Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 38 of 211
Found at i:11215282 original size:7 final size:7
Alignment explanation
Indices: 11215270--11215311 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
11215260 CGATTGGTAA
11215270 TTAGTAT
1 TTAGTAT
11215277 TTAGTAT
1 TTAGTAT
11215284 TTAGTAT
1 TTAGTAT
11215291 TTAGTAT
1 TTAGTAT
11215298 TTAGTAT
1 TTAGTAT
11215305 TTAGTAT
1 TTAGTAT
11215312 ATAACTAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
TTAGTAT
Found at i:11215983 original size:18 final size:18
Alignment explanation
Indices: 11215956--11215995 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
11215946 CAGGTGCATT
*
11215956 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
11215974 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
11215992 TCCT
1 TCCT
11215996 TTTCTGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:11228683 original size:16 final size:17
Alignment explanation
Indices: 11228658--11228690 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11228648 CTTCATTATC
11228658 AATATCCATAT-AAACA
1 AATATCCATATGAAACA
*
11228674 AATATTCATATGAAACA
1 AATATCCATATGAAACA
11228691 TTAAACTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (17 bp):
AATATCCATATGAAACA
Found at i:11229972 original size:87 final size:85
Alignment explanation
Indices: 11229790--11230019 Score: 280
Period size: 87 Copynumber: 2.7 Consensus size: 85
11229780 TTTTTTTCTA
* * * ***
11229790 AAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCACAAACGCTATTAAAGACCAAGA
1 AAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCACAAAAACGCCGCTAAAGACCAAGA
11229855 CCTTTAACGGCGCTTTACCC
66 CCTTTAACGGCGCTTTACCC
* * * *
11229875 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTTCACAAAAACGCCGCTATAGATCAT
1 A-AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTTCACAAAAACGCCGCTAAAGACCAA
* * **
11229940 GACCTTTAGCGGCGCTTTTTCGG
64 GACCTTTAACGGCGC-TTTACCC
* * *
11229963 AAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTCTCACAAAAACGCCGCTAAA
1 AAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCACAAAAACGCCGCTAAA
11230020 AATATAACCT
Statistics
Matches: 123, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
85 1 0.01
86 53 0.43
87 64 0.52
88 5 0.04
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.20
Consensus pattern (85 bp):
AAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCACAAAAACGCCGCTAAAGACCAAGA
CCTTTAACGGCGCTTTACCC
Found at i:11230010 original size:43 final size:42
Alignment explanation
Indices: 11229789--11230019 Score: 255
Period size: 43 Copynumber: 5.4 Consensus size: 42
11229779 GTTTTTTTCT
*
11229789 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTT-CAC
* *** * *
11229832 ACAAACGCTATTAAAGACCAAGACCTTTAACGGCGCTTTACCC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTT-CAC
* *
11229875 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTTCAC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC--TTTCAC
* * * **
11229919 AAAAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTTC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCAC
* * *
11229961 GGAAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTCTCAC
1 -AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT-TCAC
11230005 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
11230020 AATATAACCT
Statistics
Matches: 159, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
42 4 0.03
43 117 0.74
44 35 0.22
45 3 0.02
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.20
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCAC
Found at i:11232724 original size:21 final size:21
Alignment explanation
Indices: 11232698--11232743 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
11232688 TCTTGGATGT
11232698 GGGAAA-TTAGGGATTTTAGGG
1 GGGAAAGTTAGGGA-TTTAGGG
* *
11232719 GGGAAAGTTGGGGATTTCGGG
1 GGGAAAGTTAGGGATTTAGGG
11232740 GGGA
1 GGGA
11232744 GGGGGTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.24, C:0.02, G:0.50, T:0.24
Consensus pattern (21 bp):
GGGAAAGTTAGGGATTTAGGG
Found at i:11233026 original size:143 final size:142
Alignment explanation
Indices: 11232757--11233328 Score: 686
Period size: 143 Copynumber: 4.0 Consensus size: 142
11232747 GGTAGGGGGT
11232757 AGGGAATTTAAAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATA
1 AGGGAATTT-AAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATA
* * * *
11232822 AAAACGTCGCTACTGTTTATCTATTGCGGTGTTTTTTACATAAATGCCGCAAAAAATTATTTTAT
65 AAAACGTCGCTATTGCTTATCTATTGCGGCGTTTTTTACAAAAATGCCGCAAAAAATTATTTTAT
*
11232887 TTGGAATAAAATG
130 TTGGAATAAAACG
* * * *
11232900 AGGGAATCTAAAAAAATGGCGCTATTCTTTTAAAAGTTAATTTTATTTTGTGACGTTTTTTTATA
1 AGGGAATTTAAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCG-TTTTTTATA
* * * * ** * *
11232965 AAAATGTCACTATTGCTTATCTATTGCGGCATTTTTTACACAAACACCGTAAAAAACTATTTTAT
65 AAAACGTCGCTATTGCTTATCTATTGCGGCGTTTTTTACAAAAATGCCGCAAAAAATTATTTTAT
11233030 TTGGAATAAAACG
130 TTGGAATAAAACG
* *
11233043 AGGGAATTTAAAAAAATTGTGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATAA
1 AGGGAATTTAAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATAA
* * * *
11233108 AAACGCCGCTATTGCTTATCTATTGCTGCGTTTTTTACAAAAATGGCACAAAAAATTATTTTATT
66 AAACGTCGCTATTGCTTATCTATTGCGGCGTTTTTTACAAAAATGCCGCAAAAAATTATTTTATT
*
11233173 TAGAATAAAACG
131 TGGAATAAAACG
*** * * * *
11233185 ACACTATTTTGCTATATAAAATGGTGCTA--TTTTTAAAA-TAAA-ATTATTTTTGTGGCGTTTT
1 A-GGGA-ATT--TA-AAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTA-TTTTGTGGCGTTTT
* * * * * * *
11233246 TTA-AAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTTCATAAAAACGCCACAAAAAATTAT
60 TTATAAAAACGTCGCTATTGCTTATCTATTGCGGCGTTTTTTACAAAAATGCCGCAAAAAATTAT
*
11233310 TTCATTTGGAATAAAACG
125 TTTATTTGGAATAAAACG
11233328 A
1 A
11233329 CACTGTTTTG
Statistics
Matches: 371, Mismatches: 51, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
142 118 0.32
143 207 0.56
144 23 0.06
145 9 0.02
146 2 0.01
147 12 0.03
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (142 bp):
AGGGAATTTAAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATAA
AAACGTCGCTATTGCTTATCTATTGCGGCGTTTTTTACAAAAATGCCGCAAAAAATTATTTTATT
TGGAATAAAACG
Found at i:11233279 original size:285 final size:286
Alignment explanation
Indices: 11232757--11233328 Score: 726
Period size: 285 Copynumber: 2.0 Consensus size: 286
11232747 GGTAGGGGGT
11232757 AGGGAATTTAAAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATA
1 AGGGAATTTAAAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATA
* * * * *
11232822 AAAACGTCGCTACTGTTTATCTATTGCGGTGTTTTTTACATAAATGCCGCAAAAAATTATTTTAT
66 AAAACGCCGCTACTGCTTATCTATTGCGGCGTTTTTTACAAAAATGCCACAAAAAATTATTTTAT
* * ** * *
11232887 TTGGAATAAAATGAGGGAATCTAAAAAAATGGCGCTATTCTTTTAAAAGTTAATTTTATTTTGTG
131 TTAGAATAAAACGAACGAATCTAAAAAAATGGCGCTATTCTTTTAAAAGTAAATTATATTTTGTG
* * * * * **
11232952 ACGTTTTTTTATAAAAATGTCACTATTGCTTATCTATTGCGGCATTTTTTACACAAACACCGTAA
196 ACGTTTTTTTATAAAAACGCCACTATTGCTTACCTATTGCGGCATTTTTCACAAAAACACCACAA
*
11233017 AAAACTATTTTATTTGGAATAAAACG
261 AAAACTATTTCATTTGGAATAAAACG
* *
11233043 AGGGAATTT-AAAAAAATTGTGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATA
1 AGGGAATTTAAAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATA
* * *
11233107 AAAACGCCGCTATTGCTTATCTATTGCTGCGTTTTTTACAAAAATGGCACAAAAAATTATTTTAT
66 AAAACGCCGCTACTGCTTATCTATTGCGGCGTTTTTTACAAAAATGCCACAAAAAATTATTTTAT
* * * *
11233172 TTAGAATAAAACGACACTATTTTGCTATATAAAATGGTGCTA-T-TTTTAAAA-TAAAATTAT-T
131 TTAGAATAAAACGA-ACGA--AT-CTA-AAAAAATGGCGCTATTCTTTTAAAAGT-AAATTATAT
* * * * * *
11233233 TTTGTGGCG-TTTTTTA-AAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTTCATAAAAACG
190 TTTGTGACGTTTTTTTATAAAAACGCCACTATTGCTTACCTATTGCGGCATTTTTCACAAAAACA
*
11233296 CCACAAAAAATTATTTCATTTGGAATAAAACG
255 CCACAAAAAACTATTTCATTTGGAATAAAACG
11233328 A
1 A
11233329 CACTGTTTTG
Statistics
Matches: 245, Mismatches: 35, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
285 188 0.77
286 17 0.07
287 10 0.04
288 14 0.06
289 4 0.02
290 12 0.05
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (286 bp):
AGGGAATTTAAAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTATA
AAAACGCCGCTACTGCTTATCTATTGCGGCGTTTTTTACAAAAATGCCACAAAAAATTATTTTAT
TTAGAATAAAACGAACGAATCTAAAAAAATGGCGCTATTCTTTTAAAAGTAAATTATATTTTGTG
ACGTTTTTTTATAAAAACGCCACTATTGCTTACCTATTGCGGCATTTTTCACAAAAACACCACAA
AAAACTATTTCATTTGGAATAAAACG
Found at i:11234343 original size:40 final size:39
Alignment explanation
Indices: 11234258--11234343 Score: 93
Period size: 40 Copynumber: 2.2 Consensus size: 39
11234248 ACTAATTAAT
* * *
11234258 CTAAATCCTAAACCCTAACTTGACCCTAAATCTTTAGCCC
1 CTAAA-CCTAAACCCTAACTCGACCCGAAATCTTTAACCC
* *
11234298 TTAAACCATAAACCCTAACTCGACCCCGAATTC-TTAACCC
1 CTAAACC-TAAACCCTAACTCGA-CCCGAAATCTTTAACCC
11234338 CTAAAC
1 CTAAAC
11234344 ATTATTTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
39 2 0.05
40 29 0.76
41 7 0.18
ACGTcount: A:0.35, C:0.36, G:0.05, T:0.24
Consensus pattern (39 bp):
CTAAACCTAAACCCTAACTCGACCCGAAATCTTTAACCC
Found at i:11235448 original size:39 final size:39
Alignment explanation
Indices: 11235399--11235520 Score: 111
Period size: 39 Copynumber: 3.1 Consensus size: 39
11235389 GGGCTTAGGC
*
11235399 TTTTT-GCGGCGCTTTTAAAAAAACGCCGCTAATGCTTA
1 TTTTTAGCGGCGCTTTTAAAAAAGCGCCGCTAATGCTTA
* ** * * * *
11235437 TTTTTAGCGGCGGTTTCCAAAAAGCGCCGGTAGTTCTCGA
1 TTTTTAGCGGCGCTTTTAAAAAAGCGCCGCTAATGCT-TA
** * * *
11235477 CCTTTAGCAGCGTTTTTATAAAAGCGCCGCTAATGCTTA
1 TTTTTAGCGGCGCTTTTAAAAAAGCGCCGCTAATGCTTA
11235516 TTTTT
1 TTTTT
11235521 TAGTGACGTT
Statistics
Matches: 61, Mismatches: 21, Indels: 3
0.72 0.25 0.04
Matches are distributed among these distances:
38 5 0.08
39 28 0.46
40 28 0.46
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (39 bp):
TTTTTAGCGGCGCTTTTAAAAAAGCGCCGCTAATGCTTA
Found at i:11236469 original size:113 final size:112
Alignment explanation
Indices: 11236311--11236963 Score: 479
Period size: 113 Copynumber: 5.7 Consensus size: 112
11236301 AAATCTCAAG
* * * *
11236311 ACCAACACGCAGCGTTCTGGTCTTGATGTATATTAGAATTCGTGGCGCTTACGAACAAACGCCGG
1 ACCAAAACGCAGAGTT-TGGTCTTGATGTATATTAGAATTAGTGGCGCTTACGAA-AAACGCCGC
* * *
11236376 TAATGCATAGTATTAGCGGCGCTTAGCAAAAGCACCGCAAAAGATGTTA
64 TAAAGCATAGTATTAGCGGCGCTTAGCAAAAGCGCCGCAAAAGATCTTA
* * **
11236425 ACCAAAACGCAGAGTTTAGTCTTGATGTATATTACAATTAGTGGCGCTTATAAAGAAAACGCCGC
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTA-CGA-AAAACGCCGC
* * * * * *
11236490 TAATGTATAGTATTAGTGGCGCTGAGCGTTAAA-CGCCGCAAAACATCTTA
64 TAAAGCATAGTATTAGCGGCGCTTAGC--AAAAGCGCCGCAAAAGATCTTA
* * * * ** * * *
11236540 ACCAAAACACAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCATTTAAGGAAAACGCCACT
1 ACCAAAACGCAGAG-TTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTACGAAAAACGCCGCT
* * * * * *** * *
11236605 AAAGCATAGCAATAGCAGCGTTTGGTGGTAAGCGCCTCAAAATATCTTA
65 AAAGCATAGTATTAGCGGCGCTTAG-CAAAAGCGCCGCAAAAGATCTTA
* * * * * *
11236654 ACCAAAACACGGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATTGGAAAATGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTA-CGAAAAACGCCGCT
