Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 56
Found at i:4208089 original size:21 final size:21
Alignment explanation
Indices: 4208063--4208104 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4208053 ATTTGAATAT
*
4208063 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
4208084 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
4208105 CCCATTATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:4208166 original size:21 final size:21
Alignment explanation
Indices: 4208133--4208172 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4208123 TTTTTGCAGA
*
4208133 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
4208155 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
4208173 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:4208454 original size:32 final size:34
Alignment explanation
Indices: 4208387--4208456 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
4208377 TTTTGCAAAG
*
4208387 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGTGGAAAAACTA
*
4208421 GGGAAAGGTTCTAGTTTAG-CC-TGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGTGGAAAAACTA
4208453 GGGA
1 GGGA
4208457 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 14 0.41
33 2 0.06
34 18 0.53
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (34 bp):
GGGAAAGGTTCTAGCTTAGCCCGTGGAAAAACTA
Found at i:4211456 original size:21 final size:21
Alignment explanation
Indices: 4211431--4211489 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 21
4211421 ATCAGATTGT
4211431 CCAGGGGGTATAGATTCCCCC
1 CCAGGGGGTATAGATTCCCCC
* *
4211452 CCAGGGGGAACAGATT-CCCC
1 CCAGGGGGTATAGATTCCCCC
*
4211472 CCAGGGGGTATCGATTCC
1 CCAGGGGGTATAGATTCC
4211490 TCGGGAACAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.20, C:0.32, G:0.31, T:0.17
Consensus pattern (21 bp):
CCAGGGGGTATAGATTCCCCC
Found at i:4211471 original size:20 final size:21
Alignment explanation
Indices: 4211431--4211479 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
4211421 ATCAGATTGT
* *
4211431 CCAGGGGGTATAGATTCCCCC
1 CCAGGGGGAACAGATTCCCCC
4211452 CCAGGGGGAACAGATT-CCCC
1 CCAGGGGGAACAGATTCCCCC
4211472 CCAGGGGG
1 CCAGGGGG
4211480 TATCGATTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.20, C:0.33, G:0.35, T:0.12
Consensus pattern (21 bp):
CCAGGGGGAACAGATTCCCCC
Found at i:4211518 original size:33 final size:34
Alignment explanation
Indices: 4211457--4211540 Score: 127
Period size: 33 Copynumber: 2.5 Consensus size: 34
4211447 CCCCCCCAGG
4211457 GGGAACAGATTCCCCCCAGGGGGTATCGATTC-CTC
1 GGGAACAGATT-CCCCCAGGGGGTATCGATTCTC-C
4211492 GGGAACAGATTCCCCCA-GGGGTATCGATTCTCC
1 GGGAACAGATTCCCCCAGGGGGTATCGATTCTCC
*
4211525 GGGTACAGATTCCCCC
1 GGGAACAGATTCCCCC
4211541 TGCATGGTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
33 29 0.62
34 7 0.15
35 11 0.23
ACGTcount: A:0.20, C:0.32, G:0.27, T:0.20
Consensus pattern (34 bp):
GGGAACAGATTCCCCCAGGGGGTATCGATTCTCC
Found at i:4211679 original size:21 final size:21
Alignment explanation
Indices: 4211653--4211694 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4211643 ATTTGAATAT
*
4211653 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
4211674 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
4211695 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:4211756 original size:21 final size:21
Alignment explanation
Indices: 4211723--4211762 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4211713 TTTTTGCAGA
*
4211723 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
4211745 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
4211763 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:4212016 original size:34 final size:32
Alignment explanation
Indices: 4211977--4212046 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
4211967 TTTTGTAAAG
*
4211977 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAATCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
4212011 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
4212043 GGGA
1 GGGA
4212047 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:4213258 original size:24 final size:24
Alignment explanation
Indices: 4213228--4213346 Score: 177
Period size: 24 Copynumber: 5.0 Consensus size: 24
4213218 AAGCATAATT
* *
4213228 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
*
4213252 CAGGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
*
4213276 CAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
4213300 CATGTC-AGATATCAGATCAGAATC
1 CATGTCAAG-TATCAGATCAGAATC
*
4213324 TATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
4213347 TCAAGTCGAA
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
23 2 0.02
24 83 0.95
25 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.25
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:4217533 original size:2 final size:2
Alignment explanation
Indices: 4217528--4217566 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4217518 TTTAACACAC
4217528 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4217567 GCATGATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4221001 original size:105 final size:105
Alignment explanation
Indices: 4220865--4221242 Score: 612
Period size: 105 Copynumber: 3.6 Consensus size: 105
4220855 TTTGTCGGAT
* * * * * *
4220865 GAGTTCTTCTCATTATGAACTATTCTAGAAATGTCGATTCACCTCCTTCTGGGGTGAATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
* *
4220930 GGAACATACTCTTCTCATTACGAACCTTCTCCTTTAAGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
* * *
4220970 GAGTTCTTCTCATTGTGAACTCTTCTGGAAATATTGGTTCACCTCCTTCTACGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
*
4221035 GGAACAGGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
* *
4221075 GAGTTTTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCATCTCCTTCTGCGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
4221140 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
* *
4221180 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGGTCACCTCCTTCTGTGGTGGATTTGA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGA
4221243 TTGTTGTTGA
Statistics
Matches: 251, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 251 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (105 bp):
GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
Found at i:4222176 original size:8 final size:8
Alignment explanation
Indices: 4222165--4222248 Score: 72
Period size: 8 Copynumber: 11.0 Consensus size: 8
4222155 TTCTTTTTTC
4222165 TTTTCATT
1 TTTTCATT
*
4222173 TTTTCCTTT
1 TTTT-CATT
4222182 TTTTC-TT
1 TTTTCATT
*
4222189 CTTT---T
1 TTTTCATT
4222194 TTTTCATT
1 TTTTCATT
4222202 TTTTCATTT
1 TTTTCA-TT
*
4222211 TTTTTATT
1 TTTTCATT
4222219 TTTTC--T
1 TTTTCATT
4222225 TTTTCATT
1 TTTTCATT
4222233 TTTTCATT
1 TTTTCATT
*
4222241 GTTTCATT
1 TTTTCATT
4222249 CATTCTCTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
5 4 0.06
6 6 0.10
7 5 0.08
8 34 0.54
9 14 0.22
ACGTcount: A:0.08, C:0.13, G:0.01, T:0.77
Consensus pattern (8 bp):
TTTTCATT
Found at i:4222197 original size:29 final size:29
Alignment explanation
Indices: 4222151--4222238 Score: 115
Period size: 29 Copynumber: 2.9 Consensus size: 29
4222141 TCAAACCCTC
4222151 TTTTTTCTTTTTTCTTTTCATTTTTTC-CT
1 TTTTTTCTTTTTT-TTTTCATTTTTTCACT
*
4222180 TTTTTTCTTCTTTTTTTTCATTTTTTCATT
1 TTTTTTCTT-TTTTTTTTCATTTTTTCACT
*
4222210 TTTTTTATTTTTTCTTTTTCATTTTTTCA
1 TTTTTT-CTTTTT-TTTTTCATTTTTTCA
4222239 TTGTTTCATT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
29 22 0.42
30 14 0.26
31 17 0.32
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.80
Consensus pattern (29 bp):
TTTTTTCTTTTTTTTTTCATTTTTTCACT
Found at i:4222220 original size:23 final size:22
Alignment explanation
Indices: 4222181--4222236 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
4222171 TTTTTTCCTT
* *
4222181 TTTTTC-TTCTTTTTTTTCAT-
1 TTTTTCATTTTTTTTTTTTATC
*
4222201 TTTTTCATTTTTTTTATTTTTTC
1 TTTTTCATTTTTTTT-TTTTATC
4222224 TTTTTCATTTTTT
1 TTTTTCATTTTTT
4222237 CATTGTTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.20
21 7 0.23
22 4 0.13
23 13 0.43
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTCATTTTTTTTTTTTATC
Found at i:4222238 original size:39 final size:37
Alignment explanation
Indices: 4222165--4222262 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 37
4222155 TTCTTTTTTC
4222165 TTTTCATTTTTTCCTTTTTTTCTTCTTTTTTTTCATT
1 TTTTCATTTTTTCCTTTTTTTCTTCTTTTTTTTCATT
* *
4222202 TTTTCATTTTTT-TTATTTTTTCTTTTTCATTTTTTCATT
1 TTTTCATTTTTTCCT-TTTTTTCTTCTT--TTTTTTCATT
* **
4222241 GTTTCATTCATTCTCTTTTTTT
1 TTTTCATTTTTTC-CTTTTTTT
4222263 TCAAGCATAG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
36 1 0.02
37 23 0.46
39 19 0.38
40 6 0.12
41 1 0.02
ACGTcount: A:0.08, C:0.14, G:0.01, T:0.77
Consensus pattern (37 bp):
TTTTCATTTTTTCCTTTTTTTCTTCTTTTTTTTCATT
Found at i:4236037 original size:21 final size:21
Alignment explanation
Indices: 4236013--4236059 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
4236003 GTCCAAAGAC
*
4236013 TAAAATACAAAGGTAAGA-TAT
1 TAAAATACAAAGG-AAAATTAT
* *
4236034 TAAATTATAAAGGAAAATTAT
1 TAAAATACAAAGGAAAATTAT
4236055 TAAAA
1 TAAAA
4236060 ATAGGAATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.60, C:0.02, G:0.11, T:0.28
Consensus pattern (21 bp):
TAAAATACAAAGGAAAATTAT
Found at i:4238158 original size:21 final size:21
Alignment explanation
Indices: 4238133--4238174 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4238123 TTTTCATGTA
