Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 136 of 290
Found at i:46103816 original size:20 final size:19
Alignment explanation
Indices: 46103752--46103819 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
46103742 CATGTATCGC
*
46103752 AAATTATATTATTTATGTTT
1 AAATTATATTA-TTATTTTT
* **
46103772 ATATTATATATATTACTTTAA
1 AAATTATAT-TATTA-TTTTT
46103793 AAATGTATATTATTATTTTT
1 AAAT-TATATTATTATTTTT
46103813 AAATTAT
1 AAATTAT
46103820 CTTTTTAACT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
19 3 0.08
20 18 0.47
21 12 0.32
22 5 0.13
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (19 bp):
AAATTATATTATTATTTTT
Found at i:46108056 original size:47 final size:48
Alignment explanation
Indices: 46107905--46108103 Score: 173
Period size: 47 Copynumber: 4.2 Consensus size: 48
46107895 AAAAGTTGCT
*
46107905 AATACGTTGTGGATGAACCACTAGTC-ATGCAGATAAACTGAC-GACTAAA
1 AATACGTTGTAGATGAACCACTAGTCGA-GCAGATAAACTG-CTGACT-AA
* * * * * * *
46107954 AATA--TTGCTGGATGAACCATCCA-TGGGTGCAGATAAA-AGTTG-CT-T
1 AATACGTTG-TAGATGAACCA-CTAGT-CGAGCAGATAAACTGCTGACTAA
* * *
46107999 AATACATTGTAGATGAACCACTAGTCGAGCAGAT-GACTGTTGACTAA
1 AATACGTTGTAGATGAACCACTAGTCGAGCAGATAAACTGCTGACTAA
*
46108046 AATACGTTGTAGATGAACCACTAGTCGAGTAGATAAACTGCTGACTAA
1 AATACGTTGTAGATGAACCACTAGTCGAGCAGATAAACTGCTGACTAA
46108094 AATACGTTGT
1 AATACGTTGT
46108104 GGATAAACTG
Statistics
Matches: 121, Mismatches: 17, Indels: 25
0.74 0.10 0.15
Matches are distributed among these distances:
44 1 0.01
45 17 0.14
46 13 0.11
47 40 0.33
48 35 0.29
49 15 0.12
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.26
Consensus pattern (48 bp):
AATACGTTGTAGATGAACCACTAGTCGAGCAGATAAACTGCTGACTAA
Found at i:46108061 original size:93 final size:93
Alignment explanation
Indices: 46107891--46108065 Score: 232
Period size: 94 Copynumber: 1.9 Consensus size: 93
46107881 CTGTCTATTA
* *
46107891 AGATAAAAGTTGCTAATACGTTGTGGATGAACCACTAGTCATGCAGATAAACTGACGACTAAAAA
1 AGATAAAAGTTGCTAATACATTGTAGATGAACCACTAGTCATGCAGATAAACTGACGACTAAAAA
*
46107956 TATTGCTGGATGAACCATCCATGGGTGC
66 TATTGCTAGATGAACCATCCATGGGTGC
* **
46107984 AGATAAAAGTTGCTTAATACATTGTAGATGAACCACTAGTCGA-GCAGAT-GACTGTTGACT-AA
1 AGATAAAAGTTGC-TAATACATTGTAGATGAACCACTAGTC-ATGCAGATAAACTGACGACTAAA
46108046 AATACGTTG-TAGATGAACCA
64 AATA--TTGCTAGATGAACCA
46108066 CTAGTCGAGT
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
92 6 0.08
93 31 0.43
94 34 0.47
95 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (93 bp):
AGATAAAAGTTGCTAATACATTGTAGATGAACCACTAGTCATGCAGATAAACTGACGACTAAAAA
TATTGCTAGATGAACCATCCATGGGTGC
Found at i:46108981 original size:26 final size:26
Alignment explanation
Indices: 46108952--46109059 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
46108942 TGGTACAAAT
46108952 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
46108978 TGATAATGGATTAAGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46109004 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
46109030 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46109056 TGAT
1 TGAT
46109060 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:46110714 original size:27 final size:27
Alignment explanation
Indices: 46110674--46110750 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
46110664 AGGAAGCGTC
46110674 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
46110701 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
46110728 CTGGTGGCTTTGCCACAA-TATCT
1 CTGGTGGCTATGCCACAATTATCT
46110751 ATATCTAGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.16
27 37 0.82
28 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:46112184 original size:16 final size:15
Alignment explanation
Indices: 46112149--46112191 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
46112139 ATTAAGAGAG
46112149 AAAAGAGG-A-AAAT
1 AAAAGAGGAAGAAAT
46112162 AAAAGAGGAAGAAAT
1 AAAAGAGGAAGAAAT
*
46112177 AAATAGAGGATGAAA
1 AAA-AGAGGAAGAAA
46112192 AGGACTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 8 0.31
14 1 0.04
15 7 0.27
16 10 0.38
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (15 bp):
AAAAGAGGAAGAAAT
Found at i:46113770 original size:48 final size:47
Alignment explanation
Indices: 46113659--46113772 Score: 133
Period size: 48 Copynumber: 2.4 Consensus size: 47
46113649 TCTTAATATG
* * *
46113659 TTATGGATGAACCAATGGTCGAGCAGATAATTGACGATAAAAGTACA
1 TTATGGATAAACCATTGGTCGAGCAGATAACTGACGATAAAAGTACA
* * *
46113706 TTGTGGATAAACCATTGGTCGAGTAGATAAACT-ATCGACTAAAA-TACT
1 TTATGGATAAACCATTGGTCGAGCAGAT-AACTGA-CGA-TAAAAGTACA
46113754 TTATGGATAAACCATTGGT
1 TTATGGATAAACCATTGGT
46113773 GAAGCAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
47 25 0.44
48 27 0.47
49 5 0.09
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (47 bp):
TTATGGATAAACCATTGGTCGAGCAGATAACTGACGATAAAAGTACA
Found at i:46123101 original size:22 final size:22
Alignment explanation
Indices: 46123054--46123095 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
46123044 GTGGTAGAAA
* *
46123054 TCTGTATCTGTATCTGATATGT
1 TCTGCATCTATATCTGATATGT
46123076 TCTGCATCTATATCTGATAT
1 TCTGCATCTATATCTGATAT
46123096 TCTCTGTTTT
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:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (22 bp):
TCTGCATCTATATCTGATATGT
Found at i:46123309 original size:21 final size:21
Alignment explanation
Indices: 46123285--46123331 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
46123275 TTTCTTCTTA
46123285 TTTAATGT-TTTA-TTTAGACCT
1 TTTAATGTGTTTAGTTTAGA--T
46123306 TTT-ATGTGTTTAGTTTAGAT
1 TTTAATGTGTTTAGTTTAGAT
46123326 TTTAAT
1 TTTAAT
46123332 TTATAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 8 0.35
21 9 0.39
22 6 0.26
ACGTcount: A:0.23, C:0.04, G:0.13, T:0.60
Consensus pattern (21 bp):
TTTAATGTGTTTAGTTTAGAT
Found at i:46127864 original size:19 final size:19
Alignment explanation
Indices: 46127828--46127866 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
46127818 TTTTCATCAT
* *
46127828 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
46127847 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
46127866 A
1 A
46127867 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:46128377 original size:56 final size:55
Alignment explanation
Indices: 46128304--46128408 Score: 140
Period size: 56 Copynumber: 1.9 Consensus size: 55
46128294 CAGCAGGCTG
* *
46128304 CCAGATACAGAAAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGTGCCC
1 CCAGATACAGAAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCAGTGCCC
* * *
46128360 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCA
1 CCAGATACAGA-AAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCA
46128409 TAGCCACCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
55 21 0.49
56 22 0.51
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (55 bp):
CCAGATACAGAAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCAGTGCCC
Found at i:46128381 original size:27 final size:27
Alignment explanation
Indices: 46128329--46128418 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 27
46128319 GTGACAGAGT
*
46128329 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
* *
46128358 CCCCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
**
46128385 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAGGGC
46128413 CACCAG
1 CACCAG
46128419 GACGCTTTCT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 23 0.43
28 24 0.45
29 6 0.11
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:46128414 original size:28 final size:27
Alignment explanation
Indices: 46128329--46128418 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
46128319 GTGACAGAGT
*
46128329 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* * *
46128358 CCCCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
46128385 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
46128413 CACCAG
1 CACCAG
46128419 GACGCTTTCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 23 0.44
29 6 0.12
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:46128571 original size:28 final size:28
Alignment explanation
Indices: 46128524--46128588 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
46128514 GAATTAACCC
*
46128524 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
* *
46128552 TAGGGGTATAATGGTAATTTTGTATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
46128580 TAGGGGTAT
1 TAGGGGTAT
46128589 TCTAGTACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:46135737 original size:19 final size:19
Alignment explanation
Indices: 46135701--46135739 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
46135691 TTTTCATCAT
* *
46135701 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
46135720 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
46135739 A
1 A
46135740 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:46136243 original size:55 final size:56
Alignment explanation
Indices: 46136178--46136292 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
46136168 AGCATGGCTG
** *
46136178 CCAGATACAGA-AAATGTGACAGATTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
46136234 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
46136289 CCAG
1 CCAG
46136293 GACGCTTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:46136255 original size:27 final size:27
Alignment explanation
Indices: 46136203--46136292 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
46136193 GTGACAGATT
46136203 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
46136232 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
46136259 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
46136287 CACCAG
1 CACCAG
46136293 GACGCTTTCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:46136445 original size:28 final size:28
Alignment explanation
Indices: 46136398--46136462 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
46136388 GAATTAACCC
*
46136398 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
* *
46136426 TAGGGGTATAATGGTAATTTTGTATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
46136454 TAGGGGTAT
1 TAGGGGTAT
46136463 TCTAGTACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:46138665 original size:49 final size:49