* * * *
11236719 AAAGTATAGTAGTAGCGGCG-TTTGTAGAAAGCGCCGC-AAAGTATCTTA
65 AAAGCATAGTATTAGCGGCGCTTAGCA-AAAGCGCCGCAAAAG-ATCTTA
* * * **
11236767 ACCAAAACGCAGAGTTTGGCCTTGACGTATATTAGAGTTAGTGGCGCTTACTTCAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTAC-GAAAAACGCCGCT
* * * * * ** * *
11236832 AATGCTTACTATTTA-CAGCGCTTTTTG-GTAAGCGCCGCCAATAGATATTA
65 AAAGCATAGTA-TTAGCGGCGC--TTAGCAAAAGCGCCG-CAAAAGATCTTA
* * * * * * ** *
11236882 ACAAAAACACAGCGTTTAGTTCTTGATGTATACTGGAATTAGTGGCGCACACAGGAAAACGCCGC
1 ACCAAAACGCAGAGTTT-GGTCTTGATGTATATTAGAATTAGTGGCGCTTAC-GAAAAACGCCGC
*
11236947 TGAAGCATAGTATTAGC
64 TAAAGCATAGTATTAGC
11236964 AGTGCTTTTC
Statistics
Matches: 424, Mismatches: 96, Indels: 36
0.76 0.17 0.06
Matches are distributed among these distances:
112 3 0.01
113 147 0.35
114 137 0.32
115 51 0.12
116 86 0.20
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (112 bp):
ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTACGAAAAACGCCGCTA
AAGCATAGTATTAGCGGCGCTTAGCAAAAGCGCCGCAAAAGATCTTA
Found at i:11236972 original size:116 final size:113
Alignment explanation
Indices: 11236292--11236971 Score: 519
Period size: 114 Copynumber: 5.9 Consensus size: 113
11236282 TTTACTACAC
* * * * * *
11236292 AGCGCCGCAAA-ATCTCAAGACCAACACGCAGCGTTCTGGTCTTGATGTATATTAGAATTCGTGG
1 AGCGCCGCAAAGATCT-TA-ACCAAAACACAGAGTT-TGGTCTTGATGTATACTAGAATTAGTGG
* * * * * ***
11236356 CGCTTAC-GAACAAACGCCGGTAATGCATAGTATTAGCGGCGCTTAG-CAAA
63 CGCTTACAGGA-AAACGCCGCTAAAGCATAGTATTAGCAGCGCTTTGTGGTA
* * * * * *
11236406 AGCACCGCAAAAGATGTTAACCAAAACGCAGAGTTTAGTCTTGATGTATATTACAATTAGTGGCG
1 AGCGCCGC-AAAGATCTTAACCAAAACACAGAGTTTGGTCTTGATGTATACTAGAATTAGTGGCG
* * * * ** ** * *
11236471 CTTATAAAGAAAACGCCGCTAATGTATAGTATTAGTGGCGCTGAGCGTTA
65 CTTA-CAGGAAAACGCCGCTAAAGCATAGTATTAGCAGCGCTTTGTGGTA
* * * *
11236521 AACGCCGCAAAACATCTTAACCAAAACACAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGC
1 AGCGCCGC-AAAGATCTTAACCAAAACACAGAG-TTTGGTCTTGATGTATACTAGAATTAGTGGC
** * * *
11236586 ATTTA-AGGAAAACGCCACTAAAGCATAGCAATAGCAGCG-TTTGGTGGTA
64 GCTTACAGGAAAACGCCGCTAAAGCATAGTATTAGCAGCGCTTT-GTGGTA
* * * * *
11236635 AGCGCCTCAAAATATCTTAACCAAAACACGGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCG
1 AGCGCCGC-AAAGATCTTAACCAAAACACAGAGTTTGGTCTTGATGTATACTAGAATTAGTGGCG
** * * * * * *
11236700 CTTATTGGAAAATGCCGCTAAAGTATAGTAGTAGCGGCG-TTTGTAGAA
65 CTTACAGGAAAACGCCGCTAAAGCATAGTATTAGCAGCGCTTTGTGGTA
* * * * *
11236748 AGCGCCGCAAAGTATCTTAACCAAAACGCAGAGTTTGGCCTTGACGTATATTAGAGTTAGTGGCG
1 AGCGCCGCAAAG-ATCTTAACCAAAACACAGAGTTTGGTCTTGATGTATACTAGAATTAGTGGCG
*** * * * *
11236813 CTTACTTCAAAACGCCGCTAATGCTTACTATTTA-CAGCGCTTTTTGGTA
65 CTTACAGGAAAACGCCGCTAAAGCATAGTA-TTAGCAGCGCTTTGTGGTA
* * * * *
11236862 AGCGCCGCCAATAGATATTAACAAAAACACAGCGTTTAGTTCTTGATGTATACTGGAATTAGTGG
1 AGCGCCG-CAA-AGATCTTAACCAAAACACAGAGTTT-GGTCTTGATGTATACTAGAATTAGTGG
** * *
11236927 CGCACACAGGAAAACGCCGCTGAAGCATAGTATTAGCAGTGCTTT
63 CGCTTACAGGAAAACGCCGCTAAAGCATAGTATTAGCAGCGCTTT
11236972 TCCCGAAACG
Statistics
Matches: 451, Mismatches: 100, Indels: 28
0.78 0.17 0.05
Matches are distributed among these distances:
112 3 0.01
113 147 0.33
114 155 0.34
115 58 0.13
116 88 0.20
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (113 bp):
AGCGCCGCAAAGATCTTAACCAAAACACAGAGTTTGGTCTTGATGTATACTAGAATTAGTGGCGC
TTACAGGAAAACGCCGCTAAAGCATAGTATTAGCAGCGCTTTGTGGTA
Found at i:11238660 original size:147 final size:147
Alignment explanation
Indices: 11238479--11238784 Score: 359
Period size: 147 Copynumber: 2.1 Consensus size: 147
11238469 TACGTTGCTA
* ** *
11238479 TTAGTGGCGCTTTCCATGAAACGCCGCAAAATTGTAATT-ATGTTTATTGAAATGTTGTCGTTTT
1 TTAGTGGCGCTTTACATGAAACGCCGCAAAATTGT-ATTAACATTTATTGAAACGTTGTCG-TTT
** ** *
11238543 TGTCTATGGTATTAGTGGCGTTTT-TCGGAAACGCCACAACATTG-GGTAAACTGTTGGGGAAAC
64 TGTAAATGGTATTAGTGGCGTTTTCTCAAAAACGCCACAACATTGAGGT-AACTGTTGAGGAAAC
*
11238606 GGCCT-CGTTTTGACTTATAG
128 -GACTGCGTTTTGACTTATAG
* * *
11238626 TTAGTGGCGCTTTACTTGAAACGCCGCAAAATTGTTTTAACATTTGTTGAAACGTTGTCGTTTTG
1 TTAGTGGCGCTTTACATGAAACGCCGCAAAATTGTATTAACATTTATTGAAACGTTGTCGTTTTG
* **** * * *
11238691 TAAATGTTATTAGTGGCGTTTTCTCAAAAACGCCACGGGTTTGAGGTAAGTGTTGATGAAGCGAC
66 TAAATGGTATTAGTGGCGTTTTCTCAAAAACGCCACAACATTGAGGTAACTGTTGAGGAAACGAC
11238756 TGCGTTTTGACTTATAG
131 TGCGTTTTGACTTATAG
11238773 TTAGTGGCGCTT
1 TTAGTGGCGCTT
11238785 AGTTTAAAAC
Statistics
Matches: 134, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
146 29 0.22
147 102 0.76
148 3 0.02
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.37
Consensus pattern (147 bp):
TTAGTGGCGCTTTACATGAAACGCCGCAAAATTGTATTAACATTTATTGAAACGTTGTCGTTTTG
TAAATGGTATTAGTGGCGTTTTCTCAAAAACGCCACAACATTGAGGTAACTGTTGAGGAAACGAC
TGCGTTTTGACTTATAG
Found at i:11240321 original size:16 final size:16
Alignment explanation
Indices: 11240296--11240331 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11240286 ATATTTATAA
*
11240296 TTATCAATTTTCAATT
1 TTATCAATTTACAATT
*
11240312 TTATCGATTTACAATT
1 TTATCAATTTACAATT
11240328 TTAT
1 TTAT
11240332 TTCAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.56
Consensus pattern (16 bp):
TTATCAATTTACAATT
Found at i:11240732 original size:13 final size:13
Alignment explanation
Indices: 11240716--11240765 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
11240706 TTACTAAAAT
*
11240716 TTACTTTAATATA
1 TTACTTAAATATA
*
11240729 TTACTTGAATATA
1 TTACTTAAATATA
11240742 TTACTTAAATA-A
1 TTACTTAAATATA
11240754 TTTACTTAAATA
1 -TTACTTAAATA
11240766 CATCACTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 1 0.03
13 33 0.97
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:11240747 original size:26 final size:26
Alignment explanation
Indices: 11240705--11240774 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
11240695 AAACATATTT
*
11240705 TTTAC-TAAA-AT-TTACTTTAAT-A
1 TTTACTTAAATATATTACTTAAATAA
*
11240727 TATTACTTGAATATATTACTTAAATAA
1 T-TTACTTAAATATATTACTTAAATAA
* *
11240754 TTTACTTAAATACATCACTTA
1 TTTACTTAAATATATTACTTA
11240775 CTAAAATTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 1 0.03
23 4 0.11
24 3 0.08
25 2 0.05
26 26 0.68
27 2 0.05
ACGTcount: A:0.41, C:0.11, G:0.01, T:0.46
Consensus pattern (26 bp):
TTTACTTAAATATATTACTTAAATAA
Found at i:11240875 original size:31 final size:30
Alignment explanation
Indices: 11240816--11240875 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
11240806 TTAAATATAT
*
11240816 ATTACTTACTAAAATTTAAGTATATATTAC
1 ATTACTTACTAAAATTTAAGAATATATTAC
*
11240846 ATTACTTACATAACATGTTAA-AATATATTA
1 ATTACTTAC-TAAAAT-TTAAGAATATATTA
11240876 TAATTTCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 9 0.35
31 13 0.50
32 4 0.15
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (30 bp):
ATTACTTACTAAAATTTAAGAATATATTAC
Found at i:11240945 original size:48 final size:49
Alignment explanation
Indices: 11240892--11241011 Score: 131
Period size: 52 Copynumber: 2.4 Consensus size: 49
11240882 CAATATTTAT
* *
11240892 TATATTTTTAAATATATTTTTAGAATTTA-AT-TTA-ACTTA-TTAATAATA
1 TATATTTTTAAGTATATTTTTAAAATTTATATCTTACA-TTACTT-A-AATA
*
11240940 TATATTGTTAAGTAATAATTTTTTAAAATTTATATCTTACATTACTTAAATA
1 TATATTTTTAAGT-AT-A-TTTTTAAAATTTATATCTTACATTACTTAAATA
11240992 TATATTTTTAAGTATATTTT
1 TATATTTTTAAGTATATTTT
11241012 ACACGACTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
48 11 0.18
49 6 0.10
50 2 0.03
51 14 0.23
52 18 0.30
53 7 0.11
54 3 0.05
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (49 bp):
TATATTTTTAAGTATATTTTTAAAATTTATATCTTACATTACTTAAATA
Found at i:11241071 original size:13 final size:13
Alignment explanation
Indices: 11241055--11241113 Score: 75
Period size: 13 Copynumber: 4.5 Consensus size: 13
11241045 TTACTAAAAT
*
11241055 TTACTTTAATATA
1 TTACTTAAATATA
*
11241068 TTACTTGAATATA
1 TTACTTAAATATA
11241081 TTACTTAAATA-A
1 TTACTTAAATATA
*
11241093 TTTACTTAAATACA
1 -TTACTTAAATATA
11241107 TTACTTA
1 TTACTTA
11241114 CTAAAATTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
12 1 0.02
13 40 0.95
14 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:11241152 original size:339 final size:339
Alignment explanation
Indices: 11240535--11241198 Score: 1265
Period size: 339 Copynumber: 2.0 Consensus size: 339
11240525 AAAGTTAATA
11240535 TATAATTTCAATATTTATTATATTTTTAAATATATTTTTACAATTTAATTTAACTTATTAATAAT
1 TATAATTTCAATATTTATTATATTTTTAAATATATTTTTACAATTTAATTTAACTTATTAATAAT
11240600 ATATATTGTTAAGTAATAATTTTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAG
66 ATATATTGTTAAGTAATAATTTTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAG
* *
11240665 TATATTCTACATGACTTACATTACTTACTAAAACATATTTTTTACTAAAATTTACTTTAATATAT
131 TATATTCTACACGACTTACATCACTTACTAAAACATATTTTTTACTAAAATTTACTTTAATATAT
11240730 TACTTGAATATATTACTTAAATAATTTACTTAAATACATCACTTACTAAAATTTGTTTAAATTTT
196 TACTTGAATATATTACTTAAATAATTTACTTAAATACATCACTTACTAAAATTTGTTTAAATTTT
11240795 AAATACATTACTTAAATATATATTACTTACTAAAATTTAAGTATATATTACATTACTTACATAAC
261 AAATACATTACTTAAATATATATTACTTACTAAAATTTAAGTATATATTACATTACTTACATAAC
11240860 ATGTTAAAATATAT
326 ATGTTAAAATATAT
*
11240874 TATAATTTCAATATTTATTATATTTTTAAATATATTTTTAGAATTTAATTTAACTTATTAATAAT
1 TATAATTTCAATATTTATTATATTTTTAAATATATTTTTACAATTTAATTTAACTTATTAATAAT
*
11240939 ATATATTGTTAAGTAATAATTTTTTAAAATTTATATCTTACATTACTTAAATATATATTTTTAAG
66 ATATATTGTTAAGTAATAATTTTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAG
*
11241004 TATATTTTACACGACTTACATCACTTACTAAAACATATTTTTTACTAAAATTTACTTTAATATAT
131 TATATTCTACACGACTTACATCACTTACTAAAACATATTTTTTACTAAAATTTACTTTAATATAT
*
11241069 TACTTGAATATATTACTTAAATAATTTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTT
196 TACTTGAATATATTACTTAAATAATTTACTTAAATACATCACTTACTAAAATTTGTTTAAATTTT
*
11241134 AAATACATTACTTAAATATATATTATTTACTAAAATTTAAGTATATATTACATTACTTACATAAC
261 AAATACATTACTTAAATATATATTACTTACTAAAATTTAAGTATATATTACATTACTTACATAAC
11241199 TTACATAACT
Statistics
Matches: 318, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
339 318 1.00
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.48
Consensus pattern (339 bp):
TATAATTTCAATATTTATTATATTTTTAAATATATTTTTACAATTTAATTTAACTTATTAATAAT
ATATATTGTTAAGTAATAATTTTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAG
TATATTCTACACGACTTACATCACTTACTAAAACATATTTTTTACTAAAATTTACTTTAATATAT
TACTTGAATATATTACTTAAATAATTTACTTAAATACATCACTTACTAAAATTTGTTTAAATTTT
AAATACATTACTTAAATATATATTACTTACTAAAATTTAAGTATATATTACATTACTTACATAAC
ATGTTAAAATATAT
Found at i:11241195 original size:9 final size:9
Alignment explanation
Indices: 11241181--11241287 Score: 100
Period size: 9 Copynumber: 12.4 Consensus size: 9
11241171 TAAGTATATA
*
11241181 TTACATTAC
1 TTACATAAC
11241190 TTACATAAC
1 TTACATAAC
11241199 TTACATAAC
1 TTACATAAC
11241208 TTACATAA-
1 TTACATAAC
*
11241216 -TACACAAC
1 TTACATAAC
* *
11241224 TTAAATAGC
1 TTACATAAC
*
11241233 TTACTTAA-
1 TTACATAAC
11241241 -TACATAAC
1 TTACATAAC
11241249 TTACATAAC
1 TTACATAAC
11241258 TT--ATACAC
1 TTACATA-AC
*
11241266 GTACATAAC
1 TTACATAAC
*
11241275 TTACATAAT
1 TTACATAAC
11241284 TTAC
