Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 140 of 320
Found at i:45793173 original size:13 final size:12
Alignment explanation
Indices: 45793045--45793233 Score: 51
Period size: 13 Copynumber: 15.8 Consensus size: 12
45793035 TACTTAGGTA
45793045 TTATATTATATAT
1 TTATATTATAT-T
* *
45793058 ATT-TTTTATATG
1 -TTATATTATATT
45793070 TTATA-TATACTT
1 TTATATTATA-TT
*
45793082 TTAATATTATATA
1 TT-ATATTATATT
45793095 TTATA-TATA--
1 TTATATTATATT
*
45793104 TCATA-TATATT
1 TTATATTATATT
*
45793115 TT-TA--ATGTT
1 TTATATTATATT
* *
45793124 GTATTATTATGTT
1 TTA-TATTATATT
45793137 TTAATATTATATT
1 TT-ATATTATATT
* *
45793150 ATGTA-TATATT
1 TTATATTATATT
45793161 TTCATATTATATT
1 TT-ATATTATATT
*
45793174 ATGTACA-TATATT
1 -T-TATATTATATT
* * *
45793187 TTCTAATATTTT
1 TTATATTATATT
*
45793199 TTATATATATTATC
1 TTATAT-TA-TATT
*
45793213 TTGTA-TATATT
1 TTATATTATATT
45793224 TTGATATTAT
1 TT-ATATTAT
45793234 TAGTTATATA
Statistics
Matches: 129, Mismatches: 26, Indels: 41
0.66 0.13 0.21
Matches are distributed among these distances:
9 13 0.10
10 2 0.02
11 27 0.21
12 25 0.19
13 45 0.35
14 16 0.12
15 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.59
Consensus pattern (12 bp):
TTATATTATATT
Found at i:45793252 original size:48 final size:47
Alignment explanation
Indices: 45793192--45793307 Score: 130
Period size: 48 Copynumber: 2.4 Consensus size: 47
45793182 ATATTTTCTA
* * *
45793192 ATAT-TTTTTATATATATTATCTTGTATATA-TTTTGATATTATTAGTT
1 ATATATTTTTATATATATTATCGTGTATATACTTTAG-TATCA-TAGTT
45793239 ATATATTTTTATATACTATT-TCGTGTATATACTTTAGTATCATAGTT
1 ATATATTTTTATATA-TATTATCGTGTATATACTTTAGTATCATAGTT
* *
45793286 TTATATTTTTATACTATCTTAT
1 ATATATTTTTATA-TATATTAT
45793308 ATATATATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
47 24 0.41
48 27 0.46
49 8 0.14
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (47 bp):
ATATATTTTTATATATATTATCGTGTATATACTTTAGTATCATAGTT
Found at i:45793258 original size:24 final size:23
Alignment explanation
Indices: 45793216--45793321 Score: 60
Period size: 22 Copynumber: 4.6 Consensus size: 23
45793206 TATTATCTTG
*
45793216 TATATATTTTGATATTATTAGT-
1 TATATATTTTTATATTATTAGTA
* *
45793238 TATATATTTTTATATACTATTTCGTG
1 TATATATTTTTATAT--TA-TTAGTA
* *
45793264 TATATA-CTTTAGTATCA-TAGT-
1 TATATATTTTTA-TATTATTAGTA
* *
45793285 TTTATATTTTTATACTATCTTA-TA
1 TATATATTTTTATA-T-TATTAGTA
45793309 TATATATTTTTAT
1 TATATATTTTTAT
45793322 GCATATATTT
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
21 7 0.11
22 22 0.34
23 1 0.02
24 17 0.27
25 8 0.12
26 9 0.14
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (23 bp):
TATATATTTTTATATTATTAGTA
Found at i:45793881 original size:15 final size:15
Alignment explanation
Indices: 45793863--45793891 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45793853 ATTATGCATA
45793863 TATATATTTAGTATG
1 TATATATTTAGTATG
45793878 TATATATTTAGTAT
1 TATATATTTAGTAT
45793892 TATTATGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
TATATATTTAGTATG
Found at i:45793898 original size:21 final size:19
Alignment explanation
Indices: 45793836--45793907 Score: 63
Period size: 21 Copynumber: 3.6 Consensus size: 19
45793826 TAATATATAT
*
45793836 TGTATATGTTTATTTATATTA
1 TGTATATATTTA-TT-TATTA
* * *
45793857 TGCATATATATATTTAGTA
1 TGTATATATTTATTTATTA
45793876 TGTATATATTTAGTATTATTA
1 TGTATATATTTA-T-TTATTA
*
45793897 TGTCTATATTT
1 TGTATATATTT
45793908 TTCATTCCTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 14 0.34
20 3 0.07
21 24 0.59
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.57
Consensus pattern (19 bp):
TGTATATATTTATTTATTA
Found at i:45805605 original size:41 final size:42
Alignment explanation
Indices: 45805551--45805630 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
45805541 TATTATGTTT
45805551 AAAAAAGAAATCAAGATGAAAACCCAAAAAGGGCATCTTAAA
1 AAAAAAGAAATCAAGATGAAAACCCAAAAAGGGCATCTTAAA
* * * *
45805593 AAAAAAG-GATCAAGGTGAAAACCCGAAAAGGGCGTCTT
1 AAAAAAGAAATCAAGATGAAAACCCAAAAAGGGCATCTT
45805631 GATTAACACA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
41 27 0.79
42 7 0.21
ACGTcount: A:0.53, C:0.15, G:0.20, T:0.12
Consensus pattern (42 bp):
AAAAAAGAAATCAAGATGAAAACCCAAAAAGGGCATCTTAAA
Found at i:45806511 original size:14 final size:14
Alignment explanation
Indices: 45806492--45806526 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
45806482 CGTTGAGGTA
*
45806492 TTTTCAATTTCTAT
1 TTTTCAATTTATAT
45806506 TTTTCAATTTATAT
1 TTTTCAATTTATAT
45806520 TTTTCAA
1 TTTTCAA
45806527 AAATCAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:45806637 original size:88 final size:86
Alignment explanation
Indices: 45806433--45807165 Score: 530
Period size: 88 Copynumber: 8.5 Consensus size: 86
45806423 ATGTTCTTAT
* ** * * * ** * *
45806433 TTTTCAAAATTCAACTCATATTGCGAGAAATGAATTAAACCTCAGGATAC-GTTGAGGTATTTTC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACAGCTGAGGAATTTTC
* * *
45806497 AATTTCTATTTTTCAATTTATAT
66 AATTTCT-GTTTTCAATTTCT-C
45806520 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC-GCTGAGGAATTTTC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACAGCTGAGGAATTTTC
*
45806584 -ATTTTTGCTTTTCAATCTT-TGC
66 AATTTCTG-TTTTCAAT-TTCT-C
* * * *
45806606 TTTTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGGCAT
1 TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCACA-GCTGAGGAAT
*
45806670 TTTCAATTT-T-TATTT--A--T-AC
62 TTTCAATTTCTGT-TTTCAATTTCTC
* * * *
45806689 TTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTC-GGGCCACATGCCGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CACA-GCTGAGGAATTT
* *
45806753 TCAAAATTCTGTTTTTCAATTTCTAT
64 TC-AATTTCTG-TTTTCAATTTCT-C
* *
45806779 TTCTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATAAGCTGAGGTAA-
1 TT-TT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA-CAGCTGAGG-AAT
*
45806843 TTTCAA-TTCTTGTTTTTTAATTTCTGC
62 TTTCAATTTC-TG-TTTTCAATTTCT-C
* * * *
45806870 TTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGGCATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCACA-GCTGAGGAATTT
*
45806934 TC-A-----GTTTTCAATTTCTA
64 TCAATTTCTGTTTTCAATTTCTC
* * * * * *
45806951 TTTTCAAAAATTAACTCATATTACGAGAGGTGAGTTTG-GCCTCAGGACGC-GTTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAG-TTGAGCCTCAGGGCACAGCTGAGGAATTTT
* *
45807014 CAATTTCTGTCTTTTCAATTTATA
65 CAATTTCTG--TTTTCAATTTCTC
* *
45807038 TCTTTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACA-CTGCA-GTATTT
1 T-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACAGCTG-AGGAATTT
** * * **
45807101 TCAAAATCTGCTTTCCAAATT-AA
64 TCAATTTCTG-TTTTCAATTTCTC
* * * *
45807124 GTTTCAAAAACCAACTCAAATTGCGAGAGATGAGTTGAGCCT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
45807166 TGGCTCACGT
Statistics
Matches: 536, Mismatches: 66, Indels: 90
0.77 0.10 0.13
Matches are distributed among these distances:
79 12 0.02
80 1 0.00
81 92 0.17
82 20 0.04
83 8 0.01
84 4 0.01
85 39 0.07
86 21 0.04
87 84 0.16
88 102 0.19
89 55 0.10
90 21 0.04
91 24 0.04
92 49 0.09
93 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (86 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACAGCTGAGGAATTTTC
AATTTCTGTTTTCAATTTCTC
Found at i:45806839 original size:173 final size:168
Alignment explanation
Indices: 45806433--45807259 Score: 572
Period size: 173 Copynumber: 4.8 Consensus size: 168
45806423 ATGTTCTTAT
* ** * * * *
45806433 TTTTCAAAATTCAACTCATATTGCGAGAAATGAATTAAACCTCAGGAT-AC--GTTGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACAAGCTGAGGTATTT
*
45806495 TCAATTTCTATTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
65 TCAA----T-TTTTT-AATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * * *
45806560 CTCAGGGCAC--GCTGAGGAATTTTCATTTTTGCTTTTCAATCTTTGC
124 CTCAGGGCACATGCCGAGGTATTTTCA-ATCTGCTTTTCAAT-TTT-A
* * * *
45806606 TTTTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGGCAT
1 TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACAAGCTGAGGTAT
* *
45806670 TTTCAA-TTTTT-ATTTATACTTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTC-
63 TTTCAATTTTTTAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
45806732 GGGCCACATGCCGAGGTATTTTCAAAATTCTGTTTTTCAATTTCTA
128 GGG-CACATGCCGAGGTATTTTC--AA-TCTGCTTTTCAATTT-TA
* *
45806778 TTTCTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATAAGCTGAGGTAA
1 -TT-TT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACAAGCTGAGGTAT
* * *
45806843 TTTCAATTCTTGTTTTTTAATTTCTGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGA
63 TTTCAA------TTTTTTAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * *
45806908 GCCT-TGGCTCACATGCTGAGGCATTTTC-A---G-TTTTCAATTTCTA
122 GCCTCAGG-GCACATGCCGAGGTATTTTCAATCTGCTTTTCAATTT-TA
* * ** *
45806951 TTTTCAAAAATTAACTCATATTACGAGAGGTGAGTTTG-GCCTCAGG--ACGCGTTGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAG-TTGAGCCTCAGGTCACAAGCTGAGGTATTT
*
45807013 TCAATTTCTGTCTTTTCAATTTATA-TCTTTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGA
65 TCAA----T-T-TTTT-AATTTATACT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * *
45807077 GCCTCAGGGCACACTG-C-A-GTATTTTCAAAATCTGCTTTCCAAATTAA
122 GCCTCAGGGCACA-TGCCGAGGTATTTTC--AATCTGCTTTTCAATTTTA
* * * * * ** * *
45807124 GTTTCAAAAACCAACTCAAATTGCGAGAGATGAGTTGAGCCT-TGGCTCACGTGCTAAGTTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACAAGCTGAGGTATTT
* * * * * ** *
45807188 TCAA-TTTCT-ATTTTTAATTTT-AAAGAGTCAATTCATATTGCGAGAAATGAATTGAGCCTCAG
65 TCAATTTTTTAATTTATACTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
45807250 GATCACATGC
129 G-GCACATGC
45807260 TGAGTAAAGA
Statistics
Matches: 533, Mismatches: 73, Indels: 102
0.75 0.10 0.14
Matches are distributed among these distances:
165 3 0.01
166 47 0.09
167 13 0.02
168 27 0.05
169 101 0.19
170 41 0.08
171 22 0.04
172 9 0.02
173 121 0.23
174 16 0.03
175 49 0.09
177 14 0.03
178 1 0.00
180 5 0.01
181 64 0.12
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (168 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACAAGCTGAGGTATTTT
CAATTTTTTAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG
CACATGCCGAGGTATTTTCAATCTGCTTTTCAATTTTA
Found at i:45806904 original size:89 final size:87
Alignment explanation
Indices: 45806433--45807263 Score: 575
Period size: 81 Copynumber: 9.7 Consensus size: 87
45806423 ATGTTCTTAT
* ** * * * * *
45806433 TTTTCAAAATTCAACTCATATTGCGAGAAATGAATTAAACCTCAGGAT-AC--GTTGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACATGCTGAGGTAATT
* *
45806495 TCAATTTCTATTTTTCAATTTATA
65 TCAA-TTCTGTTTTTCAATTTCTA
*
45806519 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC--GCTGAGG-AATT
1 -TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTAA-T
* * * *
45806581 TTCATTTTTGCTTTTCAATCTT-TGC
64 TTCAATTCTGTTTTTCAAT-TTCT-A
* * * *
45806606 TTTTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGGCAT
