Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 234 of 328
Found at i:70122117 original size:30 final size:31
Alignment explanation
Indices: 70122083--70122179 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
70122073 AGCTCACTCC
*
70122083 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
70122113 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
70122143 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
70122173 TAGCTCA
1 TAGCTCA
70122180 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:70124533 original size:40 final size:40
Alignment explanation
Indices: 70124477--70124714 Score: 273
Period size: 40 Copynumber: 6.1 Consensus size: 40
70124467 CGGAATTTAA
** *
70124477 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
70124517 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA-A
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
70124556 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
70124595 CC--AT-TAGTAACTCG-ACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
70124630 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
70124670 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
70124710 CCGGA
1 CCGGA
70124715 CATCATTCGA
Statistics
Matches: 172, Mismatches: 14, Indels: 24
0.82 0.07 0.11
Matches are distributed among these distances:
35 22 0.13
36 10 0.06
37 3 0.02
38 16 0.09
39 45 0.26
40 64 0.37
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:70124640 original size:74 final size:80
Alignment explanation
Indices: 70124496--70124714 Score: 258
Period size: 74 Copynumber: 2.8 Consensus size: 80
70124486 GCTACTCGTT
* * ** *
70124496 CAAATGCCTTCGG-GACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA-ACCG
1 CAAATGCCTTCGGAG-CTTAGTCCGCATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
70124559 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
*
70124575 CCAATGCCTTCGG-GCTTAG-CC-CAT-TAGTAACTCG-ACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGAGCTTAGTCCGCATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
70124634 AATTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * * *
70124649 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGAGCTTAGTCCGCATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
70124713 GA
65 GA
70124715 CATCATTCGA
Statistics
Matches: 121, Mismatches: 11, Indels: 15
0.82 0.07 0.10
Matches are distributed among these distances:
73 4 0.03
74 45 0.37
75 15 0.12
76 3 0.02
77 4 0.03
78 10 0.08
79 24 0.20
80 16 0.13
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGAGCTTAGTCCGCATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:70132740 original size:39 final size:40
Alignment explanation
Indices: 70132626--70132846 Score: 247
Period size: 39 Copynumber: 5.6 Consensus size: 40
70132616 GCTACTCGTT
* ** *
70132626 CAAATGCCTTCGGGACATAGCCC-GGTTGTAGTAACTCCCA
1 CAAATGCCTTCGGGACTTAGCCCAGAAT-TAGTAACTCGCA
* * *
70132666 CGAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCA
*
70132706 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCA
*
70132745 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCA
* * * *
70132784 CAAATGCCTTC-GGATCTTAGTCC-GGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCAGAAT-TAGTAAC-TCGCA
70132825 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
70132847 GGACATCATT
Statistics
Matches: 160, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 74 0.46
40 70 0.44
41 14 0.09
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCA
Found at i:70132803 original size:79 final size:79
Alignment explanation
Indices: 70132626--70132849 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 79
70132616 GCTACTCGTT
* ** * * * * *
70132626 CAAATGCCTTCGGGACATAGCCCGGTTGTAGTAACTCCCACGAATGCCTTCGGGACTTAACCCAG
1 CAAATGCCTTCGGG-CTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
70132691 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
*
70132706 CCAATGCCTTCGGGCTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
70132769 AATTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * * * *
70132784 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGAATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
70132848 GA
64 GA
70132850 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 37 0.30
79 53 0.43
80 34 0.27
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:70132833 original size:118 final size:120
Alignment explanation
Indices: 70132626--70132846 Score: 281
Period size: 118 Copynumber: 1.9 Consensus size: 120
70132616 GCTACTCGTT
* *
70132626 CAAATGCCTTCGGGACATAGCCCGGTTGTAGTAACTCCCACGAATGCCTTCGGGACTTAACCCAG
1 CAAATGCCTTCGGGACATAGCCCGGATGTAGTAACTCCCACAAATGCCTTCGGGACTTAACCCAG
* * *
70132691 ATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCA
66 ATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCA
* * **
70132745 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGG-ATGTAGTAACTCCCACAAATGCCTTCGGGA-CTTAACCC
* *
70132807 GGATATAGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCC
64 AGATATAGTAAC-TAGCACCAAAGCCTTCGGGACTTAGCCC
70132847 GGACATCATT
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
117 3 0.03
118 57 0.66
119 27 0.31
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATGTAGTAACTCCCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCA
Found at i:70132849 original size:40 final size:40
Alignment explanation
Indices: 70132607--70132849 Score: 257
Period size: 40 Copynumber: 6.1 Consensus size: 40
70132597 CGGAATTTAA
** *
70132607 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * * *
70132647 CCGGTTGTAGTAACTCCCACGAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
70132687 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
70132726 CCAGA-ATTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
70132765 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
70132805 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
70132845 CCGGA
1 CCGGA
70132850 CATCATTCGA
Statistics
Matches: 175, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 71 0.41
40 90 0.51
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:70136135 original size:13 final size:14
Alignment explanation
Indices: 70136119--70136151 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
70136109 CAATCAATAG
70136119 AAAAGA-CAAAAGA
1 AAAAGAGCAAAAGA
*
70136132 AAAAGAGCGAAAGA
1 AAAAGAGCAAAAGA
70136146 AAAAGA
1 AAAAGA
70136152 ATGAAAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.73, C:0.06, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAGAGCAAAAGA
Found at i:70136157 original size:14 final size:15
Alignment explanation
Indices: 70136126--70136168 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
70136116 TAGAAAAGAC
*
70136126 AAAAGAAAAAGAGCG
1 AAAAGAAAAAGAACG
*
70136141 -AAAGAAAAAGAATG
1 AAAAGAAAAAGAACG
70136155 AAAAGGAAAAAGAA
1 AAAA-GAAAAAGAA
70136169 AAAAAGTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.50
15 3 0.12
16 9 0.38
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAGAACG
Found at i:70138299 original size:64 final size:64
Alignment explanation
Indices: 70138133--70138305 Score: 179
Period size: 68 Copynumber: 2.6 Consensus size: 64
70138123 TGGATGATAC
* * * *
70138133 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACA
1 AGATA-TATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCACACCATGTGTACAAGAGAGCTAC-
70138198 AG
63 AG
* * * *
70138200 ACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCGCATGTGTG-TACTAAGTGCACACCATGT-GTACAAGAGAGCTA
70138264 C-G
62 CAG
*
70138266 GGATATATGTAGCTAGGTCGCATGTGTAGTACTAAGTGCA
1 AGATATATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCA
70138306 GGCTACTATG
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
64 29 0.33
65 4 0.05
66 2 0.02
67 4 0.05
68 48 0.55
69 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCGCATGTGTGTACTAAGTGCACACCATGTGTACAAGAGAGCTACAG
Found at i:70143744 original size:50 final size:49
Alignment explanation
Indices: 70143623--70143798 Score: 190