Alignment explanation
Indices: 46138608--46138704 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
46138598 GCCCACTGAG
46138608 TATTCAATCTCCTTACGCTTCAGATCTGCATACGACTTTTACCTATCAA
1 TATTCAATCTCCTTACGCTTCAGATCTGCATACGACTTTTACCTATCAA
*
46138657 TATTCAATCTCCTTACGCTTCAGATCTGCATACGACTTTTGCCTATCA
1 TATTCAATCTCCTTACGCTTCAGATCTGCATACGACTTTTACCTATCA
46138705 GACGCTTCCT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.25, C:0.29, G:0.09, T:0.37
Consensus pattern (49 bp):
TATTCAATCTCCTTACGCTTCAGATCTGCATACGACTTTTACCTATCAA
Found at i:46143657 original size:18 final size:18
Alignment explanation
Indices: 46143634--46143677 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
46143624 ACTCAACAGG
46143634 TAAAGTCTTACTGGATGC
1 TAAAGTCTTACTGGATGC
46143652 TAAAGTCTTACTGGATGC
1 TAAAGTCTTACTGGATGC
46143670 TAAAGTCT
1 TAAAGTCT
46143678 CACATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (18 bp):
TAAAGTCTTACTGGATGC
Found at i:46146611 original size:40 final size:40
Alignment explanation
Indices: 46146534--46146738 Score: 272
Period size: 40 Copynumber: 5.2 Consensus size: 40
46146524 ACCCAAGTAT
* * *
46146534 CTTCGAGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
46146573 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
46146613 CTTCGGGACTTAGCCCAGATATGGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
46146653 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
46146693 CTTTGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
46146733 CTTCGG
1 CTTCGG
46146739 ATCTTAGTCC
Statistics
Matches: 145, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 11 0.08
40 133 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:46146650 original size:80 final size:80
Alignment explanation
Indices: 46146550--46146750 Score: 305
Period size: 80 Copynumber: 2.5 Consensus size: 80
46146540 GATTTAGCCG
*
46146550 GATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGCCT
1 GATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGCCT
46146615 TCGGGACTTAGCCCA
66 TCGGGACTTAGCCCA
* * *
46146630 GATATGGTC-GCTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGCC
1 GATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGCC
* *
46146694 TTTGGGACTTAGCCCG
65 TTCGGGACTTAGCCCA
* * *
46146710 GATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 GATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
46146751 TTATCATCCG
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 1 0.01
80 105 0.98
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (80 bp):
GATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGCCT
TCGGGACTTAGCCCA
Found at i:46153449 original size:40 final size:40
Alignment explanation
Indices: 46153368--46153585 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
46153358 CAACCAAGTA
* * *
46153368 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
46153407 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
46153447 CCTTTGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
46153487 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
46153527 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
46153567 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46153586 TTATCATCCA
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 15 0.09
40 150 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:46160247 original size:20 final size:20
Alignment explanation
Indices: 46160219--46160265 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
46160209 TTTAGCAATC
*
46160219 TTTTATTTTTATTTTAATAT
1 TTTTATTTTTAATTTAATAT
*
46160239 TTTTGTTTTTAATTTAATAT
1 TTTTATTTTTAATTTAATAT
*
46160259 TTATATT
1 TTTTATT
46160266 CTAATTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTATTTTTAATTTAATAT
Found at i:46163164 original size:12 final size:12
Alignment explanation
Indices: 46163147--46163212 Score: 68
Period size: 11 Copynumber: 5.6 Consensus size: 12
46163137 TTGTTACCTT
46163147 AAAAAAATTTGA
1 AAAAAAATTTGA
46163159 AAAAAAATTT-A
1 AAAAAAATTTGA
46163170 AAAAACAACTTTTGA
1 AAAAA-AA--TTTGA
*
46163185 AAAAAAA-TT-C
1 AAAAAAATTTGA
46163195 AAAAAAA-TTGA
1 AAAAAAATTTGA
46163206 AAAAAAA
1 AAAAAAA
46163213 AGTGGTCTAC
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
10 9 0.19
11 15 0.32
12 12 0.26
14 5 0.11
15 6 0.13
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (12 bp):
AAAAAAATTTGA
Found at i:46163690 original size:29 final size:29
Alignment explanation
Indices: 46163659--46163713 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
46163649 TTTATATTTT
46163659 TTTTGTT-TTATT-TTGCTTTTGCTTTTGC
1 TTTTGTTCTTATTCTTG-TTTTGCTTTTGC
*
46163687 TTTTGTTCTTATTCTTGTTTTGTTTTT
1 TTTTGTTCTTATTCTTGTTTTGCTTTT
46163714 TTTATGCACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 7 0.29
29 14 0.58
30 3 0.12
ACGTcount: A:0.04, C:0.09, G:0.13, T:0.75
Consensus pattern (29 bp):
TTTTGTTCTTATTCTTGTTTTGCTTTTGC
Found at i:46172420 original size:37 final size:37
Alignment explanation
Indices: 46172372--46172445 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
46172362 GCACTTGCCT
*
46172372 TAGTTGGATTTTTAATTGGTTTCATGGACATCAACTA
1 TAGTCGGATTTTTAATTGGTTTCATGGACATCAACTA
46172409 TAGTCGGATTTTTAATTGGTTTCATGGACATCAACTA
1 TAGTCGGATTTTTAATTGGTTTCATGGACATCAACTA
46172446 CCCAATCTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (37 bp):
TAGTCGGATTTTTAATTGGTTTCATGGACATCAACTA
Found at i:46177318 original size:26 final size:28
Alignment explanation
Indices: 46177288--46177363 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
46177278 ATTATTTGTT
46177288 TTATTTTAATTTTACTTTTA-TATAA-TA
1 TTATTTTAATTTTA-TTTTATTATAAGTA
* **
46177315 -TATTATAAAATTATTTTATTATAAGTA
1 TTATTTTAATTTTATTTTATTATAAGTA
* *
46177342 TTATTTTAATTATATATTATTA
1 TTATTTTAATTTTATTTTATTA
46177364 CTACTTATCA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
25 5 0.13
26 15 0.39
27 2 0.05
28 16 0.42
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (28 bp):
TTATTTTAATTTTATTTTATTATAAGTA
Found at i:46177361 original size:16 final size:17
Alignment explanation
Indices: 46177315--46177401 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 17
46177305 TTATATAATA
*
46177315 TATTATAA-AATTATTT
1 TATTATAAGTATTATTT
46177331 TATTATAAGTATTATTT
1 TATTATAAGTATTATTT
*
46177348 TAATTAT-A-TATTATTAC
1 T-ATTATAAGTATTATT-T
*
46177365 TACTTATCATGTATTATTT
1 TA-TTAT-AAGTATTATTT
*
46177384 T-TCT-TAAATATTATTT
1 TAT-TATAAGTATTATTT
46177400 TA
1 TA
46177402 CATCTCTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
16 26 0.46
17 16 0.29
18 6 0.11
19 1 0.02
20 7 0.12
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (17 bp):
TATTATAAGTATTATTT
Found at i:46177468 original size:44 final size:42
Alignment explanation
Indices: 46177411--46177492 Score: 103
Period size: 44 Copynumber: 1.9 Consensus size: 42
46177401 ACATCTCTTT
* *
46177411 TATATATTATTATATTTTCAC-ATATATTATATTTATTAATTA
1 TATATATTATTATATGTT-ACTATATATTATATCTATTAATTA
*
46177453 TATATATTATTTTATATGTTACTTTATATTATATCTATTA
1 TATATATTA--TTATATGTTACTATATATTATATCTATTA
46177493 TTTTTCTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 9 0.26
43 2 0.06
44 23 0.68
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (42 bp):
TATATATTATTATATGTTACTATATATTATATCTATTAATTA
Found at i:46177544 original size:24 final size:22
Alignment explanation
Indices: 46177376--46177587 Score: 60
Period size: 24 Copynumber: 9.3 Consensus size: 22
46177366 ACTTATCATG
*
46177376 TATTATTTTTCTTAAATA-TTA
1 TATTATTTTTCTTATATATTTA
* ** * * *
46177397 TTTTACATCTCTTTTATATAT-
1 TATTATTTTTCTTATATATTTA
**
46177418 TATTATATTTTCACATATA-TTA
1 TATTAT-TTTTCTTATATATTTA
* **
46177440 TATT-TATTAATTATATATATTA
1 TATTATTTTTCTTATATAT-TTA
* *
46177462 TTTTATATGTTACTT-TATATTATA
1 TATTAT-T-TTTCTTATATATT-TA
*
46177486 TCTATTATTTTTCTTATATGTTTA
1 --TATTATTTTTCTTATATATTTA
*
46177510 TATTACATTTTCTTATATAATCTT-
1 TATTA-TTTTTCTTATAT-AT-TTA
* * *
46177534 TATTATGTTTTATTTTTATATTATT
1 TATTAT-TTTT-CTTATATATT-TA
*
46177559 TATTGTTTTT-TTATATATATGTA
1 TATTATTTTTCTTATATAT-T-TA
46177582 TATTAT
1 TATTAT
46177588 GTATCGCAAA
Statistics
Matches: 135, Mismatches: 36, Indels: 38
0.65 0.17 0.18
Matches are distributed among these distances:
20 7 0.05
21 18 0.13
22 30 0.22
23 21 0.16
24 31 0.23
25 23 0.17
26 5 0.04
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (22 bp):
TATTATTTTTCTTATATATTTA
Found at i:46177557 original size:18 final size:20
Alignment explanation
Indices: 46177534--46177582 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
46177524 ATATAATCTT
46177534 TATTATGT-TT-TATTTTTA
1 TATTATGTATTGTATTTTTA
* *
46177552 TATTATTTATTGTTTTTTTA
1 TATTATGTATTGTATTTTTA
46177572 TATATATGTAT
1 TAT-TATGTAT
46177583 ATTATGTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 7 0.28
19 2 0.08
20 10 0.40
21 6 0.24
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.69
Consensus pattern (20 bp):
TATTATGTATTGTATTTTTA
Found at i:46188702 original size:4 final size:4
Alignment explanation
Indices: 46188688--46188722 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
46188678 GCCTTGAATT
*
46188688 TAAA AAAA TAAA T-AA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
46188723 AATGGAGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:46188715 original size:19 final size:18
Alignment explanation
Indices: 46188688--46188725 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
46188678 GCCTTGAATT
46188688 TAAAAAAATAAATAATAAA
1 TAAAAAAATAAATAA-AAA
*
46188707 TAAATAAATAAATAAAAA
1 TAAAAAAATAAATAAAAA
46188725 T
1 T
46188726 GGAGAGGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAAAAAATAAATAAAAA
Found at i:46191451 original size:26 final size:28
Alignment explanation
Indices: 46191421--46191496 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
46191411 ATTATTTGTT
46191421 TTATTTTAATTTTACTTTTA-TATAA-TA
1 TTATTTTAATTTTA-TTTTATTATAAGTA
* **
46191448 -TATTATAAAATTATTTTATTATAAGTA
1 TTATTTTAATTTTATTTTATTATAAGTA
* *
46191475 TTATTTTAATTATATATTATTA
1 TTATTTTAATTTTATTTTATTA
46191497 CTACTTATCA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
25 5 0.13
26 15 0.39
27 2 0.05
28 16 0.42
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (28 bp):
