Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 96 of 131
Found at i:17253026 original size:37 final size:37
Alignment explanation
Indices: 17252981--17253218 Score: 185
Period size: 37 Copynumber: 6.5 Consensus size: 37
17252971 AATAATAAGG
*
17252981 TAATACATGCACTCCATTTCATGCACATCTTAATAGG
1 TAATACATGCACTCCATTTCATGCACATCTTAATAGA
** * *
17253018 TGGTACATGCACTCAATTTCATGCATATCTTAATAGA
1 TAATACATGCACTCCATTTCATGCACATCTTAATAGA
* * * *
17253055 TAATACATGCATTCCATTTCATGCGCATCTAAATAAA
1 TAATACATGCACTCCATTTCATGCACATCTTAATAGA
* * * * * *
17253092 TAATACATGTAGTCCATCTCATGTATATCATAATAGA
1 TAATACATGCACTCCATTTCATGCACATCTTAATAGA
* * * *
17253129 TAATACATGTAGTCTATCTT-ATGTACAT-TATAATAGA
1 TAATACATGCACTCCAT-TTCATGCACATCT-TAATAGA
* * * * * *
17253166 -CATACATGCATTCTATCTCATGCATATCTTAATATA
1 TAATACATGCACTCCATTTCATGCACATCTTAATAGA
* * *
17253202 TAGTATATGCATTCCAT
1 TAATACATGCACTCCAT
17253219 CTTATGGACA
Statistics
Matches: 159, Mismatches: 37, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
35 1 0.01
36 25 0.16
37 132 0.83
38 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (37 bp):
TAATACATGCACTCCATTTCATGCACATCTTAATAGA
Found at i:17255853 original size:16 final size:16
Alignment explanation
Indices: 17255834--17255867 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17255824 GAAAATGAAA
* *
17255834 AAAAATAAAAAATAAT
1 AAAAAGAAAAAAAAAT
17255850 AAAAAGAAAAAAAAAT
1 AAAAAGAAAAAAAAAT
17255866 AA
1 AA
17255868 CAAAATGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAT
Found at i:17255853 original size:19 final size:19
Alignment explanation
Indices: 17255831--17255877 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
17255821 AAGGAAAATG
*
17255831 AAAAA-AAATAAAAAATAAT
1 AAAAAGAAA-AAAAAATAAC
17255850 AAAAAGAAAAAAAAATAAC
1 AAAAAGAAAAAAAAATAAC
*
17255869 AAAATGAAA
1 AAAAAGAAA
17255878 TGAATTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.11
Consensus pattern (19 bp):
AAAAAGAAAAAAAAATAAC
Found at i:17256421 original size:18 final size:19
Alignment explanation
Indices: 17256387--17256423 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
17256377 AATGAAAGAG
17256387 AAAGAAACAAGAAAAAATA
1 AAAGAAACAAGAAAAAATA
*
17256406 AAAGAAA-AATAAAAAATA
1 AAAGAAACAAGAAAAAATA
17256424 GGGGAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.81, C:0.03, G:0.08, T:0.08
Consensus pattern (19 bp):
AAAGAAACAAGAAAAAATA
Found at i:17258966 original size:40 final size:42
Alignment explanation
Indices: 17258900--17258977 Score: 115
Period size: 40 Copynumber: 1.9 Consensus size: 42
17258890 CTCCCGACGT
* **
17258900 AATTTTAAAATTTTTGAATGATTTTCAAGA-CTTCAAGGTGA
1 AATTTTAAAAGTTTTGAAAAATTTTCAAGACCTTCAAGGTGA
17258941 AATTTT-AAAGTTTTGAAAAATTTTCAAGACCTTCAAG
1 AATTTTAAAAGTTTTGAAAAATTTTCAAGACCTTCAAG
17258978 CATATGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 20 0.61
41 13 0.39
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (42 bp):
AATTTTAAAAGTTTTGAAAAATTTTCAAGACCTTCAAGGTGA
Found at i:17259131 original size:20 final size:19
Alignment explanation
Indices: 17259106--17259168 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
17259096 CAAAATCTTC
17259106 AGATTTTTGAACAATTTCTA
1 AGATTTTTGAACAATTT-TA
* * *
17259126 AGATTTGTAGGAAAAATCTTA
1 AGATTT-T-TGAACAATTTTA
17259147 A-ATTTTTGAACAATTTTGA
1 AGATTTTTGAACAATTTT-A
17259166 AGA
1 AGA
17259169 CATCTAGGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 8 0.24
19 3 0.09
20 11 0.33
21 4 0.12
22 7 0.21
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (19 bp):
AGATTTTTGAACAATTTTA
Found at i:17259157 original size:40 final size:40
Alignment explanation
Indices: 17259097--17259204 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 40
17259087 ACCTTCGAGC
* ** *
17259097 AAAATCTTCAGATTTTTGAACAATTTCTAAGATTTGTAGGA
1 AAAATCTT-AAATTTTTGAACAATTTCTAAGACATCTAGGA
*
17259138 AAAATCTTAAATTTTTGAACAATTT-TGAAGACATCTAGGT
1 AAAATCTTAAATTTTTGAACAATTTCT-AAGACATCTAGGA
* *
17259178 AAAATCTTAAAATTTTGAA-AACTTCTA
1 AAAATCTTAAATTTTTGAACAATTTCTA
17259205 GGTAAAATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 6 0.10
40 44 0.76
41 8 0.14
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (40 bp):
AAAATCTTAAATTTTTGAACAATTTCTAAGACATCTAGGA
Found at i:17259553 original size:47 final size:47
Alignment explanation
Indices: 17259499--17259598 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
17259489 TTCTTCAAGT
* * *
17259499 AAGATTCATA-AGT-TTTCTAAGCTGAATCTATTTGAAGTCTTTTGGGC
1 AAGATTCATAGA-TCTTTC-AAGCTGAATCTATTCGAAGTCCTTTAGGC
* * *
17259546 AAGATTCATCGATCTTTCGAGTTGAATCTATTCGAAGTCCTTTAGGC
1 AAGATTCATAGATCTTTCAAGCTGAATCTATTCGAAGTCCTTTAGGC
17259593 AAGATT
1 AAGATT
17259599 TGTGAGTCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 40 0.89
48 5 0.11
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (47 bp):
AAGATTCATAGATCTTTCAAGCTGAATCTATTCGAAGTCCTTTAGGC
Found at i:17259731 original size:9 final size:9
Alignment explanation
Indices: 17259719--17259777 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
17259709 CTAAAAAAAT
17259719 AAAAAACAA
1 AAAAAACAA
17259728 AAAAAA-AA
1 AAAAAACAA
* **
17259736 CAAAAAGGA
1 AAAAAACAA
* *
17259745 CAAAAACAG
1 AAAAAACAA
17259754 AAAAAACAA
1 AAAAAACAA
17259763 AAAATAA-AA
1 AAAA-AACAA
17259772 AAAAAA
1 AAAAAA
17259778 GAGAGAGAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
8 9 0.22
9 30 0.73
10 2 0.05
ACGTcount: A:0.85, C:0.08, G:0.05, T:0.02
Consensus pattern (9 bp):
AAAAAACAA
Found at i:17260068 original size:21 final size:20
Alignment explanation
Indices: 17260017--17260071 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
17260007 CCTGAGGTCA
17260017 AACTTGA-TCAAATTCAATTC
1 AACTTGAGTCAAA-TCAATTC
* *
17260037 AAATT-AGTCAAATCAGATTG
1 AACTTGAGTCAAATCA-ATTC
17260057 AACTTGAGTCAAATC
1 AACTTGAGTCAAATC
17260072 TTCAAAATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 4 0.14
20 16 0.55
21 9 0.31
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (20 bp):
AACTTGAGTCAAATCAATTC
Found at i:17260429 original size:145 final size:145
Alignment explanation
Indices: 17260254--17260547 Score: 335
Period size: 145 Copynumber: 2.0 Consensus size: 145
17260244 TACTTCGAAA
* ** * * *
17260254 TATTACTTTATGATTTTTGTTGAATCAAAAACTGTGTTCGCG-TCTGATGAGGTGTGAAATTACC
1 TATTACTTTATGATTTTTGTTGAATAAAAAACTGTAATCACGTTCGGA-GAGATGTGAAATTACC
* * * * * *
17260318 AAAATACCCTTAG-GTTTATTTTCATTATTTGAC-TTTTCGAGGTCGATTTTTCACGAAATGCTT
65 AAAATACCCTTAGAG-AT-TTTTCATAATTCGACTTTTTCAAGGTCAATTTTTCACGAAATGCTC
17260381 TAGATCATGATTTTATAT
128 TAGATCATGATTTTATAT
* * *
17260399 TATTACTTTATGATTTTT-TATGCATAAAAAACTGTAATCACGTTCGGAGAGATTTTAAATTACC
1 TATTACTTTATGATTTTTGT-TGAATAAAAAACTGTAATCACGTTCGGAGAGATGTGAAATTACC
* * ** *
17260463 AAAATACCTTTAGAGATTTTTCATAATTCGACTTTTTTAAGGTCAATTTTTTGCTAAATGCTCTA
65 AAAATACCCTTAGAGATTTTTCATAATTCGACTTTTTCAAGGTCAATTTTTCACGAAATGCTCTA
*
17260528 GATCATGGTTTTATAT
130 GATCATGATTTTATAT
17260544 TATT
1 TATT
17260548 TCATGATTTT
Statistics
Matches: 124, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
144 14 0.11
145 105 0.85
146 5 0.04
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (145 bp):
TATTACTTTATGATTTTTGTTGAATAAAAAACTGTAATCACGTTCGGAGAGATGTGAAATTACCA
AAATACCCTTAGAGATTTTTCATAATTCGACTTTTTCAAGGTCAATTTTTCACGAAATGCTCTAG
ATCATGATTTTATAT
Found at i:17260906 original size:24 final size:24
Alignment explanation
Indices: 17260874--17260924 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
17260864 AATAAACATT
17260874 CAATTTTA-TTCTTAGTTTTTTACA
1 CAATTTTATTTCTTAGTTTTTT-CA
*
17260898 CAATTTTATTTTTTTAGTTTTTTCA
1 CAATTTTA-TTTCTTAGTTTTTTCA
17260923 CA
1 CA
17260925 TGGTATCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 4 0.17
26 12 0.50
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.61
Consensus pattern (24 bp):
CAATTTTATTTCTTAGTTTTTTCA
Found at i:17264738 original size:21 final size:22
Alignment explanation
Indices: 17264700--17264742 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
17264690 TGTATATTTA
17264700 TATTTGTACCCTTAGAATTAAG
1 TATTTGTACCCTTAGAATTAAG
*
17264722 TATTTGTATCC-TAGAATTAAG
1 TATTTGTACCCTTAGAATTAAG
17264743 GATAAACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.42
Consensus pattern (22 bp):
TATTTGTACCCTTAGAATTAAG
Found at i:17264759 original size:13 final size:14
Alignment explanation
Indices: 17264736--17264765 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
17264726 TGTATCCTAG
17264736 AATTAAGGATAAAC
1 AATTAAGGATAAAC
17264750 AATT-AGGATAAAC
1 AATTAAGGATAAAC
17264763 AAT
1 AAT
17264766 CCTTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (14 bp):
AATTAAGGATAAAC
Found at i:17266496 original size:59 final size:59
Alignment explanation
Indices: 17266390--17266502 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
17266380 CATACATAGT
* * *
17266390 TCATGCATTAAAGTTTGCATTTTCATAATGACATTTTGGTAATTTTTGTCACATCACTC
1 TCATGCATCAAAGTTTACATTTTCATAATGACATTTTAGTAATTTTTGTCACATCACTC
* ** *
17266449 TCATGCATCAAAGTTTACATTTTTATTAATGGTATTTTAGTGA-TTTTGTCACAT
1 TCATGCATCAAAGTTTACATTTTCA-TAATGACATTTTAGTAATTTTTGTCACAT
17266503 GCATTCCTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
59 33 0.72
60 13 0.28
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.46
Consensus pattern (59 bp):
TCATGCATCAAAGTTTACATTTTCATAATGACATTTTAGTAATTTTTGTCACATCACTC
Found at i:17266542 original size:19 final size:19
Alignment explanation
Indices: 17266518--17266576 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
17266508 CCTATGAAAA
* *
17266518 CCCAAACTACTATCCAAAC
1 CCCAAACCACCATCCAAAC
*
17266537 CCCAAACCACCATCTAAAC
1 CCCAAACCACCATCCAAAC
* * *
17266556 CCTAAGCCATCATCCAAAC
1 CCCAAACCACCATCCAAAC
17266575 CC
1 CC
17266577 TAAGACTCCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.39, C:0.46, G:0.02, T:0.14
Consensus pattern (19 bp):
CCCAAACCACCATCCAAAC
Found at i:17266572 original size:38 final size:38
Alignment explanation
Indices: 17266529--17266706 Score: 153
Period size: 38 Copynumber: 4.7 Consensus size: 38
17266519 CCAAACTACT
* *
17266529 ATCCAAACCCCAAACCACCATCTAAACCCTAAGCCATC
1 ATCCAAACCCTAAACCACCATCTAAACCCTAAACCATC
* * *
17266567 ATCCAAACCCTAAGA-CTCCATCTAAACCCTAAATCATT
1 ATCCAAACCCTAA-ACCACCATCTAAACCCTAAACCATC
* * * *
17266605 ATCCAAACCCTAACCCTA-AATGTAAACCCTAAACCACC
1 ATCCAAACCCTAAACC-ACCATCTAAACCCTAAACCATC
** * * ** * * *
17266643 ATAGAAGCCTTAAACCACCATAGAAGCCTTAAACCATA
1 ATCCAAACCCTAAACCACCATCTAAACCCTAAACCATC
*
17266681 ATCCAAACCCAAAACCACCATCTAAA
1 ATCCAAACCCTAAACCACCATCTAAA
17266707 TCTTAAATCC
Statistics
Matches: 104, Mismatches: 32, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
37 1 0.01
38 102 0.98
39 1 0.01
ACGTcount: A:0.43, C:0.37, G:0.04, T:0.17
Consensus pattern (38 bp):
ATCCAAACCCTAAACCACCATCTAAACCCTAAACCATC
Found at i:17266577 original size:19 final size:19
Alignment explanation
Indices: 17266529--17266702 Score: 84
Period size: 19 Copynumber: 9.2 Consensus size: 19
17266519 CCAAACTACT
* *
17266529 ATCCAAACCCCAAACCACC
1 ATCCAAACCCTAAACCATC
* *
17266548 ATCTAAACCCTAAGCCATC
1 ATCCAAACCCTAAACCATC
17266567 ATCCAAACCCTAAGA-C-TCC
1 ATCCAAACCCTAA-ACCAT-C
* * *
17266586 ATCTAAACCCTAAATCATT
1 ATCCAAACCCTAAACCATC
* *
17266605 ATCCAAACCCT-AACCCTAA
1 ATCCAAACCCTAAACCAT-C
** *
17266624 ATGTAAACCCTAAACCACC
1 ATCCAAACCCTAAACCATC
** * * *
17266643 ATAGAAGCCTTAAACCACC
1 ATCCAAACCCTAAACCATC
** * * *
17266662 ATAGAAGCCTTAAACCATA
1 ATCCAAACCCTAAACCATC
* *
17266681 ATCCAAACCCAAAACCACC
1 ATCCAAACCCTAAACCATC
17266700 ATC
1 ATC
17266703 TAAATCTTAA
Statistics
Matches: 119, Mismatches: 30, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
18 6 0.05
19 108 0.91
20 5 0.04
ACGTcount: A:0.42, C:0.37, G:0.04, T:0.17
Consensus pattern (19 bp):
ATCCAAACCCTAAACCATC
Found at i:17266760 original size:26 final size:25
Alignment explanation
Indices: 17266730--17266779 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
17266720 ACTAAATCCT
