Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 40 of 290
Found at i:13154528 original size:17 final size:18
Alignment explanation
Indices: 13154508--13154541 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
13154498 AAGTGAATTG
13154508 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
13154525 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
13154542 ATAAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:13155281 original size:20 final size:20
Alignment explanation
Indices: 13155258--13155297 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13155248 TGAAATTCTA
13155258 AAAGATAAATACAAA-TAAAT
1 AAAGATAAATA-AAATTAAAT
13155278 AAAGATAAATAAAATTAAAT
1 AAAGATAAATAAAATTAAAT
13155298 CCTAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAGATAAATAAAATTAAAT
Found at i:13159878 original size:22 final size:22
Alignment explanation
Indices: 13159828--13159867 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13159818 GTCAAAATAG
13159828 AATG-TAA-AAATAAATTTAAA
1 AATGATAATAAATAAATTTAAA
*
13159848 AATGATAATAAATGAATTTA
1 AATGATAATAAATAAATTTA
13159868 TAATATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 3 0.18
22 10 0.59
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (22 bp):
AATGATAATAAATAAATTTAAA
Found at i:13160328 original size:3 final size:3
Alignment explanation
Indices: 13160322--13160365 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
13160312 GATGATGATG
*
13160322 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A TACA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA AT
13160366 GATATAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
2 1 0.03
3 36 0.95
4 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13163159 original size:18 final size:18
Alignment explanation
Indices: 13163133--13163176 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
13163123 CAGTCTTGAT
*
13163133 GATGAATCCGACTTCTGA
1 GATGGATCCGACTTCTGA
13163151 GATGGATCCGACTTCTGA
1 GATGGATCCGACTTCTGA
13163169 GATGGATC
1 GATGGATC
13163177 AATCGGCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (18 bp):
GATGGATCCGACTTCTGA
Found at i:13168027 original size:45 final size:45
Alignment explanation
Indices: 13167924--13168285 Score: 509
Period size: 45 Copynumber: 8.1 Consensus size: 45
13167914 TTTTCTCAAA
* * * *
13167924 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCCG-ATATCCTT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* * ** *
13167966 TCACCGGCATTATAGCCTGTTAGGCTCGAAA-GCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAACATT
* *
13168011 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACAT-T
* *
13168057 T-ATCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATG
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
*
13168101 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
*
13168146 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAAATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* *
13168191 TCACCGGCATTATAGCCTACTAGGCTCAAAAGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
*
13168236 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
13168281 TCACC
1 TCACC
13168286 AGTTCTTTCC
Statistics
Matches: 287, Mismatches: 26, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
42 11 0.04
43 13 0.05
44 8 0.03
45 254 0.89
46 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
Found at i:13177579 original size:22 final size:21
Alignment explanation
Indices: 13177530--13177568 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
13177520 GTCAAAATAG
13177530 AATG-TAA-AAATAATTTAAA
1 AATGATAATAAATAATTTAAA
13177549 AATGATAATAAATGAATTTA
1 AATGATAATAAAT-AATTTA
13177569 TAATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 3 0.18
21 4 0.24
22 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (21 bp):
AATGATAATAAATAATTTAAA
Found at i:13178023 original size:3 final size:3
Alignment explanation
Indices: 13178015--13178055 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
13178005 TAATAGTATG
*
13178015 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A TACA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA AT
13178056 GATATAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
2 1 0.03
3 33 0.94
4 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13179200 original size:17 final size:17
Alignment explanation
Indices: 13179182--13179213 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13179172 CTTTATTATT
13179182 TTTTA-TTTA-AATTTG
1 TTTTATTTTATAATTTG
13179197 TTTTATTTTATAATTTG
1 TTTTATTTTATAATTTG
13179214 AGCCCGGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 4 0.27
17 6 0.40
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTATTTTATAATTTG
Found at i:13185824 original size:18 final size:17
Alignment explanation
Indices: 13185794--13185834 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
13185784 ATTAATTCTG
* *
13185794 AAAAATATTTTTGGGAT
1 AAAAATATATTTGAGAT
13185811 AAAAACTATATTTGAGAT
1 AAAAA-TATATTTGAGAT
13185829 AAAAAT
1 AAAAAT
13185835 GCTTTGAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.51, C:0.02, G:0.12, T:0.34
Consensus pattern (17 bp):
AAAAATATATTTGAGAT
Found at i:13196830 original size:30 final size:30
Alignment explanation
Indices: 13196796--13196852 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
13196786 ACCATTAACT
* * *
13196796 ATTTTCCGTTATAGACGTAATGGAGCTATC
1 ATTTTCCATTACAGACGTAACGGAGCTATC
*
13196826 ATTTTCCATTACAGACTTAACGGAGCT
1 ATTTTCCATTACAGACGTAACGGAGCT
13196853 GCCATTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (30 bp):
ATTTTCCATTACAGACGTAACGGAGCTATC
Found at i:13196859 original size:30 final size:30
Alignment explanation
Indices: 13196796--13196860 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
13196786 ACCATTAACT
* * * *
13196796 ATTTTCCGTTATAGACGTAATGGAGCTATC
1 ATTTTCCATTACAGACGTAACGGAGCTACC
* *
13196826 ATTTTCCATTACAGACTTAACGGAGCTGCC
1 ATTTTCCATTACAGACGTAACGGAGCTACC
13196856 ATTTT
1 ATTTT
13196861 TCATCCCCAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (30 bp):
ATTTTCCATTACAGACGTAACGGAGCTACC
Found at i:13200062 original size:14 final size:14
Alignment explanation
Indices: 13200043--13200070 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13200033 AGTTGATTGT
13200043 AAATAAGATTATAA
1 AAATAAGATTATAA
13200057 AAATAAGATTATAA
1 AAATAAGATTATAA
13200071 GTTAATATTG
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:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AAATAAGATTATAA
Found at i:13201964 original size:15 final size:15
Alignment explanation
Indices: 13201944--13201974 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13201934 GTTGATAAAG
13201944 TATCACAAAATGCTC
1 TATCACAAAATGCTC
13201959 TATCACAAAATGCTC
1 TATCACAAAATGCTC
13201974 T
1 T
13201975 CGGAAGTGGT
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:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (15 bp):
TATCACAAAATGCTC
Found at i:13210391 original size:28 final size:31
Alignment explanation
Indices: 13210339--13210395 Score: 84
Period size: 28 Copynumber: 1.9 Consensus size: 31
13210329 TGTTTTAATA
*
13210339 ATTTATGAAAATTTTATCAAATCAAAATTTT
1 ATTTATGAAAATTGTATCAAATCAAAATTTT
13210370 ATTTAT-AAAATTGTA-C-AATCAAAATT
1 ATTTATGAAAATTGTATCAAATCAAAATT
13210396 CATGAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 10 0.40
29 1 0.04
30 8 0.32
31 6 0.24
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (31 bp):
ATTTATGAAAATTGTATCAAATCAAAATTTT
Found at i:13217506 original size:2 final size:2
Alignment explanation
Indices: 13217499--13218036 Score: 470
Period size: 2 Copynumber: 264.5 Consensus size: 2
13217489 TTATTTTAAC
* *
13217499 TA TA TA TA TA TA T- TA TA TA TCA TA TC TA TA TA TC TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
* *
13217540 TA TA TA TA TA T- TA TC TA TA TA TA TA GA TA TGA TA TA TA TCA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA T-A TA
* * *
13217583 TA TA TA TA TC TA TA TA T- TA TC TA TA TA TA TA GA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
* *
13217625 TA TCA TA TA TA TA TA TC TA TCA TA TA TA TA TA TA GA TCA TA T-
1 TA T-A TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA T-A TA TA
* * *
13217667 TA TA TA TA TGA TA TA TA TGA TC TA TA TA TA TA T- TA TC CA TA TA
1 TA TA TA TA T-A TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
13217710 TA TA TA GA TA TA GA TA TC TA TA TA TA TA TGA TA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
* * * *
13217753 TC TA TA TC TA TA TGA TA TA TA T- TA TA GA TA TA TA TA TA GA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
13217795 GA GA T- TA TC TA TA TA TA TA TGA TA TA TA CA TA TA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
* *
13217837 TA TC TA TCA TA TA TA TA TA GA TCA TA T- TA TA TA TA TGA TA TA
1 TA TA TA T-A TA TA TA TA TA TA T-A TA TA TA TA TA TA T-A TA TA
* *
13217879 TA TGA TT TA TA TA TA TA TA TA TA TA T- TA TC TA TA TCA TA TA T-
1 TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * * * *
13217921 TA TC TA TA TA TA TT TA TA TA GA TA TA GA TA TC TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
13217963 TA TA TGA TA TA TA TCA TA TC TA TA TA T- TA TC TA TA TA TA TA GA
1 TA TA T-A TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13218006 TA TGA TA TA TA TCA TA TA TA TA TA TA TA TA T
1 TA T-A TA TA TA T-A TA TA TA TA TA TA TA TA T
13218037 CAAAACGTTG
Statistics
Matches: 431, Mismatches: 72, Indels: 66
0.76 0.13 0.12
Matches are distributed among these distances:
1 12 0.03
2 377 0.87
3 42 0.10
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:13223178 original size:34 final size:34
Alignment explanation
Indices: 13223135--13223202 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
13223125 GAGAACGAGA
13223135 AGCAATCGGAAGTCATCCAACAACTTAGACGTTG
1 AGCAATCGGAAGTCATCCAACAACTTAGACGTTG
*
13223169 AGCAATCGGAAGTCCTCCAACAACTTAGACGTTG
1 AGCAATCGGAAGTCATCCAACAACTTAGACGTTG
13223203 GTTTGTTGTT
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:0.34, C:0.25, G:0.21, T:0.21
Consensus pattern (34 bp):
AGCAATCGGAAGTCATCCAACAACTTAGACGTTG
Found at i:13224593 original size:27 final size:25
Alignment explanation
Indices: 13224550--13224605 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
13224540 AAGACCAATG
13224550 AATTAAATGATAAAAAAGTATAAAACA
1 AATTAAATGATAAAAAA-TAT-AAACA
* *
13224577 AATTAAAAT-ATATAAAATGTAAACA
1 AATT-AAATGATAAAAAATATAAACA
13224602 AATT
1 AATT
13224606 TTAGAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 9 0.35
26 2 0.08
27 11 0.42
28 4 0.15
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (25 bp):
AATTAAATGATAAAAAATATAAACA
Found at i:13224758 original size:24 final size:25
Alignment explanation
Indices: 13224725--13224782 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
13224715 AGATAATATG
* *
13224725 TATATATAAAAGTGTAAAATAAATAA
1 TATATA-AAAAATCTAAAATAAATAA
*
13224751 TATTTAAAAAATCTAAAATAAATAA
1 TATATAAAAAATCTAAAATAAATAA
13224776 TA-ATAAA
1 TATATAAA
13224783 GTCATTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 4 0.14
25 19 0.68
26 5 0.18
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (25 bp):
TATATAAAAAATCTAAAATAAATAA
Found at i:13224859 original size:27 final size:24
Alignment explanation
Indices: 13224807--13224887 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
13224797 GTAAAAAGGG
*
13224807 TTTAAAATAAGGTATATAAGATAA
1 TTTAAAATAAGATATATAAGATAA