TTATTTTAATTTTATTTTATTATAAGTA
Found at i:46191494 original size:16 final size:17
Alignment explanation
Indices: 46191448--46191534 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 17
46191438 TTATATAATA
*
46191448 TATTATAA-AATTATTT
1 TATTATAAGTATTATTT
46191464 TATTATAAGTATTATTT
1 TATTATAAGTATTATTT
*
46191481 TAATTAT-A-TATTATTAC
1 T-ATTATAAGTATTATT-T
*
46191498 TACTTATCATGTATTATTT
1 TA-TTAT-AAGTATTATTT
*
46191517 T-TCT-TAAATATTATTT
1 TAT-TATAAGTATTATTT
46191533 TA
1 TA
46191535 CATCTCTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
16 26 0.46
17 16 0.29
18 6 0.11
19 1 0.02
20 7 0.12
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (17 bp):
TATTATAAGTATTATTT
Found at i:46191677 original size:24 final size:22
Alignment explanation
Indices: 46191621--46191692 Score: 55
Period size: 23 Copynumber: 3.4 Consensus size: 22
46191611 ATATTATATC
*
46191621 TATTATTTTTCTTATATGTTTA
1 TATTATTTTTCTTATATATTTA
*
46191643 TATTACATTTTCTTATATAATCTT-
1 TATTA-TTTTTCTTATAT-AT-TTA
*
46191667 TATTA-TGTT-TTAT-T-TTTA
1 TATTATTTTTCTTATATATTTA
46191685 TATTATTT
1 TATTATTT
46191693 ATTGCTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
17 2 0.05
18 6 0.15
19 1 0.02
20 1 0.02
21 4 0.10
22 8 0.20
23 11 0.27
24 6 0.15
25 2 0.05
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.67
Consensus pattern (22 bp):
TATTATTTTTCTTATATATTTA
Found at i:46191690 original size:18 final size:20
Alignment explanation
Indices: 46191667--46191713 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
46191657 ATATAATCTT
46191667 TATTATGTT-TT-ATTTTTA
1 TATTATGTTATTGATTTTTA
*
46191685 TATTAT-TTATTGCTTTTTA
1 TATTATGTTATTGATTTTTA
46191704 TA-TATGTTAT
1 TATTATGTTAT
46191714 GTATATCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 2 0.08
18 11 0.44
19 12 0.48
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.68
Consensus pattern (20 bp):
TATTATGTTATTGATTTTTA
Found at i:46207185 original size:50 final size:49
Alignment explanation
Indices: 46206940--46207253 Score: 180
Period size: 46 Copynumber: 6.6 Consensus size: 49
46206930 TTTGTGCGCT
* * * * *
46206940 AGTGTAAGA-CATGTCAGGGACAT-GCATCAGCCAC-ATTATTAGA-TCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGATTGTGAGAGT-C
* * **
46206986 AGTGTAAGACCATGTCTGGGACATGGCATTGACATTGA--GATGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGATTG-TGAGAGTC
* * ** * *
46207033 TAGTGTAAGA-CATGTCTGGAACAT-GCATCGACCTCGAGATGT-A-AGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGA-TTGTGAGAGTC
** ** * *
46207080 AGTGTAAGA-CATGTCTAAGACAT-GCATATGCTACGA----GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGATTGTGA-GAGTC
* *
46207124 AGGGTAAGACCATGTCTGGGACATGGCATCGG-AATGGATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAA-CGAT-TGTGAGAGTC
* * * *
46207173 TAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACGATTTTGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGATTGTGAGAGTC
46207223 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
46207254 ACTTGATGGA
Statistics
Matches: 206, Mismatches: 38, Indels: 45
0.71 0.13 0.16
Matches are distributed among these distances:
42 1 0.00
44 10 0.05
45 13 0.06
46 56 0.27
47 29 0.14
48 19 0.09
49 39 0.19
50 36 0.17
51 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGATTGTGAGAGTC
Found at i:46208760 original size:45 final size:44
Alignment explanation
Indices: 46208707--46208873 Score: 226
Period size: 45 Copynumber: 3.7 Consensus size: 44
46208697 CATTGCCGAT
* * * *
46208707 GTCCCAGACATGGTCTTACTCGTAACCACATATATCAATGCCAAC
1 GTCCCAGACGTGGTCTTACACG-AAACACATATATCGATGCCAAC
*
46208752 ATCCCAGACGTGGTCTTACACGAATACACATATATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGAA-ACACATATATCGATGCCAAC
*
46208797 GTCCCAGACGTGGTCTTACACGAAAACACATATATCGACGCCAAC
1 GTCCCAGACGTGGTCTTACACG-AAACACATATATCGATGCCAAC
* *
46208842 GTCCCAAATGTGGTCTTACACGAAAACACATA
1 GTCCCAGACGTGGTCTTACACG-AAACACATA
46208874 GCATAGTCCT
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
44 2 0.02
45 107 0.96
46 2 0.02
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.22
Consensus pattern (44 bp):
GTCCCAGACGTGGTCTTACACGAAACACATATATCGATGCCAAC
Found at i:46212320 original size:14 final size:15
Alignment explanation
Indices: 46212303--46212331 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46212293 ACACGAAAAT
46212303 TTCACACA-AATAAA
1 TTCACACATAATAAA
46212317 TTCACACATAATAAA
1 TTCACACATAATAAA
46212332 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:46213656 original size:20 final size:21
Alignment explanation
Indices: 46213597--46213656 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
46213587 TTATAATGAC
* * *
46213597 CACACAAGAGTGTTGTCCTTT
1 CACACGAGCGTGTTGCCCTTT
46213618 CACACGAGCGTGTTGCCCTTT
1 CACACGAGCGTGTTGCCCTTT
46213639 CACAC-AGGCGTG-TGCCCT
1 CACACGA-GCGTGTTGCCCT
46213657 GTTTCAAGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.20
21 28 0.80
ACGTcount: A:0.18, C:0.32, G:0.23, T:0.27
Consensus pattern (21 bp):
CACACGAGCGTGTTGCCCTTT
Found at i:46217245 original size:40 final size:39
Alignment explanation
Indices: 46217214--46217423 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
46217204 GGACTAAGAT
* *
46217214 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
46217254 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
46217294 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
46217334 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
46217374 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
46217413 CCGAAGGCATT
1 CCGAAGGCATT
46217424 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:46217377 original size:120 final size:120
Alignment explanation
Indices: 46217161--46217423 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
46217151 TTGAATGCTG
* *
46217161 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
46217225 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
46217281 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
46217344 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
46217400 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
46217424 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:46217443 original size:79 final size:80
Alignment explanation
Indices: 46217214--46217458 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
46217204 GGACTAAGAT
* * * * * * * ** *
46217214 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
46217277 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
46217294 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
46217359 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
46217374 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
46217438 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
46217452 CCGAAGG
1 CCGAAGG
46217459 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:46225235 original size:40 final size:39
Alignment explanation
Indices: 46225204--46225413 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
46225194 GGACTAAGAT
* *
46225204 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
46225244 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
46225284 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
46225324 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
46225364 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
46225403 CCGAAGGCATT
1 CCGAAGGCATT
46225414 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:46225367 original size:120 final size:120
Alignment explanation
Indices: 46225151--46225413 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
46225141 TTGAATGCTG
* *
46225151 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
46225215 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
46225271 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
46225334 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
46225390 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
46225414 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:46225433 original size:79 final size:80
Alignment explanation
Indices: 46225204--46225448 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
46225194 GGACTAAGAT
* * * * * * * ** *
46225204 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
46225267 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
46225284 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
46225349 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
46225364 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
46225428 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
46225442 CCGAAGG
1 CCGAAGG
46225449 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:46227290 original size:46 final size:46
Alignment explanation
Indices: 46227144--46227404 Score: 173
Period size: 46 Copynumber: 5.6 Consensus size: 46
46227134 TTATTTATAC
* *
46227144 GCCAGTGTAAGACATGTCTGGGACATG-ATCGGCCAC-ATTAT-TAGA
1 GCCAGTGTAAGACATGT-TGGGACATGCATCGGCCTCGA-GATGTAGA
* * *
46227189 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACG-AGA
1 GCCAGTGTAAGA-CATG-TTGGGACAT-GCATCGGCCTCGAGATGTAGA
* *
46227237 GCTAGTGTAAGACATGCTTGGGACATGCATCGACCTCGAGATGTA-A
1 GCCAGTGTAAGACATG-TTGGGACATGCATCGGCCTCGAGATGTAGA
* * *
46227283 GCCAGTGTAAGATATGTCTGGGATACGCATCGG-CTACGAGATGT---
1 GCCAGTGTAAGACATGT-TGGGACATGCATCGGCCT-CGAGATGTAGA
* * * * *
46227327 GTCAATGTAAGACCATGTCTAGGACATGGCATCGGCAC-GGATATGTGAGA
1 GCCAGTGTAAGA-CATGT-TGGGACAT-GCATCGGC-CTCGAGATGT-AGA
*
46227377 GCTAGTGTAAGACATTGTCTGGGACATG
1 GCCAGTGTAAGACA-TGT-TGGGACATG
46227405 ACGTCAGCCT
Statistics
Matches: 170, Mismatches: 28, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
44 10 0.06
45 25 0.15
46 73 0.43
47 16 0.09
48 22 0.13
49 4 0.02
50 20 0.12
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTTGGGACATGCATCGGCCTCGAGATGTAGA
Found at i:46227628 original size:26 final size:26
Alignment explanation
Indices: 46227599--46227653 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
46227589 AACGAGAAAA
46227599 GTATAACAATGTTTTAAGTGGTACAG
1 GTATAACAATGTTTTAAGTGGTACAG
*
46227625 GTATAATAATGTTTTAAGTGGTACAG
1 GTATAACAATGTTTTAAGTGGTACAG
46227651 GTA
1 GTA
46227654 CCTATTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
