Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 157 of 292
Found at i:46745739 original size:5 final size:5
Alignment explanation
Indices: 46745712--46745765 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
46745702 AATGCAAATG
*
46745712 ATGCA ATACA ATGCA TATG-- ATGCA ATGCA ATGCA CATG-- ATGCA ATGCA
1 ATGCA ATGCA ATGCA -ATGCA ATGCA ATGCA ATGCA -ATGCA ATGCA ATGCA
46745760 ATGCA A
1 ATGCA A
46745766 ATGTATGGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
3 6 0.15
5 29 0.71
6 6 0.15
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
ATGCA
Found at i:46745782 original size:38 final size:38
Alignment explanation
Indices: 46745702--46745785 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
46745692 GGGAAAATCT
*
46745702 AATGCAAATGATGCAATACAATGCATATGATGCAATGC
1 AATGCAAATGATGCAATACAATGCAAATGATGCAATGC
* * **
46745740 AATGCACATGATGCAATGCAATGCAAATGTATGGGATG-
1 AATGCAAATGATGCAATACAATGCAAATG-ATGCAATGC
46745778 AATGCAAA
1 AATGCAAA
46745786 GGAAAGAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 33 0.85
39 6 0.15
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (38 bp):
AATGCAAATGATGCAATACAATGCAAATGATGCAATGC
Found at i:46747577 original size:134 final size:133
Alignment explanation
Indices: 46747334--46747673 Score: 361
Period size: 134 Copynumber: 2.5 Consensus size: 133
46747324 GAAATTCCGG
* * * *
46747334 AGAGATATTCGATTATTTTGAGCAAATAGGAAATTGCAACCCAGCACGATAGGGTACTATTCCCC
1 AGAGATATTCGATTATTTTGAGCAAACAGGAAATTGCAACCCAGCACGATAGGGCACGATTCCCT
* * ***
46747399 GAACTGCTAAATACCGAACATTTCCTTTATAAGTTTTTTTTTTTTTAGAAA-ACATGAAT-GAA-
66 GAATTGCTAAATACCGAACATCTCCTTTAT-A-TTTTAAATTTTTTA-AAAGACATGAATGGAAC
* *
46747461 ATTCTAA
128 A-CCGAA
* * * *
46747468 AGAGACATTCGATTATTTTGAGCAAAC-GAGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
1 AGAGATATTCGATTATTTTGAGCAAACAG-GAAATTGCAACCCAGCACGATAGGGCACGATTCCC
* *
46747532 TGAATTGCTAAATATCGAACATCT-CTTTCAT-TTTAATGAAATTTTTTAAAAGACATGAGTGGA
65 TGAATTGCTAAATACCGAACATCTCCTTT-ATATTT--T-AAATTTTTTAAAAGACATGAATGGA
46747595 ACACCGAA
126 ACACCGAA
* * * *
46747603 GGA-ATATTCGATTGTTTCGAACAAACAGGAAATTGCAACCCAGCACGATAGGGCACGATTCCCT
1 AGAGATATTCGATTATTTTGAGCAAACAGGAAATTGCAACCCAGCACGATAGGGCACGATTCCCT
46747667 GAATTGC
66 GAATTGC
46747674 CAAACATCTA
Statistics
Matches: 172, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
131 3 0.02
133 9 0.05
134 150 0.87
135 9 0.05
136 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (133 bp):
AGAGATATTCGATTATTTTGAGCAAACAGGAAATTGCAACCCAGCACGATAGGGCACGATTCCCT
GAATTGCTAAATACCGAACATCTCCTTTATATTTTAAATTTTTTAAAAGACATGAATGGAACACC
GAA
Found at i:46748086 original size:16 final size:16
Alignment explanation
Indices: 46748065--46748097 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46748055 AACTTAAAAG
46748065 AAGTTCTAAGCAAATT
1 AAGTTCTAAGCAAATT
46748081 AAGTTCTAAGCAAATT
1 AAGTTCTAAGCAAATT
46748097 A
1 A
46748098 CTCAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (16 bp):
AAGTTCTAAGCAAATT
Found at i:46748333 original size:2 final size:2
Alignment explanation
Indices: 46748326--46748350 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46748316 GATGCATCAA
46748326 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 A
46748351 ATACATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46748450 original size:2 final size:2
Alignment explanation
Indices: 46748443--46748481 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
46748433 AATAAACCTA
46748443 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46748482 AAGAGATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46749432 original size:12 final size:11
Alignment explanation
Indices: 46749403--46749432 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
46749393 TTGTAAACAA
46749403 AAATAAAAAAG
1 AAATAAAAAAG
46749414 AAATAAAAAAG
1 AAATAAAAAAG
46749425 AAACTAAA
1 AAA-TAAA
46749433 GAACAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (11 bp):
AAATAAAAAAG
Found at i:46751399 original size:26 final size:26
Alignment explanation
Indices: 46751368--46751475 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
46751358 TGAAATGTCC
*
46751368 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
46751394 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
46751420 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
46751446 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
46751472 ATCA
1 ATCA
46751476 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:46760336 original size:11 final size:10
Alignment explanation
Indices: 46760287--46760348 Score: 51
Period size: 11 Copynumber: 6.3 Consensus size: 10
46760277 TATAAGATTT
46760287 AAAATTAT-A
1 AAAATTATAA
46760296 AAAATATATAA
1 AAAAT-TATAA
*
46760307 AAACTTCATAA
1 AAAATT-ATAA
*
46760318 ACAA--ATAA
1 AAAATTATAA
46760326 AAAA-TATATA
1 AAAATTATA-A
46760336 AAAATTATAA
1 AAAATTATAA
46760346 AAA
1 AAA
46760349 TGTATTGCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
8 7 0.16
9 8 0.19
10 13 0.30
11 15 0.35
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAATTATAA
Found at i:46760348 original size:9 final size:9
Alignment explanation
Indices: 46760269--46760349 Score: 69
Period size: 9 Copynumber: 8.7 Consensus size: 9
46760259 AAATTGTAAA
46760269 AAAAATTAT
1 AAAAATTAT
*
46760278 ATAAGATT-T
1 A-AAAATTAT
46760287 -AAAATTAT
1 AAAAATTAT
46760295 AAAAATATAT
1 AAAAAT-TAT
46760305 AAAAACTTCAT
1 AAAAA-TT-AT
*
46760316 AAACAAATA-
1 AAA-AATTAT
46760325 AAAAATATAT
1 AAAAAT-TAT
46760335 AAAAATTAT
1 AAAAATTAT
46760344 AAAAAT
1 AAAAAT
46760350 GTATTGCATT
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
7 5 0.08
8 3 0.05
9 21 0.36
10 21 0.36
11 7 0.12
12 2 0.03
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:46762721 original size:121 final size:121
Alignment explanation
Indices: 46762507--46762745 Score: 433
Period size: 121 Copynumber: 2.0 Consensus size: 121
46762497 AGTCGAAGTA
* * *
46762507 AGATGAGAAGTTTACTGATTGTTTTAACCAACAACGGTGTTGTTGGTAGAGGACAGACTCTTTGT
1 AGATGAAAAGTTTACTGATTGTTTTAACCAACAACAGTGTAGTTGGTAGAGGACAGACTCTTTGT
*
46762572 TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
66 TCCAATGTTAAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
*
46762628 AGATGAAAAGTTTACTGATTGTTTTAGCCAACAACAGTGTAGTTGGTAGAGGACAGACTCTTTGT
1 AGATGAAAAGTTTACTGATTGTTTTAACCAACAACAGTGTAGTTGGTAGAGGACAGACTCTTTGT
46762693 TCCAATGTTAAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGA
66 TCCAATGTTAAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGA
46762746 GACAGAGACA
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 113 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (121 bp):
AGATGAAAAGTTTACTGATTGTTTTAACCAACAACAGTGTAGTTGGTAGAGGACAGACTCTTTGT
TCCAATGTTAAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
Found at i:46769460 original size:29 final size:30
Alignment explanation
Indices: 46769415--46769473 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
46769405 TATTTTATTA
46769415 TTAATTTTGTTATTATTTTA-AAGGCATTTG
1 TTAATTTTGTTATTATTTTAGAA-GCATTTG
46769445 TTAATTTT-TTATTATTTTAGAAGCATTTG
1 TTAATTTTGTTATTATTTTAGAAGCATTTG
46769474 CTTGTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAGAAGCATTTG
Found at i:46770449 original size:18 final size:18
Alignment explanation
Indices: 46770426--46770468 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
46770416 CCACGTTAGT
*
46770426 AAAAAAGTATATTTT-CAA
1 AAAAAAATAT-TTTTACAA
*
46770444 AAAAAAATCTTTTTACAA
1 AAAAAAATATTTTTACAA
46770462 AAAAAAA
1 AAAAAAA
46770469 AAGAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAAAAATATTTTTACAA
Found at i:46771095 original size:27 final size:29
Alignment explanation
Indices: 46771041--46771130 Score: 73
Period size: 28 Copynumber: 3.2 Consensus size: 29
46771031 TTTATATATT
* **
46771041 TATATTTATTATAAATTTTAGTTCTTTTA
1 TATATTTATTATAAATTTAAACTCTTTTA
46771070 TATATTT-TTATAAATTTAAACT-TTTTA
1 TATATTTATTATAAATTTAAACTCTTTTA
* * *
46771097 T-TACTATATTA-AATATTTTAA-TTTTTTA
1 TATA-TTTATTATAA-ATTTAAACTCTTTTA
46771125 TATATT
1 TATATT
46771131 CTTCAAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
26 2 0.04
27 11 0.22
28 28 0.56
29 9 0.18
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (29 bp):
TATATTTATTATAAATTTAAACTCTTTTA
Found at i:46779010 original size:40 final size:40
Alignment explanation
Indices: 46778921--46779141 Score: 286
Period size: 40 Copynumber: 5.5 Consensus size: 40
46778911 TTCGAATGGT
* * * *
46778921 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
46778962 ATCCGGGTTAATTCCTGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
46779002 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
46779042 ATCCGGGTTAATTCCCGAAGGCATTTGTGTGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
46779082 AACCGGGTTAAGTCCC-AAGGGCATTTGTGCGAATTACTATA
1 ATCCGGGTTAATTCCCGAA-GGCATTTGTGCGAGTTACTA-A
*
46779123 A-CCGGGCT-ATGTCCCGAAG
1 ATCCGGGTTAAT-TCCCGAAG
46779142 ACAATCGAGC
Statistics
Matches: 161, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 127 0.79
41 31 0.19
