Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 247 of 325
Found at i:77487717 original size:18 final size:18
Alignment explanation
Indices: 77487694--77487728 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
77487684 GCCAAGTGCG
*
77487694 TATCCTAGCCCTTATATA
1 TATCCTAACCCTTATATA
77487712 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
77487729 GTTTCTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:77488861 original size:24 final size:26
Alignment explanation
Indices: 77488820--77488868 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
77488810 AAATAACTTC
*
77488820 AAAATGTACAATATAATTAAATAATA
1 AAAATGTACAATAAAATTAAATAATA
77488846 AAAAT-TA-AATAAAATTAAATAAT
1 AAAATGTACAATAAAATTAAATAAT
77488869 TTAATTAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.68
25 2 0.09
26 5 0.23
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
AAAATGTACAATAAAATTAAATAATA
Found at i:77491203 original size:5 final size:5
Alignment explanation
Indices: 77491193--77491254 Score: 108
Period size: 5 Copynumber: 12.4 Consensus size: 5
77491183 TTATGTTTTA
77491193 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATATAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT-TAT ATTAT ATTAT ATTAT
77491244 ATTAT A-TAT AT
1 ATTAT ATTAT AT
77491255 AAACTAAAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.07
5 46 0.84
6 5 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:77491229 original size:26 final size:25
Alignment explanation
Indices: 77491153--77491255 Score: 102
Period size: 26 Copynumber: 4.0 Consensus size: 25
77491143 TTATGTTTAG
* *
77491153 TATATTATATTAT-TATATAATAAAGA
1 TATATTATATTATAT-TAT-ATATATA
* * *
77491179 TATTTTATGTTTTAATTATAT-TATA
1 TATATTATATTAT-ATTATATATATA
77491204 TTATATTATATTATATTATATATATA
1 -TATATTATATTATATTATATATATA
77491230 TTATATTATATTATATTATATATATA
1 -TATATTATATTATATTATATATATA
77491256 AACTAAAGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
25 9 0.14
26 52 0.80
27 3 0.05
28 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
TATATTATATTATATTATATATATA
Found at i:77492857 original size:45 final size:45
Alignment explanation
Indices: 77492798--77492938 Score: 201
Period size: 45 Copynumber: 3.1 Consensus size: 45
77492788 CTGTTACCGC
* * * *
77492798 TACTGCTACTGTTACCAATTCGGCATTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
77492843 TACTGTTACCGTTACCGATTCGACACTTTGTGTGTCAAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
77492888 TACTGTTACCGTTACCGATTCAGTACTTTGTGTGTCGGATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
77492933 TACTGT
1 TACTGT
77492939 ACTATTACTG
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 85 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:77493147 original size:18 final size:18
Alignment explanation
Indices: 77493120--77493415 Score: 179
Period size: 18 Copynumber: 16.1 Consensus size: 18
77493110 AAATGTATAA
* *
77493120 AATAACTGATTATTACTG
1 AATAATTGATTGTTACTG
*
77493138 AATAATTGATTGTTACCG
1 AATAATTGATTGTTACTG
* *
77493156 GATAATTGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
77493174 GAT-ATTAGACTGTTACTG
1 AATAATT-GATTGTTACTG
* * *
77493192 AATAACTGAATATTACTG
1 AATAATTGATTGTTACTG
**
77493210 AATAATTGATCATTACTG
1 AATAATTGATTGTTACTG
* *
77493228 AATAACTGATTGTCACTG
1 AATAATTGATTGTTACTG
*
77493246 AATGAA-TGACTGTTACTG
1 AAT-AATTGATTGTTACTG
*
77493264 AATAACTTAATTGTTACTG
1 AATAA-TTGATTGTTACTG
*
77493283 AAT-ATCTAATT-TTACTG
1 AATAAT-TGATTGTTACTG
*
77493300 AATAATTGACTGTTACTGG
1 AATAATTGATTGTTACT-G
* *
77493319 ATAACCGATCAATTGATCGATACTG
1 ---A---AT-AATTGATTGTTACTG
* * * *
77493344 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
* *
77493362 AATATTTGATTGTTACCG
1 AATAATTGATTGTTACTG
* *
77493380 AATAACTGATTGTCACTG
1 AATAATTGATTGTTACTG
* *
77493398 AATAAATAATTGTT-CTG
1 AATAATTGATTGTTACTG
77493415 A
1 A
77493416 GAGTTAATGA
Statistics
Matches: 217, Mismatches: 45, Indels: 33
0.74 0.15 0.11
Matches are distributed among these distances:
17 22 0.10
18 159 0.73
19 20 0.09
22 2 0.01
25 3 0.01
26 11 0.05
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:77493400 original size:36 final size:36
Alignment explanation
Indices: 77493120--77493415 Score: 206
Period size: 36 Copynumber: 8.0 Consensus size: 36
77493110 AAATGTATAA
* *
77493120 AATAACTGATTATTACTGAATAATTGATTGTTACCG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * * * *
77493156 GATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGATTGTTACTGAATAATT-GATTGTTACTG
* * **
77493192 AATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* *
77493228 AATAACTGATTGTCACTGAATGAA-TGACTGTTACTG
1 AATAACTGATTGTTACTGAAT-AATTGATTGTTACTG
* *
77493264 AATAACTTAATTGTTACTGAAT-ATCTAATT-TTACTG
1 AATAAC-TGATTGTTACTGAATAAT-TGATTGTTACTG
* * * *
77493300 AATAATTGACTGTTACTGGATAACCGATCAATTGATCGATACTG
1 AATAACTGATTGTTACT-G---A---AT-AATTGATTGTTACTG
* * * * *
77493344 AATAACTGGTTATTATTGAATATTTGATTGTTACCG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * *
77493380 AATAACTGATTGTCACTGAATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
77493415 A
1 A
77493416 GAGTTAATGA
Statistics
Matches: 196, Mismatches: 48, Indels: 33
0.71 0.17 0.12
Matches are distributed among these distances:
35 16 0.08
36 130 0.66
37 23 0.12
39 1 0.01
40 1 0.01
42 2 0.01
43 4 0.02
44 19 0.10
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (36 bp):
AATAACTGATTGTTACTGAATAATTGATTGTTACTG
Found at i:77504779 original size:2 final size:2
Alignment explanation
Indices: 77504772--77504801 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
77504762 AAAGATATTC
77504772 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
77504802 GTCATGATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77506973 original size:21 final size:20
Alignment explanation
Indices: 77506949--77507012 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
77506939 TTCTATTATG
77506949 TTATTAAACATTTATTACTAT
1 TTATT-AACATTTATTACTAT
*
77506970 TTATCAACAATTTATTA-TAT
1 TTATTAAC-ATTTATTACTAT
* *
77506990 TT-TTATCATATATTACTAT
1 TTATTAACATTTATTACTAT
77507009 TTAT
1 TTAT
77507013 AATTATTTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 7 0.19
19 8 0.22
20 9 0.25
21 12 0.33
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATTAACATTTATTACTAT
Found at i:77507627 original size:2 final size:2
Alignment explanation
Indices: 77507615--77507654 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
77507605 TAACTAAGTA
* *
77507615 AT AT GT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
77507655 CGTAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77508026 original size:57 final size:59
Alignment explanation
Indices: 77507902--77508017 Score: 150
Period size: 57 Copynumber: 2.0 Consensus size: 59
77507892 TTTTATTTTA
* * *
77507902 TTATTTTATATATTTATATTTTAATTTTCAATTTAAATTTAAAATCTCTCTTTAAATTC
1 TTATTTTATATATTTATATTATAATTTTCAAATCAAATTTAAAATCTCTCTTTAAATTC
* *
77507961 TTATTTTATATATTTAT-TTAT-ATTTTGAAATCAACTTTAAAAGTCT-TC-TTAAATTC
1 TTATTTTATATATTTATATTATAATTTTCAAATCAAATTTAAAA-TCTCTCTTTAAATTC
77508017 T
1 T
77508018 GTTCTTTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
56 9 0.18
57 19 0.37
58 6 0.12
59 17 0.33
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.56
Consensus pattern (59 bp):
TTATTTTATATATTTATATTATAATTTTCAAATCAAATTTAAAATCTCTCTTTAAATTC
Found at i:77509752 original size:107 final size:108
Alignment explanation
Indices: 77509582--77509797 Score: 389
Period size: 107 Copynumber: 2.0 Consensus size: 108
77509572 AAAAAACACG
77509582 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAAGACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAAGACAATTTTGTTAGAAATTTTATTATTT
77509647 AAAACTTATTCCAACTTAACATATCATTGTTTTATTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTATTAAACTAA
* *
77509690 TCAAAAATTTTAT-AGAGTAATTAACAAAAATTTTAATACAATTTTGTTTGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAAGACAATTTTGTTAGAAATTTTATTATTT
* *
77509754 AAAACTTATTCTAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTATTAAACTAA
77509797 T
1 T
77509798 TTTTTGTTTA
Statistics
Matches: 104, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
107 91 0.88
108 13 0.12
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.44
Consensus pattern (108 bp):
TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAAGACAATTTTGTTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTGTTTTATTAAACTAA
Found at i:77520888 original size:22 final size:22
Alignment explanation
Indices: 77520863--77520904 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
77520853 ATTTATTAAT
* *
77520863 TTAAAATATTAATTAAAAAAGC
1 TTAAAATATGAAATAAAAAAGC
77520885 TTAAAATATGAAATAAAAAA
1 TTAAAATATGAAATAAAAAA
77520905 TATAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (22 bp):
TTAAAATATGAAATAAAAAAGC
Found at i:77521735 original size:28 final size:29
Alignment explanation
Indices: 77521704--77521769 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
77521694 ATTTTTAAAC
*
77521704 AAGCCCTTAACCTAT-TTTTTAGT-AAAA
1 AAGCCCTTAACCTATATTTTTACTCAAAA
* *
77521731 TAAGCCTTTAACTTATAGTTTTTACTCAAAA
1 -AAGCCCTTAACCTATA-TTTTTACTCAAAA
77521762 AAGCCCTT
1 AAGCCCTT
77521770 TATTTTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 13 0.42
30 14 0.45
31 4 0.13
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.38
Consensus pattern (29 bp):
AAGCCCTTAACCTATATTTTTACTCAAAA
Found at i:77521978 original size:28 final size:27
Alignment explanation
Indices: 77521924--77521975 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
77521914 AAACTATAAA
77521924 TTAAGGGCTTATTTAACTAAAAAATAGG
1 TTAAGGGCTTATTTAAC-AAAAAATAGG
* *
77521952 TTAAGGGCTTGTTTAA-AAATAATA
1 TTAAGGGCTTATTTAACAAAAAATA
77521976 TAGTGAGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
28 15 0.68
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (27 bp):
TTAAGGGCTTATTTAACAAAAAATAGG
Found at i:77526123 original size:23 final size:23