17266730 AAAACCCTAACCCT-AACCTTTAAACC
1 AAAACCCTAA-CCTAAACC-TTAAACC
*
17266756 AAAACCTTAACCTAAACCTTAAAC
1 AAAACCCTAACCTAAACCTTAAAC
17266780 TAACCCCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (25 bp):
AAAACCCTAACCTAAACCTTAAACC
Found at i:17269310 original size:15 final size:17
Alignment explanation
Indices: 17269279--17269310 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
17269269 CCATTTACAA
17269279 TAATCATAAACAATTAT
1 TAATCATAAACAATTAT
17269296 TAAT-ATAAA-AATTAT
1 TAATCATAAACAATTAT
17269311 GAAAGGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATCATAAACAATTAT
Found at i:17270147 original size:14 final size:14
Alignment explanation
Indices: 17270128--17270166 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
17270118 ATAAGTTTAC
*
17270128 AATTTTATTTAGAA
1 AATTTTGTTTAGAA
*
17270142 AATTTTGTTTAGGA
1 AATTTTGTTTAGAA
17270156 AATTTTGTTTA
1 AATTTTGTTTA
17270167 AAGTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (14 bp):
AATTTTGTTTAGAA
Found at i:17271453 original size:20 final size:18
Alignment explanation
Indices: 17271425--17271468 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
17271415 CCCCAAATTT
*
17271425 AAAAATCAAAATAATTAAA
1 AAAAATC-AAATAAATAAA
17271444 AAAAATTCAAATAAATAAA
1 AAAAA-TCAAATAAATAAA
17271463 ATAAAA
1 A-AAAA
17271469 GTCATCAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATCAAATAAATAAA
Found at i:17277205 original size:35 final size:34
Alignment explanation
Indices: 17277165--17277240 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 34
17277155 ATTTTAAAAA
*
17277165 TATTTTAGATTTTTGTAACTTTT-TAGGAATTTTTT
1 TATTTTAGATTTTTG-AAATTTTATA-GAATTTTTT
** *
17277200 TATTTTTTATTTTTGAAATTTTATAGATTTTTTT
1 TATTTTAGATTTTTGAAATTTTATAGAATTTTTT
17277234 TAATTTT
1 T-ATTTT
17277241 TCATATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
34 15 0.43
35 20 0.57
ACGTcount: A:0.24, C:0.01, G:0.08, T:0.67
Consensus pattern (34 bp):
TATTTTAGATTTTTGAAATTTTATAGAATTTTTT
Found at i:17277478 original size:16 final size:17
Alignment explanation
Indices: 17277452--17277498 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
17277442 TTTTTCTTGA
17277452 ATTTTTCTAAATTTT-GG
1 ATTTTT-TAAATTTTGGG
17277469 ATTTTTTAAATTTTGGG
1 ATTTTTTAAATTTTGGG
*
17277486 ATATTTT-AATTTT
1 ATTTTTTAAATTTT
17277499 TCATATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.62
Consensus pattern (17 bp):
ATTTTTTAAATTTTGGG
Found at i:17285089 original size:142 final size:141
Alignment explanation
Indices: 17284824--17285213 Score: 412
Period size: 142 Copynumber: 2.7 Consensus size: 141
17284814 TCAAATTATA
* * * *
17284824 ATTTTATATTATTTGATGATTTTTAAGGCATTAAAAACCTTGATCGCACCTTAAGAAGTGTGAAA
1 ATTTTATATTATTTTATGATTTTTGATGCATTAAAAACCTTGATTGCA-CTTAA-AAG-GTGAAA
* * *
17284889 TTACTAAAATGCCCTTT-AGGAGTATTTTTGTAATTTAACCTTCCTGAGGTTAGATTTTCATGAA
63 TTACCAAAATGCCCTTTAAGG-GTATTTTTGTAATTTGACCTTCCTGAAGTTAGATTTTCATG-A
17284953 AAGATCT-AGATCATG
126 AAGATCTCAGATCATG
* ** *
17284968 ATTTAATATTATTTTATGATTTTTGATATATTAAAAACCTTGATTGCACTTCAAAGGTCGAAATT
1 ATTTTATATTATTTTATGATTTTTGATGCATTAAAAACCTTGATTGCACTTAAAAGGT-GAAATT
* * *
17285033 ACCAAACTACCCTTTAAGGGTATTTTTGTAATTTGACCTT-TTGGAAGTT-GATTTTTCATGAAA
65 ACCAAAATGCCCTTTAAGGGTATTTTTGTAATTTGACCTTCCT-GAAGTTAGA-TTTTCATGAAA
** *
17285096 TCTTTCAGATCATG
128 GATCTCAGATCATG
* * * * *
17285110 ATTTTATAATATTTCT-TGATTTTTGGTGCATTACAAACCTTGATTTCACTATGAAAGGTTGAAA
1 ATTTTATATTATTT-TATGATTTTTGATGCATTAAAAACCTTGATTGCACT-TAAAAGG-TGAAA
* * *
17285174 TTACGAAAATGCCCTCTTAAAGGTATTTTAGTAATTTGAC
63 TTACCAAAATGCCCT-TTAAGGGTATTTTTGTAATTTGAC
17285214 ATTTCTAGGG
Statistics
Matches: 207, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
141 10 0.05
142 103 0.50
143 30 0.14
144 64 0.31
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.41
Consensus pattern (141 bp):
ATTTTATATTATTTTATGATTTTTGATGCATTAAAAACCTTGATTGCACTTAAAAGGTGAAATTA
CCAAAATGCCCTTTAAGGGTATTTTTGTAATTTGACCTTCCTGAAGTTAGATTTTCATGAAAGAT
CTCAGATCATG
Found at i:17285267 original size:144 final size:140
Alignment explanation
Indices: 17284959--17285281 Score: 333
Period size: 144 Copynumber: 2.3 Consensus size: 140
17284949 TGAAAAGATC
* **
17284959 TAGATCATGATTTAATATTATTTTATGATTTTTGATATATTAAAAACCTTGATTGCACTTCAAAG
1 TAGATCATGATTTAATATTATTTT-TGATTTTTGGTGCATTAAAAACCTTGATTGCACTTCAAAG
* * * * * **
17285024 GTCGAAATTACCAAACTACCCTTTAAGGGTATTTTTGTAATTTGACCTTTTGGAAGTTGATTTTT
65 GTCGAAATTACCAAAATACCCTTTAAAGGTATTTTAGTAATTTGACATTTTGG-AGTCGATTTGC
** *
17285089 CATGAAATCTTT
129 CACAAAAGCTTT
* * * * * *
17285101 CAGATCATGATTTTATAATATTTCTTGATTTTTGGTGCATTACAAACCTTGATTTCACTATGAAA
1 TAGATCATGATTTAATATTATTT-TTGATTTTTGGTGCATTAAAAACCTTGATTGCACT-TCAAA
* * *
17285166 GGTTGAAATTACGAAAATGCCCTCTTAAAGGTATTTTAGTAATTTGACATTTCTAGG-GTCGATT
64 GGTCGAAATTACCAAAATACCCT-TTAAAGGTATTTTAGTAATTTGACATTT-T-GGAGTCGATT
17285230 TGCCACAAAAGCTTT
126 TGCCACAAAAGCTTT
* * **
17285245 TAGATCATAATTTCATATTATTTGAGGATTTTTGGTG
1 TAGATCATGATTTAATATTATTT-TTGATTTTTGGTG
17285282 TTTTAAAATC
Statistics
Matches: 147, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
142 49 0.33
143 24 0.16
144 71 0.48
145 1 0.01
146 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (140 bp):
TAGATCATGATTTAATATTATTTTTGATTTTTGGTGCATTAAAAACCTTGATTGCACTTCAAAGG
TCGAAATTACCAAAATACCCTTTAAAGGTATTTTAGTAATTTGACATTTTGGAGTCGATTTGCCA
CAAAAGCTTT
Found at i:17286631 original size:19 final size:18
Alignment explanation
Indices: 17286604--17286776 Score: 159
Period size: 19 Copynumber: 9.2 Consensus size: 18
17286594 ACATGCATTT
*
17286604 CCCATGAAACCTTAAATCG
1 CCCATGAAACCTTAAA-CA
* *
17286623 CCTATGAAACCCTAAAACA
1 CCCATGAAA-CCTTAAACA
*
17286642 CCCATGAAACCATAAACCA
1 CCCATGAAACCTTAAA-CA
*
17286661 CCCATGAAACCTCAAACA
1 CCCATGAAACCTTAAACA
17286679 CCCATGAAACCTTAAACTA
1 CCCATGAAACCTTAAAC-A
*
17286698 CCCAAGAAACCTTAAACCA
1 CCCATGAAACCTTAAA-CA
*
17286717 CCCATGAAACCCTAAACTA
1 CCCATGAAACCTTAAAC-A
* *
17286736 TCC-TACAAACCTTAAACCA
1 CCCAT-GAAACCTTAAA-CA
* *
17286755 CCCATGCAACCCTAAACCA
1 CCCATGAAACCTTAAA-CA
17286774 CCC
1 CCC
17286777 TAACCTTAAA
Statistics
Matches: 127, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
18 25 0.20
19 93 0.73
20 9 0.07
ACGTcount: A:0.42, C:0.38, G:0.05, T:0.15
Consensus pattern (18 bp):
CCCATGAAACCTTAAACA
Found at i:17286808 original size:27 final size:27
Alignment explanation
Indices: 17286778--17286874 Score: 76
Period size: 27 Copynumber: 3.6 Consensus size: 27
17286768 AAACCACCCT
17286778 AACCTTAAATCCCAAA-CCAAAACACTA
1 AACCTTAAA-CCCAAACCCAAAACACTA
** * *
17286805 AACCCAAAACCCAAAGCTCTAAA-ACTA
1 AACCTTAAACCCAAA-CCCAAAACACTA
*
17286832 AA-CTTAAACCCTAAACCCAAAACCCTA
1 AACCTTAAACCC-AAACCCAAAACACTA
*
17286859 AA-CTCTAAACCTAAAC
1 AACCT-TAAACCCAAAC
17286875 TTAAACCCTA
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
26 18 0.33
27 27 0.49
28 10 0.18
ACGTcount: A:0.51, C:0.34, G:0.01, T:0.14
Consensus pattern (27 bp):
AACCTTAAACCCAAACCCAAAACACTA
Found at i:17286847 original size:13 final size:13
Alignment explanation
Indices: 17286829--17286887 Score: 75
Period size: 13 Copynumber: 4.5 Consensus size: 13
17286819 AGCTCTAAAA
17286829 CTAAACTTAAACC
1 CTAAACTTAAACC
**
17286842 CTAAACCCAAAACC
1 CTAAA-CTTAAACC
17286856 CTAAACTCTAAA-C
1 CTAAACT-TAAACC
17286869 CTAAACTTAAACC
1 CTAAACTTAAACC
17286882 CTAAAC
1 CTAAAC
17286888 CCTAACCTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 4 0.10
13 21 0.54
14 14 0.36
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (13 bp):
CTAAACTTAAACC
Found at i:17286848 original size:7 final size:7
Alignment explanation
Indices: 17286797--17286892 Score: 76
Period size: 7 Copynumber: 14.3 Consensus size: 7
17286787 TCCCAAACCA
*
17286797 AAACACT
1 AAACCCT
*
17286804 AAACCCA
1 AAACCCT
17286811 AAACCC-
1 AAACCCT
*
17286817 AAAGCTCT
1 AAA-CCCT
*
17286825 AAA-ACT
1 AAACCCT
*
17286831 AAA-CTT
1 AAACCCT
17286837 AAACCCT
1 AAACCCT
*
17286844 AAACCCA
1 AAACCCT
17286851 AAACCCT
1 AAACCCT
*
17286858 AAACTCT
1 AAACCCT
17286865 AAA-CCT
1 AAACCCT
*
17286871 AAA-CTT
1 AAACCCT
17286877 AAACCCT
1 AAACCCT
17286884 AAACCCT
1 AAACCCT
17286891 AA
1 AA
17286893 CCTTAAACTG
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
6 22 0.31
7 47 0.65
8 3 0.04
ACGTcount: A:0.50, C:0.33, G:0.01, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:17286851 original size:40 final size:40
Alignment explanation
Indices: 17286797--17286920 Score: 155
Period size: 40 Copynumber: 3.1 Consensus size: 40
17286787 TCCCAAACCA
*
17286797 AAACACTAAACCCAAAACCC-AAAGCTCTAAAACTAAACTT
1 AAACCCTAAACCCAAAACCCTAAA-CTCTAAAACTAAACTT
*
17286837 AAACCCTAAACCCAAAACCCTAAACTCTAAACCTAAACTT
1 AAACCCTAAACCCAAAACCCTAAACTCTAAAACTAAACTT
* * * *
17286877 AAACCCTAAACCC-TAACCTTAAACTGTAAATC-AAATCTT
1 AAACCCTAAACCCAAAACCCTAAACTCTAAAACTAAA-CTT
17286916 AAACC
1 AAACC
17286921 TCAAACCTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
38 3 0.04
39 23 0.30
40 47 0.62
41 3 0.04
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (40 bp):
AAACCCTAAACCCAAAACCCTAAACTCTAAAACTAAACTT
Found at i:17286860 original size:33 final size:34
Alignment explanation
Indices: 17286797--17286892 Score: 106
Period size: 33 Copynumber: 2.9 Consensus size: 34
17286787 TCCCAAACCA
* * *
17286797 AAACACTAAACCCAAAACCCAAAGCTCTAAA-ACT
1 AAAC-CTAAACCCTAAACCCAAAACCCTAAACACT
* *
17286831 AAACTTAAACCCTAAACCCAAAACCCTAAACTCT
1 AAACCTAAACCCTAAACCCAAAACCCTAAACACT
* *
17286865 AAACCTAAA-CTTAAACCCTAAACCCTAA
1 AAACCTAAACCCTAAACCCAAAACCCTAA
17286893 CCTTAAACTG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 39 0.74
34 14 0.26
ACGTcount: A:0.50, C:0.33, G:0.01, T:0.16
Consensus pattern (34 bp):
AAACCTAAACCCTAAACCCAAAACCCTAAACACT
Found at i:17286892 original size:26 final size:27
Alignment explanation
Indices: 17286851--17286906 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
17286841 CCTAAACCCA
*
17286851 AAACCCTAAACTCTAAACC-TAAACT-T
1 AAACCCTAAACCCT-AACCTTAAACTGT
17286877 AAACCCTAAACCCTAACCTTAAACTGT
1 AAACCCTAAACCCTAACCTTAAACTGT
17286904 AAA
1 AAA
17286907 TCAAATCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 19 0.70
27 4 0.15
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.21
Consensus pattern (27 bp):
AAACCCTAAACCCTAACCTTAAACTGT
Found at i:17286917 original size:39 final size:40
Alignment explanation
Indices: 17286837--17286920 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
17286827 AACTAAACTT
17286837 AAACCCTAAACCCAAAACCCTAAACTCTAAACCTAAACTT
1 AAACCCTAAACCCAAAACCCTAAACTCTAAACCTAAACTT
* * * *
17286877 AAACCCTAAACCC-TAACCTTAAACTGTAAATC-AAATCTT
1 AAACCCTAAACCCAAAACCCTAAACTCTAAACCTAAA-CTT
17286916 AAACC
1 AAACC
17286921 TCAAACCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
38 3 0.08
39 23 0.59
40 13 0.33
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.20
Consensus pattern (40 bp):
AAACCCTAAACCCAAAACCCTAAACTCTAAACCTAAACTT
Found at i:17286919 original size:32 final size:31
Alignment explanation
Indices: 17286829--17286964 Score: 98
Period size: 32 Copynumber: 4.2 Consensus size: 31
17286819 AGCTCTAAAA
**
17286829 CTAAA-CTTAAACCCTAAACCCAAAACCCTAAAC
1 CTAAACCTTAAA-CC-AAACCTTAAACCCT-AAC
* *
17286862 TCTAAACC-TAAACTTAAACCCTAAACCCTAAC
1 -CTAAACCTTAAAC-CAAACCTTAAACCCTAAC
* * *
17286894 CTTAAA-CTGTAAATCAAATCTTAAACCTCAAAC
1 C-TAAACCT-TAAACCAAACCTTAAACC-CTAAC
*
17286927 CTAAACCTTCAACCAAACCTTAAACCCTAAC
1 CTAAACCTTAAACCAAACCTTAAACCCTAAC
*
17286958 ATAAACC
1 CTAAACC
17286965 AAATCTGACA
Statistics
Matches: 83, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
31 12 0.14
32 36 0.43
33 25 0.30
34 9 0.11
35 1 0.01
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.21
Consensus pattern (31 bp):
CTAAACCTTAAACCAAACCTTAAACCCTAAC
Found at i:17286934 original size:39 final size:40
Alignment explanation
Indices: 17286797--17286951 Score: 144
Period size: 40 Copynumber: 4.0 Consensus size: 40
17286787 TCCCAAACCA
* * * *
17286797 AAACACTAAACCCAAAACC-CAAAGCTCTAAAACTAAACTT
