Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 310 of 325
Found at i:94285427 original size:22 final size:24
Alignment explanation
Indices: 94285399--94285455 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 24
94285389 TTTCACATTC
94285399 ATCACAT-CG-GCCATTAGGCCTT
1 ATCACATACGTGCCATTAGGCCTT
*
94285421 ATCACATATGATGTGCCATTAGGCCTT
1 ATCAC--AT-ACGTGCCATTAGGCCTT
94285448 ATCACATA
1 ATCACATA
94285456 TATATACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
22 5 0.17
24 3 0.10
25 2 0.07
26 1 0.03
27 18 0.62
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (24 bp):
ATCACATACGTGCCATTAGGCCTT
Found at i:94285439 original size:74 final size:75
Alignment explanation
Indices: 94285361--94285505 Score: 265
Period size: 76 Copynumber: 1.9 Consensus size: 75
94285351 CATCACATCA
94285361 GCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 GCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
94285425 CATATGATGT
66 CATATGATGT
*
94285435 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
94285500 ACATAT
65 ACATAT
94285506 ATATACATTT
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
74 18 0.26
76 50 0.74
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (75 bp):
GCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATGATGT
Found at i:94285448 original size:172 final size:173
Alignment explanation
Indices: 94285263--94285603 Score: 630
Period size: 172 Copynumber: 2.0 Consensus size: 173
94285253 CATCACATCG
94285263 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
94285328 ACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCAC-ATATATACACTTT
66 ACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACAATATATACACTTT
94285392 CACATTCATCACATCGGCCATTAGGCCTTATCACATATGATGT
131 CACATTCATCACATCGGCCATTAGGCCTTATCACATATGATGT
*
94285435 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
* * *
94285500 ACATATATATACATTTTTACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
66 ACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACA-ATATATACACTT
94285565 TCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
130 TCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
94285604 ATACACACTT
Statistics
Matches: 163, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
172 112 0.69
174 51 0.31
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.33
Consensus pattern (173 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
ACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACAATATATACACTTT
CACATTCATCACATCGGCCATTAGGCCTTATCACATATGATGT
Found at i:94285495 original size:123 final size:124
Alignment explanation
Indices: 94285312--94285554 Score: 434
Period size: 123 Copynumber: 2.0 Consensus size: 124
94285302 CATCACATCG
94285312 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATC
94285377 AC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATGATGT
66 ACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATGATGT
* *
94285435 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATC
* *
94285500 ACATATATATACATTTTTACATTCATCACATCGGCCATTAGGCCTTATCACATAT
66 ACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
94285555 ATATACACTT
Statistics
Matches: 114, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
123 65 0.57
125 49 0.43
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (124 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATC
ACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATGATGT
Found at i:94285597 original size:221 final size:219
Alignment explanation
Indices: 94285217--94285652 Score: 793
Period size: 221 Copynumber: 2.0 Consensus size: 219
94285207 CATCACATCG
94285217 GCCATTAGGCCTTATCACATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 GCCATTAGGCCTTATCACATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
94285282 TATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
66 TATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
94285347 CATTCATCACATCAGCCATTAGGCCTTATCACATATAT-ACACTTTCACATTCATCACATCGGCC
131 CATTCATCACATCAGCCATTAGGCCTTATCACATATATAACACTTTCACATTCATCACATCGGCC
94285411 ATTAGGCCTTATCACATATGATGT
196 ATTAGGCCTTATCACATATGATGT
*
94285435 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCAC--ATATATACA-CTTCACATTCATCACATCGGCCATTAGGCCTTATC
* *
94285500 ACATATATATACATTTTTACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
63 ACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
*
94285565 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATC
128 TCACATTCATCACATCAGCCATTAGGCCTTATCACATATATA-ACACTTTCACATTCATCACATC
94285630 GGCCATTAGGCCTTATCACATAT
192 GGCCATTAGGCCTTATCACATAT
94285653 ATACACACTT
Statistics
Matches: 209, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
218 18 0.09
220 9 0.04
221 137 0.66
223 45 0.22
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (219 bp):
GCCATTAGGCCTTATCACATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
TATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
CATTCATCACATCAGCCATTAGGCCTTATCACATATATAACACTTTCACATTCATCACATCGGCC
ATTAGGCCTTATCACATATGATGT
Found at i:94292793 original size:32 final size:34
Alignment explanation
Indices: 94292747--94292811 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
94292737 TAACAGTGGT
* *
94292747 ACTGGGCCAGAG-CCCTT-TTTAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
94292779 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
94292812 TGGCCTATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 10 0.37
33 5 0.19
34 12 0.44
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:94294691 original size:26 final size:26
Alignment explanation
Indices: 94294660--94294793 Score: 223
Period size: 26 Copynumber: 5.2 Consensus size: 26
94294650 TGAAATGCCC
* *
94294660 ATCATGAAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
94294686 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
94294712 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
94294738 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
94294764 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
94294790 ATCA
1 ATCA
94294794 ATTTGTACCA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:94305887 original size:30 final size:30
Alignment explanation
Indices: 94305853--94305916 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
94305843 CCTTAGCTCT
*
94305853 AACTTTGGAAAAATTACAATTTTGCCCCTA
1 AACTTTGGAAAAATTACAATTTTGCCCCAA
* * * * *
94305883 AACTTTTGCATATTTACACTTTTGCCCCAA
1 AACTTTGGAAAAATTACAATTTTGCCCCAA
94305913 AACT
1 AACT
94305917 CAAAAATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (30 bp):
AACTTTGGAAAAATTACAATTTTGCCCCAA
Found at i:94310140 original size:19 final size:19
Alignment explanation
Indices: 94310116--94310161 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
94310106 CATGGAATAA
94310116 GTACCAAATGGTTAGAAAT
1 GTACCAAATGGTTAGAAAT
94310135 GTACCAAATGGTTAGAAAT
1 GTACCAAATGGTTAGAAAT
94310154 GTACCAAA
1 GTACCAAA
94310162 AATAGATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.24
Consensus pattern (19 bp):
GTACCAAATGGTTAGAAAT
Found at i:94311608 original size:23 final size:24
Alignment explanation
Indices: 94311555--94311611 Score: 82
Period size: 23 Copynumber: 2.4 Consensus size: 24
94311545 ATGTGTCTCG
94311555 ATGTCACAATACTGTGAGAATAGA
1 ATGTCACAATACTGTGAGAATAGA
*
94311579 ATGTCACAATACTGT-AGAGTAGA
1 ATGTCACAATACTGTGAGAATAGA
94311602 A-GCTCACAAT
1 ATG-TCACAAT
94311612 CTATTTTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 1 0.03
23 15 0.48
24 15 0.48
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (24 bp):
ATGTCACAATACTGTGAGAATAGA
Found at i:94311735 original size:24 final size:24
Alignment explanation
Indices: 94311708--94311755 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
94311698 GTGTCTCGAT
94311708 GTCACAATACTGTGAGAATAGAAG
1 GTCACAATACTGTGAGAATAGAAG
* *
94311732 GTCACAATATTGTGAGAGTAGAAG
1 GTCACAATACTGTGAGAATAGAAG
94311756 CTCAAAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.27, T:0.23
Consensus pattern (24 bp):
GTCACAATACTGTGAGAATAGAAG
Found at i:94311820 original size:152 final size:151
Alignment explanation
Indices: 94311518--94311820 Score: 545
Period size: 151 Copynumber: 2.0 Consensus size: 151
94311508 AAGGACATGA
*
94311518 CTCAATATGCAACAATGGATGAAAATCATGTGTCTCGATGTCACAATACTGTGAGAATAGAATGT
1 CTCAATATGCAACAATGGATGAAAATCATGTGTCTCGATGTCACAATACTGTGAGAATAGAAGGT
*
94311583 CACAATACTGTAGAGTAGAAGCTCACAATCTATTTTGTGATATCTTACATGATTTTGGTTTCTAT
66 CACAATACTGTAGAGTAGAAGCTCAAAATCTATTTTGTGATATCTTACATGATTTTGGTTTCTAT
*
94311648 CACATTTGGGGGTATGACTTT
131 CACATCTGGGGGTATGACTTT
94311669 CTCAATATGCAACAATGGATGAAAATCATGTGTCTCGATGTCACAATACTGTGAGAATAGAAGGT
1 CTCAATATGCAACAATGGATGAAAATCATGTGTCTCGATGTCACAATACTGTGAGAATAGAAGGT
*
94311734 CACAATATTGTGAGAGTAGAAGCTCAAAATCTATTTTGTGATCA-CTTACATGATTTTGGTTTCT
66 CACAATACTGT-AGAGTAGAAGCTCAAAATCTATTTTGTGAT-ATCTTACATGATTTTGGTTTCT
94311798 ATCACATCTGGGGGTATGACTTT
129 ATCACATCTGGGGGTATGACTTT
94311821 TGTGCTAGCA
Statistics
Matches: 146, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
151 74 0.51
152 71 0.49
153 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (151 bp):
CTCAATATGCAACAATGGATGAAAATCATGTGTCTCGATGTCACAATACTGTGAGAATAGAAGGT
CACAATACTGTAGAGTAGAAGCTCAAAATCTATTTTGTGATATCTTACATGATTTTGGTTTCTAT
CACATCTGGGGGTATGACTTT
Found at i:94313002 original size:36 final size:36
Alignment explanation
Indices: 94312962--94313030 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
94312952 TGAACTCCAC
94312962 CTTTTGCATGTTAAGTAAATAATTTTAAGTAATTTT
1 CTTTTGCATGTTAAGTAAATAATTTTAAGTAATTTT
