Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold419
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1725835
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.29
Warning! 213561 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:418215 original size:42 final size:42
Alignment explanation
Indices: 418096--418215 Score: 177
Period size: 42 Copynumber: 2.9 Consensus size: 42
418086 ATTATTATGT
* *
418096 TAATTATGTTAACTTGTCAGATCGTTATGTCGACTGGACAAA
1 TAATTATGTTAACTTGTCAGATCTTTATGTCGACTTGACAAA
* *
418138 TAATTATGTTAACTTGTCAGATCTTTATGTCGACTTGTCAGA
1 TAATTATGTTAACTTGTCAGATCTTTATGTCGACTTGACAAA
* * *
418180 TGATTATGTAAACTTGTCAGATATTTATGTCGACTT
1 TAATTATGTTAACTTGTCAGATCTTTATGTCGACTT
418216 ATATGATATT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.41
Consensus pattern (42 bp):
TAATTATGTTAACTTGTCAGATCTTTATGTCGACTTGACAAA
Found at i:418367 original size:21 final size:21
Alignment explanation
Indices: 418311--418367 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
418301 ATGGTTATTT
* *
418311 TCTGACAAGTCAACATAAAGA
1 TCTGACAAGTCGACAGAAAGA
* *
418332 TCTGACAAGTTGACAGAAATA
1 TCTGACAAGTCGACAGAAAGA
418353 TCTGACAAGTCGACA
1 TCTGACAAGTCGACA
418368 ATATGATTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (21 bp):
TCTGACAAGTCGACAGAAAGA
Found at i:424109 original size:12 final size:12
Alignment explanation
Indices: 424088--424125 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
424078 CATTTTGTCC
424088 GTCT-TCCGTCT
1 GTCTGTCCGTCT
424099 GTCTGTCCGTCT
1 GTCTGTCCGTCT
*
424111 GTCTGTTCGTCT
1 GTCTGTCCGTCT
424123 GTC
1 GTC
424126 CGTCTGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.00, C:0.32, G:0.24, T:0.45
Consensus pattern (12 bp):
GTCTGTCCGTCT
Found at i:424112 original size:8 final size:8
Alignment explanation
Indices: 424083--424132 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
424073 GATCACATTT
424083 TGTCCGTC
1 TGTCCGTC
424091 T-TCCGTC
1 TGTCCGTC
*
424098 TGTCTGTC
1 TGTCCGTC
* *
424106 CGTCTGTC
1 TGTCCGTC
*
424114 TGTTCGTC
1 TGTCCGTC
424122 TGTCCGTC
1 TGTCCGTC
424130 TGT
1 TGT
424133 AAACTTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 7 0.20
8 28 0.80
ACGTcount: A:0.00, C:0.32, G:0.24, T:0.44
Consensus pattern (8 bp):
TGTCCGTC
Found at i:425673 original size:165 final size:165
Alignment explanation
Indices: 425244--426694 Score: 1319
Period size: 165 Copynumber: 8.5 Consensus size: 165
425234 AGCTCACCTG
* *
425244 AGGGTGGGGCCACAATGGGGGGTCGAAGTTTAACAAATGAATATATAGAGTAAATCTTTAAAAAT
1 AGGGTGGGGCCACAAT-GGGGGTCGAAGTTTAACATAGGAATATATAGAGTAAATCTTTAAAAAT
* * * *
425309 CTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTAAAACTTGTGTGAAAGCATCATCAGGTAATGT
65 CTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGT
* * * * *
425374 AGATTCAAATTTGTAAAAAATCATGACCCCCGGGGGT
130 AGATTCAAAGTTGT-GAAAATAATAACCCCTGGGGGT
* *
425411 AGGGTGGGGCCACAATGGGAGATTGAAGTTTAACATAGGAATATATAGAGTAAATCTTTAAAAAT
1 AGGGTGGGGCCACAATGGG-GGTCGAAGTTTAACATAGGAATATATAGAGTAAATCTTTAAAAAT
* *
425476 CTTCTTCTCAGAAACTAATCGGCCATGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGT
65 CTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGT
425541 AGATTCAAAGTTGTGAAAATAATAACCCCTGGGGGT
130 AGATTCAAAGTTGTGAAAATAATAACCCCTGGGGGT
* * * *
425577 AGGGTGGGGTCACAATGGGGGTCGAATTTTAACATATGATTATATAGAGTAAATCTTTAAAAATC
1 AGGGTGGGGCCACAATGGGGGTCGAAGTTTAACATAGGAATATATAGAGTAAATCTTTAAAAATC
* * *
425642 TTCTTCTCAGAAACTAATTAGCCAGGAAAGCTGAAACTTGTGTAGAAGTATCCTCAGGTAGTGTA
66 TTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTA
* * *
425707 AATTCAAATTTGTGAAAATCATAA-CCCTGGGGGT
131 GATTCAAAGTTGTGAAAATAATAACCCCTGGGGGT
* * * * * * *
425741 AGGTTTGGGCCACAATGGGAGGTCGATGTTTTACATAGGAATAAACAGAGTTAATCTTTAAAAAT
1 AGGGTGGGGCCACAATGGG-GGTCGAAGTTTAACATAGGAATATATAGAGTAAATCTTTAAAAAT
* * * *
425806 CTTCTTGTCAGAAACTAATCAGCCAAGAAAGCTGAAACTTGTGTGAAAGCATACTCAGGTAGTGT
65 CTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGT
* * *** *****
425871 AG-NTCAAAGTCTGTTCTTCCAGAAACCAACTTATTGAA-TTGTAAACTT
130 AGATTCAAAGT-TG----T---G-AA--AA--TAAT-AACCCCTGGGGGT
*** *** ** * * ***** * * * * *
425919 AACCTTTTTAGCTCACCTGAGGGTGGGGCCACAATGGGGGGTCGA-AGTTTAACAAAT-GAATAT
1 -A-GGGTGGGGC-CA-C--AATG-GGGGTC-GAA--GTTTAAC-ATAG--GAATATATAGAGTAA
*** * *
425982 ATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCGGCCAGGAAAGCTGAGACTTGTGT
53 AT-CTTTAAA--------AATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGT
* * * *
426047 GGAAGCATCCTCAGGTAGTGTAGATTCAAAATTGTGAAAATCATGACCCCCGGGGGT
109 GGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATAATAACCCCTGGGGGT
* *
426104 AGGGTGGAGCCACAATGGGGGATCG-AGTTTAACATAGGAATATATACAGTAAATCTTTAAAAAT
1 AGGGTGGGGCCACAATGGGGG-TCGAAGTTTAACATAGGAATATATAGAGTAAATCTTTAAAAAT
* *
426168 CTTCTTCTCAGAAACTAATCCGCC-GGCAAAGCTGGAACTTGTGTGGAAGCATCCTCAGGTAGTG
65 CTTCTTCTCAGAAACTAATCAGCCAGG-AAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTG
*
426232 TAGATTCTAAGTTGTGAAAATAATAACCCCTGGGGGT
129 TAGATTCAAAGTTGTGAAAATAATAACCCCTGGGGGT
* * * * *
426269 AGGTTGGGGCCACAATGGGGGGGGGGGTCGAAGTTTAACATATGATTTTATAGAGTGAATCTTTA
1 AGGGTGGGGCCACAAT------GGGGGTCGAAGTTTAACATAGGAATATATAGAGTAAATCTTTA
* * *
426334 AAAATATTCTTCTCAGAAAC----CAGCCAGGAAAACTGAAACTTGTGTGGAAGCATCCTGAGGT
60 AAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGT
* * *
426395 AGTGTAGATTCAAATTTGTGAAAATCATTACCCCTGGGGGT
125 AGTGTAGATTCAAAGTTGTGAAAATAATAACCCCTGGGGGT
* * * * * *
426436 AGGTTTGGGCCACAATGGGAGGTCGATGTTTTACATAGGAATAAACAGAGTAAATCTTTAAAAAT
1 AGGGTGGGGCCACAATGGG-GGTCGAAGTTTAACATAGGAATATATAGAGTAAATCTTTAAAAAT
* * * *
426501 CTTCTTGTCAGAAACTAATCAGCCAAGAAAGCTGAAACTTGTGTGAAAGCATACTCAGGTAGTGT
65 CTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGT
* * **
426566 AGATTCAAAGTTGTGTAAATAATGACCCCCAGGGGT
130 AGATTCAAAGTTGTGAAAATAATAACCCCTGGGGGT
* * * * *
426602 AGGGTGTGGCCACAATGGGGGGGGGGGGCAAAGTTTAACAAAGGAATATATAGGGTAAATCTTTA
1 AGGGTGGGGCCACAAT------GGGGGTCGAAGTTTAACATAGGAATATATAGAGTAAATCTTTA
426667 AAAA---TCTTCTCAGAAACTAATCAGCCAG
60 AAAATCTTCTTCTCAGAAACTAATCAGCCAG
426695 ATGATTCTTT
Statistics
Matches: 1036, Mismatches: 185, Indels: 125
0.77 0.14 0.09
Matches are distributed among these distances:
161 3 0.00
162 50 0.05
164 34 0.03
165 327 0.32
166 123 0.12
167 215 0.21
168 24 0.02
169 1 0.00
170 3 0.00
171 89 0.09
172 4 0.00
173 11 0.01
174 6 0.01
175 6 0.01
177 3 0.00
178 8 0.01
179 4 0.00
180 5 0.00
181 3 0.00
182 3 0.00
183 4 0.00
184 7 0.01
185 6 0.01
187 6 0.01
188 6 0.01
189 11 0.01
190 1 0.00
193 1 0.00
197 66 0.06
198 6 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (165 bp):
AGGGTGGGGCCACAATGGGGGTCGAAGTTTAACATAGGAATATATAGAGTAAATCTTTAAAAATC
TTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTA
GATTCAAAGTTGTGAAAATAATAACCCCTGGGGGT
Found at i:426568 original size:333 final size:333
Alignment explanation
Indices: 425954--426683 Score: 1042
Period size: 333 Copynumber: 2.2 Consensus size: 333
425944 GGGCCACAAT
*
425954 GGGGGGTCGAAGTTTAACAAATGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACT
1 GGGGGGTCGAAGTTTAACAAATGAATATATAGAGTAAATCTTTAAAAATATTCTTCTCAGAAAC-
* * *
426019 AATCGGCCAGGAAAGCTGAGACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAATTGTGA
65 -A-CAGCCAGGAAAACTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAATTGTGA
* *
426084 AAATCATGACCCCCGGGGGTAGGGTGGAGCCACAATGGGGGATCGAGTTTAACATAGGAATATAT
128 AAATCATGACCCCCGGGGGTAGGGTGGAGCCACAATGGGGGATCGAGTTTAACATAGGAATAAAC
* * * *
426149 ACAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCCGCCGGCAAAGCTGGAACTTGTGTGG
193 ACAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGCAAAGCTGAAACTTGTGTGA
* * ** *
426214 AAGCATCCTCAGGTAGTGTAGATTCTAAGTTGTGAAAATAATAACCCCTGGGGGTAGGTTGGGGC
258 AAGCATACTCAGGTAGTGTAGATTCAAAGTTGTGAAAATAATAACCCCCAGGGGTAGGGTGGGGC
426279 CACAATGGGGG
323 CACAATGGGGG
* * * *
426290 GGGGGGTCGAAGTTTAACATATGATTTTATAGAGTGAATCTTTAAAAATATTCTTCTCAGAAAC-
1 GGGGGGTCGAAGTTTAACAAATGAATATATAGAGTAAATCTTTAAAAATATTCTTCTCAGAAACA
* *
426354 CAGCCAGGAAAACTGAAACTTGTGTGGAAGCATCCTGAGGTAGTGTAGATTCAAATTTGTGAAAA
66 CAGCCAGGAAAACTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAATTGTGAAAA
* * * *
426419 TCATTACCCCTGGGGGTAGGTTTGG-GCCACAATGGGAGG-TCGATGTTTTACATAGGAATAAAC
131 TCATGACCCCCGGGGGTAGG-GTGGAGCCACAATGGG-GGATCGA-GTTTAACATAGGAATAAAC
* *
426482 AGAGTAAATCTTTAAAAATCTTCTTGTCAGAAACTAATCAGCCAAG-AAAGCTGAAACTTGTGTG
193 ACAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCC-AGCAAAGCTGAAACTTGTGTG
* * *
426546 AAAGCATACTCAGGTAGTGTAGATTCAAAGTTGTGTAAATAATGACCCCCAGGGGTAGGGTGTGG
257 AAAGCATACTCAGGTAGTGTAGATTCAAAGTTGTGAAAATAATAACCCCCAGGGGTAGGGTGGGG
426611 CCACAATGGGGG
322 CCACAATGGGGG
* * * *
426623 GGGGGGGCAAAGTTTAACAAAGGAATATATAGGGTAAATCTTT-AAAA-A-TCTTCTCAGAAAC
1 GGGGGGTCGAAGTTTAACAAATGAATATATAGAGTAAATCTTTAAAAATATTCTTCTCAGAAAC
426684 TAATCAGCCA
Statistics
Matches: 352, Mismatches: 38, Indels: 14
0.87 0.09 0.03
Matches are distributed among these distances:
330 13 0.04
331 1 0.00
332 97 0.28
333 181 0.51
334 1 0.00
336 59 0.17
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (333 bp):
GGGGGGTCGAAGTTTAACAAATGAATATATAGAGTAAATCTTTAAAAATATTCTTCTCAGAAACA
CAGCCAGGAAAACTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAATTGTGAAAA
TCATGACCCCCGGGGGTAGGGTGGAGCCACAATGGGGGATCGAGTTTAACATAGGAATAAACACA
GTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGCAAAGCTGAAACTTGTGTGAAAG
CATACTCAGGTAGTGTAGATTCAAAGTTGTGAAAATAATAACCCCCAGGGGTAGGGTGGGGCCAC
AATGGGGG
Found at i:429262 original size:16 final size:16
Alignment explanation
Indices: 429224--429263 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
429214 GCTACTACTA
429224 AACTAC-TTAAGAAAC
1 AACTACATTAAGAAAC
*
429239 TA-TACATTAAGAAAC
1 AACTACATTAAGAAAC
429254 AACTACATTA
1 AACTACATTA
429264 TACACATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 11 0.52
16 7 0.33
ACGTcount: A:0.53, C:0.17, G:0.05, T:0.25
Consensus pattern (16 bp):
AACTACATTAAGAAAC
Found at i:429490 original size:17 final size:18
Alignment explanation
Indices: 429468--429512 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 18
429458 GATTAGAAAG
*
429468 AGATAAAATTAAATAGA-
1 AGATAAAATTAAATAAAT
429485 AGAT-AAA-TAAATAAAT
1 AGATAAAATTAAATAAAT
*
429501 AAATAAAATTAA
1 AGATAAAATTAA
429513 GAAAAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 7 0.30
16 6 0.26
17 7 0.30
18 3 0.13
