Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 153 of 173
Found at i:46311882 original size:8 final size:8
Alignment explanation
Indices: 46311869--46311897 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
46311859 CACTAGAGAC
46311869 CAGTGTTA
1 CAGTGTTA
46311877 CAGTGTTA
1 CAGTGTTA
46311885 CAGTGTTA
1 CAGTGTTA
46311893 CAGTG
1 CAGTG
46311898 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:46312004 original size:23 final size:23
Alignment explanation
Indices: 46311977--46312098 Score: 199
Period size: 23 Copynumber: 5.3 Consensus size: 23
46311967 AGTGTTATTG
*
46311977 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
46312000 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
46312023 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
46312046 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
46312069 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
46312092 ATCAGTG
1 ATCAGTG
46312099 TTGCACTTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 90 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:46312032 original size:46 final size:46
Alignment explanation
Indices: 46311979--46312098 Score: 222
Period size: 46 Copynumber: 2.6 Consensus size: 46
46311969 TGTTATTGAT
*
46311979 CAGTGGTAGCTTCGGCTACGTTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
46312025 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
*
46312071 CAGTGGTAGCTTCGGCTACATATCAGTG
1 CAGTGGTAGCTTCGGCTACATTTCAGTG
46312099 TTGCACTTAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (46 bp):
CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
Found at i:46313606 original size:24 final size:24
Alignment explanation
Indices: 46313569--46313616 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
46313559 GACTGTGGGC
46313569 ATTTTAAAATTTGGCTTTATTTTT
1 ATTTTAAAATTTGGCTTTATTTTT
*
46313593 ATTTATAAAA-TTGGGTTTATTTTT
1 ATTT-TAAAATTTGGCTTTATTTTT
46313617 GGTTTGCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.60
Consensus pattern (24 bp):
ATTTTAAAATTTGGCTTTATTTTT
Found at i:46314446 original size:194 final size:194
Alignment explanation
Indices: 46314107--46314494 Score: 519
Period size: 194 Copynumber: 2.0 Consensus size: 194
46314097 CAATTTATCA
* *
46314107 AAATTGATTTGAAGTCCCGAGAAAGAGAAGACATTTAGAAGAAATGAATTAAGAGACCTACATGC
1 AAATTGATTTGAAGTCCCGAGAAAGAGAAGACAGTTAGAAGAAATGAATTAAGAGACCTACATAC
* * *
46314172 TTGAATAAAAGCATTAAAGAAAACGTAGCAACCATAAACAAAAAGTATGTGATTAATGGGCGGAG
66 TTCAACAAAAGCATTAAAGAAAACGTAGCAACCATAAACAAAAAGTAGGTGATTAATGGGCGGAG
* *
46314237 CATTTCTCTAGATTTTAATACCTCGTATGGAACCATTATGA-CCTACCACCAATTGTAATGGTAG
131 CATTTATCTAGATTTTAATACCTCGTATGAAACCATTATGATCC-ACCACCAATTGTAATGGTAG
** * * * * *
46314301 AAATTGATTTGAAGTCTTGTGAGAGAGAAGACAGTTAGAAGAAATGATTTGAGAGACCTGCATAC
1 AAATTGATTTGAAGTCCCGAGAAAGAGAAGACAGTTAGAAGAAATGAATTAAGAGACCTACATAC
* * * * * *
46314366 TTCAACAAAAGTATTAAAGAAAATGTATCAACTATAAATAAAAAGTAGGTGATTAATGGGTGGAG
66 TTCAACAAAAGCATTAAAGAAAACGTAGCAACCATAAACAAAAAGTAGGTGATTAATGGGCGGAG
* * * * *
46314431 CATTTAT-TGAGATTTTAATGCCTTGTATGAAACCATTATGATCCGCCGCCAATTGTAGTGGTAG
131 CATTTATCT-AGATTTTAATACCTCGTATGAAACCATTATGATCCACCACCAATTGTAATGGTAG
46314495 TTTAGGTACG
Statistics
Matches: 167, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
193 1 0.01
194 164 0.98
195 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (194 bp):
AAATTGATTTGAAGTCCCGAGAAAGAGAAGACAGTTAGAAGAAATGAATTAAGAGACCTACATAC
TTCAACAAAAGCATTAAAGAAAACGTAGCAACCATAAACAAAAAGTAGGTGATTAATGGGCGGAG
CATTTATCTAGATTTTAATACCTCGTATGAAACCATTATGATCCACCACCAATTGTAATGGTAG
Found at i:46324193 original size:88 final size:88
Alignment explanation
Indices: 46323990--46324596 Score: 936
Period size: 88 Copynumber: 6.9 Consensus size: 88
46323980 TGTAACCTTT
* ** * * *
46323990 AACCAGCTCCAAT-GCAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATG
1 AACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* ** *
46324052 CAGGAAGGTAAGATCTGCT-TCTTT
64 CAGGAAGGCAAGATCTTTTGTCTTC
* * *
46324076 AACCAGCTCCA-CTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGC
1 AACCAGCTCCATC-ACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGC
46324140 AGGAAGGCAAGATCTTTTGTCTTC
65 AGGAAGGCAAGATCTTTTGTCTTC
* *
46324164 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGTTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
46324229 GAAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
* *
46324252 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGTTTCACTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
46324317 GGAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
* *
46324340 AACCAGCTCCGTCACAACCGAAAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
46324405 GAAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
46324428 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
46324493 GAAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
* *
46324516 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGTTTCACTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
46324581 GGAAGGCAAGATCTTT
66 GGAAGGCAAGATCTTT
46324597 AACTTCATTG
Statistics
Matches: 482, Mismatches: 33, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
85 6 0.01
86 27 0.06
87 34 0.07
88 414 0.86
89 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (88 bp):
AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
GGAAGGCAAGATCTTTTGTCTTC
Found at i:46326751 original size:8 final size:9
Alignment explanation
Indices: 46326721--46326749 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
46326711 CTATTTTGAC
46326721 TTTGATTTT
1 TTTGATTTT
46326730 TTTGATTTT
1 TTTGATTTT
46326739 TTTGATTTT
1 TTTGATTTT
46326748 TT
1 TT
46326750 GAATTCATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (9 bp):
TTTGATTTT
Found at i:46333244 original size:20 final size:19
Alignment explanation
Indices: 46333189--46333242 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
46333179 AATACAAAAT
*
46333189 AATTCAAAATAATTT-TCAA
1 AATTCAAAAT-ATTTATAAA
46333208 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
*
46333227 AATTCTAAA-ATTTATA
1 AATTCAAAATATTTATA
46333243 TATATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 11 0.34
19 21 0.66
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:46333404 original size:16 final size:16
Alignment explanation
Indices: 46333383--46333417 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
46333373 TTGAAAAAGC
46333383 TTTCAAATATATATGA
1 TTTCAAATATATATGA
* *
46333399 TTTCAAATTTATGTGA
1 TTTCAAATATATATGA
46333415 TTT
1 TTT
46333418 AACATGGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (16 bp):
TTTCAAATATATATGA
Found at i:46346241 original size:24 final size:23
Alignment explanation
Indices: 46346210--46346258 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
46346200 GTACAAATAA
*
46346210 CAAAAACAATAGCAAAAATAACAG
1 CAAAAACAACA-CAAAAATAACAG
*
46346234 CAAAAACAACATAAAAATAACAG
1 CAAAAACAACACAAAAATAACAG
46346257 CA
1 CA
46346259 CCAAAACACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.67, C:0.18, G:0.06, T:0.08
Consensus pattern (23 bp):
CAAAAACAACACAAAAATAACAG
Found at i:46346244 original size:12 final size:12
Alignment explanation
Indices: 46346210--46346258 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
46346200 GTACAAATAA
*
46346210 CAAAAACAATAG
1 CAAAAACAACAG
*
46346222 CAAAAATAACAG
1 CAAAAACAACAG
46346234 CAAAAACAACA-
1 CAAAAACAACAG
* *
46346245 TAAAAATAACAG
1 CAAAAACAACAG
46346257 CA
1 CA
46346259 CCAAAACACT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.67, C:0.18, G:0.06, T:0.08
Consensus pattern (12 bp):
CAAAAACAACAG
Found at i:46346700 original size:15 final size:17
Alignment explanation
Indices: 46346662--46346701 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
46346652 ATTTATTTCA
46346662 TTATTTTTATTAATTGC
1 TTATTTTTATTAATTGC
*
46346679 -TAATTTTA-TAATT-C
1 TTATTTTTATTAATTGC
46346693 TTATTTTTA
1 TTATTTTTA
46346702 AATCACTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
14 1 0.05
15 12 0.60
16 7 0.35
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (17 bp):
TTATTTTTATTAATTGC
Found at i:46346902 original size:11 final size:11
Alignment explanation
Indices: 46346882--46346925 Score: 70
Period size: 11 Copynumber: 3.9 Consensus size: 11
46346872 CTCAACACCA
46346882 AAATTGAGAGG
1 AAATTGAGAGG
*
46346893 AAATTTAGAGG
1 AAATTGAGAGG
46346904 AAATTGAGAGG
1 AAATTGAGAGG
46346915 AAATTTGAGAG
1 AAA-TTGAGAG
46346926 AGGATTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 23 0.77
12 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (11 bp):
AAATTGAGAGG
Found at i:46346910 original size:22 final size:23
Alignment explanation
Indices: 46346882--46346925 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
46346872 CTCAACACCA
46346882 AAATTGAGAGGAAATTT-AGAGG
1 AAATTGAGAGGAAATTTGAGAGG
46346904 AAATTGAGAGGAAATTTGAGAG
1 AAATTGAGAGGAAATTTGAGAG
46346926 AGGATTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (23 bp):
AAATTGAGAGGAAATTTGAGAGG
Found at i:46353442 original size:12 final size:13
Alignment explanation
Indices: 46353417--46353441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46353407 AATTGTCATG
46353417 TGACAAAAAAAAA
1 TGACAAAAAAAAA
46353430 TGACAAAAAAAA
1 TGACAAAAAAAA
46353442 TATTTTTTCT
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:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (13 bp):
TGACAAAAAAAAA
Found at i:46357045 original size:41 final size:41
Alignment explanation
Indices: 46356998--46357088 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
46356988 GTGGGTTTAA
* *
46356998 GGAGCTTTGAAGGTAATGGTGATACGCCGTTGGTGATGAGT
1 GGAGCTTTGAAGATAATGGTGATACACCGTTGGTGATGAGT
46357039 GGAGCTTTGAAGATAATGGTGATACACCGTTGGTGATGAGT
1 GGAGCTTTGAAGATAATGGTGATACACCGTTGGTGATGAGT
46357080 GGAGCTTTG
1 GGAGCTTTG
46357089 GAAATTTTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.23, C:0.10, G:0.37, T:0.30
Consensus pattern (41 bp):
GGAGCTTTGAAGATAATGGTGATACACCGTTGGTGATGAGT
Found at i:46358299 original size:31 final size:31
Alignment explanation
Indices: 46358252--46358399 Score: 106
Period size: 31 Copynumber: 4.8 Consensus size: 31
46358242 TGCTCAAATC
* * *
46358252 AATTCAGCAATATATATTCATATACGAACAA
1 AATTCGGCAATGTATAATCATATACGAACAA
* *
46358283 AATTTGGCAATGTAT-ATCTATATAC-AA-ATC
1 AATTCGGCAATGTATAATC-ATATACGAACA-A
* * *
46358313 AATTCGACAATGTACAACCATATACGAATC-A
1 AATTCGGCAATGTATAATCATATACGAA-CAA
* * **
46358344 AGTTCGGCAATGTATAATCATATACAAATTA
1 AATTCGGCAATGTATAATCATATACGAACAA
** *
46358375 AATTCAACAATGTATAACCATATAC
1 AATTCGGCAATGTATAATCATATAC
46358400 AAATCAATTC
Statistics
Matches: 90, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
29 1 0.01
30 22 0.24
31 67 0.74
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.30
Consensus pattern (31 bp):
AATTCGGCAATGTATAATCATATACGAACAA
Found at i:46358400 original size:31 final size:31
Alignment explanation
Indices: 46358290--46358921 Score: 447
Period size: 31 Copynumber: 20.6 Consensus size: 31
46358280 CAAAATTTGG
* * * *
46358290 CAATGTATATCTATATACAAATCAA-TTCGA
1 CAATGTATAACCATATACAAATTAATTTCAA
* * * * **
46358320 CAATGTACAACCATATACGAATCAAGTTCGG
1 CAATGTATAACCATATACAAATTAATTTCAA
* *
46358351 CAATGTATAATCATATACAAATTAAATTCAA
1 CAATGTATAACCATATACAAATTAATTTCAA
* **
46358382 CAATGTATAACCATATACAAATCAA-TTCGG
1 CAATGTATAACCATATACAAATTAATTTCAA
*
46358412 CAACT-TATATCCATATAC-AATTCAATTTCAA
1 CAA-TGTATAACCATATACAAATT-AATTTCAA
* *
46358443 CAATGTATAACCATGTACAAATTAATTTCAG
1 CAATGTATAACCATATACAAATTAATTTCAA
* ** * * * *
46358474 CAATATATAATAATATA-AAAATCACTTCGA
1 CAATGTATAACCATATACAAATTAATTTCAA