*
94312998 CTTTTTCATGTTAAGTAAATAATTTTAAGTAAT
1 CTTTTGCATGTTAAGTAAATAATTTTAAGTAAT
94313031 AATTAAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (36 bp):
CTTTTGCATGTTAAGTAAATAATTTTAAGTAATTTT
Found at i:94315424 original size:143 final size:145
Alignment explanation
Indices: 94315153--94315444 Score: 399
Period size: 143 Copynumber: 2.0 Consensus size: 145
94315143 TCCAAATCAC
* * * *
94315153 ATTTTATAGATCTATTATTAAGAAATGGGTTTTAGTTTTAGTTTTTTTTTGTTATCTTTTAAAAA
1 ATTTTACAGATCTATTATTAAGAAATGGGTTTTAATTTTA--TATTTTTTGTTATCTTCTAAAAA
* ** * * *
94315218 TTGATTGAGAGTTGAAACTGTTGAGAAATGAATTTTTATTCTTTCTTGTTATATTTTAAAAATTG
64 TTAATCAAGAGTTGAAACTGTTGAAAAATGAATTTTTATTCTTTCTTATTATATTCTAAAAATTG
94315283 ATGGAAAGTAGAAGAGA
129 ATGGAAAGTAGAAGAGA
**
94315300 ATTTTACAGATCTATTATTAAGAAATGGGTTTTAATTTTA-ATTTTTT-TTATCTTCTGGAAATT
1 ATTTTACAGATCTATTATTAAGAAATGGGTTTTAATTTTATATTTTTTGTTATCTTCTAAAAATT
* * *
94315363 AATCAAGAGTTGAAAGTGTTGAAAAATGAATTTTTATTCTTTCTTATTATGTTCTAGAAATTGAT
66 AATCAAGAGTTGAAACTGTTGAAAAATGAATTTTTATTCTTTCTTATTATATTCTAAAAATTGAT
* *
94315428 TGAGAGTAGAAGAGA
131 GGAAAGTAGAAGAGA
94315443 AT
1 AT
94315445 GAGGAGTAAG
Statistics
Matches: 128, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
143 84 0.66
144 6 0.05
147 38 0.30
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (145 bp):
ATTTTACAGATCTATTATTAAGAAATGGGTTTTAATTTTATATTTTTTGTTATCTTCTAAAAATT
AATCAAGAGTTGAAACTGTTGAAAAATGAATTTTTATTCTTTCTTATTATATTCTAAAAATTGAT
GGAAAGTAGAAGAGA
Found at i:94316427 original size:21 final size:22
Alignment explanation
Indices: 94316392--94316441 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
94316382 AAAAATATTA
*
94316392 AAAAAATTAAAAAAT-ATTTTT
1 AAAAAATTAAAAAATAAATTTT
94316413 AAACAAATT-AAAAATAAATTTT
1 AAA-AAATTAAAAAATAAATTTT
94316435 AAAAAAT
1 AAAAAAT
94316442 ATGTAGACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAAAATTAAAAAATAAATTTT
Found at i:94316434 original size:22 final size:20
Alignment explanation
Indices: 94316382--94316441 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 20
94316372 ATAATACATT
*
94316382 AAAAATATTAAAAAAATTAAA
1 AAAAAT-TTTAAAAAATTAAA
*
94316403 AAATATTTTTAAACAAATTAAA
1 AAA-AATTTTAAA-AAATTAAA
94316425 AATAAATTTTAAAAAAT
1 AA-AAATTTTAAAAAAT
94316442 ATGTAGACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 12 0.36
22 20 0.61
23 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAATTTTAAAAAATTAAA
Found at i:94316519 original size:30 final size:30
Alignment explanation
Indices: 94316485--94316543 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
94316475 CTTAACAAGT
94316485 AAATACCTCTAAAATAATAACAAAATTAAC
1 AAATACCTCTAAAATAATAACAAAATTAAC
*
94316515 AAATACCTTTAAAATAATAACAAAATTAA
1 AAATACCTCTAAAATAATAACAAAATTAA
94316544 TAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAACAAAATTAAC
Found at i:94317465 original size:44 final size:44
Alignment explanation
Indices: 94317415--94317503 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
94317405 CCCATTATTT
*
94317415 TATTAAAATATAAAAAATAAAAATATTCTCGTATTAAGTTTTCA
1 TATTAAAATATAAAAAATAAAAATATTCTCATATTAAGTTTTCA
94317459 TATTAAAATATAAAAAATAAAAATATTCTCATATTAAGTTTTCA
1 TATTAAAATATAAAAAATAAAAATATTCTCATATTAAGTTTTCA
94317503 T
1 T
94317504 CAGACCAGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (44 bp):
TATTAAAATATAAAAAATAAAAATATTCTCATATTAAGTTTTCA
Found at i:94319058 original size:19 final size:19
Alignment explanation
Indices: 94319034--94319073 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
94319024 AAGTTATTGT
94319034 ATTTTTAAAATATTTAT-AA
1 ATTTTTAAAAT-TTTATCAA
94319053 ATTTTTAAAATTTTATCAA
1 ATTTTTAAAATTTTATCAA
94319072 AT
1 AT
94319074 AATATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTTAAAATTTTATCAA
Found at i:94319321 original size:16 final size:16
Alignment explanation
Indices: 94319297--94319351 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
94319287 TTAGGTTCGC
*
94319297 GTTCAAATTATTTTAG
1 GTTCGAATTATTTTAG
94319313 GTTCGAATTACTTTTAG
1 GTTCGAATTA-TTTTAG
* * *
94319330 GTTAGGATTAGTTTAG
1 GTTCGAATTATTTTAG
*
94319346 ATTCGA
1 GTTCGA
94319352 CCTATTTTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.45
Consensus pattern (16 bp):
GTTCGAATTATTTTAG
Found at i:94319339 original size:17 final size:16
Alignment explanation
Indices: 94319302--94319345 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
94319292 TTCGCGTTCA
*
94319302 AATTATTTTAGGTTCG
1 AATTATTTTAGGTTAG
94319318 AATTACTTTTAGGTTAG
1 AATTA-TTTTAGGTTAG
* *
94319335 GATTAGTTTAG
1 AATTATTTTAG
94319346 ATTCGACCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.48
Consensus pattern (16 bp):
AATTATTTTAGGTTAG
Found at i:94320078 original size:134 final size:134
Alignment explanation
Indices: 94319838--94320105 Score: 536
Period size: 134 Copynumber: 2.0 Consensus size: 134
94319828 AGACAACTTC
94319838 ATTCTCTTTACGAGGAGCTGATACATGCATGTTTAAAAGTGAATTGTAGCTTCCTTAACAGACTA
1 ATTCTCTTTACGAGGAGCTGATACATGCATGTTTAAAAGTGAATTGTAGCTTCCTTAACAGACTA
94319903 ACTGCTAGTCAACAAGTAACTAACTTTCTTTAATTGATACTCTAATATACACGGTTTTCCTTTTG
66 ACTGCTAGTCAACAAGTAACTAACTTTCTTTAATTGATACTCTAATATACACGGTTTTCCTTTTG
94319968 AAAT
131 AAAT
94319972 ATTCTCTTTACGAGGAGCTGATACATGCATGTTTAAAAGTGAATTGTAGCTTCCTTAACAGACTA
1 ATTCTCTTTACGAGGAGCTGATACATGCATGTTTAAAAGTGAATTGTAGCTTCCTTAACAGACTA
94320037 ACTGCTAGTCAACAAGTAACTAACTTTCTTTAATTGATACTCTAATATACACGGTTTTCCTTTTG
66 ACTGCTAGTCAACAAGTAACTAACTTTCTTTAATTGATACTCTAATATACACGGTTTTCCTTTTG
94320102 AAAT
131 AAAT
94320106 CTTACGGTAG
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 134 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (134 bp):
ATTCTCTTTACGAGGAGCTGATACATGCATGTTTAAAAGTGAATTGTAGCTTCCTTAACAGACTA
ACTGCTAGTCAACAAGTAACTAACTTTCTTTAATTGATACTCTAATATACACGGTTTTCCTTTTG
AAAT
Found at i:94321639 original size:3 final size:3
Alignment explanation
Indices: 94321623--94321672 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
94321613 ATACTAAATA
*
94321623 AAT AAT AA- AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
94321667 AA- AAT A
1 AAT AAT A
94321673 TCTCATTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 9 0.22
3 32 0.78
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:94321671 original size:14 final size:14
Alignment explanation
Indices: 94321623--94321691 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 14
94321613 ATACTAAATA
94321623 AATAATAAAA-AAT
1 AATAATAAAATAAT
*
94321636 AATAAT--GA-AAT
1 AATAATAAAATAAT
94321647 AATAATAAAATAAT
1 AATAATAAAATAAT
*
94321661 AATAATAAAATATCT
1 AATAATAAAATA-AT
*
94321676 CATTAATAAAATAAT
1 -AATAATAAAATAAT
94321691 A
1 A
94321692 TTTATCTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
11 10 0.22
13 7 0.15
14 16 0.35
15 2 0.04
16 11 0.24
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (14 bp):
AATAATAAAATAAT
Found at i:94321672 original size:11 final size:11
Alignment explanation
Indices: 94321622--94321665 Score: 72
Period size: 11 Copynumber: 4.1 Consensus size: 11
94321612 TATACTAAAT
94321622 AAATAATAA-A
1 AAATAATAATA
*
94321632 AAATAATAATG
1 AAATAATAATA
94321643 AAATAATAATA
1 AAATAATAATA
94321654 AAATAATAATA
1 AAATAATAATA
94321665 A
1 A
94321666 TAAAATATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
10 9 0.29
11 22 0.71
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (11 bp):
AAATAATAATA
Found at i:94324780 original size:22 final size:21
Alignment explanation
Indices: 94324746--94324788 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
94324736 TGAAACAAAT
* *
94324746 AATATATATATAGAATTAAAAA
1 AATACATACATAGAA-TAAAAA
94324768 AATACATACATAGAATAAAAA
1 AATACATACATAGAATAAAAA
94324789 TTTATTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (21 bp):
AATACATACATAGAATAAAAA
Found at i:94329702 original size:46 final size:46
Alignment explanation
Indices: 94329554--94329686 Score: 221
Period size: 46 Copynumber: 2.9 Consensus size: 46
94329544 TAATAGATCA
* *
94329554 ATGATACAAATCTTATACCCCTGAGTTGCAGTGGCATAGATTGAAG
1 ATGATACAAATCTTATACCCCTGAGTTGCAGTGGGATGGATTGAAG
94329600 ATGATACAAATCTTATACCCCTGAGTTGCAGTGGGATGGATTGAAG
1 ATGATACAAATCTTATACCCCTGAGTTGCAGTGGGATGGATTGAAG
* * *
94329646 ATGATACAAATCCTATATCCCTGAGTTGTAGTGGGATGGAT
1 ATGATACAAATCTTATACCCCTGAGTTGCAGTGGGATGGAT
94329687 GAAAGAAATC
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (46 bp):
ATGATACAAATCTTATACCCCTGAGTTGCAGTGGGATGGATTGAAG
Found at i:94329713 original size:46 final size:46
Alignment explanation
Indices: 94329557--94329726 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
94329547 TAGATCAATG
* * *
94329557 ATACAAATCTTATAC-CCCTGAGTTGCAGTGGCATAGATTGAAGATG
1 ATACAAATCTTAT-CTCCCTGAGTTGCAGTGGGATGGATTGAAGATA
*
94329603 ATACAAATCTTATAC-CCCTGAGTTGCAGTGGGATGGATTGAAGATG
1 ATACAAATCTTAT-CTCCCTGAGTTGCAGTGGGATGGATTGAAGATA
* * *
94329649 ATACAAATCCTATATCCCTGAGTTGTAGTGGGATGGA-TGAAAGA-A
1 ATACAAATCTTATCTCCCTGAGTTGCAGTGGGATGGATTG-AAGATA
* *
94329694 ATCACAAATTTTATCTCCCTGAAGTTTCAGTGG
1 AT-ACAAATCTTATCTCCCTG-AGTTGCAGTGG
94329727 AGCATATCGA
Statistics
Matches: 109, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
45 4 0.04
46 96 0.88
47 9 0.08
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (46 bp):
ATACAAATCTTATCTCCCTGAGTTGCAGTGGGATGGATTGAAGATA
Found at i:94329714 original size:92 final size:93
Alignment explanation
Indices: 94329554--94329726 Score: 219
Period size: 92 Copynumber: 1.9 Consensus size: 93
94329544 TAATAGATCA
* *
94329554 ATGATACAAATCTTATACCCCTGAGTTGCAGTGGCATAGATTGAAGATGATACAAATCTTATACC
1 ATGATACAAATCCTATACCCCTGAGTTGCAGTGGCATAGATTGAAGATAATACAAATCTTATACC
