Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 88 of 208
Found at i:30628606 original size:14 final size:15
Alignment explanation
Indices: 30628587--30628631 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
30628577 TTTAAAAATA
30628587 TATAATATT-TATTG
1 TATAATATTATATTG
30628601 TATAAT-TTATATTG
1 TATAATATTATATTG
30628615 TA-AATATATATAATTG
1 TATAATAT-TAT-ATTG
30628631 T
1 T
30628632 GATTTAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 5 0.19
14 14 0.52
15 3 0.11
16 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TATAATATTATATTG
Found at i:30628822 original size:44 final size:43
Alignment explanation
Indices: 30628773--30628858 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 43
30628763 GTTGACATAA
* * *
30628773 AATAGAATTTGTGATAATTATACGTTTAACAATAATTATAATTC
1 AATAGAAATTGTGATAATTACACATTTAA-AATAATTATAATTC
30628817 AATAGAAATTGTGATAATTACACATTTAAAATAATTATAATT
1 AATAGAAATTGTGATAATTACACATTTAAAATAATTATAATT
30628859 TTCATTTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 13 0.33
44 26 0.67
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (43 bp):
AATAGAAATTGTGATAATTACACATTTAAAATAATTATAATTC
Found at i:30646906 original size:4 final size:4
Alignment explanation
Indices: 30646897--30646922 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
30646887 CGTTTTGCAC
30646897 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
30646923 ATAAGCTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:30651353 original size:13 final size:14
Alignment explanation
Indices: 30651326--30651356 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
30651316 ATGAGATGAG
30651326 AATATTATCTTAAA
1 AATATTATCTTAAA
30651340 AATATTAT-TTAAA
1 AATATTATCTTAAA
30651353 AATA
1 AATA
30651357 AAATAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
AATATTATCTTAAA
Found at i:30660954 original size:19 final size:19
Alignment explanation
Indices: 30660930--30660969 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
30660920 TGTGAGTTCA
30660930 CCCTTGAGCTCCGCAATCT
1 CCCTTGAGCTCCGCAATCT
30660949 CCCTTGAGCTCCGCAATCT
1 CCCTTGAGCTCCGCAATCT
30660968 CC
1 CC
30660970 GCTTTCAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.45, G:0.15, T:0.25
Consensus pattern (19 bp):
CCCTTGAGCTCCGCAATCT
Found at i:30661690 original size:36 final size:36
Alignment explanation
Indices: 30661640--30661708 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
30661630 CAAGGGCTAC
30661640 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
* * *
30661676 AATTAGAAGTTGTATACAATTGGAACTCTAAGA
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGA
30661709 TTACATAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (36 bp):
AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
Found at i:30661995 original size:24 final size:25
Alignment explanation
Indices: 30661968--30662015 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
30661958 TTTAAAGAAA
* *
30661968 TAAATAAATTTATTTATTT-TATAT
1 TAAATAAATATAATTATTTGTATAT
30661992 TAAATAAATATAATTATTTGTATA
1 TAAATAAATATAATTATTTGTATA
30662016 CGTAATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAAATAAATATAATTATTTGTATAT
Found at i:30664269 original size:98 final size:98
Alignment explanation
Indices: 30664100--30664295 Score: 342
Period size: 98 Copynumber: 2.0 Consensus size: 98
30664090 AAAATTATAT
* *
30664100 AAAGATATCCACTTGTTGGAAAAATTGGTCATTATTTCTTTTAGAAATGTAAGAGATTCAATCTC
1 AAAGATATCCACTTGTTGGAAAAATTGGCCATTATTTCTTTCAGAAATGTAAGAGATTCAATCTC
30664165 AACTTTTGTTAATGAGGTTATTAATAAATCATC
66 AACTTTTGTTAATGAGGTTATTAATAAATCATC
30664198 AAAGATATCCACTTGTTGGAAAAA-TGGACCCA-TATTTCTTTCAGAAATGTAAGAGATTCAATC
1 AAAGATATCCACTTGTTGGAAAAATTGG--CCATTATTTCTTTCAGAAATGTAAGAGATTCAATC
30664261 TCAACTTTTGTTAATGAGGTTATTAATAAATCATC
64 TCAACTTTTGTTAATGAGGTTATTAATAAATCATC
30664296 TTCTTTGAGA
Statistics
Matches: 94, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
97 3 0.03
98 89 0.95
99 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (98 bp):
AAAGATATCCACTTGTTGGAAAAATTGGCCATTATTTCTTTCAGAAATGTAAGAGATTCAATCTC
AACTTTTGTTAATGAGGTTATTAATAAATCATC
Found at i:30667848 original size:16 final size:16
Alignment explanation
Indices: 30667823--30667877 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
30667813 ATGTTAGGCG
*
30667823 GTAATGGAATAGATGT
1 GTAATAGAATAGATGT
*
30667839 GTAATAGAATAGATGC
1 GTAATAGAATAGATGT
*
30667855 GTAATAGAATAGAAGT
1 GTAATAGAATAGATGT
30667871 GTAATAG
1 GTAATAG
30667878 GTAATTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.44, C:0.02, G:0.27, T:0.27
Consensus pattern (16 bp):
GTAATAGAATAGATGT
Found at i:30668090 original size:18 final size:18
Alignment explanation
Indices: 30668061--30668121 Score: 88
Period size: 18 Copynumber: 3.3 Consensus size: 18
30668051 GCTTATTAAT
30668061 ATAAATAATATATAATTTA
1 ATAAA-AATATATAATTTA
30668080 ATAAAAATATATAATTTA
1 ATAAAAATATATAATTTA
30668098 AT-AAAATATATGAATTTA
1 ATAAAAATATAT-AATTTA
*
30668116 CTAAAA
1 ATAAAA
30668122 TCATAATATA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 9 0.23
18 22 0.56
19 8 0.21
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
ATAAAAATATATAATTTA
Found at i:30673892 original size:21 final size:21
Alignment explanation
Indices: 30673858--30673904 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
30673848 GAATAATTTC
*
30673858 ACTCG-ATTTGATTTGACTCG
1 ACTCGAATTTCATTTGACTCG
*
30673878 ACTCGAATTTCATTTTACTCG
1 ACTCGAATTTCATTTGACTCG
30673899 ACTCGA
1 ACTCGA
30673905 TTCGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (21 bp):
ACTCGAATTTCATTTGACTCG
Found at i:30675277 original size:43 final size:42
Alignment explanation
Indices: 30675210--30675309 Score: 105
Period size: 42 Copynumber: 2.3 Consensus size: 42
30675200 TTCAAAGATT
* * *
30675210 ATAATTTAAATTTTTTTAAATATATAT-TTTTAAGATTTCTT-A
1 ATAATTTTAATTTTTTGAAATATATATATTATAA-ATTT-TTGA
*
30675252 ATAATTTTAATTTTTTGAATTTATATATATTATAAATTTTTGGA
1 ATAATTTTAATTTTTTGAA-ATATATATATTATAAATTTTT-GA
*
30675296 AAAATTTTAATTTT
1 ATAATTTTAATTTT
30675310 GAATTTTTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 19 0.39
43 11 0.22
44 19 0.39
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (42 bp):
ATAATTTTAATTTTTTGAAATATATATATTATAAATTTTTGA
Found at i:30677107 original size:41 final size:41
Alignment explanation
Indices: 30677062--30677145 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
30677052 ACCAATCGAG
30677062 CATTCCGTGATCCAAGTTGTCGAAAATCCTTGACAATTGTC
1 CATTCCGTGATCCAAGTTGTCGAAAATCCTTGACAATTGTC
* *
30677103 CATTCCGTGATCCAAGTTGTCGAGAATCCTTGACATTTGTC
1 CATTCCGTGATCCAAGTTGTCGAAAATCCTTGACAATTGTC
30677144 CA
1 CA
30677146 ATAAATTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (41 bp):
CATTCCGTGATCCAAGTTGTCGAAAATCCTTGACAATTGTC
Found at i:30680428 original size:18 final size:18
Alignment explanation
Indices: 30680405--30680443 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
30680395 AATAGCATCA
30680405 GTACTTGGTTATTCTTCT
1 GTACTTGGTTATTCTTCT
*
30680423 GTACTTGGTTCTTCTTCT
1 GTACTTGGTTATTCTTCT
30680441 GTA
1 GTA
30680444 GGCTCAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.18, G:0.18, T:0.54
Consensus pattern (18 bp):
GTACTTGGTTATTCTTCT
Found at i:30686684 original size:2 final size:2
Alignment explanation
Indices: 30686677--30686709 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30686667 TCAGTAACTT
30686677 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
30686710 TATATATAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:30697881 original size:29 final size:28
Alignment explanation
Indices: 30697813--30697881 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
30697803 ATTATAAGTT
*
30697813 AAATT-AAAAAAAAGAAACAAATAGTAA
1 AAATTAAAAAAAAAGAAACAAAAAGTAA
* * * *
30697840 AATAATAATAAAAAAGAAAGAACAAATTAA
1 AA-ATTAAAAAAAAAGAAACAA-AAAGTAA
30697870 AAATTAAAAAAA
1 AAATTAAAAAAA
30697882 TAACCTGATA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
27 2 0.06
28 2 0.06
29 21 0.66
30 7 0.22
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (28 bp):
AAATTAAAAAAAAAGAAACAAAAAGTAA
Found at i:30713969 original size:52 final size:52
Alignment explanation
Indices: 30713890--30714008 Score: 193
Period size: 52 Copynumber: 2.2 Consensus size: 52
30713880 TACTTCTGAT
*
30713890 CAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGA
*
30713943 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGA
*
30713995 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
30714009 GCTACACTTA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
52 44 0.71
53 18 0.29
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGA
Found at i:30714018 original size:37 final size:37
Alignment explanation
Indices: 30713971--30714117 Score: 226
Period size: 37 Copynumber: 4.0 Consensus size: 37
30713961 TGATAGCTTC
* *
30713971 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
30714008 GGCTACACTTATCTGATCAAGAAACAAAATGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
30714045 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
**
30714082 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
30714117 G
1 G
30714118 ATCATACGTA
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:30715346 original size:30 final size:30
Alignment explanation
Indices: 30715312--30715374 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
30715302 ACTTAACAAG
*
30715312 CAAATGCCTCTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* * * *
30715342 CAAATGCTTTTAAAATATTAACAATATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
30715372 CAA
1 CAA
30715375 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.30
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:30730839 original size:21 final size:21
Alignment explanation
Indices: 30730799--30730839 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30730789 CTCCCTTTTA
* *
30730799 ATCACCACCGTCCATTTTCCC
1 ATCACAACCGTCCATGTTCCC
*
30730820 ATCACAACCGTCTATGTTCC
1 ATCACAACCGTCCATGTTCC
30730840 TCTTCACTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.41, G:0.07, T:0.29
Consensus pattern (21 bp):
ATCACAACCGTCCATGTTCCC
Found at i:30732622 original size:20 final size:20
Alignment explanation
Indices: 30732597--30732646 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
30732587 TGGCTTAAAA
30732597 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
30732617 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
30732634 GTGGTAGTGGATT
1 TTGGTAGTGGATT
30732647 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:30737261 original size:20 final size:20
Alignment explanation
Indices: 30737236--30737285 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
30737226 TGGCTTAAAA
30737236 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
30737256 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
30737273 GTGGTAGTGGATT
1 TTGGTAGTGGATT
30737286 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:30743635 original size:21 final size:21
Alignment explanation
Indices: 30743611--30743661 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
30743601 TTTAGATATG
* *
30743611 TATTATTTATATTTATAATTA
1 TATTATTTAAACTTATAATTA
*
30743632 TATTAATTAAACTTATAATTA
1 TATTATTTAAACTTATAATTA
30743653 TATATATTT
1 TAT-TATTT
30743662 TTTACAACTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTATTTAAACTTATAATTA
Found at i:30746828 original size:21 final size:21
Alignment explanation
Indices: 30746804--30746846 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
30746794 TACATAAAAT
* *
30746804 ATAAGTTAAATAATATAATTA
1 ATAACTTAAATAACATAATTA
*
30746825 ATAACTTAAATAACATGATTA
1 ATAACTTAAATAACATAATTA
30746846 A
1 A
30746847 ATAGGAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
ATAACTTAAATAACATAATTA
Found at i:30754261 original size:5 final size:5
Alignment explanation
Indices: 30754251--30754276 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30754241 CTCGAAAATT
30754251 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
30754277 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:30755383 original size:14 final size:14
Alignment explanation
Indices: 30755364--30755391 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30755354 CCACCACCTG
