTTGT
96768 CTGCCAAATG
Statistics
Matches: 78, Mismatches: 12, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
42 12 0.15
43 34 0.44
44 20 0.26
45 12 0.15
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (43 bp):
GCGGCGTTTGTGAAGAAAACGCCGCTAAACATCAACGACTATT
Found at i:96791 original size:43 final size:43
Alignment explanation
Indices: 96643--96839 Score: 157
Period size: 43 Copynumber: 4.6 Consensus size: 43
96633 TTTGTGATAA
* * * * **
96643 AAACGCCGCAAAATCTCAAGACATATTCTGCGGCGTTTGTA-GGA
1 AAACGCCGCTAAATATCAACACCTA-T-TGCGGCGTTTGTATGCC
* * * * * * *
96687 AAACGCCGGTAAAAATAAACATCTACTGCGGCGTTTGTGAAG-A
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGT-ATGCC
* * *
96730 AAACGCCGCTAAACATCAACGA-CTATTGCGGTGTTTGTCTGCC
1 AAACGCCGCTAAATATCAAC-ACCTATTGCGGCGTTTGTATGCC
* * *
96773 AAATGCCGTTAAATATCAACACCTATTGCGGCGTTTTTATGCC
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTATGCC
*
96816 AAACGCCGCTAAATATCAATACCT
1 AAACGCCGCTAAATATCAACACCT
96840 TTTGTTGTTT
Statistics
Matches: 122, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
42 14 0.11
43 89 0.73
44 19 0.16
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTATGCC
Found at i:97782 original size:25 final size:25
Alignment explanation
Indices: 97735--97785 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
97725 TAAGAAATTA
** * *
97735 TATAAAATTTTGTGGAGTGTGAAAT
1 TATAAAATTTTAAGAAGTATGAAAT
97760 TATAAAATTTTAAGAAGTATGAAAT
1 TATAAAATTTTAAGAAGTATGAAAT
97785 T
1 T
97786 TGACAATTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.39
Consensus pattern (25 bp):
TATAAAATTTTAAGAAGTATGAAAT
Found at i:98054 original size:60 final size:59
Alignment explanation
Indices: 97965--98079 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 59
97955 AAGTACATAG
* *
97965 ATGGTCCTCAACTATAAGACATTGTTTTGTTGAGTCATCCGATTATTAAAAGTTATGAA
1 ATGGTCCTCAACTATAAGACATTGCTTTGTTGAGTCATCCGACTATTAAAAGTTATGAA
* ** * * *
98024 ATGGTCTCTCAACTATAGGGTATTGCTTTGTTTATTCATTCGACTATTAAAAGTTA
1 ATGGTC-CTCAACTATAAGACATTGCTTTGTTGAGTCATCCGACTATTAAAAGTTA
98080 CAAACTTGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
59 6 0.13
60 41 0.87
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.40
Consensus pattern (59 bp):
ATGGTCCTCAACTATAAGACATTGCTTTGTTGAGTCATCCGACTATTAAAAGTTATGAA
Found at i:98505 original size:20 final size:20
Alignment explanation
Indices: 98465--98502 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
98455 GAATTTGAAT
98465 TTTTATTTAATTTATAATTA
1 TTTTATTTAATTTATAATTA
*
98485 TTTTATTTTATTT-TAATT
1 TTTTATTTAATTTATAATT
98503 TATAGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTATTTAATTTATAATTA
Found at i:101671 original size:21 final size:20
Alignment explanation
Indices: 101646--101696 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
101636 GTTTAATAAA
*
101646 AAAAATTTAATGTTTTCTATT
1 AAAAATTTAATGTATT-TATT
*
101667 TAAAATTTAATGTATTTATT
1 AAAAATTTAATGTATTTATT
101687 AAATAATTTA
1 AAA-AATTTA
101697 TTAAACGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (20 bp):
AAAAATTTAATGTATTTATT
Found at i:102943 original size:13 final size:15
Alignment explanation
Indices: 102913--102945 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
102903 ATATACATAT
102913 AATAATAATAACATG
1 AATAATAATAACATG
102928 AATAATAA-AA-ATG
1 AATAATAATAACATG
102941 AATAA
1 AATAA
102946 ATACCCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 2 0.11
15 8 0.44
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (15 bp):
AATAATAATAACATG
Found at i:103380 original size:37 final size:36
Alignment explanation
Indices: 103337--103438 Score: 165
Period size: 34 Copynumber: 2.9 Consensus size: 36
103327 ATAGTAGAAC
103337 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT
103374 GT-TATCCTATTTTTAGGAGTTTGAATCCT--AAAAT
1 -TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
103408 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
103439 TAGAACGAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
33 1 0.02
34 32 0.52
37 27 0.44
38 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:104174 original size:100 final size:102
Alignment explanation
Indices: 103983--105003 Score: 1522