13224831 TTTTAAAATAAGTAATATATAAG-TCAA
1 -TTTAAAATAAG--ATATATAAGAT-AA
*
13224858 TTTAAAAT-A-ATATATAACA-AA
1 TTTAAAATAAGATATATAAGATAA
13224879 TTTAAAATA
1 TTTAAAATA
13224888 TATAATATGT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
21 10 0.20
22 8 0.16
25 12 0.24
26 9 0.18
27 10 0.20
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (24 bp):
TTTAAAATAAGATATATAAGATAA
Found at i:13224868 original size:22 final size:21
Alignment explanation
Indices: 13224843--13224891 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
13224833 TTAAAATAAG
13224843 TAATATATAAGTC-AATTTAAAA
1 TAATATATAA--CAAATTTAAAA
13224865 TAATATATAACAAATTTAAAA
1 TAATATATAACAAATTTAAAA
13224886 T-ATATA
1 TAATATA
13224892 ATATGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.23
21 10 0.38
22 10 0.38
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATATATAACAAATTTAAAA
Found at i:13225037 original size:25 final size:24
Alignment explanation
Indices: 13224970--13225039 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
13224960 AAAAAAAGTT
* *
13224970 ATTTGAAATACATAATATACAATA
1 ATTTGAAATAAATAATATAAAATA
* * *
13224994 ACTTAAGAATAAACAATATAAAATA
1 ATTTGA-AATAAATAATATAAAATA
13225019 ATTTGAAATAAATATATATAA
1 ATTTGAAATAAATA-ATATAA
13225040 CAAAACAGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
24 11 0.31
25 25 0.69
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (24 bp):
ATTTGAAATAAATAATATAAAATA
Found at i:13225185 original size:28 final size:29
Alignment explanation
Indices: 13225122--13225186 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
13225112 GGAAGGAATA
13225122 TAAAAT-AAATAATACATAAAAAATAGAT
1 TAAAATAAAATAATACATAAAAAATAGAT
** *
13225150 TAGGATAAAATATATACATAAAACA-AG-T
1 TAAAATAAAATA-ATACATAAAAAATAGAT
13225178 TAAAATAAA
1 TAAAATAAA
13225187 GAATAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 12 0.40
29 7 0.23
30 11 0.37
ACGTcount: A:0.65, C:0.05, G:0.06, T:0.25
Consensus pattern (29 bp):
TAAAATAAAATAATACATAAAAAATAGAT
Found at i:13225447 original size:19 final size:19
Alignment explanation
Indices: 13225423--13225467 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
13225413 CTAGCAGGGA
13225423 CTAGATGGAAAAATATCCC
1 CTAGATGGAAAAATATCCC
13225442 CTAGATGGAAAAATATCCC
1 CTAGATGGAAAAATATCCC
13225461 CTAGATG
1 CTAGATG
13225468 CTCTGCGCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (19 bp):
CTAGATGGAAAAATATCCC
Found at i:13231397 original size:23 final size:22
Alignment explanation
Indices: 13231354--13231398 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
13231344 GTTAAATTGA
* **
13231354 ATTGTATGTATGTGATTGTATT
1 ATTGTATGTATATGAAAGTATT
13231376 ATTGTCATGTATATGAAAGTATT
1 ATTGT-ATGTATATGAAAGTATT
13231399 CACATATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (22 bp):
ATTGTATGTATATGAAAGTATT
Found at i:13231696 original size:26 final size:26
Alignment explanation
Indices: 13231667--13231724 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
13231657 CCCGTTATAT
*
13231667 GGCTCTTCGTGAGCTTCTCGATTAAA
1 GGCTCTTCGTGAGCTTATCGATTAAA
* * *
13231693 GGCTCTTTGTGAGCTTATTGATTAAT
1 GGCTCTTCGTGAGCTTATCGATTAAA
13231719 GGCTCT
1 GGCTCT
13231725 CTAGAGCTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTATCGATTAAA
Found at i:13233769 original size:3 final size:3
Alignment explanation
Indices: 13233763--13233794 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13233753 ATTGTTTGTG
*
13233763 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13233795 TAAACCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:13233871 original size:19 final size:18
Alignment explanation
Indices: 13233845--13233901 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
13233835 TATTAGGTTC
13233845 TATTATTTTATTTTTATT
1 TATTATTTTATTTTTATT
**
13233863 TATT-TATTTAGTTTTTACC
1 TATTAT-TTTA-TTTTTATT
*
13233882 TATTATTTTTCTTTTTATT
1 TATTA-TTTTATTTTTATT
13233901 T
1 T
13233902 GTATAGCTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
17 1 0.03
18 8 0.27
19 17 0.57
20 3 0.10
21 1 0.03
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (18 bp):
TATTATTTTATTTTTATT
Found at i:13236589 original size:39 final size:39
Alignment explanation
Indices: 13236531--13236606 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
13236521 GAATGAAAAG
13236531 GTTTGCTGCCAACCCGATGACTACCCCTGAATATGACCA
1 GTTTGCTGCCAACCCGATGACTACCCCTGAATATGACCA
*
13236570 GTTTGCTGCCAACCTGATGACTACCCCTGAATATGAC
1 GTTTGCTGCCAACCCGATGACTACCCCTGAATATGAC
13236607 AAGTGGTGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (39 bp):
GTTTGCTGCCAACCCGATGACTACCCCTGAATATGACCA
Found at i:13240879 original size:50 final size:48
Alignment explanation
Indices: 13240825--13240961 Score: 129
Period size: 44 Copynumber: 2.9 Consensus size: 48
13240815 AGTGGGATGG
13240825 ATTGAAGTTATTATGACGAATCTTACCTCCCTATAGTTGTAGTAGAGCAA
1 ATTGAAGTTA--ATGACGAATCTTACCTCCCTATAGTTGTAGTAGAGCAA
** * * * * * *
13240875 ATTGAAG----CCACAAATTTTATCTCCCTAAAGTTGTAGTGGAGCAT
1 ATTGAAGTTAATGACGAATCTTACCTCCCTATAGTTGTAGTAGAGCAA
*
13240919 ATTGAAGTTACCATGGCGAATCTTACCTCCCTATAGTTGTAGT
1 ATTGAAGTTA--ATGACGAATCTTACCTCCCTATAGTTGTAGT
13240962 GGGATAGATT
Statistics
Matches: 66, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
44 36 0.55
50 30 0.45
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (48 bp):
ATTGAAGTTAATGACGAATCTTACCTCCCTATAGTTGTAGTAGAGCAA
Found at i:13240973 original size:50 final size:48
Alignment explanation
Indices: 13240803--13241069 Score: 159
Period size: 50 Copynumber: 5.6 Consensus size: 48
13240793 AATCTCATAC
* * * ** *
13240803 CCCTAAAGTTGCAGTGGGATGGATTGAAGTTATTATGACGAATCTTACCT
1 CCCTATAGTTGTAGTGGGAT-AATTGAAGTTACCATG-CGAATCTTATCT
* * *
13240853 CCCTATAGTTGTAGTAGAGCA-AATTGAAG---CCA--CAAATTTTATCT
1 CCCTATAGTTGTAGT-G-GGATAATTGAAGTTACCATGCGAATCTTATCT
* *
13240897 CCCTAAAGTTGTAGTGGAGCAT-ATTGAAGTTACCATGGCGAATCTTACCT
1 CCCTATAGTTGTAGTGG-G-ATAATTGAAGTTACCAT-GCGAATCTTATCT
* *
13240947 CCCTATAGTTGTAGTGGGATAGATTGAAG---CCA--CAAATTTTATCT
1 CCCTATAGTTGTAGTGGGATA-ATTGAAGTTACCATGCGAATCTTATCT
* *
13240991 CCCTGA-ATTTGTAGTGGAGCAT-ATCGAAGTTACCATGGCGAATCTTATCT
1 CCCT-ATAGTTGTAGTGG-G-ATAATTGAAGTTACCAT-GCGAATCTTATCT
*
13241041 CCTTATAGTTGTAGTAGGG-TAAATTGAAG
1 CCCTATAGTTGTAGT-GGGAT-AATTGAAG
13241070 CCACAATTTT
Statistics
Matches: 166, Mismatches: 25, Indels: 52
0.68 0.10 0.21
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 60 0.36
45 2 0.01
46 2 0.01
47 10 0.06
48 3 0.02
49 2 0.01
50 80 0.48
51 3 0.02
52 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (48 bp):
CCCTATAGTTGTAGTGGGATAATTGAAGTTACCATGCGAATCTTATCT
Found at i:13240973 original size:94 final size:95
Alignment explanation
Indices: 13240841--13241193 Score: 441
Period size: 94 Copynumber: 3.8 Consensus size: 95
13240831 GTTATTATGA
* *
13240841 CGAATCTTACCTCCCTATAGTTGTAGTAGAGCA-A-ATTGAAGCCACAAATTTTATCTCCCTAAA
1 CGAATCTTACCTCCCTATAGTTGTAGTAG-GGATAGATTGAAGCCACAAATTTTATCTCCCTGAA
* *
13240904 GTTGTAGTGGAGCATATTGAAGTTACCATGG
65 GTTGCAGTGGAGCATATCGAAGTTACCATGG
*
13240935 CGAATCTTACCTCCCTATAGTTGTAGT-GGGATAGATTGAAGCCACAAATTTTATCTCCCTGAAT
1 CGAATCTTACCTCCCTATAGTTGTAGTAGGGATAGATTGAAGCCACAAATTTTATCTCCCTGAAG
*
13240999 TTGTAGTGGAGCATATCGAAGTTACCATGG
66 TTGCAGTGGAGCATATCGAAGTTACCATGG
* * * * **
13241029 CGAATCTTATCTCCTTATAGTTGTAGTAGGG-TAAATTGAAGCCACAATTTTTATCTCTTTGAAG
1 CGAATCTTACCTCCCTATAGTTGTAGTAGGGATAGATTGAAGCCACAAATTTTATCTCCCTGAAG
*
13241093 TTGCAGTGGAGCATATCGAAGTTATCATGG
66 TTGCAGTGGAGCATATCGAAGTTACCATGG
* * * * ** * *
13241123 CGAATCTTATCTCTCTGA-AGTTGCAGT--GGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGA
1 CGAATCTTACCTCCCT-ATAGTTGTAGTAGGGA-TAGATTGAAGCCACAAATTTTATCTCCCTGA
13241185 AGTTGCAGT
64 AGTTGCAGT
13241194 AGAGTAGGTG
Statistics
Matches: 229, Mismatches: 24, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
92 4 0.02
93 2 0.01
94 219 0.96
95 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (95 bp):
CGAATCTTACCTCCCTATAGTTGTAGTAGGGATAGATTGAAGCCACAAATTTTATCTCCCTGAAG
TTGCAGTGGAGCATATCGAAGTTACCATGG
Found at i:13241161 original size:188 final size:188
Alignment explanation
Indices: 13240841--13241185 Score: 487
Period size: 188 Copynumber: 1.8 Consensus size: 188
13240831 GTTATTATGA
13240841 CGAATCTTACCTCCCTATAGTTGTAGTAGAGCAAATTGAAGCCACAAATTTTATCTCCCTAAAGT
1 CGAATCTTACCTCCCTATAGTTGTAGTAGAGCAAATTGAAGCCACAAATTTTATCTCCCTAAAGT
* * * *
13240906 TGTAGTGGAGCATATTGAAGTTACCATGGCGAATCTTACCTCCCTATAGTTGTAGTGGGATAGAT
66 TGCAGTGGAGCATATCGAAGTTACCATGGCGAATCTTACCTCCCTATAGTTGCAGTGGGACAGAT
*
13240971 TGAAGCCACAAATTTTATCTCCCTGAATTTGTAGTGGAGCATATCGAAGTTACCATGG
131 TGAAGCCACAAATCTTATCTCCCTGAATTTGTAGTGGAGCATATCGAAGTTACCATGG
* * * * * ** *
13241029 CGAATCTTATCTCCTTATAGTTGTAGTAGGGTAAATTGAAGCCACAATTTTTATCTCTTTGAAGT
1 CGAATCTTACCTCCCTATAGTTGTAGTAGAGCAAATTGAAGCCACAAATTTTATCTCCCTAAAGT
* * *
13241094 TGCAGTGGAGCATATCGAAGTTATCATGGCGAATCTTATCTCTCTGA-AGTTGCAGT-GGAGCAG
66 TGCAGTGGAGCATATCGAAGTTACCATGGCGAATCTTACCTCCCT-ATAGTTGCAGTGGGA-CAG
** *
13241157 ATTGAAGTTACAAGTCTTATCTCCCTGAA
129 ATTGAAGCCACAAATCTTATCTCCCTGAA
13241186 GTTGCAGTAG
Statistics
Matches: 136, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
187 3 0.02
188 132 0.97
189 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (188 bp):
CGAATCTTACCTCCCTATAGTTGTAGTAGAGCAAATTGAAGCCACAAATTTTATCTCCCTAAAGT
TGCAGTGGAGCATATCGAAGTTACCATGGCGAATCTTACCTCCCTATAGTTGCAGTGGGACAGAT
TGAAGCCACAAATCTTATCTCCCTGAATTTGTAGTGGAGCATATCGAAGTTACCATGG
Found at i:13241190 original size:44 final size:44
Alignment explanation
Indices: 13240843--13241840 Score: 454
Period size: 44 Copynumber: 21.7 Consensus size: 44
13240833 TATTATGACG
* * * * *
13240843 AATCTTACCTCCCT-ATAGTTGTAGTAGAGCAAATTGAAGCCACA
1 AATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
13240887 AATTTTATCTCCCTAAAGTTGTAGTGGAGCATATTGAAGTTACCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* * * *
13240932 TGGCGAATCTTACCTCCCT-ATAGTTGTAGTGG-GATAGATTGAAGCCACA
1 -----AATCTTATCTCCCTGA-AGTTGCAGTGGAG-CAGATTGAAGCTACA
* * * * * *
13240981 AATTTTATCTCCCTGAATTTGTAGTGGAGCATATCGAAGTTACCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* * * * *
13241026 TGGCGAATCTTATCT-CCTTATAGTTGTAGTAGG-GTAAATTGAAGCCACA
1 -----AATCTTATCTCCCTGA-AGTTGCAGT-GGAGCAGATTGAAGCTACA
* * ** * * *
13241075 ATTTTTATCTCTTTGAAGTTGCAGTGGAGCATATCGAAGTTATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* *
13241120 TGGCGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
1 -----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * * *
13241169 AGTCTTATCTCCCTGAAGTTGCAGTAGAGTAG-GTGAAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGCTA-CA
* * * * *
13241214 AGTCTTATCTCCCTGAAGTTGCAGTAGAGGAGACTGAAGGTAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* * * * * * * * *
13241259 AATCTTATCTCTCTAAATTTGAAGTAGAGTAGATTAAAGCGATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * *
13241303 AACCTTATCTCCCTGAAATTGCAGTGGAGTA-AGTTGAAGCTACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCTACA
** * * * * * * *
13241347 AATCCAATTTCCTTCAAGTTGCAGTGGAGCGGATTAAAGCGATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
** * * *
13241391 AATCTTATACGT--CTGAAGTTGCAGTAGGTCGGATAAAATCTACTATAACTACA
1 AATCTTAT-C-TCCCTGAAGTTGC---A-GT-GGAGCAGAT-T--GA-AGCTACA
* * *
13241444 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* *
13241488 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
13241532 AGTCCTATCTCCTTGAAGTTGCAGTGGAGCAGACTT-AAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCTA-CA