1 AAACCCTAAACCCTAAACCTTAAA-CTCTAAACCTAAACTT
* *
17286837 AAACCCTAAACCCAAAACCCTAAACTCTAAACCTAAACTT
1 AAACCCTAAACCCTAAACCTTAAACTCTAAACCTAAACTT
* *
17286877 AAACCCTAAACCCT-AACCTTAAACTGTAAATC-AAATCTT
1 AAACCCTAAACCCTAAACCTTAAACTCTAAACCTAAA-CTT
*
17286916 AAA-CCTCAAA-CCTAAACCTTCAAC-C-AAACCTTAAAC
1 AAACCCT-AAACCCTAAACCTTAAACTCTAAACC-TAAAC
17286952 CCTAACATAA
Statistics
Matches: 99, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
37 4 0.04
38 10 0.10
39 36 0.36
40 46 0.46
41 3 0.03
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.19
Consensus pattern (40 bp):
AAACCCTAAACCCTAAACCTTAAACTCTAAACCTAAACTT
Found at i:17286946 original size:12 final size:13
Alignment explanation
Indices: 17286830--17286952 Score: 67
Period size: 13 Copynumber: 9.5 Consensus size: 13
17286820 GCTCTAAAAC
* *
17286830 TAAACTTAAACCC
1 TAAACCTAAACCT
* *
17286843 TAAACCCAAAACCC
1 TAAA-CCTAAACCT
17286857 TAAACTCTAAACC-
1 TAAAC-CTAAACCT
* *
17286870 TAAACTTAAACCC
1 TAAACCTAAACCT
17286883 TAAACCCT-AACCT
1 TAAA-CCTAAACCT
*
17286896 TAAACTGTAAA--T
1 TAAAC-CTAAACCT
* *
17286908 CAAATCTTAAACCT
1 TAAA-CCTAAACCT
*
17286922 CAAACCTAAACCT
1 TAAACCTAAACCT
*
17286935 TCAACC-AAACCT
1 TAAACCTAAACCT
17286947 TAAACC
1 TAAACC
17286953 CTAACATAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
12 26 0.30
13 36 0.41
14 26 0.30
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.21
Consensus pattern (13 bp):
TAAACCTAAACCT
Found at i:17288709 original size:25 final size:22
Alignment explanation
Indices: 17288648--17288736 Score: 70
Period size: 25 Copynumber: 3.7 Consensus size: 22
17288638 AACAAAATAA
*
17288648 GAAAAAAAAAACAAAAAAAAGG
1 GAAAAAAAAAATAAAAAAAAGG
17288670 GAAAAGAAAGCAAATAAAAAAAATGAG
1 GAAAA-AAA--AAATAAAAAAAA-G-G
** *
17288697 GAATAAAAAAAATAAAGGAAAGA
1 GAA-AAAAAAAATAAAAAAAAGG
17288720 GAAAAAAAGGAAATAAA
1 GAAAAAAA--AAATAAA
17288737 TGGAAAGAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
22 10 0.18
23 6 0.11
24 8 0.15
25 21 0.38
26 1 0.02
27 7 0.13
28 2 0.04
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (22 bp):
GAAAAAAAAAATAAAAAAAAGG
Found at i:17288715 original size:17 final size:16
Alignment explanation
Indices: 17288682--17288716 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
17288672 AAAGAAAGCA
*
17288682 AATAAAAAAAATGAGG
1 AATAAAAAAAATAAGG
17288698 AATAAAAAAAATAAAGG
1 AATAAAAAAAAT-AAGG
17288715 AA
1 AA
17288717 AGAGAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (16 bp):
AATAAAAAAAATAAGG
Found at i:17288744 original size:25 final size:25
Alignment explanation
Indices: 17288706--17288753 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
17288696 GGAATAAAAA
17288706 AAATAAAGGAAAG-AGAAAAAAAGG
1 AAATAAAGGAAAGAAGAAAAAAAGG
*
17288730 AAATAAATGGAAAGAATAAAAAAA
1 AAATAAA-GGAAAGAAGAAAAAAA
17288754 AGGGATCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 6 0.29
26 8 0.38
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (25 bp):
AAATAAAGGAAAGAAGAAAAAAAGG
Found at i:17305840 original size:11 final size:11
Alignment explanation
Indices: 17305821--17305857 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
17305811 CACTTTGCTT
17305821 AAAAAGAAAAG
1 AAAAAGAAAAG
* *
17305832 AATAAGAAAAA
1 AAAAAGAAAAG
17305843 AAAAAGAAAAG
1 AAAAAGAAAAG
17305854 AAAA
1 AAAA
17305858 GGAAGAATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:17307247 original size:48 final size:48
Alignment explanation
Indices: 17307178--17307501 Score: 194
Period size: 47 Copynumber: 6.9 Consensus size: 48
17307168 CCACAAAAAA
* * * * * *
17307178 TTTTAAAGTTTCCTGCCTATGTTTATAGGAG-TTTTTTCTAACGAATAT
1 TTTTAAAGTTTCTTGCTTATGTTAATAGAAGCCTTTTTC-AAAGAATAT
* * * * *
17307226 TTTTAAAATTTCTTGCTTATGTTAAAAGAAGCCTTTTTCAAAGTGAGAC
1 TTTTAAAGTTTCTTGCTTATGTTAATAGAAGCCTTTTTCAAAG-AATAT
* * * *
17307275 TTTTAAAGTTT-TCTACCTATGTTAAT-GGAGCCTTATTCAAAG--TGAT
1 TTTTAAAGTTTCT-TGCTTATGTTAATAGAAGCCTTTTTCAAAGAAT-AT
* *
17307321 TTTTAAAAGTTTCTTGCTTATGTTTATAGAAG-TTTTTTCAAAGAA-AT
1 TTTT-AAAGTTTCTTGCTTATGTTAATAGAAGCCTTTTTCAAAGAATAT
* *
17307368 TTTTAAAGTTT-TTGCTTATGTTAAT--ATGCGTTTTTCAAAATGAGA-A-
1 TTTTAAAGTTTCTTGCTTATGTTAATAGAAGCCTTTTTC-AAA-GA-ATAT
* * * * * *
17307414 TTTTAAAGTTTCATACCTATATTAATA-AGAG-CTTTTTCAAAGTAGAT
1 TTTTAAAGTTTCTTGCTTATGTTAATAGA-AGCCTTTTTCAAAGAATAT
* * *
17307461 TTTTAAGGTTTCCTG-TATATATTAATAGAAGCC-TTTTCAAA
1 TTTTAAAGTTTCTTGCT-TATGTTAATAGAAGCCTTTTTCAAA
17307502 AAACAAAACA
Statistics
Matches: 216, Mismatches: 39, Indels: 43
0.72 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
45 17 0.08
46 27 0.12
47 79 0.37
48 56 0.26
49 29 0.13
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (48 bp):
TTTTAAAGTTTCTTGCTTATGTTAATAGAAGCCTTTTTCAAAGAATAT
Found at i:17307361 original size:47 final size:47
Alignment explanation
Indices: 17307224--17307501 Score: 207
Period size: 47 Copynumber: 5.9 Consensus size: 47
17307214 TCTAACGAAT
* *
17307224 ATTTTTAAAATTTCTTGCTTATGTTAAAAGAAGCCTTTTTCAAAGTGAG
1 ATTTTTAAAGTTTCTTGCTTATGTTAATAGAAGCCTTTTTCAAAGT--G
* * * * *
17307273 ACTTTTAAAGTTT-TCTACCTATGTTAAT-GGAGCCTTATTCAAAGTG
1 ATTTTTAAAGTTTCT-TGCTTATGTTAATAGAAGCCTTTTTCAAAGTG
* * **
17307319 ATTTTTAAAAGTTTCTTGCTTATGTTTATAGAAG-TTTTTTCAAAGAA
1 ATTTTT-AAAGTTTCTTGCTTATGTTAATAGAAGCCTTTTTCAAAGTG
* * *
17307366 ATTTTTAAAGTTT-TTGCTTATGTTAAT--ATGCGTTTTTCAAAATGAG
1 ATTTTTAAAGTTTCTTGCTTATGTTAATAGAAGCCTTTTTC-AAA-GTG
* * * * *
17307412 AATTTTAAAGTTTCATACCTATATTAATA-AGAG-CTTTTTCAAAGTAG
1 ATTTTTAAAGTTTCTTGCTTATGTTAATAGA-AGCCTTTTTCAAAGT-G
* * *
17307459 ATTTTTAAGGTTTCCTG-TATATATTAATAGAAGCC-TTTTCAAA
1 ATTTTTAAAGTTTCTTGCT-TATGTTAATAGAAGCCTTTTTCAAA
17307502 AAACAAAACA
Statistics
Matches: 182, Mismatches: 33, Indels: 30
0.74 0.13 0.12
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
45 16 0.09
46 28 0.15
47 79 0.43
48 29 0.16
49 22 0.12
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (47 bp):
ATTTTTAAAGTTTCTTGCTTATGTTAATAGAAGCCTTTTTCAAAGTG
Found at i:17307439 original size:139 final size:144
Alignment explanation
Indices: 17307178--17307475 Score: 380
Period size: 139 Copynumber: 2.1 Consensus size: 144
17307168 CCACAAAAAA
* *
17307178 TTTT-AAAGTTTCCTGCCTATGTTTATAGGAGTTTTTTCTAACGAATATTTTTAAAATTTCTTGC
1 TTTTAAAAGTTTCCTGCCTATGTTTATAGAAGTTTTTTCTAAAGAATATTTTTAAAATTTCTTGC
* * * *
17307242 TTATGTTAAAAGAAGCCTTTTTCAAAGTGAGACTTTTAAAGTTTTCTACCTATGTTAAT-GGAGC
66 TTATGTT-AAAGAAGCCTTTTTCAAAATGAGAATTTTAAAGTTTTCTACCTATATTAATAAGAG-
17307306 CTTATTCAAAGT-GAT
129 CTTATTCAAAGTAGAT
* * *
17307321 TTTTAAAAGTTTCTTGCTTATGTTTATAGAAGTTTTTTC-AAAGAA-ATTTTTAAAGTTT-TTGC
1 TTTTAAAAGTTTCCTGCCTATGTTTATAGAAGTTTTTTCTAAAGAATATTTTTAAAATTTCTTGC
* * *
17307383 TTATGTT-AATATGCGTTTTTCAAAATGAGAATTTTAAAG-TTTCATACCTATATTAATAAGAGC
66 TTATGTTAAAGAAGCCTTTTTCAAAATGAGAATTTTAAAGTTTTC-TACCTATATTAATAAGAGC
*
17307446 TTTTTCAAAGTAGAT
130 TTATTCAAAGTAGAT
*
17307461 TTTT-AAGGTTTCCTG
1 TTTTAAAAGTTTCCTG
17307476 TATATATTAA
Statistics
Matches: 136, Mismatches: 15, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
138 4 0.03
139 59 0.43
140 10 0.07
141 11 0.08
142 12 0.09
143 9 0.07
144 31 0.23
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (144 bp):
TTTTAAAAGTTTCCTGCCTATGTTTATAGAAGTTTTTTCTAAAGAATATTTTTAAAATTTCTTGC
TTATGTTAAAGAAGCCTTTTTCAAAATGAGAATTTTAAAGTTTTCTACCTATATTAATAAGAGCT
TATTCAAAGTAGAT
Found at i:17307525 original size:6 final size:5
Alignment explanation
Indices: 17307501--17307534 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
17307491 GCCTTTTCAA
*
17307501 AAAAC AAAAC AAAAC AAAAC AAAAAC AACAC AAA
1 AAAAC AAAAC AAAAC AAAAC -AAAAC AAAAC AAA
17307535 CCAGCAAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:17307525 original size:11 final size:11
Alignment explanation
Indices: 17307500--17307534 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
17307490 AGCCTTTTCA
17307500 AAAAACAAAAC
1 AAAAACAAAAC
17307511 -AAAACAAAAC
1 AAAAACAAAAC
*
17307521 AAAAACAACAC
1 AAAAACAAAAC
17307532 AAA
1 AAA
17307535 CCAGCAAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAC
Found at i:17308169 original size:144 final size:144
Alignment explanation
Indices: 17307932--17308207 Score: 376
Period size: 144 Copynumber: 1.9 Consensus size: 144
17307922 TTTGAAAAGC
* * * * *
17307932 TAAAATTACTAAAATGCCCTTTAAGAAAATTTTCGTAATTTGACTTTTTTGAAGTTGAATTTTTT
1 TAAAATTACTAAAATACCCGTTAAGAAAATTTTCATAATTTGACTTTTGTGAAGTTGAATTTTTG
* *
17307997 TGTAAACTTTGAAATCATAATTTTATATTATTTGATGATTTTTAATGCATTAAAAACATTGATTG
66 TGAAAACTTTGAAATCATAATTTAATATTATTTGATGATTTTTAATGCATTAAAAACATTGATTG
17308062 CATGTTAAAAAATG
131 CATGTTAAAAAATG
** * *
17308076 TAAAATTACTAAAATACCCGTTAATG-GTATTTTCATAATTTGACTTTTGTGAGGTTAGCA-TTT
1 TAAAATTACTAAAATACCCGTTAA-GAAAATTTTCATAATTTGACTTTTGTGAAGTT-GAATTTT
* * * * *
17308139 TGTGAAAAGTTTTAGATCATAATTTAATATTATTTGATGATTTTTGATGCATTAAAAACCTTGAT
64 TGTGAAAACTTTGAAATCATAATTTAATATTATTTGATGATTTTTAATGCATTAAAAACATTGAT
17308204 TGCA
129 TGCA
17308208 CCATTGCAAA
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
144 111 0.97
145 3 0.03
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (144 bp):
TAAAATTACTAAAATACCCGTTAAGAAAATTTTCATAATTTGACTTTTGTGAAGTTGAATTTTTG
TGAAAACTTTGAAATCATAATTTAATATTATTTGATGATTTTTAATGCATTAAAAACATTGATTG
CATGTTAAAAAATG
Found at i:17308226 original size:144 final size:141
Alignment explanation
Indices: 17307933--17308352 Score: 373
Period size: 144 Copynumber: 2.9 Consensus size: 141
17307923 TTGAAAAGCT
* ** * *
17307933 AAAATTACTAAAATGCCCTTTAAGAAAATTTTCGTAATTTGACTTTTTTGAAGTT-GAATTTTTT
1 AAAATTACTAAAATACCC-TTAAG-GTATTTTCGTAATTTGAC-TTTTTGAGGTTAGAATTTTTG
* *
17307997 TGTAAACTTTGAAATCATAATTTTATATTATTTGATGATTTTTAATGCATTAAAAACATTGATTG
63 TGAAAACTTTGAAATCATAATTTAATATTATTTGATGATTTTTAATGCATTAAAAACATTGATTG
**
17308062 CATGTTAAAAAATG
128 CACATTAAAAAATG
* *
17308076 TAAAATTACTAAAATACCCGTTAATGGTATTTTCATAATTTGACTTTTGTGAGGTTAGCA-TTTT
1 -AAAATTACTAAAATACCC-TTAA-GGTATTTTCGTAATTTGACTTTT-TGAGGTTAGAATTTTT
* * * * *
17308140 GTGAAAAGTTTTAGATCATAATTTAATATTATTTGATGATTTTTGATGCATTAAAAACCTTGATT
62 GTGAAAACTTTGAAATCATAATTTAATATTATTTGATGATTTTTAATGCATTAAAAACATTGATT
* *
17308205 GCACCATTGCAAATATG
127 GCA-CATT-AAAAAATG
* * * *
17308222 -AAATTACCAAACTACCCTTGAAAGGTATTCTCGTAATTTGACCTTTTAGAGGTT--AATTTTTC
1 AAAATTACTAAAATACCCTT--AAGGTATTTTCGTAATTTGA-CTTTTTGAGGTTAGAATTTTT-
* * ** * * * * * * * * *
17308284 ATGAATACTTCCATATCGTAATTTTATATTATTTCATGGTTTTTTATGTATTAAAAACTTTAATT
62 GTGAAAACTTTGAAATCATAATTTAATATTATTTGATGATTTTTAATGCATTAAAAACATTGATT
17308349 GCAC
127 GCAC
17308353 CTCAAAAGTT
Statistics
Matches: 227, Mismatches: 39, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
142 1 0.00
143 11 0.05
144 197 0.87
145 12 0.05
146 6 0.03
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (141 bp):
AAAATTACTAAAATACCCTTAAGGTATTTTCGTAATTTGACTTTTTGAGGTTAGAATTTTTGTGA
AAACTTTGAAATCATAATTTAATATTATTTGATGATTTTTAATGCATTAAAAACATTGATTGCAC
ATTAAAAAATG
Found at i:17309415 original size:21 final size:19
Alignment explanation
Indices: 17309391--17309431 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
17309381 GAAAATTTTC
*
17309391 GGCCAAGCTTATCCATGCTTT
1 GGCCAAACTT-TCCAT-CTTT
17309412 GGCCAAACTTTCCATCTTT
1 GGCCAAACTTTCCATCTTT
17309431 G
1 G
17309432 CATCATGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 5 0.26
21 9 0.47
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (19 bp):
GGCCAAACTTTCCATCTTT
Found at i:17309900 original size:57 final size:56
Alignment explanation
Indices: 17309804--17309934 Score: 163
Period size: 57 Copynumber: 2.3 Consensus size: 56
17309794 CATACATTTC
* * * * *
17309804 CCATGAAACCCGAAACTACCCATGAAATCCCAAATCACCCACCAAACCCTAAACTA
1 CCATAAAACCCTAAACCACCCATGAAATCCCAAAACACCCACCAAACCCTAAACCA
** *
17309860 TCCATAAAACCCTAAACCACCCATGAAATCTTAAAACACCCATCAAACCCTAAACCA
1 -CCATAAAACCCTAAACCACCCATGAAATCCCAAAACACCCACCAAACCCTAAACCA
*
17309917 CTCATCAAACCCTAAACC
1 C-CATAAAACCCTAAACC
17309935 TTAAACCACC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 1 0.02
