Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 45 of 240
Found at i:15537773 original size:21 final size:21
Alignment explanation
Indices: 15537732--15537776 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
15537722 CGTCCACGTA
15537732 AGCGCAATTTGCTTCCAAGTC
1 AGCGCAATTTGCTTCCAAGTC
15537753 AGCGCAATTTGCTTCCAAGTC
1 AGCGCAATTTGCTTCCAAGTC
15537774 AGC
1 AGC
15537777 ATATCGCGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (21 bp):
AGCGCAATTTGCTTCCAAGTC
Found at i:15540718 original size:28 final size:29
Alignment explanation
Indices: 15540686--15540744 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
15540676 ATTAAAATTT
15540686 ATTTTATAT-ATAATATTATA-TATTTAAA
1 ATTTTAT-TGATAATATTATATTATTTAAA
* *
15540714 ATTTTATTGATCATATTTTATTATTTAAA
1 ATTTTATTGATAATATTATATTATTTAAA
15540743 AT
1 AT
15540745 ATAGTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 1 0.04
28 16 0.59
29 10 0.37
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (29 bp):
ATTTTATTGATAATATTATATTATTTAAA
Found at i:15541023 original size:13 final size:13
Alignment explanation
Indices: 15541007--15541033 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15540997 CTTTTCTACG
15541007 ACACTTTTTAAAA
1 ACACTTTTTAAAA
15541020 ACACTTTTTAAAA
1 ACACTTTTTAAAA
15541033 A
1 A
15541034 TAATGCTAAA
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:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
ACACTTTTTAAAA
Found at i:15545280 original size:20 final size:20
Alignment explanation
Indices: 15545255--15545294 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15545245 CGTAAAATGA
*
15545255 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
15545275 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
15545295 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:15545284 original size:34 final size:35
Alignment explanation
Indices: 15545240--15545306 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
15545230 CAGTAAAATA
* *
15545240 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
*
15545274 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
15545307 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:15545525 original size:25 final size:25
Alignment explanation
Indices: 15545497--15545590 Score: 66
Period size: 25 Copynumber: 3.7 Consensus size: 25
15545487 ATATTAATCG
15545497 TTATAAATTGAAAAAAAATACATTC
1 TTATAAATTGAAAAAAAATACATTC
* * * * *
15545522 TTAT-TATT-AAACTACAATATTAATC
1 TTATAAATTGAAA-AAAAATA-CATTC
*
15545547 GTTATAAATTGAAAAAAAATGCATTC
1 -TTATAAATTGAAAAAAAATACATTC
* * *
15545573 TTATTAGTTGGAAAAAAA
1 TTATAAATTGAAAAAAAA
15545591 GTGAAGAGAA
Statistics
Matches: 50, Mismatches: 14, Indels: 10
0.68 0.19 0.14
Matches are distributed among these distances:
23 3 0.06
24 8 0.16
25 22 0.44
26 7 0.14
27 7 0.14
28 3 0.06
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (25 bp):
TTATAAATTGAAAAAAAATACATTC
Found at i:15545534 original size:51 final size:51
Alignment explanation
Indices: 15545473--15545578 Score: 203
Period size: 51 Copynumber: 2.1 Consensus size: 51
15545463 ATAATACTCA
15545473 ATTATTAAACTACAATATTAATCGTTATAAATTGAAAAAAAATACATTCTT
1 ATTATTAAACTACAATATTAATCGTTATAAATTGAAAAAAAATACATTCTT
*
15545524 ATTATTAAACTACAATATTAATCGTTATAAATTGAAAAAAAATGCATTCTT
1 ATTATTAAACTACAATATTAATCGTTATAAATTGAAAAAAAATACATTCTT
15545575 ATTA
1 ATTA
15545579 GTTGGAAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (51 bp):
ATTATTAAACTACAATATTAATCGTTATAAATTGAAAAAAAATACATTCTT
Found at i:15546078 original size:111 final size:111
Alignment explanation
Indices: 15545884--15546105 Score: 435
Period size: 111 Copynumber: 2.0 Consensus size: 111
15545874 TGATGAAGTA
15545884 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
1 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
15545949 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
66 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
*
15545995 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACGTACACTACTTTTTCTAAA
1 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
15546060 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
66 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
15546106 CATGGTATTG
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 110 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (111 bp):
TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
Found at i:15550564 original size:8 final size:8
Alignment explanation
Indices: 15550551--15550575 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15550541 ACTTCGGATT
15550551 TATCCGTG
1 TATCCGTG
15550559 TATCCGTG
1 TATCCGTG
15550567 TATCCGTG
1 TATCCGTG
15550575 T
1 T
15550576 CAAATTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (8 bp):
TATCCGTG
Found at i:15551734 original size:41 final size:42
Alignment explanation
Indices: 15551672--15551751 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
15551662 TTTTAGGTCC
* *
15551672 ACACGGCCAGACACACGGGCGTGTGACTCGATCGTGTGAGAT
1 ACACGGCCAGACACACAGGCGTGTGACTCGACCGTGTGAGAT
* * *
15551714 ACACGGCTAG-CACACAGGCGTGTGGCTTGACCGTGTGA
1 ACACGGCCAGACACACAGGCGTGTGACTCGACCGTGTGA
15551752 CCCAAGTCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
41 24 0.73
42 9 0.27
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.17
Consensus pattern (42 bp):
ACACGGCCAGACACACAGGCGTGTGACTCGACCGTGTGAGAT
Found at i:15554911 original size:10 final size:10
Alignment explanation
Indices: 15554893--15554929 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
15554883 ATGGAAAAAA
15554893 ATTATAAATTT
1 ATTA-AAATTT
15554904 ATTAAAA--T
1 ATTAAAATTT
15554912 ATTAAAATTT
1 ATTAAAATTT
15554922 ATTAAAAT
1 ATTAAAAT
15554930 AATATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.33
10 12 0.50
11 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
ATTAAAATTT
Found at i:15554919 original size:18 final size:18
Alignment explanation
Indices: 15554888--15554940 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
15554878 AAAAAATGGA
*
15554888 AAAAAATTATAAATTTATT
1 AAAATATTA-AAATTTATT
15554907 AAAATATTAAAATTTATT
1 AAAATATTAAAATTTATT
15554925 AAAATAATATAAAATT
1 AAAAT-AT-TAAAATT
15554941 GAAAGAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 14 0.45
19 10 0.32
20 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATATTAAAATTTATT
Found at i:15554966 original size:21 final size:21
Alignment explanation
Indices: 15554925--15554964 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
15554915 AAAATTTATT
*
15554925 AAAATAATATAAAATTGAAAG
1 AAAATAATATAAAATTAAAAG
*
15554946 AAAATATTA-AAAATTAAAA
1 AAAATAATATAAAATTAAAA
15554965 AGTATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (21 bp):
AAAATAATATAAAATTAAAAG
Found at i:15554978 original size:35 final size:37
Alignment explanation
Indices: 15554907--15554979 Score: 105
Period size: 35 Copynumber: 2.0 Consensus size: 37
15554897 TAAATTTATT
15554907 AAAATATTAAAATTTATTAAAATAATATAAAATTGAAAG
1 AAAATATTAAAA--TATTAAAATAATATAAAATTGAAAG
*
15554946 AAAATATTAAAA-ATTAAAA-AGTATAAAATTGAAA
1 AAAATATTAAAATATTAAAATAATATAAAATTGAAA
15554980 ATATATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
35 14 0.42
36 7 0.21
39 12 0.36
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (37 bp):
AAAATATTAAAATATTAAAATAATATAAAATTGAAAG
Found at i:15554980 original size:16 final size:16
Alignment explanation
Indices: 15554925--15554986 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 16
15554915 AAAATTTATT
15554925 AAAATAATATAAAATTG
1 AAAA-AATATAAAATTG
15554942 AAAGAAAATATTAAAAATT-
1 -AA-AAAATA-T-AAAATTG
*
15554961 AAAAAGTATAAAATTG
1 AAAAAATATAAAATTG
*
15554977 AAAATATATA
1 AAAAAATATA
15554987 TATATAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
15 6 0.16
16 9 0.24
17 5 0.14
18 8 0.22
19 3 0.08
20 6 0.16
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.27
Consensus pattern (16 bp):
AAAAAATATAAAATTG
Found at i:15555395 original size:14 final size:17
Alignment explanation
Indices: 15555372--15555407 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
15555362 TTTTTTATAC
15555372 TTTTTGAAAA-TTCT-A
1 TTTTTGAAAATTTCTAA
15555387 TTTTT-AAAATTTCTAA
1 TTTTTGAAAATTTCTAA
15555403 TTTTT
1 TTTTT
15555408 TATATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.21
15 9 0.47
16 6 0.32
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTTGAAAATTTCTAA
Found at i:15563834 original size:57 final size:58
Alignment explanation
Indices: 15563757--15563866 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 58
15563747 TACATGTCAT
** * *
15563757 TTTCATTTTGGTTTTGGAGAAAACCACATTAATTTCCAAATGATTC-CATTTCTCTAG
1 TTTCATTTTCATTTTCGAGAAAACCACAATAATTTCCAAATGATTCTCATTTCTCTAG
* * *
15563814 TTTCATTTTCATTTTCGAGAAAACCATAATCATTTCCAAATGTTTCTCATTTC
1 TTTCATTTTCATTTTCGAGAAAACCACAATAATTTCCAAATGATTCTCATTTC
15563867 GCCATTTTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 39 0.87
58 6 0.13
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (58 bp):
TTTCATTTTCATTTTCGAGAAAACCACAATAATTTCCAAATGATTCTCATTTCTCTAG
Found at i:15566364 original size:41 final size:41
Alignment explanation
Indices: 15566300--15566449 Score: 230
Period size: 41 Copynumber: 3.6 Consensus size: 41
15566290 TTAATTTAAA
*
15566300 CAGATTCACTGGCACTTCA-CCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATT
* *
15566342 CAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
**
15566383 CAGATCACCGAAACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
15566424 CAGATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
15566450 ACGTAAAGTC
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 94 0.96
42 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:15568811 original size:24 final size:25
Alignment explanation
Indices: 15568764--15568811 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
15568754 TAAGCCCTCT
* * *
15568764 CGAGCTTTCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
15568789 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
15568812 TGGAGCATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.40
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:15568913 original size:25 final size:26
Alignment explanation
Indices: 15568868--15568951 Score: 86
Period size: 25 Copynumber: 3.3 Consensus size: 26
15568858 ATAGCTCTTA
* *
15568868 TGAGCGTCCT-ATTATATGGCTCTTCG
1 TGAGCTTCCTGATTA-AAGGCTCTTCG
*
15568894 TGAGCTTCC-GATTAAAGGCTCTTTG
1 TGAGCTTCCTGATTAAAGGCTCTTCG
*
15568919 TG-GCTTCCTGATTAATGGCTCTTC-
1 TGAGCTTCCTGATTAAAGGCTCTTCG
*
15568943 AGAGCTTCC
1 TGAGCTTCC
15568952 CGATATGGCT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
24 7 0.14
25 30 0.61
26 12 0.24
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
TGAGCTTCCTGATTAAAGGCTCTTCG
Found at i:15578200 original size:18 final size:19
Alignment explanation
Indices: 15578156--15578194 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15578146 AGTTCATGTT
* *
15578156 TTCATTTCACATTTTCATA
1 TTCAATTCACATTTTCAAA
15578175 TTCAATTCACA-TTTCAAA
1 TTCAATTCACATTTTCAAA
15578193 TT