1 TTAC
11241288 TTAATACATA
Statistics
Matches: 79, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
7 15 0.19
8 3 0.04
9 58 0.73
10 3 0.04
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.35
Consensus pattern (9 bp):
TTACATAAC
Found at i:11241224 original size:25 final size:25
Alignment explanation
Indices: 11241191--11241298 Score: 126
Period size: 25 Copynumber: 4.3 Consensus size: 25
11241181 TTACATTACT
11241191 TACATAACTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* * * *
11241216 TACACAACTTAAATAGCTTACTTAA
1 TACATAACTTACATAACTTACATAA
* * *
11241241 TACATAACTTACATAACTTATACACG
1 TACATAACTTACATAACTTACATA-A
* *
11241267 TACATAACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACATAA
11241292 TACATAA
1 TACATAA
11241299 ATATATATCA
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
25 46 0.70
26 20 0.30
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.33
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:11246858 original size:21 final size:21
Alignment explanation
Indices: 11246793--11246861 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
11246783 CAGCAACTTA
*
11246793 AAGCAGAGGC-GACAGCGAGGG
1 AAGCAGAGGCTG-CAGCGAGAG
* * *
11246814 AAACAGATGCTACAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
11246835 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
11246856 AAGCAG
1 AAGCAG
11246862 CGATAGAAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.38, C:0.19, G:0.39, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:11247456 original size:43 final size:44
Alignment explanation
Indices: 11247357--11247495 Score: 137
Period size: 43 Copynumber: 3.2 Consensus size: 44
11247347 TTGACCAAGT
* * * *
11247357 GCCGCTATAGAACATTA-CTTTTAGC-GCCTTTTCTTCC--TAAGA
1 GCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCCTGTAAGC
* *
11247399 GCCACTAAATAACATGATCTTTAGCGGCGTTTATTTCCT-T-AGC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCCTGTAAGC
*
11247442 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTGTAAGC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTGTAAGC
*
11247486 GCCGCAAAAG
1 GCCGCTAAAG
11247496 TTAGCGACGT
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
42 24 0.30
43 43 0.53
44 14 0.17
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (44 bp):
GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTGTAAGC
Found at i:11252509 original size:20 final size:21
Alignment explanation
Indices: 11252471--11252509 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
11252461 GCGGTGATGT
* *
11252471 TGAGATTAGTTACTGTAGCAG
1 TGAGATTAGATACTATAGCAG
11252492 TGAGATT-GATACTATAGC
1 TGAGATTAGATACTATAGC
11252510 GGTAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (21 bp):
TGAGATTAGATACTATAGCAG
Found at i:11269383 original size:5 final size:5
Alignment explanation
Indices: 11269375--11269400 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11269365 GAGATGGAAT
11269375 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
11269401 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:11269400 original size:26 final size:26
Alignment explanation
Indices: 11269349--11269400 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
11269339 TCAAGTTTTC
* * *
11269349 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
11269375 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
11269401 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:11270075 original size:31 final size:30
Alignment explanation
Indices: 11270040--11270099 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
11270030 GGAGGTGGGA
*
11270040 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGGGAATAAAAATTTTAGGGGAAAAG
* * *
11270071 TGGGAGTGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGGGAATAAAAATTTTAGGGGAAAA
11270100 TAAAATGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (30 bp):
TGGGAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:11275351 original size:112 final size:108
Alignment explanation
Indices: 11275114--11275352 Score: 280
Period size: 112 Copynumber: 2.1 Consensus size: 108
11275104 ACTATACATC
* *
11275114 AAAAGAAATTTCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTG
1 AAAA-AAA-TTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCAAGAAAACGTGCCCTAATGTG
*
11275179 CTGAGTTTCGATTTTCTCGTTCGACCAAATAGCCAAATATCCTTT
64 CTGAGTTTCGATTTTCTCGTTCGACCAAATAGACAAATATCCTTT
**** * * *
11275224 AAATGTTTTTTTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCAAGAAAATGTTCCTTAATG
1 AAA----AAAATTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCAAGAAAACGTGCCCTAATG
* *
11275289 TGCTGGGTTTCGATTTTTTTCTCGTTTGACCAAATAGACAAATATCCTTTT
62 TGCTGAGTTTCGA---TTTTCTCGTTCGACCAAATAGACAAATATCC-TTT
11275340 AAAAAAATTCAAA
1 AAAAAAATTCAAA
11275353 ATAAAAAACG
Statistics
Matches: 105, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
110 3 0.03
112 67 0.64
115 29 0.28
116 6 0.06
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36
Consensus pattern (108 bp):
AAAAAAATTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCAAGAAAACGTGCCCTAATGTGCT
GAGTTTCGATTTTCTCGTTCGACCAAATAGACAAATATCCTTT
Found at i:11275418 original size:83 final size:86
Alignment explanation
Indices: 11275273--11275441 Score: 290
Period size: 83 Copynumber: 2.0 Consensus size: 86
11275263 GAAATTCAAG
* * *
11275273 AAAATGTTCCTTAATGTGCTGGGTTTCGATTTTTTTCTCGTTTGACCAAATAGACAAATATCCTT
1 AAAACGTTCCTTAATGTGCTGGGTTTCGAATTTTTTCTCGTTCGACCAAATAGACAAATATCCTT
11275338 TT-AAAAAAA-TTCAAAATAA
66 TTAAAAAAAATTTCAAAATAA
11275357 AAAACGTTCC-TAATGTGCTGGGTTTCGAATTTTTTCTCGTTCGACCAAATAGACAAATATCCTT
1 AAAACGTTCCTTAATGTGCTGGGTTTCGAATTTTTTCTCGTTCGACCAAATAGACAAATATCCTT
11275421 TTAAAAAAAATTTCAAAATAA
66 TTAAAAAAAATTTCAAAATAA
11275442 GGCAATATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
83 54 0.68
84 16 0.20
85 10 0.12
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (86 bp):
AAAACGTTCCTTAATGTGCTGGGTTTCGAATTTTTTCTCGTTCGACCAAATAGACAAATATCCTT
TTAAAAAAAATTTCAAAATAA
Found at i:11287127 original size:14 final size:15
Alignment explanation
Indices: 11287108--11287136 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11287098 ATTTAACCTT
11287108 ATTTTAAT-ATAAAA
1 ATTTTAATAATAAAA
11287122 ATTTTAATAATAAAA
1 ATTTTAATAATAAAA
11287137 CTTAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAATAATAAAA
Found at i:11288220 original size:14 final size:14
Alignment explanation
Indices: 11288197--11288243 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
11288187 TTAATTAGGT
*
11288197 TTAAGATTAACTAA
1 TTAAGATTAATTAA
*
11288211 TTAAGGTTAATTAA
1 TTAAGATTAATTAA
*
11288225 GTTAAGTTTAATTAA
1 -TTAAGATTAATTAA
11288240 TTAA
1 TTAA
11288244 ATATTAAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (14 bp):
TTAAGATTAATTAA
Found at i:11288229 original size:29 final size:30
Alignment explanation
Indices: 11288186--11288243 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
11288176 CACTAAATGT
*
11288186 GTTAATTAGGTTTAAGATTAACTAATTAAG
1 GTTAATTAAGTTTAAGATTAACTAATTAAG
* *
11288216 GTTAATTAAG-TTAAGTTTAATTAATTAA
1 GTTAATTAAGTTTAAGATTAACTAATTAA
11288244 ATATTAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (30 bp):
GTTAATTAAGTTTAAGATTAACTAATTAAG
Found at i:11290128 original size:15 final size:15
Alignment explanation
Indices: 11290108--11290136 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11290098 CTAATTCTCT
11290108 TTTGCTCTCAAACTG
1 TTTGCTCTCAAACTG
11290123 TTTGCTCTCAAACT
1 TTTGCTCTCAAACT
11290137 TCTTTCTTGG
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:0.21, C:0.28, G:0.10, T:0.41
Consensus pattern (15 bp):
TTTGCTCTCAAACTG
Found at i:11292760 original size:16 final size:16
Alignment explanation
Indices: 11292739--11292780 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11292729 TTATTAAATT
*
11292739 ATATATTTTAATTATA
1 ATATATTTTAATAATA
11292755 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
11292770 AT-TATGTTTAA
1 ATATAT-TTTAA
11292781 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:11292765 original size:15 final size:15
Alignment explanation
Indices: 11292730--11292771 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11292720 TTAAGAATTT
*
11292730 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11292744 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11292758 TATTTAATAATAAT
1 TATTTAATTATAAT
11292772 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:11301752 original size:141 final size:141
Alignment explanation
Indices: 11301498--11301919 Score: 738
Period size: 141 Copynumber: 3.0 Consensus size: 141
11301488 TCTATAAAGG
*
11301498 TGTTTGAGATATCAAGGTTGTATAGACTTGTTCATAGAATGAAGTGGTTGAAATTGCTATGATAG
1 TGTTTGAGATATCAAGGTTGTATAGACTTGTTCATAGAATAAAGTGGTTGAAATTGCTATGATAG
* * * *
11301563 GTTATTAGCTTAATGGATGGAATAGTATGTTTGATGAAATTATCAAGTAGTTGAACTTGTGACTA
66 GTTATTAGCTTGATGGATGGAATAGTATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTG
11301628 TTGAATATGAA
131 TTGAATATGAA
* *
11301639 TGTTTGAGATATCAAGGTTGTATAGACTTGTTCATAAAATAAAGTGGTTCAAATTGCTATGATAG
1 TGTTTGAGATATCAAGGTTGTATAGACTTGTTCATAGAATAAAGTGGTTGAAATTGCTATGATAG
*
11301704 GTTATTAGCTTGATGGATGAAATAGTATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTG
66 GTTATTAGCTTGATGGATGGAATAGTATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTG
*
11301769 TTGAATATAAA
131 TTGAATATGAA
11301780 TGTTTGAGATATCAAGGTTGTATAGACTTGTTCATAGAATAAAGTGGTTGAAATTGCTATGATAG
1 TGTTTGAGATATCAAGGTTGTATAGACTTGTTCATAGAATAAAGTGGTTGAAATTGCTATGATAG
* *
11301845 GTTATTAACTTGATGGATGGAATAGTATGTTTGATAAGATTATCAAGTAGTT-AACTTGTGATTG
66 GTTATTAGCTTGATGGATGGAATAGTATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTG
11301909 TTGAATATGAA
131 TTGAATATGAA
11301920 CTTAGTTTGA
Statistics
Matches: 266, Mismatches: 15, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
140 22 0.08
141 244 0.92
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (141 bp):
TGTTTGAGATATCAAGGTTGTATAGACTTGTTCATAGAATAAAGTGGTTGAAATTGCTATGATAG
GTTATTAGCTTGATGGATGGAATAGTATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTG
TTGAATATGAA
Found at i:11325707 original size:23 final size:23
Alignment explanation
Indices: 11325677--11325722 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
11325667 TCTTTTTTGG
11325677 GTATTGTCTATCTCATCGGTTAT
1 GTATTGTCTATCTCATCGGTTAT
11325700 GTATTGTCTATCTCATCGGTTAT
1 GTATTGTCTATCTCATCGGTTAT
11325723 CTTTGATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (23 bp):
GTATTGTCTATCTCATCGGTTAT
Found at i:11331584 original size:18 final size:17
Alignment explanation
Indices: 11331546--11331591 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
11331536 GATGCCTAGT
*
11331546 TTTATTTTTTTTGTTTT
1 TTTATTTTTTTTGTTTA
11331563 TTTATTTTTCATTTG-TTA
1 TTTATTTTT--TTTGTTTA
11331581 TTTATTTTTTT
1 TTTATTTTTTT
11331592 GGTTGTTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 9 0.35
18 11 0.42
19 4 0.15
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.83
Consensus pattern (17 bp):
TTTATTTTTTTTGTTTA