30755364 TTAAAGTAATTAAT
1 TTAAAGTAATTAAT
30755378 TTAAAGTAATTAAT
1 TTAAAGTAATTAAT
30755392 ATGAAATAAC
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:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TTAAAGTAATTAAT
Found at i:30757509 original size:15 final size:15
Alignment explanation
Indices: 30757489--30757519 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30757479 TCAATGTCAA
30757489 AAGCTTACAAATACT
1 AAGCTTACAAATACT
30757504 AAGCTTACAAATACT
1 AAGCTTACAAATACT
30757519 A
1 A
30757520 CCATAATTCT
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:0.48, C:0.19, G:0.06, T:0.26
Consensus pattern (15 bp):
AAGCTTACAAATACT
Found at i:30768523 original size:26 final size:24
Alignment explanation
Indices: 30768468--30768523 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
30768458 AAAAAATTAA
*
30768468 TTTTTAAAATTATAAATATTTTTT
1 TTTTTAAAATTATAAATATTTTAT
* *
30768492 TCTTTTACAATTTATTAATCATTTTAT
1 T-TTTTA-AAATTATAAAT-ATTTTAT
30768519 TTTTT
1 TTTTT
30768524 CCCAAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.04
25 5 0.19
26 13 0.50
27 7 0.27
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTTAAAATTATAAATATTTTAT
Found at i:30769680 original size:12 final size:10
Alignment explanation
Indices: 30769654--30769700 Score: 58
Period size: 10 Copynumber: 4.4 Consensus size: 10
30769644 AACTAAATCC
30769654 TTTCTCTCAA
1 TTTCTCTCAA
30769664 TTTCTCTCTAA
1 TTTCTCTC-AA
30769675 TATTCTCTCAAA
1 T-TTCTCTC-AA
*
30769687 TTCCTCTCAA
1 TTTCTCTCAA
30769697 TTTC
1 TTTC
30769701 CTATTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 13 0.41
11 9 0.28
12 10 0.31
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.49
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:30770878 original size:7 final size:7
Alignment explanation
Indices: 30770866--30770898 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
30770856 TAGTCGATTG
30770866 GTATTTA
1 GTATTTA
30770873 GTATTTA
1 GTATTTA
30770880 GTATTTA
1 GTATTTA
30770887 GTATTTA
1 GTATTTA
30770894 GTATT
1 GTATT
30770899 ATGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:30772016 original size:111 final size:111
Alignment explanation
Indices: 30771822--30772043 Score: 426
Period size: 111 Copynumber: 2.0 Consensus size: 111
30771812 ATTCTATACT
30771822 GCTACCAAACATGGGTTGTTCCGTGTTTTGTAACCCACTAATCGAGTGTCGGGCAGGGGTCGTGT
1 GCTACCAAACATGGGTTGTTCCGTGTTTTGTAACCCACTAATCGAGTGTCGGGCAGGGGTCGTGT
*
30771887 ATGCCTCTCGAACAGCAGTCGCAAGTGCATCATTTGGCGATATAAA
66 ATACCTCTCGAACAGCAGTCGCAAGTGCATCATTTGGCGATATAAA
*
30771933 GCTACCAAACATGGGTTGTTCCGTGTTTTGTAACCCACTAATTGAGTGTCGGGCAGGGGTCGTGT
1 GCTACCAAACATGGGTTGTTCCGTGTTTTGTAACCCACTAATCGAGTGTCGGGCAGGGGTCGTGT
30771998 ATACCTCTCGAACAGCAGTCGCAAGTGCATCATTTGGCGATATAAA
66 ATACCTCTCGAACAGCAGTCGCAAGTGCATCATTTGGCGATATAAA
30772044 TTGTACATAT
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 109 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (111 bp):
GCTACCAAACATGGGTTGTTCCGTGTTTTGTAACCCACTAATCGAGTGTCGGGCAGGGGTCGTGT
ATACCTCTCGAACAGCAGTCGCAAGTGCATCATTTGGCGATATAAA
Found at i:30772685 original size:126 final size:125
Alignment explanation
Indices: 30772460--30772992 Score: 811
Period size: 126 Copynumber: 4.3 Consensus size: 125
30772450 GACCAAACAA
30772460 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCG-GTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
*
30772525 CTGCTTAAAGCGTTTTTAACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAG
65 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAG
* *
30772586 GAGCTACTGTAGCAAAAGCGGATCCACATGGGAGCTTCTTTCAGTACTTTTGTTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGG-TCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
**
30772651 CTGCTTAAAGAATTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAG
65 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAG
*
30772712 GAGCTACTGT------A---G--CACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCC
1 GAGCTACTGTAGCAAAAGCGGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCC
*
30772766 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTAGTTTTTCAG
66 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAG
* * *
30772826 GAGCTACTGTAGCAAAAGCGCGTCAACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAATGCATC
1 GAGCTACTGTAGCAAAAGCG-GTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * *
30772891 CTGTTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTTA-TCGAAATTATTTTTTTAG
65 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTC-TACTCGAAATTATTTTTTCAG
*
30772952 GAGCTACTGTAGCAAAAGTGAGTCCACGTGGGAGCTTCTTT
1 GAGCTACTGTAGCAAAAGCG-GTCCACGTGGGAGCTTCTTT
30772993 AAATTAACAA
Statistics
Matches: 372, Mismatches: 21, Indels: 28
0.88 0.05 0.07
Matches are distributed among these distances:
114 106 0.28
117 1 0.00
120 2 0.01
124 1 0.00
125 1 0.00
126 259 0.70
127 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (125 bp):
GAGCTACTGTAGCAAAAGCGGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCC
TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAG
Found at i:30772914 original size:240 final size:240
Alignment explanation
Indices: 30772484--30772965 Score: 815
Period size: 240 Copynumber: 2.0 Consensus size: 240
30772474 AAAGCGCGTC
*
30772484 CACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTAACACTA
1 CACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTAACACTA
* *
30772549 TTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGAGCTACTGTAGCAAAAGCGGATCCACA
66 TTTGCTCAGAAACGTCTACTCGAAATTAGTTTTTCAGGAGCTACTGTAGCAAAAGCGGATCAACA
* *
30772614 TGGGAGCTTCTTTCAGTACTTTTGTTGACAAAGCATCCTGCTTAAAGAATTTTTGACACTATTTG
131 TGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGAATTTTTGACACTATTTG
*
30772679 CTCAGAAACGTC-TACTCGAAATTATTTTTTCAGGAGCTACTGTAG
196 CTCAAAAACGTCTTA-TCGAAATTATTTTTTCAGGAGCTACTGTAG
*
30772724 CACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTGACACTA
1 CACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTAACACTA
30772789 TTTGCTCAGAAACGTCTACTCGAAATTAGTTTTTCAGGAGCTACTGTAGCAAAAGCGCG-TCAAC
66 TTTGCTCAGAAACGTCTACTCGAAATTAGTTTTTCAGGAGCTACTGTAGCAAAAGCG-GATCAAC
* * * **
30772853 GTGAGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGTTTAAAGCGTTTTTGACACTATTT
130 ATGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGAATTTTTGACACTATTT
*
30772918 GCTCAAAAACGTCTTATCGAAATTATTTTTTTAGGAGCTACTGTAG
195 GCTCAAAAACGTCTTATCGAAATTATTTTTTCAGGAGCTACTGTAG
30772964 CA
1 CA
30772966 AAAGTGAGTC
Statistics
Matches: 227, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
240 224 0.99
241 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (240 bp):
CACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTAACACTA
TTTGCTCAGAAACGTCTACTCGAAATTAGTTTTTCAGGAGCTACTGTAGCAAAAGCGGATCAACA
TGAGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCTGCTTAAAGAATTTTTGACACTATTTG
CTCAAAAACGTCTTATCGAAATTATTTTTTCAGGAGCTACTGTAG
Found at i:30773394 original size:95 final size:96
Alignment explanation
Indices: 30773025--30773423 Score: 439
Period size: 95 Copynumber: 4.2 Consensus size: 96
30773015 AGTAACCCTA
* * * * *
30773025 AACCCCAAACTCTAATTTATTTGAGTTTTTACTT-AAAACCCTAAACACTAAACTCTAATCTAAT
1 AACCCTAAACCCTAATTTAATTGA-TTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAT
* *
30773089 TTTTTAAAAATTTATAATTAATTTACTCAAGT
65 TTTTTAAAAAATTATAATTAAATTACTCAAGT
* * * * *
30773121 AACCTTAAACCCTAATTTATTTAATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAATT
1 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAA-T
* *
30773186 TTTTTTAAAAATTTTAATTAAATTACTCAAGT
65 TTTTTAAAAAATTATAATTAAATTACTCAAGT
* * * * *
30773218 AACCTTAAACCGC-AATTTATTTGATTTTTTCTTAAAAATCCTTAACACTAAACCCTGATCTAA-
1 AACCCTAAACC-CTAATTTAATTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAT
*** *
30773281 TTTTTAAATTTTTTTAATTAAATTACTCAAGT
65 TTTTTAAAAAATTATAATTAAATTACTCAAGT
* * *
30773313 AACCCTAAACCCTAATTTAATTGATTTTTTCTTTAAAAACCATAAACACGAAA-CCTAATCCAA-
1 AACCCTAAACCCTAATTTAATTGATTTTTTC-TTAAAAACCCTAAACACTAAACCCTAATCTAAT
* * * ** *
30773376 TTTTAAAAAAATTATAATTAATTTAATTGAGA
65 TTTTTAAAAAATTATAATTAAATTACTCAAGT
30773408 AACCCTAAACCCTAAT
1 AACCCTAAACCCTAAT
30773424 CCCTAATCCC
Statistics
Matches: 261, Mismatches: 37, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
94 1 0.00
95 109 0.42
96 64 0.25
97 86 0.33
98 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.39
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATT
TTTTAAAAAATTATAATTAAATTACTCAAGT
Found at i:30775921 original size:89 final size:89
Alignment explanation
Indices: 30775766--30776621 Score: 1093
Period size: 89 Copynumber: 9.6 Consensus size: 89
30775756 AACAGATCAG
* * *
30775766 TGAAGATAGCAGATCTAGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGTCTTACCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
30775831 TCCTGTAGTGACAGCGGAGCAAAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * *
30775855 TGAAGATAGTAGATATTGCCTTCCTGTACTAACGGTAAAGCAGATCGAAGACACCAGTCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
30775920 TCTTATACTGACAGCAGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * * *
30775944 TGAAGATAGCAGATCTTGCCTTCATATAGTGACGGCGAAGTAAATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
*
30776009 TCCTGTACTGACAGCGGAGCAAAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * *
30776033 TGAAGATAGTAAATTTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
30776098 TCTTGTATTGACAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * *
30776122 TGAAGATAGCAAATCTTGCCTTCCTGTACT-AAGGTGAAGCAGATCGAAGACACCAGCTTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
30776186 TCTTGTACTGACAGCGGAGCAGAT
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * * *
30776210 TGAAGATAGCAGATCTTACCTTCCGGTACTGACGATGAAGCAAATCGAAGACACTAGCATTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
30776275 TCCTGTACTAACAGCGGAGTAGAT
66 TCCTGTACTGACAGCGGAGCAGAC
* * * *
30776299 TAAATATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAACCTTGCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
*
30776364 TCCTGTACTGACAGCGGAGTAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * * **
30776388 TGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGTAGATCGAAGAAACTAATCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
30776453 TCCTGTACTGACAGTGAAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * *
30776477 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGTCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * *
30776542 TCCTATAATGACAGCGAAGTATAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * *
30776566 TGAAGATAACAGATCTTGCATTTCTATACTGACGGCGAAGCAGATCGAAGACACCA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCA
30776622 TAGTTTGCAA
Statistics
Matches: 665, Mismatches: 101, Indels: 2
0.87 0.13 0.00
Matches are distributed among these distances:
88 81 0.12
89 584 0.88
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (89 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
TCCTGTACTGACAGCGGAGCAGAC
Found at i:30776076 original size:178 final size:178
Alignment explanation
Indices: 30775766--30777408 Score: 1693
Period size: 178 Copynumber: 9.3 Consensus size: 178
30775756 AACAGATCAG
* * *
30775766 TGAAGATAGCAGATCTAGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGTCTTACCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * **
30775831 TCCTGTAGTGACAGCGGAGCAAACTGAAGATAGTAGATATTGCCTTCCTGTACTAACGGTAAAGC
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACGGCGAAGC
* * * *
30775896 AGATCGAAGACACCAGTCTTGCCTTCTTATACTGACAGCAGAGCAGAC
131 AGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* * * * * *
30775944 TGAAGATAGCAGATCTTGCCTTCATATAGTGACGGCGAAGTAAATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * *
30776009 TCCTGTACTGACAGCGGAGCAAACTGAAGATAGTAAATTTTGCCTTCCTGTACTGACGGTGAAGC
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACGGCGAAGC
* *
30776074 AGATCGAAGACACCAGCCTTGCCTTCTTGTATTGACAGCGGAGCAGAC
131 AGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* * *
30776122 TGAAGATAGCAAATCTTGCCTTCCTGTACT-AAGGTGAAGCAGATCGAAGACACCAGCTTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * * **
30776186 TCTTGTACTGACAGCGGAGCAGATTGAAGATAGCAGATCTTACCTTCCGGTACTGACGATGAAGC
