Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 54 of 128
Found at i:17153066 original size:33 final size:33
Alignment explanation
Indices: 17153024--17153114 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
17153014 GATTACTCTC
17153024 TTCACTCGTTTCTTTTACAAGT-T-TTCTTTCCTT
1 TTCACTCGTTTCTTTT-CAAGTCTCTT-TTTCCTT
**
17153057 TTCACTCGTTTCTTTTTTAGTCTCTTTTTCCTT
1 TTCACTCGTTTCTTTTCAAGTCTCTTTTTCCTT
*
17153090 TTCACTCATTTCTTTTTC-AGTCTCT
1 TTCACTCGTTTC-TTTTCAAGTCTCT
17153115 CTTCTTTTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
32 3 0.06
33 42 0.82
34 6 0.12
ACGTcount: A:0.10, C:0.25, G:0.05, T:0.59
Consensus pattern (33 bp):
TTCACTCGTTTCTTTTCAAGTCTCTTTTTCCTT
Found at i:17153121 original size:17 final size:17
Alignment explanation
Indices: 17153099--17153145 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
17153089 TTTCACTCAT
17153099 TTCTTTTTCA-GTCTCTC
1 TTCTTTTTCACG-CTCTC
17153116 TTCTTTTCTTCACGCTCTC
1 TTC-TTT-TTCACGCTCTC
17153135 TTCTATTTTCA
1 TTCT-TTTTCA
17153146 AGAACTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.12
18 8 0.31
19 14 0.54
20 1 0.04
ACGTcount: A:0.09, C:0.30, G:0.04, T:0.57
Consensus pattern (17 bp):
TTCTTTTTCACGCTCTC
Found at i:17154307 original size:54 final size:54
Alignment explanation
Indices: 17154227--17154389 Score: 220
Period size: 54 Copynumber: 3.0 Consensus size: 54
17154217 AATTCCTCGA
* *
17154227 CGAATAGGAATTACAACT-TGGATCTCTTTTCAAGAAATCATAGGACGTTTGACT
1 CGAATAGGAATCACAA-TATGGATCTCTTTTCAAGAAATCATTGGACGTTTGACT
** * * *
17154281 CGAATAGGAATCATGATATGGATCTCTTCTCAAGAAATCATTGGACATTTGGCT
1 CGAATAGGAATCACAATATGGATCTCTTTTCAAGAAATCATTGGACGTTTGACT
* * *
17154335 CGAATAGGAATCACAATATGGATCTATTTTTAAGAATTCATTGGACGTTTGACT
1 CGAATAGGAATCACAATATGGATCTCTTTTCAAGAAATCATTGGACGTTTGACT
17154389 C
1 C
17154390 CTTAACAATC
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 92 0.99
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (54 bp):
CGAATAGGAATCACAATATGGATCTCTTTTCAAGAAATCATTGGACGTTTGACT
Found at i:17158444 original size:30 final size:29
Alignment explanation
Indices: 17158404--17158471 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 29
17158394 GGTTTTAGAG
**
17158404 AAAATAAATTAGGGTTTATGGATTTTTAA
1 AAAATAAATTAGGGTTTAAAGATTTTTAA
17158433 AAAATTAAATTAGGGTTTAAAGATTTTT-A
1 AAAA-TAAATTAGGGTTTAAAGATTTTTAA
17158462 AAAATAAATT
1 AAAATAAATT
17158472 TTTATTTAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 6 0.17
29 9 0.25
30 21 0.58
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (29 bp):
AAAATAAATTAGGGTTTAAAGATTTTTAA
Found at i:17158813 original size:127 final size:127
Alignment explanation
Indices: 17158598--17159002 Score: 647
Period size: 127 Copynumber: 3.2 Consensus size: 127
17158588 TTAAACATTA
* * *
17158598 TTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGATG-ATTCT-AAAAAAATAGGGTATA
1 TTTTTCTACAGTAATTTCTAAAAAAATAATTTTGAGAATATGAATT-TAAAAAAAATAGGGTAAA
17158661 AAACGCTTCAAGTAGGATGCAGTGTCAGCAAAAGTATTGAAAAAAGCTCTCACCTAGACGCTC
65 AAACGCTTCAAGTAGGATGCAGTGTCAGCAAAAGTATTGAAAAAAGCTCTCACCTAGACGCTC
17158724 TTTTTCTACAGTAATTTCTAAAAAAATAATTTTGAGAATATGAATTTAAAAAAAATAGGGTAAAA
1 TTTTTCTACAGTAATTTCTAAAAAAATAATTTTGAGAATATGAATTTAAAAAAAATAGGGTAAAA
17158789 AACGCTTCAAGTAGGATGCAGTGTCAGCAAAAGTATTGAAAAAAGCTCTCACCTAGACGCTC
66 AACGCTTCAAGTAGGATGCAGTGTCAGCAAAAGTATTGAAAAAAGCTCTCACCTAGACGCTC
17158851 TTTTTCTACAGTAATTTCTAAAAAAATAATTTTGAGAATATGAATTTAAAAAAAATAGGGTAAAA
1 TTTTTCTACAGTAATTTCTAAAAAAATAATTTTGAGAATATGAATTTAAAAAAAATAGGGTAAAA
* * * * * **
17158916 AACGCTTCAAGTATGATGCACTGTCAACAAAAGTACT-AAAAAATGCT-TCCACCTGGATACTC
66 AACGCTTCAAGTAGGATGCAGTGTCAGCAAAAGTATTGAAAAAA-GCTCT-CACCTAGACGCTC
* *
17158978 TTTTTCTACAGTAGTTTCTGAAAAA
1 TTTTTCTACAGTAATTTCTAAAAAA
17159003 TAGGATAAAA
Statistics
Matches: 263, Mismatches: 12, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
126 48 0.18
127 215 0.82
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (127 bp):
TTTTTCTACAGTAATTTCTAAAAAAATAATTTTGAGAATATGAATTTAAAAAAAATAGGGTAAAA
AACGCTTCAAGTAGGATGCAGTGTCAGCAAAAGTATTGAAAAAAGCTCTCACCTAGACGCTC
Found at i:17159210 original size:30 final size:29
Alignment explanation
Indices: 17159170--17159237 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 29
17159160 GGTTTTAGAG
**
17159170 AAAATAAATTAGGGTTTATGGATTTTTAA
1 AAAATAAATTAGGGTTTAAAGATTTTTAA
17159199 AAAATTAAATTAGGGTTTAAAGATTTTT-A
1 AAAA-TAAATTAGGGTTTAAAGATTTTTAA
17159228 AAAATAAATT
1 AAAATAAATT
17159238 TTTATTTAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 6 0.17
29 9 0.25
30 21 0.58
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (29 bp):
AAAATAAATTAGGGTTTAAAGATTTTTAA
Found at i:17161553 original size:125 final size:126
Alignment explanation
Indices: 17161329--17161605 Score: 403
Period size: 125 Copynumber: 2.2 Consensus size: 126
17161319 NNNNNNNNNN
* *
17161329 TTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAATATGATTTTAAAAAAAATAGGGTAAAA
1 TTTTTCTACAGTAGTTTCT-GAAAAATAATTTTGAGAAGATGATTTTAAAAAAAATAGGGTAAAA
* * * *
17161394 AGCGCTACAAGCAGGATGCACTTTCAGCAAAAGTATTGAAAAAAGCTCCCACCTAGACGCTC
65 AACGCTACAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACCTAGACACTC
* * *
17161456 TTTTTCTACAGTAGTTTCTGAAAAATAATTTTGAGAAGATGGTTTT-GAAAAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAATAATTTTGAGAAGATGATTTTAAAAAAAATAGGGTAAAAA
* * * * * *
17161520 ATGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAATGCTTCCACCTGGATACTC
66 ACGCTACAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACCTAGACACTC
17161581 TTTTTCTACAGTAGTTTCTGAAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAA
17161606 ATAGGATAAA
Statistics
Matches: 135, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
125 92 0.68
126 24 0.18
127 19 0.14
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTTCTGAAAAATAATTTTGAGAAGATGATTTTAAAAAAAATAGGGTAAAAA
ACGCTACAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACCTAGACACTC
Found at i:17161682 original size:97 final size:97
Alignment explanation
Indices: 17161497--17161705 Score: 251
Period size: 97 Copynumber: 2.1 Consensus size: 97
17161487 TGAGAAGATG
* * * *
17161497 GTTTTGAAAAAATAGTGTAAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAA
1 GTTTTGAAAAAATAGTGTAAAAAACGCTTCAAGAAGGATGCACTGTCAACAAAAGTACTAAAAAA
* * * * *
17161562 TGCTTCCACCTGGATACTCTTTTTCTACAGTA
66 AGCTCCCACCTGGACACTATTTTTCTACAATA
*
17161594 GTTTCTGAAAAAATAG-G-ATAAAAACGCTTCAAGAAGGATGCGCTGTCAACAAAAGTACTAAAA
1 GTTT-TGAAAAAATAGTGTA-AAAAACGCTTCAAGAAGGATGCACTGTCAACAAAAGTACTAAAA
** **
17161657 AAAGCTCCCATTTGGACGTTATTTTTCTACAATA
64 AAAGCTCCCACCTGGACACTATTTTTCTACAATA
17161691 GTTTTTGAAAAAATA
1 G-TTTTGAAAAAATA
17161706 ATTTTGAGAA
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
96 1 0.01
97 80 0.84
98 14 0.15
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.29
Consensus pattern (97 bp):
GTTTTGAAAAAATAGTGTAAAAAACGCTTCAAGAAGGATGCACTGTCAACAAAAGTACTAAAAAA
AGCTCCCACCTGGACACTATTTTTCTACAATA
Found at i:17161775 original size:222 final size:223
Alignment explanation
Indices: 17161378--17161815 Score: 621
Period size: 222 Copynumber: 2.0 Consensus size: 223
17161368 ATGATTTTAA
* * * * * *
17161378 AAAAAATAGGGTAAAAAGCGCTACAAGCAGGATGCACTTTCAGCAAAAGTATTGAAAAAAGCTCC
1 AAAAAATAGGATAAAAAGCGCTACAAGAAGGATGCACTGTCAACAAAAGTACTAAAAAAAGCTCC
* * *
17161443 CACCTAGACGCTCTTTTTCTACAGTAGTTTCTGAAAAATAATTTTGAGAAGATGGTTTTGAAAAA
66 CACCTAGACGCTATTTTTCTACAATAGTTTCTGAAAAATAATTTTGAGAAGATGATTTTGAAAAA
* * * *
17161508 ATAGTGTAAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAA-TGCTTCCACC
131 ACAGGGTAAAAAATGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTGAAAAAGTG-TCCCACC
**
17161572 TGGATACTCTTTTTCTACAGTAGTTTCTG
195 TAAATACTCTTTTTCTACAGTAGTTTCTG
* *
17161601 AAAAAATAGGATAAAAA-CGCTTCAAGAAGGATGCGCTGTCAACAAAAGTACTAAAAAAAGCTCC
1 AAAAAATAGGATAAAAAGCGCTACAAGAAGGATGCACTGTCAACAAAAGTACTAAAAAAAGCTCC
** * * *
17161665 CATTTGGACGTTATTTTTCTACAATAGTTTTTGAAAAAATAATTTTGAGAAGATGATTTTG-AAA
66 CACCTAGACGCTATTTTTCTACAATAGTTTCTG-AAAAATAATTTTGAGAAGATGATTTTGAAAA
*
17161729 AACAGGGTAAAAAATGCTTCAAGCAGGATGCATTGTCAGAAAAAGTACTGAAAAAGTGTCCCACC
130 AACAGGGTAAAAAATGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTGAAAAAGTGTCCCACC
*
17161794 TAAATGCTCTTTTTCTACAGTA
195 TAAATACTCTTTTTCTACAGTA
17161816 CATCCTGCTT
Statistics
Matches: 189, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
222 145 0.77
223 44 0.23
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.28
Consensus pattern (223 bp):
AAAAAATAGGATAAAAAGCGCTACAAGAAGGATGCACTGTCAACAAAAGTACTAAAAAAAGCTCC
CACCTAGACGCTATTTTTCTACAATAGTTTCTGAAAAATAATTTTGAGAAGATGATTTTGAAAAA
ACAGGGTAAAAAATGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTGAAAAAGTGTCCCACCT
AAATACTCTTTTTCTACAGTAGTTTCTG
Found at i:17163253 original size:18 final size:18
Alignment explanation
Indices: 17163212--17163255 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
17163202 GACTGGGAAA
* * *
17163212 AGGAAACATATAAGGGTT
1 AGGATACATATAAAGGCT
*
17163230 AAGATACATATAAAGGCT
1 AGGATACATATAAAGGCT
17163248 AGGATACA
1 AGGATACA
17163256 CACCCGGCAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.23, T:0.20
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:17164982 original size:21 final size:21
Alignment explanation
Indices: 17164952--17164992 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17164942 GGAAATTGTG
17164952 ATTTAAAGAGA-GCTTTGAGAA
1 ATTTAAAGAGATG-TTTGAGAA
*
17164973 ATTTAGAGAGATGTTTGAGA
1 ATTTAAAGAGATGTTTGAGA
17164993 GCTTTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (21 bp):
ATTTAAAGAGATGTTTGAGAA
Found at i:17165566 original size:21 final size:20
Alignment explanation
Indices: 17165541--17165579 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
17165531 TTAATCAGTT
*
17165541 TTTCTATTCCATTATTTTAGG
1 TTTCTATTCC-TCATTTTAGG
*
17165562 TTTCTTTTCCTCATTTTA
1 TTTCTATTCCTCATTTTA
17165580 TAAGAAGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.15, C:0.18, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTCTATTCCTCATTTTAGG
Found at i:17166924 original size:22 final size:22
Alignment explanation
Indices: 17166884--17166925 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
17166874 TAAATATAAT
*
17166884 TAAATTAAATTACACAAAAAAA
1 TAAATTAAATTAAACAAAAAAA
* *
17166906 TAAATTTAATTAAATAAAAA
1 TAAATTAAATTAAACAAAAA
17166926 CTTTTGAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAATTAAATTAAACAAAAAAA
Found at i:17172541 original size:20 final size:20
Alignment explanation
Indices: 17172489--17172538 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
17172479 AGTTATAATC
*
17172489 ATTAG-TAAGTTAATTAGGA
1 ATTAGTTAATTTAATTAGGA
