Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 181 of 182
Found at i:55309418 original size:19 final size:17
Alignment explanation
Indices: 55309383--55309439 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
55309373 TAGAAAAATT
55309383 ATCTAAAAAATTATAAA
1 ATCTAAAAAATTATAAA
*
55309400 ATCTAAAAAGA-TATATA
1 ATCTAAAAA-ATTATAAA
55309417 A---AAAAAATTATAAA
1 ATCTAAAAAATTATAAA
55309431 ATCTAAAAA
1 ATCTAAAAA
55309440 TATATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
13 1 0.03
14 11 0.33
17 20 0.61
18 1 0.03
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (17 bp):
ATCTAAAAAATTATAAA
Found at i:55309452 original size:33 final size:31
Alignment explanation
Indices: 55309387--55309457 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
55309377 AAAATTATCT
55309387 AAAAAATTATAAAATCTAAAAAGATATATAA
1 AAAAAATTATAAAATCTAAAAAGATATATAA
* *
55309418 AAAAAATTATAAAATCTAAAAATATATATAT
1 AAAAAATTATAAAATCTAAAAAGATATATAA
55309449 AAAAAATTA
1 AAAAAATTA
55309458 GCTTCAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (31 bp):
AAAAAATTATAAAATCTAAAAAGATATATAA
Found at i:55310199 original size:2 final size:2
Alignment explanation
Indices: 55310194--55310225 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
55310184 ATGTATGTAC
55310194 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55310226 GAAATGATGA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55314330 original size:32 final size:31
Alignment explanation
Indices: 55314254--55314339 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 31
55314244 ATTTTTTGTG
*
55314254 AGATTAATGAAAA-TTTC-GAAAAAATTAGAA
1 AGATTAATGAAAATTTTCAAAAAAAATTA-AA
* *
55314284 GAGTTTAATTAAAATTTTCAAAAAAAATTAAA
1 -AGATTAATGAAAATTTTCAAAAAAAATTAAA
55314316 AGATATAATGAAAATTTTCAAAAA
1 AGAT-TAATGAAAATTTTCAAAAA
55314340 GGTAAGAGGG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
31 14 0.30
32 24 0.51
33 9 0.19
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.30
Consensus pattern (31 bp):
AGATTAATGAAAATTTTCAAAAAAAATTAAA
Found at i:55327849 original size:233 final size:233
Alignment explanation
Indices: 55327540--55327982 Score: 737
Period size: 233 Copynumber: 1.9 Consensus size: 233
55327530 GATATTATGC
* * *
55327540 CAGTTTTTATTTTCGGGTTTCTCGAAGCATTTAGTACCTTTGTTGTAATAGTTCTAGGAGGTGTC
1 CAGTGTTTATTTTCGGGTTTCTCGAAGCATTCAGTACCTTTGTTGTAATAGTTCTAGGAGGTATC
* *
55327605 TTGTTCGAGTAAGTGCTCGGACTATTGCTTCTCA-GTCCAATTTTAGGCATAATAGGGTAAGAAT
66 TTGTTCGAGTAAGCGCTCGGACTATTGCTTCT-AGGTCCAATTTTAGGCATAAGAGGGTAAGAAT
*
55327669 CCATACTCCGAGTTCGAGTGTGTCCAGGTAATCTTTCCTGCATTTATCGAACGATTTTGTGATAG
130 CCATACTCCGAGTTCGAGTGTGTCCAGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAG
55327734 ATGTATACTACTACTTGTATGACATTTATACTGCTACTT
195 ATGTATACTACTACTTGTATGACATTTATACTGCTACTT
* * *
55327773 CAGTGTTTATTTTTC-GGTTTCTCGATGCATTCAGTACCTTTGTTGTAGTAGTTCTAGTAGGTAT
1 CAGTGTTTA-TTTTCGGGTTTCTCGAAGCATTCAGTACCTTTGTTGTAATAGTTCTAGGAGGTAT
* *
55327837 CTTGTTCGAGTAAGCGTTTGGACTATTGCTTCTAGGTCCAATTTTAGGCATAAGAGGGTAAGAAT
65 CTTGTTCGAGTAAGCGCTCGGACTATTGCTTCTAGGTCCAATTTTAGGCATAAGAGGGTAAGAAT
* *
55327902 CCATACTCTGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAG
130 CCATACTCCGAGTTCGAGTGTGTCCAGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAG
55327967 ATGTATACTACTACTT
195 ATGTATACTACTACTT
55327983 CAGTGTTTAT
Statistics
Matches: 195, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
232 1 0.01
233 189 0.97
234 5 0.03
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (233 bp):
CAGTGTTTATTTTCGGGTTTCTCGAAGCATTCAGTACCTTTGTTGTAATAGTTCTAGGAGGTATC
TTGTTCGAGTAAGCGCTCGGACTATTGCTTCTAGGTCCAATTTTAGGCATAAGAGGGTAAGAATC
CATACTCCGAGTTCGAGTGTGTCCAGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGA
TGTATACTACTACTTGTATGACATTTATACTGCTACTT
Found at i:55328129 original size:210 final size:210
Alignment explanation
Indices: 55327760--55329054 Score: 1837
Period size: 210 Copynumber: 6.1 Consensus size: 210
55327750 GTATGACATT
* *
55327760 TATACTGCTACTTCAGTGTTTATTTTTC-GGTTTCTCGATGCATTCAGTACCTTTGTTGTAGTAG
1 TATACTACTACTTCAGTGTTTA-TTTTCGGGTTTCTCGATGCATTTAGTACCTTTGTTGTAGTAG
* * * *
55327824 TTCTAGTAGGTATCTTGTTCGAGTAAGCGTTTGGACTATTGCTTCTAGGTCCAATTTTAGGCATA
65 TTCTAGTAGGTATCTTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATA
* *
55327889 AGAGGGTAAGAATCCATACTCTGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAAC
130 ATAGCGTAAGAATCCATACTCTGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAAC
55327954 GATTTTGTAATAGATG
195 GATTTTGTAATAGATG
*
55327970 TATACTACTACTTCAGTGTTTATTTTCGGGTTTCTCCATGCATTTAGTACCTTTGTTGTAGTAGT
1 TATACTACTACTTCAGTGTTTATTTTCGGGTTTCTCGATGCATTTAGTACCTTTGTTGTAGTAGT
*
55328035 TCTTGTAGGTATCTTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAA
66 TCTAGTAGGTATCTTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAA
55328100 TAGCGTAAGAATCCATACTCTGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACG
131 TAGCGTAAGAATCCATACTCTGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACG
55328165 ATTTTGTAATAGATG
196 ATTTTGTAATAGATG
*
55328180 TATACTACTACTTCAGTGTTTATTTTCGGGTTTCTCCATGCATTTAGTACCTTTGTTGTAGTAGT
1 TATACTACTACTTCAGTGTTTATTTTCGGGTTTCTCGATGCATTTAGTACCTTTGTTGTAGTAGT
55328245 TCTAGTAGGTATCTTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAA
66 TCTAGTAGGTATCTTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAA
* *
55328310 TAGCATAAGAATCCATACTCTGAGTTCGAGTGTCTCCGGGTAATCTTTCCTGCATTTATCGAACG
131 TAGCGTAAGAATCCATACTCTGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACG
55328375 ATTTTGTAATAGATG
196 ATTTTGTAATAGATG
* * * *
55328390 TATTCTACTACCTCAGTGTTTATTTTCGGGTTCCTCGAAGCATTTAGTACCTTTGTTGTAGTAGT
1 TATACTACTACTTCAGTGTTTATTTTCGGGTTTCTCGATGCATTTAGTACCTTTGTTGTAGTAGT
* *
55328455 TCTAGTAGGTATCTTGTTTGAGTAAGTGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAA
66 TCTAGTAGGTATCTTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAA
* * * * *
55328520 TAGGGTAAGAATCCATACTCCGAGTTCGAGTGTGTCCAGGTAATCTTTCCTGCATTTATTGAACA
131 TAGCGTAAGAATCCATACTCTGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACG
55328585 ATTTTGTAATAGATG
196 ATTTTGTAATAGATG
* *
55328600 TATACTACTAGTTCAGT-TTTTTTTTCGGGTTTCTCGATGCATTTAGTACCTTTGTTGTAGTAGT
1 TATACTACTACTTCAGTGTTTATTTTCGGGTTTCTCGATGCATTTAGTACCTTTGTTGTAGTAGT
55328664 TCTAGTAGGTATCTTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAA
66 TCTAGTAGGTATCTTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAA
* * *
55328729 TAGCGTAAGAATCCATACTCTGAGTTCGAGTGTCTCCAGGTAATCCTTCCTGCATTTATCGAACG
131 TAGCGTAAGAATCCATACTCTGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACG
55328794 ATTTTGTAATAGATG
196 ATTTTGTAATAGATG
* * * * * * * * * *
55328809 TATACTACTAATTGTATGAGATGTATACTACTACTTCAGTGTTTATTTTCGGGTTC-CTCA-AAG
1 TATACTACT-A--CT-TCAG-TGT-T--TA-T-TTTC-G-G-GT-TTCTC-GATGCATTTAGTA-
* * * ** * *
55328872 CGTTTAGTACCTTTGTTGTAGTAGTTCTAACAGGTATCTTGTTTGAGTAAGTGCTCGGACTATTG
50 CCTTT-G-----TTGTAGTAGTT---CTAGTAGGTATCTTGTTCGAGTAAGCGCTCGGACTATTG
* *
55328937 CTTCTCAG-CCTGATTTTAGGCATAATAGGGTAAGAATCCATACTGC-GAGTTCGAGTGTGTCCG
106 CTTCTCGGTCC-GATTTTAGGCATAATAGCGTAAGAATCCATACT-CTGAGTTCGAGTGTGTCCG
* * *
55329000 GGTAATCTTACCTGCATTTATCGGACAATTTTGTAATAGATG
169 GGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGATG
55329042 TATACTACTACTT
1 TATACTACTACTT
55329055 GTATGAGATG
Statistics
Matches: 989, Mismatches: 67, Indels: 39
0.90 0.06 0.04
Matches are distributed among these distances:
209 195 0.20
210 612 0.62
212 2 0.00
213 3 0.00
214 1 0.00
215 1 0.00
216 1 0.00
218 1 0.00
219 1 0.00
220 3 0.00
221 1 0.00
222 1 0.00
223 2 0.00
224 10 0.01
225 4 0.00
229 1 0.00
230 10 0.01
232 3 0.00
233 136 0.14
234 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.39
Consensus pattern (210 bp):
TATACTACTACTTCAGTGTTTATTTTCGGGTTTCTCGATGCATTTAGTACCTTTGTTGTAGTAGT
TCTAGTAGGTATCTTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAA
TAGCGTAAGAATCCATACTCTGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACG
ATTTTGTAATAGATG
Found at i:55329033 original size:233 final size:232
Alignment explanation
Indices: 55328595--55329065 Score: 732
Period size: 233 Copynumber: 2.0 Consensus size: 232
55328585 ATTTTGTAAT
* * * * *
55328595 AGATGTATACTACTAGTTCAGTTTTTTTTTCGGGTTTCTCGATGCATTTAGTACCTTTGTTGTAG
1 AGATGTATACTACTACTTCAGTTTTATTTTCGGGTTCCTCAAAGCATTTAGTACCTTTGTTGTAG
** *
55328660 TAGTTCTAGTAGGTATCTTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGC
66 TAGTTCTAACAGGTATCTTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCAGTCCGATTTTAGGC
55328725 ATAATAGCGTAAGAATCCATACTCTGAGTTCGAGTGTCTCCAGGTAATCCTTCCTGCATTTATCG
131 ATAATAGCGTAAGAATCCATACTCTGAGTTCGAGTGTCTCCAGGTAATCCTTCCTGCATTTATCG
*
55328790 AACGATTTTGTAATAGATGTATACTACTAATTGTATG
196 AACAATTTTGTAATAGATGTATACTACTAATTGTATG
*
55328827 AGATGTATACTACTACTTCAGTGTTTATTTTCGGGTTCCTCAAAGCGTTTAGTACCTTTGTTGTA
1 AGATGTATACTACTACTTCAGT-TTTATTTTCGGGTTCCTCAAAGCATTTAGTACCTTTGTTGTA
* *
55328892 GTAGTTCTAACAGGTATCTTGTTTGAGTAAGTGCTCGGACTATTGCTTCTCAG-CCTGATTTTAG
65 GTAGTTCTAACAGGTATCTTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCAGTCC-GATTTTAG
* * *
55328956 GCATAATAGGGTAAGAATCCATACTGC-GAGTTCGAGTGTGTCCGGGTAAT-CTTACCTGCATTT
129 GCATAATAGCGTAAGAATCCATACT-CTGAGTTCGAGTGTCTCCAGGTAATCCTT-CCTGCATTT
* *
55329019 ATCGGACAATTTTGTAATAGATGTATACTACTACTTGTATG
192 ATCGAACAATTTTGTAATAGATGTATACTACTAATTGTATG
55329060 AGATGT
1 AGATGT
55329066 TACAATTTTA
Statistics
Matches: 218, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
232 26 0.12
233 191 0.88
234 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (232 bp):
AGATGTATACTACTACTTCAGTTTTATTTTCGGGTTCCTCAAAGCATTTAGTACCTTTGTTGTAG
TAGTTCTAACAGGTATCTTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCAGTCCGATTTTAGGC
ATAATAGCGTAAGAATCCATACTCTGAGTTCGAGTGTCTCCAGGTAATCCTTCCTGCATTTATCG
AACAATTTTGTAATAGATGTATACTACTAATTGTATG
Found at i:55330580 original size:2 final size:2
Alignment explanation
Indices: 55330573--55330614 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
55330563 TTTATATCTA
55330573 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55330615 GTTTGTTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55334486 original size:22 final size:23
Alignment explanation
Indices: 55334443--55334486 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
55334433 TTAGTAGTTT
*
55334443 AATTTATATTTTTTATACAAATG
1 AATTTATATTTTATATACAAATG
55334466 AATTT-TATTTTGATATA-AAAT
1 AATTTATATTTT-ATATACAAAT
55334487 ATTCATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (23 bp):
AATTTATATTTTATATACAAATG
Found at i:55341796 original size:10 final size:9
Alignment explanation
Indices: 55341772--55341807 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
55341762 AATATTAATT
55341772 ATTAAGTTCA
1 ATTAA-TTCA