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (18 bp):
AGATAAAATTAAATAAAT
Found at i:429780 original size:10 final size:10
Alignment explanation
Indices: 429765--429795 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
429755 TATAGTTCTG
429765 AAACATACAC
1 AAACATACAC
*
429775 AAACATACAT
1 AAACATACAC
429785 AAACATACAC
1 AAACATACAC
429795 A
1 A
429796 TCACAAGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (10 bp):
AAACATACAC
Found at i:432647 original size:2 final size:2
Alignment explanation
Indices: 432642--432671 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
432632 CAGGTGTGTG
432642 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
432672 CTTCTTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:432705 original size:2 final size:2
Alignment explanation
Indices: 432698--432729 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
432688 GCCATGTCTG
432698 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
432730 ATTATCTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:433491 original size:61 final size:57
Alignment explanation
Indices: 433391--433552 Score: 193
Period size: 61 Copynumber: 2.8 Consensus size: 57
433381 GTAAATTAGA
*
433391 TCATGATGGATGAAATAGGTCATGATGAATTAAAA-AGGTCATGGCAGA-GAAAATAGG
1 TCATGATGGATGAAATAGGTCATGGTGAA-TAAAATAGGTCATGGCAGATG-AAATAGG
* * ** *
433448 TCATGATGGATGGATGAAATATGTCATGGTGAATGAAATAGGTCATGGTGGATGAAATATG
1 TC---AT-GATGGATGAAATAGGTCATGGTGAATAAAATAGGTCATGGCAGATGAAATAGG
*
433509 TCATGATGGATGAAATAGGTCATGGTGGATAAAATAGGTCATGG
1 TCATGATGGATGAAATAGGTCATGGTGAATAAAATAGGTCATGG
433553 TGGATAAAGT
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
57 39 0.43
58 2 0.02
60 6 0.07
61 42 0.47
62 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.30, T:0.27
Consensus pattern (57 bp):
TCATGATGGATGAAATAGGTCATGGTGAATAAAATAGGTCATGGCAGATGAAATAGG
Found at i:433568 original size:19 final size:19
Alignment explanation
Indices: 433391--433557 Score: 174
Period size: 19 Copynumber: 8.6 Consensus size: 19
433381 GTAAATTAGA
*
433391 TCATGATGGATGAAATAGG
1 TCATGGTGGATGAAATAGG
* * * *
433410 TCATGATGAATTAAAAAGG
1 TCATGGTGGATGAAATAGG
**
433429 TCATGGCAGA-GAAAATAGG
1 TCATGGTGGATG-AAATAGG
*
433448 TCATGATGGATGGATGAAATATG
1 TC---ATGG-TGGATGAAATAGG
*
433471 TCATGGTGAATGAAATAGG
1 TCATGGTGGATGAAATAGG
*
433490 TCATGGTGGATGAAATATG
1 TCATGGTGGATGAAATAGG
*
433509 TCATGATGGATGAAATAGG
1 TCATGGTGGATGAAATAGG
*
433528 TCATGGTGGATAAAATAGG
1 TCATGGTGGATGAAATAGG
433547 TCATGGTGGAT
1 TCATGGTGGAT
433558 AAAGTGTGTC
Statistics
Matches: 122, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
19 103 0.84
20 4 0.03
22 4 0.03
23 10 0.08
24 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.31, T:0.27
Consensus pattern (19 bp):
TCATGGTGGATGAAATAGG
Found at i:438634 original size:2 final size:2
Alignment explanation
Indices: 438627--438660 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
438617 CTTCCACAAC
438627 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
438661 TAAAATGAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:439100 original size:2 final size:2
Alignment explanation
Indices: 439093--439144 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
439083 TAAATATACT
439093 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
439135 GA GA GA GA GA
1 GA GA GA GA GA
439145 ATAATGGCGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:441161 original size:13 final size:13
Alignment explanation
Indices: 441143--441172 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
441133 TCTACATGTA
441143 AAATTCCTTAATT
1 AAATTCCTTAATT
*
441156 AAATTCCTTGATT
1 AAATTCCTTAATT
441169 AAAT
1 AAAT
441173 ATGTGTAATA
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:0.40, C:0.13, G:0.03, T:0.43
Consensus pattern (13 bp):
AAATTCCTTAATT
Found at i:447102 original size:12 final size:12
Alignment explanation
Indices: 447085--447117 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
447075 AATTGTATCA
447085 TCTCTCTCTCTT
1 TCTCTCTCTCTT
447097 TCTCTCTCTCTT
1 TCTCTCTCTCTT
447109 TCTCTCTCT
1 TCTCTCTCT
447118 ATGTCCATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (12 bp):
TCTCTCTCTCTT
Found at i:450431 original size:28 final size:27
Alignment explanation
Indices: 450385--450444 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
450375 AAATATTTTG
* * *
450385 AATGTTTGCAGTAAATGATTTATATAA
1 AATGTTTACAGTAAATGATATAAATAA
* *
450412 AGATGTTTACAGTCAGTGATATAAATAA
1 A-ATGTTTACAGTAAATGATATAAATAA
450440 AATGT
1 AATGT
450445 ACATGTTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.42, C:0.05, G:0.17, T:0.37
Consensus pattern (27 bp):
AATGTTTACAGTAAATGATATAAATAA
Found at i:450608 original size:29 final size:27
Alignment explanation
Indices: 450543--450608 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
450533 AGAATTCCAG
*
450543 GTTTATAGTCAGTGGTTAAACAAATCA
1 GTTTATAGTCAGTGCTTAAACAAATCA
* *
450570 GATTACAGTCAGTGCTTAAGACAATATCA
1 GTTTATAGTCAGTGCTTAA-ACAA-ATCA
450599 GTTTATAGTC
1 GTTTATAGTC
450609 TTTGATCAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 16 0.50
28 4 0.12
29 12 0.38
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (27 bp):
GTTTATAGTCAGTGCTTAAACAAATCA
Found at i:450619 original size:29 final size:29
Alignment explanation
Indices: 450587--450659 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 29
450577 GTCAGTGCTT
* * *
450587 AAGACAATATCAGTTTATAGTCTTTGATC
1 AAGACAATATAAGTTAACAGTCTTTGATC
* *
450616 AAGACAA-ATAAGTTAACAGTTTTTGATT
1 AAGACAATATAAGTTAACAGTCTTTGATC
*
450644 AAGACTA-ATAAGTTAA
1 AAGACAATATAAGTTAA
450660 TTTTACAGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
28 31 0.82
29 7 0.18
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (29 bp):
AAGACAATATAAGTTAACAGTCTTTGATC
Found at i:450712 original size:28 final size:28
Alignment explanation
Indices: 450680--450843 Score: 222
Period size: 28 Copynumber: 5.9 Consensus size: 28
450670 AGCAAATTAA
450680 TAAGACAAATCAGTTTACAGTCAGCGAT
1 TAAGACAAATCAGTTTACAGTCAGCGAT
450708 TAAGACAAATCAGTTTACAGTCAGCGAT
1 TAAGACAAATCAGTTTACAGTCAGCGAT
* * *
450736 TAGGACAAATCAATTTACAGTCAGCAAT
1 TAAGACAAATCAGTTTACAGTCAGCGAT
* * * *
450764 TTACAAAAATCAGTTTACAGTCAGCAGTT
1 TAAGACAAATCAGTTTACAGTCAGC-GAT
*
450793 TAAGACAAATCAGTTTA-AGTCAGCAAT
1 TAAGACAAATCAGTTTACAGTCAGCGAT
* *
450820 TAAGACAATTAAGTTTACAGTCAG
1 TAAGACAAATCAGTTTACAGTCAG
450844 TGGTGTAAGC
Statistics
Matches: 117, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 16 0.14
28 86 0.74
29 15 0.13
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (28 bp):
TAAGACAAATCAGTTTACAGTCAGCGAT
Found at i:450753 original size:56 final size:57
Alignment explanation
Indices: 450661--450843 Score: 235
Period size: 56 Copynumber: 3.2 Consensus size: 57
450651 ATAAGTTAAT
* *
450661 TTTACAGTCAGCAAATTAATAAGACAAATCAGTTTACAGTCAGCGATTAAGACAAATCAG
1 TTTACAGTCAGCAGA-T--TAAGACAAATCAGTTTACAGTCAGCAATTAAGACAAATCAG
* * * * *
450721 TTTACAGTCAGC-GATTAGGACAAATCAATTTACAGTCAGCAATTTACAAAAATCAG
1 TTTACAGTCAGCAGATTAAGACAAATCAGTTTACAGTCAGCAATTAAGACAAATCAG
* * *
450777 TTTACAGTCAGCAGTTTAAGACAAATCAGTTTA-AGTCAGCAATTAAGACAATTAAG
1 TTTACAGTCAGCAGATTAAGACAAATCAGTTTACAGTCAGCAATTAAGACAAATCAG
450833 TTTACAGTCAG
1 TTTACAGTCAG
450844 TGGTGTAAGC
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
56 76 0.71
57 17 0.16
58 1 0.01
59 1 0.01
60 12 0.11
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.27
Consensus pattern (57 bp):
TTTACAGTCAGCAGATTAAGACAAATCAGTTTACAGTCAGCAATTAAGACAAATCAG
Found at i:450783 original size:84 final size:84
Alignment explanation
Indices: 450686--450843 Score: 248
Period size: 84 Copynumber: 1.9 Consensus size: 84
450676 TTAATAAGAC
* *
450686 AAATCAGTTTACAGTCAGC-GATTAAGACAAATCAGTTTACAGTCAGCGATTAGGACAAATCAA-
1 AAATCAGTTTACAGTCAGCAGATTAAGACAAATCAGTTTA-AGTCAGCAATTAAGAC-AATCAAG
450749 TTTACAGTCAGCAATTTACAA
64 TTTACAGTCAGCAATTTACAA
* *
450770 AAATCAGTTTACAGTCAGCAGTTTAAGACAAATCAGTTTAAGTCAGCAATTAAGACAATTAAGTT
1 AAATCAGTTTACAGTCAGCAGATTAAGACAAATCAGTTTAAGTCAGCAATTAAGACAATCAAGTT
450835 TACAGTCAG
66 TACAGTCAG
450844 TGGTGTAAGC
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
83 5 0.07
84 44 0.65
85 19 0.28
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (84 bp):
AAATCAGTTTACAGTCAGCAGATTAAGACAAATCAGTTTAAGTCAGCAATTAAGACAATCAAGTT
TACAGTCAGCAATTTACAA
Found at i:451722 original size:78 final size:78
Alignment explanation
Indices: 451640--451880 Score: 244
Period size: 78 Copynumber: 3.1 Consensus size: 78
451630 GAGGGGTAGG
451640 GGGTTGCACTGAATGTATCATCACCAATACAATTAGTACCTTTGGCATACTTAACGTAGTACTTG
1 GGGTTGCACTGAATGTATCATCACCAATACAATTAGTACCTTTGGCATACTTAACGTAGTACTTG
451705 GTAGGGAGAGGAT
66 GTAGGGAGAGGAT
* * * * * * * ** **
451718 GGGTTGGATTTGCACT-TAATCATTA-CTAT-TAATGTCCG-ACCTTTGGTGTACTTATTGTAG-
1 GGGTTGCA-CTG-AATGT-ATCATCACCAATACAAT-T-AGTACCTTTGGCATACTTAACGTAGT
* *
451778 AGCTTGG--GGGAGGGGTAGG
61 A-CTTGGTAGGGAGAGG-A-T
451797 GGGTTGCACTGAATGTATCATCACCAATACAATTAGTACCTTTGGCATACTTAACGTAGTACTTG
1 GGGTTGCACTGAATGTATCATCACCAATACAATTAGTACCTTTGGCATACTTAACGTAGTACTTG
451862 GTAGGGAGAGGAT
66 GTAGGGAGAGGAT
451875 GGGTTG
1 GGGTTG
451881 GATTTGCACT
Statistics
Matches: 122, Mismatches: 26, Indels: 30
0.69 0.15 0.17
Matches are distributed among these distances:
77 16 0.13
78 48 0.39
79 42 0.34
80 16 0.13
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.32
Consensus pattern (78 bp):
GGGTTGCACTGAATGTATCATCACCAATACAATTAGTACCTTTGGCATACTTAACGTAGTACTTG
GTAGGGAGAGGAT
Found at i:451770 original size:79 final size:79
Alignment explanation
Indices: 451677--451920 Score: 243
Period size: 79 Copynumber: 3.1 Consensus size: 79
451667 TACAATTAGT
451677 ACCTTTGGCATACTTAACGTAGTACTTGGTAGGGAGAGGATGGGTTGGATTTGCACTTAATCATT
1 ACCTTTGGCATACTTAACGTAGTACTTGGTAGGGAGAGGATGGGTTGGATTTGCACTTAATCATT
*
451742 ACTATTAATGTCCG
66 ACTATTAATGTCAG
** ** * * * * *
451756 ACCTTTGGTGTACTTATTGTAG-AGCTTGG--GGGAGGGGTAGGGGGTTGCA-CTG-AATGT-AT
1 ACCTTTGGCATACTTAACGTAGTA-CTTGGTAGGGAGAGG-A-TGGGTTGGATTTGCACT-TAAT
* * *
451815 CATCACCAATACAAT-T-AG
62 CATTA-CTAT-TAATGTCAG
451833 TACCTTTGGCATACTTAACGTAGTACTTGGTAGGGAGAGGATGGGTTGGATTTGCACTTAATCAT
1 -ACCTTTGGCATACTTAACGTAGTACTTGGTAGGGAGAGGATGGGTTGGATTTGCACTTAATCAT
*
451898 TATTATTAATGTCAG
65 TACTATTAATGTCAG
451913 ACCTTTGG
1 ACCTTTGG
451921 TGTACTTTTT
Statistics
Matches: 124, Mismatches: 26, Indels: 30
0.69 0.14 0.17