Period size: 50 Copynumber: 3.5 Consensus size: 49
70143613 TGAGGTCGCA
*** * * *
70143623 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACAA-TT-GGTCACG
* * ***
70143674 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACAATT-GGTCACG
* * * *
70143724 TGTGTACTGCTAAGTGCAGGCTACTACATGTACCGGACAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACAATTGGTCACG
70143773 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
70143799 TGCGTACCAG
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 30 0.28
50 42 0.40
51 34 0.32
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACAATTGGTCACG
Found at i:70146528 original size:15 final size:16
Alignment explanation
Indices: 70146510--70146543 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
70146500 TCTCGTATCA
70146510 TGGATTTCTTTATT-T
1 TGGATTTCTTTATTCT
70146525 TGGATTTCTTTATTCT
1 TGGATTTCTTTATTCT
70146541 TGG
1 TGG
70146544 CTTCTCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.62
Consensus pattern (16 bp):
TGGATTTCTTTATTCT
Found at i:70149443 original size:49 final size:50
Alignment explanation
Indices: 70149310--70149505 Score: 225
Period size: 49 Copynumber: 3.9 Consensus size: 50
70149300 ATCTATTGTG
* * * *
70149310 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
70149361 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
70149411 AGGTCACAT-TGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
** * * *
70149460 -GGTTGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
70149506 GCTTTGGCTA
Statistics
Matches: 121, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
48 6 0.05
49 69 0.57
50 8 0.07
51 38 0.31
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:70151483 original size:21 final size:21
Alignment explanation
Indices: 70151459--70151498 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
70151449 CAAGACTGGA
70151459 GAAACATCCTAGAATTTTCTT
1 GAAACATCCTAGAATTTTCTT
* *
70151480 GAAACGTTCTAGAATTTTC
1 GAAACATCCTAGAATTTTC
70151499 AGCACATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
GAAACATCCTAGAATTTTCTT
Found at i:70154512 original size:14 final size:14
Alignment explanation
Indices: 70154475--70154511 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
70154465 ATACAAGTTT
70154475 GAAAAAAAAATTCC
1 GAAAAAAAAATTCC
70154489 GAAAAAAAAATT-C
1 GAAAAAAAAATTCC
70154502 GAAAAAAAAA
1 GAAAAAAAAA
70154512 AGTGATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.73, C:0.08, G:0.08, T:0.11
Consensus pattern (14 bp):
GAAAAAAAAATTCC
Found at i:70162771 original size:30 final size:30
Alignment explanation
Indices: 70162685--70162782 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
70162675 TTAAACTAAA
* *
70162685 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
70162715 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
70162745 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
70162775 ATGAGCTA
1 ATGAGCTA
70162783 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:70164387 original size:14 final size:14
Alignment explanation
Indices: 70164368--70164416 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
70164358 CAATCCATTG
70164368 AAAGAGAAAAAGAA
1 AAAGAGAAAAAGAA
* *
70164382 AAAGAGCAAAATAA
1 AAAGAGAAAAAGAA
70164396 AAAGA-ATGAAAAGAA
1 AAAGAGA--AAAAGAA
70164411 AAAGAG
1 AAAGAG
70164417 TGAAAAAGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.04
Consensus pattern (14 bp):
AAAGAGAAAAAGAA
Found at i:70164407 original size:15 final size:15
Alignment explanation
Indices: 70164375--70164422 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
70164365 TTGAAAGAGA
70164375 AAAAGAAAAAG-A-G
1 AAAAGAAAAAGAATG
*
70164388 CAAAATAAAAAGAATG
1 -AAAAGAAAAAGAATG
*
70164404 AAAAGAAAAAGAGTG
1 AAAAGAAAAAGAATG
70164419 AAAA
1 AAAA
70164423 AGTGAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 10 0.34
15 18 0.62
16 1 0.03
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (15 bp):
AAAAGAAAAAGAATG
Found at i:70166064 original size:10 final size:10
Alignment explanation
Indices: 70166049--70166075 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
70166039 TACTCCTTCA
70166049 AGCTCAAATC
1 AGCTCAAATC
70166059 AGCTCAAATC
1 AGCTCAAATC
70166069 AGCTCAA
1 AGCTCAA
70166076 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:70172895 original size:10 final size:10
Alignment explanation
Indices: 70172880--70172906 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
70172870 TACTCCTTCA
70172880 AGCTCAAATC
1 AGCTCAAATC
70172890 AGCTCAAATC
1 AGCTCAAATC
70172900 AGCTCAA
1 AGCTCAA
70172907 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:70178333 original size:71 final size:71
Alignment explanation
Indices: 70178249--70178412 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
70178239 CGATTTGTCT
70178249 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
70178314 CTTTCA
66 CTTTCA
70178320 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
70178385 CTTTCA
66 CTTTCA
70178391 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
70178413 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:70178450 original size:71 final size:70
Alignment explanation
Indices: 70178249--70178446 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
70178239 CGATTTGTCT
* * * *
70178249 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
70178314 CTTTCA
65 CTTTCA
* * * *
70178320 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
70178385 CTTTCA
65 CTTTCA
* *
70178391 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
70178447 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:70185916 original size:71 final size:71
Alignment explanation
Indices: 70185832--70185995 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
70185822 CGATTTGTCT
70185832 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
70185897 CTTTCA
66 CTTTCA
70185903 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
70185968 CTTTCA
66 CTTTCA
70185974 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
70185996 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:70186033 original size:71 final size:70
Alignment explanation
Indices: 70185832--70186029 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
70185822 CGATTTGTCT
* * * *
70185832 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
70185897 CTTTCA
65 CTTTCA
* * * *
70185903 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
70185968 CTTTCA
65 CTTTCA
* *
70185974 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
70186030 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:70188511 original size:10 final size:10
Alignment explanation
Indices: 70188496--70188522 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
70188486 TACTCCTTCA
70188496 AGCTCAAATC
1 AGCTCAAATC
70188506 AGCTCAAATC
1 AGCTCAAATC
70188516 AGCTCAA
1 AGCTCAA
70188523 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:70195065 original size:10 final size:10
Alignment explanation
Indices: 70195050--70195076 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
70195040 TACTCCTTCA
70195050 AGCTCAAATC
1 AGCTCAAATC
70195060 AGCTCAAATC
1 AGCTCAAATC
70195070 AGCTCAA
1 AGCTCAA
70195077 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:70198214 original size:21 final size:20
Alignment explanation
Indices: 70198170--70198218 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
70198160 TCAGCTCCCA
* *
70198170 TCAGCTCACTTGAGCTCGAT
1 TCAGCTCGCTTGAGCTAGAT
*
70198190 TCAGCTCGTTTGAGCTAGAAT
1 TCAGCTCGCTTGAGCTAG-AT
70198211 TCAGCTCG
1 TCAGCTCG
70198219 ATCTAGCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (20 bp):
TCAGCTCGCTTGAGCTAGAT
Found at i:70199551 original size:18 final size:18
Alignment explanation
Indices: 70199528--70199570 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
70199518 AAAAAAAAGA
70199528 AAAAAAATATACGAAATT
1 AAAAAAATATACGAAATT
70199546 AAAAAAATATACGAAATT
1 AAAAAAATATACGAAATT
70199564 AAAAAAA
1 AAAAAAA
70199571 AAGTGTGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (18 bp):
