Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 164 of 345
Found at i:45652453 original size:34 final size:33
Alignment explanation
Indices: 45652374--45652467 Score: 102
Period size: 34 Copynumber: 2.8 Consensus size: 33
45652364 ATTGCATACT
* *
45652374 ATACTGATTCTGTAATGGGCTTAGG-CCCACTG
1 ATACTGATTCTGAAATGGGCTAAGGCCCCACTG
* *
45652406 ATACTG-TTACTGAAATAGGCTCAGGCCCACACTG
1 ATACTGATT-CTGAAATGGGCTAAGGCCC-CACTG
* *
45652440 TTTCTGATTCTGAAATGGGCTAAGGCCC
1 ATACTGATTCTGAAATGGGCTAAGGCCC
45652468 TAACTGAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
31 2 0.04
32 19 0.37
33 2 0.04
34 26 0.51
35 2 0.04
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (33 bp):
ATACTGATTCTGAAATGGGCTAAGGCCCCACTG
Found at i:45653311 original size:45 final size:45
Alignment explanation
Indices: 45653222--45653358 Score: 141
Period size: 45 Copynumber: 3.0 Consensus size: 45
45653212 ATTTACCATA
* * * * ***
45653222 ATGCTATAACGTCTTTCAGTCATGGTCTTACTCACTTCCGTCATG
1 ATGCCATAACGTCTTTAAGTTATGGTCTTACTCATTTGAATCATG
*
45653267 ATGCCATAGCGTCTTTAAGTTATGGTCTTACTCATTTGAATCATG
1 ATGCCATAACGTCTTTAAGTTATGGTCTTACTCATTTGAATCATG
* * * **
45653312 ATGTCATAACATCTTTCAA-CTATGGTCTTACTTGTTTGAATCATG
1 ATGCCATAACGTCTTT-AAGTTATGGTCTTACTCATTTGAATCATG
45653357 AT
1 AT
45653359 TAACCTACTC
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 75 0.97
46 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (45 bp):
ATGCCATAACGTCTTTAAGTTATGGTCTTACTCATTTGAATCATG
Found at i:45656705 original size:27 final size:27
Alignment explanation
Indices: 45656668--45656806 Score: 174
Period size: 27 Copynumber: 5.1 Consensus size: 27
45656658 AGCATGGCTG
* *
45656668 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
45656694 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
45656722 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
45656749 CCAGAGCAGATATATGTGGTAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * * *
45656776 CCAGATCAGATATTTATGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
45656803 CCAG
1 CCAG
45656807 GACGCTTCCT
Statistics
Matches: 101, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.05
27 79 0.78
28 17 0.17
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:45658420 original size:26 final size:26
Alignment explanation
Indices: 45658390--45658471 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
45658380 TGAAATGCCC
45658390 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
45658416 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
45658442 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45658468 ATCA
1 ATCA
45658472 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45660637 original size:47 final size:46
Alignment explanation
Indices: 45660586--45660730 Score: 195
Period size: 47 Copynumber: 3.1 Consensus size: 46
45660576 TGAGACACTA
*
45660586 TGTGTCGACTACTGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTT
1 TGTGTC-ACTAATGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTT
*
45660633 TGTGT-ACTATAATGTTAAAGTTCTGGATTTGTTCCGATGAAGTACTT
1 TGTGTCAC--TAATGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTT
* *
45660680 TGTGT-ACTGTAATGTTAAAGTTCCGGATTTGTTCCGATGAAGCACTA
1 TGTGTCAC--TAATGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTT
45660727 TGTG
1 TGTG
45660731 CTTATCCCGG
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
45 2 0.02
47 88 0.98
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.39
Consensus pattern (46 bp):
TGTGTCACTAATGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTT
Found at i:45666257 original size:27 final size:27
Alignment explanation
Indices: 45666220--45666385 Score: 180
Period size: 27 Copynumber: 6.1 Consensus size: 27
45666210 AGCATGGCTG
* *
45666220 CCAG-TACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
45666246 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
45666274 CCAGA-ATAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
45666301 CCAGAT-CAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
* *
45666328 CCAGA-GCAAATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
* * *
45666355 CCAGAT-CAGATATTTATGGCATAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
45666382 CCAG
1 CCAG
45666386 GACGCTTCCT
Statistics
Matches: 123, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.05
27 98 0.80
28 19 0.15
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:45666317 original size:54 final size:54
Alignment explanation
Indices: 45666220--45666385 Score: 226
Period size: 54 Copynumber: 3.1 Consensus size: 54
45666210 AGCATGGCTG
* * *
45666220 CCAGTACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
*
45666274 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
* * * ** *
45666328 CCAGAGCAAATATATGTGGCAGAGCCACCAGATCAGATATTTATGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
45666382 CCAG
1 CCAG
45666386 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 82 0.82
55 18 0.18
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:45666347 original size:81 final size:81
Alignment explanation
Indices: 45666226--45666385 Score: 209
Period size: 81 Copynumber: 2.0 Consensus size: 81
45666216 GCTGCCAGTA
* * *
45666226 CAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAGAAT-AGATATATG
1 CAGATAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCACCAG-ATCAGATATATA
45666290 TGGCAGAGCCACCAGAT
65 TGGCAGAGCCACCAGAT
* * *
45666307 CAGATAATCGTGGCAGAGCCACCAGA-GCAAATATAT-GTGGCAGAGCCACCAGATCAGATATTT
1 CAGATAAT-GTGACAGAGCCACCAGATACAAATA-ATCGTGGCAGAGCCACCAGATCAGATATAT
*
45666370 ATGGCATAGCCACCAG
64 ATGGCAGAGCCACCAG
45666386 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
80 2 0.03
81 50 0.72
82 17 0.25
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (81 bp):
CAGATAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCACCAGATCAGATATATAT
GGCAGAGCCACCAGAT
Found at i:45667999 original size:26 final size:26
Alignment explanation
Indices: 45667968--45668073 Score: 194
Period size: 26 Copynumber: 4.1 Consensus size: 26
45667958 TGAAATGTCC
45667968 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45667994 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
45668020 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
45668046 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45668072 AT
1 AT
45668074 TAATTTGTAC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45673011 original size:5 final size:5
Alignment explanation
Indices: 45673001--45673028 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
45672991 CTGTGTGTTC
45673001 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
45673029 TCACAGTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:45681265 original size:28 final size:28
Alignment explanation
Indices: 45681196--45681296 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
45681186 GACAAGATTG
* * * *
45681196 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
45681226 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
45681254 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
45681283 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
45681297 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:45686049 original size:29 final size:28
Alignment explanation
Indices: 45686016--45686119 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
45686006 GTGACGAGAT
* *
45686016 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCT-GAAATGTA
**
45686045 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGAGCT-GAAATGTA
* * * *
45686074 TGGCACTATGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTGAAAT-GTA
45686103 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
45686120 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTGAAATGTA
Found at i:45693950 original size:29 final size:29
Alignment explanation
Indices: 45693917--45694048 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
45693907 GTGACGAGAT
45693917 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
45693946 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
45693975 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
45694004 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
45694033 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
45694049 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:45710077 original size:4 final size:4
Alignment explanation
Indices: 45710070--45710105 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
45710060 ACTTGCTTGA
45710070 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
45710106 ATGCATGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:45722719 original size:41 final size:41
Alignment explanation
Indices: 45722672--45722756 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