GTATAACAATGTTTTAAGTGGTACAG
Found at i:46230757 original size:13 final size:13
Alignment explanation
Indices: 46230739--46230763 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46230729 ACAAACAATA
46230739 AAATTTTCACACG
1 AAATTTTCACACG
46230752 AAATTTTCACAC
1 AAATTTTCACAC
46230764 ATATCAATTT
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:46233455 original size:38 final size:38
Alignment explanation
Indices: 46233404--46233477 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
46233394 GTTCATCCTT
*
46233404 TTTCATCTTCTTTTGGCCGACAATTCTAAGGAAGGATA
1 TTTCATCTTCTTTTGGCCGAAAATTCTAAGGAAGGATA
46233442 TTTCATCTTCTTTTGGCCGAAAATTCTAAGGAAGGA
1 TTTCATCTTCTTTTGGCCGAAAATTCTAAGGAAGGA
46233478 GGAAGGAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (38 bp):
TTTCATCTTCTTTTGGCCGAAAATTCTAAGGAAGGATA
Found at i:46234563 original size:39 final size:40
Alignment explanation
Indices: 46234468--46234690 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
46234458 TTGAATGATG
*
46234468 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
46234506 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
46234547 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
46234586 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
46234625 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
46234664 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
46234691 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:46234654 original size:79 final size:81
Alignment explanation
Indices: 46234468--46234690 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
46234458 TTGAATGATG
* * *
46234468 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
46234530 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
46234547 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
46234608 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
46234625 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
46234689 TG
66 TG
46234691 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:46234712 original size:79 final size:79
Alignment explanation
Indices: 46234468--46234723 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
46234458 TTGAATGATG
* * * *
46234468 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
46234529 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
46234547 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
46234611 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
46234625 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
46234688 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
46234705 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
46234724 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:46242513 original size:79 final size:81
Alignment explanation
Indices: 46242377--46242561 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
46242367 TTGAATGATG
*
46242377 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
46242441 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
46242456 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
46242518 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
46242536 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46242562 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:46242575 original size:40 final size:39
Alignment explanation
Indices: 46242378--46242561 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
46242368 TGAATGATGT
* * *
46242378 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
46242418 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
46242458 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
46242496 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
46242537 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46242562 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:46242583 original size:79 final size:79
Alignment explanation
Indices: 46242378--46242594 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 79
46242368 TGAATGATGT
** * * * **
46242378 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
46242441 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
46242458 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
46242523 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
46242537 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
46242595 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.03
79 70 0.60
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:46246214 original size:22 final size:22
Alignment explanation
Indices: 46246182--46246223 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
46246172 CCCAAAAATT
46246182 TTTGAGCGTTGTTTGCTAAAAA
1 TTTGAGCGTTGTTTGCTAAAAA
* *
46246204 TTTGAGTGTTGTTTGGTAAA
1 TTTGAGCGTTGTTTGCTAAA
46246224 TTCTAATATA
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:0.24, C:0.05, G:0.26, T:0.45
Consensus pattern (22 bp):
TTTGAGCGTTGTTTGCTAAAAA
Found at i:46246566 original size:15 final size:14
Alignment explanation
Indices: 46246548--46246603 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
46246538 TTTTATGTTT
46246548 TTCTTTTTCTTTTTC
1 TTCTTTTTC-TTTTC
* *
46246563 TTC-TTTTCCTTCC
1 TTCTTTTTCTTTTC
*
46246576 TTCCTTTTCTTTTC
1 TTCTTTTTCTTTTC
*
46246590 TTTTATTTTCTTTT
1 TTCT-TTTTCTTTT
46246604 ATGTTTTCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
13 6 0.18
14 15 0.45
15 12 0.36
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (14 bp):
TTCTTTTTCTTTTC
Found at i:46249047 original size:10 final size:10
Alignment explanation
Indices: 46249032--46249074 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 10
46249022 TGTGTGATCC
46249032 ATGTTTATGA
1 ATGTTTATGA
46249042 ATGTTTATGA
1 ATGTTTATGA
46249052 ATGGTTTTGTATGA
1 AT-G--TT-TATGA
46249066 ATGTTTATG
1 ATGTTTATG
46249075 TTTGAGTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 16 0.55
11 3 0.10
13 3 0.10
14 7 0.24
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (10 bp):
ATGTTTATGA
Found at i:46254832 original size:42 final size:43
Alignment explanation
Indices: 46254765--46254864 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 43
46254755 GATTTGTGAC
* * **
46254765 TTACTTGTAAGACCATGTCTGGGACACTGGCAT-TGTATATGA
1 TTACATGTAAGACCATGTCTAGGACACTGGCATCAATATATGA
* * * * *
46254807 TTTCATGTAAGACCCTGTGTAGGACAGTGGCATCAATATTTGA
1 TTACATGTAAGACCATGTCTAGGACACTGGCATCAATATATGA
46254850 TTACATGTAAGACCA
1 TTACATGTAAGACCA
46254865 CATCTGGGAC
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
42 27 0.59
43 19 0.41
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTAGGACACTGGCATCAATATATGA
Found at i:46257855 original size:48 final size:48
Alignment explanation
Indices: 46257777--46257921 Score: 209
Period size: 48 Copynumber: 3.0 Consensus size: 48
46257767 TAGGGTTATG
* * *
46257777 TGTGATCCCATGTAAAACTATGTCTAGGACATGGCATTGGCATCAATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
* *
46257825 TGTGATCCCATGTAAGACCACGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
* * * *
46257873 TTTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCTATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
46257921 T
1 T
46257922 AAGACATCGT
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
Found at i:46264619 original size:31 final size:31
Alignment explanation
Indices: 46264584--46264647 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
46264574 TAAGGAAGAT
*
46264584 AGCACTTTGACTGTCACAAAATACTGTACTA
1 AGCACTTTGACTGTCACAAAATACAGTACTA
46264615 AGCACTTTGACTGTCACAAAATACAGTACTA
1 AGCACTTTGACTGTCACAAAATACAGTACTA
46264646 AG
1 AG
46264648 TTGAAGGTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (31 bp):
AGCACTTTGACTGTCACAAAATACAGTACTA
Found at i:46273328 original size:23 final size:23
Alignment explanation
Indices: 46273302--46273356 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
46273292 CTCATCTGCT
*
46273302 ACACACCATCTCCATCCATCCCA
1 ACACACCATCTCCAACCATCCCA
*
46273325 ACACACCATCTCCAACCTTCCCA
1 ACACACCATCTCCAACCATCCCA
*
46273348 ACATACCAT
1 ACACACCAT
46273357 GTGGGATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.18
Consensus pattern (23 bp):
ACACACCATCTCCAACCATCCCA
Found at i:46299783 original size:146 final size:145
Alignment explanation
Indices: 46299520--46299784 Score: 422
Period size: 146 Copynumber: 1.8 Consensus size: 145
46299510 TCAGGAGTAA
** *
46299520 TCTTCGACGATCTAGTTCTGTTATGAGACATGGTATTTTCCTGAAATTCAGAAAATTTATGCTTA
1 TCTTCGACGATCTAGTTCTGTTAAAAGACATGGTATTTTCCTGAAATTCAGAAAAGTTATGCTTA
*
46299585 CAAGGGAAGAAGAGAAATCGGTAAGTGAGTAGGATCTACTTCGGTGAACCTTGCGATCACAACTG
66 CAAGGGAAGAAGAGAAATCGGCAAGTGAGTAGGATCTACTTCGGTGAACCTTGCGATCACAACTG
46299650 AGTTTTTAGAAGCAG
131 AGTTTTTAGAAGCAG
* * * *
46299665 TCTTCGATGATCTAGTTCTTTTAAAAGACATGGTATTTTCCTGAAAATTCGGTAAAGTTATGCTT
1 TCTTCGACGATCTAGTTCTGTTAAAAGACATGGTATTTTCCTG-AAATTCAGAAAAGTTATGCTT
* * *
46299730 ACAAGGGAAGAAGAGAAATTGGCAAGTGGGTAGGATCTGCTTCGGTGAACCTTGC
65 ACAAGGGAAGAAGAGAAATCGGCAAGTGAGTAGGATCTACTTCGGTGAACCTTGC
46299785 AACGACGAAG
Statistics
Matches: 108, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
145 39 0.36
146 69 0.64
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (145 bp):
TCTTCGACGATCTAGTTCTGTTAAAAGACATGGTATTTTCCTGAAATTCAGAAAAGTTATGCTTA
CAAGGGAAGAAGAGAAATCGGCAAGTGAGTAGGATCTACTTCGGTGAACCTTGCGATCACAACTG
AGTTTTTAGAAGCAG
Found at i:46306040 original size:26 final size:26
Alignment explanation
Indices: 46306011--46306062 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46306001 CGACAATTAC
46306011 TTTAATTAAACTCAAATTATTATCAA
1 TTTAATTAAACTCAAATTATTATCAA
46306037 TTTAATTAAACTCAAATTATTATCAA
1 TTTAATTAAACTCAAATTATTATCAA
46306063 CATGCTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (26 bp):
TTTAATTAAACTCAAATTATTATCAA
Found at i:46309053 original size:66 final size:65
Alignment explanation
Indices: 46308914--46309053 Score: 149
Period size: 66 Copynumber: 2.1 Consensus size: 65
46308904 GCGTGTGGTC
* * * **
46308914 AGCCGTGTGGCCAAGTCAATAGCCTCCCTAATTTTCACACGGCCTGGCAAACGGGCGTGTCTTGT
1 AGCCGTGTGGACAAGTCAATAGCATCCCTAATTTTCACACGGCCTGACAAACGGGCGTGTCTTAA
* * * * *
46308979 GGCCGTGTGGACAAGTCAATATGTATGCCCT-GTTTTGACACGGCCTAGACACACGGGCGTGTC-