* * * * *
13241577 AGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGATAGAAGATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACA
* *
13241622 AATCTTATCTCTTTGCCCTGAAGTTGCAGTGGAGCAGGTTGAAGCTACT
1 AATCTTA--TC--T-CCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
13241671 AATCCTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAGCGACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * * *
13241715 AATCCTATAC-CTCTAAAGTTGCAGT-AAGTCAGATTAAATCTACTA
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGCTAC-A
* *
13241760 TAACTACAAATCTCATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTACA
1 -AA-T-C---T-T-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
13241812 AGTCTTATCTCTCTGAAGTTGCGGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
13241841 TGGATCAAAG
Statistics
Matches: 732, Mismatches: 155, Indels: 134
0.72 0.15 0.13
Matches are distributed among these distances:
43 7 0.01
44 360 0.49
45 132 0.18
46 7 0.01
47 7 0.01
48 9 0.01
49 29 0.04
50 124 0.17
51 4 0.01
52 5 0.01
53 46 0.06
54 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:13241226 original size:45 final size:45
Alignment explanation
Indices: 13241122--13241287 Score: 165
Period size: 45 Copynumber: 3.7 Consensus size: 45
13241112 AGTTATCATG
* * * * *
13241122 GCGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
1 GCGAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGAGTGAAGATA
* *
13241167 -CAAGTCTTATCTCCCTGAAGTTGCAGTAGAGTAG-GTGAAAGATA
1 GCGAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGAGTG-AAGATA
* * *
13241211 GCGAGTCTTATCTCCCTGAAGTTGCAGTAGAGGAGACTGAAGGTA
1 GCGAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGAGTGAAGATA
* * * * * *
13241256 GCAAATCTTATCTCTCTAAATTTGAAGTAGAG
1 GCGAGTCTTATCTCCCTGAAGTTGCAGTAGAG
13241288 TAGATTAAAG
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.02
44 34 0.34
45 63 0.62
46 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (45 bp):
GCGAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGAGTGAAGATA
Found at i:13241252 original size:89 final size:90
Alignment explanation
Indices: 13241122--13241290 Score: 232
Period size: 89 Copynumber: 1.9 Consensus size: 90
13241112 AGTTATCATG
* * * * * *
13241122 GCGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAGTCTTATCTCCCTGAA
1 GCGAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGGTAGCAAATCTTATCTCCCTAAA
*
13241186 GTTGCAGTAGAGTAGGTGAAAGATA
66 GTTGAAGTAGAGTAGGTGAAAGATA
* * *
13241211 GCGAGTCTTATCTCCCTGAAGTTGCAGTAGAGGAGACTGAAGGTAGCAAATCTTATCTCTCTAAA
1 GCGAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGGTAGCAAATCTTATCTCCCTAAA
*
13241276 TTTGAAGTAGAGTAG
66 GTTGAAGTAGAGTAG
13241291 ATTAAAGCGA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
89 39 0.57
90 29 0.43
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (90 bp):
GCGAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGGTAGCAAATCTTATCTCCCTAAA
GTTGAAGTAGAGTAGGTGAAAGATA
Found at i:13241310 original size:89 final size:87
Alignment explanation
Indices: 13241128--13241327 Score: 213
Period size: 89 Copynumber: 2.3 Consensus size: 87
13241118 CATGGCGAAT
* * * * * * *
13241128 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGGTACAAATCTTATCTCCCTAAAGTTGAAG
* **
13241193 TAGAGTAGGTGAAAGATAGCGAGT
66 TAGAGTAGATGAAAGATA--GAAC
* * *
13241217 CTTATCTCCCTGAAGTTGCAGTAGAGGAGACTGAAGGTAGCAAATCTTATCTCTCTAAATTTGAA
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGGTA-CAAATCTTATCTCCCTAAAGTTGAA
*
13241282 GTAGAGTAGATTAAAGCGATA-AAC
65 GTAGAGTAGATGAAA--GATAGAAC
*
13241306 CTTATCTCCCTGAAATTGCAGT
1 CTTATCTCCCTGAAGTTGCAGT
13241328 GGAGTAAGTT
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
89 56 0.60
90 33 0.35
92 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (87 bp):
CTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGGTACAAATCTTATCTCCCTAAAGTTGAAG
TAGAGTAGATGAAAGATAGAAC
Found at i:13241664 original size:139 final size:132
Alignment explanation
Indices: 13241450--13241707 Score: 356
Period size: 139 Copynumber: 1.9 Consensus size: 132
13241440 TACAAATCTC
* * * *
13241450 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATAGAAGTAACAAATCTTATCTCCCTGAAGTTGCAGTGG
* *
13241515 AGTAGATTGAAGTTAC-AAGTCCTATCTCCTTGAAGTTGCAGTGGAGCAGACTTAAGATAGCGAG
66 AGCAGATTGAAGCTACTAA-TCCTATCTCCTTGAAGTTGCAGTGGAGCAGA-TTAAGATAGCGAG
13241579 TCTT
129 TCTT
*
13241583 ATCTCCCTGAAGTTGTAGTAGAGCAGATAGAAGATAACAAATCTTATCTCTTTGCCCTGAAGTTG
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATAGAAG-TAACAAATCTTA--TC--T-CCCTGAAGTTG
* *
13241648 CAGTGGAGCAGGTTGAAGCTACTAATCCTATCTCCTTGAAGTTGTAGTGGAGCAGATTAA
60 CAGTGGAGCAGATTGAAGCTACTAATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAA
13241708 AGCGACAAAT
Statistics
Matches: 109, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
133 29 0.27
134 11 0.10
136 2 0.02
138 5 0.05
139 60 0.55
140 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (132 bp):
ATCTCCCTGAAGTTGCAGTAGAGCAGATAGAAGTAACAAATCTTATCTCCCTGAAGTTGCAGTGG
AGCAGATTGAAGCTACTAATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAGATAGCGAGTC
TT
Found at i:13241738 original size:324 final size:319
Alignment explanation
Indices: 13241125--13241841 Score: 945
Period size: 324 Copynumber: 2.2 Consensus size: 319
13241115 TATCATGGCG
* * *
13241125 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
1 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
* * * * *
13241190 CAGTAGAGTAGGTGAAAGATAGCGAGTCTTATCTCCCTGAAGTTGCAGTAGAGGAGACTGAAGGT
66 CAGTGGAGTAGGTGAAAGATAGCAAGTCCTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGAT
* * * * *
13241255 AGCAAATCTTATCTCTCTAAATTTGAAGTAGAGTAGATTAAAGCGATAAACCTTATCTCCCTGAA
131 AGCAAATCTTATCTCCCTAAAGTTGAAGTAGAGCAGATTAAAGCAACAAACCTTATCTCCCTGAA
* * *
13241320 ATTGCAGTGGAGTAAGTTGAAGCTACTAATCCAATTTCCTTCAAGTTGCAGTGGAGCGGATTAAA
196 ATTGCAGTGGAGCAAGTTGAAGCTACTAATCCAATCTCCTTCAAGTTGCAGTGGAGCAGATTAAA
* * * * * *
13241385 GCGATAAATCTTATACGTCTGAAGTTGCAGTAGGTCGGATAAAATCTACTATAACTACA
261 GCGACAAATCCTATACCTCTAAAGTTGCAGTAAGTCAGATAAAATCTACTATAACTACA
*
13241444 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
1 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
* * * * *
13241509 CAGTGGAGTAGATTG-AAGTTA-CAAGTCCTATCTCCTTGAAGTTGCAGTGGAGCAGACTTAAGA
66 CAGTGGAGTAG-GTGAAAGATAGCAAGTCCTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGA
* * * * * *
13241572 TAGCGAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGA-TAGAAGATAACAAATCTTATCTCTTT
130 TAGCAAATCTTATCTCCCTAAAGTTGAAGTAGAGCAGATTA-AAG-CAACAAACCTTA--TC--T
* * * * *
13241636 GCCCTGAAGTTGCAGTGGAGCAGGTTGAAGCTACTAATCCTATCTCCTTGAAGTTGTAGTGGAGC
189 -CCCTGAAATTGCAGTGGAGCAAGTTGAAGCTACTAATCCAATCTCCTTCAAGTTGCAGTGGAGC
*
13241701 AGATTAAAGCGACAAATCCTATACCTCTAAAGTTGCAGTAAGTCAGATTAAATCTACTATAACTA
253 AGATTAAAGCGACAAATCCTATACCTCTAAAGTTGCAGTAAGTCAGATAAAATCTACTATAACTA
13241766 CA
318 CA
* * *
13241768 AATCTCATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTACAAGTCTTATCTCTCTGAAGTTG
1 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
*
13241833 CGGTGGAGT
66 CAGTGGAGT
13241842 GGATCAAAGC
Statistics
Matches: 345, Mismatches: 45, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
317 2 0.01
318 69 0.20
319 84 0.24
320 2 0.01
321 2 0.01
323 1 0.00
324 185 0.54
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (319 bp):
AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
CAGTGGAGTAGGTGAAAGATAGCAAGTCCTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGAT
AGCAAATCTTATCTCCCTAAAGTTGAAGTAGAGCAGATTAAAGCAACAAACCTTATCTCCCTGAA
ATTGCAGTGGAGCAAGTTGAAGCTACTAATCCAATCTCCTTCAAGTTGCAGTGGAGCAGATTAAA
GCGACAAATCCTATACCTCTAAAGTTGCAGTAAGTCAGATAAAATCTACTATAACTACA
Found at i:13241857 original size:44 final size:44
Alignment explanation
Indices: 13241765--13241857 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
13241755 TACTATAACT
* * ** *
13241765 ACAAATCTCATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCT
1 ACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCA
* * * *
13241809 ACAAGTCTTATCTCTCTGAAGTTGCGGTGGAGTGGATCAAAGCA
1 ACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCA
13241853 ACAAG
1 ACAAG
13241858 ATGCGGTGGA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
ACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCA
Found at i:13243460 original size:3 final size:3
Alignment explanation
Indices: 13243454--13243479 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13243444 ATTGTTTGTG
13243454 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
13243480 TTTAAACCAT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13247113 original size:20 final size:20
Alignment explanation
Indices: 13247072--13247113 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
13247062 ATTTCCCACA
* *
13247072 TTGGCCCATTTTCTCATTTT
1 TTGGCCCATTTTCGCATCTT
13247092 TTGGCCCATTTATCGC-TCTT
1 TTGGCCCATTT-TCGCATCTT
13247112 TT
1 TT
13247114 TACTCTCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.10, C:0.26, G:0.12, T:0.52
Consensus pattern (20 bp):
TTGGCCCATTTTCGCATCTT
Found at i:13250773 original size:40 final size:39
Alignment explanation
Indices: 13250583--13250766 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
13250573 CGAATGATGT
* * * *
13250583 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
13250623 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
13250663 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
13250701 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
13250742 CCGGGCTATGTTCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
13250767 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:13250797 original size:79 final size:79
Alignment explanation
Indices: 13250634--13250799 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
13250624 CGGACTAAGA
* **
13250634 TCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTA
1 TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTA
* * *
13250699 AATTCGGGTTAAGT
66 AATTCCGATTAAAT
* * * *
13250713 CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTTCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-
*
13250776 CTATA-TCCGATTAAAT
63 CTAAATTCCGATTAAAT
13250792 TCCGAAGG
1 TCCGAAGG
13250800 TACGTGATTC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 50 0.69
80 20 0.28
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTA
AATTCCGATTAAAT
Found at i:13252947 original size:24 final size:24
Alignment explanation
Indices: 13252895--13252987 Score: 134
Period size: 24 Copynumber: 3.9 Consensus size: 24
13252885 GAGCTAATGG
*
13252895 ACAGTAAGCTCTATTGAGCT-AAA
1 ACAGTAAGCTCTAATGAGCTGAAA
*
13252918 ACAGTAAGCTCTAACGAGCTGAAA
1 ACAGTAAGCTCTAATGAGCTGAAA
* *
13252942 ACAGTAAGCTCTTATGAGCTAAAA
1 ACAGTAAGCTCTAATGAGCTGAAA
*
13252966 ACAGTAAGCTCTTATGAGCTGA
1 ACAGTAAGCTCTAATGAGCTGA
13252988 TATATCGGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
23 18 0.29
24 45 0.71
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (24 bp):
ACAGTAAGCTCTAATGAGCTGAAA
Found at i:13259120 original size:17 final size:17
Alignment explanation
Indices: 13259098--13259143 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
13259088 CGTACTTCTA
13259098 TCATACATTCAATCATT
1 TCATACATTCAATCATT
*
13259115 TCATACAATC-ATCATT
1 TCATACATTCAATCATT
*
13259131 TGA-A-ATTCAATCA
1 TCATACATTCAATCA
13259144 ATTTGTCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 3 0.12
15 5 0.20
16 8 0.32
17 9 0.36
