Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 292 of 427
Found at i:84343711 original size:46 final size:46
Alignment explanation
Indices: 84343560--84343711 Score: 134
Period size: 46 Copynumber: 3.3 Consensus size: 46
84343550 CAGGCGTTTG
*
84343560 CATCCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGC-CTAGTTA
1 CATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---A
* * *** *
84343610 CAT-CTCA-TGAACTCGGACTCAACTCAACGAGTTCGAACATTC-G
1 CATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA
*
84343653 CATCTGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA
1 CATC-CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA
84343700 CCATCCT-AGTGA
1 -CATCCTAAGTGA
84343712 CATGTCACTT
Statistics
Matches: 81, Mismatches: 15, Indels: 16
0.72 0.13 0.14
Matches are distributed among these distances:
43 3 0.04
45 2 0.02
46 36 0.44
47 29 0.36
48 7 0.09
49 1 0.01
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (46 bp):
CATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA
Found at i:84347222 original size:13 final size:13
Alignment explanation
Indices: 84347206--84347230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84347196 TAGAAAAAAA
84347206 ATATGTGTATTTG
1 ATATGTGTATTTG
84347219 ATATGTGTATTT
1 ATATGTGTATTT
84347231 ATTTATGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
ATATGTGTATTTG
Found at i:84348161 original size:30 final size:30
Alignment explanation
Indices: 84348125--84348183 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
84348115 CAAATTCAAA
*
84348125 TGTTGGTAAGGTACTGATGAAAGCTAGTAT
1 TGTTGGTAAGGTACTAATGAAAGCTAGTAT
84348155 TGTTGGTAAGGTACTAATGAAAGCTAGTA
1 TGTTGGTAAGGTACTAATGAAAGCTAGTA
84348184 AACGTATGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (30 bp):
TGTTGGTAAGGTACTAATGAAAGCTAGTAT
Found at i:84355424 original size:57 final size:57
Alignment explanation
Indices: 84355354--84355471 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 57
84355344 CATATCTATG
84355354 ATTTTAATTAAGTATAATATCCATTTTATCATTTTAAAGCACAACATGTTAGCCGAT
1 ATTTTAATTAAGTATAATATCCATTTTATCATTTTAAAGCACAACATGTTAGCCGAT
* *
84355411 ATTTTACTTAAGTATAATATCCATTTTATCATTTTAAAGCACAACATGTTAGCTGAT
1 ATTTTAATTAAGTATAATATCCATTTTATCATTTTAAAGCACAACATGTTAGCCGAT
84355468 -TTTT
1 ATTTT
84355472 CCCTTTAGCA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 4 0.07
57 55 0.93
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (57 bp):
ATTTTAATTAAGTATAATATCCATTTTATCATTTTAAAGCACAACATGTTAGCCGAT
Found at i:84355887 original size:26 final size:26
Alignment explanation
Indices: 84355857--84355964 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
84355847 TGAAATTCCC
*
84355857 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
84355883 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
84355909 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
84355935 ATCATGCAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
84355961 ATCA
1 ATCA
84355965 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.37, C:0.28, G:0.05, T:0.31
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:84360493 original size:40 final size:40
Alignment explanation
Indices: 84360434--84360575 Score: 115
Period size: 40 Copynumber: 3.5 Consensus size: 40
84360424 AAATTGAATG
* * * *
84360434 ATATCTGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
84360474 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
84360514 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
84360554 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
84360576 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:84360576 original size:40 final size:39
Alignment explanation
Indices: 84360473--84360601 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
84360463 TGCTGGAAAT
* * *
84360473 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
84360513 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
84360553 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
84360593 TATATCCGG
1 TATATCCGG
84360602 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:84365812 original size:3 final size:3
Alignment explanation
Indices: 84365804--84365932 Score: 251
Period size: 3 Copynumber: 43.3 Consensus size: 3
84365794 TACCCATTNT
84365804 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
84365851 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
84365899 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
84365933 TCTGAAAAGT
Statistics
Matches: 125, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 123 0.98
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:84367736 original size:2 final size:2
Alignment explanation
Indices: 84367729--84367769 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
84367719 TGGCACATGC
84367729 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT A
84367770 ACATATAAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:84368132 original size:15 final size:14
Alignment explanation
Indices: 84368108--84368138 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
84368098 ATTGATCATG
84368108 TAAGTAACATAATA
1 TAAGTAACATAATA
84368122 TAAGATAACATAATA
1 TAAG-TAACATAATA
84368137 TA
1 TA
84368139 CCACGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (14 bp):
TAAGTAACATAATA
Found at i:84370933 original size:47 final size:46
Alignment explanation
Indices: 84370844--84370934 Score: 123
Period size: 47 Copynumber: 2.0 Consensus size: 46
84370834 AGAGTGAGTA
*
84370844 TCATTGAGATAGCTTCGGCTATGCATTGGCACTTCGTGTGCGAGAT
1 TCATTGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGAT
*
84370890 TCATTGAGATAGCTTCTGG-TATGGTATTGGCACTTAAG-GTGCGAG
1 TCATTGAGATAGCTTC-GGCTAT-GCATTGGCACTT-AGTGTGCGAG
84370935 TTTCCCGAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
46 19 0.47
47 20 0.50
48 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (46 bp):
TCATTGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGAT
Found at i:84373444 original size:46 final size:46
Alignment explanation
Indices: 84373341--84373559 Score: 176
Period size: 46 Copynumber: 4.7 Consensus size: 46
84373331 TGTGAGAGCT
* * * * *
84373341 AGTGTAAGACCATGTCTGGGACATGGCATTGACATTGAGACGAGT-GCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGAGAC-A-TAGCC
84373389 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGACAT-AGCC
* * * * * * *
84373435 AGTGTAAGACATATATGGGACAT-GCGTTGGCCACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGA-CATAGCC
* * * *
84373481 AGTGTAAGACCATGTCTGGGACATGGCTTC-GACTTGAGATATAAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGAGACAT-AGCC
* *
84373528 CGTGTAAGACTATGTCTGGGTCATGGCATCGG
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGG
84373560 TACCTTACCC
Statistics
Matches: 139, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 62 0.45
47 62 0.45
48 13 0.09
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGACATAGCC
Found at i:84373520 original size:47 final size:49
Alignment explanation
Indices: 84373341--84373556 Score: 177
Period size: 47 Copynumber: 4.6 Consensus size: 49
84373331 TGTGAGAGCT
* * *
84373341 AGTGTAAGACCATGTCTGGGACATGGCATT-GACATTGAGACGAGT--GCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTCGAC-TCGAGATGA-TAAGCC
* *
84373389 AGTGTAAGA-CATGTCTGGGACAT-GCA-TCGGCCTCGAGA-CATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTC-GACTCGAGATGATAAGCC
* * * * * * *
84373435 AGTGTAAGA-CATATATGGGACAT-GCGTTGGCCACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATTCGACTCGAGATGATAAGCC
*
84373481 AGTGTAAGACCATGTCTGGGACATGGC-TTCGACTTGAGAT-ATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTCGACTCGAGATGATAAGCC
* * *
84373528 CGTGTAAGACTATGTCTGGGTCATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
84373557 CGGTACCTTA
Statistics
Matches: 137, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 55 0.40
47 67 0.49
48 12 0.09
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTCGACTCGAGATGATAAGCC
Found at i:84374526 original size:23 final size:23
Alignment explanation
Indices: 84374482--84374527 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
84374472 CACAGGGCTA
*
84374482 GGACACGGGCGTGTCACGGGCCG
1 GGACACGGGCGTGTCACAGGCCG
84374505 GGACACGGGCGTGT-ACCAGGCCG
1 GGACACGGGCGTGTCA-CAGGCCG
84374528 TGTGAAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.15, C:0.30, G:0.46, T:0.09
Consensus pattern (23 bp):
GGACACGGGCGTGTCACAGGCCG
Found at i:84381127 original size:18 final size:18
Alignment explanation
Indices: 84381104--84381147 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
84381094 CAATTAAATC
84381104 CCTAAAATGAAATTTTTA
1 CCTAAAATGAAATTTTTA