AAAAAAATATACGAAATT
Found at i:70200496 original size:39 final size:37
Alignment explanation
Indices: 70200452--70200553 Score: 123
Period size: 39 Copynumber: 2.6 Consensus size: 37
70200442 AAATCAATTG
*
70200452 AAAGAAAATGAAAAAGAAAAGAATGAATGTAAAAAAAGA
1 AAAGAAAATGAAAAAGAAAAGAA-AAATG-AAAAAAAGA
*
70200491 AAAGAAAATGAAAAAGAAAAGAAAAATGAGAAAAAGA
1 AAAGAAAATGAAAAAGAAAAGAAAAATGAAAAAAAGA
** *
70200528 ATGCGAAAATAGCAAAAGAAAAGAAA
1 A-AAGAAAAT-GAAAAAGAAAAGAAA
70200554 GAACAAGAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
37 9 0.16
38 10 0.18
39 37 0.66
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.08
Consensus pattern (37 bp):
AAAGAAAATGAAAAAGAAAAGAAAAATGAAAAAAAGA
Found at i:70206964 original size:21 final size:20
Alignment explanation
Indices: 70206920--70206968 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
70206910 TCAGCTCCCA
* *
70206920 TCAGCTCACTTGAGCTCGAT
1 TCAGCTCGCTTGAGCTAGAT
*
70206940 TCAGCTCGTTTGAGCTAGAAT
1 TCAGCTCGCTTGAGCTAG-AT
70206961 TCAGCTCG
1 TCAGCTCG
70206969 ATCTAGTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (20 bp):
TCAGCTCGCTTGAGCTAGAT
Found at i:70210682 original size:30 final size:30
Alignment explanation
Indices: 70210598--70210693 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
70210588 TAAACTAAAA
* *
70210598 TGAGCTAAGCTTTAG-TCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
70210627 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
70210657 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
70210686 ATGAGCTA
1 -TGAGCTA
70210694 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
29 11 0.22
30 40 0.78
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:70212086 original size:30 final size:30
Alignment explanation
Indices: 70212001--70212097 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
70211991 TAAACTAAAA
* *
70212001 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
70212031 TGAGCTGAGGCTAAACTCTTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
70212061 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
70212090 ATGAGCTA
1 -TGAGCTA
70212098 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:70213627 original size:10 final size:10
Alignment explanation
Indices: 70213614--70213672 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
70213604 AGTTCCCATC
*
70213614 AGCTCACTTG
1 AGCTCATTTG
* *
70213624 AGCTCGTTTT
1 AGCTCATTTG
70213634 AGCTCATTTG
1 AGCTCATTTG
70213644 AGCTCGAATTT-
1 AGCTC--ATTTG
*
70213655 AGCTCATTTC
1 AGCTCATTTG
70213665 AGCTCATT
1 AGCTCATT
70213673 CCTTTTTCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
9 4 0.10
10 28 0.68
11 5 0.12
12 4 0.10
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (10 bp):
AGCTCATTTG
Found at i:70213657 original size:21 final size:20
Alignment explanation
Indices: 70213614--70213669 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
70213604 AGTTCCCATC
* *
70213614 AGCTCACTTGAGCTCGTTTT
1 AGCTCATTTGAGCTCGATTT
70213634 AGCTCATTTGAGCTCGAATTT
1 AGCTCATTTGAGCTCG-ATTT
*
70213655 AGCTCATTTCAGCTC
1 AGCTCATTTGAGCTC
70213670 ATTCCTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.38
Consensus pattern (20 bp):
AGCTCATTTGAGCTCGATTT
Found at i:70213912 original size:13 final size:13
Alignment explanation
Indices: 70213894--70213922 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
70213884 AATAGTTGTG
70213894 TGTTATTTAATTA
1 TGTTATTTAATTA
70213907 TGTTATTTAATTA
1 TGTTATTTAATTA
70213920 TGT
1 TGT
70213923 AGGTTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:70216054 original size:22 final size:22
Alignment explanation
Indices: 70216002--70216054 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
70215992 GTAAATCAGT
70216002 TGAGAAAAAAAGAAAAGAATGAA
1 TGAGAAAAAAAGAAAAGAA-GAA
*
70216025 TGTG-AAAAAAGAAAAGAA-AA
1 TGAGAAAAAAAGAAAAGAAGAA
70216045 TCGAGAAAAA
1 T-GAGAAAAA
70216055 GAATACAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 3 0.12
21 2 0.08
22 18 0.69
23 3 0.12
ACGTcount: A:0.68, C:0.02, G:0.21, T:0.09
Consensus pattern (22 bp):
TGAGAAAAAAAGAAAAGAAGAA
Found at i:70220098 original size:13 final size:13
Alignment explanation
Indices: 70220080--70220104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70220070 TAACCTACAA
70220080 AATTAAATAACAT
1 AATTAAATAACAT
70220093 AATTAAATAACA
1 AATTAAATAACA
70220105 CACAACTATT
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:70220376 original size:20 final size:21
Alignment explanation
Indices: 70220335--70220377 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
70220325 GAATAACCTG
* *
70220335 AAACGAGCTAAATTCTAGCTC
1 AAACGAGCTAAAATCGAGCTC
70220356 AAACGAGCTAAAAT-GAGCTC
1 AAACGAGCTAAAATCGAGCTC
70220376 AA
1 AA
70220378 GTGAGCTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (21 bp):
AAACGAGCTAAAATCGAGCTC
Found at i:70222122 original size:14 final size:14
Alignment explanation
Indices: 70222105--70222144 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
70222095 CGAATGGAAT
*
70222105 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
70222119 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
70222133 GATATGAACAAA
1 GGTAGGAACAAA
70222145 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:70224578 original size:10 final size:10
Alignment explanation
Indices: 70224565--70224615 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
70224555 AGCTCACTTG
70224565 AGCTCGTTTC
1 AGCTCGTTTC
* *
70224575 AGCTAGTTTG
1 AGCTCGTTTC
70224585 AGCAT-GATTTC
1 AGC-TCG-TTTC
70224596 AGCTCGTTTC
1 AGCTCGTTTC
*
70224606 AGCTCATTTC
1 AGCTCGTTTC
70224616 TTTTTCATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 26 0.76
11 8 0.24
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.39
Consensus pattern (10 bp):
AGCTCGTTTC
Found at i:70226552 original size:10 final size:10
Alignment explanation
Indices: 70226539--70226565 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
70226529 AACGAGCTCG
70226539 TTGAGCTGAT
1 TTGAGCTGAT
70226549 TTGAGCTGAT
1 TTGAGCTGAT
70226559 TTGAGCT
1 TTGAGCT
70226566 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:70232692 original size:30 final size:30
Alignment explanation
Indices: 70232658--70232754 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
70232648 AGCTCACTCC
70232658 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
70232688 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* *
70232718 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
70232748 TAGCTCA
1 TAGCTCA
70232755 TTTTAGTTTA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 1 0.02
30 54 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:70235938 original size:18 final size:18
Alignment explanation
Indices: 70235917--70235979 Score: 81
Period size: 18 Copynumber: 3.4 Consensus size: 18
70235907 ATACTCACTC
*
70235917 TCTTTTTCAATTTCCTTT
1 TCTTTTTCAATTTCTTTT
**
70235935 TCTTGATCAATTTCTTTT
1 TCTTTTTCAATTTCTTTT
*
70235953 TCTTTTTTAATTTTCTTTT
1 TCTTTTTCAA-TTTCTTTT
70235972 TCTTTTTC
1 TCTTTTTC
70235980 TCTCTTTCTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
18 22 0.59
19 15 0.41
ACGTcount: A:0.11, C:0.17, G:0.02, T:0.70
Consensus pattern (18 bp):
TCTTTTTCAATTTCTTTT
Found at i:70235971 original size:5 final size:6
Alignment explanation
Indices: 70235945--70235992 Score: 53
Period size: 6 Copynumber: 7.5 Consensus size: 6
70235935 TCTTGATCAA
70235945 TTTCTT TTTCTT TTT-TAAT TTTCTT TTTCTT TTTCTCT CTTTCTT TTT
1 TTTCTT TTTCTT TTTCT--T TTTCTT TTTCTT TTTCT-T -TTTCTT TTT
70235993 GCTCTCTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
5 1 0.03
6 24 0.65
7 6 0.16
8 6 0.16
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:70235997 original size:15 final size:14
Alignment explanation
Indices: 70235945--70236002 Score: 59
Period size: 13 Copynumber: 4.3 Consensus size: 14
70235935 TCTTGATCAA
*
70235945 TTTCTTTTTCT-TT
1 TTTCTTTTTCTCTC
**
70235958 TTTAATTTTCT-T-
1 TTTCTTTTTCTCTC
70235970 TTTCTTTTTCTCTC
1 TTTCTTTTTCTCTC
70235984 TTTCTTTTTGCTCTC
1 TTTCTTTTT-CTCTC
70235999 TTTC
1 TTTC