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (17 bp):
TCATACATTCAATCATT
Found at i:13260439 original size:24 final size:24
Alignment explanation
Indices: 13260388--13260463 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
13260378 AACTCCTCCT
* *
13260388 GAGCTGATGAACAATAAGCTC-AATC
1 GAGCTGA-AAACAATAAGCTCTGA-C
* *
13260413 GAGCTGGAAATAATAAGCTCTGAC
1 GAGCTGAAAACAATAAGCTCTGAC
* *
13260437 GAGCTGAAAACAGTAAGCTCTTAC
1 GAGCTGAAAACAATAAGCTCTGAC
13260461 GAG
1 GAG
13260464 TTGATATAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 35 0.83
25 7 0.17
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (24 bp):
GAGCTGAAAACAATAAGCTCTGAC
Found at i:13277286 original size:49 final size:50
Alignment explanation
Indices: 13277225--13277504 Score: 359
Period size: 49 Copynumber: 5.6 Consensus size: 50
13277215 CTGGTATGCA
**
13277225 TAGTAGCCTGCACTTAGTACTACACATGTGATC-AATTATTTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAATTATCGGGTACACG
* * * *
13277274 TATTAGCTTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTACTCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAA-TTATCGGGTACACG
* * * *
13277325 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAATTATCGGGTACACG
* *
13277374 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAA-TTATCGGGTACACG
* * * * *
13277425 TAGTAGCCTACACTTAGTACTACACATGCGA-CTAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAATTATCGGGTACACG
*
13277474 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA
13277505 CCTCACAATA
Statistics
Matches: 197, Mismatches: 30, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
49 109 0.55
50 11 0.06
51 77 0.39
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGATCGAATTATCGGGTACACG
Found at i:13277370 original size:100 final size:100
Alignment explanation
Indices: 13277212--13277504 Score: 469
Period size: 100 Copynumber: 2.9 Consensus size: 100
13277202 TAGCCAAAGC
* * * * * * *
13277212 TATCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGTGATCAATTATTTGGTACACGTAT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAG
*
13277277 TAGCTTGCACTTAGTACTACACATGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
* *
13277312 TATCGGGTACTCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAG
13277377 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
* *
13277412 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACTAATAATCTGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAG
*
13277477 TAGCCTGCACTTAGTACTACACACGTGA
66 TAGCCTGCACTTAGTACTACACATGTGA
13277505 CCTCACAATA
Statistics
Matches: 178, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 178 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAG
TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
Found at i:13277470 original size:149 final size:149
Alignment explanation
Indices: 13277225--13277499 Score: 401
Period size: 149 Copynumber: 1.8 Consensus size: 149
13277215 CTGGTATGCA
** * * * *
13277225 TAGTAGCCTGCACTTAGTACTACACATGTGATCAATTATTTGGTACACGTATTAGCTTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCAATTATCGGGTACACATAGTAGCCTACACTTA
* * *
13277290 GTACTACACATGTGATCGAAGTTATCGGGTACTCATAGTAGCCTGCACTTAGTACTACACATGCG
66 GTACTACACATGCGATCGAAGTAATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCG
13277355 ACCAATAATCCGGTACACG
131 ACCAATAATCCGGTACACG
*
13277374 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGCATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACATGTGATC-AA-TTATCGGGTACACATAGTAGCCTACACT
* * *
13277439 TAGTACTACACATGCGA-CTAA-TAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
64 TAGTACTACACATGCGATCGAAGTAATCGGGTACACATAGTAGCCTGCACTTAGTACTACACA
13277500 CGTGACCTCA
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
149 69 0.62
150 5 0.05
151 37 0.33
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (149 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGATCAATTATCGGGTACACATAGTAGCCTACACTTA
GTACTACACATGCGATCGAAGTAATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCG
ACCAATAATCCGGTACACG
Found at i:13308129 original size:40 final size:40
Alignment explanation
Indices: 13308051--13308273 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
13308041 ACCCAAGTAT
* *
13308051 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
13308090 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
13308130 CTTCGGGACTTATCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
13308170 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
13308213 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
13308253 CTTCGGGACTTAG-CCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
13308274 CATCCGAATA
Statistics
Matches: 163, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
39 20 0.12
40 106 0.65
41 1 0.01
43 36 0.22
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:13308247 original size:83 final size:80
Alignment explanation
Indices: 13308051--13308273 Score: 299
Period size: 83 Copynumber: 2.8 Consensus size: 80
13308041 ACCCAAGTAT
* * * *
13308051 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
13308115 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* * *
13308130 CTTCGGGACTTATCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
13308194 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
13308213 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAG-CCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
13308274 CATCCGAATA
Statistics
Matches: 126, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
79 12 0.10
80 49 0.39
82 7 0.06
83 58 0.46
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:13316339 original size:40 final size:40
Alignment explanation
Indices: 13316261--13316481 Score: 299
Period size: 40 Copynumber: 5.5 Consensus size: 40
13316251 ACCCAAGTAT
* *
13316261 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
13316300 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
13316340 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
13316380 CTTCGGGACTTAGCCCGG-TATAG-CAACTCTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-A--CTAGCACAAATGC
* *
13316421 CTTCGGGACTTAG-CCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
13316460 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
13316482 CATCCGAATA
Statistics
Matches: 163, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.01
39 42 0.26
40 88 0.54
41 32 0.20
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:13318620 original size:40 final size:39
Alignment explanation
Indices: 13318480--13318656 Score: 174
Period size: 37 Copynumber: 4.6 Consensus size: 39
13318470 GCTCCTCGTT
*
13318480 CAAATGCCTTCGGGACATAGCCCGG-TTAGTAACTCG-A
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
*
13318517 CAAATGCCTTCGGGACTTAACCCGGATTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA--TTAGTAACTCGCA
*
13318558 C-AATG-CTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* * * *
13318595 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
13318636 CAAA-GCC-TC-GGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
13318657 ACATCATTCA
Statistics
Matches: 119, Mismatches: 10, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
37 36 0.30
38 23 0.19
39 19 0.16
40 31 0.26
41 10 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:13318637 original size:78 final size:75
Alignment explanation
Indices: 13318482--13318656 Score: 174
Period size: 78 Copynumber: 2.3 Consensus size: 75
13318472 TCCTCGTTCA
* *
13318482 AATGCCTTCGGGACATAGCCCGGTTAGTAACTCGACAAATGCCTTCGGGACTTAACCCGGATTTT
1 AATG-CTTCGGG-CTTAGCCCGGTTAGTAACTCGACAAATGCCTTCGGGACTTAACCCGGATTAT
*
13318547 AGTAACTCGCAC
64 AGTAACTAGCAC
* **
13318559 AATGCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGA-T
1 AATGCTTCGGGCTTAGCCCGG--TTAGTAACTCG-ACAAATGCCTTCGGGA-CTTAACCCGGATT
* *
13318622 ATGGTCACTTAGCAC
62 ATAGTAAC-TAGCAC
* * *
13318637 AAAGCCTCGGACTTAGCCCG
1 AATGCTTCGGGCTTAGCCCG
13318657 ACATCATTCA
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
75 9 0.11
76 7 0.09
77 23 0.28
78 43 0.52
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (75 bp):
AATGCTTCGGGCTTAGCCCGGTTAGTAACTCGACAAATGCCTTCGGGACTTAACCCGGATTATAG
TAACTAGCAC
Found at i:13321647 original size:13 final size:13
Alignment explanation
Indices: 13321629--13321654 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13321619 GCTCGGCAGG
13321629 GACACGCCCATGT
1 GACACGCCCATGT
13321642 GACACGCCCATGT
1 GACACGCCCATGT
13321655 ACGATTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.23, T:0.15
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:13392844 original size:30 final size:32
Alignment explanation
Indices: 13392808--13392869 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 32
13392798 CCCTTTCATA
13392808 TTCATATTTCATAACACT-GG-CGAAGCCTTT
1 TTCATATTTCATAACACTAGGCCGAAGCCTTT
**
13392838 TTCATATTTCATATTACTAGGCCGAAGCCTTT
1 TTCATATTTCATAACACTAGGCCGAAGCCTTT
13392870 ACTGAAACGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 16 0.57
31 2 0.07
32 10 0.36
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.39
Consensus pattern (32 bp):
TTCATATTTCATAACACTAGGCCGAAGCCTTT
Found at i:13393174 original size:24 final size:24
Alignment explanation
Indices: 13393083--13393185 Score: 112
Period size: 24 Copynumber: 4.5 Consensus size: 24
13393073 TTTAGTAACT
* *
13393083 GGCAAAAGCCCTTT-TTATAACGG
1 GGCATAAGCCCTTTATCATAACGG
*
13393106 GGCAT-A-CCCTTTAT--TAACTG
1 GGCATAAGCCCTTTATCATAACGG
*
13393126 GGCAT-AGTCC-TTATCATAACTGG
1 GGCATAAGCCCTTTATCATAAC-GG
13393149 GGCATAAGCCCTTTATCATAACGG
1 GGCATAAGCCCTTTATCATAACGG
13393173 GGCATAAGCCCTT
1 GGCATAAGCCCTT
13393186 AAACTGGGGG
Statistics
Matches: 68, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
20 15 0.22
21 8 0.12
22 6 0.09
23 10 0.15
24 19 0.28
25 10 0.15
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (24 bp):
GGCATAAGCCCTTTATCATAACGG
Found at i:13393191 original size:66 final size:64
Alignment explanation
Indices: 13393073--13393229 Score: 162
Period size: 66 Copynumber: 2.4 Consensus size: 64
13393063 CCTAGCCTCT
* * * *
13393073 TTTAGTAACT-GGCAAAAGCCCTTTTTATAACGGGGCATACCCTTTATTAACT-GGGCAT-AGTC
1 TTTAATAACTGGGCATAAGCCCTTTTCATAACGGGGCATACCCTTTA-TAACTGGGGAATAAG-C
13393135 C
64 C
*
13393136 TTATCATAACTGGGGCATAAGCCCTTTATCATAACGGGGCATAAGCCC-TTA-AACTGGGGGAAT
1 TT-TAATAACT-GGGCATAAGCCCTTT-TCATAACGGGGCAT-A-CCCTTTATAACT-GGGGAAT
13393199 AAGCC
60 AAGCC
13393204 TTTAATAACTGGGCATAAGCCCTTTT
1 TTTAATAACTGGGCATAAGCCCTTTT
13393230 GCACTTCCTC
Statistics
Matches: 79, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
63 2 0.03
64 6 0.08
65 1 0.01
66 32 0.41
67 20 0.25
68 13 0.16
69 5 0.06
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (64 bp):
TTTAATAACTGGGCATAAGCCCTTTTCATAACGGGGCATACCCTTTATAACTGGGGAATAAGCC
Found at i:13393221 original size:21 final size:21
Alignment explanation
Indices: 13393073--13393224 Score: 89
Period size: 21 Copynumber: 7.0 Consensus size: 21
13393063 CCTAGCCTCT
* *
13393073 TTTAGTAACT-GGCAAAAGCCC
1 TTTAATAACTGGGCATAAG-CC
* * *
13393094 TTTTTATAACGGGGCAT-ACCC
1 -TTTAATAACTGGGCATAAGCC
*
13393115 TTTATTAACTGGGCAT-AGTCC
1 TTTAATAACTGGGCATAAG-CC
*
13393136 TTATCATAACTGGGGCATAAGCCC
1 TT-TAATAACT-GGGCATAAG-CC
*
13393160 TTTATCATAACGGGGCATAAGCC
1 TTTA--ATAACTGGGCATAAGCC
* *
13393183 CTT-A-AACTGGGGGAATAAGCC
1 TTTAATAACT--GGGCATAAGCC
13393204 TTTAATAACTGGGCATAAGCC
1 TTTAATAACTGGGCATAAGCC
13393225 CTTTTGCACT
Statistics