55341782 ATTAATTCA
1 ATTAATTCA
55341791 ATTTAATTCA
1 A-TTAATTCA
55341801 ATTAATT
1 ATTAATT
55341808 ACTCGATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 11 0.44
10 14 0.56
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (9 bp):
ATTAATTCA
Found at i:55356658 original size:244 final size:237
Alignment explanation
Indices: 55356012--55356731 Score: 654
Period size: 244 Copynumber: 3.0 Consensus size: 237
55356002 AAGGTATTAT
* * *
55356012 CCATTTTGTGTCGTCTATTGGA-TTGATG-AAAC-TCATTAAACACTACTGCTTGCTTTGATAAC
1 CCATTTCGTGTCGTCTACTGGATTTGATGAAAACATCATTAAACACTACAGCTTGCTTTGATAAC
* **
55356074 CTTTTTAATCCTGTTCTGTTTTGTTGGTTATATTGTATGGAGTTTAAACTTTAAAGTAGTCAGTA
66 CTTTTTAATCATGTTCTGTTTTGTTGGTTATATTGTATGGAGTTT-AAGGTT---GT--T-AGTA
* * * * * *
55356139 TCGAACCAGTAGATGGTATCGTTTTTGTTCTGGTATTGTTATGTGCCGATATTTGTGTGTTTTGG
124 TCGAACCAGTAGATAGTATCGTTTTTGTTCTGGTATTATTACGTACCGATATCTGTGTGTTAT-G
* * *
55356204 AGTACCTTTTCGGATTTATTAATATTTTTAAAATATTTTCATATATGTTAC
188 -GTACCATTTCGGATTTATCAATATTTTTAAAATATTTTCATATATGTCAC
* * * * * * * *
55356255 CCATTCCATTTCATCTACTGTATTTGATGAAAACATCATTAAAAACTACAGCATGC-TTGTTAAC
1 CCATTTCGTGTCGTCTACTGGATTTGATGAAAACATCATTAAACACTACAGCTTGCTTTGATAAC
* * * ** * * * * * *
55356319 CTCTTTAATCATGTTCTGTTCTGTTGGTTCTATCCTATCGATTTTAAGGTAGTTAATATGGAACA
66 CTTTTTAATCATGTTCTGTTTTGTTGGTTATATTGTATGGAGTTTAAGGTTGTTAGTATCGAACC
*** *
55356384 AGT-GAATAGTATTACTTTTGTTCTGGTATTATTACGTACC-AGTATCTGTGT-TTCAT-GTATC
131 AGTAG-ATAGTATCGTTTTTGTTCTGGTATTATTACGTACCGA-TATCTGTGTGTT-ATGGTACC
55356445 ATTTCAGG-TTTATCAATATTTTTAAAAAAAAATATTTTCATATATATGTCAC
193 ATTTC-GGATTTATCAATATTTTT-----AAAATATTTTC--ATATATGTCAC
**
55356497 CCATTTCGTGTCGTCTACTGGATTTGATGAAAACATCGCTAAACACTACAGCTTTGCTTTGATAA
1 CCATTTCGTGTCGTCTACTGGATTTGATGAAAACATCATTAAACACTACAGC-TTGCTTTGATAA
* * * * *
55356562 CCTTTTTAATCATGTTCTGTTTTGTTGCTGATGTTGTATGGCGTTTAAGGTTGTTGGTATCGAAC
65 CCTTTTTAATCATGTTCTGTTTTGTTGGTTATATTGTATGGAGTTTAAGGTTGTTAGTATCGAAC
* ** * *
55356627 CAGTAGATAGTATCGTTTTTGTTATGGTATTATCGCGTGCCGAT-T-TGTGTGTTTTGGTATACC
130 CAGTAGATAGTATCGTTTTTGTTCTGGTATTATTACGTACCGATATCTGTGTGTTATGG--TACC
* ** *
55356690 GTTTCAGG-TTTATCTGTATTTTTTAAATATTTTCATATATGT
193 ATTTC-GGATTTATCAATATTTTTAAAATATTTTCATATATGT
55356732 ATATATACAT
Statistics
Matches: 378, Mismatches: 77, Indels: 49
0.75 0.15 0.10
Matches are distributed among these distances:
235 22 0.06
236 2 0.01
237 4 0.01
238 56 0.15
239 1 0.00
240 21 0.06
241 2 0.01
242 60 0.16
243 22 0.06
244 97 0.26
245 73 0.19
246 18 0.05
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (237 bp):
CCATTTCGTGTCGTCTACTGGATTTGATGAAAACATCATTAAACACTACAGCTTGCTTTGATAAC
CTTTTTAATCATGTTCTGTTTTGTTGGTTATATTGTATGGAGTTTAAGGTTGTTAGTATCGAACC
AGTAGATAGTATCGTTTTTGTTCTGGTATTATTACGTACCGATATCTGTGTGTTATGGTACCATT
TCGGATTTATCAATATTTTTAAAATATTTTCATATATGTCAC
Found at i:55357276 original size:23 final size:24
Alignment explanation
Indices: 55357250--55357297 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
55357240 CCTATTTCAG
*
55357250 AGTTATAATT-TTATAAATTTTTT
1 AGTTAGAATTATTATAAATTTTTT
55357273 AGTTAGAATTAAGTTATAAATTTTT
1 AGTTAGAATT-A-TTATAAATTTTT
55357298 ATAAGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
26 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (24 bp):
AGTTAGAATTATTATAAATTTTTT
Found at i:55363418 original size:3 final size:3
Alignment explanation
Indices: 55363410--55363440 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
55363400 ACTATTTTAA
55363410 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
55363441 TATACAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:55364983 original size:6 final size:6
Alignment explanation
Indices: 55364972--55364996 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
55364962 AGTCCTAATA
55364972 GTCACT GTCACT GTCACT GTCACT G
1 GTCACT GTCACT GTCACT GTCACT G
55364997 AATTATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (6 bp):
GTCACT
Found at i:55372288 original size:18 final size:18
Alignment explanation
Indices: 55372265--55372301 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
55372255 TTTGTGATCA
55372265 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
55372283 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
55372301 A
1 A
55372302 TATGAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:55374941 original size:2 final size:2
Alignment explanation
Indices: 55374928--55374962 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
55374918 CATTCCAAAC
*
55374928 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55374963 TAAATTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:55375788 original size:16 final size:16
Alignment explanation
Indices: 55375767--55375797 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55375757 TAAATTTTGA
55375767 AAATATTTAAAAATAT
1 AAATATTTAAAAATAT
*
55375783 AAATATTTATAAATA
1 AAATATTTAAAAATA
55375798 CTAGATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATTTAAAAATAT
Found at i:55377848 original size:29 final size:31
Alignment explanation
Indices: 55377781--55377851 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
55377771 AATATTAAAT
55377781 TTATACA-A-AAATTTTGATTTAATATGTAA
1 TTATACACATAAATTTTGATTTAATATGTAA
* *
55377810 TT-TGATACATAAATTTTGATTT-A-GTGTAA
1 TTAT-ACACATAAATTTTGATTTAATATGTAA
55377839 TTATACACATAAA
1 TTATACACATAAA
55377852 ATTAAAATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
28 1 0.03
29 19 0.54
30 3 0.09
31 12 0.34
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (31 bp):
TTATACACATAAATTTTGATTTAATATGTAA
Found at i:55381145 original size:91 final size:90
Alignment explanation
Indices: 55380991--55381174 Score: 359
Period size: 91 Copynumber: 2.0 Consensus size: 90
55380981 TATATGAAAA
55380991 GAAGTAAATAAAAAATATTTTTAAATATATTTAAATTTTTAAAAATATTTTTGTTACTGAAATTG
1 GAAGTAAATAAAAAATATTTTTAAATATATTTAAATTTTTAAAAATATTTTTGTTACTGAAATTG
55381056 AATTCAGATCAAATCGAATTAATTT
66 AATTCAGATCAAATCGAATTAATTT
55381081 GAAGTAAATTAAAAAATATTTTTAAATATATTTAAATTTTTAAAAATATTTTTGTTACTGAAATT
1 GAAGTAAA-TAAAAAATATTTTTAAATATATTTAAATTTTTAAAAATATTTTTGTTACTGAAATT
55381146 GAATTCAGATCAAATCGAATTAATTT
65 GAATTCAGATCAAATCGAATTAATTT
55381172 GAA
1 GAA
55381175 ATTAAAAAAA
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 8 0.09
91 85 0.91
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (90 bp):
GAAGTAAATAAAAAATATTTTTAAATATATTTAAATTTTTAAAAATATTTTTGTTACTGAAATTG
AATTCAGATCAAATCGAATTAATTT
Found at i:55381810 original size:31 final size:29
Alignment explanation
Indices: 55381746--55381814 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
55381736 ACTCTAACCT
* *
55381746 AAGTGACTAAAATGTAACACTTCAAATAT
1 AAGTGACTAAAATGTAACACGTCAAATAA
55381775 AAGTGACTAAAATGTAATCTGA-GTCAAATAA
1 AAGTGACTAAAATGTAA-C--ACGTCAAATAA
55381806 AAGTGACTA
1 AAGTGACTA
55381815 TTTTTGTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 17 0.49
30 1 0.03
31 16 0.46
32 1 0.03
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.26
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACACGTCAAATAA
Found at i:55383823 original size:21 final size:21
Alignment explanation
Indices: 55383771--55383823 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
55383761 GTGCAGATTA
*
55383771 CTACCGATACAAATGATAGTT
1 CTACCGATACAAATGACAGTT
* * * *
55383792 TTATCGGTACAAGTGACAGTT
1 CTACCGATACAAATGACAGTT
55383813 CTACCGATACA
1 CTACCGATACA
55383824 TGTCTTACTT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (21 bp):
CTACCGATACAAATGACAGTT
Found at i:55383910 original size:21 final size:21
Alignment explanation
Indices: 55383884--55383959 Score: 116
Period size: 21 Copynumber: 3.5 Consensus size: 21
55383874 CCTGCAATTT
55383884 CTACCGATACAAGCATCCTAA
1 CTACCGATACAAGCATCCTAA
55383905 CTACCGATACAAGCATCCTAA
1 CTACCGATACAAGCATCCTAA
*
55383926 CTACCGATACAAGCATACATAGAA
1 CTACCGATACAAGCAT-CCT--AA
55383950 CTACCGATAC
1 CTACCGATAC
55383960 CTACTATGCA
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
21 37 0.73
22 2 0.04
24 12 0.24
ACGTcount: A:0.39, C:0.32, G:0.11, T:0.18
Consensus pattern (21 bp):
CTACCGATACAAGCATCCTAA
Found at i:55384579 original size:40 final size:40
Alignment explanation
Indices: 55384512--55384608 Score: 160
Period size: 40 Copynumber: 2.5 Consensus size: 40
55384502 AAGTTTATGT
* *
55384512 GTCTTCC-TTATAACAATCTTATACTCTACCGAGTCATAA
1 GTCTTCCTTTTTAACAATCTTATACTCTACCAAGTCATAA
*
55384551 GTCTTCCTTTTTAACAATCTTATGCTCTACCAAGTCATAA
1 GTCTTCCTTTTTAACAATCTTATACTCTACCAAGTCATAA
55384591 GTCTTCCTTTTTAACAAT
1 GTCTTCCTTTTTAACAAT
55384609 ATTCTTACGC
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 7 0.13
40 47 0.87
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (40 bp):
GTCTTCCTTTTTAACAATCTTATACTCTACCAAGTCATAA
Found at i:55388270 original size:212 final size:212
Alignment explanation
Indices: 55387897--55388321 Score: 742
Period size: 212 Copynumber: 2.0 Consensus size: 212
55387887 TTTAGTCACA
55387897 TGTGTTTGAAATATTATGTTTTAGTCACTTACGTTATCGTTTTGTTATGAAATGGTCACTCTGCC
1 TGTGTTTGAAATATTATGTTTTAGTCACTTACGTTATCGTTTTGTTATGAAATGGTCACTCTGCC
* * *
55387962 GCTAAAATTTGTTACCGGCAGTCTAACGTAACATATCTTAATGGTAGAGTGACCATTTCGTAACA
66 GCTAAAATTTATTACCGGCAGTCTAACGTAACATATCTTAATGGCAGAGTGACAATTTCGTAACA
*
55388027 AATCAATAACGTAAGTGACTATAACATAATATTTCAAACATAAATGACTAAAATGTAACTTGAAT
131 AATCAATAACGTAAGTGACTATAACATAATATTTCAAACATAAATGACTAAAATATAACTTGAAT
55388092 TAAACAAAAGTGACTAT
196 TAAACAAAAGTGACTAT
* *
55388109 TGTGTTTGAAATGTTATGTTTTAGTCACTTATGTTATCGTTTTGTTATGAAATGGTCACTCTGCC
1 TGTGTTTGAAATATTATGTTTTAGTCACTTACGTTATCGTTTTGTTATGAAATGGTCACTCTGCC
*
55388174 GCTAAAATTTATTACCGGCAGTCTAACGTAACATATTTTAATGGCAGAGTGACAATTTCGTAACA
66 GCTAAAATTTATTACCGGCAGTCTAACGTAACATATCTTAATGGCAGAGTGACAATTTCGTAACA
* * *
55388239 AATCAATAACGTAAGTGACTATAATATAATATTTCAAATATAAATGATTAAAATATAACTTGAAT
131 AATCAATAACGTAAGTGACTATAACATAATATTTCAAACATAAATGACTAAAATATAACTTGAAT
* *
55388304 TAAATAAAAGTGAGTAT
196 TAAACAAAAGTGACTAT
55388321 T
1 T
55388322 TTGATAGTTT
Statistics
Matches: 201, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
212 201 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (212 bp):
TGTGTTTGAAATATTATGTTTTAGTCACTTACGTTATCGTTTTGTTATGAAATGGTCACTCTGCC
GCTAAAATTTATTACCGGCAGTCTAACGTAACATATCTTAATGGCAGAGTGACAATTTCGTAACA
AATCAATAACGTAAGTGACTATAACATAATATTTCAAACATAAATGACTAAAATATAACTTGAAT
TAAACAAAAGTGACTAT
Found at i:55389425 original size:28 final size:28
Alignment explanation
Indices: 55389393--55389446 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
55389383 AATTCCAGTC
55389393 TTGACTCAAATAGTAGCAATTAAACTTA
1 TTGACTCAAATAGTAGCAATTAAACTTA
* * *
55389421 TTGACTCGAGTAGTAGCAGTTAAACT
1 TTGACTCAAATAGTAGCAATTAAACT
55389447 CATTTGTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (28 bp):
