Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 24 of 106
Found at i:9870885 original size:17 final size:17
Alignment explanation
Indices: 9870852--9870885 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9870842 CTAAACATTT
* *
9870852 TAAATCAATTGATTCAA
1 TAAATCAATTAAATCAA
9870869 TAAATCAATTAAATCAA
1 TAAATCAATTAAATCAA
9870886 ATTATTTTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (17 bp):
TAAATCAATTAAATCAA
Found at i:9879413 original size:8 final size:8
Alignment explanation
Indices: 9879390--9879424 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
9879380 CAATAAACTC
9879390 ATGCGTGT
1 ATGCGTGT
* *
9879398 TTGAGTGT
1 ATGCGTGT
9879406 ATGCGTGT
1 ATGCGTGT
9879414 ATGCGTGT
1 ATGCGTGT
9879422 ATG
1 ATG
9879425 ATGACATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.14, C:0.09, G:0.37, T:0.40
Consensus pattern (8 bp):
ATGCGTGT
Found at i:9881905 original size:218 final size:219
Alignment explanation
Indices: 9881516--9881955 Score: 668
Period size: 218 Copynumber: 2.0 Consensus size: 219
9881506 AAAAGAACAC
* * * *
9881516 TTGCCTGTTTGGTATTTCACCAGGAAGTTCCATGAAACGCACAGCACGATCTAGGTAGCTGGCAA
1 TTGCATGTTTCGTATTTCACCAGGAAGTTCCATGAAACGCACAGCACGATCGAAGTAGCTGGCAA
* * *
9881581 AAACAGTCTAGCATGCAAAAAACTTTAAATTAAAAAAAAAAGGTACCTTTCCACAATGTAATGCA
66 AAACAGTCTAGCATGCAAAAAACTATAAATTAAAAAAAAAAGGTACCTTTCCACAATATAATACA
* * * ** *
9881646 CTAATCTAGACAGACGGCTATGAAAATCATGAGAAGAGAACTTCGGAGTGAGAAGAAA-TCAGGA
131 CCAAGCTAGACAGAAGGCTATGAAAATCATGAGAAGAGAACTTCAAAGTGAGAACAAATTCAGGA
* *
9881710 AAATAATAAAATTTATGCGCACAG
196 AAACAATAAAATTTATGCACACAG
* *
9881734 TTGCATGTTTCGTATTTCACCAGGAAAGTTCCATGAAATGCACAGCATGATCGAAGTAGCTGGCA
1 TTGCATGTTTCGTATTTCACCAGG-AAGTTCCATGAAACGCACAGCACGATCGAAGTAGCTGGCA
* *
9881799 AAAACAGTCTAGCATGCAAAAAACTATAAATT-AAAAGAGAAGGTACCTTTCCACAATATAATAC
65 AAAACAGTCTAGCATGCAAAAAACTATAAATTAAAAAAAAAAGGTACCTTTCCACAATATAATAC
* *
9881863 ACCAAGCTAGACAGAAGGCTATGCAAATCATGGGAAGAGAACTTCAAAGTGAGAACAAATTCAGG
130 ACCAAGCTAGACAGAAGGCTATGAAAATCATGAGAAGAGAACTTCAAAGTGAGAACAAATTCAGG
9881928 AAAACAATAAAATTTATGCACACAG
195 AAAACAATAAAATTTATGCACACAG
9881953 TTG
1 TTG
9881956 GCACTTAGAT
Statistics
Matches: 199, Mismatches: 21, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
218 101 0.51
219 98 0.49
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.22
Consensus pattern (219 bp):
TTGCATGTTTCGTATTTCACCAGGAAGTTCCATGAAACGCACAGCACGATCGAAGTAGCTGGCAA
AAACAGTCTAGCATGCAAAAAACTATAAATTAAAAAAAAAAGGTACCTTTCCACAATATAATACA
CCAAGCTAGACAGAAGGCTATGAAAATCATGAGAAGAGAACTTCAAAGTGAGAACAAATTCAGGA
AAACAATAAAATTTATGCACACAG
Found at i:9882724 original size:60 final size:60
Alignment explanation
Indices: 9882610--9882729 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
9882600 TAGTTCCATT
* * * *
9882610 GCTTAAGATAGCTGTTTCCATCTGTACAAAGCCACAATGCCAATTATTAGGAAGAAAGAA
1 GCTTAAGATAGCTGTTCCCATCTGTACAAACCCACAATGCCAATAATTAAGAAGAAAGAA
* ** *
9882670 GCTTAAGATAGCTGTTCCCATCTGTACAAACCCACACTGTGAGTAATTAAGAAGAAAGAA
1 GCTTAAGATAGCTGTTCCCATCTGTACAAACCCACAATGCCAATAATTAAGAAGAAAGAA
9882730 CAGGATTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.24
Consensus pattern (60 bp):
GCTTAAGATAGCTGTTCCCATCTGTACAAACCCACAATGCCAATAATTAAGAAGAAAGAA
Found at i:9888997 original size:21 final size:22
Alignment explanation
Indices: 9888960--9889000 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9888950 CACTTTCTGT
9888960 TGATGTAGCATTGATTATGTGC
1 TGATGTAGCATTGATTATGTGC
*
9888982 TGATGTGGCA-TGATTATGT
1 TGATGTAGCATTGATTATGT
9889001 TAATGTGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.22, C:0.07, G:0.29, T:0.41
Consensus pattern (22 bp):
TGATGTAGCATTGATTATGTGC
Found at i:9889034 original size:15 final size:15
Alignment explanation
Indices: 9889014--9889045 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9889004 TGTGACAAAA
9889014 AAATGTTGACATGAC
1 AAATGTTGACATGAC
*
9889029 AAATGTTGGCATGAC
1 AAATGTTGACATGAC
9889044 AA
1 AA
9889046 TTGCTAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (15 bp):
AAATGTTGACATGAC
Found at i:9889721 original size:22 final size:23
Alignment explanation
Indices: 9889679--9889723 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
9889669 TAAAACTGTT
9889679 ATAAAAATAACTTAAAAGAACAA
1 ATAAAAATAACTTAAAAGAACAA
* *
9889702 ATAAAGATAAC-TGAAAGAACAA
1 ATAAAAATAACTTAAAAGAACAA
9889724 GAAAAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.67, C:0.09, G:0.09, T:0.16
Consensus pattern (23 bp):
ATAAAAATAACTTAAAAGAACAA
Found at i:9895165 original size:22 final size:23
Alignment explanation
Indices: 9895123--9895167 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
9895113 ATAACATGTT
9895123 ATAAAAATAACTTAAAAGAACAA
1 ATAAAAATAACTTAAAAGAACAA
* *
9895146 ATAAAGATAAC-TGAAAGAACAA
1 ATAAAAATAACTTAAAAGAACAA
9895168 GAAAAGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.67, C:0.09, G:0.09, T:0.16
Consensus pattern (23 bp):
ATAAAAATAACTTAAAAGAACAA
Found at i:9895726 original size:23 final size:22
Alignment explanation
Indices: 9895683--9895726 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
9895673 AAATACAAAC
* **
9895683 ATATTTTTATTATAATTTAATA
1 ATATTTTTATTAGAAGATAATA
9895705 ATATTTTGTATTAGAAGATAAT
1 ATATTTT-TATTAGAAGATAAT
9895727 TAAACCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
ATATTTTTATTAGAAGATAATA
Found at i:9897292 original size:22 final size:23
Alignment explanation
Indices: 9897246--9897294 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
9897236 TATTTGATTA
*
9897246 AAATAAAATATAAAAACTTAATT
1 AAATAAAATATAAAAAATTAATT
* *
9897269 AAATACAATA-AAAAAATTATTT
1 AAATAAAATATAAAAAATTAATT
9897291 AAAT
1 AAAT
9897295 TTTTTAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
AAATAAAATATAAAAAATTAATT
Found at i:9900484 original size:33 final size:34
Alignment explanation
Indices: 9900427--9900494 Score: 129
Period size: 33 Copynumber: 2.0 Consensus size: 34
9900417 TGTCCAATTC
9900427 GATCAAATTTTCTCAAAAGAAACACCAGATCAGT
1 GATCAAATTTTCTCAAAAGAAACACCAGATCAGT
9900461 GATCAAATTTTCTC-AAAGAAACACCAGATCAGT
1 GATCAAATTTTCTCAAAAGAAACACCAGATCAGT
9900494 G
1 G
9900495 CTCCCTAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 20 0.59
34 14 0.41
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.24
Consensus pattern (34 bp):
GATCAAATTTTCTCAAAAGAAACACCAGATCAGT
Found at i:9909375 original size:71 final size:71
Alignment explanation
Indices: 9909289--9909430 Score: 203
Period size: 71 Copynumber: 2.0 Consensus size: 71
9909279 GAATTTGGAG
* * * * *
9909289 CAAAACCGTTGGAGACAAAGAGAAGGCTGATTCAATCATGGAGAATCCTAACGAATTACAAATGA
1 CAAAACCATTAGAGACAAAGAGAAAGCTGATTCAATCAAGGAGAATCCTAACAAATTACAAATGA
9909354 TGGCAA
66 TGGCAA
* * * *
9909360 CAAAACCATTAGAGACAAAGAGAAAGTTGCTTCAATTAAGGAGAATCCTAACAAATTGCAAATGA
1 CAAAACCATTAGAGACAAAGAGAAAGCTGATTCAATCAAGGAGAATCCTAACAAATTACAAATGA
9909425 TGGCAA
66 TGGCAA
9909431 TGAAAGGGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.19
Consensus pattern (71 bp):
CAAAACCATTAGAGACAAAGAGAAAGCTGATTCAATCAAGGAGAATCCTAACAAATTACAAATGA
TGGCAA
Found at i:9910568 original size:50 final size:51
Alignment explanation
Indices: 9910504--9910606 Score: 172
Period size: 50 Copynumber: 2.0 Consensus size: 51
9910494 AAGATGGAGT
9910504 CATATCTCAAAGCTTTCACTCTTTAGGAAGTTGTGGAAACTGACAATGAAC
1 CATATCTCAAAGCTTTCACTCTTTAGGAAGTTGTGGAAACTGACAATGAAC
* * *
9910555 CATA-CTCAAAGCTTTCACTTTTTGGGAAGTTGTGGAAACTGACGATGAAC
1 CATATCTCAAAGCTTTCACTCTTTAGGAAGTTGTGGAAACTGACAATGAAC
9910605 CA
1 CA
9910607 GTTCAAAGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 45 0.92
51 4 0.08
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (51 bp):
CATATCTCAAAGCTTTCACTCTTTAGGAAGTTGTGGAAACTGACAATGAAC
Found at i:9918211 original size:12 final size:12
Alignment explanation
Indices: 9918194--9918218 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9918184 GTGAAAGATA
9918194 AATGGAATAAGT
1 AATGGAATAAGT
9918206 AATGGAATAAGT
1 AATGGAATAAGT
9918218 A
1 A
9918219 GAGTGCAGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AATGGAATAAGT
Found at i:9922315 original size:87 final size:87
Alignment explanation
Indices: 9922210--9922484 Score: 451
Period size: 87 Copynumber: 3.2 Consensus size: 87
9922200 CTTTGATAGT
* * * *
9922210 TATATAGCTCCATTTCAAATATATTATTTAATTAAGTATATATTATAACTATCAAAGTACCTTTA
1 TATATGGCTCCATTTCAAATGTATTATTTAATCAAGTATATATTATAACTATCAAAGTACCTTTG
*
9922275 AAAGCATTTAGCATAAAGCTAA
66 AAAGCAATTAGCATAAAGCTAA
* *
9922297 TATATGGTTCCATTTCAAATGTATTGTTTAATCAAGTATATATTATAACTATCAAAGTACCTTTG
1 TATATGGCTCCATTTCAAATGTATTATTTAATCAAGTATATATTATAACTATCAAAGTACCTTTG
9922362 AAAGCAATTAGCATAAAGCTAA
66 AAAGCAATTAGCATAAAGCTAA
* *
9922384 TATATGGCTCCATTTCGAATGTATTATTTAATCAAGTATATATTATAACTATCAAAGTGCCTTTG
1 TATATGGCTCCATTTCAAATGTATTATTTAATCAAGTATATATTATAACTATCAAAGTACCTTTG
* *
9922449 AAAGCAATTAGTATGAAGCTAA
66 AAAGCAATTAGCATAAAGCTAA
9922471 TATATGGCTCCATT
1 TATATGGCTCCATT
9922485 GGTATTTTTC
Statistics
Matches: 175, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 175 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (87 bp):
TATATGGCTCCATTTCAAATGTATTATTTAATCAAGTATATATTATAACTATCAAAGTACCTTTG
AAAGCAATTAGCATAAAGCTAA
Found at i:9922581 original size:2 final size:2
Alignment explanation
Indices: 9922574--9922616 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
9922564 AGTGAGCTAA
9922574 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9922615 AT
1 AT
9922617 TCTTTATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9926187 original size:28 final size:28
Alignment explanation
Indices: 9926150--9926227 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
9926140 TGATGTGACG
* *
9926150 TGTAACAACTAAATTTTTCAATATGGCA
1 TGTAATAACTAAATTTTTCAATATAGCA
* *
9926178 TGTAATAACTAAA-TCTTCAACATAGCA
1 TGTAATAACTAAATTTTTCAATATAGCA
*
9926205 TGTAATAACTACATTTTTCAATA
1 TGTAATAACTAAATTTTTCAATA