Matches: 100, Mismatches: 19, Indels: 23
0.70 0.13 0.16
Matches are distributed among these distances:
19 3 0.03
20 15 0.15
21 28 0.28
22 15 0.15
23 19 0.19
24 15 0.15
25 5 0.05
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (21 bp):
TTTAATAACTGGGCATAAGCC
Found at i:13393222 original size:42 final size:43
Alignment explanation
Indices: 13393143--13393227 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 43
13393133 TCCTTATCAT
*
13393143 AACTGGGGCATAAGCCCTTTATCATAACGGGGCATAAGCCCTTA
1 AACTGGGGAATAAGCCCTTTA-CATAACGGGGCATAAGCCCTTA
*
13393187 AACTGGGGGAATAAG-CCTTTA-ATAACTGGGCATAAGCCCTT
1 AACT-GGGGAATAAGCCCTTTACATAACGGGGCATAAGCCCTT
13393228 TTGCACTTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 19 0.50
44 10 0.26
45 9 0.24
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (43 bp):
AACTGGGGAATAAGCCCTTTACATAACGGGGCATAAGCCCTTA
Found at i:13393325 original size:19 final size:20
Alignment explanation
Indices: 13393276--13393346 Score: 108
Period size: 20 Copynumber: 3.5 Consensus size: 20
13393266 GCATTTATGA
*
13393276 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
13393296 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
13393316 AC-TGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
13393335 ACATATCGATGT
1 ACATATC-ATGT
13393347 TATCAAAATC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 18 0.39
20 24 0.52
21 4 0.09
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:13394625 original size:24 final size:26
Alignment explanation
Indices: 13394577--13394634 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
13394567 ATACGGGGTA
13394577 TTACGGTCACTTTACCCACAAGGGC-
1 TTACGGTCACTTTACCCACAAGGGCT
* *
13394602 TTACGGTCAC-TTACCTACAGGGGCT
1 TTACGGTCACTTTACCCACAAGGGCT
13394627 TTACGGTC
1 TTACGGTC
13394635 TTTTTACCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (26 bp):
TTACGGTCACTTTACCCACAAGGGCT
Found at i:13394793 original size:53 final size:52
Alignment explanation
Indices: 13394736--13394929 Score: 144
Period size: 53 Copynumber: 3.6 Consensus size: 52
13394726 GGTATTTCCA
* **
13394736 TAATTTTAGAAAGTCAAGGGTATTTCTGTAACTTT-GTAAA-TGGGGTATTTTGG
1 TAATTTTACAAA-T-AAGGGTATTTCTGTAA-TTTAAAAAACTGGGGTATTTTGG
* * * * * * *
13394789 TAATTTCACAAAATGAGGGTATTTCGGTAATTTCACAAACAGTGGTATTTTGG
1 TAATTTTAC-AAATAAGGGTATTTCTGTAATTTAAAAAACTGGGGTATTTTGG
* * *
13394842 TAATTTTACAAACTAAGGGTATTT-TGGTAATTTTACAAAATTGAGGGTATTTTTG
1 TAATTTTACAAA-TAAGGGTATTTCT-GTAA-TTTAAAAAACTG-GGGTATTTTGG
*
13394897 TAATTTTACAAACCAAGGGTATTT-TAGTAATTT
1 TAATTTTACAAA-TAAGGGTATTTCT-GTAATTT
13394930 TACAGACTAG
Statistics
Matches: 114, Mismatches: 20, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
51 3 0.03
52 20 0.18
53 41 0.36
54 13 0.11
55 37 0.32
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (52 bp):
TAATTTTACAAATAAGGGTATTTCTGTAATTTAAAAAACTGGGGTATTTTGG
Found at i:13394810 original size:27 final size:27
Alignment explanation
Indices: 13394773--13394933 Score: 184
Period size: 27 Copynumber: 6.0 Consensus size: 27
13394763 GTAACTTTGT
*
13394773 AAATG-GGGTATTTTGGTAATTTCACA
1 AAATGAGGGTATTTTGGTAATTTTACA
* *
13394799 AAATGAGGGTATTTCGGTAATTTCACA
1 AAATGAGGGTATTTTGGTAATTTTACA
*
13394826 AACA-G-TGGTATTTTGGTAATTTTACA
1 AA-ATGAGGGTATTTTGGTAATTTTACA
* *
13394852 AACTAAGGGTATTTTGGTAATTTTACA
1 AAATGAGGGTATTTTGGTAATTTTACA
*
13394879 AAATTGAGGGTATTTTTGTAATTTTACA
1 AAA-TGAGGGTATTTTGGTAATTTTACA
*** *
13394907 AACCAAGGGTATTTTAGTAATTTTACA
1 AAATGAGGGTATTTTGGTAATTTTACA
13394934 GACTAGGTAT
Statistics
Matches: 116, Mismatches: 14, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
26 25 0.22
27 66 0.57
28 25 0.22
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
AAATGAGGGTATTTTGGTAATTTTACA
Found at i:13394909 original size:55 final size:53
Alignment explanation
Indices: 13394777--13394933 Score: 199
Period size: 53 Copynumber: 2.9 Consensus size: 53
13394767 CTTTGTAAAT
* * * * *
13394777 GGGGTATTTTGGTAATTTCACAAAATGAGGGTATTTCGGTAATTTCACAAACA
1 GGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACA
*
13394830 GTGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAA-A
1 GGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACA
* * *
13394882 TTGAGGGTATTTTTGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACA
1 --G-GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACA
13394934 GACTAGGTAT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
52 1 0.01
53 45 0.49
54 1 0.01
55 44 0.48
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (53 bp):
GGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACA
Found at i:13395153 original size:24 final size:24
Alignment explanation
Indices: 13395101--13395147 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
13395091 GGTACTTTGT
*
13395101 AATTTTACAAGTCAAGGTATTTCA
1 AATTTTACAAATCAAGGTATTTCA
*
13395125 AATTTTACAAATCGAGG-ATTTCA
1 AATTTTACAAATCAAGGTATTTCA
13395148 GTATTTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (24 bp):
AATTTTACAAATCAAGGTATTTCA
Found at i:13397932 original size:32 final size:32
Alignment explanation
Indices: 13397891--13397952 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
13397881 CCTTTTCATA
*
13397891 TTTCATATTTCATAACACTGGGCCGAAGCCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCCT
**
13397923 TTTCATATTTCATATTACTAGGCCGAAGCC
1 TTTCATATTTCATAACACTAGGCCGAAGCC
13397953 TTTACTGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.34
Consensus pattern (32 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCCT
Found at i:13398217 original size:24 final size:24
Alignment explanation
Indices: 13398147--13398338 Score: 173
Period size: 24 Copynumber: 8.0 Consensus size: 24
13398137 GCTTTATCAT
* *
13398147 ATAACTGGAGCCT-AGCCTCTTTT-
1 ATAACTGGGGCATAAGCC-CTTTTC
* *
13398170 AGTAACTGGGGCAAAAAGCCCTTTTT
1 A-TAACTGGGGC-ATAAGCCCTTTTC
13398196 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
* *
13398221 GTAACT-GGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
*
13398245 GTAACT-GGGCATAAGCCGCTTTATC
1 ATAACTGGGGCATAAGCC-CTTT-TC
*
13398270 ATAACTTGGGGCATAAGCCC-TTTA
1 ATAAC-TGGGGCATAAGCCCTTTTC
*
13398294 AT-ACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
*
13398316 ATAATTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
13398339 GCAACTTCCT
Statistics
Matches: 146, Mismatches: 11, Indels: 23
0.81 0.06 0.13
Matches are distributed among these distances:
22 20 0.14
23 18 0.12
24 58 0.40
25 32 0.22
26 7 0.05
27 11 0.08
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:13398231 original size:49 final size:50
Alignment explanation
Indices: 13398146--13398338 Score: 181
Period size: 49 Copynumber: 4.0 Consensus size: 50
13398136 TGCTTTATCA
* * * * *
13398146 TATAACTGGAGCCT-AGCCTCTTT-TAGTAACTGGGGCAAAAAGCCCTTTT
1 TATAACTGGGGCATAAGCCGCTTTATCGTAACTGGGGC-ATAAGCCCTTTT
*
13398195 TATAACTGGGGCATAAGCC-CTTTATCGTAACT-GGGCATAAGCCCTTCAT
1 TATAACTGGGGCATAAGCCGCTTTATCGTAACTGGGGCATAAGCCCTT-TT
** *
13398244 CGTAACT-GGGCATAAGCCGCTTTATCATAACTTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCGCTTTATCGTAAC-TGGGGCATAAGCCCTTTT
* * *
13398293 AAT-ACTGGGGCATAAGCC-CTTTA--ATAATTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCGCTTTATCGTAACTGGGGCATAAGCCCTTTT
13398339 GCAACTTCCT
Statistics
Matches: 124, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
45 14 0.11
46 7 0.06
48 28 0.23
49 50 0.40
50 13 0.10
51 12 0.10
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (50 bp):
TATAACTGGGGCATAAGCCGCTTTATCGTAACTGGGGCATAAGCCCTTTT
Found at i:13398409 original size:9 final size:9
Alignment explanation
Indices: 13398395--13398451 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
13398385 CATTCATGTG
13398395 CATATCATA
1 CATATCATA
*
13398404 CATATCATGTG
1 CATATCA--TA
13398415 CATATCATA
1 CATATCATA
* *
13398424 CATGTCATGTG
1 CATATCA--TA
13398435 CATATCATA
1 CATATCATA
13398444 CATATCAT
1 CATATCAT
13398452 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:13398413 original size:20 final size:20
Alignment explanation
Indices: 13398384--13398453 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
13398374 TGCTTTATGA
13398384 ACAT-TCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
13398403 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
13398423 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
13398443 ACATATCATGT
1 ACATATCATGT
13398454 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 4 0.08
20 44 0.92
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:13398418 original size:11 final size:11
Alignment explanation
Indices: 13398388--13398442 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
13398378 TTATGAACAT
13398388 TCATGTGCATA
1 TCATGTGCATA
*
13398399 TCA--TACATA
1 TCATGTGCATA
13398408 TCATGTGCATA
1 TCATGTGCATA
* *
13398419 TCA--TACATG
1 TCATGTGCATA
13398428 TCATGTGCATA
1 TCATGTGCATA
13398439 TCAT
1 TCAT
13398443 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:13398529 original size:25 final size:25
Alignment explanation
Indices: 13398490--13398539 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
13398480 ATATATAAAC
* * *
13398490 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGAAAAATGATCATTTTCA
*
13398515 CCTAGGGGAAAAATGATCCTTTTCA
1 CCTAGGGGAAAAATGATCATTTTCA
13398540 TGTTATAAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (25 bp):
CCTAGGGGAAAAATGATCATTTTCA
Found at i:13399724 original size:24 final size:26
Alignment explanation
Indices: 13399692--13399753 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
13399682 GGGCATATTC
*
13399692 GTCATTTTACCATAC-GGG-TATACG
1 GTCACTTTACCATACAGGGCTATACG
* *
13399716 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCATAC-AGGGCTATACG
13399743 GTCACTTTACC
1 GTCACTTTACC
13399754 CTATAGGGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.41
26 3 0.09
27 16 0.50
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (26 bp):
GTCACTTTACCATACAGGGCTATACG
Found at i:13399782 original size:26 final size:28
Alignment explanation
Indices: 13399712--13399789 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 28
13399702 CATACGGGTA
13399712 TACGGTCACTTTACCCTACA-A-GGGCTT
1 TACGGTCACTTTACCCTA-ATAGGGGCTT
13399739 TACGGTCACTTTACCCT-ATAGGGGCTT
1 TACGGTCACTTTACCCTAATAGGGGCTT
* **
13399766 TACTGTCTTTTTA-CCTAATAGGGG
1 TACGGTCACTTTACCCTAATAGGGG
13399790 TATTTTAGTC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 40 0.89
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (28 bp):
TACGGTCACTTTACCCTAATAGGGGCTT
Found at i:13399789 original size:27 final size:27
Alignment explanation
Indices: 13399712--13399768 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
13399702 CATACGGGTA
* *
13399712 TACGGTCACTTTACCCTACAAGGGCTT
1 TACGGTCACTTTACCCTATAGGGGCTT
13399739 TACGGTCACTTTACCCTATAGGGGCTT
1 TACGGTCACTTTACCCTATAGGGGCTT
13399766 TAC
1 TAC
13399769 TGTCTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (27 bp):
TACGGTCACTTTACCCTATAGGGGCTT
Found at i:13399882 original size:27 final size:27
Alignment explanation
Indices: 13399834--13399885 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
13399824 GTAAATCTAC
*
13399834 AAACCAAAGGTATTTTAGTAATTTTGT
1 AAACCAAAGGTATTTCAGTAATTTTGT
*
13399861 AAACCAATGGTATTTCCA-TAATTTT
1 AAACCAAAGGTATTT-CAGTAATTTT
13399886 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCAGTAATTTTGT
Found at i:13399983 original size:54 final size:53
Alignment explanation
Indices: 13399813--13400102 Score: 226
Period size: 54 Copynumber: 5.4 Consensus size: 53