17172508 ATTAGTTAATTTAATTAGGA
1 ATTAGTTAATTTAATTAGGA
*
17172528 TTTA-TTAATTT
1 ATTAGTTAATTT
17172539 TAAACTTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (20 bp):
ATTAGTTAATTTAATTAGGA
Found at i:17193345 original size:45 final size:45
Alignment explanation
Indices: 17193286--17193383 Score: 187
Period size: 45 Copynumber: 2.2 Consensus size: 45
17193276 TTCAAGGAAA
*
17193286 AAATGAAGAAGTGAATGTGAACCGTGCACTAGATAGGTTCCAAGG
1 AAATGAAGAAGTGAATGTGAACCGTGCACTAGATAGGTTCAAAGG
17193331 AAATGAAGAAGTGAATGTGAACCGTGCACTAGATAGGTTCAAAGG
1 AAATGAAGAAGTGAATGTGAACCGTGCACTAGATAGGTTCAAAGG
17193376 AAATGAAG
1 AAATGAAG
17193384 GTAAGTCGTA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.41, C:0.11, G:0.29, T:0.19
Consensus pattern (45 bp):
AAATGAAGAAGTGAATGTGAACCGTGCACTAGATAGGTTCAAAGG
Found at i:17199731 original size:39 final size:39
Alignment explanation
Indices: 17199665--17199770 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
17199655 CGTTTGAATA
*
17199665 AAAAACGCCGCTAAAAATCAAGTATTAGCGGTGC-TTTTC
1 AAAAACGCCGCTAAAAATC-AGCATTAGCGGTGCTTTTTC
* *
17199704 AAAAATCGCCGCTAAAGATCAGCATTAGCGGTGCTTTTTG
1 AAAAA-CGCCGCTAAAAATCAGCATTAGCGGTGCTTTTTC
* *
17199744 GAAAACGCCGCTAAAAATGAGCATTAG
1 AAAAACGCCGCTAAAAATCAGCATTAG
17199771 TGGCATTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
39 38 0.64
40 21 0.36
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATCAGCATTAGCGGTGCTTTTTC
Found at i:17199781 original size:39 final size:40
Alignment explanation
Indices: 17199665--17199800 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 40
17199655 CGTTTGAATA
* * ** *
17199665 AAAAACGCCGCTAAAAATCAAGTATTAGCGGTGCTTTTCA-
1 AAAAGCGCCGCTAAAAATC-AGCATTAGCGGCACTTTTTAG
* * ** *
17199705 AAAATCGCCGCTAAAGATCAGCATTAGCGGTGCTTTTTGG
1 AAAAGCGCCGCTAAAAATCAGCATTAGCGGCACTTTTTAG
* * *
17199745 AAAA-CGCCGCTAAAAATGAGCATTAGTGGCATTTTTTAG
1 AAAAGCGCCGCTAAAAATCAGCATTAGCGGCACTTTTTAG
*
17199784 AAAAGCGCCGCAAAAAA
1 AAAAGCGCCGCTAAAAA
17199801 CCTAAGCCTA
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 49 0.60
40 32 0.40
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (40 bp):
AAAAGCGCCGCTAAAAATCAGCATTAGCGGCACTTTTTAG
Found at i:17199933 original size:41 final size:41
Alignment explanation
Indices: 17199838--17200112 Score: 365
Period size: 41 Copynumber: 6.7 Consensus size: 41
17199828 CCTTTCGAGG
*
17199838 CTTTAGCGGCATTTTTTGGAAAAGCG-C-CTAATGCTCAGAC
1 CTTTAGCGGC-GTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* *
17199878 CTTTAGCGGCCGTTTTTGGAAAAGCGCCGCTAATGATTAGAC
1 CTTTAGCGG-CGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* *
17199920 CTTTAGCGGCGTTTATGGAAAAGCGCCGCTAATGCTCAAAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* * * *
17199961 CTTTAGTGGCATTTTTGAAAAAGCGCCGCTAATGCTTAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* * **
17200002 CTATAGCGGTGTTTTTAAAAAAGCGCCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
*
17200043 TTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* * *
17200084 CTTTAACGGTGTTTTTAGAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGC
17200113 AAAAACATTT
Statistics
Matches: 204, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
40 23 0.11
41 161 0.79
42 20 0.10
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
Found at i:17200326 original size:14 final size:15
Alignment explanation
Indices: 17200298--17200330 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
17200288 AAGGTTTATA
17200298 GATTATGGAATTAGG
1 GATTATGGAATTAGG
17200313 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
17200327 GATT
1 GATT
17200331 CTAGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:17200485 original size:7 final size:7
Alignment explanation
Indices: 17200470--17200518 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
17200460 TAAATAATGT
17200470 TTAGGGG
1 TTAGGGG
*
17200477 TTGGGGG
1 TTAGGGG
*
17200484 TTAAGGG
1 TTAGGGG
17200491 TTAGGGG
1 TTAGGGG
17200498 TTTA-GGG
1 -TTAGGGG
17200505 TTAGGGG
1 TTAGGGG
17200512 TTTAGGG
1 -TTAGGG
17200519 TTATGCGTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
6 3 0.09
7 23 0.66
8 9 0.26
ACGTcount: A:0.14, C:0.00, G:0.53, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:17200496 original size:21 final size:22
Alignment explanation
Indices: 17200468--17200518 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
17200458 ATTAAATAAT
*
17200468 GTTTAGGGGTTGGGGGTTAAGG
1 GTTTAGGGGTTGAGGGTTAAGG
* *
17200490 G-TTAGGGGTTTAGGGTTAGGG
1 GTTTAGGGGTTGAGGGTTAAGG
17200511 GTTTAGGG
1 GTTTAGGG
17200519 TTATGCGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.14, C:0.00, G:0.53, T:0.33
Consensus pattern (22 bp):
GTTTAGGGGTTGAGGGTTAAGG
Found at i:17200497 original size:14 final size:14
Alignment explanation
Indices: 17200468--17200521 Score: 81
Period size: 14 Copynumber: 3.8 Consensus size: 14
17200458 ATTAAATAAT
*
17200468 GTTTAGGGGTTGGGG
1 GTTTA-GGGTTAGGG
*
17200483 GTTAAGGGTTAGGG
1 GTTTAGGGTTAGGG
17200497 GTTTAGGGTTAGGG
1 GTTTAGGGTTAGGG
17200511 GTTTAGGGTTA
1 GTTTAGGGTTA
17200522 TGCGTTAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
14 32 0.89
15 4 0.11
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (14 bp):
GTTTAGGGTTAGGG
Found at i:17205000 original size:18 final size:18
Alignment explanation
Indices: 17204977--17205036 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
17204967 ATGTAATTCT
17204977 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
17204995 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
17205012 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
17205030 AATGTAA
1 AATGTAA
17205037 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:17205221 original size:16 final size:16
Alignment explanation
Indices: 17205200--17205230 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17205190 TGATAGAAAT
17205200 AAATATTATTTAATTA
1 AAATATTATTTAATTA
*
17205216 AAATATTTTTTAATT
1 AAATATTATTTAATT
17205231 CATGTTTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AAATATTATTTAATTA
Found at i:17205308 original size:43 final size:43
Alignment explanation
Indices: 17205245--17205442 Score: 299
Period size: 43 Copynumber: 4.6 Consensus size: 43
17205235 TTTTTGGCGA
* * *
17205245 CGTTTGTGGGAAAAGTGCCGCTAAAGGTATCGGTCTTTAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGG
*
17205288 CGTTTATGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGG
* * **
17205331 CGTTTGTGGGAAATA-CGCTGCTAAAGTTCTTGGTCTTTAGTAG
1 CGTTTGTGGGAAA-AGCGCCGCTAAAGGTCTTGGTCTTTAGCGG
*
17205374 CGTTTGTGGGATAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGG
17205417 CGTTTGTGGGAAAAGCGCCGCTAAAG
1 CGTTTGTGGGAAAAGCGCCGCTAAAG
17205443 TTAGCGACAC
Statistics
Matches: 138, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
42 1 0.01
43 136 0.99
44 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (43 bp):
CGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGG
Found at i:17205942 original size:139 final size:140
Alignment explanation
Indices: 17205661--17205953 Score: 435
Period size: 139 Copynumber: 2.1 Consensus size: 140
17205651 GTCCTAAGAT
* * * * *
17205661 GACACTTTTGGTCCGACACTTTTCTAAGTGTTGGGATAGACTTGCCGACGTACGCTTTGGTCAAA
1 GACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAAA
*
17205726 TCTTTTTATAAGGGTTGGGATATGCATACCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCA
66 TCTTTGTATAAGGGTTGGGATATGCATACCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCA
*
17205791 ACACTATGCC
131 ACACTATACC
* *
17205801 GACACTTTTGGGCCAACACTTTCCT-CGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAAC
1 GACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAAA
* ** * *
17205865 TCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAATGCTTAAATAAGAGTCGGCTTTGTTCA
66 TCTTTGTATAAGGGTTGGGATATGCATACCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCA
**
17205930 ATGCTATACC
131 ACACTATACC
17205940 GACACTTTTGGGCC
1 GACACTTTTGGGCC
17205954 GACATTAAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
139 115 0.84
140 22 0.16
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (140 bp):
GACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAAA
TCTTTGTATAAGGGTTGGGATATGCATACCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCA
ACACTATACC
Found at i:17209270 original size:6 final size:6
Alignment explanation
Indices: 17209259--17209290 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
17209249 TAAAATTTAG
17209259 TATTTT TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TATTTT TA
17209291 AAAATTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:17212744 original size:21 final size:21
Alignment explanation
Indices: 17212720--17212874 Score: 98
Period size: 21 Copynumber: 7.3 Consensus size: 21
17212710 GTGAGTTTTC
17212720 GTTCAGCTC-TATTGAGCTTCT
1 GTTCAGCTCTTA-TGAGCTTCT
* * * *
17212741 GTTCAACTATTATGAGTTTCC
1 GTTCAGCTCTTATGAGCTTCT
*
17212762 ATTCAGCTCTTATGAGCTTCT
1 GTTCAGCTCTTATGAGCTTCT
* * *
17212783 GTTTCAACTCATATGAG-TTTT
1 G-TTCAGCTCTTATGAGCTTCT
* * *
17212804 CGTTTAGCTCTTACGAGCTCCT
1 -GTTCAGCTCTTATGAGCTTCT
* * * * *
17212826 GTTCAACCCTTCTGGGTTTCT
1 GTTCAGCTCTTATGAGCTTCT
* * *
17212847 GTTTAGCTCTCACGAGCTTCT
1 GTTCAGCTCTTATGAGCTTCT
17212868 GTTCAGC
1 GTTCAGC
17212875 CTTCGGGCTT
Statistics
Matches: 94, Mismatches: 36, Indels: 8
0.68 0.26 0.06
Matches are distributed among these distances:
21 76 0.81
22 18 0.19
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (21 bp):
GTTCAGCTCTTATGAGCTTCT
Found at i:17212757 original size:42 final size:42
Alignment explanation
Indices: 17212677--17212872 Score: 164
Period size: 42 Copynumber: 4.6 Consensus size: 42
17212667 GTTTACTTTC
* * * * ** *
17212677 CGTTTAGCTCTCACGAGCTTCTATTTGACTCATGTGAGTTTT
1 CGTTCAGCTCTTATGAGCTTCTGTTCAACTCATATGAGTTTT
*
17212719 CGTTCAGCTC-TATTGAGCTTCTGTTCAACT-ATTATGAGTTTC
1 CGTTCAGCTCTTA-TGAGCTTCTGTTCAACTCA-TATGAGTTTT
*
17212761 CATTCAGCTCTTATGAGCTTCTGTTTCAACTCATATGAGTTTT
1 CGTTCAGCTCTTATGAGCTTCTG-TTCAACTCATATGAGTTTT
* * * * * * *
17212804 CGTTTAGCTCTTACGAGCTCCTGTTCAACCCTTCTG-GGTTT
1 CGTTCAGCTCTTATGAGCTTCTGTTCAACTCATATGAGTTTT
* * *
17212845 CTGTTTAGCTCTCACGAGCTTCTGTTCA
1 C-GTTCAGCTCTTATGAGCTTCTGTTCA
17212873 GCCTTCGGGC
Statistics
Matches: 128, Mismatches: 20, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
41 7 0.05
42 83 0.65
43 37 0.29
44 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.42
Consensus pattern (42 bp):
CGTTCAGCTCTTATGAGCTTCTGTTCAACTCATATGAGTTTT
Found at i:17212868 original size:85 final size:84
Alignment explanation
Indices: 17212673--17212870 Score: 236
Period size: 85 Copynumber: 2.3 Consensus size: 84