4238133 CTTAATGTTCATATTTGAGCT
1 CTTAATGTTCATATTTGAGCT
* *
4238154 CTTAATGTTTATGTTTGAGCT
1 CTTAATGTTCATATTTGAGCT
4238175 TGAATTCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (21 bp):
CTTAATGTTCATATTTGAGCT
Found at i:4241251 original size:157 final size:158
Alignment explanation
Indices: 4241085--4241492 Score: 545
Period size: 157 Copynumber: 2.6 Consensus size: 158
4241075 TGATTTCATC
* * * *
4241085 ATTTCTTCAATTCCTCCTTCATTTTAAGTCAATTTTAACCAAATTTGAACCACATGCTCCTAAAC
1 ATTTCTTCAATTCGTCATTTATTTTAAGTCAATTTTTACCAAATTTGAACCACATGCTCCTAAAC
* * *
4241150 CATAGTAGAATACATGTGT-ACTTTCAATTCCTCTTTTTGATAACAAATTTTTTATTTTTTAATT
66 CATAGTAGAATACATATGTAACTTTCAATTCCTCTTTTTGATAACAAATGTTTTATTTTTAAATT
* * *
4241214 TAGTCATTTAATTTTTCATAATCT-TCTT
131 TAGTCATTCAAATTTTCACAATCTCT-TT
* * *
4241242 ATTTCTTCAATTCGTCATTTATTTTAAGTCATTTTTTACCAAATTTGAGCCCCATGCTCCTAAAC
1 ATTTCTTCAATTCGTCATTTATTTTAAGTCAATTTTTACCAAATTTGAACCACATGCTCCTAAAC
* * *
4241307 CATAGTAGAATATATATGTAATTTTTAATTCCTCTTTTTGATAACAAATGTTTTATTTTTAAATT
66 CATAGTAGAATACATATGTAACTTTCAATTCCTCTTTTTGATAACAAATGTTTTATTTTTAAATT
*
4241372 TAGTCCTTCAAATTTTCACAATCTCTTT
131 TAGTCATTCAAATTTTCACAATCTCTTT
* * * * * *
4241400 ATTCCTTCAATTTGTGATTTATTTTAAGTC-ATTTTTACTAAATTTGAACCACATGCTCATATAC
1 ATTTCTTCAATTCGTCATTTATTTTAAGTCAATTTTTACCAAATTTGAACCACATGCTCCTAAAC
* * *
4241464 CACAATAGAATACCTATGTAAC-TTCAATT
66 CATAGTAGAATACATATGTAACTTTCAATT
4241493 GTTATTTTTT
Statistics
Matches: 217, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
156 6 0.03
157 120 0.55
158 90 0.41
159 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (158 bp):
ATTTCTTCAATTCGTCATTTATTTTAAGTCAATTTTTACCAAATTTGAACCACATGCTCCTAAAC
CATAGTAGAATACATATGTAACTTTCAATTCCTCTTTTTGATAACAAATGTTTTATTTTTAAATT
TAGTCATTCAAATTTTCACAATCTCTTT
Found at i:4242992 original size:45 final size:45
Alignment explanation
Indices: 4242941--4243046 Score: 167
Period size: 45 Copynumber: 2.4 Consensus size: 45
4242931 GGTTTAGGTT
4242941 TGAGCTCGAGTTTGAGTTTGAGCCAAGGTCAAGTTCAACCTTGAA
1 TGAGCTCGAGTTTGAGTTTGAGCCAAGGTCAAGTTCAACCTTGAA
* * *
4242986 TGAGCTCGAGTTTGAGTTTGAGCCAAGTTCAAGTTCGAGCTTGAA
1 TGAGCTCGAGTTTGAGTTTGAGCCAAGGTCAAGTTCAACCTTGAA
* *
4243031 AGACCTCGAGTTTGAG
1 TGAGCTCGAGTTTGAG
4243047 CTTCAATTGA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (45 bp):
TGAGCTCGAGTTTGAGTTTGAGCCAAGGTCAAGTTCAACCTTGAA
Found at i:4249961 original size:40 final size:40
Alignment explanation
Indices: 4249917--4249995 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
4249907 AAATCAGATG
* *
4249917 ACGATATCACTTTTTCCTCTAAAAGACGCTGA-GTCGTAAA
1 ACGATATCACTTATTCCTCCAAAAGACGCT-ATGTCGTAAA
* * *
4249957 ACGATCTTACTTATTCCTCCAAAGGACGCTATGTCGTAA
1 ACGATATCACTTATTCCTCCAAAAGACGCTATGTCGTAA
4249996 TTGGTAGGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 1 0.03
40 32 0.97
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (40 bp):
ACGATATCACTTATTCCTCCAAAAGACGCTATGTCGTAAA
Found at i:4250272 original size:122 final size:122
Alignment explanation
Indices: 4250053--4250728 Score: 731
Period size: 122 Copynumber: 5.6 Consensus size: 122
4250043 ATCTGATTTC
* * * *
4250053 CTGGAGATAATTTGATGTTGGAA-ATGACACT-ATTCATCCACATTGAAGAGATCTAGTCTCTTT
1 CTGGAGATAATTTGGTGTT-GAAGATGACACTGCTT-ATCCACATTGAAGAGATCTGGCCTCTTT
* * * * *
4250116 CAGGTAAATTATTTGTTAAAGATGACGTTATTCCTTCTCATTGAGGAAGTCGGGTAAAT
64 CGGGTAAATTGTTTGTTGAAGATGACGTTGTTCCTTCTCATTGAGGAAGTCGGGTCAAT
* * * *
4250175 CTGGAGATAATTTGGTGTTGAAGATGCCACTGCTTATCCACAATGAAAAGATCTGGCCTCTTTTG
1 CTGGAGATAATTTGGTGTTGAAGATGACACTGCTTATCCACATTGAAGAGATCTGGCCTCTTTCG
**
4250240 GGTAAATTGTTTGTTGAAGATGACGTTGTTCCTTCTCATTGA-GAAAACGGGTCAAT
66 GGTAAATTGTTTGTTGAAGATGACGTTGTTCCTTCTCATTGAGGAAGTCGGGTCAAT
* * * * *** * * *
4250296 ATGGAAATAATTTAGTGCTG-ATCCGACATTG-TTCATCCATATTGAAGAGATCTCG-CTGCTTT
1 CTGGAGATAATTTGGTGTTGAAGATGACACTGCTT-ATCCACATTGAAGAGATCTGGCCT-CTTT
* *
4250358 CAGGTAAATTGTTTATTGAAGATGACGTTGTTCCTTCTCATTGAGGAAGTCGGGTCAAT
64 CGGGTAAATTGTTTGTTGAAGATGACGTTGTTCCTTCTCATTGAGGAAGTCGGGTCAAT
* * * * * * *
4250417 CTGGAGATAATTTGGTGTTGAAGACGACAATACTTATCAACATTGAAAAGATTTGGCCGCTTTCG
1 CTGGAGATAATTTGGTGTTGAAGATGACACTGCTTATCCACATTGAAGAGATCTGGCCTCTTTCG
* * * * **
4250482 AGTAAATTGTTTGTTAAAGATGACGGTGTTCCTTCTAATTGAGGAAGTTTGGTCAAT
66 GGTAAATTGTTTGTTGAAGATGACGTTGTTCCTTCTCATTGAGGAAGTCGGGTCAAT
* * * * *
4250539 CTGGAGGTAATTTGGTGTTGAAGAGGACACTGCTCATCCACATTGAAGAGATATGG--TCGTTTT
1 CTGGAGATAATTTGGTGTTGAAGATGACACTGCTTATCCACATTGAAGAGATCTGGCCTC-TTTC
* * * * * *
4250602 TGGTAAATT-ATTGTTGAAGATGACGTTTTTCCTTCTTATCGAGGAAGTTGGGTCAAT
65 GGGTAAATTGTTTGTTGAAGATGACGTTGTTCCTTCTCATTGAGGAAGTCGGGTCAAT
* * * * * *
4250659 CTGGAGACAATTTGGTGTTGAAAATGACACTTCTCATCCACATTGAAGAGATCTGTCATCTTTCG
1 CTGGAGATAATTTGGTGTTGAAGATGACACTGCTTATCCACATTGAAGAGATCTGGCCTCTTTCG
4250724 GGTAA
66 GGTAA
4250729 TTTGCTCGTT
Statistics
Matches: 460, Mismatches: 83, Indels: 23
0.81 0.15 0.04
Matches are distributed among these distances:
119 4 0.01
120 159 0.35
121 76 0.17
122 216 0.47
123 5 0.01
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (122 bp):
CTGGAGATAATTTGGTGTTGAAGATGACACTGCTTATCCACATTGAAGAGATCTGGCCTCTTTCG
GGTAAATTGTTTGTTGAAGATGACGTTGTTCCTTCTCATTGAGGAAGTCGGGTCAAT
Found at i:4250704 original size:242 final size:240
Alignment explanation
Indices: 4250053--4250713 Score: 777
Period size: 242 Copynumber: 2.7 Consensus size: 240
4250043 ATCTGATTTC
* * *
4250053 CTGGAGATAATTTGATGTTGGAAATGACACTATTCATCCACATTGAAGAGATCTAGTC-TCTTTC
1 CTGGAGATAATTTGGTGTT-GAAACGACACTGTTCATCCACATTGAAGAGATCTAGTCGT-TTT-
* *
4250117 AGGTAAATTATTTGTTAAAGATGACGTTATTCCTTCTCATTGAGGAAGTCGGGTAAATCTGGAGA
63 AGGTAAATTA-TTGTTGAAGATGACGTTATTCCTTCTCATTGAGGAAGTCGGGTCAATCTGGAGA
* * * * * *
4250182 TAATTTGGTGTTGAAGATGCCACTGCTTATCCACAATGAAAAGATCTGGCCTCTTTTGGGTAAAT
127 TAATTTGGTGTTGAAGATGACACTACTTATCCACATTGAAAAGATCTGGCCGCTTTCGAGTAAAT
* * *
4250247 TGTTTGTTGAAGATGACGTTGTTCCTTCTCATTGAGAAAACGGGTCAAT
192 TGTTTGTTAAAGATGACGGTGTTCCTTCTAATTGAGAAAACGGGTCAAT
* * * * ** * * * *
4250296 ATGGAAATAATTTAGTGCTGATCCGACATTGTTCATCCATATTGAAGAGATCTCG-CTGCTTTCA
1 CTGGAGATAATTTGGTGTTGAAACGACACTGTTCATCCACATTGAAGAGATCTAGTC-G-TTTTA
* * *
4250360 GGTAAATTGTTTATTGAAGATGACGTTGTTCCTTCTCATTGAGGAAGTCGGGTCAATCTGGAGAT
64 GGTAAATT-ATTGTTGAAGATGACGTTATTCCTTCTCATTGAGGAAGTCGGGTCAATCTGGAGAT
* * * *
4250425 AATTTGGTGTTGAAGACGACAATACTTATCAACATTGAAAAGATTTGGCCGCTTTCGAGTAAATT
128 AATTTGGTGTTGAAGATGACACTACTTATCCACATTGAAAAGATCTGGCCGCTTTCGAGTAAATT
****
4250490 GTTTGTTAAAGATGACGGTGTTCCTTCTAATTGAGGAAGTTTGGTCAAT
193 GTTTGTTAAAGATGACGGTGTTCCTTCTAATTGA-GAAAACGGGTCAAT
* * * * * *
4250539 CTGGAGGTAATTTGGTGTTGAAGAGGACACTGCTCATCCACATTGAAGAGATATGGTCGTTTTTG
1 CTGGAGATAATTTGGTGTTGAA-ACGACACTGTTCATCCACATTGAAGAGATCTAGTCGTTTTAG
* * * * *
4250604 GTAAATTATTGTTGAAGATGACGTTTTTCCTTCTTATCGAGGAAGTTGGGTCAATCTGGAGACAA
65 GTAAATTATTGTTGAAGATGACGTTATTCCTTCTCATTGAGGAAGTCGGGTCAATCTGGAGATAA
* * * *
4250669 TTTGGTGTTGAAAATGACACTTCTCATCCACATTGAAGAGATCTG
130 TTTGGTGTTGAAGATGACACTACTTATCCACATTGAAAAGATCTG
4250714 TCATCTTTCG
Statistics
Matches: 346, Mismatches: 65, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
241 1 0.00
242 263 0.76
243 53 0.15
244 28 0.08
245 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.34
Consensus pattern (240 bp):
CTGGAGATAATTTGGTGTTGAAACGACACTGTTCATCCACATTGAAGAGATCTAGTCGTTTTAGG
TAAATTATTGTTGAAGATGACGTTATTCCTTCTCATTGAGGAAGTCGGGTCAATCTGGAGATAAT
TTGGTGTTGAAGATGACACTACTTATCCACATTGAAAAGATCTGGCCGCTTTCGAGTAAATTGTT
TGTTAAAGATGACGGTGTTCCTTCTAATTGAGAAAACGGGTCAAT
Found at i:4251405 original size:42 final size:42
Alignment explanation
Indices: 4251329--4251409 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
4251319 GAAAATTTTG
* * * *
4251329 ATGAATAAATTTTGAAAATGTTTTATAAAAGAATTTTGAATA
1 ATGAAAAAATTTTGAAAAAGCTTGATAAAAGAATTTTGAATA
* *
4251371 ATGAAAAAATTTTGAAAAAGCTTGATGAATGAATTTTGA
1 ATGAAAAAATTTTGAAAAAGCTTGATAAAAGAATTTTGA
4251410 TAAATGTTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.47, C:0.01, G:0.15, T:0.37
Consensus pattern (42 bp):
ATGAAAAAATTTTGAAAAAGCTTGATAAAAGAATTTTGAATA
Found at i:4251968 original size:32 final size:33
Alignment explanation
Indices: 4251932--4252002 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
4251922 ATTACCTAAA
4251932 CTCTTTTTTCTT-TATTTATTCATTTTCTTTTT
1 CTCTTTTTTCTTATATTTATTCATTTTCTTTTT
* * *
4251964 CTCTTTTTTCTTATTTTTGTTCTTTTTCTTTTT
1 CTCTTTTTTCTTATATTTATTCATTTTCTTTTT
4251997 -TCTTTT
1 CTCTTTT
4252003 GTTTTTGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 18 0.51
33 17 0.49
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.77
Consensus pattern (33 bp):
CTCTTTTTTCTTATATTTATTCATTTTCTTTTT
Found at i:4251973 original size:9 final size:8
Alignment explanation
Indices: 4251935--4252002 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 8
4251925 ACCTAAACTC
4251935 TTTTTTCT
1 TTTTTTCT
* *
4251943 TTATTTAT
1 TTTTTTCT
*
4251951 TCATTTTCT
1 T-TTTTTCT
*
4251960 TTTTCTC-
1 TTTTTTCT
4251967 TTTTTTCT
1 TTTTTTCT
*
4251975 TATTTTTGT
1 T-TTTTTCT
4251984 TCTTTTTC-
1 T-TTTTTCT
4251992 TTTTTTCT
1 TTTTTTCT
4252000 TTT
1 TTT
4252003 GTTTTTGTTA
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
7 12 0.27
8 16 0.36
9 17 0.38
ACGTcount: A:0.06, C:0.13, G:0.01, T:0.79
Consensus pattern (8 bp):
TTTTTTCT
Found at i:4251975 original size:7 final size:7
Alignment explanation
Indices: 4251933--4252002 Score: 56
Period size: 7 Copynumber: 9.9 Consensus size: 7
4251923 TTACCTAAAC
4251933 TCTTTTT
1 TCTTTTT
4251940 TCTTTATT