Period size: 105 Copynumber: 9.9 Consensus size: 102
103973 CATTGTTCCA
* * ** *
103983 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAA-TTGGAAA-T-TTTGTTGACAAG
* * * *
104048 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
62 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
104089 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTGAA-T-GAAATTTTGTTGACAAGCAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGAAATTTTGTTGACAAGCAGC
* *
104152 GGTCTCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
104189 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAATT-GGAAATT-TTGTTGACAAGC
*
104254 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
63 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
104294 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA-T-GAAATTTTGTTGACAAGCAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGAAATTTTGTTGACAAGCAGC
104357 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
104394 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA-T-GAAATTTTGTTGACAAGCAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGAAATTTTGTTGACAAGCAGC
104457 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
104494 AGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-ATTGGAAA-TT-TTGTTGACAAGC
*
104559 AGCGGT-CCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
63 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
104598 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA-T-GAAA-TTTGTTGACAAGCAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGAAATTTTGTTGACAAGCAGC
104660 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
104697 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-ATTGGAAA-TT-TTGTTGACAAGC
* *
104762 AGCGGTCCCTTCGTCGTGAAGTTGAACTTACATTGTCTGG
63 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
104802 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTATTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-ATT-GGAAATT-TTGTTGACAAGC
104867 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
63 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
104907 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAATT-GG-AAA-T-TTTGTTGACAA
* *
104972 CCAGCGGTCCCTTCGTCGTGAAGTTAAACTTG
61 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
105004 ACTCTAAAGC
Statistics
Matches: 851, Mismatches: 42, Indels: 43
0.91 0.04 0.05
Matches are distributed among these distances:
98 18 0.02
99 72 0.08
100 271 0.32
101 14 0.02
102 11 0.01
103 6 0.01
104 80 0.09
105 294 0.35
106 43 0.05
107 41 0.05
108 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (102 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGAAATTTTGTTGACAAGCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:104529 original size:305 final size:309
Alignment explanation
Indices: 103983--105003 Score: 1632
Period size: 305 Copynumber: 3.3 Consensus size: 309
103973 CATTGTTCCA
* * *
103983 AGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTAGAA-C-TGAAATTGTTTGTTGACAA
* * * *
104047 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
63 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
** *
104112 GTTGAAATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGGTCTCTTCGTCGTGAAGTTGAACT
128 GTTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
*
104177 TACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTG
193 TACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG
104242 TTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
258 TTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
*
104294 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAA-TGAAA-T-TTTGTTGACAAGCA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAGAACTGAAATTGTTTGTTGACAACCA
104355 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
*
104420 GAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
131 GAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTAC
* *
104485 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAGATTGGAAAGTTGTTG
196 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTG
*
104550 TTGACAAGCAGCGGT-CCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