70236003 ACACTCTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
12 9 0.24
13 11 0.29
14 9 0.24
15 9 0.24
ACGTcount: A:0.03, C:0.21, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTCTTTTTCTCTC
Found at i:70236044 original size:33 final size:34
Alignment explanation
Indices: 70235971--70236044 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 34
70235961 AATTTTCTTT
*
70235971 TTCTTTTTCTCTCTTTCTTTTTGCTCTCTTTCACA
1 TTCTTTTTCTCTCTTTCTTTTT-CTCTCTTTCAAA
*
70236006 CTCTTTTTCT-TCCATTTCTTTTT-T-TCTTTCAAA
1 TTCTTTTTCTCT-C-TTTCTTTTTCTCTCTTTCAAA
70236039 TTCTTT
1 TTCTTT
70236045 CTCATTTGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
33 13 0.38
34 2 0.06
35 10 0.29
36 9 0.26
ACGTcount: A:0.08, C:0.26, G:0.01, T:0.65
Consensus pattern (34 bp):
TTCTTTTTCTCTCTTTCTTTTTCTCTCTTTCAAA
Found at i:70240014 original size:10 final size:10
Alignment explanation
Indices: 70239996--70240046 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
70239986 TAAAGGAAAA
*
70239996 GAAATGAGCT
1 GAAACGAGCT
70240006 GAAACGAGCT
1 GAAACGAGCT
*
70240016 AAAATCGAGCT
1 GAAA-CGAGCT
*
70240027 CAAACGAGCT
1 GAAACGAGCT
*
70240037 GAAATGAGCT
1 GAAACGAGCT
70240047 CAAAAGTGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
10 26 0.74
11 9 0.26
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (10 bp):
GAAACGAGCT
Found at i:70240025 original size:21 final size:20
Alignment explanation
Indices: 70239997--70240050 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 20
70239987 AAAGGAAAAG
*
70239997 AAATGAGCTGAAACGAGCTA
1 AAATGAGCTCAAACGAGCTA
*
70240017 AAATCGAGCTCAAACGAGCTG
1 AAAT-GAGCTCAAACGAGCTA
70240038 AAATGAGCTCAAA
1 AAATGAGCTCAAA
70240051 AGTGAGCTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (20 bp):
AAATGAGCTCAAACGAGCTA
Found at i:70240421 original size:10 final size:10
Alignment explanation
Indices: 70240405--70240439 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
70240395 AGCTGGAAGG
70240405 AAGCTAAAAC
1 AAGCTAAAAC
*
70240415 TAGCTAAAAC
1 AAGCTAAAAC
*
70240425 GAGCTAAAAC
1 AAGCTAAAAC
70240435 AAGCT
1 AAGCT
70240440 CAAGTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.51, C:0.20, G:0.14, T:0.14
Consensus pattern (10 bp):
AAGCTAAAAC
Found at i:70240644 original size:391 final size:391
Alignment explanation
Indices: 70239917--70240645 Score: 909
Period size: 391 Copynumber: 1.9 Consensus size: 391
70239907 AGTGAGCTAA
* * * * *
70239917 ATTGAGCTAGGGAATTCAGCATGAGCTGTAGCAAATTAGATTGAAACAAATTTTAAACTTAGTTT
1 ATTGAGCTAAGGAATTCAGCATGAGCTGTAGCAAATTAGACTAAAACAAAGTTAAAACTTAGTTT
* * * * * **
70239982 ATTGTAAAGGAAAAGAAATGAGCTGAAACGAGCTAAAATCGAGCTCAAACGAGCTGAAATGAGCT
66 ATTGAAAAAGAAAAGAAACGAGCTGAAACGAGCTAAAATCGAGCTAAAACGAGCTAAAACAAGCT
70240047 CAAAAGTGAGCTGATTGGAGCTGAATTGAGTTGGGGGACCTGGAAAGGAGCTAAAGTCGGCTTGC
131 C-AAAGTGAGCTGATTGGAGCTGAATTGAGTTGGGGGACCTGGAAAGGAGCTAAAGTCGGCTTGC
* * * *
70240112 AAAAGAGTGCATTGGGTCTTCAAAAGAGTGTCCATAGCTTCTCCAACGTCTAGGGCCTTGTTCTC
195 AAAAAAGTGCATTGAGTCTTCAAAAGAGTGTCCACAGCTTCTCCAACGTCAAGGGCCTTGTTCTC
* * * * ** ***
70240177 TTCCAAAATGCGCATCACCAAGGCTGATAAAGTGTCTTGAAATTGCTTGGTTTGAGCTCGAGTCA
260 ATCCAAAATGCGCAACAACAAAGCTGATAAAGTGTCTTGAAATCACTTGGTACAAGCTCGAGTCA
*
70240242 TGGGGCCTTTTGGAAGTTTTATTAGTTCTTGATTTGCATTCGACGATGCCCCAGGCATGCTTACA
325 TGGGACCTTTTGGAAGTTTTATTAGTTCTTGATTTGCATTCGACGATGCCCCAGGCATGCTTACA
70240307 TC
390 TC
** *
70240309 ATTGAGCTAAGGAATTTGGCATGAGCTGTAGCAAATTATG-CTAAAACAAAGTTAAAACTTATTT
1 ATTGAGCTAAGGAATTCAGCATGAGCTGTAGCAAATTA-GACTAAAACAAAGTTAAAACTTAGTT
* * *
70240373 TATT-AAAATAGAATAAGAAACGAGCTGGAAGGAAGCTAAAA-CTAGCTAAAACGAGCTAAAACA
65 TATTGAAAA-AGAA-AAGAAACGAGCTGAAACG-AGCTAAAATCGAGCTAAAACGAGCTAAAACA
* * * * * *
70240436 AGCTC-AAGTGAGCT-AGTTGGAGTTGAGTTGAGTTGGGGGAGCTGGAGAGGAGCTGAAGTCGGT
127 AGCTCAAAGTGAGCTGA-TTGGAGCTGAATTGAGTTGGGGGACCTGGAAAGGAGCTAAAGTCGGC
* *
70240499 TTGCAAAAAAGTGCATTGAGTCTTC-AAAGAGATGTCCACAGCTTTTCCAACGTCAAGGGCTGTT
191 TTGCAAAAAAGTGCATTGAGTCTTCAAAAGAG-TGTCCACAGCTTCTCCAACGTCAAGGGC-CTT
* * * *
70240563 GTT-TCATCCCAAATTCG-AGACAACAAAGCTGTTAAAGCT-TCTTGAAGTCACTTGGTACAAGC
254 GTTCTCATCCAAAATGCGCA-ACAACAAAGCTGATAAAG-TGTCTTGAAATCACTTGGTACAAGC
70240625 TCGAGTCATGGGACCTTTTGG
317 TCGAGTCATGGGACCTTTTGG
70240646 CAGCTTGATA
Statistics
Matches: 284, Mismatches: 44, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
390 8 0.03
391 163 0.57
392 67 0.24
393 38 0.13
394 8 0.03
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (391 bp):
ATTGAGCTAAGGAATTCAGCATGAGCTGTAGCAAATTAGACTAAAACAAAGTTAAAACTTAGTTT
ATTGAAAAAGAAAAGAAACGAGCTGAAACGAGCTAAAATCGAGCTAAAACGAGCTAAAACAAGCT
CAAAGTGAGCTGATTGGAGCTGAATTGAGTTGGGGGACCTGGAAAGGAGCTAAAGTCGGCTTGCA
AAAAAGTGCATTGAGTCTTCAAAAGAGTGTCCACAGCTTCTCCAACGTCAAGGGCCTTGTTCTCA
TCCAAAATGCGCAACAACAAAGCTGATAAAGTGTCTTGAAATCACTTGGTACAAGCTCGAGTCAT
GGGACCTTTTGGAAGTTTTATTAGTTCTTGATTTGCATTCGACGATGCCCCAGGCATGCTTACAT
C
Found at i:70243234 original size:30 final size:31
Alignment explanation
Indices: 70243200--70243296 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
70243190 AGCTCACTCC
*
70243200 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
70243230 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
70243260 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
70243290 TAGCTCA
1 TAGCTCA
70243297 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:70245875 original size:13 final size:14
Alignment explanation
Indices: 70245851--70245882 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
70245841 TCGAGATTGC
70245851 AATTCAGTAAAAAA
1 AATTCAGTAAAAAA
70245865 AATTC-GT-AAAAA
1 AATTCAGTAAAAAA
70245877 AATTCA
1 AATTCA
70245883 AAAAAATCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.59
13 2 0.12
14 5 0.29
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.25
Consensus pattern (14 bp):
AATTCAGTAAAAAA
Found at i:70250147 original size:17 final size:18
Alignment explanation
Indices: 70250120--70250156 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
70250110 TTGAAGTGAT
*
70250120 TGGATAGGTTTGAATAAG
1 TGGATAGGTTTCAATAAG
70250138 TGGA-AGGTTTCAATAAG
1 TGGATAGGTTTCAATAAG
70250155 TG
1 TG
70250157 TAAGAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.32
Consensus pattern (18 bp):
TGGATAGGTTTCAATAAG
Found at i:70253161 original size:30 final size:31
Alignment explanation
Indices: 70253104--70253163 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
70253094 TTGAAATAAA
*
70253104 AAACGAGCTGAAAGTAAGCTCAGTTGAGCTC
1 AAACGAGCTCAAAGTAAGCTCAGTTGAGCTC
* *
70253135 AAACGAGCTCAAA-TGAGCTGAGTTGAGCT
1 AAACGAGCTCAAAGTAAGCTCAGTTGAGCT
70253164 GGACAGAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (31 bp):
AAACGAGCTCAAAGTAAGCTCAGTTGAGCTC
Found at i:70262791 original size:11 final size:13
Alignment explanation
Indices: 70262775--70262806 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
70262765 TAAATCACTT
70262775 TTTTTTTTC-G-A
1 TTTTTTTTCGGAA
70262786 TTTTTTTTCGGAA
1 TTTTTTTTCGGAA
70262799 TTTTTTTT
1 TTTTTTTT
70262807 TTCAAACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.47
12 1 0.05
13 9 0.47
ACGTcount: A:0.09, C:0.06, G:0.09, T:0.75
Consensus pattern (13 bp):
TTTTTTTTCGGAA
Found at i:70272068 original size:11 final size:12
Alignment explanation
Indices: 70272052--70272082 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
70272042 TAAATCACTT
70272052 TTTTTTTTCG-A
1 TTTTTTTTCGAA
70272063 TTTTTTTTCGAA
1 TTTTTTTTCGAA
70272075 TTTTTTTT
1 TTTTTTTT
70272083 TCAAACTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.77
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:70274317 original size:11 final size:11
Alignment explanation
Indices: 70274288--70274317 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
70274278 GTATATAAGA
70274288 AAAAAAAATTC
1 AAAAAAAATTC
*
70274299 GAAAAAAATTC
1 AAAAAAAATTC
70274310 AAAAAAAA
1 AAAAAAAA
70274318 AGAGAGGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:70276451 original size:12 final size:12
Alignment explanation
Indices: 70276432--70276465 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