* * *
46358504 CTACT-TATATCCATATAC-AATTCAATGTCAA
1 C-AATGTATAACCATATACAAATT-AATTTCAA
*
46358535 CAATGTATAACCATATACAAATTAATTTCAG
1 CAATGTATAACCATATACAAATTAATTTCAA
* * * **
46358566 CAATGTACAACCATATACGAATCAA-TTCGG
1 CAATGTATAACCATATACAAATTAATTTCAA
**
46358596 CAACT-TATATTCATATAC-AATTCAATTTCAA
1 CAA-TGTATAACCATATACAAATT-AATTTCAA
*
46358627 CAATGTATAACCATATACAAATTAATTTCAG
1 CAATGTATAACCATATACAAATTAATTTCAA
* ** * **
46358658 CAATGTACAATTATATACAAATCAA-TTCGG
1 CAATGTATAACCATATACAAATTAATTTCAA
* *
46358688 CAACT-TATATCCATATA-TAATTCAATTTCAA
1 CAA-TGTATAACCATATACAAATT-AATTTCAA
* * *
46358719 TAATGTATAACCATGTACAAATTAATTTCAG
1 CAATGTATAACCATATACAAATTAATTTCAA
* * *
46358750 CAATGTATAATCATATACAAATCAA-TTCGA
1 CAATGTATAACCATATACAAATTAATTTCAA
*
46358780 CAACT-TAT-ATCATATAC-AATTCAATTTCAA
1 CAA-TGTATAACCATATACAAATT-AATTTCAA
*
46358810 CAATGTATAACCATATACAAATTAATTTCAG
1 CAATGTATAACCATATACAAATTAATTTCAA
* * * **
46358841 CAATGTACAATCATATACAAATCAA-TTCGG
1 CAATGTATAACCATATACAAATTAATTTCAA
* * * *
46358871 CAACT-TATATCCATATGCAAATCAATTTCGA
1 CAA-TGTATAACCATATACAAATTAATTTCAA
* * *
46358902 CAACGTATAACTATAAACAA
1 CAATGTATAACCATATACAA
46358922 TTCGAATTCT
Statistics
Matches: 472, Mismatches: 100, Indels: 59
0.75 0.16 0.09
Matches are distributed among these distances:
28 3 0.01
29 21 0.04
30 145 0.31
31 283 0.60
32 20 0.04
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.31
Consensus pattern (31 bp):
CAATGTATAACCATATACAAATTAATTTCAA
Found at i:46358426 original size:92 final size:92
Alignment explanation
Indices: 46358289--46358921 Score: 896
Period size: 92 Copynumber: 6.9 Consensus size: 92
46358279 ACAAAATTTG
* * * * **
46358289 GCAATGTAT-ATCTATATACAAATCAATTCGACAA-TGTACAACCATATACGAA-TCAAGTTCGG
1 GCAATGTATAATC-ATATACAAATCAATTCGGCAACT-TATATCCATATAC-AATTCAATTTCAA
* *
46358351 CAATGTATAATCATATACAAATTAAATTCA
63 CAATGTATAACCATATACAAATTAATTTCA
* *
46358381 ACAATGTATAACCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
1 GCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
*
46358446 TGTATAACCATGTACAAATTAATTTCA
66 TGTATAACCATATACAAATTAATTTCA
* * * * * * *
46358473 GCAATATATAATAATATAAAAATCACTTCGACTACTTATATCCATATACAATTCAATGTCAACAA
1 GCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
46358538 TGTATAACCATATACAAATTAATTTCA
66 TGTATAACCATATACAAATTAATTTCA
* * * *
46358565 GCAATGTACAACCATATACGAATCAATTCGGCAACTTATATTCATATACAATTCAATTTCAACAA
1 GCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
46358630 TGTATAACCATATACAAATTAATTTCA
66 TGTATAACCATATACAAATTAATTTCA
* * * *
46358657 GCAATGTACAATTATATACAAATCAATTCGGCAACTTATATCCATATATAATTCAATTTCAATAA
1 GCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
*
46358722 TGTATAACCATGTACAAATTAATTTCA
66 TGTATAACCATATACAAATTAATTTCA
*
46358749 GCAATGTATAATCATATACAAATCAATTCGACAACTTATAT-CATATACAATTCAATTTCAACAA
1 GCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
46358813 TGTATAACCATATACAAATTAATTTCA
66 TGTATAACCATATACAAATTAATTTCA
* * * *
46358840 GCAATGTACAATCATATACAAATCAATTCGGCAACTTATATCCATATGCAAATCAATTTCGACAA
1 GCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
* * *
46358905 CGTATAACTATAAACAA
66 TGTATAACCATATACAA
46358922 TTCGAATTCT
Statistics
Matches: 484, Mismatches: 53, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
91 88 0.18
92 393 0.81
93 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.31
Consensus pattern (92 bp):
GCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAA
TGTATAACCATATACAAATTAATTTCA
Found at i:46358950 original size:56 final size:55
Alignment explanation
Indices: 46358890--46359001 Score: 136
Period size: 56 Copynumber: 2.0 Consensus size: 55
46358880 TCCATATGCA
* *
46358890 AATC-AATTTCGACAACGTATAACTATAAACAATTCGAATTCTGCAATATATAAAAC
1 AATCAAATTT-GACAACGTATAACTATAAACAA-TCAAATTCAGCAATATATAAAAC
* * ** *
46358946 AATCAAATTTGACAATGTATATCTATAATTAATCAAATTCAGCAATGTATAAAAC
1 AATCAAATTTGACAACGTATAACTATAAACAATCAAATTCAGCAATATATAAAAC
46359001 A
1 A
46359002 TATACATTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
55 21 0.44
56 22 0.46
57 5 0.10
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.30
Consensus pattern (55 bp):
AATCAAATTTGACAACGTATAACTATAAACAATCAAATTCAGCAATATATAAAAC
Found at i:46361506 original size:14 final size:15
Alignment explanation
Indices: 46361469--46361510 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
46361459 TGTGGCCGGT
*
46361469 TAAAATTTAGTATTA
1 TAAATTTTAGTATTA
46361484 TATATATTTTA-TATTA
1 TA-A-ATTTTAGTATTA
46361500 TAAATTTTAGT
1 TAAATTTTAGT
46361511 TAAATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
14 6 0.26
15 4 0.17
16 8 0.35
17 5 0.22
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (15 bp):
TAAATTTTAGTATTA
Found at i:46364812 original size:7 final size:7
Alignment explanation
Indices: 46364778--46364803 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46364768 CAAAATAATT
46364778 TAAAATA
1 TAAAATA
46364785 TAAAATA
1 TAAAATA
46364792 TAAAATA
1 TAAAATA
46364799 TAAAA
1 TAAAA
46364804 AATATAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAAATA
Found at i:46372925 original size:58 final size:61
Alignment explanation
Indices: 46372831--46372957 Score: 163
Period size: 58 Copynumber: 2.1 Consensus size: 61
46372821 CTTTATTCAT
* **
46372831 AAAACAAGCCCAAAAAACAAGCAAAAAGTTAAACAAAAGTAAAAAAC-ACTACAACCT-AA
1 AAAACAAGCCCAAAAAACAAGCAAAAAGTGAAACAAAAGTAAAAAACAAAAACAACCTAAA
* * *
46372890 AAAACAAGCCC-AAAAACAAGTAGAAAA-TGAAACAAAAGTCAAGAACAAAAACAACCTAAA
1 AAAACAAGCCCAAAAAACAAGCA-AAAAGTGAAACAAAAGTAAAAAACAAAAACAACCTAAA
46372950 AAAACAAG
1 AAAACAAG
46372958 GATCCTGTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
58 26 0.44
59 23 0.39
60 10 0.17
ACGTcount: A:0.65, C:0.19, G:0.09, T:0.07
Consensus pattern (61 bp):
AAAACAAGCCCAAAAAACAAGCAAAAAGTGAAACAAAAGTAAAAAACAAAAACAACCTAAA
Found at i:46381964 original size:22 final size:22
Alignment explanation
Indices: 46381931--46381983 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
46381921 ATTTCCTTTC
46381931 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
46381954 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
46381976 AATTCTCT
1 AATTCTCT
46381984 TAAATCCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:46382018 original size:22 final size:22
Alignment explanation
Indices: 46381993--46382069 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 22
46381983 TTAAATCCAT
46381993 ATTTAATTTCAATTTCCTCTCA
1 ATTTAATTTCAATTTCCTCTCA
** * *
46382015 ATTTCCTTCCAAAATTCTCTCAAATCCA
1 ATTTAATTTC-AATTTC-CTC---T-CA
46382043 TATTTAATTTCAATTTCCTCTCA
1 -ATTTAATTTCAATTTCCTCTCA
46382066 ATTT
1 ATTT
46382070 CCTTTTATGA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
22 11 0.28
23 7 0.17
24 4 0.10
27 4 0.10
28 7 0.17
29 7 0.17
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTAATTTCAATTTCCTCTCA
Found at i:46382022 original size:51 final size:51
Alignment explanation
Indices: 46381958--46382073 Score: 223
Period size: 51 Copynumber: 2.3 Consensus size: 51
46381948 TTCCAAAATT
*
46381958 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
46382009 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
46382060 CTCTCAATTTCCTT
1 CTCTCAATTTCCTT
46382074 TTATGAAATA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
Found at i:46383240 original size:7 final size:7
Alignment explanation
Indices: 46383230--46383261 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
46383220 ATTCGATTGA
46383230 TATTTAG
1 TATTTAG
46383237 TATTTAG
1 TATTTAG
46383244 TATTTAG
1 TATTTAG
46383251 TATTTAG
1 TATTTAG
46383258 TATT
1 TATT
46383262 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:46384427 original size:29 final size:29
Alignment explanation
Indices: 46384383--46384625 Score: 377
Period size: 29 Copynumber: 8.5 Consensus size: 29
46384373 AATAGAAATG
*
46384383 AATTAAAAACCCTAACCCTAACTTAATTT
1 AATTAAAAACCCTAACCCTAACCTAATTT
* *
46384412 AATTAAAAACCTTAACCTTAACCTAATTT
1 AATTAAAAACCCTAACCCTAACCTAATTT
46384441 AATTAAAAACCCTAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCCTAACCTAATTT
* *
46384470 AATT---AACCCT-ACTCTAGCCTAATTT
1 AATTAAAAACCCTAACCCTAACCTAATTT
* *
46384495 AATTAAAAACCTTAACCCTAACCTAAATT
1 AATTAAAAACCCTAACCCTAACCTAATTT
*
46384524 AATTAAAAACCCTACCCCTAACCTAATTT
1 AATTAAAAACCCTAACCCTAACCTAATTT
*
46384553 AATTAAAAACCCTAACCCTAACCTAACTT
1 AATTAAAAACCCTAACCCTAACCTAATTT
46384582 AATTAAAAACCCTAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCCTAACCTAATTT
46384611 AATTAAAAACCCTAA
1 AATTAAAAACCCTAA
46384626 ACTAAGTTAA
Statistics
Matches: 193, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
25 17 0.09
26 6 0.03
28 5 0.03
29 165 0.85
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.29
Consensus pattern (29 bp):
AATTAAAAACCCTAACCCTAACCTAATTT
Found at i:46384789 original size:116 final size:116
Alignment explanation
Indices: 46384632--46384869 Score: 404
Period size: 116 Copynumber: 2.1 Consensus size: 116
46384622 CTAAACTAAG
* *
46384632 TTAACAATGTTACATTCACGTAATGTTAGATTTGGAAAAATGTTTTGACTGGTACCAACAAATAA
1 TTAATAATGTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACCAACAAATAA
*
46384697 TAATTTTACATAATTTGATACTTTTACTAACCATTAATACAATTTTTTGAC
66 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
* * *
46384748 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
1 TTAATAATGTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACCAACAAATAA
* *
46384813 TAATTTTATATAATTTGATAATTTTCCTAACCATTAATACAATTTTTTGAC
66 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
46384864 TTAATA
1 TTAATA
46384870 CAATTTATCA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 114 1.00
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.42
Consensus pattern (116 bp):
TTAATAATGTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACCAACAAATAA
TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
Found at i:46384886 original size:17 final size:18
Alignment explanation
Indices: 46384845--46384886 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
46384835 TTTCCTAACC
* *
46384845 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
46384863 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
46384880 ATTAATA
1 ATTAATA
46384887 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:46388150 original size:125 final size:125
Alignment explanation
Indices: 46387898--46388124 Score: 391
Period size: 125 Copynumber: 1.8 Consensus size: 125
46387888 CCCAAACATG
* * * *
46387898 CTACTGTAGCAAAAGTGCATCCACGAGGGTGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCATCCACAAGGGCGCAATTTCACAAATTCTTCTCAAATAACATCCTGC
*
46387963 TAGAAGCGATTTTATACTATTTTCTCAGAAACGTCAAAAAAATAATTATTTTTCCGTGAC
66 TAGAAGCGATTTTATACTATTTTATCAGAAACGTCAAAAAAATAATTATTTTTCCGTGAC
* *
46388023 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCTGC
1 CTACTGTAGCAAAAGCGCATCCACAAGGGCGCAATTTCACAAATTCTTCTCAAATAACATCCTGC
46388088 TAGAAGCGATTTTATACTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTTATCAGAAACGTCAA
46388125 CTCGAAATTA
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 95 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCATCCACAAGGGCGCAATTTCACAAATTCTTCTCAAATAACATCCTGC
TAGAAGCGATTTTATACTATTTTATCAGAAACGTCAAAAAAATAATTATTTTTCCGTGAC
Found at i:46388604 original size:6 final size:6
Alignment explanation
Indices: 46388557--46388697 Score: 61
Period size: 6 Copynumber: 22.8 Consensus size: 6
46388547 AATATTGAAA
* * * * *
46388557 TAAAAT TAAACT TCAAAT CAAATAT AAAAAT TAAGCAT TAAAAT TAAAAT
1 TAAAAT TAAAAT TAAAAT TAAA-AT TAAAAT TAA-AAT TAAAAT TAAAAT
* * * * * * *
46388607 T-ACAT ATAAGAT ATATAAT TAAAA- TAAAAT TATAAAC TACATT TAATAT