Found at i:11335405 original size:8 final size:8
Alignment explanation
Indices: 11335392--11335417 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
11335382 GCAAAATATA
11335392 CATGAATG
1 CATGAATG
11335400 CATGAATG
1 CATGAATG
11335408 CATGAATG
1 CATGAATG
11335416 CA
1 CA
11335418 ACAATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (8 bp):
CATGAATG
Found at i:11352270 original size:24 final size:24
Alignment explanation
Indices: 11352222--11352268 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
11352212 ACTGGTCATA
*
11352222 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
11352246 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
11352269 GGGATTTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:11353016 original size:27 final size:27
Alignment explanation
Indices: 11352986--11353272 Score: 318
Period size: 27 Copynumber: 10.6 Consensus size: 27
11352976 AGACCCCAAA
*
11352986 ATAGGGTAAAATGA-TCGAAATACCCTT
1 ATAGGGTAAAATGACT-GAAATACCCTC
*
11353013 ATAGGGTAAAATGACTAAAATACCCTC
1 ATAGGGTAAAATGACTGAAATACCCTC
11353040 ATAGGGTAAAATGA-TCGAAATACCCTC
1 ATAGGGTAAAATGACT-GAAATACCCTC
* *
11353067 ATAGGGTAAAATGACTAAAATACCCCC
1 ATAGGGTAAAATGACTGAAATACCCTC
** *
11353094 ATAGGGTAAAATGACCAAAATACCCCC
1 ATAGGGTAAAATGACTGAAATACCCTC
*
11353121 ATAAGGTAAAATGA-TCGAAATACACC-C
1 ATAGGGTAAAATGACT-GAAATAC-CCTC
11353148 ATAGGGTAAAATGACTGAAATATCCCT-
1 ATAGGGTAAAATGACTGAAATA-CCCTC
* * *
11353175 ATAGGGTAAAATTACTAAAATACCCCC
1 ATAGGGTAAAATGACTGAAATACCCTC
* *
11353202 ATAGGGTAGAATGACTGAAAT-GCCTCC
1 ATAGGGTAAAATGACTGAAATACCCT-C
* *
11353229 ATAGGATAAAATGACCGAAATATCCC-C
1 ATAGGGTAAAATGACTGAAATA-CCCTC
*
11353256 ATAAGGTAAAATGACTG
1 ATAGGGTAAAATGACTG
11353273 TTATACCCCT
Statistics
Matches: 223, Mismatches: 25, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.03
27 209 0.94
28 6 0.03
29 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (27 bp):
ATAGGGTAAAATGACTGAAATACCCTC
Found at i:11353281 original size:81 final size:80
Alignment explanation
Indices: 11352986--11353271 Score: 378
Period size: 81 Copynumber: 3.5 Consensus size: 80
11352976 AGACCCCAAA
* * *
11352986 ATAGGGTAAAATGATCGAAATA-CCCTTATAGGGTAAAATGACTAAAATACCCTCATAGGGTAAA
1 ATAGGGTAAAATGACCGAAATATCCC-CATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAA
11353050 ATGATCGAAATACCCTC
65 ATGATCGAAATACCC-C
** * * *
11353067 ATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAAGGTAAAA
1 ATAGGGTAAAATGACCGAAATATCCCCATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAA
11353132 TGATCGAAATACACCC
66 TGATCGAAATAC-CCC
* * * *
11353148 ATAGGGTAAAATGACTGAAATATCCCTATAGGGTAAAATTACTAAAATACCCCCATAGGGTAGAA
1 ATAGGGTAAAATGACCGAAATATCCCCATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAA
*
11353213 TGA-CTGAAATGCCTCC
66 TGATC-GAAATACC-CC
* *
11353229 ATAGGATAAAATGACCGAAATATCCCCATAAGGTAAAATGACT
1 ATAGGGTAAAATGACCGAAATATCCCCATAGGGTAAAATGACT
11353272 GTTATACCCC
Statistics
Matches: 181, Mismatches: 20, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
80 2 0.01
81 174 0.96
82 5 0.03
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (80 bp):
ATAGGGTAAAATGACCGAAATATCCCCATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAA
TGATCGAAATACCCC
Found at i:11357841 original size:16 final size:16
Alignment explanation
Indices: 11357818--11357889 Score: 72
Period size: 16 Copynumber: 4.5 Consensus size: 16
11357808 GAACTAAACC
*
11357818 AATACAACACGCACAT
1 AATACAACATGCACAT
* *
11357834 ATTACAACTTGCACAT
1 AATACAACATGCACAT
11357850 AATACAACATGCACAT
1 AATACAACATGCACAT
** * *
11357866 GCTACAGCTTGCACAT
1 AATACAACATGCACAT
*
11357882 AGTACAAC
1 AATACAAC
11357890 TCACACATAC
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.42, C:0.28, G:0.10, T:0.21
Consensus pattern (16 bp):
AATACAACATGCACAT
Found at i:11357864 original size:32 final size:32
Alignment explanation
Indices: 11357818--11357906 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 32
11357808 GAACTAAACC
* *
11357818 AATACAACACGCACATATTACAACTTGCACAT
1 AATACAACATGCACATACTACAACTTGCACAT
* *
11357850 AATACAACATGCACATGCTACAGCTTGCACAT
1 AATACAACATGCACATACTACAACTTGCACAT
* *
11357882 AGTACAAC-TCACACATACTACAACT
1 AATACAACAT-GCACATACTACAACT
11357907 CATATATATA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
31 1 0.02
32 47 0.98
ACGTcount: A:0.42, C:0.29, G:0.08, T:0.21
Consensus pattern (32 bp):
AATACAACATGCACATACTACAACTTGCACAT
Found at i:11357896 original size:16 final size:16
Alignment explanation
Indices: 11357877--11357908 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11357867 CTACAGCTTG
*
11357877 CACATAGTACAACTCA
1 CACATACTACAACTCA
11357893 CACATACTACAACTCA
1 CACATACTACAACTCA
11357909 TATATATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.34, G:0.03, T:0.19
Consensus pattern (16 bp):
CACATACTACAACTCA
Found at i:11358203 original size:13 final size:13
Alignment explanation
Indices: 11358185--11358211 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11358175 TGATAGTTTG
11358185 TATATGTAATACT
1 TATATGTAATACT
11358198 TATATGTAATACT
1 TATATGTAATACT
11358211 T
1 T
11358212 TGTAAAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TATATGTAATACT
Found at i:11360642 original size:6 final size:6
Alignment explanation
Indices: 11360631--11360659 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
11360621 TAGGTTTCCA
11360631 AAATGG AAATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG
11360660 ATTCATTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:11378495 original size:6 final size:6
Alignment explanation
Indices: 11378484--11378511 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
11378474 TTTTAATTAG
11378484 AAAAAC AAAAAC AAAAAC AAAAAC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAA
11378512 TTATTCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:11385784 original size:29 final size:30
Alignment explanation
Indices: 11385729--11385785 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
11385719 TTGGGCCTTC
* * *
11385729 CCACACAGGCTGGACACACGGCTATGTGAG
1 CCACACAGGCTAGACACACGACCATGTGAG
*
11385759 CCACACGGGCTAG-CACACGACCATGTG
1 CCACACAGGCTAGACACACGACCATGTG
11385786 CCAGACCGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 12 0.52
30 11 0.48
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.12
Consensus pattern (30 bp):
CCACACAGGCTAGACACACGACCATGTGAG
Found at i:11388303 original size:37 final size:37
Alignment explanation
Indices: 11388262--11388385 Score: 144
Period size: 36 Copynumber: 3.3 Consensus size: 37
11388252 TCTAGCTTCA
*
11388262 GCCGATTTGCTCCATTGTTTTTTTTCTTTTATTTTCT
1 GCCGATTTGCTCCATTGTTTATTTTCTTTTATTTTCT
*
11388299 GCCGATTTGCTCCCA--GTTTATTTTCTTTTCTTTTCT
1 GCCGATTTGCT-CCATTGTTTATTTTCTTTTATTTTCT
* * * * *
11388335 GCCTATTTGCTCCCTCTGTTTCTTTTCTTTTCTTTTTCG
1 GCCGATTTGCTCCAT-TGTTTATTTTCTTTT-ATTTTCT
11388374 GCCGATTTGCTC
1 GCCGATTTGCTC
11388386 AGTTTCTGCC
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
35 2 0.03
36 29 0.39
37 11 0.15
38 16 0.22
39 16 0.22
ACGTcount: A:0.06, C:0.25, G:0.12, T:0.56
Consensus pattern (37 bp):
GCCGATTTGCTCCATTGTTTATTTTCTTTTATTTTCT
Found at i:11390250 original size:31 final size:32
Alignment explanation
Indices: 11390214--11390278 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
11390204 CTTAGATAAT
11390214 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
11390245 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
11390277 TT
1 TT
11390279 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:11390837 original size:13 final size:12
Alignment explanation
Indices: 11390816--11390852 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 12
11390806 TTTTTTAAAT
11390816 AAAAGCAAAAAA
1 AAAAGCAAAAAA
11390828 AAACAGCAAAAAA
1 AAA-AGCAAAAAA
11390841 AAAA-CAAAAAA
1 AAAAGCAAAAAA
11390852 A
1 A
11390853 GCAAAAAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 8 0.33
12 4 0.17
13 12 0.50
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (12 bp):
AAAAGCAAAAAA
Found at i:11390910 original size:20 final size:20
Alignment explanation
Indices: 11390816--11390910 Score: 66
Period size: 20 Copynumber: 4.6 Consensus size: 20
11390806 TTTTTTAAAT
*
11390816 AAAAGCAAAAAAAAACAGCA
1 AAAAGCAAAAAAAAAAAGCA
*
11390836 AAAA-AAAAACAAAAAAAGCAA
1 AAAAGCAAAA-AAAAAAAGC-A
* * * *
11390857 AAAAGCGTAAAAGAATAGAGTA
1 AAAAGC--AAAAAAAAAAAGCA
***
11390879 AAAAGTGCAAAAAAAAAGCA
1 AAAAGCAAAAAAAAAAAGCA
11390899 AAAAGCAAAAAA
1 AAAAGCAAAAAA
11390911 GCGCAAAAAA
Statistics
Matches: 53, Mismatches: 17, Indels: 10
0.66 0.21 0.12
Matches are distributed among these distances:
19 4 0.08
20 29 0.55
21 5 0.09
22 6 0.11
23 5 0.09
24 4 0.08
ACGTcount: A:0.74, C:0.09, G:0.13, T:0.04
Consensus pattern (20 bp):
AAAAGCAAAAAAAAAAAGCA
Found at i:11393101 original size:31 final size:32
Alignment explanation
Indices: 11393065--11393129 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
11393055 CTTAGATAAT
11393065 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
11393096 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
11393128 TT
1 TT
11393130 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:11394084 original size:26 final size:26
Alignment explanation
Indices: 11394041--11394107 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
11394031 TTGTATTAAT
11394041 ATCAAAAAATG-TGAGTACTACATGG
1 ATCAAAAAATGATGAGTACTACATGG
*
11394066 ATCAAAATATGATGAGTACTACATGG
1 ATCAAAAAATGATGAGTACTACATGG
11394092 ATCAAAAAATGATGAG
1 ATCAAAAAATGATGAG
11394108 ATCGTTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 10 0.26
26 29 0.74
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.24
Consensus pattern (26 bp):
ATCAAAAAATGATGAGTACTACATGG
Found at i:11394363 original size:23 final size:23
Alignment explanation
Indices: 11394294--11394366 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
11394284 GTATATTAAA
11394294 ATATAATTAAAATCATTTTGATT
1 ATATAATTAAAATCATTTTGATT
*** * * *
11394317 ATATAA-TATTTTTA-ATTGA-A
1 ATATAATTAAAATCATTTTGATT
11394337 ATATAATTAAAATCATTTTGATT
1 ATATAATTAAAATCATTTTGATT
11394360 ATATAAT
1 ATATAAT
11394367 ATTAATATAA
Statistics
Matches: 35, Mismatches: 12, Indels: 6
0.66 0.23 0.11
Matches are distributed among these distances:
20 6 0.17
21 8 0.23
22 8 0.23
23 13 0.37
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (23 bp):
ATATAATTAAAATCATTTTGATT
Found at i:11394393 original size:43 final size:41
Alignment explanation
Indices: 11394288--11394393 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 41
11394278 TTTAAGGTAT
11394288 ATTAAAATATAATTAAAATCATTTTGATTATATAATATTTTTA
1 ATTAAAATATAATTAAAATCATTTTGATTATATAATA--TTTA
*
11394331 ATTGAAATATAATTAAAATCATTTTGATTATATAATA-TTA
1 ATTAAAATATAATTAAAATCATTTTGATTATATAATATTTA
*
11394371 ATATAAAACTATACATTTAAATC
1 AT-TAAAA-TATA-ATTAAAATC
11394394 CAAAATATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
40 5 0.09
41 4 0.07
42 4 0.07
43 44 0.77
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (41 bp):
ATTAAAATATAATTAAAATCATTTTGATTATATAATATTTA