84381122 CCTAAAATGAAATTTTTA
1 CCTAAAATGAAATTTTTA
84381140 CCTAAAAT
1 CCTAAAAT
84381148 CACTTTACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (18 bp):
CCTAAAATGAAATTTTTA
Found at i:84384342 original size:76 final size:77
Alignment explanation
Indices: 84384244--84384416 Score: 244
Period size: 77 Copynumber: 2.3 Consensus size: 77
84384234 GAAGGACTAT
* *
84384244 TATCATGG-CTCGAAGCCAAACCAT-TCGATATGCAT-GCCCGAAGCCAAATTGGTATAGTACGC
1 TATCATGGAC-CGAAGCCAAACCATCT-GATATGCATGGCCCAAAGCCAAATTGGTATAATACGC
84384306 ACCCGAAGTGCTAA
64 ACCCGAAGTGCTAA
* * * *
84384320 TATTATGGACCGAAGCCAAACCATCTGATATGCATGGCCTAAAGCCAAATTGGTATAATACTCAT
1 TATCATGGACCGAAGCCAAACCATCTGATATGCATGGCCCAAAGCCAAATTGGTATAATACGCAC
84384385 CCGAAGTGCTAA
66 CCGAAGTGCTAA
*
84384397 TATCATGGCCCGAAGCCAAA
1 TATCATGGACCGAAGCCAAA
84384417 TCAACGTATC
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
76 30 0.35
77 56 0.65
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.22
Consensus pattern (77 bp):
TATCATGGACCGAAGCCAAACCATCTGATATGCATGGCCCAAAGCCAAATTGGTATAATACGCAC
CCGAAGTGCTAA
Found at i:84387392 original size:46 final size:45
Alignment explanation
Indices: 84387326--84387452 Score: 159
Period size: 46 Copynumber: 2.8 Consensus size: 45
84387316 TATATCCTGA
* * *
84387326 GGCCGATGCATGTCCCAGACATGTCTTACATTAGCTCTCGTCTCAA-T
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTATC--AT-AAGT
*
84387373 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCATAA-GT
*
84387418 GGCCGATTCATGTCCCAGACATGTCTTACACTAGC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
84387453 ACACATATCA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
43 2 0.03
44 1 0.01
45 1 0.01
46 67 0.94
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCATAAGT
Found at i:84387398 original size:94 final size:93
Alignment explanation
Indices: 84387281--84387452 Score: 224
Period size: 92 Copynumber: 1.8 Consensus size: 93
84387271 TCAACAAGTT
* **
84387281 GATGCCATGTCCCAGAGAAGTCTTCCACTAGCTGG-TAT-ATCCTGAGGCCGATGCATGTCCCAG
1 GATGCCATGTCCCAGACAAGTCTT--AC-A-CTGGCTATCATAATGAGGCCGATGCATGTCCCAG
*
84387344 ACATGTCTTACATTAGCTCTCGTCTCAATGCC
62 ACATGTCTTACACTAGCTCTCGTCTCAATGCC
* * *
84387376 GATG-CATGTCCCAGACATGTCTTACACTGGCTATCATAATGTGGCCGATTCATGTCCCAGACAT
1 GATGCCATGTCCCAGACAAGTCTTACACTGGCTATCATAATGAGGCCGATGCATGTCCCAGACAT
84387440 GTCTTACACTAGC
66 GTCTTACACTAGC
84387453 ACACATATCA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
90 4 0.06
91 4 0.06
92 39 0.57
94 17 0.25
95 4 0.06
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACAAGTCTTACACTGGCTATCATAATGAGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCGTCTCAATGCC
Found at i:84393357 original size:47 final size:47
Alignment explanation
Indices: 84393303--84393629 Score: 501
Period size: 47 Copynumber: 7.0 Consensus size: 47
84393293 TTAGGATTTT
** *
84393303 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
84393350 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
84393397 ATGTGGTGACTATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
84393444 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
84393491 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
84393538 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
84393585 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
84393630 TAGTGTGAAA
Statistics
Matches: 255, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 255 1.00
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:84393405 original size:25 final size:25
Alignment explanation
Indices: 84393330--84393405 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
84393320 GTGTATATAT
84393330 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
84393355 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
84393377 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
84393402 GTGA
1 GTGA
84393406 CTATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:84393477 original size:25 final size:25
Alignment explanation
Indices: 84393443--84393522 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
84393433 CCGAATGGCC
84393443 TATGTGATGAATGTGAACATGCATA
1 TATGTGATGAATGTGAACATGCATA
* * *
84393468 TATGTGATG-AGGCCG-A-ATGGC-CA
1 TATGTGATGAATG-TGAACAT-GCATA
*
84393491 -ATGTGATGAATGTGAGCATGCATA
1 TATGTGATGAATGTGAACATGCATA
84393515 TATGTGAT
1 TATGTGAT
84393523 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 9 0.22
23 7 0.17
24 8 0.20
25 17 0.41
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.30
Consensus pattern (25 bp):
TATGTGATGAATGTGAACATGCATA
Found at i:84393593 original size:25 final size:25
Alignment explanation
Indices: 84393518--84393593 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
84393508 ATGCATATAT
84393518 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
84393543 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
84393565 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
84393590 GTGA
1 GTGA
84393594 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:84393898 original size:37 final size:37
Alignment explanation
Indices: 84393792--84393900 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
84393782 GGAAATATAT
* * *
84393792 TCCGGGTGAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
84393829 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
84393866 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
84393901 CGTTCGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:84400612 original size:101 final size:101
Alignment explanation
Indices: 84400428--84400614 Score: 220
Period size: 101 Copynumber: 1.9 Consensus size: 101
84400418 CTATAACACC
*
84400428 AAAATAATAATAAAAATAATTTCTTGACTTTAGAATTATGGTCCCGAAACCACTGTTCTGACTAA
1 AAAATAATAATAAAAATAATTTCTTGACATTAGAATTATGGTCCCGAAACCACTGTTCTGACTAA
* *
84400493 GCCCAAAATCGAATTATTACACAAGCTGTAATTATT
66 GCCCAAAAACGAACTATTACACAAGCTGTAATTATT
* * * * * *
84400529 AAAATAATAAT-AAAATAATTTTTTTGGCATT-GAATTTGTGGTCCCGAAACCA-TTTTTTCGAT
1 AAAATAATAATAAAAATAA-TTTCTTGACATTAGAA-TTATGGTCCCGAAACCACTGTTCT-GAC
*
84400591 TAAGCCTAAAAAC-AAGCTATTACA
63 TAAGCCCAAAAACGAA-CTATTACA
84400615 TACCTATTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
100 16 0.22
101 56 0.78
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (101 bp):
AAAATAATAATAAAAATAATTTCTTGACATTAGAATTATGGTCCCGAAACCACTGTTCTGACTAA
GCCCAAAAACGAACTATTACACAAGCTGTAATTATT
Found at i:84400781 original size:2 final size:2
Alignment explanation
Indices: 84400776--84400814 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
84400766 GCACACACAC
*
84400776 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84400815 CATCATCAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:84405216 original size:33 final size:32
Alignment explanation
Indices: 84405160--84405256 Score: 171
Period size: 31 Copynumber: 3.1 Consensus size: 32
84405150 CCTTTTCATA
84405160 TTTCATATTTCATA-ATACTGGGCCGAAGCCT
1 TTTCATATTTCATATATACTGGGCCGAAGCCT
84405191 TTTCATATTTCATATCATACTGGGCCGAAGCCT
1 TTTCATATTTCATAT-ATACTGGGCCGAAGCCT
84405224 TTTCATATTTCATAT-TACTGGGCCGAAGCCT
1 TTTCATATTTCATATATACTGGGCCGAAGCCT
84405255 TT
1 TT
84405257 ACTGTAAACG
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 32 0.50
33 32 0.50
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (32 bp):
TTTCATATTTCATATATACTGGGCCGAAGCCT
Found at i:84405499 original size:24 final size:24
Alignment explanation
Indices: 84405448--84405590 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
84405438 GCTTTATCAT
*
84405448 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
84405473 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
84405497 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
84405520 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
84405544 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
84405568 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
84405591 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:84405527 original size:47 final size:48
Alignment explanation
Indices: 84405448--84405589 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
84405438 GCTTTATCAT
* *
84405448 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
84405497 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
84405544 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
84405590 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:84405548 original size:71 final size:72
Alignment explanation
Indices: 84405447--84405590 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
84405437 TGCTTTATCA
*
84405447 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