Alignment explanation
Indices: 77526097--77526142 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
77526087 ATAGAACGCA
77526097 ATCAATCTAACACAATCACAAAT
1 ATCAATCTAACACAATCACAAAT
77526120 ATCAATCTAACACAATCACAAAT
1 ATCAATCTAACACAATCACAAAT
77526143 TAAGTCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (23 bp):
ATCAATCTAACACAATCACAAAT
Found at i:77533830 original size:40 final size:40
Alignment explanation
Indices: 77533775--77533851 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
77533765 TTGGTAAAGT
77533775 TAGTGTTACTTATGATTCATAATTATTTTATGGCTACAAC
1 TAGTGTTACTTATGATTCATAATTATTTTATGGCTACAAC
77533815 TAGTGTTACTTATGATTCATAATTATTTTATGGCTAC
1 TAGTGTTACTTATGATTCATAATTATTTTATGGCTAC
77533852 GACGCAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.47
Consensus pattern (40 bp):
TAGTGTTACTTATGATTCATAATTATTTTATGGCTACAAC
Found at i:77539083 original size:38 final size:38
Alignment explanation
Indices: 77539041--77539137 Score: 149
Period size: 38 Copynumber: 2.6 Consensus size: 38
77539031 TTTTCTAGCA
*
77539041 TAGTGGTTTGTCATGGGATGTGTTCCTAGTTTGAAGGG
1 TAGTGGTTTGTCATGGGATGTGTCCCTAGTTTGAAGGG
* *
77539079 TAGTGGCTTGTCATGGGATGTGTCCCTAGTTTTAAGGG
1 TAGTGGTTTGTCATGGGATGTGTCCCTAGTTTGAAGGG
* *
77539117 TAGTGGTTTGCCATGAGATGT
1 TAGTGGTTTGTCATGGGATGT
77539138 AAGCCTCTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.16, C:0.10, G:0.35, T:0.38
Consensus pattern (38 bp):
TAGTGGTTTGTCATGGGATGTGTCCCTAGTTTGAAGGG
Found at i:77545575 original size:172 final size:172
Alignment explanation
Indices: 77545289--77545634 Score: 665
Period size: 172 Copynumber: 2.0 Consensus size: 172
77545279 ATGGTATGAG
77545289 TAAGTTCTTTGAGATGGAAGTTGTTTTGATATGCTTGAATATGTGAGCAATTACTAATGTGAATG
1 TAAGTTCTTTGAGATGGAAGTTGTTTTGATATGCTTGAATATGTGAGCAATTACTAATGTGAATG
*
77545354 GTGAATTGGTATTTGGTGATCAGGAATTATAAATTATCTCTTTAAGTGTTTACTTTTATTAAGGT
66 GTGAATTGGTATTTGGTGATCAGGAATTATAAATTATCTCTTTAAGTGTTTACTTTGATTAAGGT
*
77545419 AAGTTAATTTGATGTTTAAACTATGAGCTTACTATGCTTCTT
131 AAGTTAATTTGATGTTTAAACTATGAGCTTACTAAGCTTCTT
77545461 TAAGTTCTTTGAGATGGAAGTTGTTTTGATATGCTTGAATATGTGAGCAATTACTAATGTGAATG
1 TAAGTTCTTTGAGATGGAAGTTGTTTTGATATGCTTGAATATGTGAGCAATTACTAATGTGAATG
77545526 GTGAATTGGTATTTGGTGATCAGGAATTATAAATTATCTCTTTAAGTGTTTACTTTGATTAAGGT
66 GTGAATTGGTATTTGGTGATCAGGAATTATAAATTATCTCTTTAAGTGTTTACTTTGATTAAGGT
*
77545591 AAGTTAATTTGATGTTTATACTATGAGCTTACTAAGCTTCTT
131 AAGTTAATTTGATGTTTAAACTATGAGCTTACTAAGCTTCTT
77545633 TA
1 TA
77545635 GCTTGTTTCA
Statistics
Matches: 171, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 171 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.43
Consensus pattern (172 bp):
TAAGTTCTTTGAGATGGAAGTTGTTTTGATATGCTTGAATATGTGAGCAATTACTAATGTGAATG
GTGAATTGGTATTTGGTGATCAGGAATTATAAATTATCTCTTTAAGTGTTTACTTTGATTAAGGT
AAGTTAATTTGATGTTTAAACTATGAGCTTACTAAGCTTCTT
Found at i:77546524 original size:25 final size:25
Alignment explanation
Indices: 77546476--77546522 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
77546466 TTATATCTTA
*
77546476 AATTTATTTGTTTATATATGTTTGT
1 AATTTATTTGTTTAAATATGTTTGT
*
77546501 AATTTTTTTGTTTAAAT-TGTTT
1 AATTTATTTGTTTAAATATGTTT
77546523 TGAAATGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (25 bp):
AATTTATTTGTTTAAATATGTTTGT
Found at i:77548441 original size:46 final size:45
Alignment explanation
Indices: 77548349--77548474 Score: 153
Period size: 46 Copynumber: 2.8 Consensus size: 45
77548339 TGATATGTAT
* *
77548349 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAACATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGCACAACACGAGA
* * ** *
77548395 GCTAGTGTAAGATATGTTTGGGACATGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCA-CAACACGAGA
**
77548441 GCTAGTGTAAGACATGTCTGGGATGTGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
77548475 CTCGCGATAT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
45 3 0.04
46 65 0.96
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCACAACACGAGA
Found at i:77548660 original size:50 final size:50
Alignment explanation
Indices: 77548536--77548661 Score: 140
Period size: 45 Copynumber: 2.6 Consensus size: 50
77548526 GTGGCGTGTT
* * *
77548536 AGTGTAAGACC-TGTTTGGGACATGGCATCGACACTGATAGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGATGAAAGCC
* * *
77548585 AGTGTAAG---A--TCTAGGACATGGCATCGGC-CTCGCTATATGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-GATAGATGAAAGCC
77548630 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
77548662 TATCTTAACC
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
44 2 0.03
45 35 0.56
48 1 0.02
49 8 0.13
50 17 0.27
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGATGAAAGCC
Found at i:77561563 original size:43 final size:43
Alignment explanation
Indices: 77561501--77561662 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 43
77561491 TATAATGCCA
* *
77561501 ATGTCCCAGACGTGGTCTTACATGTAATTCAGTATCGATGCGT
1 ATGTCCCAGACATGGTCTTACACGTAATTCAGTATCGATGCGT
* * *
77561544 CTGTCCCAGACATGGTCTTATACG-AAATCAGATAT-GATGTCG-
1 ATGTCCCAGACATGGTCTTACACGTAATTCAG-TATCGATG-CGT
* * * *
77561586 ATGTCCCAAACATGGTCTTACATGTAAATTTCA-AATCGATGCCT
1 ATGTCCCAGACATGGTCTTACACGT-AA-TTCAGTATCGATGCGT
* *
77561630 GTGTCCCAGACACGGTCTTACACGATAATTCAG
1 ATGTCCCAGACATGGTCTTACACG-TAATTCAG
77561663 ATTAATACCA
Statistics
Matches: 94, Mismatches: 16, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
42 30 0.32
43 32 0.34
44 28 0.30
45 4 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
ATGTCCCAGACATGGTCTTACACGTAATTCAGTATCGATGCGT
Found at i:77561647 original size:86 final size:87
Alignment explanation
Indices: 77561501--77561664 Score: 226
Period size: 86 Copynumber: 1.9 Consensus size: 87
77561491 TATAATGCCA
* * * * * *
77561501 ATGTCCCAGACGTGGTCTTACATGTAATTCAGTATCGATGCGTCTGTCCCAGACATGGTCTTATA
1 ATGTCCCAAACATGGTCTTACATGTAATTCAGAATCGATGCCTCTGTCCCAGACACGGTCTTACA
77561566 CGA-AA-TCAGATATGATGTCG
66 CGATAATTCAGATATGATGTCG
*
77561586 ATGTCCCAAACATGGTCTTACATGTAAATTTCA-AATCGATGCCTGTGTCCCAGACACGGTCTTA
1 ATGTCCCAAACATGGTCTTACATGT-AA-TTCAGAATCGATGCCTCTGTCCCAGACACGGTCTTA
77561650 CACGATAATTCAGAT
64 CACGATAATTCAGAT
77561665 TAATACCAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 23 0.34
86 33 0.49
87 6 0.09
88 6 0.09
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (87 bp):
ATGTCCCAAACATGGTCTTACATGTAATTCAGAATCGATGCCTCTGTCCCAGACACGGTCTTACA
CGATAATTCAGATATGATGTCG
Found at i:77570982 original size:30 final size:30
Alignment explanation
Indices: 77570927--77571057 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
77570917 ATAGTGAATC
*
77570927 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
77570956 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
77570986 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
77571014 CGCACACTTAGTGCTGTAAAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
77571044 CGCACACTTAGTGC
1 CGCACACTTAGTGC
77571058 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:77571037 original size:58 final size:58
Alignment explanation
Indices: 77570926--77571057 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
77570916 TATAGTGAAT
* * * * *
77570926 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATAAAATTTTAAAC
* *
77570985 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTAAAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATAAAATTTTAAAC
77571043 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
77571058 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATAAAATTTTAAAC
Found at i:77575199 original size:39 final size:40
Alignment explanation
Indices: 77575075--77575243 Score: 216
Period size: 40 Copynumber: 4.2 Consensus size: 40
77575065 CGGGATTTAA
* * * * *
77575075 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
77575115 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
77575155 CCGGATATATCAACTCGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
77575194 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
77575234 CCGGATATAT
1 CCGGATATAT
77575244 TTCCAATGTT
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 40 0.36
40 71 0.64
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:77575238 original size:79 final size:80
Alignment explanation
Indices: 77575075--77575243 Score: 216
Period size: 79 Copynumber: 2.1 Consensus size: 80
77575065 CGGGATTTAA
* * * * * * *
77575075 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGTGACTTGCACAAAGG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGATAACTCGCACAAAGG
77575140 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGC
* * * *
77575155 CCGGATATATCAACTCGCACGAATGCCTTC-GGTCTTAGCCCGGATAT-ATCAACTCGCACGAAT
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGAT-AACTCGCACAAAG
77575218 GCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAGC
77575234 CCGGATATAT
1 CCGGATATAT
77575244 TTCCAATGTT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
78 1 0.01
79 49 0.64
80 27 0.35
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGATAACTCGCACAAAGG
CCTTCGGGTCTTAGC
Found at i:77577042 original size:43 final size:43
Alignment explanation
Indices: 77576980--77577080 Score: 184
Period size: 43 Copynumber: 2.3 Consensus size: 43
77576970 ACTCGATTGT
77576980 CGCACACTCAGTGCCAATTGTAATACAAGAGCATATAGTGAATC
1 CGCACACT-AGTGCCAATTGTAATACAAGAGCATATAGTGAATC
77577024 CGCACACTAGTGCCAATTGTAATACAAGAGCATATAGTGAATC
1 CGCACACTAGTGCCAATTGTAATACAAGAGCATATAGTGAATC
77577067 CGCACACTTAGTGC
1 CGCACAC-TAGTGC
77577081 TATATATTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
43 42 0.75
44 14 0.25
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (43 bp):
CGCACACTAGTGCCAATTGTAATACAAGAGCATATAGTGAATC
Found at i:77577122 original size:30 final size:30
Alignment explanation
Indices: 77577067--77577197 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
77577057 ATAGTGAATC
*
77577067 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