45722662 GGAGAGAAAA
45722672 TCTGGAAATAAGAATCATTAATTAGCCTAATTCTTTAATGT
1 TCTGGAAATAAGAATCATTAATTAGCCTAATTCTTTAATGT
45722713 TCTGGAAATAAGAATCATTAATTAGCCTAATTCTTTAATGT
1 TCTGGAAATAAGAATCATTAATTAGCCTAATTCTTTAATGT
45722754 TCT
1 TCT
45722757 CAATTGAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (41 bp):
TCTGGAAATAAGAATCATTAATTAGCCTAATTCTTTAATGT
Found at i:45729641 original size:32 final size:32
Alignment explanation
Indices: 45729605--45729670 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
45729595 GCCAAGTTAG
*
45729605 CTTATACATACCATTATACAAAAATGATTTTA
1 CTTATACATACCATTATACAAAAATGAGTTTA
45729637 CTTATACATACCATTATACAAAAATGAGTTTA
1 CTTATACATACCATTATACAAAAATGAGTTTA
45729669 CT
1 CT
45729671 ATTTCTTCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (32 bp):
CTTATACATACCATTATACAAAAATGAGTTTA
Found at i:45732433 original size:47 final size:48
Alignment explanation
Indices: 45732382--45732475 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 48
45732372 TAGTCTATCG
*
45732382 ATGTATACT-ACT-ATCTTTCACCACACTAATAGGCACATAAGTGCATC
1 ATGTATA-TAACTAATCTTTCACCACACTAATAGGCACACAAGTGCATC
* * *
45732429 ATGTATATAAAGTAATCTTTCACCACACTGATGGGCACACAAGTGCA
1 ATGTATAT-AACTAATCTTTCACCACACTAATAGGCACACAAGTGCA
45732476 AATAATAATC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
46 1 0.03
47 7 0.17
48 2 0.05
49 30 0.75
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (48 bp):
ATGTATATAACTAATCTTTCACCACACTAATAGGCACACAAGTGCATC
Found at i:45734328 original size:22 final size:23
Alignment explanation
Indices: 45734300--45734344 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
45734290 TAGTATGTTT
45734300 TAAATGCTTTAATATAA-TATGA
1 TAAATGCTTTAATATAATTATGA
*
45734322 TAAATGCTTTATTATAATTATGA
1 TAAATGCTTTAATATAATTATGA
45734345 ATTATATGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (23 bp):
TAAATGCTTTAATATAATTATGA
Found at i:45734643 original size:51 final size:51
Alignment explanation
Indices: 45734552--45734651 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 51
45734542 AGATATGTGG
* * *
45734552 CATCCGAGCTCGTTGAGAGGTCTGAGTTTATGGTGGATGTGATT-CATGTAA
1 CATCCGAGCTCGTTGAGAGGTCTGAGTTCATAGTGAATGTG-TTACATGTAA
45734603 CATCCGAGCTCGTTGAGAGGTAC-GAGTTCATTAGT-AATGTGTTACATGT
1 CATCCGAGCTCGTTGAGAGGT-CTGAGTTCA-TAGTGAATGTGTTACATGT
45734652 TATGTGGTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
50 2 0.05
51 37 0.86
52 4 0.09
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (51 bp):
CATCCGAGCTCGTTGAGAGGTCTGAGTTCATAGTGAATGTGTTACATGTAA
Found at i:45737560 original size:66 final size:65
Alignment explanation
Indices: 45737423--45737629 Score: 208
Period size: 66 Copynumber: 3.2 Consensus size: 65
45737413 ATATAGTTCG
* * * * *
45737423 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGT-TTATCTCG
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACA-TCATATCTCG
45737484 TA
64 TA
* * * *
45737486 GCTCTCTTGTCTACATGGTGCCTTCACTTGGAACCACGCATGCGACCTAGCTACAT-ATATCTCG
1 GCTCTCTTGTCTACATGGTG--TACACATAGAACCACCCATGCGACCTAGCTACATCATATCTCG
45737550 TA
64 TA
* * *
45737552 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATCAT-A--TCTC
45737617 GTA
63 GTA
45737620 GCTCTCTTGT
1 GCTCTCTTGT
45737630 ACACATGATG
Statistics
Matches: 121, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.15
64 28 0.23
65 25 0.21
66 31 0.26
67 2 0.02
68 16 0.13
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATCATATCTCGTA
Found at i:45738373 original size:30 final size:30
Alignment explanation
Indices: 45738339--45738399 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45738329 TCCTTAACTC
*
45738339 AAACTTTGGGAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
45738369 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
45738399 A
1 A
45738400 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:45739508 original size:28 final size:29
Alignment explanation
Indices: 45739468--45739523 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
45739458 CCAGGGTTTT
* *
45739468 AGACACTGGCGTG-TCTAGGCCGTGTGAG
1 AGACACAGACGTGTTCTAGGCCGTGTGAG
* *
45739496 AGACACAGACGTGTTCTCGGTCGTGTGA
1 AGACACAGACGTGTTCTAGGCCGTGTGA
45739524 AAACCCTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.20, C:0.21, G:0.36, T:0.23
Consensus pattern (29 bp):
AGACACAGACGTGTTCTAGGCCGTGTGAG
Found at i:45740756 original size:49 final size:49
Alignment explanation
Indices: 45740698--45740797 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
45740688 AACTCATAAT
45740698 TAACAACACTTTAACTAATTAATTTTGACACATTCATTGTAACACCCCA
1 TAACAACACTTTAACTAATTAATTTTGACACATTCATTGTAACACCCCA
45740747 TAACAACACTTTAACTAATTAATTTTGACACATTCATTGTAACACCCCA
1 TAACAACACTTTAACTAATTAATTTTGACACATTCATTGTAACACCCCA
45740796 TA
1 TA
45740798 CCTGACTCGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (49 bp):
TAACAACACTTTAACTAATTAATTTTGACACATTCATTGTAACACCCCA
Found at i:45742702 original size:13 final size:13
Alignment explanation
Indices: 45742684--45742708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45742674 TAAACTCTGT
45742684 TTTCAAGTTATGG
1 TTTCAAGTTATGG
45742697 TTTCAAGTTATG
1 TTTCAAGTTATG
45742709 TTTTATATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (13 bp):
TTTCAAGTTATGG
Found at i:45745835 original size:17 final size:18
Alignment explanation
Indices: 45745793--45745841 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
45745783 AGTTGAAAAG
45745793 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
45745812 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
45745829 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
45745842 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:45746730 original size:40 final size:40
Alignment explanation
Indices: 45746664--45746830 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
45746654 AAATTGAATG
* * *
45746664 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
45746703 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
45746743 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
45746783 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
45746823 ATATCCGG
1 ATATCCGG
45746831 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:45756857 original size:22 final size:22
Alignment explanation
Indices: 45756831--45756874 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
45756821 GATCAGAAGG
45756831 TTTCGACTAACAGAAGAAGCAT
1 TTTCGACTAACAGAAGAAGCAT
*
45756853 TTTCGGCTAACAGAAGAAGCAT
1 TTTCGACTAACAGAAGAAGCAT
45756875 AAGGGAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (22 bp):
TTTCGACTAACAGAAGAAGCAT
Found at i:45763013 original size:29 final size:29
Alignment explanation
Indices: 45762989--45763082 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
45762979 TCGCACACCC
*
45762989 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
45763018 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
45763047 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
45763076 AGTGCCA
1 AGTGCCA
45763083 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:45763014 original size:58 final size:58
Alignment explanation
Indices: 45762952--45763082 Score: 174
Period size: 58 Copynumber: 2.3 Consensus size: 58
45762942 ATTTAAGCCC
* * * *
45762952 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
45763010 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
45763068 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
45763083 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 63 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:45770850 original size:29 final size:29
Alignment explanation
Indices: 45770826--45770919 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
45770816 TCGCACACCC
*
45770826 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
45770855 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
45770884 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
45770913 AGTGCCA
1 AGTGCCA
45770920 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:45770851 original size:58 final size:58
Alignment explanation
Indices: 45770789--45770919 Score: 174
Period size: 58 Copynumber: 2.3 Consensus size: 58
45770779 ATTTAAGCCC
* * * *
45770789 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
45770847 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
45770905 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
45770920 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 63 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:45773680 original size:43 final size:42
Alignment explanation
Indices: 45773618--45773782 Score: 181
Period size: 43 Copynumber: 3.9 Consensus size: 42
45773608 TTGTACGCCA
* *
45773618 ATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCC
1 ATGTCCCAGACATGGTCTTACATGAAATCAAATATCGATGCC
* *
45773660 ACTGTCCCACACAAGGTCTTACATGAAATCAAATA-CGATGCC
1 A-TGTCCCAGACATGGTCTTACATGAAATCAAATATCGATGCC
* * * *
45773702 GATGTCCCAGACTTGGTCTTACACGTAAATCATAA-GTCCATGCC
1 -ATGTCCCAGACATGGTCTTACATG-AAATCA-AATATCGATGCC
* *
45773746 AATGTCCCAGACGTGGTCTTACATGAAATCATATATC
1 -ATGTCCCAGACATGGTCTTACATGAAATCAAATATC
45773783 AAAAATCCTA
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
42 28 0.27
43 44 0.43
44 30 0.29
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGTCCCAGACATGGTCTTACATGAAATCAAATATCGATGCC
Found at i:45773764 original size:86 final size:85
Alignment explanation
Indices: 45773618--45773776 Score: 221
Period size: 86 Copynumber: 1.9 Consensus size: 85
45773608 TTGTACGCCA
* * *
45773618 ATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCACACAAGGTCTTACA
1 ATGTCCCAGACGTGGTCTTACACGTAATCAAATATCCATGCCAATGTCCCACACAAGGTCTTACA
45773683 TGAAATCAAATACGATGCCG
66 TGAAATCAAATACGATGCCG
* * * **
45773703 ATGTCCCAGACTTGGTCTTACACGTAAATCATAA-GTCCATGCCAATGTCCCAGACGTGGTCTTA
1 ATGTCCCAGACGTGGTCTTACACGT-AATCA-AATATCCATGCCAATGTCCCACACAAGGTCTTA
45773767 CATGAAATCA
64 CATGAAATCA
45773777 TATATCAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 23 0.36
86 39 0.61
87 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (85 bp):
ATGTCCCAGACGTGGTCTTACACGTAATCAAATATCCATGCCAATGTCCCACACAAGGTCTTACA
TGAAATCAAATACGATGCCG
Found at i:45782706 original size:40 final size:40
Alignment explanation
Indices: 45782647--45782855 Score: 206
Period size: 40 Copynumber: 5.2 Consensus size: 40
45782637 TGAATGATAC
* *
45782647 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGCGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* *
45782687 CCGTGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* ** *
45782727 CCGGGCTAAGACCCGGAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * ** *
45782767 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGA-TTATAT
* * * * * *
45782808 TCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
45782848 CC-GGCTAA
1 CCGGGCTAA
45782856 ATTCCGAAGA
Statistics
Matches: 139, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
39 6 0.04
40 101 0.73
41 32 0.23
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:45784796 original size:43 final size:44
Alignment explanation
Indices: 45784730--45784896 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 44
45784720 CATACAATGC
* * * * *
45784730 CAAC-GTCCCAAACATGGTGTTACATGTAATCAAATATCGATGT
1 CAACTGTCCCAGACAGGGTCTTACACGAAATCAAATATCGATGT
45784773 C-ACTGTCCCAGACAGGGTCTTACACGAAATCAAATA-CGATGT
1 CAACTGTCCCAGACAGGGTCTTACACGAAATCAAATATCGATGT
* ** * *
45784815 CGA-TGTCCCAGACATAGTCTTACACGTAAATCATAA-GTCGATGC
1 CAACTGTCCCAGACAGGGTCTTACACG-AAATCA-AATATCGATGT
*
45784859 CAAC-GTCCCAGAC-GTGGTCTTACACGAAATCATATATC
1 CAACTGTCCCAGACAG-GGTCTTACACGAAATCAAATATC
45784897 AAAAATCCTA
Statistics
Matches: 102, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
42 31 0.30
43 43 0.42
44 28 0.27
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (44 bp):
CAACTGTCCCAGACAGGGTCTTACACGAAATCAAATATCGATGT
Found at i:45791355 original size:40 final size:39
Alignment explanation
Indices: 45791309--45791567 Score: 281
Period size: 40 Copynumber: 6.5 Consensus size: 39
45791299 GCTCGATTGT
* * *
45791309 CTTCGGGACATAGCCCGGTTATAGCAATTCGCACAAATGC
1 CTTCGGGACATAACCCGGTT-TAGTAACTCGCACAAATGC
* * *
45791349 CCTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAACCCGG-TTTAGTAACTCGCACAAATGC
*
45791389 CTTCGGGA-ATTAACCCAGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAACCC-GGTTTAGTAACTCGCACAAATGC
45791429 CTTCGGGA-ATTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAACCCGG-TTTAGTAACTCGCACAAATGC
45791469 CTTCGGGA-ATTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAACCCGG-TTTAGTAACTCGCACAAATGC
* * * * *
45791509 CTTCGGGACTTAACCCAGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAACCC-GGTTTAGTAAC-TCGCACAAATGC
* *
45791550 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAACCCGG
45791568 ATACCATTCA
Statistics
Matches: 194, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 164 0.85
41 29 0.15
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CTTCGGGACATAACCCGGTTTAGTAACTCGCACAAATGC
Found at i:45791428 original size:80 final size:80
Alignment explanation
Indices: 45791337--45791557 Score: 352
Period size: 80 Copynumber: 2.8 Consensus size: 80
45791327 TTATAGCAAT
* * *
45791337 TCGCACAAATGCCCTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTAA
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAA
45791402 CCCAGATTTAGTAAC
66 CCCAGATTTAGTAAC
*
45791417 TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAA
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAA
*
45791482 CCCGGATTTAGTAAC
66 CCCAGATTTAGTAAC
* * * *
45791497 TCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTCACTTAGCACAAAAGCCTTCGGGA
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGA
45791558 CTTAGCCCGG
Statistics
Matches: 130, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 112 0.86
81 18 0.14
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAA
CCCAGATTTAGTAAC
Found at i:45791496 original size:120 final size:121
Alignment explanation
Indices: 45791337--45791569 Score: 369
Period size: 120 Copynumber: 1.9 Consensus size: 121
45791327 TTATAGCAAT
* * *
45791337 TCGCACAAATGCCCTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTAA
1 TCGCACAAATGCCCTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAA
* *
45791402 CCCAGATTTAGTAAC-TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAAC
66 CCCAGATTTAGTAACTTAGCACAAAAGCCTTCGGGAATTAACCCGGATTTAGTAAC
* *
45791457 TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
1 TCGCACAAATGCCCTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAA
* * *
45791522 CCCAGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
66 CCCAGATTTAGTAACTTAGCACAAAAGCCTTCGGGAATTAACCCGGAT
45791570 ACCATTCAAA
Statistics
Matches: 102, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
120 74 0.73
121 28 0.27
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (121 bp):
TCGCACAAATGCCCTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAA
CCCAGATTTAGTAACTTAGCACAAAAGCCTTCGGGAATTAACCCGGATTTAGTAAC
Found at i:45794447 original size:13 final size:13
Alignment explanation
Indices: 45794429--45794458 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
45794419 TATTTAATTT
45794429 ATATAATATAATA
1 ATATAATATAATA
45794442 ATATAATATAATA
1 ATATAATATAATA
45794455 ATAT
1 ATAT
45794459 TTTCTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:45799121 original size:40 final size:40
Alignment explanation
Indices: 45799041--45799221 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
45799031 ACCCAAGTTT
* * * *
45799041 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
45799080 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
45799120 CTTCAGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
45799160 CTTCGGGTCTTAGCCTGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
45799200 CTTCGGGTCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
45799222 CATTCAAATG
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.08
40 115 0.91
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:45802223 original size:45 final size:45
Alignment explanation
Indices: 45802110--45802275 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 45
45802100 CATTTGTGTT
* * * *
45802110 GATGCCGTGTCCCAGACAGGTCTTACACT-G-ACACATGTCAAGC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCACATGTCAGGC
* *
45802153 TGATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATCTCAGGTC
1 -GATGCCATGTCCCAGACAT-GTCTTACACTAGCTCACATGTCAGG-C
*
45802201 GATGCCATGT-CCAGACATGTCTTACACTGGCTTTCACTATGT--GGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGC--TCAC-ATGTCAGG-C
45802247 GATG-CATGTCCCAGACATGTCTTACACTA
1 GATGCCATGTCCCAGACATGTCTTACACTA
45802276 ACACACATAT
Statistics
Matches: 103, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
44 16 0.16
45 27 0.26
46 33 0.32
47 23 0.22
48 4 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCTCACATGTCAGGC
Found at i:45810423 original size:40 final size:40
Alignment explanation
Indices: 45810304--45810431 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 40
45810294 TGAATGATAC
* * *
45810304 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATAT
* * * *
45810344 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATAT
* * * *
45810384 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGCGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATAT
45810424 CC-GGCTAA
1 CCGGGCTAA
45810432 ATTCCGAAGA
Statistics
Matches: 72, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
