Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 56 of 182
Found at i:17326683 original size:19 final size:19
Alignment explanation
Indices: 17326661--17326734 Score: 62
Period size: 19 Copynumber: 3.9 Consensus size: 19
17326651 AAAAAAATGT
*
17326661 AAAAAGATATAGAATTATA
1 AAAAAGATATAAAATTATA
**
17326680 AAAACTATATAAAATTATA
1 AAAAAGATATAAAATTATA
** * *
17326699 AATCA-ATTTAAAA-AATA
1 AAAAAGATATAAAATTATA
17326716 AAAAAGTATATAAAATTAT
1 AAAAAG-ATATAAAATTAT
17326735 TTAAATTTAT
Statistics
Matches: 40, Mismatches: 12, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
17 6 0.15
18 7 0.17
19 25 0.62
20 2 0.05
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.30
Consensus pattern (19 bp):
AAAAAGATATAAAATTATA
Found at i:17327117 original size:12 final size:11
Alignment explanation
Indices: 17327090--17327118 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
17327080 CCGGAGAACT
17327090 ATTTTTATTTA
1 ATTTTTATTTA
17327101 ATTTTTATTTA
1 ATTTTTATTTA
17327112 ATTTTTA
1 ATTTTTA
17327119 ATTTCTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTTTATTTA
Found at i:17327136 original size:34 final size:35
Alignment explanation
Indices: 17327097--17327170 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 35
17327087 ACTATTTTTA
* * **
17327097 TTTAATTTTTATT-TAATTTTT-AATTTCTAAATTT
1 TTTAA-TTATATTCTAATTTTTGAATTTATAAAAAT
17327131 TTTAA-TATATTCTAATTTTTGAATTTATAAAAAT
1 TTTAATTATATTCTAATTTTTGAATTTATAAAAAT
17327165 TTTAAT
1 TTTAAT
17327171 ATAATTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
32 5 0.15
33 8 0.24
34 20 0.61
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (35 bp):
TTTAATTATATTCTAATTTTTGAATTTATAAAAAT
Found at i:17327171 original size:34 final size:32
Alignment explanation
Indices: 17327106--17327179 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 32
17327096 ATTTAATTTT
* **
17327106 TATTTAATTTTTAATTTCTAAATTTTTTAATA
1 TATTTAATTTTTAATTTATAAAAATTTTAATA
17327138 TATTCTAATTTTTGAATTTATAAAAATTTTAATA
1 TATT-TAATTTTT-AATTTATAAAAATTTTAATA
17327172 TAATTTAA
1 T-ATTTAA
17327180 ATATATCACT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 4 0.11
33 8 0.22
34 21 0.58
35 3 0.08
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (32 bp):
TATTTAATTTTTAATTTATAAAAATTTTAATA
Found at i:17328157 original size:22 final size:24
Alignment explanation
Indices: 17328114--17328158 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
17328104 ATTTTTTATT
*
17328114 AAAATTAGATTAAAAATTTTAATC
1 AAAATTAGATTAAAAATGTTAATC
*
17328138 AAAA-TAG-TTAAAGATGTTAAT
1 AAAATTAGATTAAAAATGTTAAT
17328159 TATTTAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 3 0.16
24 4 0.21
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (24 bp):
AAAATTAGATTAAAAATGTTAATC
Found at i:17329975 original size:24 final size:24
Alignment explanation
Indices: 17329948--17329993 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
17329938 ATCATCTTAT
*
17329948 CTTAACTCATACAAGCTTTATACA
1 CTTAACTCATACAAGCATTATACA
*
17329972 CTTACCTCATACAAGCATTATA
1 CTTAACTCATACAAGCATTATA
17329994 TAATTACCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (24 bp):
CTTAACTCATACAAGCATTATACA
Found at i:17330000 original size:24 final size:24
Alignment explanation
Indices: 17329953--17330005 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
17329943 CTTATCTTAA
* *
17329953 CTCATACAAGCTTTATACACTTAC
1 CTCATACAAGCATTATACAATTAC
*
17329977 CTCATACAAGCATTATATAATTAC
1 CTCATACAAGCATTATACAATTAC
17330001 CTCAT
1 CTCAT
17330006 GAATAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (24 bp):
CTCATACAAGCATTATACAATTAC
Found at i:17332148 original size:17 final size:18
Alignment explanation
Indices: 17332116--17332151 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
17332106 CCGTGTGGTT
17332116 CACCCGTGTAGGCCCACA
1 CACCCGTGTAGGCCCACA
17332134 CACCCGTGT-GGCCCACA
1 CACCCGTGTAGGCCCACA
17332151 C
1 C
17332152 GGCCTAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.19, C:0.47, G:0.22, T:0.11
Consensus pattern (18 bp):
CACCCGTGTAGGCCCACA
Found at i:17334278 original size:43 final size:43
Alignment explanation
Indices: 17334096--17334291 Score: 159
Period size: 43 Copynumber: 4.6 Consensus size: 43
17334086 ACAGGCTATA
* *
17334096 CTTCGGTTTAAT-CAATGATGCACTATGTGTGCCA-AAATATTTT
1 CTTCGGTTT-ATCCGATGATGCACTATGTGTGCCAGCAATA-TTT
** * ** * *
17334139 CTTTTGTATATCCGATGATGCACT-TACGTGCCAGCATTATTA
1 CTTCGGTTTATCCGATGATGCACTATGTGTGCCAGCAATATTT
* * * * * *
17334181 CTTCGGTTAATCCGATGATGCACTACGTATGCAAGTATTATTT
1 CTTCGGTTTATCCGATGATGCACTATGTGTGCCAGCAATATTT
* *
17334224 CTAT-GGCTTATCTGATGATGCACTATGTGTGCCA-CAATATTT
1 CT-TCGGTTTATCCGATGATGCACTATGTGTGCCAGCAATATTT
*
17334266 CATTCGATTTATCCGATGATGCACTA
1 C-TTCGGTTTATCCGATGATGCACTA
17334292 CAGTGCCAGA
Statistics
Matches: 116, Mismatches: 31, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
42 39 0.34
43 76 0.66
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (43 bp):
CTTCGGTTTATCCGATGATGCACTATGTGTGCCAGCAATATTT
Found at i:17337349 original size:96 final size:97
Alignment explanation
Indices: 17337180--17337372 Score: 307
Period size: 96 Copynumber: 2.0 Consensus size: 97
17337170 TCATACTTAC
* *
17337180 TTTCTTCTCTAGTTGGATATTTAATTGGACATTGGAAACTCTTATGATCTTCTAAACTACACCAA
1 TTTCTTCTCTAGTTGGATATTTAATTGGACATCGGAAACCCTTATGATCTTCTAAACTACACCAA
17337245 TAACATTGCACAAAAGGTGATAACTCAATTGT
66 TAACATTGCACAAAAGGTGATAACTCAATTGT
* * * *
17337277 TTTC-TCTCTATTTGGATGTTTAATTGGACATCGGAAACCCTTATGATCTTTTGAACTACACCAA
1 TTTCTTCTCTAGTTGGATATTTAATTGGACATCGGAAACCCTTATGATCTTCTAAACTACACCAA
**
17337341 TAACATTGCACAAAAGGTGATCGCTCAATTGT
66 TAACATTGCACAAAAGGTGATAACTCAATTGT
17337373 ATTCCTCCTT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
96 84 0.95
97 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (97 bp):
TTTCTTCTCTAGTTGGATATTTAATTGGACATCGGAAACCCTTATGATCTTCTAAACTACACCAA
TAACATTGCACAAAAGGTGATAACTCAATTGT
Found at i:17340929 original size:68 final size:68
Alignment explanation
Indices: 17340820--17340954 Score: 225
Period size: 68 Copynumber: 2.0 Consensus size: 68
17340810 TTAATTTACG
17340820 AGCTTTGGGGAAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAACTATAATTTTACCAAAATAT
1 AGCTTTGGGGAAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAACTATAATTTTACCAAAATAT
17340885 GAA
66 GAA
* * * **
17340888 AGCTTTGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAATTGTAATTTTTTCAAAATAT
1 AGCTTTGGGGAAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAACTATAATTTTACCAAAATAT
17340953 GA
66 GA
17340955 TTTTGGGTCA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.29
Consensus pattern (68 bp):
AGCTTTGGGGAAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAACTATAATTTTACCAAAATAT
GAA
Found at i:17340930 original size:30 final size:28
Alignment explanation
Indices: 17340879--17340938 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 28
17340869 AATTTTACCA
17340879 AAATATGAAAGCTTTGGGGCAAAAGTGT
1 AAATATGAAAGCTTTGGGGCAAAAGTGT
*
17340907 AAATATGCAAAAG-TTTAGGGGCAAAATTGT
1 AAATATG--AAAGCTTT-GGGGCAAAAGTGT
17340937 AA
1 AA
17340939 TTTTTTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 7 0.25
29 3 0.11
30 18 0.64
ACGTcount: A:0.43, C:0.07, G:0.25, T:0.25
Consensus pattern (28 bp):
AAATATGAAAGCTTTGGGGCAAAAGTGT
Found at i:17341423 original size:46 final size:46
Alignment explanation
Indices: 17341370--17341591 Score: 284
Period size: 46 Copynumber: 4.8 Consensus size: 46
17341360 TATTTGGGCA
* *
17341370 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *** * * * * *
17341416 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ACG
* *
17341463 TCGGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
17341509 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
17341555 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17341592 GCGGGTTACA
Statistics
Matches: 150, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
46 117 0.78
47 33 0.22
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:17341525 original size:93 final size:93
Alignment explanation
Indices: 17341366--17341537 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
17341356 GGGATATTTG
* *
17341366 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
17341431 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
17341459 GGCATCGGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
17341524 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
17341538 ACTTATGGAT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:17346465 original size:47 final size:47
Alignment explanation
Indices: 17346353--17346923 Score: 810
Period size: 47 Copynumber: 12.1 Consensus size: 47
17346343 TATACACTTC
* * * *
17346353 CACATCCATCACATTGGCCATCCGGCCTTATCACATA-ATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCA-TGTT
*
17346399 CACATTCATCACATTGGCCATTCGGCCTTATCTCGTATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
* * **
17346446 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
*
17346493 CACATTCATCACATTGGCCTTTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
*
17346540 CACATTCATCACATTGGCCTTTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
*
17346587 CACATTCATCACATTGGCCTTTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
*
17346634 CACATTCATCACATTGGCCTTTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
* * **
17346681 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
*
17346728 CACATTCATCACATTGGCCATTCGACCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
* *
17346775 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTC--ATATATGCA-TGTT
* * *
17346824 CACATTCATCACATTGGCCATTCGGCCTTATCACATGTATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCA-TGTT
* * * *
17346871 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCA-TGTT
17346918 CACATT
1 CACATT
17346924 TATTCAAATA
Statistics
Matches: 488, Mismatches: 32, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
46 34 0.07
47 409 0.84
49 44 0.09
50 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.35
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
Found at i:17348441 original size:56 final size:56
Alignment explanation
Indices: 17348374--17348493 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
17348364 TATTAGTTTA
17348374 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
17348430 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
17348486 TTGCCCAT
1 TTGCCCAT
17348494 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:17349834 original size:24 final size:24
Alignment explanation