9926228 CATTTTTCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (28 bp):
TGTAATAACTAAATTTTTCAATATAGCA
Found at i:9926231 original size:12 final size:12
Alignment explanation
Indices: 9926214--9926239 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9926204 ATGTAATAAC
9926214 TACATTTTTCAA
1 TACATTTTTCAA
9926226 TACATTTTTCAA
1 TACATTTTTCAA
9926238 TA
1 TA
9926240 TGGCATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (12 bp):
TACATTTTTCAA
Found at i:9926261 original size:28 final size:28
Alignment explanation
Indices: 9926229--9926497 Score: 239
Period size: 27 Copynumber: 9.9 Consensus size: 28
9926219 TTTTCAATAC
* * *
9926229 ATTTTTCAATATGGCATATAACAACTAA
1 ATTTTTCAACATGACATGTAACAACTAA
*
9926257 ATTTTTCGACATGACATGTAACAACTACA
1 ATTTTTCAACATGACATGTAACAACTA-A
* * *
9926286 TTTTTTTAACATGACATGTAACAATTAA
1 ATTTTTCAACATGACATGTAACAACTAA
* * *
9926314 A-TTTTCAACATGACATGTAAGAACCAT
1 ATTTTTCAACATGACATGTAACAACTAA
**
9926341 ATTTTTCAACATGAGGTGTAACAACTAA
1 ATTTTTCAACATGACATGTAACAACTAA
* * * *
9926369 A-TTTTCAACATAACACGAAACAACTAC
1 ATTTTTCAACATGACATGTAACAACTAA
* * * *
9926396 A-TTTTCAACATAACGTGTAATAA-T-T
1 ATTTTTCAACATGACATGTAACAACTAA
* *
9926421 ATTTCT-AACATGACATGTAGCAACTAA
1 ATTTTTCAACATGACATGTAACAACTAA
** *
9926448 ATTTTAAAACATGACATGTAAC-ACTAC
1 ATTTTTCAACATGACATGTAACAACTAA
*
9926475 AGTTTTCAACATGACAT-TAACAA
1 ATTTTTCAACATGACATGTAACAA
9926498 TATTTTTCCA
Statistics
Matches: 191, Mismatches: 43, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
25 14 0.07
26 9 0.05
27 84 0.44
28 60 0.31
29 24 0.13
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (28 bp):
ATTTTTCAACATGACATGTAACAACTAA
Found at i:9926370 original size:55 final size:55
Alignment explanation
Indices: 9926229--9926497 Score: 228
Period size: 55 Copynumber: 4.9 Consensus size: 55
9926219 TTTTCAATAC
* * * *
9926229 ATTTTTCAATATGGCATATAACAACTAAATTTTTCGACATGACATGTAACAACTACAT
1 ATTTTTCAACATGACATGTAACAACTAAA-TTTTCAACATGACATGTAACAAC--CAT
* * *
9926287 -TTTTTTAACATGACATGTAACAATTAAATTTTCAACATGACATGTAAGAACCAT
1 ATTTTTCAACATGACATGTAACAACTAAATTTTCAACATGACATGTAACAACCAT
** * * * * *
9926341 ATTTTTCAACATGAGGTGTAACAACTAAATTTTCAACATAACACGAAACAACTAC
1 ATTTTTCAACATGACATGTAACAACTAAATTTTCAACATGACATGTAACAACCAT
* * * * * * *
9926396 A-TTTTCAACATAACGTGTAATAA-T-TA-TTTCTAACATGACATGTAGCAACTAA
1 ATTTTTCAACATGACATGTAACAACTAAATTTTC-AACATGACATGTAACAACCAT
** *
9926448 ATTTTAAAACATGACATGTAAC-ACTACAGTTTTCAACATGACAT-TAACAA
1 ATTTTTCAACATGACATGTAACAACTA-AATTTTCAACATGACATGTAACAA
9926498 TATTTTTCCA
Statistics
Matches: 170, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
51 4 0.02
52 19 0.11
53 17 0.10
54 27 0.16
55 55 0.32
56 25 0.15
57 23 0.14
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (55 bp):
ATTTTTCAACATGACATGTAACAACTAAATTTTCAACATGACATGTAACAACCAT
Found at i:9926461 original size:107 final size:109
Alignment explanation
Indices: 9926247--9926486 Score: 256
Period size: 107 Copynumber: 2.2 Consensus size: 109
9926237 ATATGGCATA
* * * * * *
9926247 TAACAACTAAATTTTTCGACATGACATGTAACAACTACATTTTTTTAACATGACATGTAACAATT
1 TAACAACTAAA-TTTTCAACATAACACGAAACAACTACA-TTTTTCAACATAACATGTAACAATT
* ** **
9926312 AAATTTTCAACATGACATGTAAGAACCATATTTTTCAACATGAGGTG
64 -AATTTTCAACATGACATGTAAGAACCAAATTTTAAAACATGACATG
* *
9926359 TAACAACTAAATTTTCAACATAACACGAAACAACTACA-TTTTCAACATAACGTGTAATAATT-A
1 TAACAACTAAATTTTCAACATAACACGAAACAACTACATTTTTCAACATAACATGTAACAATTAA
*
9926422 -TTTCTAACATGACATGT-AGCAACTAAATTTTAAAACATGACATG
66 TTTTC-AACATGACATGTAAG-AACCAAATTTTAAAACATGACATG
*
9926466 TAAC-ACTACAGTTTTCAACAT
1 TAACAACTA-AATTTTCAACAT
9926487 GACATTAACA
Statistics
Matches: 110, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
106 10 0.09
107 46 0.42
109 20 0.18
111 23 0.21
112 11 0.10
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (109 bp):
TAACAACTAAATTTTCAACATAACACGAAACAACTACATTTTTCAACATAACATGTAACAATTAA
TTTTCAACATGACATGTAAGAACCAAATTTTAAAACATGACATG
Found at i:9927832 original size:26 final size:27
Alignment explanation
Indices: 9927793--9927846 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
9927783 CCAATCTAAT
* *
9927793 CCCTCAATCAAAAT-CTTGAACTAAATC
1 CCCTAAATCAAAATACTT-AACCAAATC
9927820 CCCTAAATC-AAATACTTAACCAAATC
1 CCCTAAATCAAAATACTTAACCAAATC
9927846 C
1 C
9927847 TCTCTTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (27 bp):
CCCTAAATCAAAATACTTAACCAAATC
Found at i:9943978 original size:21 final size:22
Alignment explanation
Indices: 9943949--9943990 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
9943939 CTTAAGTAGC
9943949 TAGACTTTTGAG-ATTTTAGGTT
1 TAGACTTTT-AGCATTTTAGGTT
9943971 TAGA-TTTTAGCATTTTAGGT
1 TAGACTTTTAGCATTTTAGGT
9943991 GTTTTTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 13 0.68
22 4 0.21
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (22 bp):
TAGACTTTTAGCATTTTAGGTT
Found at i:9945594 original size:181 final size:181
Alignment explanation
Indices: 9945283--9945643 Score: 634
Period size: 181 Copynumber: 2.0 Consensus size: 181
9945273 TATAAGATTA
*
9945283 GCAGAGCGGAATGACCTGAGGGAGACTAAAGGGCAATAGGTTACTAAGTATCTAAAAGGGTTGAA
1 GCAGAGCGGAATGACCTGAGGGAGACTAAAGGGCAACAGGTTACTAAGTATCTAAAAGGGTTGAA
* *
9945348 GCTAGTTATTAGAGACAAGATAGGGGTACATGTATTACAAAATTTATCTAAAGCACGAAATATTG
66 GCTAGTTATCAGAGACAAGATAGGGGTACAAGTATTACAAAATTTATCTAAAGCACGAAATATTG
*
9945413 CCTTAAAGGTTGAATTGATGTTGCAAGAAAAGAACAGACTTGATTATTCTT
131 CCTTAAAGGCTGAATTGATGTTGCAAGAAAAGAACAGACTTGATTATTCTT
* * * *
9945464 GCAGAGTGGAATGACTTGAGGGAGACTGAAGGGCAACAGGTT-GTCAAGTATCTAAAAGGGTTGA
1 GCAGAGCGGAATGACCTGAGGGAGACTAAAGGGCAACAGGTTACT-AAGTATCTAAAAGGGTTGA
9945528 AGCTAGTTATCAGAGACAAGATAGGGGTACAAGTATTACAAAATTTATCTAAAGCACGAAATATT
65 AGCTAGTTATCAGAGACAAGATAGGGGTACAAGTATTACAAAATTTATCTAAAGCACGAAATATT
9945593 GCCTTAAAGGCTGAATTGATGTTGCAAGAAAAGAACAGACTTGATTATTCT
130 GCCTTAAAGGCTGAATTGATGTTGCAAGAAAAGAACAGACTTGATTATTCT
9945644 CGCAAAAGTT
Statistics
Matches: 171, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
180 1 0.01
181 170 0.99
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (181 bp):
GCAGAGCGGAATGACCTGAGGGAGACTAAAGGGCAACAGGTTACTAAGTATCTAAAAGGGTTGAA
GCTAGTTATCAGAGACAAGATAGGGGTACAAGTATTACAAAATTTATCTAAAGCACGAAATATTG
CCTTAAAGGCTGAATTGATGTTGCAAGAAAAGAACAGACTTGATTATTCTT
Found at i:9950262 original size:127 final size:126
Alignment explanation
Indices: 9950032--9950278 Score: 338
Period size: 127 Copynumber: 2.0 Consensus size: 126
9950022 AAAAGAATAT
* *
9950032 AAAAATAATTTCAAATTTTGAGTTAAGTAAAAAAAGAAAAAAAATAATTTCAAAATTTGAACTTA
1 AAAAATAATTTCAAAATTTGAGTTAAGTAAAAAAAGAAAAAAAATAATTTCAAAATTAGAACTTA
* * * * * *
9950097 GTGTCTTACCACTACTTAAAATTAACTCTTTGAATTTATTTAGGGGTGGTAAAGTTAAAAG
66 CTGCCTTACCACTACTCAAAATCAACTCTTTGAATTTATTTAGAGATGGTAAAGTTAAAAG
9950158 AAAAATAATTTCAAAATTTGAGTTAAGAATAAAAAAAG-AAAAAAATAATTTCAAAATCTAG-AC
1 AAAAATAATTTCAAAATTTGAGTTAAG--TAAAAAAAGAAAAAAAATAATTTCAAAAT-TAGAAC
** *
9950221 TTAACT-CCTTATTACTACTCAAAATCAACTCTTTGACTTTATTTAGAGATGGTAAAGT
63 TT-ACTGCCTTACCACTACTCAAAATCAACTCTTTGAATTTATTTAGAGATGGTAAAGT
9950279 AATATTTTTC
Statistics
Matches: 106, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
126 26 0.25
127 67 0.63
128 13 0.12
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (126 bp):
AAAAATAATTTCAAAATTTGAGTTAAGTAAAAAAAGAAAAAAAATAATTTCAAAATTAGAACTTA
CTGCCTTACCACTACTCAAAATCAACTCTTTGAATTTATTTAGAGATGGTAAAGTTAAAAG
Found at i:9955734 original size:14 final size:14
Alignment explanation
Indices: 9955715--9955742 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9955705 TTTGATAAAG
9955715 TTTTTTTATAAGTT
1 TTTTTTTATAAGTT
9955729 TTTTTTTATAAGTT
1 TTTTTTTATAAGTT
9955743 ATAATTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (14 bp):
TTTTTTTATAAGTT
Found at i:9973405 original size:53 final size:54
Alignment explanation
Indices: 9973336--9973485 Score: 185
Period size: 53 Copynumber: 2.7 Consensus size: 54
9973326 ATATAGTTAT
** *
9973336 TAATAAAAAACCATGAATGTCCATTCCCTGAAGTGAATGTAACAAACGAGCTAC
1 TAATAAAAAATTATGAATGTCCATTCCCTGAAGTGAATGCAACAAACGAGCTAC
* * * * *
9973390 TAAT-AAAAATTATGAATGTTCATTCCCTGAAGTAAATGCGACAAATGCGCTAC
1 TAATAAAAAATTATGAATGTCCATTCCCTGAAGTGAATGCAACAAACGAGCTAC
*
9973443 TAATAAAAAAATTATAAATCCGTCCATTCCCTGAAGTGAATGC
1 TAAT-AAAAAATTATGAAT--GTCCATTCCCTGAAGTGAATGC
9973486 GACATCATTT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
53 45 0.56
54 4 0.05
55 12 0.15
57 20 0.25
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (54 bp):
TAATAAAAAATTATGAATGTCCATTCCCTGAAGTGAATGCAACAAACGAGCTAC
Found at i:9973681 original size:26 final size:26
Alignment explanation
Indices: 9973647--9973698 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
9973637 CTGAATTTAA
9973647 AAATAATTTTACCA-CTAAAAGTAGAT
1 AAATAATTTTACCATC-AAAAGTAGAT
9973673 AAATAATTTTACCATCAAAAGTAGAT
1 AAATAATTTTACCATCAAAAGTAGAT
9973699 GGATGCCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.31
Consensus pattern (26 bp):
AAATAATTTTACCATCAAAAGTAGAT
Found at i:9973746 original size:18 final size:18
Alignment explanation
Indices: 9973720--9973784 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
9973710 CTCACTTAAA
* *
9973720 AAAAATGGATAATCCACC
1 AAAAGTGGATAACCCACC
*
9973738 AAAAGTGGATAACCCATC
1 AAAAGTGGATAACCCACC
* * * *
9973756 ATATGTGGATCACCCACA
1 AAAAGTGGATAACCCACC
9973774 AAAAGTGGATA
1 AAAAGTGGATA
9973785 TATAGTTGTA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.18
Consensus pattern (18 bp):
AAAAGTGGATAACCCACC
Found at i:9976898 original size:79 final size:79
Alignment explanation
Indices: 9976761--9976919 Score: 302
Period size: 79 Copynumber: 2.0 Consensus size: 79
9976751 TTATTATAAT
9976761 TATTATTTATGTTGATGACTTGAACATTATTGGAACTTCTAAAGAGTTATTAAAATCCGTGGATT
1 TATTATTTATGTTGATGACTTGAACATTATTGGAACTTCTAAAGAGTTATTAAAATCCGTGGATT
9976826 ATGTAAAGAGAGAA
66 ATGTAAAGAGAGAA
9976840 TNATTA-TTATGTTGATGACTTGAACATTATTGGAACTTCTAAAGAGTTATTAAAATCCGTGGAT