84405512 GCCCTTT
66 GCCCTTT
* * **
84405519 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
84405582 AGCCCTTT
65 AGCCCTTT
84405590 T
1 T
84405591 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:84405666 original size:20 final size:20
Alignment explanation
Indices: 84405641--84405700 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
84405631 TATGATTACC
84405641 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
84405661 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
84405681 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
84405701 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:84405671 original size:11 final size:11
Alignment explanation
Indices: 84405641--84405695 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
84405631 TATGATTACC
84405641 TCATGTGCATA
1 TCATGTGCATA
*
84405652 TCA--TACATA
1 TCATGTGCATA
84405661 TCATGTGCATA
1 TCATGTGCATA
* *
84405672 TCA--TACATT
1 TCATGTGCATA
84405681 TCATGTGCATA
1 TCATGTGCATA
84405692 TCAT
1 TCAT
84405696 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:84405775 original size:25 final size:25
Alignment explanation
Indices: 84405743--84405790 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
84405733 ATACATAAAC
* * *
84405743 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
84405768 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
84405791 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:84413353 original size:31 final size:31
Alignment explanation
Indices: 84413315--84413412 Score: 160
Period size: 31 Copynumber: 3.1 Consensus size: 31
84413305 CCTTTTCATA
84413315 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
84413346 TTTCATATTTCATCATAATACTGGGCCGAAGCCT
1 TTTCATA-TT--TCATAATACTGGGCCGAAGCCT
*
84413380 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
84413411 TT
1 TT
84413413 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
31 30 0.48
32 2 0.03
33 2 0.03
34 29 0.46
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:84413367 original size:34 final size:34
Alignment explanation
Indices: 84413324--84413412 Score: 157
Period size: 34 Copynumber: 2.7 Consensus size: 34
84413314 ATTTCATATT
84413324 TCATAATACTGGGCCGAAGCCTTTTCATATTTCA
1 TCATAATACTGGGCCGAAGCCTTTTCATATTTCA
84413358 TCATAATACTGGGCCGAAGCCTTTTCATATTTCA
1 TCATAATACTGGGCCGAAGCCTTTTCATATTTCA
84413392 T-AT--TACTGGGCCGAAGCCTTT
1 TCATAATACTGGGCCGAAGCCTTT
84413413 ACTGTAAACG
Statistics
Matches: 55, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
31 18 0.33
33 2 0.04
34 35 0.64
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (34 bp):
TCATAATACTGGGCCGAAGCCTTTTCATATTTCA
Found at i:84413655 original size:24 final size:24
Alignment explanation
Indices: 84413604--84413745 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
84413594 GCTTTATCAT
*
84413604 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
84413629 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
84413653 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
84413676 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
84413699 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
84413723 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
84413746 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 16 0.15
23 12 0.11
24 69 0.63
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:84413692 original size:46 final size:48
Alignment explanation
Indices: 84413604--84413744 Score: 198
Period size: 46 Copynumber: 3.0 Consensus size: 48
84413594 GCTTTATCAT
* *
84413604 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
84413653 ATAACTGGGGCATAAGCCCTTTT-ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
84413699 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
84413745 TTCACTTCCT
Statistics
Matches: 85, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
46 37 0.44
47 12 0.14
48 24 0.28
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:84413821 original size:20 final size:20
Alignment explanation
Indices: 84413796--84413855 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
84413786 TATGATTACC
84413796 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
84413816 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
84413836 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
84413856 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:84413826 original size:11 final size:11
Alignment explanation
Indices: 84413796--84413850 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
84413786 TATGATTACC
84413796 TCATGTGCATA
1 TCATGTGCATA
*
84413807 TCA--TACATA
1 TCATGTGCATA
84413816 TCATGTGCATA
1 TCATGTGCATA
* *
84413827 TCA--TACATT
1 TCATGTGCATA
84413836 TCATGTGCATA
1 TCATGTGCATA
84413847 TCAT
1 TCAT
84413851 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:84413930 original size:25 final size:25
Alignment explanation
Indices: 84413898--84413945 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
84413888 ATACATAAAC
* * *
84413898 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
84413923 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
84413946 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:84419046 original size:28 final size:28
Alignment explanation
Indices: 84418998--84419088 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
84418988 GTGACAGAGT
*
84418998 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
84419027 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
84419055 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
84419083 CACCAG
1 CACCAG
84419089 GATGCTACCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:84419241 original size:28 final size:28
Alignment explanation
Indices: 84419194--84419258 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
84419184 AAATTAACCC
*
84419194 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
*
84419222 TAGGGGTATA-ATGGTAATTTTGTATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
84419250 TAGGGGTAT
1 TAGGGGTAT
84419259 TCTAGTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:84420556 original size:24 final size:24
Alignment explanation
Indices: 84420529--84420575 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
84420519 CTAGATTTCC
*
84420529 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAGCTCCTAAATCCTA
84420553 TCCCTTATCAGCTCCTAAATCCT
1 TCCCTTATCAGCTCCTAAATCCT
84420576 CTCCTGACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.38, G:0.04, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAGCTCCTAAATCCTA
Found at i:84432848 original size:21 final size:20
Alignment explanation
Indices: 84432822--84432870 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
84432812 TCTTTTAGTG
84432822 TTTTTTTATGTATTATATATA
1 TTTTTTTATGTATTATATA-A
* * *
84432843 TTTTTTGATTTTTTATATAA
1 TTTTTTTATGTATTATATAA
84432863 TTTTTTTA
1 TTTTTTTA
84432871 ATACGAGCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTTTTATGTATTATATAA
Found at i:84434655 original size:21 final size:22
Alignment explanation
Indices: 84434618--84434665 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
84434608 TTGCAACTAA
84434618 TATTTTATATGAATTTTTAATT
1 TATTTTATATGAATTTTTAATT
*
84434640 TATTTT-TATGACTTTTTAATT
1 TATTTTATATGAATTTTTAATT
84434661 T-TTTT
1 TATTTT
84434666 CCAATATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 4 0.16
21 15 0.60
22 6 0.24
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (22 bp):
TATTTTATATGAATTTTTAATT
Found at i:84436973 original size:7 final size:7
Alignment explanation
Indices: 84436961--84437011 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
84436951 CACAAAAAAA
84436961 AAAGAAT
1 AAAGAAT
84436968 AAAGAAT
1 AAAGAAT
84436975 AAAGAAT
1 AAAGAAT
84436982 AAA-AAT
1 AAAGAAT
*
84436988 AATGAAT
1 AAAGAAT
*
84436995 AATGAAT
1 AAAGAAT
*
84437002 AAAAAAT
1 AAAGAAT
84437009 AAA
1 AAA
84437012 AAGTAAAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
6 5 0.12
7 35 0.88
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.18
Consensus pattern (7 bp):
AAAGAAT
Found at i:84436994 original size:20 final size:20
Alignment explanation
Indices: 84436965--84437011 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
84436955 AAAAAAAAAG
84436965 AATAAAGAATAAAGAATAAA
1 AATAAAGAATAAAGAATAAA
* *
84436985 AATAATGAATAATGAATAAAA
1 AATAAAGAATAAAGAAT-AAA
84437006 AATAAA
1 AATAAA
84437012 AAGTAAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (20 bp):
AATAAAGAATAAAGAATAAA
Found at i:84436994 original size:27 final size:27
Alignment explanation
Indices: 84436955--84437032 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 27