1 AGCCGTGTGGACAAGTCAATA-GCAT-CCCTAATTTTCACACGGCCT-GACAAACGGGCGTGTCT
46309042 TAA
63 TAA
46309045 AGCCGTGTG
1 AGCCGTGTG
46309054 AGGCACACGG
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
65 19 0.31
66 24 0.39
67 18 0.30
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (65 bp):
AGCCGTGTGGACAAGTCAATAGCATCCCTAATTTTCACACGGCCTGACAAACGGGCGTGTCTTAA
Found at i:46310946 original size:95 final size:95
Alignment explanation
Indices: 46310768--46311043 Score: 347
Period size: 95 Copynumber: 2.9 Consensus size: 95
46310758 CTAGGGAGAT
* * *
46310768 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGATATGTGTCAATGTAAGACC
1 ATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCGTCGACTTGATATGTGTCAATGTAAGACC
* **
46310833 ATGACTGGGACACAGCATCGGCGC-CGATAG
66 ATGTCTGGGACATGGCATCGGC-CTCGATAG
* * *
46310863 ATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGGGTCGGCTTGATATGTGTCAGTGTAAGACC
1 ATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCGTCGACTTGATATGTGTCAATGTAAGACC
* * *
46310928 ATGTCTGAGACATGGCATCGGCCTTGATAT
66 ATGTCTGGGACATGGCATCGGCCTCGATAG
* * * * *
46310958 ACGAGAGTCAATGTAAGACCATGTCTGGGACATGGCGTCGACTTTGATGTGTGAGCCAATGTAAG
1 ATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCGTCGAC-TTGATATGT--GTCAATGTAAG
*
46311023 ACCATGTCCGGGACATGGCAT
63 ACCATGTCTGGGACATGGCAT
46311044 TGGCACCTTA
Statistics
Matches: 155, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
94 1 0.01
95 118 0.76
96 8 0.05
98 28 0.18
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (95 bp):
ATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCGTCGACTTGATATGTGTCAATGTAAGACC
ATGTCTGGGACATGGCATCGGCCTCGATAG
Found at i:46311036 original size:48 final size:47
Alignment explanation
Indices: 46310779--46311041 Score: 246
Period size: 50 Copynumber: 5.5 Consensus size: 47
46310769 TGAGAGCTAG
* **
46310779 TGTAAGACCATGTCTGGGACATGGCATCAACTTGATATGT--GTCAA
1 TGTAAGACCATGTCTGGGACATGGCGTCGGCTTGATATGTGAGTCAA
* ** * ** * * *
46310824 TGTAAGACCATGACTGGGACACAGCATCGGCGCCGATAGATGAGAGTTAG
1 TGTAAGACCATGTCTGGGACATGGCGTCGGC-TTGAT--ATGTGAGTCAA
* *
46310874 TGTAAGACCATGTCTGGGACATGGGGTCGGCTTGATATGT--GTCAG
1 TGTAAGACCATGTCTGGGACATGGCGTCGGCTTGATATGTGAGTCAA
* * *
46310919 TGTAAGACCATGTCTGAGACATGGCATCGGCCTTGATATACGAGAGTCAA
1 TGTAAGACCATGTCTGGGACATGGCGTCGG-CTTGATAT--GTGAGTCAA
* * *
46310969 TGTAAGACCATGTCTGGGACATGGCGTCGACTTTGATGTGTGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCGTCGGC-TTGATATGTGAGTCAA
*
46311017 TGTAAGACCATGTCCGGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
46311042 ATTGGCACCT
Statistics
Matches: 176, Mismatches: 31, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
45 57 0.32
46 11 0.06
47 3 0.02
48 35 0.20
49 4 0.02
50 66 0.38
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCGTCGGCTTGATATGTGAGTCAA
Found at i:46314333 original size:46 final size:46
Alignment explanation
Indices: 46314280--46314403 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
46314270 TATGTGTACT
*
46314280 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCC-CATTGAAGAGAGCC
* *
46314326 AGTGTAAGACATGTCTAGGACATGCATTGG--CATTGAGAAGAGAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCCATT--GAAGAGAGCC
* *
46314372 AGTGTAAGACATGTATGGGACATGCATCGGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCC
46314404 TCGAGATATA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
43 4 0.06
46 63 0.94
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCCATTGAAGAGAGCC
Found at i:46314521 original size:49 final size:49
Alignment explanation
Indices: 46314280--46314593 Score: 188
Period size: 49 Copynumber: 6.7 Consensus size: 49
46314270 TATGTGTACT
* * * * * *
46314280 AGTGTAAGACATGTCTAGGACAT-GCATCGGCCAC-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * * * * *
46314326 AGTGTAAGACATGTCTAGGACAT-GCATTGGCATTG--AGAAGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * *
46314372 AGTGTAAGACATGTATGGGACAT-GCATCGGCCTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA-AAGCC
* * * * * * * *
46314420 AGTGTAAGACCTGTTTGGCACATGGCGTC-AGCT-TATTG-TG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
*
46314464 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * * * *
46314513 AGTGTAAGACCTGTCTGGGACACGGTATCGGCCTTGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
46314562 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
46314594 TTTGATGTGC
Statistics
Matches: 208, Mismatches: 46, Indels: 25
0.75 0.16 0.09
Matches are distributed among these distances:
44 27 0.13
45 1 0.00
46 72 0.35
47 4 0.02
48 29 0.14
49 75 0.36
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:46316541 original size:29 final size:29
Alignment explanation
Indices: 46316499--46316557 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
46316489 CATAAAATAG
46316499 AATGTGTACATGGCATAATGAGCTTATCT
1 AATGTGTACATGGCATAATGAGCTTATCT
46316528 AATGTGTACATGGCATAATGAGCTTATCT
1 AATGTGTACATGGCATAATGAGCTTATCT
46316557 A
1 A
46316558 TGATTGATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (29 bp):
AATGTGTACATGGCATAATGAGCTTATCT
Found at i:46341327 original size:21 final size:22
Alignment explanation
Indices: 46341296--46341336 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
46341286 TATGTTTTGG
46341296 TATGTCTTTGACTTATGAATGT
1 TATGTCTTTGACTTATGAATGT
* *
46341318 TATGT-TTTGATTTGTGAAT
1 TATGTCTTTGACTTATGAAT
46341337 TATGAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.22, C:0.05, G:0.20, T:0.54
Consensus pattern (22 bp):
TATGTCTTTGACTTATGAATGT
Found at i:46342363 original size:126 final size:126
Alignment explanation
Indices: 46342139--46342630 Score: 648
Period size: 126 Copynumber: 3.9 Consensus size: 126
46342129 CAATTATAGA
* * * *
46342139 AAAAGAGCGTCCACATGGGAGCTTTTTT-TTAAATTTTGATGACATTGCATCCTGCTTGAAGCGT
1 AAAAGAGCGTCCACGTGGTAGCTTTTTTCTGAAATTTTGATGACATTGCATCCTGCTTGAAGCAT
* * * * * *
46342203 TTTTGACACTATCTGTTTAGAAACGTCTTTTCAAAATTATTTTTTTAGGAACTACTGCAGT
66 TTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGC
* * *
46342264 AAAAGAGCGTCCACGTGAG-AGCTTTTTTCAGAAATTTTGATGACATTGCATCTTACTTGAAGCA
1 AAAAGAGCGTCCACGTG-GTAGCTTTTTTCTGAAATTTTGATGACATTGCATCCTGCTTGAAGCA
* *
46342328 TTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCGGGAACTATTGTAGC
65 TTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGC
* * * * * * *
46342390 AAAAAAGTGTCCACGTGGTAGCTTTTTTTCTGTATTTTTGCTGACAATGCATCCTGCTTGAAGCG
1 AAAAGAGCGTCCACGTGGTAGC-TTTTTTCTGAAATTTTGATGACATTGCATCCTGCTTGAAGCA
*
46342455 TTTTTGACACAATTTGTTCAGAAACGTCTTCTCAAAATTA-TTTTTCAGGAACTACTGTAGC
65 TTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGC
* * * * * * *
46342516 AAAAGAGCATCCATGTGGTAGCCTTTTTTCTGTATTTTTGCTGACAGTGCATCCTGCTTGAGGCA
1 AAAAGAGCGTCCACGTGGTAG-CTTTTTTCTGAAATTTTGATGACATTGCATCCTGCTTGAAGCA
* *
46342581 TTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATCTTTTCAGG
65 TTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGG
46342631 GTAAAAATAG
Statistics
Matches: 324, Mismatches: 37, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
125 26 0.08
126 216 0.67
127 82 0.25
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
AAAAGAGCGTCCACGTGGTAGCTTTTTTCTGAAATTTTGATGACATTGCATCCTGCTTGAAGCAT
TTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGC
Found at i:46342784 original size:34 final size:32
Alignment explanation
Indices: 46342736--46343337 Score: 165
Period size: 34 Copynumber: 19.0 Consensus size: 32
46342726 AGACCCTAAT
* * *
46342736 TTAATTTATCTAAAACCTTAGAACCCTAATTTA
1 TTAATCTATTTAAAACCCTA-AACCCTAATTTA
* *
46342769 CTTAATCTATTTAAAAACCATAAACCCCTAGAATCCTAA
1 -TTAATCTATTT-AAAACCCTAAA-CCCT--AAT--TTA
* *
46342808 TTTAAT-TAATTT-TAACCCAAAACCCTAA--T-
1 -TTAATCT-ATTTAAAACCCTAAACCCTAATTTA
* * *
46342837 TTAATGTATCTAAAACCCTAGAACCTTAATTTA
1 TTAATCTATTTAAAACCCTA-AACCCTAATTTA
*
46342870 CTTAATCTATTTAAAAACCCTAAACCTTAA--T-
1 -TTAATCTATTT-AAAACCCTAAACCCTAATTTA
* * * *
46342901 TTAATTTATCTAACACCCTAGAACCTTAATTTAA
1 TTAATCTATTTAAAACCCTA-AACCCTAATTT-A
46342935 TTAA--T-TTT--AACCC-AAACCCTAATTTA
1 TTAATCTATTTAAAACCCTAAACCCTAATTTA
* * *
46342961 --AATC-ATCTAAACCCCCAGAACCCTAATTTA
1 TTAATCTATTTAAAACCCTA-AACCCTAATTTA
46342991 CTTAATCTATTTAAAAACCCTAAACCCTAA--T-
1 -TTAATCTATTT-AAAACCCTAAACCCTAATTTA
* * ** *
46343022 TTAATTTATCTAAAACTTTAGAACCTTAATTTAA
1 TTAATCTATTTAAAACCCTA-AACCCTAATTT-A
*
46343056 TTAA--T-TCT--AACCC-AAACCCTAATTTAA
1 TTAATCTATTTAAAACCCTAAACCCTAATTT-A
* ** * ** * *
46343083 TTTATCTTAATTTAATTAA-TTTTAACCGAAACACTAA
1 TTAATC-T-ATTTAA--AACCCTAAACC-CTA-ATTTA
* * *
46343120 CTTAATTTATCTAAGACCCTAGAACCCTAATTTA
1 -TTAATCTATTTAAAACCCTA-AACCCTAATTTA
* *
46343154 CTTAATCTATTTAAAAACCATAAACCATAA--T-
1 -TTAATCTATTT-AAAACCCTAAACCCTAATTTA
*
46343185 TTAATTTATTT-------TAAACCCTAA--T-
1 TTAATCTATTTAAAACCCTAAACCCTAATTTA
* *
46343207 TTAATTTATCTAAAACCCTAGAACCCTAATTTA
1 TTAATCTATTTAAAACCCTA-AACCCTAATTTA
* * *
46343240 CTTAATCTATTTAAAAAACATAAACCATAA--T-
1 -TTAATCTATTT-AAAACCCTAAACCCTAATTTA
*
46343271 TTAATTTATTTAAAACCCTAGAACCCTAATTTA
1 TTAATCTATTTAAAACCCTA-AACCCTAATTTA
*
46343304 CTTAATCTATTTAAAAACCATAAACCCTAATTTA
1 -TTAATCTATTT-AAAACCCTAAACCCTAATTTA
46343338 AATATTTTTT
Statistics
Matches: 423, Mismatches: 73, Indels: 144
0.66 0.11 0.22
Matches are distributed among these distances:
22 20 0.05
24 2 0.00
26 3 0.01
27 25 0.06
28 14 0.03
29 39 0.09
30 88 0.21
31 5 0.01
32 13 0.03
33 4 0.01
34 108 0.26
35 52 0.12
36 19 0.04
37 13 0.03
38 7 0.02
39 11 0.03
ACGTcount: A:0.41, C:0.21, G:0.02, T:0.36
Consensus pattern (32 bp):
TTAATCTATTTAAAACCCTAAACCCTAATTTA
Found at i:46342825 original size:30 final size:29
Alignment explanation
Indices: 46342791--46343084 Score: 108
Period size: 30 Copynumber: 9.8 Consensus size: 29
46342781 AAAAACCATA
46342791 AACCCCTAGAATCCTAATTTAATTAATTTT
1 AACCCCTAGAA-CCTAATTTAATTAATTTT
* * *
46342821 AA-CCC-AAAACCCTAATTTAATGT-ATCTA
1 AACCCCTAGAA-CCTAATTTAAT-TAATTTT
* *
46342849 AAACCCTAGAACCTTAATTTACTTAATCTATTT
1 AACCCCTAGAACC-TAATTTAATTAA--T-TTT
* * *
46342882 AAAAACCCTA-AACCTTAATTTAATTTA-TCT
1 --AACCCCTAGAACC-TAATTTAATTAATTTT
46342912 AACACCCTAGAACCTTAATTTAATTAATTTT
1 AAC-CCCTAGAACC-TAATTTAATTAATTTT
* * * *
46342943 AA-CCC-A-AACCCTAATTTAAATCATCTA
1 AACCCCTAGAA-CCTAATTTAATTAATTTT
* *
