Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 153 of 345
Found at i:51819707 original size:40 final size:40
Alignment explanation
Indices: 51819607--51819824 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
51819597 TGGATGATAA
*
51819607 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * *
51819648 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
51819688 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
51819728 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
51819768 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
51819807 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
51819825 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 103 0.64
41 23 0.14
42 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:51821809 original size:40 final size:40
Alignment explanation
Indices: 51821724--51821861 Score: 159
Period size: 40 Copynumber: 3.5 Consensus size: 40
51821714 CTCGATAATA
* * ** *
51821724 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAACT
* *
51821764 CAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAACT
* * * *
51821804 TAAAGTGAATAGGATTTATTCTTAATTCACTACGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAACT
* *
51821844 TAAGGCGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
51821862 ACCTGAAAAG
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAACT
Found at i:51824773 original size:24 final size:25
Alignment explanation
Indices: 51824729--51824777 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
51824719 GACATACTGA
51824729 TGGCACCCATTAAAAAAAATTTCTG
1 TGGCACCCATTAAAAAAAATTTCTG
51824754 TGGCACCCATT-AAAAAAATTTCTG
1 TGGCACCCATTAAAAAAAATTTCTG
51824778 ACAATCTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (25 bp):
TGGCACCCATTAAAAAAAATTTCTG
Found at i:51824961 original size:33 final size:33
Alignment explanation
Indices: 51824916--51824981 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
51824906 TTTTTCACTT
51824916 TCACTAAAATATGACCGTGTAATGATTAGGAAA
1 TCACTAAAATATGACCGTGTAATGATTAGGAAA
* *
51824949 TCACTAATATATGACTGTGTAATGATTAGGAAA
1 TCACTAAAATATGACCGTGTAATGATTAGGAAA
51824982 AAAAAGACGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (33 bp):
TCACTAAAATATGACCGTGTAATGATTAGGAAA
Found at i:51825214 original size:17 final size:17
Alignment explanation
Indices: 51825189--51825227 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
51825179 CTTTCACTTT
* *
51825189 TCCAATCTTTCCTTACA
1 TCCATTCTTGCCTTACA
*
51825206 TCCATTCTTGCCTTTCA
1 TCCATTCTTGCCTTACA
51825223 TCCAT
1 TCCAT
51825228 CTACTTTTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.36, G:0.03, T:0.44
Consensus pattern (17 bp):
TCCATTCTTGCCTTACA
Found at i:51827690 original size:63 final size:64
Alignment explanation
Indices: 51827601--51827724 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 64
51827591 ACTAGTTAAT
51827601 TTTCTTTTTTATTTTAAATTCAAATAGACTTGGCTTTATTAAAACATAAACTAGAATACATTTC
1 TTTCTTTTTTATTTTAAATTCAAATAGACTTGGCTTTATTAAAACATAAACTAGAATACATTTC
*
51827665 TTTCTTTTTT-TTTTTAATTCAAATAGACTTGGCTTTATTAAAACATAAACTAGAATACAT
1 TTTCTTTTTTATTTTAAATTCAAATAGACTTGGCTTTATTAAAACATAAACTAGAATACAT
51827725 ATCACTAAGC
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
63 49 0.83
64 10 0.17
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.46
Consensus pattern (64 bp):
TTTCTTTTTTATTTTAAATTCAAATAGACTTGGCTTTATTAAAACATAAACTAGAATACATTTC
Found at i:51829662 original size:59 final size:59
Alignment explanation
Indices: 51829596--51829719 Score: 239
Period size: 59 Copynumber: 2.1 Consensus size: 59
51829586 ACGATAAATA
51829596 AATAAATAAAGTTAATTAATAAAATAGGTTTCCCTTGTTAGGAAATGTGCCCATATTTT
1 AATAAATAAAGTTAATTAATAAAATAGGTTTCCCTTGTTAGGAAATGTGCCCATATTTT
51829655 AATAAATAAAGTTAATTAATAAAATAGGTTTCCCTTGTTAGGAAATGTGCCCATATTTT
1 AATAAATAAAGTTAATTAATAAAATAGGTTTCCCTTGTTAGGAAATGTGCCCATATTTT
*
51829714 AGTAAA
1 AATAAA
51829720 CATATAACTT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (59 bp):
AATAAATAAAGTTAATTAATAAAATAGGTTTCCCTTGTTAGGAAATGTGCCCATATTTT
Found at i:51841575 original size:19 final size:20
Alignment explanation
Indices: 51841537--51841576 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
51841527 AACCTTCACT
51841537 TATTCATCATCACATAGTCA
1 TATTCATCATCACATAGTCA
* *
51841557 TATTCATTA-CACCTAGTCA
1 TATTCATCATCACATAGTCA
51841576 T
1 T
51841577 TTCCCGTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (20 bp):
TATTCATCATCACATAGTCA
Found at i:51841754 original size:51 final size:51
Alignment explanation
Indices: 51841614--51841792 Score: 182
Period size: 51 Copynumber: 3.5 Consensus size: 51
51841604 CGGATGCCCG
* * * * *
51841614 GTGGCCTGCACATAGTACAACCCTTGT-AGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCCTGCACATAGTACCACACATGTGA-TCAAAGCTATCTT-TTACACATA
* * *
51841665 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTACACATA
1 GTGGCCTGCACATAGTACCACACATGTGATCAAAGCTATCTTTTACACATA
* *** *
51841716 GTGGCCTGCACTTAGTACCACACATGTGATCAAAGCTATCGGGTACGCATA
1 GTGGCCTGCACATAGTACCACACATGTGATCAAAGCTATCTTTTACACATA
* * *
51841767 GTAGCCTGCACTTAGTACTACACATG
1 GTGGCCTGCACATAGTACCACACATG
51841793 CAACCTAACC
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
50 2 0.02
51 107 0.97
52 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (51 bp):
GTGGCCTGCACATAGTACCACACATGTGATCAAAGCTATCTTTTACACATA
Found at i:51846906 original size:3 final size:3
Alignment explanation
Indices: 51846898--51846929 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
51846888 TAATTTTTGT
51846898 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
51846930 TATTTCTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:51848588 original size:6 final size:6
Alignment explanation
Indices: 51848567--51848627 Score: 70
Period size: 6 Copynumber: 10.3 Consensus size: 6
51848557 AGTCCATTTG
* * * *
51848567 TTTTTA TGTCTA TTTTTA -TTTTA TTTTTA TTTTTC TGTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
51848614 TTTTTA TGTTTA TT
1 TTTTTA TTTTTA TT
51848628 CTATCTTTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
5 5 0.11
6 39 0.89
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:51852975 original size:18 final size:18
Alignment explanation
Indices: 51852942--51852976 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
51852932 CTCTGGGCTT
51852942 TCTTTTTTGTGATTATTC
1 TCTTTTTTGTGATTATTC
51852960 TCTTGTTTTGTG-TTATT
1 TCTT-TTTTGTGATTATT
51852977 ATTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.09, C:0.09, G:0.14, T:0.69
Consensus pattern (18 bp):
TCTTTTTTGTGATTATTC
Found at i:51866054 original size:52 final size:52
Alignment explanation
Indices: 51865976--51866077 Score: 161
Period size: 52 Copynumber: 2.0 Consensus size: 52
51865966 TATTTTACCT
*
51865976 AAAAGGGAGAGGCCAAGGTGAAAACCCACAAAGGGCGCTTTGAGACCAAAAA
1 AAAAGGGAGAGGCCAAGCTGAAAACCCACAAAGGGCGCTTTGAGACCAAAAA
* *
51866028 AAAAGGGAGAGGCCAAAGCT-AAAACCCGCAAAGGGCGCTTTGAGGCCAAA
1 AAAAGGGAGAGGCC-AAGCTGAAAACCCACAAAGGGCGCTTTGAGACCAAA
51866078 GGGGTTTTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 42 0.91
53 4 0.09
ACGTcount: A:0.42, C:0.21, G:0.29, T:0.08
Consensus pattern (52 bp):
AAAAGGGAGAGGCCAAGCTGAAAACCCACAAAGGGCGCTTTGAGACCAAAAA
Found at i:51867082 original size:133 final size:133
Alignment explanation
Indices: 51866843--51867453 Score: 947
Period size: 133 Copynumber: 4.6 Consensus size: 133
51866833 CCGATTCTAC
* * * * *
51866843 AGATCTTGTCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGACGGTAAATCTCGTCTTCCTGAAG
1 AGATCTTGT-TTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGGTGAATCTCGCCTTCCTGAAG
* *
51866907 TTGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCTCTAAAGTTGTAGTGGAGTAGGTTGAAGA
65 TTGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
51866972 TTGT
130 TTGT
* * *
51866976 AGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGATTGCGAATCTCGCCTTCCTAAAGT
1 AGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGGTGAATCTCGCCTTCCTGAAGT
* * *
51867041 TGTAGTGAAGCAGATTTAAGCCACCACCCTATCTCCTTAAAGTTGTAGTGGAGTAGACTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
51867106 TGT
131 TGT
* * *
51867109 AGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGATGAATCTCGCCTTCCTTAAGC
1 AGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGGTGAATCTCGCCTTCCTGAAGT
* * *
51867174 TACAGTGAAGCAGATTCAAGCCACCACCCTATCTCCCTAAAGTTATAGTGGAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
51867239 TGT
131 TGT
* * *
51867242 AGATCTTGTTTCCCTGAACTTGCAGTGGAGCAGATCGAAGATGGCGAATCTCGCATTCCTGAAGT
1 AGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGGTGAATCTCGCCTTCCTGAAGT
*
51867307 TGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAATAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
51867372 TGT
131 TGT
* * * *
51867375 AGATCTTGTTTCCCTGAAGTTG-AGTGAAGCAGATCGAAGATGGTAAATCTCGCATTCCTGAAGT
1 AGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGGTGAATCTCGCCTTCCTGAAGT
*