39 5 0.07
40 67 0.93
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATAT
Found at i:45813684 original size:18 final size:19
Alignment explanation
Indices: 45813663--45813698 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
45813653 AATAAAGAAA
*
45813663 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
45813681 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
45813699 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:45814553 original size:2 final size:2
Alignment explanation
Indices: 45814546--45814574 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
45814536 CGTGATGCCC
45814546 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45814575 CATAAGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45815094 original size:29 final size:29
Alignment explanation
Indices: 45815052--45815183 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
45815042 AAAATTGTAC
45815052 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
45815081 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
45815110 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATAT
*
45815140 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
45815169 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
45815184 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:45815148 original size:59 final size:58
Alignment explanation
Indices: 45815052--45815183 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
45815042 AAAATTGTAC
45815052 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
* *
45815110 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATAT
45815169 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
45815184 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.32
59 48 0.68
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:45815172 original size:88 final size:89
Alignment explanation
Indices: 45815022--45815183 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
45815012 GACAAGATTG
* * *
45815022 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
45815087 AAGTGTGCGAACTGAAAATATATA
66 AAGTGTGCGAACTGAAAATATATA
* * *
45815111 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
45815175 AAGTGTGCG
66 AAGTGTGCG
45815184 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAACTGAAAATATATA
Found at i:45816777 original size:42 final size:43
Alignment explanation
Indices: 45816669--45816814 Score: 170
Period size: 43 Copynumber: 3.4 Consensus size: 43
45816659 AGCTCATACA
* * * *
45816669 ATGCCAATGTCTCAGACATGGTCTTACATGTAGTCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * *
45816712 AAGCCACTGTCCCAGACAAGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
*
45816754 ATGCCAATGTCTCAGACATGGTCTTACACGAAAATCACAA-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA-AATATCG
*
45816798 ATGCCAACGTCCCAGAC
1 ATGCCAATGTCCCAGAC
45816815 GTTGTCATAC
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 28 0.33
43 39 0.46
44 18 0.21
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:45827193 original size:20 final size:20
Alignment explanation
Indices: 45827168--45827226 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
45827158 TAAATATGGT
45827168 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
45827188 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
45827208 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
45827227 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:45827208 original size:11 final size:11
Alignment explanation
Indices: 45827172--45827226 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
45827162 TATGGTATGT
45827172 ATGATATGCAC
1 ATGATATGCAC
* *
45827183 ATGAAATG--T
1 ATGATATGCAC
45827192 ATGATATGCAC
1 ATGATATGCAC
*
45827203 ATGATATG--T
1 ATGATATGCAC
45827212 ATGATATGCAC
1 ATGATATGCAC
45827223 ATGA
1 ATGA
45827227 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:45827304 original size:24 final size:24
Alignment explanation
Indices: 45827277--45827395 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
45827267 GAGGAAGTGA
*
45827277 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
45827301 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
45827324 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
45827348 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
45827372 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
45827396 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:45827346 original size:47 final size:48
Alignment explanation
Indices: 45827277--45827395 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
45827267 GAGGAAGTGA
45827277 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
45827324 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
45827372 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
45827396 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:45827622 original size:31 final size:31
Alignment explanation
Indices: 45827587--45827650 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
45827577 CGTTTACAGT
45827587 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
45827618 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
45827649 AA
1 AA
45827651 TATGAAAAGG
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:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:45834906 original size:16 final size:17
Alignment explanation
Indices: 45834885--45834922 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
45834875 CGAAGTGGGG
45834885 CCATTGGGC-TTCGGGC
1 CCATTGGGCTTTCGGGC
45834901 CCATTGGGCTTTCGGGC
1 CCATTGGGCTTTCGGGC
45834918 CCATT
1 CCATT
45834923 TGGGTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.08, C:0.32, G:0.32, T:0.29
Consensus pattern (17 bp):
CCATTGGGCTTTCGGGC
Found at i:45835225 original size:25 final size:25
Alignment explanation
Indices: 45835178--45835225 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
45835168 TTATACCATG
* * * *
45835178 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
45835203 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
45835226 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:45835294 original size:20 final size:20
Alignment explanation
Indices: 45835269--45835327 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
45835259 TAAATATGGT
45835269 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
45835289 ATGTATGATATACACATGAT
1 ATGTATGATATGCACATGAA
45835309 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
45835328 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:45835405 original size:24 final size:24
Alignment explanation
Indices: 45835378--45835496 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
45835368 GAGGAAGTGA
*
45835378 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
45835402 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
45835425 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
45835449 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
45835473 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
45835497 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:45835447 original size:47 final size:48
Alignment explanation
Indices: 45835378--45835496 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
45835368 GAGGAAGTGA
45835378 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
45835425 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
45835473 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
45835497 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:45835723 original size:31 final size:31
Alignment explanation
Indices: 45835688--45835751 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
45835678 CGTTTACAGT
45835688 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
45835719 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
45835750 AA
1 AA
45835752 TATGAAAAGG
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:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:45836631 original size:30 final size:30
Alignment explanation
Indices: 45836576--45836735 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
45836566 ATAGTGAATC
45836576 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
45836605 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
45836635 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
45836664 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
45836692 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
45836722 CGCACACTTAGTGC
1 CGCACACTTAGTGC
45836736 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:45836668 original size:59 final size:57
Alignment explanation
Indices: 45836576--45836735 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
45836566 ATAGTGAATC