TTGACTCAAATAGTAGCAATTAAACTTA
Found at i:55398163 original size:11 final size:11
Alignment explanation
Indices: 55398147--55398180 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
55398137 AGTATAAATA
55398147 TATTTTTAATT
1 TATTTTTAATT
55398158 TATTTTTAATT
1 TATTTTTAATT
55398169 TATTTTTAATT
1 TATTTTTAATT
55398180 T
1 T
55398181 GTTGAGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TATTTTTAATT
Found at i:55398866 original size:2 final size:2
Alignment explanation
Indices: 55398859--55398925 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
55398849 TAGAAATAAA
55398859 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55398901 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
55398926 CATAAAAACA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:55399148 original size:30 final size:30
Alignment explanation
Indices: 55399114--55399180 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
55399104 AGTTTGAAGA
*
55399114 TCAAATTGAAATCTTTAGAAAAATTGGGGG
1 TCAAATTGAAATCTTTAGAAAAATTAGGGG
* * *
55399144 TCAAATTGGAATTTTTAGAAAATTTAGGGG
1 TCAAATTGAAATCTTTAGAAAAATTAGGGG
*
55399174 TTAAATT
1 TCAAATT
55399181 TTAATTGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (30 bp):
TCAAATTGAAATCTTTAGAAAAATTAGGGG
Found at i:55401391 original size:86 final size:86
Alignment explanation
Indices: 55401276--55401445 Score: 225
Period size: 86 Copynumber: 2.0 Consensus size: 86
55401266 CTTGCTTTAC
* * * * * * * *
55401276 AAAATTTGAAAATTTGGTCTGGTTTTTGGTGAATACATGCACTTGAA-CAGTCGATTTTTGTTAA
1 AAAAATTGAAAATTTAGTCCGGTTGTTGGTAAATACATGAACTTCAACCA-TCGATTTTTGCTAA
*
55401340 TTTGTTGCATATAATTTGTTAT
65 TTTGTTGCATATAAATTGTTAT
*
55401362 AAAAATTGAAAATTTAGTCCGGTTGTTGGTAAATACATGAACTTCAACCATTGATTTTTGCTAAT
1 AAAAATTGAAAATTTAGTCCGGTTGTTGGTAAATACATGAACTTCAACCATCGATTTTTGCTAAT
*
55401427 TTGTTGTATATAAATTGTT
66 TTGTTGCATATAAATTGTT
55401446 GAAATAATGA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
86 70 0.97
87 2 0.03
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.44
Consensus pattern (86 bp):
AAAAATTGAAAATTTAGTCCGGTTGTTGGTAAATACATGAACTTCAACCATCGATTTTTGCTAAT
TTGTTGCATATAAATTGTTAT
Found at i:55401819 original size:87 final size:85
Alignment explanation
Indices: 55401671--55402022 Score: 391
Period size: 86 Copynumber: 4.1 Consensus size: 85
55401661 TCCTTCTACT
* * * ** *
55401671 TTATAAAAATTGAAAATTTTGTCTGGTTGTTGGCAAATGCATGAACTTGAACTGTTGATTTTTTT
1 TTATAAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATACATGAAC-TGAACCATTGA-TTTTTG
* *
55401736 CTAATTTGTTGCACATAAGTTG
64 CTAATTTGTTGCATATAAATTG
* * *
55401758 TAATAAAAATTGAAAATTTAGTCTGGTTTTTGGTAAATACATGTCAA-TGAACCATTTATTTTTG
1 TTATAAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATACATG--AACTGAACCATTGATTTTTG
55401822 CTAATTTGTTGCATATAAATTG
64 CTAATTTGTTGCATATAAATTG
* * * * *
55401844 TTATAAATATTGAAAAATTAGTCTGATTTTTGGTAAATATATGAACTTGAACCATTGATTTTTGC
1 TTATAAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATACATGAAC-TGAACCATTGATTTTTGC
55401909 TAATTTGTTGCATATAAATTG
65 TAATTTGTTGCATATAAATTG
*** * * * * *
55401930 TTATGGGAATTGAAAATTTAGCCCGGTTGTTGGTAAATATATGAACTTTGAATCGTTGATTTTTG
1 TTATAAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATACATGAAC--TGAACCATTGATTTTTG
* * *
55401995 CTAATTTGTTTCACATAAACTG
64 CTAATTTGTTGCATATAAATTG
55402017 TTATAA
1 TTATAA
55402023 GATCGATTTT
Statistics
Matches: 227, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
84 2 0.01
86 138 0.61
87 85 0.37
89 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (85 bp):
TTATAAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATACATGAACTGAACCATTGATTTTTGCT
AATTTGTTGCATATAAATTG
Found at i:55401994 original size:173 final size:173
Alignment explanation
Indices: 55401671--55402022 Score: 418
Period size: 173 Copynumber: 2.0 Consensus size: 173
55401661 TCCTTCTACT
* * * * ** *
55401671 TTATAAAAATTGAAAATTTTGTCTGGTTGTTGGCAAATGCATGAACTTGAACTGTTGATTTTTTT
1 TTATAAAAATTGAAAAATTAGTCTGATTGTTGGCAAATACATGAACTTGAACCATTGATTTTTTG
* * * *
55401736 CTAATTTGTTGCACATAAGTTGTAATAAAAATTGAAAATTTAGTCTGGTTTTTGGTAAATACATG
66 CTAATTTGTTGCACATAAATTGTAATAAAAATTGAAAATTTAGCCCGGTTGTTGGTAAATACATG
* * * *
55401801 TCAATGAACCATTTATTTTTGCTAATTTGTTGCATATAAATTG
131 ACAATGAACCATTGATTTTTGCTAATTTGTTGCACATAAACTG
* * * *
55401844 TTATAAATATTGAAAAATTAGTCTGATTTTTGGTAAATATATGAACTTGAACCATTGA-TTTTTG
1 TTATAAAAATTGAAAAATTAGTCTGATTGTTGGCAAATACATGAACTTGAACCATTGATTTTTTG
* * *** *
55401908 CTAATTTGTTGCATATAAATTGTTATGGGAATTGAAAATTTAGCCCGGTTGTTGGTAAATATATG
66 CTAATTTGTTGCACATAAATTGTAATAAAAATTGAAAATTTAGCCCGGTTGTTGGTAAATACATG
** * * *
55401973 AACTTTGAATCGTTGATTTTTGCTAATTTGTTTCACATAAACTG
131 -ACAATGAACCATTGATTTTTGCTAATTTGTTGCACATAAACTG
55402017 TTATAA
1 TTATAA
55402023 GATCGATTTT
Statistics
Matches: 148, Mismatches: 30, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
172 60 0.41
173 88 0.59
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (173 bp):
TTATAAAAATTGAAAAATTAGTCTGATTGTTGGCAAATACATGAACTTGAACCATTGATTTTTTG
CTAATTTGTTGCACATAAATTGTAATAAAAATTGAAAATTTAGCCCGGTTGTTGGTAAATACATG
ACAATGAACCATTGATTTTTGCTAATTTGTTGCACATAAACTG
Found at i:55427871 original size:18 final size:18
Alignment explanation
Indices: 55427843--55427887 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
55427833 ATTTTCTCCA
55427843 TTTTC-TTTCTTTCCTTC
1 TTTTCTTTTCTTTCCTTC
**
55427860 TTTTCTTTTCTTTTTTTC
1 TTTTCTTTTCTTTCCTTC
*
55427878 TTTTATTTTC
1 TTTTCTTTTC
55427888 CTTCTAACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTCTTTTCTTTCCTTC
Found at i:55427881 original size:13 final size:13
Alignment explanation
Indices: 55427843--55427886 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
55427833 ATTTTCTCCA
*
55427843 TTTTCTTTCTTTCC
1 TTTT-TTTCTTTTC
*
55427857 TTCTTTTCTTTTC
1 TTTTTTTCTTTTC
*
55427870 TTTTTTTCTTTTA
1 TTTTTTTCTTTTC
55427883 TTTT
1 TTTT
55427887 CCTTCTAACC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 23 0.88
14 3 0.12
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Found at i:55429686 original size:30 final size:30
Alignment explanation
Indices: 55429652--55429715 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
55429642 AGAAATTCTT
*
55429652 ATTAAGCCCTTAAAAG-TTTTAAAAAGTTTA
1 ATTAAACCCTT-AAAGTTTTTAAAAAGTTTA
* * *
55429682 ATTAAACTCTTAAAGTTTTTGAAAATTTTA
1 ATTAAACCCTTAAAGTTTTTAAAAAGTTTA
55429712 ATTA
1 ATTA
55429716 GATCCCTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (30 bp):
ATTAAACCCTTAAAGTTTTTAAAAAGTTTA
Found at i:55432562 original size:34 final size:34
Alignment explanation
Indices: 55432507--55432571 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
55432497 TCTCTTTGTT
*
55432507 ATCAAATGAATCAATTCAATCCTTATATTAATGA
1 ATCAAATGAATCAATTCAATCCCTATATTAATGA
* * *
55432541 ATCAAATGGATGAATTTAATCCCTATATTAA
1 ATCAAATGAATCAATTCAATCCCTATATTAA
55432572 ATTAAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (34 bp):
ATCAAATGAATCAATTCAATCCCTATATTAATGA
Found at i:55433353 original size:5 final size:5
Alignment explanation
Indices: 55433345--55433369 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
55433335 AAGAAAAGAT
55433345 AGAAG AGAAG AGAAG AGAAG AGAAG
1 AGAAG AGAAG AGAAG AGAAG AGAAG
55433370 CCTCGACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:55444760 original size:7 final size:8
Alignment explanation
Indices: 55444733--55444759 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
55444723 ATTCATATCA
55444733 TTTTATTT
1 TTTTATTT
55444741 TTTTATTT
1 TTTTATTT
55444749 TTTTATTT
1 TTTTATTT
55444757 TTT
1 TTT
55444760 AAATTCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:55444997 original size:7 final size:7
Alignment explanation
Indices: 55444985--55445018 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
55444975 CACTTCAGCC
55444985 CTACACA
1 CTACACA
55444992 CTACACA
1 CTACACA
55444999 CTACACA
1 CTACACA
55445006 CTACACA
1 CTACACA
55445013 CTACAC
1 CTACAC
55445019 CTTTGTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15
Consensus pattern (7 bp):
CTACACA
Found at i:55449327 original size:35 final size:36
Alignment explanation
Indices: 55449261--55449328 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 36
55449251 AACAATGTTA
* *
55449261 AAAAAATATAAAATTATTATAAACTACAAAAAATTG
1 AAAAAATATAAAATTATTAAAAAATACAAAAAATTG
*
55449297 AAAAAA-ATAAATTTATTAAAATAATA-AAAAAA
1 AAAAAATATAAAATTATTAAAA-AATACAAAAAA
55449329 CGAATGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 19 0.68
36 9 0.32
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.26
Consensus pattern (36 bp):
AAAAAATATAAAATTATTAAAAAATACAAAAAATTG
Found at i:55452414 original size:12 final size:11
Alignment explanation
Indices: 55452397--55452480 Score: 64
Period size: 11 Copynumber: 7.3 Consensus size: 11
55452387 AATTTTATAT
55452397 TTTTAAAAGTAA
1 TTTTAAAA-TAA
*
55452409 TTTTAAATTAA
1 TTTTAAAATAA
55452420 TTTTAAAATAAA
1 TTTTAAAAT-AA
**
55452432 TTAAAAAATTATA
1 TTTTAAAA-TA-A
55452445 TTTTAAAAAATAA
1 TTTT--AAAATAA
55452458 TTTT--AATAA
1 TTTTAAAATAA
*
55452467 TTTTAAAATTA
1 TTTTAAAATAA
55452478 TTT
1 TTT
55452481 ATTGGCATGA
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
9 9 0.16
11 18 0.31
12 16 0.28
13 9 0.16
14 2 0.03
15 4 0.07
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (11 bp):
TTTTAAAATAA
Found at i:55452423 original size:23 final size:22
Alignment explanation
Indices: 55452397--55452480 Score: 73
Period size: 23 Copynumber: 3.6 Consensus size: 22
55452387 AATTTTATAT
55452397 TTTTAAAAGTAATTTTAAATTAA
1 TTTTAAAA-TAATTTTAAATTAA
**
55452420 TTTTAAAATAAATTAAAAAATTATA
1 TTTTAAAAT-AATT-TTAAATTA-A
55452445 TTTTAAAAAATAATTTT-AA-TAA
1 TTTT--AAAATAATTTTAAATTAA
*
55452467 TTTTAAAATTATTT
1 TTTTAAAATAATTT
55452481 ATTGGCATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
20 9 0.18
22 6 0.12
23 14 0.27
24 8 0.16
25 5 0.10
26 4 0.08
27 5 0.10
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (22 bp):
TTTTAAAATAATTTTAAATTAA
Found at i:55453153 original size:84 final size:84
Alignment explanation
Indices: 55452998--55453156 Score: 198
Period size: 84 Copynumber: 1.9 Consensus size: 84
55452988 AATTGTTTAA
* * * * * * *
55452998 TTCAATCCTCTTATAAATAGAGAGAGTATAAATTAATATATAGTGAAATTGAATTTTATCTCTCT
1 TTCAATACTCTTATAAATAAAGAGAGTATAAATTAAAATATAATGAAATTGAACTTTAGCCCTCT
55453063 CAAAATGAAAAATTTTCAG
66 CAAAATGAAAAATTTTCAG
*
55453082 TTCAATACTCTTATAAATAAAGA-AGTTATAAATTAAAATATAAT-AAATTTGTACTTTAGCCCT
1 TTCAATACTCTTATAAATAAAGAGAG-TATAAATTAAAATATAATGAAA-TTGAACTTTAGCCCT
55453145 CT-AGAAATGAAA
64 CTCA-AAATGAAA
55453157 GAAATACATT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
83 6 0.09
84 58 0.91
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (84 bp):
TTCAATACTCTTATAAATAAAGAGAGTATAAATTAAAATATAATGAAATTGAACTTTAGCCCTCT