Indices: 17349783--17349839 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
17349773 CTTTATTAAG
* *
17349783 TTAAACTCTATTTTAGTTTCTAGG
1 TTAAACTCTATTTTAGTTTCCAGC
17349807 TTAAACTCTATTTTAGTTTCCCA-C
1 TTAAACTCTATTTTAGTTT-CCAGC
17349831 TTAAACTCT
1 TTAAACTCT
17349840 GATTAGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 28 0.93
25 2 0.07
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.47
Consensus pattern (24 bp):
TTAAACTCTATTTTAGTTTCCAGC
Found at i:17359397 original size:15 final size:16
Alignment explanation
Indices: 17359372--17359401 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17359362 TTTATTTCAC
17359372 GAAATAATAATAAAAA
1 GAAATAATAATAAAAA
17359388 GAAA-AATAATAAAA
1 GAAATAATAATAAAA
17359402 CGTACCTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (16 bp):
GAAATAATAATAAAAA
Found at i:17360828 original size:52 final size:52
Alignment explanation
Indices: 17360772--17360890 Score: 139
Period size: 52 Copynumber: 2.2 Consensus size: 52
17360762 AAATGTCTTG
* * *
17360772 TATATTATTTATTTTAAATTTCTTTTTACATAACATTTATTTTAAACTCATTTA
1 TATATTATTTATCTTAAA-TT-ATTTTACATAACATTCATTTTAAACTCATTTA
** ** *
17360826 TATATTATTTATCTTAAATTATTTTACATATTATTCATTTTAAACTTTTTCTG
1 TATATTATTTATCTTAAATTATTTTACATAACATTCATTTTAAACTCATT-TA
17360879 TATATTATTTAT
1 TATATTATTTAT
17360891 TTCAAACTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
52 24 0.43
53 15 0.27
54 17 0.30
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (52 bp):
TATATTATTTATCTTAAATTATTTTACATAACATTCATTTTAAACTCATTTA
Found at i:17360835 original size:26 final size:26
Alignment explanation
Indices: 17360772--17360898 Score: 94
Period size: 26 Copynumber: 4.8 Consensus size: 26
17360762 AAATGTCTTG
* *
17360772 TATATTATTTATTTTAAATTTCTTTTTA
1 TATATTATTTATTTTAAA-CTC-ATTTA
* **
17360800 CATAACATTTATTTTAAACTCATTTA
1 TATATTATTTATTTTAAACTCATTTA
* *
17360826 TATATTATTTATCTTAAA-TTATTTTA
1 TATATTATTTATTTTAAACTCA-TTTA
* * ** *
17360852 CATATTATTCATTTTAAACTTTTTCTG
1 TATATTATTTATTTTAAACTCATT-TA
*
17360879 TATATTATTTATTTCAAACT
1 TATATTATTTATTTTAAACT
17360899 TTCGCCTATA
Statistics
Matches: 78, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
25 2 0.03
26 39 0.50
27 22 0.28
28 15 0.19
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.57
Consensus pattern (26 bp):
TATATTATTTATTTTAAACTCATTTA
Found at i:17369882 original size:16 final size:17
Alignment explanation
Indices: 17369841--17369886 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
17369831 TTTTAAATAT
17369841 ATTT-TCTAATATAAAA
1 ATTTATCTAATATAAAA
**
17369857 AAATAT-TAAT-TAAAA
1 ATTTATCTAATATAAAA
17369872 ATTTATCTAATATAA
1 ATTTATCTAATATAA
17369887 CAAAATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
15 9 0.39
16 10 0.43
17 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTATCTAATATAAAA
Found at i:17372840 original size:50 final size:49
Alignment explanation
Indices: 17372724--17372855 Score: 157
Period size: 50 Copynumber: 2.8 Consensus size: 49
17372714 TCACTTGGGT
* *
17372724 CATT-TGTGTGAGCTAGTGTAAGA-CATGTCTGGGACATGTATCGGCCA
1 CATTATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCA
*
17372771 CATTA--TGAGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGG-GA
1 CATTATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATG-CATCGGCCA
** *
17372818 TGGTTATGTGAGAGCTAGTGTAAGACCATGTTTGGGAC
1 -CATTATGTGAGAGCTAGTGTAAGACCATGTCTGGGAC
17372856 TTGGCATAAG
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
46 16 0.22
47 20 0.27
48 8 0.11
50 29 0.40
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (49 bp):
CATTATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCA
Found at i:17376894 original size:40 final size:40
Alignment explanation
Indices: 17376811--17377028 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
17376801 ACCCAAGTAT
** * *
17376811 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
17376849 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
17376889 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
17376929 CTTCGGGTCTTAGCCTGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
17376969 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
17377009 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGTCTTAGCCCGGAT
17377029 GTCATTCGAC
Statistics
Matches: 150, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.11
40 121 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:17395236 original size:12 final size:12
Alignment explanation
Indices: 17395219--17395248 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17395209 ATTCAAGGAC
17395219 TGATGAGGAACA
1 TGATGAGGAACA
17395231 TGATGAGGAACA
1 TGATGAGGAACA
*
17395243 CGATGA
1 TGATGA
17395249 ACATCTCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.33, T:0.17
Consensus pattern (12 bp):
TGATGAGGAACA
Found at i:17396898 original size:44 final size:44
Alignment explanation
Indices: 17396835--17396920 Score: 172
Period size: 44 Copynumber: 2.0 Consensus size: 44
17396825 GCTACCAGAG
17396835 TTTGCTTACAATAATAGCTACCAGTCTAGCATACAGATGGCACC
1 TTTGCTTACAATAATAGCTACCAGTCTAGCATACAGATGGCACC
17396879 TTTGCTTACAATAATAGCTACCAGTCTAGCATACAGATGGCA
1 TTTGCTTACAATAATAGCTACCAGTCTAGCATACAGATGGCA
17396921 GCTTACGAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (44 bp):
TTTGCTTACAATAATAGCTACCAGTCTAGCATACAGATGGCACC
Found at i:17399126 original size:46 final size:46
Alignment explanation
Indices: 17399071--17399292 Score: 286
Period size: 46 Copynumber: 4.8 Consensus size: 46
17399061 ATTTGGGCAT
* * *
17399071 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *** * * * *
17399117 CTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
*
17399162 ATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
17399210 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
17399256 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
17399293 CAGGTTACAT
Statistics
Matches: 151, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
45 2 0.01
46 115 0.76
47 31 0.21
48 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:17399225 original size:93 final size:93
Alignment explanation
Indices: 17399066--17399237 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
17399056 AGGATATTTG
* * *
17399066 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
17399131 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
17399159 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
17399224 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
17399238 ACTTATGGAT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:17403376 original size:46 final size:46
Alignment explanation
Indices: 17403309--17403478 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
17403299 CCCGCCCCTG
17403309 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATA
* * * *
17403355 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTC
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCATCCATA
* * * *
17403403 A-CGAACTCGGACTCAACTCAACGA-CTTTGGACATTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGC-TCGGGCGTTCGCATCCATA
*
17403448 AGTGAACTCGGACTCAACTCAACGAGTTCGG
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG
17403479 ATGCTCAACC
Statistics
Matches: 98, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 55 0.56
47 25 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATA
Found at i:17403419 original size:93 final size:93
Alignment explanation
Indices: 17403312--17403482 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
17403302 GCCCCTGAGT
* *
17403312 GAACTCGGACTCAACTCAACGAGC-TCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGA-CTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17403376 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
17403405 GAACTCGGACTCAACTCAACGACTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGACTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17403470 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17403483 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGACTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:17404026 original size:228 final size:229
Alignment explanation
Indices: 17403629--17404086 Score: 873
Period size: 228 Copynumber: 2.0 Consensus size: 229
17403619 TAGTAAACAG
*
17403629 AATTTGCATATTACTCAACATTAACCACAAAGCATAATATTTCACGATAAAAAAATCAGCATATC
1 AATTTGCATATTACTCAACATTAACCACAAAGCATAATATTTCACGATAAAAAAATCAACATATC
17403694 ATATAATTAACATCAATAACTTAAAAATAACAATTATGCTACATTATTTACACATGAACTTACCT
66 ATATAATTAACATCAATAACTTAAAAATAACAATTATGCTACATTATTTACACATGAACTTACCT
*
17403759 TGTATGCGAAAATGGCTACTTTTACCATTTCGTCCACAACTTGGTATTTTTCCATTTTAGCCCGA
131 CGTATGCGAAAATGGCTACTTTTACCATTTCGTCCACAACTTGGTATTTTTCCATTTTAGCCCGA
17403824 ATTTCAGTTTTCCTTGCTCTATCATTT-AAATAT
196 ATTTCAGTTTTCCTTGCTCTATCATTTAAAATAT
17403857 AATTTGCATATTACTCAACATTAACCACAAAGCATAATATTTCACGATAAAAAAATCAACATATC
1 AATTTGCATATTACTCAACATTAACCACAAAGCATAATATTTCACGATAAAAAAATCAACATATC
*
17403922 ATATAATTAACATCAATAACTTAAAAATAACAATTATGCTACATTATTTACAGATGAACTTACCT
66 ATATAATTAACATCAATAACTTAAAAATAACAATTATGCTACATTATTTACACATGAACTTACCT
*
17403987 CGTATGCGAAAATGGCTACTTTTACCATTTTGTCCACAACTTGGTATTTTTCCATTTTAGCCCGA
131 CGTATGCGAAAATGGCTACTTTTACCATTTCGTCCACAACTTGGTATTTTTCCATTTTAGCCCGA
17404052 ATTTCAGTTTTCCTTGCTCTATCATTTAAAATAT
196 ATTTCAGTTTTCCTTGCTCTATCATTTAAAATAT
17404086 A
1 A
17404087 GTCTAATTAG
Statistics
Matches: 225, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
228 218 0.97
229 7 0.03
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (229 bp):
AATTTGCATATTACTCAACATTAACCACAAAGCATAATATTTCACGATAAAAAAATCAACATATC
ATATAATTAACATCAATAACTTAAAAATAACAATTATGCTACATTATTTACACATGAACTTACCT
CGTATGCGAAAATGGCTACTTTTACCATTTCGTCCACAACTTGGTATTTTTCCATTTTAGCCCGA
ATTTCAGTTTTCCTTGCTCTATCATTTAAAATAT
Found at i:17405185 original size:75 final size:76
Alignment explanation
Indices: 17405062--17405217 Score: 287
Period size: 75 Copynumber: 2.1 Consensus size: 76
17405052 TGAAGATGAG
17405062 CAAAATTGGCTTTTAATTTTGTATTTTAATTCATTTTACCCCTAAATGACCAAAATGCCCTTACT
1 CAAAATTGGCTTTTAATTTTGTATTTTAATTCATTTTACCCCTAAATGACCAAAATGCCCTTACT
17405127 ACTAAACTTT-
66 ACTAAACTTTC
* *
17405137 CAAAATTGGCTTTTAATTTTGTATTTTAATTCATTTTACCCCTCAATGACCAAAATGCCCTTAGT
1 CAAAATTGGCTTTTAATTTTGTATTTTAATTCATTTTACCCCTAAATGACCAAAATGCCCTTACT
17405202 ACTAAACTTTC
66 ACTAAACTTTC
17405213 CAAAA
1 CAAAA
17405218 ATTCCATCCA
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
75 73 0.94
76 5 0.06
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.40
Consensus pattern (76 bp):
CAAAATTGGCTTTTAATTTTGTATTTTAATTCATTTTACCCCTAAATGACCAAAATGCCCTTACT