1 TAAAAT -TAAAAT -TAAAAT TAAAAT TAAAAT TA-AAAT TAAAAT TAAAAT
* * * * *
46388656 ATAAAAG TAAAAG TAAAAT TAAAAC TATATT TAAAAT TAAAA
1 -TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAA
46388698 AGAATTACAT
Statistics
Matches: 98, Mismatches: 30, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
5 8 0.08
6 63 0.64
7 27 0.28
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.32
Consensus pattern (6 bp):
TAAAAT
Found at i:46388658 original size:37 final size:37
Alignment explanation
Indices: 46388595--46388697 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
46388585 AATTAAGCAT
* * * *
46388595 TAAAATTAAAATTACATATAAGATATATAATTAAAA-
1 TAAAATTAAAACTACATTTAAGATATAAAAGTAAAAG
*
46388631 TAAAATTATAAACTACATTTAATATATAAAAGTAAAAG
1 TAAAATTA-AAACTACATTTAAGATATAAAAGTAAAAG
* *
46388669 TAAAATTAAAACTATATTTAAAAT-TAAAA
1 TAAAATTAAAACTACATTTAAGATATAAAA
46388698 AGAATTACAT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 13 0.22
37 37 0.64
38 8 0.14
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (37 bp):
TAAAATTAAAACTACATTTAAGATATAAAAGTAAAAG
Found at i:46388830 original size:14 final size:13
Alignment explanation
Indices: 46388811--46388849 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
46388801 TTGTTTCATT
46388811 GAAAATGACTTTA
1 GAAAATGACTTTA
*
46388824 GGAAAATGATTTTTA
1 -GAAAATGA-CTTTA
46388839 GAAAATGACTT
1 GAAAATGACTT
46388850 ACTTTCCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 16 0.73
15 4 0.18
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.33
Consensus pattern (13 bp):
GAAAATGACTTTA
Found at i:46393335 original size:24 final size:25
Alignment explanation
Indices: 46393288--46393348 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
46393278 TATTTTAATA
*
46393288 TAATTTAATATAAAAAATATTAAAT
1 TAATTTAATATAAAAAATACTAAAT
* *
46393313 TAATTT-ATATAAAATATGCTAAA-
1 TAATTTAATATAAAAAATACTAAAT
46393336 T-ATTCTAATATAA
1 TAATT-TAATATAA
46393349 TTTATTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 3 0.10
23 2 0.06
24 20 0.65
25 6 0.19
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (25 bp):
TAATTTAATATAAAAAATACTAAAT
Found at i:46393392 original size:56 final size:58
Alignment explanation
Indices: 46393276--46393404 Score: 190
Period size: 56 Copynumber: 2.3 Consensus size: 58
46393266 TCGTAAAAAC
46393276 AATATTTTAATATAATTTAATATAAAAAATATTAAATTAATTTATATAAAATATGCTA
1 AATATTTTAATATAATTTAATATAAAAAATATTAAATTAATTTATATAAAATATGCTA
* * * * *
46393334 AATATTCTAATATAATTT-AT-TATAAAATATTAAATTAATTTATGTAAACTATGTTA
1 AATATTTTAATATAATTTAATATAAAAAATATTAAATTAATTTATATAAAATATGCTA
*
46393390 AATCTTTTAATATAA
1 AATATTTTAATATAA
46393405 AATATTATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
56 45 0.70
57 2 0.03
58 17 0.27
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (58 bp):
AATATTTTAATATAATTTAATATAAAAAATATTAAATTAATTTATATAAAATATGCTA
Found at i:46397650 original size:18 final size:17
Alignment explanation
Indices: 46397623--46397674 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
46397613 TTTGTTTTTA
* *
46397623 TATTATTAATTTTATTT
1 TATTATTAATATTATAT
46397640 TATTAATTAATATTATAT
1 TATT-ATTAATATTATAT
*
46397658 TATATATTATTATTATA
1 TAT-TATTAATATTATA
46397675 CCTATATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 4 0.13
18 25 0.83
19 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTAATATTATAT
Found at i:46408697 original size:27 final size:27
Alignment explanation
Indices: 46408666--46408721 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
46408656 TCGTATGCAT
*
46408666 TTTTGAGCCAGTATTCTTTTATTT-TTC
1 TTTTGAGCAAGTATTCTTTT-TTTCTTC
* *
46408693 TTTTGAGTAATTATTCTTTTTTTCTTC
1 TTTTGAGCAAGTATTCTTTTTTTCTTC
46408720 TT
1 TT
46408722 CTTTTCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.14, C:0.12, G:0.09, T:0.64
Consensus pattern (27 bp):
TTTTGAGCAAGTATTCTTTTTTTCTTC
Found at i:46408725 original size:14 final size:14
Alignment explanation
Indices: 46408706--46408754 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
46408696 TGAGTAATTA
46408706 TTCTTTTTTTCTTC
1 TTCTTTTTTTCTTC
*
46408720 TTC---TTTTCTTT
1 TTCTTTTTTTCTTC
*
46408731 TTCTTTCTTTCTTC
1 TTCTTTTTTTCTTC
46408745 TTCTTTTTTT
1 TTCTTTTTTT
46408755 ACATCATTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
11 10 0.36
14 18 0.64
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTCTTTTTTTCTTC
Found at i:46413540 original size:44 final size:43
Alignment explanation
Indices: 46413477--46413675 Score: 198
Period size: 44 Copynumber: 4.7 Consensus size: 43
46413467 GAAACTTCAG
46413477 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCAG-CAGAAGAAATCAA
**
46413521 TCCTATCTCCCTGAAGTTGCAGTGGAGC-G--GATTAACATCAAGA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGCAGAAGAA-ATC-A-A
* ** * * *
46413564 TCTTATCTTTCTGAGGTTGCA---GAG-AGCAGATAG-TATCCAG
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGCAGA-AGAAAT-CAA
*
46413604 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCAG-CAGAAGAAATCAA
46413648 TCCTATCTCCCTGAAGTTGCAGTGGAGC
1 TCCTATCTCCCTGAAGTTGCAGTGGAGC
46413676 GGAACTTATC
Statistics
Matches: 125, Mismatches: 16, Indels: 28
0.74 0.09 0.17
Matches are distributed among these distances:
40 26 0.21
41 6 0.05
42 4 0.03
43 22 0.18
44 61 0.49
45 6 0.05
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (43 bp):
TCCTATCTCCCTGAAGTTGCAGTGGAGCAGCAGAAGAAATCAA
Found at i:46413767 original size:115 final size:118
Alignment explanation
Indices: 46413560--46414004 Score: 583
Period size: 127 Copynumber: 3.6 Consensus size: 118
46413550 GATTAACATC
* *
46413560 AAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATAGTATCCAGTCTTATCTCCCTGAAGTTGCA
1 AAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCA
*
46413625 GTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGG
66 GTGGAGTAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGG
*
46413678 -A-A-CTTATCTTTCTGAGGTTGCAAAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCA
1 AAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCA
* * **
46413740 GTGAAGTAGACAGAAGAAATCAATCCTATCTCCCTAAAGTTGTGGTGGAGCGG
66 GTGGAGTAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGG
46413793 ATTAACATTCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCTTATCTCCCT
1 ------A---AGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCTTATCTCCCT
* *
46413858 GAAGTTGCAGTGGAGCT-GACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCAATGGAGTGG
57 GAAGTTGCAGTGGAG-TAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGG
*
46413920 ATTAACATCCAGATCTTATCTTTCTGAGATTGCAGAGAGCAGATCGCATCCAGTCTTATCTCCCT
1 ------A---AGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCTTATCTCCCT
*
46413985 GAAGTTGCAGTGGAGCAGAC
57 GAAGTTGCAGTGGAGTAGAC
46414005 TAAAAATAGC
Statistics
Matches: 295, Mismatches: 18, Indels: 19
0.89 0.05 0.06
Matches are distributed among these distances:
115 105 0.36
116 1 0.00
117 1 0.00
125 1 0.00
126 1 0.00
127 185 0.63
128 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (118 bp):
AAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCA
GTGGAGTAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGG
Found at i:46413771 original size:44 final size:41
Alignment explanation
Indices: 46413722--46413910 Score: 116
Period size: 44 Copynumber: 4.4 Consensus size: 41
46413712 CATCCAGTCT
46413722 TATCTCCCTGAAGTTGCAGTGAAGTAGACAGAAGAAATCAATCC
1 TATCTCCCTGAAGTTGCAGTG-AG-AG-CAGAAGAAATCAATCC
* ** * ** *
46413766 TATCTCCCTAAAGTTGTGGTG-GAGCGGATTAACATTCAGATCT
1 TATCTCCCTGAAGTTGCAGTGAGAGCAGAAGAA-A-TCA-ATCC
** * * * * *
46413809 TATCTTTCTGAGGTTGCA--GAGAGCAGATCG-CATCCAGTCT
1 TATCTCCCTGAAGTTGCAGTGAGAGCAGA-AGAAAT-CAATCC
*
46413849 TATCTCCCTGAAGTTGCAGTGGAGCTGACAGAAGAAATCAATCC
1 TATCTCCCTGAAGTTGCAGT-GAG-AG-CAGAAGAAATCAATCC
46413893 TATCTCCCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCA
46413911 ATGGAGTGGA
Statistics
Matches: 107, Mismatches: 26, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
40 24 0.22
41 7 0.07
42 10 0.09
43 18 0.17
44 42 0.39
45 6 0.06
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (41 bp):
TATCTCCCTGAAGTTGCAGTGAGAGCAGAAGAAATCAATCC
Found at i:46413905 original size:242 final size:245
Alignment explanation
Indices: 46413474--46414004 Score: 818
Period size: 242 Copynumber: 2.1 Consensus size: 245
46413464 GGTGAAACTT
* * *
46413474 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACAGAAGAAATCAATCCTATCTCCCTAAAGTT
*
46413539 GCAGTGGAGCGGATTAACATCAAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATAGTATCCAG
66 GCAGTGGAGCGGATTAACATCAAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATAGCATCCAG
46413604 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
131 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
* *
46413669 GTGGAGCGG-A-A-CTTATCTTTCTGAGGTTGCAAAGAGCAGATCGCATC
196 ATGGAGCGGAAGATCTTATCTTTCTGAGATTGCAAAGAGCAGATCGCATC
*
46413716 CAGTCTTATCTCCCTGAAGTTGCAGTGAAGTAGACAGAAGAAATCAATCCTATCTCCCTAAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACAGAAGAAATCAATCCTATCTCCCTAAAGTT
** *
46413781 GTGGTGGAGCGGATTAACATTC-AGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCA
66 GCAGTGGAGCGGATTAACA-TCAAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATAGCATCCA
*
46413845 GTCTTATCTCCCTGAAGTTGCAGTGGAGCTGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGC
130 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGC
* *
46413910 AATGGAGTGGATTAACATCCAGATCTTATCTTTCTGAGATTGCAGAGAGCAGATCGCATC
195 AATGGAGCGG------A---AGATCTTATCTTTCTGAGATTGCAAAGAGCAGATCGCATC
*
46413970 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
1 CAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGAC
46414005 TAAAAATAGC
Statistics
Matches: 261, Mismatches: 15, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
242 190 0.73
243 2 0.01
252 1 0.00
253 1 0.00
254 67 0.26
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (245 bp):
CAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACAGAAGAAATCAATCCTATCTCCCTAAAGTT
GCAGTGGAGCGGATTAACATCAAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATAGCATCCAG
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGCA
ATGGAGCGGAAGATCTTATCTTTCTGAGATTGCAAAGAGCAGATCGCATC
Found at i:46415257 original size:18 final size:17
Alignment explanation
Indices: 46415230--46415273 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
46415220 TTTGTTTTTA
*
46415230 TATTATTAATATTATTT
1 TATTATTAATATTATAT
46415247 TATTAATTAATATTATAT
1 TATT-ATTAATATTATAT
46415265 TATATATTA
1 TAT-TATTA
46415274 TTATACCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 19 0.79
19 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTAATATTATAT
Found at i:46419079 original size:6 final size:6
Alignment explanation
Indices: 46419068--46419110 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
46419058 TGAGAAAAAA
* *
46419068 AAATAT AAATAT AAATAT ACATAT --ATAT AAATAT ATATAT AAA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAA
46419111 ATGAGTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
4 4 0.12
6 28 0.88
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (6 bp):
AAATAT
Found at i:46419097 original size:16 final size:16
Alignment explanation
Indices: 46419076--46419108 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
46419066 AAAAATATAA
46419076 ATATAAATATACATAT
1 ATATAAATATACATAT
*
46419092 ATATAAATATATATAT
1 ATATAAATATACATAT
46419108 A
1 A
46419109 AAATGAGTAT
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAAATATACATAT
Found at i:46419178 original size:20 final size:20
Alignment explanation
Indices: 46419136--46419179 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
46419126 TGCATAGATA