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACGGCGAAGC
* * * * * *
30776251 AAATCGAAGACACTAGCATTGCCTTCCTGTACTAACAGCGGAGTAGAT
131 AGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* * * *
30776299 TAAATATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAACCTTGCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * *
30776364 TCCTGTACTGACAGCGGAGTAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGT
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACGGCGAAGC
* * ** * *
30776429 AGATCGAAGAAACTAATCTTGCCTTCCTGTACTGACAGTGAAGCAGAC
131 AGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* * * * *
30776477 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGTCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * * ** * * *
30776542 TCCTATAATGACAGCGAAGTATACTGAAGATAACAGATCTTGCATTTCTATACTGACGGCGAAGC
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACGGCGAAGC
* * ** *** ** *
30776607 AGATCGAAGACACCA---TAG--TT--TGCAACAAAGCAGTTAAAAAGAT
131 AGATCGAAGACACCAGCCTTGCCTTCCTG-TACTGA-CAGCGGAGCAGAC
* * * * * * ****
30776650 TGAAGCTCCAACAATGAATCTT-ACTTCC-CTA-AG-CAGTAGTGGAGCAGATCGAAGATGGTGA
1 TGAAGAT--AGC-A-G-ATCTTGCCTTCCTGTACTGAC-G--GTGAAGCAGATCGAAGA-CACCA
** ** * * * * * * *
30776711 ATCTTATCTTCC--CA-AGATAGTGGAGAAG-C-G--GAT-TTA-A----GCCTTCCTATACTGA
57 GCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGA
* * *
30776763 G-GTGAAGCAGATCGAAGACACCAGCTTTGCCTTCCTGTACTGACAGCGGAGCAGAC
122 CGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* * * * * * *
30776819 TGAAGATAGTAGATCTTACCTTCCGGTACTGACGATGAAGCAGATTGAAGACACTAGCCTTGCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * * *
30776884 TCCTGTACTGACAGTGGAGCAGATTAAAGAAAGTAGATCTTGCCTTCTTGTACTGACGGCGAAGT
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACGGCGAAGC
*
30776949 AGATCGAAGACACCAACCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
131 AGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* * * * * *
30776997 TGAAGATAGCAAATCTTGCCTTCCTATACTGACGGTAAAGCAGATCGAATACACTAGCTTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
30777062 TCTTGTACTGACAGCAGAGCAGACTGAAGATAGCT-GATCTTACCTTCCTGTACTGACGGCGAAG
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAG-TAGATCTTGCCTTCCTGTACTGACGGCGAAG
* *
30777126 CAGATTGAAGATACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
130 CAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* * * * * *
30777175 TGAAGATAGCAAATTTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACTAACCTTACCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
30777240 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTTCTGTACTGACAGCGAAGC
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACGGCGAAGC
* * * *
30777305 AGATCGAAAACACCAGCCTTGCCTTCCTATAATGACAGCGGAGCATAC
131 AGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* * *
30777353 TGAAGATAGCAGATCTTGCATTCCTATACTGACGGCGAAGCAGATCGAAGACACCA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCA
30777409 TAGTTTGTAA
Statistics
Matches: 1207, Mismatches: 219, Indels: 78
0.80 0.15 0.05
Matches are distributed among these distances:
164 34 0.03
165 33 0.03
166 4 0.00
167 16 0.01
168 1 0.00
169 16 0.01
170 4 0.00
171 9 0.01
172 5 0.00
173 19 0.02
174 2 0.00
175 12 0.01
176 4 0.00
177 186 0.15
178 861 0.71
179 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (178 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
TCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACGGCGAAGC
AGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
Found at i:30776615 original size:267 final size:267
Alignment explanation
Indices: 30775766--30777408 Score: 1717
Period size: 267 Copynumber: 6.2 Consensus size: 267
30775756 AACAGATCAG
* * *
30775766 TGAAGATAGCAGATCTAGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGTCTTACCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * * * **
30775831 TCCTGTAGTGACAGCGGAGCAAACTGAAGATAGTAGATATTGCCTTCCTGTACTAACGGTAAAGC
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGC
* * * * *
30775896 AGATCGAAGACACCAGTCTTGCCTTCTTATACTGACAGCAGAGCAGACTGAAGATAGCAGATCTT
131 AGATCGAAGACACTAATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTT
* * * *
30775961 GCCTTCATATAGTGACGGCGAAGTAAATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGG
196 GCCTTCCTATACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGG
*
30776026 AGCAAAC
261 AGCAGAC
* * *
30776033 TGAAGATAGTAAATTTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * *
30776098 TCTTGTATTGACAGCGGAGCAGACTGAAGATAGCAAATCTTGCCTTCCTGTACT-AAGGTGAAGC
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGC
* * * *
30776162 AGATCGAAGACAC-CAGCTTTGCCTTCTTGTACTGACAGCGGAGCAGATTGAAGATAGCAGATCT
131 AGATCGAAGACACTAATC-TTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCT
* ** ** * * * *
30776226 TACCTTCCGGTACTGACGATGAAGCAAATCGAAGACACTAGCATTGCCTTCCTGTACTAACAGCG
195 TGCCTTCCTATACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCG
* *
30776291 GAGTAGAT
260 GAGCAGAC
* * * *
30776299 TAAATATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAACCTTGCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
30776364 TCCTGTACTGACAGCGGAGTAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGT
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGC
* * * *
30776429 AGATCGAAGAAACTAATCTTGCCTTCCTGTACTGACAGTGAAGCAGACTGAAGATAGTAGATCTT
131 AGATCGAAGACACTAATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTT
* * * * * * *
30776494 GCCTTCCTGTACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGTCTTCCTATAATGACAGCGA
196 GCCTTCCTATACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGG
* *
30776559 AGTATAC
261 AGCAGAC
* * * * * *
30776566 TGAAGATAACAGATCTTGCATTTCTATACTGACGGCGAAGCAGATCGAAGACACCA---TAG--T
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* ** *** ** * * * * * *
30776626 T--TGCAACAAAGCAGTTAAAAAGATTGAAGCTCCAACAATGAATCTT-ACTTCCCT-AAGCAGT
66 TCCTG-TACTGA-CAGCGGAGCAGACTGAAGAT--AGC-A--AATCTTGCCTT-CCTGTA-CTG-
*** ** * *
30776687 A-GTG-G-AGCAGATCGAAGATGGTGAATCTTATCTTCC----C--A-A---GA-TAG--TGGAG
121 ACG-GCGAAGCAGATCGAAGACACT-AATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAG
* * *
30776736 A-AGCGGAT-TTAAGCCTTCCTATACTGA-GGTGAAGCAGATCGAAGACACCAGCTTTGCCTTCC
184 ATAGCAGATCTT--GCCTTCCTATACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCC
30776798 TGTACTGACAGCGGAGCAGAC
247 TGTACTGACAGCGGAGCAGAC
* * * * * * *
30776819 TGAAGATAGTAGATCTTACCTTCCGGTACTGACGATGAAGCAGATTGAAGACACTAGCCTTGCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * * * * *
30776884 TCCTGTACTGACAGTGGAGCAGATTAAAGAAAGTAGATCTTGCCTTCTTGTACTGACGGCGAAGT
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGC
* * *
30776949 AGATCGAAGACACCAACCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAATCTT
131 AGATCGAAGACACTAATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTT
** * * * * *
30777014 GCCTTCCTATACTGACGGTAAAGCAGATCGAATACACTAGCTTTGCCTTCTTGTACTGACAGCAG
196 GCCTTCCTATACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGG
30777079 AGCAGAC
261 AGCAGAC
* * * * *
30777086 TGAAGATAGCTGATCTTACCTTCCTGTACTGACGGCGAAGCAGATTGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
*
30777151 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAATTTTGCCTTCCTGTACTGACGGCGAAGC
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGC
* * *
30777216 AGATCGAAGACACTAACCTTACCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTT
131 AGATCGAAGACACTAATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTT
* * * * * *
30777281 GCCTTTCTGTACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGCCTTCCTATAATGACAGCGG
196 GCCTTCCTATACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGG
*
30777346 AGCATAC
261 AGCAGAC
* * *
30777353 TGAAGATAGCAGATCTTGCATTCCTATACTGACGGCGAAGCAGATCGAAGACACCA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCA
30777409 TAGTTTGTAA
Statistics
Matches: 1130, Mismatches: 201, Indels: 90
0.80 0.14 0.06
Matches are distributed among these distances:
252 4 0.00
253 117 0.10
254 35 0.03
255 1 0.00
256 5 0.00
257 2 0.00
258 15 0.01
259 4 0.00
260 6 0.01
261 4 0.00
262 15 0.01
263 3 0.00
264 6 0.01
265 2 0.00
266 269 0.24
267 636 0.56
268 6 0.01
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (267 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
TCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGC
AGATCGAAGACACTAATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTT
GCCTTCCTATACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGG
AGCAGAC
Found at i:30776903 original size:89 final size:89
Alignment explanation
Indices: 30776748--30777408 Score: 894
Period size: 89 Copynumber: 7.4 Consensus size: 89
30776738 GCGGATTTAA
* * *
30776748 GCCTTCCTATACTGA-GGTGAAGCAGATCGAAGACACCAGCTTTGCCTTCCTGTACTGACAGCGG
1 GCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGG
30776812 AGCAGACTGAAGATAGTAGATCTT
66 AGCAGACTGAAGATAGTAGATCTT
* * ** * * * *
30776836 ACCTTCCGGTACTGACGATGAAGCAGATTGAAGACACTAGCCTTGCTTTCCTGTACTGACAGTGG
1 GCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGG
* * *
30776901 AGCAGATTAAAGAAAGTAGATCTT
66 AGCAGACTGAAGATAGTAGATCTT
* * *
30776925 GCCTTCTTGTACTGACGGCGAAGTAGATCGAAGACACCAACCTTGCCTTCCTGTACTGACAGCGG
1 GCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGG
* *
30776990 AGCAGACTGAAGATAGCAAATCTT
66 AGCAGACTGAAGATAGTAGATCTT
* ** * * * * *
30777014 GCCTTCCTATACTGACGGTAAAGCAGATCGAATACACTAGCTTTGCCTTCTTGTACTGACAGCAG
1 GCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGG
30777079 AGCAGACTGAAGATAGCT-GATCTT
66 AGCAGACTGAAGATAG-TAGATCTT
* * *
30777103 ACCTTCCTGTACTGACGGCGAAGCAGATTGAAGATACCAGCCTTGCCTTCCTGTACTGACAGCGG
1 GCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGG
* * *
30777168 AGCAGACTGAAGATAGCAAATTTT
66 AGCAGACTGAAGATAGTAGATCTT
* * *
30777192 GCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACTAACCTTACCTTCCTGTACTGACAGCGG
1 GCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGG
30777257 AGCAGACTGAAGATAGTAGATCTT
66 AGCAGACTGAAGATAGTAGATCTT
* * * * *
30777281 GCCTTTCTGTACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGCCTTCCTATAATGACAGCGG
1 GCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGG
* *
30777346 AGCATACTGAAGATAGCAGATCTT
66 AGCAGACTGAAGATAGTAGATCTT
* *
30777370 GCATTCCTATACTGACGGCGAAGCAGATCGAAGACACCA
1 GCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCA
30777409 TAGTTTGTAA
Statistics
Matches: 491, Mismatches: 79, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
88 12 0.02
89 479 0.98
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (89 bp):
GCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGG
AGCAGACTGAAGATAGTAGATCTT
Found at i:30777499 original size:787 final size:786
Alignment explanation
Indices: 30775987--30777535 Score: 2495
Period size: 787 Copynumber: 2.0 Consensus size: 786
30775977 GGCGAAGTAA
* *
30775987 ATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAAACTGAAGATAGTAAATTTTGC
1 ATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAAACTGAAGATAGTAAATCTTAC
* * * *
30776052 CTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAGCCTTGCCTTCTTGTATTGACAGCGGAG
66 CTTCCGGTACTGACGATGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAG
* * * * *
30776117 CAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTAAGGTGAAGCAGATCGAAGACACCAGCTTT
131 CAGACTAAAGAAAGCAAATCTTGCCTTCCTGTACTAAGGCGAAGCAGATCGAAGACACCAACCTT
* * * * *
30776182 GCCTTCTTGTACTGACAGCGGAGCAGATTGAAGATAGCAGATCTTACCTTCCGGTACTGACGATG
196 GCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAATCTTACCTTCCGATACTGACGATA
* * * *
30776247 AAGCAAATCGAAGACACTAGCATTGCCTTCCTGTACTAACAGCGGAGTAGATTAAATATAGCAGA
261 AAGCAAATCGAAGACACTAGCATTGCCTTCCTGTACTAACAGCAGAGCAGACTAAAGATAGCAGA
* * *
30776312 TCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGACACCAACCTTGCTTTCCTGTACTGACA
326 TCTTACCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAACCTTGCCTTCCTGTACTGACA
* *
30776377 GCGGAGTAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGTAGATCGAAGAAAC
391 GCGGAGCAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAAC
* * *
30776442 TAATCTTGCCTTCCTGTACTGACAGTGAAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACT
456 TAACCTTACCTTCCTGTACTGACAGCGAAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACT
* *
30776507 GACAGCGAAGCAGATCGAAAACACCAGCCTTGTCTTCCTATAATGACAGCGAAGTATACTGAAGA
521 GACAGCGAAGCAGATCGAAAACACCAGCCTTGCCTTCCTATAATGACAGCGAAGCATACTGAAGA
*
30776572 TAACAGATCTTGCATTTCTATACTGACGGCGAAGCAGATCGAAGACACCATAGTTTGCAACAAAG
586 TAACAGATCTTGCATTCCTATACTGACGGCGAAGCAGATCGAAGACACCATAGTTTGCAACAAAG
30776637 CAGTTAAAAAGATTGAAGCTCCAACAATGAATCTTACTTCCCTAAGCAGTAGTGGAGCAGATCGA
651 CAGTTAAAAAGATTGAAGCTCCAACAATGAATCTTACTTCCCTAAGCAGTAGTGGAGCAGATCGA
*
30776702 AGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCGGATTTAAGCCTTCCTATACTGAGGTG
716 AGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCGAATTTAAGCCTTCCTATACTGAGGTG
30776767 AAGCAG
781 AAGCAG
* * *
30776773 ATCGAAGACACCAGCTTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTAC
1 ATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAAACTGAAGATAGTAAATCTTAC
* * * *
30776838 CTTCCGGTACTGACGATGAAGCAGATTGAAGACACTAGCCTTGCTTTCCTGTACTGACAGTGGAG
66 CTTCCGGTACTGACGATGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAG
* * * * * *
30776903 CAGATTAAAGAAAGTAGATCTTGCCTTCTTGTACTGACGGCGAAGTAGATCGAAGACACCAACCT
131 CAGACTAAAGAAAGCAAATCTTGCCTTCCTGTACT-AAGGCGAAGCAGATCGAAGACACCAACCT
* * *
30776968 TGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAATCTTGCCTTCCTATACTGACGGT
195 TGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAATCTTACCTTCCGATACTGACGAT
* * * * * * *
30777033 AAAGCAGATCGAATACACTAGCTTTGCCTTCTTGTACTGACAGCAGAGCAGACTGAAGATAGCTG
260 AAAGCAAATCGAAGACACTAGCATTGCCTTCCTGTACTAACAGCAGAGCAGACTAAAGATAGCAG
* * *
30777098 ATCTTACCTTCCTGTACTGACGGCGAAGCAGATTGAAGATACCAGCCTTGCCTTCCTGTACTGAC
325 ATCTTACCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAACCTTGCCTTCCTGTACTGAC
* *
30777163 AGCGGAGCAGACTGAAGATAGCAAATTTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACA
390 AGCGGAGCAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAA
* *
30777228 CTAACCTTACCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTTCTGTAC
455 CTAACCTTACCTTCCTGTACTGACAGCGAAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTAC
*
30777293 TGACAGCGAAGCAGATCGAAAACACCAGCCTTGCCTTCCTATAATGACAGCGGAGCATACTGAAG
520 TGACAGCGAAGCAGATCGAAAACACCAGCCTTGCCTTCCTATAATGACAGCGAAGCATACTGAAG
* *
30777358 ATAGCAGATCTTGCATTCCTATACTGACGGCGAAGCAGATCGAAGACACCATAGTTTGTAACAAA
585 ATAACAGATCTTGCATTCCTATACTGACGGCGAAGCAGATCGAAGACACCATAGTTTGCAACAAA
*
30777423 GCAGTTAAAAAGATTGAAGCTCCAACAATGAATCTTACTTCCCTAAGCAGTAGTGTAGCAGATCG
650 GCAGTTAAAAAGATTGAAGCTCCAACAATGAATCTTACTTCCCTAAGCAGTAGTGGAGCAGATCG
30777488 AAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCGAATTTAAG
715 AAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCGAATTTAAG
30777536 TCATTAGTCC
Statistics
Matches: 696, Mismatches: 66, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
786 146 0.21
787 550 0.79
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (786 bp):
ATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAAACTGAAGATAGTAAATCTTAC
CTTCCGGTACTGACGATGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAG
CAGACTAAAGAAAGCAAATCTTGCCTTCCTGTACTAAGGCGAAGCAGATCGAAGACACCAACCTT
GCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAATCTTACCTTCCGATACTGACGATA
AAGCAAATCGAAGACACTAGCATTGCCTTCCTGTACTAACAGCAGAGCAGACTAAAGATAGCAGA
TCTTACCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAACCTTGCCTTCCTGTACTGACA
GCGGAGCAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAAC
TAACCTTACCTTCCTGTACTGACAGCGAAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACT
GACAGCGAAGCAGATCGAAAACACCAGCCTTGCCTTCCTATAATGACAGCGAAGCATACTGAAGA
TAACAGATCTTGCATTCCTATACTGACGGCGAAGCAGATCGAAGACACCATAGTTTGCAACAAAG
CAGTTAAAAAGATTGAAGCTCCAACAATGAATCTTACTTCCCTAAGCAGTAGTGGAGCAGATCGA
AGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCGAATTTAAGCCTTCCTATACTGAGGTG
AAGCAG
Found at i:30777619 original size:132 final size:132
Alignment explanation
Indices: 30777462--30777950 Score: 773
Period size: 132 Copynumber: 3.7 Consensus size: 132
30777452 GAATCTTACT
*
30777462 TCCCTAAGCAGTAGTGTAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGC
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGC
* * * * *
30777527 -GAATTTAAGTCATTAGTCCTATCTCCCTAAGCAGTAGTTGAGTGGGTTGACGATTGCAGATTCT
66 AG-ATTTAAGCCATTAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATTCT
30777591 GTC
130 GTC
* * *
30777594 TCTCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATATTATCTTCCCAAGATAGTGGATAAGC
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGC
* *
30777659 AGATTTAAGCCATTAGTCATATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATTCTG
66 AGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATTCTG
30777724 TC
131 TC
* * * *
30777726 TCCCGAAGCAGTAGTGGAGCAGATCGAAGATGGTTAATCTTATCTTCCCAATATAGTGGAGATGC
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGC
*
30777791 AGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAGATTGCAGATTCTG
66 AGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATTCTG
30777856 TC
131 TC
* *
30777858 TCCCTAAGCAGTATTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTAGAGAAGC
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGC
* * *
30777923 ATATTTAAGCCATTATTCTTATCTCCCT
66 AGATTTAAGCCATTAGTCCTATCTCCCT
30777951 GAAGTTGTAG
Statistics
Matches: 326, Mismatches: 30, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
132 325 1.00
133 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGC
AGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATTCTG
TC
Found at i:30782177 original size:16 final size:17
Alignment explanation
Indices: 30782156--30782187 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
30782146 CTTATATAAA
30782156 ATTTTATAA-ATAATAC
1 ATTTTATAATATAATAC
30782172 ATTTTATAATATAATA
1 ATTTTATAATATAATA
30782188 TAATGTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTTATAATATAATAC
Found at i:30782186 original size:5 final size:5
Alignment explanation
Indices: 30782176--30782214 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
30782166 TAATACATTT
* * *
30782176 TATAA TATAA TATAA TGTAA TATTA TATTA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
30782215 TCATATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (5 bp):
TATAA
Found at i:30782480 original size:68 final size:66
Alignment explanation
Indices: 30782362--30782498 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 66
30782352 AACAACAATT
30782362 AATTTTTTTATTAGCATTATATTTGATTTATCAATATATTAATTATGTTAATTAGCTATTATTTT
1 AATTTTTTTATTAGCATTATATTTGATTTATCAATATATTAATTATGTTAATTAGCTATTATTTT
30782427 G
66 G
30782428 AATTTTTTTATTAGCATTATATTTGATTTATCAATATATATTAATTATGTTAATTAGCTATTATT
1 AATTTTTTTATTAGCATTATATTTGATTTATC-A-ATATATTAATTATGTTAATTAGCTATTATT
30782493 TTG
64 TTG
30782496 AAT
1 AAT
30782499 AATATTATTT
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
66 32 0.46
67 1 0.01
68 36 0.52
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.55
Consensus pattern (66 bp):
AATTTTTTTATTAGCATTATATTTGATTTATCAATATATTAATTATGTTAATTAGCTATTATTTT
G
Found at i:30782506 original size:15 final size:15
Alignment explanation
Indices: 30782486--30782520 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30782476 GTTAATTAGC
30782486 TATTATTTTGAATAA
1 TATTATTTTGAATAA
*
30782501 TATTATTTTGCATAA
1 TATTATTTTGAATAA
30782516 -ATTAT
1 TATTAT
30782521 ATAAAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (15 bp):
TATTATTTTGAATAA
Found at i:30782688 original size:20 final size:20
Alignment explanation
Indices: 30782663--30782700 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30782653 AAAATTAATA
30782663 AAATAAAA-AAATTGTAATTC
1 AAATAAAAGAAATT-TAATTC
30782683 AAATAAAAGAAATTTAAT
1 AAATAAAAGAAATTTAAT
30782701 AGTAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (20 bp):
AAATAAAAGAAATTTAATTC
Found at i:30792462 original size:54 final size:54
Alignment explanation
Indices: 30792394--30792507 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
30792384 ACTATCATAG
30792394 TAGACTACCCCATTTTTATTATC-CTGACGGACAACCCCGCATTTATTATCCCGA
1 TAGACTACCCCATTTTTATTATCTC-GACGGACAACCCCGCATTTATTATCCCGA
* * * * ** * *
30792448 TAGACTATCTCATTTTTATTGTCTCGATGGATTACCCCGCGTTTATTGTCCCGA
1 TAGACTACCCCATTTTTATTATCTCGACGGACAACCCCGCATTTATTATCCCGA
*
30792502 TGGACT
1 TAGACT
30792508 CATATACCAC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 49 0.98
55 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (54 bp):
TAGACTACCCCATTTTTATTATCTCGACGGACAACCCCGCATTTATTATCCCGA
Found at i:30792605 original size:67 final size:66
Alignment explanation
Indices: 30792552--30792744 Score: 269
Period size: 67 Copynumber: 2.9 Consensus size: 66
30792542 ATCTTACTCT
* *
30792552 ATGTTTAATGTCCTGGCAGACTCTTTATGTTGCCATAGTCGAACTATGGTCTTACACATCTTGTC
1 ATGTTTAATGTCCTGGCAGACTCTCTATGTTGTCATAGT-GAACTATGGTCTTACACATCTTGTC
30792617 CC
65 CC
* * *
30792619 ATGTTTAATGTCCTAGCAGACTCTCTATGTTGTCATAGTAGAGCTATGGTTTTACACATCTTGTC
1 ATGTTTAATGTCCTGGCAGACTCTCTATGTTGTCATAGT-GAACTATGGTCTTACACATCTTGTC
30792684 CC
65 CC
* *** *
30792686 ATGTTTAATGTCTTGATGGACTCTCTATGTTGTCATAGTAAAGCTATGGTCTTACACAT
1 ATGTTTAATGTCCTGGCAGACTCTCTATGTTGTCATAGTGAA-CTATGGTCTTACACAT
30792745 TATACCCCAT
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 1 0.01
67 110 0.99
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (66 bp):
ATGTTTAATGTCCTGGCAGACTCTCTATGTTGTCATAGTGAACTATGGTCTTACACATCTTGTCC
C
Found at i:30792754 original size:67 final size:66
Alignment explanation
Indices: 30792526--30792754 Score: 241
Period size: 67 Copynumber: 3.4 Consensus size: 66
30792516 ACCATAGCCT
* * * * * *
30792526 AGCTATGATCTTACGCATCTTACTCTATGTTTAATGTCCTG-GCAGACTCTTTATGTTGCCATAG
1 AGCTATGGTCTTACACATCTTACCCCATGTTTAATGTCCTGAG--GACTCTCTATGTTGTCATAG
*
30792590 TCGA
64 T-AA
**
30792594 A-CTATGGTCTTACACATCTTGTCCCATGTTTAATGTCCT-AGCAGACTCTCTATGTTGTCATAG
1 AGCTATGGTCTTACACATCTTACCCCATGTTTAATGTCCTGAG--GACTCTCTATGTTGTCATAG
*
30792657 TAG
64 TAA
* ** *
30792660 AGCTATGGTTTTACACATCTTGTCCCATGTTTAATGTCTTGATGGACTCTCTATGTTGTCATAGT
1 AGCTATGGTCTTACACATCTTACCCCATGTTTAATGTCCTGA-GGACTCTCTATGTTGTCATAGT
30792725 AA
65 AA
30792727 AGCTATGGTCTTACACAT-TATACCCCAT
1 AGCTATGGTCTTACACATCT-TACCCCAT
30792755 TACAACCCAT
Statistics
Matches: 140, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
66 2 0.01
67 135 0.96
68 2 0.01
69 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (66 bp):
AGCTATGGTCTTACACATCTTACCCCATGTTTAATGTCCTGAGGACTCTCTATGTTGTCATAGTA
A
Found at i:30794866 original size:115 final size:115
Alignment explanation
Indices: 30794728--30795006 Score: 377
Period size: 113 Copynumber: 2.4 Consensus size: 115
30794718 GCAAAAGTAC
* * *
30794728 TATTAGCGTCGCTTTCTTAGAAGCGCCGCAAAATATATTAACGGAAACGCTGCGTTTAAATCTTG
1 TATTAGCGGCGCTTTATTAGAAGCGCCGCAAAATATATTAACCGAAACGCTGCGTTTAAATCTTG
* * *
30794793 ATGTAT-ACTGGAGTTAGTGGCGTTCAGGAGAAATCGCCGCTAAATTATAT
66 ATGTATCA-TGGAATTAGTGGCGTTCACGAGAAATCGCCGCTAAATCATAT
** *
30794843 TATTAGCGGCGCTTTATTAGAAGCGCCGC--AATATATTAACCGAAACTTTTCGTTTAAATCTTG
1 TATTAGCGGCGCTTTATTAGAAGCGCCGCAAAATATATTAACCGAAACGCTGCGTTTAAATCTTG
30794906 ATGTATCATGGAATTAGTGGCGTTCACGAGAAATCGCCGCTAAATCATAT
66 ATGTATCATGGAATTAGTGGCGTTCACGAGAAATCGCCGCTAAATCATAT
* * * * * *
30794956 TATTAGCGGCGC-TTATTTGTTAGCGCCGCAAAAGATCTTCACCAAAACGCT
1 TATTAGCGGCGCTTTATTAG-AAGCGCCGCAAAATATATTAACCGAAACGCT
30795007 CAGTTTTGGT
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
112 6 0.04
113 95 0.66
114 1 0.01
115 41 0.29
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (115 bp):
TATTAGCGGCGCTTTATTAGAAGCGCCGCAAAATATATTAACCGAAACGCTGCGTTTAAATCTTG
ATGTATCATGGAATTAGTGGCGTTCACGAGAAATCGCCGCTAAATCATAT
Found at i:30795360 original size:7 final size:7
Alignment explanation
Indices: 30795344--30795401 Score: 55
Period size: 7 Copynumber: 8.3 Consensus size: 7
30795334 CGATTATGGT
30795344 GTTT-GG
1 GTTTAGG
30795350 GTTTAGG
1 GTTTAGG
*
30795357 GTTTAAGA
1 GTTT-AGG
*
30795365 GTTTGGG
1 GTTTAGG
*
30795372 GTTTAAG
1 GTTTAGG
30795379 GTTTAGG
1 GTTTAGG
*
30795386 GTTTGGG
1 GTTTAGG
*
30795393 GTTTGGG
1 GTTTAGG
30795400 GT
1 GT
30795402 GCTTAATTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
6 4 0.09
7 33 0.77
8 6 0.14
ACGTcount: A:0.12, C:0.00, G:0.45, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:30795369 original size:21 final size:21