70276422 AGAAAGAAAA
70276432 GAGTGAAAAGGT
1 GAGTGAAAAGGT
* *
70276444 GTGTGAAAAAGT
1 GAGTGAAAAGGT
70276456 GAGTGAAAAG
1 GAGTGAAAAG
70276466 AAACGAGGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.38, T:0.18
Consensus pattern (12 bp):
GAGTGAAAAGGT
Found at i:70277912 original size:358 final size:358
Alignment explanation
Indices: 70277289--70278004 Score: 1378
Period size: 358 Copynumber: 2.0 Consensus size: 358
70277279 GGAAATTCTA
*
70277289 GGATGCTTCCTCAAGCCTTAAGAACGTATTTGGATAGCTTCCAAGGTGTCTTCATGCAGCTGGTT
1 GGATGCTTCCTCAAGCCTTAAGAACGTATTTGGACAGCTTCCAAGGTGTCTTCATGCAGCTGGTT
*
70277354 TCATTTAAAATAAAGGTGAGCTAATCAGCCACCTAGAAAGCTGAATGGTCACTTTGTAATTCAAC
66 TCATTTAAAATAAAGGTGAGCTAATCAGCCACCTAGAAAGCCGAATGGTCACTTTGTAATTCAAC
70277419 TAGAAGAGTTGAGAATTTTCTTAGAAGTTTCCTCATCAGCTGGAGAATTAAATGAGCTGAAAAAT
131 TAGAAGAGTTGAGAATTTTCTTAGAAGTTTCCTCATCAGCTGGAGAATTAAATGAGCTGAAAAAT
70277484 CTTGTAATATTCGGCCAAAGAGAGTGCATGATATTAAATATATTGCTTTGACCAGCTGGATAGGC
196 CTTGTAATATTCGGCCAAAGAGAGTGCATGATATTAAATATATTGCTTTGACCAGCTGGATAGGC
*
70277549 TTGGGCAGCTTAAATGCTCCTTGAGGACGCTAATGGACAATAGATATAGAAGCTGAATGTGAGCA
261 TTGGGCAGCTTAAATGCTCCTTGAGGACGCCAATGGACAATAGATATAGAAGCTGAATGTGAGCA
70277614 GCTGAATGGGATTAATTATAATCAGCCATGGCC
326 GCTGAATGGGATTAATTATAATCAGCCATGGCC
*
70277647 GGATGCTTCCTCCAGCCTTAAGAACGTATTTGGACAGCTTCCAAGGTGTCTTCATGCAGCTGGTT
1 GGATGCTTCCTCAAGCCTTAAGAACGTATTTGGACAGCTTCCAAGGTGTCTTCATGCAGCTGGTT
70277712 TCATTTAAAATAAAGGTGAGCTAATCAGCCACCTAGAAAGCCGAATGGTCACTTTGTAATTCAAC
66 TCATTTAAAATAAAGGTGAGCTAATCAGCCACCTAGAAAGCCGAATGGTCACTTTGTAATTCAAC
70277777 TAGAAGAGTTGAGAATTTTCTTAGAAGTTTCCTCATCAGCTGGAGAATTAAATGAGCTGAAAAAT
131 TAGAAGAGTTGAGAATTTTCTTAGAAGTTTCCTCATCAGCTGGAGAATTAAATGAGCTGAAAAAT
*
70277842 CTTGTAATATTTGGCCAAAGAGAGTGCATGATATTAAATATATTGCTTTGACCAGCTGGATAGGC
196 CTTGTAATATTCGGCCAAAGAGAGTGCATGATATTAAATATATTGCTTTGACCAGCTGGATAGGC
70277907 TTGGGCAGCTTAAATGCTCCTTGAGGACGCCAATGGACAATAGATATAGAAGCTGAATGTGAGCA
261 TTGGGCAGCTTAAATGCTCCTTGAGGACGCCAATGGACAATAGATATAGAAGCTGAATGTGAGCA
*
70277972 GCTGAATGGGATTAATTTTAATCAGCCATGGCC
326 GCTGAATGGGATTAATTATAATCAGCCATGGCC
70278005 CTTGTTATTC
Statistics
Matches: 352, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
358 352 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (358 bp):
GGATGCTTCCTCAAGCCTTAAGAACGTATTTGGACAGCTTCCAAGGTGTCTTCATGCAGCTGGTT
TCATTTAAAATAAAGGTGAGCTAATCAGCCACCTAGAAAGCCGAATGGTCACTTTGTAATTCAAC
TAGAAGAGTTGAGAATTTTCTTAGAAGTTTCCTCATCAGCTGGAGAATTAAATGAGCTGAAAAAT
CTTGTAATATTCGGCCAAAGAGAGTGCATGATATTAAATATATTGCTTTGACCAGCTGGATAGGC
TTGGGCAGCTTAAATGCTCCTTGAGGACGCCAATGGACAATAGATATAGAAGCTGAATGTGAGCA
GCTGAATGGGATTAATTATAATCAGCCATGGCC
Found at i:70280706 original size:14 final size:14
Alignment explanation
Indices: 70280659--70280706 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
70280649 GTACGAATGG
*
70280659 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
70280673 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
70280687 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
70280701 ATTGGT
1 AATGGT
70280707 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:70283907 original size:19 final size:18
Alignment explanation
Indices: 70283883--70283921 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
70283873 AGCTCCCATG
70283883 TAGCTCCACACCAGCTCAT
1 TAGCT-CACACCAGCTCAT
**
70283902 TAGCTCGGACCAGCTCAT
1 TAGCTCACACCAGCTCAT
70283920 TA
1 TA
70283922 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (18 bp):
TAGCTCACACCAGCTCAT
Found at i:70285185 original size:14 final size:14
Alignment explanation
Indices: 70285163--70285210 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
70285153 ACCTAAACCG
* *
70285163 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
70285177 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
70285191 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
70285205 ACCATT
1 ACCATT
70285211 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:70285804 original size:19 final size:19
Alignment explanation
Indices: 70285780--70285819 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
70285770 AGCTCCCATG
70285780 TAGCTC-CACACCAGCTCAT
1 TAGCTCGCA-ACCAGCTCAT
*
70285799 TAGCTCGGAACCAGCTCAT
1 TAGCTCGCAACCAGCTCAT
70285818 TA
1 TA
70285820 TCAGCTCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCGCAACCAGCTCAT
Found at i:70287085 original size:14 final size:14
Alignment explanation
Indices: 70287066--70287105 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
70287056 AAACGACCAA
* *
70287066 TTTGTTCGTACCGT
1 TTTGTTCCTACCCT
70287080 TTTGTTCCTACCCT
1 TTTGTTCCTACCCT
*
70287094 TTCGTTCCTACC
1 TTTGTTCCTACC
70287106 ATTCCATTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.07, C:0.33, G:0.12, T:0.47
Consensus pattern (14 bp):
TTTGTTCCTACCCT
Found at i:70287817 original size:12 final size:13
Alignment explanation
Indices: 70287800--70287843 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
70287790 CATTAAACAC
*
70287800 TTTTTTTTCAGAT
1 TTTTTTTTCAAAT
70287813 TTTTTTTTCAAAT
1 TTTTTTTTCAAAT
*
70287826 TTTTTTTT-GAAT
1 TTTTTTTTCAAAT
70287838 TTTTTT
1 TTTTTT
70287844 GACTTGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (13 bp):
TTTTTTTTCAAAT
Found at i:70289544 original size:30 final size:30
Alignment explanation
Indices: 70289510--70289606 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
70289500 TAAACTAAAA
70289510 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
70289540 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
70289570 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
70289600 TGAGCTA
1 TGAGCTA
70289607 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:70291574 original size:30 final size:30
Alignment explanation
Indices: 70291540--70291636 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
70291530 TAAACTAAAA
* *
70291540 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * *
70291570 TGAGCTGAGATTAAACTCCTAAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* *
70291600 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGATTTAGCTCGTGAGCT-AAAGT
70291630 TGAGCTA
1 TGAGCTA
70291637 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
30 48 0.92
31 4 0.08
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:70299589 original size:14 final size:14
Alignment explanation
Indices: 70299572--70299611 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
70299562 CGAATGGAAT
*
70299572 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
70299586 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
70299600 GATATGAACAAA
1 GGTAGGAACAAA
70299612 TTGGTCTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:70305030 original size:6 final size:6
Alignment explanation
Indices: 70305019--70305054 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
70305009 TGAAATGCTG
70305019 ATAAAA AT-AAA AT-AAA ATAAAA ATAAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT
70305055 TCAATTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:70305035 original size:11 final size:11
Alignment explanation
Indices: 70305019--70305052 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
70305009 TGAAATGCTG
70305019 ATAAAAATAAA
1 ATAAAAATAAA
70305030 AT-AAAATAAAA
1 ATAAAAAT-AAA
70305041 ATAAAAATAAA
1 ATAAAAATAAA
70305052 A
1 A
70305053 ATTCAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 5 0.24
11 11 0.52
12 5 0.24
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:70305776 original size:14 final size:14
Alignment explanation
Indices: 70305757--70305795 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
70305747 GAATGGAATT
*
70305757 GTAGGAACGAAAGG
1 GTAGGAACAAAAGG
70305771 GTAGGAACAAAAGG
1 GTAGGAACAAAAGG
* *
70305785 ATATGAACAAA
1 GTAGGAACAAA
70305796 TTGGTCGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.08, G:0.31, T:0.10
Consensus pattern (14 bp):
GTAGGAACAAAAGG
Found at i:70309055 original size:13 final size:12
Alignment explanation
Indices: 70309037--70309070 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
