Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 310 of 325
Found at i:100445446 original size:3 final size:3
Alignment explanation
Indices: 100445438--100445465 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
100445428 ATTTAACTGA
100445438 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
100445466 AAAACTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:100446055 original size:21 final size:23
Alignment explanation
Indices: 100446020--100446069 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
100446010 AACCAAACTG
* *
100446020 CAATTTTCGATTTCAGA-TACTT
1 CAATTTTCGATTTCAAATTAATT
*
100446042 CAATTTT-TATTTCAAATTAATT
1 CAATTTTCGATTTCAAATTAATT
100446064 CAATTT
1 CAATTT
100446070 CAGTTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.50
Consensus pattern (23 bp):
CAATTTTCGATTTCAAATTAATT
Found at i:100448671 original size:17 final size:18
Alignment explanation
Indices: 100448651--100448684 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
100448641 GTGAAGAAGG
*
100448651 ATTTGTAGTG-GGGTGAT
1 ATTTATAGTGTGGGTGAT
100448668 ATTTATAGTGTGGGTGA
1 ATTTATAGTGTGGGTGA
100448685 GGATTAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (18 bp):
ATTTATAGTGTGGGTGAT
Found at i:100452259 original size:14 final size:16
Alignment explanation
Indices: 100452236--100452267 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
100452226 TTACAAATAA
100452236 TTTAATTTATTAA-AT
1 TTTAATTTATTAAGAT
100452251 TTTAA-TTATTAAGAT
1 TTTAATTTATTAAGAT
100452266 TT
1 TT
100452268 AGTGCTGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTAATTTATTAAGAT
Found at i:100458453 original size:9 final size:9
Alignment explanation
Indices: 100458437--100458479 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
100458427 GGTATTTTTC
100458437 GGTAATTCG
1 GGTAATTCG
*
100458446 GTTAATTCG
1 GGTAATTCG
*
100458455 GTTAATTCG
1 GGTAATTCG
100458464 GGTAATTCG
1 GGTAATTCG
100458473 GGTAATT
1 GGTAATT
100458480 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.40
Consensus pattern (9 bp):
GGTAATTCG
Found at i:100459480 original size:14 final size:13
Alignment explanation
Indices: 100459457--100459499 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
100459447 TAGAAGAAAT
100459457 AAAA-AGAAATAA
1 AAAAGAGAAATAA
100459469 AAATAGAGAAATAA
1 AAA-AGAGAAATAA
100459483 ATAAAGAGGAAATAA
1 A-AAAGA-GAAATAA
100459498 AA
1 AA
100459500 GAAATAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.11
13 1 0.04
14 13 0.48
15 10 0.37
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (13 bp):
AAAAGAGAAATAA
Found at i:100466749 original size:22 final size:22
Alignment explanation
Indices: 100466721--100466768 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
100466711 ATGATAGAGA
100466721 TTGAAGTGAAAAACAGACTTGC
1 TTGAAGTGAAAAACAGACTTGC
100466743 TTGAAGTGAAAAACAGACTTGC
1 TTGAAGTGAAAAACAGACTTGC
100466765 TTGA
1 TTGA
100466769 TTAAATCGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (22 bp):
TTGAAGTGAAAAACAGACTTGC
Found at i:100470906 original size:29 final size:28
Alignment explanation
Indices: 100470847--100470908 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
100470837 TGTCTCTCTT
* *
100470847 TTTTTTTAATATTTGTGGAATTAAGCCA
1 TTTTTTTAATATTTCTGGAATTAAGCAA
*
100470875 TTTTTTTAATATTTCTAGG-ATTAGGCTAA
1 TTTTTTTAATATTTCT-GGAATTAAGC-AA
100470904 TTTTT
1 TTTTT
100470909 GAAAATGCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (28 bp):
TTTTTTTAATATTTCTGGAATTAAGCAA
Found at i:100471222 original size:11 final size:11
Alignment explanation
Indices: 100471174--100471235 Score: 67
Period size: 11 Copynumber: 5.8 Consensus size: 11
100471164 TTCCAACTCA
100471174 CTCTCAATTCT
1 CTCTCAATTCT
*
100471185 CTTTCAATTCT
1 CTCTCAATTCT
100471196 CTCT-AAGTTCT
1 CTCTCAA-TTCT
* *
100471207 TTCTCAATTCA
1 CTCTCAATTCT
100471218 CTCTCAA--CT
1 CTCTCAATTCT
100471227 CTCTCAATT
1 CTCTCAATT
100471236 TTTATTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
9 8 0.20
10 2 0.05
11 29 0.71
12 2 0.05
ACGTcount: A:0.21, C:0.32, G:0.02, T:0.45
Consensus pattern (11 bp):
CTCTCAATTCT
Found at i:100481278 original size:76 final size:76
Alignment explanation
Indices: 100481183--100481331 Score: 271
Period size: 76 Copynumber: 2.0 Consensus size: 76
100481173 TTAGATTTCG
* * *
100481183 AAATTTAGATTCAATTGTTAATGTTGTAATGAATTTAAGTTTAACAAAATAGTTTTAACACCGAT
1 AAATTTAGATTCAATTGTTAACGTTGTAATAAACTTAAGTTTAACAAAATAGTTTTAACACCGAT
100481248 AATAATTAGAT
66 AATAATTAGAT
100481259 AAATTTAGATTCAATTGTTAACGTTGTAATAAACTTAAGTTTAACAAAATAGTTTTAACACCGAT
1 AAATTTAGATTCAATTGTTAACGTTGTAATAAACTTAAGTTTAACAAAATAGTTTTAACACCGAT
100481324 AATAATTA
66 AATAATTA
100481332 AATATGAATT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (76 bp):
AAATTTAGATTCAATTGTTAACGTTGTAATAAACTTAAGTTTAACAAAATAGTTTTAACACCGAT
AATAATTAGAT
Found at i:100482499 original size:16 final size:16
Alignment explanation
Indices: 100482479--100482516 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
100482469 TAAAATTTTA
100482479 ATAAATGAAAAA-AAT
1 ATAAATGAAAAATAAT
*
100482494 ATTAAATTAAAAATAAT
1 A-TAAATGAAAAATAAT
100482511 ATAAAT
1 ATAAAT
100482517 ATATATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 15 0.75
17 4 0.20
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
ATAAATGAAAAATAAT
Found at i:100484671 original size:17 final size:17
Alignment explanation
Indices: 100484649--100484682 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
100484639 ATCCACTAAT
*
100484649 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
100484666 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
100484683 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:100489310 original size:17 final size:17
Alignment explanation
Indices: 100489288--100489321 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
100489278 ATCCACTAAT
*
100489288 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
100489305 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
100489322 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:100497385 original size:29 final size:30
Alignment explanation
Indices: 100497309--100497385 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
100497299 TTAAATTTTG
* * * *
100497309 AAAAGTATAGGGACTAAACTTGATCAATTC
1 AAAAATATAAGGACTAAAATTGATCAAATC
* * *
100497339 AAAAATACAAGAATTAAAATTGATCAAATC
1 AAAAATATAAGGACTAAAATTGATCAAATC
100497369 -AAAATATAAGGACTAAA
1 AAAAATATAAGGACTAAA
100497386 TCTACAACTT
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
29 14 0.38
30 23 0.62
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (30 bp):
AAAAATATAAGGACTAAAATTGATCAAATC
Found at i:100502510 original size:41 final size:41
Alignment explanation
Indices: 100502428--100503192 Score: 256
Period size: 44 Copynumber: 17.5 Consensus size: 41
100502418 CGCTGCAACT
* * *
100502428 TCAGGGAGATAAGACTTGTGACTTCAATCTACTCCGCTGTAACC
1 TCAGGGAGATAAGAC--CTGA-TTCGATCTACTCCACTGTAACC
* * * *
100502472 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACT
1 TCAGGGAGATAAGACCTGATTCGATCTACTCCACTGTAACC
* * * ** ** *
100502513 TCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACT
1 TCAGGGAGATAAGA--CCTGA-TTCGATCTACTCCACTGTAACC
* ** * * *
100502557 TCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACC
1 TCAGGGAGATAAGA-CCTG-ATTCGATCTACTCCACTGTAACC
* * *
100502600 TCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCGCTGTAACC
1 TCAGGGAGATAAGACCTG--A---TTCGATCTACTCCACTGTAACC
* * * *
100502646 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACT
1 TCAGGGAGATAAGACCTGATTCGATCTACTCCACTGTAACC
* * ** ** *
100502687 TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT
1 TCAGGGAGATAAGA-CC-TGA-TTCGATCTACTCCACTGTAACC
** * **
100502731 TCAGGGAGATAAGGTCTGTTTATT-TATAACTTCAATCCATTCCACTGTAATT
1 TCAGGGAGATAAGACCTG---ATTCGAT--C-T--A--C--TCCACTGTAACC
* ** * * * *
100502783 TCAGGGAAATAAGATTTGCTATCTTC-AGTCTGCTCCGCTGCAACT
1 TCAGGGAGATAAGACCTG--A--TTCGA-TCTACTCCACTGTAACC
* * *
100502828 TCAGGGAGATAAGACTTGTGACTTCAATCTACTCCGCTGTAACC
1 TCAGGGAGATAAGAC--CTGA-TTCGATCTACTCCACTGTAACC
* * * *
100502872 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACT
1 TCAGGGAGATAAGACCTGATTCGATCTACTCCACTGTAACC
* * * ** ** *
100502913 TCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACT
1 TCAGGGAGATAAGA--CCTGA-TTCGATCTACTCCACTGTAACC
* ** * * *
100502957 TCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACC
1 TCAGGGAGATAAGA-CCTG-ATTCGATCTACTCCACTGTAACC
* * *
100503000 TCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCGCTGTAACC
1 TCAGGGAGATAAGACCTG--A---TTCGATCTACTCCACTGTAACC
* * * *
100503046 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACT
1 TCAGGGAGATAAGACCTGATTCGATCTACTCCACTGTAACC
* * ** ** *
100503087 TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT
1 TCAGGGAGATAAGA-CC-TGA-TTCGATCTACTCCACTGTAACC
* ** * * *
100503131 TCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACC
1 TCAGGGAGATAAGA-CCTG-ATTCGATCTACTCCACTGTAACC
*
100503174 TCAGGGAGATAAGATCTGA
1 TCAGGGAGATAAGACCTGA
100503193 AATTTCCAAC
Statistics
Matches: 543, Mismatches: 136, Indels: 87
0.71 0.18 0.11
Matches are distributed among these distances:
41 116 0.21
42 20 0.04
43 108 0.20
44 163 0.30
45 26 0.05
46 72 0.13
47 3 0.01
50 1 0.00
51 3 0.01
52 27 0.05
53 3 0.01
54 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (41 bp):
TCAGGGAGATAAGACCTGATTCGATCTACTCCACTGTAACC
Found at i:100502611 original size:87 final size:85
Alignment explanation
Indices: 100502459--100502743 Score: 293
Period size: 87 Copynumber: 3.3 Consensus size: 85
100502449 CTTCAATCTA
* * * * *
100502459 CTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCACTGTAACTTCAGGGAGATAAGACATGATGCGATCTACTCCACTGTAACTTCAGAGAGATA
100502524 AGATTCTTTATTTTAATCCG
66 AGATTCTTTATTTTAATCCG
* * * * * * * *
100502544 CTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGA
1 CTCCACTGTAACTTCAGGGAGATAAGA-CATG-ATGCGATCTACTCCACTGTAACTTCAGAGAGA
** ** **
100502609 TAAGA-TCTGAAATTCTTCGGTCTA
64 TAAGATTCT-TTATT-TT-AATCCG
* * * * *
100502633 CTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCACTGTAACTTCAGGGAGATAAGACATGATGCGATCTACTCCACTGTAACTTCAGAGAGATA
*
100502698 AGATCCTTTATTTTAATCCG
66 AGATTCTTTATTTTAATCCG
100502718 CTCCACTGTAACTTCAGGGAGATAAG
1 CTCCACTGTAACTTCAGGGAGATAAG
100502744 GTCTGTTTAT
Statistics
Matches: 152, Mismatches: 42, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
85 48 0.32
86 7 0.05
87 66 0.43
88 6 0.04
89 25 0.16
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (85 bp):
CTCCACTGTAACTTCAGGGAGATAAGACATGATGCGATCTACTCCACTGTAACTTCAGAGAGATA
AGATTCTTTATTTTAATCCG
Found at i:100502646 original size:174 final size:172
Alignment explanation
Indices: 100502411--100502741 Score: 565
Period size: 174 Copynumber: 1.9 Consensus size: 172
100502401 CTATCTTCAG
* **
100502411 TCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTGACTTCAATCTACTCCGCTGTAACCTCAG
1 TCTGCTCCGCTGCAACCTCAGGGAGATAAGACTTGAAACTTCAATCTACTCCGCTGTAACCTCAG
*
100502476 GGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATTCTTTATTTTAAT
66 GGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
100502541 CCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGA
131 CCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGA
* **