1 T-ATTATTTATGTTGATGACTTGAACATTATTGGAACTTCTAAAGAGTTATTAAAATCCGTGGAT
9976904 TATGTAAAGAGAGAA
65 TATGTAAAGAGAGAA
9976919 T
1 T
9976920 TTGAGATGAA
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
79 75 0.95
80 4 0.05
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (79 bp):
TATTATTTATGTTGATGACTTGAACATTATTGGAACTTCTAAAGAGTTATTAAAATCCGTGGATT
ATGTAAAGAGAGAA
Found at i:9984620 original size:16 final size:18
Alignment explanation
Indices: 9984598--9984637 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
9984588 TTATTTTTTA
9984598 ATTTTATTTAAT-AAATT
1 ATTTTATTTAATAAAATT
9984615 -TTTTA-TTAATAAAATT
1 ATTTTATTTAATAAAATT
9984631 ATTTTAT
1 ATTTTAT
9984638 AATTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.25
16 10 0.50
17 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTATTTAATAAAATT
Found at i:9984632 original size:28 final size:29
Alignment explanation
Indices: 9984601--9984663 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
9984591 TTTTTTAATT
*
9984601 TTATTTAATAAATTT-TTTATTAA-TAAAA
1 TTATTTAAT-AATTTATTTATAAATTAAAA
*
9984629 TTATTTTATAATTTAATTTATAAATTAAAA
1 TTATTTAATAATTT-ATTTATAAATTAAAA
9984659 TTATT
1 TTATT
9984664 AATTTAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.17
28 8 0.27
29 7 0.23
30 10 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TTATTTAATAATTTATTTATAAATTAAAA
Found at i:9984678 original size:21 final size:22
Alignment explanation
Indices: 9984641--9984683 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
9984631 ATTTTATAAT
*
9984641 TTAATTTATAAATTAAA-ATTA
1 TTAATTTATAAAGTAAACATTA
9984662 TTAATTTA-ATAAGTAAACATTA
1 TTAATTTATA-AAGTAAACATTA
9984684 AATACATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.05
21 14 0.74
22 4 0.21
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAATTTATAAAGTAAACATTA
Found at i:9995209 original size:170 final size:170
Alignment explanation
Indices: 9994893--9995234 Score: 499
Period size: 170 Copynumber: 2.0 Consensus size: 170
9994883 CAGTAATAGC
9994893 ATTAGATTTTTTTGTGAAAAAGAGAAAAAATCTTTAAATAGTACCTAAATGTAATTTTAAATTTT
1 ATTAGATTTTTTTGTGAAAAAGAGAAAAAATCTTTAAATAGTACCTAAATGTAATTTTAAATTTT
* * *
9994958 AGGTTTTCTTTTCTCTTAATTTTTACAAGAACAGAAAAATCTCAAATTTTGTTATTCTGTTACTG
66 AGGTTTTCTTTTCTCTTAATCTTTACAAGAACAAAAAAATCTCAAATTTTGTTATTCTATTACTG
** *
9995023 GGTTTTTTGTTTTTTTTCTTTTTTTAGTAGTCTTTGTAGT
131 GGCCTTTTGTTTTTTTTCTTATTTTAGTAGTCTTTGTAGT
* * *
9995063 ATTAGATTTTTTTGTGAAGAAGAGAAAAAATCTTTAAATAGTACTTAAATGTAATTTTGAATTTT
1 ATTAGATTTTTTTGTGAAAAAGAGAAAAAATCTTTAAATAGTACCTAAATGTAATTTTAAATTTT
** * *
9995128 -GGATTTTCTTTTCTCTTAATCTTTGTAAGAACAAAAAAAATC-CTATATTTTGTTATTCTATTG
66 AGG-TTTTCTTTTCTCTTAATCTTTACAAGAAC-AAAAAAATCTC-AAATTTTGTTATTCTATTA
*
9995191 TTGGGCCTTTTGTTTTTTTTTTCTTATTTTAGTAGTCTTTGTAG
128 CTGGGCCTTTTG--TTTTTTTTCTTATTTTAGTAGTCTTTGTAG
9995235 AAAGAGGTAG
Statistics
Matches: 153, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
169 2 0.01
170 89 0.58
171 33 0.22
173 29 0.19
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (170 bp):
ATTAGATTTTTTTGTGAAAAAGAGAAAAAATCTTTAAATAGTACCTAAATGTAATTTTAAATTTT
AGGTTTTCTTTTCTCTTAATCTTTACAAGAACAAAAAAATCTCAAATTTTGTTATTCTATTACTG
GGCCTTTTGTTTTTTTTCTTATTTTAGTAGTCTTTGTAGT
Found at i:10001358 original size:2 final size:2
Alignment explanation
Indices: 10001351--10001438 Score: 158
Period size: 2 Copynumber: 43.5 Consensus size: 2
10001341 AGAATTCATG
10001351 TA TA TA TA TA TA TA TA TA TA TA TA NTA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
*
10001394 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10001436 TA T
1 TA T
10001439 TTTCAAACAC
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
2 81 0.98
3 2 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10001611 original size:36 final size:36
Alignment explanation
Indices: 10001559--10001670 Score: 118
Period size: 36 Copynumber: 3.1 Consensus size: 36
10001549 AGTTAAACCC
*
10001559 TCATGTGCACTCCCACACTGCACATGGCAAATACCA
1 TCATGTGCACTCCCACACTGCACATGGCAAATATCA
* * * *
10001595 TCATATGCACTCCCACACCT-CATATAGCTAATATCA
1 TCATGTGCACTCCCACA-CTGCACATGGCAAATATCA
* * * * *
10001631 ACATGTGCACTCCCCCACCGTACATGGTAAATATCA
1 TCATGTGCACTCCCACACTGCACATGGCAAATATCA
10001667 TCAT
1 TCAT
10001671 CCCGAGCTCC
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
35 1 0.02
36 56 0.95
37 2 0.03
ACGTcount: A:0.31, C:0.34, G:0.11, T:0.24
Consensus pattern (36 bp):
TCATGTGCACTCCCACACTGCACATGGCAAATATCA
Found at i:10002739 original size:13 final size:14
Alignment explanation
Indices: 10002694--10002743 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
10002684 ATGAAGAAGT
*
10002694 AAGAAAAGAAAAAGA
1 AAGAAAA-AGAAAGA
*
10002709 AATG-AAAAGAAAGG
1 AA-GAAAAAGAAAGA
10002723 AAGAAAAAG-AAGA
1 AAGAAAAAGAAAGA
10002736 AAGAAAAA
1 AAGAAAAA
10002744 AATTTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 12 0.40
14 12 0.40
15 5 0.17
16 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (14 bp):
AAGAAAAAGAAAGA
Found at i:10020036 original size:18 final size:19
Alignment explanation
Indices: 10019994--10020037 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
10019984 CAGCCTCTCT
10019994 TTCATCATCTGAAAACTCA
1 TTCATCATCTGAAAACTCA
* *
10020013 GT-ATCATCTGACAACTC-
1 TTCATCATCTGAAAACTCA
10020030 TTCATCAT
1 TTCATCAT
10020038 TCTCACCAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (19 bp):
TTCATCATCTGAAAACTCA
Found at i:10023085 original size:14 final size:14
Alignment explanation
Indices: 10023061--10023099 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
10023051 AAACATCCTT
10023061 TATTATAATTTATAAA
1 TATT-TAATTTA-AAA
10023077 T-TTTAATTTAAAA
1 TATTTAATTTAAAA
10023090 TATTTAATTT
1 TATTTAATTT
10023100 TTTTGATAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.18
14 15 0.68
15 2 0.09
16 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TATTTAATTTAAAA
Found at i:10026194 original size:29 final size:25
Alignment explanation
Indices: 10026153--10026204 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 25
10026143 GAGATAACAC
10026153 CAAAAAATGTTATTAATGTCATGTTAA
1 CAAAAAATGTTA-T-ATGTCATGTTAA
10026180 CAAAAATAGTGTTATATGTCATGTT
1 CAAAAA-A-TGTTATATGTCATGTT
10026205 TTAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 16 0.70
28 2 0.09
29 5 0.22
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (25 bp):
CAAAAAATGTTATATGTCATGTTAA
Found at i:10026297 original size:28 final size:27
Alignment explanation
Indices: 10026207--10026304 Score: 92
Period size: 28 Copynumber: 3.6 Consensus size: 27
10026197 GTCATGTTTT
*
10026207 AAAATATAATTGTTACACATTATATTG-
1 AAAATATAATTATTACAC-TTATATTGA
* * *
10026234 AAAATTTAATTATTACAC-TATGTTAA
1 AAAATATAATTATTACACTTATATTGA
* * *
10026260 AAAACATAATTATTATACGTTATATCGA
1 AAAATATAATTATTACAC-TTATATTGA
*
10026288 AAAATATAATTGTTACA
1 AAAATATAATTATTACA
10026305 GAAAATTTAG
Statistics
Matches: 55, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
25 5 0.09
26 15 0.27
27 16 0.29
28 19 0.35
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (27 bp):
AAAATATAATTATTACACTTATATTGA
Found at i:10026337 original size:74 final size:72
Alignment explanation
Indices: 10026233--10026378 Score: 166
Period size: 74 Copynumber: 2.0 Consensus size: 72
10026223 ACATTATATT
*
10026233 GAAAATTTAATTATTACACTATGTTAAAAAACATAATTATTATACGTTATATCGAAAAATATAAT
1 GAAAATTTAATTATTACACTATGTTAAAAAACATAATTATTATACATTATATCGAAAAATATAAT
10026298 TGTTACA
66 TGTTACA
* * * * ** * * * *
10026305 GAAAATTTAGTTATTTTACATTATGTTGAAAAATATTGTTATTATATATTATGTTGAAAAATTTA
1 GAAAATTTAATTA--TTACACTATGTTAAAAAACATAATTATTATACATTATATCGAAAAATATA
*
10026370 ATTTTTACA
64 ATTGTTACA
10026379 TTTCATGATG
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
72 12 0.20
74 48 0.80
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (72 bp):
GAAAATTTAATTATTACACTATGTTAAAAAACATAATTATTATACATTATATCGAAAAATATAAT
TGTTACA
Found at i:10026345 original size:28 final size:28
Alignment explanation
Indices: 10026306--10026369 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
10026296 ATTGTTACAG
*
10026306 AAAATTTAGTTATTTTACATTATGTTGA
1 AAAATTTAGTTATTATACATTATGTTGA
*
10026334 AAAATATT-GTTATTATATATTATGTTGA
1 AAAAT-TTAGTTATTATACATTATGTTGA
10026362 AAAATTTA
1 AAAATTTA
10026370 ATTTTTACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 2 0.06
28 28 0.88
29 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (28 bp):
AAAATTTAGTTATTATACATTATGTTGA
Found at i:10031717 original size:90 final size:90
Alignment explanation
Indices: 10031614--10031788 Score: 228
Period size: 90 Copynumber: 1.9 Consensus size: 90
10031604 AAGTTTTGGA
* * *
10031614 ATTATTATTTTTTCATCATCTTCAAGCTTCAAAAGGATTTCAATTATTCGGT-TTTGATTTATAG
1 ATTATTATTTTTTCATCATCTCCAAGCTTCAAAAGGATTTCAATGATT-GGTCTTTAATTTATAG
* * *
10031678 TTTTAGCAAATCAGGTAAGTGTTCCT
65 TTGTAACAAATCAAGTAAGTGTTCCT
* * * *
10031704 ATTATT-TTGTTTTCATCATCTCCGAGCTTTAAAAGGATTTCAATGATTGGTCTTTAATTTTTGG
1 ATTATTATT-TTTTCATCATCTCCAAGCTTCAAAAGGATTTCAATGATTGGTCTTTAATTTATAG
10031768 TTGTAACAAATCAAGTAAGTG
65 TTGTAACAAATCAAGTAAGTG
10031789 ACTTGATATT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
89 5 0.07
90 68 0.93
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.45
Consensus pattern (90 bp):
ATTATTATTTTTTCATCATCTCCAAGCTTCAAAAGGATTTCAATGATTGGTCTTTAATTTATAGT
TGTAACAAATCAAGTAAGTGTTCCT
Found at i:10032181 original size:26 final size:26
Alignment explanation
Indices: 10032145--10032245 Score: 114
Period size: 26 Copynumber: 3.9 Consensus size: 26
10032135 TAATTCTAAA
10032145 ATAATTTTACCACCAGAAGTGGATGG
1 ATAATTTTACCACCAGAAGTGGATGG
** ** *
10032171 ATAATTTTACCATAAGAA-TCTAAGG
1 ATAATTTTACCACCAGAAGTGGATGG
* * *
10032196 ATAATTTTGCTACCAAAAGTGGATGG
1 ATAATTTTACCACCAGAAGTGGATGG
*
10032222 ATAATTTTATCACCAGAAGTGGAT
1 ATAATTTTACCACCAGAAGTGGAT
10032246 AAATGTTGCA
Statistics
Matches: 57, Mismatches: 17, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