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:46779175 original size:120 final size:121
Alignment explanation
Indices: 46778933--46779181 Score: 276
Period size: 120 Copynumber: 2.1 Consensus size: 121
46778923 CCGGGCTAAG
* * * * *
46778933 TCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTTAATTCCTGAAGGCATTTGTGCGAGTTA
1 TCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGTTAAGTCCTCAAGGCATTTGTGCGAATTA
* * * * * * *
46778998 CTAAATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAT
66 CTAAATCCGGGCTAATTCCCGAAGACAATCGAGCGAGTCACTAAATCCGAGTTAAT
* *
46779054 TCCCGAAGGCATTTGTG-TGAGTTACCAAAACCGGGTTAAGTCC-CAAGGGCATTTGTGCGAATT
1 TCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGTTAAGTCCTCAA-GGCATTTGTGCGAATT
* *
46779117 ACTATAA-CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-AGTTAAAT
65 ACTA-AATCCGGGCTAAT-TCCCGAAGACAATCGAGCGAGTCACTAAATCCGAGTT-AAT
46779174 T-CCGAAGG
1 TCCCGAAGG
46779182 TACGTGATTC
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
119 14 0.13
120 75 0.69
121 19 0.18
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (121 bp):
TCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGTTAAGTCCTCAAGGCATTTGTGCGAATTA
CTAAATCCGGGCTAATTCCCGAAGACAATCGAGCGAGTCACTAAATCCGAGTTAAT
Found at i:46784894 original size:64 final size:66
Alignment explanation
Indices: 46784789--46784942 Score: 177
Period size: 67 Copynumber: 2.3 Consensus size: 66
46784779 CATCATGTGT
* * * * *
46784789 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
46784852 TGTAG
62 TGTAG
* * *
46784857 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
46784922 AG
65 AG
46784924 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
46784943 AACTGGTTAG
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 24 0.32
65 3 0.04
66 4 0.05
67 30 0.41
68 13 0.18
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:46787266 original size:31 final size:30
Alignment explanation
Indices: 46787228--46787288 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
46787218 GTGCCATAGT
46787228 TTTTTTTTTTATAGATTTTCCATAACTCATA
1 TTTTTTTTTTATAG-TTTTCCATAACTCATA
46787259 TTTTTTTTTTATAGTTTTCCATAACTCATA
1 TTTTTTTTTTATAGTTTTCCATAACTCATA
46787289 CTTTGTCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 16 0.53
31 14 0.47
ACGTcount: A:0.25, C:0.13, G:0.03, T:0.59
Consensus pattern (30 bp):
TTTTTTTTTTATAGTTTTCCATAACTCATA
Found at i:46787301 original size:31 final size:30
Alignment explanation
Indices: 46787235--46787304 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
46787225 AGTTTTTTTT
* **
46787235 TTTATAGATTTTCCATAACTCATATTTTTTT
1 TTTATAG-TTTTCCATAACTCATATTTGTCC
46787266 TTTATAGTTTTCCATAACTCATACTTTGTCC
1 TTTATAGTTTTCCATAACTCATA-TTTGTCC
46787297 TTTATAGT
1 TTTATAGT
46787305 GAAGTTAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 16 0.46
31 19 0.54
ACGTcount: A:0.24, C:0.16, G:0.06, T:0.54
Consensus pattern (30 bp):
TTTATAGTTTTCCATAACTCATATTTGTCC
Found at i:46792503 original size:21 final size:21
Alignment explanation
Indices: 46792479--46792627 Score: 82
Period size: 21 Copynumber: 7.2 Consensus size: 21
46792469 AAGTACAAAT
*
46792479 AGGGGCACATAAGTGAAATTC
1 AGGGGCACACAAGTGAAATTC
* *
46792500 AGGGGTAC-CGAAGT-ACAA-AC
1 AGGGGCACAC-AAGTGA-AATTC
* *
46792520 ATGGGCACACAAGTGCAATTC
1 AGGGGCACACAAGTGAAATTC
* *
46792541 AGGGGTAC-CGAAGT-ACAAAT-
1 AGGGGCACAC-AAGTGA-AATTC
*
46792561 AGGGGCACACAAGTGCAATTC
1 AGGGGCACACAAGTGAAATTC
* *
46792582 AGGGGTAC-CGAAGT-ACAAAT-
1 AGGGGCACAC-AAGTGA-AATTC
*
46792602 AGGGGCACACAAGTGCAATTC
1 AGGGGCACACAAGTGAAATTC
46792623 AGGGG
1 AGGGG
46792628 TACCGGAGTA
Statistics
Matches: 93, Mismatches: 20, Indels: 30
0.65 0.14 0.21
Matches are distributed among these distances:
20 44 0.47
21 49 0.53
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.15
Consensus pattern (21 bp):
AGGGGCACACAAGTGAAATTC
Found at i:46792504 original size:41 final size:41
Alignment explanation
Indices: 46792449--46792663 Score: 322
Period size: 41 Copynumber: 5.2 Consensus size: 41
46792439 GGGCATGTAT
* * *
46792449 GTGCAATTTAAGGGGTACCAAAGTACAAATAGGGGCACATAA
1 GTGCAA-TTCAGGGGTACCGAAGTACAAATAGGGGCACACAA
* * *
46792491 GTGAAATTCAGGGGTACCGAAGTACAAACATGGGCACACAA
1 GTGCAATTCAGGGGTACCGAAGTACAAATAGGGGCACACAA
46792532 GTGCAATTCAGGGGTACCGAAGTACAAATAGGGGCACACAA
1 GTGCAATTCAGGGGTACCGAAGTACAAATAGGGGCACACAA
46792573 GTGCAATTCAGGGGTACCGAAGTACAAATAGGGGCACACAA
1 GTGCAATTCAGGGGTACCGAAGTACAAATAGGGGCACACAA
* * ***
46792614 GTGCAATTCAGGGGTACCGGAGTACAAACAGGGGCATGTAA
1 GTGCAATTCAGGGGTACCGAAGTACAAATAGGGGCACACAA
46792655 GTGCAATTC
1 GTGCAATTC
46792664 CTCATTATTC
Statistics
Matches: 159, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 154 0.97
42 5 0.03
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.17
Consensus pattern (41 bp):
GTGCAATTCAGGGGTACCGAAGTACAAATAGGGGCACACAA
Found at i:46792647 original size:20 final size:20
Alignment explanation
Indices: 46792459--46792647 Score: 107
Period size: 20 Copynumber: 9.2 Consensus size: 20
46792449 GTGCAATTTA
* *
46792459 AGGGGTACCAAAGTACAAAT
1 AGGGGTACCGAAGTACAAAC
* ** *
46792479 AGGGGCACATAAGTGA-AATTC
1 AGGGGTACCGAAGT-ACAA-AC
46792500 AGGGGTACCGAAGTACAAAC
1 AGGGGTACCGAAGTACAAAC
* * * *
46792520 ATGGGCACAC-AAGTGCAATTC
1 AGGGGTAC-CGAAGTACAA-AC
*
46792541 AGGGGTACCGAAGTACAAAT
1 AGGGGTACCGAAGTACAAAC
* * *
46792561 AGGGGCACAC-AAGTGCAATTC
1 AGGGGTAC-CGAAGTACAA-AC
*
46792582 AGGGGTACCGAAGTACAAAT
1 AGGGGTACCGAAGTACAAAC
* * *
46792602 AGGGGCACAC-AAGTGCAATTC
1 AGGGGTAC-CGAAGTACAA-AC
*
46792623 AGGGGTACCGGAGTACAAAC
1 AGGGGTACCGAAGTACAAAC
46792643 AGGGG
1 AGGGG
46792648 CATGTAAGTG
Statistics
Matches: 123, Mismatches: 34, Indels: 24
0.68 0.19 0.13
Matches are distributed among these distances:
20 65 0.53
21 58 0.47
ACGTcount: A:0.37, C:0.19, G:0.30, T:0.14
Consensus pattern (20 bp):
AGGGGTACCGAAGTACAAAC
Found at i:46794810 original size:16 final size:15
Alignment explanation
Indices: 46794789--46794826 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
46794779 CAAAAAATAA
46794789 AAACTAAAAACAAACT
1 AAACTAAAAACAAA-T
*
46794805 AAACTAAAAATAAAT
1 AAACTAAAAACAAAT
46794820 AAA-TAAA
1 AAACTAAA
46794827 CATGAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 4 0.19
16 13 0.62
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (15 bp):
AAACTAAAAACAAAT
Found at i:46797682 original size:66 final size:65
Alignment explanation
Indices: 46797558--46797696 Score: 167
Period size: 66 Copynumber: 2.1 Consensus size: 65
46797548 ATCACAAAAA
* *
46797558 GGCGTGTGATTGGCCGTGTGGTACAAGTCAGTATACCTCTAAATTGGCACACAGCCTAGCATAAG
1 GGCGTGTGATTGGCCATGTGGTACAAGTCAGTATACCTCTAAATTGGCACACAGCCTAGCACAAG
* * * *
46797623 GGCGTGTGATATGGCCATGTTGTATAAGTCAGTATACC-CTACAGGTTTGGCAC-GA-CCTAGCA
1 GGCGTGTGAT-TGGCCATGTGGTACAAGTCAGTATACCTCTA-A--ATTGGCACACAGCCTAGCA
46797685 CAAG
62 CAAG
46797689 GGCGTGTG
1 GGCGTGTG
46797697 GACACTTCAA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
65 13 0.20
66 43 0.67
67 1 0.02
68 7 0.11
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (65 bp):
GGCGTGTGATTGGCCATGTGGTACAAGTCAGTATACCTCTAAATTGGCACACAGCCTAGCACAAG
Found at i:46806073 original size:39 final size:39
Alignment explanation
Indices: 46806027--46806193 Score: 271
Period size: 39 Copynumber: 4.3 Consensus size: 39
46806017 GGTCTTTAAC
** *
46806027 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
46806066 CCAGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
46806105 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
46806144 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
46806183 CCGGATATTTT
1 CCGGATATTTT
46806194 CAATCTCATA
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 117 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:46817496 original size:29 final size:27
Alignment explanation
Indices: 46817462--46817564 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
46817452 TACTCAATCA
*
46817462 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
46817491 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
46817520 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
46817549 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
46817565 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:46825511 original size:29 final size:27
Alignment explanation
Indices: 46825477--46825579 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
46825467 TACTCAATCA
*
46825477 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
46825506 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
46825535 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
46825564 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
46825580 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:46830285 original size:40 final size:40
Alignment explanation
Indices: 46830240--46830407 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
46830230 CGGAATATAA
46830240 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * **
46830280 CCGGATAGAATAACTCGCACGGATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
46830320 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