94329619 CCTG-AGTTGCAGTGGGATGGATTGAAG
66 CCTGAAGTTGCAGTGGGATGGATTGAAG
* * * * *
94329646 ATGATACAAATCCTATATCCCTGAGTTGTAGTGGGATGGA-TGAAAGA-AATCACAAATTTTAT-
1 ATGATACAAATCCTATACCCCTGAGTTGCAGTGGCATAGATTG-AAGATAAT-ACAAATCTTATA
*
94329708 CTCCCTGAAGTTTCAGTGG
64 C-CCCTGAAGTTGCAGTGG
94329727 AGCATATCGA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
91 5 0.07
92 54 0.78
93 10 0.14
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (93 bp):
ATGATACAAATCCTATACCCCTGAGTTGCAGTGGCATAGATTGAAGATAATACAAATCTTATACC
CCTGAAGTTGCAGTGGGATGGATTGAAG
Found at i:94329760 original size:50 final size:50
Alignment explanation
Indices: 94329698--94329872 Score: 157
Period size: 50 Copynumber: 3.6 Consensus size: 50
94329688 AAAGAAATCA
*
94329698 CAAATTTTATCTCCCTGAAGTTTCAGTGGAGCATATCGAAGTTATCATGG
1 CAAATCTTATCTCCCTGAAGTTTCAGTGGAGCATATCGAAGTTATCATGG
* * * * * * *
94329748 CGAATCTTATCTCCCTGAAGTTGCGGTAGAGCAGATTGAAG----C--CG
1 CAAATCTTATCTCCCTGAAGTTTCAGTGGAGCATATCGAAGTTATCATGG
* * * * *
94329792 CAAATTTTATCTCCTTGAAGTCGT-AGTGGAGCATATCAAATTTATCATGG
1 CAAATCTTATCTCCCTGAAGT-TTCAGTGGAGCATATCGAAGTTATCATGG
* *
94329842 AAAATCTTATCTCCTTGAAGTTTCAGTGGAG
1 CAAATCTTATCTCCCTGAAGTTTCAGTGGAG
94329873 TAGATTAAAG
Statistics
Matches: 94, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
44 30 0.32
46 1 0.01
48 1 0.01
49 1 0.01
50 61 0.65
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (50 bp):
CAAATCTTATCTCCCTGAAGTTTCAGTGGAGCATATCGAAGTTATCATGG
Found at i:94329878 original size:94 final size:94
Alignment explanation
Indices: 94329698--94329884 Score: 250
Period size: 94 Copynumber: 2.0 Consensus size: 94
94329688 AAAGAAATCA
* * **
94329698 CAAATTTTATCTCCCTGAAGTTTCAGTGGAGCATATCGAAGTTATCATGGCGAATCTTATCTCCC
1 CAAATTTTATCTCCCTGAAGTGTCAGTGGAGCATATCAAAGTTATCATGGAAAATCTTATCTCCC
* *
94329763 TGAAGTTGCGGTAGAGCAGATTGAAGCCG
66 TGAAGTTGCAGTAGAGCAGATTAAAGCCG
* *
94329792 CAAATTTTATCTCCTTGAAGTCGT-AGTGGAGCATATCAAATTTATCATGGAAAATCTTATCTCC
1 CAAATTTTATCTCCCTGAAGT-GTCAGTGGAGCATATCAAAGTTATCATGGAAAATCTTATCTCC
* * * *
94329856 TTGAAGTTTCAGTGGAGTAGATTAAAGCC
65 CTGAAGTTGCAGTAGAGCAGATTAAAGCC
94329885 ACGAACCTTA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 79 0.99
95 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (94 bp):
CAAATTTTATCTCCCTGAAGTGTCAGTGGAGCATATCAAAGTTATCATGGAAAATCTTATCTCCC
TGAAGTTGCAGTAGAGCAGATTAAAGCCG
Found at i:94329896 original size:94 final size:94
Alignment explanation
Indices: 94329704--94329906 Score: 230
Period size: 94 Copynumber: 2.2 Consensus size: 94
94329694 ATCACAAATT
* * * **
94329704 TTATCTCCCTGAAGTTTCAGTGGAGCATATCGAAGTTATCATGGCGAATCTTATCTCCCTGAAGT
1 TTATCTCCTTGAAGTGTCAGTGGAGCATATCAAAGTTATCATGGAAAATCTTATCTCCCTGAAGT
* * * **
94329769 TGCGGTAGAGCAGATTGAAGCCGCAAATT
66 TGCAGTAGAGCAGATTAAAGCCACAAACC
* *
94329798 TTATCTCCTTGAAGTCGT-AGTGGAGCATATCAAATTTATCATGGAAAATCTTATCTCCTTGAAG
1 TTATCTCCTTGAAGT-GTCAGTGGAGCATATCAAAGTTATCATGGAAAATCTTATCTCCCTGAAG
* * * *
94329862 TTTCAGTGGAGTAGATTAAAGCCACGAACC
65 TTGCAGTAGAGCAGATTAAAGCCACAAACC
94329892 TTATCT-CTCTGAAGT
1 TTATCTCCT-TGAAGT
94329907 TACAATGGAC
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
93 2 0.02
94 88 0.97
95 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (94 bp):
TTATCTCCTTGAAGTGTCAGTGGAGCATATCAAAGTTATCATGGAAAATCTTATCTCCCTGAAGT
TGCAGTAGAGCAGATTAAAGCCACAAACC
Found at i:94330131 original size:44 final size:44
Alignment explanation
Indices: 94330081--94330233 Score: 171
Period size: 44 Copynumber: 3.5 Consensus size: 44
94330071 CATGGCGAAT
* * * **
94330081 CTTATCTCCCTGAAGTTGCAGTAGAGCAAATGGAAGCCATTAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
* ** * * ** *
94330125 CTTATCTCCTTGAAGTTTTAATGGAGCAGGTTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAAC
*
94330170 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
94330214 CTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCA
94330234 AATGTGTAGA
Statistics
Matches: 85, Mismatches: 23, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
44 52 0.61
45 33 0.39
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
Found at i:94330186 original size:45 final size:45
Alignment explanation
Indices: 94330125--94330275 Score: 128
Period size: 45 Copynumber: 3.4 Consensus size: 45
94330115 AGCCATTAAC
* * ** *
94330125 CTTATCTCCTTGAAGTTTTAATGGAGCAGGTTGAAGATAGCAAAT
1 CTTATCTCCCTAAAGTTCAAATGGAGCAGATTGAAGATAGCAAAT
* ** *
94330170 CTTATCTCCCTAAAGTTGC-AGTGGAGCAGATTGAAGCCA-CAAAC
1 CTTATCTCCCTAAAGTT-CAAATGGAGCAGATTGAAGATAGCAAAT
* * * *
94330214 CTTATCTCCCTGAAGTTGCAAAT-GTGTAGACTGAAGATAGCAAAT
1 CTTATCTCCCTAAAGTT-CAAATGGAGCAGATTGAAGATAGCAAAT
* *
94330259 CTTATTTTCCTAAAGTT
1 CTTATCTCCCTAAAGTT
94330276 GCAGGGAAGA
Statistics
Matches: 84, Mismatches: 19, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
44 33 0.39
45 51 0.61
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (45 bp):
CTTATCTCCCTAAAGTTCAAATGGAGCAGATTGAAGATAGCAAAT
Found at i:94330229 original size:89 final size:89
Alignment explanation
Indices: 94330078--94330293 Score: 256
Period size: 89 Copynumber: 2.4 Consensus size: 89
94330068 TATCATGGCG
* * * * ** *
94330078 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATGGAAGCCATTAACCTTATCTCCTTGAAGTT-
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTATCTCCCTGAAGTTG
** **
94330142 TTAATGGAGCAGGTTGAAGATAGCA
66 CAAAT-GAGCAGACTGAAGATAGCA
94330167 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTATCTCCCTGAAGTTG
* *
94330232 CAAATGTGTAGACTGAAGATAGCA
66 CAAATGAGCAGACTGAAGATAGCA
* * *
94330256 AATCTTATTTTCCTAAAGTTGCAG-GGAAGAAGATTGAA
1 AATCTTATCTCCCTAAAGTTGCAGTGG-AGCAGATTGAA
94330294 AATACGAGCC
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
88 2 0.02
89 104 0.95
90 3 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (89 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTATCTCCCTGAAGTTG
CAAATGAGCAGACTGAAGATAGCA
Found at i:94330249 original size:44 final size:44
Alignment explanation
Indices: 94330081--94330278 Score: 121
Period size: 44 Copynumber: 4.5 Consensus size: 44
94330071 CATGGCGAAT
* * * * **
94330081 CTTATCTCCCTGAAGTTGCAGTAGAGCA-AATGGAAGCCATTAAC
1 CTTATCTCCCTAAAGTTGCAATGGAGCAGACT-GAAGCCACAAAC
* * ** ** ** *
94330125 CTTATCTCCTTGAAGTTTTAATGGAGCAGGTTGAAGATAGCAAAT
1 CTTATCTCCCTAAAGTTGCAATGGAGCAGACTGAAGCCA-CAAAC
* *
94330170 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
1 CTTATCTCCCTAAAGTTGCAATGGAGCAGACTGAAGCCACAAAC
* * * ** *
94330214 CTTATCTCCCTGAAGTTGCAAAT-GTGTAGACTGAAGATAGCAAAT
1 CTTATCTCCCTAAAGTTGC-AATGGAGCAGACTGAAGCCA-CAAAC
* *
94330259 CTTATTTTCCTAAAGTTGCA
1 CTTATCTCCCTAAAGTTGCA
94330279 GGGAAGAAGA
Statistics
Matches: 118, Mismatches: 32, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
44 62 0.53
45 56 0.47
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTAAAGTTGCAATGGAGCAGACTGAAGCCACAAAC
Found at i:94330277 original size:45 final size:46
Alignment explanation
Indices: 94330144--94330278 Score: 141
Period size: 45 Copynumber: 3.0 Consensus size: 46
94330134 TTGAAGTTTT
**
94330144 AATGGAGCAGGTTGAAGATAGCAAATCTTATCTCCCTAAAGTTGC-
1 AATGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCA
* * ** * *
94330189 AGTGGAGCAGATTGAAGCCA-CAAACCTTATCTCCCTGAAGTTGCA
1 AATGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCA
* * * *
94330234 AAT-GTGTAGACTGAAGATAGCAAATCTTATTTTCCTAAAGTTGCA
1 AATGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCA
94330279 GGGAAGAAGA
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
44 33 0.46
45 39 0.54
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (46 bp):
AATGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCA
Found at i:94330316 original size:89 final size:89
Alignment explanation
Indices: 94330156--94330322 Score: 219
Period size: 89 Copynumber: 1.9 Consensus size: 89
94330146 TGGAGCAGGT
* ** * *
94330156 TGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTATCT
1 TGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGAAGATTGAAAACACAAACCTCATAT
*
94330221 CCCTGAAGTTGCAAATGTGTAGAC
66 CACTGAAGTTGCAAATGTGTAGAC
* * * * *
94330245 TGAAGATAGCAAATCTTATTTTCCTAAAGTTGCAG-GGAAGAAGATTGAAAATACGAGCCTCATA
1 TGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGG-AGAAGATTGAAAACACAAACCTCATA
94330309 TCACTGAAGTTGCA
65 TCACTGAAGTTGCA
94330323 GTGGAGTAGA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
88 2 0.03
89 64 0.97
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (89 bp):
TGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGAAGATTGAAAACACAAACCTCATAT
CACTGAAGTTGCAAATGTGTAGAC
Found at i:94330338 original size:89 final size:90
Alignment explanation
Indices: 94330144--94330338 Score: 216
Period size: 89 Copynumber: 2.2 Consensus size: 90
94330134 TTGAAGTTTT
* * * **
94330144 AATGGAGCAGGTTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA
1 AATGGAGTAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGAAGATTGAAAACA
* * *
94330209 CAAACCTTATCTCCCTGAAGTTGCA
66 CAAACCTCATATCACTGAAGTTGCA
* * * * *
94330234 AAT-GTGTAGACTGAAGATAGCAAATCTTATTTTCCTAAAGTTGCAG-GGAAGAAGATTGAAAAT
1 AATGGAGTAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGG-AGAAGATTGAAAAC
* *
94330297 ACGAGCCTCATATCACTGAAGTTGC-
65 ACAAACCTCATATCACTGAAGTTGCA
*
94330322 AGTGGAGTAGATTGAAG
1 AATGGAGTAGATTGAAG
94330339 CTACAAGTCT
Statistics
Matches: 85, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
88 4 0.05
89 78 0.92
90 3 0.04
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (90 bp):
AATGGAGTAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGAAGATTGAAAACA
CAAACCTCATATCACTGAAGTTGCA
Found at i:94332002 original size:26 final size:26