*
46419136 ATATACATATATAAGTATAT
1 ATATACATATATAAGAATAT
*
46419156 ATATACATATGTAAGCAAT-T
1 ATATACATATATAAG-AATAT
46419176 ATAT
1 ATAT
46419180 GAAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (20 bp):
ATATACATATATAAGAATAT
Found at i:46419265 original size:3 final size:3
Alignment explanation
Indices: 46419247--46419310 Score: 58
Period size: 3 Copynumber: 21.7 Consensus size: 3
46419237 AATGATAGTC
* * * ** * *
46419247 ATA ATA GTA TTA ATA ATA ATA GTA AGG ATA ATA ATA AAA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46419295 ATA AT- ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
46419311 TATTGATTGA
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:46420967 original size:99 final size:99
Alignment explanation
Indices: 46420759--46421620 Score: 1111
Period size: 99 Copynumber: 8.7 Consensus size: 99
46420749 TTAGATTCGT
* *
46420759 CGTCGTAGCTTTAATCTGTT-CTACTGCATCGCC-TGAGAAGTAAGATTCGCCGTCGTGACTTCA
1 CGTCGTAGCTTCAATCTGTTCCT-CTGCATC-CCTTG-GAAGTAAGATTCGCCGTTGTGACTTCA
* * * *
46420822 ATCTATTTTAATTGCCATGTCAGGGAAGTGAGATTCGC
63 ATCT-TTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
* * * * *
46420860 CGTCGTAGCTTCAATCTGTTCCTCTGTATCACTGGGAAATAAGATTCGCCGTTGTGACTTCGATC
1 CGTCGTAGCTTCAATCTGTTCCTCTGCATCCCTTGGAAGTAAGATTCGCCGTTGTGACTTCAATC
*
46420925 TTTTAAATTGTAATGTCGGGGAAGTGAGATTCAC
66 TTTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
* * * * * *
46420959 TGTTGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAATAAGATTCGTCGTTGTGACTTCAATC
1 CGTCGTAGCTTCAATCTGTTCCTCTGCATCCCTTGGAAGTAAGATTCGCCGTTGTGACTTCAATC
* * *
46421024 TTTTAACTTGCAATGT-TGGGAAGTGAGATTTAC
66 TTTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
* *
46421057 CGTCGTAGCTTCAATCTGTTCCTCTGCATCGCCTAGGAAGTAAGATTTGCCGTTGTGACTTCAAT
1 CGTCGTAGCTTCAATCTGTTCCTCTGCATC-CCTTGGAAGTAAGATTCGCCGTTGTGACTTCAAT
*
46421122 CTTTTAAATTGCAATGTCGGAGAAGTGAGATTCAC
65 CTTTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
* * * *
46421157 CGTTGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAATAAGATTCGCCGTTGTGACTTCAATC
1 CGTCGTAGCTTCAATCTGTTCCTCTGCATCCCTTGGAAGTAAGATTCGCCGTTGTGACTTCAATC
* **
46421222 TTTTAACTTGCAATGTCGGGGAAGTGAGATTTGC
66 TTTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
* * *
46421256 CGTCGTAACTTCAATCTGTTCCTCTGCATCGCCTAGGAAGTAAGATTTGCCGTTGTGACTTCAAT
1 CGTCGTAGCTTCAATCTGTTCCTCTGCATC-CCTTGGAAGTAAGATTCGCCGTTGTGACTTCAAT
*
46421321 ATTTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
65 CTTTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
* * * * * *
46421356 CGTTGTAGCTTCAATTTGTTCCGCTGCATCTCTTGGAAATAAGATTCACCGTTGTGACTTCAATC
1 CGTCGTAGCTTCAATCTGTTCCTCTGCATCCCTTGGAAGTAAGATTCGCCGTTGTGACTTCAATC
* **
46421421 TTTTAACTTGCAATGTCGGGGAAGTGAGATTTGC
66 TTTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
* * * *
46421455 TGTCGTAACTTCAATCTGTTCCTCTGCATCGCCTAGGAAGTAAGATTTGCCGTTGTGACTTCAAT
1 CGTCGTAGCTTCAATCTGTTCCTCTGCATC-CCTTGGAAGTAAGATTCGCCGTTGTGACTTCAAT
* *
46421520 CTTTTAAATTGCAATGTCTGGGAAGTGAGATTCGC
65 CTTTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
* ** * * * *
46421555 TGTTATAGCTTCAATCTATTCCGCTGCATCGCTTGGAAGTAAGATCCGCCGTTGT-AGCTTCAAT
1 CGTCGTAGCTTCAATCTGTTCCTCTGCATCCCTTGGAAGTAAGATTCGCCGTTGTGA-CTTCAAT
46421619 CT
65 CT
46421621 GTTCTGCTGC
Statistics
Matches: 662, Mismatches: 92, Indels: 16
0.86 0.12 0.02
Matches are distributed among these distances:
98 43 0.06
99 347 0.52
100 244 0.37
101 26 0.04
102 2 0.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (99 bp):
CGTCGTAGCTTCAATCTGTTCCTCTGCATCCCTTGGAAGTAAGATTCGCCGTTGTGACTTCAATC
TTTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
Found at i:46421339 original size:199 final size:199
Alignment explanation
Indices: 46420763--46421620 Score: 1337
Period size: 199 Copynumber: 4.3 Consensus size: 199
46420753 ATTCGTCGTC
* ** * * *
46420763 GTAGCTTTAATCTGTTCTACTGCATCGCCTGAGAAGTAAGATTCGCCGTCGTGACTTCAATCTAT
1 GTAGCTTCAATCTGTTCCGCTGCATCGCTTG-GAAATAAGATTCGCCGTTGTGACTTCAATC--T
* * * * * *
46420828 TTTAA-TTGCCATGTCAGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCTCTGTATC-A
63 TTTAACTTGCAATGTCGGGGAAGTGAGATTTGCCGTCGTAACTTCAATCTGTTCCTCTGCATCGC
* * * * *
46420891 CTGGGAAATAAGATTCGCCGTTGTGACTTCGATCTTTTAAATTGTAATGTCGGGGAAGTGAGATT
128 CTAGGAAGTAAGATTTGCCGTTGTGACTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATT
*
46420956 CACTGTT
193 CACCGTT
*
46420963 GTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAATAAGATTCGTCGTTGTGACTTCAATCTTTT
1 GTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAATAAGATTCGCCGTTGTGACTTCAATCTTTT
* * *
46421028 AACTTGCAATGT-TGGGAAGTGAGATTTACCGTCGTAGCTTCAATCTGTTCCTCTGCATCGCCTA
66 AACTTGCAATGTCGGGGAAGTGAGATTTGCCGTCGTAACTTCAATCTGTTCCTCTGCATCGCCTA
*
46421092 GGAAGTAAGATTTGCCGTTGTGACTTCAATCTTTTAAATTGCAATGTCGGAGAAGTGAGATTCAC
131 GGAAGTAAGATTTGCCGTTGTGACTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
46421157 CGTT
196 CGTT
46421161 GTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAATAAGATTCGCCGTTGTGACTTCAATCTTTT
1 GTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAATAAGATTCGCCGTTGTGACTTCAATCTTTT
46421226 AACTTGCAATGTCGGGGAAGTGAGATTTGCCGTCGTAACTTCAATCTGTTCCTCTGCATCGCCTA
66 AACTTGCAATGTCGGGGAAGTGAGATTTGCCGTCGTAACTTCAATCTGTTCCTCTGCATCGCCTA
*
46421291 GGAAGTAAGATTTGCCGTTGTGACTTCAATATTTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
131 GGAAGTAAGATTTGCCGTTGTGACTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
46421356 CGTT
196 CGTT
* * *
46421360 GTAGCTTCAATTTGTTCCGCTGCATCTCTTGGAAATAAGATTCACCGTTGTGACTTCAATCTTTT
1 GTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAATAAGATTCGCCGTTGTGACTTCAATCTTTT
*
46421425 AACTTGCAATGTCGGGGAAGTGAGATTTGCTGTCGTAACTTCAATCTGTTCCTCTGCATCGCCTA
66 AACTTGCAATGTCGGGGAAGTGAGATTTGCCGTCGTAACTTCAATCTGTTCCTCTGCATCGCCTA
* *
46421490 GGAAGTAAGATTTGCCGTTGTGACTTCAATCTTTTAAATTGCAATGTCTGGGAAGTGAGATTCGC
131 GGAAGTAAGATTTGCCGTTGTGACTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
*
46421555 TGTT
196 CGTT
* * * *
46421559 ATAGCTTCAATCTATTCCGCTGCATCGCTTGGAAGTAAGATCCGCCGTTGT-AGCTTCAATCT
1 GTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAATAAGATTCGCCGTTGTGA-CTTCAATCT
46421621 GTTCTGCTGC
Statistics
Matches: 613, Mismatches: 41, Indels: 9
0.92 0.06 0.01
Matches are distributed among these distances:
197 49 0.08
198 150 0.24
199 387 0.63
200 27 0.04
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (199 bp):
GTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAATAAGATTCGCCGTTGTGACTTCAATCTTTT
AACTTGCAATGTCGGGGAAGTGAGATTTGCCGTCGTAACTTCAATCTGTTCCTCTGCATCGCCTA
GGAAGTAAGATTTGCCGTTGTGACTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCAC
CGTT
Found at i:46421742 original size:50 final size:50
Alignment explanation
Indices: 46420751--46421769 Score: 584
Period size: 50 Copynumber: 20.5 Consensus size: 50
46420741 CAGAGAAATT
* * * * *
46420751 AGATTCGTCGTCGTAGCTTTAATCTGTT-CTACTGCATCGCCTGAGAAGTA
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCT-CTGCATCGTCTGGGAAGTA
* * * * * *
46420801 AGATTCGCCGTCGT-GACTTCAATCTATT-TTAATTGCCAT-GTCAGGGAAGTG
1 AGATTCGCCGTTGTAG-CTTCAATCTGTTCCT--CTG-CATCGTCTGGGAAGTA
* * * *
46420852 AGATTCGCCGTCGTAGCTTCAATCTGTTCCTCTGTATC-ACTGGGAAATA
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCTCTGCATCGTCTGGGAAGTA
* * ** * * *
46420901 AGATTCGCCGTTGT-GACTTCGATCTTTTAAAT-TGTAAT-GTCGGGGAAGTG
1 AGATTCGCCGTTGTAG-CTTCAATCTGTT-CCTCTG-CATCGTCTGGGAAGTA
* * * * *
46420951 AGATTCACTGTTGTAGCTTCAATCTGTTCCGCTGCATCG-CTTGGAAATA
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCTCTGCATCGTCTGGGAAGTA
* * * *
46421000 AGATTCGTCGTTGT-GACTTCAATCTTTTAACT-TGCAAT-GT-TGGGAAGTG
1 AGATTCGCCGTTGTAG-CTTCAATCTGTT-CCTCTGC-ATCGTCTGGGAAGTA
** * * *
46421049 AGATTTACCGTCGTAGCTTCAATCTGTTCCTCTGCATCGCCTAGGAAGTA
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCTCTGCATCGTCTGGGAAGTA
* * ** *
46421099 AGATTTGCCGTTGT-GACTTCAATCTTTTAAAT-TGCAAT-GTC-GGAGAAGTG
1 AGATTCGCCGTTGTAG-CTTCAATCTGTT-CCTCTGC-ATCGTCTGG-GAAGTA
* * * *
46421149 AGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCATCG-CTTGGAAATA
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCTCTGCATCGTCTGGGAAGTA
* * * *
46421198 AGATTCGCCGTTGT-GACTTCAATCTTTTAACT-TGCAAT-GTCGGGGAAGTG
1 AGATTCGCCGTTGTAG-CTTCAATCTGTT-CCTCTGC-ATCGTCTGGGAAGTA
* * * * *
46421248 AGATTTGCCGTCGTAACTTCAATCTGTTCCTCTGCATCGCCTAGGAAGTA
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCTCTGCATCGTCTGGGAAGTA
* * * ** * *
46421298 AGATTTGCCGTTGT-GACTTCAATATTTTAAAT-TGCAAT-GTCGGGGAAGTG
1 AGATTCGCCGTTGTAG-CTTCAATCTGTT-CCTCTGC-ATCGTCTGGGAAGTA
* * * * *
46421348 AGATTCACCGTTGTAGCTTCAATTTGTTCCGCTGCATC-TCTTGGAAATA
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCTCTGCATCGTCTGGGAAGTA
* * * * *
46421397 AGATTCACCGTTGT-GACTTCAATCTTTTAACT-TGCAAT-GTCGGGGAAGTG
1 AGATTCGCCGTTGTAG-CTTCAATCTGTT-CCTCTGC-ATCGTCTGGGAAGTA
* * * * * *
46421447 AGATTTGCTGTCGTAACTTCAATCTGTTCCTCTGCATCGCCTAGGAAGTA
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCTCTGCATCGTCTGGGAAGTA
* * ** *
46421497 AGATTTGCCGTTGT-GACTTCAATCTTTTAAAT-TGCAAT-GTCTGGGAAGTG
1 AGATTCGCCGTTGTAG-CTTCAATCTGTT-CCTCTGC-ATCGTCTGGGAAGTA
* * * * *
46421547 AGATTCGCTGTTATAGCTTCAATCTATTCCGCTGCATCG-CTTGGAAGTA
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCTCTGCATCGTCTGGGAAGTA
* * *
46421596 AGATCCGCCGTTGTAGCTTCAATCTGTT-CTGCTGCATCG-CTTGGAAATA
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCT-CTGCATCGTCTGGGAAGTA
* * * * *
46421645 AGATTCGTCGTTGT-GACTTCAATCTTTTAACT-TGCAAT-GTCGGGGAAGTG
1 AGATTCGCCGTTGTAG-CTTCAATCTGTT-CCTCTGC-ATCGTCTGGGAAGTA
* * *
46421695 AGATTCGCCGTCGTAGCTTCAATCTGTTCCTCTGCATCGCCTAGGAAGTA
1 AGATTCGCCGTTGTAGCTTCAATCTGTTCCTCTGCATCGTCTGGGAAGTA
* *
46421745 AGATTTGCCATTGT-GACTTCAATCT
1 AGATTCGCCGTTGTAG-CTTCAATCT
46421770 TTTAAATTGC
Statistics
Matches: 731, Mismatches: 173, Indels: 130
0.71 0.17 0.13
Matches are distributed among these distances:
48 10 0.01
49 264 0.36
50 400 0.55
51 52 0.07
52 5 0.01
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (50 bp):
AGATTCGCCGTTGTAGCTTCAATCTGTTCCTCTGCATCGTCTGGGAAGTA
Found at i:46423078 original size:19 final size:18
Alignment explanation
Indices: 46423054--46423094 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
46423044 TGGTCTCTCC
*
46423054 CTTTTCTTTTTCTTCTTTT
1 CTTTTCTTCTTCTT-TTTT
46423073 CTTTTCTTCTTCTTTTTT
1 CTTTTCTTCTTCTTTTTT
46423091 -TTTT
1 CTTTT
46423095 AACTCTGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 4 0.19
19 13 0.62
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
CTTTTCTTCTTCTTTTTT
Found at i:46423084 original size:16 final size:15
Alignment explanation
Indices: 46423054--46423094 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
46423044 TGGTCTCTCC
46423054 CTTTTC-TTTTTCTT
1 CTTTTCTTTTTTCTT
46423068 CTTTTCTTTTCTTCTT
1 CTTTTCTTTT-TTCTT
46423084 CTTTT-TTTTTT
1 CTTTTCTTTTTT
46423095 AACTCTGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.32
15 7 0.28
16 10 0.40
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
CTTTTCTTTTTTCTT
Found at i:46423845 original size:13 final size:12
Alignment explanation
Indices: 46423824--46423855 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
46423814 TCTCACGATC
46423824 TTTTTTTTGTTT
1 TTTTTTTTGTTT
46423836 TTTGTTTTTGTTT
1 TTT-TTTTTGTTT
46423849 TTTTTTT
1 TTTTTTT
46423856 GGTTGCCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:46428850 original size:16 final size:16
Alignment explanation
Indices: 46428829--46428867 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
46428819 GAAAAAAAAA
*
46428829 ATATAAATATACATAT
1 ATATAAATATAAATAT
46428845 ATATAAATATAAATAT
1 ATATAAATATAAATAT
46428861 ATATAAA