Alignment explanation
Indices: 30795344--30795401 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
30795334 CGATTATGGT
30795344 GTTT-GGGTTTAGGGTTTAAGA
1 GTTTGGGGTTTAGGGTTT-AGA
* *
30795365 GTTTGGGGTTTAAGGTTTAGG
1 GTTTGGGGTTTAGGGTTTAGA
*
30795386 GTTTGGGGTTTGGGGT
1 GTTTGGGGTTTAGGGT
30795402 GCTTAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.12, C:0.00, G:0.45, T:0.43
Consensus pattern (21 bp):
GTTTGGGGTTTAGGGTTTAGA
Found at i:30795373 original size:15 final size:14
Alignment explanation
Indices: 30795349--30795389 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 14
30795339 ATGGTGTTTG
30795349 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
*
30795363 GAGTTTGGGGTTTAA
1 G-GTTTAGGGTTTAA
30795378 GGTTTAGGGTTT
1 GGTTTAGGGTTT
30795390 GGGGTTTGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.17, C:0.00, G:0.39, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:30796642 original size:45 final size:45
Alignment explanation
Indices: 30796582--30796672 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
30796572 TGTTGCGTCC
*
30796582 TTCTTGCCCAATTTCTTGAATTCCCAAATCCAAAAATCGCCTCCT
1 TTCTTGCCCAATTTCTTGAAATCCCAAATCCAAAAATCGCCTCCT
* * **
30796627 TTCTTGCCTAATTTCTTGAAATCCGAAATCCCTAAATCGCCTCCT
1 TTCTTGCCCAATTTCTTGAAATCCCAAATCCAAAAATCGCCTCCT
30796672 T
1 T
30796673 CCTCCTTCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.32, G:0.08, T:0.35
Consensus pattern (45 bp):
TTCTTGCCCAATTTCTTGAAATCCCAAATCCAAAAATCGCCTCCT
Found at i:30798360 original size:34 final size:36
Alignment explanation
Indices: 30798282--30798361 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 36
30798272 AATTTTTTAT
* **
30798282 TTTATTTTACTCACGAATTAAATATTAAATATTTTA
1 TTTATTTTAATCACGAATTAAATATTAAATATTAAA
* * *
30798318 TTTTTTTTAATCACGAA-T-ATTTTTAAATATTAAA
1 TTTATTTTAATCACGAATTAAATATTAAATATTAAA
30798352 TTTATTTTAA
1 TTTATTTTAA
30798362 AGTTCAAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
34 21 0.57
35 1 0.03
36 15 0.41
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.54
Consensus pattern (36 bp):
TTTATTTTAATCACGAATTAAATATTAAATATTAAA
Found at i:30798484 original size:21 final size:21
Alignment explanation
Indices: 30798460--30798516 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
30798450 TAACTTATTA
* *
30798460 ATATTTATATATAGTTTATAT
1 ATATTTATATAAAATTTATAT
* *
30798481 ATATATATTTAAAATTTATAT
1 ATATTTATATAAAATTTATAT
*
30798502 ATATTTTTA-AAAATT
1 ATATTTATATAAAATT
30798517 GATACATTAC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 6 0.21
21 23 0.79
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
ATATTTATATAAAATTTATAT
Found at i:30798568 original size:23 final size:22
Alignment explanation
Indices: 30798518--30798581 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
30798508 TTAAAAATTG
30798518 ATACATTACATAACTTACATAAC
1 ATACA-TACATAACTTACATAAC
*
30798541 CTACATACATAAGCTTACAT---
1 ATACATACATAA-CTTACATAAC
*
30798561 ATA-ATACATAACTTATATAAC
1 ATACATACATAACTTACATAAC
30798582 TTAAATTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
18 6 0.18
19 8 0.24
20 2 0.06
22 7 0.21
23 11 0.32
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (22 bp):
ATACATACATAACTTACATAAC
Found at i:30798662 original size:21 final size:21
Alignment explanation
Indices: 30798637--30798713 Score: 68
Period size: 24 Copynumber: 3.6 Consensus size: 21
30798627 ATCATATCAC
30798637 AACTTACATAACCAACATAAT
1 AACTTACATAACCAACATAAT
* *
30798658 GACTTACATAATAACCTACATAAT
1 AACTTAC---ATAACCAACATAAT
**
30798682 AACTTACATAATAATACATAAT
1 AACTTACATAACCA-ACATAAT
30798704 AA--TACATAAC
1 AACTTACATAAC
30798714 ATCCATAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
20 7 0.16
21 10 0.22
22 9 0.20
24 19 0.42
ACGTcount: A:0.52, C:0.19, G:0.01, T:0.27
Consensus pattern (21 bp):
AACTTACATAACCAACATAAT
Found at i:30798668 original size:12 final size:12
Alignment explanation
Indices: 30798651--30798705 Score: 78
Period size: 12 Copynumber: 4.8 Consensus size: 12
30798641 TACATAACCA
*
30798651 ACATAATGACTT
1 ACATAATAACTT
*
30798663 ACATAATAACCT
1 ACATAATAACTT
30798675 ACATAATAACTT
1 ACATAATAACTT
30798687 ACATAATAA--T
1 ACATAATAACTT
30798697 ACATAATAA
1 ACATAATAA
30798706 TACATAACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
10 10 0.25
12 30 0.75
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (12 bp):
ACATAATAACTT
Found at i:30798678 original size:24 final size:24
Alignment explanation
Indices: 30798644--30798712 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
30798634 CACAACTTAC
* *
30798644 ATAACCAACATAATGACTTACATA
1 ATAACCTACATAATAACTTACATA
30798668 ATAACCTACATAATAACTTACATA
1 ATAACCTACATAATAACTTACATA
30798692 ATAA--TACATAATAA--TACATA
1 ATAACCTACATAATAACTTACATA
30798712 A
1 A
30798713 CATCCATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.16
22 10 0.23
24 26 0.60
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (24 bp):
ATAACCTACATAATAACTTACATA
Found at i:30798701 original size:10 final size:11
Alignment explanation
Indices: 30798651--30798712 Score: 74
Period size: 12 Copynumber: 5.5 Consensus size: 11
30798641 TACATAACCA
*
30798651 ACATAATGACTT
1 ACATAATAAC-T
30798663 ACATAATAACCT
1 ACATAATAA-CT
30798675 ACATAATAACTT
1 ACATAATAAC-T
30798687 ACATAATAA-T
1 ACATAATAACT
30798697 ACATAATAA-T
1 ACATAATAACT
30798707 ACATAA
1 ACATAA
30798713 CATCCATAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
10 17 0.36
11 1 0.02
12 28 0.60
13 1 0.02
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (11 bp):
ACATAATAACT
Found at i:30798812 original size:16 final size:16
Alignment explanation
Indices: 30798788--30798824 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
30798778 TACTTACATA
* *
30798788 ATAATACATAACTTAC
1 ATAAGACATAACGTAC
30798804 ATAAGACATAACGTAC
1 ATAAGACATAACGTAC
30798820 ATAAG
1 ATAAG
30798825 TTTCATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.24
Consensus pattern (16 bp):
ATAAGACATAACGTAC
Found at i:30798905 original size:16 final size:16
Alignment explanation
Indices: 30798881--30798917 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
30798871 TACTTACATA
* *
30798881 ATAATACATAACTTAC
1 ATAAGACATAACGTAC
30798897 ATAAGACATAACGTAC
1 ATAAGACATAACGTAC
30798913 ATAAG
1 ATAAG
30798918 TTTCATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.24
Consensus pattern (16 bp):
ATAAGACATAACGTAC
Found at i:30798992 original size:9 final size:9
Alignment explanation
Indices: 30798965--30799054 Score: 68
Period size: 9 Copynumber: 10.6 Consensus size: 9
30798955 CTACATCCCT
30798965 ACTTACATA
1 ACTTACATA
30798974 A-TAATACATA
1 ACT--TACATA
30798984 ACTTACATA
1 ACTTACATA
*
30798993 A--GACATA
1 ACTTACATA
*
30799000 ACGTACATA
1 ACTTACATA
* *
30799009 AGTTTC--A
1 ACTTACATA
*
30799016 ACTTACACA
1 ACTTACATA
30799025 ACTTACATA
1 ACTTACATA
30799034 ACTTACATA
1 ACTTACATA
30799043 A--TACATA
1 ACTTACATA
30799050 ACTTA
1 ACTTA
30799055 TTCCTAAATC
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
7 18 0.28
8 1 0.02
9 37 0.58
10 7 0.11
11 1 0.02
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (9 bp):
ACTTACATA
Found at i:30798998 original size:16 final size:16
Alignment explanation
Indices: 30798974--30799054 Score: 76
Period size: 16 Copynumber: 4.9 Consensus size: 16
30798964 TACTTACATA
30798974 ATAATACATAACTTAC
1 ATAATACATAACTTAC
* *
30798990 ATAAGACATAACGTAC
1 ATAATACATAACTTAC
*
30799006 ATAAGT--TTCAACTTAC
1 ATAA-TACAT-AACTTAC
*
30799022 ACAACTTACATAACTTAC
1 ATAA--TACATAACTTAC
30799040 ATAATACATAACTTA
1 ATAATACATAACTTA
30799055 TTCCTAAATC
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
15 1 0.02
16 38 0.75
17 1 0.02
18 10 0.20
19 1 0.02
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.30
Consensus pattern (16 bp):
ATAATACATAACTTAC
Found at i:30799045 original size:93 final size:93
Alignment explanation
Indices: 30798659--30799015 Score: 574
Period size: 93 Copynumber: 3.8 Consensus size: 93
30798649 CAACATAATG
* ** *
30798659 ACTTACATAATAACCTACAT-AATAACTTACATAATAATACATAA-TAATACATAACATCCATAA
1 ACTTACATAATATCCTACATCCCT-ACTTACATAATAATACATAACT--TACATAAGA--CATAA
** * *
30798722 ATTAAATAAGTTACATAATACACAAAAACAAAA
61 CGTACATAAGTTTCATAATACACAAAAACAAAA
30798755 ACTTACATAATATCCTACATCCCTACTTACATAATAATACATAACTTACATAAGACATAACGTAC
1 ACTTACATAATATCCTACATCCCTACTTACATAATAATACATAACTTACATAAGACATAACGTAC
*
30798820 ATAAGTTTCATAATAGACAAAAACAAAA
66 ATAAGTTTCATAATACACAAAAACAAAA
30798848 ACTTACATAATATCCTACATCCCTACTTACATAATAATACATAACTTACATAAGACATAACGTAC
1 ACTTACATAATATCCTACATCCCTACTTACATAATAATACATAACTTACATAAGACATAACGTAC
30798913 ATAAGTTTCATAATACACAAAAACAAAA
66 ATAAGTTTCATAATACACAAAAACAAAA
30798941 ACTTACATAATATCCTACATCCCTACTTACATAATAATACATAACTTACATAAGACATAACGTAC
1 ACTTACATAATATCCTACATCCCTACTTACATAATAATACATAACTTACATAAGACATAACGTAC
30799006 ATAAGTTTCA
66 ATAAGTTTCA
30799016 ACTTACACAA
Statistics
Matches: 249, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
93 200 0.80
95 8 0.03
96 39 0.16
97 2 0.01
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.27
Consensus pattern (93 bp):
ACTTACATAATATCCTACATCCCTACTTACATAATAATACATAACTTACATAAGACATAACGTAC
ATAAGTTTCATAATACACAAAAACAAAA
Found at i:30799052 original size:25 final size:25
Alignment explanation
Indices: 30798978--30799054 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 25
30798968 TACATAATAA
* *
30798978 TACATAACTTACATAAGACATAACG
1 TACATAACTTACATAATACATAACT
* * * *
30799003 TACATAAGTTTCA-ACTTACACAACT
1 TACATAACTTACATA-ATACATAACT
30799028 TACATAACTTACATAATACATAACT
1 TACATAACTTACATAATACATAACT
30799053 TA
1 TA
30799055 TTCCTAAATC
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
24 1 0.03
25 38 0.95
26 1 0.03
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (25 bp):
TACATAACTTACATAATACATAACT
Found at i:30804536 original size:21 final size:21
Alignment explanation
Indices: 30804510--30804578 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
30804500 TAGCAACTTA
* *
30804510 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
**
30804531 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
30804552 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
30804573 AAGCAG
1 AAGCAG
30804579 CAATAGAAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.35, C:0.20, G:0.43, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:30805061 original size:42 final size:42
Alignment explanation
Indices: 30804993--30805112 Score: 152
Period size: 42 Copynumber: 2.8 Consensus size: 42
30804983 TATAAAAAAC
*
30804993 AGTGGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTT
1 AGTGGCGTTTTTG-AATAAGCGCCGCTAAAGAACACTACTTTT
* *
30805036 AGTGGCGTTTTTGAATAAGCGCCGCTATAGAACATTACTTTT
1 AGTGGCGTTTTTGAATAAGCGCCGCTAAAGAACACTACTTTT
* **
30805078 AGAGGCGTTTCCTTCCA-AAGCGCCGCTAAAGAACA
1 AGTGGCGTTT--TTGAATAAGCGCCGCTAAAGAACA
30805113 TGATCTTTAG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 36 0.53
43 29 0.43
44 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (42 bp):
AGTGGCGTTTTTGAATAAGCGCCGCTAAAGAACACTACTTTT
Found at i:30805111 original size:43 final size:41
Alignment explanation
Indices: 30805010--30805379 Score: 188
Period size: 42 Copynumber: 8.9 Consensus size: 41
30805000 TTTGTGAAAT
* * **
30805010 AAGCGCCGCTAAAGAACACTACTTTTAGTGGCGTTTTTGAA
1 AAGCGCCGCTAAAGAACATTACTTTTAGAGGCGTTTTTCCA
*
30805051 TAAGCGCCGCTATAGAACATTACTTTTAGAGGCGTTTCCTTCCA
1 -AAGCGCCGCTAAAGAACATTACTTTTAGAGGCGTTT--TTCCA
* * *
30805095 AAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATTACT-TTTAGAGGCG-TTTTTCCA
* * * * * *
30805137 AAGCGTCGCTAAAAAACATGA-TCTTTCGCGGCG-CTTT---
1 AAGCGCCGCTAAAGAACATTACT-TTTAGAGGCGTTTTTCCA
* * * **
30805174 AAGCGCTGCTAAAGAACATGAGC-TTTAGCGGCGTTTTTTTA
1 AAGCGCCGCTAAAGAACATTA-CTTTTAGAGGCGTTTTTCCA
* * * *
30805215 TAAGCGCCGCTAAAGAGCATGA-TCTTTAGGGGCGTTTTT-CT
1 -AAGCGCCGCTAAAGAACATTACT-TTTAGAGGCGTTTTTCCA
* * * * * *
30805256 AAGCGCCGCTAAAGAGCGTGA-TCTTTAGGGGCGTTTGTTTTCT
1 AAGCGCCGCTAAAGAACATTACT-TTTAGAGGCG-TT-TTTCCA
* * * * *
30805299 AAGCGCCGCTAATGAACATGA-TCTTTAGCGGCGTTTGTTTTCT
1 AAGCGCCGCTAAAGAACATTACT-TTTAGAGGCG-TT-TTTCCA
* *
30805342 AAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACATTACT-TTTAGAGGCGTTTTT