Alignment explanation
Indices: 94331956--94332055 Score: 92
Period size: 26 Copynumber: 3.8 Consensus size: 26
94331946 CTTATTTATT
*
94331956 ATTTATATATATATATATATTTTAAACA
1 ATTT-TATATAT-TATTTATTTTAAACA
***
94331984 ATTTTATATATTATTTATTTTAGGTA
1 ATTTTATATATTATTTATTTTAAACA
* * * * *
94332010 TTTTTACATATTAGTTCTTTTAAACT
1 ATTTTATATATTATTTATTTTAAACA
*
94332036 ATTTTATGTATTATTTATTT
1 ATTTTATATATTATTTATTT
94332056 AAAATTGCTT
Statistics
Matches: 55, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
26 44 0.80
27 7 0.13
28 4 0.07
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (26 bp):
ATTTTATATATTATTTATTTTAAACA
Found at i:94332167 original size:26 final size:26
Alignment explanation
Indices: 94332133--94332202 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 26
94332123 TTATTTTTGC
*
94332133 ATTAGTTATTTTAAACTGTTTTACAT
1 ATTATTTATTTTAAACTGTTTTACAT
* * *
94332159 ATTATTTATTTTAAATATTTTTTATAT
1 ATTATTTATTTTAAA-CTGTTTTACAT
*
94332186 ATTATTTACTTTAAACT
1 ATTATTTATTTTAAACT
94332203 TATATATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
26 15 0.41
27 22 0.59
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.59
Consensus pattern (26 bp):
ATTATTTATTTTAAACTGTTTTACAT
Found at i:94335505 original size:13 final size:15
Alignment explanation
Indices: 94335476--94335515 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
94335466 GATTGGAGGC
* *
94335476 TTTCAATTTTATTAT
1 TTTCAAATTTATTAA
94335491 TATTCAAATTTATTAA
1 T-TTCAAATTTATTAA
94335507 TTTCAAATT
1 TTTCAAATT
94335516 AGATAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTCAAATTTATTAA
Found at i:94341080 original size:27 final size:25
Alignment explanation
Indices: 94341046--94341095 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
94341036 TAAATTATTA
* *
94341046 TTTTACATCTTTTATATTTTATTATG
1 TTTTACATATATTATA-TTTATTATG
94341072 TTTTCACATATATTATATTTATTA
1 TTTT-ACATATATTATATTTATTA
94341096 ATTATCTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTACATATATTATATTTATTATG
Found at i:94353573 original size:44 final size:44
Alignment explanation
Indices: 94353505--94354014 Score: 261
Period size: 44 Copynumber: 11.5 Consensus size: 44
94353495 TGGTAGAAAG
*
94353505 TCTTATCTCCTTGAAGTTGCAGTGGAGAATATTGAAGTTATAGA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGAATATTGAAGTTATAAA
* * * * * *
94353549 TCTTATCTCCTTAAAGTTGTAGTGGAGTAGATCT-AAGATAGCAAA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGAATAT-TGAAGTTA-TAAA
* * * * * *
94353594 TCTTGTCT-CTCTGAAGTTGCAGTAGAGCATATTAAAGCTATAAG
1 TCTTATCTCCT-TGAAGTTGCAGTGGAGAATATTGAAGTTATAAA
*
94353638 TCTTATCTTCC-TGAAGTTGCAGTGCAGCAA-ATTGAAGTTATAAA
1 TCTTATC-TCCTTGAAGTTGCAGTGGAG-AATATTGAAGTTATAAA
* * * * *
94353682 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCT-AAGATAGCAAA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGAATAT-TGAAGTTA-TAAA
* * * * *
94353727 TCTTATCT-CTCTGAAGTTACAGTAGA-ACAGATTAAAGCTATAAA
1 TCTTATCTCCT-TGAAGTTGCAGTGGAGA-ATATTGAAGTTATAAA
* * * * * * ** *
94353771 CCTTATCT-CTCTGAATTTGTAATAGAGCAGGTTGAAGTTATAGA
1 TCTTATCTCCT-TGAAGTTGCAGTGGAGAATATTGAAGTTATAAA
* * * * ** *
94353815 CCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGATAGTAAA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGAATATTGAAGTTA-TAAA
* * * * * *
94353860 TCTTATCT-CTCTGAAGTTGCAGTAGA-ACAGAATAAAGCTATAAG
1 TCTTATCTCCT-TGAAGTTGCAGTGGAGA-ATATTGAAGTTATAAA
* * * * * * * *
94353904 TATTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGATACT-AA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGAATATTGAAGTTA-TAAA
* * * * *
94353948 TCTTATCTCCCTGAAGTTGTAGTGGAGCATATTGAAGCTACTAAT
1 TCTTATCTCCTTGAAGTTGCAGTGGAGAATATTGAAGTTA-TAAA
*
94353993 TC-TATCTCCCTGAAGTTGCAGT
1 TCTTATCTCCTTGAAGTTGCAGT
94354015 AGAGCGGATT
Statistics
Matches: 362, Mismatches: 81, Indels: 46
0.74 0.17 0.09
Matches are distributed among these distances:
43 4 0.01
44 251 0.69
45 106 0.29
46 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (44 bp):
TCTTATCTCCTTGAAGTTGCAGTGGAGAATATTGAAGTTATAAA
Found at i:94353699 original size:133 final size:132
Alignment explanation
Indices: 94353502--94354029 Score: 625
Period size: 133 Copynumber: 4.0 Consensus size: 132
94353492 TCTTGGTAGA
* * *
94353502 AAGTCTTATCTCCTTGAAGTTGCAGTGGAG-AATATTGAAGTTATAGATCTTATCTCCTTAAAGT
1 AAGTCTTATCTCC-TGAAGTTGCAGTGGAGCAA-ATTGAAGTTATAAATCTTATCTCCCTGAAGT
* * * *
94353566 TGTAGTGGAGTAGATCTAAGATAGCAAATCTTGTCTCTCTGAAGTTGCAGTAGAGCATATTAAAG
64 TGCAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGATTAAAG
94353631 CTAT
129 CTAT
*
94353635 AAGTCTTATCTTCCTGAAGTTGCAGTGCAGCAAATTGAAGTTATAAATCTTATCTCCCTGAAGTT
1 AAGTCTTATC-TCCTGAAGTTGCAGTGGAGCAAATTGAAGTTATAAATCTTATCTCCCTGAAGTT
*
94353700 GCAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTAGAACAGATTAAAGC
65 GCAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGATTAAAGC
94353765 TAT
130 TAT
** * * * * ** * *
94353768 AAACCTTATCTCTCTGAATTTGTAATAGAGCAGGTTGAAGTTATAGACCTTATCTCCCTGAAGTT
1 AAGTCTTATCTC-CTGAAGTTGCAGTGGAGCAAATTGAAGTTATAAATCTTATCTCCCTGAAGTT
* * *
94353833 GCAGTGGAGTAGATCAAAGATAGTAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGAATAAAGC
65 GCAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGATTAAAGC
94353898 TAT
130 TAT
* * * * * *
94353901 AAGTATTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGATACT-AATCTTATCTCCCTGAAGT
1 AAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAAATTGAAGTTA-TAAATCTTATCTCCCTGAAGT
* * * * * * * *
94353965 TGTAGTGGAGCATAT-TGAAGCTA-CTAAT-TCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAA
64 TGCAGTGGAGTAGATCT-AAGATAGCAAATCT-TATCTCTCTGAAGTTGCAGTAGAACAGATTAA
94354027 AGC
127 AGC
94354030 GACAAATCCT
Statistics
Matches: 339, Mismatches: 49, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
131 1 0.00
132 36 0.11
133 295 0.87
134 7 0.02
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (132 bp):
AAGTCTTATCTCCTGAAGTTGCAGTGGAGCAAATTGAAGTTATAAATCTTATCTCCCTGAAGTTG
CAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGATTAAAGCT
AT
Found at i:94353782 original size:177 final size:177
Alignment explanation
Indices: 94353599--94354014 Score: 437
Period size: 177 Copynumber: 2.4 Consensus size: 177
94353589 GCAAATCTTG
* * *
94353599 TCTCTCTGAAGTTGCAGTAGAGCATATTAAAGCTATAAGTCTTATCTTCCTGAAGTTGCAGTGCA
1 TCTCTCTGAAGTTGTAGTAGAGCATATTGAAGCTATAAGTCTTATCTCCCTGAAGTTGCAGTGCA
** * * ** *
94353664 GCAAATTGAAGTTA-TAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAG-ATCTAAGATAGCAAA
66 GCAAATCAAAGATAGTAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGAAT-AAAGATA-CAAA
* * * * *
94353727 TCTTATCTCTCTGAAGTTACAGTAGAACAGATTAAAGCTA-TAAACCTTA
129 TATTATCTCCCTAAAGTTACAGTAGAACAGACTAAAGATACT-AACCTTA
* * ** * * *
94353776 TCTCTCTGAATTTGTAATAGAGCAGGTTGAAGTTAT-AGACCTTATCTCCCTGAAGTTGCAGTGG
1 TCTCTCTGAAGTTGTAGTAGAGCATATTGAAGCTATAAG-TCTTATCTCCCTGAAGTTGCAGTGC
* * * * * *
94353840 AGTAGATCAAAGATAGTAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGAATAAAGCTATAAGT
65 AGCAAATCAAAGATAGTAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGAATAAAGATACAAAT
* * * *
94353905 ATTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGATACTAATCTTA
130 ATTATCTCCCTAAAGTTACAGTAGAACAGACTAAAGATACTAACCTTA
* * *
94353953 TCTCCCTGAAGTTGTAGTGGAGCATATTGAAGCTACTAATTC-TATCTCCCTGAAGTTGCAGT
1 TCTCTCTGAAGTTGTAGTAGAGCATATTGAAGCTA-TAAGTCTTATCTCCCTGAAGTTGCAGT
94354015 AGAGCGGATT
Statistics
Matches: 192, Mismatches: 41, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
176 2 0.01
177 149 0.78
178 38 0.20
179 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (177 bp):
TCTCTCTGAAGTTGTAGTAGAGCATATTGAAGCTATAAGTCTTATCTCCCTGAAGTTGCAGTGCA
GCAAATCAAAGATAGTAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGAATAAAGATACAAATA
TTATCTCCCTAAAGTTACAGTAGAACAGACTAAAGATACTAACCTTA
Found at i:94354237 original size:44 final size:44
Alignment explanation
Indices: 94354187--94354301 Score: 137
Period size: 44 Copynumber: 2.6 Consensus size: 44
94354177 ATCTTATCTC
* *
94354187 TCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA-CCT-TACCT
1 TCTGAAGTTGCAGTAGAGCAGATTAAAGCGATAAATCCTATA-CA
* * *
94354230 TCCTGAAGTTGCAGTGGAGCGGATTAAAGCGGTAAATCCTATACA
1 T-CTGAAGTTGCAGTAGAGCAGATTAAAGCGATAAATCCTATACA
94354275 TCTGAAGTTGCAGTAG-GTCAGATTAAA
1 TCTGAAGTTGCAGTAGAG-CAGATTAAA
94354302 TCTACCATAG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
43 2 0.03
44 52 0.85
45 5 0.08
46 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTGAAGTTGCAGTAGAGCAGATTAAAGCGATAAATCCTATACA
Found at i:94354245 original size:89 final size:89
Alignment explanation
Indices: 94354085--94354248 Score: 211
Period size: 89 Copynumber: 1.8 Consensus size: 89
94354075 ACCATAACTA
* * ** * * * * *
94354085 CAAACCTTATCTCCTTGAAGTTGCAACAGAGCAGGTTGAAGTTATAGATCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCTTATCTTCCTGAAGT
*
94354150 TACAGTGGAGTAGATCAAATATAG
66 TGCAGTGGAGTAGATCAAATATAG
* * *
94354174 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTACCTTCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCTTATCTTCCTGAAGT
94354239 TGCAGTGGAG
66 TGCAGTGGAG
94354249 CGGATTAAAG
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
89 62 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (89 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCTTATCTTCCTGAAGT
TGCAGTGGAGTAGATCAAATATAG
Found at i:94356007 original size:21 final size:22
Alignment explanation
Indices: 94355983--94356032 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
94355973 TACCTAATAT
94355983 TTATTTTATTT-TATCATTTTA
1 TTATTTTATTTATATCATTTTA
* *
94356004 TTA-TTCATTTATATCCTTTTA