100502583 TCTGCTCCGCTGTAACCTCAGGGAGATAAGA-TCTGAAATTCTTCGGTCTACTCCGCTGTAACCT
1 TCTGCTCCGCTGCAACCTCAGGGAGATAAGACT-TGAAA--CTTCAATCTACTCCGCTGTAACCT
100502647 CAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
63 CAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
100502712 AATCCGCTCCACTGTAACTTCAGGGAGATA
128 AATCCGCTCCACTGTAACTTCAGGGAGATA
100502742 AGGTCTGTTT
Statistics
Matches: 149, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
171 1 0.01
172 32 0.21
174 116 0.78
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (172 bp):
TCTGCTCCGCTGCAACCTCAGGGAGATAAGACTTGAAACTTCAATCTACTCCGCTGTAACCTCAG
GGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
CCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGA
Found at i:100502870 original size:226 final size:225
Alignment explanation
Indices: 100502545--100502967 Score: 674
Period size: 226 Copynumber: 1.9 Consensus size: 225
100502535 TTTAATCCGC
* * *
100502545 TCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGAT
1 TCCACTGTAACTTCAGGGAAATAAGATTATGTCTTCGATCTGCTCCGCTGCAACCTCAGGGAGAT
**
100502610 AAGATCTGAAATTCTTCGGTCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGATCTAC
66 AAGATCTGAAA-TCTTCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGATCTAC
100502675 TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGA
130 TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGA
100502740 TAAGGTCTGTTTATTTATAACTTCAATCCAT
195 TAAGGTCTGTTTATTTATAACTTCAATCCAT
* *
100502771 TCCACTGTAATTTCAGGGAAATAAGATT-TGCTATCTTC-AGTCTGCTCCGCTGCAACTTCAGGG
1 TCCACTGTAACTTCAGGGAAATAAGATTATG---TCTTCGA-TCTGCTCCGCTGCAACCTCAGGG
**
100502834 AGATAAGA-CTTGTGA-CTTCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGAT
62 AGATAAGATC-TGAAATCTTCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGAT
*
100502897 CTACTCTACTGTAACTTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTCAGG
126 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGG
100502962 GAGATA
191 GAGATA
100502968 GGATTATGTC
Statistics
Matches: 182, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
225 2 0.01
226 141 0.77
227 2 0.01
228 37 0.20
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (225 bp):
TCCACTGTAACTTCAGGGAAATAAGATTATGTCTTCGATCTGCTCCGCTGCAACCTCAGGGAGAT
AAGATCTGAAATCTTCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACT
CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGAT
AAGGTCTGTTTATTTATAACTTCAATCCAT
Found at i:100503011 original size:87 final size:87
Alignment explanation
Indices: 100502905--100503188 Score: 322
Period size: 87 Copynumber: 3.3 Consensus size: 87
100502895 ATCTACTCTA
*
100502905 CTGTAACTTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
1 CTGTAACCTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
100502970 ATTATGTCTTCGATCTGCTCCG
66 ATTATGTCTTCGATCTGCTCCG
* ** ** ** * * *
100502992 CTGTAACCTCAGGGAGATAAGA-TCTGAAATTCTTCGGTCTACTCCGCTGTAACCTCAGGGAAAT
1 CTGTAACCTCAGAGAGATAAGATTCT-TTATT-TT-AATCCGCTCCACTGTAACTTCAGGGAGAT
* ** * * * **
100503056 AAGA-CCTG-ATGCGATCTACTCTA
63 AGGATTATGTCTTCGATCTGCTCCG
* *
100503079 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
1 CTGTAACCTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
100503144 ATTATGTCTTCGATCTGCTCCG
66 ATTATGTCTTCGATCTGCTCCG
*
100503166 CTGTAACCTCAGGGAGATAAGAT
1 CTGTAACCTCAGAGAGATAAGAT
100503189 CTGAAATTTC
Statistics
Matches: 150, Mismatches: 41, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
85 25 0.17
86 7 0.05
87 87 0.58
88 6 0.04
89 25 0.17
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (87 bp):
CTGTAACCTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
ATTATGTCTTCGATCTGCTCCG
Found at i:100503023 original size:400 final size:400
Alignment explanation
Indices: 100502321--100503141 Score: 1624
Period size: 400 Copynumber: 2.1 Consensus size: 400
100502311 CAACCTGCTT
* *
100502321 CACTGCAACTTCAGGGAGATAAGGTCTGTTTATTTATAACTTCAATCCATTCCATTGTAATTTCA
1 CACTGTAACTTCAGGGAGATAAGGTCTGTTTATTTATAACTTCAATCCATTCCACTGTAATTTCA
100502386 GGGAAATAAGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTGACT
66 GGGAAATAAGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTGACT
100502451 TCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCA
131 TCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCA
100502516 GAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTC
196 GAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTC
100502581 GATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCGCTGTAACC
261 GATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCGCTGTAACC
100502646 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
326 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
100502711 TAATCCGCTC
391 TAATCCGCTC
100502721 CACTGTAACTTCAGGGAGATAAGGTCTGTTTATTTATAACTTCAATCCATTCCACTGTAATTTCA
1 CACTGTAACTTCAGGGAGATAAGGTCTGTTTATTTATAACTTCAATCCATTCCACTGTAATTTCA
100502786 GGGAAATAAGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTGACT
66 GGGAAATAAGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTGACT
100502851 TCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCA
131 TCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCA
100502916 GAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTC
196 GAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTC
100502981 GATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCGCTGTAACC
261 GATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCGCTGTAACC
100503046 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
326 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
100503111 TAATCCGCTC
391 TAATCCGCTC
100503121 CACTGTAACTTCAGGGAGATA
1 CACTGTAACTTCAGGGAGATA
100503142 GGATTATGTC
Statistics
Matches: 419, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
400 419 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (400 bp):
CACTGTAACTTCAGGGAGATAAGGTCTGTTTATTTATAACTTCAATCCATTCCACTGTAATTTCA
GGGAAATAAGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTGACT
TCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCA
GAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTC
GATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCGCTGTAACC
TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
TAATCCGCTC
Found at i:100503036 original size:174 final size:174
Alignment explanation
Indices: 100502771--100503196 Score: 682
Period size: 174 Copynumber: 2.4 Consensus size: 174
100502761 TTCAATCCAT
* * * * *
100502771 TCCACTGTAATTTCAGGGAAATAAGATT-TGCTATCTTC-AGTCTGCTCCGCTGCAACTTCAGGG
1 TCCACTGTAACTTCAGGGAGATAGGATTATG---TCTTCGA-TCTGCTCCGCTGTAACCTCAGGG
**
100502834 AGATAAGA-CTTGTGA--CTTCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGA
62 AGATAAGATC-TGAAATTCTTCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGA
*
100502896 TCTACTCTACTGTAACTTCAGAGAGATAAGATTCTTTATTTTAATCCGC
126 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
100502945 TCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGAT
1 TCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGAT
**
100503010 AAGATCTGAAATTCTTCGGTCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGATCTAC
66 AAGATCTGAAATTCTTCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGATCTAC
100503075 TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
131 TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
100503119 TCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGAT
1 TCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGAT
100503184 AAGATCTGAAATT
66 AAGATCTGAAATT
100503197 TCCAACCTAT
Statistics
Matches: 237, Mismatches: 10, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
172 37 0.16
173 2 0.01
174 196 0.83
175 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (174 bp):
TCCACTGTAACTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGAT
AAGATCTGAAATTCTTCAATCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGATCTAC
TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
Found at i:100503628 original size:86 final size:86
Alignment explanation
Indices: 100503325--100503670 Score: 511
Period size: 86 Copynumber: 4.1 Consensus size: 86
100503315 GCTTGTGTCC
* * * ** * * *
100503325 TCGATCTACTTCGCTGTCAATGTAGGAAGATAAGATCTGCTTCTTTAACCAGCTCCACTGCAACT
1 TCGATCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGTAACC
*
100503390 AATGAAGGCAAGG-CTTGTTT
66 AATGAAGGCAAGGATTTGTTT
*
100503410 TCGATCTGCTTCGTTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGTAACC
1 TCGATCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGTAACC
100503475 AATGAA-GCAAGGA-TTGTTT
66 AATGAAGGCAAGGATTTGTTT
* *
100503494 TCGATCTGCTTCGTTGTTAACGCAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGTAACC
1 TCGATCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGTAACC
*
100503559 AATGAAGGCAATGATTTGTTT
66 AATGAAGGCAAGGATTTGTTT
* *
100503580 TCGATCTGCTTCGCTGTTAATGCT-GGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGTAAC
1 TCGATCTGCTTCGCTGTTAACG-TAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGTAAC
*
100503644 CAATGAAGGCAAGGCTTTGTTT
65 CAATGAAGGCAAGGATTTGTTT
100503666 TCGAT
1 TCGAT
100503671 GTTCACTGAT
Statistics
Matches: 240, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
84 82 0.34
85 68 0.28
86 90 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (86 bp):
TCGATCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGTAACC
AATGAAGGCAAGGATTTGTTT
Found at i:100503631 original size:170 final size:171
Alignment explanation
Indices: 100503356--100503670 Score: 510
Period size: 170 Copynumber: 1.8 Consensus size: 171
100503346 GTAGGAAGAT
* * *
100503356 AAGATCTGCTTCTTTAACCAGCTCCACTGCAACTAATGAAGGCAAGGCTTGTTTTCGATCTGCTT
1 AAGATCTACTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGACTTGTTTTCGATCTGCTT
*
100503421 CGTTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGTAACCAATGAA-GCAA
66 CGCTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGTAACCAATGAAGGCAA
100503485 GG-ATTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAGGC
131 GGCATTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAGGC
* *
100503525 AAGATCTACTTCTTTAACCAGCTCCACTGTAACCAATGAAGGCAATGATTTGTTTTCGATCTGCT
1 AAGATCTACTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAA-GACTTGTTTTCGATCTGCT
* *
100503590 TCGCTGTTAATGCT-GGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGTAACCAATGAAGGC
65 TCGCTGTTAACG-TAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGTAACCAATGAAGGC
*
100503654 AAGGCTTTGTTTTCGAT
129 AAGGCATTGTTTTCGAT
100503671 GTTCACTGAT
Statistics
Matches: 133, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
169 42 0.32
170 73 0.55
171 7 0.05
172 11 0.08
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (171 bp):
AAGATCTACTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGACTTGTTTTCGATCTGCTT
CGCTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGTAACCAATGAAGGCAA
GGCATTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAGGC
Found at i:100504924 original size:14 final size:14
Alignment explanation
Indices: 100504900--100504959 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
100504890 TCCCCTTAGA
100504900 CTTTCCATTTTT-ACT
1 CTTT-CATTTTTCA-T
100504915 CTTTCATTTTTCAT
1 CTTTCATTTTTCAT
* *
100504929 TTTTCATTTTCCAT
1 CTTTCATTTTTCAT
*
