Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 46 of 59
Found at i:16662503 original size:26 final size:26
Alignment explanation
Indices: 16662473--16662531 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
16662463 ATTATATTGG
16662473 AAAATTCTGTTGGCAATACTATCTTT
1 AAAATTCTGTTGGCAATACTATCTTT
* * *
16662499 AAAATTTTTTTTGGTAATACTATCTTT
1 AAAA-TTCTGTTGGCAATACTATCTTT
16662526 AAAATT
1 AAAATT
16662532 TTTTTTCCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.47
Consensus pattern (26 bp):
AAAATTCTGTTGGCAATACTATCTTT
Found at i:16662517 original size:27 final size:27
Alignment explanation
Indices: 16662482--16662537 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
16662472 GAAAATTCTG
16662482 TTGGCAATACTATCTTTAAAATTTTTT
1 TTGGCAATACTATCTTTAAAATTTTTT
*
16662509 TTGGTAATACTATCTTTAAAATTTTTT
1 TTGGCAATACTATCTTTAAAATTTTTT
16662536 TT
1 TT
16662538 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.55
Consensus pattern (27 bp):
TTGGCAATACTATCTTTAAAATTTTTT
Found at i:16663870 original size:2 final size:2
Alignment explanation
Indices: 16663858--16663891 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
16663848 NNNNNNNNNN
*
16663858 AT AT AT GT AT AT AT AT AT AT A- AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16663892 AGTAGTACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16663884 original size:13 final size:13
Alignment explanation
Indices: 16663866--16663892 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16663856 NNATATATGT
16663866 ATATATATATATA
1 ATATATATATATA
16663879 ATATATATATATA
1 ATATATATATATA
16663892 A
1 A
16663893 GTAGTACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATATATATA
Found at i:16666813 original size:28 final size:29
Alignment explanation
Indices: 16666772--16666831 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
16666762 GTCTATGGGC
*
16666772 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
16666800 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
16666830 AA
1 AA
16666832 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:16672765 original size:15 final size:14
Alignment explanation
Indices: 16672745--16672793 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
16672735 AGGATGAAAA
16672745 AGATGACATGCAAGG
1 AGATGACATG-AAGG
* *
16672760 AGATGAAGATGAAGA
1 AGATG-ACATGAAGG
16672775 AGATGACATGGAAGG
1 AGATGACAT-GAAGG
16672790 AGAT
1 AGAT
16672794 AAAGATGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 3 0.11
15 21 0.75
16 4 0.14
ACGTcount: A:0.45, C:0.06, G:0.35, T:0.14
Consensus pattern (14 bp):
AGATGACATGAAGG
Found at i:16672778 original size:30 final size:30
Alignment explanation
Indices: 16672737--16672804 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
16672727 CTTGATTGAG
* *
16672737 GATGAAAAAGATGACATGCAAGGAGATGAA
1 GATGAAGAAGATGACATGCAAGGAGATAAA
*
16672767 GATGAAGAAGATGACATGGAAGGAGATAAA
1 GATGAAGAAGATGACATGCAAGGAGATAAA
16672797 GATGAAGA
1 GATGAAGA
16672805 TGAAGATGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.50, C:0.04, G:0.32, T:0.13
Consensus pattern (30 bp):
GATGAAGAAGATGACATGCAAGGAGATAAA
Found at i:16685393 original size:29 final size:29
Alignment explanation
Indices: 16685351--16685438 Score: 176
Period size: 29 Copynumber: 3.0 Consensus size: 29
16685341 TTAAACTGGA
16685351 AATTTGCATATATGTTGGTGTTTTAAGTT
1 AATTTGCATATATGTTGGTGTTTTAAGTT
16685380 AATTTGCATATATGTTGGTGTTTTAAGTT
1 AATTTGCATATATGTTGGTGTTTTAAGTT
16685409 AATTTGCATATATGTTGGTGTTTTAAGTT
1 AATTTGCATATATGTTGGTGTTTTAAGTT
16685438 A
1 A
16685439 GCTTCTTTGC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.25, C:0.03, G:0.20, T:0.51
Consensus pattern (29 bp):
AATTTGCATATATGTTGGTGTTTTAAGTT
Found at i:16689494 original size:254 final size:254
Alignment explanation
Indices: 16688561--16689666 Score: 1224
Period size: 254 Copynumber: 4.4 Consensus size: 254
16688551 CTTTATTTTT
* ** * * * *
16688561 TATAAATTAAAATTTGTAAATA-ATTAAATA-AATTTAGCT-AAAAATATACATGTAAATGATTC
1 TATAAATTAAAATTTGTAAA-AGGTTAAATATTTTTTA-CTCAAGAATATAAATGAAAATGATTA
*** * * * * * *
16688623 ATTTTCAAAAAAAATTATGTTTATTTTGTCTAAATTGACTTTTTACATTGACTCTCACTCATTTA
64 ATTTTCACTTACAAGTATGTTTATTTTGT-TTAATTGATTTTTTACAGTAACTCTCACTCATTTA
* * * * * *
16688688 CGTTAATATTTTAATAATACTTATTTTAA-TTTAATGATTTTTTTA-TTTAATTTTTATAAATTT
128 CGTCAATATTTTAAAAATACTTATTTTAACTTT-ATTATTTTTTTACGTTCATTCTTATAAATTT
* * * * ***
16688751 ATCGTCAAGATTTTTAAATGACTTATTTTCATTATAATGATTTTTGTCCTTATTATTATTCTTT
192 AT-GTCAAGATTTTTAAATGACTTATTTTCACTATAATTATTTTTATCTTTATTATTATTCACA
* * * * *
16688815 TATAAATTACAATTTGTAAATATG-TAAATA-TTTTTAGCTCAAAAATATAAATGTAAATAATTA
1 TATAAATTAAAATTTGTAAA-AGGTTAAATATTTTTTA-CTCAAGAATATAAATGAAAATGATTA
* * * * *
16688878 ATTTTCAC-AAAAATTATGTTTATTTTGTCTGAATTGATTTTTTATAGTAACTCTCACTCATTTA
64 ATTTTCACTTACAAGTATGTTTATTTTGT-TTAATTGATTTTTTACAGTAACTCTCACTCATTTA
* * * *
16688942 CGTCAATATTTTAACAATACTTATTTTAACTTTATTA-ATTTTTACGTTTATTCTTATAAATATA
128 CGTCAATATTTTAAAAATACTTATTTTAACTTTATTATTTTTTTACGTTCATTCTTATAAATTTA
* *
16689006 TGTCAAGATTTATAAAT-ATTTGATTTTCACTATAATTATTTTTATCTTTATTATTATTCACA
193 TGTCAAGATTTTTAAATGACTT-ATTTTCACTATAATTATTTTTATCTTTATTATTATTCACA
* * * * * *
16689068 TATAAGTTAAAATTTGTAAATGTTTAAATATTTTTTATTGAATAATATAAATGAAAATGATTAAT
1 TATAAATTAAAATTTGTAAAAGGTTAAATATTTTTTACTCAAGAATATAAATGAAAATGATTAAT
** * * *
16689133 TTTTGCTTA-AAGTATATTTATTTTGTTTAGATTGATTTTTTACTGTAACTAC-CACTCATTTAT
66 TTTCACTTACAAGTATGTTTATTTTGTTTA-ATTGATTTTTTACAGTAACT-CTCACTCATTTAC
* * *
16689196 ATCAATATTTTAACAAA-ACTTATTTTATCTTTATTATTTTTTTACGTCCATTCTTATAAATTTA
129 GTCAATATTTTAA-AAATACTTATTTTAACTTTATTATTTTTTTACGTTCATTCTTATAAATTTA
* * * * *
16689260 TAG-CAAGATTTTGAAATGATTTATTTTTACTATAATTATCTTTGTCTTTATTATTATTCACA
193 T-GTCAAGATTTTTAAATGACTTATTTTCACTATAATTATTTTTATCTTTATTATTATTCACA
* ***
16689322 TATAAGTTAAAAAATTT-TAAAAGGTTAAATATTTTTTACTTGTGAATATAAATGAAAATGATTA
1 TATAAATT--AAAATTTGTAAAAGGTTAAATATTTTTTACTCAAGAATATAAATGAAAATGATTA
* *
16689386 ATTTTCACTTACAA-TATGTTTATTTTATTTATATTGATTTTTTACAGTAACTTTCACTCATTTA
64 ATTTTCACTTACAAGTATGTTTATTTTGTTTA-ATTGATTTTTTACAGTAACTCTCACTCATTTA
* *
16689450 TGTCAATATTTCAAAAATACTTATTTTAACTTTATTA-TTTTTTACGTTCATTCTTATAAATTTA
128 CGTCAATATTTTAAAAATACTTATTTTAACTTTATTATTTTTTTACGTTCATTCTTATAAATTTA
* * * *
16689514 TGTTAAGATTTTTAAATAACTAATTTTCACTATAATTATTTTTATCTTTATTATTATTCACT
193 TGTCAAGATTTTTAAATGACTTATTTTCACTATAATTATTTTTATCTTTATTATTATTCACA
*
16689576 TATAAATTAAAATTTGTAAATGGTTAAATATTTTTTACTCAAGAATATAAATG-AAATGATTAAT
1 TATAAATTAAAATTTGTAAAAGGTTAAATATTTTTTACTCAAGAATATAAATGAAAATGATTAAT
* *
16689640 TTTCACTTAC-AGTACGTTTATTATGTT
66 TTTCACTTACAAGTATGTTTATTTTGTT
16689667 AAATATATTC
Statistics
Matches: 734, Mismatches: 96, Indels: 46
0.84 0.11 0.05
Matches are distributed among these distances:
251 1 0.00
252 45 0.06
253 212 0.29
254 309 0.42
255 158 0.22
256 9 0.01
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (254 bp):
TATAAATTAAAATTTGTAAAAGGTTAAATATTTTTTACTCAAGAATATAAATGAAAATGATTAAT
TTTCACTTACAAGTATGTTTATTTTGTTTAATTGATTTTTTACAGTAACTCTCACTCATTTACGT
CAATATTTTAAAAATACTTATTTTAACTTTATTATTTTTTTACGTTCATTCTTATAAATTTATGT
CAAGATTTTTAAATGACTTATTTTCACTATAATTATTTTTATCTTTATTATTATTCACA
Found at i:16690099 original size:30 final size:30
Alignment explanation
Indices: 16690065--16690151 Score: 147
Period size: 30 Copynumber: 2.9 Consensus size: 30
16690055 AATTTCAAAA
16690065 ATAATGGGTAATTATCATAATCCCATTCAG
1 ATAATGGGTAATTATCATAATCCCATTCAG
*
16690095 ATAATGGGAAATTATCATAATCCCATTCAG
1 ATAATGGGTAATTATCATAATCCCATTCAG
* *
16690125 ATAATGGGTAGTTATCACAATCCCATT
1 ATAATGGGTAATTATCATAATCCCATT
16690152 AAAACCATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (30 bp):
ATAATGGGTAATTATCATAATCCCATTCAG
Found at i:16697088 original size:47 final size:47
Alignment explanation
Indices: 16697029--16697158 Score: 188
Period size: 47 Copynumber: 2.8 Consensus size: 47
16697019 CTAATAGCAT
* * * *
16697029 TAAAAGACAAAACCCAACATTTTTTATTATGGTCCAAACTAATTGTA
1 TAAAAGATAAAACCCAATATTCTTTATTCTGGTCCAAACTAATTGTA
* *
16697076 TAAAAGATAAAACCCAATATTCTTTATTCTGGTCTAGACTAATTGTA
1 TAAAAGATAAAACCCAATATTCTTTATTCTGGTCCAAACTAATTGTA
* *
16697123 TAAAAAATAAAACTCAATATTCTTTATTCTGGTCCA
1 TAAAAGATAAAACCCAATATTCTTTATTCTGGTCCA
16697159 GAATACAAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (47 bp):
TAAAAGATAAAACCCAATATTCTTTATTCTGGTCCAAACTAATTGTA
Found at i:16701395 original size:2 final size:2
Alignment explanation
Indices: 16701388--16701423 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
16701378 TTACCAATCA
16701388 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16701424 GTTAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16703466 original size:2 final size:2
Alignment explanation
Indices: 16703459--16703547 Score: 92
Period size: 2 Copynumber: 45.0 Consensus size: 2
16703449 CATATAATCA
* * *
16703459 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AN AC AT CAA AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
** * *
16703501 A- AT CC AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16703542 AT AT AT
1 AT AT AT
16703548 CTAAAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
1 2 0.03
2 69 0.96
3 1 0.01
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:16704183 original size:22 final size:22
Alignment explanation
Indices: 16704157--16704204 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
16704147 TATTATAATT
*
16704157 TAAATTAATTAATTAATAATAA
1 TAAATTAATTAATTAAAAATAA
*
16704179 TAAATTATTTAATTAAAAATAA
