Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 45 of 221
Found at i:12698032 original size:23 final size:24
Alignment explanation
Indices: 12698006--12698050 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
12697996 ATATCCCCAC
*
12698006 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
12698029 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
12698051 GTAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:12698167 original size:34 final size:34
Alignment explanation
Indices: 12698124--12698201 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 34
12698114 GCATTTTTGA
* *
12698124 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
*
12698157 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGTT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTG-T
12698193 CAACTGTAC
1 C-ACTGTAC
12698202 ACTATGAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 5 0.13
34 20 0.53
35 4 0.11
36 5 0.13
37 4 0.11
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:12700432 original size:15 final size:16
Alignment explanation
Indices: 12700412--12700453 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 16
12700402 ATGGTATATA
12700412 TATTTTAAAA-TTTTT
1 TATTTTAAAATTTTTT
12700427 TATTTTAAAATTTTTTT
1 TATTTTAAAA-TTTTTT
12700444 TATTTTAAAA
1 TATTTTAAAA
12700454 AATGAATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.40
17 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTAAAATTTTTT
Found at i:12706994 original size:72 final size:72
Alignment explanation
Indices: 12706877--12707024 Score: 206
Period size: 72 Copynumber: 2.1 Consensus size: 72
12706867 CGTTTATTAT
* *
12706877 GGCCTGACAAATGGTCGTGTCCTTATCGTTGGGTATTTTACACGTCACACACACAACCTCAGGCT
1 GGCCTGACAAATAGTCGTGTCCTTATCATTGGGTATTTTACACGTCACACACACAACCTCAGGCT
*
12706942 GTTACAC
66 ATTACAC
* * ** ** *
12706949 GGCCTGACACATAGTCGTGTCCTTATCATTGGGTATTTTGCACGTCGTACACACGGCCTTAGGCT
1 GGCCTGACAAATAGTCGTGTCCTTATCATTGGGTATTTTACACGTCACACACACAACCTCAGGCT
12707014 ATTACAC
66 ATTACAC
12707021 GGCC
1 GGCC
12707025 GTGTACCCCC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (72 bp):
GGCCTGACAAATAGTCGTGTCCTTATCATTGGGTATTTTACACGTCACACACACAACCTCAGGCT
ATTACAC
Found at i:12709217 original size:29 final size:29
Alignment explanation
Indices: 12709175--12709233 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
12709165 TCACTTAACA
12709175 TAGCTAGTGGTCTTCTTGGTGTTGATACT
1 TAGCTAGTGGTCTTCTTGGTGTTGATACT
12709204 TAGCTAGTGGTCTTCTTGGTGTTGATACT
1 TAGCTAGTGGTCTTCTTGGTGTTGATACT
12709233 T
1 T
12709234 GCTTAAGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.14, C:0.14, G:0.27, T:0.46
Consensus pattern (29 bp):
TAGCTAGTGGTCTTCTTGGTGTTGATACT
Found at i:12711950 original size:13 final size:14
Alignment explanation
Indices: 12711916--12711949 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
12711906 ATTTGAAATT
*
12711916 TTAAAAATATATTA
1 TTAAAAAGATATTA
12711930 TTAAAAAGATATTA
1 TTAAAAAGATATTA
12711944 TTAAAA
1 TTAAAA
12711950 GGTTTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
TTAAAAAGATATTA
Found at i:12712092 original size:10 final size:9
Alignment explanation
Indices: 12712062--12712111 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
12712052 CAAAGAAGCA
12712062 TTTTATAATT
1 TTTTATAA-T
12712072 TTTCTATAAT
1 TTT-TATAAT
12712082 TTTTATGAAT
1 TTTTAT-AAT
12712092 TTTTAT--T
1 TTTTATAAT
*
12712099 TTTTATCAT
1 TTTTATAAT
12712108 TTTT
1 TTTT
12712112 TTGTCACATG
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 7 0.19
9 8 0.22
10 16 0.44
11 5 0.14
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (9 bp):
TTTTATAAT
Found at i:12712271 original size:29 final size:28
Alignment explanation
Indices: 12712238--12712300 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
12712228 TTTATAATTT
*
12712238 TATTTTTA-TGATTTTTATAAAATTTTATA
1 TATTTTTACT-ATTTTTAT-AAATTTTAAA
12712267 TATTTTTACTATTTTTATAAATTTTAAA
1 TATTTTTACTATTTTTATAAATTTTAAA
12712295 TATTTT
1 TATTTT
12712301 ATTAAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 15 0.47
29 16 0.50
30 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (28 bp):
TATTTTTACTATTTTTATAAATTTTAAA
Found at i:12712354 original size:9 final size:9
Alignment explanation
Indices: 12712239--12712355 Score: 62
Period size: 9 Copynumber: 12.7 Consensus size: 9
12712229 TTATAATTTT
*
12712239 ATTTTTATG
1 ATTTTTATA
12712248 ATTTTTATAA
1 ATTTTTAT-A
*
12712258 AATTTTATA
1 ATTTTTATA
12712267 TATTTTTACT-
1 -ATTTTTA-TA
12712277 ATTTTTATA
1 ATTTTTATA
*
12712286 AATTTTA-A
1 ATTTTTATA
12712294 ATATTTTATTAA
1 AT-TTTTA-T-A
* *
12712306 AATTTAATA
1 ATTTTTATA
* *
12712315 ACTTTAATA
1 ATTTTTATA
* *
12712324 ACTTTTATTG
1 ATTTTTA-TA
12712334 ATTTTTAT-
1 ATTTTTATA
12712342 -TTTTTATA
1 ATTTTTATA
12712350 ATTTTT
1 ATTTTT
12712356 TGCCACATGT
Statistics
Matches: 86, Mismatches: 11, Indels: 22
0.72 0.09 0.18
Matches are distributed among these distances:
7 7 0.08
8 3 0.03
9 48 0.56
10 21 0.24
11 5 0.06
12 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (9 bp):
ATTTTTATA
Found at i:12725981 original size:18 final size:18
Alignment explanation
Indices: 12725955--12725989 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12725945 ATGATATGCC
*
12725955 AAACTATTTTCATGCTTG
1 AAACCATTTTCATGCTTG
*
12725973 AAACCATTTTGATGCTT
1 AAACCATTTTCATGCTT
12725990 ACCATTCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
AAACCATTTTCATGCTTG
Found at i:12730018 original size:22 final size:21
Alignment explanation
Indices: 12729982--12730022 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
12729972 TGGGATCTCA
12729982 TGAAATTATAGAAAAATACCTT
1 TGAAATTATAG-AAAATACCTT
**
12730004 TGAAATTATTTAAAATACC
1 TGAAATTATAGAAAATACC
12730023 CCAAATTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (21 bp):
TGAAATTATAGAAAATACCTT
Found at i:12730931 original size:54 final size:54
Alignment explanation
Indices: 12730873--12730994 Score: 138
Period size: 54 Copynumber: 2.3 Consensus size: 54
12730863 GTCCTCACCT
* *
12730873 GTGTAACTCACTGGGTTGCCACACACGCCCCTGT-TCCAGACCGTGTGCTAAGCC
1 GTGTAACTCACTGAGTTACCACACACGCCCCTGTGT-CAGACCGTGTGCTAAGCC
* * ** * * *
12730927 GTGTAACTTAATGAGTTACCACACACGCCTGTGTGTCAGGCCGTGTGTTAGGCC
1 GTGTAACTCACTGAGTTACCACACACGCCCCTGTGTCAGACCGTGTGCTAAGCC
*
12730981 GTTTAACTCACTGA
1 GTGTAACTCACTGA
12730995 CTTTAAACAT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 54 0.98
55 1 0.02
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (54 bp):
GTGTAACTCACTGAGTTACCACACACGCCCCTGTGTCAGACCGTGTGCTAAGCC
Found at i:12736750 original size:34 final size:34
Alignment explanation
Indices: 12736712--12736779 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
12736702 ATCAAGCTAA
*
12736712 AACTTACACATTTAAATCACATCATTTGCACAAG
1 AACTTACACATTTAAAACACATCATTTGCACAAG
12736746 AACTTACACATTTAAAACACATCATTTGCACAAG
1 AACTTACACATTTAAAACACATCATTTGCACAAG
12736780 CATTCATAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.28
Consensus pattern (34 bp):
AACTTACACATTTAAAACACATCATTTGCACAAG
Found at i:12737823 original size:40 final size:40
Alignment explanation
Indices: 12737778--12738041 Score: 264
Period size: 40 Copynumber: 6.6 Consensus size: 40
12737768 GTAGATGTAG
* *
12737778 AACAGGGGCACATATGTGAATTCAGGGGTACCAAAGTATA
1 AACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACA
* * * * *
12737818 AACAGGGGCACGTATGTGCATTTAGAGGGTA-CTAAGAACT
1 AACAGGGGCACATATGTGCATTCAG-GGGTACCAAAGTACA
* * * * **
12737858 AACAGGAGCACGTGTGTGCATTCTGGTCTACCAAAGTACA
1 AACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACA
* * * * *
12737898 AACAGGGGCGCGTATGTGCATTTAGGGGTACCGAAGTACG
1 AACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACA
* *
12737938 AATAGGGGCACATATGTGCATTCAGGGGTACCGAAGTACA
1 AACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACA
*
12737978 AACAGGGGCACGA-ATGTGCATTCAGGGGTATCGAAA-TACA
1 AACAGGGGCAC-ATATGTGCATTCAGGGGTA-CCAAAGTACA
* * *
12738018 AATAGGGGCACACATGTGCGTTCA
1 AACAGGGGCACATATGTGCATTCA
12738042 AGTACATTTT
Statistics
Matches: 184, Mismatches: 35, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
39 4 0.02
40 171 0.93
41 9 0.05
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (40 bp):
AACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACA
Found at i:12737964 original size:20 final size:19
Alignment explanation
Indices: 12737941--12738005 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
12737931 AAGTACGAAT
12737941 AGGGGCACATATGTGCATTC
1 AGGGGCACA-ATGTGCATTC
* * **
12737961 AGGGGTACCGAA-GTACAAAC
1 AGGGGCA-C-AATGTGCATTC
12737981 AGGGGCACGAATGTGCATTC
1 AGGGGCAC-AATGTGCATTC
12738001 AGGGG
1 AGGGG
12738006 TATCGAAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
19 4 0.12
20 27 0.79
21 2 0.06
22 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.35, T:0.17
Consensus pattern (19 bp):
AGGGGCACAATGTGCATTC
Found at i:12738022 original size:80 final size:79
Alignment explanation
Indices: 12737781--12738041 Score: 308
Period size: 80 Copynumber: 3.3 Consensus size: 79
12737771 GATGTAGAAC
* *
12737781 AGGGGCACATATGTGAATTCAGGGGTACCAAAGTATAAACAGGGGCACGTATGTGCATTTAGAGG
1 AGGGGCACATATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTTAG-GG
* * *
12737846 GTACTAAGA-ACTAAC
65 GTACGAA-ATACAAAT
* * * * ** *
12737861 AGGAGCACGTGTGTGCATTCTGGTCTACCAAAGTACAAACAGGGGCGCGTATGTGCATTTAGGGG
1 AGGGGCACATATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTTAGGGG
* *
12737926 TACCGAAGTACGAAT
66 TA-CGAAATACAAAT
* * *
12737941 AGGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGAATGTGCATTCAGGGG
1 AGGGGCACATATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTTAGGGG
12738006 TATCGAAATACAAAT
66 TA-CGAAATACAAAT
* *
12738021 AGGGGCACACATGTGCGTTCA
1 AGGGGCACATATGTGCATTCA
12738042 AGTACATTTT
Statistics
Matches: 151, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
79 5 0.03
80 146 0.97
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.21
Consensus pattern (79 bp):
AGGGGCACATATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTTAGGGG
TACGAAATACAAAT
Found at i:12742457 original size:91 final size:91
Alignment explanation
Indices: 12742302--12742470 Score: 311
Period size: 91 Copynumber: 1.9 Consensus size: 91
12742292 TGACTTACTA
**
12742302 GACTAACAATAAATCAGATTGGACCCAAGAAGAATAGATCTTGAATCTGTTTATGGATTTATTCA
1 GACTAACAATAAATCAGATTGGACCCAAGAAGAATAGATCTTGAATCCATTTATGGATTTATTCA
12742367 CTTATGACGTTCAGAGTGTGATATTG
66 CTTATGACGTTCAGAGTGTGATATTG
12742393 GACTAACAATAAATCAGATTGGACCCAAGAAGAATAGATCTTGAATCCATTTATGGATTTATTCA
1 GACTAACAATAAATCAGATTGGACCCAAGAAGAATAGATCTTGAATCCATTTATGGATTTATTCA
*
12742458 CTTGTGACGTTCA
66 CTTATGACGTTCA
12742471 AAATGTGACA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 75 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (91 bp):
GACTAACAATAAATCAGATTGGACCCAAGAAGAATAGATCTTGAATCCATTTATGGATTTATTCA
CTTATGACGTTCAGAGTGTGATATTG
Found at i:12746351 original size:7 final size:7
Alignment explanation
Indices: 12746339--12746412 Score: 139
Period size: 7 Copynumber: 10.6 Consensus size: 7
12746329 GTATGTAAAC
12746339 ATATAAT
1 ATATAAT
12746346 ATATAAT
1 ATATAAT
12746353 ATATAAT
1 ATATAAT
12746360 ATATAAT
1 ATATAAT
12746367 ATATAAT
1 ATATAAT
12746374 ATATAAT
1 ATATAAT
12746381 ATATAAT
1 ATATAAT
12746388 ATATAAT
1 ATATAAT
*
12746395 ATATAGT
1 ATATAAT
12746402 ATATAAT
1 ATATAAT
12746409 ATAT
1 ATAT
12746413 GATAAAAACA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 65 1.00
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (7 bp):
ATATAAT
Found at i:12761369 original size:43 final size:44
Alignment explanation
Indices: 12761321--12761438 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
12761311 AATCTGCCTA
* *
12761321 AAAAAGAGAAGAAGATAATCTTGGGTTGTTG-AAAACAGAA-TTT
1 AAAAAGAG-AGAAGATAATCTTAGGTTGTTGAAAAAAAGAATTTT
* *
12761364 AAAAAGAGGAGAAGATAATCCTAAGTTGTTGAAAAAAAGAATTTT
1 AAAAAGA-GAGAAGATAATCTTAGGTTGTTGAAAAAAAGAATTTT
* * *
12761409 AAAAAAAGAGAAGATAAACTTCGGTTGTTG
1 AAAAAGAGAGAAGATAATCTTAGGTTGTTG
12761439 GATTTTCCCT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
43 26 0.41
44 28 0.44
45 9 0.14
ACGTcount: A:0.48, C:0.05, G:0.22, T:0.25
Consensus pattern (44 bp):
AAAAAGAGAGAAGATAATCTTAGGTTGTTGAAAAAAAGAATTTT
Found at i:12761406 original size:44 final size:44
Alignment explanation
Indices: 12761321--12761425 Score: 133
Period size: 43 Copynumber: 2.4 Consensus size: 44
12761311 AATCTGCCTA
* * ** *
12761321 AAAAAGAGAAGAAGATAATCTTGGGTTGTTGAAAACAGAA-TTT
1 AAAAAGAGGAGAAGATAATCCTAAGTTGTTGAAAAAAGAATTTT
12761364 AAAAAGAGGAGAAGATAATCCTAAGTTGTTGAAAAAAAGAATTTT
1 AAAAAGAGGAGAAGATAATCCTAAGTTGTTG-AAAAAAGAATTTT
*
12761409 AAAAA-AAGAGAAGATAA
1 AAAAAGAGGAGAAGATAA
12761426 ACTTCGGTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
43 27 0.50
44 19 0.35
45 8 0.15
ACGTcount: A:0.53, C:0.04, G:0.21, T:0.22
Consensus pattern (44 bp):
AAAAAGAGGAGAAGATAATCCTAAGTTGTTGAAAAAAGAATTTT
Found at i:12761911 original size:12 final size:12
Alignment explanation
Indices: 12761894--12761921 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
12761884 ACACACGACA
12761894 GTGTCCCAGCCC
1 GTGTCCCAGCCC
12761906 GTGTCCCAGCCC
1 GTGTCCCAGCCC
12761918 GTGT
1 GTGT
12761922 AACTCTCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.43, G:0.29, T:0.21
Consensus pattern (12 bp):
GTGTCCCAGCCC
Found at i:12767950 original size:9 final size:9
Alignment explanation
Indices: 12767936--12767960 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
12767926 CATTTCAAAA
12767936 TCATTCAAT
1 TCATTCAAT
12767945 TCATTCAAT
1 TCATTCAAT
12767954 TCATTCA
1 TCATTCA
12767961 TCCATTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (9 bp):
TCATTCAAT
Found at i:12782048 original size:22 final size:22
Alignment explanation
Indices: 12781931--12782041 Score: 102
Period size: 22 Copynumber: 5.0 Consensus size: 22
12781921 ACTCTGCATA
12781931 ACATGCGAGCCTATATGTTAGT
1 ACATGCGAGCCTATATGTTAGT
* *
12781953 -CTATGCGAGCTTATACGTTAGT
1 AC-ATGCGAGCCTATATGTTAGT
* *** *
12781975 ACATGCAAGCCTATCCATTA-C
1 ACATGCGAGCCTATATGTTAGT
*
12781996 ATCAT-CTGAACCTATATGTTAGT
1 A-CATGC-GAGCCTATATGTTAGT
12782019 ACATGCGAGCCTATATGTTAGT
1 ACATGCGAGCCTATATGTTAGT
12782041 A
1 A
12782042 TGTGCGAACC
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
21 3 0.04
22 63 0.91
23 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (22 bp):
ACATGCGAGCCTATATGTTAGT
Found at i:12782051 original size:44 final size:44
Alignment explanation
Indices: 12781931--12782051 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 44
12781921 ACTCTGCATA
* * *
12781931 ACATGCGAGCCTATATGTTAGTCTATGCGAGCTTATACGTTAGT
1 ACATGCGAGCCTATATGTTAGTATATGCGAACCTATACGTTAGT
* *** * *
12781975 ACATGCAAGCCTATCCATTA-CATCAT-CTGAACCTATATGTTAGT
1 ACATGCGAGCCTATATGTTAGTAT-ATGC-GAACCTATACGTTAGT
*
12782019 ACATGCGAGCCTATATGTTAGTATGTGCGAACC
1 ACATGCGAGCCTATATGTTAGTATATGCGAACC
12782052 CCTAAGGTAA
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
43 2 0.03
44 53 0.91
45 3 0.05
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
ACATGCGAGCCTATATGTTAGTATATGCGAACCTATACGTTAGT
Found at i:12782098 original size:17 final size:15
Alignment explanation
Indices: 12782048--12782087 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
12782038 AGTATGTGCG
*
12782048 AACCCCTAAGG-TAA
1 AACCCCTAAGGTTCA
12782062 ACACCCCTAAGGTTCA
1 A-ACCCCTAAGGTTCA
12782078 AACCCCTAAG
1 AACCCCTAAG
12782088 TTTGCGAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 19 0.83
16 3 0.13
ACGTcount: A:0.38, C:0.35, G:0.12, T:0.15
Consensus pattern (15 bp):
AACCCCTAAGGTTCA
Found at i:12782197 original size:27 final size:27
Alignment explanation
Indices: 12782140--12782200 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
12782130 ATGCGGTAAC
*
12782140 CCTAGGTGTGCGAACACATTTGTGAAC
1 CCTAGGTGTGCGAACACATTTGTGAAA
* *
12782167 CCTAGGTGTGCG-ACCCTTTTGTGAGAA
1 CCTAGGTGTGCGAACACATTTGTGA-AA
12782194 CCTAGGT
1 CCTAGGT
12782201 CTGGGAGCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (27 bp):
CCTAGGTGTGCGAACACATTTGTGAAA
Found at i:12787519 original size:22 final size:22
Alignment explanation
Indices: 12787493--12787548 Score: 58
Period size: 28 Copynumber: 2.3 Consensus size: 22
12787483 TCAGAAATAG
12787493 TACAGTGTGGGCCTTAGCCCAA
1 TACAGTGTGGGCCTTAGCCCAA
12787515 TACAGTAACAATGTGGGCCTTAGCCCAA
1 TACAG------TGTGGGCCTTAGCCCAA
12787543 TACAGT
1 TACAGT
12787549 ATCGATACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
22 6 0.21
28 22 0.79
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (22 bp):
TACAGTGTGGGCCTTAGCCCAA
Found at i:12787686 original size:26 final size:26
Alignment explanation
Indices: 12787657--12787711 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
12787647 AAGACACCAA
*
12787657 TATCGCAGCAAAGCTACCAATAATAG
1 TATCGCAGCAAAGCTACCAATAACAG
* * *
12787683 TATCGTAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTACCAATAACAG
12787709 TAT
1 TAT
12787712 ACTTCCTCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACCAATAACAG
Found at i:12790499 original size:10 final size:10
Alignment explanation
Indices: 12790484--12790508 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
12790474 ATGCCATCAC
12790484 ACATATATAT
1 ACATATATAT
12790494 ACATATATAT
1 ACATATATAT
12790504 ACATA
1 ACATA
12790509 AGATTTCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (10 bp):
ACATATATAT
Found at i:12792886 original size:20 final size:20
Alignment explanation
Indices: 12792844--12792884 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
12792834 TGTTTAGTTA
12792844 TTATTTTAAATATTTATTAT
1 TTATTTTAAATATTTATTAT
* *
12792864 TTATTTTTAA-ATTTCTTAT
1 TTATTTTAAATATTTATTAT
12792883 TT
1 TT
12792885 TAGTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTTTAAATATTTATTAT
Found at i:12793451 original size:18 final size:18
Alignment explanation
Indices: 12793428--12793465 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
12793418 TGGAACTTAC
12793428 TTCCTTTGGAGTCGAGTT
1 TTCCTTTGGAGTCGAGTT
12793446 TTCCTTTGGAGTCGAGTT
1 TTCCTTTGGAGTCGAGTT
12793464 TT
1 TT
12793466 GTTAAAGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.16, G:0.26, T:0.47
Consensus pattern (18 bp):
TTCCTTTGGAGTCGAGTT
Found at i:12802633 original size:7 final size:7
Alignment explanation
Indices: 12802621--12802670 Score: 100
Period size: 7 Copynumber: 7.1 Consensus size: 7
12802611 ATTATTCTAA
12802621 TCTCTTT
1 TCTCTTT
12802628 TCTCTTT
1 TCTCTTT
12802635 TCTCTTT
1 TCTCTTT
12802642 TCTCTTT
1 TCTCTTT
12802649 TCTCTTT
1 TCTCTTT
12802656 TCTCTTT
1 TCTCTTT
12802663 TCTCTTT
1 TCTCTTT
12802670 T
1 T
12802671 GACTCAATCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTCTTT
Found at i:12803115 original size:12 final size:11
Alignment explanation
Indices: 12803097--12803130 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
12803087 GATTTCATTG
12803097 TTTGTTTATTT
1 TTTGTTTATTT
12803108 TATTGTTTATTT
1 T-TTGTTTATTT
*
12803120 TTTATTTATTT
1 TTTGTTTATTT
12803131 AATTTCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (11 bp):
TTTGTTTATTT
Found at i:12806791 original size:39 final size:39
Alignment explanation
Indices: 12806743--12806846 Score: 113
Period size: 40 Copynumber: 2.7 Consensus size: 39
12806733 GTTTGGACAA
* *
12806743 AAAATGCCGCTAAAATTGAGCATTAGCAGCGCTTCTCA-T
1 AAAACGCCGCTAAAATTGAGCATTAGCAGCGCTT-TCAGG
** *
12806782 AAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTCAGG
1 AAAACGCCGCTAAA-ATTGAGCATTAGCAGCGCTTTCAGG
* *
12806822 AAAGCGCCACTAAAA-TGAGCATTAG
1 AAAACGCCGCTAAAATTGAGCATTAG
12806847 AGGCGTTCTT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
38 8 0.15
39 17 0.31
40 29 0.54
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (39 bp):
AAAACGCCGCTAAAATTGAGCATTAGCAGCGCTTTCAGG
Found at i:12807022 original size:41 final size:40
Alignment explanation
Indices: 12806909--12807014 Score: 140
Period size: 41 Copynumber: 2.6 Consensus size: 40
12806899 TTGACCTTCT
* *
12806909 AGGGCTTTAGCGGCGTTTTTAAAAAGCGTCGCTAATGCTT