1 TCTTT-TT
*
4251948 TATTCATTT
1 TCTT--TTT
4251957 TCTTTTT
1 TCTTTTT
4251964 CTCTTTTT
1 -TCTTTTT
*
4251972 TC-TTAT
1 TCTTTTT
*
4251978 T-TTTGT
1 TCTTTTT
4251984 TC-TTTT
1 TCTTTTT
4251990 TCTTTTT
1 TCTTTTT
4251997 TCTTTT
1 TCTTTT
4252003 GTTTTTGTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
6 13 0.25
7 20 0.39
8 12 0.24
9 5 0.10
10 1 0.02
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.79
Consensus pattern (7 bp):
TCTTTTT
Found at i:4251986 original size:27 final size:27
Alignment explanation
Indices: 4251956--4252018 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
4251946 TTTATTCATT
4251956 TTCTTTTTCTCTTTTT-TCTTATTTTTG
1 TTCTTTTTCT-TTTTTCTCTTATTTTTG
* *
4251983 TTCTTTTTCTTTTTTCTTTTGTTTTTG
1 TTCTTTTTCTTTTTTCTCTTATTTTTG
*
4252010 TTATTTTTC
1 TTCTTTTTC
4252019 CCTCTTGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.03, C:0.13, G:0.05, T:0.79
Consensus pattern (27 bp):
TTCTTTTTCTTTTTTCTCTTATTTTTG
Found at i:4252016 original size:21 final size:21
Alignment explanation
Indices: 4251954--4252017 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
4251944 TATTTATTCA
*
4251954 TTTTCTTTT-TCTCTTTTT-TC
1 TTTTCTTTTGT-TCTTTTTATT
* *
4251974 TTAT-TTTTGTTCTTTTTCTT
1 TTTTCTTTTGTTCTTTTTATT
4251994 TTTTCTTTTGTT-TTTGTTATT
1 TTTTCTTTTGTTCTTT-TTATT
4252015 TTT
1 TTT
4252018 CCCTCTTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
19 11 0.31
20 11 0.31
21 14 0.39
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.81
Consensus pattern (21 bp):
TTTTCTTTTGTTCTTTTTATT
Found at i:4253022 original size:27 final size:24
Alignment explanation
Indices: 4252979--4253032 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
4252969 ATGCTTAAAT
* *
4252979 AAATGTAATGCAGATGCAAAATGCAA
1 AAATGTAATACAAATGC--AATGCAA
4253005 AAATGCTAATACAAATGCAATGCAA
1 AAATG-TAATACAAATGCAATGCAA
4253030 AAA
1 AAA
4253033 AACTTATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 10 0.40
26 5 0.20
27 10 0.40
ACGTcount: A:0.54, C:0.13, G:0.15, T:0.19
Consensus pattern (24 bp):
AAATGTAATACAAATGCAATGCAA
Found at i:4255179 original size:4 final size:4
Alignment explanation
Indices: 4255114--4255140 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4255104 ACATGATAGA
4255114 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
4255141 ATAACAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:4257639 original size:24 final size:24
Alignment explanation
Indices: 4257611--4257683 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
4257601 TATATCAAAA
* *
4257611 ATCAAAATTCAGGTCAAGTATCAT
1 ATCAAAATCCATGTCAAGTATCAT
*
4257635 ATCAAAATCCATGTCAAGTATCAG
1 ATCAAAATCCATGTCAAGTATCAT
* *
4257659 ATCAGAATCCATGTCATGTATCAT
1 ATCAAAATCCATGTCAAGTATCAT
4257683 A
1 A
4257684 ACAGAATTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (24 bp):
ATCAAAATCCATGTCAAGTATCAT
Found at i:4257688 original size:24 final size:24
Alignment explanation
Indices: 4257623--4257690 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
4257613 CAAAATTCAG
*
4257623 GTCAAGTATCATATCAAAATCCAT
1 GTCAAGTATCATATCAGAATCCAT
*
4257647 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAT
* *
4257671 GTCATGTATCATAACAGAAT
1 GTCAAGTATCATATCAGAAT
4257691 TCAAATTAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAT
Found at i:4258524 original size:20 final size:20
Alignment explanation
Indices: 4258472--4258526 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
4258462 CTTGGAGCGT
*
4258472 GGGGGAATCGGTACCCCATA
1 GGGGGAATCGGTTCCCCATA
4258492 GGGGGAATCGGTTCCCCATA
1 GGGGGAATCGGTTCCCCATA
4258512 GGGGGAATCGGTTCC
1 GGGGGAATCGGTTCC
4258527 ATAAGTGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.20, C:0.24, G:0.38, T:0.18
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCCATA
Found at i:4258638 original size:22 final size:22
Alignment explanation
Indices: 4258612--4258667 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
4258602 AAACCATTCA
4258612 GGGGGAATCGGTACCCCCTTGG
1 GGGGGAATCGGTACCCCCTTGG
4258634 GGGGGAATCGGTACCCCCTTGG
1 GGGGGAATCGGTACCCCCTTGG
4258656 GGGGGAATCGGT
1 GGGGGAATCGGT
4258668 TCCCTCTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.18
Consensus pattern (22 bp):
GGGGGAATCGGTACCCCCTTGG
Found at i:4261349 original size:22 final size:21
Alignment explanation
Indices: 4261324--4261371 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
4261314 GAGAATCGGT
4261324 TTCCCTTCAAAGGGGGAATCGA
1 TTCCCTTC-AAGGGGGAATCGA
* *
4261346 TTCCC-TCATGGGGGTATCGA
1 TTCCCTTCAAGGGGGAATCGA
4261366 TTCCCT
1 TTCCCT
4261372 CTGCACCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 16 0.70
21 2 0.09
22 5 0.22
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.29
Consensus pattern (21 bp):
TTCCCTTCAAGGGGGAATCGA
Found at i:4261364 original size:20 final size:20
Alignment explanation
Indices: 4261335--4261372 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4261325 TCCCTTCAAA
4261335 GGGGGAATCGATTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
4261355 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
4261373 TGCACCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:4264281 original size:3 final size:3
Alignment explanation
Indices: 4264275--4264334 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
4264265 TTTACCCATT
* * *
4264275 TTA TTA TTA TTA TAA TTA TTA TTA TAA TTA TTA TAA TTA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
4264323 TTA TTA TTA TTA
1 TTA TTA TTA TTA
4264335 AAAAAATAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:4278273 original size:93 final size:93
Alignment explanation
Indices: 4278114--4278496 Score: 669
Period size: 93 Copynumber: 4.1 Consensus size: 93
4278104 ACAAGTGCCG
*
4278114 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACCCCAA
4278179 AACCCCATCATTGGACTTGAAAGATGAA
66 AACCCCATCATTGGACTTGAAAGATGAA
*
4278207 TGTGCTCATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACCCCAA
4278272 AACCCCATCATTGGACTTGAAAGATGAA
66 AACCCCATCATTGGACTTGAAAGATGAA
* *
4278300 TGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACCCCAA
*
4278365 AACCCCATCATTGGATTTGAAAGATGAA
66 AACCCCATCATTGGACTTGAAAGATGAA
*
4278393 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT-AAACCCCA
* * *
4278458 GAA-CCAATCATTGGATTTGAAAGATGAA
65 AAACCCCATCATTGGACTTGAAAGATGAA
4278486 TGTGCTCATAG
1 TGTGCTCATAG
4278497 TACAAAAAAA
Statistics
Matches: 278, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
93 270 0.97
94 8 0.03
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (93 bp):
TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACCCCAA
AACCCCATCATTGGACTTGAAAGATGAA
Found at i:4279541 original size:113 final size:113
Alignment explanation
Indices: 4279334--4279926 Score: 583
Period size: 113 Copynumber: 5.4 Consensus size: 113
4279324 TAGATTTTCC
* * * * *
4279334 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCAGTGGAACA
1 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTAAATTCATCATTCAATGGATCA
* * *
4279399 ACAGTACCAGTTAGAGTTCATAATGAGAAGAACTCACCTAAAGAAGGA
66 ACATTACCAGTTCGAGTTCATAATGAGAAGAACTCACCTGAAGAAGGA
* *
4279447 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCAATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTAAATTCATCATTCAATGGATCA
* * *
4279512 ACAATACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGA
66 ACATTACCAGTTCGAGTTCATAATGAGAAGAACTCACCTGAAGAAGGA
* * * * *
4279560 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTATTCTATGGATTA
1 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTAAATTCATCATTCAATGGATCA
* * *** *
4279625 ACATTGCCA----G-G-T-AGAA-GA-ACTCA-TCATCTGAAGAAGGA
66 ACATTACCAGTTCGAGTTCATAATGAGAAGAACTCACCTGAAGAAGGA
* * * * * *
4279663 AGAAGAAATTCATAATGAGAATAATTTGTTCAACCTTTTGCTCAAATCCATCACTT-GATGGATC
1 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTAAATTCATCA-TTCAATGGATC
* * * *
4279727 AGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
65 AACATTACCAGTTCGAGTTCATAATGAGAAGAACTCACCTGAAGAAGGA
* * * *
4279776 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTT-GATGGATC
1 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTAAATTCATCA-TTCAATGGATC
*** * * *
4279840 AGTTTTTTTCCAG--AGAAGTTCATAATGAGAAGAACTCATCT---GAA-GA
65 A--ACATTACCAGTTCG-AGTTCATAATGAGAAGAACTCACCTGAAGAAGGA
* ** *
4279886 AGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGC
1 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGC
4279927 ATAATTCTAT
Statistics
Matches: 417, Mismatches: 49, Indels: 31
0.84 0.10 0.06
Matches are distributed among these distances:
103 75 0.18
104 4 0.01
105 1 0.00
106 3 0.01
107 2 0.00
108 2 0.00
109 2 0.00
110 41 0.10
111 5 0.01
112 2 0.00
113 247 0.59
114 25 0.06
115 8 0.02
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (113 bp):
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTAAATTCATCATTCAATGGATCA
ACATTACCAGTTCGAGTTCATAATGAGAAGAACTCACCTGAAGAAGGA
Found at i:4279726 original size:216 final size:213
Alignment explanation
Indices: 4279424--4279815 Score: 597
Period size: 216 Copynumber: 1.8 Consensus size: 213
4279414 GTTCATAATG
* *
4279424 AGAAGAACTCACCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
1 AGAAGAACTCACCTAAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
** *
4279489 TGAATTCATCATTCAATGGATCAACAATACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAA
66 CAAATCCATCATTCAATGGATCAACAATACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAA
*
4279554 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTATTCTAT
131 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTATTCTAT
4279619 GGATTAACATTGCCAGGT
196 GGATTAACATTGCCAGGT
* * *
4279637 AGAAGAACTCATCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAATAATTTGTTCAACCTTTT
1 AGAAGAACTCA-C--CTAAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTT
* * ** * *
4279702 GCTCAAATCCATCACTT-GATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATC
63 GCTCAAATCCATCA-TTCAATGGATCAACAATACCAGTTCGAGTTCATAATAAGAAGAACTCATC
*
4279766 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTG
127 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
4279816 CTCAAATCCA
Statistics
Matches: 159, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
213 11 0.07
214 1 0.01
216 145 0.91
217 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (213 bp):
AGAAGAACTCACCTAAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
CAAATCCATCATTCAATGGATCAACAATACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAA
GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTATTCTAT
GGATTAACATTGCCAGGT
Found at i:4280085 original size:124 final size:122
Alignment explanation
Indices: 4279846--4280137 Score: 380
Period size: 124 Copynumber: 2.4 Consensus size: 122
4279836 GATCAGTTTT
4279846 TTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTG-A-AGAAGAAGAAGTTCACAATGAGAAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAGAAGTTCACAATGAGAAG
* * * * * *
4279908 AGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATCAACC
66 AGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACC
* *
4279965 TTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA-GAG-AAGAAGAAGTTCACAATGAGA
* * * *
4280030 AGAGCTTATTCAACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCATCC
64 AGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACC
* *
4280089 ---CCAGCGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAA
1 TTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAGA-AGAAGAA
4280138 TTTATTCAAC
Statistics
Matches: 151, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
119 8 0.05
120 28 0.19
121 14 0.09
122 30 0.20
123 2 0.01
124 69 0.46
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.23
Consensus pattern (122 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAGAAGTTCACAATGAGAAG
AGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACC
Found at i:4280280 original size:3 final size:3
Alignment explanation
Indices: 4280274--4280339 Score: 89
Period size: 3 Copynumber: 22.0 Consensus size: 3
4280264 TTTACCCATT
* * *
4280274 TTA TTA TTA TTA TAA TTA TTA TTA TAA TTA TTA TTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4280322 -TA TATA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA
4280340 AAAAAATAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 2 0.04
3 50 0.91
4 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4281816 original size:12 final size:13
Alignment explanation
Indices: 4281779--4281819 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
4281769 TAAATAATAA
4281779 TTTATATATTT-T
1 TTTATATATTTAT
*
4281791 TTTATATAAATTAT
1 TTTATAT-ATTTAT
4281805 TTTA-ATATTTAT
1 TTTATATATTTAT
4281817 TTT
1 TTT
4281820 TCAATATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 15 0.60
13 5 0.20
14 5 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATATATTTAT
Found at i:4285386 original size:20 final size:22
Alignment explanation
Indices: 4285348--4285391 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
4285338 CAAACCATTC
4285348 AGGGGGAATCGGTACCCCT-TG
1 AGGGGGAATCGGTACCCCTCTG
*
4285369 AGGGGGAATCGGT-TCCCTCTG
1 AGGGGGAATCGGTACCCCTCTG
4285390 AG
1 AG
4285392 CAATCTGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.18, C:0.23, G:0.39, T:0.20
Consensus pattern (22 bp):
AGGGGGAATCGGTACCCCTCTG
Found at i:4290126 original size:24 final size:24
Alignment explanation
Indices: 4290094--4290178 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 24
4290084 TATATCAAAA
* * * *
4290094 ATCAAAACATAATTCAGGTAAAGT
1 ATCATAACATAATCCATGTCAAGT
*
4290118 ATCATAACAAAATCCATGTCAAGT
1 ATCATAACATAATCCATGTCAAGT
* * * *
4290142 ATCAGATCAGAATCCATGTCAGGT
1 ATCATAACATAATCCATGTCAAGT
4290166 ATCATAACATAAT
1 ATCATAACATAAT
4290179 TCAAATCGAA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.26
Consensus pattern (24 bp):
ATCATAACATAATCCATGTCAAGT
Found at i:4292608 original size:32 final size:32
Alignment explanation
Indices: 4292571--4292645 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 32
4292561 CCCGGTCAAA
4292571 GTCAAAGGTCAT-TCAAC-GCCTGGTCAACGCCG
1 GTCAAAGGTCATGTCAACAG--TGGTCAACGCCG
*
4292603 GTCAAAGTTC-TGGTCAACAGTGGTCAACGCCG
1 GTCAAAGGTCAT-GTCAACAGTGGTCAACGCCG
*
4292635 GTCAACGGTCA
1 GTCAAAGGTCA
4292646 ACGGTCAACG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
31 1 0.03
32 29 0.81
33 5 0.14
34 1 0.03
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.20
Consensus pattern (32 bp):
GTCAAAGGTCATGTCAACAGTGGTCAACGCCG
Found at i:4300741 original size:25 final size:25
Alignment explanation
Indices: 4300713--4300769 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
4300703 CGGTTAATCC
4300713 AACCAAAA-TTTATTTGAAAATTATT
1 AACCAAAACTTT-TTTGAAAATTATT
4300738 AACCAAAACTTTTTTGAAAATTATT
1 AACCAAAACTTTTTTGAAAATTATT
4300763 AACCAAA
1 AACCAAA
4300770 TTAATCGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 28 0.90
26 3 0.10
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (25 bp):
AACCAAAACTTTTTTGAAAATTATT
Found at i:4300860 original size:29 final size:29
Alignment explanation
Indices: 4300818--4300881 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
4300808 ATCGAACAAA
*
4300818 AATTTATTTAAAAATTATTAACCGAACTG
1 AATTAATTTAAAAATTATTAACCGAACTG
* *
4300847 GATTAATTTGAAAATTATTAACCGAACTG
1 AATTAATTTAAAAATTATTAACCGAACTG
4300876 AATTAA
1 AATTAA
4300882 CCGAATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (29 bp):
AATTAATTTAAAAATTATTAACCGAACTG
Found at i:4300913 original size:141 final size:139
Alignment explanation
Indices: 4300754--4301302 Score: 665
Period size: 141 Copynumber: 4.0 Consensus size: 139
4300744 AACTTTTTTG
* * *
4300754 AAAATTATTAACCAAATTAATCGACA-CAAAAATTTGATTAATTCGGTTCGGTTAATCGAACAAA
1 AAAA-TATTAACCGAATTAATCGA-AGAAAAAATTT-ATTAATTCGGTTCGGTTAATCGAACCAA
* *
4300818 AATTTATTTAAAAATTATTAACCGAACTGGATTAATTTGAAAATTATTAACCGAACTGAATTAAC
63 AATTTATTTAAAAATTATTAACCGAACTGAATTAATTTGAAAATTATTAACCGAACCGAATTAAC
4300883 CGAATTTTTTAT
128 CGAATTTTTTAT
* * *
4300895 AAAAGCATTAACCGAATTAATCGAAGAAAAAATTTGGTTATTTCGGTTCGGTTAATCGAACCAAA
1 AAAA-TATTAACCGAATTAATCGAAGAAAAAATTT-ATTAATTCGGTTCGGTTAATCGAACCAAA
* *
4300960 ATTTATTTAAAAATTATTAACCGAACTGAAATAATTTGAAAATTATTAGCCGAACCGAATTAACC
64 ATTTATTTAAAAATTATTAACCGAACTGAATTAATTTGAAAATTATTAACCGAACCGAATTAACC
4301025 GAATTTTTTGA-
129 GAATTTTTT-AT
** * *
4301036 AAAATATTAAATGAATTAATCGAATAAAAAATTTAGTTAATTCGATTCGGTTAATCGAACCAAAA
1 AAAATATTAACCGAATTAATCGAAGAAAAAATTTA-TTAATTCGGTTCGGTTAATCGAACCAAAA
* * * * *
4301101 TTTATTTGAAAATTATTAA-CTAAATCGAATTAATTTGAAAATTATTAACCGAACCAAATTAATC
65 TTTATTTAAAAATTATTAACCGAACT-GAATTAATTTGAAAATTATTAACCGAACCGAATTAACC
4301165 G-ATTTTTT-T
129 GAATTTTTTAT
* * * *
4301174 AAATTATTAATCGAATTAATCGAAG---ACA---A--AATTCAGTTCGGTTAATCGAACCAAAAT
1 AAAATATTAACCGAATTAATCGAAGAAAAAATTTATTAATTCGGTTCGGTTAATCGAACCAAAAT
* * * * * * *
4301231 TTATTTGAAAATTATTAATCAAACTGAATTAATTTAAAAATTATTAACCGAACTGAATTAATCAA
66 TTATTTAAAAATTATTAACCGAACTGAATTAATTTGAAAATTATTAACCGAACCGAATTAACCGA
4301296 ATTTTTT
131 ATTTTTT
4301303 TCTTTAACCA
Statistics
Matches: 363, Mismatches: 38, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
129 79 0.22
130 11 0.03
132 1 0.00
135 2 0.01
138 21 0.06
139 11 0.03
140 107 0.29
141 130 0.36
142 1 0.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (139 bp):
AAAATATTAACCGAATTAATCGAAGAAAAAATTTATTAATTCGGTTCGGTTAATCGAACCAAAAT
TTATTTAAAAATTATTAACCGAACTGAATTAATTTGAAAATTATTAACCGAACCGAATTAACCGA
ATTTTTTAT
Found at i:4300985 original size:30 final size:29
Alignment explanation
Indices: 4300946--4301015 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
4300936 TTCGGTTCGG
* *
4300946 TTAATCGAACCAAAATTTATTTAAAAATTA
1 TTAACCGAACCAAAA-TAATTTAAAAATTA
** *
4300976 TTAACCGAACTGAAATAATTTGAAAATTA
1 TTAACCGAACCAAAATAATTTAAAAATTA
*
4301005 TTAGCCGAACC
1 TTAACCGAACC
4301016 GAATTAACCG
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (29 bp):
TTAACCGAACCAAAATAATTTAAAAATTA
Found at i:4301160 original size:29 final size:29
Alignment explanation
Indices: 4301086--4301163 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
4301076 TTCGATTCGG
* *
4301086 TTAATCGAACCAAAATTTATTTGAAAATTA
1 TTAACCGAACC-AAATTAATTTGAAAATTA
** * *
4301116 TTAACTAAATCGAATTAATTTGAAAATTA
1 TTAACCGAACCAAATTAATTTGAAAATTA
4301145 TTAACCGAACCAAATTAAT
1 TTAACCGAACCAAATTAAT
4301164 CGATTTTTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 31 0.82
30 7 0.18
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (29 bp):
TTAACCGAACCAAATTAATTTGAAAATTA
Found at i:4301265 original size:29 final size:29
Alignment explanation
Indices: 4301228--4301292 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
4301218 ATCGAACCAA
* * *
4301228 AATTTATTTGAAAATTATTAATCAAACTG
1 AATTAATTTAAAAATTATTAACCAAACTG
*
4301257 AATTAATTTAAAAATTATTAACCGAACTG
1 AATTAATTTAAAAATTATTAACCAAACTG
4301286 AATTAAT
1 AATTAAT
4301293 CAAATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (29 bp):
AATTAATTTAAAAATTATTAACCAAACTG