1 TT
15578195 ATATTCCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.49
Consensus pattern (19 bp):
TTCAATTCACATTTTCAAA
Found at i:15578501 original size:23 final size:23
Alignment explanation
Indices: 15578367--15578500 Score: 175
Period size: 23 Copynumber: 6.0 Consensus size: 23
15578357 CCTGATCAGT
15578367 ATACGACACAT-AAGTGCCTG--
1 ATACGACACATAAAGTGCCTGAA
* * *
15578387 ATACGACACATGATGTGCCTAAA
1 ATACGACACATAAAGTGCCTGAA
** *
15578410 ATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
15578433 ATACGACACATAAAGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
*
15578456 ATACGACACATAAAGTGCCTGAT
1 ATACGACACATAAAGTGCCTGAA
*
15578479 GTACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
15578501 TCGGTAAAGC
Statistics
Matches: 101, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
20 11 0.11
21 7 0.07
23 83 0.82
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:15598184 original size:25 final size:25
Alignment explanation
Indices: 15598135--15598183 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
15598125 ACCAAAATTT
15598135 TATTTTAAAAATAAAAAATAAAAAA
1 TATTTTAAAAATAAAAAATAAAAAA
15598160 TATTTTAAAAAT-AAAAATAAAAAA
1 TATTTTAAAAATAAAAAATAAAAAA
15598184 AATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (25 bp):
TATTTTAAAAATAAAAAATAAAAAA
Found at i:15603380 original size:19 final size:19
Alignment explanation
Indices: 15603351--15603404 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
15603341 AATCTTCAGG
*
15603351 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
15603370 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
15603389 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
15603405 AGATATGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:15603430 original size:22 final size:21
Alignment explanation
Indices: 15603351--15603430 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 21
15603341 AATCTTCAGG
*
15603351 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
15603370 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
15603389 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
15603411 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
15603431 TTAATTTGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 28 0.55
22 12 0.24
23 11 0.22
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:15603870 original size:1 final size:1
Alignment explanation
Indices: 15603864--15603891 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
15603854 TCCTCCAGAC
15603864 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
15603892 ATTTATTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:15608510 original size:14 final size:14
Alignment explanation
Indices: 15608493--15608520 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15608483 ATATTCAAAT
15608493 AAAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
15608507 AAAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
15608521 GGAGAGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAAA
Found at i:15610173 original size:132 final size:132
Alignment explanation
Indices: 15609701--15610161 Score: 789
Period size: 132 Copynumber: 3.5 Consensus size: 132
15609691 TTGACAGCGA
*
15609701 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
15609766 TCTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGAACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
15609831 GG
131 GG
* * *
15609833 AGCAGATCGAAGATGGCGGATTTTACCTCCATGTGGTTATAGTGGAGTATATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
15609898 TCTACTTCTCTGGAA-AATAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCTTAAGCAGTAG
66 TCTACTTCCCT-GAACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
15609962 TGG
130 TGG
* *
15609965 AGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
15610030 TCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTACT
66 TCTACTTCCCTGAACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
15610095 GG
131 GG
15610097 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
15610162 CATATCTCCC
Statistics
Matches: 308, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 3 0.01
132 303 0.98
133 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGAACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:15610537 original size:19 final size:19
Alignment explanation
Indices: 15610513--15610585 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
15610503 TAATCTTCAG
15610513 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15610532 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
** *
15610551 GATATATAATATTAGATAT
1 GATATGCAATCTTAGATAT
15610570 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
15610586 AGATATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:15610621 original size:21 final size:23
Alignment explanation
Indices: 15610564--15610621 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
15610554 ATATAATATT
* *
15610564 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
15610586 AGATATGATTTTGTAATCTTA-A
1 AGATATGAATTTGTAATCTTAGA
*
15610608 AGAT-TTAATTTGTA
1 AGATATGAATTTGTA
15610622 GATACCCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.27
22 12 0.40
23 10 0.33
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:15616888 original size:197 final size:195
Alignment explanation
Indices: 15616563--15617091 Score: 711
Period size: 197 Copynumber: 2.7 Consensus size: 195
15616553 CTGGTGAATG
* * * *
15616563 CTTTACATATGATCAACAATGCTTTAA-GTCTCTTGAACAAGCTAATAAATTACTATAGATTGGA
1 CTTTATATAAGATCAAGAATGCTTTAAGGT-TCTTGAACAAGCTAATAAAGTAC--TAGATTGGA
* * * * *
15616627 GCTACAATTTAGTTTCCAAGCTACAAAATGCAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAA
63 GATACAA-TTAGTTTCCATGATATAGAATGCAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAA
*
15616692 AATCCCATAAAGCATACTAATCTAACCACAAATTC-GAAGTAGTTTCAACCTCTAAAATTCCAGA
127 AATCCCATAAAGCATACCAATCTAACCACAAATTCAG-AGTAGTTTCAACCTCTAAAATTCCAGA
15616756 CAGTC
191 CAGTC
* * * *
15616761 CTTTATATAAGATCAAGAATGCTTGAAGGTTCTTGAACAAACTAATAAAGAACTAGGTTGGAGAT
1 CTTTATATAAGATCAAGAATGCTTTAAGGTTCTTGAACAAGCTAATAAAGTACTAGATTGGAGAT
15616826 ACCAATTAGTTTCCATGGATATAGAATGCAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAAAA
66 A-CAATTAGTTTCCAT-GATATAGAATGCAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAAAA
* ** * * *
15616891 TTCCATATTGCATACCAATCTAACCGCAAATTCAGAGTAGTTTCAACCTTTAAAATTCCAGAGAG
129 TCCCATAAAGCATACCAATCTAACCACAAATTCAGAGTAGTTTCAACCTCTAAAATTCCAGACAG
15616956 TC
194 TC
* * * *
15616958 CATTATATAAGATTAAGAATGCTTTAAGGATCTTGAACAGGCTAATAAAGTACTAGATTGGAGAT
1 CTTTATATAAGATCAAGAATGCTTTAAGGTTCTTGAACAAGCTAATAAAGTACTAGATTGGAGAT
** * *
15617023 AACAATTAGTTTCCACTGATATAGAATGGGATTTAATTTCACAAAGGGCAAAGAGTGCAACAAAA
66 -ACAATTAGTTTCCA-TGATATAGAATGCAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAAAA
15617088 TCCC
129 TCCC
15617092 GAACACATAA
Statistics
Matches: 292, Mismatches: 33, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
196 21 0.07
197 223 0.76
198 46 0.16
199 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (195 bp):
CTTTATATAAGATCAAGAATGCTTTAAGGTTCTTGAACAAGCTAATAAAGTACTAGATTGGAGAT
ACAATTAGTTTCCATGATATAGAATGCAATTCAATTTCAAAAAGGGCAAAGAGTGCAACAAAATC
CCATAAAGCATACCAATCTAACCACAAATTCAGAGTAGTTTCAACCTCTAAAATTCCAGACAGTC
Found at i:15622645 original size:15 final size:15
Alignment explanation
Indices: 15622625--15622655 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15622615 CTTAACGTGA
15622625 AATAATAATAATAAG
1 AATAATAATAATAAG
15622640 AATAATAATAATAAG
1 AATAATAATAATAAG
15622655 A
1 A
15622656 CGTATCCCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AATAATAATAATAAG
Found at i:15626445 original size:15 final size:15
Alignment explanation
Indices: 15626421--15626453 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15626411 ACCACCAAGG
*
15626421 CCACCGCCATACATT
1 CCACCACCATACATT
15626436 CCACCACCATACATT
1 CCACCACCATACATT
15626451 CCA
1 CCA
15626454 GAGTTCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.48, G:0.03, T:0.18
Consensus pattern (15 bp):
CCACCACCATACATT
Found at i:15629852 original size:25 final size:23
Alignment explanation
Indices: 15629775--15629878 Score: 113
Period size: 22 Copynumber: 4.4 Consensus size: 23
15629765 TGCACAAATA
*
15629775 AACAGAGAGCACTAAAGTGCTAT
1 AACAGAGAGCACTAACGTGCTAT
* *
15629798 -ACAGAGAGCACAAATGTGCTA-
1 AACAGAGAGCACTAACGTGCTAT
*
15629819 AACAGAGAGCACTGACGTGCTAGT
1 AACAGAGAGCACTAACGTGCTA-T
*
15629843 AATCAGAGAGCACTAACGTGCCAAT
1 AA-CAGAGAGCACTAACGTG-CTAT
15629868 AATCAGAGAGC
1 AA-CAGAGAGC
15629879 GCGCTAGGGT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
22 37 0.54
24 2 0.03
25 28 0.41
26 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.15
Consensus pattern (23 bp):
AACAGAGAGCACTAACGTGCTAT
Found at i:15631938 original size:31 final size:31
Alignment explanation
Indices: 15631893--15631951 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
15631883 AATATTTATA
* *
15631893 GGAAATATATATAATATA-TTCATAAATATTT
1 GGAAAGATAAATAATATATTTC-TAAATATTT
15631924 GGAAAGATAAATAATATATTTCTAAATA
1 GGAAAGATAAATAATATATTTCTAAATA
15631952 GAGGTGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.37
Consensus pattern (31 bp):
GGAAAGATAAATAATATATTTCTAAATATTT
Found at i:15632361 original size:22 final size:22
Alignment explanation
Indices: 15632336--15632378 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15632326 TATCCAAACA
15632336 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
15632358 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
15632379 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:15634044 original size:18 final size:19
Alignment explanation
Indices: 15634012--15634048 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15634002 TTTCAGCTCA
15634012 TTTTCAAAAAGCACTTCTG
1 TTTTCAAAAAGCACTTCTG
15634031 TTTTCAAAAA-CACTTCTG
1 TTTTCAAAAAGCACTTCTG
15634049 AAAAGTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (19 bp):
TTTTCAAAAAGCACTTCTG
Found at i:15653839 original size:57 final size:58
Alignment explanation
Indices: 15653776--15653885 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 58
15653766 TACATGTCAT
** * *
15653776 TTTCATTTTGGTTTTGGAGAAAACCACATTAATTTCCAAATGATTC-CATTTCTCTAG
1 TTTCATTTTCATTTTCGAGAAAACCACAATAATTTCCAAATGATTCTCATTTCTCTAG
* * *
15653833 TTTCATTTTCATTTTCGAGAAAACCATAATCATTTCCAAATGTTTCTCATTTC
1 TTTCATTTTCATTTTCGAGAAAACCACAATAATTTCCAAATGATTCTCATTTC
15653886 GCCATTTTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 39 0.87
58 6 0.13
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (58 bp):
TTTCATTTTCATTTTCGAGAAAACCACAATAATTTCCAAATGATTCTCATTTCTCTAG
Found at i:15656381 original size:41 final size:41
Alignment explanation
Indices: 15656317--15656466 Score: 230
Period size: 41 Copynumber: 3.6 Consensus size: 41
15656307 TTAATTTAAA
*
15656317 CAGATTCACTGGCACTTCA-CCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATT
* *
15656359 CAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