Found at i:11395162 original size:64 final size:65
Alignment explanation
Indices: 11395094--11395216 Score: 187
Period size: 64 Copynumber: 1.9 Consensus size: 65
11395084 CTCTCAATTA
*
11395094 TTTTT-ATAAAATTTAATTTGCAACTTCAATTCTTTGATAGTGTGTTCTAA-ATTAATATTGTTT
1 TTTTTGATAAAATGTAA-TTGCAACTTCAATTCTTTGATAGTGTGTTCTAATATTAATATTGTTT
11395157 T
65 T
** *
11395158 TTTTTGATAATGTGTAATTGCAACTTCAATTCTTTGATAGTGTGTTCTAATTTTAATAT
1 TTTTTGATAAAATGTAATTGCAACTTCAATTCTTTGATAGTGTGTTCTAATATTAATAT
11395217 GTTGCAGTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
64 38 0.72
65 15 0.28
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.52
Consensus pattern (65 bp):
TTTTTGATAAAATGTAATTGCAACTTCAATTCTTTGATAGTGTGTTCTAATATTAATATTGTTTT
Found at i:11396633 original size:11 final size:11
Alignment explanation
Indices: 11396617--11396643 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11396607 TAGAAATTAG
11396617 TTTGTGAAACT
1 TTTGTGAAACT
11396628 TTTGTGAAACT
1 TTTGTGAAACT
11396639 TTTGT
1 TTTGT
11396644 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:11396655 original size:12 final size:12
Alignment explanation
Indices: 11396638--11396671 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
11396628 TTTGTGAAAC
11396638 TTTTGTATTGAT
1 TTTTGTATTGAT
11396650 TTTTGTATTGAT
1 TTTTGTATTGAT
11396662 TTTTGTATTG
1 TTTTGTATTG
11396672 TACTAAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.15, C:0.00, G:0.18, T:0.68
Consensus pattern (12 bp):
TTTTGTATTGAT
Found at i:11398192 original size:91 final size:91
Alignment explanation
Indices: 11398063--11398270 Score: 319
Period size: 91 Copynumber: 2.3 Consensus size: 91
11398053 TTGATTTTAG
* *
11398063 TAAATTCATATAA-AAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAATTTA
1 TAAATTCATATAAGAAA-A-TTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTA
* * *
11398127 TATTTAATATTAATTATTTTAAATTGTA
64 TATGTAATAATAATTATTTTAAATTATA
*
11398155 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
11398220 TGTAATAATAATTATTTTATATTATA
66 TGTAATAATAATTATTTTAAATTATA
*
11398246 AAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
11398271 GTTATAATTA
Statistics
Matches: 107, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
91 90 0.84
92 14 0.13
93 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:11398221 original size:28 final size:26
Alignment explanation
Indices: 11398185--11398245 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 26
11398175 TATTATCAAG
* *
11398185 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATA-ATTATT-TTA
*
11398213 AATTATATGTAATAATAATTATTTTA
1 AATTATATGAAATAATAATTATTTTA
*
11398239 TATTATA
1 AATTATA
11398246 AAAATTCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 9 0.31
27 6 0.21
28 14 0.48
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (26 bp):
AATTATATGAAATAATAATTATTTTA
Found at i:11398410 original size:120 final size:120
Alignment explanation
Indices: 11398286--11398942 Score: 1156
Period size: 120 Copynumber: 5.5 Consensus size: 120
11398276 AATTATTTTA
* *
11398286 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATCTTT
11398350 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
11398406 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
11398471 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
11398526 AATTTTATTAAATTATATATTTTAATT-AAATATATTTAATAATAATTATGTTAACTTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
11398590 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
11398645 AATTTTATTAAATTATATATTTTAATTATAATTTATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
*
11398710 ATAGTACCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
11398765 AATTATATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
* * * *
11398830 ATAGTGTCATATATTATGATTTCAGTAAATTCATATAAAAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
11398885 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
11398943 ATGATTAAAT
Statistics
Matches: 518, Mismatches: 16, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
119 118 0.23
120 392 0.76
121 8 0.02
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:11398435 original size:18 final size:17
Alignment explanation
Indices: 11398407--11398441 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11398397 ATTATTAAGA
*
11398407 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11398424 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11398442 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11398547 original size:17 final size:17
Alignment explanation
Indices: 11398527--11398560 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11398517 ATTATTAAGA
11398527 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
11398544 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
11398561 TTAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:11398695 original size:239 final size:239
Alignment explanation
Indices: 11398286--11398942 Score: 1163
Period size: 239 Copynumber: 2.7 Consensus size: 239
11398276 AATTATTTTA
* *
11398286 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATT-AAATATATTTAATAATAATTATGTT-AAATTATCTTT
11398350 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
64 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
* *
11398415 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGTATCA
129 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGTACCA
11398480 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
194 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
11398526 AATTTTATTAAATTATATATTTTAATTAAATATATTTAATAATAATTATGTTAACTTATCTTTTA
1 AATTTTATTAAATTATATATTTTAATTAAATATATTTAATAATAATTATGTTAAATTATCTTTTA
11398591 TAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
66 TAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
*
11398656 ATTATATATTTTAATTATAATTTATTTAATAATAATTATGTTAAATTATCTTTTATAGTACCATA
131 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGTACCATA
11398721 TATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
196 TATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
11398765 AATTATATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTA-AATATATTTAATAATAATTATGTTAAATTATCTTTT
* * * *
11398830 ATAGTGTCATATATTATGATTTCAGTAAATTCATATAAAAATATTGATTATTAAGAATTTTATTA
65 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
11398895 AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
130 AATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
11398943 ATGATTAAAT
Statistics
Matches: 400, Mismatches: 14, Indels: 5
0.95 0.03 0.01
Matches are distributed among these distances:
239 231 0.58
240 163 0.41
241 6 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (239 bp):
AATTTTATTAAATTATATATTTTAATTAAATATATTTAATAATAATTATGTTAAATTATCTTTTA
TAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGTACCATA
TATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:11398708 original size:359 final size:360
Alignment explanation
Indices: 11398286--11398937 Score: 1173
Period size: 359 Copynumber: 1.8 Consensus size: 360
11398276 AATTATTTTA
*
11398286 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATCTTTT
* *
11398351 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
66 ATAGTACCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTATATTA
*
11398416 AATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGTATCAT
131 AATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCAT
* *
11398481 ATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAT
196 ATATTATGATTTCAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAAATTATATAT
11398546 TTTAATTA-AATATATTTAATAATAATTATGTTAACTTATCTTTTATAGTATCATATATTATGAT
261 TTTAATTATAATATATTTAATAATAATTATGTTAACTTATCTTTTATAGTATCATATATTATGAT
11398610 TTGAGTAAATTCATATAAGAATATTAATTATTAAG
326 TTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
11398645 AATTTTATTAAATTATATATTTTAATTATAATTTATTTAATAATAATTATGTT-AAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATCTTT
11398709 TATAGTACCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTATATT
65 TATAGTACCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTATATT
* *
11398774 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTGTCA
130 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCA
*
11398839 TATATTATGATTTCAGTAAATTCATATAAAAATATTGATTATTAAGAATTTTATTAAATTATATA
195 TATATTATGATTTCAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAAATTATATA
11398904 TTTTAATTATAATATATTTAATAATAATTATGTT
260 TTTTAATTATAATATATTTAATAATAATTATGTT
11398938 TAAATATGAT
Statistics
Matches: 279, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
359 253 0.91
360 26 0.09
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (360 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATCTTTT
ATAGTACCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTATATTA
AATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCAT
ATATTATGATTTCAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAAATTATATAT
TTTAATTATAATATATTTAATAATAATTATGTTAACTTATCTTTTATAGTATCATATATTATGAT
TTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:11398800 original size:16 final size:16
Alignment explanation
Indices: 11398779--11398825 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
11398769 ATATTAAATT
11398779 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
11398795 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
11398810 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
11398826 TTTTATAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:11398920 original size:16 final size:16
Alignment explanation
Indices: 11398899--11398940 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11398889 TTATTAAATT
*
11398899 ATATATTTTAATTATA
1 ATATATTTTAATAATA
11398915 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
11398930 AT-TATGTTTAA
1 ATATAT-TTTAA
11398941 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:11398925 original size:15 final size:15
Alignment explanation
Indices: 11398890--11398931 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11398880 TTAAGAATTT
*
11398890 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11398904 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11398918 TATTTAATAATAAT
1 TATTTAATTATAAT
11398932 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:11403144 original size:25 final size:25
Alignment explanation
Indices: 11403113--11403186 Score: 130
Period size: 25 Copynumber: 3.0 Consensus size: 25
11403103 GTTGAAAATT
11403113 GTATGCTCTCACGAGCTATAAATCG
1 GTATGCTCTCACGAGCTATAAATCG
* *
11403138 GTATGCTCTCACAAGCTATAAATTG
1 GTATGCTCTCACGAGCTATAAATCG
11403163 GTATGCTCTCACGAGCTATAAATC
1 GTATGCTCTCACGAGCTATAAATC
11403187 AATAACCCTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATAAATCG
Found at i:11405061 original size:15 final size:15
Alignment explanation
Indices: 11404981--11405068 Score: 61
Period size: 15 Copynumber: 5.5 Consensus size: 15
11404971 CTTTATTTTC
*