ACTAAACTTTC
Found at i:17405238 original size:75 final size:74
Alignment explanation
Indices: 17405084--17405238 Score: 186
Period size: 75 Copynumber: 2.1 Consensus size: 74
17405074 TTAATTTTGT
**
17405084 ATTTTAATTCATTTTACCCCTAAATGACCAAAATGCCCTTACTACTAAACTTTCAAAATTGGCTT
1 ATTTTAATTCATTTTACCCCTAAATGACCAAAATGCCCTTACTACTAAACTTTCAAAATT-GCCA
* * ***
17405149 TTAATTTTGT
65 TCAATGTCCA
* *
17405159 ATTTTAATTCATTTTACCCCTCAATGACCAAAATGCCCTTAGTACTAAACTTTCCAAAAATT-CC
1 ATTTTAATTCATTTTACCCCTAAATGACCAAAATGCCCTTACTACTAAACTTT-C-AAAATTGCC
*
17405223 ATCCATGTCCA
64 ATCAATGTCCA
17405234 ATTTT
1 ATTTT
17405239 TGTCCATAGA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
75 61 0.90
76 1 0.01
77 6 0.09
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (74 bp):
ATTTTAATTCATTTTACCCCTAAATGACCAAAATGCCCTTACTACTAAACTTTCAAAATTGCCAT
CAATGTCCA
Found at i:17411362 original size:5 final size:5
Alignment explanation
Indices: 17411352--17411381 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
17411342 AACTTTTCCT
17411352 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTT
17411382 TCTCTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:17411402 original size:18 final size:18
Alignment explanation
Indices: 17411368--17411414 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
17411358 TTTATTTTAT
* *
17411368 TTTATTTTTATTTTTCTC
1 TTTATTTTTCTTGTTCTC
*
17411386 TTTATTTTTCTTGTTCTT
1 TTTATTTTTCTTGTTCTC
*
17411404 TTTCTTTTTCT
1 TTTATTTTTCT
17411415 ACAGTCTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.06, C:0.13, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTATTTTTCTTGTTCTC
Found at i:17411408 original size:6 final size:6
Alignment explanation
Indices: 17411367--17411414 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
17411357 TTTTATTTTA
* * * * *
17411367 TTTTAT TTTTAT TTTTCT CTTTAT TTTTCT TGTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
17411415 ACAGTCTCTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTCT
Found at i:17414734 original size:49 final size:50
Alignment explanation
Indices: 17414638--17414735 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 50
17414628 ATGCCGAAAT
17414638 TATTTAAGCAACTAAAGAAAATTCAAAACAACTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAAGAAAATTCAAAACAACTTAATTAATTAAACTAAG
*
17414688 TATTTACGCAACTAAAGAAAATT-AAAACAA-TTGAATTAATTAAACTAA
1 TATTTAAGCAACTAAAGAAAATTCAAAACAACTT-AATTAATTAAACTAA
17414736 ACATATTAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
48 2 0.04
49 22 0.48
50 22 0.48
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (50 bp):
TATTTAAGCAACTAAAGAAAATTCAAAACAACTTAATTAATTAAACTAAG
Found at i:17424470 original size:30 final size:29
Alignment explanation
Indices: 17424424--17424480 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
17424414 TTCCCGAGCA
*
17424424 TAGGGGAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAATGTAATTATGCAAAAGTT
* *
17424453 TAGGGGCAAAAATGTAATTTTGCCAAAG
1 TAGGGG-AAAAATGTAATTATGCAAAAG
17424481 CTCGTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.40, C:0.07, G:0.26, T:0.26
Consensus pattern (29 bp):
TAGGGGAAAAATGTAATTATGCAAAAGTT
Found at i:17425451 original size:34 final size:34
Alignment explanation
Indices: 17425405--17425471 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
17425395 TTTGACAAGT
* *
17425405 CGGCTTGGGAATCGGGATAGGTCGAAGACTCGTC
1 CGGCTTGAGAATCAGGATAGGTCGAAGACTCGTC
17425439 CGGCTTGAGAATCAGGATAGGTCGAAGACTCGT
1 CGGCTTGAGAATCAGGATAGGTCGAAGACTCGT
17425472 TCACACTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (34 bp):
CGGCTTGAGAATCAGGATAGGTCGAAGACTCGTC
Found at i:17426926 original size:19 final size:19
Alignment explanation
Indices: 17426888--17426927 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
17426878 AAAGTGTCAT
*
17426888 ATTAATTTTAATTAATTTG
1 ATTAATTTTAATTAACTTG
17426907 ATTAA-TTTAATTATACTTG
1 ATTAATTTTAATTA-ACTTG
17426926 AT
1 AT
17426928 CAAAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTAATTTTAATTAACTTG
Found at i:17430296 original size:42 final size:42
Alignment explanation
Indices: 17430249--17430358 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 42
17430239 AGATTACGCG
* *
17430249 TAAGACCATATCTGGGATATGGCATCGATATGAGA-CTTCATC
1 TAAGACCATATCTGGGATATGGCATCGATACGAGATC-ACATC
* * * * *
17430291 TAAGACCATAGCTGGGCTATTGGCATTGGTACGAGATCACATG
1 TAAGACCATATCTGGGATA-TGGCATCGATACGAGATCACATC
*
17430334 TAAGACCATATCTGGGATGTGGCAT
1 TAAGACCATATCTGGGATATGGCAT
17430359 TGGTACAGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 23 0.41
43 32 0.57
44 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCGATACGAGATCACATC
Found at i:17430338 original size:43 final size:42
Alignment explanation
Indices: 17430248--17430377 Score: 124
Period size: 42 Copynumber: 3.1 Consensus size: 42
17430238 GAGATTACGC
* * * *
17430248 GTAAGACCATATCTGGG-ATATGGCATCGATATGAGACTTCAT
1 GTAAGACCATATCTGGGTAT-TGGCATTGGTACGAGACTACAT
* *
17430290 CTAAGACCATAGCTGGGCTATTGGCATTGGTACGAGA-TCACAT
1 GTAAGACCATATCTGGG-TATTGGCATTGGTACGAGACT-ACAT
*
17430333 GTAAGACCATATCTGGG-ATGTGGCATTGGTAC-AGTACTACGT
1 GTAAGACCATATCTGGGTAT-TGGCATTGGTACGAG-ACTACAT
17430375 GTA
1 GTA
17430378 CGAGATTCTC
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
41 4 0.05
42 35 0.48
43 32 0.44
44 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (42 bp):
GTAAGACCATATCTGGGTATTGGCATTGGTACGAGACTACAT
Found at i:17433662 original size:28 final size:28
Alignment explanation
Indices: 17433576--17433665 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 28
17433566 TGAGCATGAC
*
17433576 TATAAATGTGAATTGGG-CTTGATGGACCA
1 TATAAATGTG-ATTGGGCCTAG-TGGACCA
* * *
17433605 TAAAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGACCA
* *
17433634 TATAAATATGATTGGGCCTAGTGGCCCA
1 TATAAATGTGATTGGGCCTAGTGGACCA
17433662 TATA
1 TATA
17433666 CAGGTATGTG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 20 0.39
29 29 0.57
30 2 0.04
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGACCA
Found at i:17435228 original size:43 final size:42
Alignment explanation
Indices: 17435157--17435329 Score: 197
Period size: 43 Copynumber: 4.1 Consensus size: 42
17435147 CACATAAGCT
* * * * *
17435157 CATACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCA
1 CATATAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
* * *
17435198 CATATCAATGCCACTGTCCCAGACAGGGTCTTACACGAAATCA
1 CATAT-AATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
* *
17435241 -ATTAATGATGCCAATGTCCCAGACATGGTCTTACACGTAATCT
1 CA-T-ATAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
*
17435284 CAATATAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
1 C-ATATAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
17435327 CAT
1 CAT
17435330 CTCGATAACC
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
41 4 0.04
42 9 0.08
43 93 0.85
44 3 0.03
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (42 bp):
CATATAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
Found at i:17449740 original size:30 final size:30
Alignment explanation
Indices: 17449706--17449772 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
17449696 ATGAGAGTAT
17449706 AGGCCCACATAGGCCCGCAATATGGGTTGG
1 AGGCCCACATAGGCCCGCAATATGGGTTGG
* *
17449736 AGGCCCACATGGGCCCGCAATATGGGTTGT
1 AGGCCCACATAGGCCCGCAATATGGGTTGG
17449766 AGGCCCA
1 AGGCCCA
17449773 TTATCACTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.16
Consensus pattern (30 bp):
AGGCCCACATAGGCCCGCAATATGGGTTGG
Found at i:17450219 original size:33 final size:34
Alignment explanation
Indices: 17450177--17450263 Score: 133
Period size: 33 Copynumber: 2.6 Consensus size: 34
17450167 GCATACTATG
17450177 CTGAAATGGGCTAAGGCCCAGACTGCCT-CTG-TA
1 CTGAAATGGGCTAAGGCCCAGACTG-CTGCTGTTA
*
17450210 CTGAAATGGGCTCAGGCCCAGACTGCTGCTGTTA
1 CTGAAATGGGCTAAGGCCCAGACTGCTGCTGTTA
17450244 CTGAAAATGGGCTAAGGCCC
1 CTG-AAATGGGCTAAGGCCC
17450264 CTAACTGAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
32 2 0.04
33 27 0.55
34 5 0.10
35 15 0.31
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (34 bp):
CTGAAATGGGCTAAGGCCCAGACTGCTGCTGTTA
Found at i:17456926 original size:21 final size:21
Alignment explanation
Indices: 17456902--17456943 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17456892 GGCTCATTTT
*
17456902 CAATAAGCAAGGTGTAGGGTC
1 CAATAAGCAAGGCGTAGGGTC
*
17456923 CAATAAGCAAGGCGTTGGGTC
1 CAATAAGCAAGGCGTAGGGTC
17456944 GATTGCTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.33, T:0.19
Consensus pattern (21 bp):
CAATAAGCAAGGCGTAGGGTC
Found at i:17457481 original size:18 final size:19
Alignment explanation
Indices: 17457440--17457481 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
17457430 GATGGGCTGA
*
17457440 ATTAGGCTGTGTGGGCCCG
1 ATTAGGCTGTGTGGGCCCC
17457459 A-TAGGCT-TGTGGGCCCC
1 ATTAGGCTGTGTGGGCCCC
17457476 ATTAGG
1 ATTAGG
17457482 AAAAATCGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 10 0.48
18 10 0.48
19 1 0.05
ACGTcount: A:0.14, C:0.21, G:0.38, T:0.26
Consensus pattern (19 bp):
ATTAGGCTGTGTGGGCCCC
Found at i:17469331 original size:47 final size:47
Alignment explanation
Indices: 17469250--17469737 Score: 744
Period size: 47 Copynumber: 10.4 Consensus size: 47
17469240 AATGTGAAAG
*
17469250 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
17469298 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * *
17469345 GGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
17469392 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
17469439 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACG
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
17469486 TGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
17469533 TGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTAAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
17469580 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * *
17469627 TGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
17469674 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
17469720 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
17469738 TCCCGAAGGA
Statistics
Matches: 405, Mismatches: 34, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 392 0.97
48 12 0.03
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:17469333 original size:22 final size:22
Alignment explanation
Indices: 17469306--17469380 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
17469296 CATGTATATG
17469306 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * **
17469328 TGTGATGAATG-TGAATAGGTGTATA
1 TGTGAT-AAGGCCGAAT-GG-CCA-A