1 TAAATTAATTAATTAAAAATAA
16704201 -AAAT
1 TAAAT
16704205 AAAAAAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATTAATTAATTAAAAATAA
Found at i:16704184 original size:18 final size:19
Alignment explanation
Indices: 16704158--16704201 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
16704148 ATTATAATTT
*
16704158 AAATTAATTAATTAA-TAA
1 AAATAAATTAATTAATTAA
* *
16704176 TAATAAATTATTTAATTAA
1 AAATAAATTAATTAATTAA
16704195 AAATAAA
1 AAATAAA
16704202 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATAAATTAATTAATTAA
Found at i:16704749 original size:2 final size:2
Alignment explanation
Indices: 16704728--16704788 Score: 86
Period size: 2 Copynumber: 30.0 Consensus size: 2
16704718 TCTGTTTCTG
* * *
16704728 TC TC TG TC TC TC TG TA TC TC TC TC TC TC TC TC TC TC GTC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC -TC TC TC
16704771 TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC
16704789 CTAGTTTTGG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
2 51 0.96
3 2 0.04
ACGTcount: A:0.02, C:0.44, G:0.05, T:0.49
Consensus pattern (2 bp):
TC
Found at i:16709699 original size:19 final size:19
Alignment explanation
Indices: 16709670--16709741 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 19
16709660 TTCTTGACAT
16709670 AATACTTTAAAAAATTATGA
1 AATA-TTTAAAAAATTATGA
* * *
16709690 ATTATTT-AAAAATTTTTA
1 AATATTTAAAAAATTATGA
* *
16709708 AATAATAAAAAAATTATGA
1 AATATTTAAAAAATTATGA
*
16709727 ACTA-TTAAAGAAATT
1 AATATTTAAA-AAATT
16709742 TCAAATAAGC
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
18 17 0.43
19 20 0.50
20 3 0.08
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.38
Consensus pattern (19 bp):
AATATTTAAAAAATTATGA
Found at i:16709748 original size:37 final size:37
Alignment explanation
Indices: 16709678--16709749 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
16709668 ATAATACTTT
* * *
16709678 AAAAAATTATGAATTATTTAAAAATTTTTAAATAATA
1 AAAAAATTATGAACTATTTAAAAAATTTCAAATAATA
16709715 AAAAAATTATGAACTA-TTAAAGAAATTTCAAATAA
1 AAAAAATTATGAACTATTTAAA-AAATTTCAAATAA
16709750 GCAGTGGGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 5 0.16
37 26 0.84
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (37 bp):
AAAAAATTATGAACTATTTAAAAAATTTCAAATAATA
Found at i:16716490 original size:281 final size:281
Alignment explanation
Indices: 16715984--16716546 Score: 919
Period size: 281 Copynumber: 2.0 Consensus size: 281
16715974 TTGGGGACTA
* *
16715984 TGGAAAATAATATATTTTTCCTTAGGAAAGATTTCAAATGACTGAAGAACCTTTTTATGTTACCT
1 TGGAAAATAATATACTTTTCCTTAGGAAAGATTTCAAATAACTGAAGAACCTTTTTATGTTACCT
* * *
16716049 GGTACTAGTCAGTGAGCATTATTGGACGTGGGTTTTGTTTGTATAACCTGTCTTGCCTTGGTTCT
66 GGTACTAGTCAGTGAGCATCATAGGACATGGGTTTTGTTTGTATAACCTGTCTTGCCTTGGTTCT
* *
16716114 CCGCATCCTAGGGTTTTTATTTTAATAATTTTTGGGAAGTTTATATCAATTGAATAAGTATAGAT
131 CCACATCCTAGGGTTTTTATTGTAATAATTTTTGGGAAGTTTATATCAATTGAATAAGTATAGAT
* * * *
16716179 ATGCGTATAGAAGTATTGTGTCTGTTCTTTTCCTCTGATGAGCAGGTATAAATGTTATATGAGTT
196 ATACGTATAGAAATATTGTGTCTCTTCTTTTCCTCTGATGAGCAGCTATAAATGTTATATGAGTT
16716244 CCTATATCTAGTATTATAAAG
261 CCTATATCTAGTATTATAAAG
*
16716265 TGGAAAATAATATACTTTTCTTTAGGAAAGATTTCAAATAACTGAAGAACCTTTTTATGTTACCT
1 TGGAAAATAATATACTTTTCCTTAGGAAAGATTTCAAATAACTGAAGAACCTTTTTATGTTACCT
* * *
16716330 GGTACTAGTCAGTGAGCATCATAGGACATGGGTTTTGTTTGTGTAATCTGTCTTTCCTTGGTTCT
66 GGTACTAGTCAGTGAGCATCATAGGACATGGGTTTTGTTTGTATAACCTGTCTTGCCTTGGTTCT
* * * *
16716395 CCACATCCTAGGGTTTTTATTGTAATTATTTTTGGGGAGTTTATATTAATTGATTAAGTATAGAT
131 CCACATCCTAGGGTTTTTATTGTAATAATTTTTGGGAAGTTTATATCAATTGAATAAGTATAGAT
* * * *
16716460 ATACGTATAGAAATATTGTGTTTCTTCTTTTCCTTTGATGAGCATCTATAGATGTTATATGAGTT
196 ATACGTATAGAAATATTGTGTCTCTTCTTTTCCTCTGATGAGCAGCTATAAATGTTATATGAGTT
16716525 CCTATATCTAGTATTATAAAG
261 CCTATATCTAGTATTATAAAG
16716546 T
1 T
16716547 TGCCTTTTTA
Statistics
Matches: 259, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
281 259 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.42
Consensus pattern (281 bp):
TGGAAAATAATATACTTTTCCTTAGGAAAGATTTCAAATAACTGAAGAACCTTTTTATGTTACCT
GGTACTAGTCAGTGAGCATCATAGGACATGGGTTTTGTTTGTATAACCTGTCTTGCCTTGGTTCT
CCACATCCTAGGGTTTTTATTGTAATAATTTTTGGGAAGTTTATATCAATTGAATAAGTATAGAT
ATACGTATAGAAATATTGTGTCTCTTCTTTTCCTCTGATGAGCAGCTATAAATGTTATATGAGTT
CCTATATCTAGTATTATAAAG
Found at i:16727367 original size:5 final size:5
Alignment explanation
Indices: 16727357--16727391 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
16727347 GTTAACAATA
*
16727357 AAAAG AAAAG AAATG AAAAG AAAA- AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
16727392 TAATAATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:16727406 original size:24 final size:24
Alignment explanation
Indices: 16727356--16727411 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 24
16727346 TGTTAACAAT
16727356 AAAAAGAAAAGAAATGAAAAGAAA
1 AAAAAGAAAAGAAATGAAAAGAAA
16727380 AAAAAGAAAAGATAAT-AATAGAGAAA
1 AAAAAGAAAAGA-AATGAA-A-AGAAA
16727406 AAAAAG
1 AAAAAG
16727412 TGGAATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 14 0.48
25 4 0.14
26 11 0.38
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (24 bp):
AAAAAGAAAAGAAATGAAAAGAAA
Found at i:16734728 original size:162 final size:159
Alignment explanation
Indices: 16734461--16734774 Score: 601
Period size: 162 Copynumber: 2.0 Consensus size: 159
16734451 ATAATTTTCT
16734461 AAAAAATTTTTAGGTAGGGAAGTTTTCTAAAGTTACCCAAAGTGTTGGAGAATTTAGAAAATTTT
1 AAAAAATTTTTAGGTAGGGAAGTTTTCTAAAGTTACCCAAAGTGTTGGAGAATTTAGAAAATTTT
16734526 CAATATCAAAGAATTTTTCATTTAGTTTTAAGAAAAATTAAAAAAATAATAAAACTAATAAAAAA
66 CAATATCAAAGAATTTTTCATTTAGTTTTAAGAAAAATTAAAAAAATAATAAAACTAATAAAAAA
16734591 AGAAACAAGAAAAGAAAGAAAAGAAGTTTAA
131 AGAAACAAG-AAAG-AAGAAAAGAAGTTTAA
16734622 NAAAAAATTTTTAGGTAGGGAAGTTTTCTAAAGTTACCCAAAGTGTTGGAGAATTTAGAAAATTT
1 -AAAAAATTTTTAGGTAGGGAAGTTTTCTAAAGTTACCCAAAGTGTTGGAGAATTTAGAAAATTT
16734687 TCAATATCAAAGAATTTTTCATTTAGTTTTAAGAAAAATTAAAAAAATAATAAAACTAATAAAAA
65 TCAATATCAAAGAATTTTTCATTTAGTTTTAAGAAAAATTAAAAAAATAATAAAACTAATAAAAA
16734752 AAGAAACAAGAAAGAAGAAAAGA
130 AAGAAACAAGAAAGAAGAAAAGA
16734775 TTTAATGAAA
Statistics
Matches: 152, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
160 9 0.06
161 4 0.03
162 139 0.91
ACGTcount: A:0.52, C:0.06, G:0.14, T:0.28
Consensus pattern (159 bp):
AAAAAATTTTTAGGTAGGGAAGTTTTCTAAAGTTACCCAAAGTGTTGGAGAATTTAGAAAATTTT
CAATATCAAAGAATTTTTCATTTAGTTTTAAGAAAAATTAAAAAAATAATAAAACTAATAAAAAA
AGAAACAAGAAAGAAGAAAAGAAGTTTAA
Found at i:16737278 original size:17 final size:17
Alignment explanation
Indices: 16737256--16737299 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
16737246 AATTAATTAT
16737256 ATTAAAAATATATAAAA
1 ATTAAAAATATATAAAA
*
16737273 ATTAAAAAAATATAAAA
1 ATTAAAAATATATAAAA
* *
16737290 GTAAAAAATA
1 ATTAAAAATA
16737300 ATTAATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (17 bp):
ATTAAAAATATATAAAA
Found at i:16748639 original size:20 final size:21
Alignment explanation
Indices: 16748610--16748651 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
16748600 AGAAAACTTG
* *
16748610 TAAGCGTTTTTGAGT-ATTTT
1 TAAGCATTTTGGAGTGATTTT
16748630 TAAGCATTTTGGAGTGATTTT
1 TAAGCATTTTGGAGTGATTTT
16748651 T
1 T
16748652 GATATATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.52
Consensus pattern (21 bp):
TAAGCATTTTGGAGTGATTTT
Found at i:16748853 original size:21 final size:21
Alignment explanation
Indices: 16748822--16748916 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
16748812 GTTTTTAGGT
* *
16748822 ATTGTGTGACTGACTTTGGAC
1 ATTGCGTGACTGACTTTGGGC
*
16748843 ATTACGTGACTGACTTTGGGC
1 ATTGCGTGACTGACTTTGGGC
* * *
16748864 ATTGCATGACTAATTTTGGGC
1 ATTGCGTGACTGACTTTGGGC
16748885 ATTGCGTGACTGACTTTGGGC
1 ATTGCGTGACTGACTTTGGGC
16748906 ATTGCGTGACT
1 ATTGCGTGACT
16748917 AATTTTTAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (21 bp):
ATTGCGTGACTGACTTTGGGC
Found at i:16748960 original size:26 final size:26
Alignment explanation
Indices: 16748905--16748969 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
16748895 TGACTTTGGG
*
16748905 CATTGCGTGACTAATTTTTAATAAGG
1 CATTGCGTGACTAATTTTTAATAAGA
* * * *
16748931 CATTGCGTGATTAGTTTTTTATTAGA
1 CATTGCGTGACTAATTTTTAATAAGA
**
16748957 CATTATGTGACTA
1 CATTGCGTGACTA
16748970 GTTAGTAAGG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (26 bp):
CATTGCGTGACTAATTTTTAATAAGA
Found at i:16748988 original size:23 final size:23
Alignment explanation
Indices: 16748957--16749014 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
16748947 TTTTATTAGA
*
16748957 CATTATGTGACTAGTTAGTAAGG
1 CATTGTGTGACTAGTTAGTAAGG
*
16748980 CATTGTGTGAGTAGTTAGTAAGG
1 CATTGTGTGACTAGTTAGTAAGG
16749003 CATTGTGTGACT
1 CATTGTGTGACT
16749015 TAGGCATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.36
Consensus pattern (23 bp):
CATTGTGTGACTAGTTAGTAAGG
Found at i:16749088 original size:21 final size:22
Alignment explanation
Indices: 16749026--16749105 Score: 81
Period size: 22 Copynumber: 3.7 Consensus size: 22
16749016 AGGCATTATT
* * *
16749026 TAAAAATCAGTCACGTAATACC
1 TAAAAACCAATCACGTAATGCC
* **
16749048 TAAAAACCAGTCACACAATGCC
1 TAAAAACCAATCACGTAATGCC
**
16749070 T-AAAACCAATCACGTAATGTG
1 TAAAAACCAATCACGTAATGCC
16749091 TAAAAACCAATCACG
1 TAAAAACCAATCACG
16749106 CAGTGATTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
21 16 0.33
22 32 0.67
ACGTcount: A:0.46, C:0.25, G:0.10, T:0.19
Consensus pattern (22 bp):
TAAAAACCAATCACGTAATGCC
Found at i:16750531 original size:22 final size:22