25 17 0.30
26 40 0.70
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.31
Consensus pattern (26 bp):
ATAATTTTACCACCAGAAGTGGATGG
Found at i:10036207 original size:14 final size:12
Alignment explanation
Indices: 10036187--10036230 Score: 58
Period size: 11 Copynumber: 3.9 Consensus size: 12
10036177 TTTTTGGTCA
10036187 TTTATTATTA-T
1 TTTATTATTATT
*
10036198 TTAATTATTATT
1 TTTATTATTATT
10036210 TTTATT-TTATT
1 TTTATTATTATT
10036221 TTT-TTATTAT
1 TTTATTATTAT
10036231 CATATTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 2 0.07
11 21 0.72
12 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTATTATTATT
Found at i:10036224 original size:13 final size:14
Alignment explanation
Indices: 10036187--10036228 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
10036177 TTTTTGGTCA
10036187 TTTATTATTATTTA-
1 TTTATTATT-TTTAT
*
10036201 ATTATTATTTTTAT
1 TTTATTATTTTTAT
10036215 TTTATT-TTTTTAT
1 TTTATTATTTTTAT
10036228 T
1 T
10036229 ATCATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTATTTTTAT
Found at i:10036253 original size:25 final size:22
Alignment explanation
Indices: 10036217--10036262 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
10036207 ATTTTTATTT
*
10036217 TATTTTTTTATTATCATATTTTTC
1 TATTTTTCTATTA-C-TATTTTTC
10036241 TATTTTTCCTATTACTATTTTT
1 TATTTTT-CTATTACTATTTTT
10036263 TGTAAGCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 8 0.40
25 5 0.25
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.70
Consensus pattern (22 bp):
TATTTTTCTATTACTATTTTTC
Found at i:10036263 original size:25 final size:23
Alignment explanation
Indices: 10036201--10036263 Score: 54
Period size: 25 Copynumber: 2.5 Consensus size: 23
10036191 TTATTATTTA
* *
10036201 ATTATTATTTTTATTTTATTTTTTT
1 ATTA-TATTTTT-TTCTATTTTTCT
*
10036226 ATTATCATATTTTTCTATTTTTCCT
1 ATTAT-ATTTTTTTCTATTTTT-CT
10036251 ATTACTATTTTTT
1 ATTA-TATTTTTT
10036264 GTAAGCAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
24 10 0.32
25 20 0.65
26 1 0.03
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (23 bp):
ATTATATTTTTTTCTATTTTTCT
Found at i:10037526 original size:17 final size:17
Alignment explanation
Indices: 10037506--10037601 Score: 68
Period size: 17 Copynumber: 5.2 Consensus size: 17
10037496 ACGGCTGTTA
10037506 CTCCCCAACGGTCGGCT
1 CTCCCCAACGGTCGGCT
* *
10037523 CTCCCCAACCGACGGCGT
1 CTCCCCAACGGTCGGC-T
* *
10037541 CACTCCCCCAACGATTGGCT
1 --CT-CCCCAACGGTCGGCT
10037561 CTCCCCAATCGG-CGGTTGCT
1 CTCCCCAA-CGGTC-G--GCT
10037581 GCTCCCCAACGGTCGGCT
1 -CTCCCCAACGGTCGGCT
10037599 CTC
1 CTC
10037602 TAATCGACGG
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
17 23 0.38
18 9 0.15
20 10 0.16
21 19 0.31
ACGTcount: A:0.14, C:0.46, G:0.22, T:0.19
Consensus pattern (17 bp):
CTCCCCAACGGTCGGCT
Found at i:10037538 original size:38 final size:38
Alignment explanation
Indices: 10037487--10037746 Score: 184
Period size: 38 Copynumber: 7.1 Consensus size: 38
10037477 ACCGGCAACA
* *
10037487 CCCCAATCGACGGCTGTTACTCCCCAACGGTCGGCTCT
1 CCCCAACCGACGGCTGTTGCTCCCCAACGGTCGGCTCT
** * *
10037525 CCCCAACCGACGGC-GTCACTCCCCCAACGATTGGCTCT
1 CCCCAACCGACGGCTGTTGCT-CCCCAACGGTCGGCTCT
* * * *
10037563 CCCCAATCGGCGGTTGCTGCTCCCCAACGGTCGGCTCT
1 CCCCAACCGACGGCTGTTGCTCCCCAACGGTCGGCTCT
* * * * *
10037601 --CTAATCGACGGC-GTTGCT---CAA--ATCGACTTT
1 CCCCAACCGACGGCTGTTGCTCCCCAACGGTCGGCTCT
*
10037631 CCCCAACCGACGGC-GTCT-CTCCCCTAACGATCGGCTC-
1 CCCCAACCGACGGCTGT-TGCTCCCC-AACGGTCGGCTCT
* **
10037668 CCTCCAACCAACGGCTACTGCTCCCCAACGGTCGGCTCT
1 CC-CCAACCGACGGCTGTTGCTCCCCAACGGTCGGCTCT
** * **
10037707 CCCCAACCGGTGGTTACTGCTCCCCAACGGTCGGCTCT
1 CCCCAACCGACGGCTGTTGCTCCCCAACGGTCGGCTCT
10037745 CC
1 CC
10037747 AACCGGCGAC
Statistics
Matches: 176, Mismatches: 31, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
30 6 0.03
32 17 0.10
33 1 0.01
35 6 0.03
36 11 0.06
37 7 0.04
38 117 0.66
39 11 0.06
ACGTcount: A:0.16, C:0.43, G:0.21, T:0.20
Consensus pattern (38 bp):
CCCCAACCGACGGCTGTTGCTCCCCAACGGTCGGCTCT
Found at i:10037703 original size:21 final size:21
Alignment explanation
Indices: 10037679--10037742 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
10037669 CTCCAACCAA
10037679 CGGCTACTGCTCCCCAACGGT
1 CGGCTACTGCTCCCCAACGGT
10037700 CGG---CT-CTCCCCAACCGGT
1 CGGCTACTGCTCCCCAA-CGGT
*
10037718 -GGTTACTGCTCCCCAACGGT
1 CGGCTACTGCTCCCCAACGGT
10037738 CGGCT
1 CGGCT
10037743 CTCCAACCGG
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
17 10 0.28
18 6 0.17
20 6 0.17
21 14 0.39
ACGTcount: A:0.12, C:0.42, G:0.25, T:0.20
Consensus pattern (21 bp):
CGGCTACTGCTCCCCAACGGT
Found at i:10037708 original size:17 final size:17
Alignment explanation
Indices: 10037688--10037746 Score: 66
Period size: 17 Copynumber: 3.2 Consensus size: 17
10037678 ACGGCTACTG
10037688 CTCCCCAACGGTCGGCT
1 CTCCCCAACGGTCGGCT
10037705 CTCCCCAACCGGT-GGTTACT
1 CTCCCCAA-CGGTCGG---CT
10037725 GCTCCCCAACGGTCGGCT
1 -CTCCCCAACGGTCGGCT
10037743 CTCC
1 CTCC
10037747 AACCGGCGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
17 14 0.39
18 6 0.17
20 6 0.17
21 10 0.28
ACGTcount: A:0.12, C:0.46, G:0.22, T:0.20
Consensus pattern (17 bp):
CTCCCCAACGGTCGGCT
Found at i:10037764 original size:144 final size:144
Alignment explanation
Indices: 10037487--10037786 Score: 376
Period size: 144 Copynumber: 2.1 Consensus size: 144
10037477 ACCGGCAACA
* * *
10037487 CCCCAATCGACGGCTGTTACTCCCCAACGGTCGGCTCTCCCCAACCGACGGCGTCACTCCCCCAA
1 CCCCAACCGACGGCTGTTACTCCCCAACGATCGGCTCTCCCCAACCAACGGCGTCACTCCCCCAA
* * * * * * *
10037552 CGATTGGCTCTCCCCAATCGGCGGTTGCTGCTCCCCAACGGTCGGCTCTCTAATCGACGGCGTTG
66 CGATCGGCTCTCCCCAACCGGCGGTTACTGCTCCCCAACGGTCGGCTCTCCAACCGACGACGTCG
*
10037617 CTCAAATCGACTTT
131 CTCAAATAGACTTT
10037631 CCCCAACCGACGGC-GTCT-CTCCCCTAACGATCGGCTC-CCTCCAACCAACGGC-T-ACTGCTC
1 CCCCAACCGACGGCTGT-TACTCCCC-AACGATCGGCTCTCC-CCAACCAACGGCGTCACT-C-C
* * *
10037691 CCCAACGGTCGGCTCTCCCCAACCGGTGGTTACTGCTCCCCAACGGTCGGCTCTCCAACCGGCGA
61 CCCAACGATCGGCTCTCCCCAACCGGCGGTTACTGCTCCCCAACGGTCGGCTCTCCAACCGACGA
*
10037756 CGTCGCTCAAATAGGCTTT
126 CGTCGCTCAAATAGACTTT
*
10037775 CCTCAACCGACG
1 CCCCAACCGACG
10037787 ACAACCCAAA
Statistics
Matches: 135, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
142 3 0.02
143 12 0.09
144 120 0.89
ACGTcount: A:0.17, C:0.42, G:0.21, T:0.20
Consensus pattern (144 bp):
CCCCAACCGACGGCTGTTACTCCCCAACGATCGGCTCTCCCCAACCAACGGCGTCACTCCCCCAA
CGATCGGCTCTCCCCAACCGGCGGTTACTGCTCCCCAACGGTCGGCTCTCCAACCGACGACGTCG
CTCAAATAGACTTT
Found at i:10039879 original size:3 final size:3
Alignment explanation
Indices: 10039860--10039894 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
10039850 CTTTGACAAA
*
10039860 ATT ATAT ATT GTT ATT ATT ATT ATT ATT ATT ATT A
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10039895 GTGCTTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:10055939 original size:15 final size:15
Alignment explanation
Indices: 10055915--10055944 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10055905 GAGAAAAAAA
*
10055915 ATGATGCTATATTAT
1 ATGATACTATATTAT
10055930 ATGATACTATATTAT
1 ATGATACTATATTAT
10055945 GGTAAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (15 bp):
ATGATACTATATTAT
Found at i:10059874 original size:24 final size:24
Alignment explanation
Indices: 10059798--10059875 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
10059788 TCAACCGTAT
* * *
10059798 TTTTTTTTTGTTATGTAGGTTCTA
1 TTTTTTCTTGTTATGTAGATTTTA
* * ** *
10059822 TCTTCTACTTGTTATGT-TTTTCTTT
1 T-TTTTTCTTGTTATGTAGATT-TTA
10059847 TTTTTTCTTGTTATGTAGATTTTA
1 TTTTTTCTTGTTATGTAGATTTTA
10059871 TTTTT
1 TTTTT
10059876 AATGATTTTA
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
24 23 0.59
25 16 0.41
ACGTcount: A:0.12, C:0.08, G:0.12, T:0.69
Consensus pattern (24 bp):
TTTTTTCTTGTTATGTAGATTTTA
Found at i:10059884 original size:15 final size:16
Alignment explanation
Indices: 10059864--10059894 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10059854 TTGTTATGTA
10059864 GATTTT-ATTTTTAAT
1 GATTTTAATTTTTAAT
10059879 GATTTTAATTTTTAAT
1 GATTTTAATTTTTAAT
10059895 AATTAAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
GATTTTAATTTTTAAT
Found at i:10061898 original size:102 final size:102
Alignment explanation
Indices: 10061761--10061944 Score: 296
Period size: 102 Copynumber: 1.8 Consensus size: 102
10061751 CATAGATGGG
* * ***
10061761 CCACTATTTCATTTGTGGGTGAGATATTGAATTCTTTTACTTTGTATATGTAGTTATTACAAATT
1 CCACTATTTCATTTGTGGATGAGATATTGAATTCTTGTACCCCGTATATGTAGTTATTACAAATT
10061826 ATTGGTATATTTATCCTTTTCCACAAGTATACAAGTA
66 ATTGGTATATTTATCCTTTTCCACAAGTATACAAGTA
* * *
10061863 CCACTATTTCATTTGTGGATGAGATATTGAATTCTTGTGCCCCGTATATGTAGTTATTTCACATT
1 CCACTATTTCATTTGTGGATGAGATATTGAATTCTTGTACCCCGTATATGTAGTTATTACAAATT
10061928 ATTGGTATATTTATCCT
66 ATTGGTATATTTATCCT
10061945 AAGTATGCTG
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 74 1.00
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (102 bp):
CCACTATTTCATTTGTGGATGAGATATTGAATTCTTGTACCCCGTATATGTAGTTATTACAAATT
ATTGGTATATTTATCCTTTTCCACAAGTATACAAGTA
Found at i:10063941 original size:11 final size:11
Alignment explanation
Indices: 10063910--10063943 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
10063900 AAATCATTGT
10063910 ATTTTCAACGG
1 ATTTTCAACGG
10063921 ATTTGT-AACGG
1 ATTT-TCAACGG
10063932 ATTTTCAACGG
1 ATTTTCAACGG
10063943 A
1 A
10063944 ATTTAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 1 0.05
11 19 0.90
12 1 0.05
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (11 bp):
ATTTTCAACGG
Found at i:10064179 original size:26 final size:26
Alignment explanation
Indices: 10064150--10064205 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
10064140 ATTTCCAATG
**
10064150 AAATTTTCAAC-AGAATTTTTCGTTGA
1 AAATTTTCAACGA-AAAATTTCGTTGA
*
10064176 AAATTTTTAACGAAAAATTTCGTTGA
1 AAATTTTCAACGAAAAATTTCGTTGA