261 TTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
*
104598 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAA-TGAAA---TTTGTTGACAAGCA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAGAACTGAAATTGTTTGTTGACAACCA
104658 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
104723 GAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGA-A-T-GAAA-TT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
* *
104788 CTTACATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAAT
191 CTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGT
* * *
104853 TATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
256 TGTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
* * *
104907 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAGAACT--G-AAATTGTTTGTTGACAA
*
104972 CCAGCGGTCCCTTCGTCGTGAAGTTAAACTTG
63 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
105004 ACTCTAAAGC
Statistics
Matches: 668, Mismatches: 27, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
303 93 0.14
304 80 0.12
305 212 0.32
306 5 0.01
307 6 0.01
308 116 0.17
309 70 0.10
310 5 0.01
311 36 0.05
312 1 0.00
313 1 0.00
314 3 0.00
317 40 0.06
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (309 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAGAACTGAAATTGTTTGTTGACAACCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
GAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTAC
GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTG
TTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
Found at i:105177 original size:18 final size:18
Alignment explanation
Indices: 105150--105185 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
105140 TGTTAAATCC
* *
105150 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
105168 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
105186 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:105627 original size:22 final size:22
Alignment explanation
Indices: 105601--105655 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
105591 TTGTGTTTGG
105601 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
105623 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
105645 TCAAAGGTTTG
1 TCAAAGGTTTG
105656 ATGTGACAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:106351 original size:17 final size:16
Alignment explanation
Indices: 106309--106390 Score: 53
Period size: 17 Copynumber: 5.0 Consensus size: 16
106299 TTCTTGTTTT
* *
106309 TTTCTTTTTTTCCCTTA
1 TTTC-TTTTTTCTCTTG
*
106326 TGTTCTTGTTTCTCTTG
1 T-TTCTTTTTTCTCTTG
106343 TTTCTTTGTTT-TCTTTG
1 TTTCTTT-TTTCTC-TTG
* *
106360 TTT-TTTTTT-GCTTC
1 TTTCTTTTTTCTCTTG
106374 TTTCTTTTTTCTTCTTG
1 TTTCTTTTTTC-TCTTG
106391 ATTGGATCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
14 5 0.10
15 10 0.20
16 10 0.20
17 23 0.45
18 3 0.06
ACGTcount: A:0.01, C:0.17, G:0.09, T:0.73
Consensus pattern (16 bp):
TTTCTTTTTTCTCTTG
Found at i:107510 original size:8 final size:8
Alignment explanation
Indices: 107494--107532 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
107484 AATGTAGATG
107494 AAAATGCA
1 AAAATGCA
*
107502 AAAAGGCA
1 AAAATGCA
107510 AAAATGC-
1 AAAATGCA
107517 AAAATGCA
1 AAAATGCA
*
107525 AGAATGCA
1 AAAATGCA
107533 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:107520 original size:15 final size:15
Alignment explanation
Indices: 107494--107532 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
107484 AATGTAGATG
107494 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
107510 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
107525 AGAATGCA
1 AAAATGCA
107533 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:108936 original size:15 final size:17
Alignment explanation
Indices: 108912--108953 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
108902 TGATGCAAGT
*
108912 GATGAAAATAAAATAAA
1 GATGAAAATAAAAGAAA
108929 -AT-AAAATAAAAGAAA
1 GATGAAAATAAAAGAAA
108944 GATGAAAATA
1 GATGAAAATA
108954 GTTAGTGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 12 0.55
16 4 0.18
17 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (17 bp):
GATGAAAATAAAAGAAA