CAAAATGAAAAATTTTCAG
Found at i:55455989 original size:3 final size:3
Alignment explanation
Indices: 55455981--55456021 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
55455971 ATGGTTGTTT
*
55455981 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
55456022 TTCATAGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:55456506 original size:39 final size:40
Alignment explanation
Indices: 55456452--55456531 Score: 135
Period size: 39 Copynumber: 2.0 Consensus size: 40
55456442 TATGCAATCA
*
55456452 ATGGACACCTTTTGAAGAGTCACAA-CTTTTTCAAATTGG
1 ATGGACACCTTTTGAAGAGTCACAACCCTTTTCAAATTGG
*
55456491 ATGGACACCTTTTGAAGAGTCACAACCCTTTTCATATTGG
1 ATGGACACCTTTTGAAGAGTCACAACCCTTTTCAAATTGG
55456531 A
1 A
55456532 CATACCTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 25 0.66
40 13 0.34
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (40 bp):
ATGGACACCTTTTGAAGAGTCACAACCCTTTTCAAATTGG
Found at i:55456547 original size:39 final size:38
Alignment explanation
Indices: 55456456--55456548 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 38
55456446 CAATCAATGG
* * *
55456456 ACACCTTTTGAAGAGTCACAACTTTTTCAAATTGGATGG
1 ACACCTTTGGAAGAGTCACAACCTTTTCAAATTGGA-GC
* *
55456495 ACACCTTTTGAAGAGTCACAACCCTTTTCATATTGGA-C
1 ACACCTTTGGAAGAGTCACAA-CCTTTTCAAATTGGAGC
*
55456533 ATACCTCTTGGAAGAG
1 ACACCT-TTGGAAGAG
55456549 ACTTGTCCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 5 0.11
39 29 0.62
40 13 0.28
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (38 bp):
ACACCTTTGGAAGAGTCACAACCTTTTCAAATTGGAGC
Found at i:55464477 original size:15 final size:17
Alignment explanation
Indices: 55464450--55464487 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
55464440 ACGTCTAAAA
*
55464450 AATTACAATTTTT-TGT
1 AATTACAATTTTTATCT
55464466 AATTAC-ATTTTTATCT
1 AATTACAATTTTTATCT
55464482 AATTAC
1 AATTAC
55464488 TTTGTGCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.53
Consensus pattern (17 bp):
AATTACAATTTTTATCT
Found at i:55483386 original size:7 final size:7
Alignment explanation
Indices: 55483374--55483427 Score: 108
Period size: 7 Copynumber: 7.7 Consensus size: 7
55483364 AGTATCATTC
55483374 ATCCCTT
1 ATCCCTT
55483381 ATCCCTT
1 ATCCCTT
55483388 ATCCCTT
1 ATCCCTT
55483395 ATCCCTT
1 ATCCCTT
55483402 ATCCCTT
1 ATCCCTT
55483409 ATCCCTT
1 ATCCCTT
55483416 ATCCCTT
1 ATCCCTT
55483423 ATCCC
1 ATCCC
55483428 ACATCATTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.15, C:0.44, G:0.00, T:0.41
Consensus pattern (7 bp):
ATCCCTT
Found at i:55485206 original size:2 final size:2
Alignment explanation
Indices: 55485199--55485227 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
55485189 ATTGAGTTCT
55485199 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55485228 TTTATCTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55485370 original size:3 final size:3
Alignment explanation
Indices: 55485364--55485404 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
55485354 GTTTTATCCT
55485364 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
55485405 GTAAACTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:55486415 original size:23 final size:24
Alignment explanation
Indices: 55486376--55486421 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
55486366 ATAATTTTGG
*
55486376 GTGATGAAAATATAAAA-GTAAAT
1 GTGATGAAAATAAAAAAGGTAAAT
55486399 GTGATTGAAAA-AAAAAAGGTAAA
1 GTGA-TGAAAATAAAAAAGGTAAA
55486422 ACAAGGAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (24 bp):
GTGATGAAAATAAAAAAGGTAAAT
Found at i:55500620 original size:27 final size:28
Alignment explanation
Indices: 55500564--55500620 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
55500554 GGACCGATTA
* *
55500564 TTTAACTAGTAAACAAAGTATAATATTT
1 TTTAACTAATAAACAAAGTATAATAGTT
*
55500592 TTTAACTATATAAAC-AA-TATAATGGTT
1 TTTAACTA-ATAAACAAAGTATAATAGTT
55500619 TT
1 TT
55500621 GCCTTTTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 10 0.40
28 10 0.40
29 5 0.20
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
TTTAACTAATAAACAAAGTATAATAGTT
Found at i:55503041 original size:22 final size:24
Alignment explanation
Indices: 55503016--55503068 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
55503006 ATCAATAAGT
*
55503016 AAATTGAT-CATTTTTA-TAAAAA
1 AAATTGATCCATTTATATTAAAAA
**
55503038 AAATT-ATCCATTTATATTATTAA
1 AAATTGATCCATTTATATTAAAAA
55503061 AAATTGAT
1 AAATTGAT
55503069 GTGACTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 2 0.08
22 12 0.48
23 9 0.36
24 2 0.08
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (24 bp):
AAATTGATCCATTTATATTAAAAA
Found at i:55518984 original size:2 final size:2
Alignment explanation
Indices: 55518977--55519003 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
55518967 AAGTGGTACT
55518977 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
55519004 TTTGTTACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55527325 original size:20 final size:20
Alignment explanation
Indices: 55527300--55527340 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
55527290 AGTGCCCAAA
55527300 TCAGAAAGAGTGTTGGGCCG
1 TCAGAAAGAGTGTTGGGCCG
55527320 TCAGAAAGAGTGTTGGGCCG
1 TCAGAAAGAGTGTTGGGCCG
55527340 T
1 T
55527341 TATGATGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.39, T:0.22
Consensus pattern (20 bp):
TCAGAAAGAGTGTTGGGCCG
Found at i:55534245 original size:24 final size:24
Alignment explanation
Indices: 55534218--55534264 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
55534208 ATTCTTCAAA
*
55534218 TTAATATGATAATAAAATTACATT
1 TTAATATGATAATAAAATAACATT
* * *
55534242 TTAATTTGTTAATCAAATAACAT
1 TTAATATGATAATAAAATAACAT
55534265 GAAAGAAGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAATATGATAATAAAATAACATT
Found at i:55553424 original size:21 final size:20
Alignment explanation
Indices: 55553396--55553439 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
55553386 ATCTAAAGAA
* *
55553396 CAACTCCAATGTTGCAACAC
1 CAACTCCAACGTAGCAACAC
55553416 CAACATCCAACGTAGCAACAC
1 CAAC-TCCAACGTAGCAACAC
55553437 CAA
1 CAA
55553440 ATTTCGAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.41, C:0.36, G:0.09, T:0.14
Consensus pattern (20 bp):
CAACTCCAACGTAGCAACAC
Found at i:55562785 original size:3 final size:3
Alignment explanation
Indices: 55562777--55562809 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
55562767 TGAGGATACA
55562777 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
55562810 TCTCTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:55565623 original size:6 final size:6
Alignment explanation
Indices: 55565612--55565637 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
55565602 GATGGCGTGG
55565612 TTTGCT TTTGCT TTTGCT TTTGCT TT
1 TTTGCT TTTGCT TTTGCT TTTGCT TT
55565638 ACCTTTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.15, T:0.69
Consensus pattern (6 bp):
TTTGCT
Found at i:55574524 original size:34 final size:31
Alignment explanation
Indices: 55574486--55574550 Score: 85
Period size: 34 Copynumber: 2.0 Consensus size: 31
55574476 TCCACTCTCT
*
55574486 TAAAAAATGAATAAATTAATTTTTATATATTAAA
1 TAAAAAATAAATAAATT--TTTTTAT-TATTAAA
*
55574520 TAAAAAATAAATTAATTTTTTTATTATTAAA
1 TAAAAAATAAATAAATTTTTTTATTATTAAA
55574551 ATTTGACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 7 0.24
32 7 0.24
34 15 0.52
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (31 bp):
TAAAAAATAAATAAATTTTTTTATTATTAAA
Found at i:55576226 original size:31 final size:31
Alignment explanation
Indices: 55576190--55576250 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
55576180 ACTTAGTGAC
55576190 TTAAATAAAAACTTTTAAATAGTTCAATGAT
1 TTAAATAAAAACTTTTAAATAGTTCAATGAT
* *
55576221 TTAAATGAAAACTTTTGAATAGTTCAATGA
1 TTAAATAAAAACTTTTAAATAGTTCAATGA
55576251 CCATTTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.38
Consensus pattern (31 bp):
TTAAATAAAAACTTTTAAATAGTTCAATGAT
Found at i:55584072 original size:43 final size:43
Alignment explanation
Indices: 55583940--55584299 Score: 246
Period size: 43 Copynumber: 8.3 Consensus size: 43
55583930 TTATGAGGAA
* * * * *
55583940 AAACGCCGCTATAGAACATGATCTTTAGCGGTGCTTT-CCCAT
1 AAACGCCGCTAAAGAACATGGTCTTTAGAGGCGCTTTCCCCAC
* * * * *
55583982 AAACACTGCTAAAGAATATGGTCTTTATTTAGCGACGCTTTCTCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTA--GAG-G-CGCTTTCCCCAC
* *
55584029 AAACGCTGCTAAAGAACATGGTCTTTAGAGGGGCTTTCCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGAGGCGCTTTCCCCAC
* * * *
55584072 AAACGCCGCTAAAGAATATGGTTTTTA-ACGACACTTTTCTCCCA-
1 AAACGCCGCTAAAGAACATGGTCTTTAGA-GGCGC-TTTC-CCCAC
* * * ** *
55584116 AAA-TCCGTTAAATAACATGGTCTTTA-ACGGCGCTTTTGCAAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGA-GGCGCTTTCCCCAC
* * * *
55584158 AAACGCCGCTAAAGAACATGATTTTTAGCGGTGCTTTCCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGAGGCGCTTTCCCCAC
* ** ** * *
55584201 AAACACCGCTATTGCCCATGGTCTTTATCA-GCGCTTTCCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTA-GAGGCGCTTTCCCCAC
* * * *
55584244 AAACGCCGCTAGAGAACATGTTCTTTAGCGGCGCTTTGCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGAGGCGCTTTCCCCAC
* *
55584287 AAATGCTGCTAAA
1 AAACGCCGCTAAA
55584300 ATTAACAGAT
Statistics
Matches: 240, Mismatches: 65, Indels: 25
0.73 0.20 0.08
Matches are distributed among these distances:
41 2 0.01
42 29 0.12
43 160 0.67
44 9 0.04
45 7 0.03
46 5 0.02
47 28 0.12
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGAGGCGCTTTCCCCAC
Found at i:55584289 original size:129 final size:129
Alignment explanation
Indices: 55584009--55584299 Score: 300
Period size: 129 Copynumber: 2.3 Consensus size: 129
55583999 ATGGTCTTTA
* *
55584009 TTTAGCGACGCTTT-CTCCACAAACGCTGCTAAAGAACATGGTCTTTAGAGGGGCTTTCCCCACA
1 TTTAGCGGCGCTTTGC-CCACAAACGCTGCTAAAGAACATGATCTTTAGAGGGGCTTTCCCCACA
* * * * * * * *
55584073 AACGCCGCTAAAGAATATGGTTTTTAACGACACTTTTCTCCCAAAATCCGTTAAATAACATGGTC
65 AACACCGCTAAAGAACATGGTCTTTAACGACACTTTCCTCACAAAAGCCGCTAAAGAACATGGTC
* * * * * *
55584138 TTTAACGGCGCTTTTG-CAACAAACGCCGCTAAAGAACATGATTTTTAGCGGTGCTTTCCCCACA
1 TTTAGCGGCGC-TTTGCCCACAAACGCTGCTAAAGAACATGATCTTTAGAGGGGCTTTCCCCACA
** ** * * * * *
55584202 AACACCGCTATTGCCCATGGTCTTTATC-AGCGCTTTCCTCACAAACGCCGCTAGAGAACATGTT
65 AACACCGCTAAAGAACATGGTCTTTAACGA-CACTTTCCTCACAAAAGCCGCTAAAGAACATGGT
55584266 C
129 C
*
55584267 TTTAGCGGCGCTTTGCCCACAAATGCTGCTAAA
1 TTTAGCGGCGCTTTGCCCACAAACGCTGCTAAA
55584300 ATTAACAGAT
Statistics
Matches: 129, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
128 5 0.04
129 121 0.94
130 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (129 bp):
TTTAGCGGCGCTTTGCCCACAAACGCTGCTAAAGAACATGATCTTTAGAGGGGCTTTCCCCACAA
ACACCGCTAAAGAACATGGTCTTTAACGACACTTTCCTCACAAAAGCCGCTAAAGAACATGGTC