84436945 TAAAATCACA
*
84436955 AAAAAAAAAGAATAAAGAATAAAGAAT
1 AAAAAAAAAGAATAAAGAATAAAAAAT
* * *
84436982 AAAAATAATGAATAATGAATAAAAAAT
1 AAAAAAAAAGAATAAAGAATAAAAAAT
84437009 AAAAAGTAAAAAGAATTAAAGAAT
1 -AAAA--AAAAAGAA-TAAAGAAT
84437033 TAATTAGTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 23 0.57
28 4 0.10
30 6 0.15
31 7 0.17
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (27 bp):
AAAAAAAAAGAATAAAGAATAAAAAAT
Found at i:84439194 original size:18 final size:18
Alignment explanation
Indices: 84439171--84439234 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
84439161 CATTTACCAT
*
84439171 TCAATCAAAGTTTCCTTA
1 TCAATCAAAGTTTCCTCA
**
84439189 TCAATCAAACATTCAC-CA
1 TCAATCAAAGTTTC-CTCA
*
84439207 TTCGATCAAAGTTTCCTCA
1 -TCAATCAAAGTTTCCTCA
84439226 TCAATCAAA
1 TCAATCAAA
84439235 CAAAACAATC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 22 0.61
19 14 0.39
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.31
Consensus pattern (18 bp):
TCAATCAAAGTTTCCTCA
Found at i:84439199 original size:37 final size:37
Alignment explanation
Indices: 84439158--84439236 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
84439148 AGATCTTACA
* *
84439158 AAACATTTACCATTCAATCAAAGTTTCCTTATCAATC
1 AAACATTCACCATTCAATCAAAGTTTCCTCATCAATC
*
84439195 AAACATTCACCATTCGATCAAAGTTTCCTCATCAATC
1 AAACATTCACCATTCAATCAAAGTTTCCTCATCAATC
84439232 AAACA
1 AAACA
84439237 AAACAATCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.39, C:0.27, G:0.04, T:0.30
Consensus pattern (37 bp):
AAACATTCACCATTCAATCAAAGTTTCCTCATCAATC
Found at i:84454035 original size:6 final size:6
Alignment explanation
Indices: 84454026--84454086 Score: 72
Period size: 6 Copynumber: 10.5 Consensus size: 6
84454016 TGAAAAAGTA
* * *
84454026 AAAATG AAAA-T AAACTT AAAATC AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
*
84454073 -AAATA AAAATT AAA
1 AAAATT AAAATT AAA
84454087 TTTGTTTTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
5 7 0.15
6 39 0.85
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (6 bp):
AAAATT
Found at i:84454081 original size:11 final size:11
Alignment explanation
Indices: 84454027--84454088 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
84454017 GAAAAAGTAA
*
84454027 AAATGAAAA-T
1 AAATTAAAATT
*
84454037 AAACTTAAAATCA
1 AAA-TTAAAAT-T
84454050 AAATTAAAATT
1 AAATTAAAATT
84454061 AAAATTAAAATT
1 -AAATTAAAATT
*
84454073 AAATAAAAATT
1 AAATTAAAATT
84454084 AAATT
1 AAATT
84454089 TGTTTTAGGC
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
10 3 0.07
11 19 0.44
12 18 0.42
13 3 0.07
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:84458358 original size:42 final size:42
Alignment explanation
Indices: 84458256--84458370 Score: 115
Period size: 44 Copynumber: 2.7 Consensus size: 42
84458246 GGATATCCAA
* * * * * * * *
84458256 TATTTGATTTCGTGTAAAACCACGTCTGGGACGTTGGCATTG
1 TATTTGGTTTCGTGTAAGACCATGTCTAGAACATTGCCAATG
84458298 -ATTTGAGATTTACGTGTAAGACCATGTCTAGAACATTGCCAATG
1 TATTTG-G-TTT-CGTGTAAGACCATGTCTAGAACATTGCCAATG
*
84458342 TATTTGGTTTCGTGTAAGACCCTGTCTAG
1 TATTTGGTTTCGTGTAAGACCATGTCTAG
84458371 GACAGTGGCA
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
41 5 0.08
42 18 0.30
43 6 0.10
44 26 0.43
45 5 0.08
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (42 bp):
TATTTGGTTTCGTGTAAGACCATGTCTAGAACATTGCCAATG
Found at i:84472086 original size:54 final size:55
Alignment explanation
Indices: 84471999--84472129 Score: 205
Period size: 54 Copynumber: 2.4 Consensus size: 55
84471989 TCATGGCAGG
84471999 ATTACCAGTCCAGGCTAAA-CCCCCTATATCATGAACTCATAAGGTGATGTTC-GA
1 ATTACCAGTCCAGGCTAAATCCCCCTATATCATGAACTCATAAGGTGATG-TCAGA
** *
84472053 ATTTTCAGTCCAGGCTAAATCCCCC-ATATCATGAACTCATAAGGTGATGTCAGG
1 ATTACCAGTCCAGGCTAAATCCCCCTATATCATGAACTCATAAGGTGATGTCAGA
84472107 ATTACCAGTCCAGGCTAAATCCC
1 ATTACCAGTCCAGGCTAAATCCC
84472130 TTATAATGAC
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
53 2 0.03
54 63 0.90
55 5 0.07
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (55 bp):
ATTACCAGTCCAGGCTAAATCCCCCTATATCATGAACTCATAAGGTGATGTCAGA
Found at i:84475370 original size:49 final size:50
Alignment explanation
Indices: 84475313--84475453 Score: 185
Period size: 49 Copynumber: 2.8 Consensus size: 50
84475303 GTAGACAAGG
* *
84475313 CTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * * *
84475362 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACGACACACGTGACCTAA
1 CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * * *
84475412 CCATCTGATACACATAGTATCCTGCACTTAGTACTACACACG
1 CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACG
84475454 TGATCGAAGT
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 41 0.53
50 37 0.47
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (50 bp):
CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
Found at i:84475483 original size:35 final size:35
Alignment explanation
Indices: 84475437--84475508 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
84475427 AGTATCCTGC
*
84475437 ACTTAGTACTACACACGTGATCGAAGTTATCAGGT
1 ACTTAGTACTACACACGTGATCAAAGTTATCAGGT
*
84475472 ACTTAGTACTACACACGTGATCAAAGTTATCGGGT
1 ACTTAGTACTACACACGTGATCAAAGTTATCAGGT
84475507 AC
1 AC
84475509 GCATAGTAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (35 bp):
ACTTAGTACTACACACGTGATCAAAGTTATCAGGT
Found at i:84475565 original size:49 final size:51
Alignment explanation
Indices: 84475472--84475588 Score: 166
Period size: 49 Copynumber: 2.3 Consensus size: 51
84475462 GTTATCAGGT
*
84475472 ACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTAC
1 ACTTAGTACTACACACGCGATCAAAGTTATCGGGTACGCATAGTAGCCTAC
* * * * *
84475523 ACTTAGTACTACACATGCGA-CCAA-TTATCTGGTACGCGTAGTAGCCTGC
1 ACTTAGTACTACACACGCGATCAAAGTTATCGGGTACGCATAGTAGCCTAC
84475572 ACTTAGTACTACACACG
1 ACTTAGTACTACACACG
84475589 TGACCTCACA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 38 0.64
50 3 0.05
51 18 0.31
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (51 bp):
ACTTAGTACTACACACGCGATCAAAGTTATCGGGTACGCATAGTAGCCTAC
Found at i:84483240 original size:54 final size:54
Alignment explanation
Indices: 84483156--84483292 Score: 222
Period size: 54 Copynumber: 2.5 Consensus size: 54
84483146 CTCATGGGAA
* *
84483156 GATTACCAGTCTAGGATAAATCGCCC-ATATCATGAACTCATAAGGTGATGTCGG
1 GATTACCAGTCCAGGCTAAATC-CCCTATATCATGAACTCATAAGGTGATGTCGG
84483210 GATTACCAGTCCAGGCTAAATCCCCTATATCATGAACTCATAAGGTGATGTCGG
1 GATTACCAGTCCAGGCTAAATCCCCTATATCATGAACTCATAAGGTGATGTCGG
* *
84483264 GATTACCAGCCCAGGCTAAATCCCTTATA
1 GATTACCAGTCCAGGCTAAATCCCCTATA
84483293 ACGACAAACA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 3 0.04
54 75 0.96
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (54 bp):
GATTACCAGTCCAGGCTAAATCCCCTATATCATGAACTCATAAGGTGATGTCGG
Found at i:84486382 original size:40 final size:40
Alignment explanation
Indices: 84486141--84486368 Score: 386
Period size: 40 Copynumber: 5.7 Consensus size: 40
84486131 ATTCAGATTG
84486141 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
84486180 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
84486220 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
84486260 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
84486300 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
84486340 ATAACAGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
84486369 AGCCAGTAGC
Statistics
Matches: 179, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
39 13 0.07
40 166 0.93
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:84496894 original size:13 final size:15
Alignment explanation
Indices: 84496876--84496907 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
84496866 TTTACTATTT
84496876 AATCTCTT-CCTC-G
1 AATCTCTTACCTCTG
84496889 AATCTCTTACCTCTG
1 AATCTCTTACCTCTG
84496904 AATC
1 AATC
84496908 AGCCTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.22, C:0.34, G:0.06, T:0.38
Consensus pattern (15 bp):
AATCTCTTACCTCTG
Found at i:84498563 original size:48 final size:48
Alignment explanation
Indices: 84498476--84498735 Score: 137
Period size: 48 Copynumber: 5.5 Consensus size: 48
84498466 AGCTCCTATA
* * *
84498476 TAAGACCATATTTGGGATATGGCTTCGGCAGTGACATGTGATCCCATG
1 TAAGACCATATCTGGGACATGGCTTCGGCAATGACATGTGATCCCATG
* * * ** *
84498524 TAGGACCATCTCTGGGACATGGCTTTGGCAATGTTATGTGATCCTATG
1 TAAGACCATATCTGGGACATGGCTTCGGCAATGACATGTGATCCCATG
* * ** ** * *
84498572 TAAGACCATGTCCGGGACATAGAATT-GGCATCAT-A-ATAAGA-CATCGTG
1 TAAGACCATATCTGGGACAT-GGCTTCGGCA--ATGACATGTGATC-CCATG
*
84498620 TAAGACCATAGCTGGG-CTATCGGCTTC-G-ATATG---TGTGATCCCATG
1 TAAGACCATATCTGGGAC-AT-GGCTTCGGCA-ATGACATGTGATCCCATG