Alignment explanation
Indices: 16750506--16750567 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
16750496 ATTTTTAAAA
*
16750506 ATTGCGTAACTAGTTTTTAGG-C
1 ATTGCGTGACTAGTTTTT-GGAC
*
16750528 ATTGCGTGACT-GATTTTGGAC
1 ATTGCGTGACTAGTTTTTGGAC
*
16750549 ATTACGTGACTAGTTTTTG
1 ATTGCGTGACTAGTTTTTG
16750568 ATAAGGCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 2 0.06
21 16 0.47
22 16 0.47
ACGTcount: A:0.21, C:0.13, G:0.24, T:0.42
Consensus pattern (22 bp):
ATTGCGTGACTAGTTTTTGGAC
Found at i:16750577 original size:26 final size:26
Alignment explanation
Indices: 16750546--16750615 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
16750536 ACTGATTTTG
* *
16750546 GACATTACGTGACTAGTTTTTGATAA
1 GACATTGCATGACTAGTTTTTGATAA
*
16750572 GGCATTGCATGACTAGTTTTTGATAA
1 GACATTGCATGACTAGTTTTTGATAA
16750598 GACATTGCATGACTAGTT
1 GACATTGCATGACTAGTT
16750616 GATAGGCATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (26 bp):
GACATTGCATGACTAGTTTTTGATAA
Found at i:16750699 original size:21 final size:22
Alignment explanation
Indices: 16750668--16750727 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 22
16750658 AGGCATTACT
* *
16750668 TAAAAATCAATCAGGCAATGCC
1 TAAAAACCAATCACGCAATGCC
*
16750690 T-AAAACCAATCACGTAATGCC
1 TAAAAACCAATCACGCAATGCC
16750711 TAAAAACCAATCACGCA
1 TAAAAACCAATCACGCA
16750728 GTGATAAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 18 0.55
22 15 0.45
ACGTcount: A:0.47, C:0.27, G:0.10, T:0.17
Consensus pattern (22 bp):
TAAAAACCAATCACGCAATGCC
Found at i:16750735 original size:21 final size:22
Alignment explanation
Indices: 16750668--16750735 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 22
16750658 AGGCATTACT
* * *
16750668 TAAAAATCAATCAGGCAATGCC
1 TAAAAACCAATCACGCAATGCA
* *
16750690 T-AAAACCAATCACGTAATGCC
1 TAAAAACCAATCACGCAATGCA
*
16750711 TAAAAACCAATCACGCAGTG-A
1 TAAAAACCAATCACGCAATGCA
16750732 TAAA
1 TAAA
16750736 GTCACGTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
21 22 0.56
22 17 0.44
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.18
Consensus pattern (22 bp):
TAAAAACCAATCACGCAATGCA
Found at i:16758444 original size:74 final size:74
Alignment explanation
Indices: 16758356--16758504 Score: 273
Period size: 74 Copynumber: 2.0 Consensus size: 74
16758346 AACTCTTAAT
16758356 GGATGGTCAAGATTGATTCGAAAATATTTGATTTTGATTAAACCTTTGAAGCAAGAG-TTTAATA
1 GGATGGTCAAGATTGATTCGAAAATATTTGATTTTGATTAAACCTTTGAAGCAAGAGTTTTAATA
16758420 AAAAGAGAA
66 AAAAGAGAA
16758429 GNGATGGTCAAGATTGATTCGAAAATATTTGATTTTGATTAAACCTTTGAAGCAAGAGTTTTAAT
1 G-GATGGTCAAGATTGATTCGAAAATATTTGATTTTGATTAAACCTTTGAAGCAAGAGTTTTAAT
*
16758494 AAAACGAGAA
65 AAAAAGAGAA
16758504 G
1 G
16758505 AGATTGGAAG
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
73 1 0.01
74 56 0.77
75 16 0.22
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (74 bp):
GGATGGTCAAGATTGATTCGAAAATATTTGATTTTGATTAAACCTTTGAAGCAAGAGTTTTAATA
AAAAGAGAA
Found at i:16762358 original size:46 final size:47
Alignment explanation
Indices: 16762270--16762363 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 47
16762260 ATGGTTTGCC
* *
16762270 AGAACAAATTCTGACATAAATTTTACTATTCACCATAGAGCAGAGCAT
1 AGAACAAATTCTGACA-AAATTTTACCATTCACCATACAGCAGAGCAT
*
16762318 AGAACAAATTCTGAC-AAATTTTACCATTCACTATACAGCAGAGCAT
1 AGAACAAATTCTGACAAAATTTTACCATTCACCATACAGCAGAGCAT
16762364 TCATCTCTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 28 0.65
48 15 0.35
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (47 bp):
AGAACAAATTCTGACAAAATTTTACCATTCACCATACAGCAGAGCAT
Found at i:16762906 original size:28 final size:28
Alignment explanation
Indices: 16762864--16762919 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
16762854 AAGTACAATC
16762864 TGCATCCCTAATACAAGCTATAAACATT
1 TGCATCCCTAATACAAGCTATAAACATT
*
16762892 TGCATCCCTATTACAAGCTATAAACATT
1 TGCATCCCTAATACAAGCTATAAACATT
16762920 AGAAATGCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (28 bp):
TGCATCCCTAATACAAGCTATAAACATT
Found at i:16765836 original size:21 final size:21
Alignment explanation
Indices: 16765794--16765832 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16765784 AAAAAAATTT
16765794 ATTTTTTATAATATTTTATTA
1 ATTTTTTATAATATTTTATTA
16765815 ATTTTTTAT-AT-TTTTATT
1 ATTTTTTATAATATTTTATT
16765833 TTAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTTTTTATAATATTTTATTA
Found at i:16787577 original size:22 final size:23
Alignment explanation
Indices: 16787541--16787587 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
16787531 AAATTTTATT
16787541 TTTTTATTATATTTAATTTAAAA
1 TTTTTATTATATTTAATTTAAAA
* * *
16787564 TTTTTA-TATTTTTATTTTTAAA
1 TTTTTATTATATTTAATTTAAAA
16787586 TT
1 TT
16787588 AAATAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTTATTATATTTAATTTAAAA
Found at i:16788461 original size:27 final size:27
Alignment explanation
Indices: 16788419--16788534 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 27
16788409 ACGTGGATGC
* * *
16788419 TAAATTTTTAATATGATGTGTAATAAT
1 TAAATTTTTAACATGACGTATAATAAT
* * *
16788446 TAAATTTTTAACATGACATGTAATAAC
1 TAAATTTTTAACATGACGTATAATAAT
* *
16788473 TAAATTTTCAACATGATGTATAATAAT
1 TAAATTTTTAACATGACGTATAATAAT
* *
16788500 TACATTTTTCAATATGACGTATAATAAT
1 TAAATTTTT-AACATGACGTATAATAAT
*
16788528 TATATTT
1 TAAATTT
16788535 CAATATGGCA
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 52 0.70
28 22 0.30
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (27 bp):
TAAATTTTTAACATGACGTATAATAAT
Found at i:16788477 original size:54 final size:54
Alignment explanation
Indices: 16788418--16788577 Score: 169
Period size: 54 Copynumber: 2.9 Consensus size: 54
16788408 CACGTGGATG
* *
16788418 CTAAATTTTTAATATGATGTGTAATAATTAAATTTTTAACATGACATGTAATAA
1 CTAAATTTTCAATATGATGTGTAATAATTAAATTTTTAACATGACATATAATAA
* * * * *
16788472 CTAAATTTTCAACATGATGTATAATAATTACATTTTTCAATATGACGTATAATAA
1 CTAAATTTTCAATATGATGTGTAATAATTAAATTTTT-AACATGACATATAATAA
* * *** * *
16788527 TTATA-TTTCAATATGGCATGTAACAATTAAATTTTAGAACATGACATATAA
1 CTAAATTTTCAATATGATGTGTAATAATTAAATTTT-TAACATGACATATAA
16788578 CATTACATTT
Statistics
Matches: 85, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
54 68 0.80
55 17 0.20
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (54 bp):
CTAAATTTTCAATATGATGTGTAATAATTAAATTTTTAACATGACATATAATAA
Found at i:16788554 original size:26 final size:26
Alignment explanation
Indices: 16788443--16788587 Score: 67
Period size: 28 Copynumber: 5.4 Consensus size: 26
16788433 GATGTGTAAT
* * * *
16788443 AATTAAATTTTTAACATGACATGTAAT
1 AATTAAA-TTTCAATATGACATATAAC
* * ** *
16788470 AACTAAATTTTCAACATGATGTATAAT
1 AATTAAA-TTTCAATATGACATATAAC
* * *
16788497 AATTACATTTTTCAATATGACGTATAAT
1 AATTA-A-ATTTCAATATGACATATAAC
* * *
16788525 AATTATATTTCAATATGGCATGTAAC
1 AATTAAATTTCAATATGACATATAAC
* *
16788551 AATTAAATTTTAGAACATGACATATAAC
1 AATTAAA-TTT-CAATATGACATATAAC
*
16788579 -ATTACATTT
1 AATTAAATTT
16788588 GTCAAAACTG
Statistics
Matches: 93, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
26 24 0.26
27 34 0.37
28 35 0.38
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (26 bp):
AATTAAATTTCAATATGACATATAAC
Found at i:16793083 original size:3 final size:3
Alignment explanation
Indices: 16793075--16793118 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
16793065 TCTTTGTTAT
16793075 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16793119 TAAATTCTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:16795378 original size:35 final size:35
Alignment explanation
Indices: 16795350--16795457 Score: 162
Period size: 35 Copynumber: 3.1 Consensus size: 35
16795340 GGAGTGCGTG
*
16795350 TGATGATATTGAAATGTGCGTGTAGGGAGTACACA
1 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
*
16795385 TGATGATATTGAAATGTGCGTGTAGGGCGTGCACA
1 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
*** *
16795420 TGATGATATTGCCTTGTGCGTGTAAGGAGTGCACA
1 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
16795455 TGA
1 TGA
16795458 GATGAGTAAG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (35 bp):
TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
Found at i:16802525 original size:16 final size:16
Alignment explanation
Indices: 16802506--16802537 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
16802496 AAGAGAAGAG
16802506 AAAAGAAAGAAGAAAAA
1 AAAAG-AAGAAGAAAAA
16802523 AAAAGAAGAAGAAAA
1 AAAAGAAGAAGAAAA
16802538 GGGGGGGTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAGAAGAAGAAAAA
Found at i:16802527 original size:13 final size:13
Alignment explanation
Indices: 16802499--16802537 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
16802489 GGCCAGCAAG
*
16802499 AGAAGAGAAAAGAA
1 AGAAGA-AAAAAAA
16802513 AGAAGAAAAAAAA
1 AGAAGAAAAAAAA
16802526 AGAAGAAGAAAA
1 AGAAGAA-AAAA
16802538 GGGGGGGTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AGAAGAAAAAAAA
Found at i:16802634 original size:16 final size:17
Alignment explanation
Indices: 16802613--16802661 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
16802603 AGGAGAAAAG
16802613 ACAAGAAAGA-AAGAGA
1 ACAAGAAAGAGAAGAGA
*
16802629 ACAAGAAAGAGAAGAGG
1 ACAAGAAAGAGAAGAGA
16802646 A-AAGAGAAG-GAAGAGA
1 ACAAGA-AAGAGAAGAGA
16802662 GTGGGGGGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 20 0.69
17 9 0.31
ACGTcount: A:0.63, C:0.04, G:0.33, T:0.00
Consensus pattern (17 bp):
ACAAGAAAGAGAAGAGA
Found at i:16802654 original size:12 final size:12
Alignment explanation