11404981 TTTTATTATATTTAT
1 TTTTATTATTTTTAT
*
11404996 TATTATT-TGTTTTAT
1 TTTTATTAT-TTTTAT
* *
11405011 TTTTCCTATATTTCTTAG
1 TTTT-AT-TATTT-TTAT
11405029 TTTTATTATCATTGTTAT
1 TTTTATTAT--TT-TTAT
11405047 TTTTATTATTTTTAT
1 TTTTATTATTTTTAT
*
11405062 TCTTATT
1 TTTTATT
11405069 TTTAGTTCTA
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
14 1 0.02
15 24 0.42
16 6 0.11
17 4 0.07
18 22 0.39
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTTATTATTTTTAT
Found at i:11419258 original size:19 final size:19
Alignment explanation
Indices: 11419234--11419270 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11419224 GCATGACCTC
11419234 TATATGCACCTGAACGATG
1 TATATGCACCTGAACGATG
*
11419253 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
11419271 AATATTTTAT
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:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TATATGCACCTGAACGATG
Found at i:11421282 original size:120 final size:120
Alignment explanation
Indices: 11421180--11421463 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
11421170 TAATTGAAAA
* * *
11421180 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
* *
11421244 TTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATATTTAATATTAAGAATTTTATTAAAT
* * *
11421299 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
*
11421364 TTATGATTTCAGTAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
*
11421419 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
11421464 ATGATTAAAT
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 131 0.87
121 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
TTATGATTTCAGAAAATTAATATAAGAATATTTAATATTAAGAATTTTATTAAAT
Found at i:11421313 original size:18 final size:17
Alignment explanation
Indices: 11421287--11421321 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11421277 AATATTAAGA
*
11421287 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11421304 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11421322 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11421435 original size:18 final size:17
Alignment explanation
Indices: 11421407--11421441 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11421397 ATTATTAAGA
*
11421407 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11421424 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11421442 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11421441 original size:16 final size:16
Alignment explanation
Indices: 11421407--11421461 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
11421397 ATTATTAAGA
11421407 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
11421424 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
11421440 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
11421454 ATGTTTAA
1 AT-TTTAA
11421462 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:11421698 original size:16 final size:16
Alignment explanation
Indices: 11421677--11421744 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
11421667 GATTTGCTAT
11421677 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
11421693 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
11421709 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11421725 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11421741 TACA
1 TACA
11421745 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11428812 original size:15 final size:15
Alignment explanation
Indices: 11428794--11428834 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
11428784 TACTTGTAAA
*
11428794 TATTGTAATTTCATG
1 TATTGTAATTTCAAG
* *
11428809 TATTTTGATTTCAAG
1 TATTGTAATTTCAAG
11428824 TATTGTAATTT
1 TATTGTAATTT
11428835 GGATTTTTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (15 bp):
TATTGTAATTTCAAG
Found at i:11434602 original size:15 final size:17
Alignment explanation
Indices: 11434566--11434603 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
11434556 AGACTCGAAT
*
11434566 ACACATGTAACTACACC
1 ACACAGGTAACTACACC
11434583 ACACAGGTAACTACACC
1 ACACAGGTAACTACACC
11434600 ACAC
1 ACAC
11434604 TATTTGCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.37, G:0.08, T:0.13
Consensus pattern (17 bp):
ACACAGGTAACTACACC
Found at i:11439846 original size:17 final size:20
Alignment explanation
Indices: 11439807--11439851 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 20
11439797 GTTGGGAAAC
11439807 ATTTATTTTAGTGTTATTAAT
1 ATTT-TTTTAGTGTTATTAAT
11439828 ATTTTTTTA-TG-TATT-AT
1 ATTTTTTTAGTGTTATTAAT
11439845 ATTTTTT
1 ATTTTTT
11439852 AAAAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.38
18 4 0.17
19 2 0.08
20 5 0.21
21 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (20 bp):
ATTTTTTTAGTGTTATTAAT
Found at i:11449664 original size:23 final size:23
Alignment explanation
Indices: 11449633--11449683 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
11449623 ACCTACTTTC
* * *
11449633 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCAGGATA
11449656 TTACAGTAGTAATTTTCAGGATA
1 TTACAGTAGTAATTTTCAGGATA
11449679 TTACA
1 TTACA
11449684 ATCTTCATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCAGGATA
Found at i:11451866 original size:26 final size:26
Alignment explanation
Indices: 11451834--11451949 Score: 117
Period size: 26 Copynumber: 4.5 Consensus size: 26
11451824 ATGTTGGAAA
*
11451834 AGCAGGCCTTGAGCCGGTGGTTATTT
1 AGCAGGCCTTGAGCCGATGGTTATTT
* *
11451860 AGTAGGCCTCGAGCCGATGGTTATTT
1 AGCAGGCCTTGAGCCGATGGTTATTT
* * *
11451886 AGCAGGACTTGAGTC-AGTGTTTATTT
1 AGCAGGCCTTGAGCCGA-TGGTTATTT
* * * **
11451912 AACATGCCTTTAGCCGATTTTTATTT
1 AGCAGGCCTTGAGCCGATGGTTATTT
11451938 AGCAGGCCTTGA
1 AGCAGGCCTTGA
11451950 ACTAGTGTTT
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
25 1 0.01
26 69 0.97
27 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (26 bp):
AGCAGGCCTTGAGCCGATGGTTATTT
Found at i:11451912 original size:52 final size:52
Alignment explanation
Indices: 11451834--11451970 Score: 150
Period size: 52 Copynumber: 2.6 Consensus size: 52
11451824 ATGTTGGAAA
* * * *
11451834 AGCAGGCCTTGAGCCGGTGGTTATTTAGTAGGCCTCGAGCCGATGGTTATTT
1 AGCAGGCCTTGAGACAGTGTTTATTTAGCAGGCCTCGAGCCGATGGTTATTT
* * * * ** **
11451886 AGCAGGACTTGAGTCAGTGTTTATTTAACATGCCTTTAGCCGATTTTTATTT
1 AGCAGGCCTTGAGACAGTGTTTATTTAGCAGGCCTCGAGCCGATGGTTATTT
11451938 AGCAGGCCTTGA-ACTAGTGTTTATTTAGCAGGC
1 AGCAGGCCTTGAGAC-AGTGTTTATTTAGCAGGC
11451971 TTTAAGCTGG
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
51 1 0.01
52 68 0.99
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (52 bp):
AGCAGGCCTTGAGACAGTGTTTATTTAGCAGGCCTCGAGCCGATGGTTATTT
Found at i:11451988 original size:26 final size:26
Alignment explanation
Indices: 11451933--11451988 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
11451923 AGCCGATTTT
*
11451933 TATTTAGCAGGCCTTGAACTAGTGTT
1 TATTTAGCAGGCCTTGAACTAGTGTA
* *
11451959 TATTTAGCAGG-CTTTAAGCTGGTGTA
1 TATTTAGCAGGCCTTGAA-CTAGTGTA
11451985 TATT
1 TATT
11451989 ATCAGGTACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.41
Consensus pattern (26 bp):
TATTTAGCAGGCCTTGAACTAGTGTA
Found at i:11455834 original size:34 final size:34
Alignment explanation
Indices: 11455791--11455879 Score: 151
Period size: 34 Copynumber: 2.6 Consensus size: 34
11455781 ACATATACAA
11455791 ATATCATATCAGAATGTCATATTACTAGAAACAT
1 ATATCATATCAGAATGTCATATTACTAGAAACAT
*
11455825 ATATCATATCAGAATGTCATATTTCTAGAAACAT
1 ATATCATATCAGAATGTCATATTACTAGAAACAT
* *
11455859 ATATCATATCAAAATTTCATA
1 ATATCATATCAGAATGTCATA
11455880 ACAAATCAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.35
Consensus pattern (34 bp):
ATATCATATCAGAATGTCATATTACTAGAAACAT
Found at i:11479328 original size:23 final size:22
Alignment explanation
Indices: 11479298--11479342 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11479288 AAATTAAATC
11479298 TCTAAGATTACAAAATCATATCT
1 TCTAAGATT-CAAAATCATATCT
* *
11479321 TCTAAGATTCCATATCATATCT
1 TCTAAGATTCAAAATCATATCT
11479343 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (22 bp):
TCTAAGATTCAAAATCATATCT
Found at i:11479980 original size:130 final size:132
Alignment explanation
Indices: 11479803--11480191 Score: 559
Period size: 130 Copynumber: 3.0 Consensus size: 132
11479793 CACTGCAACT
* * * *
11479803 TCAGGGAGATAAGG-CTGGTGACTTAAATATGCTTCCCTACTACCTCGGGAAGATAAGACTCACC
1 TCAGGGAGA-GAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACC
* * *
11479867 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGAGAGGATATACAATCCTCAACCTACTCCACTAC
65 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTAC
11479932 TGC
130 TGC
* * * * *
11479935 TGAGGGAGAGAGGAC-GGTGGCTTAAATCTACTT-CCTACTATCTCGGGAAGATAACATTCGCCG
1 TCAGGGAGAGAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCG
* * *
11479998 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTGCT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACT
11480063 GC
131 GC
* * *
11480065 TCAGGGAGATAGGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCG
1 TCAGGGAGAGAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCG
* * *
11480130 TCTTTGATCTGCTCCACTATTGCTTAGGGAGACAGGATCTATAATCTTCAACCTACCCCACT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACT
11480192 GCAAACTCAG
Statistics
Matches: 226, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
130 99 0.44
131 35 0.15
132 92 0.41
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (132 bp):
TCAGGGAGAGAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCG
TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACT
GC
Found at i:11480320 original size:89 final size:89
Alignment explanation
Indices: 11480187--11480524 Score: 399
Period size: 89 Copynumber: 3.8 Consensus size: 89
11480177 TCAACCTACC
* * * *
11480187 CCACTGCAAACTCAGAGAGGCAAGGCTGGTGTTTTCGATATGCTTCACTGCCAATACAGGAAGAC
1 CCACTGTAAACTCAGAGAGGCAAGGATGGTGTCTTCGATTTGCTTCACTGCCAATACAGGAAGAC
*
11480252 AAGATCTACTGTTTTCAGTCTGCT
66 AAGATCTGCTGTTTTCAGTCTGCT
* * * * * *
11480276 CCATTGTAAACTTAGAGAGGTAAGGATGGTGTCTTCGGTTTGCTTCACTGCCAATGCAGTAAGAC
1 CCACTGTAAACTCAGAGAGGCAAGGATGGTGTCTTCGATTTGCTTCACTGCCAATACAGGAAGAC
*
11480341 AAGATCTGTTGTTTTCAGTCTGCT
66 AAGATCTGCTGTTTTCAGTCTGCT
* * * *
11480365 CCACTGTAAAATCA-AGGAAGTAAGGATGGTGTCTTCGGTTTGCTTCACTGCCAATACAGGAAGA
1 CCACTGTAAACTCAGA-GAGGCAAGGATGGTGTCTTCGATTTGCTTCACTGCCAATACAGGAAGA
* * *
11480429 CAAGATCTGCTATCTACAGTCTGCT
65 CAAGATCTGCTGTTTTCAGTCTGCT
** * * ** * * * *
11480454 CTGCTGCAAACTCAGGGAGGCAAGGCGGGTGTCTTCGATCTGCTTCGCTACCAATACAGGAAGAT
1 CCACTGTAAACTCAGAGAGGCAAGGATGGTGTCTTCGATTTGCTTCACTGCCAATACAGGAAGAC
11480519 AAGATC
66 AAGATC
11480525 GGCTATCGTC
Statistics
Matches: 211, Mismatches: 36, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
88 1 0.00
89 210 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (89 bp):
CCACTGTAAACTCAGAGAGGCAAGGATGGTGTCTTCGATTTGCTTCACTGCCAATACAGGAAGAC
AAGATCTGCTGTTTTCAGTCTGCT
Found at i:11480623 original size:44 final size:42
Alignment explanation
Indices: 11480573--11480720 Score: 147
Period size: 44 Copynumber: 3.4 Consensus size: 42