Matches are distributed among these distances:
77 16 0.13
78 42 0.34
79 49 0.40
80 17 0.14
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (79 bp):
ACCTTTGGCATACTTAACGTAGTACTTGGTAGGGAGAGGATGGGTTGGATTTGCACTTAATCATT
ACTATTAATGTCAG
Found at i:451958 original size:79 final size:78
Alignment explanation
Indices: 451718--451959 Score: 212
Period size: 79 Copynumber: 3.1 Consensus size: 78
451708 GGGAGAGGAT
*
451718 GGGTTGGATTTGCACTTAATCATTACTATTAATGTCCGACCTTTGGTGTACTTATTGTAGAGCTT
1 GGGTTGGATTTGCACTTAATCATTACTATTAATGTCAGACCTTTGGTGTACTTATTGTAGAGCTT
451783 GGGGGAGGGGTAGG
66 -GGGGAGGGGTAGG
* * * * * * ** **
451797 GGGTTGCA-CTG-AATGT-ATCATCACCAATACAAT-T-AGTACCTTTGGCATACTTAACGTAGT
1 GGGTTGGATTTGCACT-TAATCATTA-CTAT-TAATGTCAG-ACCTTTGGTGTACTTATTGTAG-
*
451857 A-CTT-GGTAGGGAG-AGG
61 AGCTTGGGGAGGG-GTAGG
* *
451873 ATGGGTTGGATTTGCACTTAATCATTATTATTAATGTCAGACCTTTGGTGTACTTTTTGTAGAGC
1 --GGGTTGGATTTGCACTTAATCATTACTATTAATGTCAGACCTTTGGTGTACTTATTGTAGAGC
451938 TTAGGGGAGGGGTAGG
64 TT-GGGGAGGGGTAGG
451954 GGGTTG
1 GGGTTG
451960 CTCTGTAAGT
Statistics
Matches: 121, Mismatches: 25, Indels: 34
0.67 0.14 0.19
Matches are distributed among these distances:
76 9 0.07
77 10 0.08
78 39 0.32
79 43 0.36
80 11 0.09
81 9 0.07
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.34
Consensus pattern (78 bp):
GGGTTGGATTTGCACTTAATCATTACTATTAATGTCAGACCTTTGGTGTACTTATTGTAGAGCTT
GGGGAGGGGTAGG
Found at i:452018 original size:157 final size:157
Alignment explanation
Indices: 451599--452006 Score: 710
Period size: 157 Copynumber: 2.6 Consensus size: 157
451589 TGCTGACAGT
* *
451599 ACCTATGGTGTACTTATTATAGAGCTTGGGGGAGGGGTAGGGGGTTGCACTGAATGTATCATCAC
1 ACCTTTGGTGTACTTATTGTAGAGCTTGGGGGAGGGGTAGGGGGTTGCACTGAATGTATCATCAC
451664 CAATACAATTAGTACCTTTGGCATACTTAACGTAGTACTTGGTAGGGAGAGGATGGGTTGGATTT
66 CAATACAATTAGTACCTTTGGCATACTTAACGTAGTACTTGGTAGGGAGAGGATGGGTTGGATTT
*
451729 GCACTTAATCATTACTATTAATGTCCG
131 GCACTTAATCATTACTATTAATGTCAG
451756 ACCTTTGGTGTACTTATTGTAGAGCTTGGGGGAGGGGTAGGGGGTTGCACTGAATGTATCATCAC
1 ACCTTTGGTGTACTTATTGTAGAGCTTGGGGGAGGGGTAGGGGGTTGCACTGAATGTATCATCAC
451821 CAATACAATTAGTACCTTTGGCATACTTAACGTAGTACTTGGTAGGGAGAGGATGGGTTGGATTT
66 CAATACAATTAGTACCTTTGGCATACTTAACGTAGTACTTGGTAGGGAGAGGATGGGTTGGATTT
*
451886 GCACTTAATCATTATTATTAATGTCAG
131 GCACTTAATCATTACTATTAATGTCAG
* * *
451913 ACCTTTGGTGTACTTTTTGTAGAGCTTAGGGGAGGGGTAGGGGGTTGCTCTGTAA-GTATCATCA
1 ACCTTTGGTGTACTTATTGTAGAGCTTGGGGGAGGGGTAGGGGGTTGCACTG-AATGTATCATCA
* * *
451977 CCATTACAGTTAGTACCTCTGGCATACTTA
65 CCAATACAATTAGTACCTTTGGCATACTTA
452007 TTGAAGTACT
Statistics
Matches: 240, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
157 238 0.99
158 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (157 bp):
ACCTTTGGTGTACTTATTGTAGAGCTTGGGGGAGGGGTAGGGGGTTGCACTGAATGTATCATCAC
CAATACAATTAGTACCTTTGGCATACTTAACGTAGTACTTGGTAGGGAGAGGATGGGTTGGATTT
GCACTTAATCATTACTATTAATGTCAG
Found at i:456884 original size:48 final size:48
Alignment explanation
Indices: 456813--457104 Score: 440
Period size: 48 Copynumber: 6.0 Consensus size: 48
456803 GGCAAAGACT
456813 GTGATAGCACCACTAGATAGAACAAAAATCAACTTCCAGAGTAAGTCA
1 GTGATAGCACCACTAGATAGAACAAAAATCAACTTCCAGAGTAAGTCA
* ** * *
456861 GTGATAGCGCTGCAAGATAGAACAAAAATCAACTTCCAAAGTAAGTCA
1 GTGATAGCACCACTAGATAGAACAAAAATCAACTTCCAGAGTAAGTCA
*
456909 GTGATAGCACCACTAGATAGAACAAAAATCAACTTCCAGAGTAAGTCT
1 GTGATAGCACCACTAGATAGAACAAAAATCAACTTCCAGAGTAAGTCA
* *
456957 GTGATAGCACCACTAGATAGAACAAAAATCAACATCCAAAGTAAGTCA
1 GTGATAGCACCACTAGATAGAACAAAAATCAACTTCCAGAGTAAGTCA
457005 GTGATAGCACCACTAGATAGAACAAAAATCAACTTCCAGAGTAAGTCA
1 GTGATAGCACCACTAGATAGAACAAAAATCAACTTCCAGAGTAAGTCA
** * *
457053 GTGATAGTGCCGCTAGATATATAGAACAAAAATCAACTTTCAGAGTAAGTCA
1 GTGATAGCACCACTAG----ATAGAACAAAAATCAACTTCCAGAGTAAGTCA
457105 TTGAATAGGT
Statistics
Matches: 220, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
48 189 0.86
52 31 0.14
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (48 bp):
GTGATAGCACCACTAGATAGAACAAAAATCAACTTCCAGAGTAAGTCA
Found at i:458359 original size:4 final size:4
Alignment explanation
Indices: 458350--458509 Score: 203
Period size: 4 Copynumber: 39.8 Consensus size: 4
458340 AAGCTCAGTA
* * *
458350 AGAG AGAG AGAG AGAC AGAG AGAC AGAG AGAG AGAC AGAG AGAG AGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * *
458398 AAAG AGAG AGAA AGAG AGAG AGAG ACAG AGAG AGAG ACAG AGAG AGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * *
458446 AAAG AGAG AGAG AGAG AGAG AGACG AGAG AGAA AGAA AGAG AGAA AGAG
1 AGAG AGAG AGAG AGAG AGAG AGA-G AGAG AGAG AGAG AGAG AGAG AGAG
*
458495 AGAA AGAG AGAG AGA
1 AGAG AGAG AGAG AGA
458510 ACAAACAAAA
Statistics
Matches: 133, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
4 129 0.97
5 4 0.03
ACGTcount: A:0.54, C:0.04, G:0.42, T:0.00
Consensus pattern (4 bp):
AGAG
Found at i:459756 original size:19 final size:19
Alignment explanation
Indices: 459734--459958 Score: 398
Period size: 19 Copynumber: 11.8 Consensus size: 19
459724 GACCTTTTAC
459734 GATTATATCTACCTGTAAA
1 GATTATATCTACCTGTAAA
459753 GATTATATCTACCTGTAAA
1 GATTATATCTACCTGTAAA
*
459772 GATTATATCTACCTGTATA
1 GATTATATCTACCTGTAAA
459791 GATTATATCTACCTGTAAA
1 GATTATATCTACCTGTAAA
459810 GATTATATCTACCTGTAAA
1 GATTATATCTACCTGTAAA
459829 GATTATAT-TCACCTGTAAA
1 GATTATATCT-ACCTGTAAA
459848 GATTATATCTACCTGTAAA
1 GATTATATCTACCTGTAAA
459867 GATTATATCTACCTGTAAA
1 GATTATATCTACCTGTAAA
459886 GATTATATCTACCTGTAAA
1 GATTATATCTACCTGTAAA
*
459905 GATTATATATACCTGTAAA
1 GATTATATCTACCTGTAAA
459924 GATTATATCTACCTGTAAA
1 GATTATATCTACCTGTAAA
**
459943 GATTCCATCTACCTGT
1 GATTATATCTACCTGT
459959 TAACAAAACC
Statistics
Matches: 198, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
18 1 0.01
19 196 0.99
20 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
GATTATATCTACCTGTAAA
Found at i:460136 original size:19 final size:19
Alignment explanation
Indices: 460107--460396 Score: 328
Period size: 19 Copynumber: 15.5 Consensus size: 19
460097 ACCTGTTAAA
* *
460107 TTACATGTTAACATTTTAT
1 TTACCTGTTAACATTATAT
*
460126 CTACCTGTTAACATTATAT
1 TTACCTGTTAACATTATAT
*
460145 CTACCTGTTAACATTATAT
1 TTACCTGTTAACATTATAT
460164 TTACCTGAGTGTTAACATTATAT
1 TTACC----TGTTAACATTATAT
*
460187 TTACCTGTTAACA-AATAT
1 TTACCTGTTAACATTATAT
*
460205 TTACCTGTTAACAATATAT
1 TTACCTGTTAACATTATAT
* *
460224 CTACCTGTTAACA-AATAT
1 TTACCTGTTAACATTATAT
460242 TTACCTGTTAACA-T-TA-
1 TTACCTGTTAACATTATAT
*
460258 -TA--TGTTAACATTTTAT
1 TTACCTGTTAACATTATAT
* *
460274 CTACCTGTTAACAATATAT
1 TTACCTGTTAACATTATAT
* **
460293 CTACCTGTTAACAAAATAT
1 TTACCTGTTAACATTATAT
** *
460312 CCACCTGTTAACA-GATAT
1 TTACCTGTTAACATTATAT
460330 TTACCTGTTAACATTATAT
1 TTACCTGTTAACATTATAT
460349 TTACCTGTTAACATTATAT
1 TTACCTGTTAACATTATAT
460368 TTACCTGTTAACATTATAT
1 TTACCTGTTAACATTATAT
460387 TTACCTGTTA
1 TTACCTGTTA
460397 CAGGTTACTG
Statistics
Matches: 241, Mismatches: 18, Indels: 24
0.85 0.06 0.08
Matches are distributed among these distances:
13 8 0.03
14 1 0.00
15 4 0.02
17 4 0.02
18 48 0.20
19 157 0.65
23 19 0.08
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (19 bp):
TTACCTGTTAACATTATAT
Found at i:460169 original size:38 final size:38
Alignment explanation
Indices: 460112--460396 Score: 327
Period size: 37 Copynumber: 7.6 Consensus size: 38
460102 TTAAATTACA
* *
460112 TGTTAACATTTTATCTACCTGTTAACATTATATCTACC
1 TGTTAACATTATATTTACCTGTTAACATTATATCTACC
*
460150 TGTTAACATTATATTTACCTGAGTGTTAACATTATATTTACC
1 TGTTAACATTATATTTACC----TGTTAACATTATATCTACC
* *
460192 TGTTAACA-AATATTTACCTGTTAACAATATATCTACC
1 TGTTAACATTATATTTACCTGTTAACATTATATCTACC
*
460229 TGTTAACA-AATATTTACCTGTTAACA-T-TA--TA--
1 TGTTAACATTATATTTACCTGTTAACATTATATCTACC
* * *
460260 TGTTAACATTTTATCTACCTGTTAACAATATATCTACC
1 TGTTAACATTATATTTACCTGTTAACATTATATCTACC
** ** * *
460298 TGTTAACAAAATATCCACCTGTTAACA-GATATTTACC
1 TGTTAACATTATATTTACCTGTTAACATTATATCTACC
*
460335 TGTTAACATTATATTTACCTGTTAACATTATATTTACC
1 TGTTAACATTATATTTACCTGTTAACATTATATCTACC
460373 TGTTAACATTATATTTACCTGTTA
1 TGTTAACATTATATTTACCTGTTA
460397 CAGGTTACTG
Statistics
Matches: 215, Mismatches: 20, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
31 8 0.04
32 15 0.07
33 3 0.01
34 2 0.01
35 2 0.01
36 3 0.01
37 74 0.34
38 73 0.34
41 9 0.04
42 26 0.12
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (38 bp):
TGTTAACATTATATTTACCTGTTAACATTATATCTACC
Found at i:460358 original size:125 final size:127
Alignment explanation
Indices: 460131--460386 Score: 372
Period size: 125 Copynumber: 2.0 Consensus size: 127
460121 TTTATCTACC
* * ** **
460131 TGTTAACATTATATCTACCTGTTAACATTATATTTACCTGAGTGTTAACATTATATTTACCTGTT
1 TGTTAACATTATATCTACCTGTTAACAATATATCTACC---GTGTTAACAAAATATCCACCTGTT
460196 AACAAATATTTACCTGTTAACAATATATCTACCTGTTAACA-AATATTTACCTGTTAACATTATA
63 AACAAATATTTACCTGTTAACAATATATCTACCTGTTAACATAATATTTACCTGTTAACATTATA
*
460260 TGTTAACATTTTATCTACCTGTTAACAATATATCTACC-TGTTAACAAAATATCCACCTGTTAAC
1 TGTTAACATTATATCTACCTGTTAACAATATATCTACCGTGTTAACAAAATATCCACCTGTTAAC
* * * *
460324 AGATATTTACCTGTTAACATTATATTTACCTGTTAACATTATATTTACCTGTTAACATTATA
66 AAATATTTACCTGTTAACAATATATCTACCTGTTAACATAATATTTACCTGTTAACATTATA
460386 T
1 T
460387 TTACCTGTTA
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
125 57 0.50
126 23 0.20
129 35 0.30
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (127 bp):
TGTTAACATTATATCTACCTGTTAACAATATATCTACCGTGTTAACAAAATATCCACCTGTTAAC
AAATATTTACCTGTTAACAATATATCTACCTGTTAACATAATATTTACCTGTTAACATTATA
Found at i:471173 original size:16 final size:15
Alignment explanation
Indices: 471152--471185 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
471142 ACGGAAGAGA
471152 TATATCAATATATAAT
1 TATATCAAT-TATAAT
*
471168 TATATCAATTATTAT
1 TATATCAATTATAAT
471183 TAT
1 TAT
471186 CATAGCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATCAATTATAAT
Found at i:473796 original size:12 final size:12
Alignment explanation
Indices: 473779--473803 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
473769 TGGTAAGGTG
473779 TTTGTATTTTGA
1 TTTGTATTTTGA
473791 TTTGTATTTTGA
1 TTTGTATTTTGA
473803 T
1 T
473804 AGACTTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (12 bp):
TTTGTATTTTGA
Found at i:477548 original size:24 final size:23
Alignment explanation
Indices: 477513--477557 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
477503 GTGATCATTG
*
477513 TAAAAAAAATACATAACCCGCGT
1 TAAAAAAAATACATAAACCGCGT