17469353 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
17469375 TGTGAT
1 TGTGAT
17469381 GAAAGTGAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.31, C:0.11, G:0.32, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:17471455 original size:65 final size:65
Alignment explanation
Indices: 17471351--17471481 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
17471341 GCTTTTCATC
*
17471351 CCCAAACCGATGGTCAATCCGAGCGGATAATTCAAATACTCGAGGATATGTTGAGATGTTGCATT
1 CCCAAACCGATGGTCAATCCGAGCGGATAATTCAAATACTCGAGGATATGTTGAGATGCTGCATT
17471416 CCCAAACCGATGGTCAATCCGAGCGGATAATTCAAATACTCGAGGATATGTTGAGATGCTGCATT
1 CCCAAACCGATGGTCAATCCGAGCGGATAATTCAAATACTCGAGGATATGTTGAGATGCTGCATT
17471481 C
1 C
17471482 TTGAGTTTAG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (65 bp):
CCCAAACCGATGGTCAATCCGAGCGGATAATTCAAATACTCGAGGATATGTTGAGATGCTGCATT
Found at i:17471686 original size:69 final size:69
Alignment explanation
Indices: 17471575--17471712 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
17471565 GCACCTTACG
17471575 AGGCTTTGTACGGTCGAAAATGCCGTACACCATTGTTTTGGACCGAGCTCGGTGAAAGAAAAATT
1 AGGCTTTGTACGGTCGAAAATGCCGTACACCATTGTTTTGGACCGAGCTCGGTGAAAGAAAAATT
17471640 TTCA
66 TTCA
*
17471644 AGGCTTTGTACGGTCGTAAATGCCGTACACCATTGTTTTGGACCGAGCTCGGTGAAAGAAAAATT
1 AGGCTTTGTACGGTCGAAAATGCCGTACACCATTGTTTTGGACCGAGCTCGGTGAAAGAAAAATT
17471709 TTCA
66 TTCA
17471713 GAGTTGATTT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (69 bp):
AGGCTTTGTACGGTCGAAAATGCCGTACACCATTGTTTTGGACCGAGCTCGGTGAAAGAAAAATT
TTCA
Found at i:17477893 original size:43 final size:43
Alignment explanation
Indices: 17477834--17477925 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
17477824 AATAGTGGCA
* * *
17477834 TTTTTTCTAAGCGCCGCTAAAGAACATGTTCTGTAGCGGCGTT
1 TTTTTTCAAAGCGCCGCAAAAGAACATGGTCTGTAGCGGCGTT
* *
17477877 TTTTTTCAAAGCGCCGCAAAAGAACATGGTCTTTAGCGGCTTT
1 TTTTTTCAAAGCGCCGCAAAAGAACATGGTCTGTAGCGGCGTT
17477920 TTTTTT
1 TTTTTT
17477926 TTGTAAACGC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (43 bp):
TTTTTTCAAAGCGCCGCAAAAGAACATGGTCTGTAGCGGCGTT
Found at i:17479979 original size:82 final size:81
Alignment explanation
Indices: 17479890--17480538 Score: 718
Period size: 82 Copynumber: 7.9 Consensus size: 81
17479880 GGTTTATTTC
* *
17479890 ATCTGCTCCACTACTGCTTAGGGAGATAAGACT-TGAGGC-GATCTGCTCCACTACTGCTTTGAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTGTGAGGCTG-TCTGCTCCACTACTGCTTAGGG
*
17479953 AGATAAGATCTGTG-GTTCTG
65 AGATAAGA-CT-TGAG-GC-G
* *
17479973 -TTTGCTCCACTACTGCTTAGGGAGATAAGACT-TGAGGC-GATCTACTCCACTACTGCTTAGGG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTGTGAGGCTG-TCTGCTCCACTACTGCTTAGGG
* **
17480035 AGATAAGA-TATGTGGTT
65 AGATAAGACT-TGAGGCG
* *
17480052 ATGTTTGCTCCACTACTGCTTAGGGAGATAAGA-T-TTATGGTTCTGTCTGCTCCACTACTGCTT
1 A--TCTGCTCCACTACTGCTTAGGGAGATAAGACTGTGA-GG--CTGTCTGCTCCACTACTGCTT
17480115 AGGGAGATAAGACTTGAGGCG
61 AGGGAGATAAGACTTGAGGCG
* * *
17480136 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTG-GTTCTGTCTACTCCACTACTGCTTAGG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGTGAG-GCTGTCTGCTCCACTACTGCTTAGG
17480200 GAGATAAGACTTGAGGCG
64 GAGATAAGACTTGAGGCG
* *
17480218 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTGTTTGCTCCACTACTGCTTAGG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGTGAG-GCTGTCTGCTCCACTACTGCTTAGG
17480282 GAGATAAGACTTGAGGCG
64 GAGATAAGACTTGAGGCG
* *
17480300 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTGTTTGCTCCACTACTGCTTAGG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGTGAG-GCTGTCTGCTCCACTACTGCTTAGG
17480364 GAGATAAGACTTGAGGCG
64 GAGATAAGACTTGAGGCG
* ** *
17480382 ATCTGCTCCACTACTGCTTAGGGAGATAAGATATGTG-GTTATGTTTGCTCCACTACTGCTTAGG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGTGAG-GCTGTCTGCTCCACTACTGCTTAGG
* **
17480446 GAGATAAGA-TATGTGGTT
64 GAGATAAGACT-TGAGGCG
* *
17480464 ATGTTTGCTCCACTACTGCTTAGGGAGATAAGA-T-TTATGGTTCTGTCTGCTCCACTACTGCTT
1 A--TCTGCTCCACTACTGCTTAGGGAGATAAGACTGTGA-GG--CTGTCTGCTCCACTACTGCTT
17480527 AGGGAGATAAGA
61 AGGGAGATAAGA
17480539 TCTCTGGTTT
Statistics
Matches: 515, Mismatches: 31, Indels: 39
0.88 0.05 0.07
Matches are distributed among these distances:
80 3 0.01
81 6 0.01
82 405 0.79
83 2 0.00
84 96 0.19
85 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (81 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGACTGTGAGGCTGTCTGCTCCACTACTGCTTAGGGA
GATAAGACTTGAGGCG
Found at i:17479988 original size:42 final size:42
Alignment explanation
Indices: 17479891--17480547 Score: 786
Period size: 42 Copynumber: 15.9 Consensus size: 42
17479881 GTTTATTTCA
*
17479891 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-G
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG
* *
17479930 ATCTGCTCCACTACTGCTTTGAGAGATAAGATCTGTGGTTCTG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG
* *
17479973 TTTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-G
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG
* * *
17480012 ATCTACTCCACTACTGCTTAGGGAGATAAGATATGTGGTTATG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG
* * *
17480055 TTTGCTCCACTACTGCTTAGGGAGATAAGATTTATGGTTCTG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG
*
17480097 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-G
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG
*
17480136 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTCTG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG
* *
17480179 TCTACTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-G
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG
17480218 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG
* *
17480261 TTTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-G
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG
17480300 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG
* *
17480343 TTTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-G
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG
* *
17480382 ATCTGCTCCACTACTGCTTAGGGAGATAAGATATGTGGTTATG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG
* * *
17480425 TTTGCTCCACTACTGCTTAGGGAGATAAGATATGTGGTTATG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG
* * *
17480467 TTTGCTCCACTACTGCTTAGGGAGATAAGATTTATGGTTCTG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG
*
17480509 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTCTGGTT
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
17480548 TTAATCCGCT
Statistics
Matches: 539, Mismatches: 44, Indels: 66
0.83 0.07 0.10
Matches are distributed among these distances:
39 5 0.01
40 187 0.35
41 30 0.06
42 311 0.58
43 6 0.01
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (42 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG
Found at i:17480245 original size:206 final size:206
Alignment explanation
Indices: 17479891--17480538 Score: 976
Period size: 206 Copynumber: 3.1 Consensus size: 206
17479881 GTTTATTTCA
* *
17479891 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTTGAGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAGA
* *
17479956 TAAGATCTGTGGTTCTGTTTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTACTCC
66 TAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCC
17480021 ACTACTGCTTAGGGAGATAAGATATGTGGTTATGTTTGCTCCACTACTGCTTAGGGAGATAAGAT
131 ACTACTGCTTAGGGAGATAAGATATGTGGTTATGTTTGCTCCACTACTGCTTAGGGAGATAAGAT
17480086 TTATGGTTCTG
196 TTATGGTTCTG
*
17480097 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTACTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAGA
*
17480162 TAAGATCTGTGGTTCTGTCTACTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCC
66 TAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCC
* *
17480227 ACTACTGCTTAGGGAGATAAGATCTGTGGTTCTGTTTGCTCCACTACTGCTTAGGGAGATAAGAC
131 ACTACTGCTTAGGGAGATAAGATATGTGGTTATGTTTGCTCCACTACTGCTTAGGGAGATAAGA-
*
17480292 TTGA-GG--C-G
195 TTTATGGTTCTG
* *
17480300 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG-TTTGCTCCACTACTGCTTAG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-GATCTGCTCCACTACTGCTTAG
* * **
17480363 GGAGATAAGA-CT-TGAG-GC-GATCTGCTCCACTACTGCTTAGGGAGATAAGA-TATGTGGTTA
61 GGAGATAAGATCTGTG-GTTCTG-TCTGCTCCACTACTGCTTAGGGAGATAAGACT-TGAGGCGA
*
17480423 TGTTTGCTCCACTACTGCTTAGGGAGATAAGATATGTGGTTATGTTTGCTCCACTACTGCTTAGG
123 --TCTGCTCCACTACTGCTTAGGGAGATAAGATATGTGGTTATGTTTGCTCCACTACTGCTTAGG
17480488 GAGATAAGATTTATGGTTCTG
186 GAGATAAGATTTATGGTTCTG
17480509 TCTGCTCCACTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
17480539 TCTCTGGTTT
Statistics
Matches: 406, Mismatches: 21, Indels: 28
0.89 0.05 0.06
Matches are distributed among these distances:
203 3 0.01
204 68 0.17
205 9 0.02
206 290 0.71
207 4 0.01
208 31 0.08
209 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (206 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCC
ACTACTGCTTAGGGAGATAAGATATGTGGTTATGTTTGCTCCACTACTGCTTAGGGAGATAAGAT
TTATGGTTCTG
Found at i:17481418 original size:100 final size:100
Alignment explanation
Indices: 17480603--17481395 Score: 1255
Period size: 100 Copynumber: 7.9 Consensus size: 100
17480593 TCAAATTGAC
** * * * * *
17480603 TGCAATGTCGGGGAAATAAGATTCGCCGTTGTAACTTCAATCTGTTCCACTGCACCGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCATCGCCATGGAA
*
17480668 GTAAGATTCGCCGTTGCGGGTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
*
17480703 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTACATCGCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCATCGCCATGGAA
* *
17480768 GTAAGATTCGCCATTGCAGCTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * *
17480803 TGCAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAATCTGCTCCACTGCATCGCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCATCGCCATGGAA
*
17480868 GTAAGATTCGCCTTTGCGGCTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
*
17480903 TGCAATGTCAGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCATCGCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCATCGCCATGGAA
*
17480968 GTAAGATTCGCCGTTGCGGCCTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* *
17481003 TGCAATGTCGAGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCCACTGCATCGCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCATCGCCATGGAA
*
17481068 GTAAGATTCGCCTTTGCGGCTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * *
17481103 TGCAATGTCGGGGAAACAAGATTCACTGTTGTAGCTTTAATCTGCTCCACTGCATCGCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCATCGCCATGGAA
*
17481168 GTAAGATTCGCCTTTGCGGCTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* *
17481203 TGCAATGTCGGGGAAACAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCATCGCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCATCGCCATGGAA
* *
17481268 GTAAGATTCGCCGTTGCAGCCTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * *
17481303 TGCAATGTCGAGGAAGCAAGATTCGTCGTTGTAGCTTTAATCTGCCCCACTGCATCACC-TGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCATCGCCATGG-A
* **
17481367 AGTAAGATTTGCCGTTGTAGCTTCAATCT
65 AGTAAGATTCGCCGTTGCGGCTTCAATCT
17481396 GCTCCACTAC
Statistics
Matches: 646, Mismatches: 46, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
99 3 0.00
100 643 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (100 bp):
TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCATCGCCATGGAA
GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
Found at i:17481731 original size:24 final size:24
Alignment explanation
Indices: 17481698--17481755 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
17481688 CCGGACTGCC
17481698 CCACTGTAATCTTCAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
* * *
17481722 CCACTATAATCTTCAAGGTTCAGT
1 CCACTGTAATCTTCAAAGTTCAAT
17481746 CCACTGTAAT
1 CCACTGTAAT
17481756 TTAGGGACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:17482389 original size:97 final size:93
Alignment explanation
Indices: 17482227--17482408 Score: 267
Period size: 97 Copynumber: 1.9 Consensus size: 93
17482217 CAAAAATGCT
*
17482227 TGAAAAAGATTATCACAATGGATAAAATTTTATTGAGAACAAAGCTCGAAATGAATAAATTAATC
1 TGAAAAAGATTATCACAATGGATAAAATTTTATTGAGAACAAAGCTCGAAATGAATAAATCAATC
*
17482292 AAGATAGCAAA-TTTTGCTAAGATAAGA
66 AAGATAACAAATTTTTGCTAAGATAAGA
* **
17482319 TGAAAAAGATTATCACAATGGATAAGGTGAAATTTTATTGAGAACAAAGCTTGAAATGAATGGAT
1 TGAAAAAGATTATCACAATGGAT-A----AAATTTTATTGAGAACAAAGCTCGAAATGAATAAAT
17482384 CAATCAAGATAACAAATTTTTGCTA
61 CAATCAAGATAACAAATTTTTGCTA
17482409 GAATGAGAAT
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
92 23 0.29
93 1 0.01
97 47 0.59
98 8 0.10
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (93 bp):
TGAAAAAGATTATCACAATGGATAAAATTTTATTGAGAACAAAGCTCGAAATGAATAAATCAATC
AAGATAACAAATTTTTGCTAAGATAAGA
Found at i:17483228 original size:9 final size:9
Alignment explanation
Indices: 17483214--17483275 Score: 63
Period size: 9 Copynumber: 7.0 Consensus size: 9
17483204 CCCAGTAGAG
17483214 GTTTTTTTT
1 GTTTTTTTT
17483223 GTTTTTTTT
1 GTTTTTTTT
* *
17483232 GTCTCTTTT
1 GTTTTTTTT
*
17483241 GTTCTTTTT
1 GTTTTTTTT
*
17483250 -TTATTTTT
1 GTTTTTTTT
* *
17483258 GTGTTTTTG
1 GTTTTTTTT
17483267 GTTTTTTTT
1 GTTTTTTTT
17483276 TTGCCTTCAC
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
8 7 0.17
9 34 0.83
ACGTcount: A:0.02, C:0.05, G:0.13, T:0.81
Consensus pattern (9 bp):
GTTTTTTTT
Found at i:17483256 original size:26 final size:26
Alignment explanation
Indices: 17483213--17483277 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
17483203 CCCCAGTAGA
* *
17483213 GGTTTTTTTTGTTTTTTTTGTCTCTTTT
1 GGTTCTTTTT-TTATTTTTGTCT-TTTT
*
17483241 -GTTCTTTTTTTATTTTTGTGTTTTT
1 GGTTCTTTTTTTATTTTTGTCTTTTT
*
17483266 GGTTTTTTTTTT
1 GGTTCTTTTTTT
17483278 GCCTTCACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 4 0.12
26 20 0.62
27 8 0.25
ACGTcount: A:0.02, C:0.05, G:0.14, T:0.80
Consensus pattern (26 bp):
GGTTCTTTTTTTATTTTTGTCTTTTT
Found at i:17486037 original size:19 final size:20
Alignment explanation
Indices: 17486013--17486057 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
17486003 TTTGAAAATC
17486013 TAATGCATATG-ATGCAATG
1 TAATGCATATGTATGCAATG
*
17486032 TAATGCATATGTATGGAATG
1 TAATGCATATGTATGCAATG
17486052 -AATGCA
1 TAATGCA
17486058 AAAAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (20 bp):
TAATGCATATGTATGCAATG
Found at i:17488030 original size:22 final size:22
Alignment explanation
Indices: 17488005--17488046 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
17487995 TACACCAAAA
*
17488005 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
17488027 TAGGCCTTTAGCGGCGCTTT
1 TAGGCCTTTAGCGGCGCTTT
17488047 GCAAAGCGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.10, C:0.21, G:0.29, T:0.40
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:17488167 original size:43 final size:43
Alignment explanation
Indices: 17488112--17488339 Score: 276
Period size: 43 Copynumber: 5.3 Consensus size: 43
17488102 TTTTTTCTAA
*
17488112 AAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* * *
17488155 AAACACTGCTAAAGACCAAGACCTTTAACGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* * *
17488198 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTCCCAT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* * * * ** *
17488241 AAATGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTATCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* * * ** *
17488284 AAACGCCACTATAGACCATGACCTTTAGCGGCGCTTCTAGCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
17488327 AAACGCCGCTAAA
1 AAACGCCGCTAAA
17488340 AACATAAACT
Statistics
Matches: 160, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 160 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
Found at i:17489148 original size:5 final size:5
Alignment explanation
Indices: 17489138--17489164 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
17489128 CTTTCTTGCC
17489138 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
17489165 AACAAGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:17489205 original size:28 final size:28
Alignment explanation
Indices: 17489173--17489233 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
17489163 AAAACAAGAA
*
17489173 TCAAATTAGTTCAA-CTCCAAGTCCTTAG
1 TCAAATCAGTTCAACCT-CAAGTCCTTAG
* *
17489201 TCAAATCAGTTCAACCTCAAGTTCTTTG
1 TCAAATCAGTTCAACCTCAAGTCCTTAG
17489229 TCAAA
1 TCAAA
17489234 AGAAAAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.33
Consensus pattern (28 bp):
TCAAATCAGTTCAACCTCAAGTCCTTAG
Found at i:17492699 original size:14 final size:14
Alignment explanation
Indices: 17492682--17492721 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
17492672 CCCTAAATCA
17492682 CTAACCACAAACCC
1 CTAACCACAAACCC
* *
17492696 CTAACCTCTAACCC
1 CTAACCACAAACCC
17492710 CTAACCACAAAC
1 CTAACCACAAAC
17492722 ATTTAACCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.40, C:0.47, G:0.00, T:0.12
Consensus pattern (14 bp):
CTAACCACAAACCC
Found at i:17492925 original size:14 final size:14
Alignment explanation
Indices: 17492896--17492960 Score: 69
Period size: 14 Copynumber: 4.6 Consensus size: 14
17492886 CGAATCCATA
*
17492896 AACCCTAAATCCCT
1 AACCCTTAATCCCT
* *
17492910 AACTCTTAATCTCT
1 AACCCTTAATCCCT
17492924 AACCCTTAATCCCT
1 AACCCTTAATCCCT
* *
17492938 AACCCCTAAATCAC-
1 AA-CCCTTAATCCCT
17492952 AACCCTTAA
1 AACCCTTAA
17492961 ACCAAAACCC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
13 6 0.14
14 27 0.64
15 9 0.21
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.26
Consensus pattern (14 bp):
AACCCTTAATCCCT
Found at i:17492955 original size:28 final size:29
Alignment explanation
Indices: 17492896--17492974 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 29
17492886 CGAATCCATA
* * * *
17492896 AACCCTAAATCCCTAA-CTCTTAATCTCT
1 AACCCTTAATCCCTAACCCCTAAATCACT
17492924 AACCCTTAATCCCTAACCCCTAAATCAC-
1 AACCCTTAATCCCTAACCCCTAAATCACT
* **
17492952 AACCCTTAAACCAAAACCCCTAA
1 AACCCTTAATCCCTAACCCCTAA
17492975 TCCATAGTCC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 35 0.81
29 8 0.19
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.23
Consensus pattern (29 bp):
AACCCTTAATCCCTAACCCCTAAATCACT
Found at i:17493092 original size:14 final size:14
Alignment explanation
Indices: 17493047--17493084 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
17493037 ATCCTAAATT
17493047 AACCATATATCCTA
1 AACCATATATCCTA
*
17493061 AACCATATACCCTA
1 AACCATATATCCTA
17493075 AACCATATAT
1 AACCATATAT
17493085 ATTAAACCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (14 bp):
AACCATATATCCTA
Found at i:17493457 original size:41 final size:41
Alignment explanation
Indices: 17493412--17493567 Score: 206
Period size: 41 Copynumber: 3.8 Consensus size: 41
17493402 AAATGTTTTT
**
17493412 GCGGCGCTTTTTTAAAAACGCCGCTAAAGCCCAGAGCATTA
1 GCGGCGCTTTTCAAAAAACGCCGCTAAAGCCCAGAGCATTA
* *
17493453 GCGGCGCTTTACAAAAAACGCCACTAAAGCCCAGAGCATTA
1 GCGGCGCTTTTCAAAAAACGCCGCTAAAGCCCAGAGCATTA
* * * * *
17493494 GCGGCGCTTTT-ACAAAAATGCTGCTAAATCCCAAAGAATTA
1 GCGGCGCTTTTCA-AAAAACGCCGCTAAAGCCCAGAGCATTA
17493535 GCGGCGCTTTTCCAAAAAACGCCGCTAAAGCCC
1 GCGGCGCTTTT-CAAAAAACGCCGCTAAAGCCC
17493568 CGAATGGTCT
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
40 1 0.01
41 80 0.82
42 16 0.16
43 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTTTCAAAAAACGCCGCTAAAGCCCAGAGCATTA
Found at i:17495519 original size:38 final size:37
Alignment explanation
Indices: 17495477--17495552 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 37
17495467 ACTCTTGTAT
* *
17495477 TGGGATCCATTTTGGTAACGTAGTTGCTCTTTTTTCCC
1 TGGGATCCATTTTGGTAAAGTAATTG-TCTTTTTTCCC
*
17495515 TGGGATCCATTTTGGTAAAGTAATTGTTTTTTTTCCC
1 TGGGATCCATTTTGGTAAAGTAATTGTCTTTTTTCCC
17495552 T
1 T
17495553 TTCCTCAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 11 0.31
38 24 0.69
ACGTcount: A:0.16, C:0.17, G:0.20, T:0.47
Consensus pattern (37 bp):
TGGGATCCATTTTGGTAAAGTAATTGTCTTTTTTCCC
Found at i:17496679 original size:23 final size:23
Alignment explanation
Indices: 17496652--17496726 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 23
17496642 GGGATAAGTT
17496652 TTATGCAAAATATAATTTTCAAG
1 TTATGCAAAATATAATTTTCAAG
* * * *
17496675 TTATGTTAATATATGAATATT-ATG
1 TTATG-CAAAATAT-AATTTTCAAG
*
17496699 TTTATGCAAAATATAATTCTCAAG
1 -TTATGCAAAATATAATTTTCAAG
17496723 TTAT
1 TTAT
17496727 TTATTACTTC
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
23 13 0.33
24 16 0.41
25 10 0.26
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (23 bp):
TTATGCAAAATATAATTTTCAAG
Found at i:17496936 original size:58 final size:57
Alignment explanation
Indices: 17496854--17496992 Score: 136
Period size: 58 Copynumber: 2.4 Consensus size: 57
17496844 TTTTTATATT
* * * * *
17496854 ATTATATATTATGATTTTAGTAAATTCATA-TAAGAATAATTTTATTAAGAATTTTATTAA
1 ATTATATATT-T-TTTTTATTAAATT-ATATTAAGAATAATTATATTAA-AATATGATTAA
* *
17496914 ATTATATATTTTTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAA
1 ATTATATATTTTTTTTATTAAATTATA-TTAAGAATAATTATATTAAAATATGATTAA
* * *
17496972 ATTATTTATTATTTATATTAA
1 ATTATATATTTTTTTTATTAA
17496993 TAATCTTATT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
57 3 0.04
58 38 0.57
59 16 0.24
60 10 0.15
