Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 68 of 129
Found at i:12953744 original size:56 final size:55
Alignment explanation
Indices: 12953670--12953992 Score: 232
Period size: 56 Copynumber: 5.8 Consensus size: 55
12953660 AAAAGCTTGA
* * * *
12953670 TTTTAAGGAAAATTTGATATTTCAATTTTTTCTTCAAATTTTGCATTGCTGTTTTG
1 TTTTAAGAAAAAATTGATATTTCAACTTTTTCTTCAAATTTTGAATTGCT-TTTTG
** * *
12953726 TTTTAAGAAAAAATTGATATTTGTA-TTTTCTTTCTCAAATTTTGAAAATGC---TT-
1 TTTTAAGAAAAAATTGATATTTCAACTTTT-TCT-TCAAATTTTG-AATTGCTTTTTG
* * * * * * *
12953779 TTTTAAGGAAAACTTAATATTACAATTTTTTTCTCCAATTTTTTGAATTGC-TTTTG
1 TTTTAAGAAAAAATTGATATTTCAA-CTTTTTCTTCAA-ATTTTGAATTGCTTTTTG
* *
12953835 -TTTAAAAAAAAATTGATATTTCAACTTTTTCCTCAAATTTTGAAATTG-TTTTTG
1 TTTTAAGAAAAAATTGATATTTCAACTTTTTCTTCAAATTTTG-AATTGCTTTTTG
** ** * * *
12953889 TTTTTAAGGGAATTTTGATATTTCAACTTTTTCCTCAAATTTTGAACTT-ATTTTTA
1 -TTTTAAGAAAAAATTGATATTTCAACTTTTTCTTCAAATTTTGAA-TTGCTTTTTG
* * *
12953945 TTCTAAAGAAAAAAAATTTATATTTCAACTTTTTCTTTAAATTTTGAA
1 TT-TTAAG--AAAAAATTGATATTTCAACTTTTTCTTCAAATTTTGAA
12953993 AAACTTCCAT
Statistics
Matches: 209, Mismatches: 40, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
53 32 0.15
54 28 0.13
55 33 0.16
56 71 0.34
57 10 0.05
58 35 0.17
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (55 bp):
TTTTAAGAAAAAATTGATATTTCAACTTTTTCTTCAAATTTTGAATTGCTTTTTG
Found at i:12953834 original size:109 final size:105
Alignment explanation
Indices: 12953670--12953887 Score: 267
Period size: 109 Copynumber: 2.0 Consensus size: 105
12953660 AAAAGCTTGA
* * * * * *
12953670 TTTTAAGGAAAATTTGATATTTCAATTTTTTCTTCAAATTTTGCATTGCTGTTTTGTTTTAAGAA
1 TTTTAAGGAAAACTTAATATTACAATTTTTTCTCCAAATTTTGAATTGC-GTTTTG-TTTAAAAA
** * *
12953735 AAAATTGATATTTGTATTTTCTTTCTCAAATTTTGAAAATGCTT
64 AAAATTGATATTTCAACTTT-TTCCTCAAATTTTGAAAATG-TT
*
12953779 TTTTAAGGAAAACTTAATATTACAATTTTTTTCTCCAATTTTTTGAATTGC-TTTTGTTTAAAAA
1 TTTTAAGGAAAACTTAATATTACAA-TTTTTTCTCCAA-ATTTTGAATTGCGTTTTGTTTAAAAA
*
12953843 AAAATTGATATTTCAACTTTTTCCTCAAATTTTGAAATTGTT
64 AAAATTGATATTTCAACTTTTTCCTCAAATTTTGAAAATGTT
12953885 TTT
1 TTT
12953888 GTTTTTAAGG
Statistics
Matches: 95, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
106 5 0.05
107 18 0.19
108 24 0.25
109 27 0.28
110 11 0.12
111 10 0.11
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (105 bp):
TTTTAAGGAAAACTTAATATTACAATTTTTTCTCCAAATTTTGAATTGCGTTTTGTTTAAAAAAA
AATTGATATTTCAACTTTTTCCTCAAATTTTGAAAATGTT
Found at i:12954052 original size:4 final size:4
Alignment explanation
Indices: 12954043--12954087 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
12954033 ATATGACCAG
* *
12954043 ATAA ATAA ATAA A-AA ATAA A-GA ATAA A-AA ACAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
12954088 CCAAAATTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
3 8 0.23
4 27 0.77
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (4 bp):
ATAA
Found at i:12954067 original size:18 final size:18
Alignment explanation
Indices: 12954046--12954080 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12954036 TGACCAGATA
12954046 AATAAATAAA-AAATAAAG
1 AATAAA-AAACAAATAAAG
12954064 AATAAAAAACAAATAAA
1 AATAAAAAACAAATAAA
12954081 TAAATAACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (18 bp):
AATAAAAAACAAATAAAG
Found at i:12954169 original size:19 final size:19
Alignment explanation
Indices: 12954128--12954171 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
12954118 TAGCTCGGTC
* * *
12954128 AACAATCAACGACTCAATC
1 AACAACCAACAACTCAATA
*
12954147 AACAACCAACAACTCCATA
1 AACAACCAACAACTCAATA
12954166 AACAAC
1 AACAAC
12954172 TTGGCTCAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.34, G:0.02, T:0.11
Consensus pattern (19 bp):
AACAACCAACAACTCAATA
Found at i:12956154 original size:16 final size:17
Alignment explanation
Indices: 12956135--12956183 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
12956125 TTTATTTTTC
*
12956135 TTTCATTTTTC-TCATT
1 TTTCATTTTTCATCAAT
12956151 TTTCATCTTTTTCATCAAT
1 TTTCA--TTTTTCATCAAT
*
12956170 TTTCATTTATCATC
1 TTTCATTTTTCATC
12956184 TTTATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 5 0.18
17 8 0.29
18 6 0.21
19 9 0.32
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTCATTTTTCATCAAT
Found at i:12956172 original size:10 final size:10
Alignment explanation
Indices: 12956137--12956175 Score: 55
Period size: 9 Copynumber: 4.1 Consensus size: 10
12956127 TATTTTTCTT
12956137 TCATTTTTC-
1 TCATTTTTCA
12956146 TCATTTTTCA
1 TCATTTTTCA
12956156 TC-TTTTTCA
1 TCATTTTTCA
*
12956165 TCAATTTTCA
1 TCATTTTTCA
12956175 T
1 T
12956176 TTATCATCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 18 0.67
10 9 0.33
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (10 bp):
TCATTTTTCA
Found at i:12958146 original size:23 final size:24
Alignment explanation
Indices: 12958117--12958175 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
12958107 CCATCAATAA
*
12958117 AATCCATTGGTAAAA-GTGTTGGT
1 AATCCATTGGTAAAATCTGTTGGT
*
12958140 AATCCATTGATAAAATCTGTTGGT
1 AATCCATTGGTAAAATCTGTTGGT
**
12958164 AATTTATTGGTA
1 AATCCATTGGTA
12958176 TTCTATTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (24 bp):
AATCCATTGGTAAAATCTGTTGGT
Found at i:12958165 original size:24 final size:23
Alignment explanation
Indices: 12958117--12958166 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
12958107 CCATCAATAA
* *
12958117 AATCCATTGGTAAAAGTGTTGGT
1 AATCCATTGATAAAACTGTTGGT
12958140 AATCCATTGATAAAATCTGTTGGT
1 AATCCATTGATAAAA-CTGTTGGT
12958164 AAT
1 AAT
12958167 TTATTGGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (23 bp):
AATCCATTGATAAAACTGTTGGT
Found at i:12965321 original size:24 final size:25
Alignment explanation
Indices: 12965279--12965347 Score: 95
Period size: 24 Copynumber: 2.8 Consensus size: 25
12965269 AGTAAAATAA
* * *
12965279 AAATAAAAATAATGGTAAATAAGAT
1 AAATCAAAATAAAGATAAATAAGAT
12965304 AAATC-AAATAAAGATAAATAAGAT
1 AAATCAAAATAAAGATAAATAAGAT
12965328 AAATCTAAAATAAAGATAAA
1 AAATC-AAAATAAAGATAAA
12965348 ACAATATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 22 0.56
25 4 0.10
26 13 0.33
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.22
Consensus pattern (25 bp):
AAATCAAAATAAAGATAAATAAGAT
Found at i:12965346 original size:6 final size:5
Alignment explanation
Indices: 12965253--12965374 Score: 52
Period size: 5 Copynumber: 23.2 Consensus size: 5
12965243 AAGGATAAAC
* * * *
12965253 AATAA AGATAA AACAA AGTAA AATAAA AATAA AA-AT AATGGTA AATAA
1 AATAA A-ATAA AATAA AATAA AAT-AA AATAA AATAA AAT--AA AATAA
* * * *
12965301 GAT-A AATCA AATAA AGAT-A AATAA GATAA ATCTAA AATAA AGATAA
1 AATAA AATAA AATAA A-ATAA AATAA AATAA A-ATAA AATAA A-ATAA
* *
12965347 AACAA TATAA ATATAA ATATAA AATAA A
1 AATAA AATAA A-ATAA A-ATAA AATAA A
12965375 GATGCATAAT
Statistics
Matches: 87, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
4 8 0.09
5 44 0.51
6 32 0.37
7 3 0.03
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:12965364 original size:42 final size:41
Alignment explanation
Indices: 12965253--12965373 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 41
12965243 AAGGATAAAC
* *
12965253 AATAAAGATAAAACAAAGTAAAATAAAAATAAAAATAATGGTA
1 AATAAAGATAAAACAAA-T-AAATATAAATAAAAATAATGCTA
* * *
12965296 AAT-AAGATAAATCAAATAAAGATAAAT-AAGATAAAT-CTAA
1 AATAAAGATAAAACAAATAAATATAAATAAAAAT-AATGCT-A
12965336 AATAAAGATAAAACAATATAAATATAAATATAAAATAA
1 AATAAAGATAAAACAA-ATAAATATAAATA-AAAATAA
12965374 AGATGCATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
39 5 0.08
40 15 0.23
41 12 0.19
42 23 0.36
43 5 0.08
44 4 0.06
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (41 bp):
AATAAAGATAAAACAAATAAATATAAATAAAAATAATGCTA
Found at i:12965367 original size:12 final size:11
Alignment explanation
Indices: 12965321--12965374 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
12965311 ATAAAGATAA
*
12965321 ATAAGATAAAT
1 ATAAAATAAAT
* *
12965332 CTAAAATAAAG
1 ATAAAATAAAT
*
12965343 ATAAAA-CAAT
1 ATAAAATAAAT
12965353 ATAAATATAAAT
1 ATAAA-ATAAAT
12965365 ATAAAATAAA
1 ATAAAATAAA
12965375 GATGCATAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.56
12 8 0.24
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (11 bp):
ATAAAATAAAT
Found at i:12965452 original size:15 final size:16
Alignment explanation
Indices: 12965429--12965462 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
12965419 ACATAAACAC
12965429 AAAAAATAAAT-AATT
1 AAAAAATAAATAAATT
*
12965444 AAAACATAAATAAATT
1 AAAAAATAAATAAATT
12965460 AAA
1 AAA
12965463 TATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAATAAATAAATT
Found at i:12966411 original size:99 final size:102
Alignment explanation
Indices: 12966285--12966497 Score: 333
Period size: 99 Copynumber: 2.1 Consensus size: 102
12966275 ATAATTTTTT
* *
12966285 TAATAATAATAAAATTTTCAATCCTACCAAACTATTGAAGAATTTAAATCTTGAATTAAGTTTTA
1 TAATAATAATAAAATTTTCAATCCTACCAAACTATTGAAGAATTTAAATCTTAAATTAAGTCTTA
* * *
12966350 CCAAACTATT-GAGGACTTAATGAA-TTTTT-TAAAA
66 CAAAAATATTAGAAGACTTAATGAATTTTTTGTAAAA
* * *
12966384 TAATAATAATAAAATTTTTAATTCTACCAAACTATTGAAGGATTTAAATCTTAAATTAAGTCTTA
1 TAATAATAATAAAATTTTCAATCCTACCAAACTATTGAAGAATTTAAATCTTAAATTAAGTCTTA
12966449 CAAAAATATTAGAAGACTTAATGAATTTTTTGTAAAA
66 CAAAAATATTAGAAGACTTAATGAATTTTTTGTAAAA
12966486 TAATAATAATAA
1 TAATAATAATAA
12966498 TAATAATAAA
Statistics
Matches: 103, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
99 68 0.66
100 13 0.13
101 5 0.05
102 17 0.17
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.38
Consensus pattern (102 bp):
TAATAATAATAAAATTTTCAATCCTACCAAACTATTGAAGAATTTAAATCTTAAATTAAGTCTTA
CAAAAATATTAGAAGACTTAATGAATTTTTTGTAAAA
Found at i:12966581 original size:111 final size:111
Alignment explanation
Indices: 12966382--12966588 Score: 294
Period size: 111 Copynumber: 1.9 Consensus size: 111
12966372 AATTTTTTAA
* * *
12966382 AATAATAATAATAAAATTTTTAATTCTACCAAACTATTGAAGGATTTAAATCTTAAATTAAGTCT
1 AATAATAATAATAAAATTTTCAATCCTACCAAACTATTGAAGGATTTAAATATTAAATTAAGTCT
*
12966447 TACAAAAATATTAGAAGACTTAATGAATTTTTTGTAAAATAATAAT
66 TACAAAAATATTAAAAGACTTAATGAATTTTTTGTAAAATAATAAT
* *
12966493 AATAATAATAATAAAATTTTCAATCCTACCAAACTATTGGAGGATTTAAATATTGAATT-AGATC
1 AATAATAATAATAAAATTTTCAATCCTACCAAACTATTGAAGGATTTAAATATTAAATTAAG-TC
* *
12966557 TTATC-AAACTATTAAAA-AGTTTAATGAATTTT