46342970 AACCCCCAGAACCCTAATTTACTTAATCTATTT
1 AACCCCTAGAA-CCTAATTTAATTAA--T-TTT
* * * *
46343003 AAAAACCCTA-AACCCTAATTTAATTTATCTA
1 --AACCCCTAGAA-CCTAATTTAATTAATTTT
* ** *
46343034 AAACTTTAGAACCTTAATTTAATTAATTCT
1 AACCCCTAGAACC-TAATTTAATTAATTTT
46343064 AA-CCC-A-AACCCTAATTTAATT
1 AACCCCTAGAA-CCTAATTTAATT
46343085 TATCTTAATT
Statistics
Matches: 202, Mismatches: 37, Indels: 53
0.69 0.13 0.18
Matches are distributed among these distances:
27 28 0.14
28 30 0.15
29 28 0.14
30 62 0.31
31 5 0.02
32 3 0.01
33 2 0.01
34 30 0.15
35 14 0.07
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (29 bp):
AACCCCTAGAACCTAATTTAATTAATTTT
Found at i:46342895 original size:64 final size:63
Alignment explanation
Indices: 46342789--46343338 Score: 366
Period size: 64 Copynumber: 8.9 Consensus size: 63
46342779 TTAAAAACCA
* * * * *
46342789 TAAACCCCTAGAATCCTAATTTAATTAA--T-TTT--AACCCAAAACCCTAATTTAATGTATC
1 TAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAACCCTAAACCCTAATTTAATTTATC
* *
46342847 TAAAACCCTAGAACCTTAATTTACTTAATCTATTTAAAAACCCTAAACCTTAATTTAATTTATC
1 TAAAACCCTAGAACCCTAATTTACTTAATCTATTT-AAAACCCTAAACCCTAATTTAATTTATC
* * * * *
46342911 TAACACCCTAGAACCTTAATTTAATTAA--T-TTT--AACCC-AAACCCTAATTTAAATCATC
1 TAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAACCCTAAACCCTAATTTAATTTATC
* *
46342968 TAAACCCCCAGAACCCTAATTTACTTAATCTATTTAAAAACCCTAAACCCTAATTTAATTTATC
1 TAAAACCCTAGAACCCTAATTTACTTAATCTATTT-AAAACCCTAAACCCTAATTTAATTTATC
** * * *
46343032 TAAAACTTTAGAACCTTAATTTAATTAA--T-TCT--AACCC-AAACCCTAATTTAATTTATC
1 TAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAACCCTAAACCCTAATTTAATTTATC
*** ** ** * * * * *
46343089 TTAATTTAATTAATTTTAACCGAAACACTAACTTAATTTATCTAAGACCCTAGAACCCTAATTTA
1 -TAA---AA--CCCTAGAACC-CTA-ATTTACTTAATCTATTTAAAACCCTA-AACCCTAA--T-
* *
46343154 CTTAATCTATT
54 -TTAATTTATC
* * *
46343165 TAAAAACCATA-AACCATAA--T--TTAATTTATTT-------TAAACCCTAATTTAATTTATC
1 T-AAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAACCCTAAACCCTAATTTAATTTATC
* * * *
46343217 TAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCATAATTTAATTTATT
1 TAAAACCCTAGAACCCTAATTTACTTAATCTATTT-AAAACCCTAAACCCTAATTTAATTTATC
*
46343281 TAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAACCATAAACCCTAATTTAA
1 TAAAACCCTAGAACCCTAATTTACTTAATCTATTT-AAAACCCTAAACCCTAATTTAA
46343339 ATATTTTTTA
Statistics
Matches: 392, Mismatches: 54, Indels: 86
0.74 0.10 0.16
Matches are distributed among these distances:
51 8 0.02
52 16 0.04
54 2 0.01
56 18 0.05
57 62 0.16
58 37 0.09
59 1 0.00
60 4 0.01
61 10 0.03
62 2 0.01
63 11 0.03
64 175 0.45
65 7 0.02
67 1 0.00
68 4 0.01
69 2 0.01
70 8 0.02
71 2 0.01
72 8 0.02
73 2 0.01
74 1 0.00
75 1 0.00
76 10 0.03
ACGTcount: A:0.41, C:0.21, G:0.02, T:0.36
Consensus pattern (63 bp):
TAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAACCCTAAACCCTAATTTAATTTATC
Found at i:46342994 original size:121 final size:122
Alignment explanation
Indices: 46342789--46343309 Score: 465
Period size: 121 Copynumber: 4.2 Consensus size: 122
46342779 TTAAAAACCA
* *
46342789 TAAACCCCTAGAATCC-TAATTTAATTAATTTTAACCCAAAACCCTAATTT-AATGTATCTAAAA
1 TAAAACCCTAGAA-CCTTAATTTAATTAATTTTAACCC-AAACCCTAATTTAAATGCATCTAAAA
* * *
46342852 CCCTAGAACCTTAATTTACTTAATCTATTTAAAAACCCTAAACCTTAATTTAATTTATC
64 CCCCAGAACCCTAATTTACTTAATCTATTTAAAAACCCTAAACCCTAATTTAATTTATC
* *
46342911 TAACACCCTAGAACCTTAATTTAATTAATTTTAACCCAAACCCTAATTTAAAT-CATCTAAACCC
1 TAAAACCCTAGAACCTTAATTTAATTAATTTTAACCCAAACCCTAATTTAAATGCATCTAAAACC
46342975 CCAGAACCCTAATTTACTTAATCTATTTAAAAACCCTAAACCCTAATTTAATTTATC
66 CCAGAACCCTAATTTACTTAATCTATTTAAAAACCCTAAACCCTAATTTAATTTATC
** * **
46343032 TAAAACTTTAGAACCTTAATTTAATTAATTCTAACCCAAACCCTAATTT-AATTTATCTTAATTT
1 TAAAACCCTAGAACCTTAATTTAATTAATTTTAACCCAAACCCTAATTTAAATGCATC-TAA---
*** * ** * * * * *
46343096 AA-TTAATTTTAACCGAAACACTAACTTAATTTATCT-AAGACCCTAGAACCCTAATTTACTTAA
62 AACCCCA---GAACC-CTA-ATTTACTTAATCTATTTAAAAACCCTA-AACCCTAA--T--TTAA
* *
46343159 TCTATT
117 TTTATC
* * * **
46343165 TAAAAACCATA-AACCATAATTTAATTTATTTT-----AAACCCTAATTT-AATTTATCTAAAAC
1 T-AAAACCCTAGAACCTTAATTTAATTAATTTTAACCCAAACCCTAATTTAAATGCATCTAAAAC
* * * * *
46343223 CCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCATAATTTAATTTATT
65 CCCAGAACCCTAATTTACTTAATCTATTTAAAAACCCTAAACCCTAATTTAATTTATC
* *
46343281 TAAAACCCTAGAACCCTAATTTACTTAAT
1 TAAAACCCTAGAACCTTAATTTAATTAAT
46343310 CTATTTAAAA
Statistics
Matches: 328, Mismatches: 50, Indels: 48
0.77 0.12 0.11
Matches are distributed among these distances:
115 8 0.02
116 25 0.08
118 1 0.00
120 23 0.07
121 132 0.40
122 42 0.13
124 3 0.01
125 2 0.01
127 7 0.02
128 29 0.09
129 21 0.06
131 1 0.00
133 27 0.08
134 7 0.02
ACGTcount: A:0.41, C:0.21, G:0.02, T:0.36
Consensus pattern (122 bp):
TAAAACCCTAGAACCTTAATTTAATTAATTTTAACCCAAACCCTAATTTAAATGCATCTAAAACC
CCAGAACCCTAATTTACTTAATCTATTTAAAAACCCTAAACCCTAATTTAATTTATC
Found at i:46343093 original size:42 final size:42
Alignment explanation
Indices: 46343046--46343131 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
46343036 ACTTTAGAAC
* *
46343046 CTTAATTTAATTAATTCTAACCCAAACCCTAATTTAATTTAT
1 CTTAATTTAATTAATTCTAACCCAAACACTAACTTAATTTAT
* *
46343088 CTTAATTTAATTAATTTTAACCGAAACACTAACTTAATTTAT
1 CTTAATTTAATTAATTCTAACCCAAACACTAACTTAATTTAT
46343130 CT
1 CT
46343132 AAGACCCTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.38, C:0.17, G:0.01, T:0.43
Consensus pattern (42 bp):
CTTAATTTAATTAATTCTAACCCAAACACTAACTTAATTTAT
Found at i:46343189 original size:30 final size:29
Alignment explanation
Indices: 46343155--46343338 Score: 121
Period size: 30 Copynumber: 6.1 Consensus size: 29
46343145 CCTAATTTAC
*
46343155 TTAATCTATTTAAAAACCATAAACCATAAT
1 TTAATCTATTT-AAAACCATAAACCCTAAT
*
46343185 TTAATTTATTT-------TAAACCCTAAT
1 TTAATCTATTTAAAACCATAAACCCTAAT
* * *
46343207 TTAATTTATCTAAAACCCTAGAACCCTAATTT
1 TTAATCTATTTAAAACCATA-AACCCTAA--T
* *
46343239 ACTTAATCTATTTAAAAAACATAAACCATAAT
1 --TTAATCTATTT-AAAACCATAAACCCTAAT
* *
46343271 TTAATTTATTTAAAACCCTAGAACCCTAATTT
1 TTAATCTATTTAAAACCATA-AACCCTAA--T
46343303 ACTTAATCTATTTAAAAACCATAAACCCTAAT
1 --TTAATCTATTT-AAAACCATAAACCCTAAT
46343335 TTAA
1 TTAA
46343339 ATATTTTTTA
Statistics
Matches: 121, Mismatches: 14, Indels: 38
0.70 0.08 0.22
Matches are distributed among these distances:
22 20 0.17
29 9 0.07
30 39 0.32
32 4 0.03
34 34 0.28
35 15 0.12
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (29 bp):
TTAATCTATTTAAAACCATAAACCCTAAT
Found at i:46343218 original size:86 final size:86
Alignment explanation
Indices: 46343111--46343290 Score: 315
Period size: 86 Copynumber: 2.1 Consensus size: 86
46343101 ATTTTAACCG
* * *
46343111 AAACACTAACTTAATTTATCTAAGACCCTAGAACCCTAATTTACTTAATCTATTTAAAAACCATA
1 AAACCCTAACTTAATTTATCTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATA
*
46343176 AACCATAATTTAATTTATTTT
66 AACCATAATTTAATTTATTTA
*
46343197 AAACCCTAATTTAATTTATCTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATA
1 AAACCCTAACTTAATTTATCTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATA
46343262 AACCATAATTTAATTTATTTA
66 AACCATAATTTAATTTATTTA
46343283 AAACCCTA
1 AAACCCTA
46343291 GAACCCTAAT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (86 bp):
AAACCCTAACTTAATTTATCTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACATA
AACCATAATTTAATTTATTTA
Found at i:46343222 original size:22 final size:22
Alignment explanation
Indices: 46343175--46343226 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
46343165 TAAAAACCAT
* * *
46343175 AAACCATAATTTAATTTATTTT
1 AAACCCTAATTTAATTTATCTA
46343197 AAACCCTAATTTAATTTATCTA
1 AAACCCTAATTTAATTTATCTA
46343219 AAACCCTA
1 AAACCCTA
46343227 GAACCCTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (22 bp):
AAACCCTAATTTAATTTATCTA
Found at i:46346186 original size:16 final size:17
Alignment explanation
Indices: 46346154--46346199 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
46346144 AACAAAAGAA
46346154 ATAAATTTAAATTTTAT
1 ATAAATTTAAATTTTAT
*
46346171 ATAAATTT-ATTTTTAT
1 ATAAATTTAAATTTTAT
*
46346187 ATTAATATTAAAT
1 ATAAAT-TTAAAT
46346200 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 12 0.50
17 10 0.42
18 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATAAATTTAAATTTTAT
Found at i:46352933 original size:6 final size:6
Alignment explanation
Indices: 46352922--46352946 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
46352912 ACAAATAAAC
46352922 GCCACA GCCACA GCCACA GCCACA G
1 GCCACA GCCACA GCCACA GCCACA G
46352947 GATCCTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.48, G:0.20, T:0.00
Consensus pattern (6 bp):
GCCACA
Found at i:46353363 original size:22 final size:22
Alignment explanation
Indices: 46353335--46353383 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
46353325 TGGGATGAAT
46353335 TTTTTTTTAAAGCTTAATTGTA
1 TTTTTTTTAAAGCTTAATTGTA
46353357 TTTTTTTTAAAGCTTAATTGTA
1 TTTTTTTTAAAGCTTAATTGTA
46353379 TTTTT
1 TTTTT
46353384 ACTTTTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.63
Consensus pattern (22 bp):
TTTTTTTTAAAGCTTAATTGTA
Found at i:46353853 original size:31 final size:31
Alignment explanation
Indices: 46353812--46353875 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
46353802 TTTTTTGTCC
46353812 AATTTCGTACCCAAACTTAACACTTTTTCTT
1 AATTTCGTACCCAAACTTAACACTTTTTCTT
* * * **
46353843 AATTTGGTACCTAAACTTGACTTTTTTTCTT
1 AATTTCGTACCCAAACTTAACACTTTTTCTT
46353874 AA
1 AA
46353876 GTTGATACTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.45
Consensus pattern (31 bp):
AATTTCGTACCCAAACTTAACACTTTTTCTT
Found at i:46355546 original size:29 final size:29
Alignment explanation
Indices: 46355504--46355566 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
46355494 CTGTGTGGGT
** *
46355504 ACACGGTTGTGTGGCTCACATGGTCTGGC
1 ACACGGTCATGTGGCTCACACGGTCTGGC
* *
46355533 ACACGGTCATGTGGCTCATACGGTTTGGC
1 ACACGGTCATGTGGCTCACACGGTCTGGC
46355562 ACACG
1 ACACG
46355567 ACCGTCGGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.25, G:0.32, T:0.25
Consensus pattern (29 bp):
ACACGGTCATGTGGCTCACACGGTCTGGC
Found at i:46359580 original size:31 final size:31
Alignment explanation
Indices: 46359542--46359604 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