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (57 bp):
ATTATATATTTTTTTTATTAAATTATATTAAGAATAATTATATTAAAATATGATTAA
Found at i:17497188 original size:45 final size:44
Alignment explanation
Indices: 17497101--17497193 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 44
17497091 ATTACAACAT
17497101 CATTCCATTCAACCAAACACAAAAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAAAATACTATTACAGTTCTATTC
* * *
17497145 CATTCCATTTAACCAAACA-ATTGAATTACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA--AAAATACTATTACAGTTCTATTC
17497190 CATT
1 CATT
17497194 ACAGCTCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.41
45 25 0.57
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAAAATACTATTACAGTTCTATTC
Found at i:17497196 original size:16 final size:16
Alignment explanation
Indices: 17497175--17497214 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
17497165 TTGAATTACT
*
17497175 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
17497191 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
17497207 GTTACAGC
1 ATTACAGC
17497215 GAACCAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.25, C:0.28, G:0.10, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:17497676 original size:27 final size:27
Alignment explanation
Indices: 17497646--17497698 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
17497636 TTTTCTAGAA
*
17497646 AAAATAA-TAATTAATTCATATAATTAT
1 AAAATAACTAATTAATTAAT-TAATTAT
*
17497673 AAAATAACTGATTAATTAATTAATTA
1 AAAATAACTAATTAATTAATTAATTA
17497699 CTCAAATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (27 bp):
AAAATAACTAATTAATTAATTAATTAT
Found at i:17503262 original size:21 final size:21
Alignment explanation
Indices: 17503236--17503275 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
17503226 TAGAATGAAT
17503236 TTGTATACTAGTCTTTCAATC
1 TTGTATACTAGTCTTTCAATC
17503257 TTGTATACTAGTCTTTCAA
1 TTGTATACTAGTCTTTCAA
17503276 ACTAGAACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
TTGTATACTAGTCTTTCAATC
Found at i:17510548 original size:35 final size:35
Alignment explanation
Indices: 17510502--17510571 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
17510492 ATCGAGGACG
17510502 TATTGGTACGTGTAGACAAATTTATTTTTCCTGCT
1 TATTGGTACGTGTAGACAAATTTATTTTTCCTGCT
*
17510537 TATTGGTACGTGTAGACAAATTTATTTTTTCTGCT
1 TATTGGTACGTGTAGACAAATTTATTTTTCCTGCT
17510572 GACTTTGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (35 bp):
TATTGGTACGTGTAGACAAATTTATTTTTCCTGCT
Found at i:17510589 original size:36 final size:35
Alignment explanation
Indices: 17510503--17510589 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 35
17510493 TCGAGGACGT
* * *
17510503 ATTGGTACGTGTAGACAAATTTATTTTTCCTGCTT
1 ATTGGTAAGTCTAGACAAATTTATTTTTCCTGCTG
* * *
17510538 ATTGGTACGTGTAGACAAATTTATTTTTTCTGCTG
1 ATTGGTAAGTCTAGACAAATTTATTTTTCCTGCTG
* *
17510573 ACTTTGTAATTCTAGAC
1 A-TTGGTAAGTCTAGAC
17510590 TTTGAAGCAG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
35 34 0.76
36 11 0.24
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (35 bp):
ATTGGTAAGTCTAGACAAATTTATTTTTCCTGCTG
Found at i:17514318 original size:16 final size:15
Alignment explanation
Indices: 17514291--17514324 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
17514281 ATAACAAGTA
*
17514291 TATAATTATATTTAT
1 TATAATTATATTAAT
17514306 TATAATATATATTAAT
1 TATAAT-TATATTAAT
17514322 TAT
1 TAT
17514325 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:17514760 original size:19 final size:19
Alignment explanation
Indices: 17514736--17514777 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
17514726 CATCTGCTCA
*
17514736 CACCGCGCCTTGCTATTCG
1 CACCGCGCCTTGCTACTCG
17514755 CACCGCGCCTTGCTACTCG
1 CACCGCGCCTTGCTACTCG
17514774 CACC
1 CACC
17514778 AACACCCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.12, C:0.48, G:0.19, T:0.21
Consensus pattern (19 bp):
CACCGCGCCTTGCTACTCG
Found at i:17515870 original size:3 final size:3
Alignment explanation
Indices: 17515862--17515886 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17515852 GAGGATCCCA
17515862 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
17515887 TCCCATAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:17517891 original size:10 final size:10
Alignment explanation
Indices: 17517876--17517977 Score: 57
Period size: 10 Copynumber: 9.8 Consensus size: 10
17517866 ATGAACATGT
17517876 TTAATTTTAA
1 TTAATTTTAA
17517886 TTAATTTTATA
1 TTAATTTTA-A
* *
17517897 TCAAATTTTGA
1 T-TAATTTTAA
*
17517908 TTAATTTTTA
1 TTAATTTTAA
17517918 TT-ATTTTCGACA
1 TTAATTTT--A-A
*
17517930 -TATTTTTAA
1 TTAATTTTAA
17517939 TTAATTTTATA
1 TTAATTTTA-A
* *
17517950 TCAAATTTTGA
1 T-TAATTTTAA
*
17517961 TTAATTTTTA
1 TTAATTTTAA
17517971 TT-ATTTT
1 TTAATTTT
17517978 CGACAGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 19
0.71 0.11 0.19
Matches are distributed among these distances:
9 11 0.15
10 35 0.49
11 9 0.12
12 17 0.24
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:17517937 original size:53 final size:53
Alignment explanation
Indices: 17517880--17517987 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
17517870 ACATGTTTAA
*
17517880 TTTTAATTAATTTTATATCAAATTTTGATTAATTTTTATTATTTTCGACATAT
1 TTTTAATTAATTTTATATCAAATTTTGATTAATTTTTATTATTTTCGACAGAT
17517933 TTTTAATTAATTTTATATCAAATTTTGATTAATTTTTATTATTTTCGACAGAT
1 TTTTAATTAATTTTATATCAAATTTTGATTAATTTTTATTATTTTCGACAGAT
17517986 TT
1 TT
17517988 GCACAAATGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (53 bp):
TTTTAATTAATTTTATATCAAATTTTGATTAATTTTTATTATTTTCGACAGAT
Found at i:17526348 original size:24 final size:24
Alignment explanation
Indices: 17526301--17526348 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17526291 AAATCTAGGT
* * * *
17526301 ACATATAAGCTTGTGATGTGATAA
1 ACATATAAGCATGTAACGTAATAA
17526325 ACATATAAGCATGTAACGTAATAA
1 ACATATAAGCATGTAACGTAATAA
17526349 GTAAATTTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (24 bp):
ACATATAAGCATGTAACGTAATAA
Found at i:17529598 original size:13 final size:13
Alignment explanation
Indices: 17529580--17529604 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17529570 ATTATTAAAA
17529580 TTTAAAAAATAAT
1 TTTAAAAAATAAT
17529593 TTTAAAAAATAA
1 TTTAAAAAATAA
17529605 AATATTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TTTAAAAAATAAT
Found at i:17529600 original size:21 final size:21
Alignment explanation
Indices: 17529557--17529599 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
17529547 CGTTCAAATC
**
17529557 AATTTAATTAATAATTATTAA
1 AATTTAAAAAATAATTATTAA
17529578 AATTTAAAAAATAATT-TTAA
1 AATTTAAAAAATAATTATTAA
17529598 AA
1 AA
17529600 AATAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTTAAAAAATAATTATTAA
Found at i:17529605 original size:20 final size:21
Alignment explanation
Indices: 17529566--17529606 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
17529556 CAATTTAATT
**
17529566 AATAATTATTAAAATTTAAAA
1 AATAATTATTAAAAAATAAAA
17529587 AATAATT-TTAAAAAATAAAA
1 AATAATTATTAAAAAATAAAA
17529607 TATTTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AATAATTATTAAAAAATAAAA
Found at i:17529608 original size:18 final size:18
Alignment explanation
Indices: 17529585--17529619 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17529575 TAAAATTTAA
17529585 AAAATAATTT-TAAAAAAT
1 AAAAT-ATTTATAAAAAAT
17529603 AAAATATTTATAAAAAA
1 AAAATATTTATAAAAAA
17529620 ATTAATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATATTTATAAAAAAT
Found at i:17529847 original size:129 final size:129
Alignment explanation
Indices: 17529701--17529968 Score: 482
Period size: 129 Copynumber: 2.1 Consensus size: 129
17529691 AAATTTTAAT
* *
17529701 TTTTACAATAGTAAAAATACAATTTCACTATTTGAATAGCCTATATCTTTATAATTTTTAAAGGA
1 TTTTAAAAAAGTAAAAATACAATTTCACTATTTGAATAGCCTATATCTTTATAATTTTTAAAGGA
* *
17529766 TTAAATCAAATTTTTATCATTTTTAAGGGCACCAAATTGTAATTTTACCTTTACTAAATTAAAA
66 TTAAATCAAATTTTTATCATTTTTAAGGACACCAAAGTGTAATTTTACCTTTACTAAATTAAAA
* *
17529830 TTTTAAAAAAGTAAAAATACAATTTCTCTATTTGAATAGCCTATATCTTTATAATTTTTAAATGA
1 TTTTAAAAAAGTAAAAATACAATTTCACTATTTGAATAGCCTATATCTTTATAATTTTTAAAGGA
17529895 TTAAATCAAATTTTTATCATTTTTAAGGACACCAAAGTGTAATTTTACCTTTACTAAATTAAAA
66 TTAAATCAAATTTTTATCATTTTTAAGGACACCAAAGTGTAATTTTACCTTTACTAAATTAAAA
17529959 TTTTAAAAAA
1 TTTTAAAAAA
17529969 TCTAAAAGGC
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 133 1.00
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.42
Consensus pattern (129 bp):
TTTTAAAAAAGTAAAAATACAATTTCACTATTTGAATAGCCTATATCTTTATAATTTTTAAAGGA
TTAAATCAAATTTTTATCATTTTTAAGGACACCAAAGTGTAATTTTACCTTTACTAAATTAAAA
Found at i:17532607 original size:10 final size:10
Alignment explanation
Indices: 17532573--17532598 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
17532563 ACAAGAAATG
17532573 CAAATTTCAA
1 CAAATTTCAA
17532583 CAAATTTCAA
1 CAAATTTCAA
17532593 CAAATT
1 CAAATT
17532599 CCAAGAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (10 bp):
CAAATTTCAA
Found at i:17532648 original size:16 final size:16
Alignment explanation
Indices: 17532627--17532657 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17532617 TAGAACTCCA
17532627 ACAAATTTCAAGAAAT
1 ACAAATTTCAAGAAAT
17532643 ACAAATTTCAAGAAA
1 ACAAATTTCAAGAAA
17532658 AACGAAATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.13, G:0.06, T:0.23
Consensus pattern (16 bp):
ACAAATTTCAAGAAAT
Found at i:17532820 original size:19 final size:20
Alignment explanation
Indices: 17532779--17532822 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17532769 AAATGGAGAA
*
17532779 AAGAAAAGAAACGTAAAGAG
1 AAGAAAAGAAACCTAAAGAG
*
17532799 AAGAAAAGAAACCT-ACGAG
1 AAGAAAAGAAACCTAAAGAG
17532818 AAGAA
1 AAGAA
17532823 GCAGAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.64, C:0.09, G:0.23, T:0.05
Consensus pattern (20 bp):
AAGAAAAGAAACCTAAAGAG
Found at i:17533198 original size:18 final size:19
Alignment explanation
Indices: 17533162--17533205 Score: 81
Period size: 18 Copynumber: 2.4 Consensus size: 19
17533152 ACCAGAAAAT
17533162 AGAAATCATAAGAAGAAGC
1 AGAAATCATAAGAAGAAGC
17533181 AGAAATCATAAG-AGAAGC
1 AGAAATCATAAGAAGAAGC
17533199 AGAAATC
1 AGAAATC
17533206 GATGGAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.57, C:0.11, G:0.20, T:0.11
Consensus pattern (19 bp):
AGAAATCATAAGAAGAAGC
Found at i:17537116 original size:17 final size:17
Alignment explanation
Indices: 17537094--17537127 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17537084 ATCCACTAAT
*
17537094 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
17537111 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