Found at i:110125 original size:2 final size:2
Alignment explanation
Indices: 110112--110141 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
110102 AGGAAAAGAA
*
110112 AT AT AA 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
110142 CAAAGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:110668 original size:14 final size:15
Alignment explanation
Indices: 110637--110674 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
110627 ATATACATAT
*
110637 AATAATAATAACATG
1 AATAATAATAAAATG
110652 AATAATAA-AAAATG
1 AATAATAATAAAATG
110666 AATAA-AATA
1 AATAATAATA
110675 CCCATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (15 bp):
AATAATAATAAAATG
Found at i:111142 original size:34 final size:35
Alignment explanation
Indices: 111065--111165 Score: 161
Period size: 34 Copynumber: 2.9 Consensus size: 35
111055 ATAGTAGAAC
111065 TCTATCCTATTTTTAGGAGTTTGAATCCTAACAAAATG
1 TCTATCCTATTTTTAGGAGTTTGAATCCT---AAAATG
111103 T-TATCCTATTTTTAGGAGTTTGAATCCTAAAAT-
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
111136 TCTATCCTATTTTTAGGAGTTTGAATCCTA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTA
111166 GTAGAACGAA
Statistics
Matches: 62, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
33 1 0.02
34 33 0.53
37 27 0.44
38 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.44
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
Found at i:113109 original size:18 final size:19
Alignment explanation
Indices: 113071--113109 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
113061 TAAATACAAT
*
113071 AAATAATATTATTTATTAA
1 AAATAATAATATTTATTAA
*
113090 AAATAATAATGTTT-TTAA
1 AAATAATAATATTTATTAA
113108 AA
1 AA
113110 TATTAGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
AAATAATAATATTTATTAA
Found at i:113136 original size:14 final size:15
Alignment explanation
Indices: 113117--113151 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
113107 AAATATTAGA
113117 ATTATTTAT-TTAAT
1 ATTATTTATGTTAAT
113131 ATTATTTATGTTAAT
1 ATTATTTATGTTAAT
113146 ATTATT
1 ATTATT
113152 ATTAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
ATTATTTATGTTAAT
Found at i:113339 original size:40 final size:39
Alignment explanation
Indices: 113206--113339 Score: 125
Period size: 37 Copynumber: 3.5 Consensus size: 39
113196 ATTATTATAT
* * *
113206 TTTATTAAAATAA-AATTCTTATAACTTA-TA-TTAATAA
1 TTTATTAAAATAATAA-TATTATAAATTATTATTTAATTA
*
113243 TTTATTAAAATAATAATA--ATAAATTATTATTTATTTA
1 TTTATTAAAATAATAATATTATAAATTATTATTTAATTA
* * * * *
113280 TTTATTAAAACAATGATATTATTAATTTTTTTTTAATTA
1 TTTATTAAAATAATAATATTATAAATTATTATTTAATTA
*
113319 TTATATTAAAATAAAAATATT
1 TT-TATTAAAATAATAATATT
113340 TTGTTATATT
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
35 7 0.09
36 2 0.03
37 35 0.45
38 2 0.03
39 17 0.22
40 15 0.19
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (39 bp):
TTTATTAAAATAATAATATTATAAATTATTATTTAATTA
Found at i:113528 original size:21 final size:21
Alignment explanation
Indices: 113503--113551 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
113493 ATAAGGATAC
*
113503 AATATTATATAATTATCAATA
1 AATATTATATAATAATCAATA
* * *
113524 AATATAATTTAATAATTAATA
1 AATATTATATAATAATCAATA
113545 AAT-TTAT
1 AATATTAT
113552 TAAAATGATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATTATATAATAATCAATA
Found at i:117297 original size:21 final size:21
Alignment explanation
Indices: 117273--117342 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
117263 TGAAAATCGC
117273 AAAATCGCGTTGCGATAGTTG
1 AAAATCGCGTTGCGATAGTTG
* *
117294 AAAATCGCGTTGCGAT-TTTT
1 AAAATCGCGTTGCGATAGTTG
* ** *
117314 CATTTCGTGTTGCGATAGTTG
1 AAAATCGCGTTGCGATAGTTG
117335 AAAATCGC
1 AAAATCGC
117343 ACAACGCGAA
Statistics
Matches: 36, Mismatches: 12, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 14 0.39
21 22 0.61
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (21 bp):
AAAATCGCGTTGCGATAGTTG
Found at i:117809 original size:14 final size:14
Alignment explanation
Indices: 117787--117816 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
117777 TTAACCGTTG
117787 TTAAAAAATAATAA
1 TTAAAAAATAATAA
*
117801 TTAATAAATAATAA
1 TTAAAAAATAATAA
117815 TT