17212663 TCGTGTTTAC
* * * *
17212673 TTTCCGTTTAGCTCTCACGAGCTTCTATTTGACTCATGTGAGTTTTCGTTCAGCTCTATTGAGCT
1 TTTCCGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGCTCTATCGAGCT
* *
17212738 TCTGTTCAACTATTATGAG
66 CCTGTTCAACCATTATGAG
* * * * *
17212757 TTTCCATTCAGCTCTTATGAGCTTCTGTTTCAACTCATATGAGTTTTCGTTTAGCTCT-TACGAG
1 TTTCCGTTTAGCTCTCACGAGCTTCTGTTT-AACTCATATGAGTTTTCGTTCAGCTCTAT-CGAG
* * *
17212821 CTCCTGTTCAACCCTTCTGGG
64 CTCCTGTTCAACCATTATGAG
*
17212842 TTTCTGTTTAGCTCTCACGAGCTTCTGTT
1 TTTCCGTTTAGCTCTCACGAGCTTCTGTT
17212871 CAGCCTTCGG
Statistics
Matches: 93, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
84 26 0.28
85 67 0.72
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (84 bp):
TTTCCGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGCTCTATCGAGCT
CCTGTTCAACCATTATGAG
Found at i:17220014 original size:43 final size:42
Alignment explanation
Indices: 17219949--17220518 Score: 753
Period size: 43 Copynumber: 13.3 Consensus size: 42
17219939 NNNNNNNAAG
17219949 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATA
1 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAA-A
* * ** *
17219992 CGCTGCTAAAGTTCTTGGTCTTTAGTAGCGTTTGTGGGATAAG
1 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA-AAA
17220035 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATA
1 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAA-A
* * ** *
17220078 CGCTGCTAAAGTTCTTGGTCTTTAGTAGCGTTTGTGGGATAAG
1 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA-AAA
17220121 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATA
1 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAA-A
* * ** *
17220164 CGCTGCTAAAGTTCTTGGTCTTTAGTAGCGTTTGTGGGATAAG
1 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA-AAA
17220207 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATA
1 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAA-A
* * ** *
17220250 CGCTGCTAAAGTTCTTGGTCTTTAGTAGCGTTTGTGGGATAAG
1 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA-AAA
17220293 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATA
1 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAA-A
* * ** *
17220336 CGCTGCTAAAGTTCTTGGTCTTTAGTAGCGTTTGTGGGATAAG
1 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA-AAA
17220379 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATA
1 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAA-A
* * ** *
17220422 CGCTGCTAAAGTTCTTGGTCTTTAGTAGCGTTTGTGGGATAAG
1 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA-AAA
17220465 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAA
1 CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAA
17220507 GCGCCGCTAAAG
1 -CGCCGCTAAAG
17220519 TTAGCGACAC
Statistics
Matches: 455, Mismatches: 60, Indels: 24
0.84 0.11 0.04
Matches are distributed among these distances:
42 12 0.03
43 431 0.95
44 12 0.03
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAA
Found at i:17220091 original size:86 final size:86
Alignment explanation
Indices: 17219946--17220520 Score: 1125
Period size: 86 Copynumber: 6.7 Consensus size: 86
17219936 NNNNNNNNNN
17219946 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATACGCTGCTAAAGTTCTTGGT
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATACGCTGCTAAAGTTCTTGGT
17220011 CTTTAGTAGCGTTTGTGGGAT
66 CTTTAGTAGCGTTTGTGGGAT
17220032 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATACGCTGCTAAAGTTCTTGGT
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATACGCTGCTAAAGTTCTTGGT
17220097 CTTTAGTAGCGTTTGTGGGAT
66 CTTTAGTAGCGTTTGTGGGAT
17220118 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATACGCTGCTAAAGTTCTTGGT
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATACGCTGCTAAAGTTCTTGGT
17220183 CTTTAGTAGCGTTTGTGGGAT
66 CTTTAGTAGCGTTTGTGGGAT
17220204 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATACGCTGCTAAAGTTCTTGGT
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATACGCTGCTAAAGTTCTTGGT
17220269 CTTTAGTAGCGTTTGTGGGAT
66 CTTTAGTAGCGTTTGTGGGAT
17220290 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATACGCTGCTAAAGTTCTTGGT
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATACGCTGCTAAAGTTCTTGGT
17220355 CTTTAGTAGCGTTTGTGGGAT
66 CTTTAGTAGCGTTTGTGGGAT
17220376 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATACGCTGCTAAAGTTCTTGGT
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATACGCTGCTAAAGTTCTTGGT
17220441 CTTTAGTAGCGTTTGTGGGAT
66 CTTTAGTAGCGTTTGTGGGAT
*
17220462 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAA-AGCGCCGCTAAAGTT
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATA-CGCTGCTAAAGTT
17220521 AGCGACACAT
Statistics
Matches: 487, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
85 1 0.00
86 486 1.00
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (86 bp):
AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATACGCTGCTAAAGTTCTTGGT
CTTTAGTAGCGTTTGTGGGAT
Found at i:17220952 original size:139 final size:140
Alignment explanation
Indices: 17220737--17221029 Score: 435
Period size: 139 Copynumber: 2.1 Consensus size: 140
17220727 GTCCTAAGAT
* * * * *
17220737 GACACTTTTGGTCCGACACTTTTCTAAGTGTTGGGATAGACTTGCCGACGTACGCTTTGGTCAAA
1 GACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAAA
*
17220802 TCTTTTTATAAGGGTTGGGATATGCATACCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCA
66 TCTTTGTATAAGGGTTGGGATATGCATACCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCA
*
17220867 ACACTATGCC
131 ACACTATACC
* *
17220877 GACACTTTTGGGCCAACACTTTCCT-CGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAAC
1 GACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAAA
* ** * *
17220941 TCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAATGCTTAAATAAGAGTCGGCTTTGTTCA
66 TCTTTGTATAAGGGTTGGGATATGCATACCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCA
**
17221006 ATGCTATACC
131 ACACTATACC
17221016 GACACTTTTGGGCC
1 GACACTTTTGGGCC
17221030 GACATTAAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
139 115 0.84
140 22 0.16
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (140 bp):
GACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAAA
TCTTTGTATAAGGGTTGGGATATGCATACCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCA
ACACTATACC
Found at i:17224346 original size:6 final size:6
Alignment explanation
Indices: 17224335--17224366 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
17224325 TAAAATTTAG
17224335 TATTTT TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TATTTT TA
17224367 AAAATTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:17227917 original size:26 final size:27
Alignment explanation
Indices: 17227868--17227925 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
17227858 CCCCATATAT
17227868 GGCT-TTTCGTGAGCTTCCTAATTAAA
1 GGCTCTTTCGTGAGCTTCCTAATTAAA
* * *
17227894 GGCTCTTT-GTGAGCTTCTTGATTAAT
1 GGCTCTTTCGTGAGCTTCCTAATTAAA
17227920 GGCTCT
1 GGCTCT
17227926 CTAGAGCTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 25 0.89
27 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.41
Consensus pattern (27 bp):
GGCTCTTTCGTGAGCTTCCTAATTAAA
Found at i:17227946 original size:25 final size:25
Alignment explanation
Indices: 17227918--17227993 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
17227908 TTCTTGATTA
17227918 ATGGCTCTCTAGAGCTTCCCGATAT
1 ATGGCTCTCTAGAGCTTCCCGATAT
* * * *
17227943 ATGGCTATC-CGAAGCTT-CCTAAAT
1 ATGGCTCTCTAG-AGCTTCCCGATAT
*
17227967 ATGGCTCT-TATGAGCTTCCCGTTAT
1 ATGGCTCTCTA-GAGCTTCCCGATAT
17227992 AT
1 AT
17227994 AGCCCGGATA
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
24 18 0.47
25 20 0.53
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (25 bp):
ATGGCTCTCTAGAGCTTCCCGATAT
Found at i:17236936 original size:24 final size:24
Alignment explanation
Indices: 17236904--17236952 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
17236894 TTCAGAGCTA
17236904 GAATCTAAGGTTATGAAATAATGG
1 GAATCTAAGGTTATGAAATAATGG
17236928 GAATCTAAGGTTATGAAATAATGG
1 GAATCTAAGGTTATGAAATAATGG
17236952 G
1 G
17236953 TTATTTCCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.27, T:0.29
Consensus pattern (24 bp):
GAATCTAAGGTTATGAAATAATGG
Found at i:17245999 original size:18 final size:17
Alignment explanation
Indices: 17245976--17246026 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 17
17245966 CCCGAGCATT
17245976 AGTTTTCAAAATTGTTAA
1 AGTTTTCAAAA-TGTTAA
17245994 AGTTTTCAAAACTGTTAA
1 AGTTTTCAAAA-TGTTAA
17246012 AGTTTT-AAAATGTTA
1 AGTTTTCAAAATGTTA
17246027 CCATTGATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 5 0.16
17 4 0.12
18 23 0.72
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (17 bp):
AGTTTTCAAAATGTTAA
Found at i:17246619 original size:19 final size:18
Alignment explanation
Indices: 17246591--17246626 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17246581 TCAAATGGAC
17246591 TAAATCGTAAAATATGAAT
1 TAAATCGT-AAATATGAAT
*
17246610 TAAATGGTAAATATGAA
1 TAAATCGTAAATATGAA
17246627 CAAATACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.53, C:0.03, G:0.14, T:0.31
Consensus pattern (18 bp):
TAAATCGTAAATATGAAT
Found at i:17248234 original size:20 final size:20
Alignment explanation
Indices: 17248174--17248242 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
17248164 TCGTAAAATG
* **
17248174 GTATCGATACTAGAA-TTTG
1 GTATCGATACTATAAGTTAA
* *
17248193 GTATCGATACTTGTAAG-GAA
1 GTATCGATAC-TATAAGTTAA
17248213 GTATCGATACTATAAGTTAA
1 GTATCGATACTATAAGTTAA
*
17248233 GTATTGATAC
1 GTATCGATAC
17248243 CTATTGATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 15 0.38
20 24 0.62
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (20 bp):
GTATCGATACTATAAGTTAA
Found at i:17250490 original size:17 final size:18
Alignment explanation
Indices: 17250468--17250501 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17250458 TCTAAGCTTT
*
17250468 ATATCTTAAA-AAAAATC
1 ATATCTAAAATAAAAATC
17250485 ATATCTAAAATAAAAAT
1 ATATCTAAAATAAAAAT
17250502 TTTATTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (18 bp):
ATATCTAAAATAAAAATC
Found at i:17257724 original size:40 final size:40
Alignment explanation
Indices: 17257662--17257740 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
17257652 GAACCACTAG
17257662 AATAATATTGGACACTCGAGAATCTCACACACTATGTGCT
1 AATAATATTGGACACTCGAGAATCTCACACACTATGTGCT
* *
17257702 AATAATATTGGATACTCTAGAATCTCACACACTATGTGC
1 AATAATATTGGACACTCGAGAATCTCACACACTATGTGC
17257741 ACGTGGTCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (40 bp):
AATAATATTGGACACTCGAGAATCTCACACACTATGTGCT
Found at i:17266605 original size:1 final size:1
Alignment explanation