13399803 TCATCCTACA
* * * * * * **
13399813 AGGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTTAGTAATTTTGTAAACC
1 AGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACC
* *** * * * ** *
13399866 AATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAATC
1 -AGGGTATTTTGGTAA-TTTTACAAACT-AAGGGTATTT-TGGTAATTTTACAAACC
* * *
13399922 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACC
1 A-GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACC
**
13399976 AGTGGTATTTTGGTAATTTTACAAACT-AGGGTATTTTGGTAATTTTACAAAATTG
1 AG-GGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTAC-AAA-CC
* * * *
13400031 AGGGTATTTCT-GTAATTTTACAAACTAAGGGTATTTTAGCAATTTTACAGACT
1 AGGGTATTT-TGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACC
*
13400084 AGGGTATTTTAGTAATTTT
1 AGGGTATTTTGGTAATTTT
13400103 GTAAATCGAG
Statistics
Matches: 190, Mismatches: 35, Indels: 23
0.77 0.14 0.09
Matches are distributed among these distances:
52 1 0.01
53 37 0.19
54 81 0.43
55 38 0.20
56 32 0.17
57 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACC
Found at i:13400046 original size:81 final size:80
Alignment explanation
Indices: 13399924--13400102 Score: 261
Period size: 81 Copynumber: 2.2 Consensus size: 80
13399914 TGTAAATCAG
* *
13399924 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAAC-CAGTGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAAG-GGTATTTTA
*
13399988 GTAATTTTACAAACTA
65 GCAATTTTACAAACTA
* * *
13400004 GGGTATTTTGGTAATTTTACAAAATTGAGGGTATTTCTGTAATTTTACAAACTAAGGGTATTTTA
1 GGGTATTTTGGTAATTTTAC-AAATTAAGGGTATTTCGGTAATTTCACAAACTAAGGGTATTTTA
*
13400069 GCAATTTTACAGACTA
65 GCAATTTTACAAACTA
*
13400085 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
13400103 GTAAATCGAG
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 20 0.22
81 67 0.75
82 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAAGGGTATTTTAG
CAATTTTACAAACTA
Found at i:13400074 original size:27 final size:26
Alignment explanation
Indices: 13399924--13400102 Score: 216
Period size: 27 Copynumber: 6.7 Consensus size: 26
13399914 TGTAAATCAG
*
13399924 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACT-A
* * *
13399951 GGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTACAAACTA
13399977 GTGGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTTACAAACTA
*
13400004 GGGTATTTTGGTAATTTTACAAAATTGA
1 GGGTATTTTGGTAATTTTAC-AAACT-A
13400032 GGGTATTTCT-GTAATTTTACAAACTAA
1 GGGTATTT-TGGTAATTTTACAAACT-A
* * *
13400059 GGGTATTTTAGCAATTTTACAGACTA
1 GGGTATTTTGGTAATTTTACAAACTA
*
13400085 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
13400103 GTAAATCGAG
Statistics
Matches: 134, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
26 40 0.30
27 74 0.55
28 19 0.14
29 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACTA
Found at i:13400124 original size:27 final size:27
Alignment explanation
Indices: 13400095--13400224 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
13400085 GGGTATTTTA
* *
13400095 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
13400122 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
13400149 GTACTTCTGTAAGTTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
13400176 GTAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
13400203 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
13400225 CTTTGATAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:13400279 original size:27 final size:26
Alignment explanation
Indices: 13400230--13400307 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 26
13400220 GGGTACTTTG
* *
13400230 ATAATTTTACAAGTCGAAGGTATTTCA
1 ATAATTTTACAA-ACTAAGGTATTTCA
*
13400257 ATAATTTTACAAACTAAGCGTATTTCG
1 ATAATTTTACAAACTAAG-GTATTTCA
* * *
13400284 GTAATTTTAGTAAACTAAAGTATT
1 ATAATTTTA-CAAACTAAGGTATT
13400308 CTAAACAGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.09
27 32 0.74
28 7 0.16
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (26 bp):
ATAATTTTACAAACTAAGGTATTTCA
Found at i:13401561 original size:41 final size:43
Alignment explanation
Indices: 13401459--13401605 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 43
13401449 TGTGTTCTCT
* * * **
13401459 TGTAAGACCACGTCTGGGA-TGTTGGCATCGATATGTGATTATG
1 TGTAAGACCATGTCTGGGACAG-TAGCATCGATATGTGATTACA
* *
13401502 TGTAAGACCATGTTTGGGACA-TCAGCATCG-TATTTGATT-CA
1 TGTAAGACCATGTCTGGGACAGT-AGCATCGATATGTGATTACA
* * *
13401543 TGTAAGACCCTGTCTGGGATAGTGGCATCGATATGTGATTACA
1 TGTAAGACCATGTCTGGGACAGTAGCATCGATATGTGATTACA
*
13401586 TGTAAGACCATATCTGGGAC
1 TGTAAGACCATGTCTGGGAC
13401606 GTTGGCACTG
Statistics
Matches: 84, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
41 24 0.29
42 18 0.21
43 42 0.50
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTAGCATCGATATGTGATTACA
Found at i:13413655 original size:43 final size:43
Alignment explanation
Indices: 13413597--13413763 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 43
13413587 AGATTTGTAG
* * *
13413597 CTTCAGTCTGTTCCACTGCAACTTCAGGGAGATAAGGCTTTAA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGCTTTAA
* * * * *
13413640 CTTCAACCTGCTCCACTACTACTTCAGGAAGATAAAGCTTGCTAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGCTT--TAA
* * ** * * **
13413685 CTTTAGTCTGCTCCACTGGAACTTCACGGAGATAAGGCTGATGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGCT-TTAA
*
13413729 CTTCAATCTGCTCCACTACTACTT-AGGGAGATAAG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAG
13413764 ATCTACAATC
Statistics
Matches: 95, Mismatches: 26, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
43 43 0.45
44 20 0.21
45 32 0.34
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (43 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGCTTTAA
Found at i:13413761 original size:88 final size:88
Alignment explanation
Indices: 13413597--13413867 Score: 277
Period size: 88 Copynumber: 3.1 Consensus size: 88
13413587 AGATTTGTAG
* * ** *
13413597 CTTCAGTCTGTTCCACTGCAACTTCAGGGAGATAAGGCT-TTAACTTCAACCTGCTCCACTACTA
1 CTTCAGTCTGCTCCACTGCAACTTCA-GGAGATAAGGCTGATGGCTTCAATCTGCTCCACTACTA
* * * *
13413661 CTTCAGGAAGATAAAGCT-TGCTAT
65 CTT-AGGGAGATAAAGATCTACAAT
* *
13413685 CTTTAGTCTGCTCCACTGGAACTTCACGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTACTA
1 CTTCAGTCTGCTCCACTGCAACTTCA-GGAGATAAGGCTGATGGCTTCAATCTGCTCCACTACTA
13413750 CTTAGGGAGAT-AAGATCTACAAT
65 CTTAGGGAGATAAAGATCTACAAT
* * * * * *
13413773 CTTCAGCCTACTCCACTACTACTT-AGAGAGAT-AGGATGGTGGC-TCAAATCTGCTCCACTACT
1 CTTCAGTCTGCTCCACTGCAACTTCAG-GAGATAAGGCTGATGGCTTC-AATCTGCTCCACTACT
*
13413835 GCTTAGGGAGAT-AAGATCTACAAT
64 ACTTAGGGAGATAAAGATCTACAAT
*
13413859 CTTTAGTCT
1 CTTCAGTCT
13413868 ACTTCACTAC
Statistics
Matches: 156, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
85 2 0.01
86 56 0.36
87 10 0.06
88 64 0.41
89 24 0.15
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (88 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTACTAC
TTAGGGAGATAAAGATCTACAAT
Found at i:13413777 original size:44 final size:44
Alignment explanation
Indices: 13413729--13414672 Score: 391
Period size: 44 Copynumber: 21.8 Consensus size: 44
13413719 AGGCTGATGG
* *
13413729 CTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAAT
** * * * * * * *
13413773 CTTCAGCCTACTCCACTACTACTTAGAGAGATAGGATGGTGGC--T
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGAT-CT-ACAAT
* *
13413817 C--AAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAAT
* * * * * * **
13413859 CTTTAGTCTACTTCACTACTGCTTAGGGAGAAAAGATGGT-GGA-
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGAT-CTACAAT
* * * *
13413902 -TTAAAT-TAGCTCCACTACTACTTAGGGAGACAAGAT-TCGCCAT
1 CTTCAATCT-GCTCCACTACTGCTTAGGGAGACAAGATCT-ACAAT
* ** *
13413945 TTTTGATCTGCTCCATTACTGCTTAGGGAGACAAGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAAT
** ** * * * * **
13413989 CTTCAGCCCACTCCACTACTGCTTAAGGAGATAGGATGGT---GG
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGAT-CTACAAT
* * *
13414031 CTTAAATCTACTCCACTACTGCTTA-GGAGACAAGATTCT-CCAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGA-TCTACAAT
* ** *
13414074 TTTTGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAAT
* ** * * * * **
13414118 CTTTAGCCTACTCCACTACTGCTTAGGAAGA-TAGATGGT---GG
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGAT-CTACAAT
* * * * *
13414159 CTTAAATCTCCTCTACTACTGCTTAGGGAGACAAGAT-TCGCCAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGATCT-ACAAT
* ** * *
13414203 TTTTGATCTGCTCCACTAATACTTAGGGAGACAAGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAAT
** * * * * * **
13414247 CTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGT---GG
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGAT-CTACAAT
* * * * *
13414289 CTTAAATCTGCTCCATTACTGCTTAGGGAGACAAGATTTTCCAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAAT
* * * ** * * *
13414333 TTTCGATTTATTCTAGTACTACTTAGGGAGACAAGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAAT
** * * * * **
13414377 CTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGT---GG
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGAT-CTACAAT
* * * *
13414419 CTTAAATCTGCTCCACTACTGCTTAGGAAGACAAGAT-TCGCCAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGATCT-ACAAT
* *
13414463 TTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAAT
** * * * * * * *
13414507 CTTCAGCCTACTCCACTACTGTTTAGAGAGATAGGATGGT---AG
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGAT-CTACAAT
* ** * * * *
13414549 CTTAAATCTGCTTTACTACTGTTTAAGGAGACAAGAT-TCGCCAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGATCT-ACAAT
* * * * * *
13414593 CTTCGATCTGCTCCATTGCTACCTTATGGAGATAAGATCTACAAT
1 CTTCAATCTGCTCCACTACT-GCTTAGGGAGACAAGATCTACAAT
** * * *
13414638 CTTCAGCCTGCTCCATTGCTGCTCAGGGAGACAAG
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAG
13414673 GCTAGTGGCT
Statistics
Matches: 656, Mismatches: 200, Indels: 88
0.69 0.21 0.09
Matches are distributed among these distances:
40 5 0.01
41 37 0.06
42 171 0.26
43 28 0.04
44 370 0.56
45 43 0.07
46 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAAT
Found at i:13413825 original size:86 final size:86
Alignment explanation
Indices: 13413733--13413937 Score: 295
Period size: 86 Copynumber: 2.4 Consensus size: 86
13413723 TGATGGCTTC
13413733 AATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTA
1 AATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTA
* * *
13413798 GAGAGATAGGATGGTGGCTCA
66 GAGAGAAAAGATGGTGGATCA
* * * * *
13413819 AATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGTCTACTTCACTACTGCTTA
1 AATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTA
* *
13413884 GGGAGAAAAGATGGTGGATTA
66 GAGAGAAAAGATGGTGGATCA
*
13413905 AAT-TAGCTCCACTACTACTTAGGGAGACAAGAT
1 AATCT-GCTCCACTACTACTTAGGGAGATAAGAT
13413938 TCGCCATTTT
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
85 1 0.01
86 105 0.99
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (86 bp):
AATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTA
GAGAGAAAAGATGGTGGATCA
Found at i:13413954 original size:130 final size:130
Alignment explanation
Indices: 13413820--13414694 Score: 1216
Period size: 130 Copynumber: 6.7 Consensus size: 130
13413810 GGTGGCTCAA
* * * *
13413820 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGTCTACTTCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAG
* * * * *
13413885 GGAGAAAAGATGGTGGATTAAAT-TAGCTCCACTACTACTTAGGGAGACAAGATTCGCCATTTTT
66 GGAGATAGGATGGTGGCTTAAATCT-GCTCCACTACTGCTTAGGGAGACAAGATTCGCCATTTTC