51867439 TGCAGTGGAGCAGAT
66 TGCAGTGAAGCAGAT
51867454 CGAAGAGTGT
Statistics
Matches: 438, Mismatches: 39, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
132 55 0.13
133 383 0.87
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (133 bp):
AGATCTTGTTTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGGTGAATCTCGCCTTCCTGAAGT
TGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
TGT
Found at i:51867459 original size:45 final size:44
Alignment explanation
Indices: 51867385--51867503 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 44
51867375 AGATCTTGTT
*
51867385 TCCCTGAAGTTGAGTGAAGCAGATCGAAGA-TGGTAAATCTCGCAT-
1 TCCCTGAAGTTGAGTGGAGCAGATCGAAGAGT-GTAAATCT--CATC
* *
51867430 T-CCTGAAGTTGCAGTGGAGCAGATCGAAGAGTGTAGATCTTATC
1 TCCCTGAAGTTG-AGTGGAGCAGATCGAAGAGTGTAAATCTCATC
*
51867474 TCCCTGAAGTTATAGTGGAGCAGATCGAAG
1 TCCCTGAAGTT-GAGTGGAGCAGATCGAAG
51867504 TCACAATCCT
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
43 2 0.03
44 11 0.17
45 51 0.78
46 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (44 bp):
TCCCTGAAGTTGAGTGGAGCAGATCGAAGAGTGTAAATCTCATC
Found at i:51868272 original size:19 final size:18
Alignment explanation
Indices: 51868245--51868280 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
51868235 CTCTAGGCTT
*
51868245 TCTTTTTTTGTGATTATTC
1 TCTTGTTTTGTG-TTATTC
51868264 TCTTGTTTTGTGTTATT
1 TCTTGTTTTGTGTTATT
51868281 TTTTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.08, C:0.08, G:0.14, T:0.69
Consensus pattern (18 bp):
TCTTGTTTTGTGTTATTC
Found at i:51869501 original size:30 final size:31
Alignment explanation
Indices: 51869442--51869501 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
51869432 ATATATTTTG
* *
51869442 TATTAAAGTTAATTTTATTTCATATATATAT
1 TATTAAAGTTAATATTATTTCATACATATAT
* *
51869473 TATTAAA-TTTATATTATTTTATACATATA
1 TATTAAAGTTAATATTATTTCATACATATA
51869502 ATTCCTTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (31 bp):
TATTAAAGTTAATATTATTTCATACATATAT
Found at i:51876166 original size:4 final size:4
Alignment explanation
Indices: 51876157--51876210 Score: 62
Period size: 4 Copynumber: 14.2 Consensus size: 4
51876147 TAGCAAAAGA
*
51876157 TAAT TAAT TAAT TATAT T-AT TAAT T-AT TAAT TAAT TAAT TAA- -AAA
1 TAAT TAAT TAAT TA-AT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
51876202 TAAT TAAT T
1 TAAT TAAT T
51876211 TCTTTTAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
2 2 0.05
3 6 0.14
4 33 0.75
5 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:51883866 original size:13 final size:13
Alignment explanation
Indices: 51883848--51883872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51883838 GTTAATTTTA
51883848 TAAAATAAAATTT
1 TAAAATAAAATTT
51883861 TAAAATAAAATT
1 TAAAATAAAATT
51883873 AGGATGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAATAAAATTT
Found at i:51884602 original size:22 final size:23
Alignment explanation
Indices: 51884560--51884602 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
51884550 GCATTCTCTT
**
51884560 AAAATCACAAAAGTTGTATAATA
1 AAAATCACAAAAGGAGTATAATA
51884583 AAAATCACAAAAGGAG-ATAA
1 AAAATCACAAAAGGAGTATAA
51884603 GATTTAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.19
Consensus pattern (23 bp):
AAAATCACAAAAGGAGTATAATA
Found at i:51889423 original size:31 final size:31
Alignment explanation
Indices: 51889388--51889450 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
51889378 ATCAATTAAA
51889388 AAAACATTAAGGCATACACAAGCTTGGCACC
1 AAAACATTAAGGCATACACAAGCTTGGCACC
51889419 AAAACATTAAGGCATACACAAGCTTGGCACC
1 AAAACATTAAGGCATACACAAGCTTGGCACC
51889450 A
1 A
51889451 TTCAAACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.25, G:0.16, T:0.16
Consensus pattern (31 bp):
AAAACATTAAGGCATACACAAGCTTGGCACC
Found at i:51891156 original size:43 final size:42
Alignment explanation
Indices: 51891012--51891159 Score: 140
Period size: 42 Copynumber: 3.5 Consensus size: 42
51891002 TGTGATATTG
* *
51891012 TGTAAGACCACGTCTGGGAC-GTTGGCATCG-ACTTGATATTTACG
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGTATTTG--A-TTACA
* * * *
51891056 TGTAAGACCATGTCTGGGACA-TCGACATCGTATATGATTTCA
1 TGTAAGACCACGTCTGGGACAGT-GGCATCGTATTTGATTACA
**
51891098 TGTAAGACCTTGTCTGGGACAGTGGCATCGTTATTTGATTACA
1 TGTAAGACCACGTCTGGGACAGTGGCATCG-TATTTGATTACA
*
51891141 TGTAATACCACGTCTGGGA
1 TGTAAGACCACGTCTGGGA
51891160 TGTTGGCATT
Statistics
Matches: 86, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
42 29 0.34
43 29 0.34
44 25 0.29
45 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGTATTTGATTACA
Found at i:51891167 original size:43 final size:42
Alignment explanation
Indices: 51891012--51891168 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
51891002 TGTGATATTG
* *
51891012 TGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTGATATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTG--A-TTACA
* * * * * *
51891056 TGTAAGACCATGTCTGGGACATCGACATCGTATATGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTACA
**
51891098 TGTAAGACCTTGTCTGGGACAG-TGGCATCGTTATTTGATTACA
1 TGTAAGACCACGTCTGGGAC-GTTGGCATCG-TATTTGATTACA
* *
51891141 TGTAATACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
51891169 TGTACGAATT
Statistics
Matches: 91, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 29 0.32
43 33 0.36
44 26 0.29
45 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTACA
Found at i:51902468 original size:83 final size:83
Alignment explanation
Indices: 51902351--51902519 Score: 293
Period size: 83 Copynumber: 2.0 Consensus size: 83
51902341 AATTAATATA
* *
51902351 AAGCCTGAAAGAGAAAGTGGCCCAGTGTGCTAAGCATTGAAGACTGATCCAACAAGCAAATTGGC
1 AAGCCTAAAAGAGAAAGTGACCCAGTGTGCTAAGCATTGAAGACTGATCCAACAAGCAAATTGGC
*
51902416 AGCCCAAAACCATCCAAC
66 AGCCCAAAAACATCCAAC
* *
51902434 AAGCCTAAAAGAGAAAGTGACCCAGTGTGTTAAGCATTGAAGATTGATCCAACAAGCAAATTGGC
1 AAGCCTAAAAGAGAAAGTGACCCAGTGTGCTAAGCATTGAAGACTGATCCAACAAGCAAATTGGC
51902499 AGCCCAAAAACATCCAAC
66 AGCCCAAAAACATCCAAC
51902517 AAG
1 AAG
51902520 TTGACCCAAT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (83 bp):
AAGCCTAAAAGAGAAAGTGACCCAGTGTGCTAAGCATTGAAGACTGATCCAACAAGCAAATTGGC
AGCCCAAAAACATCCAAC
Found at i:51903843 original size:25 final size:25
Alignment explanation
Indices: 51903814--51903865 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
51903804 CGACATTTAC
*
51903814 TTGTCACTTTATTACTTGATAATGA
1 TTGTCACTTTATTACTTGATAACGA
51903839 TTGTCACTTTATTACTTGATAACGA
1 TTGTCACTTTATTACTTGATAACGA
51903864 TT
1 TT
51903866 ATGCACACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (25 bp):
TTGTCACTTTATTACTTGATAACGA
Found at i:51909997 original size:28 final size:28
Alignment explanation
Indices: 51909966--51910023 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
51909956 TTAATTACAT
51909966 TCCTACTATTTTTAGTGAATTTTCAAAC
1 TCCTACTATTTTTAGTGAATTTTCAAAC
51909994 TCCTACTATTTTTAGTGAATTTTCAAAC
1 TCCTACTATTTTTAGTGAATTTTCAAAC
51910022 TC
1 TC
51910024 ACATCACTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.47
Consensus pattern (28 bp):
TCCTACTATTTTTAGTGAATTTTCAAAC
Found at i:51910831 original size:40 final size:40
Alignment explanation
Indices: 51910753--51910936 Score: 212
Period size: 40 Copynumber: 4.5 Consensus size: 40
51910743 ACCCAAGTAT
* *
51910753 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
51910792 CTTCGGGTCTTAGCCCGGTTATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
51910832 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
51910872 CTTTGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
51910915 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
51910937 CATCCGAATA
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
39 12 0.10
40 78 0.64
41 1 0.01
43 30 0.25
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:51920473 original size:284 final size:284
Alignment explanation
Indices: 51919963--51920492 Score: 925
Period size: 284 Copynumber: 1.9 Consensus size: 284
51919953 AGTATAAGTC
* * *
51919963 TTGAGATAATGGAACTTTTGTCTTCAAACAAAGCCATGTATGTCTTGAGACAAGTACCTATTGCT
1 TTGAGATAATGGAACTTTTGTCTTCAAACAAAGCCATGTATGTATTGAGACAAGGACCTATTGAT
*
51920028 GTAGAATTTTAGCTTTGAAGTTTTTATGTCTCGAGACCCAAGAAAATAGACCTAAAAAATATGCT
66 GTAGAATTTTAGCTTCGAAGTTTTTATGTCTCGAGACCCAAGAAAATAGACCTAAAAAATATGCT
* * * *
51920093 TTTAAACACTCTTAAATCATACTAAATTGTCCAGAATGATTTCAATCATTGACCAAAACACCTAA
131 TTAAAACACTCTTAAACCATACTAAATTGTCCACAATGACTTCAATCATTGACCAAAACACCTAA
* *
51920158 AATCAAGTCAAAACCATTACCAATCATTTTCTTATGTTTCATTAAAAACTTCCTTCGAAGTTTTA
196 AATCAAGTCAAAACCATTACCAATCATTTTCTTAGGGTTCATTAAAAACTTCCTTCGAAGTTTTA
51920223 AGATAAGGACCTATTGCTGTAGAA
261 AGATAAGGACCTATTGCTGTAGAA
* * *
51920247 TTGAGATAATGGAAGTTTTGTCTTCAAACAAAGTCATGTATGTATTGAGACAAGGATCTATTGAT
1 TTGAGATAATGGAACTTTTGTCTTCAAACAAAGCCATGTATGTATTGAGACAAGGACCTATTGAT
**
51920312 GTAGAATTTTAGCTTCGAAGTTTTTATGTCTCGAGACCCGGGAAAATAGACCTAAAAAATATGCT
66 GTAGAATTTTAGCTTCGAAGTTTTTATGTCTCGAGACCCAAGAAAATAGACCTAAAAAATATGCT