1 TTATTTTATTTATATCATTTTA
*
94356025 TAATTTTA
1 TTATTTTA
94356033 AAAATTTAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 6 0.26
21 14 0.61
22 3 0.13
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTTTATTTATATCATTTTA
Found at i:94359910 original size:22 final size:21
Alignment explanation
Indices: 94359885--94359983 Score: 71
Period size: 22 Copynumber: 4.7 Consensus size: 21
94359875 ATGTTGTATG
94359885 TATTTTCATTATATATATTATT
1 TATTTT-ATTATATATATTATT
* *
94359907 TATTTTACTATAT-T-TTATC
1 TATTTTATTATATATATTATT
*
94359926 TATTATATTATTATATATGT-TT
1 TATTTTATTA-TATATAT-TATT
* * *
94359948 AATTTTTATTATATATTTTATA
1 TA-TTTTATTATATATATTATT
*
94359970 TATATTATT-TATAT
1 TATTTTATTATATAT
94359984 CTATATTACA
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
19 12 0.20
20 9 0.15
21 14 0.23
22 17 0.28
23 8 0.13
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (21 bp):
TATTTTATTATATATATTATT
Found at i:94359982 original size:9 final size:9
Alignment explanation
Indices: 94359892--94359989 Score: 67
Period size: 9 Copynumber: 10.8 Consensus size: 9
94359882 ATGTATTTTC
94359892 ATTATATAT
1 ATTATATAT
94359901 ATTAT-T-T
1 ATTATATAT
*
94359908 ATTTTACTAT
1 ATTATA-TAT
* *
94359918 ATTTTATCT
1 ATTATATAT
94359927 ATTATAT-T
1 ATTATATAT
94359935 ATTATATAT
1 ATTATATAT
* * *
94359944 GTTTAATTTTT
1 -ATT-ATATAT
94359955 ATTATATAT
1 ATTATATAT
*
94359964 TTTATATAT
1 ATTATATAT
*
94359973 ATTATTTAT
1 ATTATATAT
94359982 ATCTATAT
1 AT-TATAT
94359990 TACATGTTTT
Statistics
Matches: 69, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
7 5 0.07
8 9 0.13
9 36 0.52
10 15 0.22
11 4 0.06
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (9 bp):
ATTATATAT
Found at i:94360055 original size:7 final size:7
Alignment explanation
Indices: 94359896--94360038 Score: 63
Period size: 7 Copynumber: 21.4 Consensus size: 7
94359886 ATTTTCATTA
94359896 TATATAT
1 TATATAT
*
94359903 TATTTAT
1 TATATAT
*
94359910 T-T-TAC
1 TATATAT
*
94359915 TATATTT
1 TATATAT
*
94359922 TATCTAT
1 TATATAT
94359929 TATATTAT
1 TATA-TAT
94359937 TATATAT
1 TATATAT
*
94359944 GTTTA-AT
1 -TATATAT
*
94359951 T-TTTAT
1 TATATAT
94359957 TATATAT
1 TATATAT
94359964 T-T-TA-
1 TATATAT
94359968 TATATAT
1 TATATAT
*
94359975 TATTTAT
1 TATATAT
*
94359982 ATCTATAT
1 -TATATAT
* *
94359990 TACATGT
1 TATATAT
*
94359997 T-T-TAA
1 TATATAT
* *
94360002 TACATGT
1 TATATAT
*
94360009 TAT-TTT
1 TATATAT
94360015 TATATAT
1 TATATAT
94360022 TATATAT
1 TATATAT
94360029 TATATAT
1 TATATAT
94360036 TAT
1 TAT
94360039 TCATATTATT
Statistics
Matches: 98, Mismatches: 25, Indels: 26
0.66 0.17 0.17
Matches are distributed among these distances:
4 1 0.01
5 9 0.09
6 14 0.14
7 59 0.60
8 15 0.15
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (7 bp):
TATATAT
Found at i:94360170 original size:23 final size:22
Alignment explanation
Indices: 94360137--94360221 Score: 62
Period size: 23 Copynumber: 3.6 Consensus size: 22
94360127 TACCTATTAG
94360137 ATTATAATTATTTTATACATTCTT
1 ATTAT-ATTATTTTATACATT-TT
* * *
94360161 CTTATATTATATTATATATTTT
1 ATTATATTATTTTATACATTTT
* * *
94360183 ATTACATATATTTTATTACTATATG
1 ATTATAT-TATTTTA-TAC-ATTTT
94360208 ATTTATATTATTTT
1 A-TTATATTATTTT
94360222 TATTTGTAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
22 7 0.15
23 19 0.40
24 6 0.13
25 10 0.21
26 5 0.11
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (22 bp):
ATTATATTATTTTATACATTTT
Found at i:94360191 original size:14 final size:15
Alignment explanation
Indices: 94360173--94360217 Score: 65
Period size: 14 Copynumber: 2.9 Consensus size: 15
94360163 TATATTATAT
94360173 TATATATTTTATTAC
1 TATATATTTTATTAC
94360188 -ATATATTTTATTAC
1 TATATATTTTATTAC
94360202 TATATGATTTATATTA
1 TATAT-ATTT-TATTA
94360218 TTTTTATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 14 0.52
15 4 0.15
16 4 0.15
17 5 0.19
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (15 bp):
TATATATTTTATTAC
Found at i:94360999 original size:26 final size:26
Alignment explanation
Indices: 94360962--94361097 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
94360952 TGATACAAAT
* *
94360962 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94360988 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
94361014 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94361040 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94361066 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94361092 TGATAA
1 TGATAA
94361098 GAATTTCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:94362580 original size:28 final size:26
Alignment explanation
Indices: 94362538--94362612 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
94362528 AAAAGTAGCT
* *
94362538 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGGA
* *
94362566 AAATTACTGTTATACCCCTAGGTGTA
1 AAATTACTGTTATACCCCTAGATGGA
*
94362592 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
94362613 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGGA
Found at i:94362757 original size:27 final size:27
Alignment explanation
Indices: 94362716--94362863 Score: 233
Period size: 27 Copynumber: 5.4 Consensus size: 27
94362706 GAGGAAGCGT
*
94362716 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
94362743 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
94362770 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
94362797 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
94362824 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
*
94362852 TCTGGTGACTCT
1 TCTGGTGGCTCT
94362864 ATCACATTAT
Statistics
Matches: 112, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
27 101 0.90
28 11 0.10
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:94362872 original size:27 final size:27
Alignment explanation
Indices: 94362716--94362882 Score: 212
Period size: 27 Copynumber: 6.2 Consensus size: 27
94362706 GAGGAAGCGT
* *
94362716 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAATTATCTGA
*
94362743 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAATTATCTGA
*
94362770 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAATTATCTGA
*
94362797 TCTGGTGGCTCTGCCAC-ATATATCTGT
1 TCTGGTGGCTCTGCCACAAT-TATCTGA
*
94362824 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAATTATCTG-A
* ** *
94362852 TCTGGTGACTCTATCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAATTATCTGA
94362878 TCTGG
1 TCTGG
94362883 CAGCCATGCT
Statistics
Matches: 129, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
26 6 0.05
27 107 0.83
28 16 0.12
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATTATCTGA
Found at i:94362875 original size:54 final size:53
Alignment explanation
Indices: 94362714--94362882 Score: 239
Period size: 54 Copynumber: 3.1 Consensus size: 53
94362704 TGGAGGAAGC
* *
94362714 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCAC-ATTATCT
*
94362768 GATCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAT-TATCT
* * * **
94362822 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACATTATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGGCTCTGCCACATTATCT
94362876 GTTCTGG
1 GTTCTGG
94362883 CAGCCATGCT
Statistics
Matches: 104, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
53 1 0.01
54 86 0.83
55 17 0.16
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (53 bp):
GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACATTATCT
Found at i:94366065 original size:13 final size:15
Alignment explanation
Indices: 94366024--94366068 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
94366014 AGCGTGTTTA
* *
94366024 ATCTGGTATTTCTGT
1 ATCTGTTATTTCTAT
94366039 ATCTGTTATTTCTAT
1 ATCTGTTATTTCTAT
94366054 ATCTG-T-TTTCTAT
1 ATCTGTTATTTCTAT
94366067 AT
1 AT
94366069 ATGATTTGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 9 0.32
14 1 0.04
15 18 0.64
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (15 bp):
ATCTGTTATTTCTAT
Found at i:94366672 original size:17 final size:17
Alignment explanation
Indices: 94366630--94366674 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
94366620 GCGACTATTA
*
94366630 TCTAAAAACTAAAGTTTT
1 TCTAAAAA-TAAAGGTTT
94366648 TACT-AAAATAAAGGTTT
1 T-CTAAAAATAAAGGTTT
94366665 TCTAAAAATA
1 TCTAAAAATA
94366675 TGAACTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.08
17 15 0.62
18 5 0.21
19 2 0.08
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.36
Consensus pattern (17 bp):
TCTAAAAATAAAGGTTT
Found at i:94367174 original size:16 final size:18
Alignment explanation
Indices: 94367136--94367178 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
94367126 TAAATTTAAA
94367136 TAAAAATATAAAAATTAG
1 TAAAAATATAAAAATTAG
* *
94367154 -AAAAA-ATAAAAAATCG
1 TAAAAATATAAAAATTAG
94367170 TAAAAATAT
1 TAAAAATAT
94367179 TATAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 9 0.43
17 10 0.48
18 2 0.10
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (18 bp):
TAAAAATATAAAAATTAG
Found at i:94367194 original size:19 final size:19
Alignment explanation
Indices: 94367140--94367223 Score: 75
Period size: 19 Copynumber: 4.5 Consensus size: 19
94367130 TTTAAATAAA
*
94367140 AATATAAAAAT--TAGAAAA
1 AATATAAAAATCGTA-AAAT
94367158 AATA-AAAAATCGTAAAAAT
1 AATATAAAAATCGT-AAAAT
* *
94367177 ATTATAAAAATTGTAAAAT
1 AATATAAAAATCGTAAAAT
** *
94367196 TTTATAAAAATCGTAAAAA
1 AATATAAAAATCGTAAAAT
94367215 AATATAAAA
1 AATATAAAA
94367224 TACATCAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
17 6 0.11
18 4 0.07
19 35 0.65
20 9 0.17
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (19 bp):
AATATAAAAATCGTAAAAT