Found at i:4301400 original size:99 final size:98
Alignment explanation
Indices: 4301215--4301405 Score: 289
Period size: 99 Copynumber: 2.0 Consensus size: 98
4301205 TTCAGTTCGG
* *
4301215 TTAATCGAACCAAAATTTATTTGAAAATTATTAATCAAACTGAATTAATTTAAAAATTATTAACC
1 TTAATCGAACCAAAATTTATTTAAAAATTATTAACCAAACTGAATTAATTTAAAAATTATTAACC
* * *
4301280 GAACTGAATTAATCAAATTTTTTTCTTTAACCA
66 AAACTGAAGTAACCAAATTTTTTTCTTTAACCA
* *
4301313 TTAATCGAACCAAAATTTATTTAAAAAATTATTAACCGAACTGAATTAATTTGAAAATTATTAAC
1 TTAATCGAACCAAAATTTATTT-AAAAATTATTAACCAAACTGAATTAATTTAAAAATTATTAAC
4301378 CAAACTGAAGTAACC--ATTTTTTT-TTTAA
65 CAAACTGAAGTAACCAAATTTTTTTCTTTAA
4301406 AATTATTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
96 5 0.06
97 8 0.09
98 22 0.26
99 50 0.59
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (98 bp):
TTAATCGAACCAAAATTTATTTAAAAATTATTAACCAAACTGAATTAATTTAAAAATTATTAACC
AAACTGAAGTAACCAAATTTTTTTCTTTAACCA
Found at i:4301495 original size:30 final size:29
Alignment explanation
Indices: 4301461--4301519 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
4301451 TCGGTTAATT
*
4301461 GAACCAAAATTTATTTAAAAATTATTAACC
1 GAACC-AAATTAATTTAAAAATTATTAACC
* *
4301491 GAACCGAATTAATTTGAAAATTATTAACC
1 GAACCAAATTAATTTAAAAATTATTAACC
4301520 AAATCGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (29 bp):
GAACCAAATTAATTTAAAAATTATTAACC
Found at i:4301500 original size:29 final size:29
Alignment explanation
Indices: 4301468--4301530 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
4301458 ATTGAACCAA
*
4301468 AATTTATTTAAAAATTATTAACCGAACCG
1 AATTTATTTAAAAATTATTAACCAAACCG
* * *
4301497 AATTAATTTGAAAATTATTAACCAAATCG
1 AATTTATTTAAAAATTATTAACCAAACCG
4301526 AATTT
1 AATTT
4301531 TTTTTCTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (29 bp):
AATTTATTTAAAAATTATTAACCAAACCG
Found at i:4302497 original size:6 final size:7
Alignment explanation
Indices: 4302479--4302504 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4302469 AAATATACTT
4302479 TAAAAAA
1 TAAAAAA
4302486 TAAAAAA
1 TAAAAAA
4302493 TAAAAAA
1 TAAAAAA
4302500 TAAAA
1 TAAAA
4302505 CTACAGGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:4308756 original size:9 final size:9
Alignment explanation
Indices: 4308742--4308767 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4308732 ACGTTCTACT
4308742 GAAGTGAAG
1 GAAGTGAAG
4308751 GAAGTGAAG
1 GAAGTGAAG
4308760 GAAGTGAA
1 GAAGTGAA
4308768 AGCAACTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.42, T:0.12
Consensus pattern (9 bp):
GAAGTGAAG
Found at i:4317702 original size:106 final size:105
Alignment explanation
Indices: 4317572--4317763 Score: 305
Period size: 106 Copynumber: 1.8 Consensus size: 105
4317562 GAGAGATATA
* *
4317572 TTTCAATTAGATTTTAGAGTTCTAACTCTAAATTAATGTAATAAGCAACAAGAAGACTGTG-TTA
1 TTTCAATTAGAGTTTAGAGTTCTAACTCTAAATTAATGTAATAAGAAACAAGAAGACTGTGTTTA
*
4317636 ACTTGTTTTATTTCACTGCATGTTCTCCACAATTGTAGTAGC
66 A-TTATTTTATTTCA-TGCATGTTCTCCACAATTGTAGTAGC
* * *
4317678 TTTCAATTAGAGTTTAGAGTTCTAACTTTGAATTAATGTAATAAGAAACAGGAAGACTGTGTTTA
1 TTTCAATTAGAGTTTAGAGTTCTAACTCTAAATTAATGTAATAAGAAACAAGAAGACTGTGTTTA
4317743 ATTATTTTATTTCATGCATGT
66 ATTATTTTATTTCATGCATGT
4317764 ATCTTTTATA
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
105 7 0.09
106 68 0.86
107 4 0.05
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (105 bp):
TTTCAATTAGAGTTTAGAGTTCTAACTCTAAATTAATGTAATAAGAAACAAGAAGACTGTGTTTA
ATTATTTTATTTCATGCATGTTCTCCACAATTGTAGTAGC
Found at i:4319251 original size:244 final size:247
Alignment explanation
Indices: 4318899--4319379 Score: 589
Period size: 245 Copynumber: 2.0 Consensus size: 247
4318889 GAGGAGGAGG
* * * * * *
4318899 AGATTTTTTTTAATAAGACAAGTGAATTTTTTTTTATTTTTTTACTTTTAAATTATCAATTTAGA
1 AGATTTTTTTTAATAAGACAAGTGAATTTTTTATTATTTTATAACTTTTAAATTATCAACTCAAA
* * * *
4318964 CTTCTGTCAATGTATTAACGGATGTTAATAACTGAGTGACTTAAATC-AAAGGATTGACAACATA
66 CTTCTGTCAATGGATTAACGGATGTTAATAACTGAGAGACTTAAATCAAAAGAACTGACAACATA
* * *
4319028 AGAGACTAAATACACTTAATTTTTTATCCTTAAACTTT-ATATCATTCTTATTGAATACACAAGA
131 ACAGACCAAATACACTTAA-TTTTTATCCTTAAACTTTAAAATCATTCTTATTGAATACACAAGA
* *
4319092 TATCAATATCATCCT-A-AA-TTTATTAAAAAACAAATGTTTTTAAGAAGAAGA
195 TATCAATATCATACTAATAAGTTCATTAAAAAAC-AATGTTTTTAAGAAGAAGA
* *
4319143 AGATATTTTTTTAATAAGAC-AGTGGAATTTTTTATT-TTTTATAATTTTTAAATTGTCAACTCA
1 AGAT-TTTTTTTAATAAGACAAGT-GAATTTTTTATTATTTTATAACTTTTAAATTATCAACTCA
* * * ** * * * *
4319206 AACTTTTGTTAATGGGTTGGCGGATGTTAATGATTGAGAGACTTAAATCAAAAGAACTGATAACG
64 AACTTCTGTCAATGGATTAACGGATGTTAATAACTGAGAGACTTAAATCAAAAGAACTGACAACA
* * * * *
4319271 TAACAGACCAAATGCACTTAATTTTTATCCTTAAATTTTAAAATCTTTTTTATTGAATACACAAT
129 TAACAGACCAAATACACTTAATTTTTATCCTTAAACTTTAAAATCATTCTTATTGAATACACAAG
*
4319336 ATATCGATATCATACTAATAAGTTCATTAAAAAACAATGTTTTT
194 ATATCAATATCATACTAATAAGTTCATTAAAAAACAATGTTTTT
4319380 TTAACATTTA
Statistics
Matches: 198, Mismatches: 32, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
244 84 0.42
245 90 0.45
246 1 0.01
247 11 0.06
248 12 0.06
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (247 bp):
AGATTTTTTTTAATAAGACAAGTGAATTTTTTATTATTTTATAACTTTTAAATTATCAACTCAAA
CTTCTGTCAATGGATTAACGGATGTTAATAACTGAGAGACTTAAATCAAAAGAACTGACAACATA
ACAGACCAAATACACTTAATTTTTATCCTTAAACTTTAAAATCATTCTTATTGAATACACAAGAT
ATCAATATCATACTAATAAGTTCATTAAAAAACAATGTTTTTAAGAAGAAGA
Found at i:4320719 original size:20 final size:20
Alignment explanation
Indices: 4320694--4320736 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4320684 GACCAACAAA
*
4320694 TTCGCAACGCAAATTCCAAT
1 TTCGCAACCCAAATTCCAAT
**
4320714 TTCGCAACCCAGTTTCCAAT
1 TTCGCAACCCAAATTCCAAT
4320734 TTC
1 TTC
4320737 ACAATGCGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.09, T:0.30
Consensus pattern (20 bp):
TTCGCAACCCAAATTCCAAT
Found at i:4320784 original size:21 final size:21
Alignment explanation
Indices: 4320755--4320801 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
4320745 AATATGTAAA
4320755 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
4320776 TCGCGTTGCGATTTTCCAACT
1 TCGCATTGCGATTTTCCAAAT
4320797 TCGCA
1 TCGCA
4320802 ACGCGAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:4320807 original size:21 final size:21
Alignment explanation
Indices: 4320762--4320807 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
4320752 AAATCGCATT
***
4320762 GCGATTTTCCAAATTCGCGTT
1 GCGATTTTCCAAATTCGCAAC
*
4320783 GCGATTTTCCAACTTCGCAAC
1 GCGATTTTCCAAATTCGCAAC
4320804 GCGA
1 GCGA
4320808 AAGTCAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (21 bp):
GCGATTTTCCAAATTCGCAAC
Found at i:4320821 original size:20 final size:20
Alignment explanation
Indices: 4320796--4320836 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
4320786 ATTTTCCAAC
4320796 TTCGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
*
4320816 TTCGCAATGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
4320836 T
1 T
4320837 ACGAATTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (20 bp):
TTCGCAACGCGAAAGTCAAA
Found at i:4321047 original size:22 final size:22
Alignment explanation
Indices: 4321022--4321067 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
4321012 GCGACATCTA
4321022 TCCCCATCTT-CGACGAAATCCG
1 TCCCCAT-TTCCGACGAAATCCG
4321044 TCCCCATTTCCGACGAAATCCG
1 TCCCCATTTCCGACGAAATCCG
4321066 TC
1 TC
4321068 TATCTCCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.22, C:0.41, G:0.13, T:0.24
Consensus pattern (22 bp):
TCCCCATTTCCGACGAAATCCG
Found at i:4321388 original size:20 final size:20
Alignment explanation
Indices: 4321347--4321388 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4321337 GAAACTAAAA
* * *
4321347 TCGCGTTGCGATTTTCATTT
1 TCGCGTTGCGAATTTAAGTT
4321367 TCGCGTTGCGAATTTAAGTT
1 TCGCGTTGCGAATTTAAGTT
4321387 TC
1 TC
4321389 AGAAACTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGAATTTAAGTT
Found at i:4323112 original size:21 final size:21
Alignment explanation
Indices: 4323088--4323137 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
4323078 GTTAGGGGAA
*
4323088 TTACGTGATGAGGTCGGTGCT
1 TTACGTGATGAGGTCGGTACT
*
4323109 TTACGTCATGAGGTCGGTACT
1 TTACGTGATGAGGTCGGTACT
4323130 TTACGTGA
1 TTACGTGA
4323138 AGATAATGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.16, G:0.32, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTCGGTACT
Found at i:4323594 original size:21 final size:20
Alignment explanation
Indices: 4323545--4323598 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
4323535 GATGCACCTA
*
4323545 TCATCATTCAAGAGGCCCCT
1 TCATCGTTCAAGAGGCCCCT
* *
4323565 TCCACCGTTCAAGAGGCCTCT
1 T-CATCGTTCAAGAGGCCCCT
4323586 GTCATCGTTCAAG
1 -TCATCGTTCAAG
4323599 TGGTCCTGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.26
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCCT
Found at i:4325032 original size:14 final size:14
Alignment explanation
Indices: 4325013--4325080 Score: 82
Period size: 14 Copynumber: 4.9 Consensus size: 14
4325003 TTTTGATTAA
4325013 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
4325027 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
4325041 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
4325055 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
4325069 TTGATTTGTAAA
1 TTGATTTGTAAA
4325081 TAAGAATTAT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 43 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:4325050 original size:28 final size:28
Alignment explanation
Indices: 4325004--4325080 Score: 138