477536 TAAAAAAATATACATAAACCGC
1 TAAAAAAA-ATACATAAACCGC
477558 TAAGGTGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.56, C:0.20, G:0.07, T:0.18
Consensus pattern (23 bp):
TAAAAAAAATACATAAACCGCGT
Found at i:478432 original size:2 final size:2
Alignment explanation
Indices: 478425--478483 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
478415 GGTCTTGAAA
478425 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
478467 AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG A
478484 NNNNNNNNNN
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:485708 original size:2 final size:2
Alignment explanation
Indices: 485701--485731 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
485691 ACTTCTGAAT
485701 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
485732 ATGAATCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:487964 original size:2 final size:2
Alignment explanation
Indices: 487957--488050 Score: 165
Period size: 2 Copynumber: 48.0 Consensus size: 2
487947 TATAGCAGGC
*
487957 AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG A- AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
487997 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
488039 AG AG AG AG AG AG
1 AG AG AG AG AG AG
488051 GGGTGTAGTT
Statistics
Matches: 88, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
1 2 0.02
2 86 0.98
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:488511 original size:2 final size:2
Alignment explanation
Indices: 488504--488570 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
488494 TAAATCCTGC
488504 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
488546 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
488571 NNNNNNNNNN
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:490932 original size:24 final size:25
Alignment explanation
Indices: 490905--490951 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
490895 ATAATCTATA
*
490905 AATTATTCTTCATCAT-TTCATGAT
1 AATTATTCTTAATCATATTCATGAT
*
490929 AATTATTTTTAATCATATTCATG
1 AATTATTCTTAATCATATTCATG
490952 TACAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.51
Consensus pattern (25 bp):
AATTATTCTTAATCATATTCATGAT
Found at i:491391 original size:12 final size:12
Alignment explanation
Indices: 491376--491483 Score: 108
Period size: 12 Copynumber: 9.0 Consensus size: 12
491366 CTCAAGATCG
491376 AGATCCCGTTCA
1 AGATCCCGTTCA
** *
491388 AGATCAGGTTCC
1 AGATCCCGTTCA
*
491400 ACATCCCGTTCA
1 AGATCCCGTTCA
491412 AGATCCCGTTCA
1 AGATCCCGTTCA
*
491424 AGATCCCGTTCC
1 AGATCCCGTTCA
*
491436 AGATCCCGTTCC
1 AGATCCCGTTCA
* *
491448 AGATCACGCTCA
1 AGATCCCGTTCA
* * *
491460 AGAGCACGTTCC
1 AGATCCCGTTCA
*
491472 AGATCACGTTCA
1 AGATCCCGTTCA
491484 CGCACTAGCT
Statistics
Matches: 79, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 79 1.00
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (12 bp):
AGATCCCGTTCA
Found at i:491405 original size:24 final size:24
Alignment explanation
Indices: 491376--491483 Score: 126
Period size: 24 Copynumber: 4.5 Consensus size: 24
491366 CTCAAGATCG
*
491376 AGATCCCGTTCAAGATCAGGTTCC
1 AGATCCCGTTCAAGATCACGTTCC
* * *
491400 ACATCCCGTTCAAGATCCCGTTCA
1 AGATCCCGTTCAAGATCACGTTCC
* *
491424 AGATCCCGTTCCAGATCCCGTTCC
1 AGATCCCGTTCAAGATCACGTTCC
* * *
491448 AGATCACGCTCAAGAGCACGTTCC
1 AGATCCCGTTCAAGATCACGTTCC
*
491472 AGATCACGTTCA
1 AGATCCCGTTCA
491484 CGCACTAGCT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (24 bp):
AGATCCCGTTCAAGATCACGTTCC
Found at i:491423 original size:36 final size:36
Alignment explanation
Indices: 491376--491483 Score: 144
Period size: 36 Copynumber: 3.0 Consensus size: 36
491366 CTCAAGATCG
* *
491376 AGATCCCGTTCAAGATCAGGTTCCACATCCCGTTCA
1 AGATCCCGTTCAAGATCACGTTCCAGATCCCGTTCA
* *
491412 AGATCCCGTTCAAGATCCCGTTCCAGATCCCGTTCC
1 AGATCCCGTTCAAGATCACGTTCCAGATCCCGTTCA
* * * *
491448 AGATCACGCTCAAGAGCACGTTCCAGATCACGTTCA
1 AGATCCCGTTCAAGATCACGTTCCAGATCCCGTTCA
491484 CGCACTAGCT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 62 1.00
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (36 bp):
AGATCCCGTTCAAGATCACGTTCCAGATCCCGTTCA
Found at i:491562 original size:18 final size:18
Alignment explanation
Indices: 491500--491563 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
491490 AGCTTACATA
491500 CCAGCTCACGTTCACAG-T
1 CCAGCTCACGTTCA-AGAT
*
491518 CCAGCTCACGTTCTAGAT
1 CCAGCTCACGTTCAAGAT
* *
491536 CAAGTTCACGTTCAAGAT
1 CCAGCTCACGTTCAAGAT
491554 CGCAG-TCACG
1 C-CAGCTCACG
491564 ATCGCGTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
17 2 0.05
18 35 0.90
19 2 0.05
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (18 bp):
CCAGCTCACGTTCAAGAT
Found at i:493302 original size:2 final size:2
Alignment explanation
Indices: 493295--493338 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
493285 TTAAAAGCAT
493295 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
493337 GA
1 GA
493339 TTTTCAGTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:496202 original size:54 final size:54
Alignment explanation
Indices: 496144--496251 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
496134 CATACCATCC
496144 GATATAGGTCTAAATGATGTTTTTCGTGTTTTCGTGTTTCTGAACGCATATTCT
1 GATATAGGTCTAAATGATGTTTTTCGTGTTTTCGTGTTTCTGAACGCATATTCT
496198 GATATAGGTCTAAATGATGTTTTTCGTGTTTTCGTGTTTCTGAACGCATATTCT
1 GATATAGGTCTAAATGATGTTTTTCGTGTTTTCGTGTTTCTGAACGCATATTCT
496252 TCAGTTCACC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.46
Consensus pattern (54 bp):
GATATAGGTCTAAATGATGTTTTTCGTGTTTTCGTGTTTCTGAACGCATATTCT
Found at i:501440 original size:11 final size:11
Alignment explanation
Indices: 501424--501464 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
501414 TAAGCAAGTC
*
501424 CTTAAAGGTCG
1 CTTAAAGGTGG
501435 CTTAAAGGTGG
1 CTTAAAGGTGG
*
501446 CGTAAAGGTGG
1 CTTAAAGGTGG
501457 CTTAAAGG
1 CTTAAAGG
501465 AGATACAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.34, T:0.24
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:501490 original size:11 final size:11
Alignment explanation
Indices: 501474--501503 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
501464 GAGATACAAT
501474 CTTTAAGCCAC
1 CTTTAAGCCAC
*
501485 CTTTAAGTCAC
1 CTTTAAGCCAC
501496 CTTTAAGC
1 CTTTAAGC
501504 TGAGCTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (11 bp):
CTTTAAGCCAC
Found at i:501550 original size:11 final size:10
Alignment explanation
Indices: 501534--501583 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 10
501524 GTCCAAACTT
501534 CTTTAAGTCAC
1 CTTTAAG-CAC
*
501545 CTTTAAGCCAT
1 CTTTAAG-CAC
501556 CTTTAAGCTAC
1 CTTTAAGC-AC
*
501567 CTTTAAGCAT
1 CTTTAAGCAC
501577 CTTTAAG
1 CTTTAAG
501584 TGGCATTTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.26
11 25 0.74
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (10 bp):
CTTTAAGCAC
Found at i:501579 original size:21 final size:22
Alignment explanation
Indices: 501533--501584 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
501523 TGTCCAAACT
501533 TCTTTAAGTCACCTTTAAGCCA
1 TCTTTAAGTCACCTTTAAGCCA
501555 TCTTTAAG-CTACCTTTAAG-CA
1 TCTTTAAGTC-ACCTTTAAGCCA
501576 TCTTTAAGT
1 TCTTTAAGT
501585 GGCATTTACG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (22 bp):
TCTTTAAGTCACCTTTAAGCCA
Found at i:502422 original size:112 final size:112
Alignment explanation
Indices: 502225--502447 Score: 410
Period size: 112 Copynumber: 2.0 Consensus size: 112
502215 AGTTTTGTTC
*
502225 GTTTGTGTATATCTAATTAGAGTCTATTGTTTGTCCAACTTACGAAAACCCCCGGAACTAACACA
1 GTTTGTGTATATCTAATTAGAGTCTATTGTTTGTCCAACTTAAGAAAACCCCCGGAACTAACACA
* *
502290 GAATATACAAGATATACACAACAGTTGTGTCTTGTGCCCAGGTGCAT
66 GAATATACAAGATATACACAACAGGTGTGTCGTGTGCCCAGGTGCAT
*
502337 GTTTGTGTATATCTAATTAGAGTCTATTGTTTGTCCAACTTAAGAAAACCCCTGGAACTAACACA
1 GTTTGTGTATATCTAATTAGAGTCTATTGTTTGTCCAACTTAAGAAAACCCCCGGAACTAACACA
502402 GAATATACAAGATATACACAACAGGTGTGTCGTGTGCCCAGGTGCA
66 GAATATACAAGATATACACAACAGGTGTGTCGTGTGCCCAGGTGCA
502448 AGTCAGTGTT
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 107 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (112 bp):
GTTTGTGTATATCTAATTAGAGTCTATTGTTTGTCCAACTTAAGAAAACCCCCGGAACTAACACA
GAATATACAAGATATACACAACAGGTGTGTCGTGTGCCCAGGTGCAT
Found at i:503481 original size:11 final size:11
Alignment explanation
Indices: 503465--503529 Score: 94
Period size: 11 Copynumber: 5.9 Consensus size: 11
503455 GATTTGTTAA
503465 TGGCTTAAAGG
1 TGGCTTAAAGG
*
503476 TGGCTTAAAGA
1 TGGCTTAAAGG
*
503487 TGGCTTAAAGA
1 TGGCTTAAAGG
503498 TGGCTTAAAGG
1 TGGCTTAAAGG
*
503509 TAGCTTAAAGG
1 TGGCTTAAAGG
*
503520 TAGCTTAAAG
1 TGGCTTAAAG
503530 AAGTTTGGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 51 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (11 bp):
TGGCTTAAAGG
Found at i:503502 original size:33 final size:33
Alignment explanation
Indices: 503464--503530 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
503454 AGATTTGTTA
* *
503464 ATGGCTTAAAGGTGGCTTAAAGATGGCTTAAAG
1 ATGGCTTAAAGGTAGCTTAAAGATAGCTTAAAG
*
503497 ATGGCTTAAAGGTAGCTTAAAGGTAGCTTAAAG
1 ATGGCTTAAAGGTAGCTTAAAGATAGCTTAAAG
503530 A
1 A
503531 AGTTTGGACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (33 bp):
ATGGCTTAAAGGTAGCTTAAAGATAGCTTAAAG
Found at i:503609 original size:11 final size:11
Alignment explanation
Indices: 503595--503637 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
503585 TTTAAGCTGC
*
503595 CTTTAAGCCAT
1 CTTTAAGCAAT
* **
503606 CTTTACGCTTT
1 CTTTAAGCAAT
503617 CTTTAAGCAAT
1 CTTTAAGCAAT
503628 CTTTAAGCAA
1 CTTTAAGCAA
503638 CACATATAGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (11 bp):
CTTTAAGCAAT
Found at i:503660 original size:11 final size:11
Alignment explanation
Indices: 503644--503675 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
503634 GCAACACATA
503644 TAGCTTAAAGG
1 TAGCTTAAAGG
503655 TAGCTTAAAGG
1 TAGCTTAAAGG
*
503666 TGGCTTAAAG
1 TAGCTTAAAG
503676 ATCGTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (11 bp):
TAGCTTAAAGG
Found at i:503706 original size:21 final size:21
Alignment explanation
Indices: 503680--503719 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
503670 TTAAAGATCG
503680 TCTTTAAGCTACCTTTAAGCA
1 TCTTTAAGCTACCTTTAAGCA
*
503701 TCTTTAAGCTATCTTTAAG
1 TCTTTAAGCTACCTTTAAG
503720 GAGAACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (21 bp):