70309027 ATACAAGTCT
70309037 AAAAAAAATTCG
1 AAAAAAAATTCG
*
70309049 AAAAAAAATTTG
1 AAAAAAAATTCG
70309061 AAAAAAAATT
1 AAAAAAAATT
70309071 GAAGTGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.21
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:70312959 original size:46 final size:46
Alignment explanation
Indices: 70312909--70313081 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
70312899 TGGTTGAGCA
*
70312909 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
70312955 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
70313002 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
70313048 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
70313082 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:70313065 original size:93 final size:93
Alignment explanation
Indices: 70312906--70313076 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
70312896 GGATGGTTGA
* *
70312906 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
70312971 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
70312999 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
70313064 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
70313077 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:70313343 original size:19 final size:20
Alignment explanation
Indices: 70313306--70313343 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
70313296 ATAAGGTGGT
70313306 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
70313326 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
70313344 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:70315662 original size:30 final size:30
Alignment explanation
Indices: 70315567--70315663 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
70315557 AGCTCACTCC
* * *
70315567 TAGCTC-ACTTTCAACTTACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTTACGAGCTAAAGCA
* * ** *
70315597 TAGCTCAACTTCAGCTTAGGAG-TTTAGCC
1 TAGCTCAACTTTAGCTTACGAGCTAAAGCA
*
70315626 TCAGCTCAACTTTAGCTCACGAGCTAAAGCA
1 T-AGCTCAACTTTAGCTTACGAGCTAAAGCA
70315657 TAGCTCA
1 TAGCTCA
70315664 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 4 0.08
30 38 0.75
31 9 0.18
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTTACGAGCTAAAGCA
Found at i:70317812 original size:19 final size:19
Alignment explanation
Indices: 70317788--70317827 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
70317778 AGCTCCCATG
70317788 TAGCTC-CACACCAGCTCAT
1 TAGCTCGCA-ACCAGCTCAT
*
70317807 TAGCTCGGAACCAGCTCAT
1 TAGCTCGCAACCAGCTCAT
70317826 TA
1 TA
70317828 TCAGCTCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCGCAACCAGCTCAT
Found at i:70319090 original size:14 final size:14
Alignment explanation
Indices: 70319068--70319112 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
70319058 ACCTAAACCG
* *
70319068 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
70319082 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
70319096 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
70319110 ACC
1 ACC
70319113 CCTCTTTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.18, C:0.33, G:0.07, T:0.42
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:70322219 original size:30 final size:30
Alignment explanation
Indices: 70322134--70322230 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
70322124 TAAACTTAAA
* *
70322134 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
70322164 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* *
70322194 TGAGCTAAGGTTTAGCTAGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
70322223 ATGAGCTA
1 -TGAGCTA
70322231 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:70323808 original size:14 final size:14
Alignment explanation
Indices: 70323791--70323830 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
70323781 CGAATGGAAT
*
70323791 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
70323805 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
70323819 GATATGAACAAA
1 GGTAGGAACAAA
70323831 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:70324104 original size:171 final size:171
Alignment explanation
Indices: 70323819--70324169 Score: 677
Period size: 171 Copynumber: 2.1 Consensus size: 171
70323809 GGAACAAAAG
70323819 GATATGAACAAATTGGTCGGTTTAGGTTCGACTAAGTAAAGAAGAGAACGGGTTTGGAACTACTA
1 GATATGAACAAATTGGTCGGTTTAGGTTCGACTAAGTAAAGAAGAGAACGGGTTTGGAACTACTA
70323884 AAGGTACTTTCAAGAACCAATACTGAAATGGTATCGACCCGTTGATTAAGCTTTTTGAGTTC-AG
66 AAGGTACTTTCAAGAACCAATACTGAAATGGTATCGACCCGTTGATTAAGCTTTTTGAGTTCGA-
70323948 TTATAGGTTTGGTAAAGGAAACCTCGACCCACTATCTAACAA
130 TTATAGGTTTGGTAAAGGAAACCTCGACCCACTATCTAACAA
70323990 GATATGAACAAATTGGTCGGTTTAGGTTCGACTAAGTAAAGAAGAGAACGGGTTTGGAACTACTA
1 GATATGAACAAATTGGTCGGTTTAGGTTCGACTAAGTAAAGAAGAGAACGGGTTTGGAACTACTA
70324055 AAGGTACTTTCAAGAACCAATACTGAAATGGTATCGACCCGTTGATTAAGCTTTTTGAGTTCGAT
66 AAGGTACTTTCAAGAACCAATACTGAAATGGTATCGACCCGTTGATTAAGCTTTTTGAGTTCGAT
70324120 TATAGGTTTGGTAAAGGAAACCTCGACCCACTATCTAACAA
131 TATAGGTTTGGTAAAGGAAACCTCGACCCACTATCTAACAA
*
70324161 GATAGGAAC
1 GATATGAAC
70324170 CTCGGTATGT
Statistics
Matches: 178, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
171 177 0.99
172 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (171 bp):
GATATGAACAAATTGGTCGGTTTAGGTTCGACTAAGTAAAGAAGAGAACGGGTTTGGAACTACTA
AAGGTACTTTCAAGAACCAATACTGAAATGGTATCGACCCGTTGATTAAGCTTTTTGAGTTCGAT
TATAGGTTTGGTAAAGGAAACCTCGACCCACTATCTAACAA
Found at i:70327882 original size:15 final size:14
Alignment explanation
Indices: 70327858--70327897 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
70327848 TTTTCCACTA
*
70327858 TTTTTCTTTTCGTTC
1 TTTTTCTTTT-GCTC
*
70327873 TTTTTATTTTGCTC
1 TTTTTCTTTTGCTC
70327887 TTTTTCTTTTG
1 TTTTTCTTTTG
70327898 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.03, C:0.15, G:0.07, T:0.75
Consensus pattern (14 bp):
TTTTTCTTTTGCTC
Found at i:70334435 original size:21 final size:21
Alignment explanation
Indices: 70334411--70334478 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
70334401 GATTTTGAAT
70334411 GAAATCGAGAGAAGAAACAAA
1 GAAATCGAGAGAAGAAACAAA
***** *
70334432 GAAAAT-GAGAGAATCTTGAAT
1 G-AAATCGAGAGAAGAAACAAA
*
70334453 GAAATCGAGAAAAGAAACAAA
1 GAAATCGAGAGAAGAAACAAA
70334474 GAAAT
1 GAAAT
70334479 GAAAGAAAAA
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.59, C:0.07, G:0.22, T:0.12
Consensus pattern (21 bp):
GAAATCGAGAGAAGAAACAAA
Found at i:70334451 original size:42 final size:42
Alignment explanation
Indices: 70334389--70334485 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
70334379 AGATTATGAG
* * *
70334389 AGAAAATGAGAGGATTTTGAATGAAATCGAGAGAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
70334431 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
*
70334473 AG-AAATGAAAGAA
1 AGAAAATGAGAGAA
70334486 AAAGAAAAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 10 0.20
42 41 0.80
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (42 bp):
AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
Found at i:70334512 original size:18 final size:18
Alignment explanation
Indices: 70334489--70334538 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
70334479 GAAAGAAAAA
*
70334489 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGAATGAGAGT
* *
70334507 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
70334525 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
70334539 AAAAGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:70334515 original size:24 final size:24
Alignment explanation
Indices: 70334482--70334563 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
70334472 AAGAAATGAA
70334482 AGAAAAAGAAAAAGAGATTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
* * * *
70334506 TGAAAAAGAAAATGAGATTGAAAA
1 AGAAAAAGAAAAAGAGATTGAGAG
* * *
70334530 AGAGAATGAAAAAGAGTTTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
70334554 AGAAAAAGAA
1 AGAAAAAGAA
70334564 TGTGAACAAG
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.12