Indices: 17266599--17266629 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
17266589 CCTTGTTCAG
*
17266599 CCCCCCCCCCCTCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
17266630 AAAAAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.97, G:0.00, T:0.03
Consensus pattern (1 bp):
C
Found at i:17271675 original size:15 final size:17
Alignment explanation
Indices: 17271663--17271698 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
17271653 ATATATAGAA
17271663 AATATAATAATAGTAAT
1 AATATAATAATAGTAAT
17271680 AATA-AATAATA-TAAT
1 AATATAATAATAGTAAT
17271695 AATA
1 AATA
17271699 ATAGAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.42
16 7 0.37
17 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AATATAATAATAGTAAT
Found at i:17271683 original size:12 final size:11
Alignment explanation
Indices: 17271663--17271701 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
17271653 ATATATAGAA
17271663 AATATAATAAT
1 AATATAATAAT
*
17271674 AGTAATAATAAAT
1 AAT-ATAAT-AAT
17271687 AATATAATAAT
1 AATATAATAAT
17271698 AATA
1 AATA
17271702 GAAAATCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
AATATAATAAT
Found at i:17271707 original size:21 final size:21
Alignment explanation
Indices: 17271657--17271707 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
17271647 ATATATATAT
*
17271657 ATAGAAAATATAATAATAGTA
1 ATAGAAAATATAATAATAATA
17271678 ATA-ATAAATA-ATATAATAATA
1 ATAGA-AAATATA-ATAATAATA
17271699 ATAGAAAAT
1 ATAGAAAAT
17271708 CGTGGTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.08
21 23 0.88
22 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
ATAGAAAATATAATAATAATA
Found at i:17273452 original size:263 final size:263
Alignment explanation
Indices: 17273140--17273636 Score: 852
Period size: 263 Copynumber: 1.9 Consensus size: 263
17273130 AACTAGCTTT
* * * * *
17273140 AATGTACTCCACTGTAACCACATGAAGGTAAAATCCACTATCTTTGATCTGCTCCACCACTGCTT
1 AATGTACTCCACTATAACCACAGGAAGGTAAAATCCACCATCTTTGATCTACTCCACCACTACTT
*
17273205 AGAGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCT
66 AGAGAGACAAGATCTGAAATCTTCAATCTATACCACTGCTGCCCAGGGAGATAGAATTACTGGCT
*
17273270 TCAATGTACTCCACTG-AACCACAGGGAGGTAAAATTTACCATCTTTGATCTGCTCCACTACTGC
131 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT-CTGC
*
17273334 TTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGATGCACAGTGAAGTAGAATTACTGA
195 TTAGGGAGACAAGATCTGAAATCTTCAATCTATTCAACTGATGCACAGTGAAGTAGAATTACTGA
17273399 CTTC
260 CTTC
* *
17273403 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTTGATCTACTCCACTACTACTT
1 AATGTACTCCACTATAACCACAGGAAGGTAAAATCCACCATCTTTGATCTACTCCACCACTACTT
* *
17273468 AGGGAGACAAGATCTGAAATCTTCAATCTATACCACTGCTGCCCAGGGAGATAGAATTATTGGCT
66 AGAGAGACAAGATCTGAAATCTTCAATCTATACCACTGCTGCCCAGGGAGATAGAATTACTGGCT
*
17273533 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTTGATCTGCTCCACTCTGCT
131 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTCTGCT
*
17273598 TAGGTAGACAAGATCTGAAATCTTCAATCTATTCAACTG
196 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCAACTG
17273637 CAATGTTGGG
Statistics
Matches: 219, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
263 178 0.81
264 41 0.19
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (263 bp):
AATGTACTCCACTATAACCACAGGAAGGTAAAATCCACCATCTTTGATCTACTCCACCACTACTT
AGAGAGACAAGATCTGAAATCTTCAATCTATACCACTGCTGCCCAGGGAGATAGAATTACTGGCT
TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTCTGCT
TAGGGAGACAAGATCTGAAATCTTCAATCTATTCAACTGATGCACAGTGAAGTAGAATTACTGAC
TTC
Found at i:17273484 original size:132 final size:132
Alignment explanation
Indices: 17273135--17273637 Score: 787
Period size: 132 Copynumber: 3.8 Consensus size: 132
17273125 AGGGTAACTA
* * * * *
17273135 GCTTTAATGTACTCCACTGTAACCACATGAAGGTAAAATCCACTATCTTTGATCTGCTCCACCAC
1 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTAC
*
17273200 TGCTTAGAGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTAC
66 TGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTAC
17273265 TG
131 TG
**
17273267 GCTTCAATGTACTCCACTG-AACCACAGGGAGGTAAAATTTACCATCTTTGATCTGCTCCACTAC
1 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTAC
* * *
17273331 TGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGATGCACAGTGA-AGTAGAATTA
66 TGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TAGAATTA
17273395 CTG
130 CTG
* * *
17273398 ACTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTTGATCTACTCCACTAC
1 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTAC
* * *
17273463 TACTTAGGGAGACAAGATCTGAAATCTTCAATCTATACCACTGCTGCCCAGGGAGATAGAATTAT
66 TGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTAC
17273528 TG
131 TG
* *
17273530 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTTGATCTGCTCCACT-C
1 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTAC
* *
17273594 TGCTTAGGTAGACAAGATCTGAAATCTTCAATCTATTCAACTGC
66 TGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGC
17273638 AATGTTGGGG
Statistics
Matches: 337, Mismatches: 31, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
130 1 0.00
131 158 0.47
132 177 0.53
133 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (132 bp):
GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTAC
TGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTAC
TG
Found at i:17273848 original size:50 final size:50
Alignment explanation
Indices: 17273696--17273849 Score: 127
Period size: 50 Copynumber: 3.1 Consensus size: 50
17273686 GCACCGTCAG
17273696 GGAAGTAAGA-TCTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCTGAA
1 GGAAGTAAGATTC-GCCGTTGTGGCTTCAATCTTTTTAATTGCAAT-TCT-AA
* * * * * * * * ** ** *
17273748 -AAACT-AGATCCGCTGTCGTAGTTTCAATCTATTCCATTGCGCTGCTAA
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATTCTAA
17273796 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATC-AA
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAAT-TCTAA
17273846 GGAA
1 GGAA
17273850 ACCAANNNNN
Statistics
Matches: 72, Mismatches: 26, Indels: 10
0.67 0.24 0.09
Matches are distributed among these distances:
48 2 0.03
49 5 0.07
50 60 0.83
51 5 0.07
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (50 bp):
GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATTCTAA
Found at i:17275581 original size:7 final size:7
Alignment explanation
Indices: 17275562--17275602 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
17275552 TTAGCCTCTC
17275562 CATTTTT
1 CATTTTT
17275569 -ACTTTTT
1 CA-TTTTT
17275576 CATTTTT
1 CATTTTT
17275583 CA-TTTT
1 CATTTTT
17275589 CATTTTT
1 CATTTTT
17275596 CATTTTT
1 CATTTTT
17275603 TCACATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 7 0.23
7 23 0.74
8 1 0.03
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:17275588 original size:13 final size:13
Alignment explanation
Indices: 17275562--17275601 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
17275552 TTAGCCTCTC
*
17275562 CATTTTTACTTTTT
1 CATTTTT-CATTTT
17275576 CATTTTTCATTTT
1 CATTTTTCATTTT
17275589 CATTTTTCATTTT
1 CATTTTTCATTTT
17275602 TTCACATCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 18 0.72
14 7 0.28
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:17275605 original size:21 final size:21
Alignment explanation
Indices: 17275562--17275602 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
17275552 TTAGCCTCTC
*
17275562 CATTTTTACTTTTTCATTTTT
1 CATTTTCACTTTTTCATTTTT
17275583 CATTTTCA-TTTTTCATTTTT
1 CATTTTCACTTTTTCATTTTT
17275603 TCACATCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (21 bp):
CATTTTCACTTTTTCATTTTT
Found at i:17276577 original size:19 final size:19
Alignment explanation
Indices: 17276553--17276592 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
17276543 GGTTTGGCAG
17276553 AAAAAATC-CAAAAGAATGA
1 AAAAAATCGCAAAA-AATGA
*
17276572 AAAAAATCGTAAAAAATGA
1 AAAAAATCGCAAAAAATGA
17276591 AA
1 AA
17276593 GAACATTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.12
Consensus pattern (19 bp):
AAAAAATCGCAAAAAATGA
Found at i:17278521 original size:13 final size:13
Alignment explanation
Indices: 17278503--17278528 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17278493 TGTTCAATTT
17278503 TTTACTAGAAAAC
1 TTTACTAGAAAAC
17278516 TTTACTAGAAAAC
1 TTTACTAGAAAAC
17278529 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:17280808 original size:3 final size:3
Alignment explanation
Indices: 17280800--17280838 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
17280790 ATAGAAAAAT
*
17280800 ATA ATA ATA GTA ATA ATAA ATA AT- ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
17280839 GAAAATTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17280844 original size:24 final size:24
Alignment explanation
Indices: 17280790--17280844 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
17280780 GTATATATAT
*
17280790 ATAG-AAA-AATATAATAATAGTA
1 ATAGAAAATAATATAATAATAATA
17280812 ATA-ATAAATAATATAATAATAATA
1 ATAGA-AAATAATATAATAATAATA
17280836 ATAGAAAAT
1 ATAGAAAAT
17280845 TGTGGTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 3 0.11
23 3 0.11
24 21 0.75
25 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (24 bp):
ATAGAAAATAATATAATAATAATA
Found at i:17281586 original size:8 final size:8
Alignment explanation
Indices: 17281559--17281657 Score: 51
Period size: 9 Copynumber: 11.6 Consensus size: 8
17281549 ATATATCAGA
17281559 AAAATTATT
1 AAAA-TATT
17281568 AAAAT-TT
1 AAAATATT
17281575 AAAATATT
1 AAAATATT
17281583 AAAAATGATAT
1 -AAAAT-AT-T
* *
17281594 AAACTTATA
1 AAA-ATATT
*
17281603 AAGAATAAT
1 AA-AATATT
17281612 AAAATATT
1 AAAATATT
17281620 ATAAATATT
1 A-AAATATT
* *
17281629 ATAATAAAT
1 AAAAT-ATT
17281638 AAAAT-TAT
1 AAAATAT-T
17281646 AAAA-ATT
1 AAAATATT
17281653 AAAAT
1 AAAAT
17281658 CTCTACAATC
Statistics
Matches: 69, Mismatches: 10, Indels: 23
0.68 0.10 0.23
Matches are distributed among these distances:
7 12 0.17
8 18 0.26
9 29 0.42
10 8 0.12
11 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (8 bp):
AAAATATT
Found at i:17285191 original size:18 final size:18
Alignment explanation
Indices: 17285165--17285200 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17285155 CCGCGAACGC
*
17285165 CGTAACAACTACTCACAT
1 CGTAACAACTACCCACAT
*
17285183 CGTAGCAACTACCCACAT
1 CGTAACAACTACCCACAT
17285201 TCAGCACTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.36, G:0.08, T:0.19
Consensus pattern (18 bp):
CGTAACAACTACCCACAT
Found at i:17289753 original size:11 final size:10
Alignment explanation
Indices: 17289738--17289877 Score: 76
Period size: 10 Copynumber: 14.0 Consensus size: 10
17289728 ATAATTTATT
17289738 ATTTTTATAA
1 ATTTTTATAA
*
17289748 ATTTTTATGA
1 ATTTTTATAA