* * ** * *
84498665 TAAGACCATGTCTGGGACATGGCATT-GGCATTGTTATGTGGTCCCATA
1 TAAGACCATATCTGGGACATGGC-TTCGGCAATGACATGTGATCCCATG
* *
84498713 TAAGACCATATTTGGGATATGGC
1 TAAGACCATATCTGGGACATGGC
84498736 ATTGGCACCC
Statistics
Matches: 158, Mismatches: 39, Indels: 30
0.70 0.17 0.13
Matches are distributed among these distances:
44 3 0.02
45 27 0.17
46 5 0.03
47 3 0.02
48 115 0.73
49 3 0.02
50 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (48 bp):
TAAGACCATATCTGGGACATGGCTTCGGCAATGACATGTGATCCCATG
Found at i:84508415 original size:48 final size:48
Alignment explanation
Indices: 84508363--84508455 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
84508353 CGATAGTGAC
* * *
84508363 ATGTGATCCCATGTAGGACCATCTCTAGAACATGGCTTTGGCATCGTT
1 ATGTGATCCCATGTAAGACCATCTCCAGAACATGGCATTGGCATCGTT
* * *
84508411 ATGTGATCCCATGTAAGACCATGTCCGGGACATGGCATTGGCATC
1 ATGTGATCCCATGTAAGACCATCTCCAGAACATGGCATTGGCATC
84508456 ATAATGAGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (48 bp):
ATGTGATCCCATGTAAGACCATCTCCAGAACATGGCATTGGCATCGTT
Found at i:84518419 original size:21 final size:20
Alignment explanation
Indices: 84518377--84518423 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
84518367 GGAATTACCC
*
84518377 CAAGAAAGCCGATTGATCCAT
1 CAAG-AAGCCGATTCATCCAT
84518398 CTAAGAAGCCGAATTCAT-CAT
1 C-AAGAAGCCG-ATTCATCCAT
84518419 CAAGA
1 CAAGA
84518424 CTAAATATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 11 0.48
22 8 0.35
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAGAAGCCGATTCATCCAT
Found at i:84520251 original size:31 final size:31
Alignment explanation
Indices: 84520213--84520276 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
84520203 CCTTTTCATA
84520213 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
84520244 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
84520275 TT
1 TT
84520277 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:84520519 original size:24 final size:24
Alignment explanation
Indices: 84520468--84520634 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
84520458 GCTTTATCAT
* *
84520468 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
84520493 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
84520517 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
84520540 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
84520564 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
84520588 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
84520612 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
84520635 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 100 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:84520568 original size:71 final size:71
Alignment explanation
Indices: 84520467--84520634 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
84520457 TGCTTTATCA
*
84520467 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
84520531 AGCCCTTT
64 AGCCCTTT
* * **
84520539 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
84520604 CCCTTT
66 CCCTTT
84520610 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
84520635 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 53 0.60
72 36 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:84520710 original size:20 final size:20
Alignment explanation
Indices: 84520685--84520744 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
84520675 TATGATTACC
84520685 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
84520705 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
84520725 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
84520745 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:84520715 original size:11 final size:11
Alignment explanation
Indices: 84520685--84520739 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
84520675 TATGATTACC
84520685 TCATGTGCATA
1 TCATGTGCATA
*
84520696 TCA--TACATA
1 TCATGTGCATA
84520705 TCATGTGCATA
1 TCATGTGCATA
* *
84520716 TCA--TACATT
1 TCATGTGCATA
84520725 TCATGTGCATA
1 TCATGTGCATA
84520736 TCAT
1 TCAT
84520740 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:84520819 original size:25 final size:25
Alignment explanation
Indices: 84520787--84520834 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
84520777 ATACATAAAC
* * *
84520787 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
84520812 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
84520835 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:84527569 original size:38 final size:35
Alignment explanation
Indices: 84527510--84527627 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
84527500 TCAATCATGC
*
84527510 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
84527549 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
84527580 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
84527611 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
84527628 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:84527571 original size:31 final size:31
Alignment explanation
Indices: 84527533--84527627 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
84527523 CCTTTTCATA
*
84527533 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
84527564 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
84527595 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
84527626 TT
1 TT
84527628 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:84527870 original size:24 final size:24
Alignment explanation
Indices: 84527819--84527961 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
84527809 GCTTTATCAT
*
84527819 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
84527844 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
84527868 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
84527891 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
84527915 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
84527939 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
84527962 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:84527898 original size:47 final size:48
Alignment explanation
Indices: 84527819--84527960 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
84527809 GCTTTATCAT
* *
84527819 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
84527868 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
84527915 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
84527961 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:84527919 original size:71 final size:72
Alignment explanation
Indices: 84527818--84527961 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
84527808 TGCTTTATCA
*
84527818 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
84527883 GCCCTTT
66 GCCCTTT
* * **
84527890 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
84527953 AGCCCTTT
65 AGCCCTTT
84527961 T
1 T
84527962 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:84528037 original size:20 final size:20
Alignment explanation
Indices: 84528012--84528071 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
84528002 TATGATTACC
84528012 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
84528032 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
84528052 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
84528072 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:84528042 original size:11 final size:11
Alignment explanation
Indices: 84528012--84528066 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
84528002 TATGATTACC
84528012 TCATGTGCATA
1 TCATGTGCATA
*
84528023 TCA--TACATA
1 TCATGTGCATA
84528032 TCATGTGCATA
1 TCATGTGCATA
* *
84528043 TCA--TACATT
1 TCATGTGCATA
84528052 TCATGTGCATA
1 TCATGTGCATA
84528063 TCAT
1 TCAT
84528067 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:84528146 original size:25 final size:25
Alignment explanation
Indices: 84528114--84528161 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
84528104 ATACATAAAC
* * *
84528114 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
84528139 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
84528162 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:84530288 original size:84 final size:84
Alignment explanation
Indices: 84530186--84530362 Score: 345
Period size: 84 Copynumber: 2.1 Consensus size: 84
84530176 AAAGCATGCT
84530186 AATTCATACTCATGTCATGCCATCTATCATCAACCAATTCAACTACTCAATTCCACATTCAAAAC
1 AATTCAT-CTCATGTCATGCCATCTATCATCAACCAATTCAACTACTCAATTCCACATTCAAAAC
84530251 CTATCAAATTATTATTCCAA
65 CTATCAAATTATTATTCCAA
84530271 AATTCATCTCATGTCATGCCATCTATCATCAACCAATTCAACTACTCAATTCCACATTCAAAACC