Consensus pattern (24 bp):
AGAAAAAGAAAAAGAGATTGAGAG
Found at i:70336401 original size:30 final size:30
Alignment explanation
Indices: 70336365--70336431 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
70336355 TAAACTAAAA
* **
70336365 TGAGCTAAGCTTTAGCTCGTGAGCTGAATT
1 TGAGCTAAGCTTTAGCTCATGAGCTGAAAG
* *
70336395 TGAGCTAAGGTTTAGCTCATGAGTTGAAAG
1 TGAGCTAAGCTTTAGCTCATGAGCTGAAAG
70336425 TGAGCTA
1 TGAGCTA
70336432 GGAGTGAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCATGAGCTGAAAG
Found at i:70339966 original size:18 final size:17
Alignment explanation
Indices: 70339940--70339978 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
70339930 CATTAAACAC
70339940 TTTTTTTTTC-AGATTTT
1 TTTTTTTTTCGA-ATTTT
70339957 TTTTTCTTTTCGAATTTT
1 TTTTT-TTTTCGAATTTT
70339975 TTTT
1 TTTT
70339979 GAAATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 14 0.70
19 1 0.05
ACGTcount: A:0.10, C:0.08, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTCGAATTTT
Found at i:70339974 original size:17 final size:17
Alignment explanation
Indices: 70339940--70339978 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
70339930 CATTAAACAC
*
70339940 TTTTTTTTTCAGATTTT
1 TTTTTTTTTCAGAATTT
70339957 TTTTTCTTTTC-GAATTT
1 TTTTT-TTTTCAGAATTT
70339974 TTTTT
1 TTTTT
70339979 GAAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.10, C:0.08, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTCAGAATTT
Found at i:70339977 original size:11 final size:11
Alignment explanation
Indices: 70339958--70340010 Score: 79
Period size: 11 Copynumber: 4.6 Consensus size: 11
70339948 TCAGATTTTT
70339958 TTTTCTTTTCGAA
1 TTTT-TTTT-GAA
70339971 TTTTTTTTGAA
1 TTTTTTTTGAA
*
70339982 ATTTTTTTGAA
1 TTTTTTTTGAA
70339993 TTTTTTTTGAA
1 TTTTTTTTGAA
70340004 TTTTTTT
1 TTTTTTT
70340011 GTACTATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 30 0.79
12 4 0.11
13 4 0.11
ACGTcount: A:0.17, C:0.04, G:0.08, T:0.72
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:70341721 original size:30 final size:30
Alignment explanation
Indices: 70341687--70341783 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
70341677 TAAACTAAAA
70341687 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
70341717 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
70341747 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
70341777 TGAGCTA
1 TGAGCTA
70341784 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:70355697 original size:10 final size:10
Alignment explanation
Indices: 70355682--70355708 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
70355672 TACTCCTTCA
70355682 AGCTCAAATC
1 AGCTCAAATC
70355692 AGCTCAAATC
1 AGCTCAAATC
70355702 AGCTCAA
1 AGCTCAA
70355709 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:70356651 original size:10 final size:10
Alignment explanation
Indices: 70356638--70356673 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
70356628 AGCTCAAATC
70356638 AGCTCGCTTG
1 AGCTCGCTTG
* *
70356648 AGCTCGATTC
1 AGCTCGCTTG
70356658 AGCTCGCTTG
1 AGCTCGCTTG
70356668 AGCTCG
1 AGCTCG
70356674 AATTTAGCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.14, C:0.31, G:0.28, T:0.28
Consensus pattern (10 bp):
AGCTCGCTTG
Found at i:70356659 original size:20 final size:21
Alignment explanation
Indices: 70356628--70356684 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
70356618 TGCGCCATTC
*
70356628 AGCTC-AAATCAGCTCGCTTG
1 AGCTCGAATTCAGCTCGCTTG
70356648 AGCTCG-ATTCAGCTCGCTTG
1 AGCTCGAATTCAGCTCGCTTG
*
70356668 AGCTCGAATTTAGCTCG
1 AGCTCGAATTCAGCTCG
70356685 TTTCAGTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 24 0.73
21 9 0.27
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (21 bp):
AGCTCGAATTCAGCTCGCTTG
Found at i:70360183 original size:30 final size:30
Alignment explanation
Indices: 70360149--70360245 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
70360139 TAAACTAAAA
70360149 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
70360179 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
70360209 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
70360239 TGAGCTA
1 TGAGCTA
70360246 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:70360251 original size:11 final size:11
Alignment explanation
Indices: 70360237--70360266 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
70360227 GTGAGTTGAA
70360237 AGTGAGCTAGG
1 AGTGAGCTAGG
70360248 AGTGAGCTAGG
1 AGTGAGCTAGG
70360259 AGTGAGCT
1 AGTGAGCT
70360267 CGGTTTAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.10, G:0.43, T:0.20
Consensus pattern (11 bp):
AGTGAGCTAGG
Found at i:70362468 original size:41 final size:41
Alignment explanation
Indices: 70362423--70362540 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
70362413 TGAAAGATAA
70362423 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
70362464 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70362494 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70362535 ATGTAG
1 ATGTAG
70362541 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:70362479 original size:71 final size:71
Alignment explanation
Indices: 70362391--70362554 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
70362381 GAGATGTATC
70362391 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70362456 AGGACA
66 AGGACA
70362462 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70362527 AGGACA
66 AGGACA
70362533 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
70362555 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:70370045 original size:41 final size:41
Alignment explanation
Indices: 70370000--70370117 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
70369990 TGAAAGATAA
70370000 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
70370041 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70370071 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70370112 ATGTAG
1 ATGTAG
70370118 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:70370056 original size:71 final size:71
Alignment explanation
Indices: 70369968--70370131 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
70369958 GAGATGTATC
70369968 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70370033 AGGACA
66 AGGACA
70370039 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70370104 AGGACA
66 AGGACA
70370110 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
70370132 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:70372913 original size:30 final size:30
Alignment explanation
Indices: 70372842--70372924 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
70372832 CTTTTGTTTC
* *
70372842 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
70372873 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
70372902 ATTTTCTTTTTCTTTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
70372925 GATTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.12, C:0.22, G:0.01, T:0.65
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:70373050 original size:21 final size:21
Alignment explanation
Indices: 70372993--70373060 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
70372983 CTCTTGCCTC
* *
70372993 TCTTTTCTTTTTATTTCA-TTT
1 TCTTTTC-TTTTCTTTGATTTT
*
70373014 TCTTTT-TCTTCTTTTGATTTT
1 TCTTTTCTTTTC-TTTGATTTT
70373035 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGATTTT
70373055 CTCTTT
1 -TCTTT
70373061 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.08
20 8 0.21
21 24 0.62
22 4 0.10
ACGTcount: A:0.04, C:0.16, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGATTTT
Found at i:70374003 original size:11 final size:11
Alignment explanation
Indices: 70373962--70374005 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
70373952 CATTAAACAC
*
70373962 TTTTTTTTCAGA
1 TTTTTTTTGA-A
*
70373974 TTTTTTTCGAA
1 TTTTTTTTGAA
70373985 TTTTTTTTGAA
1 TTTTTTTTGAA
70373996 TTTTTTTTGA
1 TTTTTTTTGA
70374006 CTTGTATAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:70375710 original size:30 final size:30
Alignment explanation