51920377 TTAAAACACTCTTAAACCATACTAAATTGTCCACAATGACTTCAATCATTGACCAAAACACCTAA
131 TTAAAACACTCTTAAACCATACTAAATTGTCCACAATGACTTCAATCATTGACCAAAACACCTAA
51920442 AATCAAGTCAAAACCATTACCAATCATTTTCTTAGGGTTCATTAAAAACTT
196 AATCAAGTCAAAACCATTACCAATCATTTTCTTAGGGTTCATTAAAAACTT
51920493 GCATGCTATT
Statistics
Matches: 231, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
284 231 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (284 bp):
TTGAGATAATGGAACTTTTGTCTTCAAACAAAGCCATGTATGTATTGAGACAAGGACCTATTGAT
GTAGAATTTTAGCTTCGAAGTTTTTATGTCTCGAGACCCAAGAAAATAGACCTAAAAAATATGCT
TTAAAACACTCTTAAACCATACTAAATTGTCCACAATGACTTCAATCATTGACCAAAACACCTAA
AATCAAGTCAAAACCATTACCAATCATTTTCTTAGGGTTCATTAAAAACTTCCTTCGAAGTTTTA
AGATAAGGACCTATTGCTGTAGAA
Found at i:51928775 original size:23 final size:23
Alignment explanation
Indices: 51928749--51928793 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
51928739 TAATCCCCAC
51928749 ATGGTGTGTAGA-GCTGGATGGGG
1 ATGGTGTGTAGAGGCTGG-TGGGG
51928772 ATGGTGTGTAGAGGCTGGTGGG
1 ATGGTGTGTAGAGGCTGGTGGG
51928794 TAGGATTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.16, C:0.04, G:0.53, T:0.27
Consensus pattern (23 bp):
ATGGTGTGTAGAGGCTGGTGGGG
Found at i:51934339 original size:20 final size:20
Alignment explanation
Indices: 51934286--51934331 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
51934276 ATCATAACAT
51934286 TGAGGAGGCTAGTGGGAGCC
1 TGAGGAGGCTAGTGGGAGCC
51934306 TGAGGAGGCTAGTGGGAGCC
1 TGAGGAGGCTAGTGGGAGCC
51934326 TGAGGA
1 TGAGGA
51934332 TGCGAGTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.13, G:0.50, T:0.15
Consensus pattern (20 bp):
TGAGGAGGCTAGTGGGAGCC
Found at i:51942324 original size:23 final size:24
Alignment explanation
Indices: 51942286--51942330 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
51942276 TATGGCAAGA
51942286 AATTAAGTAGAAAAAG-AAGTATG
1 AATTAAGTAGAAAAAGTAAGTATG
51942309 AATTAAGTTAG-AAAAGTAAGTA
1 AATTAAG-TAGAAAAAGTAAGTA
51942331 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.56, C:0.00, G:0.20, T:0.24
Consensus pattern (24 bp):
AATTAAGTAGAAAAAGTAAGTATG
Found at i:51942813 original size:25 final size:25
Alignment explanation
Indices: 51942766--51942813 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
51942756 GTATTGATTT
* *
51942766 TGAAAATGGATTTTTGAAATGAAAG
1 TGAAAATGGATTGTGGAAATGAAAG
* *
51942791 TGAAATTGGATTGTGGAATTGAA
1 TGAAAATGGATTGTGGAAATGAA
51942814 TTGCATATTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (25 bp):
TGAAAATGGATTGTGGAAATGAAAG
Found at i:51947162 original size:22 final size:22
Alignment explanation
Indices: 51947136--51947181 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
51947126 ATTATGTGTA
51947136 TTAATTCATAATATAA-TTAATT
1 TTAATTC-TAATATAATTTAATT
*
51947158 TTAATTCTAATCTAATTTAATT
1 TTAATTCTAATATAATTTAATT
51947180 TT
1 TT
51947182 GGTTAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (22 bp):
TTAATTCTAATATAATTTAATT
Found at i:51951538 original size:18 final size:18
Alignment explanation
Indices: 51951515--51951552 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
51951505 AATAGATATT
51951515 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
**
51951533 AACCCATTTACCCAACCC
1 AACCCAAGTACCCAACCC
51951551 AA
1 AA
51951553 TCATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.47, G:0.03, T:0.11
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:51951612 original size:20 final size:21
Alignment explanation
Indices: 51951570--51951612 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
51951560 AATTACAAAT
*
51951570 AATTTAATAAATAAAAATGAA
1 AATTTAATAAATAAAAATAAA
*
51951591 AATTTAA-AACTAAAAATAAA
1 AATTTAATAAATAAAAATAAA
51951611 AA
1 AA
51951613 CAAAAATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AATTTAATAAATAAAAATAAA
Found at i:51951652 original size:9 final size:9
Alignment explanation
Indices: 51951638--51951741 Score: 111
Period size: 9 Copynumber: 11.6 Consensus size: 9
51951628 TTTATACAAA
51951638 TAATTCGGT
1 TAATTCGGT
51951647 TAATTCGGT
1 TAATTCGGT
*
51951656 TAACTCGGT
1 TAATTCGGT
51951665 TAATTCGGT
1 TAATTCGGT
* *
51951674 TAATTTGGG
1 TAATTCGGT
51951683 TAATTCAGG-
1 TAATTC-GGT
* * *
51951692 TAGTTTGGG
1 TAATTCGGT
*
51951701 TAATTCAGT
1 TAATTCGGT
* *
51951710 TAATTTGAT
1 TAATTCGGT
51951719 TAATTCGGT
1 TAATTCGGT
51951728 TAATTCGGT
1 TAATTCGGT
51951737 TAATT
1 TAATT
51951742 TTATACTTAT
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
8 2 0.03
9 73 0.95
10 2 0.03
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:51954017 original size:46 final size:45
Alignment explanation
Indices: 51953950--51954123 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 45
51953940 TGTAACCCGC
*
51953950 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
*
51953996 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * * *
51954046 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
51954088 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
51954124 ATGCTCAACC
Statistics
Matches: 111, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
42 5 0.05
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:51954116 original size:92 final size:93
Alignment explanation
Indices: 51953958--51954127 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
51953948 GCCCATAAGT
* *
51953958 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51954023 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
51954051 GAACTCGGACTCAACTCAACGAGTTCGGACGCT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51954115 CGAGTTCGGATGC
66 CGAGTTCGGATGC
51954128 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 44 0.59
93 30 0.41
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51956544 original size:30 final size:30
Alignment explanation
Indices: 51956500--51956588 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
51956490 CAAAGATAAC
51956500 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
51956529 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
51956559 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
51956589 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:51956548 original size:15 final size:15
Alignment explanation
Indices: 51956500--51956579 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
51956490 CAAAGATAAC
*
51956500 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
51956514 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
51956529 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
51956544 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
51956559 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
51956574 AAGAAA
1 AAGAAA
51956580 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:51956588 original size:15 final size:15
Alignment explanation
Indices: 51956511--51956588 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
51956501 AGAAAACCGA
51956511 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
51956526 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
51956540 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
51956555 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
51956571 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
51956586 ATA
1 ATA
51956589 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:51959633 original size:93 final size:93
Alignment explanation
Indices: 51959503--51959674 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
51959493 CACCCATAAG
* *
51959503 CGAACCCGAACTCAACTAAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACCCGAACTCAACTAAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
51959568 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * *
51959596 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACCCGAACTCAACTAAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
51959661 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
51959675 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACCCGAACTCAACTAAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:51959671 original size:46 final size:46
Alignment explanation
Indices: 51959496--51959676 Score: 197
Period size: 46 Copynumber: 3.9 Consensus size: 46
51959486 TGTAACCCAC
* * * * * *
51959496 CCATAAGCGAACCCGAACTCAACTAAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
51959542 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
*
51959592 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
51959635 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
51959677 AACCATCCTA
Statistics
Matches: 112, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:51964514 original size:5 final size:5
Alignment explanation
Indices: 51964504--51964546 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
51964494 TGCTCATGAA
51964504 AAAAG AAAAG AAAAG AAAAG AAAAAG AACAA- AAAA- AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AA-AAG AAAAG AAAAG AAA
51964547 GCATATGTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 6 0.17