100504943 -TTTCATTCTTCAT
1 CTTTCATTTTTCAT
100504956 CTTT
1 CTTT
100504960 TTCTTTTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
13 11 0.28
14 23 0.59
15 5 0.13
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.63
Consensus pattern (14 bp):
CTTTCATTTTTCAT
Found at i:100504928 original size:7 final size:7
Alignment explanation
Indices: 100504916--100504960 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
100504906 ATTTTTACTC
100504916 TTTCATT
1 TTTCATT
100504923 TTTCATT
1 TTTCATT
100504930 TTTCATT
1 TTTCATT
*
100504937 TTCCA-T
1 TTTCATT
100504943 TTTCATT
1 TTTCATT
*
100504950 CTTCATCT
1 TTTCAT-T
100504958 TTT
1 TTT
100504961 TCTTTTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
6 5 0.16
7 24 0.75
8 3 0.09
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTCATT
Found at i:100505365 original size:15 final size:15
Alignment explanation
Indices: 100505335--100505367 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
100505325 CTATTTTGAC
*
100505335 TTTGATTTTTTTATT
1 TTTGATTTTTTGATT
100505350 TTTGATTTTTTGATT
1 TTTGATTTTTTGATT
100505365 TTT
1 TTT
100505368 TTCTAGTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (15 bp):
TTTGATTTTTTGATT
Found at i:100507974 original size:19 final size:20
Alignment explanation
Indices: 100507945--100507993 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
100507935 CACTTCGTGA
* *
100507945 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
100507964 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
100507984 AAATG-AATGC
1 AAATGTAATGC
100507994 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:100513967 original size:27 final size:26
Alignment explanation
Indices: 100513919--100513969 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
100513909 AAAATATAAT
*
100513919 AATTTATTTGGGTTTTTATTTAAAAA
1 AATTTATTTGAGTTTTTATTTAAAAA
*
100513945 AATTTATTTTAGTCTTTTATTTAAA
1 AATTTATTTGAGT-TTTTATTTAAA
100513970 TTTTGTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (26 bp):
AATTTATTTGAGTTTTTATTTAAAAA
Found at i:100514329 original size:18 final size:18
Alignment explanation
Indices: 100514308--100514346 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
100514298 ATAAAAATTT
100514308 TAAATAAAAAATAAAAAA
1 TAAATAAAAAATAAAAAA
* **
100514326 TAAATTAATTATAAAAAA
1 TAAATAAAAAATAAAAAA
100514344 TAA
1 TAA
100514347 CATCCGGTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAATAAAAAATAAAAAA
Found at i:100515115 original size:16 final size:15
Alignment explanation
Indices: 100515096--100515140 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
100515086 ATGCCAAGGC
*
100515096 ATATTTATT-AAAGT
1 ATATTTATTAAAATT
*
100515110 ATATATATATAAAATT
1 ATATTTAT-TAAAATT
100515126 ATATTTATTAAAATT
1 ATATTTATTAAAATT
100515141 TTACATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 7 0.27
15 8 0.31
16 11 0.42
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATATTTATTAAAATT
Found at i:100517462 original size:27 final size:25
Alignment explanation
Indices: 100517419--100517470 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
100517409 GAACAGACCC
100517419 TTAATCTAATTACATTATATAATATTT
1 TTAATCTAATTACATTAT-T-ATATTT
*
100517446 TTAATTTAATTTA-ATTATTATATTT
1 TTAATCTAA-TTACATTATTATATTT
100517471 ATACTTCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 6 0.26
26 1 0.04
27 13 0.57
28 3 0.13
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (25 bp):
TTAATCTAATTACATTATTATATTT
Found at i:100520245 original size:21 final size:21
Alignment explanation
Indices: 100520219--100520258 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
100520209 AAAGATATGA
100520219 TGAAAAT-AATAATAATAATGG
1 TGAAAATAAATAAT-ATAATGG
100520240 TGAAAATAAATAATATAAT
1 TGAAAATAAATAATATAAT
100520259 AATAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (21 bp):
TGAAAATAAATAATATAATGG
Found at i:100520270 original size:33 final size:34
Alignment explanation
Indices: 100520223--100520288 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
100520213 ATATGATGAA
* * *
100520223 AATAATAATAATAATGGTGAAAATAA-ATAATAT
1 AATAATAATAATAATAGTAAAAAAAAGATAATAT
100520256 AATAATAA-ATATAATAGTAAAAAAAAGATAATA
1 AATAATAATA-ATAATAGTAAAAAAAAGATAATA
100520289 CTATATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 1 0.04
33 21 0.75
34 6 0.21
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (34 bp):
AATAATAATAATAATAGTAAAAAAAAGATAATAT
Found at i:100524794 original size:25 final size:23
Alignment explanation
Indices: 100524761--100524806 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
100524751 CCCATTTTTC
100524761 TTTTGTTAATAATATCCAAATCACT
1 TTTTGTTAA-AA-ATCCAAATCACT
*
100524786 TTTTTTTAAAAATCCAAATCA
1 TTTTGTTAAAAATCCAAATCA
100524807 AAGATCCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 2 0.10
25 8 0.40
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.43
Consensus pattern (23 bp):
TTTTGTTAAAAATCCAAATCACT
Found at i:100531837 original size:27 final size:25
Alignment explanation
Indices: 100531793--100531879 Score: 77
Period size: 31 Copynumber: 3.2 Consensus size: 25
100531783 ACTTGACAAA
*
100531793 TTTTTC-TAATTTGATACTTAAGCT
1 TTTTTCTTAATTTGGTACTTAAGCT
*
100531817 TTTTTCATTCAATTTGGTACTTGAACTTGAT
1 TTTTTC-TT-AATTTGGTACTT-AA---GCT
100531848 ACTTTTTCTTAATTTGGTACTTAAGCT
1 --TTTTTCTTAATTTGGTACTTAAGCT
100531875 TTTTT
1 TTTTT
100531880 AGGTTCAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 17
0.72 0.04 0.24
Matches are distributed among these distances:
24 6 0.12
25 5 0.10
26 1 0.02
27 13 0.25
28 2 0.04
30 2 0.04
31 14 0.27
32 2 0.04
33 6 0.12
ACGTcount: A:0.22, C:0.13, G:0.10, T:0.55
Consensus pattern (25 bp):
TTTTTCTTAATTTGGTACTTAAGCT
Found at i:100532416 original size:59 final size:58
Alignment explanation
Indices: 100532246--100532438 Score: 180
Period size: 60 Copynumber: 3.3 Consensus size: 58
100532236 AACGTTTGAC
* *
100532246 AAGTTTAAGTACC--ATTGGACAAAAAAGATTAAGTACTAAATTGAGAAAAAAAAGTGTC-
1 AAGTTTAAGTACCAAAATGGACAAAAAAGATTAAGTACCAAATT---AAAAAAAAGTGTCT
* * * ** *
100532304 AAGTTTAGGTA-TAAAATTGGACCCAAAAAAGATTAACTTTCAAATTAAGAAAAAGTGTCT
1 AAGTTTAAGTACCAAAA-TGGA--CAAAAAAGATTAAGTACCAAATTAAAAAAAAGTGTCT
* *
100532364 AAGTTTAAGTACCAAAATGGACTAAAAAATATTTAAGTACCAAATTAAAAAAAAATGT-T
1 AAGTTTAAGTACCAAAATGGAC-AAAAAAGA-TTAAGTACCAAATTAAAAAAAAGTGTCT
*
100532423 AAGTTTAAATACCAAA
1 AAGTTTAAGTACCAAA
100532439 TATTATATTA
Statistics
Matches: 109, Mismatches: 17, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
58 11 0.10
59 36 0.33
60 39 0.36
61 4 0.04
62 19 0.17
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.26
Consensus pattern (58 bp):
AAGTTTAAGTACCAAAATGGACAAAAAAGATTAAGTACCAAATTAAAAAAAAGTGTCT
Found at i:100533409 original size:27 final size:29
Alignment explanation
Indices: 100533371--100533438 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 29
100533361 AAATCTTTAT
* *
100533371 ATTTTATTTTTGT-AATATTATACATAA-
1 ATTTTAATTTTGTAAATATTATAAATAAC
*
100533398 ATTTTAATTTTGTACAATTTTATAAATAAC
1 ATTTTAATTTTGTA-AATATTATAAATAAC
100533428 ATTTTAATTTT
1 ATTTTAATTTT
100533439 ATTTGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.34
29 12 0.34
30 11 0.31
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (29 bp):
ATTTTAATTTTGTAAATATTATAAATAAC
Found at i:100533448 original size:30 final size:30
Alignment explanation
Indices: 100533388--100533455 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
100533378 TTTTGTAATA
* *
100533388 TTATACATAAATTTTAATTTTGTACAA-TT
1 TTATAAATAAATTTTAATTTTATACAATTT
***
100533417 TTATAAATAACATTTTAATTTTATTTGATTT
1 TTATAAATAA-ATTTTAATTTTATACAATTT
100533448 TTATAAAT
1 TTATAAAT
100533456 TGTCAATACC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 9 0.28
30 13 0.41
31 10 0.31
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (30 bp):
TTATAAATAAATTTTAATTTTATACAATTT
Found at i:100538788 original size:28 final size:31
Alignment explanation
Indices: 100538732--100538790 Score: 88
Period size: 28 Copynumber: 2.0 Consensus size: 31
100538722 AAAATATGTT
*
100538732 ATAAAAAGAAAAGAGAAAACCTAATCTAAAA
1 ATAAAAAGAAAAGAGAAAACCTAACCTAAAA
100538763 ATAAAAAG-AAA-AG-AAACCTAACCTAAAA
1 ATAAAAAGAAAAGAGAAAACCTAACCTAAAA
100538791 CTATGAAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.52
29 2 0.07
30 3 0.11
31 8 0.30
ACGTcount: A:0.68, C:0.12, G:0.08, T:0.12
Consensus pattern (31 bp):
ATAAAAAGAAAAGAGAAAACCTAACCTAAAA
Found at i:100539924 original size:24 final size:26
Alignment explanation
Indices: 100539879--100539927 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
100539869 AATAAAAATT
*
100539879 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAATAAATCAAATATA
100539905 TTTAAAAACATAA-AAA-CAAATAT
1 TTTAAAAACATAATAAATCAAATAT
100539928 TAAGACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (26 bp):
TTTAAAAACATAATAAATCAAATATA
Found at i:100540883 original size:23 final size:22
Alignment explanation
Indices: 100540831--100540883 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
100540821 AATATATTTA
100540831 TAACTTGAAAAATATACATATAT
1 TAACTT-AAAAATATACATATAT
100540854 TAA-TTAAAAAT-TACATTATATT
1 TAACTTAAAAATATACA-TATA-T
100540876 TAACTTAA
1 TAACTTAA
100540884 TATTATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.15
21 10 0.37
22 6 0.22
23 7 0.26
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (22 bp):
TAACTTAAAAATATACATATAT
Found at i:100542638 original size:16 final size:16
Alignment explanation
Indices: 100542570--100542638 Score: 72
Period size: 16 Copynumber: 4.4 Consensus size: 16
100542560 GTTTGGTTCA
*
100542570 CTGTAATAGAATA-AG
1 CTGTAATGGAATAGAG
*
100542585 ACTGTAATTG-A-AGAG
1 -CTGTAATGGAATAGAG
*
100542600 CTGTAATGGAATAGCG
1 CTGTAATGGAATAGAG
*
100542616 CTATAATGGAATAGAG
1 CTGTAATGGAATAGAG
100542632 CTGTAAT
1 CTGTAAT
100542639 CAGTAATTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
14 9 0.20
15 4 0.09
16 31 0.70
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:100546169 original size:47 final size:47
Alignment explanation
Indices: 100546060--100546170 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
100546050 CCGGGATAAG
* *
100546060 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
100546107 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
100546154 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
100546171 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:100553393 original size:47 final size:47
Alignment explanation
Indices: 100553284--100553394 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
100553274 CCGGGATAAG
* *
100553284 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
100553331 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
100553378 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
100553395 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:100554168 original size:4 final size:4
Alignment explanation
Indices: 100554149--100554186 Score: 60
Period size: 4 Copynumber: 9.5 Consensus size: 4
100554139 TCAAATTTCC
100554149 CTTT -TTT CTATT CTTT CTTT CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CT-TT CTTT CTTT CTTT CTTT CTTT CTTT CT
100554187 CACGTTTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.09
4 25 0.78
5 4 0.12