1 AGGGCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTC
* * * *
12806949 AGAGCTTTAGCGGCATTTTCCAAGAAGCGCCGCTAATGCTC
1 AGGGCTTTAGCGGCGTTTT-TAAAAAGCGCCGCTAATGCTC
*
12806990 GGGGCTTTAGCGGCGTTTTTAAAAA
1 AGGGCTTTAGCGGCGTTTTTAAAAA
12807015 AGTGCCGCAA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 21 0.39
41 33 0.61
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
AGGGCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTC
Found at i:12807442 original size:7 final size:7
Alignment explanation
Indices: 12807432--12807483 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
12807422 ATTTTAAGGT
*
12807432 TTATAGA
1 TTATGGA
12807439 TTATGGAA
1 TTATGG-A
*
12807447 TTAGGGA
1 TTATGGA
12807454 TTATGGA
1 TTATGGA
12807461 TTATGGA
1 TTATGGA
*
12807468 TTATAGA
1 TTATGGA
*
12807475 TTAGGGA
1 TTATGGA
12807482 TT
1 TT
12807484 CTGGTTTAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (7 bp):
TTATGGA
Found at i:12807468 original size:14 final size:14
Alignment explanation
Indices: 12807437--12807483 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
12807427 AAGGTTTATA
12807437 GATTATGGAATTAGG
1 GATTATGG-ATTAGG
*
12807452 GATTATGGATTATG
1 GATTATGGATTAGG
*
12807466 GATTATAGATTAGG
1 GATTATGGATTAGG
12807480 GATT
1 GATT
12807484 CTGGTTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 21 0.72
15 8 0.28
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.38
Consensus pattern (14 bp):
GATTATGGATTAGG
Found at i:12808564 original size:11 final size:11
Alignment explanation
Indices: 12808548--12808572 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12808538 AGTTCTTCGA
12808548 TCCTTTCCGTC
1 TCCTTTCCGTC
12808559 TCCTTTCCGTC
1 TCCTTTCCGTC
12808570 TCC
1 TCC
12808573 AAAGCTCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.48, G:0.08, T:0.44
Consensus pattern (11 bp):
TCCTTTCCGTC
Found at i:12812130 original size:42 final size:42
Alignment explanation
Indices: 12812084--12812407 Score: 470
Period size: 43 Copynumber: 7.6 Consensus size: 42
12812074 AAACGTCGCG
* * *
12812084 AAAGGTCATGGTCTTTAGCAGCG-TTGTGGGAAAAGCGCCGCT
1 AAAGGTCTTGGTCTTTAGC-GCGTTTGTGGGAGAAGTGCCGCT
*
12812126 AAAGGTCTTGGTCTTTAGCGACGTTTGTGAGAGAAGTGCCGCT
1 AAAGGTCTTGGTCTTTAGCG-CGTTTGTGGGAGAAGTGCCGCT
*
12812169 AAAGGTCTTGGTCTTTAGCAGCGTTTGTGGGAGAAGTGTCGCT
1 AAAGGTCTTGGTCTTTAGC-GCGTTTGTGGGAGAAGTGCCGCT
*
12812212 AAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAGAAGCGCCGCT
1 AAAGGTCTTGGTCTTTAGC-GCGTTTGTGGGAGAAGTGCCGCT
* *
12812255 AAAGGTATTGGTCTTTAGCGGCGTTTGTGGGAGAAGCGCCGCT
1 AAAGGTCTTGGTCTTTAGC-GCGTTTGTGGGAGAAGTGCCGCT
* *
12812298 AAAGGTCTTGGCCTTTAGCGCGTTTGTGAGAGAAGTGCCGCT
1 AAAGGTCTTGGTCTTTAGCGCGTTTGTGGGAGAAGTGCCGCT
* *
12812340 AAAGGTCTTGGCCTTTAGCGCGTTTGTGAGAGAAGTGCCGCT
1 AAAGGTCTTGGTCTTTAGCGCGTTTGTGGGAGAAGTGCCGCT
*
12812382 AAAGGTCTTGGTTTTTAGCGGCGTTT
1 AAAGGTCTTGGTCTTTAGC-GCGTTT
12812408 TTTTCTAAAA
Statistics
Matches: 262, Mismatches: 16, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
41 1 0.00
42 100 0.38
43 160 0.61
44 1 0.00
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (42 bp):
AAAGGTCTTGGTCTTTAGCGCGTTTGTGGGAGAAGTGCCGCT
Found at i:12813563 original size:13 final size:14
Alignment explanation
Indices: 12813545--12813581 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
12813535 AAAAGCATAA
12813545 AAATAATATAAAC-
1 AAATAATATAAACG
12813558 AAATAA-ATAAACG
1 AAATAATATAAACG
12813571 AAATGAATATA
1 AAAT-AATATA
12813582 TATGAAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (14 bp):
AAATAATATAAACG
Found at i:12814164 original size:3 final size:3
Alignment explanation
Indices: 12814158--12814183 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12814148 TTACAATACC
12814158 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
12814184 GGAGAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12817727 original size:20 final size:20
Alignment explanation
Indices: 12817687--12817727 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
12817677 CTTCTAATTG
*
12817687 TATTTATATATATTATTATA
1 TATTTATATATAATATTATA
12817707 TATTTATATA-AATATTGATA
1 TATTTATATATAATATT-ATA
12817727 T
1 T
12817728 GCTAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTTATATATAATATTATA
Found at i:12818663 original size:4 final size:4
Alignment explanation
Indices: 12818654--12818688 Score: 52
Period size: 4 Copynumber: 8.2 Consensus size: 4
12818644 TATTAATATG
12818654 ATAA ATAA ATCAA ATAA ATAA ATAA ATAAA ATAA A
1 ATAA ATAA AT-AA ATAA ATAA ATAA AT-AA ATAA A
12818689 AATGCTATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 21 0.72
5 8 0.28
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:12818672 original size:13 final size:12
Alignment explanation
Indices: 12818654--12818688 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
12818644 TATTAATATG
12818654 ATAAATAAATCAA
1 ATAAATAAAT-AA
12818667 ATAAATAAATAA
1 ATAAATAAATAA
12818679 ATAAAATAAA
1 AT-AAATAAA
12818689 AATGCTATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (12 bp):
ATAAATAAATAA
Found at i:12818676 original size:17 final size:17
Alignment explanation
Indices: 12818654--12818688 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
12818644 TATTAATATG
*
12818654 ATAAATAAATCAAATAA
1 ATAAATAAATAAAATAA
12818671 ATAAATAAATAAAATAA
1 ATAAATAAATAAAATAA
12818688 A
1 A
12818689 AATGCTATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (17 bp):
ATAAATAAATAAAATAA
Found at i:12820768 original size:44 final size:44
Alignment explanation
Indices: 12820696--12820818 Score: 102
Period size: 44 Copynumber: 2.8 Consensus size: 44
12820686 ATTCCAACCC
* * * * * ***
12820696 ACTACAACTTCAGGGGTATAGGAATTGTAGCTTTAATTTGATCA
1 ACTACAAATTTAGGGATATAAGATTTGTAGCTTTAACCCGATCA
* * * *
12820740 ACTATAAATTTAGGGATATAAGATTTGTAACTTCAACCCGATCC
1 ACTACAAATTTAGGGATATAAGATTTGTAGCTTTAACCCGATCA
* * * *
12820784 ACTACCACTTTAGGGATATAGGATTCGTAGCTTTA
1 ACTACAAATTTAGGGATATAAGATTTGTAGCTTTA
12820819 TCTTCTTCCA
Statistics
Matches: 60, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (44 bp):
ACTACAAATTTAGGGATATAAGATTTGTAGCTTTAACCCGATCA
Found at i:12820854 original size:44 final size:44
Alignment explanation
Indices: 12820805--12820948 Score: 121
Period size: 44 Copynumber: 3.1 Consensus size: 44
12820795 AGGGATATAG
*
12820805 GATTCGTAGCTTTATCTTCTTCCACTGCAACTTCAAGGAGATAA
1 GATTCGTAGCTTTATCTTCCTCCACTGCAACTTCAAGGAGATAA
* * * *
12820849 GATTCGCTATCATTGTTTCATTCCAATCAACTGCAACTTCAAGG-GTATAG
1 GATTCG-TAGC-TT-TATC-TTCC--TCCACTGCAACTTCAAGGAG-ATAA
* * * *
12820899 GATTTGTAGCTTCATATTGCTCCACTGCAACTTC-AGAGAGATAA
1 GATTCGTAGCTTTATCTTCCTCCACTGCAACTTCAAG-GAGATAA
12820943 GATTCG
1 GATTCG
12820949 CCATTGTAAT
Statistics
Matches: 77, Mismatches: 14, Indels: 18
0.71 0.13 0.17
Matches are distributed among these distances:
43 2 0.03
44 28 0.36
45 4 0.05
46 5 0.06
47 4 0.05
48 5 0.06
49 4 0.05
50 25 0.32
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (44 bp):
GATTCGTAGCTTTATCTTCCTCCACTGCAACTTCAAGGAGATAA
Found at i:12820925 original size:94 final size:93
Alignment explanation
Indices: 12820790--12821046 Score: 302
Period size: 94 Copynumber: 2.7 Consensus size: 93
12820780 ATCCACTACC
* * *
12820790 ACTTTAGGGATATAGGATTCGTAGCTTTATCTT-CTTCCACTGCAACTTCAAGGAGATAAGATTC
1 ACTTCAGGG-TATAGGATTTGTAGCTTCATCTTGC-TCCACTGCAACTTCAAGGAGATAAGATTC
** *
12820854 GCTATCATTGTTTCATTCCAATCAACTGCA
64 GCTATCATAATTTCATTCCAACCAACTGCA
*
12820884 ACTTCAAGGGTATAGGATTTGTAGCTTCATATTGCTCCACTGCAACTTC-AGAGAGATAAGATTC
1 ACTTC-AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAG-GAGATAAGATTC
* ** *
12820948 GCCATTGTAATTTCATTCCAACCCACTGCA
64 GCTATCATAATTTCATTCCAACCAACTGCA
* * * * * *
12820978 ACTTCAGGAGTATAGCAATTGTAGCTTCATCTTGCTCTACTGTAACTTCAGGGAGATAAGATCCG
1 ACTTCAGG-GTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTCG
12821043 CTAT
65 CTAT
12821047 GGCAGATTCA
Statistics
Matches: 139, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
93 5 0.04
94 128 0.92
95 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (93 bp):
ACTTCAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTCGC
TATCATAATTTCATTCCAACCAACTGCA
Found at i:12821085 original size:94 final size:93
Alignment explanation
Indices: 12820782--12821090 Score: 243
Period size: 94 Copynumber: 3.3 Consensus size: 93
12820772 TCAACCCGAT
* * * * * *
12820782 CCACTACCACTTTAGGGATATAGGATTCGTAGCTTTATCTT-CTTCCACTGCAACTTCA-AGGAG
1 CCACTACAACTTCAGGGGTATAGAATT-GTAGCTTCATATTGC-TCCACTGCAACTTCAGA-GAG
* * * * *
12820845 ATAAGATTCGCTAT--CATTGTTTCATTCCAAT
63 ATAAGATCCGCCATGGCA--ATTTCAATCCAAC
* * * *
12820876 CAACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATATTGCTCCACTGCAACTTCAGAGAGAT
1 CCACTACAACTTCAGGGGTATA-GAATTGTAGCTTCATATTGCTCCACTGCAACTTCAGAGAGAT
* * * *
12820941 AAGATTCGCCATTGTAATTTCATTCCAAC
65 AAGATCCGCCATGGCAATTTCAATCCAAC
* * * * * *
12820970 CCACTGCAACTTCAGGAGTATAGCAATTGTAGCTTCATCTTGCTCTACTGTAACTTCAGGGAGAT
1 CCACTACAACTTCAGGGGTATAG-AATTGTAGCTTCATATTGCTCCACTGCAACTTCAGAGAGAT
* *
12821035 AAGATCCGCTATGGCAGA-TTCAATCCGAC
65 AAGATCCGCCATGGCA-ATTTCAATCCAAC
*
12821064 CCACTA-ACACTTTAGGGGTATAGAATT
1 CCACTACA-ACTTCAGGGGTATAGAATT
12821091 TGTGGTTTCA
Statistics
Matches: 176, Mismatches: 31, Indels: 17
0.79 0.14 0.08
Matches are distributed among these distances:
93 6 0.03
94 163 0.93
95 6 0.03
96 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (93 bp):
CCACTACAACTTCAGGGGTATAGAATTGTAGCTTCATATTGCTCCACTGCAACTTCAGAGAGATA
AGATCCGCCATGGCAATTTCAATCCAAC
Found at i:12827592 original size:28 final size:28
Alignment explanation
Indices: 12827559--12827629 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
12827549 TAATGAGATT
* **
12827559 AGCACTAAGTGTGCGAGTTTAATTG-AA
1 AGCACTAAGTGTGCGAGTATAAGGGTAA
12827586 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTATAAGGGTAA
12827615 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
12827630 TACTTGTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 1 0.03
28 35 0.90
29 3 0.08
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTATAAGGGTAA
Found at i:12828608 original size:25 final size:24
Alignment explanation
Indices: 12828575--12828753 Score: 144
Period size: 25 Copynumber: 7.6 Consensus size: 24
12828565 TTAACGCATA
*
12828575 ATGCTGTCCAATTTTGAGTATATT
1 ATGCTGTCCAATTTTAAGTATATT
*
12828599 GATGTTGTCC-ATTTTAATGTATA--
1 -ATGCTGTCCAATTTTAA-GTATATT
12828622 ATGCTGTCCAATTTTAAGTATATT
1 ATGCTGTCCAATTTTAAGTATATT
*
12828646 GATGCTGT-CTATTTTAATGTATA--
1 -ATGCTGTCCAATTTTAA-GTATATT
*
12828669 ATGCTGTCCAATTTTGAGTATATTT
1 ATGCTGTCCAATTTTAAGTATA-TT
* * * *
12828694 AAGCTGTCTAATTTGATGTATA--
1 ATGCTGTCCAATTTTAAGTATATT
12828716 ATGCTGTCC-A-TTTAGAGTATATT
1 ATGCTGTCCAATTTTA-AGTATATT
*
12828739 ATTGCTATCCAATTT
1 A-TGCTGTCCAATTT
12828754 GATGAATAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 31
0.72 0.09 0.18
Matches are distributed among these distances:
20 3 0.02
21 6 0.05
22 32 0.26
23 15 0.12
24 21 0.17
25 43 0.35
26 2 0.02
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.46
Consensus pattern (24 bp):
ATGCTGTCCAATTTTAAGTATATT
Found at i:12828633 original size:47 final size:47
Alignment explanation
Indices: 12828562--12828773 Score: 257
Period size: 47 Copynumber: 4.5 Consensus size: 47
12828552 TTGTATTATA
* * *
12828562 AATTTAACGCATAATGCTGTCCAATTTTGAGTATATTGATGTTGTCC
1 AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC
* * *
12828609 ATTTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCT
1 AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC
* * * *
12828656 ATTTTAATGTATAATGCTGTCCAATTTTGAGTATATTTAAGCTGTCT
1 AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC
* * *
12828703 AATTTGATGTATAATGCTGTCC-ATTTAGAGTATATT-ATTGCTATCC
1 AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGA-TGCTGTCC
* *
12828749 AATTTGATGAATAATTGCTGTCCAA
1 AATTTAATGTATAA-TGCTGTCCAA
12828774 AACAGGGTTG
Statistics
Matches: 146, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
45 1 0.01
46 31 0.21
47 113 0.77
48 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (47 bp):
AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC
Found at i:12833941 original size:21 final size:21
Alignment explanation
Indices: 12833917--12833981 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
12833907 TTTTTTGGTC
12833917 AAATTTTATATTTTTGTATAT
1 AAATTTTATATTTTTGTATAT
* *
12833938 AAATTTTATACTTTGGTATAT
1 AAATTTTATATTTTTGTATAT
12833959 AAATTTTATATATTTTCGTATAT
1 AAATTTTATAT-TTTT-GTATAT
12833982 TAGTTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 29 0.76
22 3 0.08
23 6 0.16
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (21 bp):
AAATTTTATATTTTTGTATAT
Found at i:12842523 original size:20 final size:20
Alignment explanation
Indices: 12842482--12842526 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
12842472 TTATGATATT
*
12842482 TTTTTAAAATTTTTTGAATA
1 TTTTTAAAATTTTTTAAATA
*
12842502 TTTTTATAA-TTTTTAAATTA
1 TTTTTAAAATTTTTTAAA-TA
12842522 TTTTT
1 TTTTT
12842527 TGACATGGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTAAAATTTTTTAAATA
Found at i:12844421 original size:7 final size:7
Alignment explanation
Indices: 12844411--12844464 Score: 108
Period size: 7 Copynumber: 7.7 Consensus size: 7
12844401 TTAAATTTTA
12844411 AAAATTC
1 AAAATTC
12844418 AAAATTC
1 AAAATTC
12844425 AAAATTC
1 AAAATTC
12844432 AAAATTC
1 AAAATTC
12844439 AAAATTC
1 AAAATTC
12844446 AAAATTC
1 AAAATTC
12844453 AAAATTC
1 AAAATTC
12844460 AAAAT
1 AAAAT
12844465 AATATATAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATTC
Found at i:12844670 original size:15 final size:14
Alignment explanation
Indices: 12844644--12844680 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
12844634 ATTGTCGTAC
*
12844644 TTTTTTTGTAAATT
1 TTTTTTTATAAATT
12844658 TTATTTTTATAAATT
1 TT-TTTTTATAAATT
12844673 TTTTTTTA
1 TTTTTTTA
12844681 GATTGAGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TTTTTTTATAAATT
Found at i:12845385 original size:11 final size:11
Alignment explanation
Indices: 12845369--12845410 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
12845359 GTCCATGAAC
12845369 ATGTTCGTTTA
1 ATGTTCGTTTA
**
12845380 ATGTTCGTGAA
1 ATGTTCGTTTA
12845391 CATGTTCGTTTA
1 -ATGTTCGTTTA
12845403 ATGTTCGT
1 ATGTTCGT
12845411 GAACATGTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.48
Consensus pattern (11 bp):
ATGTTCGTTTA
Found at i:12845390 original size:23 final size:23
Alignment explanation
Indices: 12845340--12845422 Score: 121
Period size: 23 Copynumber: 3.6 Consensus size: 23
12845330 ACATTGTTGT
** * *
12845340 TGAACATGTTCAATTATATGTCCA
1 TGAACATGTTCGTTTA-ATGTTCG
12845364 TGAACATGTTCGTTTAATGTTCG
1 TGAACATGTTCGTTTAATGTTCG
12845387 TGAACATGTTCGTTTAATGTTCG
1 TGAACATGTTCGTTTAATGTTCG
12845410 TGAACATGTTCGT
1 TGAACATGTTCGT
12845423 GACCATTTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
23 41 0.75
24 14 0.25
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.41
Consensus pattern (23 bp):
TGAACATGTTCGTTTAATGTTCG
Found at i:12845397 original size:12 final size:12
Alignment explanation
Indices: 12845364--12845424 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 12
12845354 TATATGTCCA
12845364 TGAACATGTTCG
1 TGAACATGTTCG
**
12845376 TTTA-ATGTTCG
1 TGAACATGTTCG
12845387 TGAACATGTTCG
1 TGAACATGTTCG
**
12845399 TTTA-ATGTTCG
1 TGAACATGTTCG
12845410 TGAACATGTTCG
1 TGAACATGTTCG
12845422 TGA
1 TGA
12845425 CCATTTAACA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 18 0.46
12 21 0.54
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (12 bp):
TGAACATGTTCG
Found at i:12859822 original size:23 final size:23
Alignment explanation
Indices: 12859778--12859822 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
12859768 TAAATAATTC
* ***
12859778 TTTCAAATTTGAAATTTCAAAAT
1 TTTCAAATGTGAAATAAAAAAAT
12859801 TTTCAAATGTGAAATAAAAAAA
1 TTTCAAATGTGAAATAAAAAAA
12859823 ACTTGATTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (23 bp):
TTTCAAATGTGAAATAAAAAAAT
Found at i:12861570 original size:22 final size:22
Alignment explanation
Indices: 12861539--12861589 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
12861529 TTTATCTACT
*
12861539 AATTAATGAGATGGTATTAATGA
1 AATT-ATGAGATGATATTAATGA
12861562 AATTATGAGATGATATTAATGA
1 AATTATGAGATGATATTAATGA
12861584 AATTAT
1 AATTAT
12861590 AAACAGATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (22 bp):
AATTATGAGATGATATTAATGA
Found at i:12866193 original size:11 final size:11
Alignment explanation
Indices: 12866179--12866228 Score: 50
Period size: 10 Copynumber: 4.7 Consensus size: 11
12866169 AATTCAAAAA
12866179 TATAAAAATAT
1 TATAAAAATAT
*
12866190 TAT-AAAATAC
1 TATAAAAATAT
* *
12866200 TGTAGAAAT-T
1 TATAAAAATAT
*
12866210 TATAAAAATAA
1 TATAAAAATAT
12866221 TATAAAAA
1 TATAAAAA
12866229 AATCTATAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 15 0.50
11 15 0.50
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (11 bp):
TATAAAAATAT
Found at i:12870858 original size:13 final size:13
Alignment explanation
Indices: 12870840--12870865 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12870830 TCATATTGAT
12870840 GTTACTAACAAAA
1 GTTACTAACAAAA
12870853 GTTACTAACAAAA
1 GTTACTAACAAAA
12870866 ATCCAATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
GTTACTAACAAAA
Found at i:12875659 original size:5 final size:5
Alignment explanation
Indices: 12875649--12875681 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
12875639 TTATTTTCAA
12875649 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
12875682 GATGAGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:12876477 original size:35 final size:35
Alignment explanation
Indices: 12876431--12876503 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
12876421 TGTACACACA
12876431 TTTGGACTTAGTACCCATACTTTACCCAGTGGTTC
1 TTTGGACTTAGTACCCATACTTTACCCAGTGGTTC
12876466 TTTGGACTTAGTACCCATACTTTACCCAGTGGTTC
1 TTTGGACTTAGTACCCATACTTTACCCAGTGGTTC
12876501 TTT
1 TTT
12876504 AGTGGTCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (35 bp):
TTTGGACTTAGTACCCATACTTTACCCAGTGGTTC
Found at i:12885150 original size:3 final size:3
Alignment explanation
Indices: 12885144--12885178 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
12885134 CGACGACGAC
12885144 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
12885179 CAATGAGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:12885816 original size:28 final size:27
Alignment explanation
Indices: 12885750--12885817 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 27
12885740 TTTTGTAAAG
12885750 TTTTTAGATTTTTTACATTTACATTTA
1 TTTTTAGATTTTTTACATTTACATTTA
*
12885777 TATTTT-GAATTTTTTGA-ATTTATATTTA
1 T-TTTTAG-ATTTTTT-ACATTTACATTTA
12885805 TTTTTAAGATTTT
1 TTTTT-AGATTTT
12885818 AAAAATAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
27 6 0.17
28 27 0.77
29 2 0.06
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (27 bp):
TTTTTAGATTTTTTACATTTACATTTA
Found at i:12886333 original size:23 final size:24
Alignment explanation
Indices: 12886303--12886370 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
12886293 CTTGATTGTT
* *
12886303 AGAATATGTCACACAGGCTTT-CC
1 AGAATATGCCACAAAGGCTTTACC
* *
12886326 AGAATATGCCACATAGACTTTACC
1 AGAATATGCCACAAAGGCTTTACC
*
12886350 -GAATACGCCACAAAGGCTTTA
1 AGAATATGCCACAAAGGCTTTA
12886371 TAGGACATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 36 0.95
24 2 0.05
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (24 bp):
AGAATATGCCACAAAGGCTTTACC
Found at i:12890231 original size:54 final size:54
Alignment explanation
Indices: 12890173--12890292 Score: 161
Period size: 54 Copynumber: 2.2 Consensus size: 54
12890163 GTCCTCACTT
***
12890173 GTGTAACTCACTGAGTTGGGTCACACGACCGTGTCGCAGGCCATGTGAC-AGACC
1 GTGTAACTCACTGAGTTGCAACACACGACCGTGTCGCAGGCCATGTG-CTAGACC
** * *
12890227 GTGTAACTCTTTGAGTTGCAACACACGACCGTGTCGCAGGCCGTGTGCTAGGCC
1 GTGTAACTCACTGAGTTGCAACACACGACCGTGTCGCAGGCCATGTGCTAGACC
12890281 GTGTAACTCACT
1 GTGTAACTCACT
12890293 AACTTAAAAC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.02