1 TT
117817 CATTTAATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTAAAAAATAATAA
Found at i:119189 original size:37 final size:37
Alignment explanation
Indices: 119147--119217 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
119137 TAAATATTTG
* * **
119147 TTAAGTGTTACACTTTTTTGTTTTATTCACTTATGTA
1 TTAAGTGCTACACTTGTTCATTTTATTCACTTATGTA
*
119184 TTAAGTGCTACACTTGTTCATTTTATTTACTTAT
1 TTAAGTGCTACACTTGTTCATTTTATTCACTTAT
119218 ACCGGTGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.55
Consensus pattern (37 bp):
TTAAGTGCTACACTTGTTCATTTTATTCACTTATGTA
Found at i:123589 original size:2 final size:2
Alignment explanation
Indices: 123582--123607 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
123572 TCCTTGTCTC
123582 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
123608 TTCGGTAAAT
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:133895 original size:45 final size:45
Alignment explanation
Indices: 133830--134264 Score: 690
Period size: 45 Copynumber: 9.6 Consensus size: 45
133820 ATTATTCATT
*
133830 ATTTTCATTTATGGCATCCTTTCATGCCTCTAATGCACCGTTATGC
1 ATTTT-ATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
*
133876 ATTTTATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
*
133921 ATTTTATTTATGGCATCCTTCCATGCCTTTAATGCACCGTTATGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * *
133966 ATTTTATTTATGACATCCTTTAATGCCTTTAATGCACCATTATGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * * *
134011 ATTTTAGTTATGACATCCTTTCATGCCTTAAATGCACTGTTATGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
** * *
134056 ATTTTATTTATGATATCCTTTCATTCCTTTAATGCACCATTATGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * *
134101 ATTTTATTTATGGCATTCTTTCATGCCTTCAATGCACCGTTATAC
1 ATTTTATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* *
134146 ATTTTATTTATGGCATCCTTTAATGCCTTTAATGCACCGTTATGT
1 ATTTTATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
134191 ATTTTATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
134236 ATTTTATTTATGGCATCCTTTCATGCCTT
1 ATTTTATTTATGGCATCCTTTCATGCCTT
134265 AAACATACAT
Statistics
Matches: 356, Mismatches: 33, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
45 351 0.99
46 5 0.01
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.45
Consensus pattern (45 bp):
ATTTTATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
Found at i:140894 original size:14 final size:14
Alignment explanation
Indices: 140875--140906 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
140865 CAAGGTAACA
140875 TGTAGATATTTTGT
1 TGTAGATATTTTGT
140889 TGTAGATATTTTGT
1 TGTAGATATTTTGT
140903 TGTA
1 TGTA
140907 TATAAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (14 bp):
TGTAGATATTTTGT
Found at i:148582 original size:81 final size:81
Alignment explanation
Indices: 148484--148895 Score: 463
Period size: 81 Copynumber: 5.1 Consensus size: 81
148474 ATGTTTTAAA
* * *
148484 TAAAAGATTAATGGCCTAGCTGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTGGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
148549 GTTAAATACCTTTGAT
66 GTTAAATACCTTTGAG
* * * * *
148565 TAAAAGATTAATAGCCTAGTTGTGCATTTGACAAAAAGGTGTTAATTATACCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
148630 GTTAAATACCTTTTAG
66 GTTAAATACCTTTGAG
* * *
148646 TAAAAGATTAATGGCCTAGTTTTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAT
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAG
148711 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
** * ** *
148727 TAAAAGATTAATGGCCTAGCTGTGCATTTGA-AAGAAAAATGTCAATCATGTAAGTTAGATAAAA
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAA-AAATGTGTCAATTATGCCAGTTAGATGAAA
* *
148791 GGCTAAATGCCTTTGAG
65 GGTTAAATACCTTTGAG
* * * * * * * * *
148808 TTAAAGATTAAAT-GTCTAGCTGTGCATATGGA-AAAAAGGTGCCAATCATACAAGTTAAATGAA
1 TAAAAGATT-AATGGCCTAGCTGTGCAT-TTGACAAAAATGTGTCAATTATGCCAGTTAGATGAA
** *
148871 AGACTAAATGCCTTTG-G
64 AGGTTAAATACCTTTGAG
148888 CTAAAAGA
1 -TAAAAGA
148896 CTAAATGCTT
Statistics
Matches: 287, Mismatches: 40, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
80 3 0.01
81 276 0.96
82 8 0.03
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Done.