30805380 TTACGTAAGC
Statistics
Matches: 283, Mismatches: 29, Indels: 33
0.82 0.08 0.10
Matches are distributed among these distances:
37 27 0.10
38 3 0.01
40 35 0.12
41 5 0.02
42 106 0.37
43 101 0.36
44 6 0.02
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATTACTTTTAGAGGCGTTTTTCCA
Found at i:30805155 original size:42 final size:42
Alignment explanation
Indices: 30805009--30805394 Score: 414
Period size: 43 Copynumber: 9.2 Consensus size: 42
30804999 GTTTGTGAAA
* ***
30805009 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGTGGCGTTTTTGAA
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTC
* * * * *
30805051 TAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTCCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTT-TTTTC
* *
30805094 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* * * *
30805136 TAAGCGTCGCTAAAAAACATGATCTTTCGCGGCG----CTT-
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* * *
30805173 TAAGCGCTGCTAAAGAACATGAGCTTTAGCGGCGTTTTTTTA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
30805215 TAAGCGCCGCTAAAGAGCATGATCTTTAGGGGCG--TTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* * *
30805255 TAAGCGCCGCTAAAGAGCGTGATCTTTAGGGGCGTTTGTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTC
*
30805298 TAAGCGCCGCTAATGAACATGATCTTTAGCGGCGTTTGTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTC
30805341 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-C
30805384 GTAAGCGCCGC
1 -TAAGCGCCGC
30805395 AAACGTTAGT
Statistics
Matches: 297, Mismatches: 34, Indels: 24
0.84 0.10 0.07
Matches are distributed among these distances:
37 29 0.10
38 1 0.00
40 38 0.13
41 3 0.01
42 102 0.34
43 113 0.38
44 11 0.04
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:30805205 original size:79 final size:81
Alignment explanation
Indices: 30805009--30805394 Score: 404
Period size: 79 Copynumber: 4.6 Consensus size: 81
30804999 GTTTGTGAAA
* *** * *
30805009 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGTGGCGTTTTTGAATAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATG
*
30805072 A-CTTTTAGAGGCGTTTCCTTCC
64 ATC-TTTAGCGGCG-TT--TT-C
* * * *
30805094 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGTCGCTAAAAAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
* *
30805159 CTTTCGCGGCG-CTT-
66 CTTTAGCGGCGTTTTC
* * * *
30805173 TAAGCGCTGCTAAAGAACATGAGCTTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAGCATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
*
30805238 CTTTAGGGGCGTTTTTC
66 CTTTAGCGGCG-TTTTC
* * * *
30805255 TAAGCGCCGCTAAAGAGCGTGATCTTTAGGGGCGTTTGTTTTCTAAGCGCCGCTAATGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTCTAAGCGCCGCTAAAGAACATGA
30805320 TCTTTAGCGGCGTTTGTTTTC
65 TCTTTAGCGGC----GTTTTC
30805341 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTACGTAAGCGCCGC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-C-TAAGCGCCGC
30805395 AAACGTTAGT
Statistics
Matches: 253, Mismatches: 35, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
79 66 0.26
81 4 0.02
82 32 0.13
83 34 0.13
84 1 0.00
85 63 0.25
86 42 0.17
87 11 0.04
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (81 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
CTTTAGCGGCGTTTTC
Found at i:30807344 original size:20 final size:20
Alignment explanation
Indices: 30807319--30807368 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
30807309 TGGCTTAAAA
30807319 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
30807339 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
30807356 GTGGTAGTGGATT
1 TTGGTAGTGGATT
30807369 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:30811984 original size:20 final size:20
Alignment explanation
Indices: 30811959--30812008 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
30811949 TGGCTTAAAA
30811959 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
30811979 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
30811996 GTGGTAGTGGATT
1 TTGGTAGTGGATT
30812009 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:30816526 original size:41 final size:41
Alignment explanation
Indices: 30816477--30816703 Score: 366
Period size: 41 Copynumber: 5.5 Consensus size: 41
30816467 GACTTTAAGT
*
30816477 CTAGCAGGCTAAGAGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
30816518 CTAACAGGCTAAGAGCCGGTGATTTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
30816559 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
30816600 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
30816641 CTAGCAGGCTAAGTGCCGGTGAT-TGGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCT-GAATCAGGTTATAAAC
*
30816682 CTAGCAGGCTAAGTGCTGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
30816704 ATATGTTAAA
Statistics
Matches: 175, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 1 0.01
41 174 0.99
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:30819515 original size:13 final size:13
Alignment explanation
Indices: 30819497--30819533 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
30819487 CCTATTCGAG
30819497 AGGTTAAAGTAAA
1 AGGTTAAAGTAAA
30819510 AGGTTAAAGTAAA
1 AGGTTAAAGTAAA
30819523 AGGTTAAAGTA
1 AGGTTAAAGTA
30819534 CCAGTTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (13 bp):
AGGTTAAAGTAAA
Found at i:30821211 original size:41 final size:41
Alignment explanation
Indices: 30821166--30821437 Score: 201
Period size: 41 Copynumber: 6.6 Consensus size: 41
30821156 CATCGGCACA
30821166 AAGCCTGCTAGG-TACAAAGCCTGATATAATACACCGATACG
1 AAGCCTGCTAGGCT-CAAAGCCTGATATAATACACCGATACG
* * * * * * * *
30821207 AAGCCTGCAAGGCTTAAAGCCTAATACAACACACTGGTATG
1 AAGCCTGCTAGGCTCAAAGCCTGATATAATACACCGATACG
* * * *
30821248 AAGCCTGCTATGCACAAAGCCTGATATAATACACCGGTACA
1 AAGCCTGCTAGGCTCAAAGCCTGATATAATACACCGATACG
* * * * *
30821289 AAGCTTGCTAGGCTCAAAGCCTGATAAAACACACTGACACG
1 AAGCCTGCTAGGCTCAAAGCCTGATATAATACACCGATACG
* * * * * *
30821330 AAGCTTGCTAAGCACAAAGCCTAATGTAATACACTGGCATA--
1 AAGCCTGCTAGGCTCAAAGCCTGATATAATACAC-CG-ATACG
* * * ** *
30821371 AAACTTTCTAGGCTCAAAGCCTGATATAATACACCGGCATG
1 AAGCCTGCTAGGCTCAAAGCCTGATATAATACACCGATACG
* *
30821412 AAGCCTGCT-GGACTCAAGGCCCGATA
1 AAGCCTGCTAGG-CTCAAAGCCTGATA
30821438 CACTATCTCC
Statistics
Matches: 176, Mismatches: 49, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
39 1 0.01
40 3 0.02
41 168 0.95
42 2 0.01
43 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (41 bp):
AAGCCTGCTAGGCTCAAAGCCTGATATAATACACCGATACG
Found at i:30821333 original size:123 final size:123
Alignment explanation
Indices: 30821120--30821407 Score: 303
Period size: 123 Copynumber: 2.3 Consensus size: 123
30821110 CAATACACCA
* * * * * * *
30821120 GCATAAAACCTACTAGGCTC-AAGGCTAGATACAACACATCGGCACAAAGCCTGCTAGGTACAAA
1 GCATAAAACCTGCTAGGCACAAAGCCT-GATATAATACACCGGTACAAAGCCTGCTAGGTACAAA
* * * **
30821184 GCCTGATATAATACACCGATACGAAGCCTGC-AAGGCTTAAAGCCTAATACAACACACTG
65 GCCTGATAAAACACACCGACACGAAGCCTGCTAA-GCACAAAGCCTAATACAACACACTG
* * * * *
30821243 GTATGAAGCCTGCTATGCACAAAGCCTGATATAATACACCGGTACAAAGCTTGCTAGGCT-CAAA
1 GCATAAAACCTGCTAGGCACAAAGCCTGATATAATACACCGGTACAAAGCCTGCTAGG-TACAAA
* * ** *
30821307 GCCTGATAAAACACACTGACACGAAGCTTGCTAAGCACAAAGCCTAATGTAATACACTG
65 GCCTGATAAAACACACCGACACGAAGCCTGCTAAGCACAAAGCCTAATACAACACACTG
* * *
30821366 GCATAAAACTTTCTAGGCTCAAAGCCTGATATAATACACCGG
1 GCATAAAACCTGCTAGGCACAAAGCCTGATATAATACACCGG
30821408 CATGAAGCCT
Statistics
Matches: 133, Mismatches: 29, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
123 125 0.94
124 8 0.06
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.19
Consensus pattern (123 bp):
GCATAAAACCTGCTAGGCACAAAGCCTGATATAATACACCGGTACAAAGCCTGCTAGGTACAAAG
CCTGATAAAACACACCGACACGAAGCCTGCTAAGCACAAAGCCTAATACAACACACTG
Found at i:30821382 original size:82 final size:82
Alignment explanation
Indices: 30821111--30821420 Score: 255
Period size: 82 Copynumber: 3.8 Consensus size: 82
30821101 TACTTGATAC
* * * * * * * *
30821111 AATACACCAGCATAAAACCTACTAGGCTC-AAGGCTAGATACAACACA-TCGGCACAAAGCCTGC
1 AATACACCGGCACAAAACTTGCTAGGCTCAAAGCCT-GATAAAACACACT-GACACGAAGCCTGC
* * *
30821174 TAGGTACAAAGCCTGATAT
64 TAAGCACAAAGCCTAATAT
** * * * * * * * ** *
30821193 AATACACCGATACGAAGCCTGCAAGGCTTAAAGCCTAATACAACACACTGGTATGAAGCCTGCTA
1 AATACACCGGCACAAAACTTGCTAGGCTCAAAGCCTGATAAAACACACTGACACGAAGCCTGCTA
* *
30821258 TGCACAAAGCCTGATAT
66 AGCACAAAGCCTAATAT
* * *
30821275 AATACACCGGTACAAAGCTTGCTAGGCTCAAAGCCTGATAAAACACACTGACACGAAGCTTGCTA
1 AATACACCGGCACAAAACTTGCTAGGCTCAAAGCCTGATAAAACACACTGACACGAAGCCTGCTA
*
30821340 AGCACAAAGCCTAATGT
66 AGCACAAAGCCTAATAT
* * * * * * * *
30821357 AATACACTGGCATAAAACTTTCTAGGCTCAAAGCCTGATATAATACACCGGCATGAAGCCTGCT
1 AATACACCGGCACAAAACTTGCTAGGCTCAAAGCCTGATAAAACACACTGACACGAAGCCTGCT
30821421 GGACTCAAGG
Statistics
Matches: 185, Mismatches: 41, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
82 179 0.97
83 6 0.03
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (82 bp):
AATACACCGGCACAAAACTTGCTAGGCTCAAAGCCTGATAAAACACACTGACACGAAGCCTGCTA
AGCACAAAGCCTAATAT
Found at i:30821638 original size:53 final size:53
Alignment explanation
Indices: 30821558--30821663 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
30821548 ACATATTACA
30821558 TATAATGCGAATTTACCTTGACTGAAAGGGTTACTAAAACGGAGTCGAGAACT
1 TATAATGCGAATTTACCTTGACTGAAAGGGTTACTAAAACGGAGTCGAGAACT
*
30821611 TATAATGCGAATTTACCTTGACTGAAAGGGTTACTAAAATGGAGTCGAGAACT
1 TATAATGCGAATTTACCTTGACTGAAAGGGTTACTAAAACGGAGTCGAGAACT
30821664 AGTCTGAAAC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (53 bp):
TATAATGCGAATTTACCTTGACTGAAAGGGTTACTAAAACGGAGTCGAGAACT
Found at i:30829280 original size:103 final size:103
Alignment explanation
Indices: 30829086--30829280 Score: 311
Period size: 103 Copynumber: 1.9 Consensus size: 103
30829076 TTTGTTTTTC
* *
30829086 TTTTTTTAAGAATATATTGAACCTTTTGATGTGAAGAGAGATGTCAACCCAAGCACCCCACCCCA
1 TTTTTTTAAGAATATATTGAACCTTTTGATGCGAAGAGAGATGACAACCCAAGCACCCCACCCCA
* *
30829151 GTTACTCAGCCCAACACACTCTTAAAATTATTTATATG
66 GTTACTCAGCCCAACAAACTCCTAAAATTATTTATATG
* *
30829189 TTTTTTTAAAGAATATATTGAGCCTTTTGATGCGAAGAGAGATGACAA-TCAAGCACCCCACCCC
1 TTTTTTT-AAGAATATATTGAACCTTTTGATGCGAAGAGAGATGACAACCCAAGCACCCCACCCC
*
30829253 AGTTACTCAGCCCAACAAATTCCTAAAA
65 AGTTACTCAGCCCAACAAACTCCTAAAA
30829281 AATTTTTGTT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 47 0.56
104 37 0.44
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (103 bp):
TTTTTTTAAGAATATATTGAACCTTTTGATGCGAAGAGAGATGACAACCCAAGCACCCCACCCCA
GTTACTCAGCCCAACAAACTCCTAAAATTATTTATATG
Found at i:30831814 original size:409 final size:410
Alignment explanation
Indices: 30831054--30831883 Score: 1527
Period size: 409 Copynumber: 2.0 Consensus size: 410
30831044 TCCAGTCAAT
*
30831054 TTTTGCTTGTTGATGTAAAGCTCCTTAAGGAACTTGGCATATCATGAAATTTGTTTGATGGCATC
1 TTTTGCTTGTTGATGCAAAGCTCCTTAAGGAACTTGGCATATCATGAAATTTGTTTGATGGCATC
*
30831119 TAACAATGGTATGTTGATCTCGACATTTCTAAATTTTTCGAGGATCTCTTTTTCCCCCTTACCTC
66 CAACAATGGTATGTTGATCTCGACATTTCTAAATTTTTCGAGGATCTCTTTTTCCCCCTTACCTC
30831184 TCCGATGTTGGCTCAATCGTCCTAGAAACGGTGGTTGAATTATGGGCAATGGAGGTTTCGTTCAG
131 TCCGATGTTGGCTCAATCGTCCTAGAAACGGTGGTTGAATTATGGGCAATGGAGGTTTCGTTCAG
* * *
30831249 ACCTGTTCATCGTTTTTTTTCTTTTTCTAGGCAAAATCTTGATCAAGATTCCTGTCAGGATTCGG
196 ACCTGTTCATCGTTCTCTTTCTTTTTCTAGGCAAAATCTTGATCAAGATTCCTGCCAGGATTCGG
*
30831314 TTCCAGTACTTTTCCACTTCGTAACGTCACTGCATTTGCGTATTGTCTTGGGTTAGATTCCGTTT
261 TTCCAGTACTTTTCCACTTCGTAACGTCACTGCATTTGCATATTGTCTTGGGTTAGATTCCGTTT
* *
30831379 GTGATGGCAGCTTTCCTTGTGAGTTCATTTTCTCAATTGATGTAGTTAACTCTCTTATGGATGCC
326 GTGATGGCAGCTTTCCTTGTGAGTTCATTTTCTCAATTGATGTAGTCAACTCTCTTATAGATGCC
30831444 TCAATTTTCTGTTGAAAATC
391 TCAATTTTCTGTTGAAAATC
30831464 TTTTGCTTGTTGATGCAAAGCTCCTTAAGGAACTTGGCATATCATGAAATTTGTTTGATGGCATC
1 TTTTGCTTGTTGATGCAAAGCTCCTTAAGGAACTTGGCATATCATGAAATTTGTTTGATGGCATC
*
30831529 CAACAATGGTGTGTTGATCTCGACATTTCTAAATTTTTCGAGGATCTCTTTTT-CCCCTTACCTC
66 CAACAATGGTATGTTGATCTCGACATTTCTAAATTTTTCGAGGATCTCTTTTTCCCCCTTACCTC
*
30831593 TCCGATGTTGGCTCAATCGTCCTAGAAACGGTGGTTGAATTATGGGTAATGGAGGTTTCGTTCAG
131 TCCGATGTTGGCTCAATCGTCCTAGAAACGGTGGTTGAATTATGGGCAATGGAGGTTTCGTTCAG
*
30831658 ACCTGTTCATCGTTCTCTTTCTTTTTCTAGGCGAAATCTTGATCAAGATTCCTGCCAGGATTCGG