46830360 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46830400 CCGGATAT
1 CCGGATAT
46830408 CATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 104 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46837325 original size:27 final size:27
Alignment explanation
Indices: 46837294--46837362 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
46837284 AGCGTAGATC
46837294 ACGAAATTACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
46837321 ACGAAATTACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
*
46837348 ACCGATA-TACCCCTA
1 A-CGAAATTACCCCTA
46837363 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 36 0.90
28 4 0.10
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (27 bp):
ACGAAATTACCCCTAAAGAGCAAAATT
Found at i:46841581 original size:27 final size:28
Alignment explanation
Indices: 46841550--46841603 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
46841540 CGTAGATCAC
46841550 GAAATTA-CCCTAAAGAGCAAAATTACT
1 GAAATTACCCCTAAAGAGCAAAATTACT
46841577 GAAATTACCCCTAAAGAGCAAAATTAC
1 GAAATTACCCCTAAAGAGCAAAATTAC
46841604 CGATATACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.20
Consensus pattern (28 bp):
GAAATTACCCCTAAAGAGCAAAATTACT
Found at i:46850884 original size:27 final size:24
Alignment explanation
Indices: 46850854--46851008 Score: 73
Period size: 24 Copynumber: 6.0 Consensus size: 24
46850844 AACCCTATTT
*
46850854 TTATATTTATATTATATAGTTATTCTA
1 TTATATTT-TATT-TATA-TTATTATA
* *
46850881 TTATGTATTATTTATATTATTATA
1 TTATATTTTATTTATATTATTATA
* * *
46850905 TTATTATTTTTCACTAATTATTATTATT
1 TTA-TA-TTTT-ATTTA-TATTATTATA
* *
46850933 TTACATTATTATTTATA-TATTATTG
1 TTATATT-TTATTTATATTATTA-TA
* *
46850958 TTATATTTTTACTTATATTA-TATG
1 TTATA-TTTTATTTATATTATTATA
*
46850982 TT-TATTAATTATTTATCTGTATTATA
1 TTATATT--TTATTTATAT-TATTATA
46851008 T
1 T
46851009 ATTATATTCA
Statistics
Matches: 99, Mismatches: 17, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
22 2 0.02
23 2 0.02
24 27 0.27
25 24 0.24
26 20 0.20
27 12 0.12
28 12 0.12
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (24 bp):
TTATATTTTATTTATATTATTATA
Found at i:46850898 original size:16 final size:17
Alignment explanation
Indices: 46850857--46850909 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
46850847 CCTATTTTTA
46850857 TATTTATATTATATAGT
1 TATTTATATTATATAGT
* *
46850874 TA-TTCTATTATGTA-T
1 TATTTATATTATATAGT
46850889 TATTTATATTATTATA-T
1 TATTTATATTA-TATAGT
46850906 TATT
1 TATT
46850910 ATTTTTCACT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 3 0.10
16 17 0.57
17 10 0.33
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (17 bp):
TATTTATATTATATAGT
Found at i:46850901 original size:3 final size:3
Alignment explanation
Indices: 46850879--46850978 Score: 50
Period size: 3 Copynumber: 33.0 Consensus size: 3
46850869 ATAGTTATTC
* *
46850879 TAT TAT GTAT TAT T-T ATAT TAT TA- TAT TAT TAT TTT TCACT AAT TAT
1 TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT T-A-T TAT TAT
* * *
46850926 TAT TAT T-T TA- CAT TAT TATT TAT ATAT TAT TGT TA- TAT TTT TACT
1 TAT TAT TAT TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TA-T
46850971 TA- TAT TAT
1 TAT TAT TAT
46850979 ATGTTTATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
2 10 0.14
3 49 0.66
4 14 0.19
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:46850904 original size:40 final size:40
Alignment explanation
Indices: 46850849--46850956 Score: 113
Period size: 41 Copynumber: 2.8 Consensus size: 40
46850839 TTTTTAACCC
46850849 TATT-TTTATA-T-TTATATTATATAGTTATT-CT-ATTAT
1 TATTATTTATATTATTATATTATATA-TTATTACTAATTAT
*
46850885 GTATTATTTATATTATTATATTAT-TATTTTTCACTAATTAT
1 -TATTATTTATATTATTATATTATATATTATT-ACTAATTAT
*
46850926 TATTATTTTACATTATTAT-TTATATATTATT
1 TATTA-TTTATATTATTATATTATATATTATT
46850957 GTTATATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
37 4 0.07
38 10 0.17
39 3 0.05
40 20 0.33
41 23 0.38
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (40 bp):
TATTATTTATATTATTATATTATATATTATTACTAATTAT
Found at i:46850911 original size:20 final size:20
Alignment explanation
Indices: 46850849--46851107 Score: 80
Period size: 20 Copynumber: 12.9 Consensus size: 20
46850839 TTTTTAACCC
46850849 TATT-TTTATA-T-TTATAT
1 TATTATTTATATTATTATAT
* *
46850866 TATATAGTTAT-TCTATTAT-G
1 TAT-TATTTATAT-TATTATAT
46850886 TATTATTTATATTATTATAT
1 TATTATTTATATTATTATAT
* * *
46850906 TATTATTTTTCACTAAT-TAT
1 TATTATTTAT-ATTATTATAT
*
46850926 TATTATTTTACATTATTAT-T
1 TATTA-TTTATATTATTATAT
* *
46850946 TA-TATAT-TATTGTTATAT
1 TATTATTTATATTATTATAT
* * *
46850964 TTTTACTTATATTA-TATGTT
1 TATTATTTATATTATTAT-AT
* *
46850984 TATTAATTAT-TTATCTGTAT
1 TATTATTTATATTAT-TATAT
*
46851004 TA-TATATTATATTCA-CATA-
1 TATTAT-TTATATT-ATTATAT
*
46851023 TA-TACTTTCGTATTATATATTAT
1 TATTA-TTT-ATATTAT-TA-TAT
* *
46851046 AATTATTTTATATTATTATGT
1 TATTA-TTTATATTATTATAT
* * *
46851067 CATTTTTTATACTATTATATT
1 TATTATTTATATTATTATA-T
*
46851088 TTTTATCTATATATTATTAT
1 TATTAT-T-TATATTATTAT
46851108 CATTTAAGTT
Statistics
Matches: 173, Mismatches: 40, Indels: 52
0.65 0.15 0.20
Matches are distributed among these distances:
17 10 0.06
18 5 0.03
19 36 0.21
20 68 0.39
21 26 0.15
22 6 0.03
23 17 0.10
24 5 0.03
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (20 bp):
TATTATTTATATTATTATAT
Found at i:46850955 original size:11 final size:11
Alignment explanation
Indices: 46850849--46850978 Score: 53
Period size: 11 Copynumber: 11.5 Consensus size: 11
46850839 TTTTTAACCC
46850849 TATT-TTTATA
1 TATTATTTATA
46850859 T-TTATATTATA
1 TATTAT-TTATA
46850870 TAGTTATTCTAT-
1 TA-TTATT-TATA
*
46850882 TATGTATTATTTA
1 TAT-TATT-TATA
46850895 TATTA-TTATA
1 TATTATTTATA
46850905 TTATTATTT-T-
1 -TATTATTTATA
* *
46850915 TCACTAATTAT-
1 T-ATTATTTATA
*
46850926 TATTATTTTACA
1 TATTA-TTTATA
46850938 TTATTATTTATA
1 -TATTATTTATA
46850950 TATTATTGT-TA
1 TATTATT-TATA
46850961 TATT-TTTACTTA
1 TATTATTTA--TA
46850973 TATTAT
1 TATTAT
46850979 ATGTTTATTA
Statistics
Matches: 92, Mismatches: 9, Indels: 35
0.68 0.07 0.26
Matches are distributed among these distances:
9 4 0.04
10 15 0.16
11 32 0.35
12 25 0.27
13 16 0.17
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (11 bp):
TATTATTTATA
Found at i:46851105 original size:18 final size:17
Alignment explanation
Indices: 46851047--46851105 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
46851037 ATATATTATA
*
46851047 ATTATTTTATAT-TATT
1 ATTATTTTTTATCTATT
46851063 ATGTCATTTTTTATACTATT
1 AT-T-ATTTTTTAT-CTATT
46851083 A-TATTTTTTATCTATAT
1 ATTATTTTTTATCTAT-T
46851100 ATTATT
1 ATTATT
46851106 ATCATTTAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
16 6 0.17
17 12 0.33
18 13 0.36
20 5 0.14
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (17 bp):
ATTATTTTTTATCTATT
Found at i:46851388 original size:17 final size:16
Alignment explanation
Indices: 46851365--46851423 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
46851355 CCAATATATT
46851365 TTATATTTTTATATAA
1 TTATATTTTTATATAA
*
46851381 TTATTATTCTTATA-AA
1 TTA-TATTTTTATATAA
46851397 -TATACTTTTTATTATATA
1 TTATA-TTTTTA-TATA-A
46851415 TTATATTTT
1 TTATATTTT
46851424 AAATCTGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 2 0.06
15 7 0.20
16 7 0.20
17 10 0.29
18 5 0.14
19 4 0.11
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATATTTTTATATAA
Found at i:46855433 original size:40 final size:40
Alignment explanation
Indices: 46855388--46855555 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
46855378 CGGAATATAA
46855388 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
46855428 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
46855468 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
46855508 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46855548 CCGGATAT
1 CCGGATAT
46855556 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46863446 original size:40 final size:40
Alignment explanation
Indices: 46863401--46863567 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
46863391 CGGAATATAA
46863401 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
46863441 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
46863481 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
46863521 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46863560 CCGGATAT
1 CCGGATAT
46863568 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46867443 original size:40 final size:40
Alignment explanation
Indices: 46867384--46867551 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
46867374 CATTTGAATG
* * *
46867384 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
46867424 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * **
46867464 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
46867504 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
46867544 ATATCCGG
1 ATATCCGG
46867552 TTAAATCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 99 0.93
41 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:46874900 original size:40 final size:40