**
15656400 CAGATCACCGAAACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
15656441 CAGATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
15656467 ACGTAAAGTC
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 94 0.96
42 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:15658829 original size:24 final size:25
Alignment explanation
Indices: 15658782--15658829 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
15658772 TAAGCCCTCT
* * *
15658782 CGAGCTTTCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
15658807 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
15658830 TGGAGCATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.40
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:15658933 original size:26 final size:26
Alignment explanation
Indices: 15658904--15658976 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
15658894 CCTATTATAT
15658904 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* * * *
15658930 GGCTCTTTGTGGGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
*
15658956 GGCTCTTC-AGAGCTTCCCGAT
1 GGCTCTTCGTGAGCTTCCCGAT
15658977 ATGGCTCGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 10 0.26
26 29 0.74
ACGTcount: A:0.15, C:0.26, G:0.25, T:0.34
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:15668267 original size:19 final size:19
Alignment explanation
Indices: 15668222--15668261 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15668212 AGTTCATGTT
* *
15668222 TTCATTTCACATTTTCATA
1 TTCAATTCACATTTTCAAA
15668241 TTCAATTCACATTTTCAAA
1 TTCAATTCACATTTTCAAA
15668260 TT
1 TT
15668262 ATATTCCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (19 bp):
TTCAATTCACATTTTCAAA
Found at i:15668568 original size:23 final size:23
Alignment explanation
Indices: 15668434--15668567 Score: 175
Period size: 23 Copynumber: 6.0 Consensus size: 23
15668424 CCTGATCAGT
15668434 ATACGACACAT-AAGTGCCTG--
1 ATACGACACATAAAGTGCCTGAA
* * *
15668454 ATACGACACATGATGTGCCTAAA
1 ATACGACACATAAAGTGCCTGAA
** *
15668477 ATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
15668500 ATACGACACATAAAGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
*
15668523 ATACGACACATAAAGTGCCTGAT
1 ATACGACACATAAAGTGCCTGAA
*
15668546 GTACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
15668568 TCGGTAAAGC
Statistics
Matches: 101, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
20 11 0.11
21 7 0.07
23 83 0.82
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:15679855 original size:148 final size:150
Alignment explanation
Indices: 15679592--15679886 Score: 486
Period size: 148 Copynumber: 2.0 Consensus size: 150
15679582 TACTTTAGTA
* * ** *
15679592 TTTTTATTTTAATAAAAACTAATAAAAATATGCATATAATAGGATTTGAACTCATGCTAATTAAA
1 TTTTAATTTTAATAAAAACCAATAAAAATATGCATATAATAGGAGCTGAACTCACGCTAATTAAA
15679657 TTAATAAGATCTTAAATTTACCATTAAACTAAAGTTTCATTTTATTATTTTCATATGTTTTTAAA
66 TTAATAAGATCTTAAATTTACCATTAAACTAAAGTTTCATTTTATTATTTTCATATGTTTTTAAA
*
15679722 TCACTATGCACAATTTAGCC
131 TCACTACGCACAATTTAGCC
*
15679742 TTTTAATTTTAATAAAAACCAAT-AAAA-ATGCATATAATAGGAGCTGAATTCACGCTAATTAAA
1 TTTTAATTTTAATAAAAACCAATAAAAATATGCATATAATAGGAGCTGAACTCACGCTAATTAAA
*
15679805 TTAATAAGATCTTAAATTTACCATTCAACTAAAGTTTCATTTTATTATTTTCATATGTTTTTAAA
66 TTAATAAGATCTTAAATTTACCATTAAACTAAAGTTTCATTTTATTATTTTCATATGTTTTTAAA
* *
15679870 TTACTACGCACGATTTA
131 TCACTACGCACAATTTA
15679887 TTACTTTCTC
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
148 110 0.81
149 4 0.03
150 21 0.16
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.41
Consensus pattern (150 bp):
TTTTAATTTTAATAAAAACCAATAAAAATATGCATATAATAGGAGCTGAACTCACGCTAATTAAA
TTAATAAGATCTTAAATTTACCATTAAACTAAAGTTTCATTTTATTATTTTCATATGTTTTTAAA
TCACTACGCACAATTTAGCC
Found at i:15689106 original size:30 final size:31
Alignment explanation
Indices: 15689066--15689125 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
15689056 GAAATCATCG
* *
15689066 GAAAGCCAAAGGTATGGGTATC-AAATATTA
1 GAAAGCCAAAGATACGGGTATCAAAATATTA
*
15689096 GAAAGTCAAAGATACGGGTATCAAAATATT
1 GAAAGCCAAAGATACGGGTATCAAAATATT
15689126 GGCATAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.23
Consensus pattern (31 bp):
GAAAGCCAAAGATACGGGTATCAAAATATTA
Found at i:15692862 original size:22 final size:22
Alignment explanation
Indices: 15692821--15692862 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15692811 TTAAAAAAGA
* *
15692821 CATAATTATTCAACTGATATCT
1 CATAACTATTCAACTAATATCT
*
15692843 CATAACTATTCAAGTAATAT
1 CATAACTATTCAACTAATAT
15692863 TATTTGTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (22 bp):
CATAACTATTCAACTAATATCT
Found at i:15698862 original size:15 final size:15
Alignment explanation
Indices: 15698842--15698889 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
15698832 TTAACTTAAA
15698842 TTATATTTTAATTAT
1 TTATATTTTAATTAT
** *
15698857 TTATA-TTTAAAAAG
1 TTATATTTTAATTAT
*
15698871 TTACATTTTAATTAT
1 TTATATTTTAATTAT
15698886 TTAT
1 TTAT
15698890 TTTAACGTGT
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (15 bp):
TTATATTTTAATTAT
Found at i:15709652 original size:21 final size:21
Alignment explanation
Indices: 15709628--15709669 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15709618 TAAATTAAGA
*
15709628 GTTTTTTTAATTTATTATTTT
1 GTTTATTTAATTTATTATTTT
*
15709649 GTTTATTTATTTTATTATTTT
1 GTTTATTTAATTTATTATTTT
15709670 CCACATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (21 bp):
GTTTATTTAATTTATTATTTT
Found at i:15710501 original size:15 final size:15
Alignment explanation
Indices: 15710481--15710525 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
15710471 ATAAAATTAA
*
15710481 AAAAATATTAAAAAT
1 AAAAATAATAAAAAT
*
15710496 AAAAATAAAAAAAAT
1 AAAAATAATAAAAAT
15710511 AAAAA-AAGTAAAAAT
1 AAAAATAA-TAAAAAT
15710526 TCAACAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 2 0.08
15 24 0.92
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAAATAATAAAAAT
Found at i:15710504 original size:23 final size:23
Alignment explanation
Indices: 15710473--15710525 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
15710463 ATAATTCTAT
* *
15710473 AAAATTAAAAAAATATTAAAAATA
1 AAAATAAAAAAAATA-AAAAAATA
15710497 AAAATAAAAAAAATAAAAAAAGTA
1 AAAATAAAAAAAATAAAAAAA-TA
15710521 AAAAT
1 AAAAT
15710526 TCAACAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (23 bp):
AAAATAAAAAAAATAAAAAAATA
Found at i:15711846 original size:25 final size:24
Alignment explanation
Indices: 15711818--15711865 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
15711808 AATCAGATCA
15711818 AATCTAATAAGATATAATTCCCTTC
1 AATCTAATAAGAT-TAATTCCCTTC
** *
15711843 AATCTTCTAAGATTAGTTCCCTT
1 AATCTAATAAGATTAATTCCCTT
15711866 ATTTACTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (24 bp):
AATCTAATAAGATTAATTCCCTTC
Found at i:15718268 original size:13 final size:13
Alignment explanation
Indices: 15718250--15718276 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15718240 TCTATAACTA
15718250 TTTATTTAAAATT
1 TTTATTTAAAATT
15718263 TTTATTTAAAATT
1 TTTATTTAAAATT
15718276 T
1 T
15718277 AGTTACATTA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTATTTAAAATT
Found at i:15731235 original size:16 final size:16
Alignment explanation
Indices: 15731211--15731247 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
15731201 ATAAATTATT
*
15731211 AAAAGATTATAAAATA
1 AAAAGATTAAAAAATA
*
15731227 AAAATATTAAAAAATA
1 AAAAGATTAAAAAATA
15731243 AAAAG
1 AAAAG
15731248 CGGTTCAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (16 bp):
AAAAGATTAAAAAATA
Found at i:15742380 original size:20 final size:19
Alignment explanation
Indices: 15742357--15742408 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
15742347 ATAAAATAAA
*
15742357 TAAAAATAATTTTTAAAAAT
1 TAAAAAT-ATTTATAAAAAT
*
15742377 TAAAAATATTTATAAAAGT
1 TAAAAATATTTATAAAAAT
*
15742396 TCAAAAT-TTTATA
1 TAAAAATATTTATA
15742409 TACTTTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 6 0.21
19 16 0.55
20 7 0.24
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAAAATATTTATAAAAAT
Found at i:15742406 original size:18 final size:18
Alignment explanation
Indices: 15742364--15742436 Score: 60
Period size: 18 Copynumber: 4.1 Consensus size: 18
15742354 AAATAAAAAT
15742364 AATTTT-TAAAAATTAAA
1 AATTTTATAAAAATTAAA
* *
15742381 AATATTTATAAAAGTTCAA
1 AAT-TTTATAAAAATTAAA
* **
15742400 AATTTTATATACTTTAAA
1 AATTTTATAAAAATTAAA
* *
15742418 AACTATA-AAAAATTAAA
1 AATTTTATAAAAATTAAA
15742435 AA
1 AA
15742437 AAAACTAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
17 12 0.28
18 19 0.44
19 12 0.28
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (18 bp):
AATTTTATAAAAATTAAA
Found at i:15744452 original size:31 final size:30
Alignment explanation
Indices: 15744405--15744462 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
15744395 ATGGTTACTA
*
15744405 AACTGTTCAAAATTTTTCA-TTAAGTCAGTG
1 AACTATTCAAAATTTTT-AGTTAAGTCAGTG
15744435 AACTATTCAAATATTTTTAGTTAAGTCA
1 AACTATTCAAA-ATTTTTAGTTAAGTCA
15744463 TTGGATTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (30 bp):
AACTATTCAAAATTTTTAGTTAAGTCAGTG
Found at i:15749746 original size:24 final size:22
Alignment explanation
Indices: 15749718--15749765 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
15749708 TTTTTAGCAA
15749718 TTTAACATTTCTCTTTTATATTCT
1 TTTAAC-TTTCTCTTTT-TATTCT
* *
15749742 TTTAACTTTTTCTTTTTTTTCT
1 TTTAACTTTCTCTTTTTATTCT
15749764 TT
1 TT
15749766 ATTTTCTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 9 0.41
24 6 0.27
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTAACTTTCTCTTTTTATTCT
Found at i:15751552 original size:30 final size:30
Alignment explanation
Indices: 15751483--15751567 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 30
15751473 TAATAAAAAT
* * *
15751483 AAAAAATTATAAAAAATATTTAAATTTTAT
1 AAAAAATCATAAAAAATATTTAAATTCTAC
15751513 ATTAAAAATCATAAAAAA-ATTATAAATTCTAC
1 A--AAAAATCATAAAAAATATT-TAAATTCTAC
15751545 AAAAAATCATAAAAATATATTTA
1 AAAAAATCATAAAAA-ATATTTA
15751568 TAAAATATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
30 15 0.32
31 6 0.13
32 26 0.55
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (30 bp):
AAAAAATCATAAAAAATATTTAAATTCTAC
Found at i:15751603 original size:63 final size:62
Alignment explanation
Indices: 15751483--15751600 Score: 143
Period size: 62 Copynumber: 1.9 Consensus size: 62
15751473 TAATAAAAAT
* **
15751483 AAAAAATTATAAAAAATATTTAAATTTTATATTAAAAATCATAAAAAAATTATAAATTCTAC
1 AAAAAATCATAAAAAATATTTAAATAATATATTAAAAATCATAAAAAAATTATAAATTCTAC
* *
15751545 AAAAAATCATAAAAATATATTTATAA-AATATA-TAGAAAT-ATAGAAACAATTATAAA
1 AAAAAATCATAAAAA-ATATTTA-AATAATATATTAAAAATCATA-AAAAAATTATAAA
15751601 ATTTTATAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
61 3 0.06
62 32 0.67
63 11 0.23
64 2 0.04
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (62 bp):
AAAAAATCATAAAAAATATTTAAATAATATATTAAAAATCATAAAAAAATTATAAATTCTAC
Found at i:15751636 original size:19 final size:20
Alignment explanation
Indices: 15751598--15751668 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