Indices: 16802609--16802659 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
16802599 AAAAAGGAGA
*
16802609 AAAGACAAGAAAG
1 AAAGAGAAG-AAG
*
16802622 AAAGAGAACAAG
1 AAAGAGAAGAAG
*
16802634 AAAGAGAAGAGG
1 AAAGAGAAGAAG
16802646 AAAGAGAAGGAAG
1 AAAGAGAA-GAAG
16802659 A
1 A
16802660 GAGTGGGGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
12 21 0.66
13 11 0.34
ACGTcount: A:0.65, C:0.04, G:0.31, T:0.00
Consensus pattern (12 bp):
AAAGAGAAGAAG
Found at i:16802822 original size:70 final size:67
Alignment explanation
Indices: 16802727--16802862 Score: 179
Period size: 70 Copynumber: 2.0 Consensus size: 67
16802717 ATCTTGGGGA
*
16802727 GAAAAAAAAAGAAAGAAAGAGAAGAAGAAAGG-GAGAATG-AGCAA-GACGATGAGGAGAAGAAG
1 GAAAAAAAAAGAAAGAAAAAGAAGAAG-AAGGAGAGAA-GAAGCAACGAC-A-GAGGAGAAGAAG
16802789 GAGAGG
62 GAGAGG
*
16802795 GAAAAAAGAAGAGAAAGAAAAATAAGAAGAAGGAGAGAAGAAGCAACGACAGAGGAGAAGAAGGA
1 GAAAAAA-AA-AGAAAGAAAAAGAAGAAGAAGGAGAGAAGAAGCAACGACAGAGGAGAAGAAGGA
16802860 GAG
64 GAG
16802863 AATGAGCAGC
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
68 7 0.11
69 24 0.39
70 27 0.44
71 3 0.05
ACGTcount: A:0.59, C:0.04, G:0.35, T:0.02
Consensus pattern (67 bp):
GAAAAAAAAAGAAAGAAAAAGAAGAAGAAGGAGAGAAGAAGCAACGACAGAGGAGAAGAAGGAGA
GG
Found at i:16802887 original size:31 final size:31
Alignment explanation
Indices: 16802819--16802887 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
16802809 AAGAAAAATA
*
16802819 AGAAGAAGGAGAGAAGAAGCAACGACAGAGG
1 AGAAGAAGGAGAGAAGAAGCAACGACAGAAG
* *
16802850 AGAAGAAGGAGAGAATG-AGCAGCGATAGAAG
1 AGAAGAAGGAGAGAA-GAAGCAACGACAGAAG
*
16802881 ATAAGAA
1 AGAAGAA
16802888 AGAAAAAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.52, C:0.07, G:0.36, T:0.04
Consensus pattern (31 bp):
AGAAGAAGGAGAGAAGAAGCAACGACAGAAG
Found at i:16803709 original size:60 final size:60
Alignment explanation
Indices: 16803637--16803912 Score: 333
Period size: 60 Copynumber: 4.6 Consensus size: 60
16803627 TGGAGTCCCA
* *
16803637 ATTTATATTTAGTGATGTGGGTAGTTCCCACGAGTAGGCAAAAGGGGACCTGAAGCCTCG
1 ATTTATATTTAGTGACGTGGGTAGTTCCCACGAGTAGGCAAAAGGGGACCTGAAGCCCCG
** * * * *
16803697 ATTTATATTTAGTGATATGGGTAGTTCCCACGAGTAGGTAAAGGGGGACTTGAAGCCCCA
1 ATTTATATTTAGTGACGTGGGTAGTTCCCACGAGTAGGCAAAAGGGGACCTGAAGCCCCG
* * *
16803757 ATTTATATTTGGTGACGTGGGTAGTTCCTACGAGTAGGCAAAGGGGGACCTGAAGCCCCG
1 ATTTATATTTAGTGACGTGGGTAGTTCCCACGAGTAGGCAAAAGGGGACCTGAAGCCCCG
* * * * * *
16803817 ATTTATATTTTGTGACGTGGGTAATTCTCACGAGTAGG-TAAAGGGGAACCTAAAGTCCCG
1 ATTTATATTTAGTGACGTGGGTAGTTCCCACGAGTAGGCAAAAGGGG-ACCTGAAGCCCCG
* * * *
16803877 ATTCATA-TGA-TGACGTAGGTAGTTCCCATGAGTAGG
1 ATTTATATTTAGTGACGTGGGTAGTTCCCACGAGTAGG
16803913 TGATGATGTC
Statistics
Matches: 187, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
58 22 0.12
59 7 0.04
60 158 0.84
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (60 bp):
ATTTATATTTAGTGACGTGGGTAGTTCCCACGAGTAGGCAAAAGGGGACCTGAAGCCCCG
Found at i:16803838 original size:120 final size:120
Alignment explanation
Indices: 16803616--16803912 Score: 382
Period size: 120 Copynumber: 2.5 Consensus size: 120
16803606 TTGATTGTAA
* * * *
16803616 AAAGGGAGACTTGGAGTCCCAATTTATATTTAGTGATGTGGGTAGTTCCCACGAGTAGGCAAAAG
1 AAAGGGGGACTTGAAGCCCCAATTTATATTTAGTGACGTGGGTAGTTCCCACGAGTAGGCAAAAG
* * *
16803681 GGGACCTGAAGCCTCGATTTATATTTAGTGATATGGGTAGTTCCCACGAGTAGGT
66 GGGACCTGAAGCCCCGATTTATATTTAGTGACATGGGTAATTCCCACGAGTAGGT
* * *
16803736 AAAGGGGGACTTGAAGCCCCAATTTATATTTGGTGACGTGGGTAGTTCCTACGAGTAGGCAAAGG
1 AAAGGGGGACTTGAAGCCCCAATTTATATTTAGTGACGTGGGTAGTTCCCACGAGTAGGCAAAAG
* * *
16803801 GGGACCTGAAGCCCCGATTTATATTTTGTGACGTGGGTAATTCTCACGAGTAGGT
66 GGGACCTGAAGCCCCGATTTATATTTAGTGACATGGGTAATTCCCACGAGTAGGT
* * * * * * * * *
16803856 AAAGGGGAACCTAAAGTCCCGATTCATA-TGA-TGACGTAGGTAGTTCCCATGAGTAGG
1 AAAGGGGGACTTGAAGCCCCAATTTATATTTAGTGACGTGGGTAGTTCCCACGAGTAGG
16803913 TGATGATGTC
Statistics
Matches: 153, Mismatches: 24, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
118 23 0.15
119 1 0.01
120 129 0.84
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (120 bp):
AAAGGGGGACTTGAAGCCCCAATTTATATTTAGTGACGTGGGTAGTTCCCACGAGTAGGCAAAAG
GGGACCTGAAGCCCCGATTTATATTTAGTGACATGGGTAATTCCCACGAGTAGGT
Found at i:16813529 original size:6 final size:6
Alignment explanation
Indices: 16813518--16813552 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
16813508 TTTGTATGCA
*
16813518 TGTAAT TGTAAT TGTAAT TGTAAT TGCAA- TGTAAT
1 TGTAAT TGTAAT TGTAAT TGTAAT TGTAAT TGTAAT
16813553 GTCCCACATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (6 bp):
TGTAAT
Found at i:16814000 original size:17 final size:17
Alignment explanation
Indices: 16813960--16813992 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16813950 AAATATAAAT
16813960 CAACTTTATCGAGTGTA
1 CAACTTTATCGAGTGTA
16813977 CAACTTTATCGAGTGT
1 CAACTTTATCGAGTGT
16813993 TTGACTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (17 bp):
CAACTTTATCGAGTGTA
Found at i:16815134 original size:131 final size:132
Alignment explanation
Indices: 16814947--16815193 Score: 399
Period size: 131 Copynumber: 1.9 Consensus size: 132
16814937 TATTGTGTTA
* * *
16814947 ATTTATAAGAAATATAATTACTATTATATATATACTAAAATATTTTTAGTGTATATATACTTTAA
1 ATTTATAAGAAATATAATTACTATTATATATATA-TAAAATACTTTTAGTATATATACACTTTAA
*
16815012 ATATAAACATACTTAATTTT-TATTTTGTGTTAACATTATAAAATTATAACTTAATATACATTAG
65 ATATAAACATA-TTAATTTTCTATTTTGTGTTAACATTACAAAATTATAACTTAATATACATTAG
16815076 GTTC
129 GTTC
16815080 ATTTATAAGAAATATAATTACTATTATATATAT-TAAAATACTTTTAGTATATATACACTTTAAA
1 ATTTATAAGAAATATAATTACTATTATATATATATAAAATACTTTTAGTATATATACACTTTAAA
* * *
16815144 TATTAATATATTTATTTTCTATTTTGTGTTAACATTACAAAATTATAACT
66 TATAAACATATTAATTTTCTATTTTGTGTTAACATTACAAAATTATAACT
16815194 AATGAATTTA
Statistics
Matches: 106, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
130 7 0.07
131 66 0.62
133 33 0.31
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (132 bp):
ATTTATAAGAAATATAATTACTATTATATATATATAAAATACTTTTAGTATATATACACTTTAAA
TATAAACATATTAATTTTCTATTTTGTGTTAACATTACAAAATTATAACTTAATATACATTAGGT
TC
Found at i:16821529 original size:27 final size:27
Alignment explanation
Indices: 16821478--16821530 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
16821468 TTTATATATT
* **
16821478 AATAATATTTAAATATTCTTTAAAAAA
1 AATAATATTTAAATATTATCAAAAAAA
16821505 AATAATATTTAAATATTATCAAAAAA
1 AATAATATTTAAATATTATCAAAAAA
16821531 TGTATGTATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (27 bp):
AATAATATTTAAATATTATCAAAAAAA
Found at i:16828412 original size:61 final size:60
Alignment explanation
Indices: 16828342--16828522 Score: 240
Period size: 61 Copynumber: 3.0 Consensus size: 60
16828332 ATATCATCAT
* * *
16828342 CTACTCGTGGGAACTGCCCACGTCACC-ATATATAAATTAGGGCTTCAGGTCCCCCTTTTAA
1 CTACTCGTGGGAACTGCCCACGCCACCTA-ATATGAATT-GGGCTTCAGGTCCCCTTTTTAA
* * *
16828403 CTACTCGTGGGAACTGCTCACGCCACCTAATATGAATCGGGGCTTCAGGT-CCCTTTTTAC
1 CTACTCGTGGGAACTGCCCACGCCACCTAATATGAAT-TGGGCTTCAGGTCCCCTTTTTAA
* *
16828463 CTACTCGTGGGAATTACCCACGCCACCTAATATGAATTGGGACTTCAGGTCCCCTTTTTA
1 CTACTCGTGGGAACTGCCCACGCCACCTAATATGAATTGGG-CTTCAGGTCCCCTTTTTA
16828523 CAATCAAATA
Statistics
Matches: 106, Mismatches: 10, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
59 3 0.03
60 50 0.47
61 52 0.49
62 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (60 bp):
CTACTCGTGGGAACTGCCCACGCCACCTAATATGAATTGGGCTTCAGGTCCCCTTTTTAA
Found at i:16828485 original size:60 final size:61
Alignment explanation
Indices: 16828342--16828523 Score: 251
Period size: 60 Copynumber: 3.0 Consensus size: 61
16828332 ATATCATCAT
* * * * *
16828342 CTACTCGTGGGAACTGCCCACGTCACC-ATATATAAATTAGGGCTTCAGGTCCCCCTTTTAA
1 CTACTCGTGGGAACTGCCCACGCCACCTA-ATATGAATTGGGGCTTCAGGTCCCCTTTTTAC
* *
16828403 CTACTCGTGGGAACTGCTCACGCCACCTAATATGAATCGGGGCTTCAGGT-CCCTTTTTAC
1 CTACTCGTGGGAACTGCCCACGCCACCTAATATGAATTGGGGCTTCAGGTCCCCTTTTTAC
* * *
16828463 CTACTCGTGGGAATTACCCACGCCACCTAATATGAATTGGGACTTCAGGTCCCCTTTTTAC
1 CTACTCGTGGGAACTGCCCACGCCACCTAATATGAATTGGGGCTTCAGGTCCCCTTTTTAC
16828524 AATCAAATAT
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
60 53 0.50
61 53 0.50
62 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (61 bp):
CTACTCGTGGGAACTGCCCACGCCACCTAATATGAATTGGGGCTTCAGGTCCCCTTTTTAC
Found at i:16829265 original size:16 final size:16
Alignment explanation
Indices: 16829241--16829279 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
16829231 CAGCCAGTGT
*
16829241 TTCTCTTTTTTTTTTC
1 TTCTCTTTTTTCTTTC
*
16829257 TTCTTTTTTTTCTTTC
1 TTCTCTTTTTTCTTTC
16829273 TTC-CTTT
1 TTCTCTTT
16829280 CTCCTTCGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTCTCTTTTTTCTTTC
Found at i:16829401 original size:77 final size:77
Alignment explanation
Indices: 16829313--16829457 Score: 202
Period size: 77 Copynumber: 1.9 Consensus size: 77
16829303 CTCTCTCTTC
* * *
16829313 TTTCTTATTTCTTCTCTC-TCATCTCTCCTCTTTCTCCTCTAACACGTTGCTGCTCTCCCTCTAT
1 TTTCTTATTTCTTCTCTCTTC-TCTCTCCTCTATCTCCTCTAACACGTTGCCGCTCTCCCCCTAT
16829377 CTTCCTTATTGTT
65 CTTCCTTATTGTT
* * * * *
16829390 TTTCTTCTTTCTTCTTTCTTCTCTCTCCTCTATCTCCTCTGACATGTTGCCGCTCTCCCCCTCTC
1 TTTCTTATTTCTTCTCTCTTCTCTCTCCTCTATCTCCTCTAACACGTTGCCGCTCTCCCCCTATC
16829455 TTC
66 TTC
16829458 TTTCTTCCTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
77 57 0.97
78 2 0.03
ACGTcount: A:0.07, C:0.38, G:0.06, T:0.50
Consensus pattern (77 bp):
TTTCTTATTTCTTCTCTCTTCTCTCTCCTCTATCTCCTCTAACACGTTGCCGCTCTCCCCCTATC
TTCCTTATTGTT
Found at i:16829470 original size:77 final size:77
Alignment explanation