11480563 AATCTGACCT
*
11480573 ACTGCAACTTCAGAGG-TATAGGATTCATCATTTTAATCCGCTCC
1 ACTGCAACTTCAG-GGAAATAGGATT-AT-ATTTTAATCCGCTCC
* * * *
11480617 ACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCCGCTAC
1 ACTGCAACTTCAGGGAAATAGGATTA-TA-TTTTAATCCGCTCC
* *
11480661 ACTGCAACTTCAGGGAAATAAGATTGGTATTTTCAA-CCTGCTCC
1 ACTGCAACTTCAGGGAAATAGGATT-ATATTTT-AATCC-GCTCC
11480705 ACTGCAACTTCAGGGA
1 ACTGCAACTTCAGGGA
11480721 GATAAGGTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
43 8 0.09
44 80 0.91
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (42 bp):
ACTGCAACTTCAGGGAAATAGGATTATATTTTAATCCGCTCC
Found at i:11480726 original size:44 final size:44
Alignment explanation
Indices: 11480607--11480950 Score: 175
Period size: 44 Copynumber: 7.7 Consensus size: 44
11480597 TCATCATTTT
*
11480607 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * **
11480651 AATCCGCTACACTGCAACTTCAGGGAAATAAGATTGGTATTTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* *
11480695 AA-CCTGCTCCACTGCAACTTCAGGGAGATAAGGTT--T-GATGT-
1 AATCC-GCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCT-TC
* * * * * * *
11480736 GATCTGCTCTACTACAACTTCAGAGAGATAAGATCTTATGATTTATAACTTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGA--TTA-G-----TAGCTTC
* *** * * * ** * *
11480788 GATCTATTCCACTGCAATATTTAGGGAAACGAGATTTGCTATCTTC
1 AATCCGCTCCACTGCAA-CTTCAGGGAGATAAGATTAG-TAGCTTC
* * * *
11480834 AGTCTGCTCCACTACAACTTCAGGGAGATAAGACTT--CA-CTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTC
* * * *
11480876 AATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATTAGCTTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* *
11480920 AATCTGCTCTACTAG-AACTTCAGGGAGATAA
1 AATCCGCTCCACT-GCAACTTCAGGGAGATAA
11480951 AATTTTCCAT
Statistics
Matches: 224, Mismatches: 55, Indels: 42
0.70 0.17 0.13
Matches are distributed among these distances:
41 28 0.12
42 35 0.16
43 6 0.03
44 95 0.42
45 12 0.05
46 19 0.08
50 1 0.00
51 4 0.02
52 14 0.06
53 10 0.04
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
Found at i:11480885 original size:42 final size:44
Alignment explanation
Indices: 11480830--11480950 Score: 138
Period size: 42 Copynumber: 2.8 Consensus size: 44
11480820 GATTTGCTAT
*
11480830 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACT-TCA-
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTATCAG
* * * * * *
11480872 CTTCAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATTAG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTATCAG
* * *
11480916 CTTTAATCTGCTCTACTAGAACTTCAGGGAGATAA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAA
11480951 AATTTTCCAT
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
42 33 0.52
43 2 0.03
44 28 0.44
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTATCAG
Found at i:11480973 original size:225 final size:225
Alignment explanation
Indices: 11480612--11481092 Score: 585
Period size: 225 Copynumber: 2.1 Consensus size: 225
11480602 ATTTTAATCC
* *
11480612 GCTCCACTGCAACTTCAGGGAGATAGGA-TTAGTAGCTTCAATCCGCTACACTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTA-CAGCTTCAATCCGCTACACTGCAACTTCAGGG
* * ** **
11480676 AAATAAGATTGGTATTTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGATGTGATCT
65 AAATAAGATTAGTACTTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAAATTTGACATGATCT
* * *
11480741 GCTCTACTACAACTTCAGAGAGATAAGATCTTATGATTTATAACTTTGATCTATTCCACTGCAAT
130 ACTCTACTACAACTTCAGAGAGATAAGATC-TATGATTTATAACTTTAATCTATTCCACTGC-AG
* * * *
11480806 ATTTAGGGAAACGAGATTTGCTATCTTCAGTCT
193 ATTCAAGAAAACGAGATTCGCTATCTTCAGTCT
* * *
11480839 GCTCCACTACAACTTCAGGGAGATAAGACTT-CA-CTTCAATCCGCTCCACTGCAACTTTAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTACAGCTTCAATCCGCTACACTGCAACTTCAGGGA
* * * * * **
11480902 GATAGGATTATTAGCTTT-AATCTGCTCTACTAG-AACTTCAGGGAGATAAAATTTTCCATGATC
66 AATAAGATTAGTA-CTTTCAACCTGCTCCACT-GCAACTTCAGGGAGATAAAATTTGACATGATC
* * * * *
11480965 TACTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTATTCTACTGCAGC
129 TACTCTACTACAACTTCAGAGAGATAAGATCTATGATTTATAACTTTAATCTATTCCACTGCAGA
*
11481030 TTCAAGAAAATGAGATTCGCTATCTTCAGTCT
194 TTCAAGAAAACGAGATTCGCTATCTTCAGTCT
* *
11481062 GCCCCACTGCAACTTCAGGGGGATAAGACTT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTT
11481093 TCTTTCTTCA
Statistics
Matches: 217, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
223 56 0.26
224 27 0.12
225 101 0.47
226 5 0.02
227 26 0.12
228 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (225 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTTACAGCTTCAATCCGCTACACTGCAACTTCAGGGA
AATAAGATTAGTACTTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAAATTTGACATGATCTA
CTCTACTACAACTTCAGAGAGATAAGATCTATGATTTATAACTTTAATCTATTCCACTGCAGATT
CAAGAAAACGAGATTCGCTATCTTCAGTCT
Found at i:11481158 original size:44 final size:45
Alignment explanation
Indices: 11481103--11481467 Score: 329
Period size: 44 Copynumber: 8.2 Consensus size: 45
11481093 TCTTTCTTCA
* *
11481103 ATAAGACTTGTAACTTTAATTC-ACTCCACTGCAACTTCAGGGAG
1 ATAAGATTTGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
* *
11481147 ATAAGATTTGTAGCTTTAA-TCTGCTCCACTGTAACTTCAGGGAG
1 ATAAGATTTGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
* * *
11481191 ATAAGATTTTTAACTTTAA-TCTGCTCCACAGCAACTTCAGTGAG
1 ATAAGATTTGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
* *
11481235 ATAGGATTAT-TGACTTTAA-TCTGCTCCACTGCAACTTCAGGGAG
1 ATAAGATT-TGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
* * * * *
11481279 ATAGGATTAT-TGACTTTAA-TATGCTCCTCTACAACTTCAGGGAG
1 ATAAGATT-TGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
* * * *
11481323 ATAAGATTTGCCATCTTT-AGTCTGCCCCACTGCAACTTCAGCGG-G
1 ATAAGATTTG-TAACTTTAATTCTGCTCCACTGCAACTTCAG-GGAG
* ** * * * * * *
11481368 ATAAGACTTGCTTTC-TTCAGTCTGCTCTACTACAACTTTAAGGAG
1 ATAAGATTTG-TAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
* * *
11481413 ATAAGACTTGTAACTTTAA-TCCGCTCCACTGCAACCTCAGGGAG
1 ATAAGATTTGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
*
11481457 ATAGGATTTGT
1 ATAAGATTTGT
11481468 GGTTTCACCG
Statistics
Matches: 269, Mismatches: 43, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
43 3 0.01
44 197 0.73
45 67 0.25
46 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
ATAAGATTTGTAACTTTAATTCTGCTCCACTGCAACTTCAGGGAG
Found at i:11487744 original size:15 final size:16
Alignment explanation
Indices: 11487726--11487758 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11487716 AAATGTAAAA
11487726 AAATTTAAAAAT-AAT
1 AAATTTAAAAATGAAT
*
11487741 AAATTTGAAAATGAAT
1 AAATTTAAAAATGAAT
11487757 AA
1 AA
11487759 TAAGGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
AAATTTAAAAATGAAT
Found at i:11488598 original size:21 final size:23
Alignment explanation
Indices: 11488572--11488616 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
11488562 AAAGGGTATC
*
11488572 TACAAATTAA-ATC-TCTAAGAT
1 TACAAAATAATATCTTCTAAGAT
11488593 TACAAAATAATATCTTCTAAGAT
1 TACAAAATAATATCTTCTAAGAT
11488616 T
1 T
11488617 GCATATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 3 0.14
23 9 0.43
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (23 bp):
TACAAAATAATATCTTCTAAGAT
Found at i:11489705 original size:40 final size:40
Alignment explanation
Indices: 11489660--11489868 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
11489650 AATGTACGAT
* * * **
11489660 CAGGGGCACCAAAGTGCAAACAGGGGCACAGATGTGCATT
1 CAGGGGCACCGAAGTACAAACAGGGGCACTGATGTGCAAA
* * * * * *
11489700 TAGGGGCACCCAAG-AGCAAGCAGAGACACTGATATGCAAA
1 CAGGGGCACCGAAGTA-CAAACAGGGGCACTGATGTGCAAA
* * *
11489740 CAGGGGTACCGAAGTACAATCAGGGGCACTGATATGCAAA
1 CAGGGGCACCGAAGTACAAACAGGGGCACTGATGTGCAAA
* * *
11489780 CAGGGGTACCGAAGTACAAACAGAGGTACTGATGTGCAAA
1 CAGGGGCACCGAAGTACAAACAGGGGCACTGATGTGCAAA
* * * *
11489820 TAGGGGTACCAAAGTACAAATAGGGGCACTGATGTGCAAA
1 CAGGGGCACCGAAGTACAAACAGGGGCACTGATGTGCAAA
11489860 CAGGGGCAC
1 CAGGGGCAC
11489869 TTCTTCATTT
Statistics
Matches: 140, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
40 139 0.99
41 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.31, T:0.13
Consensus pattern (40 bp):
CAGGGGCACCGAAGTACAAACAGGGGCACTGATGTGCAAA
Found at i:11489744 original size:80 final size:80
Alignment explanation
Indices: 11489660--11489868 Score: 249
Period size: 80 Copynumber: 2.6 Consensus size: 80
11489650 AATGTACGAT
* * * *** *
11489660 CAGGGGCACCAAAGTGCAAACAGGGGCACAGATGTGCATTTAGGGGCACCCAAG-AGCAAGCAGA
1 CAGGGGTACCAAAGTACAAACAGGGGCACTGATGTGCAAACAGGGGCACCCAAGTA-CAAACAGA
11489724 GACACTGATATGCAAA
65 GACACTGATATGCAAA
* * * * *
11489740 CAGGGGTACCGAAGTACAATCAGGGGCACTGATATGCAAACAGGGGTACCGAAGTACAAACAGAG
1 CAGGGGTACCAAAGTACAAACAGGGGCACTGATGTGCAAACAGGGGCACCCAAGTACAAACAGAG
** *
11489805 GTACTGATGTGCAAA
66 ACACTGATATGCAAA
* *
11489820 TAGGGGTACCAAAGTACAAATAGGGGCACTGATGTGCAAACAGGGGCAC
1 CAGGGGTACCAAAGTACAAACAGGGGCACTGATGTGCAAACAGGGGCAC
11489869 TTCTTCATTT
Statistics
Matches: 107, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 106 0.99
81 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.31, T:0.13
Consensus pattern (80 bp):
CAGGGGTACCAAAGTACAAACAGGGGCACTGATGTGCAAACAGGGGCACCCAAGTACAAACAGAG
ACACTGATATGCAAA
Found at i:11489869 original size:20 final size:20
Alignment explanation
Indices: 11489673--11489869 Score: 115
Period size: 20 Copynumber: 9.8 Consensus size: 20
11489663 GGGCACCAAA
*
11489673 GTGCAAACAGGGGCACAGAT
1 GTGCAAACAGGGGCACTGAT
*** ** *
11489693 GTGCATTTAGGGGCACCCAA
1 GTGCAAACAGGGGCACTGAT
* * * *
11489713 GAGCAAGCAGAGACACTGAT
1 GTGCAAACAGGGGCACTGAT
* * * *
11489733 ATGCAAACAGGGGTACCGAA
1 GTGCAAACAGGGGCACTGAT
* *
11489753 GTACAATCAGGGGCACTGAT
1 GTGCAAACAGGGGCACTGAT
* * * *
11489773 ATGCAAACAGGGGTACCGAA
1 GTGCAAACAGGGGCACTGAT
* * *
11489793 GTACAAACAGAGGTACTGAT
1 GTGCAAACAGGGGCACTGAT
* * ** *
11489813 GTGCAAATAGGGGTACCAAA
1 GTGCAAACAGGGGCACTGAT
* *
11489833 GTACAAATAGGGGCACTGAT
1 GTGCAAACAGGGGCACTGAT
11489853 GTGCAAACAGGGGCACT
1 GTGCAAACAGGGGCACT
11489870 TCTTCATTTT
Statistics
Matches: 124, Mismatches: 53, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 124 1.00
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.15
Consensus pattern (20 bp):
GTGCAAACAGGGGCACTGAT
Found at i:11498899 original size:14 final size:14
Alignment explanation
Indices: 11498880--11498908 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11498870 TTGTGGGAGA
11498880 TTGAGTTAGCTAGC
1 TTGAGTTAGCTAGC
11498894 TTGAGTTAGCTAGC
1 TTGAGTTAGCTAGC
11498908 T
1 T
11498909 CATGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.38
Consensus pattern (14 bp):
TTGAGTTAGCTAGC
Found at i:11506066 original size:50 final size:50
Alignment explanation
Indices: 11505963--11506204 Score: 209
Period size: 50 Copynumber: 4.7 Consensus size: 50
11505953 GGGAATGAGA
**
11505963 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGAG---ATGAGAGG
*
11506019 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * * **
11506069 TCCCCCGTATGACCATGTCTGGGGCATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * ** * * **