Found at i:55584644 original size:21 final size:21
Alignment explanation
Indices: 55584618--55584685 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
55584608 CTTGTTGCCT
55584618 CTGCTTCCTTCGCTTCTCTCG
1 CTGCTTCCTTCGCTTCTCTCG
55584639 CTGCTTCCTTCGCTTCTCTCG
1 CTGCTTCCTTCGCTTCTCTCG
* * * * *
55584660 TTACTGCCTCCGCTTCCCTCG
1 CTGCTTCCTTCGCTTCTCTCG
55584681 CTGCT
1 CTGCT
55584686 GCCTCTACTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.01, C:0.44, G:0.15, T:0.40
Consensus pattern (21 bp):
CTGCTTCCTTCGCTTCTCTCG
Found at i:55586743 original size:23 final size:25
Alignment explanation
Indices: 55586713--55586762 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 25
55586703 GAATGCTAGC
55586713 GCGCTTACTGTTTCGCA-CTT-TGT
1 GCGCTTACTGTTTCGCACCTTATGT
*
55586736 GCGCTTACTGTTTTGCACCTTATGT
1 GCGCTTACTGTTTCGCACCTTATGT
55586761 GC
1 GC
55586763 CTACTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 16 0.67
24 3 0.12
25 5 0.21
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.42
Consensus pattern (25 bp):
GCGCTTACTGTTTCGCACCTTATGT
Found at i:55588809 original size:12 final size:12
Alignment explanation
Indices: 55588788--55588836 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
55588778 AGTTTAGGGT
55588788 TTAA-TAAATAA
1 TTAATTAAATAA
*
55588799 CTAATTAAATAA
1 TTAATTAAATAA
* *
55588811 TTAAATAATTAA
1 TTAATTAAATAA
*
55588823 TTATTTAAATAA
1 TTAATTAAATAA
55588835 TT
1 TT
55588837 CGGTTGTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 3 0.10
12 27 0.90
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TTAATTAAATAA
Found at i:55588813 original size:8 final size:8
Alignment explanation
Indices: 55588790--55588836 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
55588780 TTTAGGGTTT
*
55588790 AATAAATA
1 AATAATTA
*
55588798 ACTAATTA
1 AATAATTA
55588806 AATAATTA
1 AATAATTA
55588814 AATAATTA
1 AATAATTA
* *
55588822 ATTATTTA
1 AATAATTA
55588830 AATAATT
1 AATAATT
55588837 CGGTTGTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (8 bp):
AATAATTA
Found at i:55588813 original size:66 final size:65
Alignment explanation
Indices: 55588739--55588940 Score: 184
Period size: 64 Copynumber: 3.1 Consensus size: 65
55588729 ACATAGTTGC
* *
55588739 AAATAATTAAATAGTTAAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAACTAAT
1 AAATAATTAAATAATTAAATATTTTGAATTAAATATTTG-GTTTAAGGTTTAATAAATAACTAAT
55588804 T
65 T
* * * ** * ** *
55588805 AAATAATTAAATAATTAATTA-TTT-AAATAATTCGGTTGTTTTTAATAATTTAAT-AAT-TCT-
1 AAATAATTAAATAATTAAATATTTTGAATTAAAT-ATTTG-GTTTAA-GGTTTAATAAATAACTA
55588865 -TT
63 ATT
* *
55588867 AAATATAATTAAATAATTTAATATTTTGAATTAAATATTTGG-GTAAGGTTTAATAAATAACTAA
1 -AA-ATAATTAAATAATTAAATATTTTGAATTAAATATTTGGTTTAAGGTTTAATAAATAACTAA
55588931 TT
64 TT
55588933 AAATAATT
1 AAATAATT
55588941 GATTATTTTA
Statistics
Matches: 103, Mismatches: 23, Indels: 22
0.70 0.16 0.15
Matches are distributed among these distances:
62 8 0.08
63 8 0.08
64 33 0.32
65 21 0.20
66 33 0.32
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.45
Consensus pattern (65 bp):
AAATAATTAAATAATTAAATATTTTGAATTAAATATTTGGTTTAAGGTTTAATAAATAACTAATT
Found at i:55589191 original size:58 final size:57
Alignment explanation
Indices: 55589113--55589316 Score: 173
Period size: 58 Copynumber: 3.5 Consensus size: 57
55589103 TTATTTAATA
*
55589113 TAATTGAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAAC
1 TAATTAAATAATTTAATATTTT-AATTAAATATTTGAGTTTAGGGTTTAATAAATAAC
* * * *** * *
55589171 TAATTAAATAA-TTAATTATTTTAATTGAGATCTATTTTTAATAATTTAAATTTTATTGAAT-A-
1 TAATTAAATAATTTAA-TATTTTAATT-A-A---ATATTT--GAGTTTAGGGTTTAATAAATAAC
* *
55589233 TATTTAAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGGGTTAATAAATAAC
1 TAATTAAATAATTTAATATTTT-AATTAAATATTTGAGTTTAGGGTTTAATAAATAAC
*
55589291 TAATTAAATTA-TTAATTATTTTAATT
1 TAATTAAATAATTTAA-TATTTTAATT
55589317 GAGTTTTGTT
Statistics
Matches: 112, Mismatches: 21, Indels: 27
0.70 0.13 0.17
Matches are distributed among these distances:
56 12 0.11
57 17 0.15
58 37 0.33
59 1 0.01
61 1 0.01
62 22 0.20
63 9 0.08
64 13 0.12
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (57 bp):
TAATTAAATAATTTAATATTTTAATTAAATATTTGAGTTTAGGGTTTAATAAATAAC
Found at i:55589242 original size:29 final size:33
Alignment explanation
Indices: 55589174--55589259 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 33
55589164 AAATAACTAA
*
55589174 TTAAATAA-TTAATTATTTTAATTGAGATCTATT
1 TTAAATAATTTAA-TATTTTAATTGAGATATATT
*
55589207 TTTAATAATTTAA-ATTTT-ATTGA-ATATA-T
1 TTAAATAATTTAATATTTTAATTGAGATATATT
55589236 TTAAATAATTTAATATTTTGAATT
1 TTAAATAATTTAATATTTT-AATT
55589260 AAATATTTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
29 13 0.28
30 9 0.20
31 5 0.11
32 8 0.17
33 7 0.15
34 4 0.09
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (33 bp):
TTAAATAATTTAATATTTTAATTGAGATATATT
Found at i:55589252 original size:241 final size:243
Alignment explanation
Indices: 55588741--55589312 Score: 784
Period size: 241 Copynumber: 2.3 Consensus size: 243
55588731 ATAGTTGCAA
* *
55588741 ATAATTAAATAGTTAAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAACTAATTA
1 ATAATTAAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAACTAATTA
* *
55588806 AATAATTAAATAATTAATTATTTAAATAATTCGGTTGTTTTTAATAATTTAATAATTCTTTAAAT
66 AATAA-T---TAATT-ATT-TTT-AATAATTCGGTTCTTTTTAATAATTTAATAATTATTTAAAT
55588871 ATAATTAAATAATTTAATATTTTGAATTAAATATTTGGGTAAGGTTTAATAAATAACTAATTAAA
124 ATAATTAAATAATTTAATATTTTGAATTAAATATTTGGGTAAGGTTTAATAAATAACTAATTAAA
* * * *
55588936 TAATTGATTATTTTAATATTTATTCTGTTTTTAATAATTTAATATTTATTTAAAT
189 TAATTAATTATTTTAATATTGAATCTATTTTTAATAATTTAATATTTATTTAAAT
**
55588991 ATAATTAAATAATTTAATATTTTGAATTAAATATTTTGA-TTTAGATTTTAATAAATAACTAATT
1 ATAATTAAATAATTTAATATTTTGAATTAAATA-TTTGAGTTTAGGGTTTAATAAATAACTAATT
* *
55589055 AAATAATTAATTATTTTT-AT-ATT-TGTTCTATCTTTAATAATTTAATATTTATTT-AATATAA
65 AAATAATTAATTATTTTTAATAATTCGGTTCT-T-TTTAATAATTTAATAATTATTTAAATATAA
* * *
55589116 TTGAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAACTAATTAAATA
128 TTAAATAATTTAATATTTTGAATTAAATATTTG-G-GTAAGGTTTAATAAATAACTAATTAAATA
*
55589181 ATTAATTATTTT-A-ATTGAGATCTATTTTTAATAATTTAA-ATTT-TATTGAAT
191 ATTAATTATTTTAATATTGA-ATCTATTTTTAATAATTTAATATTTAT-TTAAAT
* *
55589232 ATATTTAAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGGGTTAATAAATAACTAATTA
1 ATAATTAAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAACTAATTA
*
55589297 AATTATTAATTATTTT
66 AATAATTAATTATTTT
55589313 AATTGAGTTT
Statistics
Matches: 293, Mismatches: 21, Indels: 25
0.86 0.06 0.07
Matches are distributed among these distances:
240 10 0.03
241 126 0.43
242 42 0.14
243 38 0.13
244 3 0.01
245 3 0.01
246 5 0.02
249 1 0.00
250 60 0.20
251 5 0.02
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (243 bp):
ATAATTAAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAACTAATTA
AATAATTAATTATTTTTAATAATTCGGTTCTTTTTAATAATTTAATAATTATTTAAATATAATTA
AATAATTTAATATTTTGAATTAAATATTTGGGTAAGGTTTAATAAATAACTAATTAAATAATTAA
TTATTTTAATATTGAATCTATTTTTAATAATTTAATATTTATTTAAAT
Found at i:55589316 original size:120 final size:121
Alignment explanation
Indices: 55588741--55589321 Score: 750
Period size: 120 Copynumber: 4.8 Consensus size: 121
55588731 ATAGTTGCAA
* *
55588741 ATAATTAAATAGTTAAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAACTAATTA
1 ATAATTAAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAACTAATTA
* * * *
55588806 AATAATTAAATAATTAATTAT-TTAAATAATTCGGTTGTTTTTAATAATTTAATAATTCT-TTAA
66 AATAATT-AATTATT--TTATATT---GAGTTC---TATTTTTAATAATTTAAT-ATT-TATTAA
55588869 AT
120 AT
* *
55588871 ATAATTAAATAATTTAATATTTTGAATTAAATATTTG-G-GTAAGGTTTAATAAATAACTAATTA
1 ATAATTAAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAACTAATTA
* * *
55588934 AATAATTGATTATTTTAATATTTA-TTCTGTTTTTAATAATTTAATATTTATTTAAAT
66 AATAATTAATTATTTT-ATATTGAGTTCTATTTTTAATAATTTAATATTTA-TTAAAT
**
55588991 ATAATTAAATAATTTAATATTTTGAATTAAATATTTTGA-TTTAGATTTTAATAAATAACTAATT
1 ATAATTAAATAATTTAATATTTTGAATTAAATA-TTTGAGTTTAGGGTTTAATAAATAACTAATT
* * *
55589055 AAATAATTAATTATTTTTATATT-TGTTCTATCTTTAATAATTTAATATTTATTTAAT
65 AAATAATTAATTA-TTTTATATTGAGTTCTATTTTTAATAATTTAATATTTATTAAAT
*
55589112 ATAATTGAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAACTAATTA
1 ATAATTAAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAACTAATTA
* *
55589177 AATAATTAATTATTTTA-ATTGAGATCTATTTTTAATAATTTAA-ATTTTATTGAAT
66 AATAATTAATTATTTTATATTGAGTTCTATTTTTAATAATTTAATA-TTTATTAAAT
* *
55589232 ATATTTAAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGGGTTAATAAATAACTAATTA
1 ATAATTAAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAACTAATTA
*
55589297 AATTATTAATTATTTTA-ATTGAGTT
66 AATAATTAATTATTTTATATTGAGTT
55589322 TTGTTACATG
Statistics
Matches: 412, Mismatches: 27, Indels: 34
0.87 0.06 0.07
Matches are distributed among these distances:
118 1 0.00
119 7 0.02
120 180 0.44
121 77 0.19
122 61 0.15
123 7 0.02
124 2 0.00
125 2 0.00
126 2 0.00
127 7 0.02
128 30 0.07
129 1 0.00
130 35 0.08
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (121 bp):
ATAATTAAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAACTAATTA
AATAATTAATTATTTTATATTGAGTTCTATTTTTAATAATTTAATATTTATTAAAT
Found at i:55592723 original size:42 final size:42
Alignment explanation
Indices: 55592669--55592748 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
55592659 CGTTTACGGG
*
55592669 AAAAACGCCGCTAATGCTCTAGACCTTTTGCGGCGTTTTCTC
1 AAAAACGCCGCTAATGCTCTAGACCTTTTACGGCGTTTTCTC
* * *
55592711 AAAAACGTCGCTATTGCTCTATACCTTTTACGGCGTTT
1 AAAAACGCCGCTAATGCTCTAGACCTTTTACGGCGTTT
55592749 ATTGGAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (42 bp):
AAAAACGCCGCTAATGCTCTAGACCTTTTACGGCGTTTTCTC
Found at i:55592758 original size:42 final size:42
Alignment explanation
Indices: 55592656--55592770 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
55592646 ATACCTGTAG
** * * *
55592656 CGGCGTTTACGGGAAAAACGCCGCTAATGCTCTAGACCTTTTG
1 CGGCGTTTATTGG-AAAACGTCGCTATTGCTCTAGACCTTTTA
** *
55592699 CGGCGTTT-TCTCAAAAACGTCGCTATTGCTCTATACCTTTTA
1 CGGCGTTTAT-TGGAAAACGTCGCTATTGCTCTAGACCTTTTA
* *
55592741 CGGCGTTTATTGGAAAACGTTGCCATTGCT
1 CGGCGTTTATTGGAAAACGTCGCTATTGCT
55592771 TGACTTTTAG
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
42 49 0.84
43 9 0.16
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (42 bp):
CGGCGTTTATTGGAAAACGTCGCTATTGCTCTAGACCTTTTA
Found at i:55592886 original size:20 final size:23
Alignment explanation
Indices: 55592861--55592904 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
55592851 CTCTTTCCCA
55592861 TATTTT-AAATTTT-T-TAAATT
1 TATTTTCAAATTTTATATAAATT
55592881 TATTTTCAAATTTTATATAAATT
1 TATTTTCAAATTTTATATAAATT
55592904 T
1 T
55592905 TTAAAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 7 0.33
22 1 0.05