196 ACCTGTTCATCGTTCTCTTTCTTTTTCTAGGCAAAATCTTGATCAAGATTCCTGCCAGGATTCGG
30831723 TTCCAGTACTTTTCCACTTCGTAACGTCACTGCATTTGCATATTGTCTTGGGTTAGATTCCGTTT
261 TTCCAGTACTTTTCCACTTCGTAACGTCACTGCATTTGCATATTGTCTTGGGTTAGATTCCGTTT
*
30831788 GTGATGGCATCTTTCCTTGTGAGTTCATTTTCTCAATTGATGTAGTCAACTCTCTTATAGATGCC
326 GTGATGGCAGCTTTCCTTGTGAGTTCATTTTCTCAATTGATGTAGTCAACTCTCTTATAGATGCC
*
30831853 TCAATTTTTTGTTGAAAATC
391 TCAATTTTCTGTTGAAAATC
*
30831873 TTTTGTTTGTT
1 TTTTGCTTGTT
30831884 TTTGGAGATC
Statistics
Matches: 406, Mismatches: 14, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
409 291 0.72
410 115 0.28
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.40
Consensus pattern (410 bp):
TTTTGCTTGTTGATGCAAAGCTCCTTAAGGAACTTGGCATATCATGAAATTTGTTTGATGGCATC
CAACAATGGTATGTTGATCTCGACATTTCTAAATTTTTCGAGGATCTCTTTTTCCCCCTTACCTC
TCCGATGTTGGCTCAATCGTCCTAGAAACGGTGGTTGAATTATGGGCAATGGAGGTTTCGTTCAG
ACCTGTTCATCGTTCTCTTTCTTTTTCTAGGCAAAATCTTGATCAAGATTCCTGCCAGGATTCGG
TTCCAGTACTTTTCCACTTCGTAACGTCACTGCATTTGCATATTGTCTTGGGTTAGATTCCGTTT
GTGATGGCAGCTTTCCTTGTGAGTTCATTTTCTCAATTGATGTAGTCAACTCTCTTATAGATGCC
TCAATTTTCTGTTGAAAATC
Found at i:30841948 original size:5 final size:5
Alignment explanation
Indices: 30841938--30841972 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
30841928 TTGCAAGCTA
* *
30841938 GGTTT GGTTT GGTTT GGTTT GGTTT TGTTG GGTTT
1 GGTTT GGTTT GGTTT GGTTT GGTTT GGTTT GGTTT
30841973 TTCCATTCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (5 bp):
GGTTT
Found at i:30842590 original size:3 final size:3
Alignment explanation
Indices: 30842582--30842631 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
30842572 GTAGGGAAGC
*
30842582 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
30842630 TA
1 TA
30842632 CCACTAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:30843164 original size:51 final size:51
Alignment explanation
Indices: 30843086--30843190 Score: 156
Period size: 51 Copynumber: 2.1 Consensus size: 51
30843076 CTTTTTACTA
* **
30843086 ATATATAATTTATTAGTGAAAGCGTACATAAAAAAAATTGATACAAATTTG
1 ATATATAATTTATTAGTGAAAGAGTACATAAAAAAAATACATACAAATTTG
* * *
30843137 ATATATAATTTATTAGTGAAAGAGTACATATAAAGAGTACATACAAATTTG
1 ATATATAATTTATTAGTGAAAGAGTACATAAAAAAAATACATACAAATTTG
30843188 ATA
1 ATA
30843191 CTAATATATA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (51 bp):
ATATATAATTTATTAGTGAAAGAGTACATAAAAAAAATACATACAAATTTG
Found at i:30843173 original size:13 final size:13
Alignment explanation
Indices: 30843155--30843179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30843145 TTTATTAGTG
30843155 AAAGAGTACATAT
1 AAAGAGTACATAT
30843168 AAAGAGTACATA
1 AAAGAGTACATA
30843180 CAAATTTGAT
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:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (13 bp):
AAAGAGTACATAT
Found at i:30843638 original size:6 final size:6
Alignment explanation
Indices: 30843627--30843652 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30843617 ACGAAACAAT
30843627 ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
30843653 GTTCAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:30848628 original size:91 final size:91
Alignment explanation
Indices: 30848481--30848688 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 91
30848471 TTGATTTTAG
* * *
30848481 TAAATTCATATAAGAACATTTTATTATTAATAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
30848546 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
30848573 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
30848638 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
30848664 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
30848689 GTTATAATTA
Statistics
Matches: 107, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 91 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:30848657 original size:26 final size:28
Alignment explanation
Indices: 30848603--30848663 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
30848593 TATTATCAAG
* *
30848603 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
30848631 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
30848657 AATTATA
1 AATTATA
30848664 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:30848843 original size:120 final size:120
Alignment explanation
Indices: 30848704--30849356 Score: 1200
Period size: 120 Copynumber: 5.4 Consensus size: 120
30848694 AATTATTTTA
* * * * * * *
30848704 AATTTTATTAAGTCATATATTTTAATTAAAATATATTTCATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
*
30848768 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTACTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
30848824 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
30848889 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTACTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
30848944 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
30849009 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
30849064 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
30849129 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
30849184 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
30849249 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
30849304 AATTTTATTAAATTCTATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
30849357 TAAATATGAT
Statistics
Matches: 523, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
120 521 1.00
121 2 0.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:30848864 original size:15 final size:15
Alignment explanation
Indices: 30848829--30848880 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30848819 CTAAGAATTT
*
30848829 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30848843 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30848857 TATTTAATAATAAT-
1 TATTTAATTATAATA
30848871 TATGTTAATT
1 TAT-TTAATT
30848881 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30848984 original size:15 final size:15
Alignment explanation
Indices: 30848949--30849000 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30848939 CTAAGAATTT
*
30848949 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30848963 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30848977 TATTTAATAATAAT-
1 TATTTAATTATAATA
30848991 TATGTTAATT
1 TAT-TTAATT
30849001 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30849104 original size:15 final size:15
Alignment explanation
Indices: 30849069--30849120 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30849059 TTAAGAATTT
*
30849069 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30849083 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30849097 TATTTAATAATAAT-
1 TATTTAATTATAATA
30849111 TATGTTAATT
1 TAT-TTAATT
30849121 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30849224 original size:15 final size:15
Alignment explanation
Indices: 30849189--30849240 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30849179 TTAAGAATTT
*
30849189 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30849203 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30849217 TATTTAATAATAAT-
1 TATTTAATTATAATA
30849231 TATGTTAATT
1 TAT-TTAATT
30849241 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30849344 original size:15 final size:16
Alignment explanation
Indices: 30849319--30849359 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
30849309 TATTAAATTC
*
30849319 TATATTTTAATTATAA
1 TATATTTTAATAATAA
30849335 TATA-TTTAATAATAA
1 TATATTTTAATAATAA
30849350 T-TATGTTTAA
1 TATAT-TTTAA
30849360 ATATGATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 2 0.09
15 11 0.50
16 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TATATTTTAATAATAA
Found at i:30849619 original size:16 final size:16
Alignment explanation
Indices: 30849573--30849636 Score: 85
Period size: 16 Copynumber: 4.1 Consensus size: 16
30849563 TTGATTTGCT
* *
30849573 ATTACCCCTCTATTTC
1 ATTACGCCTCTATTCC
*
30849589 A-TACACCTCTATTCC
1 ATTACGCCTCTATTCC
*
30849604 ATTACGCCTTTATTCC
1 ATTACGCCTCTATTCC
30849620 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
30849636 A
1 A
30849637 ATACAGCGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
15 13 0.31
16 29 0.69
ACGTcount: A:0.22, C:0.36, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:30850321 original size:31 final size:29
Alignment explanation
Indices: 30850261--30850323 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 29
30850251 CTTAACAACC
*
30850261 CAATAACTTAAATAAAAATTTGAATAGTT
1 CAATAACTTAAATAAAAATTTAAATAGTT
**
30850290 CAATAACTTAAATGAATACGTTTAAATAGTT
1 CAATAACTTAAAT-AA-AAATTTAAATAGTT
30850321 CAA
1 CAA
30850324 AATCAATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 13 0.45
30 2 0.07
31 14 0.48
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (29 bp):
CAATAACTTAAATAAAAATTTAAATAGTT
Found at i:30853318 original size:26 final size:25
Alignment explanation
Indices: 30853289--30853373 Score: 62
Period size: 31 Copynumber: 3.0 Consensus size: 25
30853279 TAAATAAATA
30853289 ATTAATCATATTTTAATATAATTATT
1 ATTAAT-ATATTTTAATATAATTATT
* *
30853315 ATTAAATATAATTTAATAAAAATAATTTATA
1 ATT-AATAT-ATTT--T-AATATAA-TTATT
30853346 ATTTAATAATATTTTTAATATAATTATT
1 A-TTAAT-ATA-TTTTAATATAATTATT
30853374 TTATATTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
26 5 0.11
27 7 0.15
28 4 0.09
29 7 0.15
30 7 0.15
31 9 0.20
32 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTAATATATTTTAATATAATTATT
Found at i:30853339 original size:14 final size:14
Alignment explanation
Indices: 30853262--30853343 Score: 53
Period size: 14 Copynumber: 5.9 Consensus size: 14
30853252 GGATGATTAC
30853262 TAAAAATAATTTAA
1 TAAAAATAATTTAA
*
30853276 TAATAAATAA-ATAA
1 TAA-AAATAATTTAA
** *
30853290 TTAATCATATTTTAA
1 -TAAAAATAATTTAA
* * *
30853305 T-ATAATTA-TTAT
1 TAAAAATAATTTAA
*
30853317 TAAATATAATTTAA
1 TAAAAATAATTTAA
30853331 TAAAAATAATTTA
1 TAAAAATAATTTA
30853344 TAATTTAATA
Statistics
Matches: 49, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
12 4 0.08
13 8 0.16
14 25 0.51
15 12 0.24
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAAAATAATTTAA
Found at i:30853376 original size:26 final size:26
Alignment explanation
Indices: 30853290--30853376 Score: 61
Period size: 26 Copynumber: 3.1 Consensus size: 26
30853280 AAATAAATAA
*
30853290 TTAATCATA-TTTTAATATAATTATT
1 TTAATAATATTTTTAATATAATTATT
* *
30853315 ATTAA-ATATAATTTAATAAAAATAATTTATAAT
1 -TTAATA-AT-ATTT--TTAATATAA-TTAT--T
30853348 TTAATAATATTTTTAATATAATTATT
1 TTAATAATATTTTTAATATAATTATT
30853374 TTA
1 TTA
30853377 TATTAAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 18
0.67 0.07 0.26
Matches are distributed among these distances:
26 10 0.21
27 1 0.02
28 6 0.13
29 7 0.15
30 7 0.15
31 8 0.17
32 6 0.13
33 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (26 bp):
TTAATAATATTTTTAATATAATTATT
Found at i:30853377 original size:33 final size:30
Alignment explanation
Indices: 30853326--30853390 Score: 76
Period size: 33 Copynumber: 2.1 Consensus size: 30
30853316 TTAAATATAA
30853326 TTTAATAAAAATAATTTATAATTTAATAATATT
1 TTTAATAAAAATAATTTAT-A-TTAA-AATATT
* * *
30853359 TTTAATATAATTATTTTATATTAAAATATT
1 TTTAATAAAAATAATTTATATTAAAATATT
30853389 TT
1 TT
30853391 ATTTTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 8 0.28
31 4 0.14
32 1 0.03
33 16 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
TTTAATAAAAATAATTTATATTAAAATATT
Found at i:30853388 original size:15 final size:15
Alignment explanation
Indices: 30853314--30853436 Score: 81
Period size: 15 Copynumber: 7.9 Consensus size: 15
30853304 ATATAATTAT
*
30853314 TATTAAATATAATTTA
1 TATTAAA-ATATTTTA
* *
30853330 -ATAAAAATAATTTA
1 TATTAAAATATTTTA
30853344 TAATTTAATAATATTTT-
1 T-A-TTAA-AATATTTTA
* *
30853361 TAATATAATTATTTTA
1 TATTA-AAATATTTTA
30853377 TATTAAAATATTTTA
1 TATTAAAATATTTTA
*
30853392 TTTTAAATTATATTTTGA
1 TATTAAA--ATATTTT-A
*
30853410 AATT-AAATATTTTA
1 TATTAAAATATTTTA
*
30853424 TATTAAATTATTT
1 TATTAAAATATTT
30853437 AAATTTTTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
14 12 0.14
15 43 0.51
16 7 0.08
17 13 0.15
18 10 0.12
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.54
Consensus pattern (15 bp):
TATTAAAATATTTTA
Found at i:30856066 original size:25 final size:25