5 22 0.63
6 7 0.20
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:51970679 original size:21 final size:22
Alignment explanation
Indices: 51970646--51970686 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
51970636 TTCCTTTATG
*
51970646 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
51970667 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
51970687 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:51974754 original size:27 final size:27
Alignment explanation
Indices: 51974723--51974808 Score: 104
Period size: 27 Copynumber: 3.1 Consensus size: 27
51974713 AACACGTCAA
51974723 GAAATGAAATCCTTTATGGTGAA-TCAT
1 GAAATGAAATCCTTTATGGTGAAGT-AT
51974750 GAAATGAAAGT-CTTTATGGTGAAGTAT
1 GAAATGAAA-TCCTTTATGGTGAAGTAT
* * *
51974777 GAAAAGAATAGCCTTTGTGGTGAAGTAT
1 GAAATGAA-ATCCTTTATGGTGAAGTAT
51974805 GAAA
1 GAAA
51974809 AGAACAGCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
27 30 0.58
28 22 0.42
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.30
Consensus pattern (27 bp):
GAAATGAAATCCTTTATGGTGAAGTAT
Found at i:51974799 original size:28 final size:27
Alignment explanation
Indices: 51974723--51974824 Score: 116
Period size: 28 Copynumber: 3.7 Consensus size: 27
51974713 AACACGTCAA
* *
51974723 GAAATGAAATCCTTTATGGTGAA-TCAT
1 GAAAAGAAAGCCTTTATGGTGAAGT-AT
* *
51974750 GAAATGAAAGTCTTTATGGTGAAGTAT
1 GAAAAGAAAGCCTTTATGGTGAAGTAT
*
51974777 GAAAAGAATAGCCTTTGTGGTGAAGTAT
1 GAAAAGAA-AGCCTTTATGGTGAAGTAT
*
51974805 GAAAAGAACAGCCTCTATGG
1 GAAAAGAA-AGCCTTTATGG
51974825 CAATCTCTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
27 30 0.46
28 35 0.54
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (27 bp):
GAAAAGAAAGCCTTTATGGTGAAGTAT
Found at i:51983606 original size:15 final size:16
Alignment explanation
Indices: 51983586--51983615 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51983576 TAAATTTTGA
51983586 AAATAAA-GTAAATTT
1 AAATAAAGGTAAATTT
51983601 AAATAAAGGTAAATT
1 AAATAAAGGTAAATT
51983616 ATGAAAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (16 bp):
AAATAAAGGTAAATTT
Found at i:51995183 original size:18 final size:18
Alignment explanation
Indices: 51995156--51995191 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
51995146 AAATGAGGTC
*
51995156 AGGTATATTTATATGTTT
1 AGGTAAATTTATATGTTT
*
51995174 AGGTAAATTTGTATGTTT
1 AGGTAAATTTATATGTTT
51995192 TCTTTTAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (18 bp):
AGGTAAATTTATATGTTT
Found at i:51995462 original size:84 final size:84
Alignment explanation
Indices: 51995320--51995490 Score: 279
Period size: 84 Copynumber: 2.0 Consensus size: 84
51995310 GGTACATGCT
51995320 TGATTTGGTGATGAAAATGGCCTGATTTTTGGCCAATTTCATGTCCACAAAGCATGAGACACGGA
1 TGATTTGGTGATGAAAATGGCCTGATTTTTGGCCAATTTCATGTCCACAAAGCATGAGACACGGA
51995385 CGTGTGAATCAGTCGTGTG
66 CGTGTGAATCAGTCGTGTG
* * * * * *
51995404 TGATTTGGTGATGGAAATGGCTTGATTTTTGGCCAATTTCATGTCTACACAGCCTGAGACATGGA
1 TGATTTGGTGATGAAAATGGCCTGATTTTTGGCCAATTTCATGTCCACAAAGCATGAGACACGGA
*
51995469 CGTGTGACTCAGTCGTGTG
66 CGTGTGAATCAGTCGTGTG
51995488 TGA
1 TGA
51995491 CACACGACCA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (84 bp):
TGATTTGGTGATGAAAATGGCCTGATTTTTGGCCAATTTCATGTCCACAAAGCATGAGACACGGA
CGTGTGAATCAGTCGTGTG
Found at i:52001046 original size:12 final size:12
Alignment explanation
Indices: 52001027--52001058 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
52001017 AGTCTCACAT
52001027 GCCCGTGTGCTA
1 GCCCGTGTGCTA
*
52001039 GGCCGTGTGCTA
1 GCCCGTGTGCTA
52001051 GCCCGTGT
1 GCCCGTGT
52001059 AACAACCTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.31, G:0.38, T:0.25
Consensus pattern (12 bp):
GCCCGTGTGCTA
Found at i:52007588 original size:27 final size:27
Alignment explanation
Indices: 52007558--52007804 Score: 286
Period size: 27 Copynumber: 9.2 Consensus size: 27
52007548 AAAGTACTCC
*
52007558 CGATTTATGGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* **
52007585 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
52007612 CAATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
**
52007639 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
52007666 CGATTTATAGAATTACCG-TTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
52007692 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
52007719 TGATTTACAGAATTACTAG-TTTACCCT
1 CGATTTATAGAATTAC-CGTTTTACCCT
* * *
52007746 C-AGTTTAAAAAATTATCGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
52007773 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
52007800 TGATT
1 CGATT
52007805 GTGAAATTAT
Statistics
Matches: 185, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
26 27 0.15
27 155 0.84
28 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTATAGAATTACCGTTTTACCCT
Found at i:52007731 original size:107 final size:108
Alignment explanation
Indices: 52007558--52007813 Score: 322
Period size: 107 Copynumber: 2.4 Consensus size: 108
52007548 AAAGTACTCC
* ** * * *
52007558 CGATTTATGGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTATAGA
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCATTTTACCCTCAATTTACAGA
* * *
52007623 ATTAC-CGTTTTACCCTCAGTTTATAGAATTA-CTATTTTACCCT
66 ATTACTAG-TTTACCCTCAGTTTAAAAAATTATC-ATTTTACCCT
* **
52007666 CGATTTATAGAATTACCG-TTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGA
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCATTTTACCCTCAATTTACAGA
*
52007730 ATTACTAGTTTACCCTCAGTTTAAAAAATTATCGTTTTACCCT
66 ATTACTAGTTTACCCTCAGTTTAAAAAATTATCATTTTACCCT
* * *
52007773 CGATTTACAGAATTACCGTTTTACCCTTGA-TTGTGAAATTA
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTA
52007814 TTGAAATACC
Statistics
Matches: 129, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
107 100 0.78
108 29 0.22
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (108 bp):
CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCATTTTACCCTCAATTTACAGA
ATTACTAGTTTACCCTCAGTTTAAAAAATTATCATTTTACCCT
Found at i:52007838 original size:107 final size:107
Alignment explanation
Indices: 52007618--52007839 Score: 236
Period size: 107 Copynumber: 2.1 Consensus size: 107
52007608 CCCTCAATTT
* * * *
52007618 ATAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACC
1 ATAGAATTACAGTTTTACCCTCAGTTTAAAAAATTACTATTTTACCCTCGATTTACAGAATTACC
*** * **
52007683 GTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATTT
66 GTTTACCCTCGATTTGTAAAATTACCGAAATACCCCTGATGG
* *
52007725 ACAGAATTACTAG-TTTACCCTCAGTTTAAAAAATTA-TCGTTTTACCCTCGATTTACAGAATTA
1 ATAGAATTAC-AGTTTTACCCTCAGTTTAAAAAATTACT-ATTTTACCCTCGATTTACAGAATTA
* * **
52007788 CCGTTTTACCCTTGA-TTGTGAAATTATTGAAATACCCCT-ATAGG
64 CCG-TTTACCCTCGATTTGTAAAATTACCGAAATACCCCTGAT-GG
52007832 ATAGAATT
1 ATAGAATT
52007840 TCCGAAATAC
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
106 3 0.03
107 80 0.85
108 11 0.12
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.39
Consensus pattern (107 bp):
ATAGAATTACAGTTTTACCCTCAGTTTAAAAAATTACTATTTTACCCTCGATTTACAGAATTACC
GTTTACCCTCGATTTGTAAAATTACCGAAATACCCCTGATGG
Found at i:52007995 original size:27 final size:27
Alignment explanation
Indices: 52007816--52008004 Score: 216
Period size: 27 Copynumber: 7.0 Consensus size: 27
52007806 TGAAATTATT
* * *
52007816 GAAATACCCCTATAGGATAGAATTTCC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52007843 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
52007870 GAAATACCCTTATAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
52007897 AAAATACCCCTGTAGGATAGAACTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52007924 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
52007951 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
52007978 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
52008005 ATTTTGCCCC
Statistics
Matches: 140, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:52008241 original size:27 final size:26
Alignment explanation
Indices: 52008203--52008285 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
52008193 CGGAGGAAGC
*
52008203 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
52008230 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
52008256 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
52008283 GTT
1 GTT
52008286 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:52008405 original size:22 final size:22
Alignment explanation
Indices: 52008373--52008431 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
52008363 CCCGTTATTA
*
52008373 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
52008395 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
52008417 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
52008432 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:52008618 original size:27 final size:27
Alignment explanation
Indices: 52008597--52008669 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
52008587 AGGTGGGTTT
*
52008597 GCCACATTATCTG-ATTCTGGTGGCTCA
1 GCCACAATATCTGTA-TCTGGTGGCTCA