11506119 TCCCATGTAAGACCATATCTGGTG-TATGACATTGACA-ATACATGAAACA
1 TCCCATGTAAGACCATGTCTGG-GACATGGCATTGGCACCGAGATGAGAGG
*
11506168 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
11506205 TGTTATTATC
Statistics
Matches: 153, Mismatches: 31, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
48 1 0.01
49 36 0.24
50 76 0.50
51 1 0.01
53 4 0.03
56 35 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:11506432 original size:20 final size:20
Alignment explanation
Indices: 11506407--11506445 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
11506397 TGAGTTATTT
11506407 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
11506427 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
11506446 GAAGACAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:11513709 original size:57 final size:60
Alignment explanation
Indices: 11513643--11513754 Score: 167
Period size: 57 Copynumber: 1.9 Consensus size: 60
11513633 GTTAGATGGC
* *
11513643 TATTTTATAATTTTTTATAGTTGAATAAT-A-AAAA-AAATTTACTAATAATTGAGTATT
1 TATTTTATAATTTTTGATAGTTAAATAATCAGAAAATAAATTTACTAATAATTGAGTATT
**
11513700 TATTTTATAATTTTTGATAGTTAAATCGTCAGAAAATAAATTTACTAATAATTGA
1 TATTTTATAATTTTTGATAGTTAAATAATCAGAAAATAAATTTACTAATAATTGA
11513755 CAAACTATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
57 25 0.52
58 1 0.02
59 4 0.08
60 18 0.38
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.46
Consensus pattern (60 bp):
TATTTTATAATTTTTGATAGTTAAATAATCAGAAAATAAATTTACTAATAATTGAGTATT
Found at i:11515653 original size:21 final size:21
Alignment explanation
Indices: 11515628--11515667 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11515618 AATAGATAGC
* *
11515628 AAAACAATCGATTGAAAAGGA
1 AAAACAATCAATTAAAAAGGA
11515649 AAAACAATCAATTAAAAAG
1 AAAACAATCAATTAAAAAG
11515668 AGAAGAGAAA
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:0.62, C:0.10, G:0.12, T:0.15
Consensus pattern (21 bp):
AAAACAATCAATTAAAAAGGA
Found at i:11520887 original size:155 final size:158
Alignment explanation
Indices: 11520595--11520894 Score: 390
Period size: 155 Copynumber: 1.9 Consensus size: 158
11520585 ACTGTCATAG
11520595 CATCTTTCATTTATGGTCTTACACCGTATATATAATACCAAATACCTTGCACCCTTATCATTTAT
1 CATCTTTCATTTATGGTCTTACACCGTATATATAATACCAAATACCTTG---CCTTATC---TAT
* * * *
11520660 GACATCTTTCATCGATGGTCTTACACACTTGTCATTACCGTGTACCATGCCGCCTTGACATCTTT
60 GACATCTTTCATCAATGGTCTTACACACTTATCATTACCGTGTACCATACCGCCATGACATCTTT
11520725 CACCCATGGCCTTACTCATCATACTTGGTTGCCA
125 CACCCATGGCCTTACTCATCATACTTGGTTGCCA
** * * *
11520759 CATCTTTCATTTATGGTCTTACATTGTATATCTTATACCAAATACCTTG-C-TATC-ATGACGTC
1 CATCTTTCATTTATGGTCTTACACCGTATATATAATACCAAATACCTTGCCTTATCTATGACATC
* * * * * *
11520821 TTTCATTAATGGTCTTACGCCCTTATTATTACCGTGTACCATACTGCCATGACATCTTTCATCCA
66 TTTCATCAATGGTCTTACACACTTATCATTACCGTGTACCATACCGCCATGACATCTTTCACCCA
11520886 TGGCCTTAC
131 TGGCCTTAC
11520895 GCTGCGTACC
Statistics
Matches: 121, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
155 71 0.59
159 4 0.03
160 1 0.01
164 45 0.37
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (158 bp):
CATCTTTCATTTATGGTCTTACACCGTATATATAATACCAAATACCTTGCCTTATCTATGACATC
TTTCATCAATGGTCTTACACACTTATCATTACCGTGTACCATACCGCCATGACATCTTTCACCCA
TGGCCTTACTCATCATACTTGGTTGCCA
Found at i:11526697 original size:10 final size:10
Alignment explanation
Indices: 11526682--11526711 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11526672 TGATGAATTG
11526682 ATATTTGATT
1 ATATTTGATT
11526692 ATATTTGATT
1 ATATTTGATT
*
11526702 ATAATTGATT
1 ATATTTGATT
11526712 GAATTGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (10 bp):
ATATTTGATT
Found at i:11530331 original size:27 final size:27
Alignment explanation
Indices: 11530299--11530354 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
11530289 ACGACATTAT
**
11530299 AGATAGTCTTTCGGGACACTAAACACG
1 AGATAGTCCATCGGGACACTAAACACG
*
11530326 AGATAGTCCATCGGGACAGTAAACACG
1 AGATAGTCCATCGGGACACTAAACACG
11530353 AG
1 AG
11530355 GATTATGAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
AGATAGTCCATCGGGACACTAAACACG
Found at i:11543695 original size:16 final size:16
Alignment explanation
Indices: 11543674--11543706 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11543664 ACGACGGATC
11543674 AAGTACTAATGTGATA
1 AAGTACTAATGTGATA
11543690 AAGTACTAATGTGATA
1 AAGTACTAATGTGATA
11543706 A
1 A
11543707 GTGAGATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (16 bp):
AAGTACTAATGTGATA
Found at i:11544654 original size:11 final size:11
Alignment explanation
Indices: 11544620--11544657 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
11544610 AAGGATCTTT
11544620 TTTCCCAATTG
1 TTTCCCAATTG
**
11544631 TGCCCCAATTG
1 TTTCCCAATTG
11544642 TTTCCCAATTG
1 TTTCCCAATTG
11544653 TTTCC
1 TTTCC
11544658 TCAACAATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.42
Consensus pattern (11 bp):
TTTCCCAATTG
Found at i:11553832 original size:18 final size:18
Alignment explanation
Indices: 11553809--11553849 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
11553799 AAGGCAATCT
11553809 TGATTAAGAAAACCATCA
1 TGATTAAGAAAACCATCA
11553827 TGATTAAGAAAACCATCA
1 TGATTAAGAAAACCATCA
11553845 TGATT
1 TGATT
11553850 CGCATCTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (18 bp):
TGATTAAGAAAACCATCA
Found at i:11559295 original size:25 final size:25
Alignment explanation
Indices: 11559215--11559296 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
11559205 CAATAAACTT
*
11559215 GAGAATTCTTTAGAAA-CCTTTTGTG
1 GAGAATTCTTTGGAAAGCC-TTTGTG
*
11559240 GCA-AATTCTTTGGAAAGCTTTTGTG
1 G-AGAATTCTTTGGAAAGCCTTTGTG
* *
11559265 GTGAATTCTCTGGAAAGCCTTTGTG
1 GAGAATTCTTTGGAAAGCCTTTGTG
11559290 GAGAATT
1 GAGAATT
11559297 ATTGTTCCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
25 46 0.96
26 2 0.04
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (25 bp):
GAGAATTCTTTGGAAAGCCTTTGTG
Found at i:11571925 original size:44 final size:44
Alignment explanation
Indices: 11571842--11572069 Score: 212
Period size: 44 Copynumber: 5.1 Consensus size: 44
11571832 ACTAGATGCG
** *** *
11571842 ATCTTCGATCTACTTCACCACCAATATGGGAAAACAAGATCTGCT
1 ATCTTCGATCTACTTCA-TGCCAATACATGAAGACAAGATCTGCT
*
11571887 ATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTG-T
1 ATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCT
* ** *
11571930 CATCTTCGATCTACTTCACGCCAATATGTGAAGACAAGATCTACT
1 -ATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCT
* * * *
11571975 ACCTTTGATTTACTTCATGCCGATACATGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCT
* * *
11572019 TTCTTCAATCTACTT--TGCCACCA-ATATGGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCATGCCA--ATACAT--GAAGACAAGATCTGCT
11572064 ATCTTC
1 ATCTTC
11572070 AAACTGCTCC
Statistics
Matches: 149, Mismatches: 28, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
42 4 0.03
43 4 0.03
44 103 0.69
45 38 0.26
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (44 bp):
ATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCT
Found at i:11571992 original size:88 final size:88
Alignment explanation
Indices: 11571842--11572060 Score: 307
Period size: 88 Copynumber: 2.5 Consensus size: 88
11571832 ACTAGATGCG
* * *
11571842 ATCTTCGATCTACTTCACCACCAATATGGGAAAACAAGATCTGCTATCTTTGATCTACTTCATGC
1 ATCTTCGATCTACTTCA-CACCAATATGGGAAGACAAGATCTACTACCTTTGATCTACTTCATGC
11571907 CAATACATGAAGACAAGATCTG-T
65 CAATACATGAAGACAAGATCTGCT
* * *
11571930 CATCTTCGATCTACTTCACGCCAATATGTGAAGACAAGATCTACTACCTTTGATTTACTTCATGC
1 -ATCTTCGATCTACTTCACACCAATATGGGAAGACAAGATCTACTACCTTTGATCTACTTCATGC
*
11571995 CGATACATGAAGACAAGATCTGCT
65 CAATACATGAAGACAAGATCTGCT
* *
11572019 TTCTTCAATCTACTTTGC-CACCAATATGGGAAGACAAGATCT
1 ATCTTCGATCTAC-TT-CACACCAATATGGGAAGACAAGATCT
11572061 GCTATCTTCA
Statistics
Matches: 116, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
88 73 0.63
89 42 0.36
90 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (88 bp):
ATCTTCGATCTACTTCACACCAATATGGGAAGACAAGATCTACTACCTTTGATCTACTTCATGCC
AATACATGAAGACAAGATCTGCT
Found at i:11583639 original size:28 final size:27
Alignment explanation
Indices: 11583572--11583641 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
11583562 AGAATATGAT
* *
11583572 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
11583599 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
11583627 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
11583642 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:11583657 original size:55 final size:53
Alignment explanation
Indices: 11583517--11583668 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
11583507 TAAATTGTAC
* *
11583517 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
11583570 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
11583625 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
11583669 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:11583673 original size:27 final size:27
Alignment explanation
Indices: 11583518--11583673 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
11583508 AAATTGTACA
* *
11583518 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
11583545 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
11583572 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
11583599 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
11583627 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
11583654 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
11583674 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:11591698 original size:28 final size:27
Alignment explanation
Indices: 11591631--11591700 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
11591621 AGAATATGAT
* *
11591631 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
11591658 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
11591686 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
11591701 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:11591716 original size:55 final size:53
Alignment explanation
Indices: 11591576--11591727 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
11591566 TAAATTGTAC
* *
11591576 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
11591629 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
11591684 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
11591728 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:11591732 original size:27 final size:27
Alignment explanation
Indices: 11591577--11591732 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
11591567 AAATTGTACA
* *
11591577 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
11591604 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
11591631 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
11591658 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
11591686 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
11591713 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
11591733 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Done.