65 TTA-CAAAAATATTAAAAGA-CTTAATGAATTTT
12966589 CTTAAAAAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
110 3 0.04
111 81 0.95
112 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (111 bp):
AATAATAATAATAAAATTTTCAATCCTACCAAACTATTGAAGGATTTAAATATTAAATTAAGTCT
TACAAAAATATTAAAAGACTTAATGAATTTTTTGTAAAATAATAAT
Found at i:12972671 original size:10 final size:11
Alignment explanation
Indices: 12972651--12972676 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12972641 CATGAGTTGC
12972651 AAAAACAAAAA
1 AAAAACAAAAA
12972662 AAAAACAAAAA
1 AAAAACAAAAA
12972673 AAAA
1 AAAA
12972677 GAGTTGATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:12973055 original size:13 final size:14
Alignment explanation
Indices: 12973037--12973066 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
12973027 GAATTCATGC
12973037 AAAAAAAAAAG-GA
1 AAAAAAAAAAGAGA
12973050 AAAAAAAAAAGAGA
1 AAAAAAAAAAGAGA
12973064 AAA
1 AAA
12973067 GAGAAAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAGA
Found at i:12974797 original size:168 final size:168
Alignment explanation
Indices: 12974511--12974843 Score: 398
Period size: 168 Copynumber: 2.0 Consensus size: 168
12974501 CTTCAAATGT
* *
12974511 AATCTCTAAGTCATCCGAGCAAAATTCATAAGTCTTCTGAGCTGAATCTATTTTAGAGTCAAGAT
1 AATCTCTAAGTCATCCGAGCAAAATTCATAAGTCTTCTAAGCTGAATCTATTTTAAAGTCAAGAT
* * * * *
12974576 TTATAAGACCTTTAAATATAATCTCTAAATCCTTCAAGTAAGATTTATAAATC-TTCTGAGTTAA
66 TTATAAGACCTCTAAACATAATCTCTAAATCATTCAAGCAAGATTCATAAATCTTTC-GAGTTAA
12974640 ATCTATTATAGAGTCAAGATTTATAAAACCTCTAGAAGC
130 ATCTATTATAGAGTCAAGATTTATAAAACCTCTAGAAGC
* * * * * * * **
12974679 AATCTTTAAGTCATTCGGGTAAGATTCATAAGTTTTTTAAGCTGAATCTATTTTAAAGTTGAGAT
1 AATCTCTAAGTCATCCGAGCAAAATTCATAAGTCTTCTAAGCTGAATCTATTTTAAAGTCAAGAT
* * * * ** * *
12974744 TTATAAGACCTCTGAGCATACTCTCTAAGTCATTCGGGCAAGATTCGTAAATCTTTCGAGTTGAA
66 TTATAAGACCTCTAAACATAATCTCTAAATCATTCAAGCAAGATTCATAAATCTTTCGAGTTAAA
* * * *
12974809 TCTATTTTAGAGTCAAGATTTGTAAGACTTCTAGA
131 TCTATTATAGAGTCAAGATTTATAAAACCTCTAGA
12974844 CATAATCTCT
Statistics
Matches: 136, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
168 133 0.98
169 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (168 bp):
AATCTCTAAGTCATCCGAGCAAAATTCATAAGTCTTCTAAGCTGAATCTATTTTAAAGTCAAGAT
TTATAAGACCTCTAAACATAATCTCTAAATCATTCAAGCAAGATTCATAAATCTTTCGAGTTAAA
TCTATTATAGAGTCAAGATTTATAAAACCTCTAGAAGC
Found at i:12974853 original size:84 final size:84
Alignment explanation
Indices: 12974510--12974855 Score: 356
Period size: 84 Copynumber: 4.1 Consensus size: 84
12974500 CCTTCAAATG
* * *
12974510 TAATCTCTAAGTCATCCGAGCAAAATTCATAAGTCTTCTGAGCTGAATCTATTTTAGAGTCAAGA
1 TAATCTCTAAGTCATTCGAGCAAGATTCATAAATCTTCTGAGCTGAATCTATTTTAGAGTCAAGA
* * *
12974575 TTTATAAGACCTTTAAATA
66 TTTATAAGACCTCTAGACA
* * * * * * * *
12974594 TAATCTCTAAATCCTTCAAGTAAGATTTATAAATCTTCTGAGTTAAATCTATTATAGAGTCAAGA
1 TAATCTCTAAGTCATTCGAGCAAGATTCATAAATCTTCTGAGCTGAATCTATTTTAGAGTCAAGA
*
12974659 TTTATAAAACCTCTAGA-A
66 TTTATAAGACCTCTAGACA
* * * * * * * * * **
12974677 GCAATCTTTAAGTCATTCGGGTAAGATTCATAAGTTTTTTAAGCTGAATCTATTTTAAAGTTGAG
1 -TAATCTCTAAGTCATTCGAGCAAGATTCATAAATCTTCTGAGCTGAATCTATTTTAGAGTCAAG
12974742 ATTTATAAGACCTCT-GAGCA
65 ATTTATAAGACCTCTAGA-CA
* * * *
12974762 TACTCTCTAAGTCATTCGGGCAAGATTCGTAAATCTT-TCGAGTTGAATCTATTTTAGAGTCAAG
1 TAATCTCTAAGTCATTCGAGCAAGATTCATAAATCTTCT-GAGCTGAATCTATTTTAGAGTCAAG
* *
12974826 ATTTGTAAGACTTCTAGACA
65 ATTTATAAGACCTCTAGACA
12974846 TAATCTCTAA
1 TAATCTCTAA
12974856 TACCTCTATG
Statistics
Matches: 210, Mismatches: 47, Indels: 10
0.79 0.18 0.04
Matches are distributed among these distances:
83 4 0.02
84 203 0.97
85 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.36
Consensus pattern (84 bp):
TAATCTCTAAGTCATTCGAGCAAGATTCATAAATCTTCTGAGCTGAATCTATTTTAGAGTCAAGA
TTTATAAGACCTCTAGACA
Found at i:12977827 original size:5 final size:4
Alignment explanation
Indices: 12977767--12977931 Score: 88
Period size: 4 Copynumber: 39.5 Consensus size: 4
12977757 GTAGGCTCAT
* * *
12977767 TTTA TTTTA TTTTT TTTA TTTT TTGTA TTTA TATA TTT- TTTA TTTTA
1 TTTA -TTTA -TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA -TTTA
*
12977814 TTTA TTTA TCTTA TGTA TTTA -TTA TTTA TTTA -TTA TTACTA TTTA TTAATA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TT--TA
* * * * *
12977865 TATA TTTT TTTA -TTA TTTA TCTA TTTA TATA TTATAA TTTA TCTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-T-A TTTA TTTA TTTA
* *
12977913 TTATT TTTA TTTA TCTA TT
1 TT-TA TTTA TTTA TTTA TT
12977932 AATATTTTTG
Statistics
Matches: 123, Mismatches: 22, Indels: 31
0.70 0.12 0.18
Matches are distributed among these distances:
3 14 0.11
4 75 0.61
5 24 0.20
6 10 0.08
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:12977831 original size:37 final size:37
Alignment explanation
Indices: 12977766--12977924 Score: 112
Period size: 37 Copynumber: 4.2 Consensus size: 37
12977756 GGTAGGCTCA
* * *
12977766 TTTTATTTTATTTTTTTTATTTTTTGTATTTATATATT
1 TTTTATTTTATTTTATTTATCTTATGTATTTAT-TATT
12977804 TTTTATTTTA-TTTATTTATCTTATGTATTTATTATT
1 TTTTATTTTATTTTATTTATCTTATGTATTTATTATT
* * * *
12977840 TATTTATTATTACTATTTATTAATATATATTTTTTTATTATT
1 T-TTTATT-TTA-T-TTTATTTATCT-TATGTATTTATTATT
* * * *
12977882 TATCTATTTATATATTA-TAAT-TTATCTA-TTATTA-T
1 T-TTTATTT-TATTTTATTTATCTTATGTATTTATTATT
12977917 TTTTATTT
1 TTTTATTT
12977925 ATCTATTAAT
Statistics
Matches: 102, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
34 6 0.06
35 2 0.02
36 11 0.11
37 29 0.28
38 14 0.14
39 4 0.04
40 3 0.03
41 11 0.11
42 22 0.22
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (37 bp):
TTTTATTTTATTTTATTTATCTTATGTATTTATTATT
Found at i:12977872 original size:67 final size:63
Alignment explanation
Indices: 12977796--12977923 Score: 166
Period size: 64 Copynumber: 2.0 Consensus size: 63
12977786 TTTTTGTATT
* * * * *
12977796 TATATATTTTTTATTTTATTTATTTATCTTATGTATTTATTATTTATTTATTATTACTATTTATT
1 TATATATTTTTT-TATTATTTATCTAT-TTATATA-TTATAATTTATCTATTATTA-TATTTATT
12977861 AA
62 AA
*
12977863 TATATATTTTTTTATTATTTATCTATTTATATATTATAATTTATCTATTATTATTTTTATT
1 TATATATTTTTTTATTATTTATCTATTTATATATTATAATTTATCTATTATTATATTTATT
12977924 TATCTATTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
63 7 0.13
64 18 0.33
65 6 0.11
66 12 0.22
67 12 0.22
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (63 bp):
TATATATTTTTTTATTATTTATCTATTTATATATTATAATTTATCTATTATTATATTTATTAA
Found at i:12977923 original size:42 final size:43
Alignment explanation
Indices: 12977877--12977973 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
12977867 TATTTTTTTA
12977877 TTATTTATCTATTTATATATTATAATTTATCT-ATTATTAT-TT
1 TTATTTATCTATTTA-ATATTATAATTTATCTAATTATTATCTT
* ** *
12977919 TTATTTATCTA-TTAATATTTTTGTTTATCTAATTATTTTCTT
1 TTATTTATCTATTTAATATTATAATTTATCTAATTATTATCTT
*
12977961 TTAATTATCTATT
1 TTATTTATCTATT
12977974 AACATTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 13 0.28
41 10 0.21
42 23 0.49
43 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (43 bp):
TTATTTATCTATTTAATATTATAATTTATCTAATTATTATCTT
Found at i:12977924 original size:67 final size:68
Alignment explanation
Indices: 12977796--12977940 Score: 165
Period size: 67 Copynumber: 2.2 Consensus size: 68
12977786 TTTTTGTATT
* * * *
12977796 TATATATTTTTTATTTTATTTATTTATCTTATGTATTTATTATTTATTTATTATTACTATTTAT-
1 TATATATTTTTTATATTATTTATCTATCTTATATATTTATTATCTATTTATTATTACTATTTATC
12977860 TAA
66 TAA
**
12977863 TATATATTTTTT-TATTATTTATCTAT-TTATATATTATAATTTATCTA-TTATTATTTTTATTT
1 TATATATTTTTTATATTATTTATCTATCTTATATATT-T-A-TTATCTATTTATTATTACTATTT
*
12977925 ATCTAT
63 ATCTAA
12977931 TA-ATATTTTT
1 TATATATTTTT
12977941 GTTTATCTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
65 8 0.12
66 13 0.19
67 36 0.54
68 10 0.15
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (68 bp):
TATATATTTTTTATATTATTTATCTATCTTATATATTTATTATCTATTTATTATTACTATTTATC
TAA
Found at i:12977937 original size:14 final size:13
Alignment explanation
Indices: 12977829--12977938 Score: 66
Period size: 14 Copynumber: 8.4 Consensus size: 13
12977819 TTATCTTATG
12977829 TATTTATTATT--
1 TATTTATTATTAA
*
12977840 TATTTATTATTAC
1 TATTTATTATTAA
*
12977853 TATTTATTAATATA
1 TATTTATTATTA-A
*
12977867 TATTT-TT-TTAT
1 TATTTATTATTAA
*
12977878 TATTTATCTATTTA
1 TATTTAT-TATTAA
* *
12977892 TATATTATAATTTA
1 TAT-TTATTATTAA
* **
12977906 TCTATTATTATTTT
1 TAT-TTATTATTAA
12977920 TATTTATCTATTAA
1 TATTTAT-TATTAA
12977934 TATTT
1 TATTT
12977939 TTGTTTATCT
Statistics
Matches: 78, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
11 16 0.21
12 3 0.04
13 18 0.23
14 37 0.47
15 4 0.05
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (13 bp):
TATTTATTATTAA
Found at i:12977974 original size:42 final size:40
Alignment explanation
Indices: 12977902--12977982 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 40
12977892 TATATTATAA
* *
12977902 TTTATCTATTATTATTTTTATTTATCTATTAATATTTTTG
1 TTTATCTATTATTATTTTTAATTATCTATTAACATTTTTG
*
12977942 TTTATCTAATTATTTTCTTTTAATTATCTATTAACATTTTT
1 TTTATCT-ATTATTAT-TTTTAATTATCTATTAACATTTTT
12977983 TATTTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 7 0.19
41 7 0.19
42 22 0.61
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.65
Consensus pattern (40 bp):
TTTATCTATTATTATTTTTAATTATCTATTAACATTTTTG
Found at i:12978910 original size:12 final size:11
Alignment explanation
Indices: 12978889--12978931 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
12978879 TGTTTAATAC
12978889 TTTTATTTTTA
1 TTTTATTTTTA
12978900 TTTTCATTTTTA
1 TTTT-ATTTTTA
*
12978912 TCTTT-TTTTTG
1 T-TTTATTTTTA
12978923 TTTTATTTT
1 TTTTATTTT
12978932 CTTTAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 3 0.11
11 14 0.50
12 8 0.29
13 3 0.11
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:12979017 original size:58 final size:57
Alignment explanation
Indices: 12978955--12979165 Score: 266
Period size: 58 Copynumber: 3.7 Consensus size: 57
12978945 TAAAAAATAT
* *
12978955 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTTCTAAAAA
* * *
12979013 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTT-TCAAAAA
1 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCT-AAAAA
* * * * *
12979070 TAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTCTAAAAA
1 -ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAGTTTCTAAAAA
12979129 ATA-TTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTT
1 ATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTT
12979166 TGTACAAAAG
Statistics
Matches: 134, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
56 3 0.02
57 37 0.28
58 83 0.62
59 10 0.07
60 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (57 bp):
ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCTAAAAA
Found at i:12979049 original size:116 final size:114
Alignment explanation
Indices: 12978928--12979166 Score: 322
Period size: 116 Copynumber: 2.1 Consensus size: 114
12978918 TTTTGTTTTA
*
12978928 TTTTCTTTAAATAAA-ATTAAAAAATATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TTTTCTTTAAATAAATATTAAAAAATA-A-AATTTTAAGGAAAAGTTGAAAGTATCAATTTTCC-
*
12978992 TGAAAA-T-AAGCTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
63 TCAAAATTAAAG-TTTCTAAAAAATA-TTTTGAGAAAAAGTTGAAAGTATCAAT
* * * * *
12979044 TTTTCTTAAAAATAAATTTTCAAAAATAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTC
1 TTTTCTT-TAAATAAATATTAAAAAATAAAATTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTC
*
12979109 AAAATTAAAGTTTCTAAAAAATATTTTGGGAAAAAGTTGAAAGTATCAAT
65 AAAATTAAAGTTTCTAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAAT
*
12979159 TTTCCTTT
1 TTTTCTTT
12979167 GTACAAAAGC
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
115 37 0.34
116 52 0.48
117 11 0.10
118 9 0.08
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.38
Consensus pattern (114 bp):
TTTTCTTTAAATAAATATTAAAAAATAAAATTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCA
AAATTAAAGTTTCTAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAAT
Found at i:12980877 original size:2 final size:2
Alignment explanation
Indices: 12980870--12980894 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12980860 AATACTAACT
12980870 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
12980895 CAAACTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12984338 original size:28 final size:27
Alignment explanation
Indices: 12984306--12984359 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
12984296 AAACAGATTA
* *
12984306 TATATATATATATATAAAGCAAAATATT
1 TATATATAAATAAATAAA-CAAAATATT
*
12984334 TATATATAAATAAATAAATAAAATAT
1 TATATATAAATAAATAAACAAAATAT
12984360 ACGGAGATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
TATATATAAATAAATAAACAAAATATT
Found at i:12986874 original size:20 final size:19
Alignment explanation
Indices: 12986851--12986891 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
12986841 GAATATCATA
12986851 TTAATTAATAAATTAATAAT
1 TTAATTAATAAATTAA-AAT
* *
12986871 TTAATTATTATATTAAAAT
1 TTAATTAATAAATTAAAAT
12986890 TT
1 TT
12986892 TCTAAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAATTAATAAATTAAAAT
Found at i:12994459 original size:16 final size:17
Alignment explanation
Indices: 12994438--12994471 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
12994428 TTTTTTGGTA
12994438 TTTTTTAA-TTTAATTT
1 TTTTTTAATTTTAATTT
12994454 TTTTTTAATTTTAATTT
1 TTTTTTAATTTTAATTT
12994471 T
1 T
12994472 ATGTTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTAATTTTAATTT
Found at i:12994465 original size:23 final size:23
Alignment explanation
Indices: 12994425--12994488 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 23
12994415 AGCCGTTTCC
*
12994425 ATTTTTTTTGGTATTTTTTAATTTA
1 ATTTTTTTT--TAATTTTTAATTTA
*
12994450 ATTTTTTTTTAA-TTTTAATTTT
1 ATTTTTTTTTAATTTTTAATTTA
12994472 ATGTTTTTGTTT-ATTTT
1 AT-TTTTT-TTTAATTTT
12994489 AGGAGTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
22 11 0.32
23 8 0.24
24 6 0.18
25 9 0.26
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (23 bp):
ATTTTTTTTTAATTTTTAATTTA
Found at i:12994489 original size:23 final size:22
Alignment explanation
Indices: 12994440--12994489 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
12994430 TTTTGGTATT
12994440 TTTTAATTTAATTTTTTTTTAA
1 TTTTAATTTAATTTTTTTTTAA
*
12994462 TTTTAATTTTATGTTTTTGTTT-A
1 TTTTAATTTAAT-TTTTT-TTTAA
12994485 TTTTA
1 TTTTA
12994490 GGAGTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 11 0.44
23 11 0.44
24 3 0.12
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTTAATTTAATTTTTTTTTAA
Found at i:12996302 original size:50 final size:49
Alignment explanation
Indices: 12996215--12996314 Score: 121
Period size: 50 Copynumber: 2.0 Consensus size: 49
12996205 ATCACAATAT
* * *
12996215 TATCATATCATTCTATGCATCATTTTCATCCTTATGTTTTAAGATTATCA
1 TATCATATCATTCTATGCATCATTTTCATCATCATG-TTTAACATTATCA
* * *
12996265 TATCATTTCATTCTATGTATCATCTTT-ATGATCATGTTTAACATTATCA
1 TATCATATCATTCTATGCATCAT-TTTCATCATCATGTTTAACATTATCA
12996314 T
1 T
12996315 TTGCATCATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
49 13 0.30
50 27 0.63
51 3 0.07
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (49 bp):
TATCATATCATTCTATGCATCATTTTCATCATCATGTTTAACATTATCA
Found at i:13006428 original size:20 final size:20
Alignment explanation
Indices: 13006403--13006448 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
13006393 TTGCATTTGA
13006403 ATCATTAAGAAAGCACTTGC
1 ATCATTAAGAAAGCACTTGC
13006423 ATCATTAAGAAAGCACTTGC
1 ATCATTAAGAAAGCACTTGC
13006443 ATCATT
1 ATCATT
13006449 GATCATGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (20 bp):
ATCATTAAGAAAGCACTTGC
Found at i:13006952 original size:42 final size:41
Alignment explanation
Indices: 13006893--13007316 Score: 462
Period size: 42 Copynumber: 10.1 Consensus size: 41
13006883 GATTGTCGAG
13006893 GAGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTATTTAGAA
1 GAGCAATTTA-TTTTTCAAAGTTGTGTTGCCTCTATTTAGAA
* *
13006935 GAGCAATTTATTTTTTCAAAGTTCTGTTGCCTCTATTTAGAG
1 GAGCAATTTA-TTTTTCAAAGTTGTGTTGCCTCTATTTAGAA
* * *
13006977 GAGC-ATTTATTTTCCAAAGTTGTGGTTGCCTTTATTTAGAG
1 GAGCAATTTATTTTTCAAAGTTGT-GTTGCCTCTATTTAGAA
* * * *
13007018 GAGCAATTTATTTTTCCAAAGTTTTGTTACCTTTATTTAGAG
1 GAGCAATTTATTTTT-CAAAGTTGTGTTGCCTCTATTTAGAA
* * *
13007060 GAACAATTTATTTTTTCAAAGTTTTGTTGCCTCTATTTAGAG
1 GAGCAATTTA-TTTTTCAAAGTTGTGTTGCCTCTATTTAGAA
* *
13007102 GAGCATTTTATTTTTCAAAGTTATGGTTGCCTCTATTTA-AA
1 GAGCAATTTATTTTTCAAAGTTGT-GTTGCCTCTATTTAGAA
* *
13007143 GAAGCATTTTATCTTTCAAAGTTGTTGTTGCCTCTATTTA-AA
1 G-AGCAATTTATTTTTCAAAGTTG-TGTTGCCTCTATTTAGAA
* * *
13007185 GGAGCATTTTATTCTCCAAAGTTGTGGTTGCCTCTATTTAGAA
1 -GAGCAATTTATTTTTCAAAGTTGT-GTTGCCTCTATTTAGAA
*
13007228 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTA-AA
1 GAGCAATTTATTTTTCAAAGTTGT-GTTGCCTCTATTTAGAA
* * * *
13007269 GGAGCATTTTATTTTTTTCAAAGTCGT-TGAGCCTCTGTTTAGAA
1 -GAGCAATTTA--TTTTTCAAAGTTGTGT-TGCCTCTATTTAGAA
13007313 GAGC
1 GAGC
13007317 TTTGTTTACT
Statistics
Matches: 342, Mismatches: 25, Indels: 29
0.86 0.06 0.07
Matches are distributed among these distances:
40 12 0.04
41 43 0.13
42 241 0.70
43 31 0.09
44 15 0.04
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (41 bp):
GAGCAATTTATTTTTCAAAGTTGTGTTGCCTCTATTTAGAA
Found at i:13007112 original size:84 final size:85
Alignment explanation
Indices: 13006890--13007284 Score: 516
Period size: 84 Copynumber: 4.7 Consensus size: 85
13006880 CATGATTGTC
* * *
13006890 GAGGAGCAATTTATTTTTTCAAAGTTG-TGTTGCCTCTATTTAGAAGAGCAATTTATTTTTTCAA
1 GAGGAGCAATTTA-TTTTTCAAAGTTGTTGTTGCCTCTATTTAGAGGAGCATTTTATTTTTCCAA
*
13006954 AGTTCT-GTTGCCTCTATTTA
65 AGTTATGGTTGCCTCTATTTA
* * * *
13006974 GAGGAGC-ATTTATTTTCCAAAGTTGTGGTTGCCTTTATTTAGAGGAGCAATTTATTTTTCCAAA
1 GAGGAGCAATTTATTTTTCAAAGTTGTTGTTGCCTCTATTTAGAGGAGCATTTTATTTTTCCAAA
* * *
13007038 GTT-TTGTTACCTTTATTTA
66 GTTATGGTTGCCTCTATTTA
*
13007057 GAGGAACAATTTATTTTTTCAAAGTT-TTGTTGCCTCTATTTAGAGGAGCATTTTATTTTT-CAA
1 GAGGAGCAATTTA-TTTTTCAAAGTTGTTGTTGCCTCTATTTAGAGGAGCATTTTATTTTTCCAA
13007120 AGTTATGGTTGCCTCTATTTA
65 AGTTATGGTTGCCTCTATTTA
* * * * * *
13007141 AAGAAGCATTTTATCTTTCAAAGTTGTTGTTGCCTCTATTTAAAGGAGCATTTTA-TTCTCCAAA
1 GAGGAGCAATTTATTTTTCAAAGTTGTTGTTGCCTCTATTTAGAGGAGCATTTTATTTTTCCAAA
*
13007205 GTTGTGGTTGCCTCTATTTA
66 GTTATGGTTGCCTCTATTTA
* * * *
13007225 GAAGAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAAAGGAGCATTTTATTTTT
1 GAGGAGCAATTTATTTTTCAAAGTTGTTGTTGCCTCTATTTAGAGGAGCATTTTATTTTT
13007285 TTCAAAGTCG
Statistics
Matches: 274, Mismatches: 29, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
82 13 0.05
83 81 0.30
84 166 0.61
85 14 0.05
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (85 bp):
GAGGAGCAATTTATTTTTCAAAGTTGTTGTTGCCTCTATTTAGAGGAGCATTTTATTTTTCCAAA
GTTATGGTTGCCTCTATTTA
Found at i:13007196 original size:126 final size:126
Alignment explanation
Indices: 13006891--13007280 Score: 538
Period size: 126 Copynumber: 3.1 Consensus size: 126
13006881 ATGATTGTCG
* *
13006891 AGGAGCAATTTATTTTTTCAAAGTTG-TGTTGCCTCTATTTAGAA-GAGCAATTTATTTTTTCAA
1 AGGAGCATTTTA-TCTTTCAAAGTTGTTGTTGCCTCTATTTA-AAGGAGCAATTTATTTTTTCAA
* * * *
13006954 AGTTCTGTTGCCTCTATTTAGAGGAGCA-TTTATTTTCCAAAGTTGTGGTTGCCTTTATTTAG
64 AGTTTTGTTGCCTCTATTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAA
* * * * * *
13007016 AGGAGCAATTTATTTTTCCAAAGTT-TTGTTACCTTTATTTAGAGGAACAATTTATTTTTTCAAA
1 AGGAGCATTTTATCTTT-CAAAGTTGTTGTTGCCTCTATTTAAAGGAGCAATTTATTTTTTCAAA
*
13007080 GTTTTGTTGCCTCTATTTAGAGGAGCATTTTATTTTTCAAAGTTATGGTTGCCTCTATTTAA
65 GTTTTGTTGCCTCTATTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAA
* * * *
13007142 AGAAGCATTTTATCTTTCAAAGTTGTTGTTGCCTCTATTTAAAGGAGCATTTTA-TTCTCCAAAG
1 AGGAGCATTTTATCTTTCAAAGTTGTTGTTGCCTCTATTTAAAGGAGCAATTTATTTTTTCAAAG
* *
13007206 TTGTGGTTGCCTCTATTTAGAAGAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAA
66 TT-TTGTTGCCTCTATTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAA
13007268 AGGAGCATTTTAT
1 AGGAGCATTTTAT
13007281 TTTTTTCAAA
Statistics
Matches: 236, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
124 6 0.03
125 94 0.40
126 136 0.58
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (126 bp):
AGGAGCATTTTATCTTTCAAAGTTGTTGTTGCCTCTATTTAAAGGAGCAATTTATTTTTTCAAAG
TTTTGTTGCCTCTATTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAA
Found at i:13007770 original size:21 final size:22
Alignment explanation
Indices: 13007728--13007773 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
13007718 GGGTTTTGGA
13007728 TTGTAGAAATAGTTTTAGATTT
1 TTGTAGAAATAGTTTTAGATTT
*
13007750 TTGTAGGAAT-GTTTT-GAATTT
1 TTGTAGAAATAGTTTTAG-ATTT