23 7 0.33
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTTTCAAATTTTATATAAATT
Found at i:55594711 original size:41 final size:41
Alignment explanation
Indices: 55594666--55594864 Score: 242
Period size: 41 Copynumber: 4.9 Consensus size: 41
55594656 TTTTTCACAT
* * *
55594666 AAACGCCTCTAATGCTCTAACCTTTAGCAGCGTTTATGTGA
1 AAACGCCTCTAATGCTCTGACCTTTAGCGGCGTTTATGAGA
* *
55594707 AAACGCCGT-TAATGCTCTAACCTTTAGCGGCGTTTATGTGA
1 AAACGCC-TCTAATGCTCTGACCTTTAGCGGCGTTTATGAGA
** * *
55594748 AAGTGCCGCTAATGCTCTGTCCTTTAGCGGCGTTTATGAGA
1 AAACGCCTCTAATGCTCTGACCTTTAGCGGCGTTTATGAGA
* *
55594789 AAGCGCCGCTAATGCTCTGACCTTTAGCGGCGTTTATGAGA
1 AAACGCCTCTAATGCTCTGACCTTTAGCGGCGTTTATGAGA
*
55594830 AAGA-GTCGT-TAATGCTCTGACCTTTAGCGGCGTTT
1 AA-ACG-CCTCTAATGCTCTGACCTTTAGCGGCGTTT
55594865 TTCCATAAGC
Statistics
Matches: 142, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
41 140 0.99
42 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (41 bp):
AAACGCCTCTAATGCTCTGACCTTTAGCGGCGTTTATGAGA
Found at i:55594812 original size:82 final size:82
Alignment explanation
Indices: 55594674--55594905 Score: 295
Period size: 82 Copynumber: 2.8 Consensus size: 82
55594664 ATAAACGCCT
* * * * *
55594674 CTAATGCTCTAACCTTTAGCAGCGTTTATGTGAAAACGCCGTTAATGCTCTAACCTTTAGCGGCG
1 CTAATGCTCTGACCTTTAGCGGCGTTTATGAGAAAGCGCCGTTAATGCTCTGACCTTTAGCGGCG
* *
55594739 TTTATGTGAAAGTGCCG
66 TTTATGAGAAAGAGCCG
* *
55594756 CTAATGCTCTGTCCTTTAGCGGCGTTTATGAGAAAGCGCCGCTAATGCTCTGACCTTTAGCGGCG
1 CTAATGCTCTGACCTTTAGCGGCGTTTATGAGAAAGCGCCGTTAATGCTCTGACCTTTAGCGGCG
*
55594821 TTTATGAGAAAGAGTCG
66 TTTATGAGAAAGAGCCG
* * * * * * *
55594838 TTAATGCTCTGACCTTTAGCGGCGTTTTTCCA-TAAGCACCGTTAATGCTCAGACCTTTAGCAGC
1 CTAATGCTCTGACCTTTAGCGGCGTTTAT-GAGAAAGCGCCGTTAATGCTCTGACCTTTAGCGGC
55594902 GTTT
65 GTTT
55594906 TTTTAATAAA
Statistics
Matches: 130, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
82 129 0.99
83 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (82 bp):
CTAATGCTCTGACCTTTAGCGGCGTTTATGAGAAAGCGCCGTTAATGCTCTGACCTTTAGCGGCG
TTTATGAGAAAGAGCCG
Found at i:55594881 original size:41 final size:41
Alignment explanation
Indices: 55594675--55594907 Score: 236
Period size: 41 Copynumber: 5.7 Consensus size: 41
55594665 TAAACGCCTC
* * * * * *
55594675 TAATGCTCTAACCTTTAGCAGCGTTTATGTGAAAACGCCGT
1 TAATGCTCTGACCTTTAGCGGCGTTTTTGAGAAAGCACCGT
* * * ** *
55594716 TAATGCTCTAACCTTTAGCGGCGTTTATGTGAAAGTGCCGC
1 TAATGCTCTGACCTTTAGCGGCGTTTTTGAGAAAGCACCGT
* * * *
55594757 TAATGCTCTGTCCTTTAGCGGCGTTTATGAGAAAGCGCCGC
1 TAATGCTCTGACCTTTAGCGGCGTTTTTGAGAAAGCACCGT
* *
55594798 TAATGCTCTGACCTTTAGCGGCGTTTATGAGAAAG-AGTCGT
1 TAATGCTCTGACCTTTAGCGGCGTTTTTGAGAAAGCA-CCGT
* *
55594839 TAATGCTCTGACCTTTAGCGGCGTTTTTCCA-TAAGCACCGT
1 TAATGCTCTGACCTTTAGCGGCGTTTTT-GAGAAAGCACCGT
* *
55594880 TAATGCTCAGACCTTTAGCAGCGTTTTT
1 TAATGCTCTGACCTTTAGCGGCGTTTTT
55594908 TTAATAAACG
Statistics
Matches: 171, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
41 169 0.99
42 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (41 bp):
TAATGCTCTGACCTTTAGCGGCGTTTTTGAGAAAGCACCGT
Found at i:55594895 original size:123 final size:123
Alignment explanation
Indices: 55594669--55594905 Score: 309
Period size: 123 Copynumber: 1.9 Consensus size: 123
55594659 TTCACATAAA
* *
55594669 CGCCTCTAATGCTCTAACCTTTAGCAGCGTTTATGTGAAAACGCCGTTAATGCTCTAACCTTTAG
1 CGCCGCTAATGCTCTAACCTTTAGCAGCGTTTATGAGAAAACGCCGTTAATGCTCTAACCTTTAG
* ** * * *
55594734 CGGCGTTTATGTGAAAGTGCCGCTAATGCTCTGTCCTTTAGCGGCGTTTATGAGAAAG
66 CGGCGTTTATGTCAAAGCACCGCTAATGCTCAGACCTTTAGCAGCGTTTATGAGAAAG
* * * *
55594792 CGCCGCTAATGCTCTGACCTTTAGCGGCGTTTATGAGAAAGA-GTCGTTAATGCTCTGACCTTTA
1 CGCCGCTAATGCTCTAACCTTTAGCAGCGTTTATGAGAAA-ACGCCGTTAATGCTCTAACCTTTA
*
55594856 GCGGCGTTT-T-TCCATAAGCACCGTTAATGCTCAGACCTTTAGCAGCGTTT
65 GCGGCGTTTATGT-CA-AAGCACCGCTAATGCTCAGACCTTTAGCAGCGTTT
55594906 TTTTAATAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
121 1 0.01
122 2 0.02
123 94 0.96
124 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.32
Consensus pattern (123 bp):
CGCCGCTAATGCTCTAACCTTTAGCAGCGTTTATGAGAAAACGCCGTTAATGCTCTAACCTTTAG
CGGCGTTTATGTCAAAGCACCGCTAATGCTCAGACCTTTAGCAGCGTTTATGAGAAAG
Found at i:55594963 original size:40 final size:41
Alignment explanation
Indices: 55594900--55594988 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 41
55594890 ACCTTTAGCA
* * * *
55594900 GCGTTTTTTTAATAAACGCCGCTATTGGTTTAGC-TTTTGCG
1 GCGTTTATTTAATAAACGCCGCTATTGCTTTA-CATGTTACG
55594941 GCGTTTATTTAA-AAACGCCGCTATTGCTTTACATGTTACG
1 GCGTTTATTTAATAAACGCCGCTATTGCTTTACATGTTACG
55594981 GCGTTTAT
1 GCGTTTAT
55594989 GCAAAAAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.02
40 31 0.72
41 11 0.26
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (41 bp):
GCGTTTATTTAATAAACGCCGCTATTGCTTTACATGTTACG
Found at i:55595023 original size:40 final size:40
Alignment explanation
Indices: 55594933--55595026 Score: 98
Period size: 40 Copynumber: 2.4 Consensus size: 40
55594923 ATTGGTTTAG
** ** **
55594933 CTTTTGCGGCGTTTATTTAAAAACGCCGCTATTGCTTTAC
1 CTTTTGCGGCGTTTATGCAAAAAAACCGCTATTGCAATAC
* * * *
55594973 ATGTTACGGCGTTTATGCAAAAAAACTGCTATTGCAATAC
1 CTTTTGCGGCGTTTATGCAAAAAAACCGCTATTGCAATAC
55595013 CTTTTGCGGCGTTT
1 CTTTTGCGGCGTTT
55595027 TCTGTCAAAA
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.37
Consensus pattern (40 bp):
CTTTTGCGGCGTTTATGCAAAAAAACCGCTATTGCAATAC
Found at i:55601582 original size:21 final size:21
Alignment explanation
Indices: 55601540--55601589 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
55601530 TGACAGTCCC
*
55601540 ACCGATACAAGTGACACATCT
1 ACCGATACAAGTCACACATCT
** *
55601561 ACCGATACAAGTCATTCTTCT
1 ACCGATACAAGTCACACATCT
55601582 ACCGATAC
1 ACCGATAC
55601590 TAAAAACTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (21 bp):
ACCGATACAAGTCACACATCT
Found at i:55605235 original size:7 final size:7
Alignment explanation
Indices: 55605219--55605301 Score: 89
Period size: 7 Copynumber: 12.1 Consensus size: 7
55605209 CATTGACTGG
*
55605219 CCGTTAA
1 CCGTTGA
55605226 CCGTTGA
1 CCGTTGA
55605233 CCGTTGA
1 CCGTTGA
* *
55605240 TCGTTAA
1 CCGTTGA
55605247 CCGTTGA
1 CCGTTGA
55605254 CCGTTGA
1 CCGTTGA
*
55605261 -CTTTGA
1 CCGTTGA
*
55605267 CCATTGA
1 CCGTTGA
*
55605274 CCATTGA
1 CCGTTGA
*
55605281 -CTTTGA
1 CCGTTGA
55605287 CCGTTGA
1 CCGTTGA
55605294 CCGTTGA
1 CCGTTGA
55605301 C
1 C
55605302 ATTTTCGCAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
6 10 0.15
7 55 0.85
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (7 bp):
CCGTTGA
Found at i:55605275 original size:20 final size:20
Alignment explanation
Indices: 55605225--55605301 Score: 109
Period size: 20 Copynumber: 3.8 Consensus size: 20
55605215 CTGGCCGTTA
* *
55605225 ACCGTTGACCGTTGATCGTTA
1 ACCGTTGACCGTTGA-CTTTG
55605246 ACCGTTGACCGTTGACTTTG
1 ACCGTTGACCGTTGACTTTG
* *
55605266 ACCATTGACCATTGACTTTG
1 ACCGTTGACCGTTGACTTTG
55605286 ACCGTTGACCGTTGAC
1 ACCGTTGACCGTTGAC
55605302 ATTTTCGCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
20 35 0.70
21 15 0.30
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.32
Consensus pattern (20 bp):
ACCGTTGACCGTTGACTTTG
Found at i:55608087 original size:28 final size:28
Alignment explanation
Indices: 55608034--55608087 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
55608024 TCTTTAGAGG
* *
55608034 TTATCCCTATCCTCCTACTGGGTCGTAA
1 TTATCCCTATCCTCCTACTAGATCGTAA
*
55608062 TTATCCTTATCCTCCTACTAGATCGT
1 TTATCCCTATCCTCCTACTAGATCGT
55608088 TTATGCAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.19, C:0.31, G:0.11, T:0.39
Consensus pattern (28 bp):
TTATCCCTATCCTCCTACTAGATCGTAA
Found at i:55612522 original size:15 final size:15
Alignment explanation
Indices: 55612502--55612535 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
55612492 ACCTTTAAGC
55612502 CCAAACCCAATTGAA
1 CCAAACCCAATTGAA
*
55612517 CCAAACCCATTTGAA
1 CCAAACCCAATTGAA
55612532 CCAA
1 CCAA
55612536 GACCAAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.35, G:0.06, T:0.15
Consensus pattern (15 bp):
CCAAACCCAATTGAA
Found at i:55612600 original size:7 final size:7
Alignment explanation
Indices: 55612590--55612658 Score: 65
Period size: 7 Copynumber: 10.4 Consensus size: 7
55612580 ACCATTAACC
55612590 GACCGTT
1 GACCGTT
55612597 GACCG-T
1 GACCGTT
55612603 --CCGTT
1 GACCGTT
55612608 GACCGTT
1 GACCGTT
*
55612615 GACCCTT
1 GACCGTT
*
55612622 GATCGTT
1 GACCGTT
55612629 GACCGTT
1 GACCGTT
*
55612636 GA-CTTT
1 GACCGTT
*
55612642 GACTGTT
1 GACCGTT
*
55612649 GACCATT
1 GACCGTT
55612656 GAC
1 GAC
55612659 TTTTTCGCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
4 3 0.06
5 1 0.02
6 6 0.12
7 39 0.80
ACGTcount: A:0.16, C:0.28, G:0.25, T:0.32
Consensus pattern (7 bp):
GACCGTT
Found at i:55612612 original size:22 final size:22
Alignment explanation
Indices: 55612557--55612600 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
55612547 AACCAAGTCA
55612557 AACCATTGACCGACCGTTGACC
1 AACCATTGACCGACCGTTGACC
*
55612579 AACCATTAACCGACCGTTGACC
1 AACCATTGACCGACCGTTGACC
55612601 GTCCGTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.36, G:0.16, T:0.18
Consensus pattern (22 bp):
AACCATTGACCGACCGTTGACC
Found at i:55612613 original size:11 final size:11
Alignment explanation
Indices: 55612562--55612612 Score: 66
Period size: 11 Copynumber: 4.6 Consensus size: 11
55612552 AGTCAAACCA
55612562 TTGACCGACCG
1 TTGACCGACCG
* *
55612573 TTGACCAACCA
1 TTGACCGACCG
*
55612584 TTAACCGACCG
1 TTGACCGACCG
*
55612595 TTGACCGTCCG
1 TTGACCGACCG
55612606 TTGACCG
1 TTGACCG
55612613 TTGACCCTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.22
Consensus pattern (11 bp):
TTGACCGACCG
Found at i:55612649 original size:20 final size:20
Alignment explanation
Indices: 55612604--55612661 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
55612594 GTTGACCGTC
*
55612604 CGTTGACCGTTGACCCTTGAT
1 CGTTGACCGTTGA-CTTTGAT
55612625 CGTTGACCGTTGACTTTGA-
1 CGTTGACCGTTGACTTTGAT
*
55612644 CTGTTGACCATTGACTTT
1 C-GTTGACCGTTGACTTT
55612662 TTCGCAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 1 0.03
20 20 0.59
21 13 0.38
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (20 bp):
CGTTGACCGTTGACTTTGAT
Found at i:55613714 original size:20 final size:21
Alignment explanation
Indices: 55613689--55613732 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
55613679 TAGTTGAAAA
55613689 ATTTATAATATTT-TTATT-TT
1 ATTTAT-ATATTTATTATTATT
*
55613709 ATTTATTTATTTATTATTATT
1 ATTTATATATTTATTATTATT
55613730 ATT
1 ATT
55613733 ATTTTGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 11 0.52
21 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTATATATTTATTATTATT
Found at i:55613834 original size:20 final size:22
Alignment explanation