57 63 0.98
ACGTcount: A:0.44, C:0.39, G:0.03, T:0.15
Consensus pattern (56 bp):
CCATAAAACCCTAAACCACCCATGAAATCCCAAAACACCCACCAAACCCTAAACCA
Found at i:17309933 original size:7 final size:7
Alignment explanation
Indices: 17309923--17310029 Score: 57
Period size: 7 Copynumber: 15.9 Consensus size: 7
17309913 ACCACTCATC
17309923 AAACCCT
1 AAACCCT
*
17309930 AAACCTT
1 AAACCCT
17309937 AAACCACCCT
1 -AA--ACCCT
*
17309947 -AACACT
1 AAACCCT
17309953 AAACCCT
1 AAACCCT
*
17309960 AAA-CCA
1 AAACCCT
17309966 AAACCCT
1 AAACCCT
*
17309973 AAATCCT
1 AAACCCT
*
17309980 -ACCCCT
1 AAACCCT
*
17309986 AAACCAT
1 AAACCCT
17309993 -AACCCT
1 AAACCCT
*
17309999 AGACCCT
1 AAACCCT
*
17310006 -AACCTT
1 AAACCCT
*
17310012 AAA-TC-
1 AAACCCT
17310017 AAACCCT
1 AAACCCT
17310024 AAACCC
1 AAACCC
17310030 CCTAGACCCC
Statistics
Matches: 72, Mismatches: 18, Indels: 20
0.65 0.16 0.18
Matches are distributed among these distances:
5 3 0.04
6 23 0.32
7 39 0.54
8 3 0.04
10 4 0.06
ACGTcount: A:0.43, C:0.40, G:0.01, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:17309934 original size:19 final size:19
Alignment explanation
Indices: 17309803--17309934 Score: 122
Period size: 19 Copynumber: 6.9 Consensus size: 19
17309793 ACATACATTT
* * *
17309803 CCCATGAAACCCGAAACTA
1 CCCATCAAACCCTAAACCA
* *
17309822 CCCATGAAATCCC-AAATCA
1 CCCATCAAA-CCCTAAACCA
* *
17309841 CCCACCAAACCCTAAACTA
1 CCCATCAAACCCTAAACCA
* *
17309860 TCCATAAAACCCTAAACCA
1 CCCATCAAACCCTAAACCA
* * * *
17309879 CCCATGAAATCTTAAAACA
1 CCCATCAAACCCTAAACCA
17309898 CCCATCAAACCCTAAACCA
1 CCCATCAAACCCTAAACCA
*
17309917 CTCATCAAACCCTAAACC
1 CCCATCAAACCCTAAACC
17309935 TTAAACCACC
Statistics
Matches: 91, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
18 3 0.03
19 85 0.93
20 3 0.03
ACGTcount: A:0.43, C:0.39, G:0.03, T:0.14
Consensus pattern (19 bp):
CCCATCAAACCCTAAACCA
Found at i:17309960 original size:13 final size:13
Alignment explanation
Indices: 17309953--17310028 Score: 57
Period size: 13 Copynumber: 5.9 Consensus size: 13
17309943 CCCTAACACT
17309953 AAACCCTAAACCA
1 AAACCCTAAACCA
17309966 AAACCCTAAATCC-
1 AAACCCTAAA-CCA
* *
17309979 TACCCCTAAACCA
1 AAACCCTAAACCA
* * *
17309992 TAACCCTAGACCC
1 AAACCCTAAACCA
* * *
17310005 TAACCTTAAATC-
1 AAACCCTAAACCA
17310017 AAACCCTAAACC
1 AAACCCTAAACC
17310029 CCCTAGACCC
Statistics
Matches: 50, Mismatches: 11, Indels: 5
0.76 0.17 0.08
Matches are distributed among these distances:
12 11 0.22
13 37 0.74
14 2 0.04
ACGTcount: A:0.43, C:0.39, G:0.01, T:0.16
Consensus pattern (13 bp):
AAACCCTAAACCA
Found at i:17309962 original size:23 final size:25
Alignment explanation
Indices: 17309904--17309965 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 25
17309894 AACACCCATC
*
17309904 AAACCCTAAACCACTCATCAAACCCT
1 AAACCCTAAACCACTCA-CAAACACT
* *
17309930 AAACCTTAAACCAC-C-CTAACACT
1 AAACCCTAAACCACTCACAAACACT
17309953 AAACCCTAAACCA
1 AAACCCTAAACCA
17309966 AAACCCTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 18 0.56
25 1 0.03
26 13 0.41
ACGTcount: A:0.45, C:0.40, G:0.00, T:0.15
Consensus pattern (25 bp):
AAACCCTAAACCACTCACAAACACT
Found at i:17309985 original size:26 final size:26
Alignment explanation
Indices: 17309954--17310029 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
17309944 CCTAACACTA
*
17309954 AACCCTAAACCAAAACCCTAAATCCT
1 AACCCTAAACCAAAACCCTAAACCCT
* * *
17309980 ACCCCTAAACCATAACCCTAGACCCT
1 AACCCTAAACCAAAACCCTAAACCCT
* *
17310006 AACCTTAAATC-AAACCCTAAACCC
1 AACCCTAAACCAAAACCCTAAACCC
17310030 CCTAGACCCC
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 11 0.27
26 30 0.73
ACGTcount: A:0.42, C:0.41, G:0.01, T:0.16
Consensus pattern (26 bp):
AACCCTAAACCAAAACCCTAAACCCT
Found at i:17310158 original size:18 final size:19
Alignment explanation
Indices: 17310094--17310158 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 19
17310084 ACTTCAAACC
**
17310094 AACCC-AAACCCTAAACCA
1 AACCCTAAACCCTACCCCA
* *
17310112 AATCCCAAAACCCTACCCTA
1 AA-CCCTAAACCCTACCCCA
* *
17310132 GACCTTAAA-CCTACCCCA
1 AACCCTAAACCCTACCCCA
17310150 AACCCTAAA
1 AACCCTAAA
17310159 ATCTCAAACC
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
18 17 0.47
19 8 0.22
20 11 0.31
ACGTcount: A:0.43, C:0.43, G:0.02, T:0.12
Consensus pattern (19 bp):
AACCCTAAACCCTACCCCA
Found at i:17313257 original size:322 final size:320
Alignment explanation
Indices: 17312689--17313588 Score: 1123
Period size: 322 Copynumber: 2.8 Consensus size: 320
17312679 GTTAAAATGC
* ** *
17312689 AAAAATACAAATTTATAGTTATTGTTCTATTTTAGCAATTTAAATAGCTTAAATACATGATATTA
1 AAAAATACAAATTTGTAGTTATTGTTCTATTTTAATAATTTAGATAGCTTAAATACATGATATTA
** * * * *
17312754 AAC-TAACGGAATGATTGAACTTGGTTTTCATGCTTAATATATGTGAAAAAGTTATAATTTATAT
66 AACTTGTCAGAATGATTGAACTTGGTTTTCA-GATTGATATATGTGAAAAAGTTATAATTTATGT
* * * ** * * *
17312818 CTATTTAAAACTTTTTTGTGCCGTTAAAGGGA-AAAAATGTAATTTTGTAGTTACATTTCTAGTT
130 CTGTTTAGAAC-TTTTTGTACCGTTAAA-GGATAAAAATGTAATTTTACAATTATATTTCTATTT
* * *
17312882 CAATAGTTTAGATAGTTCTAATACATGATAGTAAACTTGTTTGATTGTTTGAACTTGATTGCCAA
193 CAATAGTTTAGATAGTTCTAATACATGATATTAAACTTGCTTGAATGTTTGAACTTGATTGCCAA
*
17312947 GCTTGATATGCATGAATAAGTTGTGGTTTATGTCTAT-TTTAGGACTTTTTGTACCATCAAAGGG
258 GCTTGATATGCATGAATAAGTTGTGGTTTATGT-T-TGTTTAGGAC-TTTTGTACCATCAAAAGG
17313011 A
320 A
* * * * *
17313012 AAAAATACAAATTTGTAGTTATTATTCTATTTTAATAACTTAGGTAGCTTAAACAAATGATATTA
1 AAAAATACAAATTTGTAGTTATTGTTCTATTTTAATAATTTAGATAGCTTAAATACATGATATTA
* * *
17313077 AACTTGTCAGAATGATTGAACTTGGTTTTCACGATTGGTATGTGTGAAAAAGTTACAATTTATGT
66 AACTTGTCAGAATGATTGAACTTGGTTTTCA-GATTGATATATGTGAAAAAGTTATAATTTATGT
* * * * *
17313142 CTGTTTAGAAC-TTTTATCCCATTAAAGGATAAAAATGCAATTTTACAATTATATTTCTTTTTCA
130 CTGTTTAGAACTTTTTGTACCGTTAAAGGATAAAAATGTAATTTTACAATTATATTTCTATTTCA
* *
17313206 ATAGTTTAGATAGTTCTAATACATGATATTAAACTTGCCTGAATGTTTGAACTTGATTGCCACGC
195 ATAGTTTAGATAGTTCTAATACATGATATTAAACTTGCTTGAATGTTTGAACTTGATTGCCAAGC
* *
17313271 TTGATATGCATGAATAAGTTGTGGTTTATGTTTGTTTAGGACTTTTGTGCCATCAAAAGGT
260 TTGATATGCATGAATAAGTTGTGGTTTATGTTTGTTTAGGACTTTTGTACCATCAAAAGGA
* * * * * *
17313332 AAAAATGCAAATTTGTAGTTATTGTTTTGTTTTAATAGTTTAGATAGCTTAAATACACGAAATTA
1 AAAAATACAAATTTGTAGTTATTGTTCTATTTTAATAATTTAGATAGCTTAAATACATGATATTA
* * ** * *
17313397 AACTTGTTCA-AATGATCGAACTTGGCTACCATACTTGATATATGTGAAAAAGTTATAGTTTATG
66 AACTTG-TCAGAATGATTGAACTTGGTTTTCAGA-TTGATATATGTGAAAAAGTTATAATTTATG
* * * *
17313461 CCTGTTTAGAACTTTTTGTACCGTTAAAAGG-TAAAAATATAATTTTACAATTATATTTCTGTAT
129 TCTGTTTAGAACTTTTTGTACCGTT-AAAGGATAAAAATGTAATTTTACAATTATATTTCTATTT
* *
17313525 CAATAGTTTAGATAGCTT-TAATACATTATATTAAA-TTTCTTTGAATGTTTGAACTTGATTGCC
193 CAATAGTTTAGATAG-TTCTAATACATGATATTAAACTTGC-TTGAATGTTTGAACTTGATTGCC
17313588 A
256 A
17313589 CCAAAAGACA
Statistics
Matches: 498, Mismatches: 70, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
319 1 0.00
320 134 0.27
321 107 0.21
322 137 0.28
323 59 0.12
324 60 0.12
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (320 bp):
AAAAATACAAATTTGTAGTTATTGTTCTATTTTAATAATTTAGATAGCTTAAATACATGATATTA
AACTTGTCAGAATGATTGAACTTGGTTTTCAGATTGATATATGTGAAAAAGTTATAATTTATGTC
TGTTTAGAACTTTTTGTACCGTTAAAGGATAAAAATGTAATTTTACAATTATATTTCTATTTCAA
TAGTTTAGATAGTTCTAATACATGATATTAAACTTGCTTGAATGTTTGAACTTGATTGCCAAGCT
TGATATGCATGAATAAGTTGTGGTTTATGTTTGTTTAGGACTTTTGTACCATCAAAAGGA
Found at i:17313581 original size:161 final size:161
Alignment explanation
Indices: 17312637--17313588 Score: 681
Period size: 160 Copynumber: 5.9 Consensus size: 161
17312627 AAGTATTAAA
* * * * *
17312637 TGAAAAAGCTATAGTTTATATCTGTTTAGAACTTTTTGTGCCGTTAAAATGCAAAAATACAAATT
1 TGAAAAAGTTATAGTTTATGTCTGTTTAGAACTTTTTGTGCCATTAAAAGGTAAAAATACAAATT
* * ** * * * *
17312702 TATAGTTATTGTTCTATTTTAGCAATTTAAATAGCTTAAATACATGATATTAAACTAAC--GGAA
66 TATAGTTATTGTTCTGTTTCAATAGTTTAGATAGCTTAAATACATGATATTAAACT-TCTTTGAA
** * * *
17312765 TGATTGAACTTGGTTTTCATGCTTAATATATG
130 TGATTGAACTTGGTTGCCATACTTGATATGTG
* * * * * * * ** *
17312797 TGAAAAAGTTATAATTTATATCTATTTAAAACTTTTTTGTGCCGTTAAAGGGAAAAAATGTAATT
1 TGAAAAAGTTATAGTTTATGTCTGTTTAGAAC-TTTTTGTGCCATTAAAAGGTAAAAATACAAAT
* * * * *
17312862 TTGTAGTTACAT-TTCTAG-TTCAATAGTTTAGATAG-TTCTAATACATGATAGTAAACTTGTTT
65 TTATAGTTA-TTGTTCT-GTTTCAATAGTTTAGATAGCTT-AAATACATGATATTAAACTTCTTT
* * * **
17312924 GATTGTTTGAACTTGATTGCCA-AGCTTGATATGCA
127 GAATGATTGAACTTGGTTGCCATA-CTTGATATGTG
* * * * * * * * *
17312959 TGAATAAGTTGTGGTTTATGTCTATTTTAGGACTTTTTGTACCATCAAAGGGAAAAAATACAAAT
1 TGAAAAAGTTATAGTTTATGTCT-GTTTAGAACTTTTTGTGCCATTAAAAGGTAAAAATACAAAT
* * * * ** * * * * **
17313024 TTGTAGTTATTATTCTATTTTAATAACTTAGGTAGCTTAAACAAATGATATTAAACTTGTCAGAA
65 TTATAGTTATTGTTCTGTTTCAATAGTTTAGATAGCTTAAATACATGATATTAAACTTCTTTGAA
** * *
17313089 TGATTGAACTTGGTTTTCACGA-TTGGTATGTG
130 TGATTGAACTTGGTTGCCA-TACTTGATATGTG
* * * * * *
17313121 TGAAAAAGTTACAATTTATGTCTGTTTAGAAC-TTTTATCCCATT-AAAGGATAAAAATGCAATT
1 TGAAAAAGTTATAGTTTATGTCTGTTTAGAACTTTTTGTGCCATTAAAAGG-TAAAAATACAAAT
* * * * *
17313184 TTACAATTATAT-TTCTTTTTCAATAGTTTAGATAG-TTCTAATACATGATATTAAACTTGC-CT
65 TTATAGTTAT-TGTTCTGTTTCAATAGTTTAGATAGCTT-AAATACATGATATTAAACTT-CTTT
* * ** **
17313246 GAATGTTTGAACTTGATTGCCACGCTTGATATGCA
127 GAATGATTGAACTTGGTTGCCATACTTGATATGTG
* * * * * * *
17313281 TGAATAAGTTGTGGTTTATGTTTGTTTAGGAC-TTTTGTGCCATCAAAAGGTAAAAATGCAAATT
1 TGAAAAAGTTATAGTTTATGTCTGTTTAGAACTTTTTGTGCCATTAAAAGGTAAAAATACAAATT
* * * * * * **
17313345 TGTAGTTATTGTTTTGTTTTAATAGTTTAGATAGCTTAAATACACGAAATTAAACTTGTTCAAAT
66 TATAGTTATTGTTCTGTTTCAATAGTTTAGATAGCTTAAATACATGATATTAAACTTCTTTGAAT
* * * *
17313410 GATCGAACTTGGCTACCATACTTGATATATG
131 GATTGAACTTGGTTGCCATACTTGATATGTG
* * * * *
17313441 TGAAAAAGTTATAGTTTATGCCTGTTTAGAACTTTTTGTACCGTTAAAAGGTAAAAATATAATTT
1 TGAAAAAGTTATAGTTTATGTCTGTTTAGAACTTTTTGTGCCATTAAAAGGTAAAAATACAAATT
* * * * * *
17313506 TACAATTATAT-TTCTGTATCAATAGTTTAGATAGCTTTAATACATTATATTAAATTTCTTTGAA
66 TATAGTTAT-TGTTCTGTTTCAATAGTTTAGATAGCTTAAATACATGATATTAAACTTCTTTGAA
* *
17313570 TGTTTGAACTTGATTGCCA
130 TGATTGAACTTGGTTGCCA
17313589 CCAAAAGACA
Statistics
Matches: 600, Mismatches: 168, Indels: 47
0.74 0.21 0.06
Matches are distributed among these distances:
159 7 0.01
160 257 0.43
161 171 0.28
162 156 0.26
163 8 0.01
164 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (161 bp):
TGAAAAAGTTATAGTTTATGTCTGTTTAGAACTTTTTGTGCCATTAAAAGGTAAAAATACAAATT
TATAGTTATTGTTCTGTTTCAATAGTTTAGATAGCTTAAATACATGATATTAAACTTCTTTGAAT
GATTGAACTTGGTTGCCATACTTGATATGTG
Found at i:17313902 original size:161 final size:160
Alignment explanation
Indices: 17313598--17314845 Score: 703
Period size: 161 Copynumber: 7.8 Consensus size: 160
17313588 ACCAAAAGAC
* * * * * * * * *
17313598 AAAATACAAAATTGTAGTTATTATTCCATGTTAACAATTTAGATCA-CTTGAATACATGCTATCA
1 AAAATA-AAAATTATAGTTATTGTTCTATTTTAATAGTTTAGAT-AGCTTAAATACATGATATTA
* * * * * *
17313662 AATTTGTTCGAATGATTGAACTTGGTTTCCATGCTAGATATATATGAATAAGTTACAATTTATCT
64 AACTTGTTCGAATGATTGAACTTCGTTTCCATGCTTGATATGTATGAATAAGTTACAGTTTATGT
* * * * * *
17313727 TTATTTAAGACTTGTTGTGCTGTTAAAAGGTA
129 CTGTTTAGGACTTTTTATGCTATTAAAAGGTA
*
17313759 AAAATGAAAAATTATAGTTATTGTTCTATTTTAATAGTTTAGATAGCTTAAATATATGATATTAA
1 AAAAT-AAAAATTATAGTTATTGTTCTATTTTAATAGTTTAGATAGCTTAAATACATGATATTAA
* * * * *
17313824 ACTTGTTTGAATGATTGAACTTCGTTTCCATGCTTGATATATATGAAAAAGTTATAGTTTATATC
65 ACTTGTTCGAATGATTGAACTTCGTTTCCATGCTTGATATGTATGAATAAGTTACAGTTTATGTC
* * *
17313889 TGTTTAGGACTTGTGATG---TT-AAA-GTGC
130 TGTTTAGGACTTTTTATGCTATTAAAAGGT-A
** * * * * *** *
17313916 AAAATGTAACTT-T-G-CA--ATTATATTTT--T-GTTT---TAGCACCAATACATGATATTAAG
1 AAAATAAAAATTATAGTTATTGTTCTATTTTAATAGTTTAGATAGCTTAAATACATGATATTAAA
* * * * ** * * *
17313970 CTTATAT-GAAT-ATTTAAACTT-GACTACCACACGTGATATGCT-TGAATTAGTTGCAGTTTAT
66 CTTGT-TCGAATGA-TTGAACTTCG-TTTCCATGCTTGATATG-TATGAATAAGTTACAGTTTAT
** * * * *
17314031 GTCTGTTTAAAATTTTTTATGCCATCAAAAGGCAA
127 GTCTGTTTAGGACTTTTTATGCTATTAAAAGG-TA
* * * *
17314066 AAAATACATATT-TGCAGTTATTGTTCTATTTTAATAGTTTAGATAGCTTAAATAAATTATATTA