Period size: 28 Copynumber: 2.8 Consensus size: 28
4324994 GATTTATTTT
*
4325004 TTTGATTAA-TTGATTTGTAAAAGTTGA
1 TTTGTTTAATTTGATTTGTAAAAGTTGA
4325031 TTTGTTTAATTTGATTTGTAAAAGTTGA
1 TTTGTTTAATTTGATTTGTAAAAGTTGA
4325059 TTTGTTTAATTTGATTTGTAAA
1 TTTGTTTAATTTGATTTGTAAA
4325081 TAAGAATTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 8 0.17
28 40 0.83
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (28 bp):
TTTGTTTAATTTGATTTGTAAAAGTTGA
Found at i:4325254 original size:20 final size:20
Alignment explanation
Indices: 4325225--4325279 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
4325215 TGCGATAATA
*
4325225 AAATTTGCAACACGAAAGTC
1 AAATTCGCAACACGAAAGTC
4325245 AAATTCGCAACACGAAAGTC
1 AAATTCGCAACACGAAAGTC
4325265 AAATTCGCAACACGA
1 AAATTCGCAACACGA
4325280 TTTTTGGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.45, C:0.24, G:0.15, T:0.16
Consensus pattern (20 bp):
AAATTCGCAACACGAAAGTC
Found at i:4325865 original size:18 final size:18
Alignment explanation
Indices: 4325842--4325878 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4325832 CGAAATTTAT
4325842 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
4325860 ATTGAAATTGAAATTCAA
1 ATTGAAATTCAAACTCAA
4325878 A
1 A
4325879 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:4326298 original size:25 final size:25
Alignment explanation
Indices: 4326264--4326313 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4326254 ATTATTTTTC
*
4326264 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
4326289 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
4326314 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:4326397 original size:20 final size:20
Alignment explanation
Indices: 4326374--4326415 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
4326364 AGACATGTTG
4326374 AAGGTAAATTCGCAACGCGA
1 AAGGTAAATTCGCAACGCGA
*
4326394 AAGGTAAATTCGCAACGTGA
1 AAGGTAAATTCGCAACGCGA
4326414 AA
1 AA
4326416 TAAGCGTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.17
Consensus pattern (20 bp):
AAGGTAAATTCGCAACGCGA
Found at i:4326447 original size:20 final size:20
Alignment explanation
Indices: 4326424--4326485 Score: 88
Period size: 20 Copynumber: 3.1 Consensus size: 20
4326414 AATAAGCGTT
4326424 GCGATAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
* *
4326444 GCGAAAGTCAAATTCGCTAC
1 GCGATAGTCAAATTCGCAAC
* *
4326464 ACGATAGTCAAATTTGCAAC
1 GCGATAGTCAAATTCGCAAC
4326484 GC
1 GC
4326486 TTATTTCGCG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCAAC
Found at i:4326517 original size:34 final size:34
Alignment explanation
Indices: 4326479--4326549 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
4326469 AGTCAAATTT
*
4326479 GCAACGCTTATTTCGCGTTGCAAATTTGACTATC
1 GCAACGCTTATTTCGCATTGCAAATTTGACTATC
* *
4326513 GCAACGCTTATTTCGCATTGCGAATTTGACTTTC
1 GCAACGCTTATTTCGCATTGCAAATTTGACTATC
4326547 GCA
1 GCA
4326550 TTGCGAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (34 bp):
GCAACGCTTATTTCGCATTGCAAATTTGACTATC
Found at i:4326548 original size:20 final size:20
Alignment explanation
Indices: 4326523--4326572 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
4326513 GCAACGCTTA
4326523 TTTCGCATTGCGAATTTGAC
1 TTTCGCATTGCGAATTTGAC
4326543 TTTCGCATTGCGAATTTGAC
1 TTTCGCATTGCGAATTTGAC
4326563 TTTCGCATTG
1 TTTCGCATTG
4326573 ATCGCAACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (20 bp):
TTTCGCATTGCGAATTTGAC
Found at i:4326800 original size:39 final size:39
Alignment explanation
Indices: 4326746--4326832 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
4326736 TCAAGTTGTA
4326746 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
** *
4326785 GATTTTGATTTCCTTTTGCTTGGTACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
4326824 GATTTTGAT
1 GATTTTGAT
4326833 GAGCATCGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.18, C:0.14, G:0.20, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
Found at i:4327166 original size:18 final size:18
Alignment explanation
Indices: 4327143--4327179 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4327133 CGAAATTTAT
4327143 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
4327161 ATTGAAATTGAAATTCAA
1 ATTGAAATTCAAACTCAA
4327179 A
1 A
4327180 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:4327600 original size:25 final size:25
Alignment explanation
Indices: 4327566--4327615 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
4327556 ATTATTTTTC
*
4327566 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
*
4327591 CAAATAATGTATCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
4327616 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:4327699 original size:20 final size:20
Alignment explanation
Indices: 4327676--4327717 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
4327666 AGACCTGTTG
4327676 AAGGTAAATTCGCAACGCGA
1 AAGGTAAATTCGCAACGCGA
*
4327696 AAGGTAAATTCGCAACGTGA
1 AAGGTAAATTCGCAACGCGA
4327716 AA
1 AA
4327718 TAAGCGTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.17
Consensus pattern (20 bp):
AAGGTAAATTCGCAACGCGA
Found at i:4327749 original size:20 final size:20
Alignment explanation
Indices: 4327726--4327787 Score: 97
Period size: 20 Copynumber: 3.1 Consensus size: 20
4327716 AATAAGCGTT
4327726 GCGATAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
* *
4327746 GCGAAAGTCAAATTCGCTAC
1 GCGATAGTCAAATTCGCAAC
*
4327766 ACGATAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
4327786 GC
1 GC
4327788 TTATTTCGCG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCAAC
Found at i:4327817 original size:34 final size:34
Alignment explanation
Indices: 4327779--4327850 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
4327769 ATAGTCAAAT
*
4327779 TCGCAACGCTTATTTCGCGTTGCGAATTTGACTA
1 TCGCAACGCTTATTTCGCGTTACGAATTTGACTA
*
4327813 TCGCAACGCTTATTTCGCGTTACGAATTTGACTT
1 TCGCAACGCTTATTTCGCGTTACGAATTTGACTA
4327847 TCGC
1 TCGC
4327851 GTTGATCGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (34 bp):
TCGCAACGCTTATTTCGCGTTACGAATTTGACTA
Found at i:4328082 original size:39 final size:39
Alignment explanation
Indices: 4328028--4328114 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
4328018 TCAAGTTTTA
4328028 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
4328067 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
4328106 GATTTTGAT
1 GATTTTGAT
4328115 GAGCATCGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:4328449 original size:18 final size:18
Alignment explanation
Indices: 4328426--4328462 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4328416 CGAAATTTAT
4328426 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
4328444 ATTGAAATTGAAATTCAA
1 ATTGAAATTCAAACTCAA
4328462 A
1 A
4328463 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:4328883 original size:25 final size:25
Alignment explanation
Indices: 4328849--4328898 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4328839 ATTATTTTTC
*
4328849 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
4328874 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
4328899 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:4328964 original size:20 final size:20
Alignment explanation
Indices: 4328939--4328980 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4328929 AATTATGTTG
*
4328939 AAGGTAAATTCGCAACGCGA
1 AAGGTAAATTCACAACGCGA
*
4328959 AAGGTAAATTCACAACGTGA
1 AAGGTAAATTCACAACGCGA
4328979 AA
1 AA
4328981 TAAGCATTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (20 bp):
AAGGTAAATTCACAACGCGA
Found at i:4329012 original size:20 final size:20
Alignment explanation
Indices: 4328989--4329034 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4328979 AATAAGCATT
* **
4328989 GCGATAGTCAAATTTGCAAC
1 GCGAAAGTCAAATTCACAAC
4329009 GCGAAAGTCAAATTCACAAC
1 GCGAAAGTCAAATTCACAAC
4329029 GCGAAA
1 GCGAAA
4329035 TAACAACTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (20 bp):
GCGAAAGTCAAATTCACAAC
Found at i:4329211 original size:18 final size:18
Alignment explanation
Indices: 4329188--4329223 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4329178 AAGCCGGTTG
*
4329188 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
4329206 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
4329224 CCTTTTACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:4331519 original size:24 final size:24
Alignment explanation
Indices: 4331485--4331538 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4331475 CCATCACATC
4331485 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
4331509 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
4331533 ATCAAA
1 ATCAAA
4331539 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:4331552 original size:24 final size:24
Alignment explanation
Indices: 4331485--4331552 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
4331475 CCATCACATC
* * *
4331485 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
4331509 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
4331533 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
4331553 TAGTACTCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:4332462 original size:20 final size:20
Alignment explanation
Indices: 4332437--4332596 Score: 103
Period size: 20 Copynumber: 8.0 Consensus size: 20
4332427 TTGCAAAATT
4332437 AAATTCGCGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
*
4332457 AAATTC-AGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