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:100560123 original size:6 final size:6
Alignment explanation
Indices: 100560112--100560137 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
100560102 AGTACACTGA
100560112 TTTATG TTTATG TTTATG TTTATG TT
1 TTTATG TTTATG TTTATG TTTATG TT
100560138 CGCATCTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (6 bp):
TTTATG
Found at i:100560697 original size:12 final size:12
Alignment explanation
Indices: 100560682--100560711 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
100560672 AATAATTAAA
100560682 TAAATTAGAAAT
1 TAAATTAGAAAT
*
100560694 TAAATTGGAAAT
1 TAAATTAGAAAT
100560706 TAAATT
1 TAAATT
100560712 CGGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:100562124 original size:16 final size:16
Alignment explanation
Indices: 100562103--100562147 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
100562093 TGAATTACTG
100562103 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
100562119 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCA
*
100562135 ATTACAGCCCTAT
1 ATTACAGCTCTAT
100562148 CTCATTGCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:100562224 original size:16 final size:16
Alignment explanation
Indices: 100562195--100562264 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
100562185 TTTGGTTCGC
*
100562195 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
100562211 CGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
100562227 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
100562243 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
100562259 TGTAAT
1 TGTAAT
100562265 AGCAAATCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.01, G:0.36, T:0.31
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:100562309 original size:45 final size:44
Alignment explanation
Indices: 100562243--100562337 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
100562233 GGATTAGAGG
* *
100562243 TGTAATGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
100562288 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
100562332 TGTAAT
1 TGTAAT
100562338 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 22 0.50
45 22 0.50
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:100562516 original size:18 final size:18
Alignment explanation
Indices: 100562495--100562530 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
100562485 AATAATTATT
100562495 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
100562513 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
100562531 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATAATTTAATAAAA
Found at i:100562641 original size:18 final size:17
Alignment explanation
Indices: 100562618--100562652 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
100562608 TTATTATTAA
100562618 ATATAATTTAATATAAAT
1 ATATAATTTAATA-AAAT
100562636 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
100562653 TCTTAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:100562711 original size:61 final size:60
Alignment explanation
Indices: 100562525--100562713 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 60
100562515 ATATAATTTA
100562525 ATAAAATTCTTAATATTAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT
1 ATAAAATTCTTAATATT-AAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACT
* * * * * * ** *
100562587 ATAAAA-T-ATAATCTAAAATAATTATTATTA-AATATAATTTAAT-ATAAATATATAAT-TT
1 ATAAAATTCTTAATATTAAAT-ATTCTTA-TAGAATTTACTAAAATCAT-AATATATAATACT
*
100562645 AATAAAATTCTTAGTATTAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACT
1 -ATAAAATTCTTAATATTAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACT
100562707 ATAAAAT
1 ATAAAAT
100562714 ATAATCTAAA
Statistics
Matches: 98, Mismatches: 19, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
58 3 0.03
59 31 0.32
60 18 0.18
61 37 0.38
62 9 0.09
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (60 bp):
ATAAAATTCTTAATATTAAATATTCTTATAGAATTTACTAAAATCATAATATATAATACT
Found at i:100562750 original size:121 final size:121
Alignment explanation
Indices: 100562483--100562729 Score: 442
Period size: 120 Copynumber: 2.0 Consensus size: 121
100562473 ATATTTTAAC
*
100562483 ATAATAATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATATTAAAATA
1 ATAATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATATTAAAATA
*
100562548 TTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
66 TTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
* * *
100562604 ATAATTATTATTAAATATAATTTAATATAAATATATAATTTAATAAAATTCTTAGTATT-AAATA
1 ATAATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATATTAAAATA
100562668 TTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
66 TTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
100562724 ATAATT
1 ATAATT
100562730 GATTTTGTGG
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
120 66 0.55
121 55 0.45
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (121 bp):
ATAATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATATTAAAATA
TTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
Found at i:100564229 original size:13 final size:13
Alignment explanation
Indices: 100564213--100564242 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
100564203 TAGACCAAGC
100564213 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
100564226 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
100564239 TTTT
1 TTTT
100564243 TTGCAGCACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:100582120 original size:34 final size:35
Alignment explanation
Indices: 100582054--100582121 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
100582044 TGTCTCATGA
100582054 AAATGTATCCATTGAATAATAATTTATCACTTTCG
1 AAATGTATCCATTGAATAATAATTTATCACTTTCG
** *
100582089 AAATGTATTTATTGAATGATAA-TTATCACTTTC
1 AAATGTATCCATTGAATAATAATTTATCACTTTC
100582122 TAAAATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 11 0.37
35 19 0.63
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.43
Consensus pattern (35 bp):
AAATGTATCCATTGAATAATAATTTATCACTTTCG
Found at i:100582410 original size:31 final size:32
Alignment explanation
Indices: 100582357--100582421 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
100582347 TAATAAAAAT
100582357 AAAATTATACTTTATCTCTTTTAAAAATGATAA
1 AAAATTATACTTTATCTCTTTT-AAAATGATAA
*
100582390 AAAATTA-A-TTTAATCT-TTTTAAAATTATAA
1 AAAATTATACTTT-ATCTCTTTTAAAATGATAA
100582420 AA
1 AA
100582422 GTATAAATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 11 0.37
31 7 0.23
32 5 0.17
33 7 0.23
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (32 bp):
AAAATTATACTTTATCTCTTTTAAAATGATAA
Found at i:100585161 original size:29 final size:28
Alignment explanation
Indices: 100585124--100585192 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
100585114 TTTTTTTAAA
*
100585124 AATATTTATATTATATTATTT-TATTATTT
1 AATAATTATATTATATT-TTTCT-TTATTT
100585153 AATAATTATA-TATATTTTTCTTTATTT
1 AATAATTATATTATATTTTTCTTTATTT
100585180 AA-AATT-T-TTATAT
1 AATAATTATATTATAT
100585193 AATCATCTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
25 6 0.16
26 4 0.11
27 11 0.30
28 7 0.19
29 9 0.24
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (28 bp):
AATAATTATATTATATTTTTCTTTATTT
Found at i:100585171 original size:26 final size:25
Alignment explanation
Indices: 100585126--100585185 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
100585116 TTTTTAAAAA
100585126 TATTT-AT-ATTATATTATTTT-AT
1 TATTTAATAATTATATTATTTTCAT
*
100585148 TATTTAATAATTATATATATTTTTCTT
1 TATTTAATAATTATAT-TA-TTTTCAT
100585175 TATTTAA-AATT
1 TATTTAATAATT
100585186 TTTATATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.16
23 2 0.06
24 7 0.22
25 2 0.06
26 8 0.25
27 8 0.25
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (25 bp):
TATTTAATAATTATATTATTTTCAT
Found at i:100585827 original size:15 final size:15
Alignment explanation
Indices: 100585809--100585854 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
100585799 TAATTGTTGG
100585809 AAATATATAGATATT
1 AAATATATAGATATT
*
100585824 AAATATATATGATA-C
1 AAATATATA-GATATT
100585839 AAATA-ATTAGATATT
1 AAATATA-TAGATATT
100585854 A
1 A
100585855 TTTGTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 5 0.19
15 17 0.65
16 4 0.15
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (15 bp):
AAATATATAGATATT
Found at i:100606537 original size:16 final size:15
Alignment explanation
Indices: 100606516--100606547 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
100606506 AAAATTTATG
100606516 AAAATTATACATTTAA
1 AAAATTATA-ATTTAA
100606532 AAAATTATAATTTAA
1 AAAATTATAATTTAA
100606547 A
1 A
100606548 GAAGTTACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATTATAATTTAA
Found at i:100610563 original size:26 final size:26
Alignment explanation
Indices: 100610534--100610588 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
100610524 AGACTTTCAC
*
100610534 GACAATTTTATAAATAACATTACAAA
1 GACAAGTTTATAAATAACATTACAAA
* *
100610560 GACAAGTTTGTAAATAACATTATAAA
1 GACAAGTTTATAAATAACATTACAAA
100610586 GAC
1 GAC
100610589 TTATGGGCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (26 bp):
GACAAGTTTATAAATAACATTACAAA
Found at i:100615627 original size:13 final size:13
Alignment explanation
Indices: 100615609--100615641 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
100615599 AAACAATTAA
100615609 ATTTTCACACGAG
1 ATTTTCACACGAG
100615622 ATTTTCACACGAG
1 ATTTTCACACGAG
100615635 ATTTTCA
1 ATTTTCA
100615642 AAAATGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (13 bp):
ATTTTCACACGAG
Found at i:100619635 original size:18 final size:16
Alignment explanation
Indices: 100619619--100619649 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100619609 TTTTAATTAA
100619619 ATTATTTAAAATAATT
1 ATTATTTAAAATAATT
*
100619635 ATTTTTTAAAATAAT
1 ATTATTTAAAATAAT
100619650 AAACAAACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATTTAAAATAATT
Found at i:100623311 original size:31 final size:31
Alignment explanation
Indices: 100623276--100623335 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
100623266 AAACAAAACA
100623276 AAACTTAATGATGACTGAAAATCTAAAATCT
1 AAACTTAATGATGACTGAAAATCTAAAATCT
*
100623307 AAACTTAATGATGACTGAAATTCTAAAAT
1 AAACTTAATGATGACTGAAAATCTAAAAT
100623336 ATGAAAAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (31 bp):
AAACTTAATGATGACTGAAAATCTAAAATCT
Found at i:100637615 original size:30 final size:30
Alignment explanation
Indices: 100637579--100637639 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
100637569 CAGCTTTCAA
100637579 AGTGCAGGAGGCAATTACAAATATATTTTT
1 AGTGCAGGAGGCAATTACAAATATATTTTT
100637609 AGTGCAGGAGGCAATTACAAATATATTTTT
1 AGTGCAGGAGGCAATTACAAATATATTTTT
100637639 A
1 A
100637640 TCTTTTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (30 bp):
AGTGCAGGAGGCAATTACAAATATATTTTT
Found at i:100641366 original size:216 final size:216
Alignment explanation
Indices: 100641052--100642137 Score: 1384
Period size: 216 Copynumber: 5.0 Consensus size: 216
100641042 ACCGCTAAGT
* * * * ** * * * *
100641052 CCATCTTAGATTCCATATTCAAAGTAATACTTTCAATTTTACCAATTCTCTCACCATTTTCCCCG
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
* * * * * *
100641117 GCACCACTATTTTCTTCCTCCTCCAGA-TTAACACTGTGAGAAACTTCGCTTTTGGAACT-AAGC