13413949 G
130 G
* * *
13413950 ATCTGCTCCATTACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCCACTCCACTACTGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAG
* * *
13414015 GGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTA-GGAGACAAGATTCTCCATTTTTG
66 GGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTCGCCATTTTCG
* *
13414079 ATCTGCTCCACTACTGCTTAAGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAG
* * * *
13414144 GAAGATA-GATGGTGGCTTAAATCTCCTCTACTACTGCTTAGGGAGACAAGATTCGCCATTTTTG
66 GGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTCGCCATTTTCG
* * *
13414208 ATCTGCTCCACTAATACTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAG
* **
13414273 GGAGATAGGATGGTGGCTTAAATCTGCTCCATTACTGCTTAGGGAGACAAGATTTTCCATTTTCG
66 GGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTCGCCATTTTCG
* ** * * *
13414338 ATTTATTCTAGTACTACTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAG
*
13414403 GGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGAAGACAAGATTCGCCATTTTCG
66 GGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTCGCCATTTTCG
*
13414468 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGTTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAG
* * ** * * *
13414533 AGAGATAGGATGGTAGCTTAAATCTGCTTTACTACTGTTTAAGGAGACAAGATTCGCCATCTTCG
66 GGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTCGCCATTTTCG
* * * * * * * * *
13414598 ATCTGCTCCATTGCTACCTTATGGAGATAAGATCTACAATCTTCAGCCTGCTCCATTGCTGCTCA
1 ATCTGCTCCACTACT-GCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTA
* * *
13414663 GGGAGACAAGGCTAGTGGCTTAAATCTGCTCC
65 GGGAGA-TAGGATGGTGGCTTAAATCTGCTCC
13414695 CTTGCTACCT
Statistics
Matches: 663, Mismatches: 77, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
128 31 0.05
129 176 0.27
130 390 0.59
131 47 0.07
132 19 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (130 bp):
ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAG
GGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTCGCCATTTTCG
Found at i:13413965 original size:86 final size:85
Alignment explanation
Indices: 13413733--13414499 Score: 269
Period size: 86 Copynumber: 8.9 Consensus size: 85
13413723 TGATGGCTTC
* * * * *
13413733 AATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTA
1 AATCTGCTCCACTACTACTTAGGGAGATAAGATC-ACCATTTTTAGTCTACTCCACTACTGCTTA
* * * *
13413798 GAGAGATAGGATGGTGGCTCA
65 GGGAGAAAAGATGGTGGATCA
* * * *
13413819 AATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGTCTACTTCACTACTGCTTA
1 AATCTGCTCCACTACTACTTAGGGAGATAAGATC-ACCATTTTTAGTCTACTCCACTACTGCTTA
*
13413884 GGGAGAAAAGATGGTGGATTA
65 GGGAGAAAAGATGGTGGATCA
* * * *
13413905 AAT-TAGCTCCACTACTACTTAGGGAGACAAGATTCGCCATTTTT-GATCTGCTCCATTACTGCT
1 AATCT-GCTCCACTACTACTTAGGGAGATAAGA-TCACCATTTTTAG-TCTACTCCACTACTGCT
* * ** *
13413968 TAGGGAGACAAGAT-CTACAATCTTC
63 TAGGGAGAAAAGATGGT-GGATC--A
** ** * * * ****** * *
13413993 AGCCCACTCCACTACTGCTTAAGGAGATAGGAT-GGTGGCTTAAATCTACTCCACTACTGCTTA-
1 AATCTGCTCCACTACTACTTAGGGAGATAAGATCACCATTTTTAGTCTACTCCACTACTGCTTAG
* ** ** **
13414056 GGAGACAAGATTCTCCATTTTT
66 GGAGAAAAGATGGTGGA--TCA
* * * * * * *
13414078 GATCTGCTCCACTACTGCTTAAGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACTGCTTA
1 AATCTGCTCCACTACTACTTAGGGAGATAAGATC-ACCATTTTTAGTCTACTCCACTACTGCTTA
* * * *
13414143 GGAAG-ATAGATGGTGGCTTA
65 GGGAGAAAAGATGGTGGATCA
* * * * * * * *
13414163 AATCTCCTCTACTACTGCTTAGGGAGACAAGATTCGCCATTTTT-GATCTGCTCCACTAATACTT
1 AATCTGCTCCACTACTACTTAGGGAGATAAGA-TCACCATTTTTAG-TCTACTCCACTACTGCTT
* * ** *
13414227 AGGGAGACAAGAT-CTACAATCTTC
64 AGGGAGAAAAGATGGT-GGATC--A
** * * ****** * * * *
13414251 AGCCTACTCCACTACTACTTAGGGAGATAGGAT-GGTGGCTTAAATCTGCTCCATTACTGCTTAG
1 AATCTGCTCCACTACTACTTAGGGAGATAAGATCACCATTTTTAGTCTACTCCACTACTGCTTAG
* ** **
13414315 GGAGACAAGATTTTCCATTTTC-
66 GGAGAAAAGATGGTGGA---TCA
* * ** * * * * * * *
13414337 GATTTATTCTAGTACTACTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTA
1 AATCTGCTCCACTACTACTTAGGGAGATAAGATC-ACCATTTTTAGTCTACTCCACTACTGCTTA
* * * *
13414402 GGGAGATAGGATGGTGGCTTA
65 GGGAGAAAAGATGGTGGATCA
* * * * * *
13414423 AATCTGCTCCACTACTGCTTAGGAAGACAAGATTCGCCA-TTTTCGATCTGCTCCACTACTGCTT
1 AATCTGCTCCACTACTACTTAGGGAGATAAGA-TCACCATTTTTAG-TCTACTCCACTACTGCTT
*
13414487 AGGGAGACAAGAT
64 AGGGAGAAAAGAT
13414500 CTACAATCTT
Statistics
Matches: 500, Mismatches: 151, Indels: 60
0.70 0.21 0.08
Matches are distributed among these distances:
84 1 0.00
85 102 0.20
86 278 0.56
87 35 0.07
88 82 0.16
89 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (85 bp):
AATCTGCTCCACTACTACTTAGGGAGATAAGATCACCATTTTTAGTCTACTCCACTACTGCTTAG
GGAGAAAAGATGGTGGATCA
Found at i:13414640 original size:45 final size:44
Alignment explanation
Indices: 13414590--13414765 Score: 121
Period size: 45 Copynumber: 4.0 Consensus size: 44
13414580 CAAGATTCGC
* *
13414590 CATCTTCGATCTGCTCCATTGCTACCTTATGGAGATAAGATCTA
1 CATCTTCGATCTGCTCCATTGCTACCTCAGGGAGATAAGATCTA
* * * *
13414634 CAATCTTC-AGCCTGCTCCATTGCT-GCTCAGGGAGACAAG-GCTA
1 C-ATCTTCGA-TCTGCTCCATTGCTACCTCAGGGAGATAAGATCTA
* ** *
13414677 -GTGGCTTAAATCTGCTCCCTTGCTACCTCAGGGAGATAAGATTCGT-
1 CAT--CTTCGATCTGCTCCATTGCTACCTCAGGGAGATAAGA-TC-TA
* * * *
13414723 CGTCCTT-GATCTGCTCCATTTCTACCTTATGGAGATAAGATCT
1 CAT-CTTCGATCTGCTCCATTGCTACCTCAGGGAGATAAGATCT
13414766 GTTAATTCAC
Statistics
Matches: 103, Mismatches: 19, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
41 1 0.01
43 19 0.18
44 29 0.28
45 47 0.46
46 4 0.04
47 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (44 bp):
CATCTTCGATCTGCTCCATTGCTACCTCAGGGAGATAAGATCTA
Found at i:13424884 original size:37 final size:37
Alignment explanation
Indices: 13424821--13425007 Score: 320
Period size: 37 Copynumber: 5.1 Consensus size: 37
13424811 CTTTAGCTCA
* * *
13424821 GACAAAATCTCCAAACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
13424858 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
13424895 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
13424932 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
13424969 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
13425006 GA
1 GA
13425008 ATATATTTCC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 144 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:13425273 original size:47 final size:47
Alignment explanation
Indices: 13425212--13425490 Score: 461
Period size: 47 Copynumber: 5.9 Consensus size: 47
13425202 TACATATATT
* * * *
13425212 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
13425259 TCACATTGGCCATTCGGCCTTATCA-ATCATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-ATATGCATGTTCACATTCA
13425306 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
13425353 TCACATTGGTCATTCGGCCTTATCACATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
13425400 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
13425447 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
13425491 CACAATTATC
Statistics
Matches: 218, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
46 2 0.01
47 214 0.98
48 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:13429386 original size:25 final size:25
Alignment explanation
Indices: 13429351--13429400 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
13429341 GGAATTCGCA
13429351 CACACACAGTGC-CTCTAATCATTCG
1 CACACACAGTGCTCTC-AATCATTCG
* *
13429376 CACACATAGTGCTCTCATTCATTCG
1 CACACACAGTGCTCTCAATCATTCG
13429401 TATTTGCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.26, C:0.34, G:0.12, T:0.28
Consensus pattern (25 bp):
CACACACAGTGCTCTCAATCATTCG
Found at i:13429608 original size:40 final size:40
Alignment explanation
Indices: 13429576--13429956 Score: 584
Period size: 40 Copynumber: 9.5 Consensus size: 40
13429566 CCAGCATGAT
** * * *
13429576 TGCTCTTCGGGACCCAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** ** *
13429616 TGCTCTTCGGGGTTTAGCAAGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
13429656 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
13429696 TGCTCTTCGGGGCTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
13429736 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
13429776 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
13429816 TGCTCTTCAGGG-CTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTC-GGGACTTAGCCCGGATACATCACTAGCACGAA
*
13429856 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
13429896 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
13429936 TGCTCTTTGGGACTTAGCCCG
1 TGCTCTTCGGGACTTAGCCCG
13429957 AGTATACCAC
Statistics
Matches: 316, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 3 0.01
40 311 0.98
41 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:13429994 original size:8 final size:8
Alignment explanation
Indices: 13429981--13430006 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13429971 AATTCTCATG
13429981 TACATATA
1 TACATATA
13429989 TACATATA
1 TACATATA
13429997 TACATATA
1 TACATATA
13430005 TA
1 TA
13430007 ACAATACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (8 bp):
TACATATA
Found at i:13431328 original size:37 final size:37
Alignment explanation
Indices: 13431242--13431427 Score: 311
Period size: 37 Copynumber: 5.1 Consensus size: 37
13431232 CTTTAGCTCA
* *
13431242 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCC-
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
13431278 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
13431315 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
13431352 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
13431389 GACATAATCTCCACATGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
13431426 GA
1 GA
13431428 ATATATTTCC
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 34 0.24
37 109 0.76
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:13431692 original size:47 final size:47
Alignment explanation
Indices: 13431631--13431908 Score: 461
Period size: 47 Copynumber: 5.9 Consensus size: 47
13431621 TACATATATT
* * * *
13431631 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
13431678 TCACATTGGCCATTCGGCCTTAT--CATCATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-ATATGCATGTTCACATTCA
13431724 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
13431771 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
13431818 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
13431865 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
13431909 CACAATTATC
Statistics
Matches: 218, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
45 3 0.01
46 40 0.18
47 172 0.79
48 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:13445442 original size:6 final size:6
Alignment explanation
Indices: 13445431--13445476 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
13445421 TCCTCTTATC
* * * *
13445431 TTTTTA TTTTTA TTTTTC TTTTTC TTTTTA TTTTCA TTTTAA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
13445477 ATTATTTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:13445452 original size:18 final size:18
Alignment explanation
Indices: 13445429--13445489 Score: 70
Period size: 17 Copynumber: 3.3 Consensus size: 18
13445419 AATCCTCTTA
13445429 TCTTTTTATTTTTATTTT
1 TCTTTTTATTTTTATTTT
*
13445447 TCTTTTTCTTTTTA-TTT
1 TCTTTTTATTTTTATTTT
* *
13445464 TCATTTTAATTTTATTATTT
1 TCTTTTTATTTTTA-T-TTT
13445484 TCTTTT
1 TCTTTT
13445490 GAAAGACATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 14 0.40
18 13 0.37
20 8 0.23