15751588 AAACAATTAT
* * *
15751598 AAAATTTTATAAAGTCGTAA
1 AAAATTATAAAAAATCGTAA
15751618 AAAATTATAAAAAAT-GTAA
1 AAAATTATAAAAAATCGTAA
* *
15751637 AGAAA-TAT-AAAATTCATAA
1 A-AAATTATAAAAAATCGTAA
15751656 AAAATTATAAAAA
1 AAAATTATAAAAA
15751669 TTATCTTACC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 8 0.19
19 15 0.36
20 19 0.45
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (20 bp):
AAAATTATAAAAAATCGTAA
Found at i:15751661 original size:11 final size:10
Alignment explanation
Indices: 15751615--15751672 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
15751605 TATAAAGTCG
15751615 TAAAAAATTA
1 TAAAAAATTA
15751625 TAAAAAATGTA
1 TAAAAAAT-TA
*
15751636 -AAGAAA-TA
1 TAAAAAATTA
15751644 T--AAAATTCA
1 TAAAAAATT-A
15751653 TAAAAAATTA
1 TAAAAAATTA
15751663 T-AAAAATTA
1 TAAAAAATTA
15751672 T
1 T
15751673 CTTACCGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
7 3 0.08
8 3 0.08
9 11 0.28
10 15 0.38
11 8 0.20
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:15751667 original size:9 final size:9
Alignment explanation
Indices: 15751617--15751672 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
15751607 TAAAGTCGTA
15751617 AAAAATTAT
1 AAAAATTAT
* *
15751626 AAAAAATGT
1 AAAAATTAT
*
15751635 AAAGAAATAT
1 AAA-AATTAT
15751645 -AAAATTCAT
1 AAAAATT-AT
15751654 AAAAAATTAT
1 -AAAAATTAT
15751664 AAAAATTAT
1 AAAAATTAT
15751673 CTTACCGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 3 0.08
9 23 0.59
10 7 0.18
11 6 0.15
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:15752442 original size:16 final size:16
Alignment explanation
Indices: 15752411--15752456 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
15752401 AATTTAATAA
* *
15752411 TTTTTATAACTTTTAT
1 TTTTTTTAATTTTTAT
15752427 TTATTTTT-ATTTTTAT
1 TT-TTTTTAATTTTTAT
15752443 TTTTTTTAATTTTT
1 TTTTTTTAATTTTT
15752457 TGTCACATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 5 0.19
16 17 0.65
17 4 0.15
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTTAATTTTTAT
Found at i:15759082 original size:31 final size:31
Alignment explanation
Indices: 15759040--15759104 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
15759030 TACAAATCAT
* * *
15759040 TCACTAAATTATTCAAAAGTTTTCATTTAAG
1 TCACAAAATTATGCAAAAGTTTTCATCTAAG
*
15759071 TCACAAAATTATGCAAAAGTTTTTATCTAAG
1 TCACAAAATTATGCAAAAGTTTTCATCTAAG
15759102 TCA
1 TCA
15759105 TTAAACTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (31 bp):
TCACAAAATTATGCAAAAGTTTTCATCTAAG
Found at i:15759910 original size:2 final size:2
Alignment explanation
Indices: 15759903--15759938 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
15759893 CCCCTTTCCC
*
15759903 CT CT CT CT CA CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15759939 ATAAATAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:15766311 original size:20 final size:20
Alignment explanation
Indices: 15766286--15766335 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
15766276 TGGCTTAAAA
15766286 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
15766306 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
15766323 GTGGTAGTGGATT
1 TTGGTAGTGGATT
15766336 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:15770950 original size:20 final size:20
Alignment explanation
Indices: 15770925--15770974 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
15770915 TGGCTTAAAA
15770925 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
15770945 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
15770962 GTGGTAGTGGATT
1 TTGGTAGTGGATT
15770975 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:15774974 original size:24 final size:26
Alignment explanation
Indices: 15774935--15774998 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 26
15774925 TCACGTGGCA
** *
15774935 ATTAAATTTATTTTAAATAA-A-AAT
1 ATTAAATTTAAATTAAAAAATATAAT
15774959 ATTAAATTTAAATTAAAAAATTATAAT
1 ATTAAATTTAAATTAAAAAA-TATAAT
15774986 ATTAAATATTAAA
1 ATTAAAT-TTAAA
15774999 AAATTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 17 0.52
26 1 0.03
27 10 0.30
28 5 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTAAATTTAAATTAAAAAATATAAT
Found at i:15774981 original size:8 final size:8
Alignment explanation
Indices: 15774968--15775011 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
15774958 TATTAAATTT
15774968 AAATTAAA
1 AAATTAAA
*
15774976 AAATTATA
1 AAATTAAA
*
15774984 ATATT-AA
1 AAATTAAA
*
15774991 ATATTAAA
1 AAATTAAA
15774999 AAATTAAA
1 AAATTAAA
15775007 AAATT
1 AAATT
15775012 CTATTGACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAATTAAA
Found at i:15775495 original size:21 final size:21
Alignment explanation
Indices: 15775469--15775515 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
15775459 ATAATTGATT
*
15775469 TTTTTC-CAGATTTTATATATA
1 TTTTTCTCAAATTTT-TATATA
*
15775490 TTTTTCTGAAATTTTTATATA
1 TTTTTCTCAAATTTTTATATA
15775511 TTTTT
1 TTTTT
15775516 TTATATTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTTTCTCAAATTTTTATATA
Found at i:15788766 original size:21 final size:23
Alignment explanation
Indices: 15788740--15788786 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
15788730 ATATAAACCT
15788740 TAAAAA-T-ATAAAATAAATATA
1 TAAAAATTCATAAAATAAATATA
*
15788761 TAAAAATTCATAAAATATATATA
1 TAAAAATTCATAAAATAAATATA
15788784 TAA
1 TAA
15788787 TCTAAAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.26
22 1 0.04
23 16 0.70
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
TAAAAATTCATAAAATAAATATA
Found at i:15789417 original size:39 final size:40
Alignment explanation
Indices: 15789355--15789431 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 40
15789345 CTAAAGATCG
* *
15789355 AGCATTAGCGACGCTTCCAGG-AAAGCGCCGCGAAAAATA
1 AGCATTAGCGACGCTTCCAGGAAAAACGCCGCAAAAAATA
* ***
15789394 AGCATTAGCGACGTTTTTTGGAAAAACGCCGCAAAAAA
1 AGCATTAGCGACGCTTCCAGGAAAAACGCCGCAAAAAA
15789432 CCTAAGCCCA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
39 17 0.55
40 14 0.45
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (40 bp):
AGCATTAGCGACGCTTCCAGGAAAAACGCCGCAAAAAATA
Found at i:15789518 original size:41 final size:41
Alignment explanation
Indices: 15789456--15789728 Score: 327
Period size: 41 Copynumber: 7.0 Consensus size: 41
15789446 CATCGACCTT
* * * *
15789456 TCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCTGTTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
15789497 TCGGGTCTTTAGCGGCGTTTTT-----------GCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
15789527 TTGGGTCTTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * * *
15789568 TCGGGTCTTTAGTGGTGTTTTTGAAAAGGCACCACTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
15789609 TCGGGTCTTTAGCGGCGTTTTTGAAAAGGCACCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
15789650 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT-C
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
15789690 TCGTGTCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAAT
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
15789729 CCCGAATTGA
Statistics
Matches: 205, Mismatches: 16, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
30 28 0.14
40 38 0.19
41 139 0.68
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:15789527 original size:30 final size:30
Alignment explanation
Indices: 15789491--15789549 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
15789481 AAAGCGCTGT
15789491 TAATGCTCGGGTCTTTAGCGGCGTTTTTGC
1 TAATGCTCGGGTCTTTAGCGGCGTTTTTGC
*
15789521 TAATGCTTGGGTCTTTAGCGGCGTTTTTG
1 TAATGCTCGGGTCTTTAGCGGCGTTTTTG
15789550 AAAAGGCGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.10, C:0.17, G:0.31, T:0.42
Consensus pattern (30 bp):
TAATGCTCGGGTCTTTAGCGGCGTTTTTGC
Found at i:15793047 original size:23 final size:23
Alignment explanation
Indices: 15793022--15793797 Score: 583
Period size: 23 Copynumber: 34.0 Consensus size: 23
15793012 ATGGTGGGTT
* * *
15793022 TGTAAATTTAAGTGTTTAAATGT
1 TGTAAATTGAAGTGTTTAAGTGC
*
15793045 TGTAAATTGAAGTGTTTAAGTGT
1 TGTAAATTGAAGTGTTTAAGTGC
* * *
15793068 TGCAAATTAAAGTATTT-AGTTGC
1 TGTAAATTGAAGTGTTTAAG-TGC
* * *
15793091 TGGAAATTG-AGATGTTTTA-TCAC
1 TGTAAATTGAAG-TGTTTAAGT-GC
* * * *
15793114 TGT-AATTGAGGTGTATAAATGT
1 TGTAAATTGAAGTGTTTAAGTGC
*
15793136 TGTTAATTGATA-TGTTTAAGTGC
1 TGTAAATTGA-AGTGTTTAAGTGC
*
15793159 TGCAAATTGAAGTGTTTAAGTGC
1 TGTAAATTGAAGTGTTTAAGTGC
* * *
15793182 TGCAAATTGAAGTGTTTAAATGT
1 TGTAAATTGAAGTGTTTAAGTGC
*
15793205 TGTAAATTGAAGTGGTTAAGTGC
1 TGTAAATTGAAGTGTTTAAGTGC
*
15793228 TGCAAATTGAAGTGTTTAAGTGC
1 TGTAAATTGAAGTGTTTAAGTGC
*
15793251 TGCAAATTGAAGTGTTT-AGTTGC
1 TGTAAATTGAAGTGTTTAAG-TGC
* *
15793274 TGGAAATTG-AGATGTTTTA-TAGC
1 TGTAAATTGAAG-TGTTTAAGT-GC
* * * *
15793297 TGT-AATTGAGGTGTATAAATGT
1 TGTAAATTGAAGTGTTTAAGTGC
* *
15793319 TGTTAATTGATA-TGTTTAAGTAC
1 TGTAAATTGA-AGTGTTTAAGTGC
* * *
15793342 TGCAAATTTAAGTGTTTAAATGC
1 TGTAAATTGAAGTGTTTAAGTGC
15793365 TGTAAATTGAAGTGTTTAAGTGC
1 TGTAAATTGAAGTGTTTAAGTGC
* *
15793388 TGCAAATTGAAGTATTT-AGTTGC
1 TGTAAATTGAAGTGTTTAAG-TGC
* **
15793411 TG-AAATTG-AGATGTTTTACCGC
1 TGTAAATTGAAG-TGTTTAAGTGC
* * * *
15793433 TGT-AATTGAGGTGTATAAATGT
1 TGTAAATTGAAGTGTTTAAGTGC
*
15793455 TGTTAATTGATA-TGTTTAAGTGC
1 TGTAAATTGA-AGTGTTTAAGTGC
* *
15793478 TGCAAATTGAAGTGTTTAAGTGT
1 TGTAAATTGAAGTGTTTAAGTGC
*
15793501 TGCAAATTGAAGTGTTT-AGTTGC
1 TGTAAATTGAAGTGTTTAAG-TGC
* * *
15793524 TGGAAATTG-AGATGTTTTATTGC
1 TGTAAATTGAAG-TGTTTAAGTGC
* * * *
15793547 TGT-AATTGAGGTGTATAAATGT
1 TGTAAATTGAAGTGTTTAAGTGC
*
15793569 TGTTAATTGATA-TGTTTAAGTGC
1 TGTAAATTGA-AGTGTTTAAGTGC
* * *
15793592 TGCAAATTGAAGTATTTAAATGC
1 TGTAAATTGAAGTGTTTAAGTGC
*
15793615 TGTAAATTGAAGCGTTTAAGTGC
1 TGTAAATTGAAGTGTTTAAGTGC
*
15793638 TGCAAATTGAAGTGTTTAAGTGC
1 TGTAAATTGAAGTGTTTAAGTGC
*
15793661 TGCAAATTGAAGTGTTTAAGTGC
1 TGTAAATTGAAGTGTTTAAGTGC
* *
15793684 TGCAAATTG-AGATGTTTTA-TCGC
1 TGTAAATTGAAG-TGTTTAAGT-GC
* * * *
15793707 TGT-AATTGATGTGTATAAATGT
1 TGTAAATTGAAGTGTTTAAGTGC
* *
15793729 TGTTAATTGATA-TG-TTAAGTGT
1 TGTAAATTGA-AGTGTTTAAGTGC
* *
15793751 TGCAAATTGAAGTGTTTAAATGC
1 TGTAAATTGAAGTGTTTAAGTGC
* *
15793774 TATAAATTGAAGTGTTAAAGTGC
1 TGTAAATTGAAGTGTTTAAGTGC
15793797 T
1 T
15793798 ACTTTCCATT
Statistics
Matches: 605, Mismatches: 107, Indels: 82
0.76 0.13 0.10
Matches are distributed among these distances:
21 3 0.00
22 123 0.20
23 476 0.79
24 3 0.00
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.40
Consensus pattern (23 bp):
TGTAAATTGAAGTGTTTAAGTGC
Found at i:15793347 original size:114 final size:114
Alignment explanation
Indices: 15793117--15793693 Score: 337
Period size: 114 Copynumber: 5.1 Consensus size: 114
15793107 TTATCACTGT
* * * ** *
15793117 AATTGAGGTGTATAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTGA-AGTGTTTAAGT
1 AATTGAAGTGTTTAAATGCTGCAAATTGA-AGTGTTTAAGTGCTGCAAATTGAGA-TGTTTTA-T
* * *
15793180 -GCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGGTTAAGTGCTGCA
63 AGCTG-TAATTGAAGTGTATAAATGTTGTAAATTGAAGTGGTTAAGTACTGCA
* *
15793232 AATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTT-AGTTGCTGGAAATTGAGATGTTTTATAG