Indices: 16829313--16829478 Score: 199
Period size: 77 Copynumber: 2.2 Consensus size: 77
16829303 CTCTCTCTTC
* * *
16829313 TTTCTTATTTCTTCTCTCTCATCTCTCCTCTTTCTCCTCTAACACGTTGCTGCTCTCCCTCTATC
1 TTTCTTATTTCTTCTCTCTCATCTCTCCTCTATCTCCTCTAACACGTTGCCGCTCTCCCCCTATC
**
16829378 TTCCTTATTGTT
66 TTCCTTATTCCT
* * * * *
16829390 TTTCTTCTTTCTTCTTTCTTC-TCTCTCCTCTATCTCCTCTGACATGTTGCCGCTCTCCCCCTCT
1 TTTCTTATTTCTTCTCTC-TCATCTCTCCTCTATCTCCTCTAACACGTTGCCGCTCTCCCCCTAT
* *
16829454 CTTCTTTCTTCCT
65 CTTCCTTATTCCT
*
16829467 TTTCTTTTTTCT
1 TTTCTTATTTCT
16829479 CTCACTCGAG
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
77 73 0.97
78 2 0.03
ACGTcount: A:0.06, C:0.36, G:0.05, T:0.53
Consensus pattern (77 bp):
TTTCTTATTTCTTCTCTCTCATCTCTCCTCTATCTCCTCTAACACGTTGCCGCTCTCCCCCTATC
TTCCTTATTCCT
Found at i:16833188 original size:3 final size:3
Alignment explanation
Indices: 16833180--16833217 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
16833170 TAATTACTCA
* *
16833180 TAC TAC TAC TAC TAC TAC TAT TAC TAT TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
16833218 GAGATAAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.39
Consensus pattern (3 bp):
TAC
Found at i:16834657 original size:13 final size:13
Alignment explanation
Indices: 16834639--16834676 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
16834629 GTAGAGAAAT
*
16834639 AAAATAAATAATA
1 AAAATAAATAAAA
*
16834652 AAAATAACTAAAA
1 AAAATAAATAAAA
16834665 AAAATAAATAAA
1 AAAATAAATAAA
16834677 GGAAAAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAATAAATAAAA
Found at i:16834718 original size:8 final size:8
Alignment explanation
Indices: 16834707--16834750 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
16834697 ATGGGTAAAC
*
16834707 GGGTTAGT
1 GGGTAAGT
16834715 GGGTAAGT
1 GGGTAAGT
*
16834723 GGGTAAAT
1 GGGTAAGT
*
16834731 GGGTAATT
1 GGGTAAGT
16834739 GGGTAA-T
1 GGGTAAGT
16834746 GGGTA
1 GGGTA
16834751 GTCCAAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
7 6 0.18
8 27 0.82
ACGTcount: A:0.25, C:0.00, G:0.45, T:0.30
Consensus pattern (8 bp):
GGGTAAGT
Found at i:16834734 original size:24 final size:23
Alignment explanation
Indices: 16834695--16834750 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 23
16834685 TTTTGTTAGA
*
16834695 TAATGGGTAAACGGGTTAGTGGG
1 TAATGGGTAAACGGGTAAGTGGG
* *
16834718 TAAGTGGGTAAATGGGTAATTGGG
1 TAA-TGGGTAAACGGGTAAGTGGG
16834742 TAATGGGTA
1 TAATGGGTA
16834751 GTCCAAATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 9 0.31
24 20 0.69
ACGTcount: A:0.29, C:0.02, G:0.41, T:0.29
Consensus pattern (23 bp):
TAATGGGTAAACGGGTAAGTGGG
Found at i:16834876 original size:51 final size:51
Alignment explanation
Indices: 16834781--16834888 Score: 182
Period size: 52 Copynumber: 2.1 Consensus size: 51
16834771 AATTGGGTTG
* *
16834781 GGTTAGTGGGCTGCCCAATGTTTGGCAGCCCATAAAAAAGGGAAAAAAAAA
1 GGTTATTGGGCTGCCCAATGTTTGGCAACCCATAAAAAAGGGAAAAAAAAA
16834832 GGTTATNTGGGCTGCCCAATGTTTGGCAACCCATAAAAAA-GGAAAAAAAAA
1 GGTTAT-TGGGCTGCCCAATGTTTGGCAACCCATAAAAAAGGGAAAAAAAAA
16834883 GGTTAT
1 GGTTAT
16834889 GGGGAGTGGG
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
51 22 0.41
52 32 0.59
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.20
Consensus pattern (51 bp):
GGTTATTGGGCTGCCCAATGTTTGGCAACCCATAAAAAAGGGAAAAAAAAA
Found at i:16836691 original size:21 final size:21
Alignment explanation
Indices: 16836653--16836716 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
16836643 ATGGAGGCAC
* * *
16836653 CAGTCCTTATCATAAATGCAT
1 CAGTCTTTGTCATGAATGCAT
*
16836674 CAGTCTTTGTTATGAATGCAT
1 CAGTCTTTGTCATGAATGCAT
16836695 CAGTCTTTGTCATGAATTGCAT
1 CAGTCTTTGTCATGAA-TGCAT
16836717 GAACATATCC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 32 0.86
22 5 0.14
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.39
Consensus pattern (21 bp):
CAGTCTTTGTCATGAATGCAT
Found at i:16844486 original size:61 final size:60
Alignment explanation
Indices: 16844410--16844593 Score: 239
Period size: 61 Copynumber: 3.0 Consensus size: 60
16844400 AGACATCATC
* *
16844410 ACCTACTCATGGGAACTGCCCACGCCACCATATATAAATCAGGGCTTCAGGTCTCCCTTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACCATATATGAATC-GGGCTTCAGGTCTCCCTTTT
* *
16844471 ACCTACTCGTGGGAACTGTCCACGCCACCCA-ATATGAATCGAGGCTTCAGGTC-CCCCTTT
1 ACCTACTCGTGGGAACTGCCCACGCCA-CCATATATGAATCG-GGCTTCAGGTCTCCCTTTT
* * *
16844531 ACCTACTCGTGGGAACTACCCACACCACC-TAATGTGAATCGGGACTTCAGGTCTCCCTTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACCAT-ATATGAATCGGG-CTTCAGGTCTCCCTTTT
16844592 AC
1 AC
16844594 AATCAAATAT
Statistics
Matches: 108, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
59 4 0.04
60 49 0.45
61 52 0.48
62 3 0.03
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (60 bp):
ACCTACTCGTGGGAACTGCCCACGCCACCATATATGAATCGGGCTTCAGGTCTCCCTTTT
Found at i:16844569 original size:60 final size:59
Alignment explanation
Indices: 16844410--16844590 Score: 222
Period size: 60 Copynumber: 3.0 Consensus size: 59
16844400 AGACATCATC
* * *
16844410 ACCTACTCATGGGAACTGCCCACGCCACCATATATAAATC-AGGGCTTCAGGTCTCCCTTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACCA-ATATGAATCGA-GGCTTCAGGTC-CCCCTTT
*
16844471 ACCTACTCGTGGGAACTGTCCACGCCACCCAATATGAATCGAGGCTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTGCCCACGCCA-CCAATATGAATCGAGGCTTCAGGTCCCCCTTT
* * * *
16844531 ACCTACTCGTGGGAACTACCCACACCACCTAATGTGAATCG-GGACTTCAGGTCTCCCTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACC-AATATGAATCGAGG-CTTCAGGTCCCCCTTT
16844591 TACAATCAAA
Statistics
Matches: 107, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
59 4 0.04
60 55 0.51
61 44 0.41
62 4 0.04
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (59 bp):
ACCTACTCGTGGGAACTGCCCACGCCACCAATATGAATCGAGGCTTCAGGTCCCCCTTT
Found at i:16845333 original size:13 final size:14
Alignment explanation
Indices: 16845314--16845347 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
16845304 AACCGAAATT
*
16845314 TTTCTTTTTTTTTC
1 TTTCTTTTTCTTTC
16845328 -TTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
16845341 TTTCTTT
1 TTTCTTT
16845348 CTCCCCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:16845454 original size:16 final size:17
Alignment explanation
Indices: 16845435--16845475 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
16845425 ACTCCTCTCC
16845435 CTTTCTT-TTCCTTCTT
1 CTTTCTTCTTCCTTCTT
*
16845451 CTTT-TTCTTCTTTCTT
1 CTTTCTTCTTCCTTCTT
16845467 CTTTCTTCT
1 CTTTCTTCT
16845476 CTCTCCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 16 0.73
17 4 0.18
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
CTTTCTTCTTCCTTCTT
Found at i:16845466 original size:7 final size:7
Alignment explanation
Indices: 16845435--16845475 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
16845425 ACTCCTCTCC
16845435 CTTTCTT
1 CTTTCTT
*
16845442 -TTCCTT
1 CTTTCTT
16845448 C-TTCTT
1 CTTTCTT
16845454 -TTTCTT
1 CTTTCTT
16845460 CTTTCTT
1 CTTTCTT
16845467 CTTTCTT
1 CTTTCTT
16845474 CT
1 CT
16845476 CTCTCCTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 14 0.48
7 15 0.52
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (7 bp):
CTTTCTT
Found at i:16845503 original size:77 final size:76
Alignment explanation
Indices: 16845381--16845543 Score: 195
Period size: 77 Copynumber: 2.1 Consensus size: 76
16845371 CTGCTCTCCC
* * * * *
16845381 TCTTTCTTCCTTTTTCTTCTTTCTTCTTTCTCCTCCGGCACGCCACTCCTCTCCCTTTCTTTTCC
1 TCTTTCTT-CTTTTTCTTCTCTCCTCTTTCTCCTCCAGCACGCCACTCCTCTCCCTCTCTCTTCC
*
16845446 TTCTTCTTTTTCT
65 TTCTTC-CTTTCT
* * *
16845459 TCTTTCTTCTTTCTTC-TCTCTCCTCTTTCTCCTCTAGCATGCCACTGCTCTCCCTCTCTCTTCC
1 TCTTTCTTCTTT-TTCTTCTCTCCTCTTTCTCCTCCAGCACGCCACTCCTCTCCCTCTCTCTTCC
*
16845523 TTTTTCCTTTCT
65 TTCTTCCTTTCT
16845535 TCTTT-TTCT
1 TCTTTCTTCT
16845544 CACTTGAGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
75 4 0.05
76 10 0.14
77 49 0.66
78 11 0.15
ACGTcount: A:0.03, C:0.39, G:0.04, T:0.55
Consensus pattern (76 bp):
TCTTTCTTCTTTTTCTTCTCTCCTCTTTCTCCTCCAGCACGCCACTCCTCTCCCTCTCTCTTCCT
TCTTCCTTTCT
Found at i:16855730 original size:2 final size:2
Alignment explanation
Indices: 16855723--16855829 Score: 153
Period size: 2 Copynumber: 54.0 Consensus size: 2
16855713 TAAAAGGTGA
*
16855723 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
16855765 AC AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
16855807 AC AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
16855830 TCTTACTTAT
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
1 1 0.01
2 95 0.99
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:16855955 original size:20 final size:20
Alignment explanation
Indices: 16855930--16855970 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
16855920 AGCAGAATAA
16855930 CTAATTAATATTTCCATTTT
1 CTAATTAATATTTCCATTTT
16855950 CTAATTAATATTTCCATTTT
1 CTAATTAATATTTCCATTTT
16855970 C
1 C
16855971 CCAAATTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (20 bp):
CTAATTAATATTTCCATTTT
Found at i:16857624 original size:30 final size:30
Alignment explanation
Indices: 16857584--16857641 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
16857574 ATTATTATTA
* *
16857584 ATAAGGGTTTATTTGATTCAAAATAAAAGT
1 ATAAGAGTTTATTTGACTCAAAATAAAAGT
16857614 ATAAGAGTTTATTTGACTCAAAATAAAA
1 ATAAGAGTTTATTTGACTCAAAATAAAA
16857642 AAAAGGCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.34
Consensus pattern (30 bp):
ATAAGAGTTTATTTGACTCAAAATAAAAGT
Found at i:16858582 original size:2 final size:2