1 TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACATGCTGAGGTAA
*
45806670 TTTCAA-----TTTTT--ATTTATA
63 TTTCAATTCTGTTTTTCAATTTCTA
* * * * * *
45806688 CTTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCGGGCCACATGCCGAGGTATTT
1 -TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTAATT
45806753 TCAAAATTCTGTTTTTCAATTTCTA
65 TC--AATTCTGTTTTTCAATTTCTA
* *
45806778 TTTCTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATAAGCTGAGGTAA
1 -TT-TT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTAA
* *
45806843 TTTCAATTCTTGTTTTTTAATTTCTGC
63 TTTCAATTC-TGTTTTTCAATTTCT-A
* * *
45806870 TTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGG-CA-T
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACATGCTGAGGTAATT
*
45806932 T---TTCAG-TTTTCAATTTCTA
65 TCAATTCTGTTTTTCAATTTCTA
* * ** * *
45806951 TTTTCAAAAATTAACTCATATTACGAGAGGTGAGTTTG-GCCTCAGG--ACGCGTTGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAG-TTGAGCCTCAGGTCACATGCTGAGGTAATT
*
45807013 TCAATTTCTGTCTTTTCAATTTATA
65 TCAA-TTCTGT-TTTTCAATTTCTA
* * *
45807038 TCTTTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACA--CTGCA-GTATT
1 T-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTG-AGGTAAT
* * * * *
45807100 TTCAAAATCTGCTTTCCAAATT-AA
64 TTC-AATTCTGTTTTTCAATTTCTA
* * * * * * * * *
45807124 GTTTCAAAAACCAACTCAAATTGCGAGAGATGAGTTGAGCCT-TGGCTCACGTGCTAAGTTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACATGCTGAGGTAATT
*
45807188 TCAATTTCTATTTTT-AATTT-TA
65 TCAA-TTCTGTTTTTCAATTTCTA
* * * ** *
45807210 -----AAGAGTCAATTCATATTGCGAGAAATGAATTGAGCCTCAGGATCACATGCTGAG
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACATGCTGAG
45807264 TAAAGAATAA
Statistics
Matches: 601, Mismatches: 94, Indels: 103
0.75 0.12 0.13
Matches are distributed among these distances:
79 8 0.01
81 120 0.20
82 32 0.05
83 11 0.02
84 5 0.01
85 48 0.08
86 27 0.04
87 98 0.16
88 99 0.16
89 51 0.08
90 29 0.05
91 19 0.03
92 54 0.09
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (87 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTAATTT
CAATTCTGTTTTTCAATTTCTA
Found at i:45808401 original size:2 final size:2
Alignment explanation
Indices: 45808389--45808461 Score: 54
Period size: 2 Copynumber: 39.5 Consensus size: 2
45808379 ACTTAGGTAT
* *
45808389 TA TA T- TA TA TA TA TA T- TA TA TG T- TA TA TA TA CT- TT TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
45808427 TA T- TA TA TA T- TA TA TA T- TA TA TA TA TCA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA T
45808462 TTTTAGTGTT
Statistics
Matches: 59, Mismatches: 2, Indels: 20
0.73 0.02 0.25
Matches are distributed among these distances:
1 8 0.14
2 48 0.81
3 3 0.05
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (2 bp):
TA
Found at i:45808407 original size:16 final size:16
Alignment explanation
Indices: 45808386--45808462 Score: 77
Period size: 18 Copynumber: 4.6 Consensus size: 16
45808376 TATACTTAGG
45808386 TATTATATTATATATA
1 TATTATATTATATATA
45808402 TATTATATGTTATATATA
1 TATTATA--TTATATATA
*
45808420 CTTTTAATATTATATAT-
1 -TATT-ATATTATATATA
45808437 TA-TATATTATATATA
1 TATTATATTATATATA
45808452 TCATATATATT
1 T-AT-TATATT
45808463 TTTAGTGTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
14 11 0.22
15 2 0.04
16 9 0.18
18 23 0.45
19 3 0.06
20 3 0.06
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (16 bp):
TATTATATTATATATA
Found at i:45808494 original size:13 final size:12
Alignment explanation
Indices: 45808476--45808556 Score: 53
Period size: 13 Copynumber: 6.8 Consensus size: 12
45808466 AGTGTTGTAT
45808476 TATTATATTTTAA
1 TATTATATTTT-A
* *
45808489 TATTATATTATG
1 TATTATATTTTA
45808501 TA-TATATTTTCA
1 TATTATATTTT-A
45808513 TATTATATTATGTA
1 TATTATATT-T-TA
* *
45808527 CA-TATATTTTC
1 TATTATATTTTA
*
45808538 TAATAT-TTTTA
1 TATTATATTTTA
45808549 TA-TATATT
1 TATTATATT
45808557 ATCATGTACA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
10 3 0.06
11 17 0.31
12 8 0.15
13 22 0.41
14 3 0.06
15 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATATTTTA
Found at i:45808506 original size:24 final size:25
Alignment explanation
Indices: 45808479--45808536 Score: 91
Period size: 24 Copynumber: 2.3 Consensus size: 25
45808469 GTTGTATTAT
45808479 TATATTTTAATATTATATTATGT-A
1 TATATTTTAATATTATATTATGTAA
*
45808503 TATATTTTCATATTATATTATGTACA
1 TATATTTTAATATTATATTATGTA-A
45808529 TATATTTT
1 TATATTTT
45808537 CTAATATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 22 0.71
26 9 0.29
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (25 bp):
TATATTTTAATATTATATTATGTAA
Found at i:45808507 original size:16 final size:15
Alignment explanation
Indices: 45808386--45808508 Score: 73
Period size: 16 Copynumber: 8.3 Consensus size: 15
45808376 TATACTTAGG
45808386 TATTATATTATATATA
1 TATTATATTAT-TATA
*
45808402 TATTATA-TGTTATA
1 TATTATATTATTATA
*
45808416 TA-TA-CTT-TTA-A
1 TATTATATTATTATA
45808427 TATTATA-TATTATA
1 TATTATATTATTATA
45808441 TATTATATATATCATATA
1 TATTATAT-TAT--TATA
* * * *
45808459 TATTTTTAGTGTTGTA
1 TA-TTATATTATTATA
45808475 TTATTATATT-TTA-A
1 -TATTATATTATTATA
45808489 TATTATATTATGTATA
1 TATTATATTAT-TATA
45808505 TATT
1 TATT
45808509 TTCATATTAT
Statistics
Matches: 83, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
11 3 0.04
12 6 0.07
13 15 0.18
14 16 0.19
15 6 0.07
16 23 0.28
17 2 0.02
18 8 0.10
19 4 0.05
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (15 bp):
TATTATATTATTATA
Found at i:45808549 original size:26 final size:26
Alignment explanation
Indices: 45808479--45808544 Score: 86
Period size: 24 Copynumber: 2.6 Consensus size: 26
45808469 GTTGTATTAT
45808479 TATA-TTT-TAATATTATATTATGTA
1 TATATTTTCTAATATTATATTATGTA
45808503 TATATTTTC--ATATTATATTATGTACA
1 TATATTTTCTAATATTATATTATGT--A
45808529 TATATTTTCTAATATT
1 TATATTTTCTAATATT
45808545 TTTATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
24 18 0.50
25 3 0.08
26 10 0.28
28 5 0.14
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (26 bp):
TATATTTTCTAATATTATATTATGTA
Found at i:45808570 original size:36 final size:35
Alignment explanation
Indices: 45808504--45808572 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
45808494 TATTATGTAT
*
45808504 ATATTTTCATATTATATTATGTACATATATTTTCTA
1 ATATTTTCATATTATATCATGTACA-ATATTTTCTA
*
45808540 ATATTTTTATATATATTATCATGTAC-ATATTTT
1 ATATTTTCATAT-TA-TATCATGTACAATATTTT
45808573 GATATTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 18 0.62
37 2 0.07
38 9 0.31
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (35 bp):
ATATTTTCATATTATATCATGTACAATATTTTCTA
Found at i:45808640 original size:47 final size:48
Alignment explanation
Indices: 45808540--45808646 Score: 139
Period size: 48 Copynumber: 2.2 Consensus size: 48
45808530 ATATTTTCTA
* *
45808540 ATATTTTTATATATATTATCATGTACATATTTTGATATTATTAGTTAT
1 ATATTTTTATATATATTATCATGTACATATTTAGATATCATTAGTTAT
* *
45808588 ATATTTTTATATACTATT-TCGTGTATATACTTTAG-TATCA-TAGTTAT
1 ATATTTTTATATA-TATTATCATGTACATA-TTTAGATATCATTAGTTAT
45808635 ATATTTTTATAT
1 ATATTTTTATAT
45808647 TATCTTATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
47 19 0.36
48 26 0.49
49 8 0.15
ACGTcount: A:0.32, C:0.06, G:0.07, T:0.56
Consensus pattern (48 bp):
ATATTTTTATATATATTATCATGTACATATTTAGATATCATTAGTTAT
Found at i:45809230 original size:15 final size:15
Alignment explanation
Indices: 45809212--45809240 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45809202 ATTATGCATA
45809212 TATATATTTAGTATG
1 TATATATTTAGTATG
45809227 TATATATTTAGTAT
1 TATATATTTAGTAT
45809241 TATTATGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
TATATATTTAGTATG
Found at i:45809247 original size:21 final size:19
Alignment explanation
Indices: 45809185--45809256 Score: 63
Period size: 21 Copynumber: 3.6 Consensus size: 19
45809175 TAATATATAT
*
45809185 TGTATATGTTTATTTATATTA
1 TGTATATATTTA-TT-TATTA
* * *
45809206 TGCATATATATATTTAGTA
1 TGTATATATTTATTTATTA
45809225 TGTATATATTTAGTATTATTA
1 TGTATATATTTA-T-TTATTA
*
45809246 TGTCTATATTT
1 TGTATATATTT
45809257 TTCATTCCTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 14 0.34
20 3 0.07
21 24 0.59
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.57
Consensus pattern (19 bp):
TGTATATATTTATTTATTA
Found at i:45813596 original size:22 final size:22
Alignment explanation
Indices: 45813552--45813686 Score: 98
Period size: 22 Copynumber: 6.2 Consensus size: 22
45813542 TGAAACATTT
45813552 ATTTATATCCCTTGCA--GATTA
1 ATTTATATCCCTTG-AGGGATTA
*
45813573 ATTTATATCTCTTGAGGGATTA
1 ATTTATATCCCTTGAGGGATTA
** * *
45813595 ATTCGTATGCTTTGAGGGATT-
1 ATTTATATCCCTTGAGGGATTA
* * **
45813616 GTGTTATATACCACGAGGGATTA
1 AT-TTATATCCCTTGAGGGATTA
* * *
45813639 ATTTGTATCCCCT-AGGGGATTT
1 ATTTATATCCCTTGA-GGGATTA
*
45813661 AGTTATATCCCTTGAGGGATTA
1 ATTTATATCCCTTGAGGGATTA
45813683 ATTT
1 ATTT
45813687 GAGTATACTC
Statistics
Matches: 84, Mismatches: 24, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
20 1 0.01
21 15 0.18
22 66 0.79
23 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (22 bp):
ATTTATATCCCTTGAGGGATTA
Found at i:45815806 original size:20 final size:22
Alignment explanation
Indices: 45815781--45815831 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
45815771 TTATTATGAG
45815781 TATTATTTTTAATTA-TATAT-
1 TATTATTTTTAATTATTATATA
* *
45815801 TATTATTATTACTTATTATATA
1 TATTATTTTTAATTATTATATA
45815823 TATTATTTT
1 TATTATTTT
45815832 CCTTAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 13 0.50
21 5 0.19
22 8 0.31
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTATTTTTAATTATTATATA
Found at i:45815841 original size:23 final size:24
Alignment explanation
Indices: 45815781--45815846 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
45815771 TTATTATGAG
*
45815781 TATTATT-TTTAATTATATATTAT
1 TATTATTACTTAATTATATATTAT
45815804 TATTATTACTT-ATTATATA-TAT
1 TATTATTACTTAATTATATATTAT
*
45815826 TATT-TTCCTTAAATTAT-TATT
1 TATTATTACTT-AATTATATATT
45815847 TTACATCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 5 0.14
22 9 0.24
23 21 0.57
24 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTATTACTTAATTATATATTAT
Found at i:45817387 original size:6 final size:6
Alignment explanation
Indices: 45817376--45817405 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
45817366 CTAGTGCTTG
45817376 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
45817406 GGTAAACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:45837135 original size:32 final size:32
Alignment explanation
Indices: 45837090--45837154 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
45837080 TCTAGCCTAT
*
45837090 ACATGCCACATTTACATATATCCATTAGTTCA
1 ACATGCCACATTTACATATATCCATAAGTTCA
* *
45837122 ACATGTCATATTTACATATATCCATAAGTTCA