46359532 ACATACCAAG
46359542 TATACCAAGATAAGGCATATAAAGCCTTGGT
1 TATACCAAGATAAGGCATATAAAGCCTTGGT
46359573 TATACCAAGATAAGGCATATAAAGCCTTGGT
1 TATACCAAGATAAGGCATATAAAGCCTTGGT
46359604 T
1 T
46359605 GATGGTTTGA
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:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (31 bp):
TATACCAAGATAAGGCATATAAAGCCTTGGT
Found at i:46364695 original size:40 final size:40
Alignment explanation
Indices: 46364640--46364718 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
46364630 ATAGGTATAA
46364640 GTTTGATTCTCTTTCACGAAACCAGTTTTCCTCTCTAAAT
1 GTTTGATTCTCTTTCACGAAACCAGTTTTCCTCTCTAAAT
46364680 GTTTGATTCTCTTTCACGAAACCAGTTTTCCTCTCTAAA
1 GTTTGATTCTCTTTCACGAAACCAGTTTTCCTCTCTAAA
46364719 CATCAAAGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (40 bp):
GTTTGATTCTCTTTCACGAAACCAGTTTTCCTCTCTAAAT
Found at i:46366527 original size:8 final size:9
Alignment explanation
Indices: 46366502--46366635 Score: 80
Period size: 9 Copynumber: 14.7 Consensus size: 9
46366492 ATTATTTTAG
46366502 AAAATTTTT
1 AAAATTTTT
46366511 AAAATTTTT
1 AAAATTTTT
46366520 AAAA-TTTT
1 AAAATTTTT
**
46366528 AATTTTTTT
1 AAAATTTTT
*
46366537 ATATATTTTT
1 A-AAATTTTT
*
46366547 AGAATTTTT
1 AAAATTTTT
46366556 ATAATATTTTT
1 A-AA-ATTTTT
* *
46366567 AAAA-ATAT
1 AAAATTTTT
46366575 AAAA--TTT
1 AAAATTTTT
*
46366582 GAAATTTTT
1 AAAATTTTT
46366591 ATAAATATTTT
1 A-AAAT-TTTT
* *
46366602 GAAA-TTTA
1 AAAATTTTT
46366610 AAAATTATTTT
1 AAAA-T-TTTT
*
46366621 AAAATTTTA
1 AAAATTTTT
46366630 AAAATT
1 AAAATT
46366636 ATTTTAATTT
Statistics
Matches: 98, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
7 5 0.05
8 18 0.18
9 38 0.39
10 19 0.19
11 18 0.18
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
AAAATTTTT
Found at i:46366635 original size:55 final size:55
Alignment explanation
Indices: 46366497--46366632 Score: 136
Period size: 54 Copynumber: 2.5 Consensus size: 55
46366487 AAATTATTAT
* * * * *
46366497 TTTAGAAA-ATTTTTAAAATTTTTAAAATTTTAATTTTTTTATATATTTTTAGAAT
1 TTTAAAAATATTTTTAAAA-TTTTAAAATTTAAATTTTTATAAATATTTTTAGAAA
* * * *
46366552 TTTTATAATATTTTTAAAAATATAAAATTTGAAATTTTTATAAATA-TTTT-GAAA
1 TTTAAAAATATTTTTAAAATTTTAAAATTT-AAATTTTTATAAATATTTTTAGAAA
46366606 TTTAAAAAT-TATTTTAAAATTTTAAAA
1 TTTAAAAATAT-TTTTAAAATTTTAAAA
46366633 ATTATTTTAA
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
53 1 0.02
54 24 0.37
55 18 0.28
56 22 0.34
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (55 bp):
TTTAAAAATATTTTTAAAATTTTAAAATTTAAATTTTTATAAATATTTTTAGAAA
Found at i:46366647 original size:19 final size:20
Alignment explanation
Indices: 46366578--46366647 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
46366568 AAAATATAAA
* *
46366578 ATTTGAAATTTTTATAAA-T
1 ATTTTAAATTTTTAAAAATT
46366597 ATTTTGAAA--TTTAAAAATT
1 ATTTT-AAATTTTTAAAAATT
*
46366616 ATTTTAAAATTTTAAAAATT
1 ATTTTAAATTTTTAAAAATT
46366636 ATTTT-AATTTTT
1 ATTTTAAATTTTT
46366648 TTGCAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
18 10 0.23
19 16 0.36
20 18 0.41
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
ATTTTAAATTTTTAAAAATT
Found at i:46366648 original size:20 final size:20
Alignment explanation
Indices: 46366587--46366642 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
46366577 AATTTGAAAT
* *
46366587 TTTTATAAA-TATTTTGAAA
1 TTTTAAAAATTATTTTAAAA
46366606 -TTTAAAAATTATTTTAAAA
1 TTTTAAAAATTATTTTAAAA
46366625 TTTTAAAAATTATTTTAA
1 TTTTAAAAATTATTTTAA
46366643 TTTTTTTGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 7 0.21
19 9 0.27
20 17 0.52
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTTAAAAATTATTTTAAAA
Found at i:46367250 original size:6 final size:6
Alignment explanation
Indices: 46367233--46367261 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
46367223 ATTGTAGGTG
46367233 AAAATT -AAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT
46367262 TTATGCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AAAATT
Found at i:46368313 original size:9 final size:8
Alignment explanation
Indices: 46368297--46368322 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
46368287 TAGATATATA
46368297 TATTTTTT
1 TATTTTTT
46368305 TATTTTTT
1 TATTTTTT
46368313 TATTTTTT
1 TATTTTTT
46368321 TA
1 TA
46368323 ACAATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TATTTTTT
Found at i:46371604 original size:18 final size:18
Alignment explanation
Indices: 46371581--46371624 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
46371571 AGGGTTAACT
46371581 GAAAGTGACAAACAAATA
1 GAAAGTGACAAACAAATA
*
46371599 GAAAGTGACAGACAAATA
1 GAAAGTGACAAACAAATA
46371617 GAAAGTGA
1 GAAAGTGA
46371625 GTTTTTGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.57, C:0.09, G:0.23, T:0.11
Consensus pattern (18 bp):
GAAAGTGACAAACAAATA
Found at i:46373976 original size:16 final size:16
Alignment explanation
Indices: 46373955--46373988 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
46373945 GATGGATAAA
*
46373955 GGATGTCAGTTGGCAT
1 GGATGTCAATTGGCAT
46373971 GGATGTCAATTGGCAT
1 GGATGTCAATTGGCAT
46373987 GG
1 GG
46373989 TCATAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.38, T:0.29
Consensus pattern (16 bp):
GGATGTCAATTGGCAT
Found at i:46375121 original size:18 final size:19
Alignment explanation
Indices: 46375098--46375137 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
46375088 GAGATAAACT
*
46375098 AATTAATTAATT-TATCAA
1 AATTAATTAATTAAATCAA
46375116 AATTAATTAATTAAATCAA
1 AATTAATTAATTAAATCAA
46375135 AAT
1 AAT
46375138 AAAACCATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTAATTAATTAAATCAA
Found at i:46375371 original size:3 final size:3
Alignment explanation
Indices: 46375365--46375407 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
46375355 TTGGGGGGTT
46375365 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
46375408 GGTATTTGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46376237 original size:18 final size:18
Alignment explanation
Indices: 46376211--46376259 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
46376201 CCAAAATATA
*
46376211 TTTTGAAAATAATTAATT
1 TTTTAAAAATAATTAATT
*
46376229 TTTTAAAAAAAATTAATT
1 TTTTAAAAATAATTAATT
*
46376247 TATATAAAAATAA
1 T-TTTAAAAATAA
46376260 ATTCATCTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
TTTTAAAAATAATTAATT
Found at i:46376713 original size:15 final size:16
Alignment explanation
Indices: 46376680--46376713 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46376670 AAAATATTTG
46376680 AAAATAATTTCATGAA
1 AAAATAATTTCATGAA
* *
46376696 AAAATGATTTCGTGAA
1 AAAATAATTTCATGAA
46376712 AA
1 AA
46376714 CGGCTCTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (16 bp):
AAAATAATTTCATGAA
Found at i:46381530 original size:17 final size:18
Alignment explanation
Indices: 46381494--46381539 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
46381484 GCCTCAAAGC
*
46381494 TTCCAGGAATCTATTTTT
1 TTCCAAGAATCTATTTTT
46381512 TTCCAAGAATCTA-TTTT
1 TTCCAAGAATCTATTTTT
*
46381529 TTCCAACAATC
1 TTCCAAGAATC
46381540 CCCCACATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (18 bp):
TTCCAAGAATCTATTTTT
Found at i:46384626 original size:56 final size:56
Alignment explanation
Indices: 46384562--46384684 Score: 228
Period size: 56 Copynumber: 2.2 Consensus size: 56
46384552 AGGAATATGC
46384562 TCTAAATTAATTAATCTACATAAAATATCATAATTAACATGTCTGAGCCTACCATG
1 TCTAAATTAATTAATCTACATAAAATATCATAATTAACATGTCTGAGCCTACCATG
46384618 TCTAAATTAATTAATCTACATAAAATATCATAATTAACATGTCTGAGCCTACCATG
1 TCTAAATTAATTAATCTACATAAAATATCATAATTAACATGTCTGAGCCTACCATG
*
46384674 CCATAAATTAA
1 TC-TAAATTAA
46384685 ATGACTTAAG
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
56 57 0.88
57 8 0.12
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (56 bp):
TCTAAATTAATTAATCTACATAAAATATCATAATTAACATGTCTGAGCCTACCATG
Found at i:46386359 original size:76 final size:78
Alignment explanation
Indices: 46386258--46386449 Score: 264
Period size: 76 Copynumber: 2.5 Consensus size: 78
46386248 ACAGAAGTCG
* * * *
46386258 AACAAATCCTGCTAAATGAAAGGAATAAAATCTTGAAAC-ATAATTATTCAATTGA-TTTTGTTT
1 AACAAATCCTGTTAAATGACAGGAATAAAATCCTGAAACGA-AATTACTCAATTGATTTTTGTTT
*
46386321 GAAAC-AAAAATTA
65 GAAACAAAAAATCA
* * *
46386334 AACAAATCCTGTTAAACGACAGGAATAAAATCCTGAAACGAAATTGCTCAGTTGATTTTTGTTTG
1 AACAAATCCTGTTAAATGACAGGAATAAAATCCTGAAACGAAATTACTCAATTGATTTTTGTTTG
46386399 AAACAAAAAATCA
66 AAACAAAAAATCA
* *
46386412 AACAAATCCTGTTAAATGACAAGAATAAAATCGTGAAA
1 AACAAATCCTGTTAAATGACAGGAATAAAATCCTGAAA
46386450 TAGAATTGTT
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
76 46 0.45
77 14 0.14
78 42 0.41
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (78 bp):
AACAAATCCTGTTAAATGACAGGAATAAAATCCTGAAACGAAATTACTCAATTGATTTTTGTTTG
AAACAAAAAATCA
Found at i:46386457 original size:78 final size:75
Alignment explanation
Indices: 46386258--46386465 Score: 256
Period size: 78 Copynumber: 2.7 Consensus size: 75
46386248 ACAGAAGTCG
* * * * *
46386258 AACAAATCCTGCTAAATGA-AAGGAATAAAATCTTGAAACATAATTATTCAATTGATTTTGTTTG
1 AACAAATCCTGTTAAATGACAA-GAATAAAATCCTGAAA-AGAATTGTTCAGTTGATTTTGTTTG
*
46386322 AAACAAAAATTA
64 AAACAAAAATCA
* * * *
46386334 AACAAATCCTGTTAAACGACAGGAATAAAATCCTGAAACGAAATTGCTCAGTTGATTTTTGTTTG
1 AACAAATCCTGTTAAATGACAAGAATAAAATCCTGAAAAG-AATTGTTCAGTTGA-TTTTGTTTG
46386399 AAACAAAAAATCA
64 AAAC-AAAAATCA
*
46386412 AACAAATCCTGTTAAATGACAAGAATAAAATCGTGAAATAGAATTGTTCAGTTG
1 AACAAATCCTGTTAAATGACAAGAATAAAATCCTGAAA-AGAATTGTTCAGTTG
46386466 TTCTTGTATT
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
76 43 0.38
77 14 0.12
78 54 0.48
79 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.29
Consensus pattern (75 bp):
AACAAATCCTGTTAAATGACAAGAATAAAATCCTGAAAAGAATTGTTCAGTTGATTTTGTTTGAA
ACAAAAATCA
Found at i:46389722 original size:27 final size:25
Alignment explanation
Indices: 46389685--46389796 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 25
46389675 AGCATGGCTG
*
46389685 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAG-CA
*
46389711 CCAGATACAGATAATCATGGCAGAGCTA
1 CCAGA-ACAGATAAT-GTGGCAGAGC-A
*
46389739 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAG-CA
* *
46389766 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAG-CA