*
45836576 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
45836635 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
45836692 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
45836736 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:45844534 original size:30 final size:30
Alignment explanation
Indices: 45844479--45844638 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
45844469 ATAGTGAATC
45844479 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
45844508 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
45844538 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
45844567 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
45844595 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
45844625 CGCACACTTAGTGC
1 CGCACACTTAGTGC
45844639 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:45844571 original size:59 final size:57
Alignment explanation
Indices: 45844479--45844638 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
45844469 ATAGTGAATC
*
45844479 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
45844538 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
45844595 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
45844639 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:45847006 original size:30 final size:30
Alignment explanation
Indices: 45846970--45847029 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
45846960 GTGTCCATCC
45846970 AAACATCCAAGGGTATAATTGCGTTATAAA
1 AAACATCCAAGGGTATAATTGCGTTATAAA
45847000 AAACATCCAAGGGTATAATTGCGTTATAAA
1 AAACATCCAAGGGTATAATTGCGTTATAAA
45847030 CACCCCACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (30 bp):
AAACATCCAAGGGTATAATTGCGTTATAAA
Found at i:45848996 original size:43 final size:42
Alignment explanation
Indices: 45848922--45849035 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 42
45848912 TCGTACAACG
* * * *
45848922 CAATGTCCTAGACAAGGTCTTACATGTAATCAAATATCAAAGC
1 CAATATCCCAGACAAGGTCTTACACGAAATCAAATA-CAAAGC
* * * *
45848965 CACTATCCCAGACAAGGTCTTACACGAAATCATATACGATGC
1 CAATATCCCAGACAAGGTCTTACACGAAATCAAATACAAAGC
* * *
45849007 CAATGTCTCAGACATGGTCTTACACGAAA
1 CAATATCCCAGACAAGGTCTTACACGAAA
45849036 ATCACAAATC
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 29 0.49
43 30 0.51
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.24
Consensus pattern (42 bp):
CAATATCCCAGACAAGGTCTTACACGAAATCAAATACAAAGC
Found at i:45849031 original size:42 final size:44
Alignment explanation
Indices: 45848970--45849074 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 44
45848960 AAAGCCACTA
* * * *
45848970 TCCCAGACAAGGTCTTACACG-AAATCATATA-CGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAAATCACAAATCGATGCCAACG
*
45849012 TCTCAGACATGGTCTTACACGAAAATCACAAATCGATGCCAACG
1 TCCCAGACATGGTCTTACACGAAAATCACAAATCGATGCCAACG
* *
45849056 TCCCAGACGTGGTCATACA
1 TCCCAGACATGGTCTTACA
45849075 TGATAACACA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 19 0.36
43 8 0.15
44 26 0.49
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGAAAATCACAAATCGATGCCAACG
Found at i:45851924 original size:20 final size:20
Alignment explanation
Indices: 45851889--45851998 Score: 78
Period size: 20 Copynumber: 5.5 Consensus size: 20
45851879 CACTAGTGGT
*
45851889 TTGTCCACATATACTGACAGC
1 TTGTCTACA-ATACTGACAGC
* ***
45851910 TTTTCTACAATACTGGTGGC
1 TTGTCTACAATACTGACAGC
**
45851930 TTGTCTACAATACTGGTAGC
1 TTGTCTACAATACTGACAGC
* * ***
45851950 TTGTTTGCAATACTGGTGGC
1 TTGTCTACAATACTGACAGC
* *
45851970 TTGTCCACAATACTGGCAGC
1 TTGTCTACAATACTGACAGC
45851990 TTGT-TACAA
1 TTGTCTACAA
45851999 CCATGGGTAT
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
19 4 0.05
20 62 0.85
21 7 0.10
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (20 bp):
TTGTCTACAATACTGACAGC
Found at i:45851994 original size:40 final size:41
Alignment explanation
Indices: 45851824--45851994 Score: 197
Period size: 40 Copynumber: 4.2 Consensus size: 41
45851814 GGAAGTATTA
* * *
45851824 GCAGCTTATTTGCAACATTGGTGAC-TGTCCACATATACTG
1 GCAGCTTGTTTGCAACACTGGTGGCTTGTCCACATATACTG
* * *
45851864 GCAGCTTGTCTGCAACACTAGTGGTTTGTCCACATATACTG
1 GCAGCTTGTTTGCAACACTGGTGGCTTGTCCACATATACTG
* * * *
45851905 ACAGCTT-TTCTACAATACTGGTGGCTTGTCTACA-ATACTG
1 GCAGCTTGTT-TGCAACACTGGTGGCTTGTCCACATATACTG
* *
45851945 GTAGCTTGTTTGCAATACTGGTGGCTTGTCCACA-ATACTG
1 GCAGCTTGTTTGCAACACTGGTGGCTTGTCCACATATACTG
45851985 GCAGCTTGTT
1 GCAGCTTGTT
45851995 ACAACCATGG
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
40 68 0.62
41 42 0.38
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (41 bp):
GCAGCTTGTTTGCAACACTGGTGGCTTGTCCACATATACTG
Found at i:45856390 original size:40 final size:40
Alignment explanation
Indices: 45856335--45856502 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
45856325 TGAATGATAC
* * *
45856335 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
45856375 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
45856415 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
45856455 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
45856495 CC-GGCTAA
1 CCGGGCTAA
45856503 ATTCCGAAGA
Statistics
Matches: 112, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 5 0.04
40 105 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:45859669 original size:46 final size:46
Alignment explanation
Indices: 45859306--45859671 Score: 466
Period size: 46 Copynumber: 8.0 Consensus size: 46
45859296 TTATCTTTGA
* * * *
45859306 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
*
45859352 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TCCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATGT
* * *
45859398 CAAGTTGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * * ** **
45859444 CACGCTGCCACGGTATCTCTCAACCATGGTCTTTTTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
45859490 CATGTTGCCATGGTATATTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
45859536 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
45859582 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
45859628 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACGCATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
45859672 TTCAGAAAGC
Statistics
Matches: 284, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
45 5 0.02
46 278 0.98
47 1 0.00
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:45861871 original size:11 final size:11
Alignment explanation
Indices: 45861812--45861877 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
45861802 ATATATACTA
*
45861812 AATAAAATAAT
1 AATAAAATATT
45861823 AAT-AAA-A-T
1 AATAAAATATT
45861831 AATAAAATATT
1 AATAAAATATT
*
45861842 ATTTAAAA-ATT
1 A-ATAAAATATT
45861853 AAATTAAAATATT
1 -AA-TAAAATATT
*
45861866 AATAAACTATT
1 AATAAAATATT
45861877 A
1 A
45861878 TTTATTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
8 4 0.09
9 4 0.09
10 4 0.09
11 17 0.38
12 13 0.29
13 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAAAATATT
Found at i:45870663 original size:22 final size:22
Alignment explanation
Indices: 45870638--45870685 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
45870628 TTGAGTCATT
*
45870638 CTGTCTACGACATTGAGCTGTC
1 CTGTCTACGACATTGAGCAGTC
* *
45870660 CTGTCTACGGCGTTGAGCAGTC
1 CTGTCTACGACATTGAGCAGTC
45870682 CTGT
1 CTGT
45870686 TGACTTAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.31
Consensus pattern (22 bp):
CTGTCTACGACATTGAGCAGTC
Found at i:45876062 original size:41 final size:41
Alignment explanation
Indices: 45876009--45876094 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
45875999 TATGAGTGAC
45876009 AGCTTGTGTGAGCAGCACTCTGTAGCTACGTCCTGACTGAT
1 AGCTTGTGTGAGCAGCACTCTGTAGCTACGTCCTGACTGAT
*
45876050 AGCTTGTTTGAGCAGCACTCTGTAGCTACGTCCTGACTGAT
1 AGCTTGTGTGAGCAGCACTCTGTAGCTACGTCCTGACTGAT
45876091 AGCT
1 AGCT
45876095 CAAAAACGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (41 bp):
AGCTTGTGTGAGCAGCACTCTGTAGCTACGTCCTGACTGAT
Found at i:45885444 original size:29 final size:29
Alignment explanation
Indices: 45885351--45885423 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
45885341 GTGACGAGAT
45885351 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45885380 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45885409 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
45885424 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:45886700 original size:13 final size:13
Alignment explanation
Indices: 45886682--45886712 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
45886672 AATAAACGGC
45886682 ACCAATTGGCCCA
1 ACCAATTGGCCCA
45886695 ACCAATTGGCCCA
1 ACCAATTGGCCCA
45886708 ACCAA
1 ACCAA
45886713 AAATTTACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.39, G:0.13, T:0.13