1 ACATGCCACATTTACATATATCCATAAGTTCA
45837154 A
1 A
45837155 AAGTACCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (32 bp):
ACATGCCACATTTACATATATCCATAAGTTCA
Found at i:45844433 original size:13 final size:13
Alignment explanation
Indices: 45844415--45844450 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
45844405 TTTGATAATG
45844415 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* *
45844428 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
45844441 CTTTTGAAAA
1 CTTTTGAAAA
45844451 ATTTTATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:45844754 original size:21 final size:20
Alignment explanation
Indices: 45844718--45844760 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
45844708 AAACTATATT
45844718 TTAAATATTTAAAAATAACTA
1 TTAAATATTTAAAAATAA-TA
**
45844739 TTAAATATTTGTAAATAATA
1 TTAAATATTTAAAAATAATA
45844759 TT
1 TT
45844761 TTAAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TTAAATATTTAAAAATAATA
Found at i:45844770 original size:12 final size:12
Alignment explanation
Indices: 45844741--45844774 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
45844731 AATAACTATT
45844741 AAATATTTGTAAA
1 AAATATTT-TAAA
*
45844754 TAATATTTTAAA
1 AAATATTTTAAA
45844766 AAATATTTT
1 AAATATTTT
45844775 TTTATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
AAATATTTTAAA
Found at i:45851669 original size:106 final size:106
Alignment explanation
Indices: 45851515--45851727 Score: 426
Period size: 106 Copynumber: 2.0 Consensus size: 106
45851505 CAACATATTA
45851515 TTACTATTATATGTTTAATGCTTAAATATTGTATGAAATGTATATGTATATGTATTTGTCTTTAT
1 TTACTATTATATGTTTAATGCTTAAATATTGTATGAAATGTATATGTATATGTATTTGTCTTTAT
45851580 GAAATTGATTCATGATGTCGCAATGACGATTCGACAAAAGT
66 GAAATTGATTCATGATGTCGCAATGACGATTCGACAAAAGT
45851621 TTACTATTATATGTTTAATGCTTAAATATTGTATGAAATGTATATGTATATGTATTTGTCTTTAT
1 TTACTATTATATGTTTAATGCTTAAATATTGTATGAAATGTATATGTATATGTATTTGTCTTTAT
45851686 GAAATTGATTCATGATGTCGCAATGACGATTCGACAAAAGT
66 GAAATTGATTCATGATGTCGCAATGACGATTCGACAAAAGT
45851727 T
1 T
45851728 GGTGTCTCAG
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 107 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (106 bp):
TTACTATTATATGTTTAATGCTTAAATATTGTATGAAATGTATATGTATATGTATTTGTCTTTAT
GAAATTGATTCATGATGTCGCAATGACGATTCGACAAAAGT
Found at i:45855892 original size:23 final size:23
Alignment explanation
Indices: 45855858--45855904 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
45855848 CTAGTATACT
45855858 CAGCCACCGGTAGGACGTACGAG
1 CAGCCACCGGTAGGACGTACGAG
*
45855881 CAGCCACTGGTAGGACGTACGAG
1 CAGCCACCGGTAGGACGTACGAG
45855904 C
1 C
45855905 CTAGCACCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.30, G:0.34, T:0.11
Consensus pattern (23 bp):
CAGCCACCGGTAGGACGTACGAG
Found at i:45864273 original size:48 final size:48
Alignment explanation
Indices: 45864152--45864531 Score: 388
Period size: 48 Copynumber: 7.9 Consensus size: 48
45864142 GGAAAGATGT
* *
45864152 CGATGCCATGT-CCAAGACATGGTCTTACACTGGCTCTCATATATCG-GTGC
1 CGATGCCATGTCCCAA-ACATGGTCTTACACTAGCTCACATATA--GAG-GC
* * * *
45864202 TGATGCCATGTTCCAAACATGGTCTTATACTAGCCCACATATAGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAGGC
** * *** * *
45864250 TAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTGTATAAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAGGC
* * * *
45864298 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAGGC
* * * * * *
45864346 CGATGCCATGTCGCAGACATGGTCTTACACTAGCTCTCGTATAAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAGGC
* * * *
45864394 CGATGCCGTGTTCCAAACATGGTCTTACACTAGGTCACATATCGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAGGC
* * *
45864442 CGATGCCATGT-CCAAGACATGGTCTTACACTAGCTCTCATATAAATGC
1 CGATGCCATGTCCCAA-ACATGGTCTTACACTAGCTCACATATAGAGGC
* * *
45864490 CGATTCCATGTTCCAAACATGGTCTTACACTGGCTCACATAT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
45864532 CCTTAGTATC
Statistics
Matches: 270, Mismatches: 56, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
47 4 0.01
48 224 0.83
49 5 0.02
50 33 0.12
51 4 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAGGC
Found at i:45864339 original size:96 final size:96
Alignment explanation
Indices: 45864153--45864532 Score: 550
Period size: 96 Copynumber: 3.9 Consensus size: 96
45864143 GAAAGATGTC
* ** *
45864153 GATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATATATCGGTGCTGATGCCATGTTCCAA
1 GATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATA--AATGCCGATGCCATGTTCCAA
* * * *
45864218 ACATGGTCTTATACTAGCCCACATATAGAGGCT
64 ACATGGTCTTACACTGGCTCACATATCGAGGCT
* * **
45864251 AATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTGTATAAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAAC
45864316 ATGGTCTTACACTGGCTCACATATCGAGG-T
66 ATGGTCTTACACTGGCTCACATATCGAGGCT
* *
45864346 CGATGCCATGTCGC-AGACATGGTCTTACACTAGCTCTCGTATAAATGCCGATGCCGTGTTCCAA
1 -GATGCCATGTC-CAAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAA
*
45864410 ACATGGTCTTACACTAGG-TCACATATCGAGGCC
64 ACATGGTCTTACACT-GGCTCACATATCGAGGCT
*
45864443 GATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATTCCATGTTCCAAAC
1 GATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAAC
45864508 ATGGTCTTACACTGGCTCACATATC
66 ATGGTCTTACACTGGCTCACATATC
45864533 CTTAGTATCA
Statistics
Matches: 257, Mismatches: 19, Indels: 14
0.89 0.07 0.05
Matches are distributed among these distances:
95 4 0.02
96 213 0.83
97 3 0.01
98 37 0.14
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAAC
ATGGTCTTACACTGGCTCACATATCGAGGCT
Found at i:45864414 original size:144 final size:144
Alignment explanation
Indices: 45864152--45864531 Score: 449
Period size: 144 Copynumber: 2.6 Consensus size: 144
45864142 GGAAAGATGT
**
45864152 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATATATCGGTGCTGATGCCATGTTCCA
1 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATATAAAGGT-C-GATGCCATGTTCCA
* * * * *
45864217 AACATGGTCTTATACTAGCCCACATATAGAGGCTAATGCCATGTCCCAGACATGGTCTTACACTA
64 AACATGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTA
*** *
45864282 GCTCTTGTATAAATGC
129 GCTCACATATAAAGGC
* **
45864298 CGATGCCATGTTCCAA-ACATGGTCTTACACTGGCTCACATATCGAGGTCGATGCCATG-TCGCA
1 CGATGCCATG-TCCAAGACATGGTCTTACACTGGCTCTCATATAAAGGTCGATGCCATGTTC-CA
* * * * * * *
45864361 GACATGGTCTTACACTAGCTCTCGTATAAATGCCGATGCCGTGTTCCAAACATGGTCTTACACTA
64 AACATGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTA
* **
45864426 GGTCACATATCGAGGC
129 GCTCACATATAAAGGC
* * * *
45864442 CGATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATTCCATGTTCCAAA
1 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATATAAAGGTCGATGCCATGTTCCAAA
*
45864507 CATGGTCTTACACTGGCTCACATAT
66 CATGGTCTTACACTAGCTCACATAT
45864532 CCTTAGTATC
Statistics
Matches: 196, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
143 7 0.04
144 143 0.73
145 3 0.02
146 38 0.19
147 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (144 bp):
CGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATATAAAGGTCGATGCCATGTTCCAAA
CATGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTAGC
TCACATATAAAGGC
Found at i:45870992 original size:27 final size:27
Alignment explanation
Indices: 45870962--45871139 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
45870952 ATATTGAGCC
* *
45870962 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
45870989 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
45871016 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
45871044 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
45871071 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
45871098 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
45871125 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45871140 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:45871074 original size:55 final size:54
Alignment explanation
Indices: 45870962--45871139 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
45870952 ATATTGAGCC
* * * * *
45870962 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
45871016 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
45871071 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
45871125 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45871140 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:45884868 original size:32 final size:28
Alignment explanation
Indices: 45884820--45884886 Score: 80
Period size: 32 Copynumber: 2.2 Consensus size: 28
45884810 AGTGCAATAT
* *
45884820 CTAAAACAATAGTAATAAATAATTAAATTAAA
1 CTAAAATAATAATAAT-AA-AATT-AATT-AA
45884852 CTAAAATAATAATAATAAAATTAATTAA
1 CTAAAATAATAATAATAAAATTAATTAA
45884880 CTAAAAT
1 CTAAAAT
45884887 TAAACCTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 9 0.27
29 4 0.12
30 4 0.12
31 2 0.06
32 14 0.42
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (28 bp):
CTAAAATAATAATAATAAAATTAATTAA
Found at i:45884884 original size:14 final size:14
Alignment explanation
Indices: 45884840--45884889 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
45884830 AGTAATAAAT
45884840 AATTAAATTAAACTAA
1 AATT-AATT-AACTAA
45884856 AA-TAATAATAA-TAA
1 AATTAAT--TAACTAA
45884870 AATTAATTAACTAA
1 AATTAATTAACTAA
45884884 AATTAA
1 AATTAA
45884890 ACCTAAGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 3 0.10
14 17 0.57
15 7 0.23
16 3 0.10
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (14 bp):
AATTAATTAACTAA
Found at i:45890091 original size:9 final size:9
Alignment explanation
Indices: 45890079--45890124 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
45890069 TAAGAGCTAT
*
45890079 ATGATTTAC
1 ATGAATTAC
45890088 ATGAATT--
1 ATGAATTAC
45890095 AT-AAGTTAC
1 ATGAA-TTAC
45890104 ATGAATTAC
1 ATGAATTAC
45890113 ATGAATTAC
1 ATGAATTAC
45890122 ATG
1 ATG
45890125 GAGTTTATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
6 2 0.06
7 4 0.12
9 24 0.75
10 2 0.06
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (9 bp):
ATGAATTAC
Found at i:45892175 original size:33 final size:33
Alignment explanation
Indices: 45892129--45892192 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
45892119 AACACAATTC
* *
45892129 TATGAATGTGTATCTCATTA-AAAGATACATCCT
1 TATGAAAGGGTATCTCA-TAGAAAGATACATCCT
45892162 TATGAAAGGGTATCTCATAGAAAGATACATC
1 TATGAAAGGGTATCTCATAGAAAGATACATC
45892193 TTTTGCATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (33 bp):
TATGAAAGGGTATCTCATAGAAAGATACATCCT
Found at i:45898786 original size:18 final size:18
Alignment explanation
Indices: 45898751--45898790 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
45898741 ATAAATGGTA
*
45898751 CTTTTCATATTATCTCCT
1 CTTTTCATATCATCTCCT
45898769 CTTTTCATATCA-CTTCCT
1 CTTTTCATATCATC-TCCT
45898787 CTTT
1 CTTT
45898791 GGTCTTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.55