Indices: 55613795--55613836 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
55613785 TTGTAATATA
*
55613795 ATTTTATTTTGGGACTTTTAAT
1 ATTTTATTTTGGGACGTTTAAT
55613817 ATTTT-TTTTGGGA-GTTTAAT
1 ATTTTATTTTGGGACGTTTAAT
55613837 TACTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 8 0.42
22 5 0.26
ACGTcount: A:0.21, C:0.02, G:0.17, T:0.60
Consensus pattern (22 bp):
ATTTTATTTTGGGACGTTTAAT
Found at i:55613846 original size:21 final size:21
Alignment explanation
Indices: 55613798--55613846 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
55613788 TAATATAATT
* *
55613798 TTATTTTGGGACTTTTAATAT
1 TTATTTTGGGACGTTTAATAC
*
55613819 TTTTTTTGGGA-GTTTAATTAC
1 TTATTTTGGGACGTTTAA-TAC
55613840 TTATTTT
1 TTATTTT
55613847 ATTATTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.20, C:0.04, G:0.14, T:0.61
Consensus pattern (21 bp):
TTATTTTGGGACGTTTAATAC
Found at i:55645153 original size:5 final size:5
Alignment explanation
Indices: 55645145--55645175 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
55645135 ATAAAATAAA
55645145 AAATT AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT AAATT A
55645176 TGAGTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:55653549 original size:19 final size:20
Alignment explanation
Indices: 55653507--55653549 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
55653497 TCAGGGTGTC
* *
55653507 GGTTTCAATTTACGATTTCA
1 GGTTTCAATTTACAATTTAA
55653527 -GTTTCAATTT-CAATTTAA
1 GGTTTCAATTTACAATTTAA
55653545 GGTTT
1 GGTTT
55653550 TGAATTGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.49
Consensus pattern (20 bp):
GGTTTCAATTTACAATTTAA
Found at i:55653587 original size:19 final size:19
Alignment explanation
Indices: 55653545--55653587 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
55653535 TTCAATTTAA
55653545 GGTTTTGAATTGAGATTTT
1 GGTTTTGAATTGAGATTTT
* *
55653564 AGTTTTGATTTG-GAGTTTT
1 GGTTTTGAATTGAGA-TTTT
55653583 GGTTT
1 GGTTT
55653588 AGGGATTGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (19 bp):
GGTTTTGAATTGAGATTTT
Found at i:55658966 original size:6 final size:6
Alignment explanation
Indices: 55658955--55658980 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
55658945 CTTTTTTCTC
55658955 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
55658981 TCCTCCCTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:55661904 original size:15 final size:16
Alignment explanation
Indices: 55661880--55661912 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
55661870 AGGCTAGTTT
55661880 AACAAAAGAAAA-AAA
1 AACAAAAGAAAACAAA
*
55661895 AACAACAGAAAACAAA
1 AACAAAAGAAAACAAA
55661911 AA
1 AA
55661913 AGCCGAACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (16 bp):
AACAAAAGAAAACAAA
Found at i:55668616 original size:24 final size:24
Alignment explanation
Indices: 55668434--55668612 Score: 178
Period size: 24 Copynumber: 7.5 Consensus size: 24
55668424 ATTGTTGAAT
55668434 AGCGTAAACGTGTGCAAGCTGACG
1 AGCGTAAACGTGTGCAAGCTGACG
* * *
55668458 AGCGTAAACGTATGTAAGCTAACG
1 AGCGTAAACGTGTGCAAGCTGACG
* * * *
55668482 AGCATAAACATGTGCTAGCTGATG
1 AGCGTAAACGTGTGCAAGCTGACG
* ** *
55668506 AACGTAAAATTTTGCAAGCTGACG
1 AGCGTAAACGTGTGCAAGCTGACG
* *
55668530 AGCGTAAACGTGTACAAGCTAACG
1 AGCGTAAACGTGTGCAAGCTGACG
** *
55668554 AATGTAAATGTGTGCAAGCTGACG
1 AGCGTAAACGTGTGCAAGCTGACG
* ** *
55668578 AGCGTAAACGTATATAAGCTAACG
1 AGCGTAAACGTGTGCAAGCTGACG
55668602 AGCGTAAACGT
1 AGCGTAAACGT
55668613 ATATGAGTTG
Statistics
Matches: 120, Mismatches: 35, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 120 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (24 bp):
AGCGTAAACGTGTGCAAGCTGACG
Found at i:55672019 original size:22 final size:22
Alignment explanation
Indices: 55671991--55672062 Score: 83
Period size: 22 Copynumber: 3.1 Consensus size: 22
55671981 CACACTTACC
55671991 GTTCAGCACTGTGTGTGCTTCT
1 GTTCAGCACTGTGTGTGCTTCT
*
55672013 GTTCAGCACTGTGTGTGCCTACT
1 GTTCAGCACTGTGTGTG-CTTCT
*
55672036 GTTTCCCAGCACT-TATGTGCTTCT
1 G-TT--CAGCACTGTGTGTGCTTCT
55672060 GTT
1 GTT
55672063 TCTCCAGCAC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 17 0.40
23 7 0.16
24 7 0.16
25 5 0.12
26 7 0.16
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.40
Consensus pattern (22 bp):
GTTCAGCACTGTGTGTGCTTCT
Found at i:55672064 original size:24 final size:25
Alignment explanation
Indices: 55671994--55672087 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 25
55671984 ACTTACCGTT
*
55671994 CAGCACTGTGTGTGCTTCTG-TT--
1 CAGCACTGTATGTGCTTCTGTTTCC
* *
55672016 CAGCACTGTGTGTGCCTACTGTTTCC
1 CAGCACTGTATGTG-CTTCTGTTTCC
55672042 CAGCACT-TATGTGCTTCTGTTTCTC
1 CAGCACTGTATGTGCTTCTGTTTC-C
* *
55672067 CAGCACT-TATGCGTTTCTGTT
1 CAGCACTGTATGTGCTTCTGTT
55672088 AAGTACTTCG
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
22 14 0.23
23 5 0.08
24 11 0.18
25 25 0.40
26 7 0.11
ACGTcount: A:0.12, C:0.27, G:0.21, T:0.40
Consensus pattern (25 bp):
CAGCACTGTATGTGCTTCTGTTTCC
Found at i:55678218 original size:25 final size:25
Alignment explanation
Indices: 55678179--55678275 Score: 124
Period size: 25 Copynumber: 3.8 Consensus size: 25
55678169 TGCTTCTGTT
* *
55678179 CAGCACTGTGTGTGCCTACTGTTTC-C
1 CAGCACT-TATGTG-CTTCTGTTTCTC
*
55678205 CAACACTTATGTGCTTCTGTTTCTC
1 CAGCACTTATGTGCTTCTGTTTCTC
55678230 CAGCACTTATGTGCTTCTGTTTCTC
1 CAGCACTTATGTGCTTCTGTTTCTC
* *
55678255 CAGCACTTATGCGTTTCTGTT
1 CAGCACTTATGTGCTTCTGTT
55678276 AAGTACTTCG
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.14
25 49 0.77
26 6 0.09
ACGTcount: A:0.13, C:0.28, G:0.18, T:0.41
Consensus pattern (25 bp):
CAGCACTTATGTGCTTCTGTTTCTC
Found at i:55686740 original size:6 final size:6
Alignment explanation
Indices: 55686729--55686758 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
55686719 GGCCTGTCCT
55686729 CCAGAA CCAGAA CCAGAA CCAGAA CCAGAA
1 CCAGAA CCAGAA CCAGAA CCAGAA CCAGAA
55686759 GAGCTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.33, G:0.17, T:0.00
Consensus pattern (6 bp):
CCAGAA
Found at i:55688099 original size:17 final size:18
Alignment explanation
Indices: 55688067--55688100 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
55688057 AAAATAAAAA
*
55688067 ATTTGAATTTAAAAATAG
1 ATTTGAATTAAAAAATAG
55688085 ATTTGAA-TAAAAAATA
1 ATTTGAATTAAAAAATA
55688101 AGACACATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (18 bp):
ATTTGAATTAAAAAATAG
Found at i:55695419 original size:58 final size:59
Alignment explanation
Indices: 55695328--55695669 Score: 345
Period size: 59 Copynumber: 5.8 Consensus size: 59
55695318 GAAAATTTTA
* ** * * * *
55695328 GGTTAAAAATGGGATTTTAG-AAGATTCGAGGGTAAAGTGATAATTTTCGATGAAATTAG
1 GGTTAAAAATGGGATTTTGGAAAG-TTTAAGGGTAAAATGGTAATTTTTGATGAAATCAG
*
55695387 GGTT-AAAATAGGG-TTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTTGATGAAATCGG
1 GGTTAAAAAT-GGGATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTTGATGAAATCAG
* *
55695445 GGTTAAAAATGGGATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGATGAAATCGG
1 GGTTAAAAATGGGATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTTGATGAAATCAG
* * * * * *** * * *
55695504 GGCTAAAAATAGAATTTTAGAATGTTCGGGGGTAAAATGGTAATTTTGGGTGCAATC-G
1 GGTTAAAAATGGGATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTTGATGAAATCAG
* ** *
55695562 AGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAAT-AG
1 -GGTTAAAAATGGGATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTTGATGAAATCAG
* * * *
55695621 GAGTTAAAAATGGAATTTTAGAAAGTTT-GGGGTAAAATAGTAATTTTTG
1 G-GTTAAAAATGGGATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTTG
55695670 GAAGTTTCGG
Statistics
Matches: 248, Mismatches: 28, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
58 67 0.27
59 181 0.73
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.34
Consensus pattern (59 bp):
GGTTAAAAATGGGATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTTGATGAAATCAG
Found at i:55695432 original size:29 final size:29
Alignment explanation
Indices: 55695400--55695740 Score: 119
Period size: 30 Copynumber: 11.6 Consensus size: 29
55695390 TAAAATAGGG
*
55695400 TTTTGGAAAGTTTAAGGGTAAAATGGTAA
1 TTTTGGAAAGTTTAGGGGTAAAATGGTAA
* *
55695429 TTTTTGATGAAA---TCGGGGTTAAAAATGG-GA
1 -TTTTG--GAAAGTTTAGGGG-T-AAAATGGTAA
55695459 TTTTGGAAAGTTTAGGGGTAAAATGGTAA
1 TTTTGGAAAGTTTAGGGGTAAAATGGTAA
* *
55695488 TTTTTGATGAAA---TCGGGGCTAAAAATAG-AA
1 -TTTTG--GAAAGTTTAGGGG-T-AAAATGGTAA
* * **
55695518 TTTTAGAATGTTCGGGGGTAAAATGGTAA
1 TTTTGGAAAGTTTAGGGGTAAAATGGTAA
* ** *
55695547 TTTTGGGTGCAA-TCGA-GGTTAAAAATGG-AA
1 TTTT--G-GAAAGTTTAGGGGT-AAAATGGTAA
*
55695577 TTTTGGAAAGTTTGGGGGTAAAATGGTAA
1 TTTTGGAAAGTTTAGGGGTAAAATGGTAA
*
55695606 TTTTTGGTGAAA---TAGGAGTTAAAAATGG-AA
1 -TTTT-G-GAAAGTTTAGG-GGT-AAAATGGTAA
* *
55695636 TTTTAGAAAGTTT-GGGGTAAAATAGTAA
1 TTTTGGAAAGTTTAGGGGTAAAATGGTAA
*
55695664 TTTTTGG-AAGTTTCGGGGTTAAAAT-GTAA
1 -TTTTGGAAAGTTTAGGGG-TAAAATGGTAA
** *
55695693 TTTTTTAAAGTTTTA-GGGTCAAAAAT-TTAA
1 TTTTGGAAAG-TTTAGGGGT--AAAATGGTAA
*
55695723 TTTTTGGACAGTTTAGGG
1 -TTTTGGAAAGTTTAGGG
55695741 ACCTGTAAGC
Statistics
Matches: 232, Mismatches: 37, Indels: 83
0.66 0.11 0.24
Matches are distributed among these distances:
27 20 0.09
28 37 0.16
29 60 0.26
30 63 0.27
31 38 0.16
32 14 0.06
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.36
Consensus pattern (29 bp):
TTTTGGAAAGTTTAGGGGTAAAATGGTAA
Found at i:55695665 original size:28 final size:29
Alignment explanation
Indices: 55695563--55695728 Score: 101
Period size: 29 Copynumber: 5.7 Consensus size: 29
55695553 GTGCAATCGA
* *
55695563 GGTTAAAAATGGAATTTTGGAAAGTTT-GG
1 GGTT-AAAATGTAATTTTTGAAAGTTTCGG
* *
55695592 GGGTAAAATGGTAATTTTTGGTGAAA---TAGG
1 GGTTAAAAT-GTAA-TTTT--TGAAAGTTTCGG
* * *
55695622 AGTTAAAAATGGAATTTTAGAAAGTTT-GG
1 GGTT-AAAATGTAATTTTTGAAAGTTTCGG
*
55695651 GG-TAAAATAGTAATTTTTGGAAGTTTCGG
1 GGTTAAAAT-GTAATTTTTGAAAGTTTCGG
* **
55695680 GGTTAAAATGTAATTTTTTAAAGTTTTAG
1 GGTTAAAATGTAATTTTTGAAAGTTTCGG
* *
55695709 GGTCAAAAATTTAATTTTTG
1 GGT-TAAAATGTAATTTTTG
55695729 GACAGTTTAG
Statistics
Matches: 106, Mismatches: 18, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
27 9 0.08
28 20 0.19
29 37 0.35
30 31 0.29
31 5 0.05
32 4 0.04
ACGTcount: A:0.35, C:0.01, G:0.25, T:0.39
Consensus pattern (29 bp):
GGTTAAAATGTAATTTTTGAAAGTTTCGG
Found at i:55695669 original size:118 final size:117
Alignment explanation
Indices: 55695327--55695671 Score: 403
Period size: 118 Copynumber: 2.9 Consensus size: 117
55695317 GGAAAATTTT
* * * * * *
55695327 AGGTTAAAAATGGGATTTTAG-AAGATTCGAGGGTAAAGTGATAATTTTCGATGAAATTAGGGTT
1 AGGTTAAAAATGGGATTTTGGAAAG-TTTGGGGGTAAAATGGTAATTTTTGATGAAA-TAGGGTT
* * *
55695391 -AAAATAGG-GTTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTT-GATGAAATCG
64 AAAAAT-GGAATTTTAGAAAGTTT-GGGGTAAAATGGTAATTTTTGGATGAAATCG