1 AATTCATCTCATGTCATGCCATCTATCATCAACCAATTCAACTACTCAATTCCACATTCAAAACC
84530336 TATCAAATTATTATTCCAA
66 TATCAAATTATTATTCCAA
84530355 AATTCATC
1 AATTCATC
84530363 ACATTAACAT
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 85 0.92
85 7 0.08
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.32
Consensus pattern (84 bp):
AATTCATCTCATGTCATGCCATCTATCATCAACCAATTCAACTACTCAATTCCACATTCAAAACC
TATCAAATTATTATTCCAA
Found at i:84537868 original size:55 final size:55
Alignment explanation
Indices: 84537783--84537915 Score: 153
Period size: 55 Copynumber: 2.4 Consensus size: 55
84537773 GGCCGTGGAA
* ** * * *
84537783 GAACCTGCCAAAACAACACGGGCGTTCGACATGCCCGTGCCTG-GAAACCGT-GGC
1 GAACCTGTCAAATTAACACGGGCATGCGACACGCCCGTGCC-GAGAAACCGTGGGC
* * *
84537837 TGAACCTGTCAAATTAACATGGGCATGCGACACGCCCGTGTCGAGCAACCGTGGGC
1 -GAACCTGTCAAATTAACACGGGCATGCGACACGCCCGTGCCGAGAAACCGTGGGC
84537893 GAACCTGTCAAATTAACACGGGC
1 GAACCTGTCAAATTAACACGGGC
84537916 GTAGACCTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
54 1 0.02
55 62 0.94
56 3 0.05
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (55 bp):
GAACCTGTCAAATTAACACGGGCATGCGACACGCCCGTGCCGAGAAACCGTGGGC
Found at i:84543736 original size:39 final size:39
Alignment explanation
Indices: 84543682--84543873 Score: 267
Period size: 39 Copynumber: 4.9 Consensus size: 39
84543672 GAATGTTCGA
84543682 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
84543721 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * * *
84543760 ATGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
84543799 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * **
84543838 GTGATATCCAGGTTAAGTCCCGAAGGCCTTTGTGCA
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCA
84543874 GGTTACCATA
Statistics
Matches: 140, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 124 0.89
40 16 0.11
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:84543823 original size:117 final size:119
Alignment explanation
Indices: 84543683--84543904 Score: 333
Period size: 117 Copynumber: 1.9 Consensus size: 119
84543673 AATGTTCGAG
*
84543683 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCAGGCTAAGTCCCGAAGGC
** *
84543747 AATTGTGC-GAGTTATGATACCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
66 AATTGTGCAG-GTTACCATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* *
84543800 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCAGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCAGGCTAAGTCCCGAAGGC
** *
84543865 CTTTGTGCAGGTTACCATAACCGGGCTATGTCCCGAAGGC
66 AATTGTGCAGGTTACCATAACCGGGCTAAGTCCCGAAGGC
84543905 GTTTGAACGA
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
117 52 0.56
118 31 0.33
119 10 0.11
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (119 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCAGGCTAAGTCCCGAAGGC
AATTGTGCAGGTTACCATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
Found at i:84552382 original size:26 final size:26
Alignment explanation
Indices: 84552353--84552412 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
84552343 TCCCTTTGAA
* * *
84552353 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
84552379 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
84552407 CCATTC
1 TCATTC
84552413 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:84552398 original size:28 final size:28
Alignment explanation
Indices: 84552367--84552438 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
84552357 TCGATATTTT
*
84552367 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
84552395 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
84552423 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
84552439 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:84561275 original size:40 final size:40
Alignment explanation
Indices: 84561231--84561321 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 40
84561221 GTGCTAAGTG
* * * *
84561231 ACTAAATCCGGACTAAGATCCGACGGCATACGTGCGAGTT
1 ACTAAATCCGGACTAAGATCCGAAGGCATACGAGCAAGCT
* *
84561271 ACTAAATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCT
1 ACTAAATCCGGACTAAGATCCGAAGGCATACGAGCAAGCT
84561311 ACTAAATCCGG
1 ACTAAATCCGG
84561322 GTTGAGTCCC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (40 bp):
ACTAAATCCGGACTAAGATCCGAAGGCATACGAGCAAGCT
Found at i:84561374 original size:80 final size:80
Alignment explanation
Indices: 84561196--84561383 Score: 197
Period size: 80 Copynumber: 2.3 Consensus size: 80
84561186 TTCGAATGAT
* *
84561196 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
84561261 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
84561276 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* * *
84561337 CATTCGTGCGAGTTATTGTA
62 CATACGTGCGAGTTACT-AA
*
84561357 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
84561384 ATGTGTAGCC
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 2 0.02
80 78 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:84567484 original size:46 final size:50
Alignment explanation
Indices: 84567412--84567516 Score: 146
Period size: 46 Copynumber: 2.2 Consensus size: 50
84567402 GACAGGACAG
* * *
84567412 GACAGAAATGAGCCATGTAAGTCCATA-T-CA-A-ATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACATATATATATGGCATTGGA
*
84567458 GACAGGAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACATATATATATGGCATTGGA
84567508 GACAGGAAT
1 GACAGGAAT
84567517 AATTCATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
46 25 0.49
47 1 0.02
48 1 0.02
49 1 0.02
50 23 0.45
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (50 bp):
GACAGGAATGAGCCATGTAAGCCCATATTACATATATATATGGCATTGGA
Found at i:84569581 original size:55 final size:55
Alignment explanation
Indices: 84569494--84569748 Score: 275
Period size: 55 Copynumber: 4.8 Consensus size: 55
84569484 ATTAGGGTTT
*
84569494 AAGGATACCATGTAAGACCATG-CTAAGGCATGGCAATTGGTAAGATTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCAATTGGTAAG-TTTCATAAGGC
* * *
84569549 AAGGATATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTTCTATAAGGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTC-ATAA-GGC
* * * *
84569605 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCATAAGGC
*
84569657 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC--AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCATAAGGC
* * *
84569706 AAGGATACCATGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAG
84569749 GTACCTGTGT
Statistics
Matches: 173, Mismatches: 19, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
48 2 0.01
49 37 0.21
52 8 0.05
53 39 0.23
54 15 0.09
55 65 0.38
56 7 0.04
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCATAAGGC
Found at i:84569700 original size:108 final size:109
Alignment explanation
Indices: 84569501--84569703 Score: 320
Period size: 108 Copynumber: 1.9 Consensus size: 109
84569491 TTTAAGGATA
* * *
84569501 CCATGTAAGACCATGCTAAGGCATGGCAATTGGTAAGATTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGT-AGAGTTCTAAGGCAAGGATACCATGTAAGA
*
84569566 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGGAAAGGTC
65 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGGAAAGGTC
84569611 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGT-GAGTTCATAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAGAGTTC-TAAGGCAAGGATACCATGTAAGA
* *
84569674 CCATGTCGAGACATGGCAATGGTAAGTTTC
65 CCATGTCAAGACATGGCAATGATAAGTTTC
84569704 AAAAGGATAC
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
107 5 0.06
108 49 0.57
109 6 0.07
110 26 0.30
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAGAGTTCTAAGGCAAGGATACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTTCTATAAGGGAAAGGTC
Found at i:84569855 original size:24 final size:25
Alignment explanation
Indices: 84569819--84569865 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
84569809 GGTAAGGTAA
**
84569819 GGTAAGATGAGTT-ATACTAAAAAG
1 GGTAAGACAAGTTCATACTAAAAAG
*
84569843 GGTAAGACAAGTTCATGCTAAAA
1 GGTAAGACAAGTTCATACTAAAA
84569866 GAGCAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (25 bp):
GGTAAGACAAGTTCATACTAAAAAG
Found at i:84581524 original size:40 final size:41
Alignment explanation
Indices: 84581450--84581634 Score: 243
Period size: 40 Copynumber: 4.6 Consensus size: 41
84581440 AACCCAAGTA
* *
84581450 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
84581489 CCTTCGGGTCTTAGCCCGAATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
84581529 CCTTCGGGACTTAGCCCCGATGTAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
84581569 CCTTCGGGACTTAGCCTGGATATAGTAACTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT--CAACTAGCACAAATG
*