10064202 AAAT
1 AAAT
10064206 CCGTTGGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (26 bp):
AAATTTTCAACGAAAAATTTCGTTGA
Found at i:10064562 original size:19 final size:20
Alignment explanation
Indices: 10064527--10064573 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
10064517 ATTTTTTCAA
10064527 TTAT-AAAATTTAAAATT-T
1 TTATAAAAATTTAAAATTAT
**
10064545 TTATAAAAATTTTTAATTAT
1 TTATAAAAATTTAAAATTAT
*
10064565 TTTTAAAAA
1 TTATAAAAA
10064574 ATTAGATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.17
19 11 0.46
20 9 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATAAAAATTTAAAATTAT
Found at i:10067951 original size:30 final size:28
Alignment explanation
Indices: 10067892--10067953 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 28
10067882 TAATAGGTCA
**
10067892 AAATATTTTCAACGAAAAATTCTGTTGG
1 AAATATTTTCAACGAAAAATTCTACTGG
10067920 AAATATTTTTCTAACGAAAAATT-TCACTGG
1 AAATA-TTTTC-AACGAAAAATTCT-ACTGG
10067950 AAAT
1 AAAT
10067954 GCTAAATGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 5 0.17
29 6 0.21
30 18 0.62
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (28 bp):
AAATATTTTCAACGAAAAATTCTACTGG
Found at i:10068171 original size:14 final size:16
Alignment explanation
Indices: 10068137--10068170 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10068127 GGAAATAGGC
10068137 TTTTCAACGAAATTAT
1 TTTTCAACGAAATTAT
*
10068153 TTTTCAACGGAATT-T
1 TTTTCAACGAAATTAT
10068168 TTT
1 TTT
10068171 CGTTGGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (16 bp):
TTTTCAACGAAATTAT
Found at i:10068619 original size:2 final size:2
Alignment explanation
Indices: 10068614--10068644 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
10068604 TGGATTGGTA
10068614 AT AT AT AT AT AT AGT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
10068645 TTATTTGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10086494 original size:12 final size:12
Alignment explanation
Indices: 10086446--10086520 Score: 62
Period size: 12 Copynumber: 6.2 Consensus size: 12
10086436 CTCAGAAAGT
10086446 GGAGGAGG-GGG
1 GGAGGAGGTGGG
*
10086457 TGGAGGGGGTGGG
1 -GGAGGAGGTGGG
* *
10086470 GGAGGGGGAGGG
1 GGAGGAGGTGGG
10086482 GGAGGAGGTGGG
1 GGAGGAGGTGGG
* * *
10086494 GGTGGTGGTGGT
1 GGAGGAGGTGGG
* *
10086506 GGTGGTGGTGGG
1 GGAGGAGGTGGG
10086518 GGA
1 GGA
10086521 ACCATCAACA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
12 50 0.94
13 3 0.06
ACGTcount: A:0.11, C:0.00, G:0.76, T:0.13
Consensus pattern (12 bp):
GGAGGAGGTGGG
Found at i:10086497 original size:6 final size:6
Alignment explanation
Indices: 10086461--10086519 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
10086451 AGGGGGTGGA
* * * * * *
10086461 GGGGGT GGGGGA GGGGGA GGGGGA GGAGGT GGGGGT GGTGGT GGTGGT
1 GGGGGT GGGGGT GGGGGT GGGGGT GGGGGT GGGGGT GGGGGT GGGGGT
*
10086509 GGTGGT GGGGG
1 GGGGGT GGGGG
10086520 AACCATCAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.07, C:0.00, G:0.78, T:0.15
Consensus pattern (6 bp):
GGGGGT
Found at i:10087115 original size:18 final size:18
Alignment explanation
Indices: 10087089--10087131 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10087079 ATGCTTCCCA
* **
10087089 GGTGATTGATCAGTTGTT
1 GGTGCTTGATCAGAAGTT
10087107 GGTGCTTGATCAGAAGTT
1 GGTGCTTGATCAGAAGTT
10087125 GGTGCTT
1 GGTGCTT
10087132 CAGAATGAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.16, C:0.09, G:0.35, T:0.40
Consensus pattern (18 bp):
GGTGCTTGATCAGAAGTT
Found at i:10090707 original size:19 final size:19
Alignment explanation
Indices: 10090685--10090721 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10090675 TCTCCTTCTT
*
10090685 CTTTTTTCTTTTTTTTTAA
1 CTTTTTTATTTTTTTTTAA
10090704 CTTTTTTATTTTTTTTTA
1 CTTTTTTATTTTTTTTTA
10090722 TGTGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (19 bp):
CTTTTTTATTTTTTTTTAA
Found at i:10091174 original size:22 final size:22
Alignment explanation
Indices: 10091141--10091225 Score: 75
Period size: 22 Copynumber: 3.8 Consensus size: 22
10091131 TTAATTTTTT
10091141 TAATATAAAATATTATTAAATTA
1 TAATA-AAAATATTATTAAATTA
* *
10091164 TAATAAAAATA-TATTTATATTT
1 TAATAAAAATATTA-TTAAATTA
* * *
10091186 TGATAAAAATAATATTTAATTA
1 TAATAAAAATATTATTAAATTA
*
10091208 TAGTAAAAAATATT-TTAA
1 TAAT-AAAAATATTATTAA
10091226 TTTTATTATT
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
21 2 0.04
22 32 0.65
23 15 0.31
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TAATAAAAATATTATTAAATTA
Found at i:10091207 original size:44 final size:44
Alignment explanation
Indices: 10091138--10091230 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
10091128 ATTTTAATTT
*
10091138 TTTTAATATAAAATATTATTAAATTATAATAAAAATATATTTATA
1 TTTTAATATAAAATAATATTAAATTATAATAAAAA-ATATTTATA
* * *
10091183 TTTTGATA-AAAATAATATTTAATTATAGTAAAAAATATTT-TAA
1 TTTTAATATAAAATAATATTAAATTATAATAAAAAATATTTAT-A
10091226 TTTTA
1 TTTTA
10091231 TTATTTAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.02
43 11 0.26
44 23 0.55
45 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (44 bp):
TTTTAATATAAAATAATATTAAATTATAATAAAAAATATTTATA
Found at i:10095252 original size:67 final size:67
Alignment explanation
Indices: 10095169--10095297 Score: 168
Period size: 67 Copynumber: 1.9 Consensus size: 67
10095159 AGAGTAAAAG
* * * * * *
10095169 ATATTATATGAGCATATAATCATGTCACATCAAAATATTATATTATTATTTATTATAACATATTA
1 ATATTATATGAACATATAATCATATCACATCAAAATATCATATCATCATTTATCATAACATATTA
10095234 AC
66 AC
* * * *
10095236 ATATTATGTGAACATATAATTATATCACATTAAAATATCATGTCATCATTTATCATAACATA
1 ATATTATATGAACATATAATCATATCACATCAAAATATCATATCATCATTTATCATAACATA
10095298 ACAATATACA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
67 52 1.00
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (67 bp):
ATATTATATGAACATATAATCATATCACATCAAAATATCATATCATCATTTATCATAACATATTA
AC
Found at i:10099448 original size:7 final size:7
Alignment explanation
Indices: 10099436--10099462 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
10099426 TTTTCTATTG
10099436 GAGAGCA
1 GAGAGCA
10099443 GAGAGCA
1 GAGAGCA
10099450 GAGAGCA
1 GAGAGCA
10099457 GAGAGC
1 GAGAGC
10099463 TTTCTGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.44, T:0.00
Consensus pattern (7 bp):
GAGAGCA
Found at i:10099518 original size:34 final size:34
Alignment explanation
Indices: 10099473--10099540 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
10099463 TTTCTGGAGA
*
10099473 TAATTGAAAACTTGTATTACTCCGAAATATTTGT
1 TAATTGAAAACTTGTATTACTCAGAAATATTTGT
*
10099507 TAATTGGAAACTTGTATTACTCAGAAATATTTGT
1 TAATTGAAAACTTGTATTACTCAGAAATATTTGT
10099541 GATTAAGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.41
Consensus pattern (34 bp):
TAATTGAAAACTTGTATTACTCAGAAATATTTGT
Found at i:10107207 original size:2 final size:2
Alignment explanation
Indices: 10107202--10107246 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
10107192 GTGTGTGTGT
10107202 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10107244 GA G
1 GA G
10107247 CTTACTTTGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10108198 original size:502 final size:501
Alignment explanation
Indices: 10107255--10108248 Score: 1979
Period size: 502 Copynumber: 2.0 Consensus size: 501
10107245 AGCTTACTTT
10107255 GGGAGAAGGGTAATCAAGCTTGCCATTGAAAGTTGTTTGAGACTCGAGATCAGTGCGGTTTCTGG
1 GGGAGAAGGGTAATCAAGCTTGCCATTGAAAGTTGTTTGAGACTCGAGATCAGTGCGGTTTCTGG
10107320 CATTGGAGGACAATGATCTTGGCCTGAGAAATCTCTCAAAGATAGCCATAACAAGGAACATTGAT
66 CATTGGAGGACAATGATCTTGGCCTGAGAAATCTCTCAAAGATAGCCATAACAAGGAACATTGAT
10107385 ATGAGAATTGCAGTGGCTACAAAACCAAAGGAAACCGCATTCACTGAGTTGTCAAAACGTCTCCA
131 ATGAGAATTGCAGTGGCTACAAAACCAAAGGAAACCGCATTCACTGAGTTGTCAAAACGTCTCCA
10107450 GTGCTCTTCCCTTTCTAAATTCAGTGGAGCCACTGTTGGCGGCACCGTGTCCCAGTAATCTTGAG
196 GTGCTCTTCCCTTTCTAAATTCAGTGGAGCCACTGTTGGCGGCACCGTGTCCCAGTAATCTTGAG
10107515 CACCCATCTAAAAAACCCAAGCTTAAAAGCAGCCACCACCCTCTCTTTCTCTCATTTACAAAAGA
261 CACCCATCTAAAAAACCCAAGCTTAAAAGCAGCCACCACCCTCTCTTTCTCTCATTTACAAAAGA
10107580 ACCAAAGCAGAAGAAACCAGGAAAAACAAACCCCAAAAAGAGAAAACAAGTAAACAGGGAAGAAT
326 ACCAAAGCAGAAGAAACCAGGAAAAACAAACCCCAAAAAGAGAAAACAAGTAAACAGGGAAGAAT
10107645 ATCAGAGAGCAATCCCGTGTATAGTTTTCTCCTTTATGACATGCATGGCTTTGGTGCTAATTGAG
391 ATCAGAGAGCAATCCCGTGTATAGTTTTCTCCTTTATGACATGCATGGCTTTGGTGCTAATTGAG
10107710 CATTACCAAAACAGAAGTTGTTGAGAGTAGAGACACAAGATCGGAA
456 CATTACCAAAACAGAAGTTGTTGAGAGTAGAGACACAAGATCGGAA
10107756 GNGGAGAAGGGTAATCAAGCTTGCCATTGAAAGTTGTTTGAGACTCGAGATCAGTGCGGTTTCTG
1 G-GGAGAAGGGTAATCAAGCTTGCCATTGAAAGTTGTTTGAGACTCGAGATCAGTGCGGTTTCTG
10107821 GCATTGGAGGACAATGATCTTGGCCTGAGAAATCTCTCAAAGATAGCCATAACAAGGAACATTGA
65 GCATTGGAGGACAATGATCTTGGCCTGAGAAATCTCTCAAAGATAGCCATAACAAGGAACATTGA
10107886 TATGAGAATTGCAGTGGCTACAAAACCAAAGGAAACCGCATTCACTGAGTTGTCAAAACGTCTCC
130 TATGAGAATTGCAGTGGCTACAAAACCAAAGGAAACCGCATTCACTGAGTTGTCAAAACGTCTCC
10107951 AGTGCTCTTCCCTTTCTAAATTCAGTGGAGCCACTGTTGGCGGCACCGTGTCCCAGTAATCTTGA
195 AGTGCTCTTCCCTTTCTAAATTCAGTGGAGCCACTGTTGGCGGCACCGTGTCCCAGTAATCTTGA
10108016 GCACCCATCTAAAAAACCCAAGCTTAAAAGCAGCCACCACCCTCTCTTTCTCTCATTTACAAAAG
260 GCACCCATCTAAAAAACCCAAGCTTAAAAGCAGCCACCACCCTCTCTTTCTCTCATTTACAAAAG
10108081 AACCAAAGCAGAAGAAACCAGGAAAAACAAACCCCAAAAAGAGAAAACAAGTAAACAGGGAAGAA
325 AACCAAAGCAGAAGAAACCAGGAAAAACAAACCCCAAAAAGAGAAAACAAGTAAACAGGGAAGAA
10108146 TATCAGAGAGCAATCCCGTGTATAGTTTTCTCCTTTATGACATGCATGGCTTTGGTGCTAATTGA
390 TATCAGAGAGCAATCCCGTGTATAGTTTTCTCCTTTATGACATGCATGGCTTTGGTGCTAATTGA
10108211 GCATTACCAAAACAGAAGTTGTTGAGAGTAGAGACACA
455 GCATTACCAAAACAGAAGTTGTTGAGAGTAGAGACACA
10108249 GGAATCTTAT
Statistics
Matches: 492, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
501 1 0.00
502 491 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (501 bp):
GGGAGAAGGGTAATCAAGCTTGCCATTGAAAGTTGTTTGAGACTCGAGATCAGTGCGGTTTCTGG
CATTGGAGGACAATGATCTTGGCCTGAGAAATCTCTCAAAGATAGCCATAACAAGGAACATTGAT