Found at i:94367382 original size:20 final size:21
Alignment explanation
Indices: 94367359--94367398 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94367349 TAAAAATCAA
*
94367359 TAAAAG-TTATAGAAAAATGT
1 TAAAAGTTTATAAAAAAATGT
94367379 TAAAAGTTTATAAAAAAATG
1 TAAAAGTTTATAAAAAAATG
94367399 ATAGAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
TAAAAGTTTATAAAAAAATGT
Found at i:94367621 original size:20 final size:20
Alignment explanation
Indices: 94367596--94367661 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 20
94367586 ACATAATAAT
94367596 TTTTATAATTTTTTTACGA-A
1 TTTTATAATTTTTTTAC-ATA
* *
94367616 TTTTAT-ATTTCTTTACATT
1 TTTTATAATTTTTTTACATA
*
94367635 TTTTATAATTTTCTTAC-TA
1 TTTTATAATTTTTTTACATA
*
94367654 CTTTATAA
1 TTTTATAA
94367662 AATTTTATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 1 0.03
19 23 0.61
20 14 0.37
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTATAATTTTTTTACATA
Found at i:94373921 original size:56 final size:57
Alignment explanation
Indices: 94373793--94373923 Score: 140
Period size: 57 Copynumber: 2.3 Consensus size: 57
94373783 TTCATATAAT
* ** * *
94373793 AATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATTTAAT
1 AATAATTATATTAA-AATATGGTTAAAATATATATTATTTTATTAAATTATATTTAAC
* * * * *
94373851 AATAATTATGTTAAAATATGGTTAAAATATTTATTTTTTTATTAACTT-TTTTTAAC
1 AATAATTATATTAAAATATGGTTAAAATATATATTATTTTATTAAATTATATTTAAC
94373907 AATAATCT-TATTAAAAT
1 AATAAT-TATATTAAAAT
94373924 TTAATAACAA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
56 20 0.33
57 28 0.46
58 13 0.21
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (57 bp):
AATAATTATATTAAAATATGGTTAAAATATATATTATTTTATTAAATTATATTTAAC
Found at i:94374104 original size:46 final size:44
Alignment explanation
Indices: 94374016--94374109 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
94374006 ATTACAACAT
94374016 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
* *
94374060 CATTTCATTCAACCAAACA-ATTGAATTACTGATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACT-ATTACAGTTCTATTC
94374106 CATT
1 CATT
94374110 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.47
45 4 0.09
46 19 0.42
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:94374146 original size:16 final size:16
Alignment explanation
Indices: 94374091--94374147 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
94374081 TGAATTACTG
*
94374091 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
94374107 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
94374123 ATTACAGC-CATATTCC
1 ATTACAGCTC-TATTCC
94374139 ATTACAGCT
1 ATTACAGCT
94374148 AACCAAACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 1 0.03
16 35 0.97
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:94384538 original size:31 final size:31
Alignment explanation
Indices: 94384503--94384561 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
94384493 AAGCTATTTT
*
94384503 AAATTGAAATTAAGTAGA-AAATTTCAATTAA
1 AAATTCAAATTAAG-AGACAAATTTCAATTAA
* *
94384534 AAATTCAACTTTAGAGACAAATTTCAAT
1 AAATTCAAATTAAGAGACAAATTTCAAT
94384562 CAAACAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (31 bp):
AAATTCAAATTAAGAGACAAATTTCAATTAA
Found at i:94387490 original size:14 final size:15
Alignment explanation
Indices: 94387473--94387501 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
94387463 GAGTATGGTA
94387473 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
94387487 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
94387502 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:94387934 original size:16 final size:17
Alignment explanation
Indices: 94387907--94387938 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
94387897 ATTCATAATA
94387907 TAAAATAAAATTAAAAT
1 TAAAATAAAATTAAAAT
94387924 TAAAA-AAAATTAAAA
1 TAAAATAAAATTAAAA
94387939 GTATAACTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAAATAAAATTAAAAT
Found at i:94392217 original size:26 final size:26
Alignment explanation
Indices: 94392179--94392288 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
94392169 CATGAAATTC
*
94392179 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
94392205 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
94392231 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
94392257 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
94392283 TTATCA
1 TTATCA
94392289 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:94393291 original size:5 final size:5
Alignment explanation
Indices: 94393283--94393324 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
94393273 TAGTATAATA
94393283 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
94393325 ATAAAGTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:94393418 original size:4 final size:4
Alignment explanation
Indices: 94393383--94393443 Score: 61
Period size: 4 Copynumber: 14.2 Consensus size: 4
94393373 AACAGAATGT
*
94393383 GAAA CGAAA -AAA GAGAA GGAAA GAAG GAAA GAAA GAAAA GAAA GAAAA
1 GAAA -GAAA GAAA GA-AA -GAAA GAAA GAAA GAAA G-AAA GAAA G-AAA
94393431 GAAA GAAA GAAA G
1 GAAA GAAA GAAA G
94393444 GGAAATTAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
3 3 0.06
4 28 0.57
5 16 0.33
6 2 0.04
ACGTcount: A:0.70, C:0.02, G:0.28, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:94393427 original size:13 final size:13
Alignment explanation
Indices: 94393392--94393442 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
94393382 TGAAACGAAA
*
94393392 AAAGAGAAGGAAAG
1 AAAGA-AAGAAAAG
*
94393406 AAGGAAAG-AAAG
1 AAAGAAAGAAAAG
94393418 AAAAGAAAGAAAAG
1 -AAAGAAAGAAAAG
94393432 AAAGAAAGAAA
1 AAAGAAAGAAA
94393443 GGGAAATTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
12 4 0.12
13 21 0.64
14 8 0.24
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAG
Found at i:94394576 original size:44 final size:44
Alignment explanation
Indices: 94394527--94394613 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
94394517 TGTTCAGGGA
* *
94394527 TACTTCAACCTT-GAGTCGATGAGACACTATAAGTGTCGTACTGT
1 TACTTCAA-CTTCGAGTCAATGAGACACCATAAGTGTCGTACTGT
* * *
94394571 TACTTCGACTTCGAGTCAATGAGGCACCATATGTGTCGTACTG
1 TACTTCAACTTCGAGTCAATGAGACACCATAAGTGTCGTACTG
94394614 CTATTGTTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.08
44 34 0.92
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (44 bp):
TACTTCAACTTCGAGTCAATGAGACACCATAAGTGTCGTACTGT
Found at i:94399557 original size:38 final size:38
Alignment explanation
Indices: 94399473--94399558 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 38
94399463 GTGGATTAGT
*
94399473 TAAATACATATATTAGTAATTATTATTTACTTATAATA
1 TAAATAAATATATTAGTAATTATTATTTACTTATAATA
*
94399511 TAAGTAAATATATTA-T-ATTATTATATTA-TTATAAATA
1 TAAATAAATATATTAGTAATTATTAT-TTACTTAT-AATA
94399548 TAAAATAAATA
1 T-AAATAAATA
94399559 AATCAAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 12 0.29
37 9 0.21
38 21 0.50
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (38 bp):
TAAATAAATATATTAGTAATTATTATTTACTTATAATA
Found at i:94399838 original size:5 final size:5
Alignment explanation
Indices: 94399828--94399871 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
94399818 TTAAGTAATA
94399828 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
94399872 ATAATAAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:94405890 original size:25 final size:23
Alignment explanation
Indices: 94405848--94405917 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 23
94405838 GAGCTATAAT
*
94405848 CAGTAAGCTCCTCCTGAGCTGATGAA
1 CAGTAAGCT-CTACTGAGCTGA--AA
*
94405874 CAGTAAGCTCTATTGAGCTGAAA
1 CAGTAAGCTCTACTGAGCTGAAA
*
94405897 CGGTAAGCTCTGAC-GAGCTGA
1 CAGTAAGCTCT-ACTGAGCTGA
94405918 TTTATCGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 19 0.49
24 1 0.03
25 10 0.26
26 9 0.23
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (23 bp):
CAGTAAGCTCTACTGAGCTGAAA
Found at i:94407079 original size:27 final size:27
Alignment explanation
Indices: 94406976--94407080 Score: 88
Period size: 27 Copynumber: 3.6 Consensus size: 27
94406966 CTATTCAGAA
*
94406976 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
*
94407003 ATCAGTATTAATCTGGGTCATAGCCC-T
1 ATCAGTATTAATCTGGG-CCTAGCCCAT
*
94407030 ATTACAATATTAGAGCATACTGGGCCTAGCCCAT
1 A-T-CAGTATT--A--AT-CTGGGCCTAGCCCAT
94407064 ATCAGTATTAATCTGGG
1 ATCAGTATTAATCTGGG
94407081 TCGTCGCCCT
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
27 17 0.27
28 14 0.22
29 7 0.11
30 1 0.02
31 1 0.02
32 6 0.10
33 10 0.16
34 7 0.11
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (27 bp):
ATCAGTATTAATCTGGGCCTAGCCCAT
Found at i:94407161 original size:19 final size:20
Alignment explanation
Indices: 94407118--94407173 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
94407108 ATTGGGTCTT
94407118 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
94407138 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
94407157 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
94407174 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:94409341 original size:19 final size:18
Alignment explanation
Indices: 94409304--94409347 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
94409294 ATACATACAG
94409304 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
94409321 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
94409340 TACTAATT
1 TAATAATT
94409348 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:94416557 original size:23 final size:24
Alignment explanation
Indices: 94416531--94416582 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
94416521 AAGCTCAATT