* *
52008624 GCCACAATATCTGTATCTGGTGACTCT
1 GCCACAATATCTGTATCTGGTGGCTCA
* *
52008651 GTCACGATATCTGT-TCTGG
1 GCCACAATATCTGTATCTGG
52008670 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 34 0.85
28 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
GCCACAATATCTGTATCTGGTGGCTCA
Found at i:52008796 original size:6 final size:6
Alignment explanation
Indices: 52008787--52008931 Score: 138
Period size: 6 Copynumber: 23.8 Consensus size: 6
52008777 TTGCATTCAC
* *
52008787 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
52008836 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
*
52008885 ATAT-TG ATTCTA ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
52008932 CATTTTGGTT
Statistics
Matches: 115, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
5 7 0.06
6 98 0.85
7 7 0.06
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:52008822 original size:31 final size:31
Alignment explanation
Indices: 52008787--52008866 Score: 151
Period size: 31 Copynumber: 2.6 Consensus size: 31
52008777 TTGCATTCAC
*
52008787 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
52008818 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
52008849 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
52008867 ATTCTGATTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTG
Found at i:52014681 original size:48 final size:48
Alignment explanation
Indices: 52014623--52014799 Score: 136
Period size: 48 Copynumber: 3.8 Consensus size: 48
52014613 TGATTAATGA
* * * * *
52014623 GATCCTGTGTAATACCATGTCTGAGACATGGCATCGGTATCGA-TACGT
1 GATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-ATTAAGT
* * *
52014671 GATCCCGTGTAAGACCATAT-TAGGGATATGGCTTCGGCATCATTAAGT
1 GATCCCGTGTAAGACCATGTCT-GGGACATGGCATCGGCATCATTAAGT
** * * *
52014719 GATTTCGTATAAGACCATGTCTGGGACATGGCATC-G-AT--GTGAG-
1 GATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCATCATTAAGT
* * *
52014762 G-TCCCGTATAAGACCATGTCTGGGGCATGGCAGCGGCA
1 GATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCA
52014800 CTGATTCGAG
Statistics
Matches: 104, Mismatches: 20, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
42 29 0.28
43 2 0.02
44 4 0.04
46 2 0.02
47 3 0.03
48 63 0.61
49 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (48 bp):
GATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCATCATTAAGT
Found at i:52014799 original size:90 final size:90
Alignment explanation
Indices: 52014705--52014871 Score: 210
Period size: 90 Copynumber: 1.9 Consensus size: 90
52014695 GATATGGCTT
* * * * * *
52014705 CGGCA-TCATTAAGTGATTTCGTATAAGACCATGTCTGGGACATGGCATCGATGTGAGGTCCCGT
1 CGGCACTCATT-AGAGACTTCGTATAAGACCATATCTCGAACATGGCATCGATGTGAGGTCCCAT
52014769 ATAAGACCATGTCTGGGGCATGGCAG
65 ATAAGACCATGTCTGGGGCATGGCAG
* * * * * *
52014795 CGGCACTGATTCGAGACTTCGTATAAGATCATATCTCGAATATGGCATCGATGTGTGGTCCCATG
1 CGGCACTCATTAGAGACTTCGTATAAGACCATATCTCGAACATGGCATCGATGTGAGGTCCCATA
52014860 TAAGACCATGTC
66 TAAGACCATGTC
52014872 CAGGACATGG
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
90 60 0.94
91 4 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (90 bp):
CGGCACTCATTAGAGACTTCGTATAAGACCATATCTCGAACATGGCATCGATGTGAGGTCCCATA
TAAGACCATGTCTGGGGCATGGCAG
Found at i:52019030 original size:40 final size:40
Alignment explanation
Indices: 52018975--52019192 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
52018965 TGGATGATAA
* * *
52018975 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
52019015 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
52019055 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
52019095 CCGGGATAAGTCCCAAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
52019135 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
52019175 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
52019193 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 16 0.10
40 144 0.90
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:52026215 original size:13 final size:13
Alignment explanation
Indices: 52026197--52026221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52026187 CTCGGTAGAG
52026197 ACACGCCCGTGTA
1 ACACGCCCGTGTA
52026210 ACACGCCCGTGT
1 ACACGCCCGTGT
52026222 GTGCTTACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:52032030 original size:19 final size:19
Alignment explanation
Indices: 52032006--52032066 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
52031996 GGACATGTGT
52032006 GTGTCCCATGCACAC-AGGC
1 GTGTCCCATGCACACGA-GC
*
52032025 GTGTCCCATGCACACGAGT
1 GTGTCCCATGCACACGAGC
*
52032044 GTGTCCCATGCACATGAGC
1 GTGTCCCATGCACACGAGC
52032063 GTGT
1 GTGT
52032067 GCATTGCCCC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 37 0.97
20 1 0.03
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.21
Consensus pattern (19 bp):
GTGTCCCATGCACACGAGC
Found at i:52032503 original size:13 final size:13
Alignment explanation
Indices: 52032485--52032510 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52032475 GGAACTTAAC
52032485 CTTATGTATTGGG
1 CTTATGTATTGGG
52032498 CTTATGTATTGGG
1 CTTATGTATTGGG
52032511 ATTTCATCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.31, T:0.46
Consensus pattern (13 bp):
CTTATGTATTGGG
Found at i:52040016 original size:16 final size:16
Alignment explanation
Indices: 52039995--52040047 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
52039985 TTGAATTGAG
52039995 AAAATTATTTAATTAA
1 AAAATTATTTAATTAA
*
52040011 AAAATTAATTAATTAA
1 AAAATTATTTAATTAA
* *
52040027 ATAA-TATTTATTTTAA
1 AAAATTATTTA-ATTAA
52040043 AAAAT
1 AAAAT
52040048 AGAAAAACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 5 0.17
16 25 0.83
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAATTATTTAATTAA
Found at i:52054710 original size:22 final size:23
Alignment explanation
Indices: 52054680--52054736 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 23
52054670 AAAGGCTCTC
52054680 TAAGACAAGC-TTTGATTTTCTTG
1 TAAG-CAAGCGTTTGATTTTCTTG
52054703 TAAGCAAGTTGCGTTTGATTTTCTTG
1 TAAGCAA---GCGTTTGATTTTCTTG
52054729 TAAGCAAG
1 TAAGCAAG
52054737 TTGCGTATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
22 3 0.10
23 5 0.17
25 2 0.07
26 20 0.67
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.40
Consensus pattern (23 bp):
TAAGCAAGCGTTTGATTTTCTTG
Found at i:52054719 original size:26 final size:26
Alignment explanation
Indices: 52054690--52054748 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
52054680 TAAGACAAGC
52054690 TTTGATTTTCTTGTAAGCAAGTTGCG
1 TTTGATTTTCTTGTAAGCAAGTTGCG
52054716 TTTGATTTTCTTGTAAGCAAGTTGCG
1 TTTGATTTTCTTGTAAGCAAGTTGCG
*
52054742 TATGATT
1 TTTGATT
52054749 GATCTATATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.20, C:0.10, G:0.22, T:0.47
Consensus pattern (26 bp):
TTTGATTTTCTTGTAAGCAAGTTGCG
Found at i:52063609 original size:16 final size:16
Alignment explanation
Indices: 52063588--52063628 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
52063578 TTTTGTATTA
52063588 TTTTAATATTAAATAT
1 TTTTAATATTAAATAT
*
52063604 TTTTAAAATTAAATAT
1 TTTTAATATTAAATAT
*
52063620 TATTAATAT
1 TTTTAATAT
52063629 ACCTTATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTAATATTAAATAT
Found at i:52064816 original size:16 final size:16
Alignment explanation
Indices: 52064795--52064826 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52064785 CTTATAGAAT
52064795 GGAAATAATAATGATA
1 GGAAATAATAATGATA
52064811 GGAAATAATAATGATA
1 GGAAATAATAATGATA
52064827 AAAAATCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (16 bp):
GGAAATAATAATGATA
Found at i:52064832 original size:16 final size:16
Alignment explanation
Indices: 52064797--52064832 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
52064787 TATAGAATGG
**
52064797 AAATAATAATGATAGG
1 AAATAATAATGATAAA
52064813 AAATAATAATGATAAA
1 AAATAATAATGATAAA
52064829 AAAT
1 AAAT
52064833 CTAACAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (16 bp):
AAATAATAATGATAAA
Found at i:52065719 original size:8 final size:8
Alignment explanation
Indices: 52065704--52065733 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
52065694 ACAAAAGTAC
52065704 ACATTTCA
1 ACATTTCA
*
52065712 AGATTTCA
1 ACATTTCA
52065720 ACATTTCA
1 ACATTTCA
52065728 ACATTT
1 ACATTT
52065734 TTTGACAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.40
Consensus pattern (8 bp):
ACATTTCA
Found at i:52077137 original size:18 final size:18
Alignment explanation
Indices: 52077114--52077151 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
52077104 TTCGTAAGTC
52077114 ATGTCGGACTAAATTTCA
1 ATGTCGGACTAAATTTCA
*
52077132 ATGTCGGACTGAATTTCA
1 ATGTCGGACTAAATTTCA
52077150 AT
1 AT
52077152 CTCAGATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (18 bp):
ATGTCGGACTAAATTTCA
Found at i:52085640 original size:34 final size:34
Alignment explanation
Indices: 52085598--52085666 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
52085588 CATTCGAGTA
*
52085598 AAAAAATATTTATATATTATTTTCTGTGTTTATT