77577096 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
77577126 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
77577154 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
77577184 CGCACACTTAGTGC
1 CGCACACTTAGTGC
77577198 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:77577177 original size:58 final size:58
Alignment explanation
Indices: 77577066--77577197 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
77577056 TATAGTGAAT
* * * * *
77577066 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
77577125 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
77577183 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
77577198 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:77579797 original size:20 final size:20
Alignment explanation
Indices: 77579735--77579800 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
77579725 TAGTATAGGT
*
77579735 TTGCACTTCGGTGCCTCT-G
1 TTGCACTTCGGTGCCTCTAA
* * * *
77579754 TTACACGTT-AGTGTCTCTAT
1 TTGCAC-TTCGGTGCCTCTAA
77579774 TTGCACTTCGGTGCCTCTAA
1 TTGCACTTCGGTGCCTCTAA
77579794 TTGCACT
1 TTGCACT
77579801 ATCATGCCTC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
19 14 0.39
20 22 0.61
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTAA
Found at i:77584364 original size:29 final size:29
Alignment explanation
Indices: 77584331--77584538 Score: 262
Period size: 29 Copynumber: 7.2 Consensus size: 29
77584321 GTATCGTCGC
77584331 CCATCGAATATGAAAAGGGATGGTGAT-GA
1 CCATCGAATATGAAAAGGGATGGT-ATCGA
*
77584360 CCATCAAATATGAAAAGGGATGGTGA-CGA
1 CCATCGAATATGAAAAGGGATGGT-ATCGA
*
77584389 CCATCGAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTATCGA
77584418 CCATCGAATATGAAAAGGGATGGTGAT-GA
1 CCATCGAATATGAAAAGGGATGGT-ATCGA
* * * * *
77584447 CCATAGCATATGAAAAGGGATAGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTATCGA
*
77584476 CCATCAAATATGAAAAGGGATGGCT-TCGA
1 CCATCGAATATGAAAAGGGATGG-TATCGA
* *
77584505 CCATAGAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTATCGA
77584534 CCATC
1 CCATC
77584539 AATTAAACAA
Statistics
Matches: 156, Mismatches: 17, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
28 2 0.01
29 152 0.97
30 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTATCGA
Found at i:77584421 original size:58 final size:58
Alignment explanation
Indices: 77584331--77584540 Score: 307
Period size: 58 Copynumber: 3.6 Consensus size: 58
77584321 GTATCGTCGC
* *
77584331 CCATCGAATATGAAAAGGGATGGTGAT-GACCATCAAATATGAAAAGGGATGGTGACGA
1 CCATAGAATATGAAAAGGGATGGT-TTCGACCATCAAATATGAAAAGGGATGGTGACGA
* * *
77584389 CCATCGAATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGATGA
1 CCATAGAATATGAAAAGGGATGGTTTCGACCATCAAATATGAAAAGGGATGGTGACGA
* * * *
77584447 CCATAGCATATGAAAAGGGATAGTTTCAACCATCAAATATGAAAAGGGATGGCT-TCGA
1 CCATAGAATATGAAAAGGGATGGTTTCGACCATCAAATATGAAAAGGGATGG-TGACGA
77584505 CCATAGAATATGAAAAGGGATGGTTTCGACCATCAA
1 CCATAGAATATGAAAAGGGATGGTTTCGACCATCAA
77584541 TTAAACAAAA
Statistics
Matches: 137, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
57 1 0.01
58 135 0.99
59 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (58 bp):
CCATAGAATATGAAAAGGGATGGTTTCGACCATCAAATATGAAAAGGGATGGTGACGA
Found at i:77584537 original size:87 final size:87
Alignment explanation
Indices: 77584331--77584528 Score: 308
Period size: 87 Copynumber: 2.3 Consensus size: 87
77584321 GTATCGTCGC
* * *
77584331 CCATCGAATATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGACGACCATCGA
1 CCATCGAATATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATAGTGACAACCATCAA
*
77584396 ATATGAAAAGGGATGGTTTCGA
66 ATATGAAAAGGGATGGCTTCGA
* **
77584418 CCATCGAATATGAAAAGGGATGGTGATGACCAT-AGCATATGAAAAGGGATAGTTTCAACCATCA
1 CCATCGAATATGAAAAGGGATGGTGATGACCATCA-AATATGAAAAGGGATAGTGACAACCATCA
77584482 AATATGAAAAGGGATGGCTTCGA
65 AATATGAAAAGGGATGGCTTCGA
*
77584505 CCATAGAATATGAAAAGGGATGGT
1 CCATCGAATATGAAAAGGGATGGT
77584529 TTCGACCATC
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 1 0.01
87 101 0.99
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (87 bp):
CCATCGAATATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATAGTGACAACCATCAA
ATATGAAAAGGGATGGCTTCGA
Found at i:77584604 original size:60 final size:59
Alignment explanation
Indices: 77584331--77584629 Score: 236
Period size: 58 Copynumber: 5.1 Consensus size: 59
77584321 GTATCGTCGC
** * * ** **
77584331 CCATCGAATATGAAAAGGGATGGTGAT-GACCATCAAAT-ATGAAAAGGGATGG-TGACGA
1 CCATCGAATAAAAAAAGGGATGGT-TTCGACCATCAATTAAACAAAAGGGATGGCT-TTGA
** ** *
77584389 CCATCGAATATGAAAAGGGATGGTTTCGACCATCGAA-T-ATGAAAAGGGATGG-TGATGA
1 CCATCGAATAAAAAAAGGGATGGTTTCGACCATC-AATTAAACAAAAGGGATGGCT-TTGA
* * ** * * * ** *
77584447 CCATAGCATATGAAAAGGGATAGTTTCAACCATCAAAT-ATGAAAAGGGATGGCTTCGA
1 CCATCGAATAAAAAAAGGGATGGTTTCGACCATCAATTAAACAAAAGGGATGGCTTTGA
* **
77584505 CCATAGAATATGAAAAGGGATGGTTTCGACCATCAATTAAACAAAAGGGATGGCTTTGA
1 CCATCGAATAAAAAAAGGGATGGTTTCGACCATCAATTAAACAAAAGGGATGGCTTTGA
* *
77584564 CCATCGATTAAAAAAAAGGGATGGCTTT-GACCATCGATTAAACAAAAGGGATGGCTTTGA
1 CCATCGAAT-AAAAAAAGGGATGG-TTTCGACCATCAATTAAACAAAAGGGATGGCTTTGA
77584624 CCATCG
1 CCATCG
77584630 TTTAGCACAC
Statistics
Matches: 214, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
57 3 0.01
58 132 0.62
59 27 0.13
60 49 0.23
61 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (59 bp):
CCATCGAATAAAAAAAGGGATGGTTTCGACCATCAATTAAACAAAAGGGATGGCTTTGA
Found at i:77584629 original size:30 final size:30
Alignment explanation
Indices: 77584488--77584629 Score: 198
Period size: 30 Copynumber: 4.8 Consensus size: 30
77584478 ATCAAATATG
* * * **
77584488 AAAAGGGATGGCTTCGACCATAGAAT-ATG
1 AAAAGGGATGGCTTTGACCATCGATTAAAC
*
77584517 AAAAGGGATGG-TTTCGACCATCAATTAAAC
1 AAAAGGGATGGCTTT-GACCATCGATTAAAC
*
77584547 AAAAGGGATGGCTTTGACCATCGATTAAAA
1 AAAAGGGATGGCTTTGACCATCGATTAAAC
77584577 AAAAGGGATGGCTTTGACCATCGATTAAAC
1 AAAAGGGATGGCTTTGACCATCGATTAAAC
77584607 AAAAGGGATGGCTTTGACCATCG
1 AAAAGGGATGGCTTTGACCATCG
77584630 TTTAGCACAC
Statistics
Matches: 101, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
28 2 0.02
29 19 0.19
30 77 0.76
31 3 0.03
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (30 bp):
AAAAGGGATGGCTTTGACCATCGATTAAAC
Found at i:77588011 original size:43 final size:43
Alignment explanation
Indices: 77587889--77588045 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
77587879 AAAGCTCATA
* * *
77587889 CAATGCCAACGTCCTAGATGTGGTCTTA-A-ATGTAATCAAATAA
1 CAATGCCAACGTCCCAGATGTGGTCTTACACAT-AAATCAAAT-T
* * *
77587932 CGATGCC-ACTGTCCCAGACAG-GGTCTTACAC-GAAATCAAATT
1 CAATGCCAAC-GTCCCAGA-TGTGGTCTTACACATAAATCAAATT
*
77587974 CAATGCCAACGTCCCAGATGTGGTCTTACACATAAATCATAAGT
1 CAATGCCAACGTCCCAGATGTGGTCTTACACATAAATCA-AATT
* *
77588018 CAATGCCAACTTCCCAGACGTGGTCTTA
1 CAATGCCAACGTCCCAGATGTGGTCTTA
77588046 TATGAAAACA
Statistics
Matches: 94, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 36 0.38
44 31 0.33
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGATGTGGTCTTACACATAAATCAAATT
Found at i:77590455 original size:40 final size:40
Alignment explanation
Indices: 77590328--77590457 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
77590318 ATGCTGGAAA
* *
77590328 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
77590368 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
77590408 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
77590448 TTATATCCGG
1 TTATATCCGG
77590458 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:77597549 original size:40 final size:40
Alignment explanation
Indices: 77597422--77597551 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
77597412 ATGCTGGAAA
* * *
77597422 TTATATCTGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
77597462 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
77597502 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
77597542 TTATATCCGG
1 TTATATCCGG
77597552 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:77606366 original size:71 final size:71
Alignment explanation
Indices: 77606282--77606445 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
77606272 CGATTTGTCT
77606282 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
77606347 CTTTCA
66 CTTTCA
77606353 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
77606418 CTTTCA
66 CTTTCA
77606424 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
77606446 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:77606483 original size:71 final size:70
Alignment explanation
Indices: 77606282--77606479 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
77606272 CGATTTGTCT
* * * *
77606282 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
77606347 CTTTCA
65 CTTTCA
* * * *
77606353 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
77606418 CTTTCA
65 CTTTCA
* *
77606424 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
77606480 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:77608005 original size:55 final size:55
Alignment explanation
Indices: 77607921--77608033 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 55
77607911 TCCGTGTTAA
* *
77607921 TTTAACAGGTTCGACCACGGGTGTTCCACACGGGCGTGTCGCACGCCTGTGCTGT
1 TTTAACAGGTTAGACCACGGGTGTTCCACACAGGCGTGTCGCACGCCTGTGCTGT
* * * * *
77607976 TTTAACAGGTTAGCCCACGGTTCG-TCCACACAGGCGTGTGGCACGCTTGTGTTGT
1 TTTAACAGGTTAGACCACGGGT-GTTCCACACAGGCGTGTCGCACGCCTGTGCTGT
77608031 TTT
1 TTT
77608034 GGCAGGCTCG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 49 0.98
56 1 0.02
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (55 bp):
TTTAACAGGTTAGACCACGGGTGTTCCACACAGGCGTGTCGCACGCCTGTGCTGT
Found at i:77611899 original size:16 final size:16
Alignment explanation
Indices: 77611863--77611893 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77611853 AACATCTCAG
*
77611863 AAAAATAAAGAATACA
1 AAAAATAAAGAAAACA
77611879 AAAAATAAAGAAAAC
1 AAAAATAAAGAAAAC
77611894 CCAAAACTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAAATAAAGAAAACA
Found at i:77617488 original size:3 final size:3
Alignment explanation
Indices: 77617480--77617506 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
77617470 TTGTTCTTAA
77617480 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
77617507 TCATTACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:77626488 original size:22 final size:23
Alignment explanation
Indices: 77626438--77626489 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
77626428 ATGTTTTTAC
*
77626438 TTTTATTCTACTTTAGGACTACT
1 TTTTATTCTACTTTAAGACTACT
*
77626461 TTTTATTCTTCTTTAAG-CTTA-T
1 TTTTATTCTACTTTAAGAC-TACT
77626483 TTTTATT
1 TTTTATT
77626490 AGGTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.62
Consensus pattern (23 bp):
TTTTATTCTACTTTAAGACTACT
Found at i:77635617 original size:18 final size:18
Alignment explanation
Indices: 77635580--77635618 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
77635570 TTGGAAATCA
*
77635580 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
77635598 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
77635616 AAA
1 AAA
77635619 AATCATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:77643373 original size:52 final size:51
Alignment explanation
Indices: 77643295--77643421 Score: 177
Period size: 52 Copynumber: 2.5 Consensus size: 51
77643285 ATGGCAACAT
*
77643295 GTGATAAATGATAGCTTCGGCTACACTTATCTCTGATCAAGAACAAGTGA-AA
1 GTGATAAATGATAGCTTCGGCTACACTTA--TCTGATCAAGAACAAATGACAA
*
77643347 GTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACAA
1 GTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATGACAA
* *
77643398 GTGA-AAAGTGGTAGCTTCGACTAC
1 GTGATAAA-TGATAGCTTCGGCTAC
77643422 CTAATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
50 20 0.29
51 20 0.29
52 29 0.42
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.26
Consensus pattern (51 bp):
GTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATGACAA
Found at i:77643435 original size:31 final size:31
Alignment explanation
Indices: 77643397--77643606 Score: 305
Period size: 31 Copynumber: 6.8 Consensus size: 31
77643387 ACAAATGACA
* *
77643397 AGTGAAAAGTGGTAGCTTCGACTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
77643428 AGTGAAAAGTGGTAGCTTCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
77643459 AGTGAAAAATGGTAGCTTCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
77643490 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
77643521 AGTGAAAAGTGGTAGCTTCGACTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
77643552 AGTGAAAAAT-GTAGCTTCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
77643582 AGTGAATAGTGGAAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
77643607 AAGTGACAAG
Statistics
Matches: 163, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
30 25 0.15
31 138 0.85
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:77643507 original size:93 final size:92
Alignment explanation
Indices: 77643397--77643606 Score: 339
Period size: 93 Copynumber: 2.3 Consensus size: 92
77643387 ACAAATGACA
* * * *
77643397 AGTGAAAAGTGGTAGCTTCGACTACCTAATCAGTGAAAAGTGGTAGCTTCGGCTACTTGATCAGT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTAATCAGTGAAAAGTGGTAGCTTCGACTACCTAATCAGT
77643462 GAAAAATGGTAGCTTCGGCTACTTGATC
66 GAAAAAT-GTAGCTTCGGCTACTTGATC
* *
77643490 AGTGAAAAATGGTAGCTTCGGCTACCTGATCAGTGAAAAGTGGTAGCTTCGACTACCTAATCAGT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTAATCAGTGAAAAGTGGTAGCTTCGACTACCTAATCAGT
77643555 GAAAAATGTAGCTTCGGCTACTTGATC
66 GAAAAATGTAGCTTCGGCTACTTGATC
* *
77643582 AGTGAATAGTGGAAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
77643607 AAGTGACAAG
Statistics
Matches: 108, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
92 42 0.39
93 66 0.61
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (92 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTAATCAGTGAAAAGTGGTAGCTTCGACTACCTAATCAGT
GAAAAATGTAGCTTCGGCTACTTGATC
Found at i:77648676 original size:18 final size:17
Alignment explanation
Indices: 77648641--77648685 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
77648631 TCATCTTGTA
77648641 AAGAAAAAGAGATCGAG
1 AAGAAAAAGAGATCGAG
*
77648658 AGCGAAAAAGAGTAT-GAG
1 A-AGAAAAAGAG-ATCGAG
77648676 AAGAAAAAGA
1 AAGAAAAAGA
77648686 AAATTGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 9 0.38
18 13 0.54
19 2 0.08
ACGTcount: A:0.60, C:0.04, G:0.29, T:0.07
Consensus pattern (17 bp):
AAGAAAAAGAGATCGAG
Found at i:77654321 original size:22 final size:23
Alignment explanation
Indices: 77654295--77654341 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
77654285 TAAAAGAAAT
77654295 AGAATAAAGAAAAGA-AACAAAA
1 AGAATAAAGAAAAGAGAACAAAA
* *
77654317 AGAATAGAGAAAAGAGAACAGAA
1 AGAATAAAGAAAAGAGAACAAAA
77654340 AG
1 AG
77654342 CATTCGAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.70, C:0.04, G:0.21, T:0.04
Consensus pattern (23 bp):
AGAATAAAGAAAAGAGAACAAAA
Found at i:77654330 original size:27 final size:30
Alignment explanation
Indices: 77654286--77654340 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 30
77654276 TAAAGTAAAT
77654286 AAAAGAAATAGAATAAAGA-AA-AGAAACA
1 AAAAGAAATAGAATAAAGAGAACAGAAACA
77654314 AAAAG-AATAGAGA-AAAGAGAACAGAAA
1 AAAAGAAATAGA-ATAAAGAGAACAGAAA
77654341 GCATTCGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 11 0.46
28 8 0.33
29 5 0.21
ACGTcount: A:0.73, C:0.04, G:0.18, T:0.05
Consensus pattern (30 bp):
AAAAGAAATAGAATAAAGAGAACAGAAACA
Found at i:77655873 original size:21 final size:23
Alignment explanation
Indices: 77655814--77655879 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
77655804 GCTTTACTGA
77655814 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* **
77655837 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
77655859 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
77655880 ACTGATCAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:77658264 original size:81 final size:81
Alignment explanation
Indices: 77658129--77658290 Score: 274
Period size: 81 Copynumber: 2.0 Consensus size: 81
77658119 ACATCACTTA
77658129 ACACTTAAACAAGTCATTAAATTAAGGCAATGATTACAAGCAACTCATAAGTCCAAGCTAAAACA
1 ACACTTAAACAAGTCATTAAATTAAGGCAATGATTACAAGCAACTCATAAGTCCAAGCTAAAACA
*
77658194 GAGTCCTAACCACCCT
66 GAGTCCCAACCACCCT
*
77658210 ACACTTAAACAAGTCATTAAATT-AGTGCAATGATTAC-AGATAACTCATAAGTCCAAGCTAAAA
1 ACACTTAAACAAGTCATTAAATTAAG-GCAATGATTACAAG-CAACTCATAAGTCCAAGCTAAAA
77658273 CAGAGTCCCAACCACCCT
64 CAGAGTCCCAACCACCCT
77658291 TACTAAAGTC
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
80 4 0.05
81 73 0.95
ACGTcount: A:0.43, C:0.25, G:0.11, T:0.22
Consensus pattern (81 bp):
ACACTTAAACAAGTCATTAAATTAAGGCAATGATTACAAGCAACTCATAAGTCCAAGCTAAAACA
GAGTCCCAACCACCCT
Found at i:77660663 original size:26 final size:25
Alignment explanation
Indices: 77660623--77660671 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
77660613 ACGAACTTTC
* *
77660623 TCAAAATTTTCCTAGGGGTAAAATCG
1 TCAAAATTTTACTA-GAGTAAAATCG
77660649 TCAAAATTTTACTAGAGTAAAAT
1 TCAAAATTTTACTAGAGTAAAAT
77660672 TGAGATGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (25 bp):
TCAAAATTTTACTAGAGTAAAATCG
Found at i:77666197 original size:40 final size:40
Alignment explanation
Indices: 77666117--77666335 Score: 363
Period size: 40 Copynumber: 5.5 Consensus size: 40
77666107 TTCGGATGAC
*
77666117 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
77666156 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
77666196 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
77666236 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
77666276 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
77666316 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
77666336 TACTTGGGTT
Statistics
Matches: 172, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
39 38 0.22
40 132 0.77
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:77667153 original size:28 final size:28
Alignment explanation
Indices: 77667122--77667178 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
77667112 AAAATAGTAG
77667122 GAATGGAGTTAAATAGTGAATAAATTAT
1 GAATGGAGTTAAATAGTGAATAAATTAT
77667150 GAATGGAGTTAAATAGTGAATAAATTAT
1 GAATGGAGTTAAATAGTGAATAAATTAT
77667178 G
1 G
77667179 TGATCGAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.32
Consensus pattern (28 bp):
GAATGGAGTTAAATAGTGAATAAATTAT
Found at i:77674394 original size:21 final size:21
Alignment explanation
Indices: 77674370--77674409 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
77674360 TGTGGATGTA
77674370 TCTGAGTG-TGTTGATTGTAGT
1 TCTG-GTGTTGTTGATTGTAGT
*
77674391 TCTGTTGTTGTTGATTGTA
1 TCTGGTGTTGTTGATTGTA
77674410 ATTCCCTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.12, C:0.05, G:0.30, T:0.53
Consensus pattern (21 bp):
TCTGGTGTTGTTGATTGTAGT
Found at i:77674419 original size:21 final size:21
Alignment explanation
Indices: 77674378--77674419 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
77674368 TATCTGAGTG
* **
77674378 TGTTGATTGTAGTTCTGTTGT
1 TGTTGATTGTAATTCCCTTGT
77674399 TGTTGATTGTAATTCCCTTGT
1 TGTTGATTGTAATTCCCTTGT
77674420 CTTGAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.10, G:0.24, T:0.55
Consensus pattern (21 bp):
TGTTGATTGTAATTCCCTTGT
Found at i:77675674 original size:15 final size:16
Alignment explanation
Indices: 77675654--77675683 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
77675644 AATATTATGA
77675654 AATAAAAA-CAAACAC
1 AATAAAAATCAAACAC
77675669 AATAAAAATCAAACA
1 AATAAAAATCAAACA
77675684 AATGCCATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.17, G:0.00, T:0.10
Consensus pattern (16 bp):
AATAAAAATCAAACAC
Found at i:77678608 original size:21 final size:20
Alignment explanation
Indices: 77678584--77678635 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
77678574 TTATGCCACA
77678584 TCAGTATTCTTATCCTGAATT
1 TCAGTATT-TTATCCTGAATT
* *
77678605 TCAGGATTTTATCTTGAATT
1 TCAGTATTTTATCCTGAATT
*