1 AAAATAAAAATTAT--AGTTATTGTTCTATTTTAATAGTTTAGATAGCTTAAATACATGATATTA
* * * * * * *
17314130 AACTTGTCCAAATAATTGAACTTCGTTTTCATGCTTGATATGTGTGAAAAAGTTACATTTTATGT
64 AACTTGTTCGAATGATTGAACTTCGTTTCCATGCTTGATATGTATGAATAAGTTACAGTTTATGT
* ** * *
17314195 TTGTTTATAACTTTTTAT-ATCATTAAAAGAT-
129 CTGTTTAGGACTTTTTATGCT-ATTAAAAGGTA
* * * * *
17314226 AAAAT-ATAATTTTGCAGTTA-T-TTCTATTTCAATAGTTTAGATAGCTCAAATATATGATATTA
1 AAAATAAAAATTAT--AGTTATTGTTCTATTTTAATAGTTTAGATAGCTTAAATACATGATATTA
* * * ** * * *
17314288 AACTTGTTTGAATGTTTAAACTTAATTGCCATGCTTGATATGCATGAATAAGTTGCAGTTTATGT
64 AACTTGTTCGAATGATTGAACTTCGTTTCCATGCTTGATATGTATGAATAAGTTACAGTTTATGT
* * *
17314353 CTGTTTAGGACATTTCATGCCATTAAAAGGTA
129 CTGTTTAGGACTTTTTATGCTATTAAAAGGTA
* * *
17314385 AAAATGCAAATTTATAGTTATTGTTCTATTTTAATAATTTAGATAGCTTAAATACATGATATTAA
1 AAAAT-AAAAATTATAGTTATTGTTCTATTTTAATAGTTTAGATAGCTTAAATACATGATATTAA
* * * * * * * * * *
17314450 ACTTGTCCGAATGATTAAACTTGGTTTTCATGTTTGATATGTTTGAAAAAGTTGCAATTTATTTC
65 ACTTGTTCGAATGATTGAACTTCGTTTCCATGCTTGATATGTATGAATAAGTTACAGTTTATGTC
* * * * * *
17314515 TATTTAGGACTTTTTTTTACTGTTAAAGGGAA
130 TGTTTAGGAC-TTTTTATGCTATTAAAAGGTA
** * * *
17314547 AAAATATAATTTTATAATTATAT-TTCTATTTAAATAGTTTAGATAGCTTAGATAGCTCCAATAT
1 AAAATA-AAAATTATAGTTAT-TGTTCTATTTTAATAGTTTAGATAGC-T---TA-----AATAC
* * * * *
17314611 ATGATATTAAA-TT-TACATGAATGTTTGAA-TTTGATTGT-CAAGCTTGATATGCATGAATAAG
55 ATGATATTAAACTTGTTC--GAATGATTGAACTTCG-TT-TCCATGCTTGATATGTATGAATAAG
* * * * *
17314672 TTA-TGATTTATGTCTGTTTATGACTTTTTGTGCCATCAAAAGAG-A
116 TTACAG-TTTATGTCTGTTTAGGACTTTTTATGCTATTAAAAG-GTA
* * * ** *
17314717 AAATTACAAATTTACAGTTATTGTTCTATTTTAATAACTTAGATAGCTCAAATACATGATATTAA
1 AAAATA-AAAATTATAGTTATTGTTCTATTTTAATAGTTTAGATAGCTTAAATACATGATATTAA
* * * * *** * * *
17314782 AATTGTTCGAATGTTTGGACTT-GATTGCCACAATTAATATGTATTAATAAGTTGCAGTTTATGT
65 ACTTGTTCGAATGATTGAACTTCG-TTTCCATGCTTGATATGTATGAATAAGTTACAGTTTATGT
17314846 GTATTTAATA
Statistics
Matches: 828, Mismatches: 198, Indels: 122
0.72 0.17 0.11
Matches are distributed among these distances:
144 2 0.00
145 74 0.09
146 2 0.00
148 5 0.01
149 4 0.00
150 10 0.01
151 8 0.01
153 2 0.00
154 2 0.00
155 1 0.00
156 14 0.02
157 8 0.01
158 112 0.14
159 18 0.02
160 15 0.02
161 281 0.34
162 139 0.17
163 6 0.01
166 3 0.00
169 4 0.00
170 55 0.07
171 62 0.07
172 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (160 bp):
AAAATAAAAATTATAGTTATTGTTCTATTTTAATAGTTTAGATAGCTTAAATACATGATATTAAA
CTTGTTCGAATGATTGAACTTCGTTTCCATGCTTGATATGTATGAATAAGTTACAGTTTATGTCT
GTTTAGGACTTTTTATGCTATTAAAAGGTA
Found at i:17314739 original size:332 final size:319
Alignment explanation
Indices: 17313705--17314794 Score: 946
Period size: 332 Copynumber: 3.4 Consensus size: 319
17313695 CTAGATATAT
* * * * * * * ** * *
17313705 ATGAATAAGTTACAATTTATCTTTATTTAAGACTTGTTGTGCTGTTAAAAGGTAAAAATGA-AAA
1 ATGAATAAGTTGCAGTTTATGTCTGTTTAAGACTTTTTATGCCATCAAAAGGAAAAAAT-ACAAA
* * * * **
17313769 ATTATAGTTATTGTTCTATTTTAATAGTTTAGATAGCTTAAATATATGATATTAAACTTGTTTGA
65 TTTACAGTTATTGTTCTATTTTAATAATTTAGATAGCTTAAATACATGATATTAAACTTGTCCGA
* * * * * * * * * *
17313834 ATGATTGAACTTCGTTTCCATGCTTGATATATATGAAAAAGTTATAGTTTATATCTGTTTAGGAC
130 ATGATTAAACTTCGTTTTCATGCTTGATATGTGTGAAAAAGTTACAATTTATGTTTATTTAGAAC
* * * ** * * *
17313899 -TTGT-GAT-GTT-AAAGTGCAAAATGTAACTTTGCAA-TTA----TATTT---TTGTTT---TA
195 TTTTTATATCATTAAAAG-AAAAAATATAATTTTG-AAGTTATTTCTATTTAAATAGTTTAGATA
* * * * * * * * * *
17313949 GCACCAATACATGATATTAAGCTTATATGAATATTTAAACTTGACTACCACA-CGTGATATGC
258 GCTCAAATATATGATATTAAACTTACATGAATGTTTAAACTTAATTGCCA-AGCTTGATATGC
* * * * *
17314011 TTGAATTAGTTGCAGTTTATGTCTGTTTAAAATTTTTTATGCCATCAAAAGGCAAAAAATACATA
1 ATGAATAAGTTGCAGTTTATGTCTGTTTAAGACTTTTTATGCCATCAAAAGG-AAAAAATACAAA
* * * * *
17314076 TTTGCAGTTATTGTTCTATTTTAATAGTTTAGATAGCTTAAATAAATTATATTAAACTTGTCCAA
65 TTTACAGTTATTGTTCTATTTTAATAATTTAGATAGCTTAAATACATGATATTAAACTTGTCCGA
* * * * *
17314141 ATAATTGAACTTCGTTTTCATGCTTGATATGTGTGAAAAAGTTACATTTTATGTTTGTTTATAAC
130 ATGATTAAACTTCGTTTTCATGCTTGATATGTGTGAAAAAGTTACAATTTATGTTTATTTAGAAC
* * *
17314206 TTTTTATATCATTAAAAGATAAAATATAATTTTGCAGTTATTTCTATTTCAATAGTTTAGATAGC
195 TTTTTATATCATTAAAAGAAAAAATATAATTTTGAAGTTATTTCTATTTAAATAGTTTAGATAGC
*** *
17314271 TCAAATATATGATATTAAACTTGTTTGAATGTTTAAACTTAATTGCCATGCTTGATATGC
260 TCAAATATATGATATTAAACTTACATGAATGTTTAAACTTAATTGCCAAGCTTGATATGC
* * * * * *
17314331 ATGAATAAGTTGCAGTTTATGTCTGTTTAGGACATTTCATGCCATTAAAAGGTAAAAATGCAAAT
1 ATGAATAAGTTGCAGTTTATGTCTGTTTAAGACTTTTTATGCCATCAAAAGGAAAAAATACAAAT
*
17314396 TTATAGTTATTGTTCTATTTTAATAATTTAGATAGCTTAAATACATGATATTAAACTTGTCCGAA
66 TTACAGTTATTGTTCTATTTTAATAATTTAGATAGCTTAAATACATGATATTAAACTTGTCCGAA
* * * * *
17314461 TGATTAAACTTGGTTTTCATGTTTGATATGTTTGAAAAAGTTGCAATTTAT-TTCTATTTAGGAC
131 TGATTAAACTTCGTTTTCATGCTTGATATGTGTGAAAAAGTTACAATTTATGTT-TATTTAGAAC
* * * * *
17314525 TTTTT-TTTACTGTTAAAGGGAAAAAATATAATTTTATAATTATATTTCTATTTAAATAGTTTAG
195 TTTTTATAT-C-ATTAAA-AGAAAAAATATAATTTT-GAAGT-TATTTCTATTT-AA-A---TAG
* * * * * *
17314589 ATAGCTTAGATAGCTCCAATATATGATATTAAATTTACATGAATGTTTGAATTTGATTGTCAAGC
250 -T---TTAGATAGCTCAAATATATGATATTAAACTTACATGAATGTTTAAACTTAATTGCCAAGC
17314654 TTGATATGC
311 TTGATATGC
* * *
17314663 ATGAATAAGTT--ATGATTTATGTCTGTTTATGACTTTTTGTGCCATCAAAA-GAGAAAATTACA
1 ATGAATAAGTTGCA-G-TTTATGTCTGTTTAAGACTTTTTATGCCATCAAAAGGA-AAAAATACA
* * * *
17314725 AATTTACAGTTATTGTTCTATTTTAATAACTTAGATAGCTCAAATACATGATATTAAAATTGTTC
63 AATTTACAGTTATTGTTCTATTTTAATAATTTAGATAGCTTAAATACATGATATTAAACTTGTCC
17314790 GAATG
128 GAATG
17314795 TTTGGACTTG
Statistics
Matches: 635, Mismatches: 113, Indels: 46
0.80 0.14 0.06
Matches are distributed among these distances:
306 39 0.06
307 120 0.19
308 3 0.00
309 3 0.00
310 17 0.03
311 4 0.01
314 5 0.01
317 5 0.01
318 4 0.01
319 126 0.20
320 100 0.16
321 15 0.02
322 2 0.00
323 11 0.02
324 1 0.00
325 1 0.00
328 3 0.00
329 1 0.00
330 1 0.00
331 2 0.00
332 172 0.27
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (319 bp):
ATGAATAAGTTGCAGTTTATGTCTGTTTAAGACTTTTTATGCCATCAAAAGGAAAAAATACAAAT
TTACAGTTATTGTTCTATTTTAATAATTTAGATAGCTTAAATACATGATATTAAACTTGTCCGAA
TGATTAAACTTCGTTTTCATGCTTGATATGTGTGAAAAAGTTACAATTTATGTTTATTTAGAACT
TTTTATATCATTAAAAGAAAAAATATAATTTTGAAGTTATTTCTATTTAAATAGTTTAGATAGCT
CAAATATATGATATTAAACTTACATGAATGTTTAAACTTAATTGCCAAGCTTGATATGC
Found at i:17315381 original size:21 final size:21
Alignment explanation
Indices: 17315347--17315400 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
17315337 AAGCAGAGCA
* **
17315347 TGCTAGACTAGAAGAGGAACG
1 TGCTAGAATAGAAGAAAAACG
*
17315368 TGCTAGAATTGAAGAAAAACG
1 TGCTAGAATAGAAGAAAAACG
*
17315389 TACTAGAATAGA
1 TGCTAGAATAGA
17315401 TCAAGAGCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.26, T:0.19
Consensus pattern (21 bp):
TGCTAGAATAGAAGAAAAACG
Found at i:17321044 original size:134 final size:134
Alignment explanation
Indices: 17320838--17321542 Score: 552
Period size: 134 Copynumber: 5.2 Consensus size: 134
17320828 AAATTTGTTG
* * * *
17320838 CATTTTTATAAGAAAAATGCCGTTGCTTTGGTGGCGTTTGTAATTGAAAATGTCACTACTTTAGA
1 CATTTTTATGAGAAAAACGCCGTTGCTTTGGTGGCGTTTGTAAATGAAAATGTCGCTACTTTAGA
* ** * * *
17320903 AGCGTTTGTATTTGAAAATGCCTTTACATTAGCGGTGTTTGTATCTTTGAGACGCCACTAATTTA
66 AGCGTTTGTATCTGAAAACACCTCTACATTAGCGGCGTTTGTATCTTTGAAACGCCACTAATTTA
17320968 GTGA
131 GTGA
* * * * *
17320972 CATTTTTATGAGAGAAACACCGTTACTTTGGTGGCGTTTGTAACTGAAAATGACGCTACTTTA-A
1 CATTTTTATGAGAAAAACGCCGTTGCTTTGGTGGCGTTTGTAAATGAAAATGTCGCTACTTTAGA
* * * * *
17321036 AGATGTTTGTATCTGAAAACACCTCTATATTAGCGGCGTTTGTATTTTTGAAACGTCGCTAATTT
66 AG-CGTTTGTATCTGAAAACACCTCTACATTAGCGGCGTTTGTATCTTTGAAACGCCACTAATTT
17321101 AGTGA
130 AGTGA
* * * *
17321106 CATTTTTATGGGAAAAACGCCATTGCTTTGGTAGCGTTTGTAAATGAAAACGTCGCTACTTTAGA
1 CATTTTTATGAGAAAAACGCCGTTGCTTTGGTGGCGTTTGTAAATGAAAATGTCGCTACTTTAGA
* * * * * * * * * * * **
17321171 GGCATTTGTATCTAAAAAAATGCCTCCATATTAGTGGCATTT-TCCTCTTTGAGATGCTGCTAAT
66 AGCGTTTGTATCTGAAAACA--CCTCTACATTAGCGGCGTTTGT-ATCTTTGAAACGCCACTAAT
*
17321235 TTAGTGG
128 TTAGTGA
* * ** *
17321242 CATTTTTATGAGAAAAACTCCGTTGCTTTGGTAGTTTTTGT--ATCAAAAATG-C-C-ACTTACT
1 CATTTTTATGAGAAAAACGCCGTTGCTTTGGTGGCGTTTGTAAAT-GAAAATGTCGCTACTT--T
** * * * * * * *
17321302 AGTGGTGTTTG---CTGATAAGA-ACGTCGCTACTTTTAGTGGCGTTTGTATTTTTGAAACGTCG
63 AGAAGCGTTTGTATCTGA-AA-ACAC--CTCTAC-ATTAGCGGCGTTTGTATCTTTGAAACGCCA
17321363 CTAATTTAGTGA
123 CTAATTTAGTGA
* * * *
17321375 CATTTTTATGGGAAAAACGCCATTGCTTTGGTAGCGTTTGTAAATGAAAACGTCGCTACTTTAGA
1 CATTTTTATGAGAAAAACGCCGTTGCTTTGGTGGCGTTTGTAAATGAAAATGTCGCTACTTTAGA
* * * * * * * * * * * **
17321440 GGCATTTGTATCTAAAAAAATGCCTCCATATTAGTGGCATTT-TCCTCTTTGAGATGCTGCTAAT
66 AGCGTTTGTATCTGAAAACA--CCTCTACATTAGCGGCGTTTGT-ATCTTTGAAACGCCACTAAT
*
17321504 TTAGTGG
128 TTAGTGA
*
17321511 CATTTTTATGAGAAAAACTCCGTTGCTTTGGT
1 CATTTTTATGAGAAAAACGCCGTTGCTTTGGT
17321543 AGTTTTTGTA
Statistics
Matches: 453, Mismatches: 92, Indels: 50
0.76 0.15 0.08
Matches are distributed among these distances:
130 1 0.00
131 3 0.01
132 10 0.02
133 72 0.16
134 197 0.43
135 21 0.05
136 135 0.30
137 10 0.02
138 3 0.01
139 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (134 bp):
CATTTTTATGAGAAAAACGCCGTTGCTTTGGTGGCGTTTGTAAATGAAAATGTCGCTACTTTAGA
AGCGTTTGTATCTGAAAACACCTCTACATTAGCGGCGTTTGTATCTTTGAAACGCCACTAATTTA
GTGA
Found at i:17321387 original size:269 final size:269
Alignment explanation
Indices: 17321065--17321614 Score: 1091
Period size: 269 Copynumber: 2.0 Consensus size: 269
17321055 CACCTCTATA
*
17321065 TTAGCGGCGTTTGTATTTTTGAAACGTCGCTAATTTAGTGACATTTTTATGGGAAAAACGCCATT
1 TTAGTGGCGTTTGTATTTTTGAAACGTCGCTAATTTAGTGACATTTTTATGGGAAAAACGCCATT
17321130 GCTTTGGTAGCGTTTGTAAATGAAAACGTCGCTACTTTAGAGGCATTTGTATCTAAAAAAATGCC
66 GCTTTGGTAGCGTTTGTAAATGAAAACGTCGCTACTTTAGAGGCATTTGTATCTAAAAAAATGCC
17321195 TCCATATTAGTGGCATTTTCCTCTTTGAGATGCTGCTAATTTAGTGGCATTTTTATGAGAAAAAC
131 TCCATATTAGTGGCATTTTCCTCTTTGAGATGCTGCTAATTTAGTGGCATTTTTATGAGAAAAAC
17321260 TCCGTTGCTTTGGTAGTTTTTGTATCAAAAATGCCACTTACTAGTGGTGTTTGCTGATAAGAACG
196 TCCGTTGCTTTGGTAGTTTTTGTATCAAAAATGCCACTTACTAGTGGTGTTTGCTGATAAGAACG
17321325 TCGCTACTT
261 TCGCTACTT
17321334 TTAGTGGCGTTTGTATTTTTGAAACGTCGCTAATTTAGTGACATTTTTATGGGAAAAACGCCATT
1 TTAGTGGCGTTTGTATTTTTGAAACGTCGCTAATTTAGTGACATTTTTATGGGAAAAACGCCATT
17321399 GCTTTGGTAGCGTTTGTAAATGAAAACGTCGCTACTTTAGAGGCATTTGTATCTAAAAAAATGCC
66 GCTTTGGTAGCGTTTGTAAATGAAAACGTCGCTACTTTAGAGGCATTTGTATCTAAAAAAATGCC
17321464 TCCATATTAGTGGCATTTTCCTCTTTGAGATGCTGCTAATTTAGTGGCATTTTTATGAGAAAAAC
131 TCCATATTAGTGGCATTTTCCTCTTTGAGATGCTGCTAATTTAGTGGCATTTTTATGAGAAAAAC
17321529 TCCGTTGCTTTGGTAGTTTTTGTATCAAAAATGCCACTTACTAGTGGTGTTTGCTGATAAGAACG
196 TCCGTTGCTTTGGTAGTTTTTGTATCAAAAATGCCACTTACTAGTGGTGTTTGCTGATAAGAACG
17321594 TCGCTACTT
261 TCGCTACTT
17321603 TTAGTGGCGTTT
1 TTAGTGGCGTTT
17321615 TACCATACAA
Statistics
Matches: 280, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
269 280 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (269 bp):
TTAGTGGCGTTTGTATTTTTGAAACGTCGCTAATTTAGTGACATTTTTATGGGAAAAACGCCATT
GCTTTGGTAGCGTTTGTAAATGAAAACGTCGCTACTTTAGAGGCATTTGTATCTAAAAAAATGCC
TCCATATTAGTGGCATTTTCCTCTTTGAGATGCTGCTAATTTAGTGGCATTTTTATGAGAAAAAC
TCCGTTGCTTTGGTAGTTTTTGTATCAAAAATGCCACTTACTAGTGGTGTTTGCTGATAAGAACG
TCGCTACTT
Found at i:17331560 original size:80 final size:80
Alignment explanation
Indices: 17331320--17331563 Score: 298
Period size: 80 Copynumber: 3.1 Consensus size: 80
17331310 CTTAAATATT
* * * * *
17331320 ATGGTTTGCTGAA-CTTTATTGTCTAAT-TTTTTTTGCTAAATGGTATTGTATGATATT-AGGGG
1 ATGGTTTGCTGAATC-TTGTTATCTGATATTATTTTGCTGAATGGTATTGTATGATATTGA-GGG
**
17331382 GCTGAATCGTATGCCAA
64 GCTGAATCGTATGCTGA
* * * *
17331399 ATGGTTTGCTGAATCTTGTTATATGATATTGTATTG-TCGAATGGTATTGTATGATATTGGGGGG
1 ATGGTTTGCTGAATCTTGTTATCTGATATTATTTTGCT-GAATGGTATTGTATGATATTGAGGGG
* *
17331463 CTGAATCATATGTTGA
65 CTGAATCGTATGCTGA
* *
17331479 ATGGTTTGCTGAATCTTGTTATCTGATATTATTTTGCTGAATGGTTTTGTATGATATTGAGGGAC