13007771 TTG
1 TTG
13007774 GCAATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 12 0.55
22 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (22 bp):
TTGTAGAAATAGTTTTAGATTT
Found at i:13019450 original size:2 final size:2
Alignment explanation
Indices: 13019443--13019484 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13019433 ACACTTTTCT
13019443 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13019485 ATTGAGAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13020435 original size:27 final size:27
Alignment explanation
Indices: 13020396--13020449 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
13020386 TGTAAGTAAA
*
13020396 TTTGACAACTTTTTATATAATTTTGAT
1 TTTGACAACTTTTTATAAAATTTTGAT
* *
13020423 TTTGATAATTTTTTATAAAATTTTGAT
1 TTTGACAACTTTTTATAAAATTTTGAT
13020450 AACCTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.57
Consensus pattern (27 bp):
TTTGACAACTTTTTATAAAATTTTGAT
Found at i:13020465 original size:21 final size:21
Alignment explanation
Indices: 13020421--13020476 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
13020411 TATAATTTTG
** *
13020421 ATTTTGATAATTTTTTATAAA
1 ATTTTGATAACCTTTGATAAA
*
13020442 ATTTTGATAACCTTTGATACA
1 ATTTTGATAACCTTTGATAAA
*
13020463 ATTTTGGTAACCTT
1 ATTTTGATAACCTT
13020477 CAATATTAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (21 bp):
ATTTTGATAACCTTTGATAAA
Found at i:13020522 original size:21 final size:22
Alignment explanation
Indices: 13020498--13020556 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
13020488 TGGTAATTTG
*
13020498 TGATATAATTTCAGTAA-CTAT
1 TGATATAATTTTAGTAATCTAT
* * *
13020519 TGATAAAATTTTAATAATCTCT
1 TGATATAATTTTAGTAATCTAT
*
13020541 TTATATAATTTTAGTA
1 TGATATAATTTTAGTA
13020557 GTTAATCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (22 bp):
TGATATAATTTTAGTAATCTAT
Found at i:13020904 original size:22 final size:22
Alignment explanation
Indices: 13020879--13020922 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13020869 GTTATCATTA
* * *
13020879 ATTTACTATTATGTTATTAATG
1 ATTTACTACTATGCTATCAATG
13020901 ATTTACTACTATGCTATCAATG
1 ATTTACTACTATGCTATCAATG
13020923 GTACATTGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (22 bp):
ATTTACTACTATGCTATCAATG
Found at i:13020960 original size:22 final size:22
Alignment explanation
Indices: 13020932--13021093 Score: 100
Period size: 22 Copynumber: 7.4 Consensus size: 22
13020922 GGTACATTGC
* *
13020932 TAAATTATGAACGATTTATTAT
1 TAAATTATGAATGATTTACTAT
*
13020954 TAAATTA-GCATTGATTTACTAT
1 TAAATTATG-AATGATTTACTAT
* * *
13020976 TAATTTATAAATGATTTATTAT
1 TAAATTATGAATGATTTACTAT
* * *
13020998 TAAGTCATGAATGATTTACTAC
1 TAAATTATGAATGATTTACTAT
* * *
13021020 TAAATTGTTG-ATGATATACTAC
1 TAAATT-ATGAATGATTTACTAT
**
13021042 TAAATTAATG-ATGATTTGTTA-
1 TAAATT-ATGAATGATTTACTAT
*
13021063 TAAAGTTAT-AATTGATTTGCTAT
1 TAAA-TTATGAA-TGATTTACTAT
*
13021086 TAATTTAT
1 TAAATTAT
13021094 TGATATTTTA
Statistics
Matches: 110, Mismatches: 23, Indels: 14
0.75 0.16 0.10
Matches are distributed among these distances:
21 8 0.07
22 97 0.88
23 5 0.05
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (22 bp):
TAAATTATGAATGATTTACTAT
Found at i:13021262 original size:22 final size:22
Alignment explanation
Indices: 13020944--13021263 Score: 97
Period size: 22 Copynumber: 14.4 Consensus size: 22
13020934 AATTATGAAC
* *
13020944 GATTTATTATTAAATTAGCATT
1 GATTTACTATTAAATTATCATT
* * *
13020966 GATTTACTATTAATTTATAAAT
1 GATTTACTATTAAATTATCATT
* * * * *
13020988 GATTTATTATTAAGTCATGAAT
1 GATTTACTATTAAATTATCATT
* * *
13021010 GATTTACTACTAAATTGTTGA-T
1 GATTTACTATTAAATT-ATCATT
* * *
13021032 GATATACTACTAAATTAATGA-T
1 GATTTACTATTAAATT-ATCATT
** *
13021054 GATTTGTTA-TAAAGTTATAATT
1 GATTTACTATTAAA-TTATCATT
*
13021076 GATTTGCTATT-AATT-T-ATT
1 GATTTACTATTAAATTATCATT
*
13021095 GATATTTTACT-TCAAAGTTATCATTAACT
1 G--A-TTTACTATTAAA-TTATCA-T---T
* * * *
13021124 AATTTATTACTAAATTATAATT
1 GATTTACTATTAAATTATCATT
* * *
13021146 GATTTACAATTAATTTATTAATT
1 GATTTACTATTAAATTA-TCATT
* * *
13021169 -ATTAATTACTAAATTATC-TGT
1 GATTTACTATTAAATTATCAT-T
* *
13021190 AATTTA-TATCTTAATTATCATT
1 GATTTACTAT-TAAATTATCATT
* *
13021212 GATTTA-TAATTATATTATTA-T
1 GATTTACT-ATTAAATTATCATT
13021233 GCATTTACTATTAAATTATCATT
1 G-ATTTACTATTAAATTATCATT
13021256 GATTTACT
1 GATTTACT
13021264 GCTTAGTTTT
Statistics
Matches: 224, Mismatches: 49, Indels: 50
0.69 0.15 0.15
Matches are distributed among these distances:
19 4 0.02
20 2 0.01
21 17 0.08
22 165 0.74
23 17 0.08
24 1 0.00
25 2 0.01
26 11 0.05
27 4 0.02
29 1 0.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (22 bp):
GATTTACTATTAAATTATCATT
Found at i:13021558 original size:44 final size:44
Alignment explanation
Indices: 13021510--13021596 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
13021500 ATTGAAACTT
* *
13021510 ATTTATTATTAAGATATCACTAATTTACTACTAAGTTATCATTA
1 ATTTATTATTAAGATATCAATAATTAACTACTAAGTTATCATTA
* * * * *
13021554 ATTTATTTTTAAGTTATTAATGATTAACTATTAAGTTATCATT
1 ATTTATTATTAAGATATCAATAATTAACTACTAAGTTATCATT
13021597 TTTTTTATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (44 bp):
ATTTATTATTAAGATATCAATAATTAACTACTAAGTTATCATTA
Found at i:13021567 original size:22 final size:22
Alignment explanation
Indices: 13021510--13021594 Score: 80
Period size: 22 Copynumber: 3.9 Consensus size: 22
13021500 ATTGAAACTT
*
13021510 ATTTATTATTAAGATATCACTA
1 ATTTATTATTAAGTTATCACTA
* * *
13021532 ATTTACTACTAAGTTATCATTA
1 ATTTATTATTAAGTTATCACTA
* * * *
13021554 ATTTATTTTTAAGTTATTAATG
1 ATTTATTATTAAGTTATCACTA
* *
13021576 ATTAACTATTAAGTTATCA
1 ATTTATTATTAAGTTATCA
13021595 TTTTTTTTAT
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (22 bp):
ATTTATTATTAAGTTATCACTA
Found at i:13021924 original size:22 final size:22
Alignment explanation
Indices: 13021894--13021945 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
13021884 TTAAGTTTTC
* *
13021894 AATTTTTTACTACTAAATTATT
1 AATTATTTACTACTAAATTATA
* *
13021916 AATTATTTACTTCTAATTTATA
1 AATTATTTACTACTAAATTATA
*
13021938 AATGATTT
1 AATTATTT
13021946 GCCATTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (22 bp):
AATTATTTACTACTAAATTATA
Found at i:13022106 original size:22 final size:21
Alignment explanation
Indices: 13022080--13022194 Score: 65
Period size: 22 Copynumber: 5.4 Consensus size: 21
13022070 TAATTAACTA
13022080 ATTTACTACTAAATTATTATTG
1 ATTTACTACTAAATTATTA-TG
* *
13022102 ATTTA-TGACTAAGTTATTAATA
1 ATTTACT-ACTAAATTATT-ATG
* ** *
13022124 ATTTACTATTATGTTATTAGAG
1 ATTTACTACTAAATTATTA-TG
* **
13022146 ATTTTCTGGTAAATTATTA--
1 ATTTACTACTAAATTATTATG
* *
13022165 ATTTGCTACTAAATTATTACGG
1 ATTTACTACTAAATTATTA-TG
13022187 ATTTACTA
1 ATTTACTA
13022195 TTATATATCT
Statistics
Matches: 71, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
19 16 0.23
21 2 0.03
22 51 0.72
23 2 0.03
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.48
Consensus pattern (21 bp):
ATTTACTACTAAATTATTATG
Found at i:13022406 original size:22 final size:20
Alignment explanation
Indices: 13022357--13022406 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
13022347 ATTCACTACC
13022357 AAGTTATTACTGATTTATATT
1 AAGTTA-TACTGATTTATATT
*
13022378 AAATTATACATGATTTATTATT
1 AAGTTATAC-TGATTTA-TATT
13022400 AAGTTAT
1 AAGTTAT
13022407 TACTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 12 0.48
22 10 0.40
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (20 bp):
AAGTTATACTGATTTATATT
Found at i:13022421 original size:22 final size:22
Alignment explanation
Indices: 13022357--13022495 Score: 72
Period size: 22 Copynumber: 6.4 Consensus size: 22
13022347 ATTCACTACC
*
13022357 AAGTTATTACTGATTTA-TATT
1 AAGTTATTACTAATTTACTATT
* * *
13022378 AAATTA-TACATGATTTATTATT
1 AAGTTATTAC-TAATTTACTATT
*
13022400 AAGTTATTACTAATTAACTATT
1 AAGTTATTACTAATTTACTATT
** *
13022422 GTGTTATTGA-TAATTTACTAAT
1 AAGTTATT-ACTAATTTACTATT
* * ** *
13022444 AAATTA-TACTGATTTTGTTTT
1 AAGTTATTACTAATTTACTATT
* *
13022465 AAGTT-TTCAATAATTAACTATT
1 AAGTTATT-ACTAATTTACTATT
*
13022487 AAATTATTA
1 AAGTTATTA
13022496 ATTATTTGTT
Statistics
Matches: 85, Mismatches: 25, Indels: 15
0.68 0.20 0.12
Matches are distributed among these distances:
20 4 0.05
21 25 0.29
22 50 0.59
23 6 0.07
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.50
Consensus pattern (22 bp):
AAGTTATTACTAATTTACTATT
Found at i:13022494 original size:65 final size:65
Alignment explanation
Indices: 13022369--13022494 Score: 150
Period size: 65 Copynumber: 1.9 Consensus size: 65
13022359 GTTATTACTG
* * ***
13022369 ATTTATATTAAATTATACATGATTTATTATTAAGTTATTACTAATTAACTATTGTGTTATTGATA
1 ATTTATAATAAATTATACATGATTTATTATTAAGTTATTAATAATTAACTATTAAATTATTGATA
*
13022434 ATTTACTAATAAATTATAC-TGATTT-TGTTTTAAGTT-TTCAATAATTAACTATTAAATTATT
1 ATTTA-TAATAAATTATACATGATTTAT-TATTAAGTTATT-AATAATTAACTATTAAATTATT
13022495 AATTATTTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
64 3 0.06
65 37 0.71
66 12 0.23
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (65 bp):
ATTTATAATAAATTATACATGATTTATTATTAAGTTATTAATAATTAACTATTAAATTATTGATA
Found at i:13022607 original size:22 final size:22
Alignment explanation
Indices: 13022582--13022686 Score: 95
Period size: 22 Copynumber: 4.8 Consensus size: 22
13022572 ACTGAAATCG
*
13022582 ATTTACTATTTAA-TTATTAATA
1 ATTTACTA-TTAAGTTATCAATA
*
13022604 ATTTACTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATCAATA
* *
13022626 ATTTATTACTAAGTTATCAATA
1 ATTTACTATTAAGTTATCAATA
* * * * *
13022648 ACTAACTACTAAGTTATCACTT
1 ATTTACTATTAAGTTATCAATA
**
13022670 ATTTTTTATTAAGTTAT
1 ATTTACTATTAAGTTAT
13022687 TCTTAATTTA
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
21 4 0.06
22 63 0.94
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.50
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCAATA
Found at i:13022683 original size:44 final size:44
Alignment explanation
Indices: 13022582--13022686 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
13022572 ACTGAAATCG
* * * * *
13022582 ATTTACTATTTAA-TTATTAATAATTTACTATTAAGTTATCATTA
1 ATTTATTA-TTAAGTTATCAATAACTAACTACTAAGTTATCATTA
*
13022626 ATTTATTACTAAGTTATCAATAACTAACTACTAAGTTATCACTT-
1 ATTTATTATTAAGTTATCAATAACTAACTACTAAGTTATCA-TTA
*
13022670 ATTTTTTATTAAGTTAT
1 ATTTATTATTAAGTTAT
13022687 TCTTAATTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 3 0.06