Alignment explanation
Indices: 30856038--30856089 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
30856028 TTTTGAGCAA
30856038 TTTAACTTT-TTTTATTTTATATTCT
1 TTTAACTTTCTTTT-TTTTATATTCT
* * *
30856063 TTTAGCTTTCTTTTTTTTTTCTTCT
1 TTTAACTTTCTTTTTTTTATATTCT
30856088 TT
1 TT
30856090 ATTTTCCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTAACTTTCTTTTTTTTATATTCT
Found at i:30862657 original size:44 final size:42
Alignment explanation
Indices: 30862538--30862659 Score: 136
Period size: 44 Copynumber: 2.8 Consensus size: 42
30862528 GTGGCAAATC
* * *
30862538 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAAT
1 TTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGACACAAAA
** * *
30862581 TCTATCTCACTGAAGTTATAGTTGAGCAGATTGAAGATACAAAAA
1 T-TATCTC-CTGAAGTTGCAGTGGAGCAGATTGAAGACAC-AAAA
30862626 TTATCTCCTAGAAGTTGCAGTGGAGCAGATTGAA
1 TTATCTCCT-GAAGTTGCAGTGGAGCAGATTGAA
30862660 TATGCGAATC
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
43 4 0.06
44 57 0.88
45 4 0.06
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (42 bp):
TTATCTCCTGAAGTTGCAGTGGAGCAGATTGAAGACACAAAA
Found at i:30862857 original size:44 final size:44
Alignment explanation
Indices: 30862767--30863014 Score: 248
Period size: 44 Copynumber: 5.6 Consensus size: 44
30862757 CGTTATGGTG
* * * * * * * *
30862767 AATCTTATCTCTCTAAAGTTCCAGAGAAGCAGATTAAAGCCGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGACACA
** * *
30862811 AATCTTATCTCTTTGAAGTTACAGTGGAGTAGATTAAAGATACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGACACA
** * * *
30862855 AATCCAATCTCCCTGGAGTTACAGTGGATTAGATTGAAA-ACACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAAGACACA
30862899 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAA-ACACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAAGACACA
* * * * * *
30862943 AATCTTATCTCCTTAAAGTTGCAGTCGAGCAGATTAAAGATACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGACACA
*
30862987 AATCTTATTTCCCTGAAGTTGCAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
30863015 ACATACAAAT
Statistics
Matches: 171, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
43 3 0.02
44 165 0.96
45 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGACACA
Found at i:30862891 original size:233 final size:233
Alignment explanation
Indices: 30862483--30862923 Score: 519
Period size: 233 Copynumber: 1.9 Consensus size: 233
30862473 GTGAAACCAT
* * * *
30862483 AAATCCTATACCTCTGAAGTTGCAGTGGAATGGATTGAAGTTATCGTGGCAAATCTTATCTCCCT
1 AAATCCTATACCCCTGAAGTTGCAGTGGAATGGAATGAAGTCATCATGGCAAATCTTATCTCCCT
* * * * * *
30862548 GAAGTTGCAGTGGAGCAGATTAAAGCCACAAATTCTATCTCACTGAAGTTATAGTTGAGCAGATT
66 AAAGTTCCAGAGAAGCAGATTAAAGCCACAAATTCTATCTCACTGAAGTTACAGTGGAGCAGATT
* ** * * ** * * *
30862613 GAAGATACAAAAATTATCTCCTAGAAGTTGCAGTGGAGCAGATTGAATATGCGAATCTTATTTTC
131 AAAGATACAAAAACAATCTCCTAGAAGTTACAGTGGAGCAGATTGAAAACACAAATCTTATCTCC
30862678 CTGAAGTTGCAGTCGAATAAATTAAATCTACAAATCAC
196 CTGAAGTTGCAGTCGAATAAATTAAATCTACAAATCAC
* * * ** *
30862716 AAATCCTATACCCCTGAAGTTGCCGTAGG-ATGGAATGAAGTCGTTATGGTGAATCTTATCTCTC
1 AAATCCTATACCCCTGAAGTTGCAGT-GGAATGGAATGAAGTCATCATGGCAAATCTTATCTCCC
* ** *
30862780 TAAAGTTCCAGAGAAGCAGATTAAAGCCGCAAA-TCTTATCTCTTTGAAGTTACAGTGGAGTAGA
65 TAAAGTTCCAGAGAAGCAGATTAAAGCCACAAATTC-TATCTCACTGAAGTTACAGTGGAGCAGA
** * **
30862844 TTAAAGATACAAATCCAATCTCCCT-GGAGTTACAGTGGATTAGATTGAAAACACAAATCTTATC
129 TTAAAGATACAAAAACAATCT-CCTAGAAGTTACAGTGGAGCAGATTGAAAACACAAATCTTATC
30862908 TCCCTGAAGTTGCAGT
193 TCCCTGAAGTTGCAGT
30862924 GGAGTAGATT
Statistics
Matches: 170, Mismatches: 35, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
232 2 0.01
233 163 0.96
234 5 0.03
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (233 bp):
AAATCCTATACCCCTGAAGTTGCAGTGGAATGGAATGAAGTCATCATGGCAAATCTTATCTCCCT
AAAGTTCCAGAGAAGCAGATTAAAGCCACAAATTCTATCTCACTGAAGTTACAGTGGAGCAGATT
AAAGATACAAAAACAATCTCCTAGAAGTTACAGTGGAGCAGATTGAAAACACAAATCTTATCTCC
CTGAAGTTGCAGTCGAATAAATTAAATCTACAAATCAC
Found at i:30863117 original size:123 final size:123
Alignment explanation
Indices: 30862896--30863142 Score: 309
Period size: 123 Copynumber: 2.0 Consensus size: 123
30862886 GATTGAAAAC
* ** *
30862896 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAAACACAAATCTTATCTCCTTAAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGAAAAAAATTGAAAACACAAATCTTATCTCCTTAAAG
* * ** * * *
30862961 TTGCAGTCGAGCAGATTAAAGATACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAT
66 TTGCAGTCGAACAAATTAAAGATAAAAAACTTATTTCCCTAAAGTTGCAATGGAACAT
* *
30863019 ACAAATCTTATCTCTCTGAAGTTGCAGTGAAAAAAATT-AAAGTCACAAAT-TTCATCTCCTTAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGAAAAAAATTGAAA-ACACAAATCTT-ATCTCCTTAA
* * * *
30863082 AGTTGTAGTGGAACAAATTAAAGCTAAAAAACTTATTTCCCTAAAGTTGTAATGGAACAT
64 AGTTGCAGTCGAACAAATTAAAGATAAAAAACTTATTTCCCTAAAGTTGCAATGGAACAT
30863142 A
1 A
30863143 TTGAAGCTAC
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
122 5 0.05
123 100 0.95
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (123 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGAAAAAAATTGAAAACACAAATCTTATCTCCTTAAAG
TTGCAGTCGAACAAATTAAAGATAAAAAACTTATTTCCCTAAAGTTGCAATGGAACAT
Found at i:30866719 original size:3 final size:3
Alignment explanation
Indices: 30866711--30866749 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
30866701 GATGCATCTC
30866711 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30866750 AAGAAGAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30875607 original size:14 final size:13
Alignment explanation
Indices: 30875575--30875615 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
30875565 AATCAAGTTT
30875575 TAATA-ATAAAT-
1 TAATATATAAATA
30875586 TAATATATAAATA
1 TAATATATAAATA
*
30875599 TACATATATTAATA
1 TA-ATATATAAATA
30875613 TAA
1 TAA
30875616 ATTTTTGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 5 0.19
12 6 0.23
13 3 0.12
14 12 0.46
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
TAATATATAAATA
Found at i:30876878 original size:25 final size:24
Alignment explanation
Indices: 30876844--30876897 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
30876834 ATTTTATATT
*
30876844 AATATTTATATTAATATTAAATAA
1 AATAATTATATTAATATTAAATAA
**
30876868 ATATAATTATATTCCTATTAAATAA
1 A-ATAATTATATTAATATTAAATAA
30876893 AATAA
1 AATAA
30876898 AAATATTCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
AATAATTATATTAATATTAAATAA
Found at i:30876903 original size:24 final size:25
Alignment explanation
Indices: 30876858--30876906 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
30876848 TTTATATTAA
**
30876858 TATTAAATAAATATAATTATATTCC
1 TATTAAATAAATATAAAAATATTCC
30876883 TATTAAATAAA-ATAAAAATATTCC
1 TATTAAATAAATATAAAAATATTCC
30876907 CACCCCTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (25 bp):
TATTAAATAAATATAAAAATATTCC
Found at i:30889537 original size:11 final size:11
Alignment explanation
Indices: 30889521--30889547 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
30889511 CTAGAAATAG
30889521 TTTGTGAAACT
1 TTTGTGAAACT
30889532 TTTGTGAAACT
1 TTTGTGAAACT
30889543 TTTGT
1 TTTGT
30889548 ATTGAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:30891108 original size:91 final size:91
Alignment explanation
Indices: 30890952--30891158 Score: 281
Period size: 91 Copynumber: 2.3 Consensus size: 91
30890942 TTGATTTTAG
* *
30890952 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATAAAATTATACATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATAAAATTATACATCACTATTAAATTAT
* *
30891017 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* * * *
30891044 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATAAAATTATACATCACTATTAAATTATA
30891109 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
30891135 CAAATTCATAAAATATAATTTATT
1 TAAATTCATATAAGAAAATTTATT
30891159 GGTTATAATT
Statistics
Matches: 102, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
91 83 0.81
92 19 0.19
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATAAAATTATACATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:30891299 original size:120 final size:120
Alignment explanation
Indices: 30891175--30891707 Score: 937
Period size: 120 Copynumber: 4.4 Consensus size: 120
30891165 AATTATTTTA
* * *
30891175 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAAT-ATGAATTAT-TTCAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAAT-AATTATGTT--AATTTATAT
* * *
30891237 TTTATAGTATCATATATTATGATTTGTGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTTAATTCATATAAGAATATTAATTATTAAG
30891295 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
30891360 ACAGTATCATATATTATTATTTGAGTTAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTTAATTCATATAAGAATATTAATTATTAAG
30891415 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
30891480 ACAGTATCATATATTATGATTTGAGTTAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTTAATTCATATAAGAATATTAATTATTAAG
30891535 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
30891600 ACAGTATCATATATTATTATTTGAGTTAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTTAATTCATATAAGAATATTAATTATTAAG
*
30891655 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
30891708 TAAATATGAT
Statistics
Matches: 400, Mismatches: 10, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
119 5 0.01
120 391 0.98
121 4 0.01
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTTAATTCATATAAGAATATTAATTATTAAG
Found at i:30891335 original size:15 final size:15
Alignment explanation
Indices: 30891300--30891351 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30891290 TTAAGAATTT
*
30891300 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30891314 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30891328 TATTTAATAATAAT-
1 TATTTAATTATAATA
30891342 TATGTTAATT
1 TAT-TTAATT
30891352 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30891416 original size:16 final size:18
Alignment explanation
Indices: 30891385--30891417 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
30891375 ATTATTTGAG
30891385 TTAATTCATATAAGAATA
1 TTAATTCATATAAGAATA
30891403 TTAATT-AT-TAAGAAT
1 TTAATTCATATAAGAAT
30891418 TTTATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAATTCATATAAGAATA
Found at i:30891455 original size:15 final size:15
Alignment explanation
Indices: 30891420--30891471 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30891410 TTAAGAATTT
*
30891420 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30891434 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30891448 TATTTAATAATAAT-
1 TATTTAATTATAATA
30891462 TATGTTAATT
1 TAT-TTAATT
30891472 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30891536 original size:16 final size:18
Alignment explanation
Indices: 30891505--30891537 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
30891495 ATGATTTGAG
30891505 TTAATTCATATAAGAATA
1 TTAATTCATATAAGAATA
30891523 TTAATT-AT-TAAGAAT
1 TTAATTCATATAAGAAT
30891538 TTTATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAATTCATATAAGAATA
Found at i:30891575 original size:15 final size:15
Alignment explanation
Indices: 30891540--30891591 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30891530 TTAAGAATTT
*
30891540 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30891554 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30891568 TATTTAATAATAAT-
1 TATTTAATTATAATA
30891582 TATGTTAATT
1 TAT-TTAATT
30891592 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30891656 original size:16 final size:18
Alignment explanation
Indices: 30891625--30891657 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
30891615 ATTATTTGAG
30891625 TTAATTCATATAAGAATA
1 TTAATTCATATAAGAATA
30891643 TTAATT-AT-TAAGAAT
1 TTAATTCATATAAGAAT
30891658 TTTATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAATTCATATAAGAATA
Found at i:30891945 original size:16 final size:16
Alignment explanation
Indices: 30891924--30891961 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
30891914 TTGATTTGCT
*
30891924 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
30891940 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
30891956 AATACA
1 ATTACA
30891962 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Done.