Consensus pattern (18 bp):
CTTTTCATATCATCTCCT
Found at i:45909846 original size:24 final size:21
Alignment explanation
Indices: 45909830--45909869 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45909820 AAATTTAAAC
*
45909830 ATAATAGAGAGACTAAAATTA
1 ATAATAGAGAGACTAAATTTA
*
45909851 ATAATATAGAGACTAAATT
1 ATAATAGAGAGACTAAATT
45909870 ATGTTAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.28
Consensus pattern (21 bp):
ATAATAGAGAGACTAAATTTA
Found at i:45916055 original size:22 final size:23
Alignment explanation
Indices: 45916030--45916072 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
45916020 TATCCCCACA
* *
45916030 TGGAGTGTAG-GGCTGGATGGAG
1 TGGAATGTAGAGGATGGATGGAG
45916052 TGGAATGTAGAGGATGGATGG
1 TGGAATGTAGAGGATGGATGG
45916073 GTAGGATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.23, C:0.02, G:0.51, T:0.23
Consensus pattern (23 bp):
TGGAATGTAGAGGATGGATGGAG
Found at i:45926760 original size:26 final size:26
Alignment explanation
Indices: 45926731--45926838 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
45926721 TGGTACAAAT
45926731 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
45926757 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45926783 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45926809 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45926835 TGAT
1 TGAT
45926839 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:45928366 original size:26 final size:26
Alignment explanation
Indices: 45928323--45928375 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
45928313 TTTACAGTTT
*
45928323 TACCCCTAGGAGATAAATTACCGAAA
1 TACCCCTAGGAGATAAATGACCGAAA
* *
45928349 TACCCCTAGG-GTTAAAATGACCTAAA
1 TACCCCTAGGAGAT-AAATGACCGAAA
45928375 T
1 T
45928376 GCATGTATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATGACCGAAA
Found at i:45935189 original size:49 final size:49
Alignment explanation
Indices: 45935120--45935507 Score: 567
Period size: 49 Copynumber: 8.1 Consensus size: 49
45935110 GAAATGATAG
45935120 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
45935169 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
45935216 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
45935265 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TACATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
45935312 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * *
45935361 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
45935408 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
45935457 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
45935504 TAAG
1 TAAG
45935508 TCCCGAAGGG
Statistics
Matches: 304, Mismatches: 29, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
47 139 0.46
48 1 0.00
49 164 0.54
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:45935284 original size:96 final size:96
Alignment explanation
Indices: 45935120--45935507 Score: 632
Period size: 96 Copynumber: 4.0 Consensus size: 96
45935110 GAAATGATAG
* * * *
45935120 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
*
45935185 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
* * *
45935216 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
* *
45935281 ATGTGATGAATGTGAAAGTGTACATATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
* *
45935312 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
45935377 ACGTGATGAATGTGAAAGTGTATATATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
* *
45935408 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
* *
45935473 ACGTGATGGATGTGAAAGTGTATAAATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
45935504 TAAG
1 TAAG
45935508 TCCCGAAGGG
Statistics
Matches: 281, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 281 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
ACGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:45938030 original size:26 final size:26
Alignment explanation
Indices: 45938001--45938108 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
45937991 TGGTACAAAT
45938001 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
45938027 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45938053 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45938079 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45938105 TGAT
1 TGAT
45938109 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:45941254 original size:47 final size:47
Alignment explanation
Indices: 45941200--45941437 Score: 350
Period size: 47 Copynumber: 5.1 Consensus size: 47
45941190 GATTTTATGA
** * * *
45941200 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
45941247 GATGAATGTGAACATGCATATCTGTGATAAGGCTGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
45941294 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
45941341 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * ** * *
45941388 GATGGATGTGAACATGCATATGTGTGATAAGGTAGAGTGGCTAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
45941435 GAT
1 GAT
45941438 AAACGTGGAA
Statistics
Matches: 176, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 176 1.00
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:45941272 original size:25 final size:24
Alignment explanation
Indices: 45941244--45941368 Score: 72
Period size: 25 Copynumber: 5.2 Consensus size: 24
45941234 TAATGGCCAA
45941244 TGTGATGAATGTGAACATGCATAT
1 TGTGATGAATGTGAACATGCATAT
*
45941268 CTGTGAT-AAGGCTG-A-ATGGCCA-A-
1 -TGTGATGAATG-TGAACAT-G-CATAT
45941291 TGTGATGAATGTGAACATGCATAT
1 TGTGATGAATGTGAACATGCATAT
* *
45941315 ATGTGAT-AAGGCCG-A-ATGGCCA-A-
1 -TGTGATGAATG-TGAACAT-G-CATAT
45941338 TGTGATGAATGTGAACATGCATAT
1 TGTGATGAATGTGAACATGCATAT
45941362 GTGTGAT
1 -TGTGAT
45941369 AAGGCCGAAT
Statistics
Matches: 76, Mismatches: 6, Indels: 36
0.64 0.05 0.31
Matches are distributed among these distances:
22 19 0.25
23 16 0.21
24 16 0.21
25 25 0.33
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.29
Consensus pattern (24 bp):
TGTGATGAATGTGAACATGCATAT
Found at i:45941390 original size:22 final size:22
Alignment explanation
Indices: 45941315--45941390 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
45941305 ACATGCATAT
45941315 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
45941337 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
45941359 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
45941384 ATGTGAT
1 ATGTGAT
45941391 GGATGTGAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:45941456 original size:141 final size:141
Alignment explanation
Indices: 45941200--45941483 Score: 367
Period size: 141 Copynumber: 2.0 Consensus size: 141
45941190 GATTTTATGA
** * *
45941200 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* * *
45941265 TATCTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCATATATGT-GATAAGGCCG
66 TATCTGTGATAAGGCTGAATGGCCAATGTGATAAACGTGAACATGCATATATGTGGAGAA-GCCG
45941329 AATGGCCAATGT
130 AATGGCCAATGT
* * *
45941341 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* * * * * *
45941406 TATGTGTGATAAGG-TAGAGTGGCTAATGTGATAAACGTGGAA-GTGTATATATGTGGCGAAGCC
66 TATCTGTGATAAGGCT-GAATGGCCAATGTGATAAACGT-GAACATGCATATATGTGGAGAAGCC
*
45941469 GAATGGCTAATGT
129 GAATGGCCAATGT
45941482 GA
1 GA
45941484 GATATGTATG
Statistics
Matches: 123, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
140 1 0.01
141 116 0.94
142 6 0.05
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (141 bp):
GATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
TATCTGTGATAAGGCTGAATGGCCAATGTGATAAACGTGAACATGCATATATGTGGAGAAGCCGA
ATGGCCAATGT
Found at i:45941470 original size:94 final size:94
Alignment explanation
Indices: 45941200--45941483 Score: 311
Period size: 94 Copynumber: 3.0 Consensus size: 94
45941190 GATTTTATGA
** * * ** * *
45941200 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
* * *
45941265 TATCTGTGATAAGGCTGAATGGCCAATGT
66 TATATGTGAGAAGGCCGAATGGCCAATGT
* * *
45941294 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
* *
45941359 TATGTGTGATAAGGCCGAATGGCCAATGT
66 TATATGTGAGAAGGCCGAATGGCCAATGT
* * * * * * *
45941388 GATGGATGTGAACATGCATATGTGTGATAAGGTAGAGTGGCTAATGTGATAAACGTGGAA-GTGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGT-GAACATGC
* *
45941452 ATATATGTGGCGAA-GCCGAATGGCTAATGT
65 ATATATGT-GAGAAGGCCGAATGGCCAATGT
45941482 GA
1 GA
45941484 GATATGTATG
Statistics
Matches: 167, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
94 161 0.96
95 6 0.04
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (94 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
TATATGTGAGAAGGCCGAATGGCCAATGT
Found at i:45943743 original size:26 final size:26
Alignment explanation
Indices: 45943700--45943752 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
45943690 TTTACAGTTT
*
45943700 TACCCCTAGGAGATAAATTACCGAAA
1 TACCCCTAGGAGATAAATGACCGAAA
* *
45943726 TACCCCTAGG-GTTAAAATGACCTAAA
1 TACCCCTAGGAGAT-AAATGACCGAAA
45943752 T
1 T
45943753 TCATGTATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATGACCGAAA
Found at i:45945940 original size:10 final size:10
Alignment explanation
Indices: 45945910--45945957 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
45945900 TATCATACAT
*
45945910 ATCATGTGCAT
1 ATCATGT-CAA
*
45945921 ATCATTTCAA
1 ATCATGTCAA
45945931 ATCATGTCAA
1 ATCATGTCAA
45945941 ATCATGTCAA
1 ATCATGTCAA
45945951 ATCATGT
1 ATCATGT
45945958 ATATCAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
10 28 0.82
11 6 0.18
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (10 bp):
ATCATGTCAA
Found at i:45945944 original size:20 final size:21
Alignment explanation
Indices: 45945892--45945957 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 21
45945882 ATGAATATAA
* * *
45945892 CATGTGCATATCAT-ACATAT
1 CATGTGCAAATCATGTCAAAT
* *
45945912 CATGTGCATATCATTTCAAAT
1 CATGTGCAAATCATGTCAAAT
45945933 CATGT-CAAATCATGTCAAAT
1 CATGTGCAAATCATGTCAAAT
45945953 CATGT
1 CATGT
45945958 ATATCAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 32 0.78
21 9 0.22
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (21 bp):
CATGTGCAAATCATGTCAAAT
Found at i:45950763 original size:40 final size:39
Alignment explanation
Indices: 45950719--45950943 Score: 245
Period size: 40 Copynumber: 5.7 Consensus size: 39
45950709 GCCACTAGCT
*
45950719 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * *
45950759 CAAATGCCTTCGGGACTTAGCCTGGTATAATAACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
45950798 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* ** *
45950838 CAAACGCCTTCGGGACTTAGCAGGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * * ** * *
45950878 CGAATGCCTTCGGGACTTAGCTCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