*
17289758 ATGTTTATAA
1 ATTTTTATAA
17289768 ATCTTTTATAA
1 AT-TTTTATAA
*
17289779 AATTTTA-AA
1 ATTTTTATAA
17289788 TATATTTTA-ATA
1 -AT-TTTTATA-A
*
17289800 A-TTTCATAA
1 ATTTTTATAA
*
17289809 AGTTTTAATAA
1 A-TTTTTATAA
* * *
17289820 GTTATTA-GA
1 ATTTTTATAA
*
17289829 ATTTTTTTATA
1 ATTTTTATA-A
*
17289840 ATATTTATAA
1 ATTTTTATAA
* *
17289850 GTTTTTAT-G
1 ATTTTTATAA
17289859 ATTTTT-TAA
1 ATTTTTATAA
17289868 ATTTTTATAA
1 ATTTTTATAA
17289878 GATATATCAA
Statistics
Matches: 96, Mismatches: 23, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
8 1 0.01
9 24 0.25
10 40 0.42
11 30 0.31
12 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.56
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:17289754 original size:19 final size:19
Alignment explanation
Indices: 17289732--17289877 Score: 91
Period size: 21 Copynumber: 7.4 Consensus size: 19
17289722 TTTTTTATAA
*
17289732 TTTATTATTTTTATAAATT
1 TTTATAATTTTTATAAATT
*
17289751 TTTATGAATGTTTATAAATCT
1 TTTAT-AATTTTTATAAAT-T
*
17289772 TTTATAAAATTTTA-AATATAT
1 TTTAT-AATTTTTATAA-AT-T
*
17289793 TTTAATAA-TTTCATAAAGTT
1 TTT-ATAATTTTTATAAA-TT
* * * *
17289813 TTAATAAGTTATTAGAATTTT
1 TTTATAA-TTTTTATAA-ATT
* *
17289834 TTTATAATATTTATAAGTT
1 TTTATAATTTTTATAAATT
*
17289853 TTTATGATTTTT-TAAATT
1 TTTATAATTTTTATAAATT
17289871 TTTATAA
1 TTTATAA
17289878 GATATATCAA
Statistics
Matches: 97, Mismatches: 21, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
18 11 0.11
19 21 0.22
20 27 0.28
21 36 0.37
22 2 0.02
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTATAATTTTTATAAATT
Found at i:17289850 original size:30 final size:28
Alignment explanation
Indices: 17289816--17289878 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
17289806 TAAAGTTTTA
17289816 ATAAGTTATTA-GAATTTTTTTATAATATTT
1 ATAAGTTATTATG-A-TTTTTTA-AATATTT
* *
17289846 ATAAGTTTTTATGATTTTTTAAATTTTT
1 ATAAGTTATTATGATTTTTTAAATATTT
17289874 ATAAG
1 ATAAG
17289879 ATATATCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 11 0.37
29 7 0.23
30 11 0.37
31 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (28 bp):
ATAAGTTATTATGATTTTTTAAATATTT
Found at i:17289863 original size:9 final size:9
Alignment explanation
Indices: 17289723--17289948 Score: 63
Period size: 10 Copynumber: 23.4 Consensus size: 9
17289713 AAATAACATT
17289723 TTTTTATAA
1 TTTTTATAA
*
17289732 --TTTATTA
1 TTTTTATAA
17289739 TTTTTATAAA
1 TTTTTAT-AA
17289749 TTTTTATGAA
1 TTTTTAT-AA
*
17289759 TGTTTATAAA
1 TTTTTAT-AA
17289769 TCTTTTATAAAA
1 T-TTTTAT--AA
*
17289781 TTTTAAATATA
1 TTTT-TATA-A
*
17289792 TTTTAATAA
1 TTTTTATAA
*
17289801 -TTTCATAAA
1 TTTTTAT-AA
*
17289810 GTTTTAATAA
1 -TTTTTATAA
* *
17289820 GTTATTAGAA
1 -TTTTTATAA
17289830 TTTTTTTATAA
1 --TTTTTATAA
*
17289841 TATTTATAA
1 TTTTTATAA
*
17289850 GTTTTTATGA
1 -TTTTTATAA
17289860 TTTTT-TAAA
1 TTTTTAT-AA
17289869 TTTTTATAA
1 TTTTTATAA
** *
17289878 GATATATCAA
1 TTTTTAT-AA
17289888 -TTTTAGT-A
1 TTTTTA-TAA
17289896 TTTTTA-AA
1 TTTTTATAA
17289904 TATTTT-TAA
1 T-TTTTATAA
17289913 TTTTTAATAA
1 TTTTT-ATAA
*
17289923 CTTTTTTTTAGA
1 --TTTTTATA-A
17289935 TTGTTTATAA
1 TT-TTTATAA
17289945 TTTT
1 TTTT
17289949 ACTATCAAAC
Statistics
Matches: 165, Mismatches: 26, Indels: 52
0.68 0.11 0.21
Matches are distributed among these distances:
7 6 0.04
8 13 0.08
9 50 0.30
10 52 0.32
11 32 0.19
12 12 0.07
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:17289872 original size:18 final size:19
Alignment explanation
Indices: 17289741--17289891 Score: 85
Period size: 19 Copynumber: 7.6 Consensus size: 19
17289731 ATTTATTATT
*
17289741 TTTATAAATTTTTATGAATG
1 TTTATAAATTTTTAT-AATA
*
17289761 TTTATAAATCTTTTATAAAA
1 TTTATAAAT-TTTTATAATA
17289781 TTT-TAAATATATTT-TAATAA
1 TTTATAAAT-T-TTTATAAT-A
*
17289801 TTTCATAAAGTTTTAATAAGT-
1 TTT-ATAAA-TTTTTATAA-TA
* *
17289822 TATTAGAATTTTTTTATAATA
1 T-TTATAA-ATTTTTATAATA
* *
17289843 TTTATAAGTTTTTATGAT-
1 TTTATAAATTTTTATAATA
* *
17289861 TTTTTAAATTTTTATAAGA
1 TTTATAAATTTTTATAATA
* *
17289880 TATATCAATTTT
1 TTTATAAATTTT
17289892 AGTATTTTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 25
0.70 0.12 0.17
Matches are distributed among these distances:
18 14 0.14
19 27 0.27
20 27 0.27
21 21 0.21
22 10 0.10
23 2 0.02
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTATAAATTTTTATAATA
Found at i:17290131 original size:16 final size:16
Alignment explanation
Indices: 17290094--17290152 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
17290084 CTTGGTTCGC
*
17290094 TGTAATGAAATAGAGC
1 TGTAATGAAATAGAGT
* *
17290110 TATAATGGAATAGAGT
1 TGTAATGAAATAGAGT
17290126 TGTAAT-ATAATAGAGT
1 TGTAATGA-AATAGAGT
17290142 TGTAAT-AAATA
1 TGTAATGAAATA
17290153 ATTCAACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
15 4 0.11
16 33 0.89
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.32
Consensus pattern (16 bp):
TGTAATGAAATAGAGT
Found at i:17290231 original size:16 final size:16
Alignment explanation
Indices: 17290211--17290263 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
17290201 TTGGTTCCCT
*
17290211 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
*
17290227 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
17290243 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
17290259 GTAAT
1 GTAAT
17290264 AGGTAATTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.04, G:0.34, T:0.25
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:17290309 original size:116 final size:116
Alignment explanation
Indices: 17290085--17290301 Score: 274
Period size: 116 Copynumber: 1.9 Consensus size: 116
17290075 TACACTACGC
* * * **
17290085 TTGGTTCGCTGTAATGAAATAGAGCTATAATGGAATAGAGTTGTAATATAATAGAGTTGTAATAA
1 TTGGTTCCCTGTAATGAAATAGAGCTATAATGGAATAGAGTCGTAATAGAATAGAGGCGTAATAA
17290150 ATAATTCAACTATTTGGTTGAATGGAATGAAATAGAACTGTAATAGCACGT
66 ATAATTCAACTATTTGGTTGAATGGAATGAAATAGAACTGTAATAGCACGT
* * * *
17290201 TTGGTTCCCTGTAATGGAATAGAGGTGTAATGGAATAGA-TGCGTAATGGAATAGAGGCGTAATA
1 TTGGTTCCCTGTAATGAAATAGAGCTATAATGGAATAGAGT-CGTAATAGAATAGAGGCGTAATA
** *** * *
17290265 GGTAATTCTTTTGTTTGGTTGAATGGAATGGAATAGA
65 AATAATTCAACTATTTGGTTGAATGGAATGAAATAGA
17290302 GGCGTAATGG
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
115 1 0.01
116 83 0.99
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (116 bp):
TTGGTTCCCTGTAATGAAATAGAGCTATAATGGAATAGAGTCGTAATAGAATAGAGGCGTAATAA
ATAATTCAACTATTTGGTTGAATGGAATGAAATAGAACTGTAATAGCACGT
Found at i:17290332 original size:44 final size:46
Alignment explanation
Indices: 17290245--17290337 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 46
17290235 ATAGATGCGT
*
17290245 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
17290291 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
17290335 AAT
1 AAT
17290338 AGAGGTATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 24 0.52
45 3 0.07
46 19 0.41
ACGTcount: A:0.28, C:0.04, G:0.31, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
Found at i:17290333 original size:39 final size:44
Alignment explanation
Indices: 17290245--17290342 Score: 134
Period size: 46 Copynumber: 2.3 Consensus size: 44
17290235 ATAGATGCGT
*
17290245 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--ATGG
17290291 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
17290330 AATGGAATAGAGG
1 AATGGAATAGAGG
17290343 TATAATACCA
Statistics
Matches: 51, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
39 14 0.27
40 1 0.02
43 1 0.02
44 13 0.25
45 3 0.06
46 19 0.37
ACGTcount: A:0.29, C:0.04, G:0.33, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
Found at i:17293495 original size:12 final size:12
Alignment explanation
Indices: 17293478--17293503 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17293468 ATTAAGTGAC
17293478 GGCAGAACCGAT
1 GGCAGAACCGAT
17293490 GGCAGAACCGAT
1 GGCAGAACCGAT
17293502 GG
1 GG
17293504 AAGGGAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.23, G:0.38, T:0.08
Consensus pattern (12 bp):
GGCAGAACCGAT
Found at i:17295898 original size:1 final size:1
Alignment explanation
Indices: 17295892--17295920 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
17295882 TAGCAAAAGC
17295892 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17295921 CCCCGACTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:17296125 original size:220 final size:220
Alignment explanation
Indices: 17295897--17296338 Score: 884
Period size: 220 Copynumber: 2.0 Consensus size: 220
17295887 AAAGCAAAAA
17295897 AAAAAAAAAAAAAAAAAAAAAAAACCCCGACTCTTGAAAGATATCTAAATCTGAAATCCATAATC
1 AAAAAAAAAAAAAAAAAAAAAAAACCCCGACTCTTGAAAGATATCTAAATCTGAAATCCATAATC
17295962 AAATTACAGACTGAAACAAAGGCAATCGAGAAAATCACCTTAAATGAAAAAAATTTCATACGTAC
66 AAATTACAGACTGAAACAAAGGCAATCGAGAAAATCACCTTAAATGAAAAAAATTTCATACGTAC
17296027 AACCAAGTGTCAAGTTGCATTGCCAAATGCAAATGTTTTTACCTTCTGACCTCATCAATCTGTGT
131 AACCAAGTGTCAAGTTGCATTGCCAAATGCAAATGTTTTTACCTTCTGACCTCATCAATCTGTGT
17296092 TTATTCATCTGGAACATAGAAATCG
196 TTATTCATCTGGAACATAGAAATCG
17296117 AAAAAAAAAAAAAAAAAAAAAAAACCCCGACTCTTGAAAGATATCTAAATCTGAAATCCATAATC
1 AAAAAAAAAAAAAAAAAAAAAAAACCCCGACTCTTGAAAGATATCTAAATCTGAAATCCATAATC
17296182 AAATTACAGACTGAAACAAAGGCAATCGAGAAAATCACCTTAAATGAAAAAAATTTCATACGTAC
66 AAATTACAGACTGAAACAAAGGCAATCGAGAAAATCACCTTAAATGAAAAAAATTTCATACGTAC
17296247 AACCAAGTGTCAAGTTGCATTGCCAAATGCAAATGTTTTTACCTTCTGACCTCATCAATCTGTGT
131 AACCAAGTGTCAAGTTGCATTGCCAAATGCAAATGTTTTTACCTTCTGACCTCATCAATCTGTGT
17296312 TTATTCATCTGGAACATAGAAATCG
196 TTATTCATCTGGAACATAGAAATCG
17296337 AA
1 AA
17296339 CTTGACATCG
Statistics
Matches: 222, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 222 1.00
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (220 bp):
AAAAAAAAAAAAAAAAAAAAAAAACCCCGACTCTTGAAAGATATCTAAATCTGAAATCCATAATC
AAATTACAGACTGAAACAAAGGCAATCGAGAAAATCACCTTAAATGAAAAAAATTTCATACGTAC
AACCAAGTGTCAAGTTGCATTGCCAAATGCAAATGTTTTTACCTTCTGACCTCATCAATCTGTGT
TTATTCATCTGGAACATAGAAATCG
Found at i:17300269 original size:22 final size:22
Alignment explanation
Indices: 17300235--17300276 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
17300225 ACACCAAAAC
* * *
17300235 AGGCTTTTTGCGGCGTTTTTTT
1 AGGCATTTAGCGGCGCTTTTTT
17300257 AGGCATTTAGCGGCGCTTTT
1 AGGCATTTAGCGGCGCTTTT
17300277 AAACGCCACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.10, C:0.17, G:0.29, T:0.45
Consensus pattern (22 bp):
AGGCATTTAGCGGCGCTTTTTT
Found at i:17300399 original size:43 final size:41
Alignment explanation
Indices: 17300349--17300479 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 41
17300339 ACGCCACTAA
*
17300349 CTTTAGCGGCGTTTATGCGAAAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGTTT-TGC-ACAAACGCCGCTAAAGACCATGAC