66 GCACCAGTATTTTCTTCCTCTTCCA-ACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGA-C
* * * * * * * *
100641180 TCTAAAGAAGCTAATTCAGTTCTAGTTTCACTTCCACTAGCAGGAGCTTCCAATGGAGGAGAAGC
129 TCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGC
**
100641245 CTTTTCTAAATCAGGAACTAAAG
194 CTTTTCTGTATCAGGAACTAAAG
* * * * **
100641268 CCATCTTAGACTCCATATTCGAAGTAGTACACTCAAATTTACCAATTCTTTCACCTTTTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
* * * * * *
100641333 GCACTAGTGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGATCTTCACTTTTGGAACCGGACTC
66 GCACCAGTATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
* * *
100641398 TAAAGGAGCTGATTCAGTTGTAATTTCACTTTCAATGGCAGAAGCTTCCAGTGGAGGAGAAGCCT
131 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
*
100641463 TTTCTGTATCAGCAACTAAAG
196 TTTCTGTATCAGGAACTAAAG
* * *
100641484 CTATCTTAGACTCCGTATTCAAAATTGTACACTCAATTTTACCAATTCCCTCACCTTCTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
* * *
100641549 GCACCAGTATTTTCTTCCTTTTCCAACTTAACACTCTGGGGAACTTTACTTTTGGAACTGGACTC
66 GCACCAGTATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
* * *
100641614 TGAAGGAGCTAATGCAGTTGTAGTTTCACTTTCAATAGCAAAAGCTTCCAGTGGAGGAGAAGCCT
131 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
100641679 TTTCTGTATCAGGAACTAAAG
196 TTTCTGTATCAGGAACTAAAG
* * *
100641700 CCATCTTAGACTCTGTATTCAAAATAGAACATTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
* *
100641765 GCACCAGCATTTTCATCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
66 GCACCAGTATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
* * * * *
100641830 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGCGCAGCCT
131 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
*
100641895 TTTCTGTATCAAGAACTAAAG
196 TTTCTGTATCAGGAACTAAAG
* ** *
100641916 CCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACCAAACCCCTCACCATTTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
** * *** **
100641981 GCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTCCAAACCAGACTC
66 GCACCAGTATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
** * * * * *
100642046 TGAAGGAGCCGATTCAGTTGTAATTTCACTTCCAATATCAGAAGCTCCCAGTGGGGGAGAAACCT
131 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
* * *
100642111 TTTCTATATCAGGAGCTAAAT
196 TTTCTGTATCAGGAACTAAAG
100642132 CCATCT
1 CCATCT
100642138 CTGATACCAT
Statistics
Matches: 762, Mismatches: 106, Indels: 4
0.87 0.12 0.00
Matches are distributed among these distances:
215 1 0.00
216 760 1.00
217 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (216 bp):
CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
GCACCAGTATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
TTTCTGTATCAGGAACTAAAG
Found at i:100642227 original size:432 final size:430
Alignment explanation
Indices: 100641196--100642244 Score: 1155
Period size: 432 Copynumber: 2.4 Consensus size: 430
100641186 GAAGCTAATT
* * * ** * * * *
100641196 CAGTTCTAGTTTCACTTCCACTAGCAGGAGCTTCCAATGGAGGAGAAGCCTTTTCTAAATCAGGA
1 CAGTTGTAATTTCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATCAGGA
* ** * * * **
100641261 ACTAAAGCCATCTTAGACTCCATATTCGAAGTAGTACACTCAAATTTACCAATTCTTTCACCTTT
66 ACTAAAGCCATCTTAGACTCCATATTCAAAACAGAACACTCAATTTTACCAATTC-CTCACCTAC
* * *** * * * * *
100641326 TTCCTCAGCACTAGTGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGATCTTCACTTTTGGAAC
130 TTCCTCAGAACCACCATTTTCATCCTCGT-CAACTTAACACTATGGGGAACTTCACTTTTGGAAC
* * * * *
100641391 CGGACTCTAAAGGAGCTGATTCAGTTGTAATTTCACTTTCAATGGCAGAAGCTTCCAGTGGAGGA
194 CGGACTCTAAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGA
* *
100641456 GAAGCCTTTTCTGTATCAGCAACTAAAGCTATCTTAGACTCCGTATTCAAAATTGTACACTCAAT
259 GAAGCCTTTTCTGTATCAGCAACTAAAGCCATCTTAGACTCCGTATTCAAAATAGTACACTCAAT
** *
100641521 TTTACCAATTCCCTCACCTTCTTCCTCAGCACCAGTATTTTCTTCCTTTTCCAACTTAACACTCT
324 TTTACCAAACCCCTCACCTTCTTCCTCAGCACCAGCATTTTCTTCCTTTTCCAACTTAACACTCT
* *** ** *
100641586 GGGGAACTTTACTTTTGGAACTGGACTCTGAAGGAGCTAATG
389 GGGGAACTTCACTTTCCAAACCAGACTCTGAAGGAGCCAATG
* * * * *
100641628 CAGTTGTAGTTTCACTTTCAATAGCAAAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGA
1 CAGTTGTAATTTCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATCAGGA
** * * **
100641693 ACTAAAGCCATCTTAGACTCTGTATTCAAAATAGAACATTCAATTTTACCAATTCCCTCACCTTT
66 ACTAAAGCCATCTTAGACTCCATATTCAAAACAGAACACTCAATTTTACCAATT-CCTCACCTAC
* * * *
100641758 TTCCTCAGCACCAGCATTTTCATCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAAC
130 TTCCTCAGAACCACCATTTTCATCCTCGT-CAACTTAACACTATGGGGAACTTCACTTTTGGAAC
* * *
100641823 TGGACTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGC
194 CGGACTCTAAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGA
* *
100641888 GCAGCCTTTTCTGTATCAAG-AACTAAAGCCATCTTAGACTCTGTATTCAAAATAGTACACTCAA
259 GAAGCCTTTTCTGTATC-AGCAACTAAAGCCATCTTAGACTCCGTATTCAAAATAGTACACTCAA
*
100641952 TTTTACCAAACCCCTCACCATT-TTCCTCAGCACCAGCGTTTTCTT-CTTCTTCCAACTTAACAC
323 TTTTACCAAACCCCTCACC-TTCTTCCTCAGCACCAGCATTTTCTTCCTT-TTCCAACTTAACAC
* * *
100642015 TGTGGGGAACTTCACTTTCCAAACCAGACTCTGAAGGAGCCGATT
386 TCTGGGGAACTTCACTTTCCAAACCAGACTCTGAAGGAGCCAATG
* * *
100642060 CAGTTGTAATTTCACTTCCAATATCAGAAGCTCCCAGTGGGGGAGAAACCTTTTCTATATCAGGA
1 CAGTTGTAATTTCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATCAGGA
* * * * * *
100642125 GCTAAATCCATCTCT-GA-TACCATATTCAGAGCAGTATC-CTCAGTTTTACCATCATT-CTCAC
66 ACTAAAGCCATCT-TAGACT-CCATATTCAAAACAG-AACACTCAATTTTACCA--ATTCCTCAC
* * * *
100642186 C-ACTTCCTTCAGAACCACCCTTATTTGACTCCT-GT-AACTTAACACCATGGGGCACTTCA
126 CTACTTCC-TCAGAACCA-CCAT-TTTCA-TCCTCGTCAACTTAACACTATGGGGAACTTCA
100642245 ACTTCGGAAC
Statistics
Matches: 527, Mismatches: 77, Indels: 26
0.84 0.12 0.04
Matches are distributed among these distances:
431 8 0.02
432 497 0.94
433 10 0.02
434 8 0.02
435 4 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (430 bp):
CAGTTGTAATTTCACTTCCAATAGCAAAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATCAGGA
ACTAAAGCCATCTTAGACTCCATATTCAAAACAGAACACTCAATTTTACCAATTCCTCACCTACT
TCCTCAGAACCACCATTTTCATCCTCGTCAACTTAACACTATGGGGAACTTCACTTTTGGAACCG
GACTCTAAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGAGA
AGCCTTTTCTGTATCAGCAACTAAAGCCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTT
TACCAAACCCCTCACCTTCTTCCTCAGCACCAGCATTTTCTTCCTTTTCCAACTTAACACTCTGG
GGAACTTCACTTTCCAAACCAGACTCTGAAGGAGCCAATG
Found at i:100642287 original size:648 final size:646
Alignment explanation
Indices: 100641052--100642296 Score: 1442
Period size: 648 Copynumber: 1.9 Consensus size: 646
100641042 ACCGCTAAGT
* * * * *
100641052 CCATCTTAGATTCCATATTCAAAGTAATACTTTCAATTTTACCAATTCTCTCACCATTTTCCCCG
1 CCATCTTAGACTCCATATTCAAAATAATACATTCAATTTTACCAATTCCCTCACCATTTTCCCCA
* *
100641117 GCACCACTATTTTCTTCCTCCTCCAGATTAACACTGTGAGAAACTTCGCTTTTGGAACTAAGCTC
66 GCACCACTATTTTCATCCTCCTCCAGATTAACACTGTGAGAAACTTCACTTTTGGAACTAAGCTC
* * * * *
100641182 TAAAGAAGCTAATTCAGTTCTAGTTTCACTTCCACTAGCAGGAGCTTCCAATGGAGGAGAAGCCT
131 TAAAGAAGCTAATTCAGTTCTAATTTCACTTCCAATAGCAGAAACTTCCAATGGAAGAGAAGCCT
* * *
100641247 TTTCTAAATCAGGAACTAAAGCCATCTTAGACTCCATATTCGAAGTAGTACACTCAAATTTACCA
196 TTTCTAAATCAAGAACTAAAGCCATCTTAGACTCCATATTCAAAATAGTACACTCAAATTTACCA
** ** * * * *
100641312 ATTCTTTCACCTTTTTCCTCAGCACTAGTGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGATC
261 AACCCCTCACCATTTTCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGAAC
*** * * * *
100641377 TTCACTTTTGGAACCGGACTCTAAAGGAGCTGATTCAGTTGTAATTTCACTTTCAATGGCAGAAG
326 TTCACTTTCCAAACCAGACTCTAAAGGAGCCGATTCAGTTGTAATTTCACTTCCAATAGCAGAAG
* * * * *
100641442 CTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGCAACTAAAGCTATCTTAGACTCCGTATTCAAA
391 CTCCCAGTGGAGGAGAAACCTTTTCTATATCAGCAACTAAAGCCATCTTAGACTCCATATTCAAA
** * * *
100641507 ATTGTACACTCAATTTTACCAATTCCCTCACCTTCTTCCTCAGCACCAGTATTTTCTTCCTTTTC
456 ACAGTACACTCAATTTTACCAATT-CCTCACCTACTTCCTCAGCACCAGTATTTACTTCCTTGT-
* * *** * * *
100641572 CAACTTAACACTCTGGGGAACTTTACTTTTGGAACTGGACTCTGAAGGAGCTAATGCAGTTGTAG
519 CAACTTAACACTCTGGGGAACTTAACTTTCGGAACCCAACTCTGAAGAACCTAATGCAGTAGTAG
100641637 TTTCACTTTCAATAGCAAAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAAG
584 TTTCACTTTCAATAGCAAAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAAG
** * *
100641700 CCATCTTAGACTCTGTATTCAAAATAGA-ACATTCAATTTTACCAATTCCCTCACCTTTTTCCTC
1 CCATCTTAGACTCCATATTCAAAATA-ATACATTCAATTTTACCAATTCCCTCACCATTTTCCCC
* * * *
100641764 AGCACCAGC-ATTTTCATCCTCTTCCA-ACTTAACACTGTGGGGAACTTCACTTTTGGAACT-GG
65 AGCACCA-CTATTTTCATCCTCCTCCAGA-TTAACACTGTGAGAAACTTCACTTTTGGAACTAAG
* * * * * *
100641826 ACTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTT-CAAGTGGAAGCGC
128 -CTCTAAAGAAGCTAATTCAGTTCTAATTTCACTTCCAATAGCAGAAACTTCCAA-TGGAAGAGA
** ** *
100641890 AGCCTTTTCTGTATCAAGAACTAAAGCCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTT
191 AGCCTTTTCTAAATCAAGAACTAAAGCCATCTTAGACTCCATATTCAAAATAGTACACTCAAATT
* * *
100641955 TACCAAACCCCTCACCATTTTCCTCAGCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGG
256 TACCAAACCCCTCACCATTTTCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGG
* *
100642020 GGAACTTCACTTTCCAAACCAGACTCTGAAGGAGCCGATTCAGTTGTAATTTCACTTCCAATATC
321 GGAACTTCACTTTCCAAACCAGACTCTAAAGGAGCCGATTCAGTTGTAATTTCACTTCCAATAGC
* * * *
100642085 AGAAGCTCCCAGTGGGGGAGAAACCTTTTCTATATCAGGAGCTAAATCCATCTCT-GA-TACCAT
386 AGAAGCTCCCAGTGGAGGAGAAACCTTTTCTATATCAGCAACTAAAGCCATCT-TAGACT-CCAT
* * * **
100642148 ATTCAGAGCAGTATC-CTCAGTTTTACCATCATT-CTCACC-ACTTCCTTCAGAACCACCCTTAT
449 ATTCAAAACAGTA-CACTCAATTTTACCA--ATTCCTCACCTACTTCC-TCAG---CACCAGTAT
* **
100642210 TTGAC-TCC-TGT-AACTTAACAC-CATGGGGCACTTCAAC-TTCGGAACCCAACTCTGGTGAAC
507 TT-ACTTCCTTGTCAACTTAACACTC-TGGGGAACTT-AACTTTCGGAACCCAACTCTGAAGAAC
100642270 CTAATAG-AGTAGTAGTTTCACTTTCAA
569 CTAAT-GCAGTAGTAGTTTCACTTTCAA
100642297 CAACAGAAGC
Statistics
Matches: 495, Mismatches: 84, Indels: 36
0.80 0.14 0.06
Matches are distributed among these distances:
647 12 0.02
648 458 0.93
649 7 0.01
650 5 0.01
651 12 0.02
652 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (646 bp):
CCATCTTAGACTCCATATTCAAAATAATACATTCAATTTTACCAATTCCCTCACCATTTTCCCCA
GCACCACTATTTTCATCCTCCTCCAGATTAACACTGTGAGAAACTTCACTTTTGGAACTAAGCTC
TAAAGAAGCTAATTCAGTTCTAATTTCACTTCCAATAGCAGAAACTTCCAATGGAAGAGAAGCCT
TTTCTAAATCAAGAACTAAAGCCATCTTAGACTCCATATTCAAAATAGTACACTCAAATTTACCA
AACCCCTCACCATTTTCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGAAC
TTCACTTTCCAAACCAGACTCTAAAGGAGCCGATTCAGTTGTAATTTCACTTCCAATAGCAGAAG
CTCCCAGTGGAGGAGAAACCTTTTCTATATCAGCAACTAAAGCCATCTTAGACTCCATATTCAAA
ACAGTACACTCAATTTTACCAATTCCTCACCTACTTCCTCAGCACCAGTATTTACTTCCTTGTCA
ACTTAACACTCTGGGGAACTTAACTTTCGGAACCCAACTCTGAAGAACCTAATGCAGTAGTAGTT
TCACTTTCAATAGCAAAAGCTTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAAG
Found at i:100646444 original size:5 final size:5
Alignment explanation
Indices: 100646436--100646469 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
100646426 TCTAATTACA
* *
100646436 AAAAT AAAAT AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
100646470 AAAGAGAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (5 bp):
AAAAG
Found at i:100650088 original size:21 final size:22
Alignment explanation
Indices: 100650054--100650094 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
100650044 TTTGTGAATT