1 ATGGTTTGCTGAATCTTGTTATCTGATATTATTTTGCTGAATGGTATTGTATGATATTGAGGGGC
17331544 TGAATCGTATGCTGA
66 TGAATCGTATGCTGA
17331559 ATGGT
1 ATGGT
17331564 ATTTTTGAGT
Statistics
Matches: 140, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
79 22 0.16
80 117 0.84
81 1 0.01
ACGTcount: A:0.23, C:0.08, G:0.25, T:0.43
Consensus pattern (80 bp):
ATGGTTTGCTGAATCTTGTTATCTGATATTATTTTGCTGAATGGTATTGTATGATATTGAGGGGC
TGAATCGTATGCTGA
Found at i:17339648 original size:18 final size:18
Alignment explanation
Indices: 17339625--17339661 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17339615 AATATAAATT
*
17339625 ATTTTTTAAAATTACAAA
1 ATTTTTAAAAATTACAAA
*
17339643 ATTTTTAAAAATTAGAAA
1 ATTTTTAAAAATTACAAA
17339661 A
1 A
17339662 ACTAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTTTTAAAAATTACAAA
Found at i:17339713 original size:10 final size:10
Alignment explanation
Indices: 17339698--17339742 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
17339688 TATAATTAAT
*
17339698 AAAAATCCAA
1 AAAAATCAAA
17339708 AAAAATCAAA
1 AAAAATCAAA
17339718 AAAAAT-AAA
1 AAAAATCAAA
* *
17339727 AAAAAACTAA
1 AAAAATCAAA
17339737 AAAAAT
1 AAAAAT
17339743 TGAAAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAAATCAAA
Found at i:17339748 original size:19 final size:20
Alignment explanation
Indices: 17339706--17339742 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
17339696 ATAAAAATCC
17339706 AAAAAAATCAAAAAAAATAA
1 AAAAAAATCAAAAAAAATAA
*
17339726 AAAAAAA-CTAAAAAAAT
1 AAAAAAATCAAAAAAAAT
17339743 TGAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.84, C:0.05, G:0.00, T:0.11
Consensus pattern (20 bp):
AAAAAAATCAAAAAAAATAA
Found at i:17339847 original size:19 final size:18
Alignment explanation
Indices: 17339800--17339847 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
17339790 AATTTTTTTT
*
17339800 AATTATAAAAAAATAAAA
1 AATTTTAAAAAAATAAAA
* *
17339818 AATTTTCAAAAAATGAAA
1 AATTTTAAAAAAATAAAA
*
17339836 TATTCTTAAAAA
1 AATT-TTAAAAA
17339848 TTAAAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (18 bp):
AATTTTAAAAAAATAAAA
Found at i:17339904 original size:28 final size:27
Alignment explanation
Indices: 17339854--17339929 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 27
17339844 AAAATTAAAA
* *
17339854 AAAAAACTAAAAATTTAATAAAAATTCAC
1 AAAAAA-TAAAAAATTAA-AAAAATCCAC
*
17339883 AAAAAATAAGAAAATTAAAAAAATCCAT
1 AAAAAATAA-AAAATTAAAAAAATCCAC
*
17339911 AAAATATATAAAAATTAAA
1 AAAAAATA-AAAAATTAAA
17339930 GTTGTAAGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 27 0.66
29 14 0.34
ACGTcount: A:0.70, C:0.07, G:0.01, T:0.22
Consensus pattern (27 bp):
AAAAAATAAAAAATTAAAAAAATCCAC
Found at i:17339990 original size:20 final size:22
Alignment explanation
Indices: 17339950--17339992 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
17339940 TCAAAAAATG
*
17339950 AAAAATTTTCATAATTCTTTAA
1 AAAAATTTACATAATTCTTTAA
17339972 AAAAATTTACA-AATT-TTTAA
1 AAAAATTTACATAATTCTTTAA
17339992 A
1 A
17339993 TTTTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 4 0.20
22 10 0.50
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAAATTTACATAATTCTTTAA
Found at i:17340008 original size:20 final size:20
Alignment explanation
Indices: 17339985--17340030 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
17339975 AATTTACAAA
* *
17339985 TTTTTAAATTTTTTTATATT
1 TTTTTAAAATATTTTATATT
*
17340005 TTTTCAAAATATTTTATATT
1 TTTTTAAAATATTTTATATT
17340025 TTTTTA
1 TTTTTA
17340031 TTTCTATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTAAAATATTTTATATT
Found at i:17340415 original size:25 final size:23
Alignment explanation
Indices: 17340371--17340425 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
17340361 GAGTTTTGTG
*
17340371 TTTTTTTTTTCCATAAATTTTAGT
1 TTTTTTTTTTCCATAAA-TTTACT
*
17340395 TTTTTTGTTTTCTCAT-CATTTACT
1 TTTTTT-TTTTC-CATAAATTTACT
17340419 TTTTTTT
1 TTTTTTT
17340426 AAAATTATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 17 0.63
25 6 0.22
26 3 0.11
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTTTTTTTTCCATAAATTTACT
Found at i:17343606 original size:22 final size:20
Alignment explanation
Indices: 17343557--17343619 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
17343547 TCACTAGTTG
17343557 TTATTAAAATTTT-AATTTT
1 TTATTAAAATTTTGAATTTT
*
17343576 TT-TT-TAATTTCTAGAATTTT
1 TTATTAAAATTT-T-GAATTTT
17343596 TTATTAAAATTTTGAGATTTT
1 TTATTAAAATTTTGA-ATTTT
17343617 TTA
1 TTA
17343620 ATTTTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
17 5 0.14
18 3 0.08
19 2 0.06
20 10 0.28
21 11 0.31
22 5 0.14
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (20 bp):
TTATTAAAATTTTGAATTTT
Found at i:17343688 original size:9 final size:9
Alignment explanation
Indices: 17343676--17343716 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
17343666 ATTTTTATTT
*
17343676 TTTTTATAA
1 TTTTTAAAA
17343685 TTTTTAAAA
1 TTTTTAAAA
17343694 TATTTTAAAA
1 T-TTTTAAAA
*
17343704 TTTTAAAAA
1 TTTTTAAAA
17343713 TTTT
1 TTTT
17343717 AGAATTTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 20 0.69
10 9 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:17343717 original size:17 final size:18
Alignment explanation
Indices: 17343686--17343723 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
17343676 TTTTTATAAT
17343686 TTTTAAAATATTTTAAAA
1 TTTTAAAATATTTTAAAA
*
17343704 TTTTAAAA-ATTTTAGAA
1 TTTTAAAATATTTTAAAA
17343721 TTT
1 TTT
17343724 CTATTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTTAAAATATTTTAAAA
Found at i:17345426 original size:6 final size:6
Alignment explanation
Indices: 17345417--17345448 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
17345407 CTTTTTCTAG
17345417 CTTTTC C-TTTC CTTTTC CTTTT- CTTTTC CTTT
1 CTTTTC CTTTTC CTTTTC CTTTTC CTTTTC CTTT
17345449 CGATTTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.42
6 14 0.58
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
CTTTTC
Found at i:17345433 original size:11 final size:11
Alignment explanation
Indices: 17345417--17345449 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
17345407 CTTTTTCTAG
17345417 CTTTTCCTTTC
1 CTTTTCCTTTC
*
17345428 CTTTTCCTTTT
1 CTTTTCCTTTC
17345439 CTTTTCCTTTC
1 CTTTTCCTTTC
17345450 GATTTTTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (11 bp):
CTTTTCCTTTC
Found at i:17346358 original size:20 final size:20
Alignment explanation
Indices: 17346312--17346359 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
17346302 GAATAATAAA
*
17346312 CCTTAAATTTGGAAGAATTT
1 CCTTAAATATGGAAGAATTT
* *
17346332 TCATAAATATGGAAGAATTT
1 CCTTAAATATGGAAGAATTT
17346352 CCTTAAAT
1 CCTTAAAT
17346360 TTGAAAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (20 bp):
CCTTAAATATGGAAGAATTT
Found at i:17346411 original size:16 final size:16
Alignment explanation
Indices: 17346390--17346425 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
17346380 AACTTTATAT
17346390 TCCTTGAAAGTTGAAA
1 TCCTTGAAAGTTGAAA
*
17346406 TCCTTGAAGGTTGAAA
1 TCCTTGAAAGTTGAAA
17346422 -CCTT
1 TCCTT
17346426 ATGAGTACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (16 bp):
TCCTTGAAAGTTGAAA
Found at i:17346629 original size:119 final size:118
Alignment explanation
Indices: 17346406--17346640 Score: 328
Period size: 118 Copynumber: 2.0 Consensus size: 118
17346396 AAAGTTGAAA
* * * * * * * *
17346406 TCCTTGAAGGTTGAAACCTTATGAGTACCATTTTTTATTCTTTTTTTTTTTCATAATAACTTCGT
1 TCCTTGAAAGTTGAAACCTCATAAGTACCATGTTTTATTCCTTTTCTTTTTCAAAATAACTTCAT
*
17346471 TTCAAGAGTTCTCTAGTAATTCATTAAAGAAATTTTAATACCATTTATAAAGT
66 TTCAAGAGTTCTCTAGTAATTCATTAAAGAAATTGTAATACCATTTATAAAGT
17346524 TCCTTGAAAGTTGAAACCTCATAAGTACCATGTTTTATTCCTTTTCTTTTT-AAAATAACTTCAT
1 TCCTTGAAAGTTGAAACCTCATAAGTACCATGTTTTATTCCTTTTCTTTTTCAAAATAACTTCAT
* * * *
17346588 TTTAGGAGTTTTCTCTAGTAATTCATTAAATAAATTGTAATACCTTTTATAAA
66 TTCAAGAG--TTCTCTAGTAATTCATTAAAGAAATTGTAATACCATTTATAAA
17346641 TTTTATTAAT
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
117 17 0.17
118 45 0.44
119 40 0.39
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.45
Consensus pattern (118 bp):
TCCTTGAAAGTTGAAACCTCATAAGTACCATGTTTTATTCCTTTTCTTTTTCAAAATAACTTCAT
TTCAAGAGTTCTCTAGTAATTCATTAAAGAAATTGTAATACCATTTATAAAGT
Found at i:17350778 original size:26 final size:26
Alignment explanation
Indices: 17350741--17350792 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
17350731 AATTAAATTG
* *
17350741 CAAGTAATTGAA-AATTAACAAATAAA
1 CAAGTAAATGAACAAATAA-AAATAAA
17350767 CAAGTAAATGAACAAATAAAAATAAA
1 CAAGTAAATGAACAAATAAAAATAAA
17350793 AGAAAGAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.19
Consensus pattern (26 bp):
CAAGTAAATGAACAAATAAAAATAAA
Found at i:17352155 original size:2 final size:2
Alignment explanation
Indices: 17352148--17352178 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
17352138 ATGATATTTA
*
17352148 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17352179 ATTACTGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17352627 original size:32 final size:32
Alignment explanation
Indices: 17352586--17352653 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 32
17352576 AGAAAAAAGA
*
17352586 AAATGGTGCACAGT-TACAGAAGT-GAATCATGC
1 AAATGGTGCACA-TCTACAGAA-TAAAATCATGC
17352618 AAATGGTGCACATCTACAGAATAAAATCATGC
1 AAATGGTGCACATCTACAGAATAAAATCATGC
17352650 AAAT
1 AAAT
17352654 TAATTACGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 2 0.06
32 31 0.94
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (32 bp):
AAATGGTGCACATCTACAGAATAAAATCATGC
Found at i:17354722 original size:15 final size:14
Alignment explanation
Indices: 17354694--17354721 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17354684 TCCCATATAC
17354694 ATACCCATTTTTTT
1 ATACCCATTTTTTT
17354708 ATACCCATTTTTTT
1 ATACCCATTTTTTT
17354722 TCTTTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.57
Consensus pattern (14 bp):
ATACCCATTTTTTT
Found at i:17354977 original size:3 final size:3
Alignment explanation
Indices: 17354969--17354999 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
17354959 AATCTTTTTT
17354969 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17355000 CACGATCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:17359607 original size:20 final size:19
Alignment explanation
Indices: 17359582--17359627 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
17359572 GGACATGACC
*
17359582 ATTGACTTAATGATATAGAT
1 ATTGACTTAATGACAT-GAT
*
17359602 ATTGACCTTATTGACATGAT
1 ATTGA-CTTAATGACATGAT
17359622 ATTGAC
1 ATTGAC
17359628 ATTTTTTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 13 0.57
21 9 0.39
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (19 bp):
ATTGACTTAATGACATGAT
Found at i:17361804 original size:22 final size:23
Alignment explanation
Indices: 17361771--17361814 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
17361761 ATATCAGTTT
*
17361771 TTTCATTTTTTTCTTTTCTTTTC
1 TTTCATTTTTTTCTTTCCTTTTC
17361794 TTTC-TTTTTTTCTTTCCTTTT
1 TTTCATTTTTTTCTTTCCTTTT
17361815 TGCTCCAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTCATTTTTTTCTTTCCTTTTC
Found at i:17362759 original size:16 final size:16
Alignment explanation
Indices: 17362740--17362792 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
17362730 AAAACAAAAA
17362740 CAAAAAAAAATCCTTT
1 CAAAAAAAAATCCTTT
*
17362756 CAAAAAAAATAT-TTTT
1 CAAAAAAAA-ATCCTTT
* *
17362772 CAAATAAAAATCCTTA
1 CAAAAAAAAATCCTTT
17362788 CAAAA
1 CAAAA
17362793 TAAATTTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 2 0.07
16 26 0.87
17 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.26
Consensus pattern (16 bp):
CAAAAAAAAATCCTTT
Found at i:17364550 original size:17 final size:17
Alignment explanation
Indices: 17364530--17364579 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
17364520 TTAGAGTTGT
*
17364530 AAGATTTTAAGATTCAC
1 AAGATTTGAAGATTCAC
**
17364547 AAGATTTGAAGATTTGC
1 AAGATTTGAAGATTCAC
*