17537128 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:17541755 original size:17 final size:17
Alignment explanation
Indices: 17541733--17541766 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17541723 ATCCACTAAT
*
17541733 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
17541750 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
17541767 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:17550629 original size:10 final size:10
Alignment explanation
Indices: 17550592--17550633 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
17550582 TAGTAACATT
17550592 ACAAAATG-A
1 ACAAAATGAA
*
17550601 ACAAAGT-AA
1 ACAAAATGAA
17550610 ACAAAA-GAA
1 ACAAAATGAA
17550619 ACAAAATGAA
1 ACAAAATGAA
17550629 ACAAA
1 ACAAA
17550634 CTGCTCCCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.71, C:0.12, G:0.10, T:0.07
Consensus pattern (10 bp):
ACAAAATGAA
Found at i:17550912 original size:44 final size:43
Alignment explanation
Indices: 17550816--17550982 Score: 201
Period size: 43 Copynumber: 3.9 Consensus size: 43
17550806 TTATTTCTAA
* * * * *
17550816 AAACGCCGCTAAAGACCAAGACCTTTAGCGACTCTTTAACCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTTACCCAC
* * * * *
17550859 AAACGCCGCTATAGAACATGAGCTTTAGTGGCGCTTTTTCCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGACGC-TTTACCCAC
* *
17550903 AAACGCCGCTAAAGAACATAATCTTTAGCGACGCTTTACTCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTTACCCAC
*
17550946 AAACGCCACTAAAGAACATGATCTTTAGCGACG-TTTA
1 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTTA
17550983 TATAAAAACG
Statistics
Matches: 105, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
42 4 0.04
43 65 0.62
44 36 0.34
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTTACCCAC
Found at i:17564709 original size:16 final size:16
Alignment explanation
Indices: 17564685--17564717 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17564675 TTTGCCGTAA
17564685 ATAAAATTTTTTATTT
1 ATAAAATTTTTTATTT
*
17564701 ATAAGATTTTTTATTT
1 ATAAAATTTTTTATTT
17564717 A
1 A
17564718 AATCCTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
ATAAAATTTTTTATTT
Found at i:17566089 original size:21 final size:23
Alignment explanation
Indices: 17566056--17566118 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 23
17566046 GTAGAAGTAG
17566056 AAAAGAATGAAAATTAAAAGAA-A-
1 AAAAG-AT-AAAATTAAAAGAACAT
17566079 AAAAGATAAAATTAAAAGAACAT
1 AAAAGATAAAATTAAAAGAACAT
*
17566102 AAAAGAAAAGAATTAAA
1 AAAAGATAA-AATTAAA
17566119 TTGCTTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
21 13 0.36
22 3 0.08
23 13 0.36
24 7 0.19
ACGTcount: A:0.73, C:0.02, G:0.11, T:0.14
Consensus pattern (23 bp):
AAAAGATAAAATTAAAAGAACAT
Found at i:17566111 original size:15 final size:15
Alignment explanation
Indices: 17566070--17566113 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
17566060 GAATGAAAAT
* *
17566070 TAAAAGAAAAAAAGA
1 TAAAAGAAAAGAACA
*
17566085 TAAAATTAAAAGAACA
1 TAAAA-GAAAAGAACA
17566101 TAAAAGAAAAGAA
1 TAAAAGAAAAGAA
17566114 TTAAATTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.11
Consensus pattern (15 bp):
TAAAAGAAAAGAACA
Found at i:17575310 original size:10 final size:10
Alignment explanation
Indices: 17575261--17575308 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
17575251 TAAATTCCTA
17575261 AAAGATAAAT
1 AAAGATAAAT
** *
17575271 AAATTTAATT
1 AAAGATAAAT
*
17575281 GAAGATAAAT
1 AAAGATAAAT
17575291 AAAGATAAAT
1 AAAGATAAAT
17575301 AAA-ATAAA
1 AAAGATAAA
17575309 ATCCTAAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:17585290 original size:82 final size:82
Alignment explanation
Indices: 17585152--17585336 Score: 244
Period size: 82 Copynumber: 2.3 Consensus size: 82
17585142 GAGCTTTCGG
* * * * * * * *
17585152 GGCTTTAGCAGCATTTTTAAGAAAGCGCCGTTAATGCTCAGGGCTTTAGCGGCGTTTTAAGGAAA
1 GGCTTTAGCGGCATTTTTGAGTAAGCACTGCTAATGCTCAGGGATTTAGCGACGTTTTAAGGAAA
* *
17585217 GTGCCGCTAATTCTCAA
66 GCGCCGCTAATGCTCAA
* *
17585234 GGCTTTAGCGGCGTTTTTGAGTAAGCACTGCTAATGCTCAGGGATTTAGCGACGTTTTTAGGAAA
1 GGCTTTAGCGGCATTTTTGAGTAAGCACTGCTAATGCTCAGGGATTTAGCGACGTTTTAAGGAAA
* *
17585299 GCGCCGCTAATGCTTAG
66 GCGCCGCTAATGCTCAA
17585316 GGCTTTAGCGGCATTTTTGAG
1 GGCTTTAGCGGCATTTTTGAG
17585337 AAATCACCGC
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
82 88 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (82 bp):
GGCTTTAGCGGCATTTTTGAGTAAGCACTGCTAATGCTCAGGGATTTAGCGACGTTTTAAGGAAA
GCGCCGCTAATGCTCAA
Found at i:17585333 original size:41 final size:41
Alignment explanation
Indices: 17585151--17585333 Score: 215
Period size: 41 Copynumber: 4.5 Consensus size: 41
17585141 TGAGCTTTCG
* * * *
17585151 GGGCTTTAGCAGCATTTTTAAGAAAGCGCCGTTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCA
* * *
17585192 GGGCTTTAGCGGCGTTTTAAGGAAAGTGCCGCTAATTCTCA
1 GGGCTTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCA
* * * *
17585233 AGGCTTTAGCGGCGTTTTT-GAGTAAGCACTGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTAG-GAAAGCGCCGCTAATGCTCA
* * *
17585274 GGGATTTAGCGACGTTTTTAGGAAAGCGCCGCTAATGCTTA
1 GGGCTTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCA
*
17585315 GGGCTTTAGCGGCATTTTT
1 GGGCTTTAGCGGCGTTTTT
17585334 GAGAAATCAC
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
40 1 0.01
41 114 0.98
42 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCA
Found at i:17585546 original size:58 final size:58
Alignment explanation
Indices: 17585478--17585603 Score: 227
Period size: 58 Copynumber: 2.2 Consensus size: 58
17585468 GTTTAGGTGT
*
17585478 TATTATAATTTAAAGTTTATCATATATGGTTTAGGGTTTTAGGGTTCATTTTATAATG
1 TATTATAATTTAAAGTTTATCATATATGGTTTAGGGTTTTAGGGTTCATTATATAATG
17585536 TATTATAATTTAAAGTTTATCATATATGGTTTAGGGTTTTAGGGTTCATTATATAATG
1 TATTATAATTTAAAGTTTATCATATATGGTTTAGGGTTTTAGGGTTCATTATATAATG
*
17585594 T-TTATTATTT
1 TATTATAATTT
17585604 TGGGATTAGA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
57 8 0.12
58 58 0.88
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (58 bp):
TATTATAATTTAAAGTTTATCATATATGGTTTAGGGTTTTAGGGTTCATTATATAATG
Found at i:17585596 original size:29 final size:29
Alignment explanation
Indices: 17585506--17585597 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
17585496 ATCATATATG
*
17585506 GTTTAGGGTTTTAGGGTTCATTTTATAAT
1 GTTTAGGGTTTTAGGGTTCATTATATAAT
*** ** * *
17585535 GTATTA-TAATTTAAAGTTTATCATAT-AT
1 GT-TTAGGGTTTTAGGGTTCATTATATAAT
17585563 GGTTTAGGGTTTTAGGGTTCATTATATAAT
1 -GTTTAGGGTTTTAGGGTTCATTATATAAT
17585593 GTTTA
1 GTTTA
17585598 TTATTTTGGG
Statistics
Matches: 44, Mismatches: 15, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
28 5 0.11
29 34 0.77
30 5 0.11
ACGTcount: A:0.27, C:0.03, G:0.20, T:0.50
Consensus pattern (29 bp):
GTTTAGGGTTTTAGGGTTCATTATATAAT
Found at i:17585798 original size:161 final size:161
Alignment explanation
Indices: 17585536--17586471 Score: 1815
Period size: 161 Copynumber: 5.8 Consensus size: 161
17585526 TTTTATAATG
* *
17585536 TATTATAATTTAAAGTTTATCATATATGGTTTAGGGTTTTAGG-GT--TCATTATATAATGTTTA
1 TATTATAATTTAAAGTTTATCGTATATGGTTTAGGGTTTTAGGATTAATCATTATATAATGTTTA
17585598 TTATTTTGGGATTAGAGTTTTGAGTTTAGGGTTTATGATGTAGGTTTAGTGTTTTGGGTTTAGGG
66 TTATTTTGGGATTAGAGTTTTGAGTTTAGGGTTTATGATGTAGGTTTAGTGTTTTGGGTTTAGGG
17585663 TTTAGGAGTTTGGTGATTAAGATTTAGTGAT
131 TTTAGGAGTTTGGTGATTAAGATTTAGTGAT
17585694 TATTATAATTTAAAGTTTATCGTATATGGTTTAGGGTTTTAGGATTAATCATTATATAATGTTTA
1 TATTATAATTTAAAGTTTATCGTATATGGTTTAGGGTTTTAGGATTAATCATTATATAATGTTTA
17585759 TTATTTTGGGATTAGAGTTTTGAGTTTAGGGTTTATGATGTAGGTTTAGTGTTTTGGGTTTAGGG
66 TTATTTTGGGATTAGAGTTTTGAGTTTAGGGTTTATGATGTAGGTTTAGTGTTTTGGGTTTAGGG
17585824 TTTAGGAGTTTGGTGATTAAGATTTAGTGAT
131 TTTAGGAGTTTGGTGATTAAGATTTAGTGAT
17585855 TATTATAATTTAAAGTTTATCGTATATGGTTTAGGGTTTTAGGATTAATCATTATATAATGTTTA
1 TATTATAATTTAAAGTTTATCGTATATGGTTTAGGGTTTTAGGATTAATCATTATATAATGTTTA
17585920 TTATTTTGGGATTAGAGTTTTGAGTTTAGGGTTTATGATGTAGGTTTAGTGTTTTGGGTTTAGGG
66 TTATTTTGGGATTAGAGTTTTGAGTTTAGGGTTTATGATGTAGGTTTAGTGTTTTGGGTTTAGGG
17585985 TTTAGGAGTTTGGTGATTAAGATTTAGTGAT
131 TTTAGGAGTTTGGTGATTAAGATTTAGTGAT
17586016 TATTATAATTTAAAGTTTATCGTATATGGTTTAGGGTTTTAGGATTAATCATTATATAATGTTTA
1 TATTATAATTTAAAGTTTATCGTATATGGTTTAGGGTTTTAGGATTAATCATTATATAATGTTTA
17586081 TTATTTTGGGATTAGAGTTTTGAGTTTAGGGTTTATGATGTAGGTTTAGTGTTTTGGGTTTAGGG
66 TTATTTTGGGATTAGAGTTTTGAGTTTAGGGTTTATGATGTAGGTTTAGTGTTTTGGGTTTAGGG
17586146 TTTAGGAGTTTGGTGATTAAGATTTAGTGAT
131 TTTAGGAGTTTGGTGATTAAGATTTAGTGAT
17586177 TATTATAATTTAAAGTTTATCGTATATGGTTTAGGGTTTTAGGATTAATCATTATATAATGTTTA
1 TATTATAATTTAAAGTTTATCGTATATGGTTTAGGGTTTTAGGATTAATCATTATATAATGTTTA
17586242 TTATTTTGGGATTAGAGTTTTGAGTTTAGGGTTTATGATGTAGGTTTAGTGTTTTGGGTTTAGGG
66 TTATTTTGGGATTAGAGTTTTGAGTTTAGGGTTTATGATGTAGGTTTAGTGTTTTGGGTTTAGGG
17586307 TTTAGGAGTTTGGTGATTAAGATTTAGTGAT
131 TTTAGGAGTTTGGTGATTAAGATTTAGTGAT
17586338 TATTATAATTTAAAGTTTATCGTATATGGTTTAGGGTTTTAGGATTAATCATTATATAATGTTTA
1 TATTATAATTTAAAGTTTATCGTATATGGTTTAGGGTTTTAGGATTAATCATTATATAATGTTTA
* *
17586403 TTATTTTGGGATTAGAGTTTTGAGTTTAGGGTTTATGATGTAGGTTTAGTGTTTTTGGTTTGGGG
66 TTATTTTGGGATTAGAGTTTTGAGTTTAGGGTTTATGATGTAGGTTTAGTGTTTTGGGTTTAGGG
17586468 TTTA
131 TTTA
17586472 AGATTTAGGG
Statistics
Matches: 771, Mismatches: 4, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
158 42 0.05
159 1 0.00
161 728 0.94
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (161 bp):
TATTATAATTTAAAGTTTATCGTATATGGTTTAGGGTTTTAGGATTAATCATTATATAATGTTTA
TTATTTTGGGATTAGAGTTTTGAGTTTAGGGTTTATGATGTAGGTTTAGTGTTTTGGGTTTAGGG
TTTAGGAGTTTGGTGATTAAGATTTAGTGAT
Found at i:17586582 original size:14 final size:14
Alignment explanation
Indices: 17586565--17586598 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17586555 AGGGCTTGAT
17586565 GTTTATGGTTTACG
1 GTTTATGGTTTACG
* *
17586579 GTTTACGGTTTACT
1 GTTTATGGTTTACG
17586593 GTTTAT
1 GTTTAT
17586599 AATTTAAGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.15, C:0.09, G:0.24, T:0.53
Consensus pattern (14 bp):
GTTTATGGTTTACG
Found at i:17587028 original size:12 final size:13
Alignment explanation
Indices: 17587011--17587043 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
17587001 ATAAAATTTT
17587011 TAAATAATAT-TA
1 TAAATAATATATA
17587023 TAAATAATATATA
1 TAAATAATATATA
*
17587036 TTAATAAT
1 TAAATAAT
17587044 GTCATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TAAATAATATATA
Found at i:17587494 original size:213 final size:214
Alignment explanation
Indices: 17587123--17587518 Score: 668
Period size: 213 Copynumber: 1.9 Consensus size: 214
17587113 TTGAAAATTT
*
17587123 ATAAATAATATTAATAAAAAGTTAATTAGTAGCGACGTTTCCATGTAAAAACGCCACAAAATCTA