77678625 TTAGTATTTTA
1 TCAGTATTTTA
77678636 ATTTGGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.52
Consensus pattern (20 bp):
TCAGTATTTTATCCTGAATT
Found at i:77683709 original size:22 final size:22
Alignment explanation
Indices: 77683684--77683727 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
77683674 TGTATAAGAT
77683684 GTGTATGATGGAGAAAGTGATG
1 GTGTATGATGGAGAAAGTGATG
77683706 GTGTATGATGGAGAAAGTGATG
1 GTGTATGATGGAGAAAGTGATG
77683728 ATGATGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.41, T:0.27
Consensus pattern (22 bp):
GTGTATGATGGAGAAAGTGATG
Found at i:77697688 original size:2 final size:2
Alignment explanation
Indices: 77697681--77697709 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
77697671 ACACATACGG
77697681 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 A
77697710 CACCATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:77707986 original size:9 final size:10
Alignment explanation
Indices: 77707962--77708012 Score: 66
Period size: 11 Copynumber: 4.7 Consensus size: 10
77707952 CACAATAATC
77707962 CTCTCACAATT
1 CTCTCA-AATT
77707973 CTCTCTAAATT
1 CTCTC-AAATT
77707984 CTCTCCAAATT
1 CTCT-CAAATT
77707995 CTCTCAAATTT
1 CTCTCAAA-TT
77708006 CTCTCAA
1 CTCTCAA
77708013 TTTTTGTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.11
11 31 0.84
12 2 0.05
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:77710484 original size:130 final size:130
Alignment explanation
Indices: 77710275--77710770 Score: 732
Period size: 130 Copynumber: 3.9 Consensus size: 130
77710265 GTAGAAACTT
* *
77710275 TTTTTATTTAGTTTC-ATATAATAAAAT-AAAAGTTTTTTTAATATTTTAATTGTACTTATCTTT
1 TTTTTATATAGTTTCAAT-TAATAAAATAAAAATTTTTTTTAATATTTTAATTGTACTTATCTTT
*
77710338 TTTAAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATTTA
65 TTTAAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTATTTTTATATTTA
77710403 A
130 A
*
77710404 TTTTTATATAGTTTCAATTAATAAAATAAAAGTTTTTTTTAATATTTTAATTGTACTTATCTTTT
1 TTTTTATATAGTTTCAATTAATAAAATAAAAATTTTTTTTAATATTTTAATTGTACTTATCTTTT
*
77710469 TTAAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATTTAA
66 TTAAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTATTTTTATATTTAA
*
77710534 TTTTTATATAGTTTCAATTAATAAAATAAAAATTGTTTTTAATATTTTAA---T--TTA----TT
1 TTTTTATATAGTTTCAATTAATAAAATAAAAATTTTTTTTAATATTTTAATTGTACTTATCTTTT
* *
77710590 TT-AATTTTATTAAAATAAATATTCTTTTAAATTAGCCAATA-TTTTTATTATTTTTATATTTAT
66 TTAAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTATTTTTATATTTAA
* * *
77710653 TTTTTATATATTTTTAATTAATAAAATAAAAATTGTTTTTTTATATTTTAATTGTACTT-TACTT
1 TTTTTATATAGTTTCAATTAATAAAATAAAAATT-TTTTTTAATATTTTAATTGTACTTAT-CTT
* * * *
77710717 TTTTTAATTTTAATACAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
64 TTTTAAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTA
77710771 AAATAAATTT
Statistics
Matches: 337, Mismatches: 15, Indels: 28
0.89 0.04 0.07
Matches are distributed among these distances:
119 53 0.16
120 51 0.15
121 4 0.01
123 1 0.00
125 5 0.01
127 1 0.00
129 27 0.08
130 186 0.55
131 9 0.03
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (130 bp):
TTTTTATATAGTTTCAATTAATAAAATAAAAATTTTTTTTAATATTTTAATTGTACTTATCTTTT
TTAAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTATTTTTATATTTAA
Found at i:77710653 original size:15 final size:15
Alignment explanation
Indices: 77710628--77710665 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
77710618 AAATTAGCCA
*
77710628 ATATTTTTATTATTTT
1 ATATATTTATT-TTTT
77710644 -TATATTTATTTTTT
1 ATATATTTATTTTTT
77710658 ATATATTT
1 ATATATTT
77710666 TTAATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
ATATATTTATTTTTT
Found at i:77710728 original size:250 final size:253
Alignment explanation
Indices: 77710275--77710770 Score: 727
Period size: 250 Copynumber: 1.9 Consensus size: 253
77710265 GTAGAAACTT
* *
77710275 TTTTTATTTAGTTTCATATAATAAAATAAAAGTTTTTTTAATATTTTAATTGTACTTATCTTTTT
1 TTTTTATATAGTTTCATATAATAAAATAAAAATTTTTTTAATATTTTAA-T-TA-TTA---TTTT
* *
77710340 TAAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATTTAAT
60 TAAATTTTATTAAAATAAATATTCTTTTAAATTAGCCAATATTTTTTATTATTTTTATATTTAAT
*
77710405 TTTTATATAGTTTCAATTAATAAAATAAAAGTTTTTTTTAATATTTTAATTGTACTTATCTTTTT
125 TTTTATATAGTTTCAATTAATAAAATAAAAATTTTTTTTAATATTTTAATTGTACTTATCTTTTT
* * *
77710470 TAAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATTTAA
190 TAAATTTTAATAAAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTATTTTTATATTTAA
77710534 TTTTTATATAGTTTCA-ATTAATAAAATAAAAATTGTTTTTAATATTTTAA-T-TTA-TTTT-AA
1 TTTTTATATAGTTTCATA-TAATAAAATAAAAATT-TTTTTAATATTTTAATTATTATTTTTAAA
*
77710594 TTTTATTAAAATAAATATTCTTTTAAATTAGCCAATA-TTTTTATTATTTTTATATTTATTTTTT
64 TTTTATTAAAATAAATATTCTTTTAAATTAGCCAATATTTTTTATTATTTTTATATTTAATTTTT
* * * *
77710658 ATATATTTTTAATTAATAAAATAAAAATTGTTTTTTTATATTTTAATTGTACTT-TACTTTTTTT
129 ATATAGTTTCAATTAATAAAATAAAAATT-TTTTTTAATATTTTAATTGTACTTAT-CTTTTTTA
*
77710722 AATTTTAATACAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
192 AATTTTAATAAAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
77710771 AAATAAATTT
Statistics
Matches: 219, Mismatches: 14, Indels: 17
0.88 0.06 0.07
Matches are distributed among these distances:
249 53 0.24
250 112 0.51
251 4 0.02
255 3 0.01
257 1 0.00
258 1 0.00
259 30 0.14
260 15 0.07
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (253 bp):
TTTTTATATAGTTTCATATAATAAAATAAAAATTTTTTTAATATTTTAATTATTATTTTTAAATT
TTATTAAAATAAATATTCTTTTAAATTAGCCAATATTTTTTATTATTTTTATATTTAATTTTTAT
ATAGTTTCAATTAATAAAATAAAAATTTTTTTTAATATTTTAATTGTACTTATCTTTTTTAAATT
TTAATAAAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTATTTTTATATTTAA
Found at i:77712115 original size:45 final size:42
Alignment explanation
Indices: 77712050--77712168 Score: 123
Period size: 41 Copynumber: 2.8 Consensus size: 42
77712040 GTGTTTTCAT
* * * *
77712050 GTAATACCACGTCTGAGACATTGGCATCGATATATGTGGTTATAA
1 GTAAGACCATGTCTGGGACATTGGCATCGATAT-T-TGATT-TAA
* **
77712095 GTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATTTGT
1 GTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTTAA
* *
77712136 GTAAGACCCTGTCTGGGACAATGGCATCGATAT
1 GTAAGACCATGTCTGGGACATTGGCATCGATAT
77712169 GAGATAGCCT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 27 0.43
42 7 0.11
43 1 0.02
44 3 0.05
45 25 0.40
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTTAA
Found at i:77717249 original size:125 final size:125
Alignment explanation
Indices: 77717028--77717334 Score: 499
Period size: 125 Copynumber: 2.5 Consensus size: 125
77717018 AGCCTAAGGC
* * *
77717028 TTTTTCAGATACTACTGTAGCAAAATAGCGTCCACGTAGGAGCTTTTTT-CGTAATTTTGCTGAC
1 TTTTTTAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
**
77717092 AGTGCATCCTTCTTAAAGTGTTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTA
66 AGTGCATCCTTCTTAAAGCATTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTA
*
77717152 TTTTTTAGATACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
1 TTTTTTAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
* * *
77717217 AGTGCATCCTTTTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
66 AGTGCATCCTTCTTAAAGCATTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTA
* *
77717277 TTTTTTCAGATACTATTGTAGCAAAAGAGCGTCAACGTGGGAGCTTTTTTCCGTAATT
1 TTTTTT-AGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATT
77717335 AATAGTGAAT
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
124 45 0.27
125 76 0.45
126 48 0.28
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (125 bp):
TTTTTTAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
AGTGCATCCTTCTTAAAGCATTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTA
Found at i:77717489 original size:17 final size:17
Alignment explanation
Indices: 77717463--77717499 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
77717453 AAAAAACTCT
*
77717463 AAAACCTTAAACCCTAA
1 AAAACATTAAACCCTAA
77717480 AAAACATTAAACCCTAA
1 AAAACATTAAACCCTAA
77717497 AAA
1 AAA
77717500 TCCTAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAACATTAAACCCTAA
Found at i:77719403 original size:25 final size:25
Alignment explanation
Indices: 77719324--77719390 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
77719314 TTTTTTATAA
77719324 ACTTTAAATTAGGAATTCTATTCGG
1 ACTTTAAATTAGGAATTCTATTCGG
*
77719349 ACTTTAAATTAGGAATTCTACTCGG
1 ACTTTAAATTAGGAATTCTATTCGG
*
77719374 ACTTTAAATTAGAAATT
1 ACTTTAAATTAGGAATT
77719391 AGATTAGGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTCTATTCGG
Found at i:77722720 original size:22 final size:22
Alignment explanation
Indices: 77722692--77722735 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
77722682 TGAAAGCATT
77722692 TTTCTTTAAAAGAGATGTTAAG
1 TTTCTTTAAAAGAGATGTTAAG
*
77722714 TTTCTTTAGAAGAGATGTTAAG
1 TTTCTTTAAAAGAGATGTTAAG
77722736 GGTTCAGCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (22 bp):
TTTCTTTAAAAGAGATGTTAAG
Found at i:77724262 original size:25 final size:25
Alignment explanation
Indices: 77724234--77724317 Score: 123
Period size: 25 Copynumber: 3.4 Consensus size: 25
77724224 GTTTTTTATA
77724234 AACTTTAAATTAGGAATTCTATTAG
1 AACTTTAAATTAGGAATTCTATTAG
*
77724259 AACTTTAAATTAGGAATTCTACTAG
1 AACTTTAAATTAGGAATTCTATTAG
* **
77724284 GACTTTAAATTAGGAATTAGATTAG
1 AACTTTAAATTAGGAATTCTATTAG
*
77724309 GACTTTAAA
1 AACTTTAAA
77724318 GGCTGCCAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.37
Consensus pattern (25 bp):
AACTTTAAATTAGGAATTCTATTAG
Found at i:77728819 original size:14 final size:14
Alignment explanation
Indices: 77728802--77728830 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
77728792 AAGAGGTGGA
77728802 TAAGAAGACACATC
1 TAAGAAGACACATC
77728816 TAAGAAGACACATC
1 TAAGAAGACACATC
77728830 T
1 T
77728831 CACATGTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (14 bp):
TAAGAAGACACATC
Found at i:77733621 original size:44 final size:44
Alignment explanation
Indices: 77733571--77733658 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