1 AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGAGATGTTTTATAG
* * *
15793296 CTGTAATTGAGGTGTATAAATGTTGTTAATTGATA-TGTTTAAGTACTGCA
65 CTGTAATTGAAGTGTATAAATGTTGTAAATTGA-AGTGGTTAAGTACTGCA
* * *
15793346 AATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGA-A-GTATTTAGTT
1 AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGATGT-TTTA-TA
* * * ** * * * ** **
15793409 GCTGAAATTG-AGATGTTTTACCGCTGT-AATTGAGGT-GTATAAATGTTGTT
64 GCTGTAATTGAAG-TGTATAAATGTTGTAAATTGAAGTGGT-TAAGTACTGCA
* *
15793459 AATTGATA-TGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGTTGCAAATTGA-A-GTGTTTAGT
1 AATTGA-AGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGATGT-TTTA-T
* * * * * * * * ** **
15793521 TGCTGGAAATTG-AGATGTTTTATTGCTGT-AATTGAGGT-GTATAAATGTTGTT
63 AGCT-GTAATTGAAG-TGTATAAATGTTGTAAATTGAAGTGGT-TAAGTACTGCA
* * * * * *
15793573 AATTGATA-TGTTTAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAATTGA-AGCGTTTAAGT
1 AATTGA-AGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGA-TGTTTTA-T
* * * * * * *
15793636 -GCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCA
63 AGCTG-TAATTGAAGTGTATAAATGTTGTAAATTGAAGTGGTTAAGTACTGCA
15793688 AATTGA
1 AATTGA
15793694 GATGTTTTAT
Statistics
Matches: 389, Mismatches: 54, Indels: 38
0.81 0.11 0.08
Matches are distributed among these distances:
112 3 0.01
113 79 0.20
114 222 0.57
115 81 0.21
116 4 0.01
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.39
Consensus pattern (114 bp):
AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGATGTTTTATAGC
TGTAATTGAAGTGTATAAATGTTGTAAATTGAAGTGGTTAAGTACTGCA
Found at i:15793783 original size:250 final size:249
Alignment explanation
Indices: 15793140--15793768 Score: 896
Period size: 250 Copynumber: 2.5 Consensus size: 249
15793130 AAATGTTGTT
15793140 AATTGATA-TGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA-AGTGTTTAAAT
1 AATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGA-TGTTT-AAT
* *
15793203 GTTGTAAATTGAAGTGGTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTT
63 GTTGT-AATTGATGT-GTTAAGTGCTGCAAATTGAAGTGTTTAAGTGTTGCAAATTGAAGTGTTT
15793268 AGTTGCTGGAAATTGAGATGTTTTATAGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATG
126 AGTTGCTGGAAATTGAGATGTTTTATAGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATG
* * *
15793333 TTTAAGTACTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCA
191 TTTAAGTACTGCAAATTGAAGTATTTAAATGCTGTAAATTGAAGCGTTTAAGTGCTGCA
* * ** * * *
15793392 AATTGAAGTATTT-AGTTGCTG-AAATTG-AGATGTTTTACCGCTG-TAATTGAGGTGTATAAAT
1 AATTGAAGTGTTTAAG-TGCTGCAAATTGAAG-TGTTTAAGTGCTGCAAATTGAGATGT-TTAAT
*
15793453 GTTGTTAATTGATATGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGTTGCAAATTGAAGTGTTT
63 GTTG-TAATTGATGTG-TTAAGTGCTGCAAATTGAAGTGTTTAAGTGTTGCAAATTGAAGTGTTT
*
15793518 AGTTGCTGGAAATTGAGATGTTTTATTGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATG
126 AGTTGCTGGAAATTGAGATGTTTTATAGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATG
*
15793583 TTTAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAATTGAAGCGTTTAAGTGCTGCA
191 TTTAAGTACTGCAAATTGAAGTATTTAAATGCTGTAAATTGAAGCGTTTAAGTGCTGCA
* *
15793642 AATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGATGTTTTATCGC
1 AATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGATGTTTAAT-GT
* * **
15793707 TGTAATTGATGTGTATAAATGTTGTTAATTGATA-TG-TTAAGTGTTGCAAATTGAAGTGTTTA
65 TGTAATTGATGTGT-TAAGTGCTGCAAATTGA-AGTGTTTAAGTGTTGCAAATTGAAGTGTTTA
15793769 AATGCTATAA
Statistics
Matches: 334, Mismatches: 29, Indels: 30
0.85 0.07 0.08
Matches are distributed among these distances:
249 1 0.00
250 235 0.70
251 67 0.20
252 31 0.09
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (249 bp):
AATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAGATGTTTAATGTT
GTAATTGATGTGTTAAGTGCTGCAAATTGAAGTGTTTAAGTGTTGCAAATTGAAGTGTTTAGTTG
CTGGAAATTGAGATGTTTTATAGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAA
GTACTGCAAATTGAAGTATTTAAATGCTGTAAATTGAAGCGTTTAAGTGCTGCA
Found at i:15794748 original size:43 final size:43
Alignment explanation
Indices: 15794700--15794834 Score: 216
Period size: 43 Copynumber: 3.1 Consensus size: 43
15794690 TTTTTGTGAC
* * *
15794700 CTTTAGTGGCATTTTTGGGGAAAGCGCCGCTAAAGGTCTTGGT
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGT
*
15794743 CTTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGT
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGT
* *
15794786 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAGGGTCTTGGT
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGT
15794829 CTTTAG
1 CTTTAG
15794835 CGGTGTTTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 85 1.00
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (43 bp):
CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGT
Found at i:15794850 original size:86 final size:87
Alignment explanation
Indices: 15794700--15794864 Score: 233
Period size: 86 Copynumber: 1.9 Consensus size: 87
15794690 TTTTTGTGAC
* * * * *
15794700 CTTTAGTGGCATTTTTGGGGAAAGCGCCGCTAAAGGTCTTGGTCTTTAGTGGCGTTTGT-GGAAA
1 CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGAAAA
*
15794764 AAGCGCCGCTAAAGGTCTTGGT
66 AAACGCCGCTAAAGGTCTTGGT
* * * *
15794786 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAGGGTCTTGGTCTTTAGCGGTGTTTTTAGAAAA
1 CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGAAAA
15794851 AAACGCCGCTAAAG
66 AAACGCCGCTAAAG
15794865 TTAGCGACGC
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
86 51 0.75
87 17 0.25
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.30
Consensus pattern (87 bp):
CTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGAAAA
AAACGCCGCTAAAGGTCTTGGT
Found at i:15794879 original size:49 final size:51
Alignment explanation
Indices: 15794826--15794945 Score: 138
Period size: 52 Copynumber: 2.4 Consensus size: 51
15794816 TAAGGGTCTT
15794826 GGTCTTTAGCGGTGTTTTT-AGA-AAAAAACGCCGCTAAAGTTAGCGACGC
1 GGTCTTTAGCGGTGTTTTTCAGATAAAAAACGCCGCTAAAGTTAGCGACGC
* *****
15794875 GGTCTTTAGCGGCAT-TTTTTCCGATGCTTCACGCCGCTAAAGTTAGCGACGC
1 GGTCTTTAGCGG--TGTTTTTCAGATAAAAAACGCCGCTAAAGTTAGCGACGC
*
15794927 GGTCTTTAGCGGCGTTTTT
1 GGTCTTTAGCGGTGTTTTT
15794946 TCCGGTGCTT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
49 12 0.20
50 5 0.08
51 8 0.14
52 34 0.58
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.32
Consensus pattern (51 bp):
GGTCTTTAGCGGTGTTTTTCAGATAAAAAACGCCGCTAAAGTTAGCGACGC
Found at i:15794921 original size:52 final size:52
Alignment explanation
Indices: 15794853--15794955 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
15794843 TTAGAAAAAA
15794853 ACGCCGCTAAAGTTAGCGACGCGGTCTTTAGCGGCATTTTTTCCGATGCTTC
1 ACGCCGCTAAAGTTAGCGACGCGGTCTTTAGCGGCATTTTTTCCGATGCTTC
* *
15794905 ACGCCGCTAAAGTTAGCGACGCGGTCTTTAGCGGCGTTTTTTCCGGTGCTT
1 ACGCCGCTAAAGTTAGCGACGCGGTCTTTAGCGGCATTTTTTCCGATGCTT
15794956 TTCAAAACGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.16, C:0.26, G:0.27, T:0.31
Consensus pattern (52 bp):
ACGCCGCTAAAGTTAGCGACGCGGTCTTTAGCGGCATTTTTTCCGATGCTTC
Found at i:15794999 original size:22 final size:21
Alignment explanation
Indices: 15794959--15794999 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
15794949 GGTGCTTTTC
* *
15794959 AAAACGCCGCTGAAGGCCTAA
1 AAAACGCCGCTAAAAGCCTAA
15794980 AAAAGCGCCGCTAAAAGCCT
1 AAAA-CGCCGCTAAAAGCCT
15795000 GTTTTGGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.39, C:0.29, G:0.22, T:0.10
Consensus pattern (21 bp):
AAAACGCCGCTAAAAGCCTAA
Found at i:15801030 original size:24 final size:24
Alignment explanation
Indices: 15800995--15801041 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
15800985 ATGAAACACA
*
15800995 ATGATTTGAGCT-CTAAATTTGAC
1 ATGATTTGAGCTACAAAATTTGAC
15801018 ATGATTATGAGCTACAAAATTTGA
1 ATGATT-TGAGCTACAAAATTTGA
15801042 GGAACTCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 9 0.43
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (24 bp):
ATGATTTGAGCTACAAAATTTGAC
Found at i:15804018 original size:20 final size:22
Alignment explanation
Indices: 15803979--15804020 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15803969 TCATTGGAAA
15803979 TTTAATAAATTATTAAGGGTAAT
1 TTTAATAAATTATT-AGGGTAAT
15804002 TTTAA-AAATTATT-GGGTAA
1 TTTAATAAATTATTAGGGTAA
15804021 AGTGATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (22 bp):
TTTAATAAATTATTAGGGTAAT
Found at i:15804962 original size:25 final size:25
Alignment explanation
Indices: 15804908--15804988 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
15804898 AGACACACCA
* *
15804908 CAGCTCTCATGAGCTTCTCGATACTT
1 CAGCTCGCATGAGCTTCTCGTTA-TT
*
15804934 -AGCTCGCATGAGCTTCCCGTTATT
1 CAGCTCGCATGAGCTTCTCGTTATT
* *
15804958 CAGCTCAG-AGGAGCTTCTCGTT-TA
1 CAGCTC-GCATGAGCTTCTCGTTATT
15804982 CAGCTCG
1 CAGCTCG
15804989 TATAAGCATA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
23 1 0.02
24 9 0.19
25 36 0.77
26 1 0.02
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.31
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTCTCGTTATT
Found at i:15807221 original size:18 final size:17
Alignment explanation
Indices: 15807192--15807225 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
15807182 TAGTTGTAAA
15807192 TTAAATTATAATTATTT
1 TTAAATTATAATTATTT
15807209 TTAAATGTATAATTATT
1 TTAAAT-TATAATTATT
15807226 AGAACTCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTAAATTATAATTATTT
Found at i:15812083 original size:17 final size:18
Alignment explanation
Indices: 15812050--15812083 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15812040 TGTGGTATCA
*
15812050 ATACCACCTGGAAAAATG
1 ATACCACCTGCAAAAATG
15812068 ATACCACCT-CAAAAAT
1 ATACCACCTGCAAAAAT
15812084 TATCGGTACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.26, G:0.09, T:0.18
Consensus pattern (18 bp):
ATACCACCTGCAAAAATG
Found at i:15812903 original size:39 final size:38
Alignment explanation
Indices: 15812781--15812911 Score: 129
Period size: 39 Copynumber: 3.4 Consensus size: 38
15812771 GTTCACTTTT
* * * *
15812781 AAGCATATATCATATTACACATATAATCACCTAACTTAC
1 AAGCATATATCACATTACTCATAAAATCACATAACTT-C
* *
15812820 AAGCATATATCACCA-TACTCATAAAATCTCATAACGTTT
1 AAGCATATATCA-CATTACTCATAAAATCACATAAC-TTC
* * *
15812859 GAGCATATGTCACATTACTCGTAAAATCACATAACATTC
1 AAGCATATATCACATTACTCATAAAATCACATAAC-TTC
*
15812898 AAGCATATACCACA
1 AAGCATATATCACA
15812912 ATAGTCTAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
38 2 0.03
39 69 0.93
40 3 0.04
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.28
Consensus pattern (38 bp):
AAGCATATATCACATTACTCATAAAATCACATAACTTC
Found at i:15815639 original size:12 final size:12
Alignment explanation
Indices: 15815622--15815646 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15815612 ATATTTTACA
15815622 AGTAAAGAATGT
1 AGTAAAGAATGT
15815634 AGTAAAGAATGT
1 AGTAAAGAATGT
15815646 A
1 A
15815647 ACATCCCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AGTAAAGAATGT
Found at i:15816762 original size:905 final size:907
Alignment explanation
Indices: 15815009--15816822 Score: 3308