**
4332476 ACTTTCGCGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
** *
4332496 ACTTTCGCGTTGTGAATTTGG
1 AAATTCGCGTTGCGAATTT-G
* * *****
4332517 AAAATGGCAACATGAATTTGG
1 AAATTCGCGTTGCGAATTT-G
* **
4332538 AAAATCGCAATGC-AATTT-
1 AAATTCGCGTTGCGAATTTG
4332556 ACATATTCGCGTTGCGAATTTG
1 A-A-ATTCGCGTTGCGAATTTG
*
4332578 AGA-TCGCGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
4332597 TTGGTCATTT
Statistics
Matches: 113, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
18 1 0.01
19 33 0.29
20 50 0.44
21 28 0.25
22 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (20 bp):
AAATTCGCGTTGCGAATTTG
Found at i:4332534 original size:21 final size:21
Alignment explanation
Indices: 4332508--4332547 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4332498 TTTCGCGTTG
*
4332508 TGAATTTGGAAAATGGCAACA
1 TGAATTTGGAAAATCGCAACA
4332529 TGAATTTGGAAAATCGCAA
1 TGAATTTGGAAAATCGCAA
4332548 TGCAATTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (21 bp):
TGAATTTGGAAAATCGCAACA
Found at i:4334039 original size:7 final size:7
Alignment explanation
Indices: 4334019--4334061 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
4334009 CCCTCTCTCC
4334019 TCCCCCT
1 TCCCCCT
*
4334026 T-CTCCT
1 TCCCCCT
*
4334032 TTCCCCT
1 TCCCCCT
4334039 TCCCCCT
1 TCCCCCT
4334046 TCCCCCT
1 TCCCCCT
4334053 TCCCCCT
1 TCCCCCT
4334060 TC
1 TC
4334062 TATTCCTGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (7 bp):
TCCCCCT
Found at i:4334044 original size:20 final size:20
Alignment explanation
Indices: 4334019--4334057 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4334009 CCCTCTCTCC
* *
4334019 TCCCCCTTCTCCTTTCCCCT
1 TCCCCCTTCCCCCTTCCCCT
4334039 TCCCCCTTCCCCCTTCCCC
1 TCCCCCTTCCCCCTTCCCC
4334058 CTTCTATTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (20 bp):
TCCCCCTTCCCCCTTCCCCT
Found at i:4339719 original size:22 final size:22
Alignment explanation
Indices: 4339694--4339740 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
4339684 TGACTTCTCT
4339694 AGTGGTAGCGAATTTGAACTTA
1 AGTGGTAGCGAATTTGAACTTA
4339716 AGTGGTAGCGAATTTGAACTTA
1 AGTGGTAGCGAATTTGAACTTA
4339738 AGT
1 AGT
4339741 TCTTACAAAT
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:0.32, C:0.09, G:0.28, T:0.32
Consensus pattern (22 bp):
AGTGGTAGCGAATTTGAACTTA
Found at i:4347691 original size:58 final size:60
Alignment explanation
Indices: 4347627--4347739 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
4347617 AACCCATGCA
* *
4347627 TCGATGCAC-CATGAA-TAAAT-TAAACATCGAATGCATTTTATGCACCGATGCACATACT
1 TCGATGCACTCA-GAATTAAATGAAAACATCGAATGCATTTGATGCACCGATGCACATACT
** *
4347685 TCGATGCACTCAGAATTTTATGAAAACATCGAATGCATTTGATGCATCGATGCAC
1 TCGATGCACTCAGAATTAAATGAAAACATCGAATGCATTTGATGCACCGATGCAC
4347740 TAGCCATGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 12 0.26
59 5 0.11
60 30 0.64
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (60 bp):
TCGATGCACTCAGAATTAAATGAAAACATCGAATGCATTTGATGCACCGATGCACATACT
Found at i:4354813 original size:21 final size:21
Alignment explanation
Indices: 4354771--4354814 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4354761 ACCCCGGGAG
*
4354771 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
4354792 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
4354813 CT
1 CT
4354815 CCTCCTTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:4355997 original size:65 final size:65
Alignment explanation
Indices: 4355862--4356070 Score: 223
Period size: 64 Copynumber: 3.2 Consensus size: 65
4355852 TTTTTCATAG
* * **
4355862 TGATGCACCGATGCACCA-AGCCATGCATCGATACAC-CATGAATAAATTG-AACATCGAATGCA
1 TGATGCATCGATGCA-CATAGCCATGCATCGATGCACTCA-GAATATTTTGAAACATCGAATGCA
4355924 TT
64 TT
* * * *
4355926 TCATGCACCGATGCACATA-CTATGCATCGATGCACTCAGAAT-TTTATGAAAATATCGAATGCA
1 TGATGCATCGATGCACATAGCCATGCATCGATGCACTCAGAATATTT-TG-AAACATCGAATGCA
4355989 TT
64 TT
* ** * *
4355991 TGATGCATCGATGCA-ATAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGAACT
1 TGATGCATCGATGCACATAGCCATGCATCGATGCACTCAGAATATTTTGAAACATCGAATGCATT
4356055 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
4356071 TCTTAGTGCA
Statistics
Matches: 122, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
62 1 0.01
63 22 0.18
64 48 0.39
65 48 0.39
66 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (65 bp):
TGATGCATCGATGCACATAGCCATGCATCGATGCACTCAGAATATTTTGAAACATCGAATGCATT
Found at i:4358746 original size:2 final size:2
Alignment explanation
Indices: 4358739--4358763 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4358729 TGATTGAAGA
4358739 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4358764 ATTTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4365506 original size:193 final size:192
Alignment explanation
Indices: 4365163--4365511 Score: 515
Period size: 193 Copynumber: 1.8 Consensus size: 192
4365153 ATATGGTGGC
*
4365163 GTTATGCATAATCATCATTCATAATATTATTAGGTAACGATATATTATGTTACTAAAAATGTGAC
1 GTTATGCATAATCATCATTCATAATATTATTAGGTAACGATATATTATGTCACTAAAAATGTGAC
* ** *
4365228 AATATCTTTTTCGTCATATATAAGTTGATTTTAATGCATTATTTGTGATAATATAAACTATCAAT
66 AATATCTCTTTCGTCATATATAAGTTGATTTTAATGCATTATCCGTGACAATATAAACTATCAAT
* **
4365293 AACGAAATCTTATTTAATTTAGTGACGTAACCAACTGTCATAAATATAAATTATAAAGTGAT
131 AACAAAATCTTACATAATTTAGTGACGTAACCAACTGTCATAAATATAAATTATAAAGTGAT
* *
4365355 GTTATGCATATAT-GTCATTCATAATATTATTAGGTAAC-ATTTATATTATGTCACTAAAAATTT
1 GTTATGCATA-ATCATCATTCATAATATTATTAGGTAACGA--TATATTATGTCACTAAAAATGT
* *
4365418 GACAATATCTCTTTCGTCATATATAAGTTGATTTTAATGTATTATCCGTGACGATATAAA-TCAT
63 GACAATATCTCTTTCGTCATATATAAGTTGATTTTAATGCATTATCCGTGACAATATAAACT-AT
* *
4365482 TAATAACAAAATTTTACATAATTTAGTGAC
127 CAATAACAAAATCTTACATAATTTAGTGAC
4365512 ATAATTAGTT
Statistics
Matches: 139, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
191 1 0.01
192 35 0.25
193 103 0.74
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (192 bp):
GTTATGCATAATCATCATTCATAATATTATTAGGTAACGATATATTATGTCACTAAAAATGTGAC
AATATCTCTTTCGTCATATATAAGTTGATTTTAATGCATTATCCGTGACAATATAAACTATCAAT
AACAAAATCTTACATAATTTAGTGACGTAACCAACTGTCATAAATATAAATTATAAAGTGAT
Found at i:4365606 original size:193 final size:192
Alignment explanation
Indices: 4365177--4365635 Score: 467
Period size: 193 Copynumber: 2.4 Consensus size: 192
4365167 TGCATAATCA
* * * * *
4365177 TCATTCATAATATTATTAGGTAACGA-TATATTATGTTACTAAAAATGTGACAATATCTTTTTCG
1 TCATTCATAATACTATTAAGTAAC-ATTATACTACGTTACTAAAAATGTGACAATATCTCTTTCG
** * * *
4365241 TCATATATAAGTTGATTTTAATGCATTATTTGTGATAATATAAACTATCAATAACGAAATCTTAT
65 TCATATATAAGTTGATTTTAATGCATTATCCGTGACAATATAAACTATCAATAACAAAATCTTAC
* * * * * *
4365306 TTAATTTAGTGACGTAACCAACTGTCATAAATATAAATTATAAAGTGATGTTATGCATATATG
130 ATAATTTAGTGACATAACCAACTGTCATAAATATAAATCATAAAGTGACGTTATACATAAATG
* * * * * *
4365369 TCATTCATAATATTATTAGGTAACATTTATATTATGTCACTAAAAATTTGACAATATCTCTTTCG
1 TCATTCATAATACTATTAAGTAACA-TTATACTACGTTACTAAAAATGTGACAATATCTCTTTCG
* * * *
4365434 TCATATATAAGTTGATTTTAATGTATTATCCGTGACGATATAAA-TCATTAATAACAAAATTTTA
65 TCATATATAAGTTGATTTTAATGCATTATCCGTGACAATATAAACT-ATCAATAACAAAATCTTA
** ** * * * * *
4365498 CATAATTTAGTGACATAATTAGTTGTCATTGAATATTAATCATATAGTGCCGTTATATATAAATG
129 CATAATTTAGTGACATAACCAACTGTCA-TAAATATAAATCATAAAGTGACGTTATACATAAATG
** * * *
4365563 TCATTCATGCTACTATTAAGTGACGA-TGTACTACGTTACTAAAAATGTGACAAT-TTTCTTTTC
1 TCATTCATAATACTATTAAGTAAC-ATTATACTACGTTACTAAAAATGTGACAATATCTC-TTTC
*
4365626 GTCACATATA
64 GTCATATATA
4365636 CAATGAAATT
Statistics
Matches: 222, Mismatches: 39, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
191 1 0.00
192 28 0.13
193 146 0.66
194 46 0.21
195 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (192 bp):
TCATTCATAATACTATTAAGTAACATTATACTACGTTACTAAAAATGTGACAATATCTCTTTCGT
CATATATAAGTTGATTTTAATGCATTATCCGTGACAATATAAACTATCAATAACAAAATCTTACA
TAATTTAGTGACATAACCAACTGTCATAAATATAAATCATAAAGTGACGTTATACATAAATG
Found at i:4368861 original size:19 final size:19
Alignment explanation
Indices: 4368825--4368863 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4368815 AAAAAAGTTA
* *
4368825 TTATTTTAATCTTATACAT
1 TTATATTAATCCTATACAT
*
4368844 TTATATTAATCCTCTACAT
1 TTATATTAATCCTATACAT
4368863 T
1 T
4368864 AATAGCATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (19 bp):
TTATATTAATCCTATACAT
Found at i:4374584 original size:2 final size:2
Alignment explanation
Indices: 4374573--4374610 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
4374563 GTATGAATGA
4374573 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4374611 TATGTTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4382218 original size:20 final size:20
Alignment explanation
Indices: 4382175--4382215 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
4382165 ATGTATATTC
4382175 AATGCTGAAATTTAATTATGG
1 AATGCTGAAATTTAATTA-GG
*
4382196 AATGCTGAATTTTAAGTTAG
1 AATGCTGAAATTTAA-TTAG
4382216 AATATTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.39
Consensus pattern (20 bp):
AATGCTGAAATTTAATTAGG
Found at i:4385857 original size:27 final size:28
Alignment explanation
Indices: 4385827--4385885 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 28
4385817 TAAACTTTTG
4385827 AGAATT-GAAATC-AAGCTTAAAGAAAA-A
1 AGAATTAGAAATCGAAG-TT-AAGAAAAGA
4385854 AGAATTAGAAATCGAAGTTAAGAAAAGA
1 AGAATTAGAAATCGAAGTTAAGAAAAGA
4385882 AGAA
1 AGAA
4385886 GAAAAGTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 13 0.45
28 13 0.45
29 3 0.10
ACGTcount: A:0.59, C:0.05, G:0.19, T:0.17
Consensus pattern (28 bp):