1 ATATAAA
46428868 ATGAGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATAAATATAAATAT
Found at i:46429020 original size:3 final size:3
Alignment explanation
Indices: 46429002--46429093 Score: 166
Period size: 3 Copynumber: 30.7 Consensus size: 3
46428992 AATGATAGTC
* *
46429002 ATA ATA GTA TTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46429050 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
46429094 TGATTGATTG
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:46431856 original size:20 final size:20
Alignment explanation
Indices: 46431828--46431889 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
46431818 TTTTAAAAGA
* *
46431828 TATAAAAAATGTATGTATAT
1 TATAGAAAATGTATATATAT
*
46431848 TATAGAAAATGTATAAATAT
1 TATAGAAAATGTATATATAT
*
46431868 TAT-G-AAATGTATATATAC
1 TATAGAAAATGTATATATAT
46431886 TATA
1 TATA
46431890 AAATACATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.42
19 1 0.03
20 20 0.56
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.39
Consensus pattern (20 bp):
TATAGAAAATGTATATATAT
Found at i:46431893 original size:18 final size:18
Alignment explanation
Indices: 46431833--46431893 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
46431823 AAAGATATAA
*
46431833 AAAATGTATGTATATTAT
1 AAAATGTATATATATTAT
*
46431851 AGAAAATGTATAAATATTAT
1 --AAAATGTATATATATTAT
* *
46431871 GAAATGTATATATACTAT
1 AAAATGTATATATATTAT
46431889 AAAAT
1 AAAAT
46431894 ACATATTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 19 0.54
20 16 0.46
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.38
Consensus pattern (18 bp):
AAAATGTATATATATTAT
Found at i:46433734 original size:44 final size:44
Alignment explanation
Indices: 46433663--46434275 Score: 784
Period size: 44 Copynumber: 13.9 Consensus size: 44
46433653 ACCTGCTATA
* *
46433663 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCCGCTTGC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * *
46433707 TTTGATCTACTTCACGCCAGTATATGAAGACAAGATCTGCTTCC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * * * * * *
46433751 TTCGATCTACTTCGCCACCAGTATA-GAAAGATAAGATCTGCTATC
1 TTTGATCTACTTC-ACGCCAATACATG-AAGACAAGATCTGCTTTC
*
46433796 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
*
46433840 TTTGATCTACTTCACTCCAATACATGAAGACAAGATCTGCTTTC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * * *
46433884 TTTGATCTACTTCACTCTAATACATGAAGACAAGATTTGTTTTC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * *
46433928 TTTGATCTACTTCACGCCAATACATAAAGATAAGATCCT-CTTGC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGAT-CTGCTTTC
*
46433972 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTGC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * * * *** *
46434016 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATC
1 TTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTC
* *
46434061 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* *
46434105 TTTGATCTACTTCACGCCAATACATGAAGACAAGATTTGTTTTC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* *
46434149 TTTGATCTACTTCACGCCAATACATGAAGACAATATCTGCTTGC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
46434193 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTATC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT-TC
* * *
46434237 TTTGATCTATTTCACTGCCAGTACA-GAAAGATAAGATCT
1 TTTGATCTACTTCAC-GCCAATACATG-AAGACAAGATCT
46434276 ACTGGCTTCA
Statistics
Matches: 500, Mismatches: 60, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
43 4 0.01
44 402 0.80
45 94 0.19
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (44 bp):
TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
Found at i:46434048 original size:221 final size:220
Alignment explanation
Indices: 46433663--46434275 Score: 836
Period size: 221 Copynumber: 2.8 Consensus size: 220
46433653 ACCTGCTATA
** * * *
46433663 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCCGCTTGCTTTGATCTACTTCACGCCAGT
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATTTGTTTTCTTTGATCTACTTCACGCCAAT
* * * * * * * *
46433728 ATATGAAGACAAGATCTGCTTCCTTCGATCTACTTCGCCACCAGTATA-GAAAGATAAGATCTGC
66 ACATGAAGACAAGATCTGCTTGCTTTGATCTACTTC-ACGCCAATACATG-AAGACAAGATCTGC
* * * * *
46433792 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACTC
129 TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGC
*
46433857 CAATACATGAAGACAAGATCTGCTTTC
194 CAATACATGAAGACAAGATCTACTTTC
* *
46433884 TTTGATCTACTTCACTCTAATACATGAAGACAAGATTTGTTTTCTTTGATCTACTTCACGCCAAT
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATTTGTTTTCTTTGATCTACTTCACGCCAAT
* *
46433949 ACATAAAGATAAGATCCT-CTTGCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
66 ACATGAAGACAAGAT-CTGCTTGCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
* * **
46434013 -TGCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACG
130 AT-CTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACG
46434077 CCAATACATGAAGACAAGATCTACTTTC
193 CCAATACATGAAGACAAGATCTACTTTC
46434105 TTTGATCTACTTCACGCCAATACATGAAGACAAGATTTGTTTTCTTTGATCTACTTCACGCCAAT
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATTTGTTTTCTTTGATCTACTTCACGCCAAT
* *
46434170 ACATGAAGACAATATCTGCTTGCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTA
66 ACATGAAGACAAGATCTGCTTGCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTA
* * * * * *
46434235 TCTTTGATCTATTTCACTGCCAGTACAGAAAGATAAGATCT
131 TCTTCGATCTACTTCAC-ACCAATACAGGAAGACAAGATCT
46434276 ACTGGCTTCA
Statistics
Matches: 344, Mismatches: 41, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
219 1 0.00
220 38 0.11
221 302 0.88
222 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (220 bp):
TTTGATCTACTTCACGCCAATACATGAAGACAAGATTTGTTTTCTTTGATCTACTTCACGCCAAT
ACATGAAGACAAGATCTGCTTGCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTA
TCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCA
ATACATGAAGACAAGATCTACTTTC
Found at i:46434136 original size:265 final size:265
Alignment explanation
Indices: 46433663--46434284 Score: 978
Period size: 265 Copynumber: 2.3 Consensus size: 265
46433653 ACCTGCTATA
*
46433663 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCCGCTTGCTTTGATCTACTTCACGCCAGT
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCCTCTTGCTTTGATCTACTTCACGCCAGT
* * *
46433728 ATATGAAGACAAGATCTGCTTCCTTCGATCTACTTCGCCACCAGTATAGAAAGATAAGATCTGCT
66 ACATGAAGACAAGATCTGCTTGCTTCGATCTACTTCGCCACCAGTATAGAAAGACAAGATCTGCT
* *
46433793 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACTCC
131 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTTGATCTACTTCACGCC
* * *
46433858 AATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACTCTAATACATGAAGACAAGATTTG
196 AATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
* *
46433923 TTTTC
261 CTTGC
* * *
46433928 TTTGATCTACTTCACGCCAATACATAAAGATAAGATCCTCTTGCTTTGATCTACTTCACGCCAAT
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCCTCTTGCTTTGATCTACTTCACGCCAGT
* *
46433993 ACATGAAGACAAGATCTGCTTGCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCT
66 ACATGAAGACAAGATCTGCTTGCTTCGATCTACTTCGCCACCAGTATAGAAAGACAAGATCTGCT
46434058 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTTGATCTACTTCACGCC
131 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTTGATCTACTTCACGCC
* * *
46434123 AATACATGAAGACAAGATTTGTTTTCTTTGATCTACTTCACGCCAATACATGAAGACAATATCTG
196 AATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
46434188 CTTGC
261 CTTGC
* * *
46434193 TTTGATCTACTTCACGCCAATACATGAAGACAAGAT-CTGTTATCTTTGATCTATTTCACTGCCA
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCCTCTT-GCTTTGATCTACTTCAC-GCCA
* * *
46434257 GTACA-GAAAGATAAGATCTACTGGCTTC
64 GTACATG-AAGACAAGATCTGCTTGCTTC
46434285 AATGTACTCC
Statistics
Matches: 326, Mismatches: 28, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
264 4 0.01
265 296 0.91
266 26 0.08
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (265 bp):
TTTGATCTACTTCACGCCAATACATGAAGACAAGATCCTCTTGCTTTGATCTACTTCACGCCAGT
ACATGAAGACAAGATCTGCTTGCTTCGATCTACTTCGCCACCAGTATAGAAAGACAAGATCTGCT
ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTTGATCTACTTCACGCC
AATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
CTTGC
Found at i:46434457 original size:132 final size:132
Alignment explanation
Indices: 46434282--46434529 Score: 442
Period size: 132 Copynumber: 1.9 Consensus size: 132
46434272 ATCTACTGGC
* *
46434282 TTCAATGTACTCCATTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
1 TTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
* *
46434347 CTTGGGAAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTGTTG
66 CTTGGGAAGACAAGATCTGAAATCTTCAATCTATCCCACTGCTGCCCAGGGAAGTAGAATTGTTG
46434412 GT
131 GT
*
46434414 TTCAATGTACTCCACTGTAACCACAATGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
1 TTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
*
46434479 CTTGGGGAGACAAGATCTGAAATCTTCAATCTATCCCACTGCTGCCCAGGG
66 CTTGGGAAGACAAGATCTGAAATCTTCAATCTATCCCACTGCTGCCCAGGG
46434530 CTCCACCGTA
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 110 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (132 bp):
TTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
CTTGGGAAGACAAGATCTGAAATCTTCAATCTATCCCACTGCTGCCCAGGGAAGTAGAATTGTTG
GT
Found at i:46434610 original size:107 final size:107
Alignment explanation
Indices: 46434423--46434635 Score: 318
Period size: 107 Copynumber: 2.0 Consensus size: 107
46434413 TTTCAATGTA
* * * * *
46434423 CTCCACTGTAACCACAATGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAG
1 CTCCACCGTAACCACAAGGAGGTAAAATCCACCATCTTTGATCTGCTCAACTACTGCTTAGGGAG
46434488 ACAAGATCTGAAATCTTCAATCTATCCCACTGCTGCCCAGGG
66 ACAAGATCTGAAATCTTCAATCTATCCCACTGCTGCCCAGGG
* *
46434530 CTCCACCGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCAACTACTGCTTAGGGAG
1 CTCCACCGTAACCACAAGGAGGTAAAATCCACCATCTTTGATCTGCTCAACTACTGCTTAGGGAG
* * * * *
46434595 ATAAGATCTGTAATCTTCAATTTATTCCACTGTTGCCCAGG
66 ACAAGATCTGAAATCTTCAATCTATCCCACTGCTGCCCAGG
46434636 AAGATAGAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
107 94 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (107 bp):
CTCCACCGTAACCACAAGGAGGTAAAATCCACCATCTTTGATCTGCTCAACTACTGCTTAGGGAG
ACAAGATCTGAAATCTTCAATCTATCCCACTGCTGCCCAGGG
Found at i:46434735 original size:239 final size:239
Alignment explanation
Indices: 46434298--46434736 Score: 652
Period size: 239 Copynumber: 1.8 Consensus size: 239
46434288 GTACTCCATT
* *
46434298 GTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGAAGACAAGAT
1 GTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCAACTACTGCTTGGGAAGACAAGAT
* ** *
46434363 CTGAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTGTTGGTTTCAATGTACTCCA
66 CTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCA
** **
46434428 CTGTAACCACAATGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAG
131 CTGTAACCACAATGAGGTAAAATTCACCATCTTTGATCAACTCCACTACTGCTTAAGGAGACAAG
46434493 ATCTGAAATCTTCAATCTATCCCACTGCTGCCCAGGGCTCCACC
196 ATCTGAAATCTTCAATCTATCCCACTGCTGCCCAGGGCTCCACC
* *
46434537 GTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCAACTACTGCTTAGGG-AGATAAGA
1 GTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCAACTACTGCTT-GGGAAGACAAGA
* * *
46434601 TCTGTAATCTTCAATTTATTCCACTGTTGCCCA-GGAAGATAGAATTACTGGCTTCAATGTACTC
65 TCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTC
* *
46434665 CACTGTAACCTC-ATGGAGGTAAAA-TCTGCCATCTTTGATCAACTCCACTACTGCTTAAGGAGA
129 CACTGTAACCACAAT-GAGGTAAAATTC-ACCATCTTTGATCAACTCCACTACTGCTTAAGGAGA
*
46434728 TAAGATCTG
192 CAAGATCTG
46434737 TATGATTTCT
Statistics
Matches: 178, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
238 9 0.05
239 166 0.93