Alignment explanation
Indices: 16858575--16858624 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
16858565 TCACCTCCTT
16858575 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16858617 TA TA TA TA
1 TA TA TA TA
16858625 ATTGAGAGAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16861514 original size:12 final size:12
Alignment explanation
Indices: 16861499--16861523 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16861489 ATATATATAT
16861499 ATTTCCCTCAAA
1 ATTTCCCTCAAA
16861511 ATTTCCCTCAAA
1 ATTTCCCTCAAA
16861523 A
1 A
16861524 GTCTCTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTTCCCTCAAA
Found at i:16863469 original size:2 final size:2
Alignment explanation
Indices: 16863457--16863489 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
16863447 CAAAATTGAA
16863457 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16863490 TTATGCTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16871802 original size:2 final size:2
Alignment explanation
Indices: 16871797--16871825 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16871787 TTTATTTCTC
16871797 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16871826 TTTGACCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16872946 original size:5 final size:5
Alignment explanation
Indices: 16872936--16872972 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
16872926 TTTTTTCTTA
16872936 TTATT TTATT TTATT ATTA-T TTATT TTATT TT-TT TTA
1 TTATT TTATT TTATT -TTATT TTATT TTATT TTATT TTA
16872973 AATGAGTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 7 0.24
5 19 0.66
6 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:16872960 original size:15 final size:16
Alignment explanation
Indices: 16872928--16872965 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
16872918 ATTCCTCTTT
*
16872928 TTTTCTTATTATTTTA
1 TTTTATTATTATTTTA
16872944 TTTTATTATTA-TTTA
1 TTTTATTATTATTTTA
16872959 TTTTATT
1 TTTTATT
16872966 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATTATTATTTTA
Found at i:16873286 original size:2 final size:2
Alignment explanation
Indices: 16873279--16873332 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
16873269 TAGTTTGCAC
16873279 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16873321 TA TA TA TA TA TA
1 TA TA TA TA TA TA
16873333 AAATCATATC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16885942 original size:2 final size:2
Alignment explanation
Indices: 16885935--16885983 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
16885925 AATAATAAAN
16885935 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16885977 AT AT AT A
1 AT AT AT A
16885984 ATTTCAATAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16886190 original size:51 final size:51
Alignment explanation
Indices: 16886114--16886215 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
16886104 CTGAATGGGA
* * *
16886114 CTTAGTCGTTGTCCATTGGATCTTATATTGGGTTTAGAGAAATTATTAGGG
1 CTTAGTCGTGGTCCATTGGATCTTATATTCGGTTTAGAGAAATTATCAGGG
* * *
16886165 CTTAGTCGTGGTCCATTGGTTCTTATTTTCGGTTTAGATAAATTATCAGGG
1 CTTAGTCGTGGTCCATTGGATCTTATATTCGGTTTAGAGAAATTATCAGGG
16886216 TTTTACGTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.42
Consensus pattern (51 bp):
CTTAGTCGTGGTCCATTGGATCTTATATTCGGTTTAGAGAAATTATCAGGG
Found at i:16888080 original size:2 final size:2
Alignment explanation
Indices: 16888075--16888119 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
16888065 TGATGAAAAT
16888075 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16888117 TA T
1 TA T
16888120 TTCAATTATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16889328 original size:25 final size:26
Alignment explanation
Indices: 16889298--16889349 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
16889288 AATAAAAATA
16889298 AAATAAA-AT-AATCTATTAATATTTT
1 AAATAAACATAAAT-TATTAATATTTT
16889323 AAATAAACTATAAATTATTAATATTTT
1 AAATAAAC-ATAAATTATTAATATTTT
16889350 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 7 0.29
27 14 0.58
28 3 0.12
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (26 bp):
AAATAAACATAAATTATTAATATTTT
Found at i:16889947 original size:20 final size:20
Alignment explanation
Indices: 16889923--16889968 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
16889913 ATTTATAATG
16889923 ATATTTTGAT-ATTAAATATA
1 ATATTTTGATAATT-AATATA
*
16889943 GTA-TTTGATAATTAATATA
1 ATATTTTGATAATTAATATA
16889962 ATATTTT
1 ATATTTT
16889969 TTCAATGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (20 bp):
ATATTTTGATAATTAATATA
Found at i:16897224 original size:21 final size:22
Alignment explanation
Indices: 16897198--16897250 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 22
16897188 ACCTATTCCC
16897198 TAAATAAAAATTAATCAAA-AA
1 TAAATAAAAATTAATCAAATAA
16897219 TAAAT-AAAA-TAATCAAATAA
1 TAAATAAAAATTAATCAAATAA
16897239 TACAATAAAAAT
1 TA-AATAAAAAT
16897251 AAAAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 8 0.29
20 8 0.29
21 8 0.29
22 4 0.14
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAATAAAAATTAATCAAATAA
Found at i:16902463 original size:31 final size:31
Alignment explanation
Indices: 16902246--16903079 Score: 521
Period size: 31 Copynumber: 27.2 Consensus size: 31
16902236 GATTTGAGTC
* *
16902246 TTAAGTCCAATT-TCACTGGCATCCAAGATGT
1 TTAAGCCCAATTAT-ACTGGCATCAAAGATGT
* *
16902277 TTAAGCCCAGTTATATTGGCA-CAAAGA-GAT
1 TTAAGCCCAATTATACTGGCATCAAAGATG-T
* *
16902307 TTAAGCCAAATT-TAATTGGCATCCAAA-ATGT
1 TTAAGCCCAATTAT-ACTGGCAT-CAAAGATGT
* *
16902338 TTAAGCCCAGTTATATTGGCA-CAAAGA-GT
1 TTAAGCCCAATTATACTGGCATCAAAGATGT
* *
16902367 TTTAGCCCAATTA-AGCTGGCATCCAAGATGT
1 TTAAGCCCAATTATA-CTGGCATCAAAGATGT
* * * *
16902398 TTAAGCCTAGTGATATTGGCA-CAAAGA-GT
1 TTAAGCCCAATTATACTGGCATCAAAGATGT
*
16902427 TTAAGCCCAATTA-AGCTGGCATCCAAGATGT
1 TTAAGCCCAATTATA-CTGGCATCAAAGATGT
* * * *
16902458 TTAAGCCCAGTGATATTGGTACA-AAAAGA-GT
1 TTAAGCCCAATTATACTGG--CATCAAAGATGT
*
16902489 TTAAGCCCAATTA-ACCTGGCATCCAAGATGT
1 TTAAGCCCAATTATA-CTGGCATCAAAGATGT
* * * *
16902520 TTAAGCCTAGTGATATTGGCA-CAAAAAGA-GT
1 TTAAGCCCAATTATACTGGCATC--AAAGATGT
* *
16902551 TTAAGCCTAATTA-AGCTGGCATCCAAGATGT
1 TTAAGCCCAATTATA-CTGGCATCAAAGATGT
* *
16902582 TTAAGCCCAATAATACTAGCA-CAAAGA-GT
1 TTAAGCCCAATTATACTGGCATCAAAGATGT
*
16902611 TTAAGCCCAATTA-AGCTGGCATCCAAGATGT
1 TTAAGCCCAATTATA-CTGGCATCAAAGATGT
* * * *
16902642 TTAAGCCTAGTGATATTGGCA-CAAAAAGA-GT
1 TTAAGCCCAATTATACTGGCATC--AAAGATGT
* * *
16902673 TTAAGCCCAATTAAACTAGCATCCAAGATGT
1 TTAAGCCCAATTATACTGGCATCAAAGATGT
* * *
16902704 TTAATCCCAATGATATTGGCA-CAAAAGA-GT
1 TTAAGCCCAATTATACTGGCATC-AAAGATGT
* * *
16902734 TTAAGCCCAATTAAACTAGCATCCAAGATGT
1 TTAAGCCCAATTATACTGGCATCAAAGATGT
** * * * *
16902765 TTAAGCTTAGTGATATTAGCA-CAAAAAGA-GT
1 TTAAGCCCAATTATACTGGCATC--AAAGATGT
* *
16902796 TTAAGCCCAATTACACTGGCATCCAAGATGT
1 TTAAGCCCAATTATACTGGCATCAAAGATGT
* * * * *
16902827 TTAAGCCCAGTGATATTGACACTAAAAGA-GT
1 TTAAGCCCAATTATACTGGCA-TCAAAGATGT
*
16902858 TTAAGCCCAATTA-AGCTGGCATCCAAGATGT
1 TTAAGCCCAATTATA-CTGGCATCAAAGATGT
* * * *
16902889 TTAAGCCTAGTGATATTGGCA-CAAAGATGT
1 TTAAGCCCAATTATACTGGCATCAAAGATGT
* * * *
16902919 ATAAGTCCAATTTAAACTGGCATCCAAGATGT
1 TTAAGCCCAA-TTATACTGGCATCAAAGATGT
* * * *
16902951 TTAAGCCTAGTGATATTGGCA-CAAAAAGA-GT
1 TTAAGCCCAATTATACTGGCATC--AAAGATGT
* *
16902982 TTAAGCGCAATTA-AGCTGGCATCCAAGATGT
1 TTAAGCCCAATTATA-CTGGCATCAAAGATGT
* * *
16903013 TTAAGCCCAGTGATATTGGCA-CAAAGATGT
1 TTAAGCCCAATTATACTGGCATCAAAGATGT
* * *
16903043 ATAAGCCCAATT-TAGCTAGCATCTAAGATGT
1 TTAAGCCCAATTATA-CTGGCATCAAAGATGT
16903074 TTAAGC
1 TTAAGC
16903080 TCAGTTATCT
Statistics
Matches: 606, Mismatches: 140, Indels: 114
0.70 0.16 0.13
Matches are distributed among these distances:
28 3 0.00
29 64 0.11
30 140 0.23
31 340 0.56
32 57 0.09
33 2 0.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (31 bp):
TTAAGCCCAATTATACTGGCATCAAAGATGT
Found at i:16902517 original size:62 final size:62
Alignment explanation
Indices: 16902261--16903095 Score: 1158
Period size: 62 Copynumber: 13.6 Consensus size: 62
16902251 TCCAATTTCA
* * *
16902261 CTGGCATCCAAGATGTTTAAGCCCAGTTATATTGGCACAAAGAGA-TTTAAGCCAAATTTAA-
1 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCACAAAAAGAGTTTAAGCCCAA-TTAAG
* * * *
16902322 TTGGCATCCAAAATGTTTAAGCCCAGTTATATTGGCAC--AAAGAGTTTTAGCCCAATTAAG
1 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCACAAAAAGAGTTTAAGCCCAATTAAG
*
16902382 CTGGCATCCAAGATGTTTAAGCCTAGTGATATTGGCAC--AAAGAGTTTAAGCCCAATTAAG
1 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCACAAAAAGAGTTTAAGCCCAATTAAG
* *
16902442 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGTACAAAAAGAGTTTAAGCCCAATTAAC
1 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCACAAAAAGAGTTTAAGCCCAATTAAG
* *
16902504 CTGGCATCCAAGATGTTTAAGCCTAGTGATATTGGCACAAAAAGAGTTTAAGCCTAATTAAG
1 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCACAAAAAGAGTTTAAGCCCAATTAAG
* * * *
16902566 CTGGCATCCAAGATGTTTAAGCCCAATAATACTAGCAC--AAAGAGTTTAAGCCCAATTAAG
1 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCACAAAAAGAGTTTAAGCCCAATTAAG
* *
16902626 CTGGCATCCAAGATGTTTAAGCCTAGTGATATTGGCACAAAAAGAGTTTAAGCCCAATTAAA
1 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCACAAAAAGAGTTTAAGCCCAATTAAG
* * * *
16902688 CTAGCATCCAAGATGTTTAATCCCAATGATATTGGCAC-AAAAGAGTTTAAGCCCAATTAAA
1 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCACAAAAAGAGTTTAAGCCCAATTAAG
* ** *
16902749 CTAGCATCCAAGATGTTTAAGCTTAGTGATATTAGCACAAAAAGAGTTTAAGCCCAATTACA-