Period size: 905 Copynumber: 2.0 Consensus size: 907
15814999 ACAAACATAC
15815009 ATTTGAGACTATGATGAGTAGTGAATTGATTACAAAGTAATGCTAAGGTGAAACTATAATAAATA
1 ATTTGAGACTATGATGAGTAGTGAATTGATTACAAAGTAATGCTAAGGTGAAACTATAATAAATA
*
15815074 ATGCATCTTCATGATGTTAAGGATTAAATTGTAAACTTTGTAAAATTTATAATTGAAACAAGAAA
66 ATGAATCTTCATGATGTTAAGGATTAAATTGTAAACTTTGTAAAATTTATAATTGAAACAAGAAA
*
15815139 AATGATATGCATGAAAATTTGTCATGTGAAATAAGATATTATAATGAACTATTTGATTAAAGTAC
131 AATGATATGCATGAAAATTTGTCATGTGAAATAAGATATTATAATGAACTATTTGATCAAAGTAC
15815204 TTATATGGTGAAAAATAAATTACATGGTAATAGGGACTAAATTGAAAAATATACAAAAGTTTAAG
196 TTATATGGTGAAAAATAAATTACATGGTAATAGGGACTAAATTGAAAAATATACAAAAGTTTAAG
*
15815269 TGTAAAACAATTTAATATGTGAATAAGGAAATTATGGTAAAAGTTTAATGAATATGTTATGAGAT
261 TGTAAAACAATTTAATATATGAATAAGGAAATTATGGTAAAAGTTTAATGAATATGTTATGAGAT
15815334 GATAAAATATGCATAAAGTATTGTAAAAGTGAAATTGTGGAAAAAATTGAAATTTTTTATGACAA
326 GATAAAATATGCATAAAGTATTGTAAAAGTGAAATTGTGGAAAAAATTG-AATTTTTTATGACAA
*
15815399 TAAGGACTAAATTGTTAATTTTGAGAAAATATGTGGATGAAATAATAGAAGTGAAATACATAGAA
390 TAAGGACTAAATTGTTAATTTTGAGAAAATATGTGGATGAAATAATAGAAGTAAAATACATAGAA
15815464 ATTTAATATGTGAAATAATATAATGAGATAAATTATGTGATAAAATATAACAAGAAAGAAAATTG
455 ATTTAATATGTGAAATAATATAATGAGATAAATTATGTGATAAAATATAACAAGAAAGAAAATTG
*
15815529 ATTTAATATGATTAATTAATGAATATTGAACTTTTATGACAAAAAAGGGACTAAATTGAAAAGTT
520 ATTTAATATGATTAATTAATGAATATTAAACTTTTATGACAAAAAAGGGACTAAATTGAAAAGTT
*
15815594 ATGAAGGTTTATAAGAAAATATTTTACAAGTAAAGAATGTAGTAAAGAATGTAACATCCCAATGC
585 ATGAAAGTTTATAAGAAAATATTTTACAAGTAAAGAATGTAGTAAAGAATGTAACATCCCAATGC
* *
15815659 TTTAACCCGATGTTTGGGTCGGGTATGAGGCTGTTATAGTGAATAGAGTCTTATCAGTTTGCAAG
650 TCTAACCCAATGTTTGGGTCGGGTATGAGGCTGTTATAGTGAATAGAGTCTTATCAGTTTGCAAG
*
15815724 ATGTCATACAAAAAAAATTTTGGTAAGACATTTTACAAGAATAAGGGGATGATTTTACTTTGGCC
715 ATGTCATACAAAAAAAATTTTGGTAAGACATTTTACAAGAATAAGGGGATGATTTTACGTTGGCC
15815789 GAAAAACCTTTTACGTTGACCATCCTATTTTACATGAAACAAGCATCGAAAAAGGTTGAAAATAT
780 GAAAAACCTTTTACGTTGACCATCCTATTTTACATGAAACAAGCATCGAAAAAGGTTGAAAATAT
* *
15815854 TTTCTGTAAAACCTTTTACTTGAAACAAATGAAACCTAAGACACGAGGGATCAATAAATATTG
845 TTTCTGTAAAACATTTTACTTGAAACAAACGAAACCTAAGACACGAGGGATCAATAAATATTG
*
15815917 ATTTGAGACTATGATGAGTAGTGAATTGATTACAAAGTAATGCTAAGGTGAAATTATAATAAATA
1 ATTTGAGACTATGATGAGTAGTGAATTGATTACAAAGTAATGCTAAGGTGAAACTATAATAAATA
15815982 ATGAATCTTCATGATGTTAAGGATTAAATTGTAAACTTTGTAAAATTTATAATTGAAACAAGAAA
66 ATGAATCTTCATGATGTTAAGGATTAAATTGTAAACTTTGTAAAATTTATAATTGAAACAAGAAA
*
15816047 AGTGATATGCATGAAAATTTGTCATGTGAAATAAGATATTATAATGAACTATTTGATCAAAGTAC
131 AATGATATGCATGAAAATTTGTCATGTGAAATAAGATATTATAATGAACTATTTGATCAAAGTAC
15816112 TTATATGGTGAAAAATAAATTACATGGTAATAGGGACTAAATTGAAAAATATACAAAAGTTTAAG
196 TTATATGGTGAAAAATAAATTACATGGTAATAGGGACTAAATTGAAAAATATACAAAAGTTTAAG
15816177 TGTAAAACAATTTAATATATGAATAAGGAAATTATGGTAAAAGTTTAATGAATATGTTATGAGAT
261 TGTAAAACAATTTAATATATGAATAAGGAAATTATGGTAAAAGTTTAATGAATATGTTATGAGAT
* *
15816242 GATGAAATATGCATAAAGTATTGTAAAAGTGAAATTGTGG-AAAAATTG-ATTTTTTATGATAAT
326 GATAAAATATGCATAAAGTATTGTAAAAGTGAAATTGTGGAAAAAATTGAATTTTTTATGACAAT
*
15816305 AAGGACTAAATTGTTAATTTTGAGAAAATATGTGGATGAAATAATAGAAGTAAAATACATATAAA
391 AAGGACTAAATTGTTAATTTTGAGAAAATATGTGGATGAAATAATAGAAGTAAAATACATAGAAA
* * *
15816370 TTTAATATGTGAAATAATATATTGAGATAAATTATGTGCTAAAATATAACTAGAAAGAAAATTGA
456 TTTAATATGTGAAATAATATAATGAGATAAATTATGTGATAAAATATAACAAGAAAGAAAATTGA
*
15816435 TTTAATATGATTAATTAATGAATATTAAACTTTTATGACAAAAAGGGGACTAAATTGAAAAGTTA
521 TTTAATATGATTAATTAATGAATATTAAACTTTTATGACAAAAAAGGGACTAAATTGAAAAGTTA
* * * *
15816500 TGAAAGTTTATAATAAAATATTTTACAAGTGAAGAATGTAGTAAAGATTGTGACATCCCAATGCT
586 TGAAAGTTTATAAGAAAATATTTTACAAGTAAAGAATGTAGTAAAGAATGTAACATCCCAATGCT
* * *
15816565 CTAACCCAATGTTTGGGTCGGGTATGGGGGTGTTATAGTGAATAGAGTCTTATCAGTTTGGAAGA
651 CTAACCCAATGTTTGGGTCGGGTATGAGGCTGTTATAGTGAATAGAGTCTTATCAGTTTGCAAGA
* *
15816630 TGTCATACAAAAAAAATTTTGGTAAGGCATTTTACGAGAATAAGGGGATGATTTTACGTTGGCCG
716 TGTCATACAAAAAAAATTTTGGTAAGACATTTTACAAGAATAAGGGGATGATTTTACGTTGGCCG
*
15816695 GAAAACCTTTTACGTTGACCATCCTATTTTACATGAAACAAGCATCGAAAAAGGTTGAAAATATT
781 AAAAACCTTTTACGTTGACCATCCTATTTTACATGAAACAAGCATCGAAAAAGGTTGAAAATATT
* * *
15816760 TTCTGTAAAATATTTTACTTGAAACAAACGGAACCTAAGACACGAGGGATTAATAAATATTG
846 TTCTGTAAAACATTTTACTTGAAACAAACGAAACCTAAGACACGAGGGATCAATAAATATTG
15816822 A
1 A
15816823 GATTTAATAT
Statistics
Matches: 873, Mismatches: 33, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
905 506 0.58
907 8 0.01
908 359 0.41
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (907 bp):
ATTTGAGACTATGATGAGTAGTGAATTGATTACAAAGTAATGCTAAGGTGAAACTATAATAAATA
ATGAATCTTCATGATGTTAAGGATTAAATTGTAAACTTTGTAAAATTTATAATTGAAACAAGAAA
AATGATATGCATGAAAATTTGTCATGTGAAATAAGATATTATAATGAACTATTTGATCAAAGTAC
TTATATGGTGAAAAATAAATTACATGGTAATAGGGACTAAATTGAAAAATATACAAAAGTTTAAG
TGTAAAACAATTTAATATATGAATAAGGAAATTATGGTAAAAGTTTAATGAATATGTTATGAGAT
GATAAAATATGCATAAAGTATTGTAAAAGTGAAATTGTGGAAAAAATTGAATTTTTTATGACAAT
AAGGACTAAATTGTTAATTTTGAGAAAATATGTGGATGAAATAATAGAAGTAAAATACATAGAAA
TTTAATATGTGAAATAATATAATGAGATAAATTATGTGATAAAATATAACAAGAAAGAAAATTGA
TTTAATATGATTAATTAATGAATATTAAACTTTTATGACAAAAAAGGGACTAAATTGAAAAGTTA
TGAAAGTTTATAAGAAAATATTTTACAAGTAAAGAATGTAGTAAAGAATGTAACATCCCAATGCT
CTAACCCAATGTTTGGGTCGGGTATGAGGCTGTTATAGTGAATAGAGTCTTATCAGTTTGCAAGA
TGTCATACAAAAAAAATTTTGGTAAGACATTTTACAAGAATAAGGGGATGATTTTACGTTGGCCG
AAAAACCTTTTACGTTGACCATCCTATTTTACATGAAACAAGCATCGAAAAAGGTTGAAAATATT
TTCTGTAAAACATTTTACTTGAAACAAACGAAACCTAAGACACGAGGGATCAATAAATATTG
Found at i:15819923 original size:28 final size:28
Alignment explanation
Indices: 15819879--15819947 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 28
15819869 ATTATAAATT
*
15819879 TTTTAAAGAATTAAATTATAGAA-TTATTTC
1 TTTTAAAGAAAT-AATTAT-GAATTTA-TTC
*
15819909 TTTTAAA-AAATAATTATGAATTTATTG
1 TTTTAAAGAAATAATTATGAATTTATTC
15819936 TTTTAAAGAAAT
1 TTTTAAAGAAAT
15819948 CAAATTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 12 0.34
28 13 0.37
29 3 0.09
30 7 0.20
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.46
Consensus pattern (28 bp):
TTTTAAAGAAATAATTATGAATTTATTC
Found at i:15819939 original size:27 final size:29
Alignment explanation
Indices: 15819879--15819947 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 29
15819869 ATTATAAATT
*
15819879 TTTTAAAGAATTAAATTATAGAATTATTTC
1 TTTTAAAGAAAT-AATTATAGAATTATTTC
*
15819909 TTTTAAA-AAATAATTAT-GAATT-TATTG
1 TTTTAAAGAAATAATTATAGAATTAT-TTC
15819936 TTTTAAAGAAAT
1 TTTTAAAGAAAT
15819948 CAAATTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 1 0.03
27 14 0.40
28 10 0.29
29 3 0.09
30 7 0.20
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.46
Consensus pattern (29 bp):
TTTTAAAGAAATAATTATAGAATTATTTC
Found at i:15831179 original size:30 final size:30
Alignment explanation
Indices: 15831143--15831201 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
15831133 AAGGAAATAA
15831143 ATCCTAATTTCCTAAGAATCAGTAATTGAT
1 ATCCTAATTTCCTAAGAATCAGTAATTGAT
*
15831173 ATCCTAATTTCCTAAGAATTAGTAATTGA
1 ATCCTAATTTCCTAAGAATCAGTAATTGA
15831202 GATTAGTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (30 bp):
ATCCTAATTTCCTAAGAATCAGTAATTGAT
Found at i:15835823 original size:30 final size:30
Alignment explanation
Indices: 15835787--15835869 Score: 166
Period size: 30 Copynumber: 2.8 Consensus size: 30
15835777 GGAAATAAAT
15835787 CCTAATTTCCTAAGAATCAGTAATTGATAA
1 CCTAATTTCCTAAGAATCAGTAATTGATAA
15835817 CCTAATTTCCTAAGAATCAGTAATTGATAA
1 CCTAATTTCCTAAGAATCAGTAATTGATAA
15835847 CCTAATTTCCTAAGAATCAGTAA
1 CCTAATTTCCTAAGAATCAGTAA
15835870 CTGAGATTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (30 bp):
CCTAATTTCCTAAGAATCAGTAATTGATAA
Found at i:15842698 original size:16 final size:16
Alignment explanation
Indices: 15842662--15842692 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15842652 AGCATAGAAG
15842662 TTTATATAAATTTAAA
1 TTTATATAAATTTAAA
15842678 TTTATATAAATTTAA
1 TTTATATAAATTTAA
15842693 TATTATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTATATAAATTTAAA
Found at i:15844551 original size:6 final size:6
Alignment explanation
Indices: 15844540--15844564 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15844530 TATTGTTGAT
15844540 GGCAAC GGCAAC GGCAAC GGCAAC G
1 GGCAAC GGCAAC GGCAAC GGCAAC G
15844565 ACGACAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.36, T:0.00
Consensus pattern (6 bp):
GGCAAC
Found at i:15854664 original size:29 final size:29
Alignment explanation
Indices: 15854622--15854680 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
15854612 AAGATACTTC
15854622 AACAAAGAAATTTTAGCTTCCATAAAACA
1 AACAAAGAAATTTTAGCTTCCATAAAACA
15854651 AACAAAGAAATTTTAGCTTCCATAAAACA
1 AACAAAGAAATTTTAGCTTCCATAAAACA
15854680 A
1 A
15854681 CTTACAGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.24
Consensus pattern (29 bp):
AACAAAGAAATTTTAGCTTCCATAAAACA
Found at i:15855927 original size:12 final size:12
Alignment explanation
Indices: 15855910--15855934 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15855900 TTCATTTTAC
15855910 TTGAATTAATTT
1 TTGAATTAATTT
15855922 TTGAATTAATTT
1 TTGAATTAATTT
15855934 T
1 T
15855935 AACATATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TTGAATTAATTT
Found at i:15856510 original size:22 final size:21
Alignment explanation
Indices: 15856472--15856512 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
15856462 CTTTTAACTC
* *
15856472 ATTTTTTTTAAATAATTTTAA
1 ATTTTTTTAAAAAAATTTTAA
15856493 ATTTTTTTAAAAAAAATTTT
1 ATTTTTTT-AAAAAAATTTT
15856513 TAAACCATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTTTTAAAAAAATTTTAA
Found at i:15857630 original size:7 final size:7
Alignment explanation
Indices: 15857618--15857642 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15857608 AGTCGATTGA
15857618 TATTTAG
1 TATTTAG
15857625 TATTTAG
1 TATTTAG
15857632 TATTTAG
1 TATTTAG
15857639 TATT
1 TATT
15857643 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:15858778 original size:25 final size:25
Alignment explanation
Indices: 15858743--15858798 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
15858733 TGTTTTGATA
15858743 TTATTTAATGTAATAAAATAGAAGT
1 TTATTTAATGTAATAAAATAGAAGT
* *
15858768 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTAATGTAATAAAATAGAAGT
15858793 TT-TTTA
1 TTATTTA
15858799 TATTATTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 3 0.11
25 25 0.89
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (25 bp):
TTATTTAATGTAATAAAATAGAAGT
Found at i:15858960 original size:13 final size:14
Alignment explanation
Indices: 15858931--15858960 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15858921 ATTTAATTAA
15858931 AAACCCTAAACCTT
1 AAACCCTAAACCTT
15858945 AAACCCTAAA-CTT
1 AAACCCTAAACCTT
15858958 AAA
1 AAA
15858961 AACCTTAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACCCTAAACCTT
Found at i:15858986 original size:23 final size:23
Alignment explanation
Indices: 15858832--15859252 Score: 403
Period size: 23 Copynumber: 18.2 Consensus size: 23
15858822 CATTAATACC
15858832 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