240 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (239 bp):
GTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCAACTACTGCTTGGGAAGACAAGAT
CTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCA
CTGTAACCACAATGAGGTAAAATTCACCATCTTTGATCAACTCCACTACTGCTTAAGGAGACAAG
ATCTGAAATCTTCAATCTATCCCACTGCTGCCCAGGGCTCCACC
Found at i:46435941 original size:7 final size:6
Alignment explanation
Indices: 46435920--46435951 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
46435910 TTTTCCGTTC
46435920 TTCATT TTCATT TTCAATT TTCATT TTCATT T
1 TTCATT TTCATT TTC-ATT TTCATT TTCATT T
46435952 CATCATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.66
Consensus pattern (6 bp):
TTCATT
Found at i:46435941 original size:13 final size:13
Alignment explanation
Indices: 46435923--46435948 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46435913 TCCGTTCTTC
46435923 ATTTTCATTTTCA
1 ATTTTCATTTTCA
46435936 ATTTTCATTTTCA
1 ATTTTCATTTTCA
46435949 TTTCATCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTCATTTTCA
Found at i:46436886 original size:18 final size:18
Alignment explanation
Indices: 46436860--46436903 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
46436850 TGGTTTGGCA
*
46436860 GAAAAAATCCAAAAGAAT
1 GAAAGAATCCAAAAGAAT
**
46436878 GAAAGAATCGTAAAGAAT
1 GAAAGAATCCAAAAGAAT
46436896 GAAAGAAT
1 GAAAGAAT
46436904 ATTTGTTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.61, C:0.07, G:0.18, T:0.14
Consensus pattern (18 bp):
GAAAGAATCCAAAAGAAT
Found at i:46438201 original size:21 final size:21
Alignment explanation
Indices: 46438175--46438223 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
46438165 GCCCTGAATT
46438175 TCTCCTCGAGCCATTTGCACC
1 TCTCCTCGAGCCATTTGCACC
46438196 TCTCCTCGAGCCATTTGCACC
1 TCTCCTCGAGCCATTTGCACC
*
46438217 TTTCCTC
1 TCTCCTC
46438224 TAGCTGCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.12, C:0.43, G:0.12, T:0.33
Consensus pattern (21 bp):
TCTCCTCGAGCCATTTGCACC
Found at i:46438802 original size:19 final size:19
Alignment explanation
Indices: 46438762--46438806 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
46438752 ACCGCTTTTT
* *
46438762 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
46438781 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
46438800 ATGCAAA
1 ATGCAAA
46438807 AAGAGACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:46438850 original size:13 final size:13
Alignment explanation
Indices: 46438832--46438858 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46438822 TGGTTCAATT
46438832 CTTCACTAGAAAA
1 CTTCACTAGAAAA
46438845 CTTCACTAGAAAA
1 CTTCACTAGAAAA
46438858 C
1 C
46438859 AAATCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.22
Consensus pattern (13 bp):
CTTCACTAGAAAA
Found at i:46440672 original size:16 final size:16
Alignment explanation
Indices: 46440647--46440680 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46440637 AATCATGAAA
* *
46440647 ATTCACATACGTATAT
1 ATTCAAATACATATAT
46440663 ATTCAAATACATATAT
1 ATTCAAATACATATAT
46440679 AT
1 AT
46440681 ATGTACAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTCAAATACATATAT
Found at i:46440777 original size:20 final size:20
Alignment explanation
Indices: 46440749--46440810 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
46440739 TTTTAAAAGA
* *
46440749 TATAAAAAATGTATGTATAT
1 TATAGAAAATGTATATATAT
*
46440769 TATAGAAAATGTATAAATAT
1 TATAGAAAATGTATATATAT
*
46440789 TAT-G-AAATGTATATATAC
1 TATAGAAAATGTATATATAT
46440807 TATA
1 TATA
46440811 AAATACATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.42
19 1 0.03
20 20 0.56
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.39
Consensus pattern (20 bp):
TATAGAAAATGTATATATAT
Found at i:46440814 original size:18 final size:18
Alignment explanation
Indices: 46440754--46440814 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
46440744 AAAGATATAA
*
46440754 AAAATGTATGTATATTAT
1 AAAATGTATATATATTAT
*
46440772 AGAAAATGTATAAATATTAT
1 --AAAATGTATATATATTAT
* *
46440792 GAAATGTATATATACTAT
1 AAAATGTATATATATTAT
46440810 AAAAT
1 AAAAT
46440815 ACATATGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 19 0.54
20 16 0.46
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.38
Consensus pattern (18 bp):
AAAATGTATATATATTAT
Found at i:46442834 original size:4 final size:4
Alignment explanation
Indices: 46442825--46442849 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
46442815 TCAATTGATT
46442825 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
46442850 CCTTCACCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:46454363 original size:21 final size:22
Alignment explanation
Indices: 46454337--46454383 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
46454327 CTCTGCTCAA
*
46454337 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
46454358 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
46454380 ACTC
1 ACTC
46454384 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:46469281 original size:79 final size:79
Alignment explanation
Indices: 46469150--46469307 Score: 280
Period size: 79 Copynumber: 2.0 Consensus size: 79
46469140 ATGATGATTT
* * * *
46469150 AACTTTTCATGTGTATTGCAGTAGACTTATTGAATTGTATGCTTTGAAATGTTTATTTATTTTTT
1 AACTTTTCACGTGTATTGCAGTAGACTTATTGAATTATATGCTTTGAAATGTTTATTTATTTATG
46469215 ATTTTAAAAAATGC
66 ATTTTAAAAAATGC
46469229 AACTTTTCACGTGTATTGCAGTAGACTTATTGAATTATATGCTTTGAAATGTTTATTTATTTATG
1 AACTTTTCACGTGTATTGCAGTAGACTTATTGAATTATATGCTTTGAAATGTTTATTTATTTATG
46469294 ATTTTAAAAAATGC
66 ATTTTAAAAAATGC
46469308 TGGTATACTA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.47
Consensus pattern (79 bp):
AACTTTTCACGTGTATTGCAGTAGACTTATTGAATTATATGCTTTGAAATGTTTATTTATTTATG
ATTTTAAAAAATGC
Found at i:46471331 original size:70 final size:70
Alignment explanation
Indices: 46471217--46471573 Score: 435
Period size: 70 Copynumber: 5.1 Consensus size: 70
46471207 TGATATTATA
* * *
46471217 AAGGCTCGTATGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGTGTACGCTCCCAACTAGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCGTACGCTCCCAACTGGA
46471282 ATCTT
66 ATCTT
* * * * *
46471287 CAGGCTCGTAGGTTCCATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAACTGGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCGTACGCTCCCAACTGGA
*
46471352 ATCTC
66 ATCTT
* * * * *
46471357 AAGGCTCGTAGGTTCAATACCGCATCCTCCAAAATAGTTAGTGCGAGCTTACGCTCCCAATTGGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCGTACGCTCCCAACTGGA
46471422 ATCTT
66 ATCTT
* * * * * * * * * *
46471427 AAGGCTCGCAGGTTCAATACCACAACCTTCAAAATAGTTAGCTCGAGCCTAAGCTCCCAGCCGGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCGTACGCTCCCAACTGGA
46471492 ATCTT
66 ATCTT
** * * * **
46471497 AAGGCTCACAGGTTCAATATCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACACTCCCAGTTGGA
1 AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCGTACGCTCCCAACTGGA
46471562 ATCTT
66 ATCTT
46471567 AAGGCTC
1 AAGGCTC
46471574 ACTGGTTTAA
Statistics
Matches: 244, Mismatches: 43, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 244 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (70 bp):
AAGGCTCGTAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCGTACGCTCCCAACTGGA
ATCTT
Found at i:46471601 original size:140 final size:137
Alignment explanation
Indices: 46471228--46471617 Score: 428
Period size: 140 Copynumber: 2.8 Consensus size: 137
46471218 AGGCTCGTAT
* * *
46471228 GTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAG-TGTACGCTCCCAACTAGAATCTTCAGGC
1 GTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCT-TACGCTCCCAATTGGAATCTTAAGGC
* * * * *
46471292 TCGTAGGTTCCATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAACTGGAATCTC
65 TCCT-GGTTCAATACCACA-CCT-CAAAATAGCTAGCGCGAGCCTACACTCCCAACCGGAATCTC
**
46471357 AAGGCTCGTAG
127 AAGGCTCACAG
* * *
46471368 GTTCAATACCGCATCCTCCAAAATAGTTAGTGCGAGCTTACGCTCCCAATTGGAATCTTAAGGCT
1 GTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACGCTCCCAATTGGAATCTTAAGGCT
* * * * *
46471433 CGCAGGTTCAATACCACAACCTTCAAAATAGTTAGCTCGAGCCTA-AGCTCCCAGCCGGAATCTT
66 C-CTGGTTCAATACCAC-ACC-TCAAAATAGCTAGCGCGAGCCTACA-CTCCCAACCGGAATCTC
46471497 AAGGCTCACAG
127 AAGGCTCACAG
* * *
46471508 GTTCAATATCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACACTCCCAGTTGGAATCTTAAGGCT
1 GTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACGCTCCCAATTGGAATCTTAAGGCT
* * * *
46471573 CACTGGTTTAATATCGCGACCTCAAAAATAGCT-G-GCGAACCTACA
66 C-CTGGTTCAATACCAC-ACCTC-AAAATAGCTAGCGCGAGCCTACA
46471618 TTTCTGATTC
Statistics
Matches: 210, Mismatches: 33, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
138 7 0.03
139 5 0.02
140 195 0.93
141 3 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (137 bp):
GTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACGCTCCCAATTGGAATCTTAAGGCT
CCTGGTTCAATACCACACCTCAAAATAGCTAGCGCGAGCCTACACTCCCAACCGGAATCTCAAGG
CTCACAG
Found at i:46471603 original size:210 final size:210
Alignment explanation
Indices: 46471217--46471603 Score: 490
Period size: 210 Copynumber: 1.8 Consensus size: 210
46471207 TGATATTATA
* * * * ** * *
46471217 AAGGCTCGTATGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGTGTACGCTCCCAACTAGA
1 AAGGCTCGCAGGTTCAATACCACAACCTCCAAAACAGTTAGCGCGAGCCTAAGCTCCCAACCAGA
* ** *
46471282 ATCTTCAGGCTCGTAGGTTCCATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAA
66 ATCTTAAGGCTCACAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAA
* *
46471347 CTGGAATCTCAAGGCTCGTAGGTTCAATACCGCATCCTCCAAAATAGTTAGTGCGAGCTTACGCT
131 CTGGAATCTCAAGGCTCCTAGGTTCAATACCGCATCCTCAAAAATAGTTAGTGCGAGCTTACGCT
46471412 CCCAATTGGAATCTT
196 CCCAATTGGAATCTT
* * * * *
46471427 AAGGCTCGCAGGTTCAATACCACAACCTTCAAAATAGTTAGCTCGAGCCTAAGCTCCCAGCCGGA
1 AAGGCTCGCAGGTTCAATACCACAACCTCCAAAACAGTTAGCGCGAGCCTAAGCTCCCAACCAGA
* * * * *
46471492 ATCTTAAGGCTCACAGGTTCAATATCGCAGCCTCCAAAACAGTTAGCGCGAGCTTACACTCCCAG
66 ATCTTAAGGCTCACAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAA
* * * *
46471557 TTGGAATCTTAAGGCTCACT-GGTTTAATATCGCGA-CCTCAAAAATAG
131 CTGGAATCTCAAGGCTC-CTAGGTTCAATACCGC-ATCCTCAAAAATAG
46471604 CTGGCGAACC
Statistics
Matches: 147, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
210 145 0.99
211 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (210 bp):
AAGGCTCGCAGGTTCAATACCACAACCTCCAAAACAGTTAGCGCGAGCCTAAGCTCCCAACCAGA
ATCTTAAGGCTCACAGGTTCAATACCACAGCCTCCAAAACAGCTAGCGCGAGCGTACACTCCCAA
CTGGAATCTCAAGGCTCCTAGGTTCAATACCGCATCCTCAAAAATAGTTAGTGCGAGCTTACGCT
CCCAATTGGAATCTT
Found at i:46471994 original size:19 final size:18
Alignment explanation
Indices: 46471972--46472032 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
46471962 GGGTCATAAA
46471972 AAAATTTTATGATTTTTAT
1 AAAATTTTA-GATTTTTAT
*
46471991 AAAATTTTAGAATTTTTTT
1 AAAATTTTAG-ATTTTTAT
***
46472010 ATTTTTTTACGATTTTTAT
1 AAAATTTTA-GATTTTTAT
46472029 AAAA
1 AAAA
46472033 AAAATTCTAA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
18 1 0.03
19 30 0.94
20 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (18 bp):
AAAATTTTAGATTTTTAT
Found at i:46472072 original size:14 final size:15
Alignment explanation
Indices: 46472053--46472084 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
46472043 TTTGTAATAA
46472053 AAATTTT-AAAACTT
1 AAATTTTGAAAACTT
46472067 AAATTTTGAAAACTT
1 AAATTTTGAAAACTT
46472082 AAA
1 AAA
46472085 AATTTGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATTTTGAAAACTT
Found at i:46475315 original size:21 final size:23
Alignment explanation
Indices: 46475291--46475333 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
46475281 TTAATTTTTT
*
46475291 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