45950918 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
45950944 TATCATCCGA
Statistics
Matches: 158, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
39 38 0.24
40 120 0.76
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:45950817 original size:79 final size:80
Alignment explanation
Indices: 45950719--45950903 Score: 255
Period size: 79 Copynumber: 2.3 Consensus size: 80
45950709 GCCACTAGCT
* * * * **
45950719 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCTGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCAGGG
*
45950784 -TATAATAACTCGGA
66 ATATAATAACTCGCA
*
45950798 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCAGGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCAGGG
* *
45950863 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
* *
45950878 CGAATGCCTTCGGGACTTAGCTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45950904 ATTAGCCACT
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 58 0.62
80 35 0.38
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCAGGG
ATATAATAACTCGCA
Found at i:45955398 original size:47 final size:46
Alignment explanation
Indices: 45955279--45955401 Score: 126
Period size: 45 Copynumber: 2.7 Consensus size: 46
45955269 CTTAAAATAA
**
45955279 GTAAAACCATGGCTGAAAGATGCTATGATATCATGATAAAGATGAG
1 GTAAAACCATGGCTGAAAGATGCTATGGCATCATGATAAAGATGAG
* * * ***
45955325 G-AAAACCATAGTTCAAAGACATTATGGCATCATGAT-AAGAAT-AG
1 GTAAAACCATGGCTGAAAGATGCTATGGCATCATGATAAAG-ATGAG
45955369 GACTAAAACCATGGCTGAAAGATGCTATGGCAT
1 G--TAAAACCATGGCTGAAAGATGCTATGGCAT
45955402 TCTTTGATAG
Statistics
Matches: 59, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
44 6 0.10
45 29 0.49
46 1 0.02
47 23 0.39
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (46 bp):
GTAAAACCATGGCTGAAAGATGCTATGGCATCATGATAAAGATGAG
Found at i:45958180 original size:8 final size:8
Alignment explanation
Indices: 45958159--45958216 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
45958149 TAAATAAGAA
*
45958159 ATAATATT
1 ATAATAAT
*
45958167 AAAATAAT
1 ATAATAAT
*
45958175 TTAATAAT
1 ATAATAAT
45958183 ATAATAAT
1 ATAATAAT
**
45958191 ATATATGTT
1 ATA-ATAAT
45958200 ATAATAAT
1 ATAATAAT
*
45958208 AAAATAAT
1 ATAATAAT
45958216 A
1 A
45958217 AAGAAAATAA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
8 33 0.85
9 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (8 bp):
ATAATAAT
Found at i:45958301 original size:12 final size:12
Alignment explanation
Indices: 45958286--45958310 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45958276 AGGGAAAGAA
45958286 AGAAAGAAAAAG
1 AGAAAGAAAAAG
45958298 AGAAAGAAAAAG
1 AGAAAGAAAAAG
45958310 A
1 A
45958311 AAGGAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:45960124 original size:20 final size:20
Alignment explanation
Indices: 45960096--45960140 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
45960086 CCCACGGCTT
*
45960096 GGCCCCACGGGCATGTCCCA
1 GGCCACACGGGCATGTCCCA
45960116 GGCCACACGGGCATGTCCCA
1 GGCCACACGGGCATGTCCCA
45960136 GGCCA
1 GGCCA
45960141 GACGAACGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.42, G:0.31, T:0.09
Consensus pattern (20 bp):
GGCCACACGGGCATGTCCCA
Found at i:45960472 original size:27 final size:27
Alignment explanation
Indices: 45960432--45960485 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
45960422 TCATACAACC
* *
45960432 CATGTAATATTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
45960459 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
45960486 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:45963815 original size:26 final size:26
Alignment explanation
Indices: 45963786--45963848 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
45963776 ACATAGAACT
* *
45963786 TTTAATCAGGAAGCTCACGAAGAGCC
1 TTTAATCAGGAAACTCACGAACAGCC
*
45963812 TTTAAACTA-GAAACTCACGAACAGCC
1 TTTAATC-AGGAAACTCACGAACAGCC
*
45963838 ATTAATCAGGA
1 TTTAATCAGGA
45963849 GCCCTGAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
25 1 0.03
26 28 0.93
27 1 0.03
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (26 bp):
TTTAATCAGGAAACTCACGAACAGCC
Found at i:45970172 original size:24 final size:24
Alignment explanation
Indices: 45970126--45970172 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
45970116 GTTCGTACAG
* *
45970126 TTTAATTATTGTATAATTTAAATA
1 TTTAATTATTATATAATTGAAATA
45970150 TTTAATTACTTATAT-ATTGAAAT
1 TTTAATTA-TTATATAATTGAAAT
45970173 TTATTAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTAATTATTATATAATTGAAATA
Found at i:45972377 original size:40 final size:40
Alignment explanation
Indices: 45972318--45972562 Score: 212
Period size: 40 Copynumber: 6.2 Consensus size: 40
45972308 TTTGAGAAAC
* *
45972318 TTTCAGTAGAA-TCAGTAGGTATGGCTCGATAGAGCATACT
1 TTTCAGTA-AATTCAATAGGTATGGCTCGATAGAGCATACA
* *
45972358 TTTTAGTAAATTCAATAGGTATGGCTCGATAGTGCATACA
1 TTTCAGTAAATTCAATAGGTATGGCTCGATAGAGCATACA
* *
45972398 TTTCAGTAAATTCAATAGGTATGGCTTGATAGAGCGTAC-
1 TTTCAGTAAATTCAATAGGTATGGCTCGATAGAGCATACA
* * * *
45972437 TCTT-AGTAGAA-TCAGTAGGTACGGCTTGATATCA-CATACA
1 T-TTCAGTA-AATTCAATAGGTATGGCTCGATA-GAGCATACA
* * * * **
45972477 TTTCAGTAAATTTAGTAGGTATGACTCAATAGCCCATACA
1 TTTCAGTAAATTCAATAGGTATGGCTCGATAGAGCATACA
** * * ** *
45972517 AATCAGTAGATTCAGTAGGTATGGCTTAATAGCGCATACA
1 TTTCAGTAAATTCAATAGGTATGGCTCGATAGAGCATACA
45972557 TTTCAG
1 TTTCAG
45972563 AAGGTAATGC
Statistics
Matches: 169, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
39 33 0.20
40 136 0.80
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (40 bp):
TTTCAGTAAATTCAATAGGTATGGCTCGATAGAGCATACA
Found at i:45972420 original size:80 final size:79
Alignment explanation
Indices: 45972318--45972562 Score: 253
Period size: 80 Copynumber: 3.1 Consensus size: 79
45972308 TTTGAGAAAC
* *
45972318 TTTCAGTAGAA-TCAGTAGGTATGGCTCGATAGAGCATACTTTTTAGTAAATTCAATAGGTATGG
1 TTTCAGTA-AATTCAGTAGGTATGGCTCGATAGAGCATAC-TATTAGTAAATTCAGTAGGTATGG
*
45972382 CTCGATAGTGCATACA
64 CTTGATAGTGCATACA
* * * * *
45972398 TTTCAGTAAATTCAATAGGTATGGCTTGATAGAGCGTACTCTTAGTAGAA-TCAGTAGGTACGGC
1 TTTCAGTAAATTCAGTAGGTATGGCTCGATAGAGCATACTATTAGTA-AATTCAGTAGGTATGGC
*
45972462 TTGATA-TCACATACA
65 TTGATAGT-GCATACA
* * * ** * * *
45972477 TTTCAGTAAATTTAGTAGGTATGACTCAATAGCCCATACAAATCAGTAGATTCAGTAGGTATGGC
1 TTTCAGTAAATTCAGTAGGTATGGCTCGATAGAGCATAC-TATTAGTAAATTCAGTAGGTATGGC
* *
45972542 TTAATAGCGCATACA
65 TTGATAGTGCATACA
45972557 TTTCAG
1 TTTCAG
45972563 AAGGTAATGC
Statistics
Matches: 135, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
78 1 0.01
79 64 0.47
80 70 0.52
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (79 bp):
TTTCAGTAAATTCAGTAGGTATGGCTCGATAGAGCATACTATTAGTAAATTCAGTAGGTATGGCT
TGATAGTGCATACA
Found at i:45972485 original size:79 final size:80
Alignment explanation
Indices: 45972318--45972508 Score: 228
Period size: 79 Copynumber: 2.4 Consensus size: 80
45972308 TTTGAGAAAC
* *
45972318 TTTCAGTAGAA-TCAGTAGGTATGGCTCGATAGAGCATACTTTTTAGTAAATTCAATAGGTATGG
1 TTTCAGTA-AATTCAGTAGGTATGGCTCGATAGAGCATACTTCTTAGTAAATTCAATAGGTACGG
*
45972382 CTCGATAGTGCATACA
65 CTCGATAGTACATACA
* * * *
45972398 TTTCAGTAAATTCAATAGGTATGGCTTGATAGAGCGTAC-TCTTAGTAGAA-TCAGTAGGTACGG
1 TTTCAGTAAATTCAGTAGGTATGGCTCGATAGAGCATACTTCTTAGTA-AATTCAATAGGTACGG
*
45972461 CTTGATA-TCACATACA
65 CTCGATAGT-ACATACA
* * *
45972477 TTTCAGTAAATTTAGTAGGTATGACTCAATAG
1 TTTCAGTAAATTCAGTAGGTATGGCTCGATAG
45972509 CCCATACAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 59 0.62
80 35 0.37
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (80 bp):
TTTCAGTAAATTCAGTAGGTATGGCTCGATAGAGCATACTTCTTAGTAAATTCAATAGGTACGGC
TCGATAGTACATACA
Found at i:45972536 original size:119 final size:119
Alignment explanation
Indices: 45972322--45972548 Score: 294
Period size: 119 Copynumber: 1.9 Consensus size: 119
45972312 AGAAACTTTC
* * * * * *
45972322 AGTAGAATCAGTAGGTATGGCTCGATAGAGCATACTTTTTAGTAAATTCAATAGGTATGGCTCGA
1 AGTAGAATCAGTAGGTACGGCTCGATACAGCATACATTTCAGTAAATTCAATAGGTATGACTCAA
** ** *
45972387 TAGTGCATACATTTCAGTAAATTCAATAGGTATGGCTTGATAGAGCGTACTCTT
66 TAGCCCATACAAATCAGTAAATTCAATAGGTATGGCTTAATAGAGCGTACTCTT
* * *
45972441 AGTAGAATCAGTAGGTACGGCTTGATATCA-CATACATTTCAGTAAATTTAGTAGGTATGACTCA
1 AGTAGAATCAGTAGGTACGGCTCGATA-CAGCATACATTTCAGTAAATTCAATAGGTATGACTCA
* *
45972505 ATAGCCCATACAAATCAGTAGATTCAGTAGGTATGGCTTAATAG
65 ATAGCCCATACAAATCAGTAAATTCAATAGGTATGGCTTAATAG
45972549 CGCATACATT
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
119 90 0.99
120 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (119 bp):
AGTAGAATCAGTAGGTACGGCTCGATACAGCATACATTTCAGTAAATTCAATAGGTATGACTCAA
TAGCCCATACAAATCAGTAAATTCAATAGGTATGGCTTAATAGAGCGTACTCTT
Found at i:45973565 original size:20 final size:20
Alignment explanation
Indices: 45973527--45973565 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
45973517 GATGAAGCCT
*
45973527 TTTTCATTTTATTTGTTAAC
1 TTTTCATTTTATTTCTTAAC
45973547 TTTT-ATTTTATTTACTTAA
1 TTTTCATTTTATTT-CTTAA
45973566 TTGTCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTCATTTTATTTCTTAAC
Found at i:45976727 original size:15 final size:14
Alignment explanation
Indices: 45976646--45976734 Score: 52
Period size: 18 Copynumber: 5.6 Consensus size: 14
45976636 ATAGTAGATG
* *
45976646 AATAAATACTTAAA
1 AATAAATAATTTAA
**
45976660 AATAAATAAAATAA
1 AATAAATAATTTAA
45976674 AATGAACATCATATTTAA
1 AAT-AA-AT-A-ATTTAA
45976692 AATAAATAATATTTTATA
1 AATAAAT-A-A-TTTA-A
45976710 AATAAATAATTTGAA
1 AATAAATAATTT-AA
45976725 AATAATATAA
1 AATAA-ATAA
45976735 AATTTTAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
14 13 0.22
15 11 0.18
16 13 0.22
17 8 0.13
18 15 0.25
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (14 bp):
AATAAATAATTTAA
Found at i:45978296 original size:15 final size:15
Alignment explanation
Indices: 45978276--45978305 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45978266 ATCAAAGGCT
45978276 AAATTTGTTATTATA
1 AAATTTGTTATTATA
*
45978291 AAATTTTTTATTATA
1 AAATTTGTTATTATA
45978306 CCAATTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
AAATTTGTTATTATA
Found at i:45990287 original size:21 final size:21
Alignment explanation
Indices: 45990257--45990297 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45990247 AAAAATATAT
* *
45990257 AGCAACAAAATAGTAAAAAAC
1 AGCAACAAAACAATAAAAAAC
*
45990278 AGCAAGAAAACAATAAAAAA
1 AGCAACAAAACAATAAAAAA
45990298 AAAAACAGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.71, C:0.12, G:0.10, T:0.07
Consensus pattern (21 bp):
AGCAACAAAACAATAAAAAAC
Found at i:46008180 original size:10 final size:10
Alignment explanation
Indices: 46008165--46008194 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
46008155 TCGTAAAATG
46008165 AATTTCTTTC
1 AATTTCTTTC
46008175 AATTTCTTTC
1 AATTTCTTTC
46008185 AATTTCTTTC
1 AATTTCTTTC