54 55 0.98
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.23
Consensus pattern (54 bp):
GTGTAACTCACTGAGTTGCAACACACGACCGTGTCGCAGGCCATGTGCTAGACC
Found at i:12890304 original size:54 final size:54
Alignment explanation
Indices: 12890194--12890304 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 54
12890184 TGAGTTGGGT
** * * **
12890194 CACACGACCGTGTCGCAGGCCATGTGACAGACCGTGTAACTCTTTGAGTTGCAA
1 CACACGACCGTGTCGCAGGCCATGTGACAGACCGTGTAACTCACTAACTTAAAA
* *
12890248 CACACGACCGTGTCGCAGGCCGTGTG-CTAGGCCGTGTAACTCACTAACTTAAAA
1 CACACGACCGTGTCGCAGGCCATGTGAC-AGACCGTGTAACTCACTAACTTAAAA
12890302 CAC
1 CAC
12890305 TAGGAATTCA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.02
54 47 0.98
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (54 bp):
CACACGACCGTGTCGCAGGCCATGTGACAGACCGTGTAACTCACTAACTTAAAA
Found at i:12893916 original size:27 final size:27
Alignment explanation
Indices: 12893885--12893941 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
12893875 ATCCATTCAC
12893885 TCAATACAATTTTATTTTATCTCAATG
1 TCAATACAATTTTATTTTATCTCAATG
12893912 TCAATACAATTTTATTTTATCTCAATG
1 TCAATACAATTTTATTTTATCTCAATG
12893939 TCA
1 TCA
12893942 CCATTGTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.04, T:0.47
Consensus pattern (27 bp):
TCAATACAATTTTATTTTATCTCAATG
Found at i:12900122 original size:22 final size:22
Alignment explanation
Indices: 12900094--12900136 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12900084 CTTATATATA
*
12900094 GATATTGTAGACCTTTTGTTTG
1 GATATTGTAGAACTTTTGTTTG
*
12900116 GATATTGTTGAACTTTTGTTT
1 GATATTGTAGAACTTTTGTTT
12900137 AAAAGCTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.07, G:0.21, T:0.53
Consensus pattern (22 bp):
GATATTGTAGAACTTTTGTTTG
Found at i:12920441 original size:14 final size:15
Alignment explanation
Indices: 12920416--12920451 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
12920406 CTATCTATTT
12920416 AATATT-TTAAAA-C
1 AATATTCTTAAAAGC
12920429 AATATTCTTAAAAGC
1 AATATTCTTAAAAGC
12920444 AAT-TTCTT
1 AATATTCTT
12920452 TAAGAGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.29
14 11 0.52
15 4 0.19
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (15 bp):
AATATTCTTAAAAGC
Found at i:12920634 original size:15 final size:15
Alignment explanation
Indices: 12920593--12920645 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
12920583 CCAAATTTTC
*
12920593 TTTTAATTTTTTAAT
1 TTTTATTTTTTTAAT
* *
12920608 TATTT-TTCTTTTAGT
1 T-TTTATTTTTTTAAT
*
12920623 TTTTATTTTTTTATT
1 TTTTATTTTTTTAAT
12920638 TTTTATTT
1 TTTTATTT
12920646 AATTTTAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
14 3 0.10
15 25 0.81
16 3 0.10
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTATTTTTTTAAT
Found at i:12932935 original size:37 final size:35
Alignment explanation
Indices: 12932878--12932949 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 35
12932868 TCTCTATAAT
*
12932878 ATTAAATTAATAAAATACTATTAAGATAAGTATTAA
1 ATTAAATTAATAAAATACTATTAAAATAA-TATTAA
*
12932914 ATTAAATTTAATATTAA-ACTATTAAAATAATATTAA
1 ATTAAA-TTAATA-AAATACTATTAAAATAATATTAA
12932950 TTTTAGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 12 0.38
37 18 0.56
38 2 0.06
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (35 bp):
ATTAAATTAATAAAATACTATTAAAATAATATTAA
Found at i:12937484 original size:24 final size:24
Alignment explanation
Indices: 12937451--12937515 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
12937441 CGCATATATA
* * *
12937451 GACTCTCATGTAATAACAACAGGT
1 GACTCACATGGAATAACAACAAGT
*
12937475 GACTCACATGGCATAACAACAAGT
1 GACTCACATGGAATAACAACAAGT
*
12937499 GACTCACATGGTATAAC
1 GACTCACATGGAATAAC
12937516 CTAGGGTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (24 bp):
GACTCACATGGAATAACAACAAGT
Found at i:12937693 original size:53 final size:52
Alignment explanation
Indices: 12937636--12937736 Score: 141
Period size: 53 Copynumber: 1.9 Consensus size: 52
12937626 GCACACATGT
*
12937636 TCACACACAT-GCTCACACACGGGCTCGCACCTATAGAGGGTTCGCACATAGGC
1 TCACACAC-TGGCTCACACACGGACTCGCACCTATAG-GGGTTCGCACATAGGC
* * *
12937689 TCACACACTGGCTCGCACACGGACTTGCACCTATAGGGGTTTGCACAT
1 TCACACACTGGCTCACACACGGACTCGCACCTATAGGGGTTCGCACAT
12937737 GCTAGTTCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
52 12 0.28
53 31 0.72
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.20
Consensus pattern (52 bp):
TCACACACTGGCTCACACACGGACTCGCACCTATAGGGGTTCGCACATAGGC
Found at i:12939823 original size:19 final size:18
Alignment explanation
Indices: 12939769--12939829 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
12939759 TAAATATAAA
*
12939769 AAATTATATATTTAAATTT
1 AAATTATATA-TTAAAATT
12939788 ATAA-TAGTA-ATTAAAATAT
1 A-AATTA-TATATTAAAAT-T
*
12939807 AAATTATATATTCAAATT
1 AAATTATATATTAAAATT
12939825 AAATT
1 AAATT
12939830 TTAAAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
18 16 0.46
19 15 0.43
20 4 0.11
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
AAATTATATATTAAAATT
Found at i:12969581 original size:25 final size:26
Alignment explanation
Indices: 12969547--12969610 Score: 112
Period size: 25 Copynumber: 2.5 Consensus size: 26
12969537 CATATTAAAT
12969547 ATATATATTTAATTAAAAAT-AAAAA
1 ATATATATTTAATTAAAAATAAAAAA
*
12969572 ATATATATTTGATTAAAAATAAAAAA
1 ATATATATTTAATTAAAAATAAAAAA
12969598 ATATATATTTAAT
1 ATATATATTTAAT
12969611 ATATAATTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 19 0.53
26 17 0.47
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (26 bp):
ATATATATTTAATTAAAAATAAAAAA
Found at i:12975582 original size:15 final size:15
Alignment explanation
Indices: 12975562--12975591 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12975552 TAATCAAACC
12975562 CTCAAGAATGTCTAA
1 CTCAAGAATGTCTAA
12975577 CTCAAGAATGTCTAA
1 CTCAAGAATGTCTAA
12975592 GGGTACCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (15 bp):
CTCAAGAATGTCTAA
Found at i:12978825 original size:46 final size:45
Alignment explanation
Indices: 12978758--12978991 Score: 229
Period size: 46 Copynumber: 5.6 Consensus size: 45
12978748 TTTGAGTACT
* *
12978758 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
12978804 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
12978850 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
12978886 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
12978922 TTTGATCAAGTGACAAAGTGATAAGTGGCAGCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
12978967 TCTGA-CCAGGGACAAA-TGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
12978992 ATCATACGTA
Statistics
Matches: 170, Mismatches: 9, Indels: 21
0.85 0.05 0.10
Matches are distributed among these distances:
36 63 0.37
38 1 0.01
39 1 0.01
40 4 0.02
41 2 0.01
42 2 0.01
43 12 0.07
44 9 0.05
45 9 0.05
46 67 0.39
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:12978886 original size:36 final size:36
Alignment explanation
Indices: 12978840--12978948 Score: 191
Period size: 36 Copynumber: 3.0 Consensus size: 36
12978830 GGTAGCTTTA
*
12978840 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
12978876 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
12978912 GCTATACTTATTTGATCAAGTGACAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
12978948 G
1 G
12978949 GCAGCTTAGC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 70 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (36 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:12981263 original size:21 final size:21
Alignment explanation
Indices: 12981218--12981264 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
12981208 AAATAATAAA
*
12981218 ATAG-ATTATATAGTATTTTT
1 ATAGTATTATATAGTATATTT
*
12981238 ATAGTATTATATATTATGATTT
1 ATAGTATTATATAGTAT-ATTT
12981260 -TAGTA
1 ATAGTA
12981265 AATTTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 16 0.70
22 3 0.13
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (21 bp):
ATAGTATTATATAGTATATTT
Found at i:12981312 original size:35 final size:35
Alignment explanation
Indices: 12981243--12981314 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
12981233 TTTTTATAGT
12981243 ATTATATATTATGATTTTAGTAAATTTATATAATA
1 ATTATATATTATGATTTTAGTAAATTTATATAATA
* * *
12981278 ATTATATA-TATTATTTTATTAAATTATATTTAATA
1 ATTATATATTATGATTTTAGTAAATT-TATATAATA
12981313 AT
1 AT
12981315 AATTATGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 15 0.45
35 18 0.55
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (35 bp):
ATTATATATTATGATTTTAGTAAATTTATATAATA
Found at i:12983605 original size:164 final size:164
Alignment explanation
Indices: 12983385--12983876 Score: 635
Period size: 164 Copynumber: 3.0 Consensus size: 164
12983375 CTCACGAAGG
* * * * * * *
12983385 GCCATATAACGGGACGCTTATAAAAGTTGCGGTGTGTCCACAACACATGTAGGATCACAACCGAT
1 GCCATATAACGAGATGCTCATAAGAGCTACGGTGTGTCCACAACACATGCAGGATCACAACCGAT
* * ** ** *
12983450 CGGGATGCTGCAAAGAGAAATTAACGGTAAGCTCGCAAGAATTATATAACGAGAAGCTTGAGTGG
66 CGGGATGCTCCGAAGAGCTATTAACGGTAAGCTCGCAAGAACCATATAACGAGAAGCTTGAGAGG
*
12983515 GCCAAATATCGGGATGCTCATTAGAGATAATAAC
131 GCCAAATATCGGGATGCTCATGAGAGATAATAAC
* *
12983549 GCCATATAACGAGATGCTCATAAGAGCTACGATGTGTCTACAACACATGCAGGATCACAACCGAT
1 GCCATATAACGAGATGCTCATAAGAGCTACGGTGTGTCCACAACACATGCAGGATCACAACCGAT
** * *
12983614 CGGGATGCTTTGAAGAGCTATTAACGGTAAGCTCGCAAGAACCATATAACGGGAAG-TTCGAGAA
66 CGGGATGCTCCGAAGAGCTATTAACGGTAAGCTCGCAAGAACCATATAACGAGAAGCTT-GAGAG
*
12983678 GGCCAAATATCGGGATGCTCATGAGAGATAATAAA
130 GGCCAAATATCGGGATGCTCATGAGAGATAATAAC
** ** * * *
12983713 TTCATATAATAAGATGCTCATAAGAGCTATGGTGTGTCCACAACACATGCAGAATCACAACCAAT
1 GCCATATAACGAGATGCTCATAAGAGCTACGGTGTGTCCACAACACATGCAGGATCACAACCGAT
* * * * * *
12983778 CAGGATGCTCCGAAGAGCTATTAATGGTAAGCTTGCAATAACCATATAATGAGAAGCTCGAGAGG
66 CGGGATGCTCCGAAGAGCTATTAACGGTAAGCTCGCAAGAACCATATAACGAGAAGCTTGAGAGG
**
12983843 GCCAAATATCGATATGCTCATGAGAGATAATAAC
131 GCCAAATATCGGGATGCTCATGAGAGATAATAAC
12983877 AGGATGCTCT
Statistics
Matches: 283, Mismatches: 43, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