77733561 AATACCTCTA
*
77733571 ATTTATGAATAGAATGAATATTGTTTTTATGAGTGAGGGTTGAG
1 ATTTATGAATAGAATGAATATTGTTTTTACGAGTGAGGGTTGAG
77733615 ATTTATGAATAGAATGAATATTGTTTTTACGAGTGAGGGTTGAG
1 ATTTATGAATAGAATGAATATTGTTTTTACGAGTGAGGGTTGAG
77733659 TTGCAACAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.32, C:0.01, G:0.27, T:0.40
Consensus pattern (44 bp):
ATTTATGAATAGAATGAATATTGTTTTTACGAGTGAGGGTTGAG
Found at i:77734240 original size:21 final size:22
Alignment explanation
Indices: 77734197--77734243 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
77734187 TTAAAATTAA
*
77734197 AAAATATTATTTTTTAGGGAAAAT
1 AAAATATTATTTTATA--GAAAAT
77734221 AAAATATTATTTTATA-AAAAT
1 AAAATATTATTTTATAGAAAAT
77734242 AA
1 AA
77734244 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
24 15 0.68
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (22 bp):
AAAATATTATTTTATAGAAAAT
Found at i:77737106 original size:22 final size:22
Alignment explanation
Indices: 77737081--77737128 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
77737071 AGGAAAAATT
*
77737081 ATTGTCAAA-TTCGGTAATTTTA
1 ATTGT-AAATTTCGATAATTTTA
*
77737103 ATTGTAAATTTTGATAATTTTA
1 ATTGTAAATTTCGATAATTTTA
77737125 ATTG
1 ATTG
77737129 ACTATTCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.50
Consensus pattern (22 bp):
ATTGTAAATTTCGATAATTTTA
Found at i:77739570 original size:25 final size:26
Alignment explanation
Indices: 77739509--77739571 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
77739499 TTTTATCTCA
*
77739509 ATAAAGTTTTGACAATTTTACTCCCG
1 ATAAAATTTTGACAATTTTACTCCCG
*
77739535 ATAAAATTTTGACAATTTTAC-CGCG
1 ATAAAATTTTGACAATTTTACTCCCG
*
77739560 GTAAAATTTTGA
1 ATAAAATTTTGA
77739572 GAAAATTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (26 bp):
ATAAAATTTTGACAATTTTACTCCCG
Found at i:77739945 original size:30 final size:30
Alignment explanation
Indices: 77739911--77739973 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
77739901 ACTTATTTTA
77739911 TTGTTAATTTTGTTATTACTTTAAAGACAT
1 TTGTTAATTTTGTTATTACTTTAAAGACAT
* **
77739941 TTGTTAATTTTGTTATTATTTTAGGGACAT
1 TTGTTAATTTTGTTATTACTTTAAAGACAT
77739971 TTG
1 TTG
77739974 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTACTTTAAAGACAT
Found at i:77740414 original size:6 final size:6
Alignment explanation
Indices: 77740403--77740436 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
77740393 AGATTGCAAG
* *
77740403 TTTTCA TTTTCA CTTTCA TTTCCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
77740437 TGGAAACCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTTCA
Found at i:77741922 original size:10 final size:9
Alignment explanation
Indices: 77741887--77741926 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
77741877 GGGTTTACTC
77741887 ACAATTAAA
1 ACAATTAAA
77741896 ACAATTAAA
1 ACAATTAAA
*
77741905 AAAATTAAA
1 ACAATTAAA
77741914 ACAAGTTAAA
1 ACAA-TTAAA
77741924 ACA
1 ACA
77741927 CTAACTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.68, C:0.10, G:0.03, T:0.20
Consensus pattern (9 bp):
ACAATTAAA
Found at i:77744265 original size:17 final size:17
Alignment explanation
Indices: 77744243--77744277 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
77744233 GATAGACTTA
77744243 TATGTAGGGTATGAGAT
1 TATGTAGGGTATGAGAT
77744260 TATGTAGGGTATGAGAT
1 TATGTAGGGTATGAGAT
77744277 T
1 T
77744278 GACACTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.34, T:0.37
Consensus pattern (17 bp):
TATGTAGGGTATGAGAT
Found at i:77744419 original size:18 final size:18
Alignment explanation
Indices: 77744396--77744431 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
77744386 TATGGCAAGA
*
77744396 GTGAGGGTGAGGGTGGTG
1 GTGAGGGTGAAGGTGGTG
77744414 GTGAGGGTGAAGGTGGTG
1 GTGAGGGTGAAGGTGGTG
77744432 AGGTTGCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.64, T:0.22
Consensus pattern (18 bp):
GTGAGGGTGAAGGTGGTG
Found at i:77749323 original size:163 final size:159
Alignment explanation
Indices: 77749027--77749449 Score: 392
Period size: 159 Copynumber: 2.6 Consensus size: 159
77749017 AACAAAAGAT
* * * * ** * * *
77749027 CATGCATTCAA-CCTAACACAACGAGAACACAAGTATATTGTAAACACTTTTTCATTGTCAATAC
1 CATGCATT-AAGCCTAACACAACTAGATCATAGGTATATCATAAACACTTTTTAAATGTCAATTC
* * * * * * *** * *
77749091 CAAAATAT-TAAAATCTAA-TTTGAGTTCTCATTTTTTTTATCTTATTCTAGTACGAGTACAAGA
65 AAAAATATCT-AATTCTAACTTCGGGTTGTGATTTTTTTGGCCTTAGTATAGTACGAGTACAAGA
* *
77749154 ACTAGAAGTCCCCCCCAAAA-AA-AACAACATAACAC
129 ACTAGAAG------ACAAAAGAAGAACAACAGAACAC
* * * * *
77749189 CATGCATTTAGCCTAATACAACTGGATCATAGGTATATCGTATACACTATTTTAAA-GTCAATTC
1 CATGCATTAAGCCTAACACAACTAGATCATAGGTATATCATAAACACT-TTTTAAATGTCAATTC
* *
77749253 AAAAATATTTTAA-TCTAACTTCGGGTTGTGATTTTTTTGGCCTTAGTATAGTACGAGTACATGA
65 AAAAATA-TCTAATTCTAACTTCGGGTTGTGATTTTTTTGGCCTTAGTATAGTACGAGTACAAGA
77749317 ACTAGAAGACAAAAGAAGAACAACAGAACAC
129 ACTAGAAGACAAAAGAAGAACAACAGAACAC
* *
77749348 CATGCATTAAGCCTAACACAACTAGATCATAGGTATATCATAAACACTTTTTAAATTTCAATTCC
1 CATGCATTAAGCCTAACACAACTAGATCATAGGTATATCATAAACACTTTTTAAATGTCAATTCA
* * * *
77749413 AAATTATCTAATTCTAATTTGGGGTTTTGATTTTTTT
66 AAAATATCTAATTCTAACTTCGGGTTGTGATTTTTTT
77749450 CTCAGTCTAG
Statistics
Matches: 215, Mismatches: 37, Indels: 21
0.79 0.14 0.08
Matches are distributed among these distances:
157 5 0.02
158 13 0.06
159 89 0.41
161 1 0.00
162 55 0.26
163 51 0.24
164 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (159 bp):
CATGCATTAAGCCTAACACAACTAGATCATAGGTATATCATAAACACTTTTTAAATGTCAATTCA
AAAATATCTAATTCTAACTTCGGGTTGTGATTTTTTTGGCCTTAGTATAGTACGAGTACAAGAAC
TAGAAGACAAAAGAAGAACAACAGAACAC
Found at i:77749724 original size:82 final size:81
Alignment explanation
Indices: 77749543--77749742 Score: 319
Period size: 82 Copynumber: 2.4 Consensus size: 81
77749533 TTAAGCTGGT
* * **
77749543 TAACATATTTTGTTTGTTTTTTTGAAATGATTTGTTGAAATGGTTTTTAACATCTTACTTTTATA
1 TAACATATTTTGTTTG-TTTTTTGAAATGATTTGTTAAAATGGTTGTTAACATCTTACTACTATA
77749608 GGATCATTTTGTTAGCA
65 GGATCATTTTGTTAGCA
*
77749625 TAACATATTTTTTTTTGTTTTTTGAAATGATTTGTTAAAATGGTTAGTTAACATCTTACTACTAT
1 TAACATA-TTTTGTTTGTTTTTTGAAATGATTTGTTAAAATGGTT-GTTAACATCTTACTACTAT
*
77749690 AGGATCATTTTGTTAGTA
64 AGGATCATTTTGTTAGCA
77749708 TAACATATTTTGTTTGTTTTTTGAAATGATTTGTT
1 TAACATATTTTGTTTGTTTTTTGAAATGATTTGTT
77749743 GAAAGATGTA
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
82 61 0.56
83 48 0.44
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.53
Consensus pattern (81 bp):
TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTAAAATGGTTGTTAACATCTTACTACTATAG
GATCATTTTGTTAGCA
Found at i:77750008 original size:14 final size:14
Alignment explanation
Indices: 77749989--77750016 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
77749979 TATAGAGAGC
77749989 GGTTTTAATCTAAT
1 GGTTTTAATCTAAT
77750003 GGTTTTAATCTAAT
1 GGTTTTAATCTAAT
77750017 AAAAATCAAA
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:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
GGTTTTAATCTAAT
Found at i:77751298 original size:46 final size:47
Alignment explanation
Indices: 77751238--77751465 Score: 322
Period size: 46 Copynumber: 5.0 Consensus size: 47
77751228 TTTGACATGA
* * * * * *
77751238 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*** **
77751284 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
77751330 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
77751376 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
77751422 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-ATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
77751466 AGAGCACACT
Statistics
Matches: 167, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 4 0.02
46 160 0.96
47 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:77753615 original size:11 final size:11
Alignment explanation
Indices: 77753599--77753650 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
77753589 TATACTAAAT
77753599 AAATAATAATA
1 AAATAATAATA
*
77753610 AAATAAT-ATT
1 AAATAATAATA
* *
77753620 AAATATCTCATA
1 AAATA-ATAATA
*
77753632 AAATATTAATA
1 AAATAATAATA
77753643 AAATAATA
1 AAATAATA
77753651 TTTATTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:77756588 original size:24 final size:24
Alignment explanation
Indices: 77756541--77756588 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
77756531 TCGTTCTGTG
**
77756541 GCAAAGGATGAATTGACGGCAAAT
1 GCAAAGGATGAATTGACGAAAAAT
*
77756565 GCAAAGGATGAATTGATGAAAAAT
1 GCAAAGGATGAATTGACGAAAAAT
77756589 TACCCAAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.08, G:0.27, T:0.19
Consensus pattern (24 bp):
GCAAAGGATGAATTGACGAAAAAT
Found at i:77756744 original size:42 final size:42
Alignment explanation
Indices: 77756680--77756833 Score: 156
Period size: 42 Copynumber: 3.7 Consensus size: 42
77756670 TCATATGAAT
* * * *
77756680 TTCAGTTTAGCCTTTATGGGTTTCCGTTCAGCTCTTTTAAGC
1 TTCAGTTTAACCCTTATGGGTTTCTGTTAAGCTCTTTTAAGC
* * * *
77756722 TGT-AGTTTAACCCTTATAGGTTTTTGTTTAGCTCTTTTGAGC
1 T-TCAGTTTAACCCTTATGGGTTTCTGTTAAGCTCTTTTAAGC
77756764 TTCAGTTTAACCCTTATGGGTTTCTGTTAAG--CTTTTACGAGC
1 TTCAGTTTAACCCTTATGGGTTTCTGTTAAGCTCTTTTA--AGC
77756806 TTTC--TTTCAACCCTTATGGGTTTCTGTT
1 -TTCAGTTT-AACCCTTATGGGTTTCTGTT
77756834 TAGCACTTAT
Statistics
Matches: 95, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
40 5 0.05
41 4 0.04
42 82 0.86
43 4 0.04
ACGTcount: A:0.16, C:0.19, G:0.18, T:0.47
Consensus pattern (42 bp):
TTCAGTTTAACCCTTATGGGTTTCTGTTAAGCTCTTTTAAGC
Found at i:77758307 original size:9 final size:9
Alignment explanation
Indices: 77758293--77758321 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
77758283 ATCAACATCC
77758293 AATTAAAAA
1 AATTAAAAA
77758302 AATTAAAAA
1 AATTAAAAA
77758311 AA-TAAAAA
1 AATTAAAAA
77758319 AAT
1 AAT
77758322 CCCTAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AATTAAAAA
Found at i:77763006 original size:4 final size:4
Alignment explanation
Indices: 77762991--77763066 Score: 61