1 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCACAAAAAGAGTTTAAGCCCAATTA-AG
* *
16902811 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGACACTAAAAGAGTTTAAGCCCAATTAAG
1 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCACAAAAAGAGTTTAAGCCCAATTAAG
* * * *
16902873 CTGGCATCCAAGATGTTTAAGCCTAGTGATATTGGCAC--AAAGATGTATAAGTCCAATTTAAA
1 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCACAAAAAGA-GTTTAAGCCCAA-TTAAG
* *
16902935 CTGGCATCCAAGATGTTTAAGCCTAGTGATATTGGCACAAAAAGAGTTTAAGCGCAATTAAG
1 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCACAAAAAGAGTTTAAGCCCAATTAAG
* *
16902997 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCAC--AAAGATGTATAAGCCCAATTTAG
1 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCACAAAAAGA-GTTTAAGCCCAATTAAG
* * * * *
16903058 CTAGCATCTAAGATGTTTAAGCTCAGTTATCTTGGCAC
1 CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCAC
16903096 GAGAGAATTT
Statistics
Matches: 698, Mismatches: 62, Indels: 28
0.89 0.08 0.04
Matches are distributed among these distances:
59 8 0.01
60 164 0.23
61 150 0.21
62 361 0.52
63 10 0.01
64 5 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (62 bp):
CTGGCATCCAAGATGTTTAAGCCCAGTGATATTGGCACAAAAAGAGTTTAAGCCCAATTAAG
Found at i:16903175 original size:21 final size:21
Alignment explanation
Indices: 16903149--16903192 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
16903139 ACTTTTTCTT
*
16903149 CTAAAACCTCTAGGTGCATTC
1 CTAAAACCTCTAGGTACATTC
16903170 CTAAAACCTCTAGGTACATTC
1 CTAAAACCTCTAGGTACATTC
16903191 CT
1 CT
16903193 TAAATCTCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (21 bp):
CTAAAACCTCTAGGTACATTC
Found at i:16903324 original size:122 final size:122
Alignment explanation
Indices: 16903106--16903328 Score: 304
Period size: 122 Copynumber: 1.8 Consensus size: 122
16903096 GAGAGAATTT
* * * *
16903106 AAGTTACGTAGCCTCATTCTAAGATGAGGAATAACTTTTTCTTCTAAAACCTCTAGGTGCATTCC
1 AAGTTACGTAACCTCATTCTAAGATGAGAAACAACTTTTTCTTCTAAAACCTCTAGGTACATTCC
* * *
16903171 TAAAACCTCTAGGTACATTCCTTAAATCTCCGGGTAATTAGTTTCAAGATTTCTTCA
66 TAAAACCTCCAGGTACATTCCTAAAACCTCCGGGTAATTAGTTTCAAGATTTCTTCA
* * * * *
16903228 AAGTTACGTAACCTCATTCTGAGATGAGAAACGACTTTTTCTTTTAGAACCTCTGGGTACA-TCT
1 AAGTTACGTAACCTCATTCTAAGATGAGAAACAACTTTTTCTTCTAAAACCTCTAGGTACATTC-
* *
16903292 TTAAAACCTCCAGGTGCATTCCTAAAACCTCCGGGTA
65 CTAAAACCTCCAGGTACATTCCTAAAACCTCCGGGTA
16903329 CATTCCTAAA
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
121 2 0.02
122 84 0.98
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (122 bp):
AAGTTACGTAACCTCATTCTAAGATGAGAAACAACTTTTTCTTCTAAAACCTCTAGGTACATTCC
TAAAACCTCCAGGTACATTCCTAAAACCTCCGGGTAATTAGTTTCAAGATTTCTTCA
Found at i:16903345 original size:21 final size:21
Alignment explanation
Indices: 16903275--16903345 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
16903265 TTTCTTTTAG
* *
16903275 AACCTCTGGGTACA-TCTTTAA
1 AACCTCCGGGTACATTC-CTAA
* *
16903296 AACCTCCAGGTGCATTCCTAA
1 AACCTCCGGGTACATTCCTAA
16903317 AACCTCCGGGTACATTCCTAA
1 AACCTCCGGGTACATTCCTAA
16903338 AACCTCCG
1 AACCTCCG
16903346 AGTAATTAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 41 0.95
22 2 0.05
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.25
Consensus pattern (21 bp):
AACCTCCGGGTACATTCCTAA
Found at i:16903505 original size:21 final size:22
Alignment explanation
Indices: 16903479--16903531 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 22
16903469 ACCTATTCCC
16903479 TAAATAAAAATTAATCAAA-AA
1 TAAATAAAAATTAATCAAATAA
16903500 TAAAT-AAAA-TAATCAAATAA
1 TAAATAAAAATTAATCAAATAA
*
16903520 TACTATAAAAAT
1 TA-AATAAAAAT
16903532 AAAAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 8 0.30
20 8 0.30
21 7 0.26
22 4 0.15
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAATAAAAATTAATCAAATAA
Found at i:16905069 original size:15 final size:16
Alignment explanation
Indices: 16905047--16905088 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
16905037 TATACATTAG
16905047 AAAAAATAAATAATA-
1 AAAAAATAAATAATAT
*
16905062 ATAAAATATAA-AATAT
1 AAAAAATA-AATAATAT
16905078 AAAAAATAAAT
1 AAAAAATAAAT
16905089 CACTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAATAAATAATAT
Found at i:16907263 original size:15 final size:15
Alignment explanation
Indices: 16907243--16907280 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
16907233 AGCGGTAAGC
16907243 CCCAGAAGCGATAGA
1 CCCAGAAGCGATAGA
16907258 CCCAGAAGCGATAGA
1 CCCAGAAGCGATAGA
16907273 CCCTAGAA
1 CCC-AGAA
16907281 ATGGTAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.39, C:0.29, G:0.24, T:0.08
Consensus pattern (15 bp):
CCCAGAAGCGATAGA
Found at i:16908285 original size:154 final size:154
Alignment explanation
Indices: 16908006--16908467 Score: 813
Period size: 154 Copynumber: 3.0 Consensus size: 154
16907996 TTCACTTTTT
* *
16908006 AAGATTAATTAATTAAATTTATTAATTATGAAAGAGAAAG-TT-CTCAAAAAAA-ATTGAAAGTT
1 AAGATTAATTGATTAAATTTATTAATTATGAAAGAGAAAGTTTCCT-AAAAAAAGATTGAAAATT
16908068 GACATATGACAAGTAAGAACAAAGAGAGAGTGAAGTTCCAATTTTACCTTATTATGCTTTCGTAC
65 GACATATGACAAGTAAGAACAAAGAGAGAGTGAAGTTCCAATTTTACCTTATTATGCTTTCGTAC
16908133 TTTGGTGTCCATCAAACAATTTGGC
130 TTTGGTGTCCATCAAACAATTTGGC
*
16908158 TAGATTAATTGATTAAATTTATTAATTATGAAAGAGAAAGTTTCCTAAAAAAAGATTGAAAATTG
1 AAGATTAATTGATTAAATTTATTAATTATGAAAGAGAAAGTTTCCTAAAAAAAGATTGAAAATTG
* *
16908223 ACATATGACAAGTAAGAACAAAAAGAGAGTGAAGTTTCAATTTTACCTTATTATGCTTTCGTACT
66 ACATATGACAAGTAAGAACAAAGAGAGAGTGAAGTTCCAATTTTACCTTATTATGCTTTCGTACT
16908288 TTGGTGTCCATCAAACAATTTGGC
131 TTGGTGTCCATCAAACAATTTGGC
16908312 AAGATTAATTGATTAAATTTATTAATTATGAAAGAGAAAGTTTCCTAAAAAAAGATTGAAAATTG
1 AAGATTAATTGATTAAATTTATTAATTATGAAAGAGAAAGTTTCCTAAAAAAAGATTGAAAATTG
* * *
16908377 ACATATGACAAGTAAGAACAAAGACAGAGTGAAGTTCCAATTTTACCTTTTTATGCTTTTGTACT
66 ACATATGACAAGTAAGAACAAAGAGAGAGTGAAGTTCCAATTTTACCTTATTATGCTTTCGTACT
*
16908442 TTGGTGTCCATTAAACAATTTGGC
131 TTGGTGTCCATCAAACAATTTGGC
16908466 AA
1 AA
16908468 TTGATTTAGG
Statistics
Matches: 295, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
152 38 0.13
153 9 0.03
154 248 0.84
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (154 bp):
AAGATTAATTGATTAAATTTATTAATTATGAAAGAGAAAGTTTCCTAAAAAAAGATTGAAAATTG
ACATATGACAAGTAAGAACAAAGAGAGAGTGAAGTTCCAATTTTACCTTATTATGCTTTCGTACT
TTGGTGTCCATCAAACAATTTGGC
Found at i:16908537 original size:17 final size:17
Alignment explanation
Indices: 16908515--16908547 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16908505 TTTTCCAAAG
16908515 AAAATTATTAAAATATC
1 AAAATTATTAAAATATC
*
16908532 AAAATTATTGAAATAT
1 AAAATTATTAAAATAT
16908548 TTTATGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
AAAATTATTAAAATATC
Found at i:16909421 original size:13 final size:13
Alignment explanation
Indices: 16909380--16909421 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
16909370 TTTCCTCCCC
16909380 TTTTTCTTTT-TT
1 TTTTTCTTTTCTT
* *
16909392 TTTTTCCTTCCTT
1 TTTTTCTTTTCTT
16909405 TTTTTCTTTTCTAT
1 TTTTTCTTTTCT-T
16909419 TTT
1 TTT
16909422 CTCTCTCCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 8 0.33
13 12 0.50
14 4 0.17
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:16917024 original size:13 final size:13
Alignment explanation
Indices: 16917006--16917037 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16916996 AAATTAATAG
*
16917006 ATTTTATTTAATT
1 ATTTTAATTAATT
16917019 ATTTTAATTAATT
1 ATTTTAATTAATT
16917032 ATTTTA
1 ATTTTA
16917038 GGTGAGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTTAATTAATT
Found at i:16918621 original size:23 final size:23
Alignment explanation
Indices: 16918595--16918638 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
16918585 GCGTGAGTGT
* *
16918595 TTGATATGTGATTGCGTGACATA
1 TTGATAGGTCATTGCGTGACATA
16918618 TTGATAGGTCATTGCGTGACA
1 TTGATAGGTCATTGCGTGACA
16918639 GCATAATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.36
Consensus pattern (23 bp):
TTGATAGGTCATTGCGTGACATA
Found at i:16919948 original size:30 final size:30
Alignment explanation
Indices: 16919908--16919967 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
16919898 GTTTATCATT
16919908 ATTCATTTCGCATAAGAGTT-TATGAGGTGA
1 ATTCATTTCGCATAAGA-TTCTATGAGGTGA
*
16919938 ATTCTTTTCGCATAAGATTCTATGAGGTGA
1 ATTCATTTCGCATAAGATTCTATGAGGTGA
16919968 GTAAAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (30 bp):
ATTCATTTCGCATAAGATTCTATGAGGTGA
Found at i:16922463 original size:103 final size:103
Alignment explanation
Indices: 16922282--16922478 Score: 261
Period size: 103 Copynumber: 1.9 Consensus size: 103
16922272 GGCAAAGCAC
* * * *
16922282 AGGAGAAGGGTGAGAGAGAGGAAGCCCGACCGTCACGCCACCAGACCCGGCACAGGGAAGAGAGC
1 AGGAGAAGAGTGAGAGAAAGGAAGCCCGACCGTCACGCCACCAAACCCGACACAGGGAAGAGAGC
* * *
16922347 AGAAGCACTCGATCAGTGCCAAGGGGGTTCGCGTCGAT
66 AGAAGCACCCGATCAGTACCAAGAGGGTTCGCGTCGAT
* ** * *
16922385 AGGAGAAGAGTGAGAGAAAGGAAGCTCGACCGTTGCGCCACCAAATCCGACGCAGGGAAGAGAGC
1 AGGAGAAGAGTGAGAGAAAGGAAGCCCGACCGTCACGCCACCAAACCCGACACAGGGAAGAGAGC
*
16922450 -GAAGGCACCCGATCTGTACCAAGAGGGTT
66 AGAA-GCACCCGATCAGTACCAAGAGGGTT
16922479 AGCTGTCGGT
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
102 3 0.04
103 77 0.96
ACGTcount: A:0.31, C:0.24, G:0.36, T:0.10
Consensus pattern (103 bp):
AGGAGAAGAGTGAGAGAAAGGAAGCCCGACCGTCACGCCACCAAACCCGACACAGGGAAGAGAGC
AGAAGCACCCGATCAGTACCAAGAGGGTTCGCGTCGAT
Found at i:16923480 original size:15 final size:15
Alignment explanation
Indices: 16923462--16923491 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16923452 AAAAAAATGT