1 AAAAAATATTTAAATATTATTTTCTGTGTTTATT
52085632 AAAAAATATTTAAATATTATTTTCTGTGTTTATT
1 AAAAAATATTTAAATATTATTTTCTGTGTTTATT
52085666 A
1 A
52085667 TATGTGAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.54
Consensus pattern (34 bp):
AAAAAATATTTAAATATTATTTTCTGTGTTTATT
Found at i:52087148 original size:35 final size:36
Alignment explanation
Indices: 52087098--52087191 Score: 111
Period size: 35 Copynumber: 2.6 Consensus size: 36
52087088 CATAGGTAAG
*
52087098 TACATGTAAGCTTATATTGAACTAGTA-TATTCGAC
1 TACATGTGAGCTTATATTGAACTAGTAGTATTCGAC
* * ** *
52087133 TGCATGTGAGATTATATTGAA-TTTTAGTATTCGAT
1 TACATGTGAGCTTATATTGAACTAGTAGTATTCGAC
52087168 TACATGTGAGCTTATATTTGAACT
1 TACATGTGAGCTTATA-TTGAACT
52087192 TGCATACTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 3 0.06
35 39 0.81
36 5 0.10
37 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (36 bp):
TACATGTGAGCTTATATTGAACTAGTAGTATTCGAC
Found at i:52092785 original size:16 final size:17
Alignment explanation
Indices: 52092773--52092821 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
52092763 AAAAAGAATG
52092773 AAAAG-GGAAAAGAAAA
1 AAAAGTGGAAAAGAAAA
*
52092789 AAAAGTGGAAAAGAGAGGA
1 AAAAGTGGAAAAGA-A-AA
52092808 AAAAGTGAGAAAAG
1 AAAAGTG-GAAAAG
52092822 TGAGAAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 5 0.18
17 8 0.29
18 1 0.04
19 8 0.29
20 6 0.21
ACGTcount: A:0.65, C:0.00, G:0.31, T:0.04
Consensus pattern (17 bp):
AAAAGTGGAAAAGAAAA
Found at i:52092829 original size:18 final size:20
Alignment explanation
Indices: 52092788--52092833 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
52092778 GGAAAAGAAA
52092788 AAAAAGTG-GAAAAGAGAGG
1 AAAAAGTGAGAAAAGAGAGG
*
52092807 AAAAAGTGAGAAAAGTGA-G
1 AAAAAGTGAGAAAAGAGAGG
52092826 -AAAAGTGA
1 AAAAAGTGA
52092834 TTCAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.59, C:0.00, G:0.33, T:0.09
Consensus pattern (20 bp):
AAAAAGTGAGAAAAGAGAGG
Found at i:52092830 original size:9 final size:9
Alignment explanation
Indices: 52092789--52092833 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
52092779 GAAAAGAAAA
52092789 AAAAGTG-G
1 AAAAGTGAG
*
52092797 AAAAGAGAGG
1 AAAAGTGA-G
52092807 AAAAAGTGAG
1 -AAAAGTGAG
52092817 AAAAGTGAG
1 AAAAGTGAG
52092826 AAAAGTGA
1 AAAAGTGA
52092834 TTCAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 6 0.19
9 17 0.53
10 2 0.06
11 7 0.22
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.09
Consensus pattern (9 bp):
AAAAGTGAG
Found at i:52099583 original size:40 final size:40
Alignment explanation
Indices: 52099528--52099738 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
52099518 ATTTGAATGA
*
52099528 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
52099568 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
52099608 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
52099648 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
52099688 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
52099728 TATCC-GGCTAA
1 TATCCGGGCTAA
52099739 ATTCCGAAGA
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:52101655 original size:13 final size:14
Alignment explanation
Indices: 52101625--52101655 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
52101615 TTTCTTATGA
52101625 TTTTTAAAAGTAGT
1 TTTTTAAAAGTAGT
52101639 TTTTTAAAAGTAGT
1 TTTTTAAAAGTAGT
52101653 TTT
1 TTT
52101656 CTTCTCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (14 bp):
TTTTTAAAAGTAGT
Found at i:52101917 original size:18 final size:17
Alignment explanation
Indices: 52101896--52101947 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
52101886 AATTATTCTT
52101896 TTTTCTTTTTTTTTTTAA
1 TTTTCTTTTTTTTTTT-A
* **
52101914 TTTTCTTATTTTGGTTA
1 TTTTCTTTTTTTTTTTA
52101931 TTTTCTTTATTTTTTTT
1 TTTTCTTT-TTTTTTTT
52101948 TCTAAATTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.10, C:0.06, G:0.04, T:0.81
Consensus pattern (17 bp):
TTTTCTTTTTTTTTTTA
Found at i:52103737 original size:9 final size:9
Alignment explanation
Indices: 52103723--52103770 Score: 64
Period size: 10 Copynumber: 5.3 Consensus size: 9
52103713 AGATAGTGTG
52103723 TTAATATTT
1 TTAATATTT
52103732 TTAATATTTT
1 TTAATA-TTT
52103742 TTAATATTTT
1 TTAATA-TTT
52103752 TTAATA-TT
1 TTAATATTT
52103760 TT-ATATTT
1 TTAATATTT
52103768 TTA
1 TTA
52103771 GATACCTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 3 0.08
8 8 0.22
9 6 0.17
10 19 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTAATATTT
Found at i:52103744 original size:10 final size:10
Alignment explanation
Indices: 52103723--52103761 Score: 71
Period size: 10 Copynumber: 4.0 Consensus size: 10
52103713 AGATAGTGTG
52103723 TTAATA-TTT
1 TTAATATTTT
52103732 TTAATATTTT
1 TTAATATTTT
52103742 TTAATATTTT
1 TTAATATTTT
52103752 TTAATATTTT
1 TTAATATTTT
52103762 ATATTTTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 6 0.21
10 23 0.79
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTAATATTTT
Found at i:52117032 original size:20 final size:21
Alignment explanation
Indices: 52117007--52117046 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
52116997 TCTTAAAAAT
52117007 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
52117027 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
52117047 CCATTAGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:52117236 original size:28 final size:28
Alignment explanation
Indices: 52117196--52117260 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
52117186 CATGTCCATG
52117196 GCCCGTGTCCCTTACACAGCCATGACAC
1 GCCCGTGTCCCTTACACAGCCATGACAC
*
52117224 GCCCGTGTCCCTTACACGGCCATGACAC
1 GCCCGTGTCCCTTACACAGCCATGACAC
*
52117252 GTCCGTGTC
1 GCCCGTGTC
52117261 TTAGCCGTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.17, C:0.42, G:0.22, T:0.20
Consensus pattern (28 bp):
GCCCGTGTCCCTTACACAGCCATGACAC
Found at i:52119736 original size:27 final size:27
Alignment explanation
Indices: 52119706--52119910 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
52119696 ATATTGAGTC
* * * *
52119706 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
52119733 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52119760 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
52119788 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
52119815 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
52119842 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52119869 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52119896 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52119911 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:52127951 original size:27 final size:27
Alignment explanation
Indices: 52127920--52128124 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
52127910 ATATTGAGTC
* * *
52127920 CGCACACTCAGTGCTATATCA-TCAACT
1 CGCACACTTAGTGCTACAT-AGTCAAAT
* *
52127947 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52127974 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
52128002 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
52128029 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
52128056 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52128083 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52128110 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52128125 GTACAATTTA
Statistics
Matches: 156, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 131 0.84
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:52138378 original size:27 final size:26
Alignment explanation
Indices: 52138326--52138382 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
52138316 ACTAAAACCC
*
52138326 AAATTATTAATGAAATATTTTAAAAT
1 AAATTATTAATGAAATATGTTAAAAT
*
52138352 AAATTATTAAAT-ATAATATGTTCAAAT
1 AAATTATT-AATGA-AATATGTTAAAAT
52138379 AAAT
1 AAAT
52138383 CTAAAATAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (26 bp):
AAATTATTAATGAAATATGTTAAAAT
Found at i:52143350 original size:27 final size:27
Alignment explanation
Indices: 52143312--52143372 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
52143302 ATAAGTATAA
* ***
52143312 AATTAATCAAATTAATTGAATTAACCG
1 AATTACTCAAATTAACCAAATTAACCG
*
52143339 AATTACTCAAATTACCCAAATTAACCG
1 AATTACTCAAATTAACCAAATTAACCG
52143366 AATTACT
1 AATTACT
52143373 TGTATAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.31
Consensus pattern (27 bp):
AATTACTCAAATTAACCAAATTAACCG
Found at i:52166494 original size:25 final size:27
Alignment explanation
Indices: 52166457--52166509 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
52166447 TCAAACATGC
52166457 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
52166483 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
52166509 A
1 A
52166510 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:52168428 original size:40 final size:40
Alignment explanation
Indices: 52168321--52168523 Score: 252
Period size: 40 Copynumber: 5.1 Consensus size: 40
52168311 CGGATGATAA
* * *