46008195 CAACCCAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (10 bp):
AATTTCTTTC
Found at i:46015785 original size:156 final size:156
Alignment explanation
Indices: 46015498--46015810 Score: 590
Period size: 156 Copynumber: 2.0 Consensus size: 156
46015488 CGTTCATGCA
*
46015498 TGAACTCTTATATTCCATGTACCTAGCCGTGCATGAATCTCATTAAATGTACTCAATACATTCGA
1 TGAACTCTTATATTCCATGTACCTAGCAGTGCATGAATCTCATTAAATGTACTCAATACATTCGA
* * *
46015563 CTGAACCTACAAGAAACATGAACACATTAAATCCCAATGTATATTTAGTTGAACATGTTAAGAGC
66 CTGAACCTACAAGAAACATGAACACATTAAATCCCAATGTATATTCAGCTGAACATGTTAAAAGC
46015628 ATGAACTAGACATCATAAATATCATG
131 ATGAACTAGACATCATAAATATCATG
46015654 TGAACTCTTATATTCCATGTACCTAGCAGTGCATGAATCTCATTAAATGTACTCAATACATTCGA
1 TGAACTCTTATATTCCATGTACCTAGCAGTGCATGAATCTCATTAAATGTACTCAATACATTCGA
46015719 CTGAACCTACAAGAAACATGAACACATTAAATCCCAATGTATATTCAGCTGAACATGTTAAAAGC
66 CTGAACCTACAAGAAACATGAACACATTAAATCCCAATGTATATTCAGCTGAACATGTTAAAAGC
46015784 ATGAACTAGACATCATAAATATCATG
131 ATGAACTAGACATCATAAATATCATG
46015810 T
1 T
46015811 TAAGCTAAAC
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 153 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.29
Consensus pattern (156 bp):
TGAACTCTTATATTCCATGTACCTAGCAGTGCATGAATCTCATTAAATGTACTCAATACATTCGA
CTGAACCTACAAGAAACATGAACACATTAAATCCCAATGTATATTCAGCTGAACATGTTAAAAGC
ATGAACTAGACATCATAAATATCATG
Found at i:46016048 original size:20 final size:20
Alignment explanation
Indices: 46016002--46016049 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
46015992 AGTAAGCTCG
46016002 GTTGAGCTCAAACAAGCTGA
1 GTTGAGCTCAAACAAGCTGA
*** **
46016022 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACAAGCTGA
46016042 GTTGAGCT
1 GTTGAGCT
46016050 AGACGGAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACAAGCTGA
Found at i:46027078 original size:40 final size:40
Alignment explanation
Indices: 46027023--46027244 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
46027013 TATTCGGATG
46027023 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
46027063 ATAACCGGGCTAAGTCCCGAAGGCATTTCTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
**
46027103 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
46027143 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
46027183 ATAACTGGGCTAAATCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* * *
46027223 ATATCC-GGCTAAATCCTGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
46027245 TACTTGGTTT
Statistics
Matches: 169, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 17 0.10
40 152 0.90
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:46036434 original size:21 final size:23
Alignment explanation
Indices: 46036399--46036441 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
46036389 TAGAGCTTTG
46036399 TGTTTGTGTTAAATGTGTCCTAA
1 TGTTTGTGTTAAATGTGTCCTAA
46036422 TGTTTGT-TT-AATGTGTCCTA
1 TGTTTGTGTTAAATGTGTCCTA
46036442 GGAGGAGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.55
22 2 0.10
23 7 0.35
ACGTcount: A:0.19, C:0.09, G:0.21, T:0.51
Consensus pattern (23 bp):
TGTTTGTGTTAAATGTGTCCTAA
Found at i:46043704 original size:40 final size:40
Alignment explanation
Indices: 46043649--46043895 Score: 244
Period size: 40 Copynumber: 6.2 Consensus size: 40
46043639 CGGATGATAA
* *
46043649 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-GCTAATAT
* *
46043689 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
*
46043729 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGA--GCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTA--ATAT
* *
46043769 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGT--TATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
* * *
46043807 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
* *
46043848 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-GCTAATAT
46043888 CC-GGCTAA
1 CCGGGCTAA
46043896 ACTCCGAAGG
Statistics
Matches: 176, Mismatches: 18, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
37 2 0.01
38 3 0.02
39 38 0.22
40 127 0.72
41 5 0.03
42 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
Found at i:46043905 original size:79 final size:79
Alignment explanation
Indices: 46043689--46043895 Score: 274
Period size: 79 Copynumber: 2.6 Consensus size: 79
46043679 GTGGCTAATT
* *
46043689 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
46043754 TGCGAGCTATTATAT
65 TGCAAGCTACTATAA
* *
46043769 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
46043833 TGCAAGTTACTATAA
65 TGCAAGCTACTATAA
* * *
46043848 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGGCTAA
46043896 ACTCCGAAGG
Statistics
Matches: 111, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
78 1 0.01
79 73 0.66
80 37 0.33
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCAAGCTACTATAA
Found at i:46045579 original size:16 final size:16
Alignment explanation
Indices: 46045554--46045592 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
46045544 ACATTCTGCC
*
46045554 TTTAAATATACTAATA
1 TTTAAGTATACTAATA
46045570 TTTAAGTATACTAATA
1 TTTAAGTATACTAATA
46045586 TTTAAGT
1 TTTAAGT
46045593 CCTAATATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (16 bp):
TTTAAGTATACTAATA
Found at i:46045599 original size:14 final size:15
Alignment explanation
Indices: 46045561--46045600 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
46045551 GCCTTTAAAT
46045561 ATACTAATATTTAAG
1 ATACTAATATTTAAG
46045576 TATACTAATATTTAAG
1 -ATACTAATATTTAAG
*
46045592 -TCCTAATAT
1 ATACTAATAT
46045601 GATTAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.35
16 15 0.65
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (15 bp):
ATACTAATATTTAAG
Found at i:46054229 original size:6 final size:6
Alignment explanation
Indices: 46054217--46054253 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
46054207 AGGATTATTA
*
46054217 TTAATT TTGA-T TTAATT TTAATT TTAATT TTAATT TT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TT
46054254 TCTTTCTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:46054233 original size:11 final size:11
Alignment explanation
Indices: 46054217--46054252 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
46054207 AGGATTATTA
*
46054217 TTAATTTTGAT
1 TTAATTTTAAT
46054228 TTAATTTTAATT
1 TTAATTTTAA-T
46054240 TTAATTTTAAT
1 TTAATTTTAAT
46054251 TT
1 TT
46054253 TTCTTTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (11 bp):
TTAATTTTAAT
Found at i:46054291 original size:13 final size:13
Alignment explanation
Indices: 46054273--46054297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46054263 TTCCCAAAAC
46054273 TTTTCTTGTTTTG
1 TTTTCTTGTTTTG
46054286 TTTTCTTGTTTT
1 TTTTCTTGTTTT
46054298 CCGCTATCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.12, T:0.80
Consensus pattern (13 bp):
TTTTCTTGTTTTG
Found at i:46078731 original size:15 final size:16
Alignment explanation
Indices: 46078710--46078752 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
46078700 TTCTATAGTC
46078710 TTCTATAGTTTCACAA
1 TTCTATAGTTTCACAA
*
46078726 -TCTATAGTTTTTACAA
1 TTCTATAG-TTTCACAA
46078742 TTCTATAGTTT
1 TTCTATAGTTT
46078753 TCAAAGTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.29
16 10 0.42
17 7 0.29
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (16 bp):
TTCTATAGTTTCACAA
Found at i:46078748 original size:17 final size:17
Alignment explanation
Indices: 46078710--46078755 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
46078700 TTCTATAGTC
46078710 TTCTATAG-TTTCACAA
1 TTCTATAGTTTTCACAA
*
46078726 -TCTATAGTTTTTACAA
1 TTCTATAGTTTTCACAA
46078742 TTCTATAGTTTTCA
1 TTCTATAGTTTTCA
46078756 AAGTCTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 7 0.27
16 7 0.27
17 12 0.46
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (17 bp):
TTCTATAGTTTTCACAA
Found at i:46082249 original size:16 final size:16
Alignment explanation
Indices: 46082224--46082255 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46082214 ATGTGATCCA
46082224 AAAATCATATTTTTGC
1 AAAATCATATTTTTGC
*
46082240 AAAATTATATTTTTGC
1 AAAATCATATTTTTGC
46082256 CCCTAAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (16 bp):
AAAATCATATTTTTGC
Found at i:46083709 original size:20 final size:19
Alignment explanation
Indices: 46083664--46083709 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
46083654 ATACTCACAA
46083664 ATTA-ATTAAATAAATAAC
1 ATTATATTAAATAAATAAC
* *
46083682 ATTTTATTAAAGTAAATAAT
1 ATTATATTAAA-TAAATAAC
46083702 ATTATATT
1 ATTATATT
46083710 TCAATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 3 0.13
19 6 0.26
20 14 0.61
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
ATTATATTAAATAAATAAC
Found at i:46089317 original size:21 final size:21
Alignment explanation
Indices: 46089276--46089317 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
46089266 GACCCATGCA
*
46089276 TGTTTGTAATTTACTTGGTAG
1 TGTTTGTAATTTACTTCGTAG
*
46089297 TGTTTGTAATTTAGTTCGTAG
1 TGTTTGTAATTTACTTCGTAG
46089318 CCATGATTTT
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:0.19, C:0.05, G:0.24, T:0.52
Consensus pattern (21 bp):
TGTTTGTAATTTACTTCGTAG
Found at i:46089395 original size:138 final size:138
Alignment explanation
Indices: 46089147--46089415 Score: 493
Period size: 138 Copynumber: 1.9 Consensus size: 138
46089137 CACTGCTTCT
*
46089147 TTTACTTAGTAGTGTTTGTGATTTAATTCGTAGCCATGATTTTCTTGGATGACTAGTGTTGGAGC
1 TTTACTTAGTAGTGTTTGTAATTTAATTCGTAGCCATGATTTTCTTGGATGACTAGTGTTGGAGC
46089212 TTTTCAAGCATAACTATTTCATAGTTTCTTATTTTGCTAATTGGTTTGAGGGAGGACCCATGCAT
66 TTTTCAAGCATAACTATTTCATAGTTTCTTATTTTGCTAATTGGTTTGAGGGAGGACCCATGCAT
46089277 GTTTGTAA
131 GTTTGTAA
* * *
46089285 TTTACTTGGTAGTGTTTGTAATTTAGTTCGTAGCCATGATTTTCTTGGATGACTAGTTTTGGAGC
1 TTTACTTAGTAGTGTTTGTAATTTAATTCGTAGCCATGATTTTCTTGGATGACTAGTGTTGGAGC
*
46089350 TTTTCAAGCATAACTATTTCATAGTTTCTTATTTTGGTAATTGGTTTGAGGGAGGACCCATGCAT
66 TTTTCAAGCATAACTATTTCATAGTTTCTTATTTTGCTAATTGGTTTGAGGGAGGACCCATGCAT
46089415 G
131 G
46089416 ATTATAATGA
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 126 1.00
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.43
Consensus pattern (138 bp):
TTTACTTAGTAGTGTTTGTAATTTAATTCGTAGCCATGATTTTCTTGGATGACTAGTGTTGGAGC
TTTTCAAGCATAACTATTTCATAGTTTCTTATTTTGCTAATTGGTTTGAGGGAGGACCCATGCAT
GTTTGTAA
Found at i:46092184 original size:31 final size:31
Alignment explanation
Indices: 46092146--46092209 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
46092136 CTCGTCACAC
46092146 GTTATGTTCATTTACAACCGTACATTTAGGA
1 GTTATGTTCATTTACAACCGTACATTTAGGA
46092177 GTTATGTTCATTTACAACCGTACATTTAGGA
1 GTTATGTTCATTTACAACCGTACATTTAGGA
46092208 GT
1 GT
46092210 GAGCAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (31 bp):
GTTATGTTCATTTACAACCGTACATTTAGGA
Found at i:46102156 original size:18 final size:18