* *
17300392 CTTTAGCGGTGCG-TCTGTCACAAACGCCGCTAAAGACCATGAG
1 CTTTAGC-G-GCGTTTTG-CACAAACGCCGCTAAAGACCATGAC
* * *
17300435 CTTTAGCGGCGCTTTTGTCACAAATGCCACTAAAGATCATGAC
1 CTTTAGCGGCG-TTTTG-CACAAACGCCGCTAAAGACCATGAC
17300478 CT
1 CT
17300480 AAAGAACAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
41 3 0.04
42 1 0.01
43 65 0.87
44 3 0.04
45 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTGCACAAACGCCGCTAAAGACCATGAC
Found at i:17303627 original size:15 final size:15
Alignment explanation
Indices: 17303607--17303636 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17303597 AGCGATGATT
*
17303607 CTATATACTAATTTA
1 CTATATAATAATTTA
17303622 CTATATAATAATTTA
1 CTATATAATAATTTA
17303637 AACCTATAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (15 bp):
CTATATAATAATTTA
Found at i:17305163 original size:85 final size:85
Alignment explanation
Indices: 17305069--17305238 Score: 322
Period size: 85 Copynumber: 2.0 Consensus size: 85
17305059 TATTGCAAAA
17305069 AAAAATTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGAGGCTATTTTTTA
1 AAAAATTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGAGGCTATTTTTTA
17305134 AAAGTAAAATTATTTTGTGG
66 AAAGTAAAATTATTTTGTGG
* *
17305154 AAAATTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTA
1 AAAAATTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGAGGCTATTTTTTA
17305219 AAAGTAAAATTATTTTGTGG
66 AAAGTAAAATTATTTTGTGG
17305239 CGTCTTTTAC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (85 bp):
AAAAATTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGAGGCTATTTTTTA
AAAGTAAAATTATTTTGTGG
Found at i:17305443 original size:148 final size:149
Alignment explanation
Indices: 17305282--17305769 Score: 836
Period size: 149 Copynumber: 3.3 Consensus size: 149
17305272 TTAGCGGCCA
* * *
17305282 CAAAAAAATTTCATTTTGAATAAAACTACGCTGTTTTGCTATGTTATGCTAAAAGGGGGCTATTT
1 CAAAAAAATTTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTT
17305347 TTTAAAAGTAAAATTATTTTGTGGCGTTTTTTTACAAAAACGCCGCTATTGCTTACCTTTAGCGG
66 TTTAAAAGTAAAATTATTTTGTGGCGTTTTTTTACAAAAACGCCGCTATTGCTTACCTTTAGCGG
17305412 CGTTTTTACGCAAACGCCG
131 CGTTTTTACGCAAACGCCG
17305431 CAAAAAAA-TTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTT
1 CAAAAAAATTTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTT
*
17305495 TTTAAAAGTAAAATTATTTTGTGGCG-TTTTTTACAAAAACGCCGTTATTGCTTACCTTTAGCGG
66 TTTAAAAGTAAAATTATTTTGTGGCGTTTTTTTACAAAAACGCCGCTATTGCTTACCTTTAGCGG
* *
17305559 CGTTTTTATGAAAAACGCCG
131 CGTTTTTACG-CAAACGCCG
** * *
17305579 CAAAAATTTTTTATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTT
1 CAAAAAAATTTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTT
*
17305644 TTTAAAAGTAAAATTATTTTGTGGCCTTTTTTTACAAAAACGCCGCTATTGCTTACCTTTAGCGG
66 TTTAAAAGTAAAATTATTTTGTGGCGTTTTTTTACAAAAACGCCGCTATTGCTTACCTTTAGCGG
*
17305709 CGTTTTTACGCAAACGCTG
131 CGTTTTTACGCAAACGCCG
*
17305728 CAAAAAAATTTCATTTTGAACAAAACTACGCTGTTTTGCTAT
1 CAAAAAAATTTCATTTTGAACAAAACTACGCCGTTTTGCTAT
17305770 TCTAAAAATT
Statistics
Matches: 316, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
147 46 0.15
148 93 0.29
149 131 0.41
150 46 0.15
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (149 bp):
CAAAAAAATTTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTT
TTTAAAAGTAAAATTATTTTGTGGCGTTTTTTTACAAAAACGCCGCTATTGCTTACCTTTAGCGG
CGTTTTTACGCAAACGCCG
Found at i:17305857 original size:106 final size:99
Alignment explanation
Indices: 17305735--17306081 Score: 330
Period size: 94 Copynumber: 3.4 Consensus size: 99
17305725 CTGCAAAAAA
* *
17305735 ATTTCATTTTGAACAAAACT-ACGCTGTTTTGCTATTCTAAAAATTTTTTATTTTGTTTTTTATA
1 ATTTCATTTTGAACAAAA-TGACGCAGTTTTGCTATGC---AAATTTTTT-TTTT-TTTTTTA-A
* *
17305799 ATTTGATTTA-TTTTTGCGGCATTTTTTTATAAAACCGCCGCG
59 A-TTGATTTATTTTTTGCGGC-TTTTTTAATAAAAACGCCGCG
* **
17305841 ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCAAA-----TTTTTTTTACTAAATTGATT
1 ATTTCATTTTGAACAAAATGACGCAGTTTTGCTATGCAAATTTTTTTTTTTTTTTTAAATTGATT
* * *
17305901 TATTTTTTGCGGCGTTTTTGATAAAAACGCCGCT
66 TATTTTTTGCGGCTTTTTTAATAAAAACGCCGCG
* *
17305935 ATTTCATTTTGAACAAAATGACACAGTTTTTCTATGCCAAATTTTTTTTTATTTTTTTAAAATTG
1 ATTTCATTTTGAACAAAATGACGCAGTTTTGCTATG-CAAATTTTTTTTT-TTTTTTT-AAATTG
* *
17306000 ATTTATTTTTTGCGGCGTTTTTTAATAAAAATGCCGCTAAATATT
63 ATTTATTTTTTGCGGC-TTTTTTAATAAAAACGCCGC-------G
*
17306045 ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGC
1 ATTTCATTTTGAACAAAATGACGCAGTTTTGCTATGC
17306082 NNNNNNNNNN
Statistics
Matches: 204, Mismatches: 19, Indels: 33
0.80 0.07 0.13
Matches are distributed among these distances:
94 58 0.28
95 16 0.08
96 5 0.02
97 4 0.02
98 1 0.00
100 4 0.02
101 5 0.02
102 22 0.11
103 20 0.10
105 1 0.00
106 33 0.16
109 1 0.00
110 34 0.17
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (99 bp):
ATTTCATTTTGAACAAAATGACGCAGTTTTGCTATGCAAATTTTTTTTTTTTTTTTAAATTGATT
TATTTTTTGCGGCTTTTTTAATAAAAACGCCGCG
Found at i:17306080 original size:110 final size:103
Alignment explanation
Indices: 17305882--17306081 Score: 267
Period size: 110 Copynumber: 1.9 Consensus size: 103
17305872 CTATGCAAAT
*
17305882 TTTTTTTACTAAATTGATTTATTTTTTGCGGCGTTTTTGATAAAAACGCCGCTATTTCATTTTGA
1 TTTTTTTAC-AAATTGATTTATTTTTTGCGGCGTTTTTAATAAAAACGCCGCTATTTCATTTTGA
*
17305947 ACAAAATGACACAGTTTTTCTATGCCAAATTTTTTTTTA
65 ACAAAATGACACAGTTTTGCTATGCCAAATTTTTTTTTA
*
17305986 TTTTTTTA-AAATTGATTTATTTTTTGCGGCGTTTTTTAATAAAAATGCCGCTAAATATTATTTC
1 TTTTTTTACAAATTGATTTATTTTTTGCGGCG-TTTTTAATAAAAACGCCGC-------TATTTC
* *
17306050 ATTTTGAACAAAATGACGCCGTTTTGCTATGC
58 ATTTTGAACAAAATGACACAGTTTTGCTATGC
17306082 NNNNNNNNNN
Statistics
Matches: 83, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
102 23 0.28
103 17 0.20
104 8 0.10
110 35 0.42
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (103 bp):
TTTTTTTACAAATTGATTTATTTTTTGCGGCGTTTTTAATAAAAACGCCGCTATTTCATTTTGAA
CAAAATGACACAGTTTTGCTATGCCAAATTTTTTTTTA
Found at i:17307086 original size:71 final size:72
Alignment explanation
Indices: 17306968--17307115 Score: 208
Period size: 71 Copynumber: 2.1 Consensus size: 72
17306958 TTTTTGGCCT
* * * * *
17306968 CTAAATCCCCGAAAGCTCACAAAACGGCGTCATTTGGCTTAT-TTTTTTACGGCGCTTTCTTAAA
1 CTAAATCCCCGAAAGCCCACAAAACGGCATCATTGGGCTTATGTTTTTTACAGCGCTTTCTCAAA
*
17307032 AATGCCG
66 AACGCCG
* *
17307039 CTAAATCCCCGAAAGCCCACAAAACGGCATCGTTGGGCTTATGTTTTTTGCAGCGCTTTCTCAAA
1 CTAAATCCCCGAAAGCCCACAAAACGGCATCATTGGGCTTATGTTTTTTACAGCGCTTTCTCAAA
17307104 AACGCCG
66 AACGCCG
*
17307111 TTAAA
1 CTAAA
17307116 GCCCTAAGCA
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
71 38 0.57
72 29 0.43
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (72 bp):
CTAAATCCCCGAAAGCCCACAAAACGGCATCATTGGGCTTATGTTTTTTACAGCGCTTTCTCAAA
AACGCCG
Found at i:17307304 original size:114 final size:114
Alignment explanation
Indices: 17307017--17307680 Score: 942
Period size: 114 Copynumber: 5.9 Consensus size: 114
17307007 TATTTTTTTA
* * *
17307017 CGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCCCACAAAACGGCATCGTTGGGCTTATG
1 CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
* * * * *
17307082 -TTTTTTGCAGCGCTTTCTCAAAAACGCCGTTAAAGCCCTAAGCATTAG
66 TTTTTTTGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGACCATTAG
* * *
17307130 CGGCGCTTTCTT-AAAACGTCGCTAAATCCCCAAAAGCCCAGAAAATGGCGTCGTTGGGCTTATG
1 CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
* *
17307194 TTTTTTTGCGGTGCTTTTTCAAAAACGCCGCTAAAGCCTTGACCATTAG
66 TTTTTTTGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGACCATTAG
*
17307243 CGGCGCTTTCTTAAAAACGCCGCTAAATCACCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
1 CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
* * *
17307308 TTTTTTTGCAGCGCTTTTTCAAAAACGCCGCTAAATCCCTGACCATTGG
66 TTTTTTTGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGACCATTAG
* * * *
17307357 CGGCGCTTTCTTAAAAACGCTGCTAAATCCCCAACAGCCCAAAAAACGGCATCGTTGGGCTTATG
1 CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
*
17307422 TTTTTTTGCGGCGCTTTTTCAAAAACGCTGCTAAAGCCCTGACCATTAG
66 TTTTTTTGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGACCATTAG
* *
17307471 CGACGCTTTCTTAAAAACGCCGCTAAATCCCCAAAATCCCACAAAACGGCGTCGTTGGGCTTAT-
1 CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
** * *
17307535 TTTTTTTGCGGCGCTTCCT-AAAAATGCCGCTAAAGCCCTGGCCATTAG
66 TTTTTTTGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGACCATTAG
* * ** * * *
17307583 CGACGCTTTATTAAAAACGCCGCTAAATCCCCAAAAGCTAAGAAAACAGCGTCGTTGGGCGTA-G
1 CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
* * **
17307647 GTTGTTTGCGGCGCTTTTTGGAAAACGCCGCTAA
66 TTTTTTTGCGGCGCTTTTTCAAAAACGCCGCTAA
17307681 TGCTTATTTT
Statistics
Matches: 492, Mismatches: 55, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
112 143 0.29
113 94 0.19
114 255 0.52
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (114 bp):
CGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATG
TTTTTTTGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGACCATTAG
Found at i:17307955 original size:22 final size:24
Alignment explanation
Indices: 17307930--17307976 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
17307920 ATTTTCAAAC
*
17307930 TTTAACTCAATT-AA-TTTAAATA
1 TTTAAATCAATTAAATTTTAAATA
*
17307952 TTTAAATTAATTAAATTTTAAATA
1 TTTAAATCAATTAAATTTTAAATA
17307976 T
1 T
17307977 ATATATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 2 0.10
24 9 0.43
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTAAATCAATTAAATTTTAAATA
Found at i:17307967 original size:17 final size:17
Alignment explanation
Indices: 17307938--17307974 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
17307928 ACTTTAACTC
17307938 AATTAATTTAAATATTTA
1 AATTAATTTAAAT-TTTA
17307956 AATTAA-TTAAATTTTA
1 AATTAATTTAAATTTTA
17307972 AAT
1 AAT
17307975 ATATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 6 0.32
18 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAATTTAAATTTTA
Found at i:17316143 original size:27 final size:27
Alignment explanation
Indices: 17316105--17316160 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
17316095 GAACTTCATC
17316105 TATGGGTTTAAGCATACTTCTCGTCAA
1 TATGGGTTTAAGCATACTTCTCGTCAA
17316132 TATGGGTTTAAGCATACTTCTCGTCAA
1 TATGGGTTTAAGCATACTTCTCGTCAA
17316159 TA
1 TA
17316161 GTATTACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
TATGGGTTTAAGCATACTTCTCGTCAA
Found at i:17320972 original size:22 final size:22
Alignment explanation
Indices: 17320947--17320992 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17320937 ATATTTCGCA
17320947 TTATAATTTC-AAATATATATTT
1 TTATAATTTCAAAATATA-ATTT
* *
17320969 TTATTATTTTAAAATATAATTT
1 TTATAATTTCAAAATATAATTT
17320991 TT
1 TT