Alignment explanation
Indices: 46874845--46875051 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
46874835 TGAATGATAC
* * *
46874845 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
46874885 CCGGGCTAAGACCCGAAGGCATTT-TGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
46874924 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
46874964 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
46875004 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
46875044 CC-GGCTAA
1 CCGGGCTAA
46875052 ATTCCGAAGA
Statistics
Matches: 153, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 40 0.26
40 113 0.74
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:46875060 original size:79 final size:79
Alignment explanation
Indices: 46874841--46875051 Score: 316
Period size: 79 Copynumber: 2.7 Consensus size: 79
46874831 CATTTGAATG
* * *
46874841 ATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
*
46874906 TTTTGCGAGTTGTT
66 TTTTGCGAGTTGCT
* * *
46874920 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
46874985 TTTGTGCGAGTTGCT
66 TTT-TGCGAGTTGCT
* * *
46875000 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAA
46875052 ATTCCGAAGA
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
79 68 0.58
80 50 0.42
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
TTTTGCGAGTTGCT
Found at i:46881062 original size:28 final size:29
Alignment explanation
Indices: 46880953--46881062 Score: 122
Period size: 28 Copynumber: 3.9 Consensus size: 29
46880943 GATTTTGAAA
*
46880953 ATGGCACTTAGTGTGCGAA-ACATCCAGAA
1 ATGGCACTTAGTGTGCGAATACATCCAG-G
* * * *
46880982 ATGGCTCTTAGTGAGCGAAT-TATCGAGG
1 ATGGCACTTAGTGTGCGAATACATCCAGG
46881010 ATGGCACTTAGTGTGCGAGAT--ATCCAGG
1 ATGGCACTTAGTGTGCGA-ATACATCCAGG
46881038 ATGGCACTTAGTGTGC-AATACATCC
1 ATGGCACTTAGTGTGCGAATACATCC
46881063 GTGAAGGTCC
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
26 2 0.03
27 1 0.01
28 42 0.61
29 24 0.35
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (29 bp):
ATGGCACTTAGTGTGCGAATACATCCAGG
Found at i:46884267 original size:3 final size:3
Alignment explanation
Indices: 46884259--46884309 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
46884249 AAACATACTA
*
46884259 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46884307 AAT
1 AAT
46884310 CAAAACATCC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:46891837 original size:40 final size:39
Alignment explanation
Indices: 46891751--46891934 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
46891741 AAATTGAATG
* * * * *
46891751 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
46891791 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
*
46891831 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
46891871 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
46891910 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
46891935 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 110 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:46899883 original size:39 final size:40
Alignment explanation
Indices: 46899825--46899925 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
46899815 AAATTGAATG
* *
46899825 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
46899864 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
46899904 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
46899926 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:46899918 original size:40 final size:40
Alignment explanation
Indices: 46899825--46900007 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
46899815 AAATTGAATG
* * * * *
46899825 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
46899864 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
46899904 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
46899944 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
46899984 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
46900008 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:46902528 original size:57 final size:57
Alignment explanation
Indices: 46902459--46902589 Score: 160
Period size: 57 Copynumber: 2.3 Consensus size: 57
46902449 TCGATTTTGA
*
46902459 AAATGGCACTTAGTGTGCGAGTTA-CTGAGGACAACACTTAGTGTGCTAA-ACATCCAG
1 AAATGGCACTTAGTGTGCGAATTATC-GAGGACAACACTTAGTGTGC-AAGACATCCAG
* * ***
46902516 AAATGGCTCTTAGTGAGCGAATTATCGAGGATGGCACTTAGTGTGCAAGACATCCAG
1 AAATGGCACTTAGTGTGCGAATTATCGAGGACAACACTTAGTGTGCAAGACATCCAG
*
46902573 -GATGGCACTTAGTGTGC
1 AAATGGCACTTAGTGTGC
46902590 AATACATCCG
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
56 16 0.25
57 46 0.73
58 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (57 bp):
AAATGGCACTTAGTGTGCGAATTATCGAGGACAACACTTAGTGTGCAAGACATCCAG
Found at i:46902555 original size:28 final size:28
Alignment explanation
Indices: 46902493--46902598 Score: 90
Period size: 28 Copynumber: 3.8 Consensus size: 28
46902483 CTGAGGACAA
* *
46902493 CACTTAGTGTGCTAA-ACATCCAGAAATGG
1 CACTTAGTGAGC-AAGACATCCAG-GATGG
* ** *
46902522 CTCTTAGTGAGCGAA-TTATCGAGGATGG
1 CACTTAGTGAGC-AAGACATCCAGGATGG
*
46902550 CACTTAGTGTGCAAGACATCCAGGATGG
1 CACTTAGTGAGCAAGACATCCAGGATGG
* *
46902578 CACTTAGTGTGCAATACATCC
1 CACTTAGTGAGCAAGACATCC
46902599 GTGAAGGTAC
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
27 2 0.03
28 44 0.70
29 17 0.27
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (28 bp):
CACTTAGTGAGCAAGACATCCAGGATGG
Found at i:46902614 original size:28 final size:28
Alignment explanation
Indices: 46902543--46902617 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
46902533 CGAATTATCG
* *
46902543 AGGATGGCACTTAGTGTGCAAGACATCC
1 AGGAAGGCACTGAGTGTGCAAGACATCC
* * *
46902571 AGGATGGCACTTAGTGTGCAATACATCC
1 AGGAAGGCACTGAGTGTGCAAGACATCC
*
46902599 -GTGAAGGTACTGAGTGTGC
1 AG-GAAGGCACTGAGTGTGC
46902618 GAAACTTCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.98
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (28 bp):
AGGAAGGCACTGAGTGTGCAAGACATCC
Found at i:46909132 original size:2 final size:2
Alignment explanation
Indices: 46909125--46909151 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46909115 GACCTTTAGG
46909125 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
46909152 GGTGTTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46909291 original size:2 final size:2
Alignment explanation
Indices: 46909284--46909311 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
46909274 GTGTAAAGTA
46909284 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
46909312 GCTTGGCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46917067 original size:2 final size:2
Alignment explanation
Indices: 46917060--46917088 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46917050 GACCTTTAGG
46917060 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46917089 GTGTGTGTGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46917093 original size:2 final size:2
Alignment explanation
Indices: 46917088--46917124 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
46917078 TATATATATA
46917088 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
46917125 TTGAACATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:46917342 original size:2 final size:2
Alignment explanation
Indices: 46917335--46917369 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
46917325 TGAGTTGGTG
46917335 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46917370 CTCATGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46919691 original size:65 final size:66
Alignment explanation
Indices: 46919587--46919748 Score: 213
Period size: 66 Copynumber: 2.5 Consensus size: 66
46919577 TATATTCACT
* *
46919587 ATTTATATATATATTACAAGTTTTTAATAAATAATAAATTA-TTTTTGAGTTTTTACACATTTAA
1 ATTTATATATATTTTACAAGTTTTTAATAAATAATAAATTATTTTTTGAGTTTTTAAACATTTAA
46919651 A
66 A
* * * *
46919652 ATTTATATATATTTTA-GATTTTATTAATAAATAATAAATTATTTTTTGATTTTTTAAACATTTG
1 ATTTATATATATTTTACAAGTTT-TTAATAAATAATAAATTATTTTTTGAGTTTTTAAACATTTA
46919716 AA
65 AA
* * *
46919718 ATCTATATATATTTTAAAAATTTTTAA-AAAT
1 ATTTATATATATTTTACAAGTTTTTAATAAAT
46919749 TTTAAAAATT
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
64 4 0.05
65 37 0.44
66 40 0.47
67 4 0.05
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (66 bp):
ATTTATATATATTTTACAAGTTTTTAATAAATAATAAATTATTTTTTGAGTTTTTAAACATTTAA
A
Found at i:46919744 original size:10 final size:10
Alignment explanation
Indices: 46919729--46919760 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
46919719 TCTATATATA
46919729 TTTTAAAAAT
1 TTTTAAAAAT
46919739 TTTTAAAAA-
1 TTTTAAAAAT
46919748 TTTTAAAAAT
1 TTTTAAAAAT
46919758 TTT
1 TTT
46919761 AATTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTTAAAAAT
Found at i:46920400 original size:21 final size:21
Alignment explanation
Indices: 46920374--46920416 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
46920364 AATTGAATTG
* *
46920374 ATTTTTTTACAAATTTTTAATA
1 ATTTTTATA-AAAATTTTAATA
46920396 ATTTTTATAAAAATTTTAATA
1 ATTTTTATAAAAATTTTAATA
46920417 TTATTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTTATAAAAATTTTAATA
Found at i:46920960 original size:40 final size:40
Alignment explanation
Indices: 46920905--46920984 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
46920895 GAAATGACAC
46920905 AATTTTCAAACATTCCCATTTGCAAATACTGTCCCCATTT
1 AATTTTCAAACATTCCCATTTGCAAATACTGTCCCCATTT
*
46920945 AATTTTTAAACATTCCCATTTGCAAATACTGTCCCCATTT
1 AATTTTCAAACATTCCCATTTGCAAATACTGTCCCCATTT
46920985 CTTCATATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.39
Consensus pattern (40 bp):
AATTTTCAAACATTCCCATTTGCAAATACTGTCCCCATTT
Found at i:46922789 original size:12 final size:12
Alignment explanation
Indices: 46922772--46922805 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
46922762 CGGCCCATCC
46922772 ATATTAATTTTT
1 ATATTAATTTTT
*
46922784 ATATTATTTTTT
1 ATATTAATTTTT
46922796 ATA-TAATTTT
1 ATATTAATTTT
46922806 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:46932920 original size:19 final size:19
Alignment explanation
Indices: 46932898--46932936 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46932888 TATGTATTTC
46932898 TTATTCATT-TTTATTTTAT
1 TTATT-ATTCTTTATTTTAT
*
46932917 TTATTATTCTTTGTTTTAT
1 TTATTATTCTTTATTTTAT
46932936 T
1 T
46932937 ATTTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (19 bp):
TTATTATTCTTTATTTTAT
Found at i:46932938 original size:22 final size:21
Alignment explanation
Indices: 46932880--46932945 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
46932870 CCCTTCACTT
46932880 ATTTTATTTATGTATTTCTTATTC
1 ATTTT-TTTAT-TATTT-TTATTC
46932904 ATTTTTATT-TTATTTATTATTC
1 ATTTTT-TTATTATTT-TTATTC
46932926 -TTTGTTTTATTATTTTTATT
1 ATTT-TTTTATTATTTTTATT
46932946 TCCCTTTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 10 0.26
22 19 0.50
23 2 0.05
24 7 0.18
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.73
Consensus pattern (21 bp):
ATTTTTTTATTATTTTTATTC
Found at i:46933141 original size:3 final size:3
Alignment explanation
Indices: 46933133--46933228 Score: 192
Period size: 3 Copynumber: 32.0 Consensus size: 3
46933123 TTGTGTTTTC
46933133 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46933181 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46933229 ATTTTTAATG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:46935421 original size:29 final size:28
Alignment explanation
Indices: 46935380--46935437 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
46935370 TTCCCTTTTC
46935380 ATTAAGAACAAAGCTAAACAGTGGATGA
1 ATTAAGAACAAAGCTAAACAGTGGATGA
*
46935408 ATTAAGGAACAAAGCTAAACAGTGGTTGA
1 ATTAA-GAACAAAGCTAAACAGTGGATGA
46935437 A
1 A
46935438 CTCGTTACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.48, C:0.10, G:0.22, T:0.19
Consensus pattern (28 bp):
ATTAAGAACAAAGCTAAACAGTGGATGA
Found at i:46938123 original size:94 final size:94
Alignment explanation
Indices: 46937962--46938139 Score: 311
Period size: 94 Copynumber: 1.9 Consensus size: 94
46937952 TGCCCGTGTC
* * *
46937962 TAACACCCGTGGCCAAACCTGTCAAATTAACACGGGCGTGGGGTTTTCATACACGGGCGTAGGAG
1 TAACACCCGTGGCCAAACCTGTCAAATTAACACGAGCGTGGAGTTTTCATACACAGGCGTAGGAG
*
46938027 AAGTGAACAACGCCAGCCACGGGCATGTT
66 AAGCGAACAACGCCAGCCACGGGCATGTT
*
46938056 TAACACCCGTGGCCAAACCTGTCAAATTAACACGAGCGTGGAGTTTTCATACACAGGCTTAGGAG
1 TAACACCCGTGGCCAAACCTGTCAAATTAACACGAGCGTGGAGTTTTCATACACAGGCGTAGGAG
46938121 AAGCGAACAACGCCAGCCA
66 AAGCGAACAACGCCAGCCA
46938140 GGTCGTGCGA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 79 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (94 bp):
TAACACCCGTGGCCAAACCTGTCAAATTAACACGAGCGTGGAGTTTTCATACACAGGCGTAGGAG
AAGCGAACAACGCCAGCCACGGGCATGTT
Found at i:46944327 original size:39 final size:39
Alignment explanation
Indices: 46944284--46944492 Score: 292
Period size: 39 Copynumber: 5.3 Consensus size: 39
46944274 GGTCTTTAAC
** * *
46944284 CCGGATATTTTTCCAGCACGTAGCCTGCAGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
46944323 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
46944362 TCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * * *
46944401 CCAGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
46944440 CCGGATATTTTTCCAGCATATAGCCTGTGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
46944479 CCGGATATATTTTC
1 CCGGATAT-TTTTC
46944493 AATCTCATAC
Statistics
Matches: 148, Mismatches: 21, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 143 0.97
40 5 0.03
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:46944395 original size:78 final size:78
Alignment explanation
Indices: 46944284--46944490 Score: 351
Period size: 78 Copynumber: 2.7 Consensus size: 78
46944274 GGTCTTTAAC
** * *
46944284 CCGGATATTTTTCCAGCACGTAGCCTGCAGACCTCAAGTCCGGATATATTTCTAGCATATAGCCT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTCTAGCATATAGCCT
46944349 GCGGATCTCATGT
66 GCGGATCTCATGT
* *
46944362 TCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCAGATATATTTCTAGCATATAGCCT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTCTAGCATATAGCCT
46944427 GCGGATCTCATGT
66 GCGGATCTCATGT
*
46944440 CCGGATATTTTTCCAGCATATAGCCTGTGGACCTCATGTCCGGATATATTT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTT
46944491 TCAATCTCAT
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 120 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (78 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTCTAGCATATAGCCT
GCGGATCTCATGT
Found at i:46947250 original size:27 final size:27
Alignment explanation
Indices: 46947214--46947278 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
46947204 AAATTGCTAA
46947214 TTTTATTTTTGTTCTTT-TCAGTCTTAT
1 TTTTATTTTTGTT-TTTATCAGTCTTAT
** *
46947241 TTTTATTTTTGTTTTTATTTGTTTTAT
1 TTTTATTTTTGTTTTTATCAGTCTTAT
46947268 TTTTATTTTTG
1 TTTTATTTTTG
46947279 GGACTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 3 0.09
27 31 0.91
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.77
Consensus pattern (27 bp):
TTTTATTTTTGTTTTTATCAGTCTTAT
Found at i:46952391 original size:14 final size:14
Alignment explanation
Indices: 46952372--46952399 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46952362 AATGAGGTTA
46952372 GGAGATAAGTTTTT
1 GGAGATAAGTTTTT
46952386 GGAGATAAGTTTTT
1 GGAGATAAGTTTTT
46952400 CGAGTAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
GGAGATAAGTTTTT
Found at i:46953927 original size:11 final size:11
Alignment explanation
Indices: 46953911--46953940 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
46953901 CTCTTTTAAC
46953911 CATTTAAAATT
1 CATTTAAAATT
46953922 CATTTAAAATT
1 CATTTAAAATT
*
46953933 CACTTAAA
1 CATTTAAA
46953941 TTAAATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (11 bp):
CATTTAAAATT
Found at i:46955364 original size:13 final size:13
Alignment explanation
Indices: 46955346--46955403 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
46955336 AAATAAAGAT
46955346 AATTTAAAAATAA
1 AATTTAAAAATAA
46955359 AATTT----A-AA
1 AATTTAAAAATAA
* **
46955367 AATTTAAAACTGT
1 AATTTAAAAATAA
46955380 AATTTAAAAATAA
1 AATTTAAAAATAA
46955393 AATTTAAAAAT
1 AATTTAAAAAT
46955404 TTAAAACTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
8 7 0.21
9 1 0.03
13 26 0.76
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (13 bp):
AATTTAAAAATAA
Found at i:46955370 original size:8 final size:8
Alignment explanation
Indices: 46955346--46955438 Score: 60
Period size: 8 Copynumber: 12.6 Consensus size: 8
46955336 AAATAAAGAT
46955346 AATTTAAA
1 AATTTAAA
46955354 AA--T-AA
1 AATTTAAA
46955359 AATTTAAA
1 AATTTAAA
46955367 AATTTAAA
1 AATTTAAA
* *
46955375 ACTGT---
1 AATTTAAA
46955380 AATTTAAA
1 AATTTAAA
46955388 AA--T-AA
1 AATTTAAA
46955393 AATTTAAA
1 AATTTAAA
46955401 AATTTAAA
1 AATTTAAA
* * *
46955409 ACTATATA
1 AATTTAAA
46955417 AATTTCAAA
1 AATTT-AAA
*
46955426 AATCTAAA
1 AATTTAAA
46955434 AATTT
1 AATTT
46955439 TGGAAAACAA
Statistics
Matches: 63, Mismatches: 12, Indels: 20
0.66 0.13 0.21
Matches are distributed among these distances:
5 11 0.17
6 2 0.03
7 2 0.03
8 42 0.67
9 6 0.10
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (8 bp):
AATTTAAA
Found at i:46955372 original size:21 final size:21
Alignment explanation
Indices: 46955346--46955390 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
46955336 AAATAAAGAT
46955346 AATTTAAAAATAAAATTTAAA
1 AATTTAAAAATAAAATTTAAA
* **
46955367 AATTTAAAACTGTAATTTAAA
1 AATTTAAAAATAAAATTTAAA
46955388 AAT
1 AAT
46955391 AAAATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTTAAAAATAAAATTTAAA
Found at i:46955385 original size:34 final size:34
Alignment explanation
Indices: 46955345--46955411 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
46955335 AAAATAAAGA
46955345 TAATTTAAAAATAAAATTTAAAAATTTAAAACTG
1 TAATTTAAAAATAAAATTTAAAAATTTAAAACTG
46955379 TAATTTAAAAATAAAATTTAAAAATTTAAAACT
1 TAATTTAAAAATAAAATTTAAAAATTTAAAACT
46955412 ATATAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (34 bp):
TAATTTAAAAATAAAATTTAAAAATTTAAAACTG
Found at i:46955426 original size:25 final size:21
Alignment explanation
Indices: 46955380--46955436 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 21