* * * *
55695444 GGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGATGAAATCGGGGCTA
1 AGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGATGAAAT-AGGGTTA
* * * * *
55695509 AAAATAGAATTTTAGAATGTTCGGGGGTAAAATGGTAA-TTTTGGGTGCAATCG
65 AAAATGGAATTTTAGAAAGTT-TGGGGTAAAATGGTAATTTTTGGATGAAATCG
* *
55695562 AGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATAGGAGTTA
1 AGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGATGAAATAGG-GTTA
*
55695627 AAAATGGAATTTTAGAAAGTTTGGGGTAAAATAGTAATTTTTGGA
65 AAAATGGAATTTTAGAAAGTTTGGGGTAAAATGGTAATTTTTGGA
55695672 AGTTTCGGGG
Statistics
Matches: 191, Mismatches: 29, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
116 1 0.01
117 69 0.36
118 121 0.63
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (117 bp):
AGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGATGAAATAGGGTTAA
AAATGGAATTTTAGAAAGTTTGGGGTAAAATGGTAATTTTTGGATGAAATCG
Found at i:55695718 original size:118 final size:116
Alignment explanation
Indices: 55695328--55695729 Score: 352
Period size: 118 Copynumber: 3.4 Consensus size: 116
55695318 GAAAATTTTA
* * ** * * * *
55695328 GGTTAAAAATGGGATTTTAG-AAGATTCGAGGGTAAAGTGATAATTTTCGATGAAATTAGG-G-T
1 GGTTAAAAATGGAATTTTGGAAAG-TTTTAGGGTAAAATGGTAATTTTTGGTGAAA-TAGGAGCT
* ** * *
55695390 TAAAATAGGGTTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTTGATGAA-ATCGG
64 AAAAATAGAATTTTAGAAAGTTT-GGGGTAAAATGGTAATTTTTG--GAAGATCGG
* * * *
55695445 GGTTAAAAATGGGATTTTGGAAAG-TTTAGGGGTAAAATGGTAATTTTTGATGAAATCGGGGCTA
1 GGTTAAAAATGGAATTTTGGAAAGTTTTA-GGGTAAAATGGTAATTTTTGGTGAAATAGGAGCTA
* * ** *
55695509 AAAATAGAATTTTAGAATGTTCGGGGGTAAAATGGTAA-TTTTGGGTGCAATCGA
65 AAAATAGAATTTTAGAAAGTT-TGGGGTAAAATGGTAATTTTTGGAAG--ATCGG
** *
55695563 GGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATAGGAGTTAA
1 GGTTAAAAATGGAATTTTGGAAAGTTTTAGGGTAAAATGGTAATTTTTGGTGAAATAGGAGCTAA
* * *
55695628 AAATGGAATTTTAGAAAGTTTGGGGTAAAATAGTAATTTTTGGAAGTTTCGG
66 AAATAGAATTTTAGAAAGTTTGGGGTAAAATGGTAATTTTTGGAAG-ATCGG
* ** *
55695680 GGTT-AAAATGTAATTTTTTAAAGTTTTAGGGTCAAAAAT-TTAATTTTTGG
1 GGTTAAAAATGGAATTTTGGAAAGTTTTAGGGT--AAAATGGTAATTTTTGG
55695730 ACAGTTTAGG
Statistics
Matches: 234, Mismatches: 39, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
115 1 0.00
116 28 0.12
117 79 0.34
118 124 0.53
119 2 0.01
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.35
Consensus pattern (116 bp):
GGTTAAAAATGGAATTTTGGAAAGTTTTAGGGTAAAATGGTAATTTTTGGTGAAATAGGAGCTAA
AAATAGAATTTTAGAAAGTTTGGGGTAAAATGGTAATTTTTGGAAGATCGG
Found at i:55697673 original size:17 final size:16
Alignment explanation
Indices: 55697653--55697684 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
55697643 AATTTTGTGC
55697653 AAATTTAAATTTAAAAT
1 AAATTT-AATTTAAAAT
55697670 AAATTTAATTTAAAA
1 AAATTTAATTTAAAA
55697685 CCAAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTTAATTTAAAAT
Found at i:55697690 original size:17 final size:16
Alignment explanation
Indices: 55697652--55697693 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
55697642 AAATTTTGTG
55697652 CAAATTTAAATTTAAAA
1 CAAATTT-AATTTAAAA
*
55697669 TAAATTTAATTTAAAA
1 CAAATTTAATTTAAAA
55697685 CCAAATTTA
1 -CAAATTTA
55697694 TCTCATTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (16 bp):
CAAATTTAATTTAAAA
Found at i:55699531 original size:22 final size:22
Alignment explanation
Indices: 55699488--55699532 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
55699478 TAATATTTAC
*
55699488 ATTTTTTAAATCCATCCTTATTT
1 ATTTTTTAAATCCAT-CGTATTT
55699511 ATTTTTTAAATTCCAT-GTATTT
1 ATTTTTTAAA-TCCATCGTATTT
55699533 TTAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 10 0.50
24 5 0.25
ACGTcount: A:0.27, C:0.13, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTTTAAATCCATCGTATTT
Found at i:55701193 original size:14 final size:14
Alignment explanation
Indices: 55701154--55701193 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 14
55701144 TTTGAAAATT
55701154 TGAAA-TATAAAGA
1 TGAAAGTATAAAGA
55701167 TGAAAGTTATAAAGA
1 TGAAAG-TATAAAGA
55701182 TGAAAGTATAAA
1 TGAAAGTATAAA
55701194 CTTAGTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 14 0.56
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.25
Consensus pattern (14 bp):
TGAAAGTATAAAGA
Found at i:55703085 original size:169 final size:170
Alignment explanation
Indices: 55702796--55703144 Score: 592
Period size: 169 Copynumber: 2.1 Consensus size: 170
55702786 TACTTGTTTT
* *
55702796 TTTTAACAAAATAAAACTCATACATTTATAAGGGATAAACTTAAAACAGGAACATTAAAAGCTGC
1 TTTT-ACAATATAAAACTCATACATTTATAAGGGATAAACTTAAAACAAGAACATTAAAAGCTGC
* *
55702861 TTCCGTGAAATTATTATTTATTATATTCATTTTTGGGCACTTGGACTTTAGTATGGTATTTAAAT
65 TTCCGTGAAATTAATATTTATTATATTCATTTTTGGGCACTTGAACTTTAGTATGGTATTTAAAT
* *
55702926 GATTTATTTTGAATTATTTATGA-TTTTTTTTTGTAAAATG
130 GATTTATTTTGAATTATTTATGATTTTTTTTTTGCAAAAGG
* * *
55702966 TTTTGCAATATAAAACTCATGCATTTATAAGGGATAAACTTAAAACAAGAATATTAAAAGCTGCT
1 TTTTACAATATAAAACTCATACATTTATAAGGGATAAACTTAAAACAAGAACATTAAAAGCTGCT
*
55703031 TCCGTGAAATTAATATTTATTATATTCATTTTTGGGTACTTGAACTTTAGTATGGTATTTAAATG
66 TCCGTGAAATTAATATTTATTATATTCATTTTTGGGCACTTGAACTTTAGTATGGTATTTAAATG
55703096 ATTTATTTTGAATTATTTATGATTTTTTTTTTGCAAAAGG
131 ATTTATTTTGAATTATTTATGATTTTTTTTTTGCAAAAGG
55703136 TTTTACAAT
1 TTTTACAAT
55703145 CGATCTAATT
Statistics
Matches: 167, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
169 140 0.84
170 27 0.16
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.44
Consensus pattern (170 bp):
TTTTACAATATAAAACTCATACATTTATAAGGGATAAACTTAAAACAAGAACATTAAAAGCTGCT
TCCGTGAAATTAATATTTATTATATTCATTTTTGGGCACTTGAACTTTAGTATGGTATTTAAATG
ATTTATTTTGAATTATTTATGATTTTTTTTTTGCAAAAGG
Found at i:55707814 original size:7 final size:7
Alignment explanation
Indices: 55707804--55707980 Score: 63
Period size: 7 Copynumber: 26.4 Consensus size: 7
55707794 CTCGAGGCTC
55707804 GGGTTTA
1 GGGTTTA
55707811 GGGTTTA
1 GGGTTTA
* *
55707818 GGATTTT
1 GGGTTTA
55707825 GGGATTTTA
1 GGG--TTTA
* *
55707834 AGG-TTG
1 GGGTTTA
**
55707840 GGGTTGG
1 GGGTTTA
* *
55707847 GGGCTTG
1 GGGTTTA
55707854 GGGTTTA
1 GGGTTTA
* *
55707861 GGGGTTG
1 GGGTTTA
*
55707868 GGGCTT-
1 GGGTTTA
55707874 GGGTTGT-
1 GGGTT-TA
55707881 G-GTTT-
1 GGGTTTA
55707886 GGGATTTA
1 GGG-TTTA
*
55707894 GGGTTTT
1 GGGTTTA
55707901 GGG-TT-
1 GGGTTTA
*
55707906 GGGGTTA
1 GGGTTTA
*
55707913 GGGTTTT
1 GGGTTTA
55707920 GGGTTTA
1 GGGTTTA
*
55707927 GGG-TTG
1 GGGTTTA
55707933 GGGTTTA
1 GGGTTTA
*
55707940 AGGTTT-
1 GGGTTTA
55707946 GGG-TT-
1 GGGTTTA
55707951 -GGTTTA
1 GGGTTTA
*
55707957 GGGCTTA
1 GGGTTTA
*
55707964 GGGCTTA
1 GGGTTTA
*
55707971 GGGCTTA
1 GGGTTTA
55707978 GGG
1 GGG
55707981 CTACGGGCTT
Statistics
Matches: 132, Mismatches: 25, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
4 2 0.02
5 9 0.07
6 23 0.17
7 90 0.68
8 3 0.02
9 5 0.04
ACGTcount: A:0.10, C:0.03, G:0.48, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:55707894 original size:33 final size:33
Alignment explanation
Indices: 55707835--55707937 Score: 97
Period size: 33 Copynumber: 3.1 Consensus size: 33
55707825 GGGATTTTAA
* * *
55707835 GGTTGGGGTTGGGGGCTTGGGGTTTAGGGGTTGG
1 GGTTGGGGTT-AGGGTTTTGGGTTTAGGGGTTGG
* *
55707869 GGCTT-GGGTT-GTGG-TTTGGGATTTAGGGTTTTG
1 GG-TTGGGGTTAG-GGTTTTGGG-TTTAGGGGTTGG
55707902 GGTTGGGGTTAGGGTTTTGGGTTTA-GGGTTGG
1 GGTTGGGGTTAGGGTTTTGGGTTTAGGGGTTGG
55707934 GGTT
1 GGTT
55707938 TAAGGTTTGG
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
32 17 0.29
33 25 0.43
34 14 0.24
35 2 0.03
ACGTcount: A:0.05, C:0.02, G:0.53, T:0.40
Consensus pattern (33 bp):
GGTTGGGGTTAGGGTTTTGGGTTTAGGGGTTGG
Found at i:55707897 original size:20 final size:19
Alignment explanation
Indices: 55707862--55707924 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
55707852 TGGGGTTTAG
55707862 GGGTTGGGGCTT-GGGTTGT
1 GGGTTGGGG-TTAGGGTTGT
* * *
55707881 GGTTTGGGATTTAGGGTTTT
1 GGGTTGGG-GTTAGGGTTGT
*
55707901 GGGTTGGGGTTAGGGTTTT
1 GGGTTGGGGTTAGGGTTGT
55707920 GGGTT
1 GGGTT
55707925 TAGGGTTGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 24 0.65
20 13 0.35
ACGTcount: A:0.05, C:0.02, G:0.51, T:0.43
Consensus pattern (19 bp):
GGGTTGGGGTTAGGGTTGT
Found at i:55707915 original size:19 final size:19
Alignment explanation
Indices: 55707862--55707938 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
55707852 TGGGGTTTAG
*
55707862 GGGTTGGGGCTT-GGGTTGT
1 GGGTTGGGG-TTAGGGTTTT
* *
55707881 GGTTTGGGATTTAGGGTTTT
1 GGGTTGGG-GTTAGGGTTTT
55707901 GGGTTGGGGTTAGGGTTTT
1 GGGTTGGGGTTAGGGTTTT
* *
55707920 GGGTTTAGGGTTGGGGTTT
1 GGG-TTGGGGTTAGGGTTT
55707939 AAGGTTTGGG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 22 0.46
20 26 0.54
ACGTcount: A:0.05, C:0.01, G:0.51, T:0.43
Consensus pattern (19 bp):
GGGTTGGGGTTAGGGTTTT
Found at i:55707930 original size:26 final size:26
Alignment explanation
Indices: 55707851--55707950 Score: 98
Period size: 26 Copynumber: 3.8 Consensus size: 26
55707841 GGTTGGGGGC
* * *
55707851 TTGGGGTTTAGGGGTTGGGGCTTGGG
1 TTGGGGTTTAGGGTTTTGGGTTTGGG
* *
55707877 TTGTGGTTT-GGGATTTAGGGTTTTGGG
1 TTGGGGTTTAGGG-TTTTGGG-TTTGGG
55707904 TTGGGG-TTAGGGTTTTGGGTTTAGGG
1 TTGGGGTTTAGGGTTTTGGGTTT-GGG
*
55707930 TTGGGGTTTAAGG-TTTGGGTT
1 TTGGGGTTTAGGGTTTTGGGTT
55707951 GGTTTAGGGC
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
25 6 0.10
26 38 0.61
27 18 0.29
ACGTcount: A:0.07, C:0.01, G:0.49, T:0.43
Consensus pattern (26 bp):
TTGGGGTTTAGGGTTTTGGGTTTGGG
Found at i:55708047 original size:7 final size:7
Alignment explanation
Indices: 55707957--55708057 Score: 139
Period size: 7 Copynumber: 14.4 Consensus size: 7
55707947 GGTTGGTTTA
*
55707957 GGGCTTA
1 GGGCTTC
*
55707964 GGGCTTA
1 GGGCTTC
*
55707971 GGGCTTA
1 GGGCTTC
*
55707978 GGGCTAC
1 GGGCTTC
*
55707985 GGGCTTA
1 GGGCTTC
55707992 GGGCTTC
1 GGGCTTC
55707999 GGGCTTC
1 GGGCTTC
55708006 GGGCTTC
1 GGGCTTC
55708013 GGGCTTC
1 GGGCTTC
*
55708020 GGGCTAC
1 GGGCTTC
55708027 GGGCTTC
1 GGGCTTC
55708034 GGGCTTC
1 GGGCTTC
55708041 GGGCTTC
1 GGGCTTC
*
55708048 GGGGTTC
1 GGGCTTC
55708055 GGG
1 GGG
55708058 TCTCGGGTCT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 86 1.00
ACGTcount: A:0.06, C:0.23, G:0.46, T:0.26
Consensus pattern (7 bp):
GGGCTTC
Found at i:55708063 original size:7 final size:7
Alignment explanation
Indices: 55708049--55708100 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
55708039 TCGGGCTTCG
55708049 GGGT-TC
1 GGGTCTC
55708055 GGGTCTC
1 GGGTCTC
55708062 GGGTCTC
1 GGGTCTC
55708069 GGGTCTC
1 GGGTCTC
* *
55708076 GGGTTTG
1 GGGTCTC
* *
55708083 GGGTTTG
1 GGGTCTC
55708090 GGGTCTC
1 GGGTCTC
55708097 GGGT
1 GGGT
55708101 TTAGGGTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
6 4 0.10
7 37 0.90
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (7 bp):
GGGTCTC
Done.