Indices: 70375676--70375772 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
70375666 TAAACTAAAA
70375676 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
70375706 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
70375736 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
70375766 TGAGCTA
1 TGAGCTA
70375773 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:70376401 original size:19 final size:19
Alignment explanation
Indices: 70376377--70376413 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
70376367 TACTACAACA
70376377 ATTTAAGTTGTCTTAGTTC
1 ATTTAAGTTGTCTTAGTTC
*
70376396 ATTTAATTTGTCTTAGTT
1 ATTTAAGTTGTCTTAGTT
70376414 TAATGCATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.57
Consensus pattern (19 bp):
ATTTAAGTTGTCTTAGTTC
Found at i:70378739 original size:21 final size:20
Alignment explanation
Indices: 70378709--70378803 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 20
70378699 AGTAAGTTTC
70378709 AAAATAAAAATTCGAAAAAAAT
1 AAAA-AAAAATTC-AAAAAAAT
70378731 AAAAAAAAAGTTTCAAAAAAA-
1 AAAAAAAAA--TTCAAAAAAAT
*
70378752 ACAAAAAAAATTCAAAAAATT
1 A-AAAAAAAATTCAAAAAAAT
*
70378773 CAAAAAAAAGTT-AAAAAAATT
1 -AAAAAAAAATTCAAAAAAA-T
70378794 AGAAAAAAAA
1 A-AAAAAAAA
70378804 CCTTGAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
20 16 0.26
21 23 0.37
22 20 0.32
23 3 0.05
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (20 bp):
AAAAAAAAATTCAAAAAAAT
Found at i:70380885 original size:30 final size:30
Alignment explanation
Indices: 70380851--70380947 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
70380841 TAAACTAAAA
70380851 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
70380881 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
70380911 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
70380941 TGAGCTA
1 TGAGCTA
70380948 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:70383130 original size:30 final size:30
Alignment explanation
Indices: 70383059--70383141 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
70383049 CTTTTGTTTC
* *
70383059 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
70383090 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
70383119 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
70383142 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:70383141 original size:18 final size:18
Alignment explanation
Indices: 70383092--70383147 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
70383082 CACTCTCAAA
* *
70383092 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
70383109 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
70383127 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
70383146 TT
1 TT
70383148 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:70383148 original size:12 final size:12
Alignment explanation
Indices: 70383117--70383141 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
70383107 TTTTTCAATC
70383117 TCATTTTCTTTT
1 TCATTTTCTTTT
70383129 TCATTTTCTTTT
1 TCATTTTCTTTT
70383141 T
1 T
70383142 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:70383236 original size:6 final size:5
Alignment explanation
Indices: 70383210--70383270 Score: 63
Period size: 5 Copynumber: 12.0 Consensus size: 5
70383200 CTCTTGCCTC
* *
70383210 TCTTT TCTTT T-TAT TCATTT TCTTT T-TCT TCTTTT TCTTTT TCTTT
1 TCTTT TCTTT TCTTT TC-TTT TCTTT TCTTT TC-TTT TC-TTT TCTTT
70383256 TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT
70383271 GTTTTCTCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
4 6 0.12
5 28 0.58
6 14 0.29
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:70383245 original size:10 final size:9
Alignment explanation
Indices: 70383227--70383277 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
70383217 TTTTTATTCA
70383227 TTTTCTTTT
1 TTTTCTTTT
*
70383236 TCTTCTTTT
1 TTTTCTTTT
* *
70383245 TCTT-TTTC
1 TTTTCTTTT
70383253 TTTTCTTTT
1 TTTTCTTTT
*
70383262 CTTTTCTTTG
1 -TTTTCTTTT
70383272 TTTTCT
1 TTTTCT
70383278 CTTTACAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 6 0.17
9 21 0.60
10 8 0.23
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:70383252 original size:15 final size:15
Alignment explanation
Indices: 70383212--70383266 Score: 74
Period size: 15 Copynumber: 3.6 Consensus size: 15
70383202 CTTGCCTCTC
* *
70383212 TTTTCTTTTTATTCA
1 TTTTCTTTTTCTTCT
70383227 TTTTCTTTTTCTTCT
1 TTTTCTTTTTCTTCT
*
70383242 TTTTCTTTTTCTTTT
1 TTTTCTTTTTCTTCT
70383257 CTTTTCTTTT
1 -TTTTCTTTT
70383267 CTTTGTTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
15 27 0.75
16 9 0.25
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTTCTTCT
Found at i:70383266 original size:21 final size:21
Alignment explanation
Indices: 70383210--70383270 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
70383200 CTCTTGCCTC
* *
70383210 TCTTTTCTTTT-TATTCATTT
1 TCTTTTCTTTTCTTTTCTTTT
*
70383230 TCTTTT-TCTTCTTTTTCTTTT
1 TCTTTTCTTTTC-TTTTCTTTT
70383251 TCTTTTCTTTTCTTTTCTTT
1 TCTTTTCTTTTCTTTTCTTT
70383271 GTTTTCTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.09
20 6 0.18
21 21 0.62
22 4 0.12
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTTCTTTT
Found at i:70384195 original size:11 final size:11
Alignment explanation
Indices: 70384179--70384218 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
70384169 ATTAAACACT
70384179 TTTTTTTCAGA
1 TTTTTTTCAGA
70384190 TTTTTTTCAGA
1 TTTTTTTCAGA
70384201 TTTTTTTC-GAA
1 TTTTTTTCAG-A
70384212 TTTTTTT
1 TTTTTTT
70384219 ATTTTTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 1 0.04
11 27 0.96
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (11 bp):
TTTTTTTCAGA
Found at i:70384225 original size:18 final size:18
Alignment explanation
Indices: 70384202--70384236 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
70384192 TTTTTCAGAT
70384202 TTTTTTCGAATTTTTTTA
1 TTTTTTCGAATTTTTTTA
*
70384220 TTTTTTTGAATTTTTTT
1 TTTTTTCGAATTTTTTT
70384237 GACTTGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTTTTCGAATTTTTTTA
Found at i:70384234 original size:11 final size:10
Alignment explanation
Indices: 70384179--70384238 Score: 61
Period size: 11 Copynumber: 5.9 Consensus size: 10
70384169 ATTAAACACT
*
70384179 TTTTTTTCAGA
1 TTTTTTTGA-A
*
70384190 TTTTTTTCAGA
1 TTTTTTTGA-A
70384201 TTTTTTTCGAA
1 TTTTTTT-GAA
70384212 TTTTTTT--A
1 TTTTTTTGAA
70384220 TTTTTTTGAA
1 TTTTTTTGAA
70384230 TTTTTTTGA
1 TTTTTTTGA
70384239 CTTGTATAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
8 8 0.18
10 10 0.22
11 26 0.58
12 1 0.02
ACGTcount: A:0.17, C:0.05, G:0.08, T:0.70
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:70385930 original size:30 final size:30
Alignment explanation
Indices: 70385896--70385992 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
70385886 TAAACTAAAA
70385896 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
70385926 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
70385956 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
70385986 TGAGCTA
1 TGAGCTA
70385993 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:70386520 original size:30 final size:28
Alignment explanation
Indices: 70386486--70386542 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
70386476 AGTCGAAAAA
* *
70386486 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
70386516 GAAAAAGAGAGTGAGCAAAAAGAAAGT
1 GAAAAAGAGAGTGAGCAAAAAGAAAGT
70386543 GTGGAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 4 0.16
30 16 0.64
ACGTcount: A:0.53, C:0.04, G:0.30, T:0.14
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:70391339 original size:30 final size:31
Alignment explanation
Indices: 70391305--70391401 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
70391295 AGCTCACTCC
*
70391305 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
70391335 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
70391365 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
70391395 TAGCTCA
1 TAGCTCA
70391402 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Done.