84581612 CCTTCGGAACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
84581635 CATCCGAATA
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 12 0.09
40 80 0.62
41 1 0.01
42 1 0.01
43 34 0.27
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:84589495 original size:43 final size:40
Alignment explanation
Indices: 84589337--84589505 Score: 243
Period size: 40 Copynumber: 4.2 Consensus size: 40
84589327 GTGATTTAGT
*
84589337 CGGATATAG-CAACTCGCACAAATGCCTTCGGG-CTTAGCC
1 CGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCC
84589376 CGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
* *
84589416 CCGATGTAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
* *
84589456 CGGATATAGTAACTACTCGCACAAATGCCTTCGGAACTTAGCC
1 CGGATATAGT--C-ACTAGCACAAATGCCTTCGGGACTTAGCC
84589499 CGGATAT
1 CGGATAT
84589506 CATCTGAATA
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
39 29 0.25
40 54 0.46
42 1 0.01
43 34 0.29
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
Found at i:84591147 original size:21 final size:21
Alignment explanation
Indices: 84591101--84591154 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
84591091 CTGTCACACT
* *
84591101 GACCACACGAGCGTGTCCCTT
1 GACCACACGGGCGTGTCCCTA
* *
84591122 TACCACACGGGTGTGTCCCTA
1 GACCACACGGGCGTGTCCCTA
*
84591143 GACCACGCGGGC
1 GACCACACGGGC
84591155 TTGTGGGCCG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.37, G:0.28, T:0.17
Consensus pattern (21 bp):
GACCACACGGGCGTGTCCCTA
Found at i:84593940 original size:47 final size:47
Alignment explanation
Indices: 84593881--84594010 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
84593871 GTGCGAATAA
* * * * *
84593881 TACCTTGATTTGGATACGGGCCATGATATAGGTA-TTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAG-GAGAAGT
* *
84593928 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCTAGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAGGAGAAGT
* *
84593975 TACCTTGCTTTGGCTACGAGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
84594011 TATCGATTGT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 69 0.96
48 3 0.04
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAGGAGAAGT
Found at i:84597105 original size:44 final size:44
Alignment explanation
Indices: 84596997--84597112 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 44
84596987 AGCTCATACA
* * * * *
84596997 ATGCCACTGTCCCAAACCTGGTCTT--ACATGAAATTAAATTTG
1 ATGCCAATGTCCCAGACCTGGTCTTACACATGAAATCAAAGTCG
* * * *
84597039 ATTCCGATGTCCCAGGCATGGTCTTACACAT-AAATCATAAGTCG
1 ATGCCAATGTCCCAGACCTGGTCTTACACATGAAATCA-AAGTCG
84597083 ATGCCAATGTCCCAGACCTGGTCTTACACA
1 ATGCCAATGTCCCAGACCTGGTCTTACACA
84597113 AAAACACATA
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
42 19 0.33
43 5 0.09
44 34 0.59
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACCTGGTCTTACACATGAAATCAAAGTCG
Found at i:84605333 original size:29 final size:29
Alignment explanation
Indices: 84605312--84605408 Score: 167
Period size: 29 Copynumber: 3.3 Consensus size: 29
84605302 GTGCCGTTTT
** *
84605312 TTTCCAGCTTGCACACTTAGTGCCAAATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
84605341 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
84605370 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
84605399 TTTCCAGCAC
1 TTTCCAGCAC
84605409 CATACACACA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCATATA
Found at i:84605354 original size:58 final size:58
Alignment explanation
Indices: 84605292--84605408 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 58
84605282 CCTCCGAACT
* * * **
84605292 CGCACACCCAGTGCCGTTTTTTTCCAGCTTGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACCCAGTGCCATATATTTCCAGCACGCACACTTAGTGCCAAATATTTCCAGCA
** *
84605350 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACCCAGTGCCATATATTTCCAGCACGCACACTTAGTGCCAAATATTTCCAGCA
84605408 C
1 C
84605409 CATACACACA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (58 bp):
CGCACACCCAGTGCCATATATTTCCAGCACGCACACTTAGTGCCAAATATTTCCAGCA
Found at i:84613365 original size:29 final size:29
Alignment explanation
Indices: 84613324--84613455 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
84613314 CCCCCGAACT
** * * *
84613324 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
84613353 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
84613382 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
84613411 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
84613440 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
84613456 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:84616870 original size:40 final size:40
Alignment explanation
Indices: 84616804--84616970 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
84616794 AAATTGAATG
* * *
84616804 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
84616843 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
84616883 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
84616923 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
84616963 ATATCCGG
1 ATATCCGG
84616971 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:84624851 original size:40 final size:40
Alignment explanation
Indices: 84624792--84624933 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
84624782 AAATTGAATG
* * *
84624792 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
84624832 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
84624872 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
84624912 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
84624934 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:84624934 original size:40 final size:39
Alignment explanation
Indices: 84624831--84624957 Score: 148
Period size: 40 Copynumber: 3.2 Consensus size: 39
84624821 TGCTGGAAAT
* * *
84624831 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
84624871 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
84624911 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
84624951 TATATCC
1 TATATCC
84624958 AGTTATATTC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 70 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:84629429 original size:26 final size:26
Alignment explanation
Indices: 84629396--84629496 Score: 186
Period size: 26 Copynumber: 3.9 Consensus size: 26
84629386 CCCATTATGG
84629396 AACATTTACCTAACCCATTATCATGA
1 AACATTTACCTAACCCATTATCATGA
84629422 AACATTTACCTAACCCATTATCATGA
1 AACATTTACCTAACCCATTATCATGA
84629448 AACATTTACCTAACCCATTATCATGGA
1 AACATTTACCTAACCCATTATCAT-GA
84629475 AA-ATTTACCTAACCCATTATCA
1 AACATTTACCTAACCCATTATCA
84629497 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
26 70 0.95
27 4 0.05
ACGTcount: A:0.39, C:0.27, G:0.04, T:0.31
Consensus pattern (26 bp):
AACATTTACCTAACCCATTATCATGA
Found at i:84640655 original size:16 final size:17
Alignment explanation
Indices: 84640628--84640680 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 17
84640618 AGCCTAATCT
*
84640628 TAAATTAATAAAATAAAA
1 TAAA-TAATAAAACAAAA
84640646 TAAA-AAT-AAACAAAA
1 TAAATAATAAAACAAAA
84640661 TAAATAATAAAACCAAAA
1 TAAATAATAAAA-CAAAA
84640679 TA
1 TA
84640681 TCTTCTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 11 0.35
16 6 0.19
17 3 0.10
18 11 0.35
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAATAATAAAACAAAA
Found at i:84651217 original size:66 final size:68
Alignment explanation
Indices: 84651141--84651327 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
84651131 TAGTACCACT
*
84651141 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
84651203 CACG
65 CACG
84651207 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
84651272 ATCACG
63 ATCACG
84651278 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
84651328 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:84651252 original size:71 final size:71
Alignment explanation
Indices: 84651164--84651327 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
84651154 CGATTTGTCT
84651164 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
84651229 CTTTCA
66 CTTTCA
84651235 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
84651300 CTTTCA
66 CTTTCA
84651306 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
84651328 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:84651365 original size:71 final size:70
Alignment explanation
Indices: 84651164--84651361 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
84651154 CGATTTGTCT
* * *
84651164 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
84651229 CTTTCA
65 CTTTCA
* * *
84651235 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
84651300 CTTTCA
65 CTTTCA
* *