163 2 0.01
164 280 0.99
165 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (164 bp):
GCCATATAACGAGATGCTCATAAGAGCTACGGTGTGTCCACAACACATGCAGGATCACAACCGAT
CGGGATGCTCCGAAGAGCTATTAACGGTAAGCTCGCAAGAACCATATAACGAGAAGCTTGAGAGG
GCCAAATATCGGGATGCTCATGAGAGATAATAAC
Found at i:12988029 original size:49 final size:50
Alignment explanation
Indices: 12987965--12988180 Score: 159
Period size: 50 Copynumber: 4.3 Consensus size: 50
12987955 CAAAGCTATG
* * * *
12987965 TCCCAAACATAGTCTTACATGAGATGTT-TCTTGTA-CTGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGAGA-GTTCTCATATAGCTGCCAATGCCATA
* * * * * *
12988014 TCCCAGATATGGTCTTATATGGGAGTTCTCATATAGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTGCCAATGCCATA
* * ** * * * * * *
12988064 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCTAACGCCATG
1 TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTGCCAATGCCATA
* ** * * *
12988114 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG-TGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGAGAGTTCTCATAT-AGCTGCCAATGCCATA
12988164 TCCCAGACATGGTCTTA
1 TCCCAGACATGGTCTTA
12988181 TATGGGACCT
Statistics
Matches: 141, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
48 3 0.02
49 24 0.17
50 113 0.80
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTGCCAATGCCATA
Found at i:12988068 original size:50 final size:51
Alignment explanation
Indices: 12988001--12988243 Score: 285
Period size: 50 Copynumber: 4.7 Consensus size: 51
12987991 TTTCTTGTAC
* * **
12988001 TGCCAATGCCATATCCCAGATATGGTCTTATATGGGAGTTCTCATAT-AGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATATCAGG
* * * *
12988051 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTC-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATATCAGG
* * * *
12988101 TGCTAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATATCAGG
* *
12988151 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCAT-A--TC-A-GG
*
12988207 TGCCAATGCCATGTCCCAGATATGGTCTTATATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGA
12988244 TCTCATCCTC
Statistics
Matches: 167, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
50 129 0.77
53 2 0.01
54 1 0.01
56 35 0.21
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATATCAGG
Found at i:12993926 original size:21 final size:21
Alignment explanation
Indices: 12993900--12993980 Score: 126
Period size: 21 Copynumber: 3.9 Consensus size: 21
12993890 ACATGCCAAT
*
12993900 AGAAGCTCATAAGAGCTGAAC
1 AGAAGCTCAAAAGAGCTGAAC
*
12993921 AGAAGCTCAAAAGAGCTGAAT
1 AGAAGCTCAAAAGAGCTGAAC
**
12993942 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCAAAAGAGCTGAAC
12993963 AGAAGCTCAAAAGAGCTG
1 AGAAGCTCAAAAGAGCTG
12993981 GTCCACCCGA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.14
Consensus pattern (21 bp):
AGAAGCTCAAAAGAGCTGAAC
Found at i:12993945 original size:42 final size:42
Alignment explanation
Indices: 12993897--12993980 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
12993887 CGAACATGCC
12993897 AATAGAAGCTCATAAGAGCTGAACAGAAGCTCAAAAGAGCTG
1 AATAGAAGCTCATAAGAGCTGAACAGAAGCTCAAAAGAGCTG
*
12993939 AATAGAAGCTCGTAAGAGCTGAACAGAAGCTCAAAAGAGCTG
1 AATAGAAGCTCATAAGAGCTGAACAGAAGCTCAAAAGAGCTG
12993981 GTCCACCCGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.14
Consensus pattern (42 bp):
AATAGAAGCTCATAAGAGCTGAACAGAAGCTCAAAAGAGCTG
Found at i:13000082 original size:12 final size:12
Alignment explanation
Indices: 13000065--13000089 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13000055 AACAATAAAT
13000065 TCCATCTCAAGA
1 TCCATCTCAAGA
13000077 TCCATCTCAAGA
1 TCCATCTCAAGA
13000089 T
1 T
13000090 ACCAAACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (12 bp):
TCCATCTCAAGA
Found at i:13013260 original size:7 final size:7
Alignment explanation
Indices: 13013250--13013300 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
13013240 CTTAAACCAG
*
13013250 AATCCCT
1 AATCCAT
*
13013257 AATCTAT
1 AATCCAT
13013264 AATCCAT
1 AATCCAT
13013271 AATCCAT
1 AATCCAT
13013278 AATCC-T
1 AATCCAT
13013284 AATTCCAT
1 AA-TCCAT
*
13013292 AATCTAT
1 AATCCAT
13013299 AA
1 AA
13013301 ACCTTAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
6 3 0.08
7 32 0.84
8 3 0.08
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.33
Consensus pattern (7 bp):
AATCCAT
Found at i:13013280 original size:21 final size:21
Alignment explanation
Indices: 13013242--13013300 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
13013232 AACACAACCT
* *
13013242 TAAA-CCAGAATCCCTAAT-C
1 TAAATCCATAATCCATAATCC
13013261 TATAATCCATAATCCATAATCC
1 TA-AATCCATAATCCATAATCC
* *
13013283 TAATTCCATAATCTATAA
1 TAAATCCATAATCCATAA
13013301 ACCTTAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 2 0.06
21 26 0.79
22 3 0.09
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAATCCATAATCCATAATCC
Found at i:13013726 original size:40 final size:40
Alignment explanation
Indices: 13013674--13013774 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
13013664 CGGCACTTTT
* *
13013674 TTAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTC
1 TTAAAAACGCCGCTAAAGCCCCAAGCATTAGCGACGCTTC
** * * * *
13013714 TTGGAAATGCCGCTAAAGCTCTAAGCATTAGCGACGCTTT
1 TTAAAAACGCCGCTAAAGCCCCAAGCATTAGCGACGCTTC
13013754 TTAAAAACGCCGCTAAAGCCC
1 TTAAAAACGCCGCTAAAGCCC
13013775 TAGAAGGTCA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (40 bp):
TTAAAAACGCCGCTAAAGCCCCAAGCATTAGCGACGCTTC
Found at i:13014691 original size:24 final size:24
Alignment explanation
Indices: 13014642--13014692 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
13014632 TACTGATCCT
* *
13014642 TAAATATGATTTAAAATAGAATAA
1 TAAATATGATCTAAAATAGAAAAA
*
13014666 TAAAT-TGATCTAAAATACTAAAAA
1 TAAATATGATCTAAAATA-GAAAAA
13014690 TAA
1 TAA
13014693 TTTATAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (24 bp):
TAAATATGATCTAAAATAGAAAAA
Found at i:13017457 original size:16 final size:16
Alignment explanation
Indices: 13017436--13017471 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13017426 AGAAATAAAT
13017436 AAATAAAAAAACAATA
1 AAATAAAAAAACAATA
* *
13017452 AAATAAACAAACAATG
1 AAATAAAAAAACAATA
13017468 AAAT
1 AAAT
13017472 CAATTAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.75, C:0.08, G:0.03, T:0.14
Consensus pattern (16 bp):
AAATAAAAAAACAATA
Found at i:13017890 original size:7 final size:7
Alignment explanation
Indices: 13017871--13017916 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
13017861 CCATGGAGTC
13017871 AAAGAG-
1 AAAGAGA
13017877 AAA-AGA
1 AAAGAGA
13017883 AAAGAGA
1 AAAGAGA
13017890 AAAGAGA
1 AAAGAGA
13017897 AAAGAGA
1 AAAGAGA
13017904 AAA-AGA
1 AAAGAGA
13017910 AAAGAGA
1 AAAGAGA
13017917 TTAGAATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 2 0.05
6 12 0.32
7 23 0.62
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAAGAGA
Found at i:13026151 original size:15 final size:16
Alignment explanation
Indices: 13026133--13026163 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
13026123 TACTCTTAAC
13026133 AACTCGACT-CAAGGA
1 AACTCGACTCCAAGGA
13026148 AACTCGACTCCAAGGA
1 AACTCGACTCCAAGGA
13026164 GTAAGTTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.39, C:0.29, G:0.19, T:0.13
Consensus pattern (16 bp):
AACTCGACTCCAAGGA
Found at i:13028997 original size:10 final size:10
Alignment explanation
Indices: 13028982--13029006 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13028972 TGAAGAATCT
13028982 TATGTATATA
1 TATGTATATA
13028992 TATGTATATA
1 TATGTATATA
13029002 TATGT
1 TATGT
13029007 GTGATGGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (10 bp):
TATGTATATA
Found at i:13031785 original size:26 final size:26
Alignment explanation
Indices: 13031755--13031809 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
13031745 TGGAGGAAGT
*
13031755 ATACTGTTACTGGCAGCTTTGCTACG
1 ATACTATTACTGGCAGCTTTGCTACG
* * *
13031781 ATACTATTATTGGTAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTACG
13031807 ATA
1 ATA
13031810 TTGGTGTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTACG
Found at i:13037335 original size:27 final size:27
Alignment explanation
Indices: 13037292--13037356 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
13037282 AAGCTCCCAG
*
13037292 ACCTAGGTTCTCACAAAAAG-GGTCGCAC
1 ACCTAGGGT-TCAC-AAAAGTGGTCGCAC
* *
13037320 ACCTAGGGTTCACAAATGTGTTCGCAC
1 ACCTAGGGTTCACAAAAGTGGTCGCAC
13037347 ACCTAGGGTT
1 ACCTAGGGTT
13037357 ACCGCATATC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 21 0.64
28 8 0.24
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (27 bp):
ACCTAGGGTTCACAAAAGTGGTCGCAC
Found at i:13037433 original size:17 final size:15
Alignment explanation
Indices: 13037406--13037444 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
13037396 GTTTCGCAAA
*
13037406 CTTAGGGGT-TTGAAC
1 CTTAGGGGTGTT-TAC
13037421 CTTAGGGGTGTTTAC
1 CTTAGGGGTGTTTAC
13037436 CTTAGGGGT
1 CTTAGGGGT
13037445 TCGCACATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.15, C:0.13, G:0.36, T:0.36
Consensus pattern (15 bp):
CTTAGGGGTGTTTAC
Found at i:13037470 original size:22 final size:22
Alignment explanation
Indices: 13037445--13037487 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13037435 CCTTAGGGGT
13037445 TCGCACATACTAACATATAGGC
1 TCGCACATACTAACATATAGGC
**
13037467 TCGCATGTACTAACATATAGG
1 TCGCACATACTAACATATAGG
13037488 TTCAGATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (22 bp):
TCGCACATACTAACATATAGGC
Found at i:13037544 original size:22 final size:22
Alignment explanation
Indices: 13037519--13037560 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13037509 GCTTGCATGT
*
13037519 ACTAACGTATAAGCTCGCATAG
1 ACTAACATATAAGCTCGCATAG
*
13037541 ACTAACATATAGGCTCGCAT
1 ACTAACATATAAGCTCGCAT
13037561 GTTATGCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (22 bp):
ACTAACATATAAGCTCGCATAG
Found at i:13037553 original size:44 final size:43
Alignment explanation
Indices: 13037453--13037562 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 43