100650054 ATTATTATAATTATAATTAATG
1 ATTATTATAATTATAATTAATG
*
100650076 ATTATTA-AATTATATTTAA
1 ATTATTATAATTATAATTAA
100650095 ATAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTATTATAATTATAATTAATG
Found at i:100650330 original size:14 final size:14
Alignment explanation
Indices: 100650311--100650367 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
100650301 TTCACTCAAT
100650311 AATATATAAATTAC
1 AATATATAAATTAC
** *
100650325 AATATATTCATTAT
1 AATATATAAATTAC
100650339 AAT-TATAAATTAC
1 AATATATAAATTAC
100650352 AATATATTAAA-TAC
1 AATATA-TAAATTAC
100650366 AA
1 AA
100650368 ACATATATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
13 10 0.29
14 21 0.60
15 4 0.11
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (14 bp):
AATATATAAATTAC
Found at i:100653448 original size:24 final size:22
Alignment explanation
Indices: 100653401--100653444 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
100653391 AAGAGTAAAC
100653401 TTAAGATTGGCAAAAAAAAAAA
1 TTAAGATTGGCAAAAAAAAAAA
100653423 TTAAGATTGGCAAAAAAAAAAA
1 TTAAGATTGGCAAAAAAAAAAA
100653445 AATTTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.18
Consensus pattern (22 bp):
TTAAGATTGGCAAAAAAAAAAA
Found at i:100653844 original size:26 final size:27
Alignment explanation
Indices: 100653802--100653853 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
100653792 CTTTTAAGTT
100653802 TTTTTTCACTATTT-AAAATATAAAATA
1 TTTTTTCACTATTTAAAAAT-TAAAATA
100653829 TTTTTT-AC-ATTATAAAAATTAAAAT
1 TTTTTTCACTATT-TAAAAATTAAAAT
100653854 TAATTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 3 0.13
26 9 0.39
27 11 0.48
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTTTTCACTATTTAAAAATTAAAATA
Found at i:100653938 original size:18 final size:17
Alignment explanation
Indices: 100653895--100653939 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
100653885 ATTCGGTTTG
100653895 ATTATTTTTAAATTTAA
1 ATTATTTTTAAATTTAA
* *
100653912 ATTAGTTTTTAATTTCTCA
1 ATTA-TTTTTAAATT-TAA
100653931 ATTATTTTT
1 ATTATTTTT
100653940 TACTCAGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 6 0.25
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTATTTTTAAATTTAA
Found at i:100663312 original size:13 final size:14
Alignment explanation
Indices: 100663294--100663322 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
100663284 CATGCTATGT
100663294 ATATTATTGTG-GC
1 ATATTATTGTGTGC
100663307 ATATTATTGTGTGC
1 ATATTATTGTGTGC
100663321 AT
1 AT
100663323 TGTTTTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (14 bp):
ATATTATTGTGTGC
Found at i:100663870 original size:131 final size:129
Alignment explanation
Indices: 100663637--100663953 Score: 399
Period size: 131 Copynumber: 2.5 Consensus size: 129
100663627 TAATTATTCA
* **
100663637 TTTAAAAATTCTTTAAAACGAAGGCAATGCTCGATGTTTGGCAATTC-AAAAATCA-TGCCCTAT
1 TTTAAAAATTC-TTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGAGGAAT-AGTGCCCTAT
* * * * * * *
100663700 CGTGTTGGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATG
64 CGTGCTGGGTTGCAATTTCCCGTCTATTCAAAACAATCGAATATCCCTTTAGAATTTCACTCACG
100663765 T
129 T
*
100663766 CTTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGAGGAATAGTGCCCTAT
1 -TTTAAAAATTCTT-AAAACGAAGGCAATGTTCGATGTTTGGCAATTCGAGGAATAGTGCCCTAT
*
100663831 CGTGCTGGGTTGCAATTTCCCGTCTATTCAAAATAATCGAATATCCCTTTAGAATTTCACTCACG
64 CGTGCTGGGTTGCAATTTCCCGTCTATTCAAAACAATCGAATATCCCTTTAGAATTTCACTCACG
100663896 T
129 T
** * * * * *
100663897 TTTCTAAATTC-TAAAAC-AAGGCAATGTTCAATGTCTAGAAATTCGAGGAATCGTGCC
1 TTTAAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGAGGAATAGTGCC
100663954 TTCCTGTGCT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
127 34 0.21
128 5 0.03
129 3 0.02
130 52 0.32
131 70 0.43
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (129 bp):
TTTAAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGAGGAATAGTGCCCTATCG
TGCTGGGTTGCAATTTCCCGTCTATTCAAAACAATCGAATATCCCTTTAGAATTTCACTCACGT
Found at i:100664963 original size:21 final size:21
Alignment explanation
Indices: 100664939--100664978 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
100664929 TAAAACAATG
*
100664939 TAGTTTTGCCTTTTAACTTGA
1 TAGTTTTGACTTTTAACTTGA
*
100664960 TAGTTTTGACTTTTTACTT
1 TAGTTTTGACTTTTAACTT
100664979 TAAATCAGGT
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:0.17, C:0.12, G:0.12, T:0.57
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:100665356 original size:17 final size:18
Alignment explanation
Indices: 100665322--100665359 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
100665312 TACTTTTAGA
*
100665322 TTTTAAAAAAATATAATT
1 TTTTAAAAAAACATAATT
*
100665340 TTTTAAAAATACA-AATT
1 TTTTAAAAAAACATAATT
100665357 TTT
1 TTT
100665360 GAATTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTAAAAAAACATAATT
Found at i:100666272 original size:36 final size:37
Alignment explanation
Indices: 100666218--100666288 Score: 126
Period size: 36 Copynumber: 1.9 Consensus size: 37
100666208 ATGAACTTTA
*
100666218 ATATTTTTGCTTAAAACCATTCTTTGAATTTATATTT
1 ATATTTTTGCCTAAAACCATTCTTTGAATTTATATTT
100666255 ATATTTTT-CCTAAAACCATTCTTTGAATTTATAT
1 ATATTTTTGCCTAAAACCATTCTTTGAATTTATAT
100666289 ATTTCTAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 25 0.76
37 8 0.24
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.52
Consensus pattern (37 bp):
ATATTTTTGCCTAAAACCATTCTTTGAATTTATATTT
Found at i:100669557 original size:19 final size:19
Alignment explanation
Indices: 100669533--100669570 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
100669523 TAGTAAAGAG
100669533 TTAATTGAAATAATAATGA
1 TTAATTGAAATAATAATGA
100669552 TTAATTGAAATAATAATGA
1 TTAATTGAAATAATAATGA
100669571 CAAAGTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (19 bp):
TTAATTGAAATAATAATGA
Found at i:100670605 original size:21 final size:21
Alignment explanation
Indices: 100670564--100670606 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
100670554 GGTTAAGTTG
* *
100670564 TAATTAAAAAATAAGTTGTGT
1 TAATTAAAAAATAAATCGTGT
100670585 TAATTAAAAAATAAATCGTGT
1 TAATTAAAAAATAAATCGTGT
100670606 T
1 T
100670607 TTATGTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (21 bp):
TAATTAAAAAATAAATCGTGT
Found at i:100676537 original size:6 final size:6
Alignment explanation
Indices: 100676526--100676601 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
100676516 TAAATGAAAT
* * * *
100676526 AAAGAA AAAGAA AGAGAG AAAGTAA AACGAA ACAGAA AGAA-AA GAAAGAA
1 AAAGAA AAAGAA AAAGAA AAAG-AA AAAGAA AAAGAA A-AAGAA -AAAGAA
* *
100676576 AAAGAA AAAGAG AACGAA GAAAGAA A
1 AAAGAA AAAGAA AAAGAA -AAAGAA A
100676602 CAAATGCGAA
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
6 40 0.75
7 13 0.25
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:100676595 original size:25 final size:23
Alignment explanation
Indices: 100676526--100676601 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 23
100676516 TAAATGAAAT
100676526 AAAGAAAAAGAAAGAGAGAAAGTAA
1 AAAGAAAAAGAAAGA-AGAAAG-AA
* *
100676551 AACGAAACAGAAAGAAAAGAAAGAA
1 AAAGAAAAAGAAAG--AAGAAAGAA
100676576 AAAGAAAAAGAGAACGAAGAAAGAA
1 AAAGAAAAAGA-AA-GAAGAAAGAA
100676601 A
1 A
100676602 CAAATGCGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
25 33 0.77
26 8 0.19
27 2 0.05
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.01
Consensus pattern (23 bp):
AAAGAAAAAGAAAGAAGAAAGAA
Found at i:100677602 original size:40 final size:41
Alignment explanation
Indices: 100677509--100677606 Score: 162
Period size: 41 Copynumber: 2.4 Consensus size: 41
100677499 TCGGTTTAAC
* *
100677509 CGATGATACACTGGGTGTCAATTTATTACTTCGAATTTATT
1 CGATGAGACACTGGGTGTCAATTTACTACTTCGAATTTATT
100677550 CGATGAGACACTGGGTGTCAATTTACTACTTCGAA-TTATT
1 CGATGAGACACTGGGTGTCAATTTACTACTTCGAATTTATT
*
100677590 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
100677607 CCAAACTGGT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 21 0.39
41 33 0.61
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (41 bp):
CGATGAGACACTGGGTGTCAATTTACTACTTCGAATTTATT
Found at i:100678314 original size:31 final size:32
Alignment explanation
Indices: 100678276--100678336 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
100678266 CCCTCCCAAA
100678276 AAAAAACCTAA-CCAAAAAAAAAAGAAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAAGAAAAAAG
100678307 AAAAAACCTAACCCAAAAAAAAAAGAAAAA
1 AAAAAACCTAACCCAAAAAAAAAAGAAAAA
100678337 CCTAACCCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.77, C:0.15, G:0.05, T:0.03
Consensus pattern (32 bp):
AAAAAACCTAACCCAAAAAAAAAAGAAAAAAG
Found at i:100678327 original size:24 final size:25
Alignment explanation
Indices: 100678295--100678354 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
100678285 AACCAAAAAA
100678295 AAAAGAAAAAAGAAAAAACCTAA-CCC
1 AAAA-AAAAAAG-AAAAACCTAACCCC
100678321 AAAAAAAAAAGAAAAACCTAACCCC
1 AAAAAAAAAAGAAAAACCTAACCCC
100678346 AAAAAAAAA
1 AAAAAAAAA
100678355 CCAAGAAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
24 10 0.30
25 19 0.58
26 4 0.12
ACGTcount: A:0.73, C:0.18, G:0.05, T:0.03
Consensus pattern (25 bp):
AAAAAAAAAAGAAAAACCTAACCCC
Found at i:100680851 original size:12 final size:12
Alignment explanation
Indices: 100680834--100680869 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
100680824 ATTCATTTGA
100680834 CATTCATGCATT
1 CATTCATGCATT
100680846 CATTCATGCATT
1 CATTCATGCATT
*
100680858 CATTCATACATT
1 CATTCATGCATT
100680870 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:100690630 original size:41 final size:41
Alignment explanation
Indices: 100690487--100690722 Score: 302
Period size: 41 Copynumber: 5.8 Consensus size: 41
100690477 GGATATAGCT
* * * *
100690487 ACTCGCTC-AATGCCTTCGGGACATAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
*
100690526 ACTCACACAAATGCCTTCGGGACTTAGCCCGG-ATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
100690566 ACTCGCACACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
1 ACTCG--CACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
*
100690609 ACTTGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
* * * * *
100690650 ACTTGCACAAATGCCTTCGGGACTTAGCCCAGAA-CTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
100690690 ACTAGCGCA-AAATGCCTTCGGGACTTAGCCCGG
1 ACT--CGCACAAATGCCTTCGGGACTTAGCCCGG
100690723 TTATCATCCA
Statistics
Matches: 178, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
39 6 0.03
40 38 0.21
41 92 0.52
42 30 0.17
43 12 0.07
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
Found at i:100692772 original size:72 final size:71
Alignment explanation
Indices: 100692673--100692838 Score: 253
Period size: 72 Copynumber: 2.3 Consensus size: 71
100692663 GAGTTAAGCC
** *
100692673 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
100692737 TGAGGTA
65 TGAGGTA
*
100692744 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
100692809 TGAGGTA
65 TGAGGTA
* *
100692816 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
100692839 ACGTTGTTCA
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
71 12 0.14
72 71 0.82
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:100692941 original size:140 final size:140
Alignment explanation
Indices: 100692771--100693258 Score: 897
Period size: 140 Copynumber: 3.5 Consensus size: 140