17320993 CAACTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATAATTTCAAAATATAATTT
Found at i:17335004 original size:13 final size:13
Alignment explanation
Indices: 17334986--17335010 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17334976 ACTTTAAAAT
17334986 TATAAAATATTAA
1 TATAAAATATTAA
17334999 TATAAAATATTA
1 TATAAAATATTA
17335011 TAATTTTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAAAATATTAA
Found at i:17335167 original size:238 final size:239
Alignment explanation
Indices: 17334739--17335220 Score: 957
Period size: 238 Copynumber: 2.0 Consensus size: 239
17334729 TTTAAAAATA
17334739 TTTAAAATTAATAAAATATTAATATAAAATATTATAATTTTCGAATGGGCCTCCCCTAATTGTTG
1 TTTAAAATTAATAAAATATTAATATAAAATATTATAATTTTCGAATGGGCCTCCCCTAATTGTTG
17334804 CTTCGGTTGGACAAATATTACCCCTGGCATCATTTTTTGTCCCCTCACAACAGTGATACCGCTAT
66 CTTCGGTTGGACAAATATTACCCCTGGCATCATTTTTTGTCCCCTCACAACAGTGATACCGCTAT
17334869 ACCCAGGGTTGGATATTGCAATATTATTATCAGTCTTGAAATGGGGAGTTCCTTGTCACATGGAT
131 ACCCAGGGTTGGATATTGCAATATTATTATCAGTCTTGAAATGGGGAGTTCCTTGTCACATGGAT
17334934 ATTACGATACCCAAGGAGGATATCGCGATACCAGTGTATGTTAC
196 ATTACGATACCCAAGGAGGATATCGCGATACCAGTGTATGTTAC
17334978 TTTAAAATT-ATAAAATATTAATATAAAATATTATAATTTTCGAATGGGCCTCCCCTAATTGTTG
1 TTTAAAATTAATAAAATATTAATATAAAATATTATAATTTTCGAATGGGCCTCCCCTAATTGTTG
17335042 CTTCGGTTGGACAAATATTACCCCTGGCATCATTTTTTGTCCCCTCACAACAGTGATACCGCTAT
66 CTTCGGTTGGACAAATATTACCCCTGGCATCATTTTTTGTCCCCTCACAACAGTGATACCGCTAT
17335107 ACCCAGGGTTGGATATTGCAATATTATTATCAGTCTTGAAATGGGGAGTTCCTTGTCACATGGAT
131 ACCCAGGGTTGGATATTGCAATATTATTATCAGTCTTGAAATGGGGAGTTCCTTGTCACATGGAT
17335172 ATTACGATACCCAAGGAGGATATCGCGATACCAGTGTATGTTAC
196 ATTACGATACCCAAGGAGGATATCGCGATACCAGTGTATGTTAC
17335216 TTTAA
1 TTTAA
17335221 TTTCAGGTCT
Statistics
Matches: 243, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
238 234 0.96
239 9 0.04
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (239 bp):
TTTAAAATTAATAAAATATTAATATAAAATATTATAATTTTCGAATGGGCCTCCCCTAATTGTTG
CTTCGGTTGGACAAATATTACCCCTGGCATCATTTTTTGTCCCCTCACAACAGTGATACCGCTAT
ACCCAGGGTTGGATATTGCAATATTATTATCAGTCTTGAAATGGGGAGTTCCTTGTCACATGGAT
ATTACGATACCCAAGGAGGATATCGCGATACCAGTGTATGTTAC
Found at i:17338466 original size:22 final size:22
Alignment explanation
Indices: 17338440--17338492 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
17338430 GGGACCTTAG
17338440 CGTGCTCTCCATTTAGCATATT
1 CGTGCTCTCCATTTAGCATATT
17338462 CGTGCTCTCCATTTAGCATATT
1 CGTGCTCTCCATTTAGCATATT
*
17338484 TGTGCTCTC
1 CGTGCTCTC
17338493 TGTATAGCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.42
Consensus pattern (22 bp):
CGTGCTCTCCATTTAGCATATT
Found at i:17338500 original size:22 final size:22
Alignment explanation
Indices: 17338440--17338501 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
17338430 GGGACCTTAG
*
17338440 CGTGCTCTCCATTTAGCATATT
1 CGTGCTCTCCATATAGCATATT
*
17338462 CGTGCTCTCCATTTAGCATATT
1 CGTGCTCTCCATATAGCATATT
* **
17338484 TGTGCTCTCTGTATAGCA
1 CGTGCTCTCCATATAGCA
17338502 CCTTAGTGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.40
Consensus pattern (22 bp):
CGTGCTCTCCATATAGCATATT
Found at i:17349481 original size:26 final size:24
Alignment explanation
Indices: 17349415--17349487 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 24
17349405 AAGCGAGCAC
* *
17349415 TAACGGGAAGCTCACAAAGAGCCTT
1 TAACGGGAAGCTCA-TAAGAGCCTA
17349440 TAATCGGGAAGCTCATGAAGAGCCATA
1 TAA-CGGGAAGCTCAT-AAGAGCC-TA
*
17349467 TAACGGGACGCTCATAAGAGC
1 TAACGGGAAGCTCATAAGAGC
17349488 TGCAGTATGC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 9 0.21
26 29 0.69
27 4 0.10
ACGTcount: A:0.36, C:0.22, G:0.26, T:0.16
Consensus pattern (24 bp):
TAACGGGAAGCTCATAAGAGCCTA
Found at i:17357422 original size:21 final size:22
Alignment explanation
Indices: 17357393--17357437 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
17357383 TCATAGTTAT
*
17357393 TTGCTATTTAATGT-GTT-TTAC
1 TTGCAATTT-ATGTGGTTATTAC
17357414 TTGCAATTTATGTGGTTATTAC
1 TTGCAATTTATGTGGTTATTAC
17357436 TT
1 TT
17357438 TCTTATTCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 11 0.52
22 6 0.29
ACGTcount: A:0.20, C:0.09, G:0.16, T:0.56
Consensus pattern (22 bp):
TTGCAATTTATGTGGTTATTAC
Found at i:17357686 original size:40 final size:39
Alignment explanation
Indices: 17357642--17357770 Score: 159
Period size: 40 Copynumber: 3.2 Consensus size: 39
17357632 TGTGCATATT
* *
17357642 TGCCCCTGTTTGTACTTCGGTACTCCTGAATGTACATACA
1 TGCCCCTGTTTGTACTTCGATAC-CCTGAATGCACATACA
* *
17357682 TGCCCCTGTTTGTACTTCGATACCCCTGAATGCACATGCG
1 TGCCCCTGTTTGTACTTCGATA-CCCTGAATGCACATACA
* * * *
17357722 TGCACCTGTTTGCACTTTGATACCCTTGAATACACATACA
1 TGCCCCTGTTTGTACTTCGATACCC-TGAATGCACATACA
17357762 TGCCCCTGT
1 TGCCCCTGT
17357771 GCACATTCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 72 0.95
41 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (39 bp):
TGCCCCTGTTTGTACTTCGATACCCTGAATGCACATACA
Found at i:17357707 original size:20 final size:20
Alignment explanation
Indices: 17357644--17357709 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
17357634 TGCATATTTG
*
17357644 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGATA
* ** * *
17357664 CTCCTGAATGTACATAC-ATG
1 CCCCTGTTTGTAC-TTCGATA
17357684 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGATA
17357704 CCCCTG
1 CCCCTG
17357710 AATGCACATG
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.35
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGATA
Found at i:17359616 original size:131 final size:131
Alignment explanation
Indices: 17359466--17359730 Score: 514
Period size: 131 Copynumber: 2.0 Consensus size: 131
17359456 GAAACCCTAG
17359466 AAAATGAAAATGAAAACCCTAAGAGAAAACTAAAGAAACTAACGAAAAAAAACTAAAACTAATGT
1 AAAATGAAAATGAAAACCCTAAGAGAAAACTAAAGAAACTAACGAAAAAAAACTAAAACTAATGT
17359531 GGCATCTTCTCTTCTCAGCCAATTTTGGCTGATTTAGCAACAATTTTTGACCCAATTTGTTGACC
66 GGCATCTTCTCTTCTCAGCCAATTTTGGCTGATTTAGCAACAATTTTTGACCCAATTTGTTGACC
17359596 GA
131 -A
17359598 AAAATG-AAATGAAAACCCTAAGAGAAAACTAAAGAAACTAACGAAAAAAAACTAAAACTAATGT
1 AAAATGAAAATGAAAACCCTAAGAGAAAACTAAAGAAACTAACGAAAAAAAACTAAAACTAATGT
17359662 GGCATCTTCTCTTCTCAGCCAATTTTGGCTGATTTAGCAACAATTTTTGACCCAATTTGTTGACC
66 GGCATCTTCTCTTCTCAGCCAATTTTGGCTGATTTAGCAACAATTTTTGACCCAATTTGTTGACC
17359727 A
131 A
17359728 AAA
1 AAA
17359731 TGCCCTTGAA
Statistics
Matches: 133, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
130 4 0.03
131 123 0.92
132 6 0.05
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (131 bp):
AAAATGAAAATGAAAACCCTAAGAGAAAACTAAAGAAACTAACGAAAAAAAACTAAAACTAATGT
GGCATCTTCTCTTCTCAGCCAATTTTGGCTGATTTAGCAACAATTTTTGACCCAATTTGTTGACC
A
Found at i:17362162 original size:17 final size:18
Alignment explanation
Indices: 17362140--17362174 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17362130 ATATCAAATA
*
17362140 AAAATAATAT-TATATTT
1 AAAATAAAATGTATATTT
17362157 AAAATAAAATGTATATTT
1 AAAATAAAATGTATATTT
17362175 CATTCAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AAAATAAAATGTATATTT
Found at i:17366965 original size:24 final size:26
Alignment explanation
Indices: 17366907--17366968 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
17366897 TTAAGCTATA
* *
17366907 TAACGGGAAG-TTCATGTGAGTCATG
1 TAACGGGAAGCTTCATGAGAGCCATG
*
17366932 TAATGGGAAGCTTCA-GAGAGCCAT-
1 TAACGGGAAGCTTCATGAGAGCCATG
17366956 TAACGGGAAGCTT
1 TAACGGGAAGCTT
17366969 ATACGAGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 12 0.38
25 16 0.50
26 4 0.12
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.24
Consensus pattern (26 bp):
TAACGGGAAGCTTCATGAGAGCCATG
Found at i:17373111 original size:17 final size:19
Alignment explanation
Indices: 17373091--17373126 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
17373081 TTTTAGCAAC
17373091 AATC-AATTT-TTGAATTG
1 AATCGAATTTGTTGAATTG
17373108 AATCGAATTTGTTGAATTG
1 AATCGAATTTGTTGAATTG
17373127 GAAACTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 8 0.47
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (19 bp):
AATCGAATTTGTTGAATTG
Found at i:17374662 original size:11 final size:10
Alignment explanation
Indices: 17374634--17374688 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
17374624 AATTAAAATG
17374634 TTAAAATAAA
1 TTAAAATAAA
*
17374644 TTTAAATAAA
1 TTAAAATAAA
17374654 TTAACAAT--A
1 TTAA-AATAAA
* *
17374663 TTGAAATAAT
1 TTAAAATAAA
*
17374673 TTGAAATAAA
1 TTAAAATAAA
17374683 TTAAAA
1 TTAAAA
17374689 AATGTTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
8 3 0.08
9 4 0.11
10 26 0.72
11 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (10 bp):
TTAAAATAAA
Found at i:17374671 original size:29 final size:28
Alignment explanation
Indices: 17374624--17374738 Score: 92
Period size: 29 Copynumber: 4.0 Consensus size: 28
17374614 ATAATATATG
*
17374624 AATTAAAATGTTAAAATAAATTT-AAATA
1 AATTAAAATATTAAAAT-AATTTGAAATA
*
17374652 AATTAACAATATTGAAATAATTTGAAATA
1 AATTAA-AATATTAAAATAATTTGAAATA
* *
17374681 AATTAAAAAATGTTAAAAT-ATTTGAAAGA
1 AATT--AAAATATTAAAATAATTTGAAATA
* *
17374710 GA-TAAAATATCTATATAATAATATGAAAT
1 AATTAAAATAT-TA-A-AATAATTTGAAAT
17374739 TAACAATAGA
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
26 6 0.09
27 2 0.03
28 13 0.19
29 31 0.44
30 16 0.23
31 2 0.03
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (28 bp):
AATTAAAATATTAAAATAATTTGAAATA
Found at i:17375079 original size:19 final size:19
Alignment explanation
Indices: 17375034--17375081 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
17375024 TCAAAATAAT
* *
17375034 AATATATT-ATAATATTGA
1 AATATATTAATAAAATTAA
17375052 AATAGTATTAATAAAATTAA
1 AATA-TATTAATAAAATTAA
17375072 AATATATTAA
1 AATATATTAA
17375082 ACTTAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 10 0.38
20 12 0.46
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
AATATATTAATAAAATTAA
Found at i:17376925 original size:32 final size:32
Alignment explanation
Indices: 17376889--17376951 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
17376879 GTTAATCAGT
* * *
17376889 ATGAGTTATCAAATTTAATTAATTAATTTATC
1 ATGAGTTATCAAATTCAAATAATCAATTTATC
*
17376921 ATGAGTTATTAAATTCAAATAATCAATTTAT
1 ATGAGTTATCAAATTCAAATAATCAATTTAT
17376952 AAGTTTAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Consensus pattern (32 bp):
ATGAGTTATCAAATTCAAATAATCAATTTATC
Found at i:17377092 original size:15 final size:15
Alignment explanation
Indices: 17377072--17377117 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 15
17377062 TTATCGAAAC
17377072 AATATTTTAATTAAT
1 AATATTTTAATTAAT
*
17377087 AATATTTTTATTTAAT
1 AATA-TTTTAATTAAT
*
17377103 AA-ATTATAATTAAT
1 AATATTTTAATTAAT
17377117 A
1 A