Period size: 4 Copynumber: 19.0 Consensus size: 4
77762981 TAATTAATAA
* *
77762991 AAAG AAAT AAAG AAAG AAAG ATAG AAACG AAACAG AAAG -AAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG
*
77763041 -AA- AAAG AAA- AAGGG AAAG AAAG AAAG
1 AAAG AAAG AAAG AA-AG AAAG AAAG AAAG
77763067 TAGAAAGACA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
3 9 0.16
4 40 0.69
5 5 0.09
6 3 0.05
7 1 0.02
ACGTcount: A:0.71, C:0.03, G:0.24, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:77763038 original size:22 final size:21
Alignment explanation
Indices: 77762999--77763074 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 21
77762989 AAAAAGAAAT
*
77762999 AAAGAAAGAAAGATAGAAACGAA
1 AAAGAAAG-AAGAAAGAAA-GAA
*
77763022 ACAGAAAGAAGAAAGAAAGAA
1 AAAGAAAGAAGAAAGAAAGAA
77763043 AAAGAAA-AAGGGAAAGAAAGAA
1 AAAGAAAGAA--GAAAGAAAGAA
*
77763065 AGTAGAAAGA
1 A-AAGAAAGA
77763075 CAATGCTAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
20 2 0.04
21 9 0.20
22 21 0.47
23 12 0.27
24 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.25, T:0.03
Consensus pattern (21 bp):
AAAGAAAGAAGAAAGAAAGAA
Found at i:77765430 original size:27 final size:27
Alignment explanation
Indices: 77765389--77765440 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
77765379 TGGTGCAATA
77765389 GAATTCTTAGGATTGAAAGGAGTTGGT
1 GAATTCTTAGGATTGAAAGGAGTTGGT
*
77765416 GAATTCTTAGTATTGAAAGGAGTTG
1 GAATTCTTAGGATTGAAAGGAGTTG
77765441 ATCCTTCTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.35
Consensus pattern (27 bp):
GAATTCTTAGGATTGAAAGGAGTTGGT
Found at i:77767244 original size:2 final size:2
Alignment explanation
Indices: 77767237--77767262 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
77767227 GCGTGTGGAA
77767237 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
77767263 CATCCATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:77773206 original size:42 final size:42
Alignment explanation
Indices: 77773142--77773248 Score: 187
Period size: 42 Copynumber: 2.5 Consensus size: 42
77773132 GCTGTACAAT
* *
77773142 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
77773184 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
*
77773226 TTTATACCCACACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
77773249 GAGACCAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:77781136 original size:42 final size:42
Alignment explanation
Indices: 77781072--77781178 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
77781062 GCTGTACAAT
* *
77781072 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
77781114 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
77781156 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
77781179 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:77783343 original size:8 final size:8
Alignment explanation
Indices: 77783330--77783359 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
77783320 GTTAAAATAT
77783330 ATATTATA
1 ATATTATA
77783338 ATATTATA
1 ATATTATA
77783346 ATATTATA
1 ATATTATA
77783354 ATATTA
1 ATATTA
77783360 AATCTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTATA
Found at i:77783424 original size:4 final size:4
Alignment explanation
Indices: 77783417--77783497 Score: 62
Period size: 4 Copynumber: 20.0 Consensus size: 4
77783407 TAATTAATAA
*
77783417 AAAG AAAG AAAG AAAG AAAG ATAG AAACG AAACG AAACAG AAAG -AAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA-G AAA-G -AA-AG AAAG AAAG
* *
77783464 ATAG AAAG -AA- AAAG AAA- AAGGG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AA-AG AAAG AAAG AAAG
77783498 TAGAAAGACA
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
3 9 0.14
4 40 0.63
5 10 0.16
6 3 0.05
7 1 0.02
ACGTcount: A:0.69, C:0.04, G:0.25, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:77783480 original size:27 final size:28
Alignment explanation
Indices: 77783427--77783494 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
77783417 AAAGAAAGAA
*
77783427 AGAAAGAAAGATAGAAACGAAACGAAAC
1 AGAAAGAAAGATAGAAACGAAAAGAAAC
*
77783455 AGAAAG-AAGATAGAAA-GAAAAAGAAAA
1 AGAAAGAAAGATAGAAACG-AAAAGAAAC
77783482 AGGGAAAGAAAGA
1 A--GAAAGAAAGA
77783495 AAGTAGAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 1 0.03
27 18 0.53
28 6 0.18
29 5 0.15
30 4 0.12
ACGTcount: A:0.68, C:0.04, G:0.25, T:0.03
Consensus pattern (28 bp):
AGAAAGAAAGATAGAAACGAAAAGAAAC
Found at i:77783837 original size:41 final size:40
Alignment explanation
Indices: 77783792--77783904 Score: 108
Period size: 37 Copynumber: 2.9 Consensus size: 40
77783782 CAACTTTGAG
*
77783792 TCGATGAGACACTGGGTGTCAATTTATTACTTCAGATTTAT
1 TCGATGAGACACTGGGTGTCAATTTATTACTTC-GATTTAA
* * *
77783833 TCGATGA-AGCACTGTGTGCCAA--T-TTACTTCGGTTTAA
1 TCGATGAGA-CACTGGGTGTCAATTTATTACTTCGATTTAA
* * * *
77783870 CCGATGAGGCACTGGGTATCAATTTACTACTTCGA
1 TCGATGAGACACTGGGTGTCAATTTATTACTTCGA
77783905 ACTATTCGAT
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
37 21 0.38
38 7 0.12
39 2 0.04
40 8 0.14
41 18 0.32
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAATTTATTACTTCGATTTAA
Found at i:77790773 original size:36 final size:36
Alignment explanation
Indices: 77790730--77790802 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
77790720 CTTTTATGTT
77790730 AGTTTGTGTGTTTATTTTAACTTTTTCACCTTTTTC
1 AGTTTGTGTGTTTATTTTAACTTTTTCACCTTTTTC
*
77790766 AGTTTGTGTGTTTATTTTAACTTTTTCGCCTTTTTC
1 AGTTTGTGTGTTTATTTTAACTTTTTCACCTTTTTC
77790802 A
1 A
77790803 AAAAAAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.14, C:0.14, G:0.12, T:0.60
Consensus pattern (36 bp):
AGTTTGTGTGTTTATTTTAACTTTTTCACCTTTTTC
Found at i:77796381 original size:160 final size:160
Alignment explanation
Indices: 77796114--77796405 Score: 383
Period size: 160 Copynumber: 1.8 Consensus size: 160
77796104 TAAGGATGGG
* * *
77796114 AATCAAGTTTGAAAAACTATTGTCCAAATCAAGGACTAAGATTACAAAATTCATTAAATTAGGTA
1 AATCAAGTTTGAAAAACTATTATCCAAATCAAAGACTAAGATTACAAAATTCATTAAATTAAGTA
* * * *
77796179 ATTCAAATAAGAAAGAATTCTTATTTGAAGCATCGTAAAAAAGCTTCTTCCTCTAAAATTTTAAT
66 ATTCAAATAAGAAAGAATTCTTATTTGAAGCATCATAAAAAAGCTTCTCCCTCAAAAAGTTTAAT
77796244 TGATCAATTACAGGGGGTAATTGGGGTGGA
131 TGATCAATTACAGGGGGTAATTGGGGTGGA
** * ** *
77796274 AATCAAGTTTGAAAATTTGTTATCCAAATCAAAGACTGGGATTA-AGAAATTCGTTAAATTAAGT
1 AATCAAGTTTGAAAAACTATTATCCAAATCAAAGACTAAGATTACA-AAATTCATTAAATTAAGT
* * * *
77796338 AATTCATATAAGGAATAATTCTTAATTT-AAGC-TTATAAAAAAAGCTTCTCCCTCAAAAAGTTT
65 AATTCAAATAAGAAAGAATTCTT-ATTTGAAGCATCAT-AAAAAAGCTTCTCCCTCAAAAAGTTT
77796401 AATTG
128 AATTG
77796406 GTGAATTAGA
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
159 3 0.03
160 105 0.94
161 4 0.04
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (160 bp):
AATCAAGTTTGAAAAACTATTATCCAAATCAAAGACTAAGATTACAAAATTCATTAAATTAAGTA
ATTCAAATAAGAAAGAATTCTTATTTGAAGCATCATAAAAAAGCTTCTCCCTCAAAAAGTTTAAT
TGATCAATTACAGGGGGTAATTGGGGTGGA
Found at i:77798112 original size:62 final size:62
Alignment explanation
Indices: 77798021--77798473 Score: 458
Period size: 62 Copynumber: 7.3 Consensus size: 62
77798011 GTGTAGGGTT
* * *
77798021 CACACGGCTAGGGACACGAGCGTGTGCCCAAGCTGTGTAACTCACTGCTTGTACTTAAGAAC
1 CACACGGCCAGGGACACGAGCGTGTGCCCAAGCCGTGTAACTCACTGTTTGTACTTAAGAAC
* ** * * * * *
77798083 CATACAACCAGGGACATGAGCATGTGCCCAAGCCGTGTAACTCATTATTTATACTTAAGAAC
1 CACACGGCCAGGGACACGAGCGTGTGCCCAAGCCGTGTAACTCACTGTTTGTACTTAAGAAC
* * ** * * * *
77798145 CACACGGCCAGGGACACGGGTGTGTGTTCAGGGCTTGTAACTCACTTTTTGTACTTAAGAAC
1 CACACGGCCAGGGACACGAGCGTGTGCCCAAGCCGTGTAACTCACTGTTTGTACTTAAGAAC
* * * *
77798207 CACACGGCCAGGGATACGGGCGTGTGCCCAAGCTGTGTAACTCACTATTTGTACTTAAGAAC
1 CACACGGCCAGGGACACGAGCGTGTGCCCAAGCCGTGTAACTCACTGTTTGTACTTAAGAAC
* * * * * * * *
77798269 CATATGGCCAAGGACACGGGCGTATGCCCAGGCCGTGTAATTCACAGTTTGTACTTAAGAAC
1 CACACGGCCAGGGACACGAGCGTGTGCCCAAGCCGTGTAACTCACTGTTTGTACTTAAGAAC
* * * ** * * * *
77798331 CACACGACCAGGGATACGAGCATGTGCTTAGGCCGTGTAACTCACTGTTTGTAGTTAACAAT
1 CACACGGCCAGGGACACGAGCGTGTGCCCAAGCCGTGTAACTCACTGTTTGTACTTAAGAAC
* * * * * *
77798393 TACACGGCCAGGGACACG-GACGTGTGCCCAGGTCATGTAACTCACTGTTTGTGCTTAAAAAC
1 CACACGGCCAGGGACACGAG-CGTGTGCCCAAGCCGTGTAACTCACTGTTTGTACTTAAGAAC
*
77798455 CACACGGCCAAGGTACACG
1 CACACGGCC-AGGGACACG
77798474 GACGTATGCC
Statistics
Matches: 315, Mismatches: 74, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
61 1 0.00
62 306 0.97
63 8 0.03
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (62 bp):
CACACGGCCAGGGACACGAGCGTGTGCCCAAGCCGTGTAACTCACTGTTTGTACTTAAGAAC
Found at i:77798245 original size:124 final size:124
Alignment explanation
Indices: 77798021--77798460 Score: 513
Period size: 124 Copynumber: 3.5 Consensus size: 124
77798011 GTGTAGGGTT
* * * *
77798021 CACACGGCTAGGGACACGAGCGTGTGCCCA-AGCTGTGTAACTCACTGCTTGTACTTAAGAACCA
1 CACACGGCCAGGGACACGGGCGTGTGCCCAGGGCT-TGTAACTCACTGTTTGTACTTAAGAACCA
* * * * * *
77798085 TACAACCAGGGACATGAGCATGTGCCCAAGCCGTGTAACTCATTATTTATACTTAAGAAC
65 CACGACCAGGGATACGAGCATGTGCCCAAGCCGTGTAACTCACTATTTGTACTTAAGAAC
* ** *
77798145 CACACGGCCAGGGACACGGGTGTGTGTTCAGGGCTTGTAACTCACTTTTTGTACTTAAGAACCAC
1 CACACGGCCAGGGACACGGGCGTGTGCCCAGGGCTTGTAACTCACTGTTTGTACTTAAGAACCAC
* * * *
77798210 ACGGCCAGGGATACGGGCGTGTGCCCAAGCTGTGTAACTCACTATTTGTACTTAAGAAC
66 ACGACCAGGGATACGAGCATGTGCCCAAGCCGTGTAACTCACTATTTGTACTTAAGAAC
* * * * * * * *
77798269 CATATGGCCAAGGACACGGGCGTATGCCCAGGCCGTGTAATTCACAGTTTGTACTTAAGAACCAC
1 CACACGGCCAGGGACACGGGCGTGTGCCCAGGGCTTGTAACTCACTGTTTGTACTTAAGAACCAC
** * * * * *
77798334 ACGACCAGGGATACGAGCATGTGCTTAGGCCGTGTAACTCACTGTTTGTAGTTAACAAT
66 ACGACCAGGGATACGAGCATGTGCCCAAGCCGTGTAACTCACTATTTGTACTTAAGAAC
* * * * * *
77798393 TACACGGCCAGGGACACGGACGTGTGCCCAGGTCATGTAACTCACTGTTTGTGCTTAAAAACCAC
1 CACACGGCCAGGGACACGGGCGTGTGCCCAGGGCTTGTAACTCACTGTTTGTACTTAAGAACCAC
77798458 ACG
66 ACG
77798461 GCCAAGGTAC
Statistics
Matches: 262, Mismatches: 53, Indels: 2
0.83 0.17 0.01
Matches are distributed among these distances:
124 259 0.99