44 46 0.90
45 2 0.04
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.50
Consensus pattern (44 bp):
ATTTATTATTAAGTTATCAATAACTAACTACTAAGTTATCATTA
Found at i:13022739 original size:22 final size:22
Alignment explanation
Indices: 13022699--13022741 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13022689 TTAATTTAGT
*
13022699 ACTATATTATTATGCATTTACA
1 ACTATATTATAATGCATTTACA
13022721 ACTATATTATAATTG-ATTTAC
1 ACTATATTATAA-TGCATTTAC
13022742 CATTTAGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.47
Consensus pattern (22 bp):
ACTATATTATAATGCATTTACA
Found at i:13022818 original size:22 final size:22
Alignment explanation
Indices: 13022793--13022889 Score: 92
Period size: 21 Copynumber: 4.5 Consensus size: 22
13022783 TACTAAACAA
* * * *
13022793 TTATCATTTATTTACTATTAAT
1 TTATCACTAATTTACTACTAAG
13022815 TTATCACTAATTTACTACTAAG
1 TTATCACTAATTTACTACTAAG
* *
13022837 TTATCAATGA-TTACTACTAAG
1 TTATCACTAATTTACTACTAAG
* * *
13022858 TTATCAATGA-TTACTACTAAA
1 TTATCACTAATTTACTACTAAG
13022879 TTAT-ACTAATT
1 TTATCACTAATT
13022890 ACATTTAAGT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
20 3 0.05
21 36 0.55
22 26 0.40
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
TTATCACTAATTTACTACTAAG
Found at i:13022875 original size:24 final size:21
Alignment explanation
Indices: 13022826--13022882 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
13022816 TATCACTAAT
13022826 TTACTACTAAGTTATCAATGA
1 TTACTACTAAGTTATCAATGA
13022847 TTACTACTAAGTTATCAATGA
1 TTACTACTAAGTTATCAATGA
*
13022868 TTACTACTAAATTAT
1 TTACTACTAAGTTAT
13022883 ACTAATTACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (21 bp):
TTACTACTAAGTTATCAATGA
Found at i:13023481 original size:22 final size:23
Alignment explanation
Indices: 13023447--13023502 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
13023437 TAATGAGAAT
*
13023447 AAATTTACTAAAT-AAAAT-TTATA
1 AAATTTA-AAAATAAAAATATTA-A
13023470 AAATTTAAAAATAAAAATATTAA
1 AAATTTAAAAATAAAAATATTAA
13023493 AAATATTAAA
1 AAAT-TTAAA
13023503 TTCACAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 4 0.14
23 17 0.59
24 8 0.28
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATTTAAAAATAAAAATATTAA
Found at i:13029879 original size:105 final size:105
Alignment explanation
Indices: 13029697--13029910 Score: 428
Period size: 105 Copynumber: 2.0 Consensus size: 105
13029687 TAAAAATGCA
13029697 TTTAACAATGGATGATGTAGAGATTTCTAGGATTAATAAGTTTAAAAGGGTAAATAAGCTTAGAT
1 TTTAACAATGGATGATGTAGAGATTTCTAGGATTAATAAGTTTAAAAGGGTAAATAAGCTTAGAT
13029762 CCTATATGATTCATTGATATGAAGGTTCGAGTTCAAATGG
66 CCTATATGATTCATTGATATGAAGGTTCGAGTTCAAATGG
13029802 TTTAACAATGGATGATGTAGAGATTTCTAGGATTAATAAGTTTAAAAGGGTAAATAAGCTTAGAT
1 TTTAACAATGGATGATGTAGAGATTTCTAGGATTAATAAGTTTAAAAGGGTAAATAAGCTTAGAT
13029867 CCTATATGATTCATTGATATGAAGGTTCGAGTTCAAATGG
66 CCTATATGATTCATTGATATGAAGGTTCGAGTTCAAATGG
13029907 TTTA
1 TTTA
13029911 CCTTTTACAT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 109 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.35
Consensus pattern (105 bp):
TTTAACAATGGATGATGTAGAGATTTCTAGGATTAATAAGTTTAAAAGGGTAAATAAGCTTAGAT
CCTATATGATTCATTGATATGAAGGTTCGAGTTCAAATGG
Found at i:13033572 original size:15 final size:15
Alignment explanation
Indices: 13033552--13033584 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13033542 TCATAAATTA
13033552 CCTTTGCCAATGATG
1 CCTTTGCCAATGATG
*
13033567 CCTTTGCCAGTGATG
1 CCTTTGCCAATGATG
13033582 CCT
1 CCT
13033585 AGAACTTTCA
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:0.15, C:0.30, G:0.21, T:0.33
Consensus pattern (15 bp):
CCTTTGCCAATGATG
Found at i:13044388 original size:97 final size:100
Alignment explanation
Indices: 13044199--13044388 Score: 271
Period size: 97 Copynumber: 1.9 Consensus size: 100
13044189 ATTTAAAATG
* *
13044199 AATGAATCTAACTATTCATGAACTTAATTATTCACGCATCTATGATATTTATGAATTTCAATTAA
1 AATGAATCTAACAATTCATGAACTTAATTATTCA--CATCTATGATATTCATGAATTTCAATTAA
13044264 TTGTGGATAAATATACTTAGTGTTTAATCAAATCCAA
64 TTGTGGATAAATATACTTAGTGTTTAATCAAATCCAA
*
13044301 AATGAATCTAACAATTCACT-AACTTAATTATT-A-ATTTATGATATTCATGAA-TTCAATTAAT
1 AATGAATCTAACAATTCA-TGAACTTAATTATTCACATCTATGATATTCATGAATTTCAATTAAT
* * *
13044362 TGTGGATAAATGTATTTATTGTTTAAT
65 TGTGGATAAATATACTTAGTGTTTAAT
13044389 GTAATATAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
97 34 0.42
98 16 0.20
101 1 0.01
102 29 0.36
103 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (100 bp):
AATGAATCTAACAATTCATGAACTTAATTATTCACATCTATGATATTCATGAATTTCAATTAATT
GTGGATAAATATACTTAGTGTTTAATCAAATCCAA
Found at i:13045832 original size:135 final size:137
Alignment explanation
Indices: 13045689--13045962 Score: 525
Period size: 138 Copynumber: 2.0 Consensus size: 137
13045679 TAGTTTTTTT
13045689 TAAATTTTTTTATAAATATATTATATTTTTTTATATAAATAATTATTAACAATATCATA-T-TAA
1 TAAATTTTTTTATAAATATATTATATTTTTTTATATAAATAATTATTAACAATATCATATTATAA
13045752 TAATAATATTATTATCATTTATATTAATCAATTATAATATTAATAATTTAAATTAATATATCAAA
66 TAATAATATTATTATCATTTATATTAATCAATTATAATATTAATAATTTAAATTAATATATCAAA
13045817 ATTAATA
131 ATTAATA
13045824 TAAATTTTTTTATAAATATATTATATTTTTTTATATAAATAATTATTAACAATATCATATTAATA
1 TAAATTTTTTTATAAATATATTATATTTTTTTATATAAATAATTATTAACAATATCATATT-ATA
13045889 ATAATAATATTATTATCATTTATATTAATCAATTATAATATTAATAATTTAAATTAATATATCAA
65 ATAATAATATTATTATCATTTATATTAATCAATTATAATATTAATAATTTAAATTAATATATCAA
13045954 AATTAATA
130 AATTAATA
13045962 T
1 T
13045963 TATTTTAATT
Statistics
Matches: 136, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
135 59 0.43
136 1 0.01
138 76 0.56
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (137 bp):
TAAATTTTTTTATAAATATATTATATTTTTTTATATAAATAATTATTAACAATATCATATTATAA
TAATAATATTATTATCATTTATATTAATCAATTATAATATTAATAATTTAAATTAATATATCAAA
ATTAATA
Found at i:13047172 original size:618 final size:616
Alignment explanation
Indices: 13045935--13047173 Score: 1512
Period size: 618 Copynumber: 2.0 Consensus size: 616
13045925 AATATTAATA
13045935 ATTTAAATTAATATATCAAAATTAATATTATTTTAATTAATTTAAATATATCATACAACAAAATT
1 ATTTAAATTAATATATCAAAATTAATATTATTTTAATTAATTTAAATATATCATACAACAAAA--
** *
13046000 TATAATGAACCAAATTATTGAATAGAGTTACATTTATAATAAACCCAAAATAGACCATAAATGGA
64 TAT-ATGAACCAAACCATTGAATAGAGTTACATTTATAATAAACCCAAAATAGACCATAAATGAA
* * * * * * *
13046065 ATGATCATTCCATCTAACTAAATTAAATAAGAGATTTAAATCTAGATTCTTACATGAGACAAATT
128 ATGATCATTCCATCTAACTAAATAAAATAAGAGATTCAAAGCCAAATTCTTACATGAAACAAATC
* * *
13046130 TCTATTCATTTGAAAGACAAACTTTAAATCCTACCAAAACGAAATGAGGAAATGATTTATTTGAT
193 TCTATTCATTTGAAAGACAAACTTTAAATCCTAACAAAACAAAATGAGGAAATGATTTATTTCAT
* * * *
13046195 AAACCAAAGCATCAATATCTTGTACCATAATGAGAACTTTCAATTTTTTTGGGTTTTCACAAAAA
258 AAACCAAAGCATCAATATCATATACCATAATGAGAACTTTCAACTTTTTTAGGTTTTCACAAAAA
* *
13046260 GAACTTATTTGAATAATTATGTTAATTCTAAAATTAATACACATTAAGTTTAGCAAATTACTTTA
323 GAACTTATTTGAATAATTAGGTTAATTCTAAAAGTAATACACATTAAGTTTAGCAAATTACTTTA
*
13046325 ATGTATTTATAACGTTGAACCTAAAGTTGATTATAAAAAAAAATTGTTTGAATAGGATTTAATTT
388 ATGTATTTATAACGTTGAACCTAAAGTTGATTATAAAAAAAAATTGTAT-AATAGGATTTAATTT
* *
13046390 AAAAGAATGGAATCATTGTTTTATGGATAATTTTAACTTTATGGGATGGAATTATAATTCTAATT
452 AAAAGAATGGAAACATTGTTTGATGGATAATTTTAACTTTATGGGATGGAATTATAATTCTAATT
*
13046455 CATTTAATAAATTAATAAAAAAATAATAGTTTAATAAAAATTAGATAGTGACATATTTGTATCAT
517 CATTTAATAAATTAATAAAAAAATAATAGTTTAATAAAAATTAGATAGTGACAGATTTGTATCAT
13046520 ATATTAAAAATTTTGTGATAATTTTTTAATAGATTTGTGTAAG
582 ATATT-AAAA-----T-AT-ATTTTTTAATAGATTTGTGTAAG
* *
13046563 ATTTAAATTAATATATCAAAATTAATATTATTTTAATTAATTT-AA-ATAT-AT-C-ACATAA-C
1 ATTTAAATTAATATATCAAAATTAATATTATTTTAATTAATTTAAATATATCATACAACAAAATA
* * * * *
13046622 T-TGAGCCAAACCATTGAATAGAGTTACATTTGTAATGAACCCGAAATAGACCATAAATGAAATT
66 TATGAACCAAACCATTGAATAGAGTTACATTTATAATAAACCCAAAATAGACCATAAATGAAATG
* ** *
13046686 ATCATTCCATTTAAAC-AAATAAAATAAGAGATTCAAAGCCAAATTCTTATGTGAAAC-AAGCTC
131 ATCATTCCATCT-AACTAAATAAAATAAGAGATTCAAAGCCAAATTCTTACATGAAACAAATCTC
* **
13046749 TTATTCATTTGAAAGACAAACTTTAAATCCTAATAAAACAAAATGAGGAAATTTTTTATTTCATA
195 -TATTCATTTGAAAGACAAACTTTAAATCCTAACAAAACAAAATGAGGAAATGATTTATTTCATA
* * * *
13046814 AACCGAAA-CATTAATATCATATATCATAATGGGAACTTTC-ACTTTTTTAGGTTTTCACAAAAG
259 AACC-AAAGCATCAATATCATATACCATAATGAGAACTTTCAACTTTTTTAGGTTTTCACAAAAA
13046877 GAACTTATATAAATAATTATGTTAAATTAAATAATAAGGTTAATTCTAAAAGTAATACACATTAA
323 GAAC-----T---T-ATT-TG---AA-T-AAT--T-AGGTTAATTCTAAAAGTAATACACATTAA
* * * * **
13046942 GTTTAGTAAA-TATCTTTAATGTATTTATAATC-TTGAATCTAGATTTGATTAT-AAAAATCATT
370 GTTTAGCAAATTA-CTTTAATGTATTTATAA-CGTTGAACCTAAAGTTGATTATAAAAAAAAATT
* * * * *
13047004 -TAT-ATAGGATTTAATTTAAAGGAATGTAAACATTGTTTGATGGATAGTTTTATCTTTATGTGA
433 GTATAATAGGATTTAATTTAAAAGAATGGAAACATTGTTTGATGGATAATTTTAACTTTATGGGA
* *
13047067 TGGAATTATAATTCTAATTCATTTAATAAGTTAAT-AAAAAATAATAGTTTAGTAAAAATTAGAT
498 TGGAATTATAATTCTAATTCATTTAATAAATTAATAAAAAAATAATAGTTTAATAAAAATTAGAT
* *
13047131 AGTGACAGATTT-TATCATATATT-GAA-AT-TTTTTTGATAGATTT
563 AGTGACAGATTTGTATCATATATTAAAATATATTTTTTAATAGATTT
13047174 TTAATAGATT
Statistics
Matches: 532, Mismatches: 56, Indels: 56
0.83 0.09 0.09
Matches are distributed among these distances:
617 28 0.05
618 202 0.38
619 6 0.01
620 3 0.01
622 1 0.00
623 5 0.01
624 1 0.00
625 3 0.01
626 7 0.01
627 6 0.01
628 43 0.08
629 11 0.02
630 41 0.08
631 88 0.17
632 3 0.01
633 2 0.00
634 11 0.02
635 70 0.13
636 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (616 bp):
ATTTAAATTAATATATCAAAATTAATATTATTTTAATTAATTTAAATATATCATACAACAAAATA
TATGAACCAAACCATTGAATAGAGTTACATTTATAATAAACCCAAAATAGACCATAAATGAAATG
ATCATTCCATCTAACTAAATAAAATAAGAGATTCAAAGCCAAATTCTTACATGAAACAAATCTCT
ATTCATTTGAAAGACAAACTTTAAATCCTAACAAAACAAAATGAGGAAATGATTTATTTCATAAA
CCAAAGCATCAATATCATATACCATAATGAGAACTTTCAACTTTTTTAGGTTTTCACAAAAAGAA
CTTATTTGAATAATTAGGTTAATTCTAAAAGTAATACACATTAAGTTTAGCAAATTACTTTAATG
TATTTATAACGTTGAACCTAAAGTTGATTATAAAAAAAAATTGTATAATAGGATTTAATTTAAAA
GAATGGAAACATTGTTTGATGGATAATTTTAACTTTATGGGATGGAATTATAATTCTAATTCATT
TAATAAATTAATAAAAAAATAATAGTTTAATAAAAATTAGATAGTGACAGATTTGTATCATATAT
TAAAATATATTTTTTAATAGATTTGTGTAAG
Found at i:13048727 original size:30 final size:31
Alignment explanation
Indices: 13048675--13048738 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
13048665 TAAAAACTAC
13048675 TTAGCATTTTCAACATTTTTTTATTAAAAATT
1 TTAGCATTTTCAACA-TTTTTTATTAAAAATT