46955370 TTAAAACTGT
46955380 AATTTAAAAATAAAATTTAAA
1 AATTTAAAAATAAAATTTAAA
46955401 AATTTAAAACTATATAAATTTCAAA
1 AATTTAAAA--ATA-AAATTT-AAA
*
46955426 AATCTAAAAAT
1 AATTTAAAAAT
46955437 TTTGGAAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 9 0.29
23 5 0.16
24 6 0.19
25 11 0.35
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
AATTTAAAAATAAAATTTAAA
Found at i:46955680 original size:21 final size:22
Alignment explanation
Indices: 46955654--46955701 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
46955644 TTTAGATTTC
*
46955654 ATAAATATTGT-TAAAGAGT-TA
1 ATAAATATTCTCTAAA-AGTATA
46955675 ATAAATATTCTCTAAAAGTATA
1 ATAAATATTCTCTAAAAGTATA
46955697 ATAAA
1 ATAAA
46955702 ATACTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.35
Consensus pattern (22 bp):
ATAAATATTCTCTAAAAGTATA
Found at i:46969157 original size:71 final size:71
Alignment explanation
Indices: 46969073--46969236 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
46969063 CGATTTGTCT
46969073 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
46969138 CTTTCA
66 CTTTCA
46969144 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
46969209 CTTTCA
66 CTTTCA
46969215 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
46969237 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:46969274 original size:71 final size:70
Alignment explanation
Indices: 46969073--46969270 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
46969063 CGATTTGTCT
* * * *
46969073 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
46969138 CTTTCA
65 CTTTCA
* * * *
46969144 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
46969209 CTTTCA
65 CTTTCA
* *
46969215 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
46969271 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:46976727 original size:71 final size:71
Alignment explanation
Indices: 46976643--46976806 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
46976633 CGATTTGTCT
46976643 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
46976708 CTTTCA
66 CTTTCA
46976714 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
46976779 CTTTCA
66 CTTTCA
46976785 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
46976807 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:46976844 original size:71 final size:70
Alignment explanation
Indices: 46976643--46976840 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
46976633 CGATTTGTCT
* * * *
46976643 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
46976708 CTTTCA
65 CTTTCA
* * * *
46976714 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
46976779 CTTTCA
65 CTTTCA
* *
46976785 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
46976841 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:46986249 original size:20 final size:20
Alignment explanation
Indices: 46986220--46986257 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
46986210 ACGGGATTTA
*
46986220 CACTTCGGTGCCTCTGTTTG
1 CACTTCGGTGCCTATGTTTG
*
46986240 CACTTTGGTGCCTATGTT
1 CACTTCGGTGCCTATGTT
46986258 AGCATATCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.26, G:0.24, T:0.42
Consensus pattern (20 bp):
CACTTCGGTGCCTATGTTTG
Found at i:46986329 original size:58 final size:58
Alignment explanation
Indices: 46986235--46986350 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 58
46986225 CGGTGCCTCT
* *
46986235 GTTTGCACTTTGGTGCCTATGTTAGCATATCGATGCTCTCTAGTGTAATTGGGCTAGC
1 GTTTGCACTTTGGTGCCTATGTTAGCATATCAATGCTCTCTAGTATAATTGGGCTAGC
* * * *
46986293 GTTTGCA-TTTCGGTGCCTATGTTAGCATTTTAATGCTCTCTAGTATGATTGGGTTAGC
1 GTTTGCACTTT-GGTGCCTATGTTAGCATATCAATGCTCTCTAGTATAATTGGGCTAGC
46986351 TGAGTATCCA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
57 3 0.06
58 48 0.94
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.41
Consensus pattern (58 bp):
GTTTGCACTTTGGTGCCTATGTTAGCATATCAATGCTCTCTAGTATAATTGGGCTAGC
Found at i:46987978 original size:19 final size:19
Alignment explanation
Indices: 46987950--46987993 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
46987940 GAACTTAAAG
*
46987950 TGCATACTAGCGCACGAAA
1 TGCATACTAGCACACGAAA
* *
46987969 TGCATCCTAGCACACGAAG
1 TGCATACTAGCACACGAAA
46987988 TGCATA
1 TGCATA
46987994 TTGACCAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.18
Consensus pattern (19 bp):
TGCATACTAGCACACGAAA
Found at i:46988045 original size:19 final size:19
Alignment explanation
Indices: 46988017--46988053 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46988007 CGCATCCTGG
*
46988017 CACACGAAGTGAATCTTAT
1 CACACAAAGTGAATCTTAT
*
46988036 CACACAAAGTGCATCTTA
1 CACACAAAGTGAATCTTA
46988054 GCGCATAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (19 bp):
CACACAAAGTGAATCTTAT
Found at i:46988050 original size:38 final size:38
Alignment explanation
Indices: 46987969--46988055 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 38
46987959 GCGCACGAAA
*
46987969 TGCATCCTAGCACACGAAGTGCATATTGACCAACAAAG
1 TGCATCCTAGCACACGAAGTGAATATTGACCAACAAAG
* * * *
46988007 CGCATCCTGGCACACGAAGTGAATCTT-ATCACACAAAG
1 TGCATCCTAGCACACGAAGTGAATATTGACCA-ACAAAG
*
46988045 TGCATCTTAGC
1 TGCATCCTAGC
46988056 GCATAAGCGC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
37 3 0.08
38 37 0.93
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (38 bp):
TGCATCCTAGCACACGAAGTGAATATTGACCAACAAAG
Found at i:46991757 original size:8 final size:8
Alignment explanation
Indices: 46991744--46991772 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
46991734 AAGCTTCTTG
46991744 AAAAGAAA
1 AAAAGAAA
46991752 AAAAGAAA
1 AAAAGAAA
46991760 AAAA-AAA
1 AAAAGAAA
46991767 AAAAGA
1 AAAAGA
46991773 GTAGAACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:46995272 original size:30 final size:30
Alignment explanation
Indices: 46995238--46995299 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
46995228 ATGGCATGTC
46995238 ATGAAAACAGCAGCCGCAAAGAATGCAATG
1 ATGAAAACAGCAGCCGCAAAGAATGCAATG
*
46995268 ATGAAAACAGCAGCCGCAAAGAATGCGATG
1 ATGAAAACAGCAGCCGCAAAGAATGCAATG
46995298 AT
1 AT
46995300 CATTCAAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (30 bp):
ATGAAAACAGCAGCCGCAAAGAATGCAATG
Found at i:47001821 original size:8 final size:8
Alignment explanation
Indices: 47001808--47001833 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
47001798 ATAATAATTT
47001808 TTTGCAAG
1 TTTGCAAG
47001816 TTTGCAAG
1 TTTGCAAG
47001824 TTTGCAAG
1 TTTGCAAG
47001832 TT
1 TT
47001834 CTAAACTCTT
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:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (8 bp):
TTTGCAAG
Found at i:47005780 original size:173 final size:172
Alignment explanation
Indices: 47005485--47005814 Score: 482
Period size: 173 Copynumber: 1.9 Consensus size: 172
47005475 TTTCTACATT
* * * *
47005485 ATTGATTATTCAGTGATTTTACCATATTGAGCTATGCTCATAATGTTTTGTAGTTTGGCAGATGG
1 ATTGATTATTCAGTGATTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGGCAGACGG
* *
47005550 GTTATGAGGAACTCGTGGTGTGTAGTGAATGGTATAAGTAAGAAATTTTTAGCATTGCATCAAGT
66 GTTATGAGGAACGCGTGGTGTGTAGCGAATGGTATAAGTAAGAAATTTTTAGCATTGCATCAAGT
47005615 GCACGACATATTCGAATGTTATTGATTGATGCAATACATGAC
131 GCACGACATATTCGAATGTTATTGATTGATGCAATACATGAC
* *
47005657 ATTGTATTATTCAGTGGTTTTACGACATCGAGCTATGCTCATAATGTTTTGGAGTTTGGCAGACG
1 ATTG-ATTATTCAGTGATTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGGCAGACG
* * * * * *
47005722 GGTTAT-AGAGAACGCGTGGTGTGTAGCGGATGGTATAGGTAGGAACTTTTTTGCATTGCATCAT
65 GGTTATGAG-GAACGCGTGGTGTGTAGCGAATGGTATAAGTAAGAAATTTTTAGCATTGCATCAA
* * *
47005786 TTGCATGACATATTTGAATGTTATTGATT
129 GTGCACGACATATTCGAATGTTATTGATT
47005815 TATGTTACGC
Statistics
Matches: 139, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
172 6 0.04
173 133 0.96
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (172 bp):
ATTGATTATTCAGTGATTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGGCAGACGG
GTTATGAGGAACGCGTGGTGTGTAGCGAATGGTATAAGTAAGAAATTTTTAGCATTGCATCAAGT
GCACGACATATTCGAATGTTATTGATTGATGCAATACATGAC
Found at i:47008064 original size:53 final size:54
Alignment explanation
Indices: 47007996--47008203 Score: 224
Period size: 55 Copynumber: 3.9 Consensus size: 54
47007986 TTTCCTTTTT
* * * * *
47007996 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* ** *
47008049 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * * *
47008103 GTAACTCATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
47008158 GAACAT-ATCAATGCCATGCCTTGGCATGATCTTACATGATATCCTT
1 GAAC-TCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
47008204 ATCTTACCAA
Statistics
Matches: 130, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 43 0.33
54 39 0.30
55 44 0.34
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:47008133 original size:55 final size:53
Alignment explanation
Indices: 47007995--47008195 Score: 199
Period size: 53 Copynumber: 3.7 Consensus size: 53
47007985 TTTTCCTTTT
* * * *
47007995 TGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
* * *
47008048 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTA
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTA
* * ***
47008101 TAGTAACTCATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA
1 T-G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
* * * *
47008156 TAGAACAT-ATCAATGCCATGCCTTGGCATGATCTTACATG
1 T-GAAC-TCACCAATGCCATGTCTTGACATGGTCTTACATG
47008196 ATATCCTTAT
Statistics
Matches: 124, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
52 2 0.02
53 44 0.35
54 32 0.26
55 44 0.35
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
Found at i:47008242 original size:47 final size:47
Alignment explanation
Indices: 47008182--47008289 Score: 171
Period size: 47 Copynumber: 2.3 Consensus size: 47
47008172 CATGCCTTGG
* *
47008182 CATGATCTTACATGATATCCTTATCTTACCAAATGCCATGTTTCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
47008229 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
*
47008276 CATGGACTTACATG
1 CATGGTCTTACATG
47008290 GAGTCCTTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:47008344 original size:47 final size:45
Alignment explanation
Indices: 47008275--47008380 Score: 106
Period size: 45 Copynumber: 2.3 Consensus size: 45
47008265 CATGTTCCAA
* * * *
47008275 ACATGGACTTACATGGAGTCCTTAATCAATGCCGATGCCATGTCTTG
1 ACATGGTCTTACATAGAGTCCTT-A-CAATACCAATGCCATGTCTTG
** *
47008322 ACATGGTCTTACACTAGA-TCCTTACCTTACTAATGCCATGTCTTG
1 ACATGGTCTTACA-TAGAGTCCTTACAATACCAATGCCATGTCTTG
*
47008367 ATATGGTCTTACAT
1 ACATGGTCTTACAT
47008381 GGTATCCTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
44 1 0.02
45 28 0.56
46 1 0.02
47 17 0.34
48 3 0.06
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (45 bp):
ACATGGTCTTACATAGAGTCCTTACAATACCAATGCCATGTCTTG
Found at i:47015811 original size:40 final size:40
Alignment explanation
Indices: 47015766--47015931 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
47015756 CGGAATATAA
47015766 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
47015806 CCGGATAGAATAACTCGCACGAATGCCTTC-GGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
47015845 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
47015885 CCGGATATAATTTCCAGCATAATTGTCTTCGAG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
47015924 CCGGATAT
1 CCGGATAT
47015932 CATTCAATTT
Statistics
Matches: 102, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
39 45 0.44
40 57 0.56
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47015915 original size:79 final size:79
Alignment explanation
Indices: 47015782--47015931 Score: 189
Period size: 79 Copynumber: 1.9 Consensus size: 79
47015772 ATAATCACGT
*
47015782 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCG-GCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGAG-CTTAGCC
47015846 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
47015861 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGAGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGAGCTTAGC
47015924 CCGGATAT
64 CCGGATAT
47015932 CATTCAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
78 3 0.05
79 57 0.93
80 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGAGCTTAGCCC
GGATATAGCCACTA
Found at i:47021521 original size:48 final size:48
Alignment explanation
Indices: 47021441--47021667 Score: 202
Period size: 48 Copynumber: 4.8 Consensus size: 48
47021431 TAGGGTTATC
*
47021441 TGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATTGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGATA
*
47021489 TGTGATCCCATGTAAGACCATGTCTGGTACATGGCATTGGCATCT-ATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT-TGATA
* * * * * * *
47021537 TTTGATCCCATATAAGACTATATCTGGGATATGACATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGATA
* * * * *
47021585 TGAGA-CGTCGTGTAAGACCATAG-CTGGG-C-T---ATCGGC-TTCGATC
1 TGTGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATT-GATA
* * *
47021628 TGTGATCCCATGTAAGACCCTGTCTGGGATATGACATTGG
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
47021668 AATCTTACTA
Statistics
Matches: 140, Mismatches: 27, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.01
43 28 0.20
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 105 0.75
49 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGATA
Found at i:47024135 original size:25 final size:25
Alignment explanation
Indices: 47024088--47024135 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
47024078 TTCCATGTAC
* ** *
47024088 TCATACTTATTTCATTTATCTATCT
1 TCATAATTATTTCATACAACTATCT
47024113 TCATAATTATTTCATACAACTAT
1 TCATAATTATTTCATACAACTAT
47024136 TTTGTACATA
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:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (25 bp):
TCATAATTATTTCATACAACTATCT
Found at i:47024518 original size:46 final size:46
Alignment explanation
Indices: 47024291--47024517 Score: 357
Period size: 46 Copynumber: 4.9 Consensus size: 46
47024281 TTTGACATGA
* * * * *
47024291 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCACGT
***
47024337 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
47024383 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
*
47024429 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
47024475 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
47024518 GAGAGCACAC
Statistics
Matches: 170, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 166 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
Found at i:47026676 original size:11 final size:11
Alignment explanation
Indices: 47026635--47026677 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
47026625 TTATATACTA
* *
47026635 ATAAAATAATA
1 ATAAAATATTT
47026646 ATAAAATATCTT
1 ATAAAATAT-TT
47026658 ATTAAAATATTT
1 A-TAAAATATTT
47026670 ATAAAATA
1 ATAAAATA
47026678 ATATTTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 15 0.54
12 5 0.18
13 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAAAATATTT
Found at i:47026718 original size:31 final size:30
Alignment explanation
Indices: 47026640--47026718 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 30
47026630 TACTAATAAA
* *
47026640 ATAATAAT-AAAATATCTTATTAAAATATTT
1 ATAA-AATAAAAATATCTAATTAAAATAATT
**
47026670 ATAAAATAATATTTATCTAATT-AAATAATT
1 ATAAAATAA-AAATATCTAATTAAAATAATT
47026700 ATAAAATATCAAAATATCT
1 ATAAAATA--AAAATATCT
47026719 CTAGCATCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
29 3 0.08
30 20 0.51
31 15 0.38
32 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (30 bp):
ATAAAATAAAAATATCTAATTAAAATAATT
Found at i:47029547 original size:46 final size:46
Alignment explanation
Indices: 47029320--47029547 Score: 359
Period size: 46 Copynumber: 5.0 Consensus size: 46
47029310 TTTGACATGA
* * * * *
47029320 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
47029366 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
47029412 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
47029458 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
47029504 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
47029548 AGAGCACACT
Statistics
Matches: 172, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 168 0.98
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:47031704 original size:11 final size:11
Alignment explanation
Indices: 47031663--47031705 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
47031653 TTATATACTA
* *
47031663 ATAAAATAATA
1 ATAAAATATTT
47031674 ATAAAATATCTT
1 ATAAAATAT-TT
47031686 ATTAAAATATTT
1 A-TAAAATATTT
47031698 ATAAAATA
1 ATAAAATA
47031706 ATATTTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 15 0.54
12 5 0.18
13 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAAAATATTT
Found at i:47031746 original size:31 final size:30
Alignment explanation
Indices: 47031668--47031746 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 30
47031658 TACTAATAAA
* *
47031668 ATAATAAT-AAAATATCTTATTAAAATATTT
1 ATAA-AATAAAAATATCTAATTAAAATAATT
**
47031698 ATAAAATAATATTTATCTAATT-AAATAATT
1 ATAAAATAA-AAATATCTAATTAAAATAATT
47031728 ATAAAATATCAAAATATCT
1 ATAAAATA--AAAATATCT
47031747 CTAGCATCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
29 3 0.08
30 20 0.51
31 15 0.38
32 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (30 bp):
ATAAAATAAAAATATCTAATTAAAATAATT
Found at i:47033883 original size:44 final size:47
Alignment explanation
Indices: 47033828--47033946 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 47
47033818 TATACGTACT
*
47033828 GATGCATGTCCCAGACATGTCTTACACTAGCATGAA-A-C-T-TA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-T-AACACCATCGAGGCC
* *
47033872 GATGCATGTCCCAGACACGTCTTACACTGGCTAACACCATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTAACACCATCGAGGCC
*
47033919 GATGCATGTCCCAGACATATCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
47033947 GGCACTCACC
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
42 2 0.03
43 2 0.03
44 30 0.46
45 1 0.02
46 1 0.02
47 29 0.45
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTAACACCATCGAGGCC
Found at i:47033932 original size:47 final size:45
Alignment explanation
Indices: 47033828--47034040 Score: 155
Period size: 47 Copynumber: 4.6 Consensus size: 45