52168321 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
* *
52168361 CCGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATAC
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
* * *
52168400 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
52168440 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
52168480 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
52168520 CCGG
1 CCGG
52168524 TTAAATCCGA
Statistics
Matches: 144, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 33 0.23
40 111 0.77
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:52176552 original size:40 final size:40
Alignment explanation
Indices: 52176445--52176661 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
52176435 CGGATGATAA
* * *
52176445 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
* *
52176485 CCGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATAC
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
* * *
52176524 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
52176564 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
52176604 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
52176644 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
52176662 TACTTGGTTT
Statistics
Matches: 155, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 46 0.30
40 109 0.70
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:52176647 original size:80 final size:80
Alignment explanation
Indices: 52176445--52176661 Score: 250
Period size: 79 Copynumber: 2.7 Consensus size: 80
52176435 CGGATGATAA
* * *
52176445 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAG-CCCGAAGGCAAT
1 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAG-CTATA-TCCGGGCTAAGTCCCGAAGGCAAT
*
52176507 TGTGCGAGTTATTATAC
64 TGTGCGAGTTACTATAC
* *
52176524 CCGGGCTAAT-TCCCGAAGGCATTCGTGCGAGTTA-TTATGTCCGGGCTAAGTCCCGAAGGC-AT
1 CCGGGCT-ATGTCCCGAAGGCATTCGTGCGAG-TAGCTATATCCGGGCTAAGTCCCGAAGGCAAT
*
52176586 TGGTGCGAGTTACTATAT
64 T-GTGCGAGTTACTATAC
* * *
52176604 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGG
52176662 TACTTGGTTT
Statistics
Matches: 118, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
79 60 0.51
80 58 0.49
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGGCAATTG
TGCGAGTTACTATAC
Found at i:52176657 original size:119 final size:119
Alignment explanation
Indices: 52176445--52176661 Score: 289
Period size: 119 Copynumber: 1.8 Consensus size: 119
52176435 CGGATGATAA
* * *
52176445 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAATTGT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAATTGA
* *
52176510 GCGAGTTATTATACCCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
66 GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTATTATGT
* *
52176564 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATATCCGGGCTATGTCCCGAAGGC-ATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGCAATT
* *
52176627 CGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
64 -GAGCGAGTTA-CTATACCCGGGCTAAATCCCGAAGG
52176662 TACTTGGTTT
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
118 2 0.02
119 62 0.73
120 21 0.25
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAATTGA
GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTATTATGT
Found at i:52179452 original size:26 final size:26
Alignment explanation
Indices: 52179416--52179499 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
52179406 CATGAAATTC
52179416 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
52179442 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
52179468 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
52179494 TTATCA
1 TTATCA
52179500 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:52187757 original size:46 final size:46
Alignment explanation
Indices: 52187707--52187879 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
52187697 TGGTTGAGCA
*
52187707 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * ** *
52187753 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATTTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
52187800 TCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
52187846 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
52187880 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
43 5 0.05
45 6 0.06
46 56 0.55
47 28 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:52187863 original size:93 final size:93
Alignment explanation
Indices: 52187704--52187874 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
52187694 GGATGGTTGA
* * *
52187704 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCATTGAGT
52187769 TGAGTCCGAGTTCGTGAGATTTAACTAG
66 TGAGTCCGAGTTCGTGAGATTTAACTAG
* * *
52187797 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCCAAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCATTGAG
52187861 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
52187875 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATTTAACTAG
Found at i:52188141 original size:19 final size:20
Alignment explanation
Indices: 52188104--52188141 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52188094 ATAAGGTGGT
52188104 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
52188124 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
52188142 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:52191464 original size:43 final size:42
Alignment explanation
Indices: 52191399--52191482 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 42
52191389 GAAATTTGAG
** * *
52191399 CTTGTTGAGCGGTCTGATTTCGTGATATATGTGAGAATCCGAA
1 CTTGTTGAGCGGTCCAACTTCGTAATATATGTG-GAATCCGAA
* *
52191442 CTTGTTGAGTGGTCCAACTTCGTAATATATGTGGCATCCGA
1 CTTGTTGAGCGGTCCAACTTCGTAATATATGTGGAATCCGA
52191483 GCCCGTTGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
42 7 0.20
43 28 0.80
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (42 bp):
CTTGTTGAGCGGTCCAACTTCGTAATATATGTGGAATCCGAA
Found at i:52206302 original size:43 final size:43
Alignment explanation
Indices: 52206254--52206337 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
52206244 ATATTAACGA
* * *
52206254 TATGTGATTATGTGTAAGACCATGTC-TGGGGCATTGGCATCAT
1 TATGTGATTATGTATAAGACCATG-CATGGGACATCGGCATCAT
52206297 TATGTGATTATGTATAAGACCATGCATGGGACATCGGCATC
1 TATGTGATTATGTATAAGACCATGCATGGGACATCGGCATC
52206338 GTTAATTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
TATGTGATTATGTATAAGACCATGCATGGGACATCGGCATCAT
Found at i:52216910 original size:43 final size:43
Alignment explanation
Indices: 52216811--52216937 Score: 132
Period size: 42 Copynumber: 3.0 Consensus size: 43
52216801 TTTGGAACGT
* * *
52216811 TGGCATCAACT-TATGATTTTCGTGTAAGACCATGTCTGGGGCAT
1 TGGCATCAA-TATTTGA-TTTCGTGTAAGACCATGTCTGGGACAG
* *
52216855 TGGCATC-GTATTTGATTTCGTGTAAGACCCTGTCTGGGACAG
1 TGGCATCAATATTTGATTTCGTGTAAGACCATGTCTGGGACAG
* * * * *
52216897 TGGCATCAATATTTGACTACATGTAAGACCACGTTTGGGAC
1 TGGCATCAATATTTGATTTCGTGTAAGACCATGTCTGGGAC
52216938 CTTGGCATTG
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 32 0.46
43 30 0.43
44 7 0.10
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
TGGCATCAATATTTGATTTCGTGTAAGACCATGTCTGGGACAG
Found at i:52216944 original size:43 final size:43
Alignment explanation
Indices: 52216786--52216945 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 43
52216776 ATATGTGTCA
* * * * *
52216786 TCATGTAAGACCACATTTGGAACGTTGGCATCAACT-TATGATTT
1 TCATGTAAGACCACGTCTGGGACATTGGCATCAA-TATTTGA-TT
* * * *
52216830 TCGTGTAAGACCATGTCTGGGGCATTGGCATC-GTATTTGATT
1 TCATGTAAGACCACGTCTGGGACATTGGCATCAATATTTGATT
* * *
52216872 TCGTGTAAGACC-CTGTCTGGGACAGTGGCATCAATATTTGACT
1 TCATGTAAGACCAC-GTCTGGGACATTGGCATCAATATTTGATT
* * *
52216915 ACATGTAAGACCACGTTTGGGACCTTGGCAT
1 TCATGTAAGACCACGTCTGGGACATTGGCAT
52216946 TGTATAGCTT
Statistics
Matches: 93, Mismatches: 19, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
42 31 0.33
43 36 0.39
44 26 0.28
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
TCATGTAAGACCACGTCTGGGACATTGGCATCAATATTTGATT
Found at i:52223590 original size:49 final size:51
Alignment explanation
Indices: 52223510--52223640 Score: 160
Period size: 49 Copynumber: 2.6 Consensus size: 51
52223500 TGTCACTAGT
*
52223510 GACT-CAAGTGTGGTACTATGTGAAGACCACTTTGAGAAG-AGATAGCTTG
1 GACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
* * * * *
52223559 GTC-ACAAGTGTGGTACTATGTGAAGGTCACTTTGTGAAGAAGCTAGCTTT
1 GACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
* * *
52223609 GACTACATGGGTGGTACTATGTGCAGGCCACT
1 GACTACAAGTGTGGTACTATGTGAAGGCCACT
52223641 AGGTATCCGT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 34 0.50
50 10 0.15
51 24 0.35
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (51 bp):
GACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
Found at i:52226189 original size:43 final size:43
Alignment explanation
Indices: 52226128--52226209 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
52226118 TATTAACGAG