84651306 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
84651362 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:84653764 original size:21 final size:22
Alignment explanation
Indices: 84653735--84653779 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
84653725 GCCTAATCCT
*
84653735 AAATTAATAAAATAAA-AATAA
1 AAATAAATAAAATAAATAATAA
84653756 AAATAAATAAAATAAATAATAA
1 AAATAAATAAAATAAATAATAA
84653778 AA
1 AA
84653780 CCAAAATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (22 bp):
AAATAAATAAAATAAATAATAA
Found at i:84653765 original size:16 final size:16
Alignment explanation
Indices: 84653734--84653778 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 16
84653724 AGCCTAATCC
84653734 TAAATTAATAAAATAAAAA
1 TAAA-TAAT-AAAT-AAAA
84653753 TAAA-AATAAATAAAA
1 TAAATAATAAATAAAA
84653768 TAAATAATAAA
1 TAAATAATAAA
84653779 ACCAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.32
16 10 0.40
17 3 0.12
19 4 0.16
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAATAATAAATAAAA
Found at i:84654122 original size:2 final size:2
Alignment explanation
Indices: 84654115--84654152 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
84654105 TTATAACCTC
84654115 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
84654153 TCACTAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84662625 original size:26 final size:26
Alignment explanation
Indices: 84662591--84662646 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
84662581 GCAAAAGGAA
84662591 AAAAGTTTTGAAGGTTTGGAGGAAGT
1 AAAAGTTTTGAAGGTTTGGAGGAAGT
84662617 AAAAGTTTTGAAGGTTTGGAGGAAGT
1 AAAAGTTTTGAAGGTTTGGAGGAAGT
84662643 AAAA
1 AAAA
84662647 TAATAAAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (26 bp):
AAAAGTTTTGAAGGTTTGGAGGAAGT
Found at i:84666277 original size:24 final size:27
Alignment explanation
Indices: 84666241--84666292 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
84666231 TCAAACATGC
84666241 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
*
84666267 ATTT-GGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
84666292 A
1 A
84666293 AAATGTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 13 0.54
26 4 0.17
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:84667829 original size:51 final size:52
Alignment explanation
Indices: 84667765--84667870 Score: 187
Period size: 51 Copynumber: 2.1 Consensus size: 52
84667755 CATGAAATGC
84667765 TCATGGAACATTTACCTAAACCATTATCAT-GAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTA
* *
84667816 TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTA
84667868 TCA
1 TCA
84667871 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 28 0.54
52 24 0.46
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.33
Consensus pattern (52 bp):
TCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTA
Found at i:84667839 original size:26 final size:26
Alignment explanation
Indices: 84667765--84667870 Score: 178
Period size: 26 Copynumber: 4.1 Consensus size: 26
84667755 CATGAAATGC
*
84667765 TCATGGAACATTTACCTAAACCATTA
1 TCATGGAACATTTACCTAACCCATTA
84667791 TCAT-GAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* *
84667816 TCATGGAATATTTACCTAATCCATTA
1 TCATGGAACATTTACCTAACCCATTA
84667842 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
84667868 TCA
1 TCA
84667871 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 24 0.32
26 50 0.68
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.33
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:84672733 original size:25 final size:27
Alignment explanation
Indices: 84672696--84672748 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
84672686 TCAAACATGC
84672696 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
84672722 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
84672748 A
1 A
84672749 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:84674255 original size:26 final size:26
Alignment explanation
Indices: 84674224--84674330 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
84674214 TGAAATGCCC
*
84674224 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
84674250 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
84674275 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
84674301 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
84674327 ATCA
1 ATCA
84674331 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 24 0.32
26 51 0.68
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:84674294 original size:51 final size:52
Alignment explanation
Indices: 84674224--84674330 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
84674214 TGAAATGCCC
84674224 ATCATGGAACATTTACCTAAACCATTATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
84674275 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
84674327 ATCA
1 ATCA
84674331 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 29 0.55
52 24 0.45
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:84677900 original size:40 final size:40
Alignment explanation
Indices: 84677863--84678048 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
84677853 GCTACTCGTT
*
84677863 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
84677903 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
84677943 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
84677983 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
84678024 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
84678049 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:84678763 original size:2 final size:2
Alignment explanation
Indices: 84678756--84678783 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
84678746 ATGTGCAAAC
84678756 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
84678784 GTGCAAGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84682870 original size:15 final size:16
Alignment explanation
Indices: 84682850--84682883 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
84682840 GATAATATTG
84682850 TTATTATTA-TTTCTT
1 TTATTATTATTTTCTT
84682865 TTATTATTATTTTCTT
1 TTATTATTATTTTCTT
84682881 TTA
1 TTA
84682884 CCCGTATCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTATTATTTTCTT
Found at i:84685155 original size:40 final size:40
Alignment explanation
Indices: 84685106--84685309 Score: 209
Period size: 40 Copynumber: 5.1 Consensus size: 40
84685096 CGGAATACAA
* * * *
84685106 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACATGCACAAATGCCTTCGGGTATTAGC
* *
84685146 CCGAATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACATGCACAAATGCCTTCGGGTATTAGC
*
84685186 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACATGCACAAATGCCTTCGGGTATTAGC
* * * *
84685226 CCGGATATAGTC-AC-TAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACAT-GCACAAATGCCTTCGGGTATTAGC
** * *
84685266 CCGGATATAATTAC-TAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACAT-GCACAAATGCCTTCGGGTA-TTAGC
84685306 CCGG
1 CCGG
84685310 GTATCATTCA
Statistics
Matches: 142, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 140 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACATGCACAAATGCCTTCGGGTATTAGC
Found at i:84685246 original size:80 final size:80
Alignment explanation
Indices: 84685106--84685309 Score: 234
Period size: 80 Copynumber: 2.5 Consensus size: 80
84685096 CGGAATACAA
* * * * *
84685106 CCGGATATAACCAC-ACGCACGAATGCCTTCGGGTCTTAGCCCGAATATAACAACTTGCACAAAT
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTATTAGCCCGGATATAACAACTAGCACAAAT
*
84685170 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * *
84685186 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGCCCGGATATAGTC-ACTAGCACAATT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTATTAGCCCGGATATA-ACAACTAGCACAAAT
*
84685250 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * *
84685266 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGCCCGG
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTA-TTAGCCCGG
84685310 GTATCATTCA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 104 0.98
81 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTATTAGCCCGGATATAACAACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:84685464 original size:64 final size:64
Alignment explanation
Indices: 84685396--84685584 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
84685386 GAACACAAAC
84685396 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
84685460 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
84685517 AC
63 AT
84685519 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
84685583 AT
1 AT
84685585 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Done.