TCTTTAAGCTACCTTTAAGCA
Found at i:503707 original size:10 final size:11
Alignment explanation
Indices: 503680--503719 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
503670 TTAAAGATCG
503680 TCTTTAAGCTA
1 TCTTTAAGCTA
*
503691 CCTTTAAGC-A
1 TCTTTAAGCTA
503701 TCTTTAAGCTA
1 TCTTTAAGCTA
503712 TCTTTAAG
1 TCTTTAAG
503720 GAGAACTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (11 bp):
TCTTTAAGCTA
Found at i:509961 original size:4 final size:4
Alignment explanation
Indices: 509952--510085 Score: 198
Period size: 4 Copynumber: 33.0 Consensus size: 4
509942 GTTAATTTTA
509952 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
510000 AGAT AGAT AGAT AGAT AGGAATT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT A-G-A-T AGAT AGAT AGAT AGAT AGAT AGAT AGAT
* * * *
510051 AGAT AGAT AGAT A-AA AGAT CGAT AAAT AAAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
510086 GGTTAACTAA
Statistics
Matches: 120, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
3 2 0.02
4 112 0.93
5 2 0.02
6 2 0.02
7 2 0.02
ACGTcount: A:0.51, C:0.01, G:0.23, T:0.25
Consensus pattern (4 bp):
AGAT
Found at i:512541 original size:11 final size:11
Alignment explanation
Indices: 512521--512561 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
512511 TAAGCAAGCC
512521 CTTAAAGGTGG
1 CTTAAAGGTGG
*
512532 CTTTAAGGTGG
1 CTTAAAGGTGG
*
512543 CGTAAAGGTGG
1 CTTAAAGGTGG
512554 CTTAAAGG
1 CTTAAAGG
512562 ATATACAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.37, T:0.27
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:514160 original size:11 final size:11
Alignment explanation
Indices: 514144--514208 Score: 94
Period size: 11 Copynumber: 5.9 Consensus size: 11
514134 GATTTGTTAA
514144 TGGCTTAAAGG
1 TGGCTTAAAGG
*
514155 TGGCTTAAAGA
1 TGGCTTAAAGG
*
514166 TGGCTTAAAGA
1 TGGCTTAAAGG
514177 TGGCTTAAAGG
1 TGGCTTAAAGG
*
514188 TAGCTTAAAGG
1 TGGCTTAAAGG
*
514199 TAGCTTAAAG
1 TGGCTTAAAG
514209 AAGTTTGGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 51 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (11 bp):
TGGCTTAAAGG
Found at i:514181 original size:33 final size:33
Alignment explanation
Indices: 514143--514209 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
514133 AGATTTGTTA
* *
514143 ATGGCTTAAAGGTGGCTTAAAGATGGCTTAAAG
1 ATGGCTTAAAGGTAGCTTAAAGATAGCTTAAAG
*
514176 ATGGCTTAAAGGTAGCTTAAAGGTAGCTTAAAG
1 ATGGCTTAAAGGTAGCTTAAAGATAGCTTAAAG
514209 A
1 A
514210 AGTTTGGACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (33 bp):
ATGGCTTAAAGGTAGCTTAAAGATAGCTTAAAG
Found at i:514288 original size:11 final size:11
Alignment explanation
Indices: 514274--514316 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
514264 TTTAAGCTGC
*
514274 CTTTAAGCCAT
1 CTTTAAGCAAT
* **
514285 CTTTACGCTTT
1 CTTTAAGCAAT
514296 CTTTAAGCAAT
1 CTTTAAGCAAT
514307 CTTTAAGCAA
1 CTTTAAGCAA
514317 CACATATAGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (11 bp):
CTTTAAGCAAT
Found at i:514339 original size:11 final size:11
Alignment explanation
Indices: 514323--514354 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
514313 GCAACACATA
514323 TAGCTTAAAGG
1 TAGCTTAAAGG
514334 TAGCTTAAAGG
1 TAGCTTAAAGG
*
514345 TGGCTTAAAG
1 TAGCTTAAAG
514355 ATCGTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (11 bp):
TAGCTTAAAGG
Found at i:514385 original size:21 final size:21
Alignment explanation
Indices: 514359--514398 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
514349 TTAAAGATCG
514359 TCTTTAAGCTACCTTTAAGCA
1 TCTTTAAGCTACCTTTAAGCA
*
514380 TCTTTAAGCTATCTTTAAG
1 TCTTTAAGCTACCTTTAAG
514399 GAGAACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (21 bp):
TCTTTAAGCTACCTTTAAGCA
Found at i:514386 original size:10 final size:11
Alignment explanation
Indices: 514359--514398 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
514349 TTAAAGATCG
514359 TCTTTAAGCTA
1 TCTTTAAGCTA
*
514370 CCTTTAAGC-A
1 TCTTTAAGCTA
514380 TCTTTAAGCTA
1 TCTTTAAGCTA
514391 TCTTTAAG
1 TCTTTAAG
514399 GAGAACTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (11 bp):
TCTTTAAGCTA
Found at i:514990 original size:11 final size:11
Alignment explanation
Indices: 514976--515029 Score: 99
Period size: 11 Copynumber: 4.9 Consensus size: 11
514966 TCTTCTTTAA
514976 TGGCTTAAAGG
1 TGGCTTAAAGG
514987 TGGCTTAAAGG
1 TGGCTTAAAGG
514998 TGGCTTAAAGG
1 TGGCTTAAAGG
*
515009 TAGCTTAAAGG
1 TGGCTTAAAGG
515020 TGGCTTAAAG
1 TGGCTTAAAG
515030 AAGTTTGGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 41 1.00
ACGTcount: A:0.30, C:0.09, G:0.33, T:0.28
Consensus pattern (11 bp):
TGGCTTAAAGG
Found at i:515077 original size:11 final size:11
Alignment explanation
Indices: 515061--515089 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
515051 ATAAGTTGTC
515061 CTTAAAGGTGG
1 CTTAAAGGTGG
515072 CTTAAAGGTGG
1 CTTAAAGGTGG
515083 CTTAAAG
1 CTTAAAG
515090 ATAGTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:515197 original size:11 final size:11
Alignment explanation
Indices: 515181--515218 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
515171 AAAGATCGTT
515181 TTTAAGCTATC
1 TTTAAGCTATC
*
515192 TTTAAGC-ACC
1 TTTAAGCTATC
*
515202 TTGAAGCTATC
1 TTTAAGCTATC
515213 TTTAAG
1 TTTAAG
515219 GAGAACTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (11 bp):
TTTAAGCTATC
Found at i:516950 original size:2 final size:2
Alignment explanation
Indices: 516945--516974 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
516935 TATATGTGTG
516945 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
516975 CACACANNNN
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:518205 original size:1 final size:1
Alignment explanation
Indices: 518195--518234 Score: 53
Period size: 1 Copynumber: 40.0 Consensus size: 1
518185 GGATTTATTC
* * *
518195 GGGGGNGGGGGGGGGGGGGTGGGGCGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
518235 TTGCGAGGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.03, G:0.93, T:0.03
Consensus pattern (1 bp):
G
Found at i:518223 original size:19 final size:19
Alignment explanation
Indices: 518196--518232 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
518186 GATTTATTCG
*
518196 GGGGNGGGGGGGGGGGGGT
1 GGGGCGGGGGGGGGGGGGT
518215 GGGGCGGGGGGGGGGGGG
1 GGGGCGGGGGGGGGGGGG
518233 GGTTGCGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.03, G:0.92, T:0.03
Consensus pattern (19 bp):
GGGGCGGGGGGGGGGGGGT
Found at i:519412 original size:21 final size:20
Alignment explanation
Indices: 519387--519648 Score: 139
Period size: 21 Copynumber: 12.6 Consensus size: 20
519377 TTTGCTATTA
519387 ATAATTTGTTTAAACAAATT
1 ATAATTTGTTTAAACAAATT
519407 ATTAATTTG-TTATAACAAATT
1 A-TAATTTGTTTA-AACAAATT
* *
519428 GATAACTAG-TTATAACAAATT
1 -ATAATTTGTTTA-AACAAATT
* *
519449 ATTAAATTG-TTATATCAAATT
1 A-TAATTTGTTTA-AACAAATT
*
519470 ACTAAATTGTTTAAACAAATT
1 A-TAATTTGTTTAAACAAATT
519491 AATAATTTGTTTAAAC-AATT
1 -ATAATTTGTTTAAACAAATT
*
519511 A-ATATTTGTTGT-AACAATTT
1 ATA-ATTTGTT-TAAACAAATT
* *
519531 GATAATTTG-TTATATCATATT
1 -ATAATTTGTTTA-AACAAATT
**
519552 GATAATTTGTTTTTACAAATT
1 -ATAATTTGTTTAAACAAATT
* *
519573 GATAATCTGTTTTAACAAATT
1 -ATAATTTGTTTAAACAAATT
** *
519594 GATAACCT-TTTATAACATATT
1 -ATAATTTGTTTA-AACAAATT
519615 GAT-ATTCTG-TTATAACAAATT
1 -ATAATT-TGTTTA-AACAAATT
519636 ACTAATTTGTTTA
1 A-TAATTTGTTTA
519649 TTTACTAATT
Statistics
Matches: 198, Mismatches: 24, Indels: 38
0.76 0.09 0.15
Matches are distributed among these distances:
18 1 0.01
19 12 0.06
20 19 0.10
21 152 0.77
22 14 0.07
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATTTGTTTAAACAAATT
Found at i:519487 original size:42 final size:42
Alignment explanation
Indices: 519387--519648 Score: 170
Period size: 42 Copynumber: 6.3 Consensus size: 42
519377 TTTGCTATTA
*
519387 ATAATTTGTTTAAACAAATTATTAATTTGTTATAACAAATTG
1 ATAAATTGTTTAAACAAATTATTAATTTGTTATAACAAATTG
* * * *
519429 ATAACTAG-TTATAACAAATTATTAAATTGTTATATCAAATT-
1 ATAAATTGTTTA-AACAAATTATTAATTTGTTATAACAAATTG
* *
519470 ACTAAATTGTTTAAACAAATTAATAATTTGTT-TAA-ACAATTA
1 A-TAAATTGTTTAAACAAATTATTAATTTGTTATAACA-AATTG
* * * *
519512 AT-ATTTGTTGT-AACAATTTGA-TAATTTGTTATATCATATTG
1 ATAAATTGTT-TAAACAAATT-ATTAATTTGTTATAACAAATTG
* ** * *
519553 ATAATTTGTTTTTACAAATTGA-TAATCTGTTTTAACAAATTG
1 ATAAATTGTTTAAACAAATT-ATTAATTTGTTATAACAAATTG
** *
519595 ATAACCT-TTTATAACATATTGA-T-ATTCTGTTATAACAAATT-
1 ATAAATTGTTTA-AACAAATT-ATTAATT-TGTTATAACAAATTG
*
519636 ACTAATTTGTTTA
1 A-TAAATTGTTTA
519649 TTTACTAATT
Statistics
Matches: 176, Mismatches: 29, Indels: 29
0.75 0.12 0.12
Matches are distributed among these distances:
40 23 0.13
41 27 0.15
42 119 0.68
43 7 0.04
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (42 bp):
ATAAATTGTTTAAACAAATTATTAATTTGTTATAACAAATTG
Found at i:519647 original size:63 final size:63
Alignment explanation
Indices: 519383--519647 Score: 231
Period size: 63 Copynumber: 4.2 Consensus size: 63
519373 ACATTTTGCT
* * * *
519383 ATTAATAATTTGTTTAAACAAATTATTAATTTGTTATAACAAATTGATAACTAGTTATAACAA
1 ATTAATAATTTGTTTTAACAAATTACTAATTTGTTATAACAAATTGATAATTTGTTATAACAA
* * * * * *
519446 ATTATTAAATTGTTATATCAAATTACTAAATTGTT-TAAACAAATTAATAATTTGTT-TAA-ACA
1 ATTAATAATTTGTTTTAACAAATTACTAATTTGTTAT-AACAAATTGATAATTTGTTATAACA-A
* * * * * *
519508 ATTAAT-ATTTGTTGTAACAATTTGA-TAATTTGTTATATCATATTGATAATTTGTTTTTACAA
1 ATTAATAATTTGTTTTAACAAATT-ACTAATTTGTTATAACAAATTGATAATTTGTTATAACAA
* * * *
519570 ATTGATAATCTGTTTTAACAAATTGA-TAACCTT-TTATAACATATTGAT-ATTCTGTTATAACA
1 ATTAATAATTTGTTTTAACAAATT-ACTAA-TTTGTTATAACAAATTGATAATT-TGTTATAACA
519632 A
63 A
*
519633 ATTACTAATTTGTTT
1 ATTAATAATTTGTTT
519648 ATTTACTAAT
Statistics
Matches: 162, Mismatches: 31, Indels: 18
0.77 0.15 0.09
Matches are distributed among these distances:
61 38 0.23
62 23 0.14
63 99 0.61
64 2 0.01
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (63 bp):
ATTAATAATTTGTTTTAACAAATTACTAATTTGTTATAACAAATTGATAATTTGTTATAACAA
Found at i:531933 original size:2 final size:2
Alignment explanation
Indices: 531923--531968 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
531913 TCGTCACCGA
* *
531923 AG AG TG AG AG AG AG AG TG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
531965 AG AG
1 AG AG
531969 CATACTACCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.50, T:0.04
Consensus pattern (2 bp):
AG
Found at i:532125 original size:28 final size:28
Alignment explanation