94416531 GAGCTGAAACGA-TAAGCTCTGAC
1 GAGCTGAAACGAGTAAGCTCTGAC
**
94416554 GAGCTGAAATTAGTAAGCTCTGAC
1 GAGCTGAAACGAGTAAGCTCTGAC
94416578 GAGCT
1 GAGCT
94416583 AATTTATCGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (24 bp):
GAGCTGAAACGAGTAAGCTCTGAC
Found at i:94420781 original size:2 final size:2
Alignment explanation
Indices: 94420774--94420806 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
94420764 CCTTTGTAGT
94420774 TA TA TA TA TA TA TA TA TA TA TA T- TA TA CTA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T
94420807 TAAAGTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 26 0.90
3 2 0.07
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94430982 original size:21 final size:22
Alignment explanation
Indices: 94430965--94431005 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
94430955 CTGTTTTGTT
94430965 GTTG-TTTGCTAGC-ATTTTGAC
1 GTTGTTTTGCT-GCTATTTTGAC
94430986 GTTGTTTTGCTGCTATTTTG
1 GTTGTTTTGCTGCTATTTTG
94431006 CTATTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.10, C:0.12, G:0.24, T:0.54
Consensus pattern (22 bp):
GTTGTTTTGCTGCTATTTTGAC
Found at i:94433516 original size:115 final size:114
Alignment explanation
Indices: 94433387--94433719 Score: 519
Period size: 115 Copynumber: 2.9 Consensus size: 114
94433377 TTTTATAGTT
*
94433387 GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
94433452 TAATATATTTAAAAAATAATAATTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTAAAAAA-AATAATTTTATAGCTATTTTATTAGTAATTTAA
*
94433502 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGAGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
* *
94433567 TAATATATTTTAAAAAAAATATTTTTAGAGCTATTTTATTAGTAATTTAA
66 TAATATA-TTTAAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
94433617 GATTAGGTTATAT--ATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAGTGTATTGTGATTTTTTT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA--GTGTATTAGTGTATTGTGA---TTTT
* * *
94433680 TTTAGTAATGTATTT-TAAAAAATAATTTTATAGTTATTTT
61 TTTAGTAATATATTTAAAAAAAATAATTTTATAGCTATTTT
94433720 GTGTTAGTAT
Statistics
Matches: 202, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
113 22 0.11
115 132 0.65
116 30 0.15
117 3 0.01
118 15 0.07
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.52
Consensus pattern (114 bp):
GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
TAATATATTTAAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
Found at i:94433832 original size:22 final size:22
Alignment explanation
Indices: 94433779--94433841 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
94433769 TTTTTTAATG
*
94433779 TAATTTTTATATAATGTAATTTA
1 TAATTTTTATATAAT-TTATTTA
*
94433802 T-ATTATTATAT-ATTTATTTGA
1 TAATTTTTATATAATTTATTT-A
*
94433823 TAATTTTTAT-TGATTTATT
1 TAATTTTTATATAATTTATT
94433842 AAAATGTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 5 0.15
21 5 0.15
22 23 0.68
23 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TAATTTTTATATAATTTATTTA
Found at i:94434672 original size:10 final size:10
Alignment explanation
Indices: 94434657--94434682 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
94434647 TTTGAGTATT
94434657 TGCCAAGTAC
1 TGCCAAGTAC
94434667 TGCCAAGTAC
1 TGCCAAGTAC
94434677 TGCCAA
1 TGCCAA
94434683 TGAACGGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (10 bp):
TGCCAAGTAC
Found at i:94435893 original size:33 final size:33
Alignment explanation
Indices: 94435856--94435943 Score: 83
Period size: 33 Copynumber: 2.6 Consensus size: 33
94435846 CAGTACTCTG
94435856 CTCCTTCCGGCCCGTATCCACCCAT-ATACTCAA
1 CTCC-TCCGGCCCGTATCCACCCATCATACTCAA
* * *
94435889 CTCCTCCAGAG-CTGTATCCA-CCATCGTACTCTA
1 CTCCTCC-G-GCCCGTATCCACCCATCATACTCAA
*
94435922 CTCCTCTCGGCCCATATCCACC
1 CTCCTC-CGGCCCGTATCCACC
94435944 GCCATATTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
32 8 0.18
33 33 0.75
34 3 0.07
ACGTcount: A:0.19, C:0.45, G:0.10, T:0.25
Consensus pattern (33 bp):
CTCCTCCGGCCCGTATCCACCCATCATACTCAA
Found at i:94436323 original size:19 final size:19
Alignment explanation
Indices: 94436299--94436342 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
94436289 GAACGTAATT
94436299 ATAATAGTAAATGAAATAC
1 ATAATAGTAAATGAAATAC
94436318 ATAATAGTAAATGAAATAC
1 ATAATAGTAAATGAAATAC
94436337 ATAATA
1 ATAATA
94436343 AATCCGAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (19 bp):
ATAATAGTAAATGAAATAC
Found at i:94443697 original size:3 final size:3
Alignment explanation
Indices: 94443689--94443742 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
94443679 AAGGACAATT
94443689 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
94443737 TAA TAA
1 TAA TAA
94443743 AAGAACAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:94447233 original size:38 final size:36
Alignment explanation
Indices: 94447158--94447241 Score: 98
Period size: 38 Copynumber: 2.3 Consensus size: 36
94447148 AAAAATTAAA
* * *
94447158 TTTTAAAATATTTATAAAAATTTCGAAATTTATATT
1 TTTTAAAATATTTAAAAAAATTTCAAAATTTAAATT
94447194 TTTTAAAATATTATAAAGAAAATTT-AAAATTTAAAATT
1 TTTTAAAATATT-TAAA-AAAATTTCAAAATTT-AAATT
*
94447232 TTCTAAAATA
1 TTTTAAAATA
94447242 ATAACTTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 12 0.29
37 9 0.22
38 20 0.49
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (36 bp):
TTTTAAAATATTTAAAAAAATTTCAAAATTTAAATT
Found at i:94450813 original size:17 final size:17
Alignment explanation
Indices: 94450791--94450828 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
94450781 CGAAATACAT
*
94450791 AATATACAATAATTTAA
1 AATATAAAATAATTTAA
*
94450808 AATATAAAATAATTTGA
1 AATATAAAATAATTTAA
94450825 AATA
1 AATA
94450829 AATATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (17 bp):
AATATAAAATAATTTAA
Found at i:94454531 original size:7 final size:7
Alignment explanation
Indices: 94454498--94454530 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
94454488 TTGATATGTT
94454498 ATTTCAC
1 ATTTCAC
94454505 ATTTCAC
1 ATTTCAC
94454512 ATTTCAC
1 ATTTCAC
*
94454519 ATTTCCC
1 ATTTCAC
94454526 ATTTC
1 ATTTC
94454531 CTATTTACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTTCAC
Found at i:94457677 original size:2 final size:2
Alignment explanation
Indices: 94457670--94457695 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94457660 TTGATTTTAG
94457670 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
94457696 TTAGTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94466179 original size:20 final size:21
Alignment explanation
Indices: 94466156--94466194 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
94466146 TTTGGCTTAA
94466156 AGTATCAATACC-TTTAACCT
1 AGTATCAATACCATTTAACCT
*
94466176 AGTATCGATACCATTTAAC
1 AGTATCAATACCATTTAAC
94466195 GATTTTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (21 bp):
AGTATCAATACCATTTAACCT
Found at i:94471755 original size:21 final size:21
Alignment explanation
Indices: 94471717--94471756 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
94471707 TAAATATTAT
* *
94471717 AAATGTATTTTTTTATAATAG
1 AAATGTATTTTATAATAATAG
*
94471738 AAATTTATTTTATAATAAT
1 AAATGTATTTTATAATAAT
94471757 TTAATATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
AAATGTATTTTATAATAATAG
Found at i:94471764 original size:18 final size:18
Alignment explanation
Indices: 94471743--94471820 Score: 67
Period size: 16 Copynumber: 4.6 Consensus size: 18
94471733 AATAGAAATT
94471743 TATTTTATAATAATTTAA
1 TATTTTATAATAATTTAA
*
94471761 TATTTTAAAATAA-TT-A
1 TATTTTATAATAATTTAA
*
94471777 TATTTTAT-ATAAACTTAA
1 TATTTTATAAT-AATTTAA
* *
94471795 TA-ATAATAAT-ATTTAA
1 TATTTTATAATAATTTAA
*
94471811 TATTTAATAA
1 TATTTTATAA
94471821 AAAATAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
15 2 0.04
16 17 0.35
17 13 0.27
18 17 0.35
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTTTATAATAATTTAA
Found at i:94471781 original size:16 final size:16
Alignment explanation
Indices: 94471739--94471783 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
94471729 TTATAATAGA
*
94471739 AATT-TATTTTATAAT
1 AATTATATTTTAAAAT
94471754 AATTTAATATTTTAAAAT
1 AA-TT-ATATTTTAAAAT
94471772 AATTATATTTTA
1 AATTATATTTTA
94471784 TATAAACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.08
16 10 0.38
17 2 0.08
18 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTATATTTTAAAAT
Found at i:94471836 original size:23 final size:23
Alignment explanation
Indices: 94471749--94471832 Score: 66
Period size: 27 Copynumber: 3.5 Consensus size: 23
94471739 AATTTATTTT
94471749 ATAATAATTTAATATTTTAA-AATA
1 ATAAT-ATTTAATA-TTTAATAATA
* *
94471773 ATTATATTTTATATAAACTTAATAATA
1 ATAATA-TTTA-AT--ATTTAATAATA
94471800 ATAATATTTAATATTTAATAA-A
1 ATAATATTTAATATTTAATAATA
94471822 A-AATAATTTAA
1 ATAAT-ATTTAA
94471833 ATATATAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
21 3 0.06
22 8 0.16
23 9 0.18
24 8 0.16
25 4 0.08
26 8 0.16
27 10 0.20
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (23 bp):
ATAATATTTAATATTTAATAATA
Found at i:94477725 original size:15 final size:16
Alignment explanation
Indices: 94477705--94477734 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94477695 AAAATTAAAT
94477705 TTTATA-TTAAATTAC
1 TTTATATTTAAATTAC
94477720 TTTATATTTAAATTA
1 TTTATATTTAAATTA
94477735 TTATGTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTATATTTAAATTAC
Found at i:94479030 original size:22 final size:23
Alignment explanation
Indices: 94478985--94479033 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 23
94478975 TTTATAGATC
94478985 ATTTATAAATTTCATAAATAATAT
1 ATTTATAAATTTCAT-AATAATAT
94479009 ATTTATATAATTT-AT-ATAATAT