46389793 CCAG
1 CCAG
46389797 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
26 6 0.08
27 51 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (25 bp):
CCAGAACAGATAATGTGGCAGAGCA
Found at i:46389786 original size:54 final size:54
Alignment explanation
Indices: 46389685--46389796 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
46389675 AGCATGGCTG
* * *
46389685 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCATGGCAGAGCTA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
* ** *
46389739 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
46389793 CCAG
1 CCAG
46389797 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
Found at i:46392515 original size:10 final size:10
Alignment explanation
Indices: 46392488--46392546 Score: 84
Period size: 10 Copynumber: 5.9 Consensus size: 10
46392478 TTAAACTCTA
46392488 AAAGATAAAT
1 AAAGATAAAT
46392498 ACAA-ATAAAT
1 A-AAGATAAAT
*
46392508 AAAGATAATT
1 AAAGATAAAT
*
46392518 AAAGATAATT
1 AAAGATAAAT
46392528 AAAGATAAAT
1 AAAGATAAAT
46392538 AAAGATAAA
1 AAAGATAAA
46392547 AGCTAAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:46393618 original size:13 final size:13
Alignment explanation
Indices: 46393600--46393624 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46393590 GGGTTAACTC
46393600 TATTAATCATAAT
1 TATTAATCATAAT
46393613 TATTAATCATAA
1 TATTAATCATAA
46393625 CTAACTCATT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TATTAATCATAAT
Found at i:46398996 original size:47 final size:47
Alignment explanation
Indices: 46398945--46399152 Score: 353
Period size: 47 Copynumber: 4.4 Consensus size: 47
46398935 ATTCTATGAG
*
46398945 ATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTA
1 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTA
*
46398992 ATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTA
1 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTA
* * *
46399039 ATGAATGTGAACATGTATATATGTGATAAGGCTGAATGGCCAATGTG
1 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTA
* *
46399086 ATGAATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTG
1 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTA
46399133 ATGAATGTGAACATGCATAT
1 ATGAATGTGAACATGCATAT
46399153 NNNNNNNNNN
Statistics
Matches: 154, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 154 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (47 bp):
ATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTA
Found at i:46401296 original size:22 final size:22
Alignment explanation
Indices: 46401269--46401440 Score: 79
Period size: 22 Copynumber: 7.4 Consensus size: 22
46401259 ACATGCATAT
46401269 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
46401291 ATGTGATGAATG-TGAACAT-GCACA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
46401315 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* *
46401338 ATGTGATAAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
46401360 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
* *
46401385 ATGTGATGAATG-TGAACAT-GCACA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
* *
46401409 TATTTGATAAGGCCGAATGGCTA
1 -ATGTGATAAGGCCGAATGGCCA
46401432 ATGTGATAA
1 ATGTGATAA
46401441 ATGTGAACAT
Statistics
Matches: 112, Mismatches: 15, Indels: 46
0.65 0.09 0.27
Matches are distributed among these distances:
22 33 0.29
23 27 0.24
24 28 0.25
25 24 0.21
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:46401504 original size:47 final size:47
Alignment explanation
Indices: 46400823--46401528 Score: 923
Period size: 47 Copynumber: 14.8 Consensus size: 47
46400813 NNNNNNNNNN
* *
46400823 GTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGACGAAT
1 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* *
46400870 GTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGACGAAT
1 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* * *
46400917 GTGGACATGCACATATGTGATAAGGCCGAATGGCCAATGTGACGAAT
1 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* *
46400964 GTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGAGGAAT
1 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* *
46401011 GTGAACATACACATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* *
46401058 GTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAAC
1 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* * **
46401105 GTGGAA-GTGTATATGCGTGATAAGGCCGAATGGCCAATGTGGCCAATGTGATAAAT
1 GT-GAACATGCATATATGTGATAAGGCCGAATGGCCAATGT-G---A--TG---AAT
* *
46401161 GTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAAC
1 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* * * * *
46401208 GTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCCAATGTGACGAAT
1 GT-GAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
46401255 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* *
46401302 GTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAAT
1 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
*
46401349 GTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* * * *
46401396 GTGAACATGCACATATTTGATAAGGCCGAATGGCTAATGTGATAAAT
1 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* * *
46401443 GTGAACATGCATATATGTGATAAGGCAGAATGGCCAATATGATGAAC
1 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* * * * * *
46401490 GTGGAA-GTGTATATATGTGGTAAAGCCGGATGGCTAATG
1 GT-GAACATGCATATATGTGATAAGGCCGAATGGCCAATG
46401529 CGAAATGCGT
Statistics
Matches: 585, Mismatches: 60, Indels: 28
0.87 0.09 0.04
Matches are distributed among these distances:
46 3 0.01
47 529 0.90
48 10 0.02
50 2 0.00
51 1 0.00
52 1 0.00
53 2 0.00
55 4 0.01
56 33 0.06
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (47 bp):
GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
Found at i:46401555 original size:46 final size:48
Alignment explanation
Indices: 46401501--46401601 Score: 125
Period size: 46 Copynumber: 2.1 Consensus size: 48
46401491 TGGAAGTGTA
** *
46401501 TATATGTGGTAAAGCCGGATGGCTAATGCGAAATGCGTATGAGATG-G
1 TATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATGTG
* * * *
46401548 -ATATGTGGTAAGGCCAAATGGCTAATGTGAGATATGTATGAGATGTG
1 TATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATGTG
46401595 TATATGT
1 TATATGT
46401602 ATATATTATG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 38 0.84
47 1 0.02
48 6 0.13
ACGTcount: A:0.31, C:0.08, G:0.32, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATGTG
Found at i:46402992 original size:17 final size:17
Alignment explanation
Indices: 46402970--46403059 Score: 62
Period size: 17 Copynumber: 5.3 Consensus size: 17
46402960 CTTAGTGGTG
46402970 AACCCTATGGTATGTGA
1 AACCCTATGGTATGTGA
* *
46402987 AACCCTTCATAGT-GGTG-
1 AACCC-T-ATGGTATGTGA
**
46403004 AACCCTATGGTATACGA
1 AACCCTATGGTATGTGA
*
46403021 AATCCCT-T-GTAGTGTCA
1 AA-CCCTATGGTA-TGTGA
*
46403038 AACCCTATGGTATGGGA
1 AACCCTATGGTATGTGA
46403055 AACCC
1 AACCC
46403060 CCTGTAGTGG
Statistics
Matches: 54, Mismatches: 11, Indels: 16
0.67 0.14 0.20
Matches are distributed among these distances:
15 4 0.07
16 9 0.17
17 26 0.48
18 11 0.20
19 4 0.07
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (17 bp):
AACCCTATGGTATGTGA
Found at i:46403093 original size:34 final size:33
Alignment explanation
Indices: 46402949--46403123 Score: 165
Period size: 34 Copynumber: 5.2 Consensus size: 33
46402939 AGTAGATAAC
46402949 ATGCGAAACCCCT-TAGTGGTGAACCCTATGGT
1 ATGCGAAACCCCTATAGTGGTGAACCCTATGGT
* *
46402981 ATGTGAAACCCTTCATAGTGGTGAACCCTATGGT
1 ATGCGAAACCCCT-ATAGTGGTGAACCCTATGGT
* * * *
46403015 ATACGAAATCCCTTGTAGT-GTCAAACCCTATGGT
1 ATGCGAAA-CCCCTATAGTGGT-GAACCCTATGGT
* * *
46403049 ATGGGAAACCCCCTGTAGTGGTGAACCCTATGAT
1 ATGCGAAA-CCCCTATAGTGGTGAACCCTATGGT
* **
46403083 ATGCAGAACCCCCTATAGTGGCAAACCCTATGTTGT
1 ATGC-GAAACCCCTATAGTGGTGAACCCTATG--GT
46403119 ATGCG
1 ATGCG
46403124 GACCTATATG
Statistics
Matches: 117, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
32 11 0.09
33 2 0.02
34 88 0.75
35 11 0.09
36 5 0.04
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (33 bp):
ATGCGAAACCCCTATAGTGGTGAACCCTATGGT
Found at i:46403199 original size:22 final size:22
Alignment explanation
Indices: 46403174--46403220 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
46403164 TGCAAGCTGA
46403174 TATGTTATACCATGCAAAC-ACT
1 TATGTTA-ACCATGCAAACTACT
* *
46403196 TATGTTAGCTATGCAAACTACT
1 TATGTTAACCATGCAAACTACT
46403218 TAT
1 TAT
46403221 ATGTTATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (22 bp):
TATGTTAACCATGCAAACTACT
Found at i:46403585 original size:27 final size:26
Alignment explanation
Indices: 46403471--46403594 Score: 81
Period size: 27 Copynumber: 4.7 Consensus size: 26
46403461 CCTTTAATGT
* *
46403471 GAGCCTGTGTGCGAACCCACTATGTGC
1 GAGCCTGTGTGTGAACCC-CTGTGTGC
* * * *
46403498 GAGCCTATGAGTGAA-CCCTTTGATAC
1 GAGCCTGTGTGTGAACCCCTGTG-TGC
* * *
46403524 AAGCTTGTGAGCT-AACCCCTGTGTGC
1 GAGCCTGTGTG-TGAACCCCTGTGTGC
* * *
46403550 AAACTTGTGTGTGAACCCCTTGTGTGC
1 GAGCCTGTGTGTGAACCCC-TGTGTGC
*
46403577 GAGCCTGTGTGTCAACCC
1 GAGCCTGTGTGTGAACCC
46403595 TTTACTTGTG
Statistics
Matches: 76, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
25 5 0.07
26 31 0.41
27 40 0.53
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (26 bp):
GAGCCTGTGTGTGAACCCCTGTGTGC
Found at i:46403804 original size:23 final size:23
Alignment explanation
Indices: 46403778--46403840 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
46403768 GCGAGCCTTA
46403778 GTTAATACATGTAAACCTAAATT
1 GTTAATACATGTAAACCTAAATT
*
46403801 GTTAATAAATGTGAAA-CTAAATT
1 GTTAATACATGT-AAACCTAAATT
* * *
46403824 GCTAATGCATGTGAACC
1 GTTAATACATGTAAACC
46403841 CTAGGTGGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 2 0.06
23 28 0.85
24 3 0.09
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (23 bp):
GTTAATACATGTAAACCTAAATT
Found at i:46410600 original size:25 final size:27
Alignment explanation
Indices: 46410563--46410615 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
46410553 TCAAACATGC
46410563 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
46410589 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
46410615 A
1 A
46410616 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Done.