ATGAGAATTGCAGTGGCTACAAAACCAAAGGAAACCGCATTCACTGAGTTGTCAAAACGTCTCCA
GTGCTCTTCCCTTTCTAAATTCAGTGGAGCCACTGTTGGCGGCACCGTGTCCCAGTAATCTTGAG
CACCCATCTAAAAAACCCAAGCTTAAAAGCAGCCACCACCCTCTCTTTCTCTCATTTACAAAAGA
ACCAAAGCAGAAGAAACCAGGAAAAACAAACCCCAAAAAGAGAAAACAAGTAAACAGGGAAGAAT
ATCAGAGAGCAATCCCGTGTATAGTTTTCTCCTTTATGACATGCATGGCTTTGGTGCTAATTGAG
CATTACCAAAACAGAAGTTGTTGAGAGTAGAGACACAAGATCGGAA
Found at i:10108808 original size:14 final size:14
Alignment explanation
Indices: 10108789--10108825 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
10108779 GTTTCAAGGG
10108789 TTTTGATGACTTGA
1 TTTTGATGACTTGA
10108803 TTTTGATATGACTTGA
1 TTTTG--ATGACTTGA
10108819 TTTTGAT
1 TTTTGAT
10108826 CATGAACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
16 14 0.67
ACGTcount: A:0.22, C:0.05, G:0.19, T:0.54
Consensus pattern (14 bp):
TTTTGATGACTTGA
Found at i:10108815 original size:16 final size:17
Alignment explanation
Indices: 10108794--10108830 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
10108784 AAGGGTTTTG
10108794 ATGACTTGATTTTGAT-
1 ATGACTTGATTTTGATC
10108810 ATGACTTGATTTTGATC
1 ATGACTTGATTTTGATC
10108827 ATGA
1 ATGA
10108831 ACTATACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (17 bp):
ATGACTTGATTTTGATC
Found at i:10108858 original size:25 final size:25
Alignment explanation
Indices: 10108830--10108878 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
10108820 TTTGATCATG
*
10108830 AACTATACTTGATATCTTAATCACA
1 AACTATACTTGATATATTAATCACA
* * *
10108855 AACTTTGCTTGATATATTGATCAC
1 AACTATACTTGATATATTAATCAC
10108879 GGACTTTGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (25 bp):
AACTATACTTGATATATTAATCACA
Found at i:10108884 original size:25 final size:25
Alignment explanation
Indices: 10108837--10108888 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
10108827 ATGAACTATA
*
10108837 CTTGATATCTTAATCACAAACTTTG
1 CTTGATATATTAATCACAAACTTTG
* **
10108862 CTTGATATATTGATCACGGACTTTG
1 CTTGATATATTAATCACAAACTTTG
10108887 CT
1 CT
10108889 CAATATCTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (25 bp):
CTTGATATATTAATCACAAACTTTG
Found at i:10108901 original size:25 final size:25
Alignment explanation
Indices: 10108873--10108921 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
10108863 TTGATATATT
* *
10108873 GATCACGGACTTTGCTCAATATCTC
1 GATCACGAACTTCGCTCAATATCTC
* *
10108898 GATCATGAACTTCGCTCGATATCT
1 GATCACGAACTTCGCTCAATATCT
10108922 TCACTTCATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (25 bp):
GATCACGAACTTCGCTCAATATCTC
Found at i:10109391 original size:81 final size:81
Alignment explanation
Indices: 10109243--10109448 Score: 322
Period size: 81 Copynumber: 2.5 Consensus size: 81
10109233 ATCATAATTA
* * * *
10109243 TTAGAGATAAACTGGATAACCAATAATTAAATTTCGATTGGTCCAAAAATATGAATATTATCTCT
1 TTAGAGATAAATTGGATGACCAATAATTAAATTTTGATTGGT-TAAAAATATGAATATTATCTCT
**
10109308 AAATTACTTTGATTTAT
65 AAATTACCCTGATTTAT
10109325 TTAGAGATAAATTGGATGACCAATAATTAAATTTTGATTGGTTAAAAATATGAATATTATCTCTA
1 TTAGAGATAAATTGGATGACCAATAATTAAATTTTGATTGGTTAAAAATATGAATATTATCTCTA
10109390 AATTACCCTGATTTAT
66 AATTACCCTGATTTAT
* * *
10109406 TTAAAGATAAATTGGATGATCAATAACTAAATTTTGATTGGTT
1 TTAGAGATAAATTGGATGACCAATAATTAAATTTTGATTGGTT
10109449 CAATTTAAAT
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
81 76 0.66
82 39 0.34
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (81 bp):
TTAGAGATAAATTGGATGACCAATAATTAAATTTTGATTGGTTAAAAATATGAATATTATCTCTA
AATTACCCTGATTTAT
Found at i:10109873 original size:33 final size:33
Alignment explanation
Indices: 10109799--10109995 Score: 225
Period size: 33 Copynumber: 6.3 Consensus size: 33
10109789 AATTATGATA
* *
10109799 TTGGAAGATGTGTATTGCAATAAAAC--T-AT-
1 TTGGAAGAAGTATATTGCAATAAAACTATAATC
*
10109828 TT-GAAGAAGTATATTGCAATACAACTATAATC
1 TTGGAAGAAGTATATTGCAATAAAACTATAATC
* *
10109860 TTAGAAGATGTATATTGCAATAAAACTATAATC
1 TTGGAAGAAGTATATTGCAATAAAACTATAATC
* *
10109893 TTGGAATAAGTATATTGCAATAAAA--AT-GT-
1 TTGGAAGAAGTATATTGCAATAAAACTATAATC
*
10109922 TT-GAAGAAGTATATTGCAATAAAACTATAACC
1 TTGGAAGAAGTATATTGCAATAAAACTATAATC
* * *
10109954 TTGGAAGATGTATACTGTAATAAAACTATAATC
1 TTGGAAGAAGTATATTGCAATAAAACTATAATC
10109987 TTGGAAGAA
1 TTGGAAGAA
10109996 TTATTGGTAT
Statistics
Matches: 141, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
28 41 0.29
29 4 0.03
30 4 0.03
31 4 0.03
32 4 0.03
33 84 0.60
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.32
Consensus pattern (33 bp):
TTGGAAGAAGTATATTGCAATAAAACTATAATC
Found at i:10109928 original size:61 final size:61
Alignment explanation
Indices: 10109802--10109978 Score: 193
Period size: 61 Copynumber: 2.9 Consensus size: 61
10109792 TATGATATTG
*
10109802 GAAGATGTGTATTGCAATAAAAC--T-AT-TT-GAAGAAGTATATTGCAATACAACTATAATCTT
1 GAAGATGTATATTGCAATAAAACTATAATCTTGGAAGAAGTATATTGCAAT--AA--A-AATCTT
10109862 A
61 A
* * *
10109863 GAAGATGTATATTGCAATAAAACTATAATCTTGGAATAAGTATATTGCAATAAAAATGTTT
1 GAAGATGTATATTGCAATAAAACTATAATCTTGGAAGAAGTATATTGCAATAAAAATCTTA
* * * * *
10109924 GAAGAAGTATATTGCAATAAAACTATAACCTTGGAAGATGTATACTGTAATAAAA
1 GAAGATGTATATTGCAATAAAACTATAATCTTGGAAGAAGTATATTGCAATAAAA
10109979 CTATAATCTT
Statistics
Matches: 101, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
61 76 0.75
62 1 0.01
63 1 0.01
64 4 0.04
65 2 0.02
66 17 0.17
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (61 bp):
GAAGATGTATATTGCAATAAAACTATAATCTTGGAAGAAGTATATTGCAATAAAAATCTTA
Found at i:10109961 original size:94 final size:94
Alignment explanation
Indices: 10109811--10109992 Score: 301
Period size: 94 Copynumber: 1.9 Consensus size: 94
10109801 GGAAGATGTG
* * * *
10109811 TATTGCAATAAAACTATTTGAAGAAGTATATTGCAATACAACTATAATCTTAGAAGATGTATATT
1 TATTGCAATAAAAATATTTGAAGAAGTATATTGCAATAAAACTATAACCTTAGAAGATGTATACT
10109876 GCAATAAAACTATAATCTTGGAATAAGTA
66 GCAATAAAACTATAATCTTGGAATAAGTA
* *
10109905 TATTGCAATAAAAATGTTTGAAGAAGTATATTGCAATAAAACTATAACCTTGGAAGATGTATACT
1 TATTGCAATAAAAATATTTGAAGAAGTATATTGCAATAAAACTATAACCTTAGAAGATGTATACT
*
10109970 GTAATAAAACTATAATCTTGGAA
66 GCAATAAAACTATAATCTTGGAA
10109993 GAATTATTGG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 81 1.00
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (94 bp):
TATTGCAATAAAAATATTTGAAGAAGTATATTGCAATAAAACTATAACCTTAGAAGATGTATACT
GCAATAAAACTATAATCTTGGAATAAGTA
Found at i:10110386 original size:31 final size:33
Alignment explanation
Indices: 10110348--10110411 Score: 114
Period size: 31 Copynumber: 2.0 Consensus size: 33
10110338 ACAAGTTTAT
10110348 AATCAAAACAAAAGGTCCATAA-T-ATAGCATA
1 AATCAAAACAAAAGGTCCATAATTCATAGCATA
10110379 AATCAAAACAAAAGGTCCATAATTCATAGCATA
1 AATCAAAACAAAAGGTCCATAATTCATAGCATA
10110412 TGCATATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 22 0.71
32 1 0.03
33 8 0.26
ACGTcount: A:0.53, C:0.17, G:0.09, T:0.20
Consensus pattern (33 bp):
AATCAAAACAAAAGGTCCATAATTCATAGCATA
Found at i:10110811 original size:35 final size:36
Alignment explanation
Indices: 10110696--10110820 Score: 171
Period size: 36 Copynumber: 3.5 Consensus size: 36
10110686 ATTTGAAAAT
* * *
10110696 TGCTCTTTATAATAGCACTTGTTGATCCATGAAGGT
1 TGCTCTTTATAATAGCACTTGTTGATTCTTGAAGGG
* * * *
10110732 TGCTTTTTATAATAACAATTGTTGATTTTTGAAGGG
1 TGCTCTTTATAATAGCACTTGTTGATTCTTGAAGGG
*
10110768 TGCTCTTTATAATAGCACTTGTTGATTCTTG-GGGG
1 TGCTCTTTATAATAGCACTTGTTGATTCTTGAAGGG
10110803 TGCTCTTTATAATAGCAC
1 TGCTCTTTATAATAGCAC
10110821 ACAATTTAGA
Statistics
Matches: 77, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
35 21 0.27
36 56 0.73
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (36 bp):
TGCTCTTTATAATAGCACTTGTTGATTCTTGAAGGG
Found at i:10122246 original size:32 final size:32
Alignment explanation
Indices: 10122197--10122316 Score: 109
Period size: 32 Copynumber: 3.6 Consensus size: 32
10122187 AATACTTTTT
* * *
10122197 AAGGCTCAAGCATAACCTTTACAATGCCTTTC
1 AAGGATCAAGCACAACCTTTACAATGCCTTTA
* *
10122229 AAGGATCAAGCACAACCTTTCAATACTATGCCTTTT
1 AAGGATCAAGCACAACC-TT---TACAATGCCTTTA
*
10122265 ATGGATCAAGCACAA-CTTTCACAATGCCTTTA
1 AAGGATCAAGCACAACCTTT-ACAATGCCTTTA
*
10122297 AAGGCT-AAGGCACAACCTTT
1 AAGGATCAA-GCACAACCTTT
10122317 TCTCTCGTAC
Statistics
Matches: 72, Mismatches: 9, Indels: 13
0.77 0.10 0.14
Matches are distributed among these distances:
31 3 0.04
32 35 0.49
33 6 0.08
34 2 0.03
35 1 0.01
36 25 0.35
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (32 bp):
AAGGATCAAGCACAACCTTTACAATGCCTTTA
Found at i:10122720 original size:20 final size:20
Alignment explanation
Indices: 10122695--10122734 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10122685 GTTCTGGACC
*
10122695 AAATGTATCGATACATTTTG
1 AAATGTATCCATACATTTTG
*
10122715 AAATGTATCCATATATTTTG
1 AAATGTATCCATACATTTTG
10122735 GGCAGAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (20 bp):
AAATGTATCCATACATTTTG
Found at i:10122942 original size:21 final size:22
Alignment explanation
Indices: 10122918--10122962 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
10122908 TTCAAACAAG
10122918 TTCAAAAATCA-TAAAGTAATT
1 TTCAAAAATCATTAAAGTAATT
* *
10122939 TTCAAAATTCATTGAAGTAATT
1 TTCAAAAATCATTAAAGTAATT
10122961 TT
1 TT
10122963 GAAACTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (22 bp):
TTCAAAAATCATTAAAGTAATT
Found at i:10123023 original size:22 final size:22
Alignment explanation
Indices: 10122996--10123079 Score: 91
Period size: 21 Copynumber: 3.9 Consensus size: 22
10122986 TAGGCACTTC
* *
10122996 AAAACTTATTTAAAAAAGTTTA
1 AAAACTTATTCAAACAAGTTTA
*
10123018 AAAAC-TATTCAAACAAGTTCA
1 AAAACTTATTCAAACAAGTTTA
* *
10123039 AAAACTCATTCAAACAATTTTA
1 AAAACTTATTCAAACAAGTTTA
* *
10123061 AAAA-TTATCCAAAGAAGTT
1 AAAACTTATTCAAACAAGTT
10123080 CAAAGATCAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
21 29 0.57
22 22 0.43
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.30
Consensus pattern (22 bp):
AAAACTTATTCAAACAAGTTTA