15858855 TTTAATTAAAAACCTTAAACC---
1 TTAAATTAAAAACCCT-AACCTAA
**
15858876 TTAAACTTAAAAACCCTAACC-CC
1 TTAAA-TTAAAAACCCTAACCTAA
* * *
15858899 TTAACTTAAAAACCTTAACTTAA
1 TTAAATTAAAAACCCTAACCTAA
*
15858922 TTTAATTAAAAACCCTAAACCTTAAA
1 TTAAATTAAAAACCCT-AACC-T-AA
* *
15858948 CCCTAAACTTAAAAACCTTAACCTAA
1 --TTAAA-TTAAAAACCCTAACCTAA
*
15858974 TTAAATTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
15858997 TTTAATTAAAAACTCTAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAA
*
15859021 --AACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
15859042 TTTAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
15859065 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
15859088 TTTAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* **
15859111 TTAAATTAAAAACCCTAACTTCC
1 TTAAATTAAAAACCCTAACCTAA
*
15859134 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
15859157 TTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
15859180 TTAAATTAAAAACCCTAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAA
* * *
15859204 --AACTTAAAAGCCCTGACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* * *
15859225 TTTAATTAAAAACTCTAAACTAAA
1 TTAAATTAAAAACCCTAACCT-AA
15859249 TTAA
1 TTAA
15859253 TAATTTTACT
Statistics
Matches: 328, Mismatches: 48, Indels: 43
0.78 0.11 0.10
Matches are distributed among these distances:
20 6 0.02
21 13 0.04
22 46 0.14
23 212 0.65
24 22 0.07
25 7 0.02
26 4 0.01
27 1 0.00
28 7 0.02
29 10 0.03
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.28
Consensus pattern (23 bp):
TTAAATTAAAAACCCTAACCTAA
Found at i:15859422 original size:15 final size:15
Alignment explanation
Indices: 15859402--15859440 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
15859392 TAAAAACCCT
15859402 AAACCCTAAACTTAA
1 AAACCCTAAACTTAA
15859417 AAACCCTAAACTTAA
1 AAACCCTAAACTTAA
15859432 AAACCCTAA
1 AAACCCTAA
15859441 CCTAATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (15 bp):
AAACCCTAAACTTAA
Found at i:15859505 original size:22 final size:23
Alignment explanation
Indices: 15859425--15859586 Score: 174
Period size: 23 Copynumber: 7.1 Consensus size: 23
15859415 AAAAACCCTA
15859425 AACTTAAAAACCCTAACCTAATT
1 AACTTAAAAACCCTAACCTAATT
* * *
15859448 AAATTAAAAACCCTAACTTCATT
1 AACTTAAAAACCCTAACCTAATT
15859471 AACTTAAAAACCCTAACCTAATT
1 AACTTAAAAACCCTAACCTAATT
15859494 AACTT-AAAACCCTAACCTAATT
1 AACTTAAAAACCCTAACCTAATT
* *
15859516 AAATTAAAAATCCTAAACCCT-A--
1 AACTTAAAAACCCT-AA-CCTAATT
15859538 AACTTAAAAACCC-ACACCTAATTT
1 AACTTAAAAACCCTA-ACCTAA-TT
* *
15859562 AA-TTAAAAACTCTAAACTAAATT
1 AACTTAAAAACCCTAACCT-AATT
15859585 AA
1 AA
15859587 TAATTTTACT
Statistics
Matches: 117, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.03
21 2 0.02
22 32 0.27
23 68 0.58
24 8 0.07
25 3 0.03
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (23 bp):
AACTTAAAAACCCTAACCTAATT
Found at i:15859523 original size:45 final size:46
Alignment explanation
Indices: 15859423--15859586 Score: 176
Period size: 45 Copynumber: 3.6 Consensus size: 46
15859413 TTAAAAACCC
* * *
15859423 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACTTCAT
1 TAAA-TTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAAT
*
15859470 TAACTTAAAAACCCTAACCTAATTAACTT-AAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAAT
*
15859515 TAAATTAAAAATCCTAAACCCT-A--AACTTAAAAACCC-ACACCTAAT
1 TAAATTAAAAACCCT-AA-CCTAATTAACTTAAAAACCCTA-ACCTAAT
* * *
15859560 TTAATTAAAAACTCTAAACTAAATTAA
1 TAAATTAAAAACCCTAACCT-AATTAA
15859587 TAATTTTACT
Statistics
Matches: 99, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
43 2 0.02
44 8 0.08
45 54 0.55
46 27 0.27
47 8 0.08
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (46 bp):
TAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAAT
Found at i:15859571 original size:68 final size:68
Alignment explanation
Indices: 15859425--15859586 Score: 206
Period size: 68 Copynumber: 2.4 Consensus size: 68
15859415 AAAAACCCTA
*
15859425 AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACTTCATTAACTTAAAAACCCTAACCT
1 AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC-TCATAAACTTAAAAACCCTAACCT
15859490 AATT
65 AATT
* *
15859494 AACTT-AAAACCCTAACCTAATTAAATTAAAAATCCTAAAC-CCTAAACTTAAAAACCC-ACACC
1 AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AACTCATAAACTTAAAAACCCTA-ACC
15859556 TAATTT
64 TAA-TT
* *
15859562 AA-TTAAAAACTCTAAACTAAATTAA
1 AACTTAAAAACCCTAACCT-AATTAA
15859587 TAATTTTACT
Statistics
Matches: 83, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
66 1 0.01
67 23 0.28
68 45 0.54
69 14 0.17
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (68 bp):
AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACTCATAAACTTAAAAACCCTAACCTA
ATT
Found at i:15859703 original size:334 final size:335
Alignment explanation
Indices: 15859093--15859708 Score: 1144
Period size: 334 Copynumber: 1.8 Consensus size: 335
15859083 CCTAATTTAA
*
15859093 TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACTTCCTTAACTTAAAAACCCTAACCTAAT
1 TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACTTCATTAACTTAAAAACCCTAACCTAAT
* * **
15859158 TAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACTTAAAAGCCCTGACCT
66 TAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACTTAAAAACCCACACCT
15859223 AATTTAATTAAAAACTCTAAACTAAATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAA
131 AATTTAATTAAAAACTCTAAACTAAATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAA
*
15859288 ATATTTTTTCCTGGTACTAACAATTAATAATTTTATATAATTTGGTAATTTTACTAATCATTAAT
196 ATATTTTTTCCTGGTACTAACAATTAATAATTTTATATAATTTGATAATTTTACTAATCATTAAT
15859353 ACAATTTATCAATTAATAATTTCACAAAATTAATTAAATTAAAAACCCTAAACCCTAAACTTAAA
261 ACAATTTATCAATTAATAATTTCACAAAATTAATTAAATTAAAAACCCTAAACCCTAAACTTAAA
15859418 AACCCTAAAC
326 AACCCTAAAC
15859428 TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACTTCATTAACTTAAAAACCCTAACCTAAT
1 TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACTTCATTAACTTAAAAACCCTAACCTAAT
*
15859493 TAACTT-AAAACCCTAACCTAATTAAATTAAAAATCCTAAACCCTAAACTTAAAAACCCACACCT
66 TAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACTTAAAAACCCACACCT
15859557 AATTTAATTAAAAACTCTAAACTAAATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAA
131 AATTTAATTAAAAACTCTAAACTAAATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAA
* *
15859622 ATGTTTTTTCCTGGTACTAACAATTAATAATTTTTTATAATTTGATAATTTTACTAATCATTAAT
196 ATATTTTTTCCTGGTACTAACAATTAATAATTTTATATAATTTGATAATTTTACTAATCATTAAT
15859687 ACAATTTATCAATTAATAATTT
261 ACAATTTATCAATTAATAATTT
15859709 TACATTCACA
Statistics
Matches: 272, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
334 202 0.74
335 70 0.26
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.35
Consensus pattern (335 bp):
TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACTTCATTAACTTAAAAACCCTAACCTAAT
TAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACTTAAAAACCCACACCT
AATTTAATTAAAAACTCTAAACTAAATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAA
ATATTTTTTCCTGGTACTAACAATTAATAATTTTATATAATTTGATAATTTTACTAATCATTAAT
ACAATTTATCAATTAATAATTTCACAAAATTAATTAAATTAAAAACCCTAAACCCTAAACTTAAA
AACCCTAAAC
Found at i:15859790 original size:116 final size:116
Alignment explanation
Indices: 15859581--15859824 Score: 418
Period size: 116 Copynumber: 2.1 Consensus size: 116
15859571 CTCTAAACTA
* **
15859581 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACTAACAAT
* *
15859646 TAATAATTTTTTATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 TAATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTATC
15859697 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACTAACAAT
*
15859761 TAATAATTTTATATAATTTGATAATTTTTAGTAACCATTAATACAATTTATC
66 TAATAATTTTATATAATTTGATAA-TTTTACTAACCATTAATACAATTTATC
15859813 AATTAATAATTT
1 AATTAATAATTT
15859825 CACTAACTTA
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
115 41 0.34
116 80 0.66
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACTAACAAT
TAATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTATC
Found at i:15863123 original size:123 final size:123
Alignment explanation
Indices: 15862834--15863182 Score: 518
Period size: 123 Copynumber: 2.8 Consensus size: 123
15862824 CCAAACATGT
* * * * *
15862834 TACTGTAGCAAAAACGCATCTACGAGGGCGCGATTTTCAAAAATTTTTCTCAAATAGCATCCTGC
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCCTGC
*
15862899 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCGTGACC
65 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAAATTATTTCTTCCATGACC
* * * * ** *
15862959 GACTGTAGCAAAAGCGCGACCACGAGGGCGCAATTTTACAAATTCTTCTTGAATAGCATCCTTCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
** *
15863024 AGAAGCGATTAAATACTATTTGCTCAGAAATGTCAAAAAAATTATTTCTTCCATGACC
66 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTCCATGACC
15863082 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
* *
15863147 AAAAGCGATTTTATACTATTTGATCAGAAACGTCAA
66 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
15863183 CTCAAAACTA
Statistics
Matches: 196, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
123 112 0.57
124 57 0.29
125 27 0.14
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (123 bp):
TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTCCATGACC
Found at i:15867397 original size:12 final size:12
Alignment explanation
Indices: 15867380--15867423 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
15867370 AATTTTAAAA
*
15867380 AATTAAAATTTT
1 AATTAAAATTAT
15867392 AATT-AAA-TAT
1 AATTAAAATTAT
15867402 AATTAAAATTAT
1 AATTAAAATTAT
15867414 AATTATAAAT
1 AATTA-AAAT
15867424 GCATAACCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 6 0.21
11 6 0.21
12 12 0.43
13 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
AATTAAAATTAT
Found at i:15871630 original size:41 final size:41
Alignment explanation
Indices: 15871585--15871729 Score: 238
Period size: 41 Copynumber: 3.5 Consensus size: 41
15871575 GACTTTAAGT
*
15871585 CTAGCAGGCTAAGTACCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
15871626 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
15871667 CTAGCAAGCTAAGTGCCGGTGAT-TGGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCT-GAATCAGGTTATAAAC
15871708 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
15871730 ATATGTTAAA
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 1 0.01
41 97 0.99
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:15876152 original size:21 final size:21
Alignment explanation
Indices: 15876113--15876152 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15876103 TTTATTTTAA
* *
15876113 AATATATATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
15876134 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
15876153 TACTGATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:15876497 original size:20 final size:19
Alignment explanation
Indices: 15876455--15876507 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
15876445 CTCTTTAGTT
**
15876455 TTTTTTTTTCATTTCTCTT
1 TTTTTTTTTCATTTCTCGG
*