Consensus pattern (13 bp):
ACCAATTGGCCCA
Found at i:45892633 original size:29 final size:29
Alignment explanation
Indices: 45892600--45892672 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
45892590 GTGACGAGAT
45892600 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45892629 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45892658 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
45892673 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:45892700 original size:58 final size:59
Alignment explanation
Indices: 45892600--45892732 Score: 137
Period size: 58 Copynumber: 2.3 Consensus size: 59
45892590 GTGACGAGAT
* * * *
45892600 TGGCACTAAGTGTGC-ATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGATGCTCGAAAGATATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
45892658 TGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGATGCTCGAAAGATATGGCACTAAGTGTGCAGGCTGAAATCACA
45892716 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
45892733 AATCGAGTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
57 4 0.06
58 57 0.92
59 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (59 bp):
TGGCACTAAGTGTGCGATGCTCGAAAGATATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:45893949 original size:13 final size:13
Alignment explanation
Indices: 45893931--45893961 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
45893921 AATAAACGGC
45893931 ACCAATTGGCCCA
1 ACCAATTGGCCCA
45893944 ACCAATTGGCCCA
1 ACCAATTGGCCCA
45893957 ACCAA
1 ACCAA
45893962 AAATTTACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.39, G:0.13, T:0.13
Consensus pattern (13 bp):
ACCAATTGGCCCA
Found at i:45899863 original size:29 final size:29
Alignment explanation
Indices: 45899830--45899902 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
45899820 GTGACGAGAT
45899830 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45899859 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45899888 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
45899903 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:45899930 original size:58 final size:59
Alignment explanation
Indices: 45899830--45899962 Score: 137
Period size: 58 Copynumber: 2.3 Consensus size: 59
45899820 GTGACGAGAT
* * * *
45899830 TGGCACTAAGTGTGC-ATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGATGCTCGAAAGATATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
45899888 TGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGATGCTCGAAAGATATGGCACTAAGTGTGCAGGCTGAAATCACA
45899946 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
45899963 AATCGAGTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
57 4 0.06
58 57 0.92
59 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (59 bp):
TGGCACTAAGTGTGCGATGCTCGAAAGATATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:45905614 original size:24 final size:25
Alignment explanation
Indices: 45905503--45905650 Score: 101
Period size: 24 Copynumber: 6.0 Consensus size: 25
45905493 ACATAAAGCT
*
45905503 ATTC-AAATCCGCACACTTAGTGCC
1 ATTCAAAATCCGCACACATAGTGCC
* ** *
45905527 ATGC-TCACCCGCACACATAGTGCC
1 ATTCAAAATCCGCACACATAGTGCC
* * * *
45905551 -TT-AGAAATCCACACACTCGTATTGAC
1 ATTCA-AAATCCGCACA--CATAGTGCC
* *
45905577 ATTC-AAATCAGCACACATAGTGCT
1 ATTCAAAATCCGCACACATAGTGCC
**
45905601 ATTC-AGTTCCGCACACATAGTGCC
1 ATTCAAAATCCGCACACATAGTGCC
*
45905625 ATTCAAAATCCGCACACTTAGTGCC
1 ATTCAAAATCCGCACACATAGTGCC
45905650 A
1 A
45905651 ATGTCATTTC
Statistics
Matches: 91, Mismatches: 26, Indels: 13
0.70 0.20 0.10
Matches are distributed among these distances:
23 1 0.01
24 55 0.60
25 18 0.20
26 15 0.16
27 2 0.02
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.24
Consensus pattern (25 bp):
ATTCAAAATCCGCACACATAGTGCC
Found at i:45910818 original size:30 final size:30
Alignment explanation
Indices: 45910773--45910832 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45910763 ATTTAATATG
*
45910773 AACTTTGGCAAAATTATA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* *
45910803 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
45910833 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:45912443 original size:14 final size:14
Alignment explanation
Indices: 45912424--45912451 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45912414 TAATATCCAA
45912424 ATTACTATTTTAAC
1 ATTACTATTTTAAC
45912438 ATTACTATTTTAAC
1 ATTACTATTTTAAC
45912452 CTTAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTACTATTTTAAC
Found at i:45924673 original size:53 final size:53
Alignment explanation
Indices: 45924478--45924731 Score: 243
Period size: 55 Copynumber: 4.8 Consensus size: 53
45924468 ATTAGGGTTT
* * *
45924478 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGGTTAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGG-TAAGTTTCTAAGGC
* * *
45924533 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTTTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC--TAAGGC
* * *
45924588 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* * * * *
45924641 AAGGATACCATGTTAGATCATGTCGAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
* * * *
45924690 AAGGATACCACGTAAGACCATGAC-AGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
45924732 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 26, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
48 17 0.10
49 20 0.12
52 6 0.04
53 43 0.26
54 10 0.06
55 68 0.40
56 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:45924684 original size:108 final size:110
Alignment explanation
Indices: 45924485--45924687 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 110
45924475 TTTAAGGATA
* *
45924485 CCATGTAAGACCATGCCAAGGCATGACAATTGGTTAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGACAATTGGTGAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
45924550 CCATGTCAAGACATGGCATTGATAAGTTTCTTTAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTTTAAGGCAAAGGTC
* *
45924595 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTTAG
1 CCATGTAAGACCATGCCAAGGCATGACAATTGGTGAGGTTTC-TAAGGCAAGGATACCATGTAAG
* * *
45924657 ATCATGTCGAGACATGGCAATGGTAAGTTTC
65 ACCATGTCAAGACATGGCAATGATAAGTTTC
45924688 AAAAGGATAC
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGACAATTGGTGAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTTTAAGGCAAAGGTC
Found at i:45927532 original size:29 final size:29
Alignment explanation
Indices: 45927498--45927631 Score: 101
Period size: 29 Copynumber: 4.6 Consensus size: 29
45927488 TACTCGATTT
* * *
45927498 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
45927527 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
45927556 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
45927585 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
45927614 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
45927632 TATTTCCAGC
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:45927590 original size:58 final size:59
Alignment explanation
Indices: 45927497--45927685 Score: 224
Period size: 58 Copynumber: 3.3 Consensus size: 59
45927487 ATACTCGATT
** * ** * * *
45927497 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACATAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATACACTTCCAGCA
* *
45927555 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATACACTTCCAGCA
* * *
45927614 T-GCACACTTAGTGCCATATATTTCCAGCATGCAAACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATACACTTCCAGCA
45927672 T-GCACACTTAGTGC
1 TCGCACACTTAGTGC
45927686 TAATCTCGTC
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
57 4 0.03
58 113 0.96
59 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATACACTTCCAGCA
Found at i:45927632 original size:29 final size:29
Alignment explanation
Indices: 45927557--45927685 Score: 249
Period size: 29 Copynumber: 4.4 Consensus size: 29
45927547 CTTCGAGCTC
45927557 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
45927586 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
45927615 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
45927644 GCAAACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
45927673 GCACACTTAGTGC
1 GCACACTTAGTGC
45927686 TAATCTCGTC
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:45929200 original size:93 final size:93
Alignment explanation
Indices: 45929088--45929258 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
45929078 GCCCATAAGT
* **
45929088 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45929153 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
45929181 GAACTCGGACTCAACTCAACGAGTTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45929246 CGAGTTCGGATGC
66 CGAGTTCGGATGC
45929259 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45929274 original size:46 final size:46