AGAATTAGAAATCGAAGTTAAGAAAAGA
Found at i:4398651 original size:21 final size:21
Alignment explanation
Indices: 4398611--4398664 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
4398601 TTATGTTGTT
* *
4398611 TTTTTTAACTTTTTTTAATT-G
1 TTTTTTAA-TTTTCTAAATTAG
4398632 TTATTTTAATTTTCTAAATTAGG
1 TT-TTTTAATTTTCTAAATTA-G
4398655 TTTTTTAATT
1 TTTTTTAATT
4398665 GTTTTGGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 11 0.39
22 14 0.50
23 3 0.11
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (21 bp):
TTTTTTAATTTTCTAAATTAG
Found at i:4401467 original size:15 final size:15
Alignment explanation
Indices: 4401447--4401477 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4401437 AGAACTCGAC
4401447 AAAAATAAAGCTGTA
1 AAAAATAAAGCTGTA
4401462 AAAAATAAAGCTGTA
1 AAAAATAAAGCTGTA
4401477 A
1 A
4401478 CACGAGGCAA
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:0.61, C:0.06, G:0.13, T:0.19
Consensus pattern (15 bp):
AAAAATAAAGCTGTA
Found at i:4407008 original size:55 final size:53
Alignment explanation
Indices: 4406943--4407120 Score: 159
Period size: 55 Copynumber: 3.3 Consensus size: 53
4406933 TCCTTGATAA
*
4406943 GATGTTTTCAAATGTACTTTTAAAGGAAGCTAAACCTAATTTTTAGGGATTTCTT
1 GATGTTTTCAAATGTACTTTTAAA-GAAGCTAAGCCTAATTTTTAGGG-TTTCTT
* *
4406998 GATGTTTTCAAATGAGTAC--TT--AGAAACTAAGCCTGATTTTTAGGGTTTCTT
1 GATGTTTTCAAAT--GTACTTTTAAAGAAGCTAAGCCTAATTTTTAGGGTTTCTT
* * * *
4407049 GATGATGATTTCCAATG-AATTTGTGAAAGAAGATAAGTCTAATTTTTAGGGGTTTCTT
1 GATG-T--TTTCAAATGTACTTT-T-AAAGAAGCTAAGCCTAATTTTTA-GGGTTTCTT
*
4407107 GAAGTTTTCAAATG
1 GATGTTTTCAAATG
4407121 ATTTTTAGAA
Statistics
Matches: 100, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
51 11 0.11
52 22 0.22
53 2 0.02
54 8 0.08
55 23 0.23
57 22 0.22
58 12 0.12
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (53 bp):
GATGTTTTCAAATGTACTTTTAAAGAAGCTAAGCCTAATTTTTAGGGTTTCTT
Found at i:4407143 original size:51 final size:51
Alignment explanation
Indices: 4406978--4407145 Score: 151
Period size: 51 Copynumber: 3.2 Consensus size: 51
4406968 GAAGCTAAAC
* * ** *
4406978 CTAATTTTTAGGGATTTCTTGATGTTTTCAAATGAGTACTTAGAAACTAAGC
1 CTAATTTTTAGGGGTTTCTTGAAGTTTTCAAATGA-TTTTTAGAAACTAAGT
* * * *
4407030 CTGATTTTTA-GGGTTTCTTGATGATGATTTCCAATGAATTTGTGAAAGAAGA-TAAGT
1 CTAATTTTTAGGGGTTTCTTGA--A-GTTTTCAAATG-ATTT-T--TAGAA-ACTAAGT
4407087 CTAATTTTTAGGGGTTTCTTGAAGTTTTCAAATGATTTTTAGAAACTAAGT
1 CTAATTTTTAGGGGTTTCTTGAAGTTTTCAAATGATTTTTAGAAACTAAGT
*
4407138 ATAATTTT
1 CTAATTTT
4407146 CATGGTTTTT
Statistics
Matches: 92, Mismatches: 14, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
50 1 0.01
51 26 0.28
52 9 0.10
53 1 0.01
54 14 0.15
55 11 0.12
56 1 0.01
57 17 0.18
58 12 0.13
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.43
Consensus pattern (51 bp):
CTAATTTTTAGGGGTTTCTTGAAGTTTTCAAATGATTTTTAGAAACTAAGT
Found at i:4407169 original size:108 final size:109
Alignment explanation
Indices: 4406978--4407176 Score: 274
Period size: 108 Copynumber: 1.8 Consensus size: 109
4406968 GAAGCTAAAC
* * * *
4406978 CTAATTTTTAGGGATTTCTTGATGTTTTCAAATGAGTACTTAGAAACTAAGCCTGATTTTTAGGG
1 CTAATTTTTAGGGATTTCTTGAAGTTTTCAAATGAGTACTTAGAAACTAAGCATAATTTTCAGGG
* *
4407043 TTTCTTGATGATGATTTCCAATGAATTTGTGAAAGAAGATAAGT
66 TTTCTTAATGATGATTTCCAAAGAATTTGTGAAAGAAGATAAGT
* ** * *
4407087 CTAATTTTTAGGGGTTTCTTGAAGTTTTCAAATGA-TTTTTAGAAACTAAGTATAATTTTCATGG
1 CTAATTTTTAGGGATTTCTTGAAGTTTTCAAATGAGTACTTAGAAACTAAGCATAATTTTCAGGG
* *
4407151 TTTTTTAATGATTATTTCCAAAGAAT
66 TTTCTTAATGATGATTTCCAAAGAAT
4407177 GTTTTAGAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
108 44 0.57
109 33 0.43
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.43
Consensus pattern (109 bp):
CTAATTTTTAGGGATTTCTTGAAGTTTTCAAATGAGTACTTAGAAACTAAGCATAATTTTCAGGG
TTTCTTAATGATGATTTCCAAAGAATTTGTGAAAGAAGATAAGT
Found at i:4407218 original size:56 final size:54
Alignment explanation
Indices: 4407017--4407218 Score: 141
Period size: 56 Copynumber: 3.7 Consensus size: 54
4407007 AAATGAGTAC
* * * *
4407017 TTAGAAACTAAGCCTGATTTTTA-GGGTTTCTTGATGATGATTTCCAATGAATTT
1 TTAGAAACTAAGCCT-AATTTTAGGGGTTTCTAGATGATTATTTCCAAAGAATTT
* * * *
4407071 GTGAAAGAAGA-TAAGTCTAATTTTTAGGGGTTTCTTGA--AGT-TTT-CAAATG-ATTT
1 -T--TAGAA-ACTAAGCCTAA-TTTTAGGGGTTTCTAGATGATTATTTCCAAA-GAATTT
** * * *
4407125 TTAGAAACTAAGTATAATTTTCATGGTTTTTTA-ATGATTATTTCCAAAGAATGTT
1 TTAGAAACTAAGCCTAATTTT-AGGGGTTTCTAGATGATTATTTCCAAAGAAT-TT
4407180 TTAGAAAACTAAGCCTAATTTTAGGGGTTTCTAGATGAT
1 TTAG-AAACTAAGCCTAATTTTAGGGGTTTCTAGATGAT
4407219 AATTGAAAAT
Statistics
Matches: 113, Mismatches: 18, Indels: 31
0.70 0.11 0.19
Matches are distributed among these distances:
50 6 0.05
51 19 0.17
52 2 0.02
53 5 0.04
54 13 0.12
55 19 0.17
56 22 0.19
57 15 0.13
58 12 0.11
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (54 bp):
TTAGAAACTAAGCCTAATTTTAGGGGTTTCTAGATGATTATTTCCAAAGAATTT
Found at i:4407552 original size:59 final size:60
Alignment explanation
Indices: 4407401--4407616 Score: 292
Period size: 60 Copynumber: 3.6 Consensus size: 60
4407391 GGATGTTTTC
* * * * * * * *
4407401 AACATTTCAT-TTACTCGATTCACAAAACTTCGAATCAACAATGCTCTACTAGTGGGGTT
1 AACATTTCCTATTGCTCGATTCACAACACTTTGAATCAGCAACGCCCTACTAGAGGGGTT
* *
4407460 AACATTTCCTATTGCTCGATTCACAATACTTTGAATCAGCAACGCCCTACCAGAGGGGTT
1 AACATTTCCTATTGCTCGATTCACAACACTTTGAATCAGCAACGCCCTACTAGAGGGGTT
* *
4407520 AACATTTCCT-TTGCTCGATTCACAACACTTTGAATCAGCAACGCCCCACTAGAGTGGTT
1 AACATTTCCTATTGCTCGATTCACAACACTTTGAATCAGCAACGCCCTACTAGAGGGGTT
* *
4407579 AACATTTCCTATTGCTCGATTCATAACATTTTGAATCA
1 AACATTTCCTATTGCTCGATTCACAACACTTTGAATCA
4407617 ACAAAATTCC
Statistics
Matches: 140, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
59 64 0.46
60 76 0.54
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (60 bp):
AACATTTCCTATTGCTCGATTCACAACACTTTGAATCAGCAACGCCCTACTAGAGGGGTT
Found at i:4407612 original size:119 final size:119
Alignment explanation
Indices: 4407401--4407616 Score: 315
Period size: 119 Copynumber: 1.8 Consensus size: 119
4407391 GGATGTTTTC
* * * *
4407401 AACATTTCATTTACTCGATTCACAAAACTTCGAATCAACAATGCTCTACTAGTGGGGTTAACATT
1 AACATTTCATTTACTCGATTCACAAAACTTCGAATCAACAACGCCCCACTAGAGGGGTTAACATT
*
4407466 TCCTATTGCTCGATTCACAATACTTTGAATCAGCAACGCCCTACCAGAGGGGTT
66 TCCTATTGCTCGATTCACAACACTTTGAATCAGCAACGCCCTACCAGAGGGGTT
* * * * * *
4407520 AACATTTCCTTTGCTCGATTCACAACACTTTGAATCAGCAACGCCCCACTAGAGTGGTTAACATT
1 AACATTTCATTTACTCGATTCACAAAACTTCGAATCAACAACGCCCCACTAGAGGGGTTAACATT
* *
4407585 TCCTATTGCTCGATTCATAACATTTTGAATCA
66 TCCTATTGCTCGATTCACAACACTTTGAATCA
4407617 ACAAAATTCC
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
119 84 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (119 bp):
AACATTTCATTTACTCGATTCACAAAACTTCGAATCAACAACGCCCCACTAGAGGGGTTAACATT
TCCTATTGCTCGATTCACAACACTTTGAATCAGCAACGCCCTACCAGAGGGGTT
Found at i:4409496 original size:23 final size:24
Alignment explanation
Indices: 4409470--4409529 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
4409460 TGTTTTTACT
4409470 ATTTTTTATTATTT-GTTATTTAA
1 ATTTTTTATTATTTGGTTATTTAA
* *
4409493 ATTTTTTA-AATTTGGTTATTTTA
1 ATTTTTTATTATTTGGTTATTTAA
4409516 ATTGTTTTGATTAT
1 ATT-TTTT-ATTAT
4409530 CTTATGGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 4 0.13
23 19 0.63
24 4 0.13
25 1 0.03
26 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (24 bp):
ATTTTTTATTATTTGGTTATTTAA
Found at i:4409849 original size:15 final size:15
Alignment explanation
Indices: 4409829--4409867 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4409819 AAACTTTTAA
4409829 ATATTTTAGAACTCG
1 ATATTTTAGAACTCG
* *
4409844 ATATTTTAGATCTTG
1 ATATTTTAGAACTCG
*
4409859 ACATTTTAG
1 ATATTTTAG
4409868 TCCCCGAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (15 bp):
ATATTTTAGAACTCG
Found at i:4421873 original size:20 final size:20
Alignment explanation
Indices: 4421844--4421886 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
4421834 ATTCCACCAT
*
4421844 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
4421864 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
4421884 ATG
1 ATG
4421887 GGCTCTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:4423676 original size:15 final size:15
Alignment explanation
Indices: 4423656--4423704 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
4423646 TTGAGACATT
4423656 ACCCGCCCCGTATCC
1 ACCCGCCCCGTATCC
4423671 ACCCGCCCCGTATCC
1 ACCCGCCCCGTATCC
* **
4423686 GCCCGCCCCACATCC
1 ACCCGCCCCGTATCC
4423701 ACCC
1 ACCC
4423705 ACCCAGCTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.14, C:0.63, G:0.12, T:0.10
Consensus pattern (15 bp):
ACCCGCCCCGTATCC
Found at i:4426853 original size:16 final size:16
Alignment explanation
Indices: 4426832--4426867 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
4426822 AGTTAGTTGA
4426832 CCTGTCATATGTTCGT
1 CCTGTCATATGTTCGT
4426848 CCTGTCATATGTTCGT
1 CCTGTCATATGTTCGT
4426864 CCTG
1 CCTG
4426868 AGGGAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.28, G:0.19, T:0.42
Consensus pattern (16 bp):
CCTGTCATATGTTCGT
Found at i:4434293 original size:17 final size:17
Alignment explanation
Indices: 4434271--4434312 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
4434261 TGACTAAAAG
4434271 GGATAAACGCTTGAATA
1 GGATAAACGCTTGAATA
*
4434288 GGATAAATGCTTGAATA
1 GGATAAACGCTTGAATA
4434305 GGATAAAC
1 GGATAAAC
4434313 AATGACTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.43, C:0.10, G:0.24, T:0.24
Consensus pattern (17 bp):
GGATAAACGCTTGAATA
Done.