15876474 TTTTTTTTTCATTTTTCAGG
1 TTTTTTTTTCATTTCTC-GG
*
15876494 TTTTTTTTTAATTT
1 TTTTTTTTTCATTT
15876508 GTGAATCGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.77
Consensus pattern (19 bp):
TTTTTTTTTCATTTCTCGG
Found at i:15889717 original size:16 final size:17
Alignment explanation
Indices: 15889696--15889733 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
15889686 TTCTATATGG
*
15889696 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
15889712 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
15889730 ATTT
1 ATTT
15889734 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:15891469 original size:18 final size:18
Alignment explanation
Indices: 15891382--15892020 Score: 248
Period size: 17 Copynumber: 36.1 Consensus size: 18
15891372 CGTGATCCGA
*
15891382 TTGAAACATGAGAATTTTT
1 TTGAAACACGAGAA-TTTT
*
15891401 TTTAAACACGAGAA--TT
1 TTGAAACACGAGAATTTT
* * *
15891417 TTCAAGCAC--GATTTTT
1 TTGAAACACGAGAATTTT
* * *
15891433 TTAAAAAAACGA-AAGTTT
1 TT-GAAACACGAGAATTTT
15891451 TTGAAACACGAGAA-TTT
1 TTGAAACACGAGAATTTT
* *
15891468 TTGAAAATACGA-AAATTT
1 TTG-AAACACGAGAATTTT
* *
15891486 TTGAAACATGA-AAATTT
1 TTGAAACACGAGAATTTT
*** *
15891503 AAAAAACACGACAA-TTT
1 TTGAAACACGAGAATTTT
* *
15891520 TTGAAACATGA-AAATTT
1 TTGAAACACGAGAATTTT
*** *
15891537 AAAAAACACGACAA-TTT
1 TTGAAACACGAGAATTTT
15891554 TTGAAACACGAGAATTTTT
1 TTGAAACACGAGAA-TTTT
* * * *
15891573 TTTAAA-ACATAAAAATTT
1 TTGAAACAC-GAGAATTTT
* * *
15891591 TTAAAACATGA-AAATTT
1 TTGAAACACGAGAATTTT
* *
15891608 GTGAAACACGAGAA-TTG
1 TTGAAACACGAGAATTTT
*
15891625 TTGAAAACACGAAAATTTT
1 TTG-AAACACGAGAATTTT
*
15891644 TT-AAACACG-GAAACTTT
1 TTGAAACACGAG-AATTTT
* *
15891661 TAGAAAACACGA-AAATTT
1 TTG-AAACACGAGAATTTT
*
15891679 TTGAAAACACGAAAATTTT
1 TTG-AAACACGAGAATTTT
* * *
15891698 TAGAAACATGA-AAATTT
1 TTGAAACACGAGAATTTT
* *
15891715 TTAAAACACGACAA-TTT
1 TTGAAACACGAGAATTTT
*
15891732 TTGAAACAGGAGAATTTT
1 TTGAAACACGAGAATTTT
* * *
15891750 TTCAAAACAC-AAAAATTT
1 TT-GAAACACGAGAATTTT
* *
15891768 TTAAAACACGA-AAATTT
1 TTGAAACACGAGAATTTT
*
15891785 GTGAAACACTGA-AATTTT
1 TTGAAACAC-GAGAATTTT
* *
15891803 TTGAAACATGA-AAATTT
1 TTGAAACACGAGAATTTT
15891820 TTGAAACACG-GAAATTTT
1 TTGAAACACGAG-AATTTT
* *
15891838 TAGAAAACACGAAAATTTT
1 TTG-AAACACGAGAATTTT
*
15891857 TTAAAATCACTG-GAATTTT
1 TTGAAA-CAC-GAGAATTTT
*
15891876 TGGAAACACGA-AGA-TTT
1 TTGAAACACGAGA-ATTTT
* *
15891893 TTGAAAAAATGA-AGATTTT
1 TTG-AAACACGAGA-ATTTT
** *
15891912 TT-AAATGCAAGAATTTT
1 TTGAAACACGAGAATTTT
* *
15891929 TCGAAAACACGAAAAATTTT
1 TTG-AAACACG-AGAATTTT
* *
15891949 TTTAAA-ATG-GAATTTT
1 TTGAAACACGAGAATTTT
15891965 TTGAAAACACGAGAA-TTT
1 TTG-AAACACGAGAATTTT
* *
15891983 TTGAAAACATGA-AAATTT
1 TTG-AAACACGAGAATTTT
15892001 TTGAAACATCG-GAATTTT
1 TTGAAACA-CGAGAATTTT
15892019 TT
1 TT
15892021 TTAAAACGCG
Statistics
Matches: 472, Mismatches: 100, Indels: 97
0.71 0.15 0.14
Matches are distributed among these distances:
14 2 0.00
16 23 0.05
17 192 0.41
18 157 0.33
19 89 0.19
20 9 0.02
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (18 bp):
TTGAAACACGAGAATTTT
Found at i:15891469 original size:35 final size:33
Alignment explanation
Indices: 15891430--15892019 Score: 401
Period size: 35 Copynumber: 16.6 Consensus size: 33
15891420 AAGCACGATT
* *
15891430 TTTTTAAAAAAACGAAAGTTTTTGAAACACGAGAA
1 TTTTT-AAAACACGAAA-TTTTTGAAACACGAAAA
* *
15891465 TTTTTGAAAATACGAAAATTTTTGAAACATGAAAA
1 TTTTT-AAAACACG-AAATTTTTGAAACACGAAAA
** *
15891500 TTTAAAAAACACGACAATTTTTGAAACATGAAAA
1 TTTTTAAAACACGA-AATTTTTGAAACACGAAAA
** *
15891534 TTTAAAAAACACGACAATTTTTGAAACACGAGAATTT
1 TTTTTAAAACACGA-AATTTTTGAAACACGA-AA--A
** * *
15891571 TTTTTAAAACATAAAAATTTTTAAAACATGAAAA
1 TTTTTAAAACA-CGAAATTTTTGAAACACGAAAA
* * *
15891605 TTTGTGAAACACGAGAATTGTTGAAAACACGAAAA
1 TTTTTAAAACACGA-AATTTTTG-AAACACGAAAA
* *
15891640 TTTTTTAAACACGGAAACTTTTAGAAAACACGAAAA
1 TTTTTAAAACAC-GAAA-TTTTTG-AAACACGAAAA
*
15891676 TTTTTGAAAACACGAAAATTTTTAGAAACATGAAAA
1 TTTTT-AAAACACG-AAATTTTT-GAAACACGAAAA
* *
15891712 TTTTTAAAACACGACAATTTTTGAAACAGGAGAAT
1 TTTTTAAAACACGA-AATTTTTGAAACACGA-AAA
* *
15891747 TTTTTCAAAACACAAAAATTTTTAAAACACGAAAA
1 TTTTT-AAAACAC-GAAATTTTTGAAACACGAAAA
* * *
15891782 TTTGTGAAACACTGAAATTTTTTGAAACATGAAAA
1 TTTTTAAAACAC-GAAA-TTTTTGAAACACGAAAA
*
15891817 TTTTTGAAACACGGAAATTTTTAGAAAACACGAAAA
1 TTTTTAAAACAC-GAAATTTTT-G-AAACACGAAAA
* *
15891853 TTTTTTAAAATCACTGGAATTTTTGGAAACACGAAGA
1 -TTTTTAAAA-CAC-GAAATTTTT-GAAACACGAAAA
* * * **
15891890 TTTTTGAAAAAATGAAGATTTTTTAAATGC-AAGAA
1 TTTTT-AAAACACGAA-ATTTTTGAAACACGAA-AA
* * * *
15891925 TTTTTCGAAAACACGAAAAATTTTTTTAAA-ATGGAAT
1 TTTTT--AAAACACG--AAA-TTTTTGAAACACGAAAA
*
15891962 TTTTTGAAAACACGAGAATTTTTGAAAACATGAAAA
1 TTTTT-AAAACACGA-AATTTTTG-AAACACGAAAA
* *
15891998 TTTTTGAAACATCGGAATTTTT
1 TTTTTAAAACA-CGAAATTTTT
15892020 TTTAAAACGC
Statistics
Matches: 453, Mismatches: 68, Indels: 68
0.77 0.12 0.12
Matches are distributed among these distances:
33 2 0.00
34 102 0.23
35 142 0.31
36 119 0.26
37 63 0.14
38 25 0.06
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (33 bp):
TTTTTAAAACACGAAATTTTTGAAACACGAAAA
Found at i:15891598 original size:88 final size:87
Alignment explanation
Indices: 15891443--15892020 Score: 468
Period size: 88 Copynumber: 6.5 Consensus size: 87
15891433 TTAAAAAAAC
* * * * * ** **
15891443 GAAAGTTTTTGAAACACGAGAATTTTTGAAAATACGA-AAATTTTTG-AAACATGAAAATTTAAA
1 GAAAATTTTTAAAACACGAAAATTTTTG-AAACACGAGAATTTTTTGAAAACACAAAAATTTTTA
* *
15891506 AAACACGACAATTTTTGAAACAT
65 AAACACGAAAATTTGTGAAACAT
** * * *
15891529 GAAAATTTAAAAAACACGACAATTTTTGAAACACGAGAATTTTTTTTAAAACATAAAAATTTTTA
1 GAAAATTTTTAAAACACGAAAATTTTTGAAACACGAGAA-TTTTTTGAAAACACAAAAATTTTTA
* *
15891594 AAACATGAAAATTTGTGAAACAC
65 AAACACGAAAATTTGTGAAACAT
* * * * * *
15891617 GAGAATTGTTGAAAACACGAAAATTTTTTAAACACG-GAAACTTTTAGAAAACACGAAAATTTTT
1 GAAAATT-TTTAAAACACGAAAATTTTTGAAACACGAG-AATTTTTTGAAAACACAAAAATTTTT
*
15891681 GAAAACACGAAAATTTTTAGAAACAT
64 -AAAACACGAAAATTTGT-GAAACAT
* * *
15891707 GAAAATTTTTAAAACACGACAATTTTTGAAACAGGAGAATTTTTTCAAAACACAAAAATTTTTAA
1 GAAAATTTTTAAAACACGAAAATTTTTGAAACACGAGAATTTTTTGAAAACACAAAAATTTTTAA
15891772 AACACGAAAATTTGTGAAACACT
66 AACACGAAAATTTGTGAAACA-T
* * * * *
15891795 GAAATTTTTTGAAACATGAAAATTTTTGAAACACG-GAAATTTTTAGAAAACACGAAAATTTTTT
1 GAAAATTTTTAAAACACGAAAATTTTTGAAACACGAG-AATTTTTTGAAAACAC-AAAAATTTTT
* * *
15891859 AAAATCACTG-GAATTTTTGGAAACAC
64 AAAA-CAC-GAAAATTTGT-GAAACAT
* * * * * ** * *
15891885 GAAGATTTTTGAAAAAATGAAGATTTTTTAAATGCAAGAATTTTTCGAAAACACGAAAAATTTTT
1 GAAAATTTTT-AAAACACGAAAATTTTTGAAACACGAGAATTTTTTGAAAACAC-AAAAA-TTTT
* * * * * *
15891950 TTAAA-ATGGAATTTTTTGAAAACAC
63 TAAAACACGAAAATTTGTG-AAACAT
* *
15891975 GAGAATTTTTGAAAACATGAAAATTTTTGAAACATCG-GAATTTTTT
1 GAAAATTTTT-AAAACACGAAAATTTTTGAAACA-CGAGAATTTTTT
15892021 TTAAAACGCG
Statistics
Matches: 399, Mismatches: 73, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
85 7 0.02
86 25 0.06
87 12 0.03
88 120 0.30
89 102 0.26
90 78 0.20
91 46 0.12
92 9 0.02
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (87 bp):
GAAAATTTTTAAAACACGAAAATTTTTGAAACACGAGAATTTTTTGAAAACACAAAAATTTTTAA
AACACGAAAATTTGTGAAACAT
Found at i:15891668 original size:71 final size:68
Alignment explanation
Indices: 15891443--15891898 Score: 373
Period size: 71 Copynumber: 6.4 Consensus size: 68
15891433 TTAAAAAAAC
* * * * ***
15891443 GAAAGTTTTTGAAACACGAGAATTTTTGAAAATACGAAAATTTTTG-AAACATGAAAATTTAAAA
1 GAAA-TTTTTGAAACATGAAAATTTTTG-AAACACGAAAA-TTTTGAAAACACGAAAATTTTTTA
15891507 AACAC-
63 AACACT
*** * *
15891512 GACAATTTTTGAAACATGAAAATTTAAAAAACACGACAATTTTTG-AAACACGAGAATTTTTTTT
1 GA-AATTTTTGAAACATGAAAATTTTTGAAACACGA-AAATTTTGAAAACACGA-AA-ATTTTTT
15891576 AAA-ACAT
62 AAACAC-T
* * * *
15891583 AAAAATTTTTAAAACATGAAAATTTGTGAAACACGAGAATTGTTGAAAACACGAAAATTTTTTAA
1 -GAAATTTTTGAAACATGAAAATTTTTGAAACACGAAAATT-TTGAAAACACGAAAATTTTTTAA
*
15891648 ACACG
64 ACACT
* * * * *
15891653 GAAACTTTTAGAAAACACGAAAATTTTTGAAAACACGAAAATTTTTAGAAACATGAAAATTTTTA
1 GAAA-TTTTTG-AAACATGAAAATTTTTG-AAACACGAAAATTTTGA-AAACACGAAAATTTTTT
15891718 AAACAC-
62 AAACACT
* * * * * * *
15891724 GACAATTTTTGAAACAGGAGAATTTTTTCAAAACACAAAAATTTTTAAAACACGAAAATTTGTGA
1 GA-AATTTTTGAAACATGA-AAATTTTT-GAAACACGAAAATTTTGAAAACACGAAAATTTTTTA
15891789 AACACT
63 AACACT
*
15891795 GAAATTTTTTGAAACATGAAAATTTTTGAAACACGGAAATTTTTAGAAAACACGAAAATTTTTTA
1 GAAA-TTTTTGAAACATGAAAATTTTTGAAACAC-GAAAATTTT-GAAAACACGAAAATTTTTT-
15891860 AAATCACT
62 AAA-CACT
* * *
15891868 GGAATTTTTGGAAACACGAAGATTTTTGAAA
1 GAAATTTTT-GAAACATGAAAATTTTTGAAA
15891899 AAATGAAGAT
Statistics
Matches: 314, Mismatches: 49, Indels: 44
0.77 0.12 0.11
Matches are distributed among these distances:
68 19 0.06
69 35 0.11
70 67 0.21
71 115 0.37
72 52 0.17
73 26 0.08
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (68 bp):
GAAATTTTTGAAACATGAAAATTTTTGAAACACGAAAATTTTGAAAACACGAAAATTTTTTAAAC
ACT
Found at i:15892009 original size:17 final size:17
Alignment explanation
Indices: 15891441--15892008 Score: 413
Period size: 17 Copynumber: 32.1 Consensus size: 17
15891431 TTTTAAAAAA
*
15891441 ACGAAAGTTTTTGAAAC
1 ACGAAAATTTTTGAAAC
* *
15891458 ACGAGAATTTTTGAAAAT
1 ACGAAAATTTTTG-AAAC
15891476 ACGAAAATTTTTGAAAC
1 ACGAAAATTTTTGAAAC
* ***
15891493 ATGAAAATTTAAAAAAC
1 ACGAAAATTTTTGAAAC
*
15891510 ACGACAATTTTTGAAAC
1 ACGAAAATTTTTGAAAC
* ***
15891527 ATGAAAATTTAAAAAAC
1 ACGAAAATTTTTGAAAC
*
15891544 ACGACAATTTTTGAAAC
1 ACGAAAATTTTTGAAAC
* *
15891561 ACGAGAATTTTTTTTAAAAC
1 ACGA-AA--ATTTTTGAAAC
** *
15891581 ATAAAAATTTTTAAAAC
1 ACGAAAATTTTTGAAAC
* *
15891598 ATGAAAATTTGTGAAAC
1 ACGAAAATTTTTGAAAC
* *
15891615 ACGAGAATTGTTGAAAAC
1 ACGAAAATTTTTG-AAAC
*
15891633 ACGAAAATTTTTTAAAC
1 ACGAAAATTTTTGAAAC
* *
15891650 ACGGAAACTTTTAGAAAAC
1 AC-GAAAATTTTTG-AAAC
15891669 ACGAAAATTTTTGAAAAC
1 ACGAAAATTTTTG-AAAC
15891687 ACGAAAATTTTTAGAAAC
1 ACGAAAATTTTT-GAAAC
* *
15891705 ATGAAAATTTTTAAAAC
1 ACGAAAATTTTTGAAAC
*
15891722 ACGACAATTTTTGAAAC
1 ACGAAAATTTTTGAAAC
* * *
15891739 AGGAGAATTTTTTCAAAAC
1 ACGA-AAATTTTT-GAAAC
* *
15891758 ACAAAAATTTTTAAAAC
1 ACGAAAATTTTTGAAAC
*
15891775 ACGAAAATTTGTGAAAC
1 ACGAAAATTTTTGAAAC
*
15891792 ACTGAAATTTTTTGAAAC
1 AC-GAAAATTTTTGAAAC
*
15891810 ATGAAAATTTTTGAAAC
1 ACGAAAATTTTTGAAAC
*
15891827 ACGGAAATTTTTAGAAAAC
1 ACGAAAATTTTT-G-AAAC
*
15891846 ACGAAAATTTTTTAAAATC
1 ACGAAAA-TTTTTGAAA-C
*
15891865 ACTG-GAATTTTTGGAAAC
1 AC-GAAAATTTTT-GAAAC
* *
15891883 ACGAAGATTTTTGAAAAA
1 ACGAAAATTTTTG-AAAC
* * * *
15891901 ATGAAGATTTTTTAAAT
1 ACGAAAATTTTTGAAAC
*
15891918 GC-AAGAATTTTTCGAAAAC
1 ACGAA-AATTTTT-G-AAAC
*
15891937 ACGAAAAATTTTTTTAAA-
1 ACG-AAAA-TTTTTGAAAC
* * *
15891955 ATGGAATTTTTTGAAAAC
1 ACGAAAATTTTTG-AAAC
*
15891973 ACGAGAATTTTTGAAAAC
1 ACGAAAATTTTTG-AAAC
*
15891991 ATGAAAATTTTTGAAAC
1 ACGAAAATTTTTGAAAC
15892008 A
1 A
15892009 TCGGAATTTT
Statistics
Matches: 431, Mismatches: 93, Indels: 54
0.75 0.16 0.09
Matches are distributed among these distances:
16 7 0.02
17 193 0.45
18 165 0.38
19 40 0.09
20 19 0.04
21 7 0.02
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (17 bp):
ACGAAAATTTTTGAAAC
Done.