Indices: 532093--532177 Score: 170
Period size: 28 Copynumber: 3.0 Consensus size: 28
532083 GATAGAGTAA
532093 GGAAGAAACAAATACGTTGTAATTGAAT
1 GGAAGAAACAAATACGTTGTAATTGAAT
532121 GGAAGAAACAAATACGTTGTAATTGAAT
1 GGAAGAAACAAATACGTTGTAATTGAAT
532149 GGAAGAAACAAATACGTTGTAATTGAAT
1 GGAAGAAACAAATACGTTGTAATTGAAT
532177 G
1 G
532178 AACAGAAAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (28 bp):
GGAAGAAACAAATACGTTGTAATTGAAT
Found at i:533174 original size:1 final size:1
Alignment explanation
Indices: 533168--533199 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
533158 AGTAATTTAT
533168 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
533200 CCATTGAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:537827 original size:50 final size:50
Alignment explanation
Indices: 537543--537821 Score: 434
Period size: 50 Copynumber: 5.6 Consensus size: 50
537533 TGTTAATGGC
* * *
537543 TCCT-CCCCATCCTATTGCAATATGAACAATGACGTAAACAATAAAAGGA
1 TCCTACCCCATCCTATGGCAATATGAACAATGACATAAACAGTAAAAGGA
* *
537592 TCCTACCCAATCCTATGGCAATATGAATAATGACATAAACAGTAAAAGGA
1 TCCTACCCCATCCTATGGCAATATGAACAATGACATAAACAGTAAAAGGA
*
537642 TCCTACCCCATCCTATGACAATATGAACAATGACATAAACAGTAAAAGGA
1 TCCTACCCCATCCTATGGCAATATGAACAATGACATAAACAGTAAAAGGA
*
537692 TCCTACCCCATCCTATGGCAATATGAATAATGACATAAACAGTAAAAGGA
1 TCCTACCCCATCCTATGGCAATATGAACAATGACATAAACAGTAAAAGGA
** * * * *
537742 TCCTATTCAATCCTATGGCAATATGAACAAAGACGTAAACAGTTAAAGGA
1 TCCTACCCCATCCTATGGCAATATGAACAATGACATAAACAGTAAAAGGA
537792 TCCTACCCCATCCTATGGCAATATGAACAA
1 TCCTACCCCATCCTATGGCAATATGAACAA
537822 AGACGTTGTT
Statistics
Matches: 209, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
49 4 0.02
50 205 0.98
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.22
Consensus pattern (50 bp):
TCCTACCCCATCCTATGGCAATATGAACAATGACATAAACAGTAAAAGGA
Found at i:538024 original size:31 final size:31
Alignment explanation
Indices: 537989--538102 Score: 96
Period size: 31 Copynumber: 3.8 Consensus size: 31
537979 AATTATCAAC
*
537989 AATCATGTAGCTGTAAACAGAGATTATCCAT
1 AATCATATAGCTGTAAACAGAGATTATCCAT
* *
538020 AATCATATAGCTGTAAACAAAGA--A--CTT
1 AATCATATAGCTGTAAACAGAGATTATCCAT
* * * *
538047 GAA-CATGCTAGCTGT-AACGGAGATTATCAAC
1 -AATCAT-ATAGCTGTAAACAGAGATTATCCAT
*
538078 AATCATATAGCTTTAAACAGAGATT
1 AATCATATAGCTGTAAACAGAGATT
538103 TAATAACCAC
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
27 11 0.17
28 9 0.14
29 2 0.03
30 8 0.13
31 33 0.52
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (31 bp):
AATCATATAGCTGTAAACAGAGATTATCCAT
Found at i:538167 original size:31 final size:31
Alignment explanation
Indices: 538129--538294 Score: 262
Period size: 31 Copynumber: 5.4 Consensus size: 31
538119 GTATACTAGT
538129 AGCTGTAAACATAGATTAACAACTATCATAG
1 AGCTGTAAACATAGATTAACAACTATCATAG
* *
538160 AGATGTAAACATAGATTAACAACTATCATAT
1 AGCTGTAAACATAGATTAACAACTATCATAG
*
538191 AGCTGTAAACATAGATTAACAACTATCATAT
1 AGCTGTAAACATAGATTAACAACTATCATAG
*
538222 AGCTGTAAACATAGATTAACAACAATCAT-G
1 AGCTGTAAACATAGATTAACAACTATCATAG
*
538252 TAGCTGTAAACATAGATTAACAACTATCATAC
1 -AGCTGTAAACATAGATTAACAACTATCATAG
*
538284 AGCTGAAAACA
1 AGCTGTAAACA
538295 GAGAATATCA
Statistics
Matches: 125, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
31 125 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.26
Consensus pattern (31 bp):
AGCTGTAAACATAGATTAACAACTATCATAG
Found at i:539166 original size:21 final size:21
Alignment explanation
Indices: 539142--539216 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
539132 ATCTGCCACC
539142 ACTTGTCAGATAATTATGTTG
1 ACTTGTCAGATAATTATGTTG
* * * *
539163 ACTTGTCATATGATAATGTCG
1 ACTTGTCAGATAATTATGTTG
* *
539184 ACTTGTCAGATATTTATGTTA
1 ACTTGTCAGATAATTATGTTG
539205 ACTTGTCAGATA
1 ACTTGTCAGATA
539217 TATACATGTA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (21 bp):
ACTTGTCAGATAATTATGTTG
Found at i:539354 original size:21 final size:21
Alignment explanation
Indices: 539329--539407 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
539319 TCATAATATA
*
539329 TGACAAGTCCACATAAAGATC
1 TGACAAGTCAACATAAAGATC
* **
539350 TGAC-AGTTTAACATAATTATC
1 TGACAAG-TCAACATAAAGATC
* *
539371 TAAAAAGTCAACATAAAGATC
1 TGACAAGTCAACATAAAGATC
* *
539392 TTACAAGTTAACATAA
1 TGACAAGTCAACATAA
539408 TAATTATTAT
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 2 0.05
21 40 0.91
22 2 0.05
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (21 bp):
TGACAAGTCAACATAAAGATC
Found at i:539433 original size:48 final size:45
Alignment explanation
Indices: 539329--539469 Score: 144
Period size: 48 Copynumber: 3.1 Consensus size: 45
539319 TCATAATATA
* **
539329 TGACAAGTCCACATAAAGATCTGACAGTTTAACATA---ATTATC
1 TGACAAGTCAACATAAAGATCTGACAAATTAACATATTTATTATC
* * * *
539371 TAAAAAGTCAACATAAAGATCTTACAAGTTAACATAATAATTATTATC
1 TGACAAGTCAACATAAAGATCTGACAAATTAACAT-AT--TTATTATC
* *
539419 TGACAAGTCGACATAAAGATCTGAGAAATTAACATATTTATTTATC
1 TGACAAGTCAACATAAAGATCTGACAAATTAACATATTTA-TTATC
539465 TGACA
1 TGACA
539470 GGAATCATTA
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
42 29 0.36
43 1 0.01
45 3 0.04
46 10 0.12
47 2 0.03
48 35 0.44
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (45 bp):
TGACAAGTCAACATAAAGATCTGACAAATTAACATATTTATTATC
Found at i:539603 original size:21 final size:21
Alignment explanation
Indices: 539519--539597 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
539509 CATATTGTAA
*
539519 GTCGACTTGTCAGATAATGAT
1 GTCGACTTGTCAGATAATTAT
* * *
539540 GTTGATTTGTCAGAT-GTTACAT
1 GTCGACTTGTCAGATAATT--AT
* *
539562 GTCGTCTTGTCAAATAATTAT
1 GTCGACTTGTCAGATAATTAT
539583 GTCGACTTGTCAGAT
1 GTCGACTTGTCAGAT
539598 CCTTATTATT
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
20 1 0.02
21 28 0.64
22 13 0.30
23 2 0.05
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (21 bp):
GTCGACTTGTCAGATAATTAT
Found at i:539732 original size:21 final size:22
Alignment explanation
Indices: 539694--539745 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
539684 ACTTAAAGAA
539694 CTGACAAGTCAAACATAATTAT
1 CTGACAAGTCAAACATAATTAT
*
539716 CTGACAAGTC-GACATAATTAT
1 CTGACAAGTCAAACATAATTAT
539737 CTGACAAGT
1 CTGACAAGT
539746 GGTGGCACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.27
Consensus pattern (22 bp):
CTGACAAGTCAAACATAATTAT
Found at i:561328 original size:19 final size:19
Alignment explanation
Indices: 561290--561328 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
561280 AGTTTTGCCA
* *
561290 TATTTCAATCTTTTTAATT
1 TATTGCAATCTTTGTAATT
*
561309 TATTGCAATCTTTGTGATT
1 TATTGCAATCTTTGTAATT
561328 T
1 T
561329 TTTCTCCCCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.10, G:0.08, T:0.59
Consensus pattern (19 bp):
TATTGCAATCTTTGTAATT
Found at i:564079 original size:34 final size:34
Alignment explanation
Indices: 564033--564203 Score: 193
Period size: 34 Copynumber: 5.0 Consensus size: 34
564023 AGTCTGGAGA
* *
564033 TGTTACAGGTAACTTATCTGTAATGTAAGGCAAC
1 TGTTACAAGTAACTTATGTGTAATGTAAGGCAAC
* **
564067 TGTTACAAGTAACTTATGTGTTACATAAGGCAAC
1 TGTTACAAGTAACTTATGTGTAATGTAAGGCAAC
* * *
564101 TGTTA-AAGGCAACTTATATGTAATGTAAGACAAC
1 TGTTACAA-GTAACTTATGTGTAATGTAAGGCAAC
*
564135 TGTTAC-AGATAACTTATGTGTTATGTAAGGCAAC
1 TGTTACAAG-TAACTTATGTGTAATGTAAGGCAAC
* * * *
564169 TGTTATAGGTAACTTGTGTGTAATGTAGGGCAAC
1 TGTTACAAGTAACTTATGTGTAATGTAAGGCAAC
564203 T
1 T
564204 TATGTATAAT
Statistics
Matches: 113, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
33 3 0.03
34 109 0.96
35 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (34 bp):
TGTTACAAGTAACTTATGTGTAATGTAAGGCAAC
Found at i:564203 original size:21 final size:21
Alignment explanation
Indices: 564179--564224 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
564169 TGTTATAGGT
* *
564179 AACTTGTGTGTAATGTAGGGC
1 AACTTATGTATAATGTAGGGC
564200 AACTTATGTATAATGTAGGGC
1 AACTTATGTATAATGTAGGGC
564221 AACT
1 AACT
564225 GTTACAGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (21 bp):
AACTTATGTATAATGTAGGGC
Found at i:564203 original size:68 final size:68
Alignment explanation
Indices: 564033--564203 Score: 236
Period size: 68 Copynumber: 2.5 Consensus size: 68
564023 AGTCTGGAGA
* *
564033 TGTTACAGGTAACTTATCTGTAATGTAAGGCAACTGTTACAAGTAACTTATGTGTTACATAAGGC
1 TGTTAAAGGTAACTTATATGTAATGTAAGGCAACTGTTACAAGTAACTTATGTGTTACATAAGGC
564098 AAC
66 AAC
* * **
564101 TGTTAAAGGCAACTTATATGTAATGTAAGACAACTGTTAC-AGATAACTTATGTGTTATGTAAGG
1 TGTTAAAGGTAACTTATATGTAATGTAAGGCAACTGTTACAAG-TAACTTATGTGTTACATAAGG
564165 CAAC
65 CAAC
* * * *
564169 TGTTATAGGTAACTTGTGTGTAATGTAGGGCAACT
1 TGTTAAAGGTAACTTATATGTAATGTAAGGCAACT
564204 TATGTATAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
67 2 0.02
68 88 0.98
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (68 bp):
TGTTAAAGGTAACTTATATGTAATGTAAGGCAACTGTTACAAGTAACTTATGTGTTACATAAGGC
AAC
Found at i:564204 original size:55 final size:55
Alignment explanation
Indices: 564145--564255 Score: 177
Period size: 55 Copynumber: 2.0 Consensus size: 55
564135 TGTTACAGAT
* * * *
564145 AACTTATGTGTTATGTAAGGCAACTGTTATAGGTAACTTGTGTGTAATGTAGGGC
1 AACTTATGTATAATGTAAGGCAACTGTTACAGGTAACTTGTGTGTAATGTAAGGC
*
564200 AACTTATGTATAATGTAGGGCAACTGTTACAGGTAACTTGTGTGTAATGTAAGGC
1 AACTTATGTATAATGTAAGGCAACTGTTACAGGTAACTTGTGTGTAATGTAAGGC
564255 A
1 A
564256 GTTGTTACAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (55 bp):
AACTTATGTATAATGTAAGGCAACTGTTACAGGTAACTTGTGTGTAATGTAAGGC
Found at i:564216 original size:89 final size:89
Alignment explanation
Indices: 564106--564289 Score: 269
Period size: 89 Copynumber: 2.1 Consensus size: 89
564096 GCAACTGTTA
* *
564106 AAGGCAACTTATATGTAATGTAAGACAACTGTTACAGATAACTTATGTGTTATGTAAGGCAACTG
1 AAGGCAACTTATATATAATGTAAGACAACTGTTACAGATAACTTATGTGTAATGTAAGGCAACTG
*
564171 TTATAGGTAACTTGTGTGTAATGT
66 TTACAGGTAACTTGTGTGTAATGT
* * * * * * **
564195 AGGGCAACTTATGTATAATGTAGGGCAACTGTTACAGGTAACTTGTGTGTAATGTAAGGCAGTTG
1 AAGGCAACTTATATATAATGTAAGACAACTGTTACAGATAACTTATGTGTAATGTAAGGCAACTG
564260 TTACAGGTAACTTGTGTGTAATGT
66 TTACAGGTAACTTGTGTGTAATGT
564284 AAGGCA
1 AAGGCA
564290 GTTGTTACAG
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
89 83 1.00
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (89 bp):
AAGGCAACTTATATATAATGTAAGACAACTGTTACAGATAACTTATGTGTAATGTAAGGCAACTG
TTACAGGTAACTTGTGTGTAATGT
Found at i:564248 original size:34 final size:34
Alignment explanation