1 ATTTATA-AATTTCATAATAATAT
94479031 ATT
1 ATT
94479034 ATACTCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.42
24 9 0.38
25 5 0.21
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTTATAAATTTCATAATAATAT
Found at i:94480002 original size:18 final size:17
Alignment explanation
Indices: 94479981--94480047 Score: 50
Period size: 18 Copynumber: 4.1 Consensus size: 17
94479971 TAAAAATAAA
94479981 AAAAATATTAAAAAATT
1 AAAAATATTAAAAAATT
* * *
94479998 GAAAATTTTTATAAAATT
1 -AAAAATATTAAAAAATT
*
94480016 ACAAA-ATTAAAAAA--
1 AAAAATATTAAAAAATT
* *
94480030 AACAATATAAAAAAATT
1 AAAAATATTAAAAAATT
94480047 A
1 A
94480048 TTAATTCTTT
Statistics
Matches: 36, Mismatches: 10, Indels: 7
0.68 0.19 0.13
Matches are distributed among these distances:
14 3 0.08
15 8 0.22
16 7 0.19
17 4 0.11
18 14 0.39
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.28
Consensus pattern (17 bp):
AAAAATATTAAAAAATT
Found at i:94480423 original size:17 final size:17
Alignment explanation
Indices: 94480398--94480447 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
94480388 TTTTAGTATT
94480398 TTTTATATTTTTATATAA
1 TTTTATATTTTTA-ATAA
94480416 TTTT-TATTTTTAATAAA
1 TTTTATATTTTTAAT-AA
94480433 TTTAATATATTTTTA
1 TTT--TATATTTTTA
94480448 TTTTTTAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.07
17 13 0.46
18 4 0.14
19 1 0.04
20 8 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATATTTTTAATAA
Found at i:94480444 original size:46 final size:46
Alignment explanation
Indices: 94480389--94480481 Score: 113
Period size: 44 Copynumber: 2.1 Consensus size: 46
94480379 TCTAGCAAAT
* *
94480389 TTTAGTAT-TTTTTATATTTTTATATAATTTT-T-A-TTTTTAATAAA
1 TTTAATATATTTTTAT-TTTTTA-AGAATTTTGTAATTTTTTAATAAA
*
94480433 TTTAATATATTTTTATTTTTTAAGCATTTTGTAATTTTTTAATAAA
1 TTTAATATATTTTTATTTTTTAAGAATTTTGTAATTTTTTAATAAA
94480479 TTT
1 TTT
94480482 TAATTTTATC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
43 6 0.14
44 14 0.33
45 8 0.19
46 14 0.33
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (46 bp):
TTTAATATATTTTTATTTTTTAAGAATTTTGTAATTTTTTAATAAA
Found at i:94480453 original size:27 final size:27
Alignment explanation
Indices: 94480394--94480455 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
94480384 CAAATTTTAG
**
94480394 TATTTTTT-ATATTTTTATATAATTTT
1 TATTTTTTAATAAATTTATATAATTTT
94480420 TA-TTTTTAATAAATTTA-ATATATTTT
1 TATTTTTTAATAAATTTATATA-ATTTT
94480446 TATTTTTTAA
1 TATTTTTTAA
94480456 GCATTTTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 8 0.26
26 16 0.52
27 7 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (27 bp):
TATTTTTTAATAAATTTATATAATTTT
Found at i:94480485 original size:18 final size:18
Alignment explanation
Indices: 94480433--94480488 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
94480423 TTTTAATAAA
* *
94480433 TTTAATATATTTTTATTT
1 TTTAATAAATTTTAATTT
** *
94480451 TTTAAGCATTTTGTAATTT
1 TTTAATAAATTT-TAATTT
94480470 TTTAATAAATTTTAATTT
1 TTTAATAAATTTTAATTT
94480488 T
1 T
94480489 ATCACATTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTAATAAATTTTAATTT
Found at i:94480672 original size:31 final size:31
Alignment explanation
Indices: 94480616--94480677 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
94480606 ATGAAACGGA
* *
94480616 AACGCCTGATAACATTAGGGGCTAAATTAGG
1 AACGCCTGATAACATTAGGGACTAAAATAGG
* * *
94480647 AACGTCTGATAACGTTAGGTACTAAAATAGG
1 AACGCCTGATAACATTAGGGACTAAAATAGG
94480678 CAAAAAAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (31 bp):
AACGCCTGATAACATTAGGGACTAAAATAGG
Found at i:94480833 original size:22 final size:23
Alignment explanation
Indices: 94480806--94480853 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
94480796 CTTTTTTAAC
* *
94480806 ACATAAATTGAAAAATAA-TTAG
1 ACATAAAATAAAAAATAACTTAG
94480828 ACATAAAATAAAAAATAACTTAG
1 ACATAAAATAAAAAATAACTTAG
94480851 ACA
1 ACA
94480854 AATTTAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.23
Consensus pattern (23 bp):
ACATAAAATAAAAAATAACTTAG
Found at i:94486321 original size:34 final size:35
Alignment explanation
Indices: 94486281--94486362 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 35
94486271 CATCATATTG
* * **
94486281 ACTGTTATAAGCATATTATTTGCTACTGTATGGA-
1 ACTGTTATAAGCATATCAATTGCTACCATATGGAT
* *
94486315 ACTGTTATGAGCATATCAATTGCTACCATATTGAT
1 ACTGTTATAAGCATATCAATTGCTACCATATGGAT
94486350 A-TGTTATAAGCAT
1 ACTGTTATAAGCAT
94486363 GCCATATTAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 39 0.98
35 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (35 bp):
ACTGTTATAAGCATATCAATTGCTACCATATGGAT
Found at i:94487714 original size:44 final size:43
Alignment explanation
Indices: 94487666--94487750 Score: 152
Period size: 44 Copynumber: 2.0 Consensus size: 43
94487656 TGAATGTAGA
*
94487666 AAAAAATTAAATATATTTTCTTATAGATACTTTTATGGTAAAGT
1 AAAAAATTAAATATATTTTCTCATAGATACTTTTAT-GTAAAGT
94487710 AAAAAATTAAATATATTTTCTCATAGATACTTTTATGTAAA
1 AAAAAATTAAATATATTTTCTCATAGATACTTTTATGTAAA
94487751 ATTGTCATGA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 5 0.12
44 35 0.88
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (43 bp):
AAAAAATTAAATATATTTTCTCATAGATACTTTTATGTAAAGT
Found at i:94500904 original size:6 final size:6
Alignment explanation
Indices: 94500890--94500919 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
94500880 TTTTTTTTTT
94500890 TAATC- TAATCA TAATCA TAATCA TAATCA T
1 TAATCA TAATCA TAATCA TAATCA TAATCA T
94500920 GTTATGCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (6 bp):
TAATCA
Found at i:94503853 original size:13 final size:14
Alignment explanation
Indices: 94503825--94503857 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
94503815 CAGGTTTGCC
94503825 TTCCTTACTCTTTT
1 TTCCTTACTCTTTT
*
94503839 TTCCTTA-TTTTTT
1 TTCCTTACTCTTTT
94503852 TTCCTT
1 TTCCTT
94503858 TTTCTGGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (14 bp):
TTCCTTACTCTTTT
Found at i:94513627 original size:9 final size:10
Alignment explanation
Indices: 94513608--94513638 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
94513598 AAATTACTTG
94513608 AAAATTAAAA
1 AAAATTAAAA
94513618 AAAATTAAAA
1 AAAATTAAAA
*
94513628 AAAAGTAAAA
1 AAAATTAAAA
94513638 A
1 A
94513639 GTAAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:94521903 original size:13 final size:13
Alignment explanation
Indices: 94521885--94521910 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94521875 TATAAAAGGA
94521885 ATGACATTTTTCT
1 ATGACATTTTTCT
94521898 ATGACATTTTTCT
1 ATGACATTTTTCT
94521911 TTAGTTGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
ATGACATTTTTCT
Found at i:94522336 original size:18 final size:18
Alignment explanation
Indices: 94522303--94522337 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94522293 ATTTTACAAC
* *
94522303 TTGAATAATTCGAATAAT
1 TTGAATAAATCAAATAAT
94522321 TTGAATAAATCAAATAA
1 TTGAATAAATCAAATAA
94522338 CAAGTTGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (18 bp):
TTGAATAAATCAAATAAT
Found at i:94522589 original size:2 final size:2
Alignment explanation
Indices: 94522582--94522606 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
94522572 AATGAGTATC
94522582 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
94522607 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94523835 original size:39 final size:39
Alignment explanation
Indices: 94523781--94523945 Score: 303
Period size: 39 Copynumber: 4.2 Consensus size: 39
94523771 TTCAGTGATG
94523781 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
94523820 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
94523859 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
94523898 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
94523937 TATATCCGG
1 TATATCCGG
94523946 GCTAAAGTCC
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 123 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:94523959 original size:39 final size:39
Alignment explanation
Indices: 94523781--94524015 Score: 289
Period size: 39 Copynumber: 6.0 Consensus size: 39
94523771 TTCAGTGATG
*
94523781 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
94523820 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
94523859 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
94523898 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * *
94523937 TATATCCGGGC-TAAAGTCCCGCAGGCT-TCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTAT-GTGCTGGAAT
** **
94523976 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGGTAAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGG-AAT
94524015 T
1 T
94524016 GGTTTCAAGT
Statistics
Matches: 179, Mismatches: 13, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
38 16 0.09
39 163 0.91
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:94530491 original size:39 final size:39
Alignment explanation
Indices: 94530433--94530589 Score: 142
Period size: 39 Copynumber: 4.0 Consensus size: 39
94530423 TTCAGTGATG
**
94530433 TATATCCGGACTTAGGGT-CCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCCGCAGGCT-TGTGCTGGAAT
* * *
94530472 TATATCCGGACTTAAGGT-CCGTAGGCTATGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCCGCAGGCT-TGTGCTGGAAT
* * * *
94530511 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAAGTCCCGCAGGCTT-GTGCTGGAAT
** *
94530550 TATA-CCGGGTTTAAATTCCCGCAGGCTTGTGCTGGTAAT
1 TATATCCGGACTTAAAGTCCCGCAGGCTTGTGCTGG-AAT
94530589 T
1 T
94530590 GGTTTCAAGT
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
38 17 0.17
39 82 0.83
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCCGCAGGCTTGTGCTGGAAT
Done.