13037443 GTTCGCACAT
* *
13037453 ACTAACATATAGGCTCGCATGTACTAACATATAGGTTCAGATG
1 ACTAACATATAGGCTCGCATGTACTAACATATAAGCTCAGATG
* *** * *
13037496 ATGTAATGGATAGGCTTGCATGTACTAACGTATAAGCTC-GCATAG
1 A-CTAACATATAGGCTCGCATGTACTAACATATAAGCTCAG-AT-G
13037541 ACTAACATATAGGCTCGCATGT
1 ACTAACATATAGGCTCGCATGT
13037563 TATGCAGAGT
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
43 2 0.04
44 47 0.92
45 2 0.04
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (43 bp):
ACTAACATATAGGCTCGCATGTACTAACATATAAGCTCAGATG
Found at i:13057042 original size:43 final size:44
Alignment explanation
Indices: 13056989--13057105 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 44
13056979 TATTTAACCC
* * * *
13056989 ACTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCT
1 ACTCCACTGTAACTTCAGGGAGATAAGATCACTGGCTTCAATCT
* * * *
13057032 GCTCCGCTGTAA-TCTCGGGGAGATAAGATCTCTGGCTTCAATCT
1 ACTCCACTGTAACT-TCAGGGAGATAAGATCACTGGCTTCAATCT
* *
13057076 ACTCCACTGTAACTTCAGGGGGACAAGATC
1 ACTCCACTGTAACTTCAGGGAGATAAGATC
13057106 TGTAATTTCC
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
42 1 0.02
43 23 0.40
44 33 0.57
45 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (44 bp):
ACTCCACTGTAACTTCAGGGAGATAAGATCACTGGCTTCAATCT
Found at i:13057426 original size:85 final size:86
Alignment explanation
Indices: 13057240--13057758 Score: 401
Period size: 88 Copynumber: 6.0 Consensus size: 86
13057230 AATCTGTAAC
* * * *
13057240 CTTTAACCAGCTCCAATGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTTGCTGTTAAT
1 CTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTTCGATCTGCTTCGCTGTTAAT
13057305 GCAGGAAGGCAAGATCTGCTT
66 GCAGGAAGGCAAGATCTGCTT
* * *
13057326 CTTTAACTAGCTCCACTGCAATCGATGGATGCAAGACTTTGTTTTCGATCTGCTTCGCT-TTAAT
1 CTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTTCGATCTGCTTCGCTGTTAAT
** *
13057390 GTGGGAAGGTAAGATCTGCTT
66 GCAGGAAGGCAAGATCTGCTT
* * * *
13057411 CTTTAACCAGCTCCACTACAACCGA-GAGAGGCAAG-GTTTGTGTCTTCGACCTGCTTCACTGTT
1 CTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGACTTTGT-T-TTCGATCTGCTTCGCTGTT
* **
13057474 AATGCAAGAAGGCAAGATCTTTTGT
63 AATGCAGGAAGGCAAGATCTGCT-T
* * * ** * *
13057499 CTTCAACCAGCTCTA-TCACAACCGAAAGAGGCAAG-GTTTGTGTCTTCGATCTGCTTCGCTGTC
1 CTTTAACCAGCTCCACT-GCAACCGATGGAGGCAAGACTTTGT-T-TTCGATCTGCTTCGCTGTT
*
13057562 AATGCAGAAAGGCAAGATCT-CTTGT
63 AATGCAGGAAGGCAAGATCTGC-T-T
* * * * ** * * * *
13057587 CTTCAACCAGCTCTA-TCACAACCAAAAGAGGCAAG-GTTTGTGTCTTCGACCTGCTTCACTGTC
1 CTTTAACCAGCTCCACT-GCAACCGATGGAGGCAAGACTTTGT-T-TTCGATCTGCTTCGCTGTT
**
13057650 AATGCAGGAAGGCAAGATCTTTTGT
63 AATGCAGGAAGGCAAGATCTGCT-T
* * * ** * * * * *
13057675 CTTCAACCAGCTCTA-TCACAACCGAAAGAGGCAAG-GTTTGTGTCTTCGACCTGCTTCACTATC
1 CTTTAACCAGCTCCACT-GCAACCGATGGAGGCAAGACTTTGT-T-TTCGATCTGCTTCGCTGTT
13057738 AATGCAGGAAGGCAAGATCTG
63 AATGCAGGAAGGCAAGATCTG
13057759 TAACTTCATT
Statistics
Matches: 384, Mismatches: 40, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
84 6 0.02
85 53 0.14
86 66 0.17
87 20 0.05
88 239 0.62
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (86 bp):
CTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTTCGATCTGCTTCGCTGTTAAT
GCAGGAAGGCAAGATCTGCTT
Found at i:13057489 original size:44 final size:44
Alignment explanation
Indices: 13057439--13057753 Score: 193
Period size: 44 Copynumber: 7.2 Consensus size: 44
13057429 CAACCGAGAG
*
13057439 AGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTTAATGCAAGA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAAGA
* * * * ** * *
13057483 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTA-TCACAACCGAAAG-
1 AGGCAAGGT-TTGTGTCTTCGACCTGCTTC-ACTGTCAA-TGCAAGA
* *
13057527 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGC-AGAA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAAG-A
* * * * ** *
13057571 AGGCAAGATCTCT-TGTCTTCAACCAGC-T--CTATCACAACCAAAA
1 AGGCAAGGT-T-TGTGTCTTCGACCTGCTTCACTGTCA-ATGCAAGA
*
13057614 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGA
1 -AGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAAGA
* * * * ** * *
13057659 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTA-TCACAACCGAAAG-
1 AGGCAAGGT-TTGTGTCTTCGACCTGCTTC-ACTGTCAA-TGCAAGA
* *
13057703 AGGCAAGGTTTGTGTCTTCGACCTGCTTCACTATCAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAAGA
13057747 AGGCAAG
1 AGGCAAG
13057754 ATCTGTAACT
Statistics
Matches: 196, Mismatches: 53, Indels: 44
0.67 0.18 0.15
Matches are distributed among these distances:
42 8 0.04
43 48 0.24
44 81 0.41
45 53 0.27
46 6 0.03
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAAGA
Found at i:13057529 original size:88 final size:88
Alignment explanation
Indices: 13057410--13057757 Score: 565
Period size: 88 Copynumber: 4.0 Consensus size: 88
13057400 AAGATCTGCT
* * * *
13057410 TCTTTAACCAGCTCCA-CTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTT
1 TCTTCAACCAGCTCTATC-ACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTC
13057474 AATGCAAGAAGGCAAGATCTTTTG
65 AATGCAAGAAGGCAAGATCTTTTG
* *
13057498 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
1 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCA
*
13057563 ATGC-AGAAAGGCAAGATCTCTTG
66 ATGCAAG-AAGGCAAGATCTTTTG
*
13057586 TCTTCAACCAGCTCTATCACAACCAAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCA
1 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCA
*
13057651 ATGCAGGAAGGCAAGATCTTTTG
66 ATGCAAGAAGGCAAGATCTTTTG
*
13057674 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTATCA
1 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCA
*
13057739 ATGCAGGAAGGCAAGATCT
66 ATGCAAGAAGGCAAGATCT
13057758 GTAACTTCAT
Statistics
Matches: 243, Mismatches: 14, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
87 2 0.01
88 239 0.98
89 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (88 bp):
TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCA
ATGCAAGAAGGCAAGATCTTTTG
Found at i:13057627 original size:176 final size:174
Alignment explanation
Indices: 13057369--13057758 Score: 604
Period size: 176 Copynumber: 2.2 Consensus size: 174
13057359 AGACTTTGTT
* ** * *
13057369 TTCGATCTGCTTCGCTTTAATGTGGGAAGGTAAGATCTGCTTCTTTAACCAGCTCCACTACAACC
1 TTCGATCTGCTTCGCTTCAATGCAGGAAGGCAAGATCTGCTTCTTCAACCAGCTCCACTACAACC
* * *
13057434 GAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTTAATGCAAGAAGGCAAGATCTTTTGT
66 AAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAAGAAGGCAAGATCTTTTGT
13057499 CTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTC
131 CTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTC
* *
13057543 TTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCT-CTTGTCTTCAACCAGCTCTA-TCAC
1 TTCGATCTGCTTCGCT-TCAATGCAGGAAGGCAAGATCTGC-T-TCTTCAACCAGCTCCACT-AC
*
13057606 AACCAAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTT
62 AACCAAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAAGAAGGCAAGATCTT
13057671 TTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTC
127 TTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTC
* *
13057719 TTCGACCTGCTTCACTATCAATGCAGGAAGGCAAGATCTG
1 TTCGATCTGCTTCGCT-TCAATGCAGGAAGGCAAGATCTG
13057759 TAACTTCATT
Statistics
Matches: 196, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
174 17 0.09
175 19 0.10
176 160 0.82
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (174 bp):
TTCGATCTGCTTCGCTTCAATGCAGGAAGGCAAGATCTGCTTCTTCAACCAGCTCCACTACAACC
AAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAAGAAGGCAAGATCTTTTGT
CTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTC
Found at i:13059927 original size:7 final size:8
Alignment explanation
Indices: 13059903--13059931 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
13059893 CTATTTTGAC
13059903 TTTGATTT
1 TTTGATTT
13059911 TTTGATTT
1 TTTGATTT
13059919 TTTGATTT
1 TTTGATTT
13059927 TTTGA
1 TTTGA
13059932 ATTCATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.72
Consensus pattern (8 bp):
TTTGATTT
Found at i:13064466 original size:4 final size:5
Alignment explanation
Indices: 13064439--13064467 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
13064429 GTGAAACAAT
13064439 ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
13064468 GCACTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:13064907 original size:26 final size:25
Alignment explanation
Indices: 13064878--13064942 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
13064868 AAAAATAAGT
13064878 GTATATGTATATATATAGTACAAAAA
1 GTATATGTATATATATA-TACAAAAA
*
13064904 GTATGCATGTA-A-ATATATAGAAAAA
1 GTAT--ATGTATATATATATACAAAAA
*
13064929 -TATATTTATATATA
1 GTATATGTATATATA
13064943 AAAGAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 6 0.18
25 7 0.21
26 9 0.27
27 1 0.03
28 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (25 bp):
GTATATGTATATATATATACAAAAA
Found at i:13069888 original size:44 final size:43
Alignment explanation
Indices: 13069778--13070618 Score: 521
Period size: 44 Copynumber: 19.5 Consensus size: 43
13069768 ATTATACAGG
* * * *
13069778 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCA---GAGA
* * **
13069824 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-CAGAGA
* *
13069868 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCAGAG--A
* * * * *
13069912 TCCTATCTCCTTGAGATTACAATGGAGCGGAT-TAA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCAGAGA
* * * * *
13069951 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCACATCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGCAGAGA
* * * *
13069992 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCA---GAGA
* * **
13070038 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CCA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-CAGAGA
* * * **
13070081 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAGAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGA-TCAAAGCAGAGA
* * **
13070125 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-CAGAGA
* * * *