17377118 GGTTTGCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 10 0.37
15 5 0.19
16 12 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATATTTTAATTAAT
Found at i:17377908 original size:16 final size:16
Alignment explanation
Indices: 17377887--17377933 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
17377877 AAGTTAAATA
*
17377887 AAAAGTTTTAGGGAAT
1 AAAAGTTTGAGGGAAT
17377903 AAAAGTTTGAGGGAAT
1 AAAAGTTTGAGGGAAT
17377919 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
17377934 AGTCAATAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.26
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:17381446 original size:24 final size:24
Alignment explanation
Indices: 17381419--17381469 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
17381409 GTGTATATAA
17381419 TAAAAAATAAA-ATAAAGTTTTGAT
1 TAAAAAATAAATATAAAGTTTT-AT
* *
17381443 TAAAAGATAAATTTAAAGTTTTAT
1 TAAAAAATAAATATAAAGTTTTAT
17381467 TAA
1 TAA
17381470 TATAATTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (24 bp):
TAAAAAATAAATATAAAGTTTTAT
Found at i:17389513 original size:11 final size:11
Alignment explanation
Indices: 17389497--17389521 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17389487 ATCCTCGTAC
17389497 TTCCTTTTGTA
1 TTCCTTTTGTA
17389508 TTCCTTTTGTA
1 TTCCTTTTGTA
17389519 TTC
1 TTC
17389522 ATTAAGGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.20, G:0.08, T:0.64
Consensus pattern (11 bp):
TTCCTTTTGTA
Found at i:17392003 original size:3 final size:3
Alignment explanation
Indices: 17391995--17392035 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
17391985 ATGATGGCTT
17391995 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
17392036 TGAATTCTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:17412439 original size:2 final size:2
Alignment explanation
Indices: 17412432--17412471 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
17412422 GCATCTGTTG
17412432 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
17412472 GAAAGACATC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17418439 original size:3 final size:3
Alignment explanation
Indices: 17418431--17418465 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
17418421 AAGCATCAAA
17418431 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17418466 GTTGCAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17428178 original size:19 final size:17
Alignment explanation
Indices: 17428141--17428180 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
17428131 ACTTCATCTT
*
17428141 ATTTGCATTTAGGATTA
1 ATTTGCATTTAGAATTA
17428158 ATTTGCATTTAGTTAATTA
1 ATTTGCATTTAG--AATTA
17428177 ATTT
1 ATTT
17428181 AATTTAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
19 8 0.40
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (17 bp):
ATTTGCATTTAGAATTA
Found at i:17430899 original size:193 final size:193
Alignment explanation
Indices: 17430557--17430942 Score: 664
Period size: 193 Copynumber: 2.0 Consensus size: 193
17430547 TCGTGTACAG
*
17430557 GGACTTGGAGTGCTGCTTTAGTGCCGACATCCCAAAAGTAATAAGGTGTACGACCTGACCCGTAA
1 GGACTTGGAGTGCTGCTTTAGTGCCGACATCCCAAAAGTAATAAGGTGTACGACCTAACCCGTAA
* *
17430622 TTTTTAAAAACGAACATGGAAACCTTGAAATTCTATGAAAATCAAAATGAGGCTGATGACGCTAC
66 TTTTTAAAAACGAACATGGAAACCCTAAAATTCTATGAAAATCAAAATGAGGCTGATGACGCTAC
* *
17430687 ATGGTCATGTGTCGGGCCGTGTGAGAAACATAGATGTATAAGCCACATGGTCTGGTTGAGGTA
131 ATGATCATGTGTAGGGCCGTGTGAGAAACATAGATGTATAAGCCACATGGTCTGGTTGAGGTA
* * * *
17430750 GGACTTGGAGTGCTGTTTTAGTGCCGACATCCTAAAAGTAATAAGTTGTATGACCTAACCCGTAA
1 GGACTTGGAGTGCTGCTTTAGTGCCGACATCCCAAAAGTAATAAGGTGTACGACCTAACCCGTAA
* *
17430815 TTTTTAAAAACGAACATGGAAACCCTAAAATTTTGTGAAAATCAAAATGAGGCTGATGACGCTAC
66 TTTTTAAAAACGAACATGGAAACCCTAAAATTCTATGAAAATCAAAATGAGGCTGATGACGCTAC
*
17430880 ATGATCGTGTGTAGGGCCGTGTGAGAAACATAGATGTATAAGCCACATGGTCTGGTTGAGGTA
131 ATGATCATGTGTAGGGCCGTGTGAGAAACATAGATGTATAAGCCACATGGTCTGGTTGAGGTA
17430943 AGGCTTGTGG
Statistics
Matches: 181, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
193 181 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (193 bp):
GGACTTGGAGTGCTGCTTTAGTGCCGACATCCCAAAAGTAATAAGGTGTACGACCTAACCCGTAA
TTTTTAAAAACGAACATGGAAACCCTAAAATTCTATGAAAATCAAAATGAGGCTGATGACGCTAC
ATGATCATGTGTAGGGCCGTGTGAGAAACATAGATGTATAAGCCACATGGTCTGGTTGAGGTA
Found at i:17432876 original size:13 final size:13
Alignment explanation
Indices: 17432826--17432876 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
17432816 TTAGCATTAT
* *
17432826 TTTTGAAACGTGC
1 TTTTGAAAAGTAC
17432839 TTTTGAAAAAGTGA-
1 TTTTG-AAAAGT-AC
*
17432853 TTTTGAGAAGTAC
1 TTTTGAAAAGTAC
17432866 TTTTGAAAAGT
1 TTTTGAAAAGT
17432877 TTTATTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
12 1 0.03
13 20 0.65
14 10 0.32
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (13 bp):
TTTTGAAAAGTAC
Found at i:17442135 original size:18 final size:18
Alignment explanation
Indices: 17442112--17442163 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
17442102 TGTTTCCATC
*
17442112 AATGTGAACATTATTTGA
1 AATGTGAACATTATTTAA
*
17442130 AATGTGAACATCATTTAA
1 AATGTGAACATTATTTAA
17442148 AATGTGAACATTATTT
1 AATGTGAACATTATTT
17442164 CTCGTATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (18 bp):
AATGTGAACATTATTTAA
Found at i:17452384 original size:17 final size:17
Alignment explanation
Indices: 17452317--17452384 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
17452307 TATGTGAATG
*
17452317 TAAAATTATTAATT-GA
1 TAAAATTATTAATTATA
* *
17452333 TAAATTGTATTAATGATTA
1 TAAAAT-TATTAATTA-TA
*
17452352 GTAAAATTATCGAATTATA
1 -TAAAATTAT-TAATTATA
17452371 TAAAATTATTAATT
1 TAAAATTATTAATT
17452385 GTTAGTACCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.44
Consensus pattern (17 bp):
TAAAATTATTAATTATA
Found at i:17452441 original size:116 final size:116
Alignment explanation
Indices: 17452202--17452444 Score: 407
Period size: 116 Copynumber: 2.1 Consensus size: 116
17452192 TAAGTTTGTG
*
17452202 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAAATTATCAAATTATATAAAATTATTA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGT-AAAAATTATCAAATTATATAAAATTATTA
** * *
17452267 ATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
65 ATTGTTAGTACCAGAAAAAACATTTTTCAAAATCTAACATTATGTGAAAGTA
*
17452319 AAATTATTAATTGATAAATTGTATTAATGATTAGT-AAAATTATCGAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
17452383 TTGTTAGTACCAGGAAAAAACATTTTTCAAAATCTAACATTATGTGAAAGTA
66 TTGTTAGTACCA-GAAAAAACATTTTTCAAAATCTAACATTATGTGAAAGTA
17452435 AAATTATTAA
1 AAATTATTAA
17452445 ATTAGTATGT
Statistics
Matches: 119, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
115 40 0.34
116 45 0.38
117 34 0.29
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (116 bp):
AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
TTGTTAGTACCAGAAAAAACATTTTTCAAAATCTAACATTATGTGAAAGTA
Found at i:17452675 original size:18 final size:18
Alignment explanation
Indices: 17452652--17452691 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
17452642 GACTCGAAAA
*
17452652 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGCT
17452670 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
17452688 AGGA
1 AGGA
17452692 AACGCACCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:17462519 original size:26 final size:26
Alignment explanation
Indices: 17462489--17462539 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
17462479 AAATTGATTC
17462489 TCTAGTTC-GTTTACATTACAAATTAA
1 TCTAG-TCAGTTTACATTACAAATTAA
17462515 TCTAGTCAGTTTACATTACAAATTA
1 TCTAGTCAGTTTACATTACAAATTA
17462540 GTCTTGTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (26 bp):
TCTAGTCAGTTTACATTACAAATTAA
Found at i:17463836 original size:27 final size:27
Alignment explanation
Indices: 17463780--17463837 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
17463770 AACACGTTAG
* * *
17463780 GAAATAATAGCTTTTGTGGTAAACTCT
1 GAAAGAATAACTTTTGTGGTAAACTAT
* *
17463807 GAAAGAATAACTTTTGTGGTGAATTAT
1 GAAAGAATAACTTTTGTGGTAAACTAT
17463834 GAAA
1 GAAA
17463838 AGATGCCCGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (27 bp):
GAAAGAATAACTTTTGTGGTAAACTAT
Found at i:17469108 original size:12 final size:12
Alignment explanation
Indices: 17469091--17469115 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17469081 TTTTAATAAG
17469091 ATTTAATATTAA
1 ATTTAATATTAA
17469103 ATTTAATATTAA
1 ATTTAATATTAA
17469115 A
1 A
17469116 GTGATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:17471953 original size:17 final size:19
Alignment explanation
Indices: 17471933--17471969 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
17471923 TGAAAAGGAG
17471933 TTATTT-TAT-AAAATAAA
1 TTATTTATATAAAAATAAA
17471950 TTATTTAATATAAAAATAAA
1 TTATTT-ATATAAAAATAAA
17471970 CAAATCTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTATTTATATAAAAATAAA
Found at i:17473020 original size:115 final size:113
Alignment explanation
Indices: 17472789--17473121 Score: 328
Period size: 114 Copynumber: 2.9 Consensus size: 113
17472779 CTTTCTTTAG
* * * *
17472789 AAACGCCGCAATAGTCAAGAATTACCGGCGTTTTATCATAAACGCAGCAAAAACTGTTAAGAAAA
1 AAACGCCGCAATAGTCAAGAATTAGCGGCGCTTTATCATAAGCGCCGC-AAAACTGTTAAGAAAA
* * * ** * * * **
17472854 CGGTGCCATTTTAGGTTTAGGTTTTAGGGACGTTAGTGGCGCTTACTAAA
65 CGTTGTCGTTTTTCGTTTAGCTTTTAGAGACGATAGTGGCAATTAC-AAA
* * * *
17472904 AAACGCCGCAATAGTTAAGAATTAGAGGCGCTTTATCATAAGCACCGCAAAACTATTAAGAAAAC
1 AAACGCCGCAATAGTCAAGAATTAGCGGCGCTTTATCATAAGCGCCGCAAAACTGTTAAGAAAAC
* *
17472969 ATTGTCGTTTTTCGTTTATCTTTTCA-AGACGATAGTGGCAATTATCAAA
66 GTTGTCGTTTTTCGTTTAGCTTTT-AGAGACGATAGTGGCAATTA-CAAA
* * * * * *
17473018 AAATGTCGTAATAGCCAAGATTTAGCGGCGCTTTAGACA-AAGCGCCGCAAAACTGTTAAGAAAA
1 AAACGCCGCAATAGTCAAGAATTAGCGGCGCTTTA-TCATAAGCGCCGCAAAACTGTTAAGAAAA
* ** * *
17473082 CGTAGTCGTTTTTAATTTAGGTTTTAGAGACGTTAGTGGC
65 CGTTGTCGTTTTTCGTTTAGCTTTTAGAGACGATAGTGGC
17473122 GCTTTCTTAG
Statistics
Matches: 177, Mismatches: 37, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
113 1 0.01
114 131 0.74
115 45 0.25
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (113 bp):
AAACGCCGCAATAGTCAAGAATTAGCGGCGCTTTATCATAAGCGCCGCAAAACTGTTAAGAAAAC
GTTGTCGTTTTTCGTTTAGCTTTTAGAGACGATAGTGGCAATTACAAA
Found at i:17473835 original size:13 final size:14
Alignment explanation
Indices: 17473817--17473854 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
17473807 GGATTATGGT
17473817 TTAAGGGTT-GAGG
1 TTAAGGGTTAGAGG
*
17473830 TTAAGGGTTTAGGGG
1 TTAAGGG-TTAGAGG
17473845 TTAAGGGTTA
1 TTAAGGGTTA
17473855 AGGGCTGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 7 0.32
14 5 0.23
15 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGAGG
Done.