Alignment explanation
Indices: 46102122--46102471 Score: 194
Period size: 18 Copynumber: 19.1 Consensus size: 18
46102112 TCATTAACAA
* *
46102122 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
* *
46102139 TCAGTAACAGTCACTTAT
1 TCAGTAACAATCAATTAT
*
46102157 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* *
46102175 TCAATAATAA-CAAATTAT
1 TCAGTAACAATC-AATTAT
*
46102193 TCAGTATCAATCAATTGATCGGTT
1 TCAGTAACAATCAATT-A-----T
46102217 ATCCAGTAACAATCAATTAT
1 -T-CAGTAACAATCAATTAT
*
46102237 TTAGTAA-AATC-ATATAT
1 TCAGTAACAATCAAT-TAT
* * *
46102254 TCAATAGCAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
* *
46102273 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
*
46102291 TTAGTAA-AATC-ATATAT
1 TCAGTAACAATCAAT-TAT
* * *
46102308 TCAATAGCAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
* * *
46102327 TCAGTAACAGTTATTTAT
1 TCAGTAACAATCAATTAT
* *
46102345 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATTAT
**
46102363 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
46102381 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTAT
* *
46102399 TCAGTAACAGTCTATTA-
1 TCAGTAACAATCAATTAT
46102416 TCTAGTAACAGA-CAATTAT
1 TC-AGTAACA-ATCAATTAT
* * *
46102435 TCGGTAATAGTCAATTAT
1 TCAGTAACAATCAATTAT
* *
46102453 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTAT
46102471 T
1 T
46102472 TTATACCTTT
Statistics
Matches: 253, Mismatches: 57, Indels: 45
0.71 0.16 0.13
Matches are distributed among these distances:
16 4 0.02
17 28 0.11
18 169 0.67
19 32 0.13
20 3 0.01
24 1 0.00
25 2 0.01
26 14 0.06
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:46102345 original size:54 final size:54
Alignment explanation
Indices: 46102214--46102337 Score: 230
Period size: 54 Copynumber: 2.3 Consensus size: 54
46102204 CAATTGATCG
*
46102214 GTTATCCAGTAACAATCAATTATTTAGTAAAATCATATATTCAATAGCAATTAA
1 GTTATCCAGTAACAGTCAATTATTTAGTAAAATCATATATTCAATAGCAATTAA
46102268 GTTATCCAGTAACAGTCAATTATTTAGTAAAATCATATATTCAATAGCAATTAA
1 GTTATCCAGTAACAGTCAATTATTTAGTAAAATCATATATTCAATAGCAATTAA
*
46102322 GTTATTCAGTAACAGT
1 GTTATCCAGTAACAGT
46102338 TATTTATTCA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (54 bp):
GTTATCCAGTAACAGTCAATTATTTAGTAAAATCATATATTCAATAGCAATTAA
Found at i:46102727 original size:45 final size:45
Alignment explanation
Indices: 46102640--46102749 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
46102630 TCTGGAACAG
* * *
46102640 TAACAGTAATAGTAACAGTATTCAACACATAAAGCGCTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGCGCCGAATCGA
* * * *
46102685 TAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGCGCCGAATCGA
*
46102730 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
46102750 ACAGTAGTCG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGCGCCGAATCGA
Found at i:46102740 original size:51 final size:48
Alignment explanation
Indices: 46102634--46102772 Score: 142
Period size: 45 Copynumber: 2.9 Consensus size: 48
46102624 AACAAATCTG
* * * * *
46102634 GAACAGTAACAGTAATAGTAACAGTATTCAACACATAAAGCGCTGAATC
1 GAACAGTAACGGTAACAGTAACAGTATTCGACACA-AAAGTGCCGAATC
46102683 G---A-TAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
1 GAACAGTAACGGTAACAGTAACAGTATTCGACACA-AAAGTGCCGAATC
* * *
46102728 GGTAACAGTAACGGTAACAGTAACAGTAGTCGGCACATAAGTGCC
1 -G-AACAGTAACGGTAACAGTAACAGTATTCGACACAAAAGTGCC
46102773 TGATCAGTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
45 37 0.49
46 2 0.03
49 1 0.01
50 8 0.11
51 27 0.36
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (48 bp):
GAACAGTAACGGTAACAGTAACAGTATTCGACACAAAAGTGCCGAATC
Found at i:46102744 original size:12 final size:12
Alignment explanation
Indices: 46102727--46102751 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46102717 AGTGCCGAAT
46102727 CGGTAACAGTAA
1 CGGTAACAGTAA
46102739 CGGTAACAGTAA
1 CGGTAACAGTAA
46102751 C
1 C
46102752 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:46104503 original size:5 final size:5
Alignment explanation
Indices: 46104493--46104555 Score: 117
Period size: 5 Copynumber: 12.4 Consensus size: 5
46104483 TTACTTATTT
46104493 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
46104543 ATATA ATAATA AT
1 ATATA AT-ATA AT
46104556 TTCTTATATT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 52 0.91
6 5 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:46104682 original size:21 final size:22
Alignment explanation
Indices: 46104643--46104695 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
46104633 CATACAATTG
*
46104643 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
46104665 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
46104685 ATAAAATAATA
1 TTAAAATAATA
46104696 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:46109129 original size:18 final size:18
Alignment explanation
Indices: 46109097--46109392 Score: 121
Period size: 18 Copynumber: 16.1 Consensus size: 18
46109087 TCATTAACAA
*
46109097 TCAG-AACAATTATTTAT
1 TCAGTAACAATCATTTAT
*
46109114 TCAGTAACAGTCATTTAT
1 TCAGTAACAATCATTTAT
* *
46109132 TCGGTAACAATCAATTAT
1 TCAGTAACAATCATTTAT
* * * *
46109150 TCAATAATAACCAATTAT
1 TCAGTAACAATCATTTAT
* *
46109168 TTAGTATCAATCAATTGATCGGTTAT
1 TCAG--T-AA-CAA-TCAT---TTAT
* * * *
46109194 CCAGTAATAGTCAATTAT
1 TCAGTAACAATCATTTAT
* **
46109212 TTAGTAA-AATCAGATAT
1 TCAGTAACAATCATTTAT
* ** * *
46109229 TCAATAGTAATTAAGTTAT
1 TCAGTAACAA-TCATTTAT
* *
46109248 TCAGTAACAGTCATCTAT
1 TCAGTAACAATCATTTAT
* *
46109266 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCATTTAT
** *
46109284 TCAGTAATGATCAATTAT
1 TCAGTAACAATCATTTAT
* * *
46109302 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCATTTAT
*
46109320 TCAGTAACAGTC-TATTAT
1 TCAGTAACAATCAT-TTAT
* * *
46109338 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCATTTAT
* *
46109356 TCAGTAACAGTCAATTAT
1 TCAGTAACAATCATTTAT
* *
46109374 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCATTTAT
46109392 T
1 T
46109393 TTATTCCTTT
Statistics
Matches: 208, Mismatches: 58, Indels: 25
0.71 0.20 0.09
Matches are distributed among these distances:
17 15 0.07
18 163 0.78
19 12 0.06
20 1 0.00
21 4 0.02
22 3 0.01
23 3 0.01
24 1 0.00
26 6 0.03
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
TCAGTAACAATCATTTAT
Found at i:46109150 original size:36 final size:36
Alignment explanation
Indices: 46109097--46109380 Score: 171
Period size: 36 Copynumber: 7.7 Consensus size: 36
46109087 TCATTAACAA
* * *
46109097 TCAG-AACAATTATTTATTCAGTAACAGTCATTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAATTAT
* * * **
46109132 TCGGTAACAATCAATTATTCAATAATAACCAATTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAATTAT
* * *
46109168 TTAGTATCAATCAATTGATCGGTTATCCAGTAATAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAGTCAATTAT
* * ** * *
46109212 TTAGTAA-AATCAGA-TATTCAATAGTAATTAAGTTAT
1 TCAGTAACAATCA-ATTATTCAGTAACAGTCAA-TTAT
* * * *
46109248 TCAGTAACAGTC-ATCTATTCAGTGACAATCAGTTAT
1 TCAGTAACAATCAAT-TATTCAGTAACAGTCAATTAT
** * * *
46109284 TCAGTAATGATCAATTATTCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAATTAT
* * *
46109320 TCAGTAACAGTCTATTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAATTAT
*
46109356 TCAGTAACAGTCAATTATTCAGTAA
1 TCAGTAACAATCAATTATTCAGTAA
46109381 TAATCAGTTA
Statistics
Matches: 191, Mismatches: 43, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
35 13 0.07
36 130 0.68
37 18 0.09
42 2 0.01
43 7 0.04
44 21 0.11
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAGTCAATTAT
Found at i:46109247 original size:54 final size:54
Alignment explanation
Indices: 46109189--46109392 Score: 164
Period size: 54 Copynumber: 3.8 Consensus size: 54
46109179 CAATTGATCG
* * * *
46109189 GTTATCCAGTAATAGTCAATTATTTAGTAAAATCAGATATTCAATAGTAATTAA
1 GTTATTCAGTAATAGTCAATTATTCAGTAAAATCAGATATTCAATAATAATCAA
* * * * *
46109243 GTTATTCAGTAACAGTC-ATCTATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 GTTATTCAGTAATAGTCAAT-TATTCAGT-AAAATCAGATATTCAATAATAATCAA
* * * * * * * *
46109298 -TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTA-TTATCCAGTAACAGTCAA
1 GTTATTCAGTAATAGTCAATTATTCAGTAA-AATC-AGATATTCAATAATAATCAA
* *
46109352 -TTATTCAGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 GTTATTCAGTAATAGTCAATTATTCAGTAA-AATCAGATATT
46109393 TTATTCCTTT
Statistics
Matches: 120, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
53 4 0.03
54 94 0.78
55 22 0.18
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (54 bp):
GTTATTCAGTAATAGTCAATTATTCAGTAAAATCAGATATTCAATAATAATCAA
Found at i:46109325 original size:72 final size:72
Alignment explanation
Indices: 46109190--46109392 Score: 225
Period size: 72 Copynumber: 2.8 Consensus size: 72
46109180 AATTGATCGG
* * * * * * *
46109190 TTATCCAGTAATAGTCAATTATTTAGTAA-AATCAGA-TATTCAATAGTAATTAAGTTATTCAGT
1 TTATCCAGTAACAATCAATTATTCAGTAACAGTCA-ATTATTCAGTAATAA-TCAGTTATTCAGT
46109253 AACAGTC-A
64 AACAGTCTA
* * * * *
46109261 TCTATTCAGTGACAATCAGTTATTCAGTAA-TGATCAATTATTCAGTAATATTCAGTTATTCAGT
1 T-TATCCAGTAACAATCAATTATTCAGTAACAG-TCAATTATTCAGTAATAATCAGTTATTCAGT
46109325 AACAGTCTA
64 AACAGTCTA
*
46109334 TTATCCAGTAACAGTCAATTATTCAGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TTATCCAGTAACAATCAATTATTCAGTAACAGTCAATTATTCAGTAATAATCAGTTATT
46109393 TTATTCCTTT
Statistics
Matches: 109, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
71 1 0.01
72 92 0.84
73 16 0.15
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (72 bp):
TTATCCAGTAACAATCAATTATTCAGTAACAGTCAATTATTCAGTAATAATCAGTTATTCAGTAA
CAGTCTA
Found at i:46109392 original size:36 final size:36
Alignment explanation
Indices: 46109190--46109392 Score: 189
Period size: 36 Copynumber: 5.6 Consensus size: 36
46109180 AATTGATCGG
* * * * *
46109190 TTATCCAGTAATAGTCAATTATTTAGTAA-AATCAGA
1 TTATTCAGTAATAATCAGTTATTCAGTAACAGTCA-A
* * *
46109226 -TATTCAATAGTAATTAAGTTATTCAGTAACAGTC-A
1 TTATTCAGTAATAA-TCAGTTATTCAGTAACAGTCAA
* * *
46109261 TCTATTCAGTGACAATCAGTTATTCAGTAA-TGATCAA
1 T-TATTCAGTAATAATCAGTTATTCAGTAACAG-TCAA
* *
46109298 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTA
1 TTATTCAGTAATAATCAGTTATTCAGTAACAGTCAA
* * * *
46109334 TTATCCAGTAACAGTCAATTATTCAGTAACAGTCAA
1 TTATTCAGTAATAATCAGTTATTCAGTAACAGTCAA
46109370 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAATAATCAGTTATT
46109393 TTATTCCTTT
Statistics
Matches: 132, Mismatches: 28, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
35 11 0.08
36 106 0.80
37 15 0.11
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (36 bp):
TTATTCAGTAATAATCAGTTATTCAGTAACAGTCAA
Found at i:46109619 original size:45 final size:45
Alignment explanation
Indices: 46109563--46109672 Score: 175
Period size: 45 Copynumber: 2.4 Consensus size: 45
46109553 TCCAGAACAG
* *