Found at i:10123061 original size:43 final size:43
Alignment explanation
Indices: 10122996--10123101 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
10122986 TAGGCACTTC
* * * * *
10122996 AAAACTTATTTAAAAAAGTTTAAAAACTATTCAAACAAGTTCA
1 AAAACTCATTCAAACAATTTTAAAAACTATCCAAACAAGTTCA
* *
10123039 AAAACTCATTCAAACAATTTTAAAAATTATCCAAAGAAGTTCA
1 AAAACTCATTCAAACAATTTTAAAAACTATCCAAACAAGTTCA
* * *
10123082 AAGA-TCATTGAAGCAATTTT
1 AAAACTCATTCAAACAATTTT
10123102 GATCACTTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 14 0.26
43 39 0.74
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (43 bp):
AAAACTCATTCAAACAATTTTAAAAACTATCCAAACAAGTTCA
Found at i:10124599 original size:129 final size:130
Alignment explanation
Indices: 10124445--10124704 Score: 470
Period size: 129 Copynumber: 2.0 Consensus size: 130
10124435 ATTTGAATTA
10124445 AATTGAGAGAGTGACGATTTAAGTTAGACTTAAATCACATGTTAGGTAATTAATTTCTATAAACT
1 AATTGAGAGAGTGACGATTTAAGTTAGACTTAAATCACATGTTAGGTAATTAATTTCTATAAACT
*
10124510 TAATTAAAAGAGTTTAATTAAGTTTTTGGCATAA-TTATAAATA-GTTATAACTATAAGGCCTTG
66 TAATTAAAAGAGTTTAATTAAGTTTTGGGCATAATTTATAAATAGGTTATAACTATAAGGCCTTG
* *
10124573 ANATTGGGAGAGTGACGATTTAAGTTAGATTTAAATCACATGTTAGGTAATTAATTTCTATAAAC
1 A-ATTGAGAGAGTGACGATTTAAGTTAGACTTAAATCACATGTTAGGTAATTAATTTCTATAAAC
10124638 TTAATTAAAAGAGTTTAATTAAGTTTTGGGCATAATTTATAAATAGGTTATAACTATAAGGCCTT
65 TTAATTAAAAGAGTTTAATTAAGTTTTGGGCATAATTTATAAATAGGTTATAACTATAAGGCCTT
10124703 G
130 G
10124704 A
1 A
10124705 TTGCAAAATA
Statistics
Matches: 126, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
128 1 0.01
129 95 0.75
130 9 0.07
131 21 0.17
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.37
Consensus pattern (130 bp):
AATTGAGAGAGTGACGATTTAAGTTAGACTTAAATCACATGTTAGGTAATTAATTTCTATAAACT
TAATTAAAAGAGTTTAATTAAGTTTTGGGCATAATTTATAAATAGGTTATAACTATAAGGCCTTG
Found at i:10128468 original size:2 final size:2
Alignment explanation
Indices: 10128461--10128495 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
10128451 TTTATACTAT
*
10128461 TA TA TA TA TA TA TA TA TA TA TA GA 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
10128496 TAGAATTCGA
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:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10128468 original size:12 final size:11
Alignment explanation
Indices: 10128447--10128497 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 11
10128437 TTAATTTTTA
*
10128447 ATTATTTATACT
1 ATTATATATA-T
10128459 ATTATATATAT
1 ATTATATATAT
10128470 ATATATATATAT
1 AT-TATATATAT
*
10128482 AGATATATATAT
1 A-TTATATATAT
10128494 ATTA
1 ATTA
10128498 GAATTCGAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 5 0.15
12 29 0.85
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (11 bp):
ATTATATATAT
Found at i:10129447 original size:44 final size:44
Alignment explanation
Indices: 10129397--10129486 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
10129387 TGGGGTATCA
*
10129397 TTGTATGAATGGAATTTGGAAAATGACCCACTTCTTTTTAATTT
1 TTGTATGAATGGAATTTGGAAAACGACCCACTTCTTTTTAATTT
10129441 TTGTATGAATGGAATTTGGAAAACGACCCACTTCTTTTTAATTT
1 TTGTATGAATGGAATTTGGAAAACGACCCACTTCTTTTTAATTT
10129485 TT
1 TT
10129487 CTTTGTAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (44 bp):
TTGTATGAATGGAATTTGGAAAACGACCCACTTCTTTTTAATTT
Found at i:10129568 original size:25 final size:25
Alignment explanation
Indices: 10129534--10129592 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
10129524 GAGACACAGT
10129534 CTAATGATACAATAATACCCAAAGC
1 CTAATGATACAATAATACCCAAAGC
*
10129559 CTAATGATACAATAATACCCAAAGT
1 CTAATGATACAATAATACCCAAAGC
10129584 CTAATGATA
1 CTAATGATA
10129593 TCCAGGTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.47, C:0.20, G:0.08, T:0.24
Consensus pattern (25 bp):
CTAATGATACAATAATACCCAAAGC
Found at i:10130763 original size:16 final size:18
Alignment explanation
Indices: 10130724--10130769 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 18
10130714 TATATTATCT
10130724 ATATATAGATTTGGATGTA
1 ATAT-TAGATTTGGATGTA
10130743 A-ATTAGA-TTGGATG-A
1 ATATTAGATTTGGATGTA
10130758 ATATTAGGATTT
1 ATATTA-GATTT
10130770 AATCCATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.08
16 11 0.46
17 6 0.25
18 4 0.17
19 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (18 bp):
ATATTAGATTTGGATGTA
Found at i:10131513 original size:25 final size:26
Alignment explanation
Indices: 10131399--10131523 Score: 107
Period size: 25 Copynumber: 5.0 Consensus size: 26
10131389 AATTCTAATT
10131399 ATAATTTTACCACCA-ATAGT-GAT-G
1 ATAATTTTACCACCAGA-AGTGGATGG
* *
10131423 ATAATTTTACCACTAGAAGTAGATGG
1 ATAATTTTACCACCAGAAGTGGATGG
* * * ** **
10131449 ATAATTCTACTATCAGAA-TCTAAAG
1 ATAATTTTACCACCAGAAGTGGATGG
* *
10131474 ATAATTTTGCTACCAGAAGTGGATGG
1 ATAATTTTACCACCAGAAGTGGATGG
10131500 ATAA-TTTACCACCAGAAGTGGATG
1 ATAATTTTACCACCAGAAGTGGATG
10131524 AATGCCGTCA
Statistics
Matches: 79, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
24 17 0.22
25 40 0.51
26 22 0.28
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (26 bp):
ATAATTTTACCACCAGAAGTGGATGG
Found at i:10133718 original size:191 final size:192
Alignment explanation
Indices: 10133477--10133871 Score: 614
Period size: 191 Copynumber: 2.1 Consensus size: 192
10133467 CGACAAATAA
* *
10133477 ATCCCATCATCGGGGTTATCGTACATTTTTCTTTAAAAAATAATATTTTCGTGAATAATGAACCT
1 ATCCCATCATCGGGGTCATCGTACAGTTTTCTTTAAAAAATAATATTTTCGTGAATAATGAACCT
* ** *
10133542 AATACGAGCGAAAGCCATTTATTAAAGATATTTCTCGAGCTTTCCCATCATACTGGTGGGACCC-
66 AATACGAGCAAAAGCCATTTATTAAAGATATTTCTCGAGCCCTCCCATCATACTGGTGAGACCCA
* * *
10133606 GAGGATACCTTTTCACCTAGAAAACTTTTTGAGGAATACCCACTTTCGCAAGATCCTCGGAAG
131 G-GGATACCTTTTCACCTAGAAAACTTTTCGAGGAATACCCACCTTCACAAGATCCTCGGAAG
** *
10133669 ATCCCATCATCGGGGTCATCGTAC-GTTTTCTTTTTAAAATAATATTTTCGTGTATAATGAACCT
1 ATCCCATCATCGGGGTCATCGTACAGTTTTCTTTAAAAAATAATATTTTCGTGAATAATGAACCT
* * *
10133733 AATACGGGCAAAAGCCTTTTATTAAAGATGTTTCTCGAGCCCTCCCATCATACTGGTGAGACCCA
66 AATACGAGCAAAAGCCATTTATTAAAGATATTTCTCGAGCCCTCCCATCATACTGGTGAGACCCA
* *
10133798 GGGATACCTTTTCGCCTAGAAAACTTTTCGAGGAATACCCGCCTTCACAAGATCCTCGGAAG
131 GGGATACCTTTTCACCTAGAAAACTTTTCGAGGAATACCCACCTTCACAAGATCCTCGGAAG
10133860 ATCCCATCATCG
1 ATCCCATCATCG
10133872 TAGCTTAAAC
Statistics
Matches: 185, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
191 161 0.87
192 24 0.13
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (192 bp):
ATCCCATCATCGGGGTCATCGTACAGTTTTCTTTAAAAAATAATATTTTCGTGAATAATGAACCT
AATACGAGCAAAAGCCATTTATTAAAGATATTTCTCGAGCCCTCCCATCATACTGGTGAGACCCA
GGGATACCTTTTCACCTAGAAAACTTTTCGAGGAATACCCACCTTCACAAGATCCTCGGAAG
Found at i:10134155 original size:17 final size:16
Alignment explanation
Indices: 10134123--10134159 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
10134113 TTATTTTTTA
*
10134123 TTTTATTTTTTTATAT
1 TTTTATTTTATTATAT
10134139 TTTTATTATTATTATAT
1 TTTTATT-TTATTATAT
10134156 TTTT
1 TTTT
10134160 TCGTAAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTATTTTATTATAT
Found at i:10134465 original size:14 final size:14
Alignment explanation
Indices: 10134426--10134479 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
10134416 TATATTCGAA
10134426 TTATTATTATTTTT
1 TTATTATTATTTTT
* *
10134440 TTATCATCATTTTT
1 TTATTATTATTTTT
* *
10134454 TTATTGTTA-TTTA
1 TTATTATTATTTTT
10134467 TTA-TATTATTTTT
1 TTATTATTATTTTT
10134480 ATTGATGATT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
12 4 0.13
13 9 0.29
14 18 0.58
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (14 bp):
TTATTATTATTTTT
Found at i:10134478 original size:24 final size:24
Alignment explanation
Indices: 10134425--10134483 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
10134415 ATATATTCGA
*
10134425 ATTATTATTATT-TTTTTATCATC
1 ATTATTTTTATTGTTTTTATCATC
*
10134448 ATT-TTTTTATTGTTATTTATTAT-
1 ATTATTTTTATTGTT-TTTATCATC
10134471 ATTATTTTTATTG
1 ATTATTTTTATTG
10134484 ATGATTTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 7 0.23
23 8 0.26
24 16 0.52
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.69
Consensus pattern (24 bp):
ATTATTTTTATTGTTTTTATCATC
Found at i:10141977 original size:18 final size:19
Alignment explanation
Indices: 10141932--10141986 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
10141922 AAATAGATAA
10141932 TTTTAT-TAATTATTAATTAT
1 TTTTATATAATT-TTAA-TAT
*
10141952 TTTAATATAATTTTAA-AT
1 TTTTATATAATTTTAATAT
*
10141970 TTTTATATATTTTTAAT
1 TTTTATATAATTTTAAT
10141987 TTAATTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 16 0.53
20 9 0.30
21 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTATATAATTTTAATAT
Found at i:10141987 original size:17 final size:18
Alignment explanation
Indices: 10141950--10141997 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
10141940 ATTATTAATT
10141950 ATTTTAATATAATTTTAA
1 ATTTTAATATAATTTTAA
* *
10141968 ATTTTTATAT-ATTTTTA
1 ATTTTAATATAATTTTAA
*
10141985 A-TTTAATTTAATT
1 ATTTTAATATAATT
10141998 ATATTATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 6 0.24
17 10 0.40
18 9 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTAATATAATTTTAA
Found at i:10146452 original size:55 final size:56
Alignment explanation
Indices: 10146393--10146500 Score: 173
Period size: 55 Copynumber: 1.9 Consensus size: 56
10146383 AAAAGGTAAA
* **
10146393 ATTATAAAATTATTGTGAGTGTAAAATTATAAA-ATTTTTTAAAAAATAAAAATAT
1 ATTATAAAATTATTGTAAAAGTAAAATTATAAATATTTTTTAAAAAATAAAAATAT
*
10146448 ATTATAAAATTATTGTAAAAGTAAAATTATAAATTTTTTTTAAAAAATAAAAA
1 ATTATAAAATTATTGTAAAAGTAAAATTATAAATATTTTTTAAAAAATAAAAA
10146501 ATTATTGTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
55 30 0.62
56 18 0.38
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (56 bp):
ATTATAAAATTATTGTAAAAGTAAAATTATAAATATTTTTTAAAAAATAAAAATAT
Found at i:10146454 original size:30 final size:30
Alignment explanation
Indices: 10146418--10146521 Score: 87