17364564 AAGATTTGAAAATTCA
1 AAGATTTGAAGATTCA
17364580 TAAAAGTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (17 bp):
AAGATTTGAAGATTCAC
Found at i:17364662 original size:20 final size:21
Alignment explanation
Indices: 17364637--17364676 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
17364627 TAAATCCACA
* *
17364637 TCCAAATTTTTAA-GTTCACC
1 TCCAAAATTTAAAGGTTCACC
17364657 TCCAAAATTTAAAGGTTCAC
1 TCCAAAATTTAAAGGTTCAC
17364677 ATTCGAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (21 bp):
TCCAAAATTTAAAGGTTCACC
Found at i:17367013 original size:7 final size:6
Alignment explanation
Indices: 17366995--17367089 Score: 91
Period size: 5 Copynumber: 17.2 Consensus size: 6
17366985 TTGTCAACAG
*
17366995 TATTAG TATTAT CTATTAT TATT-T TATTA- TATTA- TATTA- TATTAT
1 TATTAT TATTAT -TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
* *
17367040 TA-TAC TATTA- TATTAT TA-CAT TA-TAT TATTAT TA-TAT TATTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
17367083 TATTAT T
1 TATTAT T
17367090 GTATTATATT
Statistics
Matches: 78, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
5 42 0.54
6 30 0.38
7 6 0.08
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (6 bp):
TATTAT
Found at i:17367016 original size:3 final size:3
Alignment explanation
Indices: 17366995--17367089 Score: 91
Period size: 3 Copynumber: 34.3 Consensus size: 3
17366985 TTGTCAACAG
*
17366995 TAT TAG TAT TAT CTAT TAT TAT T-T TAT TA- TAT TA- TAT TA- TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
17367037 TAT TA- TAC TAT TA- TAT TAT TA- CAT TA- TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17367080 TAT TAT TAT T
1 TAT TAT TAT T
17367090 GTATTATATT
Statistics
Matches: 77, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
2 17 0.22
3 57 0.74
4 3 0.04
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:17367017 original size:13 final size:12
Alignment explanation
Indices: 17366995--17367089 Score: 91
Period size: 11 Copynumber: 8.6 Consensus size: 12
17366985 TTGTCAACAG
*
17366995 TATTAGTATTAT
1 TATTATTATTAT
17367007 CTATTATTATT-T
1 -TATTATTATTAT
17367019 TATTA-TATTA-
1 TATTATTATTAT
17367029 TATTA-TATTAT
1 TATTATTATTAT
*
17367040 TA-TACTATTA-
1 TATTATTATTAT
*
17367050 TATTATTA-CAT
1 TATTATTATTAT
17367061 TA-TATTATTAT
1 TATTATTATTAT
17367072 TA-TATTATTAT
1 TATTATTATTAT
17367083 TATTATT
1 TATTATT
17367090 GTATTATATT
Statistics
Matches: 71, Mismatches: 4, Indels: 15
0.79 0.04 0.17
Matches are distributed among these distances:
10 24 0.34
11 33 0.46
12 5 0.07
13 9 0.13
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (12 bp):
TATTATTATTAT
Found at i:17367023 original size:8 final size:8
Alignment explanation
Indices: 17366995--17367096 Score: 100
Period size: 8 Copynumber: 12.4 Consensus size: 8
17366985 TTGTCAACAG
17366995 TATTAGTAT
1 TATTA-TAT
*
17367004 TA-TCTAT
1 TATTATAT
*
17367011 TATTATTT
1 TATTATAT
17367019 TATTATATT
1 TATTATA-T
17367028 ATATTATAT
1 -TATTATAT
*
17367037 TATTATAC
1 TATTATAT
17367045 TATTATAT
1 TATTATAT
*
17367053 TATTACAT
1 TATTATAT
17367061 TA-TATTAT
1 TATTA-TAT
17367069 TATTATAT
1 TATTATAT
17367077 TATTATTAT
1 TATTA-TAT
*
17367086 TATTGTAT
1 TATTATAT
17367094 TAT
1 TAT
17367097 ATTTTTGTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
7 7 0.09
8 51 0.65
9 13 0.17
10 7 0.09
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (8 bp):
TATTATAT
Found at i:17367027 original size:5 final size:5
Alignment explanation
Indices: 17367008--17367099 Score: 82
Period size: 5 Copynumber: 17.8 Consensus size: 5
17366998 TAGTATTATC
*
17367008 TATTA TTATTT TATTA TATTA TATTA TATTA T-TATA CTATTA TA-T-
1 TATTA -TATTA TATTA TATTA TATTA TATTA TAT-TA -TATTA TATTA
* *
17367053 TATTA CATTA TATTA TTATTA TATTA TTATTA TTATTG TATTA TATT
1 TATTA TATTA TATTA -TATTA TATTA -TATTA -TATTA TATTA TATT
17367100 TTTGTTCTTA
Statistics
Matches: 73, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
3 2 0.03
4 3 0.04
5 45 0.62
6 22 0.30
7 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:17367104 original size:13 final size:14
Alignment explanation
Indices: 17367011--17367096 Score: 67
Period size: 13 Copynumber: 6.4 Consensus size: 14
17367001 TATTATCTAT
*
17367011 TATTATT-TTATTA
1 TATTATTATTATTG
17367024 TATTA-TATTATAT-
1 TATTATTATTAT-TG
* *
17367037 TATTA-TACTATTA
1 TATTATTATTATTG
* *
17367050 TATTATTA-CATTA
1 TATTATTATTATTG
17367063 TATTATTATTATAT-
1 TATTATTATTAT-TG
17367077 TATTATTATTATTG
1 TATTATTATTATTG
17367091 TATTAT
1 TATTAT
17367097 ATTTTTGTTC
Statistics
Matches: 63, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
12 2 0.03
13 37 0.59
14 23 0.37
15 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (14 bp):
TATTATTATTATTG
Found at i:17367110 original size:22 final size:22
Alignment explanation
Indices: 17367008--17367099 Score: 100
Period size: 21 Copynumber: 4.2 Consensus size: 22
17366998 TAGTATTATC
*
17367008 TATTATTATT-TTATTATATTA
1 TATTATTATTATTATTGTATTA
**
17367029 TATTA-TATTATTATACTATTA
1 TATTATTATTATTATTGTATTA
*
17367050 TATTATTACATTA-TATTATTATTA
1 TATTATT--ATTATTATT-GTATTA
17367074 TATTATTATTATTATTGTATTA
1 TATTATTATTATTATTGTATTA
17367096 TATT
1 TATT
17367100 TTTGTTCTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.07
21 19 0.32
22 14 0.23
23 7 0.12
24 16 0.27
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (22 bp):
TATTATTATTATTATTGTATTA
Found at i:17367299 original size:62 final size:62
Alignment explanation
Indices: 17367197--17367322 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
17367187 TTAACAAGGA
* *
17367197 AATGGAAATTTGAAAATGCCTAATCAATGGAATTCAATCTACACAGTCAAATGTCTAAATGC
1 AATGGAAATTTGAAAATGCCTAATCAATGGAATTCAATCTACACAGTCAAAGGTCTAAACGC
*
17367259 AATGGAAATTTGAAAATGCCTAATCAATGGAATTCGATCTACACAGTCAAAGGTCTAAACGC
1 AATGGAAATTTGAAAATGCCTAATCAATGGAATTCAATCTACACAGTCAAAGGTCTAAACGC
17367321 AA
1 AA
17367323 AATCAAATAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (62 bp):
AATGGAAATTTGAAAATGCCTAATCAATGGAATTCAATCTACACAGTCAAAGGTCTAAACGC
Found at i:17374701 original size:3 final size:3
Alignment explanation
Indices: 17374695--17374723 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17374685 AAATTAAAAC
17374695 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17374724 ATTATTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17376920 original size:57 final size:56
Alignment explanation
Indices: 17376857--17377068 Score: 176
Period size: 57 Copynumber: 3.7 Consensus size: 56
17376847 ATTGCCACCA
* * * * *
17376857 AAAAAATGCAAATGACTTCAGATATAACCATCGAAGAGGACACGGATATTACCCTTG
1 AAAAAATGCAAATAACTT-AGATATCACCACCAAAGAGGACACGGATATTACCCTCG
* * * * * *
17376914 AGAAAATGCAAATAACATTAGATATCACCATCAAAG-GGAAATCAGATATTGCCAC-CA
1 AAAAAATGCAAATAAC-TTAGATATCACCACCAAAGAGGACA-CGGATATTACC-CTCG
* * * * * *
17376971 AAAAAATGCAAATGACTTTGAATATCACCACCAAAAAAGACTCGGATATTACCATCG
1 AAAAAATGCAAATAACTTAG-ATATCACCACCAAAGAGGACACGGATATTACCCTCG
* * *
17377028 ATAAAATGCAAATAACTTTGGATATCACCACCGAAGAGGAC
1 AAAAAATGCAAATAAC-TTAGATATCACCACCAAAGAGGAC
17377069 TTAAATACTA
Statistics
Matches: 121, Mismatches: 27, Indels: 14
0.75 0.17 0.09
Matches are distributed among these distances:
56 7 0.06
57 106 0.88
58 8 0.07
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (56 bp):
AAAAAATGCAAATAACTTAGATATCACCACCAAAGAGGACACGGATATTACCCTCG
Found at i:17376928 original size:114 final size:111
Alignment explanation
Indices: 17376752--17377059 Score: 334
Period size: 114 Copynumber: 2.7 Consensus size: 111
17376742 GAGAGATTGT
*
17376752 AAATGACTTCGATATCACCACTGAAAGGA-ACTTGGATATTGCCATTGAGAAAATGCAAAATAA-
1 AAATGACTTCGATATCACCAC-GAAAGGACAC--GGATATTACCATTGAGAAAATGC-AAATAAC
* * *
17376815 GTTCATATATCGCCACCAAAAGGAACA-CAAATATTGCCACCAAAAAAATGC
62 ATT-AGATATCACCACCAAAAGGAA-ATCAAATATTGCCACCAAAAAAATGC
* *
17376866 AAATGACTTCAGATATAACCATCGAAGAGGACACGGATATTACCCTTGAGAAAATGCAAATAACA
1 AAATGACTTC-GATATCACCA-CGAA-AGGACACGGATATTACCATTGAGAAAATGCAAATAACA
* * *
17376931 TTAGATATCACCATCAAAGGGAAATCAGATATTGCCACCAAAAAAATGC
63 TTAGATATCACCACCAAAAGGAAATCAAATATTGCCACCAAAAAAATGC
* * * * * * *
17376980 AAATGACTTTGAATATCACCACCAAAAAAGACTCGGATATTACCATCGATAAAATGCAAATAACT
1 AAATGACTTCG-ATATCACCA-C-GAAAGGACACGGATATTACCATTGAGAAAATGCAAATAACA
*
17377045 TTGGATATCACCACC
63 TTAGATATCACCACC
17377060 GAAGAGGACT
Statistics
Matches: 165, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
113 2 0.01
114 119 0.72
115 37 0.22
116 5 0.03
117 2 0.01
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.21
Consensus pattern (111 bp):
AAATGACTTCGATATCACCACGAAAGGACACGGATATTACCATTGAGAAAATGCAAATAACATTA
GATATCACCACCAAAAGGAAATCAAATATTGCCACCAAAAAAATGC
Found at i:17377143 original size:47 final size:47
Alignment explanation
Indices: 17377088--17377187 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 47
17377078 ATTATTAAGA
*
17377088 GATTTTAATGAAATTCAAACTTTAATACTAAGATATTACCACCGAGT
1 GATTTTAATGAAATTCAAACTTTAATACTAAGATATCACCACCGAGT
*
17377135 GATTTTAATGAAATTCAAACTTTAATACTTAGATATCACCACCGAGT
1 GATTTTAATGAAATTCAAACTTTAATACTAAGATATCACCACCGAGT
17377182 GATTTT
1 GATTTT
17377188 GTAAAAGTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (47 bp):
GATTTTAATGAAATTCAAACTTTAATACTAAGATATCACCACCGAGT
Found at i:17377349 original size:75 final size:75
Alignment explanation
Indices: 17377223--17377363 Score: 169
Period size: 75 Copynumber: 1.9 Consensus size: 75
17377213 AAAAAATTTT
17377223 AATGAAATTCAAACTTTAAACTCGAATATCACCACTAAATAATTCTAAAAAATGT-TCAGATATC
1 AATGAAATTCAAACTTTAAACTCGAATATCACCACTAAATAATTCTAAAAAA-GTCTCAGATATC
17377287 ACTATCGAGTA
65 ACTATCGAGTA
* * ** * * * * *
17377298 AATGAAATTCAGACTTTAAACTTCG-ATATTACTTCTAAGTGATTTTGAAAAAGTCTTAGATATC
1 AATGAAATTCAAACTTTAAAC-TCGAATATCACCACTAAATAATTCTAAAAAAGTCTCAGATATC
17377362 AC
65 AC
17377364 CTCTAAGTGA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
74 2 0.04
75 50 0.91
76 3 0.05
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.33
Consensus pattern (75 bp):
AATGAAATTCAAACTTTAAACTCGAATATCACCACTAAATAATTCTAAAAAAGTCTCAGATATCA
CTATCGAGTA
Found at i:17377369 original size:34 final size:34
Alignment explanation
Indices: 17377322--17377396 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 34
17377312 TTTAAACTTC
* * *
17377322 GATATTACTTCTAAGTGATTTTGAAAAAGTCTTA
1 GATATCACCTCTAAGTGATTTTGAAAAAATCTTA
17377356 GATATCACCTCTAAGTGATTTTGAAAAAATCTTA
1 GATATCACCTCTAAGTGATTTTGAAAAAATCTTA
17377390 GATATCA
1 GATATCA
17377397 ACATCAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (34 bp):
GATATCACCTCTAAGTGATTTTGAAAAAATCTTA
Found at i:17377472 original size:110 final size:108
Alignment explanation
Indices: 17377248--17377591 Score: 354
Period size: 110 Copynumber: 3.1 Consensus size: 108
17377238 TTAAACTCGA
* * * *
17377248 ATATCACCACTAAATAATTCTAAAAAATGTTCAGATATC-ACTATCGAGTAAATGAAATTCAGAC
1 ATATCACCACTAAGTAATTTTAAAAAATCTT-AGATATCAAC-ATCGAGAAAATGAAATTCAG-C
* * * * *
17377312 TTTAA-ACTTCGATATTACTTCTAAGTGATTTTGAAAAAGTCTTAG
63 TTTAATACTTAGATATCACCTCTGAGTGATTTTGAAAAAGACTTAG
* * *
17377357 ATATCACCTCTAAGTGATTTTGAAAAAATCTTAGATATCAACATCAAGAAAATGAAATTCATGCT
1 ATATCACCACTAAGTAATTTT-AAAAAATCTTAGATATCAACATCGAGAAAATGAAATTCA-GCT
*
17377422 TTAATACTTGGATATCACCTCTGAGTGATTTTGAAAAAGACTTAG
64 TTAATACTTAGATATCACCTCTGAGTGATTTTGAAAAAGACTTAG
* * * * *
17377467 ATATCATCACTGAGTAATTTTAAAAAAGTC-TAGGATATCACCACCGAGAAAATGAAATTTAGGC
1 ATATCACCACTAAGTAATTTTAAAAAA-TCTTA-GATATCAACATCGAGAAAATGAAATTCA-GC
* * * * * *
17377531 TTTAATACTCATATATCACCACTGAGTAATTTTGAAAAA-AGTTTGG
63 TTTAATACTTAGATATCACCTCTGAGTGATTTTGAAAAAGA-CTTAG
*
17377577 ATATCACCACCAAGT
1 ATATCACCACTAAGT
17377592 GAATGAAATG
Statistics
Matches: 197, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
109 56 0.28
110 141 0.72
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (108 bp):
ATATCACCACTAAGTAATTTTAAAAAATCTTAGATATCAACATCGAGAAAATGAAATTCAGCTTT
AATACTTAGATATCACCTCTGAGTGATTTTGAAAAAGACTTAG
Found at i:17377480 original size:34 final size:34