13048707 TTAGCATTTTCAAC-TTTTTTATTAAAAATT
1 TTAGCATTTTCAACATTTTTTATTAAAAATT
13048737 TT
1 TT
13048739 CTATTTAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 18 0.56
32 14 0.44
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (31 bp):
TTAGCATTTTCAACATTTTTTATTAAAAATT
Found at i:13049247 original size:3 final size:3
Alignment explanation
Indices: 13049241--13049269 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
13049231 AATAATAATA
13049241 ATT ATT ATT ATT ATT ATT ATT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13049270 TGAGAATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:13052190 original size:19 final size:19
Alignment explanation
Indices: 13052166--13052208 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
13052156 TCGACTACTT
13052166 GTTTTAGGAAAACTTCAGA
1 GTTTTAGGAAAACTTCAGA
13052185 GTTTTAGGAAAACTTCAGA
1 GTTTTAGGAAAACTTCAGA
13052204 GTTTT
1 GTTTT
13052209 TGGATGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (19 bp):
GTTTTAGGAAAACTTCAGA
Found at i:13055644 original size:96 final size:96
Alignment explanation
Indices: 13055543--13055735 Score: 386
Period size: 96 Copynumber: 2.0 Consensus size: 96
13055533 TATTATATCC
13055543 AACAATTATTATTTGTAAATTCTTAAAATTAAGAGATTTATCACAAGTTTTAATTCACAATCAAA
1 AACAATTATTATTTGTAAATTCTTAAAATTAAGAGATTTATCACAAGTTTTAATTCACAATCAAA
13055608 TTAACTTAATAAAAGTCAAATTAACCTTTCA
66 TTAACTTAATAAAAGTCAAATTAACCTTTCA
13055639 AACAATTATTATTTGTAAATTCTTAAAATTAAGAGATTTATCACAAGTTTTAATTCACAATCAAA
1 AACAATTATTATTTGTAAATTCTTAAAATTAAGAGATTTATCACAAGTTTTAATTCACAATCAAA
13055704 TTAACTTAATAAAAGTCAAATTAACCTTTCA
66 TTAACTTAATAAAAGTCAAATTAACCTTTCA
13055735 A
1 A
13055736 CTTCCTCAAC
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.37
Consensus pattern (96 bp):
AACAATTATTATTTGTAAATTCTTAAAATTAAGAGATTTATCACAAGTTTTAATTCACAATCAAA
TTAACTTAATAAAAGTCAAATTAACCTTTCA
Found at i:13072663 original size:10 final size:10
Alignment explanation
Indices: 13072642--13072715 Score: 50
Period size: 10 Copynumber: 7.5 Consensus size: 10
13072632 TGCTTGATAG
13072642 CTTTTTTC--
1 CTTTTTTCTT
13072650 CTTTTTTCTT
1 CTTTTTTCTT
*
13072660 CTTTCTTTCGT
1 CTTT-TTTCTT
*
13072671 -TTTCTTCTT
1 CTTTTTTCTT
13072680 CTTTCTTTCTT
1 CTTT-TTTCTT
13072691 -TTTCCTTTC-T
1 CTTT--TTTCTT
*
13072701 CTTTTTTTTT
1 CTTTTTTCTT
13072711 CTTTT
1 CTTTT
13072716 CTTTTTTTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 8 0.15
9 7 0.13
10 20 0.38
11 18 0.34
ACGTcount: A:0.00, C:0.23, G:0.01, T:0.76
Consensus pattern (10 bp):
CTTTTTTCTT
Found at i:13072675 original size:17 final size:16
Alignment explanation
Indices: 13072653--13072684 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
13072643 TTTTTTCCTT
13072653 TTTTCTTCTTTCTTTCG
1 TTTTCTTC-TTCTTTCG
13072670 TTTTCTTCTTCTTTC
1 TTTTCTTCTTCTTTC
13072685 TTTCTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTCTTCTTCTTTCG
Found at i:13072680 original size:20 final size:20
Alignment explanation
Indices: 13072642--13072729 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
13072632 TGCTTGATAG
13072642 CTTT-TTTCCTTTT-TTCTT
1 CTTTCTTTCCTTTTCTTCTT
*
13072660 CTTTCTTTCGTTTTCTTCTT
1 CTTTCTTTCCTTTTCTTCTT
* *
13072680 CTTTCTTTCTTTTTCCT-TT
1 CTTTCTTTCCTTTTCTTCTT
13072699 CTCTT-TTT--TTTTCTT-TT
1 CT-TTCTTTCCTTTTCTTCTT
*
13072716 CTTTTTTTCCTTTT
1 CTTTCTTTCCTTTT
13072730 TAGCTCTAGC
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
16 2 0.03
17 13 0.22
18 4 0.07
19 19 0.32
20 22 0.37
ACGTcount: A:0.00, C:0.23, G:0.01, T:0.76
Consensus pattern (20 bp):
CTTTCTTTCCTTTTCTTCTT
Found at i:13072709 original size:17 final size:15
Alignment explanation
Indices: 13072645--13072723 Score: 61
Period size: 16 Copynumber: 4.8 Consensus size: 15
13072635 TTGATAGCTT
*
13072645 TTTTCCTTTTTTCTTC
1 TTTT-CTTTTTTTTTC
13072661 -TTTCTTTCGTTTTCTTC
1 TTTTCTTT--TTTT-TTC
*
13072678 TTCTTTCTTTCTTTTTCC
1 -T-TTTCTTT-TTTTTTC
13072696 TTTCTCTTTTTTTTTC
1 TTT-TCTTTTTTTTTC
13072712 TTTTCTTTTTTT
1 TTTTCTTTTTTT
13072724 CCTTTTTAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
14 4 0.08
15 12 0.23
16 14 0.27
17 9 0.17
18 2 0.04
19 4 0.08
20 7 0.13
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.77
Consensus pattern (15 bp):
TTTTCTTTTTTTTTC
Found at i:13078115 original size:19 final size:19
Alignment explanation
Indices: 13078091--13078127 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13078081 ATATCAAGTT
*
13078091 TATTTTATTTTGTTTTTTG
1 TATTTTATTTTATTTTTTG
13078110 TATTTTATTTTATTTTTT
1 TATTTTATTTTATTTTTT
13078128 ATGGATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (19 bp):
TATTTTATTTTATTTTTTG
Found at i:13079823 original size:14 final size:13
Alignment explanation
Indices: 13079797--13079869 Score: 55
Period size: 13 Copynumber: 5.7 Consensus size: 13
13079787 ATTTTTCAAA
*
13079797 AGTTCTTTTTTTG
1 AGTTTTTTTTTTG
13079810 AGTTTTTTTGTTTG
1 AGTTTTTTT-TTTG
*
13079824 -GTTTTATTTTGTG
1 AGTTTT-TTTTTTG
*
13079837 -TTTTTTATTTTTG
1 AGTTTTT-TTTTTG
*
13079850 A-TTTTTTTCTTG
1 AGTTTTTTTTTTG
13079862 -GTTTTTTT
1 AGTTTTTTT
13079870 AAATGACGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
12 13 0.26
13 30 0.60
14 7 0.14
ACGTcount: A:0.07, C:0.03, G:0.15, T:0.75
Consensus pattern (13 bp):
AGTTTTTTTTTTG
Found at i:13079833 original size:25 final size:24
Alignment explanation
Indices: 13079805--13079869 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 24
13079795 AAAGTTCTTT
*
13079805 TTTTGAGTTTTTTTGTTTGGTTTTA
1 TTTTG-GTTTTTTTGTTTGATTTTA
* *
13079830 TTTTGTGTTTTTTATTTTTGATTTTT
1 TTTTG-GTTTTTT-TGTTTGATTTTA
13079856 TTCTTGGTTTTTTT
1 TT-TTGGTTTTTTT
13079870 AAATGACGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 13 0.38
26 18 0.53
27 3 0.09
ACGTcount: A:0.06, C:0.02, G:0.15, T:0.77
Consensus pattern (24 bp):
TTTTGGTTTTTTTGTTTGATTTTA
Found at i:13080180 original size:104 final size:103
Alignment explanation
Indices: 13079953--13080273 Score: 317
Period size: 104 Copynumber: 3.1 Consensus size: 103
13079943 AGAACAAGAA
** * ** * **
13079953 ATTATGC-TGGAGGTCTTACAAATTTCAACATCTTTGAATATTCCTCCCA-ATTAGAGGTGTTGA
1 ATTATGCTTGGAAATCTTACAAATCTCAACATCTTTGAATGCTCCT--CATATTAGAAGCATTGA
* ** *
13080016 AATTTTGAAAATTTAAAATGTTTTG-TCCGAAATCTTAAAG
64 AA-CTTGAAAATTTAAAATGTTTTGCTTAGAAGTCTTAAAG
* * * * ** * *
13080056 ATTTTGCCTGAAAATTTTACAAATCTTGATATCTTTGAATGCTCTTCATATTAGAAGCATTGAAA
1 ATTATGCTTGGAAATCTTACAAATCTCAACATCTTTGAATGCTCCTCATATTAGAAGCATTGAAA
*
13080121 CTCTGAAAATTTAAAATGTTTTGCTTAGACGTCTTAAAG
66 CT-TGAAAATTTAAAATGTTTTGCTTAGAAGTCTTAAAG
* *
13080160 ATTATGCTTGGAAGTCTTACAAATCTCAACATCTTTGAATGCTCCTCATATTAGAGGCATTGAAA
1 ATTATGCTTGGAAATCTTACAAATCTCAACATCTTTGAATGCTCCTCATATTAGAAGCATTGAAA
* ** * *
13080225 CTTTAAATATTTAAAACATTTTGCCTAGAGGTCTTAAAG
66 CTTGAAA-ATTTAAAATGTTTTGCTTAGAAGTCTTAAAG
13080264 ATTAT-CTTGG
1 ATTATGCTTGG
13080274 GTGCCAACTT
Statistics
Matches: 178, Mismatches: 35, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
102 3 0.02
103 48 0.27
104 127 0.71
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (103 bp):
ATTATGCTTGGAAATCTTACAAATCTCAACATCTTTGAATGCTCCTCATATTAGAAGCATTGAAA
CTTGAAAATTTAAAATGTTTTGCTTAGAAGTCTTAAAG
Found at i:13080480 original size:22 final size:22
Alignment explanation
Indices: 13080426--13080480 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
13080416 TATCATCTAT
13080426 GTGCCAGCTAATTTAGGTTTAG
1 GTGCCAGCTAATTTAGGTTTAG
* * *
13080448 GTACCAACTAATTTAGGTTTGG
1 GTGCCAGCTAATTTAGGTTTAG
*
13080470 GTGCTAGCTAA
1 GTGCCAGCTAA
13080481 ACTAGGCTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (22 bp):
GTGCCAGCTAATTTAGGTTTAG
Found at i:13080700 original size:19 final size:17
Alignment explanation
Indices: 13080670--13080727 Score: 64
Period size: 16 Copynumber: 3.3 Consensus size: 17
13080660 TCTTATCTCT
13080670 TTTTTCTCTTTTTTTTTAC
1 TTTTT-TCTTTTTTTTT-C
13080689 TATTTTTCTTTTTTTTTC
1 T-TTTTTCTTTTTTTTTC
* *
13080707 TTTTTT-TTTGTTTTTG
1 TTTTTTCTTTTTTTTTC
13080723 TTTTT
1 TTTTT
13080728 GTTTTTCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
16 13 0.36
17 5 0.14
18 2 0.06
19 12 0.33
20 4 0.11
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.84
Consensus pattern (17 bp):
TTTTTTCTTTTTTTTTC
Found at i:13080702 original size:18 final size:16
Alignment explanation
Indices: 13080678--13080721 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
13080668 CTTTTTTCTC
13080678 TTTTTTTTTACTATTTT
1 TTTTTTTTTACT-TTTT
*
13080695 TCTTTTTTTTTCTTTTT
1 T-TTTTTTTTACTTTTT
13080712 TTTTGTTTTT
1 TTTT-TTTTT
13080722 GTTTTTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 11 0.46
18 10 0.42
ACGTcount: A:0.05, C:0.07, G:0.02, T:0.86
Consensus pattern (16 bp):
TTTTTTTTTACTTTTT
Found at i:13080732 original size:29 final size:30
Alignment explanation
Indices: 13080669--13080743 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 30
13080659 TTCTTATCTC
13080669 TTTTTTCTCTTTTTTTTTACTATTTTTCTT
1 TTTTTTCTCTTTTTTTTTACTATTTTTCTT
* *
13080699 TTTTTT-TCTTTTTTTTT-GT-TTTTGTTTT
1 TTTTTTCTCTTTTTTTTTACTATTTT-TCTT
13080727 TGTTTTTCTCTTTTTTT
1 T-TTTTTCTCTTTTTTT
13080744 CATTTCACTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
27 4 0.10
28 5 0.12
29 16 0.40
30 15 0.38
ACGTcount: A:0.03, C:0.09, G:0.04, T:0.84
Consensus pattern (30 bp):
TTTTTTCTCTTTTTTTTTACTATTTTTCTT
Found at i:13080740 original size:19 final size:19
Alignment explanation
Indices: 13080670--13080743 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
13080660 TCTTATCTCT
13080670 TTTTTCTCTTTTTTTTTACTA
1 TTTTTCTCTTTTTTTTT--TA
13080691 TTTTTCT-TTTTTTTTCTT-
1 TTTTTCTCTTTTTTTT-TTA
* * *
13080709 TTTTTTTGTTTTTGTTTTTG
1 TTTTTCTCTTTTT-TTTTTA
13080729 TTTTTCTCTTTTTTT
1 TTTTTCTCTTTTTTT
13080744 CATTTCACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 6 0.13
19 10 0.22
20 22 0.48
21 8 0.17
ACGTcount: A:0.03, C:0.09, G:0.04, T:0.84
Consensus pattern (19 bp):
TTTTTCTCTTTTTTTTTTA
Found at i:13081123 original size:35 final size:34
Alignment explanation
Indices: 13081054--13081132 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 34
13081044 CATGATGTAA
*
13081054 ATGCAAATGCCTTCTTCATGATGCACATGCAGTG
1 ATGCAAATGCCTTCTTCATAATGCACATGCAGTG
*
13081088 ATGCAAATGTCTTTCTT-ATAATGCAAACATG-AGTG
1 ATGCAAATG-CCTTCTTCATAATGC--ACATGCAGTG
13081123 ATGCAAATGC
1 ATGCAAATGC