Alignment explanation
Indices: 45929080--45929260 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
45929070 TGTAACCCGC
* * *
45929080 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
45929126 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* * *
45929176 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACACTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
45929219 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
45929261 AACCATCCTA
Statistics
Matches: 114, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.62
47 31 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:45931671 original size:30 final size:30
Alignment explanation
Indices: 45931627--45931715 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
45931617 CAAAGATAAC
45931627 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
45931656 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
45931686 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
45931716 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:45931675 original size:15 final size:15
Alignment explanation
Indices: 45931627--45931706 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
45931617 CAAAGATAAC
*
45931627 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
45931641 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
45931656 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
45931671 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
45931686 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
45931701 AAGAAA
1 AAGAAA
45931707 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:45931715 original size:15 final size:15
Alignment explanation
Indices: 45931638--45931715 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
45931628 AGAAAACCGA
45931638 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
45931653 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
45931667 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
45931682 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
45931698 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
45931713 ATA
1 ATA
45931716 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:45934740 original size:93 final size:93
Alignment explanation
Indices: 45934628--45934799 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
45934618 GCCCATAAGT
* *
45934628 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45934693 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
45934721 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45934786 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
45934800 AACCATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45934795 original size:46 final size:46
Alignment explanation
Indices: 45934620--45934795 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
45934610 TGTAACCCGC
* * *
45934620 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
45934666 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
45934716 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
45934759 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45934796 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:45937193 original size:30 final size:30
Alignment explanation
Indices: 45937149--45937237 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
45937139 CAAAGATAAC
45937149 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
45937178 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
45937208 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
45937238 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:45937197 original size:15 final size:15
Alignment explanation
Indices: 45937149--45937228 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
45937139 CAAAGATAAC
*
45937149 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
45937163 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
45937178 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
45937193 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
45937208 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
45937223 AAGAAA
1 AAGAAA
45937229 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:45937237 original size:15 final size:15
Alignment explanation
Indices: 45937160--45937237 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
45937150 AGAAAACCGA
45937160 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
45937175 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
45937189 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
45937204 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
45937220 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
45937235 ATA
1 ATA
45937238 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:45940254 original size:93 final size:93
Alignment explanation
Indices: 45940142--45940313 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
45940132 GCCCATAAGT
* *
45940142 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45940207 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
45940235 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45940300 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
45940314 CAACCTCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45940309 original size:46 final size:46
Alignment explanation
Indices: 45940134--45940309 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
45940124 TGTAACCCGC
* * *
45940134 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
45940180 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
45940230 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
45940273 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45940310 TGCCCAACCT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:45942155 original size:40 final size:40
Alignment explanation
Indices: 45942093--45942310 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
45942083 AAGCCAAGTA
* * *
45942093 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
45942132 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
45942172 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
45942212 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
45942252 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
45942292 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
45942311 TTATCATCCA
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.08
40 154 0.92
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:45950218 original size:40 final size:40
Alignment explanation
Indices: 45950156--45950373 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
45950146 AAGCCACGTA
* * *
45950156 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
45950195 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
45950235 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
45950275 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
45950315 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
45950355 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
45950374 TTATCATCCA
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.08
40 154 0.92
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:45952885 original size:46 final size:46
Alignment explanation
Indices: 45952835--45953007 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
45952825 TGGTTGAGCA
45952835 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
45952881 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACCAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
45952926 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * **
45952974 CCCGAGCTCGTCAAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45953008 GGGGTGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 58 0.55
47 29 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:45952991 original size:93 final size:93
Alignment explanation
Indices: 45952832--45953002 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
45952822 GGATGGTTGA
* **
45952832 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTCAAGT
45952897 TGAGTCCGAGTTCGTGAGATGTAACCAG
66 TGAGTCCGAGTTCGTGAGATGTAACCAG
* * *
45952925 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTCGTCAAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTCAAGT
45952990 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
45953003 ACTTAGGGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTCAAGT
TGAGTCCGAGTTCGTGAGATGTAACCAG
Found at i:45965179 original size:50 final size:50
Alignment explanation
Indices: 45965125--45965223 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 50
45965115 ATGATTAATC
45965125 AAGATGCAAACTAAATAAACA-AATGAGTTACATAATGCATA-ACATAATTT