Indices: 564200--564464 Score: 331
Period size: 34 Copynumber: 7.9 Consensus size: 34
564190 AATGTAGGGC
* *
564200 AACTTATGTATAATGTAGGGCAACTGTTACAGGT
1 AACTTATGTGTAATGTAAGGCAACTGTTACAGGT
* **
564234 AACTTGTGTGTAATGTAAGGCAGTTGTTACAGGT
1 AACTTATGTGTAATGTAAGGCAACTGTTACAGGT
* **
564268 AACTTGTGTGTAATGTAAGGCAGTTGTTACAGGT
1 AACTTATGTGTAATGTAAGGCAACTGTTACAGGT
* *
564302 AACTTGTGTGTAATGTAAGGCAACTGTTAAAGGT
1 AACTTATGTGTAATGTAAGGCAACTGTTACAGGT
*
564336 AAC--ATGTGTAATGCAAGGCAACTCTGTTACAGGT
1 AACTTATGTGTAATGTAAGGCAA--CTGTTACAGGT
* ** *
564370 AACTTAAGTGTAATGTAAGTAAACTGTTATAGGT
1 AACTTATGTGTAATGTAAGGCAACTGTTACAGGT
564404 AAC-T-TGTGTAATGTAAGGCAACTGTTACAGGT
1 AACTTATGTGTAATGTAAGGCAACTGTTACAGGT
* *
564436 AACTTATGTGTAATGTAATGCAACCGTTA
1 AACTTATGTGTAATGTAAGGCAACTGTTA
564465 TAGCTGGGTT
Statistics
Matches: 203, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
32 43 0.21
33 2 0.01
34 144 0.71
36 14 0.07
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.33
Consensus pattern (34 bp):
AACTTATGTGTAATGTAAGGCAACTGTTACAGGT
Found at i:564296 original size:123 final size:123
Alignment explanation
Indices: 564095--564459 Score: 362
Period size: 123 Copynumber: 2.9 Consensus size: 123
564085 TGTTACATAA
*
564095 GGCAACTGTTAAAGGCAACTTATATGTAATGTAAGACAACTGTTACAGATAACTTATGTGTTATG
1 GGCAACTGTTAAAGGCAACTTATATGTAATGTAAGACAACTGTTACAGATAACTTATGTGTAATG
* *
564160 TAAGGCAACTGTTATAGGTAACTTGTGTGTAATGTAGGGCAACTTATGTATAATGTAG
66 TAAGGCAACTGTTACAGGTAACTTGTGTGTAATGTAAGGCAACTTATGTATAATGTAG
* * * * * ** * *
564218 GGCAACTGTTACAGGTAACTTGTGTGTAATGTAAGGCAGTTGTTACAGGTAACTTGTGTGTAATG
1 GGCAACTGTTAAAGGCAACTTATATGTAATGTAAGACAACTGTTACAGATAACTTATGTGTAATG
** *
564283 TAAGGCAGTTGTTACAGGTAACTTGTGTGTAATGTAAGGCAACTGTTAAAGGTA-ACATGTGTAA
66 TAAGGCAACTGTTACAGGTAACTTGTGTGTAATGTAAGGCAAC--TT--ATGTATA-A--TGT-A
564347 TG
123 -G
* * * *
564349 CAAGGCAACTCTGTTACAGGTAACTTA-AGTGTAATGTAAGTA-AACTGTTATAGGTAAC-T-TG
1 ---GGCAA--CTGTTAAAGGCAACTTATA-TGTAATGTAAG-ACAACTGTTACAGATAACTTATG
* *
564410 TGTAATGTAAGGCAACTGTTACAGGTAACTTATGTGTAATGTAATGCAAC
59 TGTAATGTAAGGCAACTGTTACAGGTAACTTGTGTGTAATGTAAGGCAAC
564460 CGTTATAGCT
Statistics
Matches: 201, Mismatches: 25, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
123 94 0.47
125 2 0.01
126 1 0.00
127 5 0.02
129 3 0.01
130 1 0.00
131 1 0.00
134 53 0.26
135 1 0.00
136 40 0.20
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (123 bp):
GGCAACTGTTAAAGGCAACTTATATGTAATGTAAGACAACTGTTACAGATAACTTATGTGTAATG
TAAGGCAACTGTTACAGGTAACTTGTGTGTAATGTAAGGCAACTTATGTATAATGTAG
Found at i:564329 original size:157 final size:157
Alignment explanation
Indices: 564043--564344 Score: 406
Period size: 157 Copynumber: 1.9 Consensus size: 157
564033 TGTTACAGGT
* *
564043 AACTTATCTGTAATGTAAGGCAACTGTTACAAGTAACTTATGTGTTACATAAGGCAACTGTTAAA
1 AACTTATCTATAATGTAAGGCAACTGTTACAAGTAACTTATGTGTAACATAAGGCAACTGTTAAA
*
564108 GGCAACTTATATGTAATGTAAGACAACTGTTACAGATAACTTATGTGTTATGTAAGGCAACTGTT
66 GGCAACTTATATGTAATGTAAGACAACTGTTACAGATAACTTATGTGTAATGTAAGGCAACTGTT
* *
564173 ATAGGTAACTTGTGTGTAATGTAGGGC
131 AAAGGTAACATGTGTGTAATGTAGGGC
* * * * ** ** *
564200 AACTTATGTATAATGTAGGGCAACTGTTACAGGTAACTTGTGTGTAATGTAAGGCAGTTGTTACA
1 AACTTATCTATAATGTAAGGCAACTGTTACAAGTAACTTATGTGTAACATAAGGCAACTGTTAAA
* * * * ** * *
564265 GGTAACTTGTGTGTAATGTAAGGCAGTTGTTACAGGTAACTTGTGTGTAATGTAAGGCAACTGTT
66 GGCAACTTATATGTAATGTAAGACAACTGTTACAGATAACTTATGTGTAATGTAAGGCAACTGTT
564330 AAAGGTAACATGTGT
131 AAAGGTAACATGTGT
564345 AATGCAAGGC
Statistics
Matches: 123, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
157 123 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (157 bp):
AACTTATCTATAATGTAAGGCAACTGTTACAAGTAACTTATGTGTAACATAAGGCAACTGTTAAA
GGCAACTTATATGTAATGTAAGACAACTGTTACAGATAACTTATGTGTAATGTAAGGCAACTGTT
AAAGGTAACATGTGTGTAATGTAGGGC
Found at i:567124 original size:103 final size:103
Alignment explanation
Indices: 566945--567453 Score: 753
Period size: 103 Copynumber: 4.9 Consensus size: 103
566935 CGCCTCACCG
566945 CAGAGGAGCTGCTACACGAGGTGGTTCTCTGTGTGGGCTACTTCACCGTCCTCAACCCTGAAAAC
1 CAGAGGAGCTGCTACACGAGGTGGTTCTCTGTGTGGGCTACTTCACCGTCCTCAACCCTGAAAAC
567010 CAGGTAAATATCTCAAAAACCAGGTAATATAAAACACT
66 CAGGTAAATATCTCAAAAACCAGGTAATATAAAACACT
567048 CAGAGGAGCTGCTACACGAGGTGGTTCTCTGTGTGGGCTACTTCACCGTCCTCAACCCTGAAAAC
1 CAGAGGAGCTGCTACACGAGGTGGTTCTCTGTGTGGGCTACTTCACCGTCCTCAACCCTGAAAAC
567113 CAGGTAAATATCTCAAAAACCAGGTAATATAAAACACT
66 CAGGTAAATATCTCAAAAACCAGGTAATATAAAACACT
*
567151 CAGAGGAGCTGCTACACGAGGTGGTTCTCTGTGTCGGCTACTTCACCGTCCTCAACCCTGAAAAC
1 CAGAGGAGCTGCTACACGAGGTGGTTCTCTGTGTGGGCTACTTCACCGTCCTCAACCCTGAAAAC
*
567216 CAGGTAAATATCTCAAAAACCAGGTAATAAAAAAAACACT
66 CAGGTAAATATCTCAAAAACCAGGTAAT--ATAAAACACT
* ** * * *
567256 CAGAGGAGCTGCTACACAAGGTGGTTCTGGGTGTGGGCTACTTCACGGTCTTCAACCCCGAAAAC
1 CAGAGGAGCTGCTACACGAGGTGGTTCTCTGTGTGGGCTACTTCACCGTCCTCAACCCTGAAAAC
* * * * *
567321 CAGGTAAATAACTCGAAAATCAGGTAATAAAAAAAAAGAACT
66 CAGGTAAATATCTCAAAAACCAGGTAAT---ATAAAA-CACT
* * *
567363 CAGAGGAGCTGCTACACAAGGTGGTTCTGTGTGTGGG---C-T-ACCGTCCTAAACCC-GAAAAA
1 CAGAGGAGCTGCTACACGAGGTGGTTCTCTGTGTGGGCTACTTCACCGTCCTCAACCCTG-AAAA
*
567422 CCAGGTAAATAACTCAAAAACCAGGTAA-ATAA
65 CCAGGTAAATATCTCAAAAACCAGGTAATATAA
567454 CTCAAAAACC
Statistics
Matches: 381, Mismatches: 20, Indels: 15
0.92 0.05 0.04
Matches are distributed among these distances:
98 3 0.01
101 1 0.00
102 41 0.11
103 196 0.51
104 1 0.00
105 92 0.24
106 8 0.02
107 39 0.10
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (103 bp):
CAGAGGAGCTGCTACACGAGGTGGTTCTCTGTGTGGGCTACTTCACCGTCCTCAACCCTGAAAAC
CAGGTAAATATCTCAAAAACCAGGTAATATAAAACACT
Found at i:567472 original size:19 final size:20
Alignment explanation
Indices: 567417--567469 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
567407 CCTAAACCCG
567417 AAAAACCAGGTAAATAACTC
1 AAAAACCAGGTAAATAACTC
567437 AAAAACCAGGTAAATAACTC
1 AAAAACCAGGTAAATAACTC
567457 AAAAACCAGGTAA
1 AAAAACCAGGTAA
567470 TAAAAAACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.57, C:0.19, G:0.11, T:0.13
Consensus pattern (20 bp):
AAAAACCAGGTAAATAACTC
Found at i:567599 original size:20 final size:20
Alignment explanation
Indices: 567570--567608 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
567560 ATACTACCAA
*
567570 CAAAACCAGGTACATATCAC
1 CAAAAACAGGTACATATCAC
567590 CAAAAACAGGTACATATCA
1 CAAAAACAGGTACATATCA
567609 ATATATCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.26, G:0.10, T:0.15
Consensus pattern (20 bp):
CAAAAACAGGTACATATCAC
Found at i:567618 original size:28 final size:29
Alignment explanation
Indices: 567583--567637 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
567573 AACCAGGTAC
567583 ATATCACCAAAAA-CAGGTACATATCAAT
1 ATATCACCAAAAACCAGGTACATATCAAT
*
567611 ATATCACCAAAAACCAGGTACTTATCA
1 ATATCACCAAAAACCAGGTACATATCA
567638 CCAAAAACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.47, C:0.24, G:0.07, T:0.22
Consensus pattern (29 bp):
ATATCACCAAAAACCAGGTACATATCAAT
Found at i:567832 original size:2 final size:2
Alignment explanation
Indices: 567825--567885 Score: 108
Period size: 2 Copynumber: 31.5 Consensus size: 2
567815 GATGCTTGTT
567825 TC TC TC TC TC TC TC TC TC TC TC -C TC TC TC TC TC -C TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
567865 TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC T
567886 GAAAACATGA
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 55 0.96
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:570183 original size:83 final size:80
Alignment explanation
Indices: 570082--570351 Score: 289
Period size: 80 Copynumber: 3.4 Consensus size: 80
570072 TGTATTAACC
* * * * *
570082 TGTATACCTGAATGTTACAGATAGTGATTCAGTCAGACACAGTACTTTATTACTTGTATTTATAG
1 TGTACACCTGTATATTACAGGTAGTGATTCAGTCAGACACAGTACTTTATTACCTGTA--TATAG
*
570147 GTGTAAATATATATTACA
64 CTGTAAATATATATTA-A
* * * * *
570165 TGTACACCTGTATATTACAGGTAGTGATTAAGTCAGACAAAGTACTTTTTTACCAGTA-ATATCT
1 TGTACACCTGTATATTACAGGTAGTGATTCAGTCAGACACAGTACTTTATTACCTGTATATAGCT
* *
570229 ATAAATCTATATTAAA
66 GTAAATATATATT-AA
* * * *
570245 TGTACATCTGTATATTACAGGTAGTGTTTCAGTCAGACACAGTACTATATTACCTGTAT-TAGTT
1 TGTACACCTGTATATTACAGGTAGTGATTCAGTCAGACACAGTACTTTATTACCTGTATATAGCT
*
570309 GTAAATGT-TA--AA
66 GTAAATATATATTAA
* *
570321 TGTACACATGTGTATTACAGGTAGTGATTCA
1 TGTACACCTGTATATTACAGGTAGTGATTCA
570352 ATCCGGTCAG
Statistics
Matches: 157, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
76 29 0.18
79 2 0.01
80 76 0.48
81 1 0.01
83 49 0.31
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (80 bp):
TGTACACCTGTATATTACAGGTAGTGATTCAGTCAGACACAGTACTTTATTACCTGTATATAGCT
GTAAATATATATTAA
Found at i:570561 original size:24 final size:24
Alignment explanation
Indices: 570525--571104 Score: 770
Period size: 24 Copynumber: 24.2 Consensus size: 24
570515 CTGTCCAACT
570525 TCATTGAGGTACGTACAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
*
570549 TCAGTGAGGTACGTACAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
* * *
570573 TCAATAAGGTATGTACAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
*
570597 TCAGTGAGGTACGTACAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
* *
570621 TCATTGAGGTATGTAAAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
* * * *
570645 TCAATGAGGTACATATAGGGCGTG
1 TCATTGAGGTACGTACAGGGTGTG
*
570669 TCATTGAGGTACGTACATGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
* *
570693 TCAATGAGGTACATACAGGGCT-TG
1 TCATTGAGGTACGTACAGGG-TGTG
* *
570717 TCATTGAGGTACGTAAAGTGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
570741 TCATTGAGGTAC-TACAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
*
570764 TCATTGAGGTACGTACACGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
* * *
570788 TCAATGAGGTGCGTACAGGGCGTG
1 TCATTGAGGTACGTACAGGGTGTG
*
570812 TCAATGAGGTACGTACAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
* *
570836 TCAATGAGGTACATACAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
*
570860 TCATTGAGGTACATACAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
570884 TCATTGAGGTAC-TACAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
570907 TCATTGAGGTACGTACAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
*
570931 TCAATGAGGTACGTACAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
* *
570955 TCAATGAGGTACATACAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
* *
570979 TTATTGAGGTACATACAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