13081133 ATTTTTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
34 16 0.40
35 19 0.47
36 5 0.12
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (34 bp):
ATGCAAATGCCTTCTTCATAATGCACATGCAGTG
Found at i:13082042 original size:146 final size:146
Alignment explanation
Indices: 13081883--13082188 Score: 327
Period size: 146 Copynumber: 2.1 Consensus size: 146
13081873 TCCTTTTTAT
** ** * *
13081883 TTTTTTTATTTTTTATTTTTGGAAAACATTTGACTTCAACTTTTGCATTCTACCTTAT-C-AAAT
1 TTTTTTTGCTTTTT-TTTTTGG-AAACATTCAACTTCAACTTTAGCATTATA-CTT-TCCTAAAT
* * * *
13081946 TCTATCTTCT-TTTTTCTTAG-GATTCTAACTGAAACTTTA-TCACTTATTGTCCC-AGATCATT
62 TCTATCTT-TGTTTTTATTAGAGACTCTAACTGAAACTTTATTCACTTATTGCCCCAAGATC-TC
* * *
13082007 ATCTTTGAGGTGCATGTCTTTC
125 ATCTCTAAAGTGCATGTCTTTC
* * * *
13082029 TTTTTTTGCTTTTTTTTTTGGAAACGTTCAATTTCATCTTTAGCATTATACTTTCCTAAATTCTC
1 TTTTTTTGCTTTTTTTTTTGGAAACATTCAACTTCAACTTTAGCATTATACTTTCCTAAATTCTA
* * * *
13082094 TCTTTGTTTTTATTTGAGACTCTAACTGAAACTTTATTTACTTTTTGCCCCAAGCTCTCATCTCT
66 TCTTTGTTTTTATTAGAGACTCTAACTGAAACTTTATTCACTTATTGCCCCAAGATCTCATCTCT
13082159 AAAGTGCATGTCTTTC
131 AAAGTGCATGTCTTTC
13082175 TTTTTTTGCTTTTT
1 TTTTTTTGCTTTTT
13082189 CTCCTTTTTT
Statistics
Matches: 133, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
142 1 0.01
143 5 0.04
144 41 0.31
145 25 0.19
146 57 0.43
147 4 0.03
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.52
Consensus pattern (146 bp):
TTTTTTTGCTTTTTTTTTTGGAAACATTCAACTTCAACTTTAGCATTATACTTTCCTAAATTCTA
TCTTTGTTTTTATTAGAGACTCTAACTGAAACTTTATTCACTTATTGCCCCAAGATCTCATCTCT
AAAGTGCATGTCTTTC
Found at i:13082209 original size:9 final size:9
Alignment explanation
Indices: 13082171--13082209 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
13082161 AGTGCATGTC
13082171 TTTCTTTTT
1 TTTCTTTTT
*
13082180 TTGCTTTTT
1 TTTCTTTTT
* *
13082189 CTCCTTTTT
1 TTTCTTTTT
13082198 TTTCTTTTT
1 TTTCTTTTT
13082207 TTT
1 TTT
13082210 TTTGCTCTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:13082211 original size:15 final size:15
Alignment explanation
Indices: 13082169--13082223 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
13082159 AAAGTGCATG
*
13082169 TCTTTCTTTTTTTGC
1 TCTTTTTTTTTTTGC
*
13082184 T-TTTTCTCCTTTTTT-T
1 TCTTTT-T--TTTTTTGC
13082200 TCTTTTTTTTTTTGC
1 TCTTTTTTTTTTTGC
13082215 TCTTTTTTT
1 TCTTTTTTT
13082224 AAAACATTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 9 0.28
15 11 0.34
16 2 0.06
17 10 0.31
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (15 bp):
TCTTTTTTTTTTTGC
Found at i:13082357 original size:20 final size:20
Alignment explanation
Indices: 13082329--13082371 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
13082319 AAGGTGTATG
13082329 TTTTCCTTTATTTGTTTTT-T
1 TTTTCCTTTATTT-TTTTTCT
* *
13082349 TTTTTCTTTCTTTTTTTTCT
1 TTTTCCTTTATTTTTTTTCT
13082369 TTT
1 TTT
13082372 GTTTTGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (20 bp):
TTTTCCTTTATTTTTTTTCT
Found at i:13082364 original size:13 final size:13
Alignment explanation
Indices: 13082346--13082370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13082336 TTATTTGTTT
13082346 TTTTTTTTCTTTC
1 TTTTTTTTCTTTC
13082359 TTTTTTTTCTTT
1 TTTTTTTTCTTT
13082371 TGTTTTGTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTC
Found at i:13083441 original size:11 final size:11
Alignment explanation
Indices: 13083422--13083467 Score: 83
Period size: 11 Copynumber: 4.2 Consensus size: 11
13083412 ATAATCACCA
*
13083422 ATTACTGTTTG
1 ATTAATGTTTG
13083433 ATTAATGTTTG
1 ATTAATGTTTG
13083444 ATTAATGTTTG
1 ATTAATGTTTG
13083455 ATTAATGTTTG
1 ATTAATGTTTG
13083466 AT
1 AT
13083468 ATGTGATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.26, C:0.02, G:0.17, T:0.54
Consensus pattern (11 bp):
ATTAATGTTTG
Found at i:13091357 original size:4 final size:4
Alignment explanation
Indices: 13091350--13091380 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
13091340 AAGAAAGGAA
*
13091350 AAAT AAAT AAAT AAGT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
13091381 ATCTTTGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:13092154 original size:17 final size:16
Alignment explanation
Indices: 13092132--13092199 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
13092122 TTTTTTCCTT
13092132 TTTTCTTCTTTCTTTCG
1 TTTTCTTC-TTCTTTCG
13092149 TTTTCTTCTTCTTTC-
1 TTTTCTTCTTCTTTCG
*
13092164 -TTTCTT-TT-TTTCC
1 TTTTCTTCTTCTTTCG
* *
13092177 TTTCTCTTTTTTTTTC-
1 TTT-TCTTCTTCTTTCG
13092193 TTTTCTT
1 TTTTCTT
13092200 TTTTTCCTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
12 4 0.09
13 2 0.04
14 8 0.17
15 8 0.17
16 12 0.26
17 12 0.26
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.76
Consensus pattern (16 bp):
TTTTCTTCTTCTTTCG
Found at i:13092159 original size:20 final size:20
Alignment explanation
Indices: 13092120--13092210 Score: 82
Period size: 19 Copynumber: 4.7 Consensus size: 20
13092110 TGCTTGATAG
*
13092120 CTTTTTTTCCTTTT-TTCTT
1 CTTTCTTTCCTTTTCTTCTT
*
13092139 CTTTCTTTCGTTTTCTTCTT
1 CTTTCTTTCCTTTTCTTCTT
*
13092159 CTTTCTTT-CTTTTTTTCCTT
1 CTTTCTTTCCTTTTCTT-CTT
* **
13092179 -TCTCTTTTTTTTTCTT-TT
1 CTTTCTTTCCTTTTCTTCTT
*
13092197 CTTTTTTTCCTTTT
1 CTTTCTTTCCTTTT
13092211 TAGCTCTAGC
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
18 2 0.04
19 33 0.58
20 22 0.39
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.77
Consensus pattern (20 bp):
CTTTCTTTCCTTTTCTTCTT
Found at i:13092181 original size:24 final size:24
Alignment explanation
Indices: 13092120--13092196 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
13092110 TGCTTGATAG
*
13092120 CTTTTTTTCCTTTTTTC-TTCTTT
1 CTTTTTTTCCTTTCTTCTTTCTTT
13092143 CTTTCGTTTT-C-TTCTTCTTTCTTT
1 CTTT--TTTTCCTTTCTTCTTTCTTT
* *
13092167 CTTTTTTTCCTTTCTCTTTTTTTTT
1 CTTTTTTTCCTTTCT-TCTTTCTTT
13092192 CTTTT
1 CTTTT
13092197 CTTTTTTTCC
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
22 4 0.09
23 10 0.22
24 15 0.33
25 16 0.36
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.77
Consensus pattern (24 bp):
CTTTTTTTCCTTTCTTCTTTCTTT
Found at i:13092186 original size:14 final size:13
Alignment explanation
Indices: 13092121--13092211 Score: 54
Period size: 11 Copynumber: 7.2 Consensus size: 13
13092111 GCTTGATAGC
13092121 TTTT-TTTC-CTT
1 TTTTCTTTCTCTT
13092132 TTTTC-TTCT-TT
1 TTTTCTTTCTCTT
*
13092143 CTTTCGTTTTCTTCTT
1 TTTTC--TTTC-TCTT
*
13092159 CTTTCTTTCT-TT
1 TTTTCTTTCTCTT
13092171 TTTTCCTTTCTCTT
1 TTTT-CTTTCTCTT
13092185 TTTT-TTTCT-TT
1 TTTTCTTTCTCTT
*
13092196 TCTTTTTTTC-CTT
1 T-TTTCTTTCTCTT
13092209 TTT
1 TTT
13092212 AGCTCTAGCG
Statistics
Matches: 66, Mismatches: 2, Indels: 23
0.73 0.02 0.25
Matches are distributed among these distances:
11 16 0.24
12 15 0.23
13 14 0.21
14 13 0.20
15 1 0.02
16 7 0.11
ACGTcount: A:0.00, C:0.21, G:0.01, T:0.78
Consensus pattern (13 bp):
TTTTCTTTCTCTT
Found at i:13092186 original size:15 final size:14
Alignment explanation
Indices: 13092137--13092210 Score: 71
Period size: 14 Copynumber: 5.1 Consensus size: 14
13092127 TCCTTTTTTC
* *
13092137 TTCTTTCTTTCGTT
1 TTCTTTTTTTCCTT
13092151 TTCTTCTTCTTT-C-T
1 TTCTT-TT-TTTCCTT
13092165 TTCTTTTTTTCCTT
1 TTCTTTTTTTCCTT
*
13092179 TCTCTTTTTTTTTCTT
1 T-TC-TTTTTTTCCTT
13092195 TTCTTTTTTTCCTT
1 TTCTTTTTTTCCTT
13092209 TT
1 TT
13092211 TAGCTCTAGC
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
12 3 0.06
13 3 0.06
14 25 0.50
15 5 0.10
16 14 0.28
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.77
Consensus pattern (14 bp):
TTCTTTTTTTCCTT
Found at i:13092191 original size:5 final size:5
Alignment explanation
Indices: 13092120--13092210 Score: 54
Period size: 5 Copynumber: 19.0 Consensus size: 5
13092110 TGCTTGATAG
*
13092120 CTTTT -TTTC CTTTT -TTCTT C-TTT C-TTT CGTTTT CTTCTT C-TTT
1 CTTTT CTTTT CTTTT CTT-TT CTTTT CTTTT C-TTTT CTT-TT CTTTT
* * *
13092163 C-TTT CTTTT -TTTC CTTTCT CTTTT TTTTT CTTTT CTTTT -TTTC CTTTT
1 CTTTT CTTTT CTTTT CTTT-T CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
13092211 TAGCTCTAGC
Statistics
Matches: 68, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
4 25 0.37
5 32 0.47
6 11 0.16
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.77
Consensus pattern (5 bp):
CTTTT
Found at i:13092203 original size:17 final size:16
Alignment explanation
Indices: 13092121--13092204 Score: 71
Period size: 17 Copynumber: 5.2 Consensus size: 16
13092111 GCTTGATAGC
*
13092121 TTTTTTTCCTT-TTTT
1 TTTTTTTCTTTCTTTT
* * *
13092136 CTTCTTTCTTTCGTTT
1 TTTTTTTCTTTCTTTT
* *
13092152 TCTTCTTCTTTCTTTCT
1 TTTTTTTCTTTCTTT-T
* *
13092169 TTTTTTCCTTTCTCTT
1 TTTTTTTCTTTCTTTT
13092185 TTTTTTTCTTTTCTTTT
1 TTTTTTTC-TTTCTTTT
13092202 TTT
1 TTT
13092205 CCTTTTTAGC
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
15 8 0.16
16 21 0.41
17 22 0.43
ACGTcount: A:0.00, C:0.20, G:0.01, T:0.79
Consensus pattern (16 bp):
TTTTTTTCTTTCTTTT
Found at i:13092210 original size:39 final size:40
Alignment explanation
Indices: 13092120--13092211 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 40
13092110 TGCTTGATAG
*
13092120 CTTTTTTTCC-TTTTTTCTTCTTTCTTTCGTTTTCTTCTT
1 CTTTTTTTCCTTTTTTTCTTCTCTCTTTCGTTTTCTTCTT
* **
13092159 CTTTCTTT-CTTTTTTTCCTT-TCTCTTTTTTTTTCTT-TT
1 CTTTTTTTCCTTTTTTT-CTTCTCTCTTTCGTTTTCTTCTT
13092197 CTTTTTTTCCTTTTT
1 CTTTTTTTCCTTTTT
13092212 AGCTCTAGCG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
38 10 0.22
39 32 0.71
40 3 0.07
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.77
Consensus pattern (40 bp):
CTTTTTTTCCTTTTTTTCTTCTCTCTTTCGTTTTCTTCTT
Found at i:13097593 original size:19 final size:19
Alignment explanation
Indices: 13097569--13097605 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13097559 ATATCAAGTT
*
13097569 TATTTTATTTTGTTTTTTG
1 TATTTTATTTTATTTTTTG
13097588 TATTTTATTTTATTTTTT
1 TATTTTATTTTATTTTTT
13097606 ATGGATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (19 bp):
TATTTTATTTTATTTTTTG
Found at i:13099319 original size:14 final size:15
Alignment explanation
Indices: 13099302--13099334 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13099292 TTTTGTTTGG
*
13099302 TTTTATTTTGTGTTT
1 TTTTATTTTGTGATT
13099317 TTTTATTTT-TGATT
1 TTTTATTTTGTGATT
13099331 TTTT
1 TTTT
13099335 TCTTGGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (15 bp):
TTTTATTTTGTGATT
Found at i:13099319 original size:27 final size:27