1 ATAAATAATATTAATAAAAAGTTAATCAGTAGCGACGTTTCCATGTAAAAACGCCACAAAATCTA
* *
17587188 AATATTAGCGGTGTTTGTTCAGAAAACGCCGCAAAAAACATATAAAAAATTAAACAAAACGGCAC
66 AATACTAGCGGTGTTTGTTCAGAAAACGCCGCAAAAAACATATAAAAAATTAAACAAAACGACAC
* *
17587253 CGCTTCATTGACGAGTTAAATATTAGTGGCGTTTTTTGTCAAAACGCCGCAAATGTTAAAATAGA
131 CGCTTCATTGACGAGTTAAATATTAGTGGCGTTTCTTATCAAAACGCCGCAAATGTTAAAATAGA
17587318 AAATGACGCCGTTTTAAAC
196 AAATGACGCCGTTTTAAAC
*
17587337 ATAAATAATATTAATAAAAAGTTAATCAGTAGCGGCGTTTCCATGT-AAAACGCCACAAAATCTA
1 ATAAATAATATTAATAAAAAGTTAATCAGTAGCGACGTTTCCATGTAAAAACGCCACAAAATCTA
** * *
17587401 AATACTAGCGGTGTTTGTTTGGAAAACGCCGGAAAAAACATATTAAAAATTAAACAAAACGACAC
66 AATACTAGCGGTGTTTGTTCAGAAAACGCCGCAAAAAACATATAAAAAATTAAACAAAACGACAC
* * *
17587466 CGCTTCATTGATGAGTTAAATGTTAGTGGCGTTTCTTATCAAAATGCCGCAAA
131 CGCTTCATTGACGAGTTAAATATTAGTGGCGTTTCTTATCAAAACGCCGCAAA
17587519 AGTTGTGAAA
Statistics
Matches: 169, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
213 125 0.74
214 44 0.26
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (214 bp):
ATAAATAATATTAATAAAAAGTTAATCAGTAGCGACGTTTCCATGTAAAAACGCCACAAAATCTA
AATACTAGCGGTGTTTGTTCAGAAAACGCCGCAAAAAACATATAAAAAATTAAACAAAACGACAC
CGCTTCATTGACGAGTTAAATATTAGTGGCGTTTCTTATCAAAACGCCGCAAATGTTAAAATAGA
AAATGACGCCGTTTTAAAC
Found at i:17587618 original size:253 final size:253
Alignment explanation
Indices: 17587276--17587845 Score: 919
Period size: 253 Copynumber: 2.2 Consensus size: 253
17587266 AGTTAAATAT
* * *
17587276 TAGTGGCG-TTTTTTGTCAAAACGCCGCAAATGTTAAAATAGAAAATGACGCCGTTTTAAACATA
1 TAGTGGCGTTTTTTTGT--AAGCGCCGCAAATGTTAAAATAGAAAACGACGCCGTTTTTAACATA
17587340 AATAATATTAATAAAAAGTTAATCAGTAGCGGCGTTTCCATGTAAAACGCCACAAAATCTAAATA
64 AATAATATTAATAAAAAGTTAATCAGTAGCGGCGTTTCCATGTAAAACGCCACAAAATCTAAATA
*
17587405 CTAGCGGTGTTTGTT-TGGAAAACGCCGGAAAAAACATATTAAAAATTAAACAAAACGACACCGC
129 CTAGCGGTGTTTGTTCT-GAAAACGCCGCAAAAAACATATTAAAAATTAAACAAAACGACACCGC
* * *
17587469 TTCATTGATGAGTTAAATGTTAGTGGCGTTTCTTATCAAAATGCCGCAAAAGTTGTGAAAC
193 TTCATTGACGAGTTAAATGTTAGTAGCGTTTCTTATCAAAACGCCGCAAAAGTTGTGAAAC
* * *
17587530 TAGTGGCGTTTTTTTGTAAGCGCCGCAAATGTTGAAATAGAAAACGATGCCGTTTTTAGCATAAA
1 TAGTGGCGTTTTTTTGTAAGCGCCGCAAATGTTAAAATAGAAAACGACGCCGTTTTTAACATAAA
* *
17587595 TAATATTAATAGAAAGTTAATCAGTAGCGGCGTTTCGATGTAAAACGCCACAAAATCTAAATACT
66 TAATATTAATAAAAAGTTAATCAGTAGCGGCGTTTCCATGTAAAACGCCACAAAATCTAAATACT
* * *
17587660 AGCGGTGTTTGTTCTTAAAACGCCGCAAATAACATATTAAAAATTAAACAAAACGGCACCGCTTC
131 AGCGGTGTTTGTTCTGAAAACGCCGCAAAAAACATATTAAAAATTAAACAAAACGACACCGCTTC
* *
17587725 GTTGACGAGTTAAATGTTAGTAGCGTTTTTTATCAAAACGCCGCAAAAGTTGTGAAAC
196 ATTGACGAGTTAAATGTTAGTAGCGTTTCTTATCAAAACGCCGCAAAAGTTGTGAAAC
* * *
17587783 TAGTGGCATTTTTTTGTAAGAGCCACAAATGTTAAAATAGAAAACGACGCCGTTTTTAACATA
1 TAGTGGCGTTTTTTTGTAAGCGCCGCAAATGTTAAAATAGAAAACGACGCCGTTTTTAACATA
17587846 CACTTTGAAC
Statistics
Matches: 291, Mismatches: 23, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
253 274 0.94
254 9 0.03
255 8 0.03
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (253 bp):
TAGTGGCGTTTTTTTGTAAGCGCCGCAAATGTTAAAATAGAAAACGACGCCGTTTTTAACATAAA
TAATATTAATAAAAAGTTAATCAGTAGCGGCGTTTCCATGTAAAACGCCACAAAATCTAAATACT
AGCGGTGTTTGTTCTGAAAACGCCGCAAAAAACATATTAAAAATTAAACAAAACGACACCGCTTC
ATTGACGAGTTAAATGTTAGTAGCGTTTCTTATCAAAACGCCGCAAAAGTTGTGAAAC
Found at i:17589815 original size:34 final size:33
Alignment explanation
Indices: 17589773--17589841 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
17589763 ACATTTGTAC
*
17589773 AATTATTAATTTATTAT-TTTAAATTTAAATTTA
1 AATTATTAATTT-TTATATTTAAATTTAAAGTTA
**
17589806 AATTCATTAATTTTTATATTTAGTTTTAAAGTTA
1 AATT-ATTAATTTTTATATTTAAATTTAAAGTTA
17589840 AA
1 AA
17589842 ATTTTCGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 8 0.26
34 23 0.74
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (33 bp):
AATTATTAATTTTTATATTTAAATTTAAAGTTA
Found at i:17589971 original size:41 final size:42
Alignment explanation
Indices: 17589926--17590099 Score: 124
Period size: 43 Copynumber: 4.1 Consensus size: 42
17589916 ATTATTTTTT
* * * *
17589926 TAAAGATATGTT-TTTAGCGGCATTTGTGTGAAAAGTGTCGC
1 TAAAGATATGTTCTATAACGGCATTTGTGGGAAAAGCGTCGC
* * * *
17589967 TAAAGGTCTGTTCTATAATGGCGTTTGTGGGAAAAGCGTCGC
1 TAAAGATATGTTCTATAACGGCATTTGTGGGAAAAGCGTCGC
* * *
17590009 TAAA-AGTCATGATCTATAACGACGTTTGTGGGGAAAATGC--CGC
1 TAAAGA-T-ATGTTCTATAACGGCATTTGT-GGGAAAA-GCGTCGC
* * * *
17590052 TAAA-AGTCATGATCTATAGCGGCGTTTGTGGGATAAGCGTCGC
1 TAAAGA-T-ATGTTCTATAACGGCATTTGTGGGAAAAGCGTCGC
17590095 TAAAG
1 TAAAG
17590100 GTCTTGATTT
Statistics
Matches: 109, Mismatches: 16, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
41 12 0.11
42 34 0.31
43 54 0.50
44 7 0.06
45 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (42 bp):
TAAAGATATGTTCTATAACGGCATTTGTGGGAAAAGCGTCGC
Found at i:17589995 original size:42 final size:43
Alignment explanation
Indices: 17589940--17590291 Score: 342
Period size: 42 Copynumber: 8.3 Consensus size: 43
17589930 GATATGTTTT
* * * *
17589940 TAGCGGCATTTGTGTGAAAAGTGTCGCTAAAGGTC-TGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGATCTA
** *
17589982 TAATGGCGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGATCTA
* * *
17590025 TAACGACGTTTGTGGGGAAAATGC--CGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGT-GGGAAAA-GCGTCGCTAAAGGTCATGATCTA
* * *
17590068 TAGCGGCGTTTGTGGGATAAGCGTCGCTAAAGGTCTTGATTTA
1 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGATCTA
* * *
17590111 TAGCGGCGTTTGT-GTAAAAGAGCCGCTAAAGGTTC-TGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGG-TCATGATCTA
** * **
17590153 TAGCCACGTTTGT-GTAAAAGCG-CTGCTAAAGGTTTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGTC-GCTAAAGGTCATGATCTA
* * * * * *
17590195 TAGCGACGTTTGT-GTAAAAGCGCCGCTAAAGATCCTAATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGATCTA
*
17590237 TAGCGGCGTTTTGTGGGAAAAGTGTCGCTAAAGGTCATGATCTA
1 TAGCGGCG-TTTGTGGGAAAAGCGTCGCTAAAGGTCATGATCTA
*
17590281 TAGCGACGTTT
1 TAGCGGCGTTT
17590292 ATTTCTAAAA
Statistics
Matches: 262, Mismatches: 37, Indels: 21
0.82 0.12 0.07
Matches are distributed among these distances:
41 4 0.02
42 132 0.50
43 87 0.33
44 37 0.14
45 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGATCTA
Found at i:17590076 original size:86 final size:85
Alignment explanation
Indices: 17589948--17590291 Score: 367
Period size: 86 Copynumber: 4.0 Consensus size: 85
17589938 TTTAGCGGCA
* * * **
17589948 TTTGTGTGAAAAGTGTCGCT-AAAGGTCTGTTCTATAATGGCGTTTGTGGGAAAAGCGTCGCTAA
1 TTTGTG-GAAAAGTGCCGCTAAAAGATCTGATCTATAGCGGCGTTTGTGGGAAAAGCGTCGCTAA
* *
17590012 AAGTCATGATCTATAACGACG
65 AGGTCATGATCTATAGCGACG
*
17590033 TTTGTGGGGAAAA-TGCCGCTAAAAG-TCATGATCTATAGCGGCGTTTGTGGGATAAGCGTCGCT
1 TTTGT--GGAAAAGTGCCGCTAAAAGATC-TGATCTATAGCGGCGTTTGTGGGAAAAGCGTCGCT
* * *
17590096 AAAGGTCTTGATTTATAGCGGCG
63 AAAGGTCATGATCTATAGCGACG
* * * * ** *
17590119 TTTGTGTAAAAGAGCCGCTAAAGGTTCTGATCTATAGCCACGTTTGT-GTAAAAGCG-CTGCTAA
1 TTTGTGGAAAAGTGCCGCTAAAAGATCTGATCTATAGCGGCGTTTGTGGGAAAAGCGTC-GCTAA
**
17590182 AGGTTTTGATCTATAGCGACG
65 AGGTCATGATCTATAGCGACG
* * * *
17590203 TTTGTGTAAAAGCGCCGCT-AAAGATCCTAATCTATAGCGGCGTTTTGTGGGAAAAGTGTCGCTA
1 TTTGTGGAAAAGTGCCGCTAAAAGAT-CTGATCTATAGCGGCG-TTTGTGGGAAAAGCGTCGCTA
17590267 AAGGTCATGATCTATAGCGACG
64 AAGGTCATGATCTATAGCGACG
17590289 TTT
1 TTT
17590292 ATTTCTAAAA
Statistics
Matches: 218, Mismatches: 30, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
83 5 0.02
84 66 0.30
85 46 0.21
86 99 0.45
87 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (85 bp):
TTTGTGGAAAAGTGCCGCTAAAAGATCTGATCTATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAA
GGTCATGATCTATAGCGACG
Found at i:17591734 original size:5 final size:5
Alignment explanation
Indices: 17591724--17591761 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
17591714 TTCTGATATA
*
17591724 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT TTGAT ATG
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATG
17591762 TGTGTTGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (5 bp):
ATGAT
Found at i:17592826 original size:30 final size:30
Alignment explanation
Indices: 17592792--17592849 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
17592782 CACGGTCTGG
*
17592792 CACATGGCCGTGTGTCCAGCCCGTGTGGCT
1 CACATGGCCGTATGTCCAGCCCGTGTGGCT
*
17592822 CACATGGTCGTATGTCCAGCCCGTGTGG
1 CACATGGCCGTATGTCCAGCCCGTGTGG
17592850 GAAAACCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.12, C:0.31, G:0.33, T:0.24
Consensus pattern (30 bp):
CACATGGCCGTATGTCCAGCCCGTGTGGCT
Found at i:17593500 original size:32 final size:32
Alignment explanation
Indices: 17593464--17593621 Score: 113
Period size: 37 Copynumber: 4.7 Consensus size: 32
17593454 TAATCACTTT
*
17593464 AATATTAAATTAATATAATATTTATTAAGATA
1 AATATTAAATTAATTTAATATTTATTAAGATA
* * *
17593496 AATATTAGATTAAATTTAATATTAAATCTTGTAGATA
1 AATATTAAATT-AATTTAATATT---TATT-AAGATA
* * * * *
17593533 AACATTAAATTAAATTTAATATTAAGATAATCACTTT
1 AATATTAAATT-AATTTAATATTTA-TTAA-GA--TA
*
17593570 AATATTAAATT-ATTAAATA-TTATTAAGATA
1 AATATTAAATTAATTTAATATTTATTAAGATA
*
17593600 AGTATTAAATTAATTTAATATT
1 AATATTAAATTAATTTAATATT
17593622 AAACTATTAA
Statistics
Matches: 95, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
30 11 0.12
31 7 0.07
32 12 0.13
33 13 0.14
34 3 0.03
35 9 0.09
36 3 0.03
37 37 0.39
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (32 bp):
AATATTAAATTAATTTAATATTTATTAAGATA
Found at i:17593590 original size:15 final size:16
Alignment explanation
Indices: 17593570--17593624 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 16
17593560 TAATCACTTT
17593570 AATATTAAATT-ATTA
1 AATATTAAATTAATTA
*
17593585 AATATT--ATTAAGATA
1 AATATTAAATTAA-TTA
* *
17593600 AGTATTAAATTAATTT
1 AATATTAAATTAATTA
17593616 AATATTAAA
1 AATATTAAA
17593625 CTATTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
13 3 0.10
14 1 0.03
15 13 0.42
16 9 0.29
17 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (16 bp):
AATATTAAATTAATTA
Found at i:17593631 original size:24 final size:23
Alignment explanation
Indices: 17593567--17593637 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
17593557 AGATAATCAC
* *
17593567 TTTAATATTAAATTATTAAATAT
1 TTTAATATTAAACTATTAAATAA
* *
17593590 TATTAAGA-T-AAGTATTAAATTAA
1 T-TTAATATTAAACTATTAAA-TAA
17593613 TTTAATATTAAACTATTAAAATAA
1 TTTAATATTAAACTATT-AAATAA
17593637 T
1 T
17593638 ATTATTTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
22 14 0.37
23 6 0.16
24 15 0.39
25 3 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (23 bp):
TTTAATATTAAACTATTAAATAA
Done.