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (18 bp):
TCTTTTTATTTTTATTTT
Found at i:13445476 original size:24 final size:24
Alignment explanation
Indices: 13445429--13445476 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
13445419 AATCCTCTTA
* **
13445429 TCTTTTTATTTTTATTTTTCTTTT
1 TCTTTTTATTTTCATTTTAATTTT
13445453 TCTTTTTATTTTCATTTTAATTTT
1 TCTTTTTATTTTCATTTTAATTTT
13445477 ATTATTTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.79
Consensus pattern (24 bp):
TCTTTTTATTTTCATTTTAATTTT
Found at i:13449319 original size:29 final size:28
Alignment explanation
Indices: 13449272--13449369 Score: 110
Period size: 27 Copynumber: 3.5 Consensus size: 28
13449262 CATGAGATTG
* * *
13449272 GCACTAAGTGTGAGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-AATTATAT-A
*
13449301 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
*
13449329 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
*
13449356 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
13449370 GACTTAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 18 0.29
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATATA
Found at i:13449356 original size:27 final size:28
Alignment explanation
Indices: 13449300--13449369 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
13449290 TAAATTGTTC
13449300 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
13449328 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
13449355 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13449370 GACTTAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:13449383 original size:29 final size:27
Alignment explanation
Indices: 13449300--13449384 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
13449290 TAAATTGTTC
* *
13449300 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
13449328 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
13449355 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
13449384 A
1 A
13449385 TATTTGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.45
28 22 0.43
29 6 0.12
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:13458331 original size:33 final size:33
Alignment explanation
Indices: 13458272--13458355 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
13458262 TAGGCCTGAT
* * *
13458272 CCCTATTCAGTAATCAATACAATCTGGGCCTTGG
1 CCCTATACAGTAA-CAGTACAATCTGGGCCTTAG
13458306 CCCTATACAGTAACAGTACAATCTGGGCCTTAG
1 CCCTATACAGTAACAGTACAATCTGGGCCTTAG
13458339 CCCTATACAGTAACAGT
1 CCCTATACAGTAACAGT
13458356 GTAATGCAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 35 0.74
34 12 0.26
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (33 bp):
CCCTATACAGTAACAGTACAATCTGGGCCTTAG
Found at i:13466654 original size:27 final size:28
Alignment explanation
Indices: 13466570--13466667 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
13466560 CATGAGATCG
* * * *
13466570 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
13466599 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
13466627 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
13466654 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
13466668 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:13466678 original size:27 final size:27
Alignment explanation
Indices: 13466598--13466680 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
13466588 TAAATTGTAC
* *
13466598 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
13466626 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
13466653 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
13466680 A
1 A
13466681 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:13466681 original size:29 final size:27
Alignment explanation
Indices: 13466570--13466681 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
13466560 CATGAGATCG
** * *
13466570 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
13466599 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
13466627 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
13466654 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
13466682 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:13468395 original size:27 final size:27
Alignment explanation
Indices: 13468357--13468470 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 27
13468347 ATGGAGGAAG
13468357 TGTTCTGGTGGCTATGCCACAAATATC
1 TGTTCTGGTGGCTATGCCACAAATATC
*
13468384 TGTTCTGGTGGCTATGCCACAAATAAC
1 TGTTCTGGTGGCTATGCCACAAATATC
* *
13468411 TGTTCTGGTGGCTCTGCCA-TAATATC
1 TGTTCTGGTGGCTATGCCACAAATATC
* * ** *
13468437 TGTATGTGGTGACTCGGTCAC-AATATC
1 TGT-TCTGGTGGCTATGCCACAAATATC
13468464 TGTTCTG
1 TGTTCTG
13468471 TCAGCCATGC
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 11 0.14
27 65 0.86
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (27 bp):
TGTTCTGGTGGCTATGCCACAAATATC
Found at i:13469221 original size:22 final size:22
Alignment explanation
Indices: 13469193--13469239 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
13469183 AATTGACTCG
13469193 CCTCCTCTTTTCTGGCATCCTA
1 CCTCCTCTTTTCTGGCATCCTA
13469215 CCTCCTCTTTTCTGGCATCCTA
1 CCTCCTCTTTTCTGGCATCCTA
13469237 CCT
1 CCT
13469240 GGTGCACGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.09, C:0.43, G:0.09, T:0.40
Consensus pattern (22 bp):
CCTCCTCTTTTCTGGCATCCTA
Found at i:13477859 original size:45 final size:47
Alignment explanation
Indices: 13477758--13477877 Score: 140
Period size: 50 Copynumber: 2.6 Consensus size: 47
13477748 AATTTCATGA
* *
13477758 CATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCCGTGCCAATGC
1 CATGTCCCAGACATGGTCTTACACT-G--CACACATATCCGTGCCAATGC
* *
13477808 CATGTCCCAGACATGGTCTTACACTG-ACACATCT-CGTAGCCGATG-
1 CATGTCCCAGACATGGTCTTACACTGCACACATATCCGT-GCCAATGC
13477853 CATGTCCCAGACAT-GTCTTACACTG
1 CATGTCCCAGACATGGTCTTACACTG
13477878 GCTTTGTAAC
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
44 11 0.17
45 17 0.26
46 12 0.18
49 1 0.02
50 24 0.37
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGCACACATATCCGTGCCAATGC
Found at i:13479310 original size:40 final size:40
Alignment explanation
Indices: 13479266--13479450 Score: 255
Period size: 40 Copynumber: 4.7 Consensus size: 40
13479256 GCCACTAGCT
** * * *
13479266 CAAATGCCTTTAGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
13479306 CAAATGCCTTCGGGACTTAGCCCGG-TATAATCACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* *
13479345 CAAATGCCTTCGGGACTTAGCCTGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* * *
13479385 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
13479425 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13479451 ATTAGCCACT
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 35 0.27
40 96 0.73
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
Found at i:13479364 original size:79 final size:80
Alignment explanation
Indices: 13479266--13479450 Score: 257
Period size: 79 Copynumber: 2.3 Consensus size: 80
13479256 GCCACTAGCT
** * * * *
13479266 CAAATGCCTTTAGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
13479331 -TATAATCA-CTCGCA
66 ATATAAT-AGCTCGCA
* *
13479345 CAAATGCCTTCGGGACTTAGCCTGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
*
13479410 ATATAGTAGCTCGCA
66 ATATAATAGCTCGCA
*
13479425 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13479451 ATTAGCCACT
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
79 58 0.62
80 35 0.38
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAGCTCGCA
Found at i:13479471 original size:40 final size:39
Alignment explanation
Indices: 13479243--13479489 Score: 232
Period size: 40 Copynumber: 6.2 Consensus size: 39
13479233 CCTTCGGAGT
* * **
13479243 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTTAGGAC
1 TTAGCCCGGATATAG-CACTCGCACAAATGCCTTCGGGAC
* * *
13479282 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-CACTCGCACAAATGCCTTCGGGAC
*
13479322 TTAGCCCGG-TATAATCACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGCACTCGCACAAATGCCTTCGGGAC
* ** *
13479361 TTAGCCTGGATATAATAGCTCGCACAAACGCCTTCGGGAC
1 TTAGCCCGGATATAGCA-CTCGCACAAATGCCTTCGGGAC
* *
13479401 TTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGCA-CTCGCACAAATGCCTTCGGGAC
* * *
13479441 TTAGCCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCAGGAC
1 TTAGCCCGGATA-TAG-CACTCGCACAAATGCCT-TCGGGAC
*
13479481 TCAGCCCGG
1 TTAGCCCGG
13479490 TTATCATCCG
Statistics
Matches: 177, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
39 42 0.24
40 134 0.76
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
TTAGCCCGGATATAGCACTCGCACAAATGCCTTCGGGAC
Found at i:13481307 original size:47 final size:46
Alignment explanation
Indices: 13481202--13481325 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 46
13481192 ACATCTCGAG
*
13481202 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATCAAT
*
13481248 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-G-AT-AATGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTATCAA--T
* *
13481295 GGTCGATGCATGTCCCAGACATGTCTCACAC
1 -GCCGATGCATGTCCCAGACATGTCTTACAC
13481326 CGGTAAACAA
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
45 2 0.03
46 16 0.23
47 30 0.43
48 21 0.30
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATCAAT
Found at i:13489895 original size:20 final size:20
Alignment explanation
Indices: 13489854--13489903 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
13489844 TCCTCCTATC
*
13489854 TTTTTATTTTTATTTTTATT
1 TTTTTATTTTTATTTTCATT
*
13489874 TTTTTGTTTTTA-TTTCACTT
1 TTTTTATTTTTATTTTCA-TT
*
13489894 TTATTATTTT
1 TTTTTATTTT
13489904 CTTTTGAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTTTATTTTTATTTTCATT
Found at i:13494531 original size:119 final size:120
Alignment explanation
Indices: 13494349--13494571 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
13494339 TCCTCGTTCA
*
13494349 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
13494414 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
13494469 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
13494531 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
13494572 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:13494571 original size:40 final size:40
Alignment explanation
Indices: 13494347--13494571 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
13494337 GCTCCTCGTT
* *
13494347 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
13494387 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
13494427 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
13494467 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
13494506 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
13494547 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13494572 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:13506614 original size:13 final size:13
Alignment explanation
Indices: 13506592--13506624 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
13506582 TTGCTTTAGT
13506592 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
13506604 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
13506617 TTAGTTTA
1 TTAGTTTA
13506625 ATAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:13511944 original size:4 final size:4
Alignment explanation
Indices: 13511935--13511959 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13511925 CATGTTCTTA
13511935 AAAC AAAC AAAC AAAC AAAC AAAC A
1 AAAC AAAC AAAC AAAC AAAC AAAC A
13511960 TGTATACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Done.