1 AAGATGCAAACTAAATAAACATAA-GAGTTACATAATGCA-AGACATAATTT
* *
45965175 AAGATGCAAACTTAATTAACATAAGAGTTACATAATGCAAGACATAATT
1 AAGATGCAAACTAAATAAACATAAGAGTTACATAATGCAAGACATAATT
45965224 AAAACACAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
49 1 0.02
50 42 0.93
51 2 0.04
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.26
Consensus pattern (50 bp):
AAGATGCAAACTAAATAAACATAAGAGTTACATAATGCAAGACATAATTT
Found at i:45968400 original size:26 final size:26
Alignment explanation
Indices: 45968363--45968429 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 26
45968353 TATAACATTG
45968363 CTCACACGAGCTGTGAAATGAGTCTA
1 CTCACACGAGCTGTGAAATGAGTCTA
* *
45968389 CTCACACTAGCTGTGAAATGGGTCTA
1 CTCACACGAGCTGTGAAATGAGTCTA
* *
45968415 CTCACTCGAGTTGTG
1 CTCACACGAGCTGTG
45968430 GGTTGGAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
CTCACACGAGCTGTGAAATGAGTCTA
Found at i:45968620 original size:2 final size:2
Alignment explanation
Indices: 45968613--45968644 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
45968603 GCATAATAAC
45968613 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45968645 TGATTCAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45974351 original size:10 final size:10
Alignment explanation
Indices: 45974333--45974369 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
45974323 ATGGTAATTC
45974333 GGCTAGTATG
1 GGCTAGTATG
*
45974343 GGTTAGTATG
1 GGCTAGTATG
45974353 GGCTAGTATG
1 GGCTAGTATG
45974363 GGCTAGT
1 GGCTAGT
45974370 GTAAATGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.19, C:0.08, G:0.41, T:0.32
Consensus pattern (10 bp):
GGCTAGTATG
Found at i:45974689 original size:40 final size:41
Alignment explanation
Indices: 45974634--45974738 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
45974624 AAAACAAATT
* *
45974634 GGCTATTTGTGGCACTTAGTGTACGA-TTCGACATAGCTTC
1 GGCTATATATGGCACTTAGTGTACGATTTCGACATAGCTTC
* * *
45974674 GGCTATATATGGCACTTAGTGTGC-ATTTTGAGATAGCTTC
1 GGCTATATATGGCACTTAGTGTACGATTTCGACATAGCTTC
* *
45974714 -GCTATGTACGGCACTTAGTGTACGA
1 GGCTATATATGGCACTTAGTGTACGA
45974739 GATATCAAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 21 0.38
40 34 0.62
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (41 bp):
GGCTATATATGGCACTTAGTGTACGATTTCGACATAGCTTC
Found at i:45974767 original size:28 final size:28
Alignment explanation
Indices: 45974723--45974794 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
45974713 CGCTATGTAC
* *
45974723 GGCACTTAGTGTACGAGATATCAAGTGT
1 GGCACTTAGTGTGCGAGATATCAAGTAT
* *
45974751 GGTACTTAGTGTGCGAGATATCGAGTAT
1 GGCACTTAGTGTGCGAGATATCAAGTAT
45974779 GGCACTTAGTGTGCGA
1 GGCACTTAGTGTGCGA
45974795 TACATTGAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAGATATCAAGTAT
Found at i:45984138 original size:15 final size:15
Alignment explanation
Indices: 45984118--45984148 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45984108 TGTGGCCTTA
45984118 ATCTAATACTCAGCC
1 ATCTAATACTCAGCC
45984133 ATCTAATACTCAGCC
1 ATCTAATACTCAGCC
45984148 A
1 A
45984149 CATTAGAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.32, G:0.06, T:0.26
Consensus pattern (15 bp):
ATCTAATACTCAGCC
Found at i:45986103 original size:14 final size:15
Alignment explanation
Indices: 45986073--45986104 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
45986063 TGTCGACTAT
45986073 ACGCCCATGTCCTAC
1 ACGCCCATGTCCTAC
45986088 ACGCCCATGT-CTAC
1 ACGCCCATGTCCTAC
45986102 ACG
1 ACG
45986105 GCCGTGAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.22, C:0.44, G:0.16, T:0.19
Consensus pattern (15 bp):
ACGCCCATGTCCTAC
Found at i:45991852 original size:28 final size:28
Alignment explanation
Indices: 45991820--45991901 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 28
45991810 CAGATGGATC
45991820 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
*** *
45991848 ACGTGTACCG-A-TAA-T--TGG-T-C-
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
45991868 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
45991896 ACGTGT
1 ACGTGT
45991902 ACCGGATAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 7 0.18
21 2 0.05
22 4 0.11
23 3 0.08
25 3 0.08
26 4 0.11
27 2 0.05
28 13 0.34
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:45991889 original size:48 final size:48
Alignment explanation
Indices: 45991778--45991945 Score: 254
Period size: 48 Copynumber: 3.5 Consensus size: 48
45991768 TGAGGTCGCA
*
45991778 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-C-A-GA-TGGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATTGG-TCACG
45991823 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATTGGTCACG
* *
45991871 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GATAATTGGTCACG
*
45991920 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
45991946 TGCGTACCAG
Statistics
Matches: 114, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
45 32 0.28
46 1 0.01
47 1 0.01
48 40 0.35
49 40 0.35
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATTGGTCACG
Found at i:45995349 original size:48 final size:49
Alignment explanation
Indices: 45995235--45995407 Score: 267
Period size: 49 Copynumber: 3.5 Consensus size: 49
45995225 TGAGGTCGCA
* * **
45995235 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
45995285 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
45995333 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
45995382 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
45995408 TGCGTACCAG
Statistics
Matches: 116, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
48 39 0.34
49 45 0.39
50 32 0.28
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:45995415 original size:49 final size:49
Alignment explanation
Indices: 45995228--45995420 Score: 262
Period size: 49 Copynumber: 3.9 Consensus size: 49
45995218 TCTATTGTGA
* * **
45995228 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
45995277 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
45995326 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
45995375 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
45995421 GCTTTGGCTA
Statistics
Matches: 131, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
48 39 0.30
49 55 0.42
50 37 0.28
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:46000680 original size:28 final size:28
Alignment explanation
Indices: 46000648--46000731 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
46000638 AACTGTGATC
46000648 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
46000676 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
46000698 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
46000726 ACGTGT
1 ACGTGT
46000732 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:46000767 original size:49 final size:49
Alignment explanation
Indices: 46000600--46000788 Score: 243
Period size: 50 Copynumber: 3.8 Consensus size: 49
46000590 TGATGTCGCA
* * * *
46000600 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-TGGTCACG
* * **
46000651 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT-GGTCACG
* *
46000701 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACG
* *
46000750 TGTGTAGTACTATGTGCAGTCTACTACGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
46000789 GCTTTGGCTA
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 43 0.36
50 45 0.37
51 33 0.27
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACG
Found at i:46000777 original size:99 final size:101
Alignment explanation
Indices: 46000600--46000787 Score: 281
Period size: 99 Copynumber: 1.9 Consensus size: 101
46000590 TGATGTCGCA
*
46000600 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
* *
46000665 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACTACGCGTACCAGATGGTTAGGTCACG
* * * * *
46000701 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
*
46000764 TGCAGTCTACTACGCGTACCAGAT
66 TGCAGGCTACTACGCGTACCAGAT
46000788 AGCTTTGGCT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 41 0.53
100 1 0.01
101 36 0.46
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
TGCAGGCTACTACGCGTACCAGATGGTTAGGTCACG
Found at i:46001792 original size:42 final size:43
Alignment explanation
Indices: 46001733--46001840 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 43
46001723 TTAGGGTTAG
* * * * *
46001733 ATGAGATTTCGTGTAAGATCTTATCTAGGATA-CGGCATCGAT
1 ATGAGATTTCATATAAGACCATAGCTAGGATATCGGCATCGAT
* * *
46001775 ATGAGATTTCATATAAGACCATAGCTGGGCTATTGGCATCGAT
1 ATGAGATTTCATATAAGACCATAGCTAGGATATCGGCATCGAT
** *
46001818 ATGAGATCCCATGTAAGACCATA
1 ATGAGATTTCATATAAGACCATA
46001841 TTTGGGATAT
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
42 25 0.46
43 29 0.54
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (43 bp):
ATGAGATTTCATATAAGACCATAGCTAGGATATCGGCATCGAT
Done.