Period size: 30 Copynumber: 3.6 Consensus size: 30
10146408 TGAGTGTAAA
10146418 ATTATAAAATTTTTTAAAAAATAAAAATAT
1 ATTATAAAATTTTTTAAAAAATAAAAATAT
* *
10146448 ATTATAAAATTATTGT-AAAAGT-AAAAT-T
1 ATTATAAAATT-TTTTAAAAAATAAAAATAT
**
10146476 A-TA-AATTTTTTTTAAAAAATAAAAA-ATT
1 ATTATAAAATTTTTTAAAAAATAAAAATA-T
* *
10146504 ATTGTAAAA-ATTTTAAAA
1 ATTATAAAATTTTTTAAAA
10146522 TTTTTTGAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
25 3 0.05
26 9 0.16
27 6 0.11
28 4 0.07
29 14 0.25
30 18 0.32
31 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (30 bp):
ATTATAAAATTTTTTAAAAAATAAAAATAT
Found at i:10146513 original size:21 final size:21
Alignment explanation
Indices: 10146453--10146513 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
10146443 AATATATTAT
*
10146453 AAAATTATTGTAAAAGTAAAATTA
1 AAAATTATTGT-AAA--AAAATAA
* * * *
10146477 TAAATTTTTTTTAAAAAATAA
1 AAAATTATTGTAAAAAAATAA
10146498 AAAATTATTGTAAAAA
1 AAAATTATTGTAAAAA
10146514 TTTTAAAATT
Statistics
Matches: 28, Mismatches: 9, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
21 18 0.64
23 2 0.07
24 8 0.29
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAATTATTGTAAAAAAATAA
Found at i:10147204 original size:2 final size:2
Alignment explanation
Indices: 10147197--10147265 Score: 90
Period size: 2 Copynumber: 35.5 Consensus size: 2
10147187 CAATTATTTT
* *
10147197 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TNA -A T- TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
10147238 T- 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
10147266 TTCAATAATT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
1 3 0.05
2 56 0.95
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:10148492 original size:21 final size:21
Alignment explanation
Indices: 10148449--10148489 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
10148439 TGCGTTGTTG
*
10148449 GAAATATTTGAGAAGAAGAAA
1 GAAATATTTGAGAAGAAAAAA
*
10148470 GAAAT-TTTTAGAAGAAAAAA
1 GAAATATTTGAGAAGAAAAAA
10148490 AGAGAATGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (21 bp):
GAAATATTTGAGAAGAAAAAA
Found at i:10152902 original size:28 final size:30
Alignment explanation
Indices: 10152844--10152903 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
10152834 TTTTTGAAAT
* *
10152844 TTACACTTTTGCCCCTATAAAAGTCAAAAA
1 TTACACTTTTGCCCCTATAAAACTAAAAAA
*
10152874 TTACATTTTTGCCCC-A-AAAACTAAAAAA
1 TTACACTTTTGCCCCTATAAAACTAAAAAA
10152902 TT
1 TT
10152904 GCCCATAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 1 0.04
30 14 0.52
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.32
Consensus pattern (30 bp):
TTACACTTTTGCCCCTATAAAACTAAAAAA
Found at i:10158299 original size:22 final size:24
Alignment explanation
Indices: 10158257--10158300 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10158247 TTTTTTACTG
*
10158257 ATTTTTTTTGTATTTTTTGGATGC
1 ATTTTTTTTGTATTTTGTGGATGC
10158281 ATTTTTTTTG-A-TTTGTGGAT
1 ATTTTTTTTGTATTTTGTGGAT
10158301 TATTGTGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 1 0.05
24 10 0.53
ACGTcount: A:0.14, C:0.02, G:0.18, T:0.66
Consensus pattern (24 bp):
ATTTTTTTTGTATTTTGTGGATGC
Found at i:10158616 original size:3 final size:3
Alignment explanation
Indices: 10158610--10158635 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10158600 TTTTCTTTTC
10158610 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
10158636 TAATTAACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10158768 original size:1 final size:1
Alignment explanation
Indices: 10158764--10158948 Score: 73
Period size: 1 Copynumber: 185.0 Consensus size: 1
10158754 GTTTTTCTCC
* * ** * * ** ** * *
10158764 TTTTTTATTTTTATTTTTTTTGATTTGTTTTGTTTTGGTTTTTTTTTCATTTTGTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * ** * ** * * * **
10158829 TTGTTTTTTGTTTTCATTTTGTTTTTTTTTTGGTTTTTTGTTGTTTTTTTCTTTTTTTTTTCATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** ** * * * *
10158894 TTGTTTTTTTGGTTTTTTTTCATTTTGTTTTTTTTTATTTTTTTGTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10158949 GTTGTTTAAA
Statistics
Matches: 129, Mismatches: 55, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 129 1.00
ACGTcount: A:0.04, C:0.03, G:0.11, T:0.82
Consensus pattern (1 bp):
T
Found at i:10158806 original size:37 final size:36
Alignment explanation
Indices: 10158765--10158937 Score: 112
Period size: 37 Copynumber: 4.8 Consensus size: 36
10158755 TTTTTCTCCT
*
10158765 TTTTTATTTTTATTTTTTTTGATTTGTTTTGTTTTGG
1 TTTTTATTTTTATTTTTTTTG-TTTTTTTTGTTTTGG
* *
10158802 TTTTT-TTTTCATTTTGTTTT-TTGTTTTTTGTTTTTTG
1 TTTTTATTTTTATTTT-TTTTGTT-TTTTTTG-TTTTGG
* *
10158839 TTTTCATTTTGTTTTTTTTTTGGTTTTTTGTTGTTTT--
1 TTTTTATTTT-TATTTTTTTT-GTTTTTT-TTGTTTTGG
* *
10158876 TTTCTT-TTTTT-TTTCATTTTGTTTTTTTGGTTTT--
1 TTT-TTATTTTTATTT-TTTTTGTTTTTTTTGTTTTGG
* *
10158910 TTTTCATTTTGT-TTTTTTTTATTTTTTT
1 TTTTTATTTT-TATTTTTTTTGTTTTTTT
10158938 GTTGTTTTTT
Statistics
Matches: 112, Mismatches: 12, Indels: 27
0.74 0.08 0.18
Matches are distributed among these distances:
33 1 0.01
34 24 0.21
35 16 0.14
36 20 0.18
37 25 0.22
38 9 0.08
39 12 0.11
40 5 0.04
ACGTcount: A:0.05, C:0.03, G:0.10, T:0.82
Consensus pattern (36 bp):
TTTTTATTTTTATTTTTTTTGTTTTTTTTGTTTTGG
Found at i:10158816 original size:36 final size:32
Alignment explanation
Indices: 10158765--10158948 Score: 138
Period size: 35 Copynumber: 5.3 Consensus size: 32
10158755 TTTTTCTCCT
*
10158765 TTTTTATTTTTATTTTTTTTGATTTGTTTTGTTTTGG
1 TTTTT-TTTTCATTTTTTTT--TTT-TTTT-TTTTGG
* * *
10158802 TTTTTTTTTCA-TTTTGTTTTTTGTTTTTTGT
1 TTTTTTTTTCATTTTTTTTTTTTTTTTTTTGG
*
10158833 TTTTTGTTTTCATTTTGTTTTTTTTTTGGTTTTTTG
1 TTTTT-TTTTCATTTT-TTTTTTTTTT--TTTTTGG
*
10158869 TTGTTTTTTTCTTTTTTTTTTCATTTTGTTTTTTTGG
1 TT-TTTTTTTC-ATTTTTTTT--TTTT-TTTTTTTGG
*
10158906 -TTTTTTTTCATTTTGTTTTTTTTTATTTTTTTG
1 TTTTTTTTTCATTTT-TTTTTTTTT-TTTTTTGG
10158939 TTGTTTTTTT
1 TT-TTTTTTT
10158949 GTTGTTTAAA
Statistics
Matches: 121, Mismatches: 12, Indels: 30
0.74 0.07 0.18
Matches are distributed among these distances:
31 10 0.08
32 10 0.08
33 17 0.14
34 13 0.11
35 25 0.21
36 22 0.18
37 18 0.15
38 4 0.03
39 2 0.02
ACGTcount: A:0.04, C:0.03, G:0.11, T:0.82
Consensus pattern (32 bp):
TTTTTTTTTCATTTTTTTTTTTTTTTTTTTGG
Found at i:10158829 original size:47 final size:48
Alignment explanation
Indices: 10158766--10158945 Score: 157
Period size: 51 Copynumber: 3.5 Consensus size: 48
10158756 TTTTCTCCTT
10158766 TTTTATTTTTATTTTTTTTGATTTGTTTTGTTTTGGTTTTTTTTTCATTTTG
1 TTTT-TTTTTA-TTTTTTT--TTTGTTTTGTTTTGGTTTTTTTTTCATTTTG
* * * **
10158818 TTTTTTGTTT-TTTGTTTTTTGTTTTCATTTTGTTTTTTTTTTGGTTTTTTG
1 TTTTTT-TTTATTTTTTTTTTGTTTT-GTTTTGGTTTTTTTTT--CATTTTG
* *
10158869 TTGTTTTTTTCTTTTTTTTTTCATTTTGTTTTTTTGG-TTTTTTTTCATTTTG
1 TT-TTTTTTTATTTTTTTTTT-GTTTTG---TTTTGGTTTTTTTTTCATTTTG
*
10158921 TTTTTTTTTATTTTTTTGTTGTTTT
1 TTTTTTTTTATTTTTTTTTTGTTTT
10158946 TTTGTTGTTT
Statistics
Matches: 104, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
48 8 0.08
49 14 0.13
50 10 0.10
51 28 0.27
52 27 0.26
53 4 0.04
54 8 0.08
55 5 0.05
ACGTcount: A:0.04, C:0.03, G:0.11, T:0.82
Consensus pattern (48 bp):
TTTTTTTTTATTTTTTTTTTGTTTTGTTTTGGTTTTTTTTTCATTTTG
Found at i:10158829 original size:48 final size:46
Alignment explanation
Indices: 10158766--10158945 Score: 146
Period size: 50 Copynumber: 3.6 Consensus size: 46
10158756 TTTTCTCCTT
* **
10158766 TTTTATTTTTATTTTTTTTGATTTGTTTTGTTTTGGTTTTTTTTTCA
1 TTTTGTTTTT-TTTTTTTTTTTTTGTTTTGTTTTGGTTTTTTTTTCA
* * **
10158813 TTTTGTTTTTTGTTTTTTGTTTTTTGTTTTCATTTTGTTTTTTTTTTGGTT
1 TTTTGTTTTTT-TTTTTT-TTTTTTGTTTT-GTTTTGGTTTTTTTTT--CA
*
10158864 TTTTGTTGTTTTTTTCTTTTTTTTTTCATTTTGTTTTTTTGG-TTTTTTTTCA
1 TTTTG-T-TTTTTTT-TTTTTTTTTT-GTTTTG---TTTTGGTTTTTTTTTCA
10158916 TTTTGTTTTTTTTTATTTTTTTGTTGTTTT
1 TTTTGTTTTTTTTT-TTTTTTT-TTGTTTT
10158946 TTTGTTGTTT
Statistics
Matches: 106, Mismatches: 13, Indels: 25
0.74 0.09 0.17
Matches are distributed among these distances:
46 1 0.01
47 15 0.14
48 9 0.08
49 15 0.14
50 18 0.17
51 8 0.08
52 14 0.13
53 13 0.12
54 8 0.08
55 5 0.05
ACGTcount: A:0.04, C:0.03, G:0.11, T:0.82
Consensus pattern (46 bp):
TTTTGTTTTTTTTTTTTTTTTTTGTTTTGTTTTGGTTTTTTTTTCA
Found at i:10158859 original size:24 final size:23
Alignment explanation
Indices: 10158820--10158937 Score: 132
Period size: 24 Copynumber: 4.9 Consensus size: 23
10158810 TCATTTTGTT
10158820 TTTTGTTTTTTGTTTTTTGTTTTCA
1 TTTTGTTTTTT-TTTTTT-TTTTCA
*
10158845 TTTTGTTTTTTTTTTGGTTTTTT-G
1 TTTTGTTTTTTTTTT--TTTTTTCA
*
10158869 TTGTT-TTTTTCTTTTTTTTTTCA
1 TT-TTGTTTTTTTTTTTTTTTTCA
*
10158892 TTTTGTTTTTTTGGTTTTTTTTCA
1 TTTTGTTTTTTT-TTTTTTTTTCA
10158916 TTTTGTTTTTTTTTATTTTTTT
1 TTTTGTTTTTTTTT-TTTTTTT
10158938 GTTGTTTTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
22 8 0.10
23 9 0.11
24 44 0.55
25 17 0.21
26 2 0.03
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.83
Consensus pattern (23 bp):
TTTTGTTTTTTTTTTTTTTTTCA
Found at i:10158949 original size:11 final size:11
Alignment explanation
Indices: 10158818--10158955 Score: 95
Period size: 11 Copynumber: 12.2 Consensus size: 11
10158808 TTTCATTTTG
10158818 TTTTTTGTT-T
1 TTTTTTGTTGT
*
10158828 TTTGTTTTTTGT
1 TTT-TTTGTTGT
*
10158840 TTTCATT-TTGT
1 TTT-TTTGTTGT
* *
10158851 TTTTTTTTTGG
1 TTTTTTGTTGT
10158862 TTTTTTGTTGT
1 TTTTTTGTTGT
* *
10158873 TTTTTTCTTTTT
1 TTTTTT-GTTGT
*
10158885 TTTTTCATTTTGT
1 TTTTT--TGTTGT
10158898 TTTTTTGGTT-T
1 TTTTTT-GTTGT
*
10158909 TTTTTCATTTTGT
1 TTTTT--TGTTGT
*
10158922 TTTTTT-TTAT
1 TTTTTTGTTGT
10158932 TTTTTTGTTGT
1 TTTTTTGTTGT
10158943 TTTTTTGTTGT
1 TTTTTTGTTGT
10158954 TT
1 TT
10158956 AAATGAGGCT
Statistics
Matches: 103, Mismatches: 14, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
10 14 0.14
11 54 0.52
12 18 0.17
13 16 0.16
14 1 0.01
ACGTcount: A:0.03, C:0.03, G:0.12, T:0.83
Consensus pattern (11 bp):
TTTTTTGTTGT
Done.