100692761 TTAATTTCAA
100692771 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
100692836 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
100692901 TCAAAATCAG
131 TCAAAATCAG
*
100692911 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
100692976 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
100693041 TCAAAATCAG
131 TCAAAATCAG
100693051 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
100693116 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
100693181 TCAAAATCAG
131 TCAAAATCAG
*
100693191 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GATTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GTCAC--GCTGAGGTATTTTCAATTTCTGT-TT
100693255 TCAA
62 TCAA
100693259 AAAAAAAATT
Statistics
Matches: 338, Mismatches: 6, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
139 1 0.00
140 308 0.91
142 23 0.07
143 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:100693114 original size:13 final size:13
Alignment explanation
Indices: 100693096--100693129 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
100693086 CGCTGAGGTA
*
100693096 TTTTCAATTTCTG
1 TTTTCAATTTATG
100693109 TTTTCAATTTATG
1 TTTTCAATTTATG
100693122 TTGTTCAA
1 TT-TTCAA
100693130 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:100693376 original size:72 final size:72
Alignment explanation
Indices: 100693178--100693403 Score: 292
Period size: 72 Copynumber: 3.0 Consensus size: 72
100693168 AATTTCTACT
* ** ** * * *
100693178 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGATTCACATGCTGAGGTATTTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC-A-AGACACGTTGAGGTAATTT
100693242 CAATTTCTG
64 CAATTTCTG
100693251 TCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 T-TTTC------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
100693316 AATTTCAATTTCTG
59 AATTTCAATTTCTG
100693330 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
100693395 ATTTCTG
66 ATTTCTG
100693402 TT
1 TT
100693404 CAAAATGAGT
Statistics
Matches: 137, Mismatches: 8, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
72 69 0.50
73 1 0.01
74 4 0.03
78 4 0.03
79 24 0.18
80 5 0.04
81 30 0.22
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:100693414 original size:49 final size:49
Alignment explanation
Indices: 100693357--100693452 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
100693347 ATATTGCGAG
**
100693357 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTTCA
100693406 AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTT
100693453 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTTCA
Found at i:100693499 original size:121 final size:121
Alignment explanation
Indices: 100693285--100693524 Score: 426
Period size: 121 Copynumber: 2.0 Consensus size: 121
100693275 ATATTGCGAG
**
100693285 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
*
100693350 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
100693406 AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * *
100693471 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
100693525 TTTCAAAAAA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 113 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:100693877 original size:72 final size:73
Alignment explanation
Indices: 100693775--100694149 Score: 401
Period size: 72 Copynumber: 5.0 Consensus size: 73
100693765 GCCTTTCAAA
*
100693775 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTATTTTCAATTT
100693840 CTGTTTTC
66 CTGTTTTC
* ** **
100693848 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTATTTTCAATTT
*
100693912 CTGTTTTT
66 CTGTTTTC
* * * * *
100693920 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGTTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGTTGAGGTATTTTCAAT
*
100693985 TTCTATCTTTC
64 TTCTGT-TTTC
* ** **
100693996 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGTTGAGGTA--TTTTC
* *
100694061 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * * *
100694075 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGTTGAGGTATTTTCAA
**
100694140 AATCTGTTTT
63 TTTCTGTTTT
100694150 TCATATTCTG
Statistics
Matches: 248, Mismatches: 42, Indels: 21
0.80 0.14 0.07
Matches are distributed among these distances:
72 65 0.26
73 33 0.13
75 24 0.10
76 7 0.03
77 55 0.22
78 2 0.01
79 61 0.25
80 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:100694095 original size:79 final size:77
Alignment explanation
Indices: 100693774--100694281 Score: 440
Period size: 79 Copynumber: 6.5 Consensus size: 77
100693764 TGCCTTTCAA
** *
100693774 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGTTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGAGGTATTTTCAA
*
100693837 TTTCT-GTTTTC
66 TTTCTATTTTTC
* ** *
100693848 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGAGGTATTTTCAA
*
100693909 TTTCTGTTTTT-
66 TTTCTATTTTTC
* ** * * *
100693920 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGTTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGAGGTATTTTCAA
*
100693984 TTTCTATCTTTC
66 TTTCTATTTTTC
* **
100693996 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGAGGTA--TTTTC
*
100694061 AATTTATATTTTTC
64 AATTTCTATTTTTC
* * * * * *
100694075 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGAGGTATTTTC--
*
100694140 AATCTGTTTTTCATATTCTGTTT
64 AA------TTTC-TATT-T-TTC
** * * ** * ** * *
100694163 TCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGAGGTATTTTCAA
*
100694228 TTTCTGTTTTTTTTTC
66 TTTC----TATTTTTC
100694244 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
100694282 TTTTTAATTT
Statistics
Matches: 352, Mismatches: 57, Indels: 42
0.78 0.13 0.09
Matches are distributed among these distances:
72 60 0.17
73 37 0.11
75 27 0.08
77 53 0.15
79 68 0.19
80 4 0.01
81 7 0.02
82 29 0.08
83 3 0.01
85 3 0.01
86 6 0.02
87 1 0.00
88 54 0.15
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGAGGTATTTTCAA
TTTCTATTTTTC
Found at i:100694226 original size:88 final size:88
Alignment explanation
Indices: 100694077--100694238 Score: 227
Period size: 88 Copynumber: 1.8 Consensus size: 88
100694067 TATTTTTCAA
* * * *
100694077 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTACGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
100694142 TCTGTTTTTCATATTCTGTTTTC
66 TCTGTTTTTCATATTCTGTTTTC
* * * *
100694165 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCTATTTTCAAT
1 AAAAATCAACTCACATTACGAGAAGTGAGTTGAGCCTCGGCTCACATGTC-GAGCTATTTTCAAA
*
100694229 TTCTGTTTTT
65 ATCTGTTTTT
100694239 TTTTCAAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
87 1 0.02
88 63 0.98
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCACATTACGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
TCTGTTTTTCATATTCTGTTTTC
Found at i:100694299 original size:30 final size:30
Alignment explanation
Indices: 100694263--100694324 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
100694253 CAACTCATAT
100694263 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
100694293 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
100694323 TG
1 TG
100694325 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:100694394 original size:254 final size:247
Alignment explanation
Indices: 100693902--100694492 Score: 723
Period size: 254 Copynumber: 2.4 Consensus size: 247
100693892 CGTTGAGGTA
* * *
100693902 TTTTCAATTTCTGTTTTTAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAGTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* *
100693967 CGTTGAGCTATTTTCAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
65 CGCTGAGCTATTTTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
100694028 TGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACAT
130 TGAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACAT
* * * ** * *
100694093 TGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGT
194 TGCGAGAGGTGAGTTAAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
* *
100694147 TTTTCATA-TTCTGTTTTCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTTGGCTCACG
1 TTTTCA-AGTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* *
100694211 TGCTGAGCTATTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAG
65 CGCTGAGCTATTTTCAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAG
* * * * * * *
100694276 TTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATC
129 TTGAGC--TTCAGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATC
*
100694338 AACTCATATTGCGAGAGGTGAGTTAAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
185 AACTCACATTGCGAGAGGTGAGTTAAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
** * *
100694401 TTTTCAAGTTAAG-TTTCAAAAAATCAACTCATATTGCGACAGGTGAGTTGAGCCTTAGCTCACG
1 TTTTCAAGTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
*
100694465 CGCTGAGCTTTTTTCAATTTCTGTTTTT
65 CGCTGAGCTATTTTCAATTTCTGTTTTT
100694493 AATGTCTGTT
Statistics
Matches: 297, Mismatches: 32, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
244 66 0.22
245 11 0.04
246 1 0.00
248 13 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 6 0.02
254 141 0.47
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (247 bp):
TTTTCAAGTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
GCTGAGCTATTTTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTG
CGAGAGGTGAGTTAAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
Found at i:100695181 original size:27 final size:27
Alignment explanation
Indices: 100695152--100695203 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
100695142 CCTCCCAAAA
100695152 AAAAAACCTAA-CCAAAAAAAAAGAAG
1 AAAAAACCTAACCCAAAAAAAAAGAAG
100695178 AAAAAACCTAACCCAAAAAAAAAGAA
1 AAAAAACCTAACCCAAAAAAAAAGAA
100695204 AAACCTAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.73, C:0.17, G:0.06, T:0.04
Consensus pattern (27 bp):
AAAAAACCTAACCCAAAAAAAAAGAAG
Found at i:100700884 original size:22 final size:22
Alignment explanation
Indices: 100700828--100700884 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
100700818 TATTTAATTC
*
100700828 TTTAA-TTTTAAA-AAAAATAT
1 TTTAATTTTTAAATTAAAATAT
*
100700848 TTTAATTTTCT-AATTAAAATTT
1 TTTAATTTT-TAAATTAAAATAT
*
100700870 TTTACTTTTTAAATT
1 TTTAATTTTTAAATT
100700885 TGTATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 5 0.17
21 6 0.20
22 19 0.63
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAATTTTTAAATTAAAATAT
Found at i:100701129 original size:25 final size:25
Alignment explanation
Indices: 100701101--100701152 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
100701091 TTAAATTTTA
*
100701101 ATAAATTAATTAAATATTGGCTGGC
1 ATAAATTAATTAAATACTGGCTGGC
100701126 ATAAATTAATTAAATACTGGCTGGC
1 ATAAATTAATTAAATACTGGCTGGC
100701151 AT
1 AT
100701153 GTTATCCACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (25 bp):
ATAAATTAATTAAATACTGGCTGGC
Found at i:100704099 original size:14 final size:14
Alignment explanation
Indices: 100704057--100704099 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
100704047 TTTGATAATG
100704057 TGATAATATAAATTT
1 TGATAATATAAA-TT
* *
100704072 TGACAAT-TAGATT
1 TGATAATATAAATT
100704085 TGATAATATAAATT
1 TGATAATATAAATT
100704099 T
1 T
100704100 TGGTCCTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 8 0.35
14 9 0.39
15 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (14 bp):