46475312 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
46475334 TGATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:46478599 original size:20 final size:20
Alignment explanation
Indices: 46478574--46478631 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
46478564 AATAAATTTT
46478574 AAATTTTTATATTTTTATTA
1 AAATTTTTATATTTTTATTA
* *
46478594 AAA-TTTAATAATTTTT-CTA
1 AAATTTTTAT-ATTTTTATTA
*
46478613 AAATTTATTATTTTTTTAT
1 AAATTT-TTATATTTTTAT
46478632 ATTTTTTCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 10 0.34
20 16 0.55
21 3 0.10
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
AAATTTTTATATTTTTATTA
Found at i:46478608 original size:19 final size:18
Alignment explanation
Indices: 46478570--46478630 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
46478560 GCTTAATAAA
* * *
46478570 TTTTAAATTTTTATATTT
1 TTTTAAAATTTAATAATT
46478588 TTATTAAAATTTAATAATT
1 TT-TTAAAATTTAATAATT
* *
46478607 TTTCTAAAATTTATTATTT
1 TTT-TAAAATTTAATAATT
46478626 TTTTA
1 TTTTA
46478631 TATTTTTTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 5 0.14
19 31 0.86
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAAAATTTAATAATT
Found at i:46478627 original size:18 final size:19
Alignment explanation
Indices: 46478579--46478627 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
46478569 ATTTTAAATT
*
46478579 TTTA-TATTTTTATTAAAA
1 TTTATTATTTTTACTAAAA
*
46478597 TTTAATAATTTTT-CTAAAA
1 TTT-ATTATTTTTACTAAAA
46478616 TTTATTATTTTT
1 TTTATTATTTTT
46478628 TTATATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 11 0.42
19 9 0.35
20 6 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTATTATTTTTACTAAAA
Found at i:46478749 original size:86 final size:87
Alignment explanation
Indices: 46478651--46478873 Score: 263
Period size: 88 Copynumber: 2.5 Consensus size: 87
46478641 AATTTTTAAT
* *
46478651 AAAAGCAGGGGCTTAATTGCTTTTTTTAAAAAATTTGAGTCTTTTTGATGCATTTTGAAAGTTCA
1 AAAAGCAAGGGCTTAATTGCTTTTTTTAAAAAATTTGAGTCTTTTTAATGCATTTTGAAAGTTCA
46478716 AGTACCCAATTGAATG-AAAAA
66 AGTACCCAATTGAATGTAAAAA
* * *
46478737 AAAAGCAAGGGCTTAATTGCTTTTTTGAAGAAATTTGAGGGTCTTTTTAATGTATTTTGAAAGTT
1 AAAAGCAAGGGCTTAATTGCTTTTTTTAAAAAATTTGA--GTCTTTTTAATGCATTTTGAAAGTT
* * * *
46478802 CAAGTGCTCAATTGAGTGTAAGAA
64 CAAGTACCCAATTGAATGTAAAAA
* * * *
46478826 AAAAG--AGAGACTTAATTGCTTATCTTAAAAAAGTTTGAGGGCTTTTTA
1 AAAAGCAAG-GGCTTAATTGCTTTTTTTAAAAAA-TTTGA-GTCTTTTTA
46478874 CACCCTAAGC
Statistics
Matches: 117, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
86 35 0.30
87 2 0.02
88 66 0.56
89 14 0.12
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (87 bp):
AAAAGCAAGGGCTTAATTGCTTTTTTTAAAAAATTTGAGTCTTTTTAATGCATTTTGAAAGTTCA
AGTACCCAATTGAATGTAAAAA
Found at i:46479570 original size:13 final size:13
Alignment explanation
Indices: 46479534--46479572 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
46479524 GATATATTTG
*
46479534 TAATTTGAAAGCT
1 TAATTTGAAAACT
46479547 TAAGTTTTGAAAACT
1 TAA--TTTGAAAACT
46479562 TAATTTGAAAA
1 TAATTTGAAAA
46479573 TTTGAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:46479873 original size:35 final size:35
Alignment explanation
Indices: 46479829--46480029 Score: 235
Period size: 35 Copynumber: 5.8 Consensus size: 35
46479819 TTCACTTGCC
* * *
46479829 TTTTCTTGCAAGGAATATTTCCTGTTCACGCATTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * * *
46479864 TTTTGTTGCAGGGAATCTCTCCTATTCACACA-TC
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
46479898 TTTTCTTGCAAGGAATATCTCATGTTCACGCATTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
46479933 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
46479968 -TTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
46480002 TGTTGTTGCAGGGAATCTCTCATGTTCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA
46480030 TGTATCATTT
Statistics
Matches: 138, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
34 57 0.41
35 81 0.59
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.39
Consensus pattern (35 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:46480042 original size:69 final size:69
Alignment explanation
Indices: 46479830--46480029 Score: 328
Period size: 69 Copynumber: 2.9 Consensus size: 69
46479820 TCACTTGCCT
* * *
46479830 TTTCTTGCAAGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTATTCACAC
1 TTTCTTGCAAGGAATATCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
*
46479895 ATCT
66 ATCA
46479899 TTTCTTGCAAGGAATATCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
1 TTTCTTGCAAGGAATATCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
46479964 ATCA
66 ATCA
* * * *
46479968 TTTCTTGCAGGGAATCTCTCATGTTCACGCATTATGTTGTTGCAGGGAATCTCTCATGTTCA
1 TTTCTTGCAAGGAATATCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCA
46480030 TGTATCATTT
Statistics
Matches: 123, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 123 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (69 bp):
TTTCTTGCAAGGAATATCTCATGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
ATCA
Found at i:46482864 original size:19 final size:22
Alignment explanation
Indices: 46482835--46482877 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
46482825 GAACAAATTG
46482835 TTGATTCTATT-TTTTTTG-AT
1 TTGATTCTATTCTTTTTTGTAT
46482855 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCTTTTTTGTAT
46482876 TT
1 TT
46482878 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.14, C:0.07, G:0.09, T:0.70
Consensus pattern (22 bp):
TTGATTCTATTCTTTTTTGTAT
Found at i:46487503 original size:3 final size:3
Alignment explanation
Indices: 46487495--46487534 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
46487485 GAGCAAAGAA
*
46487495 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
46487535 GTTCAGATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:46488933 original size:58 final size:58
Alignment explanation
Indices: 46488838--46488956 Score: 175
Period size: 58 Copynumber: 2.1 Consensus size: 58
46488828 GATTAGGGTC
* *
46488838 ATATCTAATAGGAAAGGAAAAAAGGACAGCCTCATCCACTGGAGCATACATTGAGGAA
1 ATATCTAAGAGGAAAGGAAAAAAGGACAGCCTCATCCACTGGAGCATACATTAAGGAA
* * * * *
46488896 ATATCTAAGAGGAAAGGAAGAAAGGACATCCTTATCCATTGGAGCATCCATTAAGGAA
1 ATATCTAAGAGGAAAGGAAAAAAGGACAGCCTCATCCACTGGAGCATACATTAAGGAA
46488954 ATA
1 ATA
46488957 GTTGCAATCT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (58 bp):
ATATCTAAGAGGAAAGGAAAAAAGGACAGCCTCATCCACTGGAGCATACATTAAGGAA
Found at i:46489466 original size:34 final size:34
Alignment explanation
Indices: 46489360--46489466 Score: 94
Period size: 34 Copynumber: 3.1 Consensus size: 34
46489350 ACACAAGGAA
46489360 AAGTTGGTGCCAAAAGTGCAAGCATGGAGGACAC
1 AAGTTGGTGCCAAAAGTGCAAGCATGGAGGACAC
* * * * *
46489394 AAGGGTTGAAATG-CAAAA-AG-AAGAGATTGGTGGCCAC
1 AA--GTTG--GTGCCAAAAGTGCAAG-CA-TGGAGGACAC
46489431 AAGTTGGTGCCAAAAGTGCAAGCATGGAGGACAC
1 AAGTTGGTGCCAAAAGTGCAAGCATGGAGGACAC
46489465 AA
1 AA
46489467 CGTATGCAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 18
0.66 0.12 0.22
Matches are distributed among these distances:
33 2 0.04
34 17 0.31
35 9 0.17
36 9 0.17
37 15 0.28
38 2 0.04
ACGTcount: A:0.38, C:0.15, G:0.32, T:0.15
Consensus pattern (34 bp):
AAGTTGGTGCCAAAAGTGCAAGCATGGAGGACAC
Found at i:46492995 original size:17 final size:17
Alignment explanation
Indices: 46492970--46493056 Score: 63
Period size: 17 Copynumber: 4.9 Consensus size: 17
46492960 GAGGCAACCC
*
46492970 AATTTTTATTTTTATTT
1 AATTATTATTTTTATTT
46492987 AATTATTA-TTTTATTT
1 AATTATTATTTTTATTT
*
46493003 -ATTATTTTATTTTATTT
1 AATTATTAT-TTTTATTT
*
46493020 ACTTTATTTATTACTTTATTT
1 A-ATTA-TTATT--TTTATTT
*
46493041 TATT-TTATTATTTATT
1 AATTATTATT-TTTATT
46493057 ACTTATTTGG
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
15 6 0.11
16 8 0.14
17 21 0.38
18 5 0.09
19 4 0.07
20 5 0.09
21 7 0.12
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.72
Consensus pattern (17 bp):
AATTATTATTTTTATTT
Found at i:46493000 original size:5 final size:5
Alignment explanation
Indices: 46492973--46493049 Score: 66
Period size: 5 Copynumber: 14.4 Consensus size: 5
46492963 GCAACCCAAT
*
46492973 TTTTA TTTTTA TTTAA TTATTA TTTTA TTTATTA TTTTA TTTTA -TTTA
1 TTTTA -TTTTA TTTTA TT-TTA TTTTA -TT-TTA TTTTA TTTTA TTTTA
* *
46493021 CTTTA TTTATTA CTTTA TTTTA TTTTA TT
1 TTTTA -TT-TTA TTTTA TTTTA TTTTA TT
46493050 ATTTATTACT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
4 4 0.07
5 35 0.58
6 15 0.25
7 6 0.10
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:46493004 original size:26 final size:24
Alignment explanation
Indices: 46492974--46493056 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 24
46492964 CAACCCAATT
*
46492974 TTTATTTTTATTTAATTATTATTTTA
1 TTTATTTTTATTTTATT-TTA-TTTA
46493000 TTTATTATTTTATTTTA-TTTACTTTA
1 TTTA-T-TTTTATTTTATTTTA-TTTA
46493026 TTTATTACTTTATTTTATTTTA-TTA
1 TTTATT--TTTATTTTATTTTATTTA
46493051 TTTATT
1 TTTATT
46493057 ACTTATTTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
24 1 0.02
25 10 0.20
26 24 0.48
27 6 0.12
28 9 0.18
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTATTTTTATTTTATTTTATTTA
Found at i:46494034 original size:12 final size:11
Alignment explanation
Indices: 46494017--46494085 Score: 63
Period size: 12 Copynumber: 6.3 Consensus size: 11
46494007 TTTCTAAAGC
46494017 ATAAAAATATAA
1 ATAAAAA-ATAA
46494029 ATAAAAAATAA
1 ATAAAAAATAA
* *
46494040 AT-ATAAATCA
1 ATAAAAAATAA
*
46494050 A-AATAAATAA
1 ATAAAAAATAA
46494060 ATAAATAAATAA
1 ATAAA-AAATAA
46494072 ATAAGAAAA-AA
1 ATAA-AAAATAA
46494083 ATA
1 ATA
46494086 TAATTTGGGG
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
10 15 0.31
11 13 0.27
12 20 0.41
13 1 0.02
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (11 bp):
ATAAAAAATAA
Found at i:46494041 original size:4 final size:4
Alignment explanation
Indices: 46494025--46494075 Score: 63
Period size: 4 Copynumber: 13.0 Consensus size: 4
46494015 GCATAAAAAT
46494025 ATAA ATAA A-AA ATAA AT-- ATAA ATCAAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA AT--AA ATAA ATAA ATAA ATAA ATAA
46494072 ATAA
1 ATAA
46494076 GAAAAAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 2 0.05
3 3 0.07
4 33 0.79
6 4 0.10
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:46494663 original size:15 final size:15
Alignment explanation
Indices: 46494638--46494672 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
46494628 GACTCTATTT
*
46494638 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
46494652 TAATTAATATTAAGA
1 TAATTAATATTAAGA
46494667 TAATTA
1 TAATTA
46494673 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:46497621 original size:96 final size:96
Alignment explanation
Indices: 46497514--46497742 Score: 257
Period size: 96 Copynumber: 2.4 Consensus size: 96
46497504 TGTTTATTAT
* * *
46497514 TTTTTAA-GAAAAATCAATTAAATTAGGGTTTAGGGGTACTTGAGTAATTTAATTAAAAAAATTT
1 TTTTTAAGGAAAAATCAAATAAATTAAGGTTTAGGGGTACTTGAGTAAATTAATTAAAAAAATTT
* *
46497578 TAAAAATTAAATTAGGGTTTAGAG-TTAAGGG
66 TAAAAAATAAATTAGGGCTTAGAGTTTAA-GG
* * * * * * ***
46497609 TTTTTATGGAAAAATCAAATAAATTAAGGTTAAGTGTTACTTGATTAAATTAATTATAATTTTTT
1 TTTTTAAGGAAAAATCAAATAAATTAAGGTTTAGGGGTACTTGAGTAAATTAATTAAAAAAATTT
* *
46497674 TAAAAAATAGATTAGGGCTTAGTGTTTAAGG
66 TAAAAAATAAATTAGGGCTTAGAGTTTAAGG
* *
46497705 TTTTTAAGTAAAAACTTAAATAAATTAAGGTTT-GGGGT
1 TTTTTAAGGAAAAA-TCAAATAAATTAAGGTTTAGGGGT
46497743 TTAGGGTTAC
Statistics
Matches: 109, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
95 6 0.06
96 83 0.76
97 20 0.18
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.39
Consensus pattern (96 bp):
TTTTTAAGGAAAAATCAAATAAATTAAGGTTTAGGGGTACTTGAGTAAATTAATTAAAAAAATTT