125 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (124 bp):
CACACGGCCAGGGACACGGGCGTGTGCCCAGGGCTTGTAACTCACTGTTTGTACTTAAGAACCAC
ACGACCAGGGATACGAGCATGTGCCCAAGCCGTGTAACTCACTATTTGTACTTAAGAAC
Found at i:77798335 original size:186 final size:186
Alignment explanation
Indices: 77798021--77798489 Score: 557
Period size: 186 Copynumber: 2.5 Consensus size: 186
77798011 GTGTAGGGTT
* * *
77798021 CACACGGCTAGGGACACGAGCGTGTGCCCAAGCTGTGTAACTCACTGCTTGTACTTAAGAACCAT
1 CACACGGCCAGGGACACGGGCGTGTGCCCAAGCTGTGTAACTCACTGTTTGTACTTAAGAACCAT
** * * * * * * *
77798086 ACAACCAGGGACATGAGCATGTGCCCAAGCCGTGTAACTCATTATTTATACTTAAGAACCACACG
66 ACGGCCAAGGACACGGGCGTATGCCCAGGCCGTGTAACTCATCATTTATACTTAAGAACCACACG
* * ** * * * *
77798151 GCCAGGGACACGGGTGTGTG-TTCAGGGCTTGTAACTCACTTTTTGTACTTAAGAAC
131 ACCAGGGACACGAGCATGTGCTT-AGGCCGTGTAACTCACTGTTTGTACTTAACAAC
* *
77798207 CACACGGCCAGGGATACGGGCGTGTGCCCAAGCTGTGTAACTCACTATTTGTACTTAAGAACCAT
1 CACACGGCCAGGGACACGGGCGTGTGCCCAAGCTGTGTAACTCACTGTTTGTACTTAAGAACCAT
* * *
77798272 ATGGCCAAGGACACGGGCGTATGCCCAGGCCGTGTAATTCA-CAGTTTGTACTTAAGAACCACAC
66 ACGGCCAAGGACACGGGCGTATGCCCAGGCCGTGTAACTCATCA-TTTATACTTAAGAACCACAC
* * *
77798336 GACCAGGGATACGAGCATGTGCTTAGGCCGTGTAACTCACTGTTTGTAGTTAACAAT
130 GACCAGGGACACGAGCATGTGCTTAGGCCGTGTAACTCACTGTTTGTACTTAACAAC
* * * * * *
77798393 TACACGGCCAGGGACACGGACGTGTGCCC-AGGTCATGTAACTCACTGTTTGTGCTTAAAAACCA
1 CACACGGCCAGGGACACGGGCGTGTGCCCAAGCT-GTGTAACTCACTGTTTGTACTTAAGAACCA
* *
77798457 CACGGCCAAGGTACACGGACGTATGCCCAGGCC
65 TACGGCCAAGG-ACACGGGCGTATGCCCAGGCC
77798490 ATGTGGTAGG
Statistics
Matches: 240, Mismatches: 39, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
185 4 0.02
186 214 0.89
187 22 0.09
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.23
Consensus pattern (186 bp):
CACACGGCCAGGGACACGGGCGTGTGCCCAAGCTGTGTAACTCACTGTTTGTACTTAAGAACCAT
ACGGCCAAGGACACGGGCGTATGCCCAGGCCGTGTAACTCATCATTTATACTTAAGAACCACACG
ACCAGGGACACGAGCATGTGCTTAGGCCGTGTAACTCACTGTTTGTACTTAACAAC
Found at i:77798841 original size:30 final size:30
Alignment explanation
Indices: 77798806--77798862 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
77798796 AGGAACTTCT
77798806 ACACGGGTA-ATCCACACGCCCGTGTGTGAC
1 ACACGGGTAGA-CCACACGCCCGTGTGTGAC
*
77798836 ACACGGGTAGACTACACGCCCGTGTGT
1 ACACGGGTAGACCACACGCCCGTGTGT
77798863 CATGGCCGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.18
Consensus pattern (30 bp):
ACACGGGTAGACCACACGCCCGTGTGTGAC
Found at i:77803396 original size:20 final size:20
Alignment explanation
Indices: 77803371--77803409 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
77803361 TCTTCTCCCT
77803371 ACCCACACGCCCA-CCATTCC
1 ACCCACAC-CCCAGCCATTCC
77803391 ACCCACACCCCAGCCATTC
1 ACCCACACCCCAGCCATTC
77803410 GCAATACCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.26, C:0.59, G:0.05, T:0.10
Consensus pattern (20 bp):
ACCCACACCCCAGCCATTCC
Found at i:77805120 original size:21 final size:21
Alignment explanation
Indices: 77805080--77805120 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
77805070 ACTGTGTTTA
* *
77805080 GAGGTTCGACAGTCTTGATGC
1 GAGGTTCGACAGTATCGATGC
77805101 GAGGTTCGACAGTATCGATG
1 GAGGTTCGACAGTATCGATG
77805121 AGACTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.27
Consensus pattern (21 bp):
GAGGTTCGACAGTATCGATGC
Found at i:77805224 original size:6 final size:6
Alignment explanation
Indices: 77805209--77805253 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
77805199 TTTAAGTCCA
77805209 TTTA-T TTTATT TTTATT TTTATT TTT-TAT TTTATCT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTAT-T TTTAT-T TTTATT TTT
77805254 GAAATCTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
5 5 0.14
6 24 0.67
7 7 0.19
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:77805237 original size:19 final size:19
Alignment explanation
Indices: 77805209--77805253 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
77805199 TTTAAGTCCA
*
77805209 TTTATTTTAT-TTTTAT-T
1 TTTATTTTTTATTTTATCT
77805226 TTTATTTTTTATTTTATCT
1 TTTATTTTTTATTTTATCT
77805245 TTTATTTTT
1 TTTATTTTT
77805254 GAAATCTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.36
18 6 0.24
19 10 0.40
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTATTTTTTATTTTATCT
Found at i:77815011 original size:62 final size:62
Alignment explanation
Indices: 77814938--77815129 Score: 258
Period size: 62 Copynumber: 3.1 Consensus size: 62
77814928 GTGCAGGGTT
* *
77814938 CACACGGCCAGGGACACGGGTGTGTGCCAAGGCCGTGTAACTCACTATTTGTACTTAAGAAC
1 CACACGACCAGGGACACGGGCGTGTGCCAAGGCCGTGTAACTCACTATTTGTACTTAAGAAC
* * *
77815000 CACACGACCAGGGACACGAGCGTGTGCCTAGGTCGTGTAACTCACTATTTGTACTTAAGAAC
1 CACACGACCAGGGACACGGGCGTGTGCCAAGGCCGTGTAACTCACTATTTGTACTTAAGAAC
* *** * * * * *
77815062 CACACGACCAGGAACACGGGCAAATGCCCAGGCCATGTAACTCACTGTTTGAACTTAAGAAT
1 CACACGACCAGGGACACGGGCGTGTGCCAAGGCCGTGTAACTCACTATTTGTACTTAAGAAC
77815124 CACACG
1 CACACG
77815130 GTGGGCCTAG
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 114 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (62 bp):
CACACGACCAGGGACACGGGCGTGTGCCAAGGCCGTGTAACTCACTATTTGTACTTAAGAAC
Found at i:77815216 original size:109 final size:109
Alignment explanation
Indices: 77815025--77815221 Score: 286
Period size: 109 Copynumber: 1.8 Consensus size: 109
77815015 ACGAGCGTGT
* * *
77815025 GCCTAGGTCGTGTAACTCACTATTTGTACTTAAGAACCACACGACCAGGAACACGGGCAAATGCC
1 GCCTAGGCCGTATAACTCACTATTTGTACTTAAGAACCACACGACCAGGAACACAGGCAAATGCC
*
77815090 CAGGCCATGTAACTCACTGTTTGAACTTAAGAATCACACGGTGG
66 CAGGCCATGTAACTCACTATTTGAACTTAAGAATCACACGGTGG
* * * * ***
77815134 GCCTAGGCCGTATAACTCACTGTTTGTACTTAAGAACCACATGGCCAGGGACACAGGCGTGTGCC
1 GCCTAGGCCGTATAACTCACTATTTGTACTTAAGAACCACACGACCAGGAACACAGGCAAATGCC
*
77815199 CAGGCCGTGTAACTCACTATTTG
66 CAGGCCATGTAACTCACTATTTG
77815222 TGATTAAAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
109 76 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (109 bp):
GCCTAGGCCGTATAACTCACTATTTGTACTTAAGAACCACACGACCAGGAACACAGGCAAATGCC
CAGGCCATGTAACTCACTATTTGAACTTAAGAATCACACGGTGG
Found at i:77815235 original size:62 final size:62
Alignment explanation
Indices: 77815138--77815271 Score: 164
Period size: 62 Copynumber: 2.1 Consensus size: 62
77815128 CGGTGGGCCT
* * * * * **
77815138 AGGCCGTATAACTCACTGTTTGTACTTAAGAACCACATGGCCAGGGACACA-GGCGTGTGCCC
1 AGGCCGTGTAACTCACTATTTGTACTTAAAAACCACACGGCCAAGG-CACAGGGCAAGTGCCC
77815200 AGGCCGTGTAACTCACTATTTGTGA-TTAAAAACCACACGGCCAAGGCACATGGGCAAGTGCCC
1 AGGCCGTGTAACTCACTATTTGT-ACTTAAAAACCACACGGCCAAGGCACA-GGGCAAGTGCCC
77815263 AGGCCGTGT
1 AGGCCGTGT
77815272 GGCAGGGTGT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
61 4 0.06
62 39 0.63
63 19 0.31
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.20
Consensus pattern (62 bp):
AGGCCGTGTAACTCACTATTTGTACTTAAAAACCACACGGCCAAGGCACAGGGCAAGTGCCC
Found at i:77826289 original size:4 final size:4
Alignment explanation
Indices: 77826280--77826304 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
77826270 TAAGGAGCGA
77826280 GGAT GGAT GGAT GGAT GGAT GGAT G
1 GGAT GGAT GGAT GGAT GGAT GGAT G
77826305 AGGGAAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.52, T:0.24
Consensus pattern (4 bp):
GGAT
Found at i:77856296 original size:85 final size:85
Alignment explanation
Indices: 77856152--77856322 Score: 308
Period size: 85 Copynumber: 2.0 Consensus size: 85
77856142 ATTGTGAGAC
*
77856152 TGCATGGGGTACCAGTTTCTATTATTTTAGACAGAGATTCTAGATTCACATCTTGGTTGTGGAAG
1 TGCATGGGATACCAGTTTCTATTATTTTAGACAGAGATTCTAGATTCACATCTTGGTTGTGGAAG
77856217 AAGTTACACAAGGCTCTGGG
66 AAGTTACACAAGGCTCTGGG
*
77856237 TGCATGGGATACCAGTTTCTATTATTTTGGACAGAGATTCTAGATTCACATCTCT-GTTGTGGAA
1 TGCATGGGATACCAGTTTCTATTATTTTAGACAGAGATTCTAGATTCACATCT-TGGTTGTGGAA
77856301 GAAGTTACACAAGGCTCTGGG
65 GAAGTTACACAAGGCTCTGGG
77856322 T
1 T
77856323 ACAAGGTTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
85 82 0.99
86 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (85 bp):
TGCATGGGATACCAGTTTCTATTATTTTAGACAGAGATTCTAGATTCACATCTTGGTTGTGGAAG
AAGTTACACAAGGCTCTGGG
Found at i:77868266 original size:124 final size:122
Alignment explanation
Indices: 77868046--77868267 Score: 293
Period size: 124 Copynumber: 1.8 Consensus size: 122
77868036 GAATTATGTG
* * * *
77868046 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATACCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * * **
77868111 TAAGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTCGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTCGAGCCTTAGTAACGA
* * *
77868168 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATAATACCCG
*
77868232 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
63 GGCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
77868268 TCCGGGTTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
122 16 0.19
124 65 0.77
125 3 0.04
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTCGAGCCTTAGTAACGA
Found at i:77868311 original size:40 final size:40
Alignment explanation
Indices: 77868226--77868376 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
77868216 AATTGAATGA
* * * *
77868226 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
77868266 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
77868307 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
77868346 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
77868377 ACGTGCTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:77868360 original size:80 final size:80
Alignment explanation
Indices: 77868227--77868376 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
77868217 ATTGAATGAT
* *
77868227 ATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
77868292 TGTGCTAGTGGCTAC
66 TGTGCTAGTGGCTAC
* * * *
77868307 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
77868370 TTTGTGC
64 ATTGTGC
77868377 ACGTGCTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 4 0.07
80 57 0.93
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGGCTAC
Done.