TGATAATATAAATT
Found at i:100704205 original size:171 final size:170
Alignment explanation
Indices: 100703916--100704223 Score: 424
Period size: 171 Copynumber: 1.8 Consensus size: 170
100703906 TAAAAAAAGA
* * ** * *
100703916 GATAATATAAATATTGGTCTTTGAATTTGAGAGTTAAGTCTACTTTATCAACTGTACTTTTTTTA
1 GATAATATAAATATTGGTCCTTGAACTTGAGAACTAAGTCCACTTTATCAACTATACTTTTTTTA
* * *
100703981 TTTACTTCTGTACTTGAATTTGGCAATTAGATCTATTTTGTTCTTTAAACTTGGATTCTTTCAAG
66 TTCACTTCTGTACTTGAACTTGGCAATTAAATCTATTTTGTTCTTTAAACTTGGATTCTTTCAAG
100704046 ATTTGATAATGTGATAATATAAATTTTGACAATTAGATTT
131 ATTTGATAATGTGATAATATAAATTTTGACAATTAGATTT
* * * *
100704086 GATAATATAAATTTTGGTCCTTGAACTTGGGAACTAGGTCCACTTTAGT-ATCTATACTTTTTTT
1 GATAATATAAATATTGGTCCTTGAACTTGAGAACTAAGTCCACTTTA-TCAACTATAC-TTTTTT
* *
100704150 TATTCACTT-TAGTACTTGAACTTGTCAATTAAATCTATTTTGTT-TTATGAACTTGGATTCTTT
64 TATTCACTTCT-GTACTTGAACTTGGCAATTAAATCTATTTTGTTCTT-TAAACTTGGATTCTTT
100704213 CAAGATTTGAT
127 CAAGATTTGAT
100704224 GATATAATTA
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
170 48 0.40
171 71 0.60
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.47
Consensus pattern (170 bp):
GATAATATAAATATTGGTCCTTGAACTTGAGAACTAAGTCCACTTTATCAACTATACTTTTTTTA
TTCACTTCTGTACTTGAACTTGGCAATTAAATCTATTTTGTTCTTTAAACTTGGATTCTTTCAAG
ATTTGATAATGTGATAATATAAATTTTGACAATTAGATTT
Found at i:100707020 original size:15 final size:15
Alignment explanation
Indices: 100707000--100707047 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
100706990 CTATTTTAAG
100707000 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
*
100707015 TTTATTTTTA-TTTA
1 TTTATTTTAATTTTA
100707029 TTATTATTTTAGATTTTA
1 -T-TTATTTTA-ATTTTA
100707047 T
1 T
100707048 ATTAATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 4 0.15
15 10 0.37
16 7 0.26
17 2 0.07
18 4 0.15
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:100707950 original size:18 final size:19
Alignment explanation
Indices: 100707927--100707966 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
100707917 TTCCTTTAAA
100707927 TTATTTCAT-TATTT-ATTT
1 TTATTTCATCT-TTTAATTT
100707945 TTATTTCATCTTTTAATTT
1 TTATTTCATCTTTTAATTT
100707964 TTA
1 TTA
100707967 CTTTTTACGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTTCATCTTTTAATTT
Found at i:100711426 original size:18 final size:20
Alignment explanation
Indices: 100711384--100711420 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
100711374 ATATTTTATG
*
100711384 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
100711403 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
100711421 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:100713634 original size:46 final size:46
Alignment explanation
Indices: 100713582--100713846 Score: 332
Period size: 46 Copynumber: 5.7 Consensus size: 46
100713572 AGTGTGCTCT
*
100713582 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
100713628 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
100713674 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * * *
100713720 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
100713766 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCACGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
100713812 ATGACAAAAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGA-TATGAAATGAGTAAGACCATGGTTGAAAGA
100713847 CACTATGACA
Statistics
Matches: 194, Mismatches: 24, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
46 169 0.87
47 25 0.13
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:100713872 original size:138 final size:137
Alignment explanation
Indices: 100713597--100713879 Score: 370
Period size: 138 Copynumber: 2.1 Consensus size: 137
100713587 ATGAAATGTG
* **
100713597 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * * * * * * * *
100713662 TACCATGGCAGCCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCACGGCAACATGAAAAAAAATGAGTAAGACCATAGTTGAAAGACACCATGACAACATGAC-G
*
100713727 GAAATAAA
130 AAAATAAA
* *
100713735 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * *
100713800 TACCACGGCAACATGACAAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGACATCATGTC-
66 TACCACGGCAACATGA-AAAAAAATGAGTAAGACCATAGTTGAAAGACACCATGACAACATGACG
100713864 AAAGATAAA
130 AAA-ATAAA
100713873 TAAGACC
1 TAAGACC
100713880 GTGGATGGGA
Statistics
Matches: 125, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
137 2 0.02
138 85 0.68
139 38 0.30
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCACGGCAACATGAAAAAAAATGAGTAAGACCATAGTTGAAAGACACCATGACAACATGACGA
AAATAAA
Found at i:100713875 original size:92 final size:91
Alignment explanation
Indices: 100713597--100713879 Score: 318
Period size: 92 Copynumber: 3.1 Consensus size: 91
100713587 ATGAAATGTG
* * * *
100713597 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAGTAAGACCATGGTTGAAAGA
* **
100713662 TACCATGGCAGCCTGAT-ATAAAATGTG
66 TACCATGGCAGCATG-TCAT-AAATGAA
** * *
100713689 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAGTAAGACCATGGTTGAAAGA
* *
100713754 TACCATGGCAGCGTGACATGAAATGAA
66 TACCATGGCAGCATGTCAT-AAATGAA
* * *
100713781 TAAGACCATGGTTGAAAGATACCACGGCAACATGACAAAAAAATGAGTAAGACCATAGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AAGAAATGAGTAAGACCATGGTTGAAAG
* * * * *
100713846 ACACTATGACATCATGTCA-AAGATAAA
65 ATACCATGGCAGCATGTCATAA-ATGAA
100713873 TAAGACC
1 TAAGACC
100713880 GTGGATGGGA
Statistics
Matches: 162, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
91 2 0.01
92 125 0.77
93 35 0.22
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (91 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAGTAAGACCATGGTTGAAAGA
TACCATGGCAGCATGTCATAAATGAA
Found at i:100715753 original size:15 final size:15
Alignment explanation
Indices: 100715733--100715780 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
100715723 CTATTTTAAG
100715733 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
*
100715748 TTTATTTTTAATTACTA
1 TTTA-TTTTAATT-TTA
100715765 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
100715780 T
1 T
100715781 ATTAATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 11 0.41
16 14 0.52
17 2 0.07
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:100715756 original size:10 final size:11
Alignment explanation
Indices: 100715719--100715789 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
100715709 AAAAATAGGA
*
100715719 AATTCTATTTT
1 AATTTTATTTT
*
100715730 AAGTTTATTTT
1 AATTTTATTTT
100715741 AATTTTA-TTT
1 AATTTTATTTT
* *
100715751 ATTTTTA-ATT
1 AATTTTATTTT
* *
100715761 ACTATTATTTT
1 AATTTTATTTT
*
100715772 AGATTTTATATT
1 A-ATTTTATTTT
100715784 AATTTT
1 AATTTT
100715790 CTTAAGCTAT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
10 16 0.34
11 23 0.49
12 8 0.17
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (11 bp):
AATTTTATTTT
Found at i:100719851 original size:3 final size:3
Alignment explanation
Indices: 100719843--100719870 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
100719833 AGCAAAAACA
100719843 GGT GGT GGT GGT GGT GGT GGT GGT GGT G
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT G
100719871 AGAAGCTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:100723721 original size:45 final size:45
Alignment explanation
Indices: 100723648--100723887 Score: 336
Period size: 45 Copynumber: 5.3 Consensus size: 45
100723638 CTGTTACTAC
* *
100723648 TACTACTACTGTTACTGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
100723693 TACTGCTACTGTTACCGATTCGGTACTTTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
100723738 TACTGCTACTATTACCGATTCGACACTGTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
100723783 TACTGCTACCGTTATCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * * * * *
100723828 TACTGTTACCGTTACCGATTCAGTACTTCGTGTGTTGAATACTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
100723873 TACTGTTACTGTTAC
1 TACTGCTACTGTTAC
100723888 TGTTCCGGAT
Statistics
Matches: 175, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 175 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (45 bp):
TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:100723878 original size:6 final size:6
Alignment explanation
Indices: 100723867--100723891 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
100723857 GTGTGTTGAA
100723867 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
100723892 CCGGATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:100724088 original size:18 final size:18
Alignment explanation
Indices: 100724067--100724257 Score: 151
Period size: 18 Copynumber: 10.6 Consensus size: 18
100724057 TAACTGATTA
100724067 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
100724085 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
100724103 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
100724121 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
100724139 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* * *
100724157 TTGCTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
100724175 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
100724193 CTACTGAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
100724212 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
100724229 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
100724247 TTACTGGATAA
1 TTACTGAATAA
100724258 CCGATCAATT
Statistics
Matches: 140, Mismatches: 21, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
17 19 0.14
18 105 0.75
19 16 0.11
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:100724192 original size:72 final size:72
Alignment explanation
Indices: 100724055--100724257 Score: 189
Period size: 72 Copynumber: 2.8 Consensus size: 72
100724045 AAAGGTATAA
* * * * * * *
100724055 AATAACTGATTATTACTGAATAATTGACTGTTACCGGATAATTGACTGTTACTGGATATTAGACT
1 AATAACTGAATATTACTGAATAATTGACTATTACCGAATAACTGACTGTCACTGAATAATAGACT
*
100724120 GTTACTG
66 GCTACTG
* * *
100724127 AATAACTGAATATTACTGAATAATTGA-TCATTGCTGAATAACTGATTGTCACTGAATGAAT-GA
1 AATAACTGAATATTACTGAATAATTGACT-ATTACCGAATAACTGACTGTCACTGAAT-AATAGA
100724190 CTGCTACTG
64 CTGCTACTG
* * * * * *
100724199 AATAACTTAATAGTTACTGAAT-ATCTGA-TTTTACTGAATAATTGACTGTTACTGGATAA
1 AATAACTGAATA-TTACTGAATAAT-TGACTATTACCGAATAACTGACTGTCACTGAATAA
100724258 CCGATCAATT
Statistics
Matches: 109, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
71 3 0.03
72 91 0.83
73 15 0.14
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGACTATTACCGAATAACTGACTGTCACTGAATAATAGACT
GCTACTG
Found at i:100728827 original size:15 final size:15
Alignment explanation
Indices: 100728807--100728836 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
100728797 TGAGATTGTC
100728807 GAATGACCAAAAGAA
1 GAATGACCAAAAGAA
100728822 GAATGACCAAAAGAA
1 GAATGACCAAAAGAA
100728837 AACAAAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.20, T:0.07
Consensus pattern (15 bp):
GAATGACCAAAAGAA
Found at i:100736159 original size:20 final size:19
Alignment explanation
Indices: 100736131--100736169 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
100736121 ATTTTTTAAA
*
100736131 TATATATATATTCAAATTTT
1 TATAAATAT-TTCAAATTTT
*
100736151 TATAAATATTTTAAATTTT
1 TATAAATATTTCAAATTTT
100736170 AAAAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TATAAATATTTCAAATTTT
Done.