* *
52226128 ATGTGATTATATGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTATATATAAGACCATGTCTGGGAAATTGGCATCATT
*
52226171 ATGTGATTATGTATAAGACCATGTCTGGGAAATTGGCAT
1 ATGTGATTATATATAAGACCATGTCTGGGAAATTGGCAT
52226210 TGTTAATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.34
Consensus pattern (43 bp):
ATGTGATTATATATAAGACCATGTCTGGGAAATTGGCATCATT
Found at i:52226231 original size:43 final size:43
Alignment explanation
Indices: 52226128--52226235 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
52226118 TATTAACGAG
* * *
52226128 ATGTGATTATATGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTAATTATGTGTAAGACCATGTCTGGGAAATTGGCATCATT
* * **
52226171 ATGTGATTATGTATAAGACCATGTCTGGGAAATTGGCATTGTT
1 ATGTAATTATGTGTAAGACCATGTCTGGGAAATTGGCATCATT
52226214 AAT-TAATT-TCGTGTAAGACCAT
1 -ATGTAATTAT-GTGTAAGACCAT
52226236 AGCTAGGCTA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.02
43 53 0.95
44 2 0.04
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (43 bp):
ATGTAATTATGTGTAAGACCATGTCTGGGAAATTGGCATCATT
Found at i:52233143 original size:23 final size:23
Alignment explanation
Indices: 52233113--52233170 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
52233103 AACAATTAAT
52233113 TAAT-TTTTTAAAAAATTTAAAA
1 TAATATTTTTAAAAAATTTAAAA
* * **
52233135 TATTATTTTTATAATTTTTAAAA
1 TAATATTTTTAAAAAATTTAAAA
*
52233158 TAATATTTATAAA
1 TAATATTTTTAAA
52233171 TTTTTCAATT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 3 0.11
23 25 0.89
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAATATTTTTAAAAAATTTAAAA
Found at i:52233150 original size:21 final size:20
Alignment explanation
Indices: 52233125--52233173 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
52233115 ATTTTTTAAA
*
52233125 AAATTTAAAATATTATTTTTAT
1 AAATTTAAAATA--ATATTTAT
*
52233147 AATTTTTAAAATAATATTTAT
1 AA-ATTTAAAATAATATTTAT
52233168 AAATTT
1 AAATTT
52233174 TTCAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.13
21 9 0.39
22 2 0.09
23 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATTTAAAATAATATTTAT
Found at i:52233175 original size:23 final size:23
Alignment explanation
Indices: 52233128--52233175 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
52233118 TTTTAAAAAA
* *
52233128 TTTAAAATATTATTTTTATAATT
1 TTTAAAATAATATTTATATAATT
52233151 TTTAAAATAATATTTATA-AATT
1 TTTAAAATAATATTTATATAATT
52233173 TTT
1 TTT
52233176 CAATTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTAAAATAATATTTATATAATT
Found at i:52233778 original size:29 final size:30
Alignment explanation
Indices: 52233718--52233783 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
52233708 ATTGGATTTG
* *
52233718 AATTTTAAAATATAAAAAATAGACAGATTA
1 AATTTTAAAATATAAAAAATAAACAGACTA
*
52233748 AATTTCTAAAA-AT-AAAAATAAATAGACTA
1 AATTT-TAAAATATAAAAAATAAACAGACTA
52233777 AATTTTA
1 AATTTTA
52233784 TATACGTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.06
29 18 0.56
30 7 0.22
31 5 0.16
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (30 bp):
AATTTTAAAATATAAAAAATAAACAGACTA
Found at i:52244413 original size:30 final size:29
Alignment explanation
Indices: 52244377--52244437 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
52244367 AAATGGAAGT
52244377 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
52244407 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
52244436 TT
1 TT
52244438 CAGCTATTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:52257073 original size:19 final size:18
Alignment explanation
Indices: 52257043--52257085 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
52257033 AATTATGATT
*
52257043 CAAAAATCAGCT-ACAATA
1 CAAAAATAAGCTGA-AATA
52257061 CATAAAATAAGCTGAAATA
1 CA-AAAATAAGCTGAAATA
52257080 CAAAAA
1 CAAAAA
52257086 CATAATAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 15 0.68
20 1 0.05
ACGTcount: A:0.60, C:0.16, G:0.07, T:0.16
Consensus pattern (18 bp):
CAAAAATAAGCTGAAATA
Found at i:52257448 original size:30 final size:30
Alignment explanation
Indices: 52257414--52257474 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52257404 TCCTTAACTC
52257414 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
52257444 AAACTTTTGCAAATTTACACTTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
52257474 A
1 A
52257475 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:52266896 original size:59 final size:59
Alignment explanation
Indices: 52266804--52266919 Score: 214
Period size: 59 Copynumber: 2.0 Consensus size: 59
52266794 CTTATCGAAA
* *
52266804 ATAAGCAACCCGATTGAAAGACTAATATGTCACCTATCAATTCCAATTGGGAAGATTCT
1 ATAAGCAAACCGATTAAAAGACTAATATGTCACCTATCAATTCCAATTGGGAAGATTCT
52266863 ATAAGCAAACCGATTAAAAGACTAATATGTCACCTATCAATTCCAATTGGGAAGATT
1 ATAAGCAAACCGATTAAAAGACTAATATGTCACCTATCAATTCCAATTGGGAAGATT
52266920 TTTTGTTCTG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (59 bp):
ATAAGCAAACCGATTAAAAGACTAATATGTCACCTATCAATTCCAATTGGGAAGATTCT
Found at i:52269151 original size:47 final size:47
Alignment explanation
Indices: 52269090--52269258 Score: 213
Period size: 47 Copynumber: 3.6 Consensus size: 47
52269080 ATCCATAAGT
52269090 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
52269137 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATC-CATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC-T---C
*
52269183 GAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
*
52269230 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
52269259 CATTCGCATC
Statistics
Matches: 102, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 27 0.26
47 55 0.54
49 1 0.01
50 8 0.08
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:52269203 original size:93 final size:93
Alignment explanation
Indices: 52269044--52269308 Score: 469
Period size: 93 Copynumber: 2.8 Consensus size: 93
52269034 GCCCATAAGT
* *
52269044 GAACTCGGACTCAACTTAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
52269108 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
52269137 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52269202 CGAGCTTGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
52269230 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52269295 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
52269309 CAAACATCCT
Statistics
Matches: 164, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
92 2 0.01
93 162 0.99
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:52269304 original size:46 final size:45
Alignment explanation
Indices: 52269036--52269303 Score: 267
Period size: 46 Copynumber: 5.8 Consensus size: 45
52269026 TGTAACCCGC
* *
52269036 CCATAAGTGAACTCGGACTCAACTTAACGAGCTCAGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
* *
52269082 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--T
* *** *
52269128 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
*
52269175 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGCATTCGC-A--T
* ***
52269221 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
52269268 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
52269304 ATGCCCAAAC
Statistics
Matches: 182, Mismatches: 24, Indels: 32
0.76 0.10 0.13
Matches are distributed among these distances:
43 2 0.01
44 7 0.04
45 2 0.01
46 98 0.54
47 64 0.35
49 7 0.04
50 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:52270218 original size:19 final size:19
Alignment explanation
Indices: 52270194--52270233 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
52270184 GCTATATTCT
52270194 GCCATGGGGTTGAAGATGA
1 GCCATGGGGTTGAAGATGA
52270213 GCCATGGGGTTGAAGATGA
1 GCCATGGGGTTGAAGATGA
52270232 GC
1 GC
52270234 AAAATTGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.12, G:0.42, T:0.20
Consensus pattern (19 bp):
GCCATGGGGTTGAAGATGA
Found at i:52272916 original size:27 final size:26
Alignment explanation
Indices: 52272860--52272916 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
52272850 CAACCTTAAC
* * * *
52272860 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTGTCCA
*
52272886 CCTAGGGGTAAATCTGTAAATTGTCCA
1 CCTAGGGGTAAATCAGT-AATTGTCCA
52272913 CCTA
1 CCTA
52272917 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTGTCCA
Found at i:52279943 original size:19 final size:19
Alignment explanation
Indices: 52279917--52280033 Score: 132
Period size: 19 Copynumber: 6.1 Consensus size: 19
52279907 ATCTTTAAGA
52279917 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
* *
52279936 ACATGCAATCTTAGATGTG
1 ATATGCAATCTTAGATATG
*
52279955 ATATGAAATCTTAGATATG
1 ATATGCAATCTTAGATATG
52279974 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
**
52279991 ATATG-ATATGATATGATATG
1 ATATGCA-ATCTTA-GATATG
52280011 ATATGCAATCTTGAAGATATG
1 ATATGCAATCTT--AGATATG
52280032 AT
1 AT
52280034 TTTGTAATCT
Statistics
Matches: 81, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
17 16 0.20
18 1 0.01
19 40 0.49
20 14 0.17
21 9 0.11
22 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Done.