Alignment explanation
Indices: 13099289--13099348 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
13099279 TTTTTTTGAG
* *
13099289 TTTTTT-TGTTTGGTTTTATT-TTGTGT
1 TTTTTTATTTTTGATTTTATTCTTG-GT
*
13099315 TTTTTTATTTTTGATTTTTTTCTTGGT
1 TTTTTTATTTTTGATTTTATTCTTGGT
13099342 TTTTTTA
1 TTTTTTA
13099349 AATGACGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 6 0.21
27 20 0.69
28 3 0.10
ACGTcount: A:0.07, C:0.02, G:0.13, T:0.78
Consensus pattern (27 bp):
TTTTTTATTTTTGATTTTATTCTTGGT
Found at i:13099333 original size:16 final size:15
Alignment explanation
Indices: 13099302--13099348 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 15
13099292 TTTTGTTTGG
13099302 TTTTATTTTGTGTTT
1 TTTTATTTTGTGTTT
*
13099317 TTTTATTTT-TGATT
1 TTTTATTTTGTGTTT
*
13099331 TTTT-TCTTG-GTTT
1 TTTTATTTTGTGTTT
13099344 TTTTA
1 TTTTA
13099349 AATGACGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 10 0.37
14 8 0.30
15 9 0.33
ACGTcount: A:0.09, C:0.02, G:0.11, T:0.79
Consensus pattern (15 bp):
TTTTATTTTGTGTTT
Found at i:13099335 original size:25 final size:24
Alignment explanation
Indices: 13099279--13099335 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
13099269 TCAAAAGTTC
*
13099279 TTTTTTTGAGTTTTTTTGTTTGGT
1 TTTTTTTGAGTTTTTTTGTTTGGA
* * *
13099303 TTTATTTTGTGTTTTTTTATTTTTGA
1 TTT-TTTTGAGTTTTTTT-GTTTGGA
13099329 TTTTTTT
1 TTTTTTT
13099336 CTTGGTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 3 0.11
25 17 0.63
26 7 0.26
ACGTcount: A:0.07, C:0.00, G:0.14, T:0.79
Consensus pattern (24 bp):
TTTTTTTGAGTTTTTTTGTTTGGA
Found at i:13099658 original size:104 final size:103
Alignment explanation
Indices: 13099431--13099751 Score: 317
Period size: 104 Copynumber: 3.1 Consensus size: 103
13099421 AGAACAAGAA
** * ** * **
13099431 ATTATGC-TGGAGGTCTTACAAATTTCAACATCTTTGAATATTCCTCCCA-ATTAGAGGTGTTGA
1 ATTATGCTTGGAAATCTTACAAATCTCAACATCTTTGAATGCTCCT--CATATTAGAAGCATTGA
* ** *
13099494 AATTTTGAAAATTTAAAATGTTTTG-TCCGAAATCTTAAAG
64 AA-CTTGAAAATTTAAAATGTTTTGCTTAGAAGTCTTAAAG
* * * * ** * *
13099534 ATTTTGCCTGAAAATTTTACAAATCTTGATATCTTTGAATGCTCTTCATATTAGAAGCATTGAAA
1 ATTATGCTTGGAAATCTTACAAATCTCAACATCTTTGAATGCTCCTCATATTAGAAGCATTGAAA
*
13099599 CTCTGAAAATTTAAAATGTTTTGCTTAGACGTCTTAAAG
66 CT-TGAAAATTTAAAATGTTTTGCTTAGAAGTCTTAAAG
* *
13099638 ATTATGCTTGGAAGTCTTACAAATCTCAACATCTTTGAATGCTCCTCATATTAGAGGCATTGAAA
1 ATTATGCTTGGAAATCTTACAAATCTCAACATCTTTGAATGCTCCTCATATTAGAAGCATTGAAA
* ** * *
13099703 CTTTAAATATTTAAAACATTTTGCCTAGAGGTCTTAAAG
66 CTTGAAA-ATTTAAAATGTTTTGCTTAGAAGTCTTAAAG
13099742 ATTAT-CTTGG
1 ATTATGCTTGG
13099752 GTGCCAACTT
Statistics
Matches: 178, Mismatches: 35, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
102 3 0.02
103 48 0.27
104 127 0.71
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (103 bp):
ATTATGCTTGGAAATCTTACAAATCTCAACATCTTTGAATGCTCCTCATATTAGAAGCATTGAAA
CTTGAAAATTTAAAATGTTTTGCTTAGAAGTCTTAAAG
Found at i:13099958 original size:22 final size:22
Alignment explanation
Indices: 13099904--13099958 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
13099894 TATCATCTAT
13099904 GTGCCAGCTAATTTAGGTTTAG
1 GTGCCAGCTAATTTAGGTTTAG
* * *
13099926 GTACCAACTAATTTAGGTTTGG
1 GTGCCAGCTAATTTAGGTTTAG
*
13099948 GTGCTAGCTAA
1 GTGCCAGCTAA
13099959 ACTAGGCTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (22 bp):
GTGCCAGCTAATTTAGGTTTAG
Found at i:13100600 original size:35 final size:34
Alignment explanation
Indices: 13100531--13100609 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 34
13100521 CATGATGTAA
*
13100531 ATGCAAATGCCTTCTTCATGATGCACATGCAGTG
1 ATGCAAATGCCTTCTTCATAATGCACATGCAGTG
*
13100565 ATGCAAATGTCTTTCTT-ATAATGCAAACATG-AGTG
1 ATGCAAATG-CCTTCTTCATAATGC--ACATGCAGTG
13100600 ATGCAAATGC
1 ATGCAAATGC
13100610 ATTTTTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
34 16 0.40
35 19 0.47
36 5 0.12
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (34 bp):
ATGCAAATGCCTTCTTCATAATGCACATGCAGTG
Found at i:13101681 original size:24 final size:23
Alignment explanation
Indices: 13101648--13101699 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
13101638 AGTGCATGTC
13101648 TTTTTTTTTTGCTTTTT-CTCCTT
1 TTTTTTTTTTGCTTTTTGCT-CTT
**
13101671 TTTTTTCTTTTTTTTTTTGCTCTT
1 TTTTTT-TTTTGCTTTTTGCTCTT
13101695 TTTTT
1 TTTTT
13101700 AAAACATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 17 0.68
25 2 0.08
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (23 bp):
TTTTTTTTTTGCTTTTTGCTCTT
Found at i:13101832 original size:19 final size:19
Alignment explanation
Indices: 13101805--13101846 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13101795 AAGGTGTATG
13101805 TTTTCCTTTATTTGTTTTT-
1 TTTTCCTTTATTT-TTTTTC
* *
13101824 TTTTTCTTTCTTTTTTTTC
1 TTTTCCTTTATTTTTTTTC
13101843 TTTT
1 TTTT
13101847 GTTTTGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTCCTTTATTTTTTTTC
Found at i:13101851 original size:13 final size:13
Alignment explanation
Indices: 13101822--13101890 Score: 52
Period size: 13 Copynumber: 5.0 Consensus size: 13
13101812 TTATTTGTTT
13101822 TTTTTTTCTTTCT-
1 TTTTTTTCTTT-TG
13101835 TTTTTTTCTTTTG
1 TTTTTTTCTTTTG
13101848 TTTTGTTCTGCTTTTG
1 TTTT-TT-T-CTTTTG
* *
13101864 CTTTTCTCTTTTTG
1 TTTTTTTC-TTTTG
13101878 CTTTTTTT-TTTTG
1 -TTTTTTTCTTTTG
13101891 AAACATTTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
12 1 0.02
13 21 0.46
14 8 0.17
15 7 0.15
16 9 0.20
ACGTcount: A:0.00, C:0.13, G:0.09, T:0.78
Consensus pattern (13 bp):
TTTTTTTCTTTTG
Found at i:13105663 original size:9 final size:8
Alignment explanation
Indices: 13105645--13105697 Score: 56
Period size: 9 Copynumber: 6.5 Consensus size: 8
13105635 TTTTATCTAT
13105645 TTTTCTT-
1 TTTTCTTC
13105652 TTTTCTTC
1 TTTTCTTC
13105660 TTTTCATTC
1 TTTTC-TTC
13105669 TTTTCATTC
1 TTTTC-TTC
*
13105678 TTTCCTT-
1 TTTTCTTC
13105685 TTATTCTTC
1 TT-TTCTTC
13105694 TTTT
1 TTTT
13105698 ACTGCTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
7 9 0.22
8 13 0.32
9 18 0.45
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTCTTC
Found at i:13109061 original size:16 final size:18
Alignment explanation
Indices: 13109039--13109087 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
13109029 TTCCTTCTTC
*
13109039 TTCTTCTTCTTTTTTTTTT
1 TTCTTCTTC-TTTTTTTAT
13109058 TTCTTTCTCTCTTTTTTTAT
1 TTC-TTCT-TCTTTTTTTAT
13109078 TTCCTTCTTC
1 TT-CTTCTTC
13109088 GCCTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 5 0.19
20 18 0.69
21 3 0.12
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (18 bp):
TTCTTCTTCTTTTTTTAT
Found at i:13110912 original size:19 final size:19
Alignment explanation
Indices: 13110890--13110936 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
13110880 ATAAATTAGC
13110890 TTAAA-TTAAAATATTAAAA
1 TTAAATTTAAAA-ATTAAAA
13110909 TTAAATTTAAAAATT-AAA
1 TTAAATTTAAAAATTAAAA
13110927 -TAAATTTAAA
1 TTAAATTTAAA
13110937 TTGAGTGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.37
18 3 0.11
19 8 0.30
20 6 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAAATTTAAAAATTAAAA
Found at i:13110914 original size:13 final size:14
Alignment explanation
Indices: 13110892--13110928 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
13110882 AAATTAGCTT
13110892 AAATTAAAATATT-A
1 AAATT-AAATATTAA
13110906 AAATTAAAT-TTAA
1 AAATTAAATATTAA
13110919 AAATTAAATA
1 AAATTAAATA
13110929 AATTTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 2 0.10
13 14 0.67
14 5 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATTAAATATTAA
Found at i:13111067 original size:42 final size:42
Alignment explanation
Indices: 13110985--13111073 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
13110975 CAGTTGATAT
* **
13110985 ATACCAAATCAATAACATAAATTTTAGTTGTATCCAGTCTAC
1 ATACAAAATCAATAACATAAATTTTAGTAATATCCAGTCTAC
* * *
13111027 GTACAAAATCAATAACATAAATTTTAGTAATGTCCTGTCTAC
1 ATACAAAATCAATAACATAAATTTTAGTAATATCCAGTCTAC
13111069 ATACA
1 ATACA
13111074 GTAAATGACC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.33
Consensus pattern (42 bp):
ATACAAAATCAATAACATAAATTTTAGTAATATCCAGTCTAC
Found at i:13111490 original size:25 final size:24
Alignment explanation
Indices: 13111454--13111522 Score: 88
Period size: 26 Copynumber: 2.9 Consensus size: 24
13111444 CGTCAAGTTA
*
13111454 TTTTTCTC-TTTTTTCTTTTACTT
1 TTTTTTTCATTTTTTCTTTTACTT
13111477 TTTTTTATCATTTTTTCTATTTACTT
1 TTTTTT-TCATTTTTTCT-TTTACTT
*
13111503 TTTCTTTCA-TTTTTCTTTTA
1 TTTTTTTCATTTTTTCTTTTA
13111523 AAATTTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.22
24 9 0.22
25 11 0.27
26 12 0.29
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTTTTCATTTTTTCTTTTACTT
Found at i:13111516 original size:26 final size:25
Alignment explanation
Indices: 13111462--13111522 Score: 90
Period size: 26 Copynumber: 2.5 Consensus size: 25
13111452 TATTTTTCTC
*
13111462 TTTTTTCTTTTACTTTTTTTTATCA
1 TTTTTTCTTTTACTTTTTCTTATCA
13111487 TTTTTTCTATTTACTTTTTCTT-TCA
1 TTTTTTCT-TTTACTTTTTCTTATCA
13111512 -TTTTTCTTTTA
1 TTTTTTCTTTTA
13111523 AAATTTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
23 4 0.12
24 7 0.21
25 11 0.32
26 12 0.35
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTTTCTTTTACTTTTTCTTATCA
Found at i:13111517 original size:11 final size:12
Alignment explanation
Indices: 13111463--13111520 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 12
13111453 ATTTTTCTCT
*
13111463 TTTTTCTTTTAC
1 TTTTTCTTTCAC
* *
13111475 TTTTTTTTATCAT
1 TTTTTCTT-TCAC
*
13111488 TTTTTCTATTTAC
1 TTTTTCT-TTCAC
13111501 TTTTTCTTTCA-
1 TTTTTCTTTCAC
13111512 TTTTTCTTT
1 TTTTTCTTT
13111521 TAAAATTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
11 9 0.24
12 10 0.27
13 17 0.46
14 1 0.03
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTTTCAC
Found at i:13111744 original size:16 final size:15
Alignment explanation
Indices: 13111677--13111744 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 15
13111667 AACAACTCGA
13111677 TTTTCTT-TTTTTTT
1 TTTTCTTCTTTTTTT
* *
13111691 ATTTTTTATTTTTTTTCT
1 -TTTTCT-TCTTTTTT-T
*
13111709 TTTTCATCTTATTTTT
1 TTTTCTTCTT-TTTTT
13111725 TTTTCTTCTTTTATTT
1 TTTTCTTCTTTT-TTT
13111741 TTTT
1 TTTT
13111745 ATTAGATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
15 7 0.16
16 21 0.49
17 14 0.33
18 1 0.02
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTCTTCTTTTTTT
Done.