13070168 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCA---GAGA
* * **
13070214 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-CAGAGA
* *
13070258 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCAGAG--A
* * * * *
13070302 TCCTATCTCCTTGAGATTACAATGGAGCGGAT-TAA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCAGAGA
* * * * *
13070341 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCACATCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGCAGAGA
* * * *
13070382 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCA---GAGA
* * **
13070428 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CCA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-CAGAGA
* * * **
13070471 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAGAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGA-TCAAAGCAGAGA
* * **
13070515 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-CAGAGA
* * *
13070558 TCTTATCTCCCCGA-AGTTACAGTGGAGCGGAT-TAA--AG-GA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGCAGAGA
* *
13070597 TCTTATCTCTCTGAGGTTACAG
1 TCTTATCTCCCTGAGATTACAG
13070619 CAGAGTAGAT
Statistics
Matches: 611, Mismatches: 139, Indels: 97
0.72 0.16 0.11
Matches are distributed among these distances:
38 2 0.00
39 68 0.11
40 2 0.00
41 60 0.10
42 22 0.04
43 128 0.21
44 192 0.31
45 4 0.01
46 129 0.21
47 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCAGAGA
Found at i:13070126 original size:87 final size:86
Alignment explanation
Indices: 13069992--13070459 Score: 364
Period size: 87 Copynumber: 5.4 Consensus size: 86
13069982 TCACATCAGG
* * **
13069992 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA-TAAA-AA-TAGAGATCTTATCTCCCTGAGATTA
13070057 CAGCGGAGCAGATCGAAGACACCA
63 CAGCGGAGCAGATCGAAGACACCA
* * *
13070081 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTAC
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATAAAAAT-AGAGATCTTATCTCCCTGAGATTAC
*
13070145 AGCGGAGCAGATCGAAGACACTA
64 AGCGGAGCAGATCGAAGACACCA
* * ** *
13070168 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA-TAAA-AA-TAGAGATCTTATCTCCCTGAGATTA
* * **
13070233 CAGCGGAGCAGATTGAAGCCAGAGA
63 CAGCGGAGCAGATCGAAGACA-CCA
* * * *
13070258 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTA-ATCCTATCTCCTTGAGATTAC
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGAT-AAAAATAG-AGATCTTATCTCCCTGAGATTAC
** * * **
13070322 AATGGAGCGGAT--TA-A-AGGA
64 AGCGGAGCAGATCGAAGACACCA
* * * * *
13070341 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGAT-CACATCAG-G-TCTTATCTCCCTGAGATTAC
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATAAAAAT-AGAGATCTTATCTCCCTGAGATTAC
* * * * *
13070402 AGTGGAACAGACCAAAGA-ATTTCAGA
64 AGCGGAGCAGATCGAAGACA---C-CA
*
13070428 TCTTATCTCCCTGAGATTACAGCGGAGCAGAT
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGAT
13070460 CGAAGACACC
Statistics
Matches: 306, Mismatches: 53, Indels: 42
0.76 0.13 0.10
Matches are distributed among these distances:
80 26 0.08
81 3 0.01
82 4 0.01
83 30 0.10
84 1 0.00
86 2 0.01
87 101 0.33
88 35 0.11
89 70 0.23
90 34 0.11
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (86 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATAAAAATAGAGATCTTATCTCCCTGAGATTACAG
CGGAGCAGATCGAAGACACCA
Found at i:13070388 original size:257 final size:254
Alignment explanation
Indices: 13070125--13070669 Score: 668
Period size: 257 Copynumber: 2.1 Consensus size: 254
13070115 AAATAAGAGA
* * * *
13070125 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-CACTATCTTATCTCCCTGAGATTAC
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATCA-GATCTTATCTCCCTGAGATTAC
* * * * * *
13070188 AGTGGAACAGACCAAAGA-ATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGC
65 AGCGGAACAGACCAAAGACA---C-CATCCTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAAC
* * * **
13070252 CAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTG-A
126 AAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACT-ATCCTATCTCCCCGAA
* *
13070316 GATTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAG
190 G-TTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAA
13070381 G
254 G
*
13070382 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAA--TCAGATCTTATCTCCCTGAGATTA
* * * * * *
13070447 CAGCGGAGCAGATCGAAGACACCATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
64 CAGCGGAACAGACCAAAGACACCATCCTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAACAAG
* *
13070512 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTA
129 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTATCCTATCTCCCCGAAGTTA
* * * *
13070577 CAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAAG
194 CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAAG
* * *
13070638 TCTTATTTCCCTGAAGA-TGCAGTGGAACAGAC
1 TCTTATCTCCCTG-AGATTACAGCGGAACAGAC
13070670 TGAAAACAAT
Statistics
Matches: 249, Mismatches: 32, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
256 95 0.38
257 114 0.46
258 2 0.01
260 35 0.14
261 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (254 bp):
TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATCAGATCTTATCTCCCTGAGATTACA
GCGGAACAGACCAAAGACACCATCCTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAACAAGAG
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTATCCTATCTCCCCGAAGTTACA
ATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAAG
Found at i:13070497 original size:390 final size:390
Alignment explanation
Indices: 13069778--13070583 Score: 1587
Period size: 390 Copynumber: 2.1 Consensus size: 390
13069768 ATTATACAGG
13069778 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
13069843 CAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATA
66 CAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATA
13069908 GTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAG
131 GTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAG
13069973 TAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
196 TAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
13070038 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACCATCCTATCTCCCTGAAGTTACAG
261 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACCATCCTATCTCCCTGAAGTTACAG
13070103 TGGAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
326 TGGAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
13070168 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
13070233 CAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATA
66 CAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATA
13070298 GTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAG
131 GTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAG
13070363 TAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
196 TAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
13070428 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACCATCCTATCTCCCTGAAGTTACAG
261 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACCATCCTATCTCCCTGAAGTTACAG
13070493 TGGAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
326 TGGAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
*
13070558 TCTTATCTCCCCGA-AGTTACAGTGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA
13070584 GCGGATTAAA
Statistics
Matches: 414, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
389 1 0.00
390 413 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (390 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
CAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATA
GTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAG
TAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACCATCCTATCTCCCTGAAGTTACAG
TGGAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
Found at i:13070629 original size:82 final size:85
Alignment explanation
Indices: 13070425--13070630 Score: 310
Period size: 87 Copynumber: 2.4 Consensus size: 85
13070415 AAAGAATTTC
*
13070425 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACCATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACCATCCTATCTCCCCGAAGTTA
13070490 CAGTGGAGCGGATTAAAATAAG
66 CAGTGGAGCGGATT--AATAAG
* *
13070512 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACCATCCTATCTCCCCGAAGTTA
13070577 CAGTGGAGCGGATT-A-AAG
66 CAGTGGAGCGGATTAATAAG
* * * *
13070595 -GATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCG
13070631 CATCAAGTCT
Statistics
Matches: 112, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
82 32 0.29
83 3 0.03
84 1 0.01
87 76 0.68
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (85 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACCATCCTATCTCCCCGAAGTTA
CAGTGGAGCGGATTAATAAG
Found at i:13072773 original size:27 final size:25
Alignment explanation
Indices: 13072742--13072805 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 25
13072732 GTGTCCCTTT
*
13072742 TTTTTATATAT-ATGTAAATCTCCATA
1 TTTTTATATATCATATAAAT-T-CATA
*
13072768 TATTTTACATATGCATATAAATTCATA
1 T-TTTTATATAT-CATATAAATTCATA
13072795 TTTTTATATAT
1 TTTTTATATAT
13072806 TTTATAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 10 0.31
27 14 0.44
28 1 0.03
29 7 0.22
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (25 bp):
TTTTTATATATCATATAAATTCATA
Found at i:13072980 original size:5 final size:5
Alignment explanation
Indices: 13072966--13072994 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
13072956 ACATAAGTGC
13072966 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
13072995 AATGTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:13081164 original size:34 final size:35
Alignment explanation
Indices: 13081120--13081187 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
13081110 GCACAGTTGA
* **
13081120 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCACAGTATCAGTG
*
13081155 ACAGT-TTGGGCCTTAGCCCATCACAGTATCAGT
1 ACAGTCTTGGGCCTAAGCCCATCACAGTATCAGT
13081188 AGCAGTAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 24 0.83
35 5 0.17
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (35 bp):
ACAGTCTTGGGCCTAAGCCCATCACAGTATCAGTG
Done.