46109563 TAACAGTAACAGTAATAGTATTCAACACACAAAGTGCTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* *
46109608 TAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
*
46109653 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
46109673 ACAGTAGTCG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
Found at i:46109663 original size:51 final size:49
Alignment explanation
Indices: 46109557--46109700 Score: 163
Period size: 45 Copynumber: 3.0 Consensus size: 49
46109547 AACAAATCCA
* * * *
46109557 GAACAGTAACAGTAACAGTAATAGTATTCAACACACAAAGTGCTGAATC
1 GAACAGTAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
46109606 G---A-TAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
1 GAACAGTAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
* * * *
46109651 GATAACAGTAACGGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTAATC
1 G--AACAGTAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
46109701 AGTAAGCCGG
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
45 40 0.49
46 1 0.01
49 1 0.01
50 12 0.15
51 27 0.33
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.19
Consensus pattern (49 bp):
GAACAGTAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
Found at i:46111427 original size:7 final size:7
Alignment explanation
Indices: 46111415--46111465 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
46111405 TTTACTTATT
46111415 TATATAA
1 TATATAA
46111422 TATAT-A
1 TATATAA
46111428 -ATATAA
1 TATATAA
46111434 TATATAA
1 TATATAA
46111441 TATA-ATA
1 TATATA-A
46111448 TAATATAA
1 T-ATATAA
46111456 TA-ATAA
1 TATATAA
46111462 TATA
1 TATA
46111466 ATATAATAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
5 4 0.11
6 9 0.24
7 19 0.50
8 5 0.13
9 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TATATAA
Found at i:46111431 original size:5 final size:5
Alignment explanation
Indices: 46111423--46111473 Score: 75
Period size: 5 Copynumber: 9.6 Consensus size: 5
46111413 TTTATATAAT
46111423 ATATA ATATAA TATATA ATATA ATATA ATATA ATAATA ATATA ATATA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA
46111471 ATA
1 ATA
46111474 ACAATTCTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
5 32 0.74
6 7 0.16
7 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:46111433 original size:12 final size:12
Alignment explanation
Indices: 46111416--46111470 Score: 89
Period size: 12 Copynumber: 4.8 Consensus size: 12
46111406 TTACTTATTT
46111416 ATATAATATATA
1 ATATAATATATA
46111428 ATATAATATATA
1 ATATAATATATA
46111440 ATAT-A-ATATA
1 ATATAATATATA
46111450 ATATAATA-ATA
1 ATATAATATATA
46111461 ATATAATATA
1 ATATAATATA
46111471 ATAACAATTC
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.22
11 13 0.32
12 18 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATAATATATA
Found at i:46111460 original size:3 final size:3
Alignment explanation
Indices: 46111418--46111474 Score: 54
Period size: 3 Copynumber: 20.3 Consensus size: 3
46111408 ACTTATTTAT
46111418 ATA ATA TATA AT- ATA ATA TATA AT- ATA AT- ATA AT- ATA ATA ATA
1 ATA ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
46111461 AT- ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA A
46111475 CAATTCTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
2 12 0.26
3 28 0.61
4 6 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:46112782 original size:43 final size:43
Alignment explanation
Indices: 46112721--46112861 Score: 187
Period size: 43 Copynumber: 3.3 Consensus size: 43
46112711 ATTTGAAAAG
* * * *
46112721 ACGCCGCTAATGATCAGGACCTTTAGCGGCGCTTTTCCAACAA
1 ACGCCGCTAAAGGTCAGGACCTTTAGCGACGCTTTTCCCACAA
** *
46112764 ACGCCGCTAAAGGTCAGGACCTTTCTCGACGC-TTTCCCACAG
1 ACGCCGCTAAAGGTCAGGACCTTTAGCGACGCTTTTCCCACAA
* *
46112806 ACG-CTCTAAAGGTTAGGACCTTTAGCGACGCTTTTCCCACAA
1 ACGCCGCTAAAGGTCAGGACCTTTAGCGACGCTTTTCCCACAA
46112848 ACGCCGCTAAAGGT
1 ACGCCGCTAAAGGT
46112862 TATAAAAATT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 24 0.29
42 23 0.28
43 36 0.43
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (43 bp):
ACGCCGCTAAAGGTCAGGACCTTTAGCGACGCTTTTCCCACAA
Found at i:46112884 original size:16 final size:17
Alignment explanation
Indices: 46112863--46112895 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46112853 GCTAAAGGTT
*
46112863 ATAAAA-ATTTTAAAAA
1 ATAAAATATTATAAAAA
46112879 ATAAAATATTATAAAAA
1 ATAAAATATTATAAAAA
46112896 TGTCCTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAAATATTATAAAAA
Found at i:46113534 original size:12 final size:12
Alignment explanation
Indices: 46113517--46113549 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
46113507 TTGAAGAACC
46113517 ATTAATCATGTT
1 ATTAATCATGTT
46113529 ATTAATCATGTT
1 ATTAATCATGTT
46113541 ATTAATCAT
1 ATTAATCAT
46113550 ATATGCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (12 bp):
ATTAATCATGTT
Found at i:46117614 original size:23 final size:22
Alignment explanation
Indices: 46117588--46117650 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 22
46117578 TAAAAAATGC
46117588 TAATGAAATTACATATAAAATTT
1 TAAT-AAATTACATATAAAATTT
*
46117611 TAATAAATATAAAT-TAAAAATTT
1 TAATAAAT-TACATAT-AAAATTT
46117634 TAATACAATTACATATA
1 TAATA-AATTACATATA
46117651 TAGGATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 5 0.15
23 25 0.74
24 4 0.12
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (22 bp):
TAATAAATTACATATAAAATTT
Found at i:46118829 original size:7 final size:7
Alignment explanation
Indices: 46118817--46118921 Score: 63
Period size: 7 Copynumber: 14.7 Consensus size: 7
46118807 ACTAATTAAT
46118817 CTAAACC
1 CTAAACC
46118824 CTAAACC
1 CTAAACC
*
46118831 TCTTAACCC
1 -C-TAAACC
*
46118840 CT-ATCC
1 CTAAACC
*
46118846 CATAAACA
1 C-TAAACC
*
46118854 CTAAACT
1 CTAAACC
46118861 CTAAACC
1 CTAAACC
*
46118868 CTTAACC
1 CTAAACC
*
46118875 CCAAACC
1 CTAAACC
*
46118882 CTTACACC
1 C-TAAACC
* *
46118890 TTAAACT
1 CTAAACC
46118897 CT-AACC
1 CTAAACC
46118903 CT-AACAC
1 CTAAAC-C
46118910 CTAAACC
1 CTAAACC
46118917 CTAAA
1 CTAAA
46118922 TCATAATCCT
Statistics
Matches: 75, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
6 12 0.16
7 46 0.61
8 12 0.16
9 5 0.07
ACGTcount: A:0.39, C:0.40, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:46118895 original size:36 final size:36
Alignment explanation
Indices: 46118817--46118918 Score: 102
Period size: 36 Copynumber: 2.8 Consensus size: 36
46118807 ACTAATTAAT
* * * *
46118817 CTAAACCCTAAACCTCTTAACCCCTATCCCATAAACA
1 CTAAACTCTAAACC-CTTAACCCCAAACCCTTAAACA
*
46118854 CTAAACTCTAAACCCTTAACCCCAAACCCTTACAC-
1 CTAAACTCTAAACCCTTAACCCCAAACCCTTAAACA
*
46118889 CTTAAACTCT-AACCC-TAACACCTAAACCCT
1 C-TAAACTCTAAACCCTTAAC-CCCAAACCCT
46118919 AAATCATAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
34 4 0.07
35 15 0.26
36 25 0.44
37 13 0.23
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (36 bp):
CTAAACTCTAAACCCTTAACCCCAAACCCTTAAACA
Found at i:46119175 original size:40 final size:41
Alignment explanation
Indices: 46118980--46119214 Score: 312
Period size: 41 Copynumber: 5.8 Consensus size: 41
46118970 AACTCCTAAA
* ** **
46118980 GCCGCTAATGCTCTGGTCATTAGCGGCGTTTTTTCGTAAGC
1 GCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
* * * **
46119021 GCCGCTAATGCTTTGGTCATTAGCGGCGTTTTTCCGTAAGC
1 GCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
*
46119062 GCCGCTAATGCTCTGGTCTTTAGCGGCATTTTACCAAAAGC
1 GCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
*
46119103 GCTGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
1 GCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
* *
46119144 GCCGCTAATGCTC-AGTCTTTAGCGGCATTTTACCAAAAGC
1 GCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
* *
46119184 GTCGCTAATGCTC-AGTCTTTAGCGGCGTTTT
1 GCCGCTAATGCTCTGGTCTTTAGCGGCGTTTT
46119215 TTACTAAAAC
Statistics
Matches: 179, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
40 54 0.30
41 125 0.70
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.32
Consensus pattern (41 bp):
GCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
Found at i:46119237 original size:81 final size:81
Alignment explanation
Indices: 46119017--46119256 Score: 252
Period size: 81 Copynumber: 3.0 Consensus size: 81
46119007 GTTTTTTCGT
* * * * * ** ** *
46119017 AAGCGCCGCTAATGCTTTGGTCATTAGCGGCGTTTTTCCGTAAGCGCCGCTAATGCTCTGGTCTT
1 AAGCGCTGCTAATGCTCTAGTCTTTAGCGGCGTTTTACCAAAAGCAACGCTAATGCTC-AGTCTT
46119082 TAGCGGCATTTTACCAA
65 TAGCGGCATTTTACCAA
* **
46119099 AAGCGCTGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCAGTCTTT
1 AAGCGCTGCTAATGCTCTAGTCTTTAGCGGCGTTTTACCAAAAGCAACGCTAATGCTCAGTCTTT
46119164 AGCGGCATTTTACCAA
66 AGCGGCATTTTACCAA
* ** * *
46119180 AAGCG-TCGCTAATGCTC-AGTCTTTAGCGGCGTTTTTTACTAAAA-CAACGCTGTTGCTCTGTT
1 AAGCGCT-GCTAATGCTCTAGTCTTTAGCGGCG--TTTTACCAAAAGCAACGCTAATGCTCAGTC
*
46119242 TTTAGCGGCGTTTTA
63 TTTAGCGGCATTTTA
46119257 TAAAGCCCTA
Statistics
Matches: 139, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
80 14 0.10
81 63 0.45
82 62 0.45
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (81 bp):
AAGCGCTGCTAATGCTCTAGTCTTTAGCGGCGTTTTACCAAAAGCAACGCTAATGCTCAGTCTTT
AGCGGCATTTTACCAA
Found at i:46119421 original size:20 final size:21
Alignment explanation
Indices: 46119389--46119430 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
46119379 CTAAACCGAT
*
46119389 AACTTAGGAAAATTTTTGAAA
1 AACTTAGGAAAATTTTTCAAA
46119410 AACTTA-GAAAATTTTTCAAA
1 AACTTAGGAAAATTTTTCAAA
46119430 A
1 A
46119431 TACAGGGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (21 bp):
AACTTAGGAAAATTTTTCAAA
Found at i:46123555 original size:13 final size:13
Alignment explanation
Indices: 46123537--46123564 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
46123527 GGTACCTTGG
46123537 AGAATTTCTATCA
1 AGAATTTCTATCA
46123550 AGAATTTCTATCA
1 AGAATTTCTATCA
46123563 AG
1 AG
46123565 GATTCTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (13 bp):
AGAATTTCTATCA
Found at i:46126269 original size:40 final size:40
Alignment explanation
Indices: 46126223--46126404 Score: 265
Period size: 40 Copynumber: 4.5 Consensus size: 40
46126213 TTATACTCTT
* * *
46126223 TGTTTGGTGTGTTTTGGTTGGATCAGCTCTTATAAGCTTC
1 TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
* ** *
46126263 TATTTGGCATGTTTCGGTTCGATCAGATCTTATGAGCTTC
1 TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
*
46126303 TGTTTGGTGTGTTTCGGTTGGATCAAATCTTATGAGCTTC
1 TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
* *
46126343 TGTTTGGTGTGTTTCAGTTGGATCAGCTCTTATGAGCTTC
1 TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
*
46126383 TGTATGGTGTGTTTCGGTTGGA
1 TGTTTGGTGTGTTTCGGTTGGA
46126405 CTAGATTTCC
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.14, C:0.13, G:0.28, T:0.45
Consensus pattern (40 bp):
TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
Done.