TAAAAAATAAATTAGGGCTTAGAGTTTAAGG
Found at i:46498001 original size:126 final size:126
Alignment explanation
Indices: 46497776--46498066 Score: 474
Period size: 126 Copynumber: 2.3 Consensus size: 126
46497766 TTGCTAATTT
* * *
46497776 AAAGAAGCTCTCACGTGGACGCGCTTTTACTACAGTAGCTCCTAAAAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
* * *
46497841 GTTTCTGAGCAAATAGTGTTAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAAAAGTACTG
* * *
46497902 AAAGAAGCTCCCACGTGGACGCGCTATTGCTACAGTAGCTCCTGAACAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
*
46497967 GTTTCTGAGTAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAAAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAAAAGTACTG
* *
46498028 AAAGAAGCTCCCACATGGACGCGTTTTTGCTACAGTAGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
46498067 GCATGTTTGG
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 152 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAAAAGTACTG
Found at i:46501007 original size:18 final size:18
Alignment explanation
Indices: 46500980--46501018 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
46500970 GAAAAAGAAA
* *
46500980 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
46500998 ACATAAAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
46501016 ACA
1 ACA
46501019 CACCTAGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.21
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:46501123 original size:30 final size:30
Alignment explanation
Indices: 46501089--46501150 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
46501079 TGACTGTGTC
* * **
46501089 GGTGCTGTTGCTGGGCTTGGTGATTGTATG
1 GGTGCTGATGATGGGCCAGGTGATTGTATG
*
46501119 GGTGCTGATGATGGGCCAGGTGATTGTCTG
1 GGTGCTGATGATGGGCCAGGTGATTGTATG
46501149 GG
1 GG
46501151 CCTCGTTGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.11, G:0.45, T:0.34
Consensus pattern (30 bp):
GGTGCTGATGATGGGCCAGGTGATTGTATG
Found at i:46502661 original size:109 final size:110
Alignment explanation
Indices: 46502341--46502729 Score: 631
Period size: 110 Copynumber: 3.6 Consensus size: 110
46502331 GTCAATCGAG
* * * *
46502341 AAATCGAAACCCAGCACATTAGGGCATG-TTCCTCGAATTT-CCAAACGCCAAACATTGACTTAT
1 AAATCGACACCCAGCACATTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
*
46502404 TTTGAAATTTTTAAAAGGATATTTATCCATTTGGTTGAATGAGAA
66 TTTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
* * **
46502449 AAATCGACACCCAGCGCCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCGGAACATTGCCTTAT
1 AAATCGACACCCAGCACATTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
46502514 TTTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
66 TTTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
*
46502559 AAATCGACACCCAGCACATTAGGGCACGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACATTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
* * *
46502623 TTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
*
46502668 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCT
1 AAATCGACACCCAGCACATTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCT
46502730 CAATTAGAAA
Statistics
Matches: 260, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
108 25 0.10
109 113 0.43
110 122 0.47
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (110 bp):
AAATCGACACCCAGCACATTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
TTTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
Found at i:46503268 original size:18 final size:18
Alignment explanation
Indices: 46503225--46503268 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
46503215 GTGGGTAAAT
**
46503225 AATAATAATAATAAGGAA
1 AATAATAATAATAAACAA
* *
46503243 AGTGATAATAATAAACAA
1 AATAATAATAATAAACAA
46503261 AATAATAA
1 AATAATAA
46503269 AACTACTGAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (18 bp):
AATAATAATAATAAACAA
Found at i:46506167 original size:35 final size:35
Alignment explanation
Indices: 46506128--46506199 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
46506118 AATATATCAA
46506128 AAAGTGTTAGATGTAGTGATAAGTTTTGCATTCTC
1 AAAGTGTTAGATGTAGTGATAAGTTTTGCATTCTC
46506163 AAAGTGTTAGATGTAGTGATAAGTTTTGCATTCTC
1 AAAGTGTTAGATGTAGTGATAAGTTTTGCATTCTC
46506198 AA
1 AA
46506200 GAAAAGATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (35 bp):
AAAGTGTTAGATGTAGTGATAAGTTTTGCATTCTC
Found at i:46508880 original size:26 final size:26
Alignment explanation
Indices: 46508851--46508922 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 26
46508841 TTGAGGCACC
46508851 AAATTATAT-TAAAAATTAAAATATAT
1 AAATTATATCT-AAAATTAAAATATAT
* *
46508877 AAATTAAATCTCAAATTAAAATATAT
1 AAATTATATCTAAAATTAAAATATAT
*
46508903 AAATTATATACCAAAATTAA
1 AAATTATAT-CTAAAATTAA
46508923 TATTTAATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 30 0.77
27 9 0.23
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (26 bp):
AAATTATATCTAAAATTAAAATATAT
Found at i:46508882 original size:14 final size:14
Alignment explanation
Indices: 46508863--46508908 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
46508853 ATTATATTAA
46508863 AAATTAAAATATAT
1 AAATTAAAATATAT
* *
46508877 AAATT-AAATCT-C
1 AAATTAAAATATAT
46508889 AAATTAAAATATAT
1 AAATTAAAATATAT
46508903 AAATTA
1 AAATTA
46508909 TATACCAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 5 0.19
13 10 0.38
14 11 0.42
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATTAAAATATAT
Found at i:46514356 original size:11 final size:11
Alignment explanation
Indices: 46514319--46514349 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
46514309 CCATCTTCAA
46514319 TCTCTCAAATT
1 TCTCTCAAATT
46514330 TCTCTCAAATT
1 TCTCTCAAATT
46514341 TCTCTCAAA
1 TCTCTCAAA
46514350 GCTCTCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:46516444 original size:21 final size:21
Alignment explanation
Indices: 46516410--46516471 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
46516400 CCAACACCGA
46516410 CAACCAG-ATCCCCTACCGGAG
1 CAACCAGAAT-CCCTACCGGAG
* **
46516431 GAACCAGAATCCCTGTCGGAG
1 CAACCAGAATCCCTACCGGAG
* * *
46516452 CAACCACAAACCCCACCGGA
1 CAACCAGAATCCCTACCGGA
46516472 AGCTGGACAA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.32, C:0.40, G:0.19, T:0.08
Consensus pattern (21 bp):
CAACCAGAATCCCTACCGGAG
Found at i:46516720 original size:52 final size:51
Alignment explanation
Indices: 46516584--46516727 Score: 139
Period size: 52 Copynumber: 2.7 Consensus size: 51
46516574 AAATATTTTA
* * *
46516584 AATATTTTTATATTATTTTATGTAATAAAATAAAAGATTGTTTTGAATAAAGT
1 AATATTTTTATATTA-TTTATTTAATAAAATAAAA-ATTCTTTTAAATAAAGT
* * *
46516637 AAT-TGTAATTTACTTTTATATT-TTTAATAAAATAGAAATTCTTTTAAATAAGGT
1 AATAT-T--TTTA-TATTAT-TTATTTAATAAAATAAAAATTCTTTTAAATAAAGT
*
46516691 AATATTTTTATATTATTTCATTTAATAAAATATAAAT
1 AATATTTTTATATTATTT-ATTTAATAAAATAAAAAT
46516728 AATACAACAT
Statistics
Matches: 75, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
50 2 0.03
51 5 0.07
52 21 0.28
53 4 0.05
54 18 0.24
55 19 0.25
56 6 0.08
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (51 bp):
AATATTTTTATATTATTTATTTAATAAAATAAAAATTCTTTTAAATAAAGT
Found at i:46519941 original size:126 final size:126
Alignment explanation
Indices: 46519716--46519983 Score: 491
Period size: 126 Copynumber: 2.1 Consensus size: 126
46519706 GCCAAATAGG
* *
46519716 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCATCC
1 AACTACTGTAGCAAAACAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACATTGCATCC
*
46519781 TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAAA
46519842 AACTACTGTAGCAAAACAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACATTGCATCC
1 AACTACTGTAGCAAAACAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACATTGCATCC
* *
46519907 TGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATTTTCTCAAAATTATTTTTTCAAA
66 TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAAA
46519968 AACTACTGTAGCAAAA
1 AACTACTGTAGCAAAA
46519984 GAGAATTTTA
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 137 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (126 bp):
AACTACTGTAGCAAAACAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACATTGCATCC
TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAAA
Found at i:46520622 original size:16 final size:17
Alignment explanation
Indices: 46520585--46520629 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
46520575 TTTTAGAAAT
*
46520585 TTAAATGTAATTTTATCA
1 TTAAAT-TAATTTTATAA
46520603 -TAAATTAA-TTTATAA
1 TTAAATTAATTTTATAA
46520618 TTAAATT-ATTTT
1 TTAAATTAATTTT
46520630 GAAGCGACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 7 0.29
16 12 0.50
17 5 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
TTAAATTAATTTTATAA
Found at i:46521029 original size:13 final size:13
Alignment explanation
Indices: 46521011--46521035 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46521001 TAGATAGAAG
46521011 TTGATTATGTAAA
1 TTGATTATGTAAA
46521024 TTGATTATGTAA
1 TTGATTATGTAA
46521036 TCTTGCAAAT
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:46521508 original size:8 final size:8
Alignment explanation
Indices: 46521497--46521523 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
46521487 TTTTTTATGG
46521497 TATTTTTA
1 TATTTTTA
46521505 TATTTTTA
1 TATTTTTA
46521513 TATTTTTA
1 TATTTTTA
46521521 TAT
1 TAT
46521524 ACAATCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TATTTTTA
Found at i:46521605 original size:14 final size:14
Alignment explanation
Indices: 46521586--46521617 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
46521576 ATGTGAAAAG
46521586 TTTTACGAAAAATA
1 TTTTACGAAAAATA
46521600 TTTTACGAAAAATA
1 TTTTACGAAAAATA
46521614 TTTT
1 TTTT
46521618 CTGCATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (14 bp):
TTTTACGAAAAATA
Found at i:46522010 original size:13 final size:14
Alignment explanation
Indices: 46521994--46522035 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
46521984 CTTCAATTTT
46521994 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
46522007 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
46522022 ATTTTAAATAATAT
1 ATTTT-AATAATAT
46522036 TCTGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:46522020 original size:16 final size:16
Alignment explanation
Indices: 46521998--46522034 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
46521988 AATTTTATTT
46521998 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
46522015 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
46522030 TAATA
1 TAATA
46522035 TTCTGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:46522075 original size:15 final size:15
Alignment explanation
Indices: 46522055--46522120 Score: 53
Period size: 15 Copynumber: 4.1 Consensus size: 15
46522045 ATTCATTATT
46522055 AATATTTTAATAATA
1 AATATTTTAATAATA
*
46522070 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
46522089 AATATATTAATAATA
1 AATATTTTAATAATA
*
46522104 AATTTTTGTAAT-ATA
1 AATATTT-TAATAATA
46522119 AA
1 AA
46522121 GGTTAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
15 20 0.49
16 6 0.15
17 4 0.10
18 1 0.02
19 10 0.24
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:46523368 original size:38 final size:38
Alignment explanation
Indices: 46523310--46523387 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
46523300 ATTTACTAAT
* * *
46523310 ATTTTGAGTAAAAGAGACAAAATACATTCTAACTTTTA
1 ATTTTGAGTAAAAAAAACAAAATACAATCTAACTTTTA
*
46523348 ATTTTGAGTAAAAAAAACAAAATACAATCTGACTTTTA
1 ATTTTGAGTAAAAAAAACAAAATACAATCTAACTTTTA
46523386 AT
1 AT
46523388 ACACCTTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.33
Consensus pattern (38 bp):
ATTTTGAGTAAAAAAAACAAAATACAATCTAACTTTTA
Done.