Alignment explanation
Indices: 17377427--17377510 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 34
17377417 ATGCTTTAAT
* * * *
17377427 ACTTGGATATCACCTCTGAGTGATTTTGAAAAAG
1 ACTTAGATATCACCACTGAGTAATTTTAAAAAAG
*
17377461 ACTTAGATATCATCACTGAGTAATTTTAAAAAAG
1 ACTTAGATATCACCACTGAGTAATTTTAAAAAAG
*
17377495 TC-TAGGATATCACCAC
1 ACTTA-GATATCACCAC
17377511 CGAGAAAATG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 2 0.05
34 40 0.95
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (34 bp):
ACTTAGATATCACCACTGAGTAATTTTAAAAAAG
Found at i:17377568 original size:186 final size:186
Alignment explanation
Indices: 17377355--17377743 Score: 475
Period size: 186 Copynumber: 2.1 Consensus size: 186
17377345 AAAAAGTCTT
* * * *
17377355 AGATATCACCTCTAAGTGATTTTGAAAAAA-TCTTAGATATCAACATCAAGAAAATGAAAT-TCA
1 AGATATCACCACTGAGTAATTTTGAAAAAAGT-TTAGATATCAACACCAAGAAAATGAAATGT-A
* *
17377418 TG-CTTTAATACTTGGATATCACCTCTGAGTGATTTTGAAAAAGACT-TAGATATCATCACTGAG
64 -GACTTTAA-ACTTGAATATCACCTCTAAGTGATTTTGAAAAAGACTCT-GATATCATCACTGAG
* * * *
17377481 TAATTTTAAAAAAGTCTAGGATATCACCACC-GAGAA-AATGAAATTTAGGCTTTAATACTC
126 TAATTTTAAAAAAGTCTAGAATATCACAACCAGA-AAGAATGAAATTAAGACTTTAATACTC
* * * **
17377541 ATATATCACCACTGAGTAATTTTGAAAAAAGTTTGGATATCACCACCAAGTGAATGAAATGTAGA
1 AGATATCACCACTGAGTAATTTTGAAAAAAGTTTAGATATCAACACCAAGAAAATGAAATGTAGA
* * * *
17377606 CTTTAAACTTGAATATTACCTCTAAGTGATTTTGAAAAAGGCTCTGATATCATCATTGAGTGATT
66 CTTTAAACTTGAATATCACCTCTAAGTGATTTTGAAAAAGACTCTGATATCATCACTGAGTAATT
* * * *
17377671 TTAAAAAAGTCTCGAATGTCATAATCAGAAAGAATGAAATTAAGACTTTAATACTC
131 TTAAAAAAGTCTAGAATATCACAACCAGAAAGAATGAAATTAAGACTTTAATACTC
17377727 AGATATCACCACTGAGT
1 AGATATCACCACTGAGT
17377744 GGATGCAATT
Statistics
Matches: 173, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
185 74 0.43
186 97 0.56
187 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (186 bp):
AGATATCACCACTGAGTAATTTTGAAAAAAGTTTAGATATCAACACCAAGAAAATGAAATGTAGA
CTTTAAACTTGAATATCACCTCTAAGTGATTTTGAAAAAGACTCTGATATCATCACTGAGTAATT
TTAAAAAAGTCTAGAATATCACAACCAGAAAGAATGAAATTAAGACTTTAATACTC
Found at i:17377597 original size:76 final size:76
Alignment explanation
Indices: 17377467--17377611 Score: 211
Period size: 76 Copynumber: 1.9 Consensus size: 76
17377457 AAAGACTTAG
* * * *
17377467 ATATCATCACTGAGTAATTTTAAAAAAGTCTAGGATATCACCACCGAGAAAATGAAATTTAGGCT
1 ATATCACCACTGAGTAATTTTAAAAAAGTCTAGGATATCACCACCAAGAAAATGAAATGTAGACT
17377532 TTAATACTCAT
66 TTAATACTCAT
* **
17377543 ATATCACCACTGAGTAATTTTGAAAAAAGT-TTGGATATCACCACCAAGTGAATGAAATGTAGAC
1 ATATCACCACTGAGTAATTTT-AAAAAAGTCTAGGATATCACCACCAAGAAAATGAAATGTAGAC
17377607 TTTAA
65 TTTAA
17377612 ACTTGAATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
76 53 0.87
77 8 0.13
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (76 bp):
ATATCACCACTGAGTAATTTTAAAAAAGTCTAGGATATCACCACCAAGAAAATGAAATGTAGACT
TTAATACTCAT
Found at i:17385238 original size:9 final size:9
Alignment explanation
Indices: 17385226--17385344 Score: 105
Period size: 9 Copynumber: 12.6 Consensus size: 9
17385216 GAAAAGATTA
17385226 AAAAAAAAG
1 AAAAAAAAG
*
17385235 AAAAAAGAGG
1 AAAAAA-AAG
17385245 AAAAAAAA-
1 AAAAAAAAG
17385253 AAGAAAAAAGG
1 AA-AAAAAA-G
17385264 AAAAAAAAGAG
1 -AAAAAAA-AG
17385275 AAAAAAAAGG
1 AAAAAAAA-G
*
17385285 AAAAAGAATG
1 AAAAA-AAAG
*
17385295 AAAAATAAG
1 AAAAAAAAG
*
17385304 AAAAATAAG
1 AAAAAAAAG
*
17385313 AAAAATAAG
1 AAAAAAAAG
*
17385322 AAAAATAAG
1 AAAAAAAAG
*
17385331 AAAAATAAG
1 AAAAAAAAG
17385340 AAAAA
1 AAAAA
17385345 TGAAAAATGA
Statistics
Matches: 97, Mismatches: 5, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
8 2 0.02
9 57 0.59
10 27 0.28
11 8 0.08
12 3 0.03
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:17385242 original size:20 final size:18
Alignment explanation
Indices: 17385225--17385280 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
17385215 GGAAAAGATT
17385225 AAAAAAAAAGAAAAAAGAGGA
1 AAAAAAAAAG-AAAAA-A-GA
17385246 AAAAAAAAAGAAAAAAGGA
1 AAAAAAAAAGAAAAAA-GA
*
17385265 AAAAAAAGAGAAAAAA
1 AAAAAAAAAGAAAAAA
17385281 AAGGAAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 19 0.56
20 5 0.15
21 10 0.29
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAGA
Found at i:17385251 original size:21 final size:20
Alignment explanation
Indices: 17385225--17385289 Score: 96
Period size: 21 Copynumber: 3.2 Consensus size: 20
17385215 GGAAAAGATT
17385225 AAAAAAAAAGAAAAAAGAGGA
1 AAAAAAAAAGAAAAAA-AGGA
17385246 AAAAAAAAAG-AAAAAAGGA
1 AAAAAAAAAGAAAAAAAGGA
*
17385265 AAAAAAAGAGAAAAAAAAGGA
1 AAAAAAAAAG-AAAAAAAGGA
17385286 AAAA
1 AAAA
17385290 GAATGAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 13 0.32
20 5 0.12
21 23 0.56
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAAAGGA
Found at i:17385259 original size:28 final size:27
Alignment explanation
Indices: 17385228--17385351 Score: 99
Period size: 28 Copynumber: 4.4 Consensus size: 27
17385218 AAAGATTAAA
*
17385228 AAAAAAGAAAAAAGAGGAAAAAAAAAAG
1 AAAAAAGAAAAAA-AAGAAAAAAAAAAG
*
17385256 AAAAAAGGAAAAAAAAGAGAAAAAAAAG
1 AAAAAA-GAAAAAAAAGAAAAAAAAAAG
* * * *
17385284 GAAAAAGAATGAAAAATAAGAAAAATAAG
1 AAAAAAGAA-AAAAAAGAA-AAAAAAAAG
* *
17385313 AAAAATAAGAAAAATAAG--AAAAATAAG
1 -AAAA-AAGAAAAAAAAGAAAAAAAAAAG
*
17385340 AAAAATGAAAAA
1 AAAAAAGAAAAA
17385352 TGAAAATGAG
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
25 7 0.09
26 4 0.05
27 12 0.15
28 29 0.37
29 15 0.19
30 7 0.09
31 5 0.06
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (27 bp):
AAAAAAGAAAAAAAAGAAAAAAAAAAG
Found at i:17385280 original size:29 final size:30
Alignment explanation
Indices: 17385235--17385308 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
17385225 AAAAAAAAAG
17385235 AAAAAAGAGGAAAAAAAAAAGAAAAA-AGGAA
1 AAAAAAGA-G-AAAAAAAAAGAAAAAGAGGAA
* *
17385266 AAAAAAGAGAAAAAAAAGGAAAAAGAATGAA
1 AAAAAAGAGAAAAAAAAAGAAAAAG-AGGAA
*
17385297 AAATAAGA-AAAA
1 AAAAAAGAGAAAA
17385309 TAAGAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 14 0.37
30 5 0.13
31 19 0.50
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.03
Consensus pattern (30 bp):
AAAAAAGAGAAAAAAAAAGAAAAAGAGGAA
Found at i:17385345 original size:9 final size:9
Alignment explanation
Indices: 17385273--17385345 Score: 110
Period size: 9 Copynumber: 7.9 Consensus size: 9
17385263 GAAAAAAAAG
*
17385273 AGAAAAAAA
1 AGAAAAATA
*
17385282 AGGAAAAAGA
1 A-GAAAAATA
17385292 ATGAAAAATA
1 A-GAAAAATA
17385302 AGAAAAATA
1 AGAAAAATA
17385311 AGAAAAATA
1 AGAAAAATA
17385320 AGAAAAATA
1 AGAAAAATA
17385329 AGAAAAATA
1 AGAAAAATA
17385338 AGAAAAAT
1 AGAAAAAT
17385346 GAAAAATGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
9 44 0.73
10 16 0.27
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.10
Consensus pattern (9 bp):
AGAAAAATA
Found at i:17385590 original size:15 final size:16
Alignment explanation
Indices: 17385570--17385603 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
17385560 AATGTTCAGA
17385570 ATTGTTTGAATAT-TC
1 ATTGTTTGAATATATC
*
17385585 ATTGTTTGGATATATC
1 ATTGTTTGAATATATC
17385601 ATT
1 ATT
17385604 CATTCTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (16 bp):
ATTGTTTGAATATATC
Found at i:17386580 original size:21 final size:21
Alignment explanation
Indices: 17386541--17386581 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17386531 ATTTTTAAGT
*
17386541 TCTCAAATGTAAATTTTTGAA
1 TCTCAAATGTAAATCTTTGAA
17386562 TCTCAAATG-AGAATCTTTGA
1 TCTCAAATGTA-AATCTTTGA
17386582 GCTGTGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (21 bp):
TCTCAAATGTAAATCTTTGAA
Found at i:17386687 original size:78 final size:77
Alignment explanation
Indices: 17386542--17386789 Score: 268
Period size: 78 Copynumber: 3.1 Consensus size: 77
17386532 TTTTTAAGTT
* *
17386542 CTCAAATGTAAATTTTTGAA-TCTCAAATGAGAATCTTTGAGCTGTGAAACCCAAAATTTGTCAA
1 CTCAAATG-AAATTTTT-AAGTTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTC-A
17386606 ATGTAAATCGTCAAA
63 ATGTAAATCGTCAAA
*
17386621 CTCAAATGAGAATTTTTAAGTTTCAAATGAGAAT-TTTGAGGTATGAAACCCAAAATTTGTCGAA
1 CTCAAATGA-AATTTTTAAGTTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTC-AA
* * *
17386685 TGTGAATCTTCGAA
64 TGTAAATCGTCAAA
* * * * **
17386699 CTCAAATGAAAATCTTTGAGTTTCAAATAAGGATCTTTGAGGTGTGAAACCCTAATGTTTGTCAG
1 CTCAAATG-AAATTTTTAAGTTTCAAATGAGAATCTTTGAGGTGTGAAACCC-AAAATTTGTCA-
* *
17386764 ATGTAAATCTTCGAA
63 ATGTAAATCGTCAAA
17386779 CT-AGAATGAAA
1 CTCA-AATGAAA
17386790 AGTTTTAAAG
Statistics
Matches: 147, Mismatches: 15, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
78 69 0.47
79 50 0.34
80 28 0.19
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (77 bp):
CTCAAATGAAATTTTTAAGTTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTCAATG
TAAATCGTCAAA
Found at i:17386726 original size:21 final size:21
Alignment explanation
Indices: 17386700--17386739 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17386690 ATCTTCGAAC
17386700 TCAAATGAA-AATCTTTGAGTT
1 TCAAAT-AAGAATCTTTGAGTT
*
17386721 TCAAATAAGGATCTTTGAG
1 TCAAATAAGAATCTTTGAG
17386740 GTGTGAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (21 bp):
TCAAATAAGAATCTTTGAGTT
Found at i:17387225 original size:41 final size:41
Alignment explanation
Indices: 17387147--17387484 Score: 261
Period size: 41 Copynumber: 8.1 Consensus size: 41
17387137 TGATCGTTAC
* *
17387147 GGAGC-ATTTATTTTT-CAAAGTTGTGGTTACCTTTGTTTAGA
1 GGAGCAATTT-TTTTTCCAAAGTTGTGG-TGCCTCTGTTTAGA
*
17387188 GGAGCAATTTCTTTTCCAAAGTTGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTTTTTTCCAAAGTTGTGGTGCCTCTGTTTAGA
** *
17387229 GGAGCAATTTATTTTTTCCAAAGTTGTGGCACCTCTGTTTAAA
1 GGAGCAA-TT-TTTTTTCCAAAGTTGTGGTGCCTCTGTTTAGA
* ** *
17387272 GGAACAATTTATTTTTTTAAAGTTATGGTGCCTCTGTTTAGA
1 GGAGCAATTT-TTTTTCCAAAGTTGTGGTGCCTCTGTTTAGA
* * *
17387314 AGAGC-ATTTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGA
1 GGAGCAATTTT-TTTTCCAAAGTTGTGGTGCCTCTGTTTAGA
* * ** * *
17387355 GGAGCATTTTATTTTTCCAAAGTTATAATACCTTTGTTTAGA
1 GGAGCAATTT-TTTTTCCAAAGTTGTGGTGCCTCTGTTTAGA
** * * ** * *
17387397 ATAGCATTTTTATTTTTCAAAAGTTACGGGGCCTCTATTTAGA
1 GGAGCA-ATTT-TTTTTCCAAAGTTGTGGTGCCTCTGTTTAGA
* * * * * *
17387440 TGAGC-ATTTATTTTTTCAAAGTCGTTGAGCCTTTGTTTAGA
1 GGAGCAATTT-TTTTTCCAAAGTTGTGGTGCCTCTGTTTAGA
17387481 GGAG
1 GGAG
17387485 TTTTGTTTAC
Statistics
Matches: 237, Mismatches: 51, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
40 1 0.00
41 93 0.39
42 77 0.32
43 66 0.28
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.43
Consensus pattern (41 bp):
GGAGCAATTTTTTTTCCAAAGTTGTGGTGCCTCTGTTTAGA
Found at i:17387409 original size:126 final size:125
Alignment explanation
Indices: 17387152--17387484 Score: 348
Period size: 126 Copynumber: 2.6 Consensus size: 125
17387142 GTTACGGAGC
* * * * * * *
17387152 ATTTA-TTTTTCAAAGTTGTGGTTACCTTTGTTTAGAGGAGCAATTTCTTTTCCAAAGTTGTGGT
1 ATTTATTTTTTAAAAGTTATGG-TGCCTCTGTTTAGAAGAGC-ATTTATTTTTCAAAGTTGTGGT
* **
17387216 GCCTCTGTTTAGAGGAGCAATTTATTTTTTCCAAAGTTGTGGCACCTCTGTTTAAAGGAACA
64 GCCTCTGTTTAGAGGAGCAATTTATTTTTTCCAAAGTTATAACACCTCTGTTTAAAGGAACA
*
17387278 ATTTATTTTTTTAAAGTTATGGTGCCTCTGTTTAGAAGAGCATTTTATTTTTCAAAGTTGTGGTG
1 ATTTATTTTTTAAAAGTTATGGTGCCTCTGTTTAGAAGAGCA-TTTATTTTTCAAAGTTGTGGTG
* * * * * *
17387343 CCTCTATTTAGAGGAGCATTTTA-TTTTTCCAAAGTTATAATACCTTTGTTTAGAA-TAGCA
65 CCTCTGTTTAGAGGAGCAATTTATTTTTTCCAAAGTTATAACACCTCTGTTTA-AAGGAACA
* * * * * * * * *
17387403 TTTTTATTTTTCAAAAGTTACGGGGCCTCTATTTAGATGAGCATTTATTTTTTCAAAGTCGTTGA
1 -ATTTATTTTTTAAAAGTTATGGTGCCTCTGTTTAGAAGAGCATTTA-TTTTTCAAAGTTGTGGT
*
17387468 GCCTTTGTTTAGAGGAG
64 GCCTCTGTTTAGAGGAG
17387485 TTTTGTTTAC
Statistics
Matches: 174, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
125 32 0.18
126 128 0.74
127 14 0.08
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.44
Consensus pattern (125 bp):
ATTTATTTTTTAAAAGTTATGGTGCCTCTGTTTAGAAGAGCATTTATTTTTCAAAGTTGTGGTGC
CTCTGTTTAGAGGAGCAATTTATTTTTTCCAAAGTTATAACACCTCTGTTTAAAGGAACA
Done.