16923462 AAAAAATAAAAAATA
1 AAAAAATAAAAAATA
*
16923477 AAAAAATAATAAATA
1 AAAAAATAAAAAATA
16923492 TATATATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAATAAAAAATA
Found at i:16923567 original size:14 final size:13
Alignment explanation
Indices: 16923548--16923603 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
16923538 ATTGCTTATG
16923548 AAAAATATAATAAT
1 AAAAATAT-ATAAT
16923562 -AAAA-ATATAA-
1 AAAAATATATAAT
* *
16923572 AAATATATAAAAT
1 AAAAATATATAAT
16923585 AAAAATAGTATAAT
1 AAAAATA-TATAAT
16923599 AAAAA
1 AAAAA
16923604 AAAAGAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
11 7 0.21
12 7 0.21
13 10 0.29
14 10 0.29
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (13 bp):
AAAAATATATAAT
Found at i:16923599 original size:23 final size:24
Alignment explanation
Indices: 16923548--16923591 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
16923538 ATTGCTTATG
16923548 AAAA-ATATAATAATAAAAATATA
1 AAAATATATAATAATAAAAATATA
16923571 AAAATATATAA-AATAAAAATA
1 AAAATATATAATAATAAAAATA
16923592 GTATAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (24 bp):
AAAATATATAATAATAAAAATATA
Found at i:16923603 original size:15 final size:15
Alignment explanation
Indices: 16923551--16923604 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
16923541 GCTTATGAAA
* *
16923551 AATATAATAATA-AA
1 AATATAAAAATATAT
16923565 AATATAAAAATATAT
1 AATATAAAAATATAT
*
16923580 AAAATAAAAATAGTAT
1 AATATAAAAATA-TAT
16923596 AATA-AAAAA
1 AATATAAAAA
16923605 AAAGAAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 11 0.32
15 17 0.50
16 6 0.18
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
AATATAAAAATATAT
Found at i:16933997 original size:48 final size:48
Alignment explanation
Indices: 16933941--16934037 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
16933931 TTATAAGCTC
*
16933941 TAAGACCCATCTCTTACATTACTCATGCGGAATTTGTGACATGTCATT
1 TAAGACCCATCTCATACATTACTCATGCGGAATTTGTGACATGTCATT
**
16933989 TAAGACCCATCTCATATGTTACTCATGCGGAATTTGTGACATGTCATT
1 TAAGACCCATCTCATACATTACTCATGCGGAATTTGTGACATGTCATT
16934037 T
1 T
16934038 TTAATTAATG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (48 bp):
TAAGACCCATCTCATACATTACTCATGCGGAATTTGTGACATGTCATT
Found at i:16935177 original size:15 final size:15
Alignment explanation
Indices: 16935157--16935187 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16935147 TAAATATTTT
*
16935157 TATATTTAAAGTATA
1 TATATTAAAAGTATA
16935172 TATATTAAAAGTATA
1 TATATTAAAAGTATA
16935187 T
1 T
16935188 TAGTTTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (15 bp):
TATATTAAAAGTATA
Found at i:16935222 original size:28 final size:26
Alignment explanation
Indices: 16935183--16935236 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
16935173 ATATTAAAAG
16935183 TATATTAGTTTATATATATAATAGTAAT
1 TATATTAGTTTATA-ATATAATA-TAAT
*
16935211 TATATTCA-TTTATAATATGATATAAT
1 TATATT-AGTTTATAATATAATATAAT
16935237 ATTCAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.17
27 7 0.29
28 12 0.50
29 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (26 bp):
TATATTAGTTTATAATATAATATAAT
Found at i:16941120 original size:27 final size:26
Alignment explanation
Indices: 16941044--16941103 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
16941034 AGAGATCAAG
* *
16941044 TTACAGGTCATGTTTAAAAAATAATATT
1 TTACAAGTCATG-TTCAAAAA-AATATT
16941072 TTACAAGTCATGTTCAAAAAAATATT
1 TTACAAGTCATGTTCAAAAAAATATT
16941098 ATTACA
1 -TTACA
16941104 CTTCTTGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 6 0.21
27 12 0.41
28 11 0.38
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (26 bp):
TTACAAGTCATGTTCAAAAAAATATT
Found at i:16941723 original size:19 final size:19
Alignment explanation
Indices: 16941685--16941723 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
16941675 GGCCTAAGTT
* *
16941685 ACACGCCATGTTGAAAAAA
1 ACACGACATGTTAAAAAAA
16941704 ACACGACATGTTAAAAAAA
1 ACACGACATGTTAAAAAAA
16941723 A
1 A
16941724 AAGTTGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.18, G:0.13, T:0.15
Consensus pattern (19 bp):
ACACGACATGTTAAAAAAA
Found at i:16953127 original size:18 final size:18
Alignment explanation
Indices: 16953106--16953157 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
16953096 AAATTTTAAT
16953106 TAAATAAAATAAAATAAA
1 TAAATAAAATAAAATAAA
*
16953124 TAAATAAAATAATAATAAT
1 TAAATAAAATAA-AATAAA
*
16953143 TAAAAAAAATTAAAA
1 TAAATAAAA-TAAAA
16953158 AAAAAAATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 12 0.40
19 15 0.50
20 3 0.10
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAATAAAATAAAATAAA
Found at i:16953162 original size:11 final size:10
Alignment explanation
Indices: 16953103--16953161 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 10
16953093 AAAAAATTTT
*
16953103 AATTAAATAA
1 AATTAAAAAA
*
16953113 AA-TAAAATA
1 AATTAAAAAA
*
16953122 AA-TAAATAA
1 AATTAAAAAA
* *
16953131 AA-TAATAAT
1 AATTAAAAAA
16953140 AATTAAAAAA
1 AATTAAAAAA
16953150 AATTAAAAAA
1 AATTAAAAAA
16953160 AA
1 AA
16953162 AAATGGAGAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
9 20 0.51
10 19 0.49
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AATTAAAAAA
Found at i:16954168 original size:7 final size:7
Alignment explanation
Indices: 16954156--16954256 Score: 78
Period size: 7 Copynumber: 13.4 Consensus size: 7
16954146 ATTTTTTTAG
16954156 ATAAAAA
1 ATAAAAA
16954163 ATAAAAA
1 ATAAAAA
16954170 ATAAAAA
1 ATAAAAA
16954177 ATATAAAA
1 ATA-AAAA
* *
16954185 ATGTAGAA
1 AT-AAAAA
16954193 A-AAAAA
1 ATAAAAA
16954199 ATAAAAA
1 ATAAAAA
*
16954206 ATAATGATA
1 ATAA--AAA
16954215 ATAATAAA
1 ATAA-AAA
*
16954223 ATGAAAA
1 ATAAAAA
16954230 ATAAATAA
1 ATAAA-AA
16954238 ATAATAATA
1 ATAA-AA-A
*
16954247 ATAAATA
1 ATAAAAA
16954254 ATA
1 ATA
16954257 TAATTGGAAC
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
6 4 0.05
7 37 0.49
8 23 0.30
9 12 0.16
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (7 bp):
ATAAAAA
Found at i:16954211 original size:24 final size:23
Alignment explanation
Indices: 16954167--16954233 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 23
16954157 TAAAAAATAA
*
16954167 AAAATAAAAAATATAAA-AATG-T
1 AAAA-AAAAAATAAAAATAATGAT
16954189 AGAAAAAAAAATAAAAAATAATGAT
1 A-AAAAAAAAAT-AAAAATAATGAT
* *
16954214 AATAATAAAATGAAAAATAA
1 AAAAAAAAAAT-AAAAATAA
16954234 ATAAATAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
22 8 0.22
23 7 0.19
24 20 0.54
25 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (23 bp):
AAAAAAAAAATAAAAATAATGAT
Found at i:16954223 original size:29 final size:29
Alignment explanation
Indices: 16954156--16954251 Score: 95
Period size: 29 Copynumber: 3.2 Consensus size: 29
16954146 ATTTTTTTAG
*
16954156 ATAAAAAATAAAAAATAAAAAAT-ATAAAA
1 ATAAAAAA-AAAAAATAAAAAATAATAATA
* * *
16954185 ATGTAGAAAAAAAAATAAAAAATAATGATA
1 AT-AAAAAAAAAAAATAAAAAATAATAATA
*
16954215 ATAATAAAATGAAAAATAAATAAATAATAATA
1 ATAA-AAAA-AAAAAATAAA-AAATAATAATA
16954247 ATAAA
1 ATAAA
16954252 TAATATAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
29 17 0.31
30 13 0.24
31 10 0.19
32 14 0.26
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (29 bp):
ATAAAAAAAAAAAATAAAAAATAATAATA
Found at i:16981329 original size:21 final size:21
Alignment explanation
Indices: 16981303--16981348 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
16981293 CTTCTTTCTG
*
16981303 TCTCTCTCAAGCCCT-CTCTTC
1 TCTCTCTCAA-CCCTACCCTTC
*
16981324 TCTCTCTCTACCCTACCCTTC
1 TCTCTCTCAACCCTACCCTTC
16981345 TCTC
1 TCTC
16981349 CCTAGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.09, C:0.50, G:0.02, T:0.39
Consensus pattern (21 bp):
TCTCTCTCAACCCTACCCTTC
Found at i:16985589 original size:19 final size:22
Alignment explanation
Indices: 16985546--16985592 Score: 73
Period size: 19 Copynumber: 2.3 Consensus size: 22
16985536 ATCATGTATT
16985546 TGGTTTCAAAACTAAAAGTGCA
1 TGGTTTCAAAACTAAAAGTGCA
16985568 TGGTTTC-AAACT-AAAG-GCA
1 TGGTTTCAAAACTAAAAGTGCA
16985587 TGGTTT
1 TGGTTT
16985593 ATACCAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.36
20 4 0.16
21 5 0.20
22 7 0.28
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (22 bp):
TGGTTTCAAAACTAAAAGTGCA
Found at i:16986804 original size:63 final size:62
Alignment explanation
Indices: 16986731--16986863 Score: 230
Period size: 63 Copynumber: 2.1 Consensus size: 62
16986721 GGTTCGCTTC
16986731 TATGTAATCAATTATCAATTAATAGATATAAAATACGTCTTTAAAAAAAAAAACTTTGAAATT
1 TATGTAATCAATTATCAATTAATAGATATAAAATACGTCTTT-AAAAAAAAAACTTTGAAATT
* **
16986794 TATGTAATCAATTATCAATTAATAGATATAAAATACGTCTTTCAAAAAAAATTTTTGAAATT
1 TATGTAATCAATTATCAATTAATAGATATAAAATACGTCTTTAAAAAAAAAACTTTGAAATT
16986856 TATGTAAT
1 TATGTAAT
16986864 TAAAATTTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
62 25 0.37
63 42 0.63
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.38
Consensus pattern (62 bp):
TATGTAATCAATTATCAATTAATAGATATAAAATACGTCTTTAAAAAAAAAACTTTGAAATT
Found at i:16990918 original size:2 final size:2
Alignment explanation
Indices: 16990911--16990964 Score: 92
Period size: 2 Copynumber: 27.0 Consensus size: 2
16990901 CTTCATGTGG
16990911 CT CT CT CT CT CT CT CT CT CT CT CT CAT -T CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT C-T CT CT CT CT CT CT CT CT
16990953 CT CT CT CT CT CT
1 CT CT CT CT CT CT
16990965 AATATAATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 48 0.96
3 1 0.02
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Done.