* *
571003 TCATTGAGATATGTACAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
* * *
571027 TCAGTGAGGTACATAGAGGGTGTG
1 TCATTGAGGTACGTACAGGGTGTG
* * *
571051 TCAGTGAGGTATGTACAGGGCGTG
1 TCATTGAGGTACGTACAGGGTGTG
* * *
571075 TCATTGAGGTATGTACAGGATATG
1 TCATTGAGGTACGTACAGGGTGTG
571099 TCATTG
1 TCATTG
571105 GTGTGTGTCA
Statistics
Matches: 493, Mismatches: 59, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
23 45 0.09
24 447 0.91
25 1 0.00
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.28
Consensus pattern (24 bp):
TCATTGAGGTACGTACAGGGTGTG
Found at i:571152 original size:24 final size:24
Alignment explanation
Indices: 571107--571208 Score: 91
Period size: 24 Copynumber: 4.2 Consensus size: 24
571097 TGTCATTGGT
**
571107 GTGTGTCACTG-GTGTATGTACAGG
1 GTGTGTCACTGAG-GTAAATACAGG
*
571131 GTGTGTCATTGAGGTAAATACAGG
1 GTGTGTCACTGAGGTAAATACAGG
* *
571155 GTGTATCACTGAGG-AACATACTGG
1 GTGTGTCACTGAGGTAA-ATACAGG
* * **
571179 GTTTGTCACTGATGTATGTACAGG
1 GTGTGTCACTGAGGTAAATACAGG
571203 GTGTGT
1 GTGTGT
571209 AATAGCTGCA
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
23 2 0.03
24 58 0.94
25 2 0.03
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.32
Consensus pattern (24 bp):
GTGTGTCACTGAGGTAAATACAGG
Found at i:573909 original size:12 final size:12
Alignment explanation
Indices: 573892--573916 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
573882 ACCAATCACA
573892 TTTTTTAATTTT
1 TTTTTTAATTTT
573904 TTTTTTAATTTT
1 TTTTTTAATTTT
573916 T
1 T
573917 CAGGAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTAATTTT
Found at i:575133 original size:18 final size:18
Alignment explanation
Indices: 575110--575167 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
575100 TTACGTCGCA
575110 CTGTATCAGAATTCCATG
1 CTGTATCAGAATTCCATG
*
575128 CTGTATCAGACTTCCATG
1 CTGTATCAGAATTCCATG
** *
575146 CTGTATTGGGATTCCATG
1 CTGTATCAGAATTCCATG
575164 CTGT
1 CTGT
575168 TTTGTGTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (18 bp):
CTGTATCAGAATTCCATG
Found at i:579402 original size:35 final size:35
Alignment explanation
Indices: 579330--579402 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
579320 GTTATCCGGT
* **
579330 CATTACGAATCTGTAGTTTACCTATATTTGACATC
1 CATTACGAATCTGTAGTGTACCTATATCCGACATC
* * *
579365 CATTACGACTCTGTAGTGTATCTATATCCGACTTC
1 CATTACGAATCTGTAGTGTACCTATATCCGACATC
579400 CAT
1 CAT
579403 ACACCGGTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.38
Consensus pattern (35 bp):
CATTACGAATCTGTAGTGTACCTATATCCGACATC
Found at i:581875 original size:2 final size:2
Alignment explanation
Indices: 581870--581951 Score: 103
Period size: 2 Copynumber: 41.5 Consensus size: 2
581860 CAGAGAGATC
* * *
581870 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG CG GG GG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * *
581912 AG AG AG AG -G GG GG AG AG AG AG GG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
581952 ATACTTATAC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
1 1 0.01
2 72 0.99
ACGTcount: A:0.43, C:0.01, G:0.56, T:0.00
Consensus pattern (2 bp):
AG
Found at i:588838 original size:2 final size:2
Alignment explanation
Indices: 588831--588900 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
588821 TGGATTGTAT
588831 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
588873 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
588901 TTTCATTTAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:591581 original size:56 final size:56
Alignment explanation
Indices: 591495--591652 Score: 237
Period size: 56 Copynumber: 3.0 Consensus size: 56
591485 AAGAAAGGTT
*
591495 CCCGATACCCAGTGTTTGAGGGGCACAGAGCACACCGTGGATACGGTACACCGGGC
1 CCCGATACCCAGTGTTTGAGGGGCACAGAGCACGCCGTGGATACGGTACACCGGGC
591551 CCCGATACCCAGTGTTTGAGGGGCACAGAGCACGCCGTGGATACGGTACACC--G-
1 CCCGATACCCAGTGTTTGAGGGGCACAGAGCACGCCGTGGATACGGTACACCGGGC
591604 ---G----CCAGTGTTTGAGGGGCACAGAGCACGCCGTGGATACGGTACACCGGGC
1 CCCGATACCCAGTGTTTGAGGGGCACAGAGCACGCCGTGGATACGGTACACCGGGC
591653 AAGAAAAAGT
Statistics
Matches: 98, Mismatches: 1, Indels: 13
0.88 0.01 0.12
Matches are distributed among these distances:
46 44 0.45
48 1 0.01
50 1 0.01
54 1 0.01
56 51 0.52
ACGTcount: A:0.22, C:0.29, G:0.34, T:0.15
Consensus pattern (56 bp):
CCCGATACCCAGTGTTTGAGGGGCACAGAGCACGCCGTGGATACGGTACACCGGGC
Found at i:591612 original size:46 final size:46
Alignment explanation
Indices: 591559--591650 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
591549 GCCCCGATAC
591559 CCAGTGTTTGAGGGGCACAGAGCACGCCGTGGATACGGTACACCGG
1 CCAGTGTTTGAGGGGCACAGAGCACGCCGTGGATACGGTACACCGG
591605 CCAGTGTTTGAGGGGCACAGAGCACGCCGTGGATACGGTACACCGG
1 CCAGTGTTTGAGGGGCACAGAGCACGCCGTGGATACGGTACACCGG
591651 GCAAGAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.22, C:0.26, G:0.37, T:0.15
Consensus pattern (46 bp):
CCAGTGTTTGAGGGGCACAGAGCACGCCGTGGATACGGTACACCGG
Found at i:600228 original size:2 final size:2
Alignment explanation
Indices: 600221--600322 Score: 186
Period size: 2 Copynumber: 51.0 Consensus size: 2
600211 GCTCTATCCT
* *
600221 TC TC TC TC TC TC TC TC TC TT TC TC TC TA TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
600263 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
600305 TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC
600323 AGGTATTTAA
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 96 1.00
ACGTcount: A:0.01, C:0.48, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:603881 original size:21 final size:24
Alignment explanation
Indices: 603831--603881 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
603821 AGTTCATAAC
*
603831 AAAATTATAATAAAAACAATTTTG
1 AAAATTATAAAAAAAACAATTTTG
*
603855 ATAATT-TAAAAAAAAC-ATTTT-
1 AAAATTATAAAAAAAACAATTTTG
603876 AAAATT
1 AAAATT
603882 CAGGTAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 5 0.21
22 5 0.21
23 9 0.38
24 5 0.21
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
AAAATTATAAAAAAAACAATTTTG
Found at i:605253 original size:2 final size:2
Alignment explanation
Indices: 605246--605299 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
605236 TATGAAACTA
605246 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
605288 TC TC TC TC TC TC
1 TC TC TC TC TC TC
605300 GTTTAAATCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:605551 original size:4 final size:4
Alignment explanation
Indices: 605537--605725 Score: 186
Period size: 4 Copynumber: 46.8 Consensus size: 4
605527 TTCAAATATG
* * * * *
605537 TTTA TTTTA TTTA TTCA TTTA TGTTA TTCA TTTA TCTA -GTA TCTA TTTACA
1 TTTA -TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTT--A
*
605588 TGTA -TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
605635 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TATA TCTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * *
605683 GTTG TCTA TTT- TTTA TTTG TTTA TTCTA TATA TTCA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTT
605726 CCTTTTTTCT
Statistics
Matches: 152, Mismatches: 25, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
3 7 0.05
4 131 0.86
5 11 0.07
6 3 0.02
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:608226 original size:2 final size:2
Alignment explanation
Indices: 608219--608259 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
608209 AATTTATATT
608219 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
608260 TTTTTCCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:616001 original size:2 final size:2
Alignment explanation
Indices: 615994--616054 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
615984 GAAATAGTTT
615994 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
616036 AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
616055 TTTGTTTATC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:616088 original size:2 final size:2
Alignment explanation
Indices: 616081--616137 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
616071 NNNNNNNNNN
616081 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
616123 AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG A
616138 ATTCTTCGTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:621081 original size:62 final size:62
Alignment explanation
Indices: 620984--621226 Score: 339
Period size: 62 Copynumber: 3.9 Consensus size: 62
620974 CCTAGATATT
* *
620984 TATAATATTGACTGAAAAATATTATATAGTCATATACTCATAATATTGGTGGTTATATCTTA
1 TATAATATCGACTGAAAAATATTATATAGTCATATACTCATAATATTGGTGGCTATATCTTA
** * *
621046 TATAATATTAACTGAAAATTATTATATAGTCATATACTCATAATTTTGGTGGCTATATCTTA
1 TATAATATCGACTGAAAAATATTATATAGTCATATACTCATAATATTGGTGGCTATATCTTA
* * * *
621108 TAAAATATCGACT-AAGAAATATTATATAGTCATAAACTCATAATTTTGGTGGCT-TAATATTA
1 TATAATATCGACTGAA-AAATATTATATAGTCATATACTCATAATATTGGTGGCTAT-ATCTTA
*
621170 TATAATATCGACTGAGAAATATTATATAGTCATATACAT-ATAATATTGGTGGCTATA
1 TATAATATCGACTGAAAAATATTATATAGTCATATAC-TCATAATATTGGTGGCTATA
621227 ATATACCTAT
Statistics
Matches: 162, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
61 3 0.02
62 156 0.96
63 3 0.02
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (62 bp):
TATAATATCGACTGAAAAATATTATATAGTCATATACTCATAATATTGGTGGCTATATCTTA
Found at i:626233 original size:2 final size:2
Alignment explanation
Indices: 626221--626277 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
626211 ATGCTGAAAC
*
626221 AG AG TG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
626263 AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG A
626278 ATGTGTGTGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.02
Consensus pattern (2 bp):
AG
Found at i:634976 original size:2 final size:2
Alignment explanation
Indices: 634969--635120 Score: 209
Period size: 2 Copynumber: 76.0 Consensus size: 2
634959 ATTTACAAGT
634969 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
** * * * * *
635011 TC TC TC TC TC TC TC TC TC TC AA T- TC NGC AC TA TA GC T- TGC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC -TC TC TC TC TC TC T-C TC
635053 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
635095 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
635121 AATTCGAAAA
Statistics
Matches: 136, Mismatches: 10, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
1 2 0.01
2 132 0.97
3 2 0.01
ACGTcount: A:0.03, C:0.47, G:0.02, T:0.47
Consensus pattern (2 bp):
TC
Done.