47033818 TATACGTACT
* *
47033828 GATGCATGTCCCAGACATGTCTTACACTAGCATGAA-A-CTTA-GCC
1 GATGCATGTCCCAGACACGTCTTACACTGGC-T-AACACCTTAGGCC
*
47033872 GATGCATGTCCCAGACACGTCTTACACTGGCTAACACCATCGAGGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGCTAACACC-T-TAGGCC
** * *
47033919 GATGCATGTCCCAGACATATCTTACACTGGC-ACTCACCTCTACGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGCTA-ACACCT-TAGGCC
* ** * * *** *
47033965 AATGCCATGTCCCAGACGTGGTCTTACACGGGCTATCATGATACGGCT
1 GATG-CATGTCCCAGAC-ACGTCTTACACTGGCTAACACCTTA-GGCC
* *
47034013 GATGCATGTCCCAGACACATCTTCCACT
1 GATGCATGTCCCAGACACGTCTTACACT
47034041 AGCCCTCATC
Statistics
Matches: 135, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 30 0.22
45 1 0.01
46 18 0.13
47 62 0.46
48 19 0.14
49 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (45 bp):
GATGCATGTCCCAGACACGTCTTACACTGGCTAACACCTTAGGCC
Found at i:47034027 original size:94 final size:92
Alignment explanation
Indices: 47033780--47034084 Score: 305
Period size: 94 Copynumber: 3.3 Consensus size: 92
47033770 AAGTTGCCGC
* * *
47033780 TGCCATGTCCCAGACATGGTCTTACACTAGG-TCTCGTGTATACGTACTGATGCATGTCCCAGAC
1 TGCCATGTCCCAGACATGGTCTTACAC-AGGCTATCATG-ATACG-GCTGATGCATGTCCCAGAC
* * *
47033844 ATGTCTTACACTAGCA-TGAAACTTAGCCGA
63 ATATCTTACACTAGCACT-CAACTTAGCCAA
* * * ** *
47033874 TG-CATGTCCCAGACA-CGTCTTACACTGGCTAACACCAT-CGAGGCCGATGCATGTCCCAGACA
1 TGCCATGTCCCAGACATGGTCTTACACAGGCTATCATGATAC--GGCTGATGCATGTCCCAGACA
* *
47033936 TATCTTACACTGGCACTCACCTCTACGCCAA
64 TATCTTACACTAGCACTCAACT-TA-GCCAA
* * *
47033967 TGCCATGTCCCAGACGTGGTCTTACACGGGCTATCATGATACGGCTGATGCATGTCCCAGACACA
1 TGCCATGTCCCAGACATGGTCTTACACAGGCTATCATGATACGGCTGATGCATGTCCCAGACATA
* * *
47034032 TCTTCCACTAGCCCTCATCTTAATGCCAA
66 TCTTACACTAGCACTCAACTT-A-GCCAA
47034061 TGCCATGTCCCAGACATGGTCTTA
1 TGCCATGTCCCAGACATGGTCTTA
47034085 TACTGGCTCT
Statistics
Matches: 173, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
90 1 0.01
91 38 0.22
92 15 0.09
93 20 0.12
94 80 0.46
95 18 0.10
96 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (92 bp):
TGCCATGTCCCAGACATGGTCTTACACAGGCTATCATGATACGGCTGATGCATGTCCCAGACATA
TCTTACACTAGCACTCAACTTAGCCAA
Found at i:47040874 original size:40 final size:39
Alignment explanation
Indices: 47040817--47041001 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 39
47040807 ATTAAATGAT
* * *
47040817 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
47040857 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
* **
47040897 ATTCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
47040937 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
*
47040977 ATCCGGGCTAAGACCCGAAGACATT
1 ATCCGGGCTAAGACCCGAAGGCATT
47041002 CGTGCATGTG
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 119 0.97
41 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:47040953 original size:80 final size:80
Alignment explanation
Indices: 47040816--47041022 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
47040806 AATTAAATGA
* ** * *
47040816 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGACATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
47040881 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* * * *
47040894 TAAATTCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGACATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
47040959 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
47040976 TATCCGGGCTAAGACCCGAAGACATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGACATTCGTGCAAGTAGTTAAATCCGG
47041023 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
78 1 0.01
80 103 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGACATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:47041007 original size:40 final size:39
Alignment explanation
Indices: 47040815--47041022 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
47040805 CAATTAAATG
* * ** *
47040815 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
47040855 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
* *
47040895 AAATTCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
47040935 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * *
47040975 CTATCCGGGCTAAGACCCGAAGACATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
47041015 ATATCCGG
1 ATATCCGG
47041023 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
39 5 0.04
40 132 0.93
41 5 0.04
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:47043007 original size:48 final size:48
Alignment explanation
Indices: 47042952--47043180 Score: 238
Period size: 48 Copynumber: 4.9 Consensus size: 48
47042942 AGGTTATGTA
*
47042952 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
*
47043000 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* * * * *
47043048 TGATCCCATATAAGACTATATCTGGGATATGACATTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* * * * * * * *
47043096 AGA-CGTCGTGTTAGACCATAG-CTGGG---T--TATAGGCTTCGATCTG
1 TGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATG
* *
47043139 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
47043181 TTACTATGTG
Statistics
Matches: 145, Mismatches: 27, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
43 30 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 111 0.77
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
Found at i:47045680 original size:2 final size:2
Alignment explanation
Indices: 47045673--47045700 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47045663 CCATAATAAC
47045673 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
47045701 TGATTCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47054538 original size:22 final size:22
Alignment explanation
Indices: 47054513--47054556 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
47054503 GAAAGTAATC
47054513 AAAATTAATAAAAATTAATTAT
1 AAAATTAATAAAAATTAATTAT
* *
47054535 AAAATTAATTAAAATTCATTAT
1 AAAATTAATAAAAATTAATTAT
47054557 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTAATAAAAATTAATTAT
Found at i:47054540 original size:12 final size:11
Alignment explanation
Indices: 47054513--47054548 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
47054503 GAAAGTAATC
47054513 AAAATTAA-TA
1 AAAATTAATTA
47054523 AAAATTAATTA
1 AAAATTAATTA
47054534 TAAAATTAATTA
1 -AAAATTAATTA
47054546 AAA
1 AAA
47054549 TTCATTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.33
11 5 0.21
12 11 0.46
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATTAATTA
Found at i:47054555 original size:10 final size:10
Alignment explanation
Indices: 47054508--47054555 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
47054498 CTATCGAAAG
*
47054508 TAATCAAAAT
1 TAATTAAAAT
*
47054518 TAATAAAAAT
1 TAATTAAAAT
47054528 TAATTATAAAAT
1 TAA-T-TAAAAT
47054540 TAATTAAAAT
1 TAATTAAAAT
*
47054550 TCATTA
1 TAATTA
47054556 TGTTAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 23 0.70
11 2 0.06
12 8 0.24
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATTAAAAT
Found at i:47057307 original size:13 final size:14
Alignment explanation
Indices: 47057285--47057313 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
47057275 TATTTTCTCA
47057285 AAAAATTAATTAAT
1 AAAAATTAATTAAT
47057299 AAAAA-TAATTAAT
1 AAAAATTAATTAAT
47057312 AA
1 AA
47057314 TTCAATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAAATTAATTAAT
Found at i:47057324 original size:16 final size:15
Alignment explanation
Indices: 47057301--47057343 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
47057291 TAATTAATAA
*
47057301 AAATAATTAATAATT
1 AAATAATTAAAAATT
*
47057316 CAATAAATTGAAAAATT
1 AAAT-AATT-AAAAATT
47057333 AAATAATTAAA
1 AAATAATTAAA
47057344 TAAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 6 0.26
16 8 0.35
17 9 0.39
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (15 bp):
AAATAATTAAAAATT
Found at i:47057340 original size:8 final size:8
Alignment explanation
Indices: 47057301--47057346 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
47057291 TAATTAATAA
47057301 AAATAATT
1 AAATAATT
47057309 -AATAATT
1 AAATAATT
*
47057316 CAATAAATT
1 AAAT-AATT
47057325 GAAA-AATT
1 -AAATAATT
47057333 AAATAATT
1 AAATAATT
47057341 AAATAA
1 AAATAA
47057347 AATTAAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 10 0.30
8 17 0.52
9 4 0.12
10 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (8 bp):
AAATAATT
Found at i:47057356 original size:24 final size:23
Alignment explanation
Indices: 47057305--47057354 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 23
47057295 TAATAAAAAT
*
47057305 AATTAATAATTCAATAAATTGAAA
1 AATTAATAATTAAATAAATT-AAA
47057329 AATTAAATAATTAAATAAAATTAAA
1 AATT-AATAATTAAAT-AAATTAAA
47057354 A
1 A
47057355 TTTAGGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 14 0.61
26 5 0.22
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (23 bp):
AATTAATAATTAAATAAATTAAA
Found at i:47074530 original size:16 final size:17
Alignment explanation
Indices: 47074500--47074531 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47074490 AGGCATGGAA
47074500 AGAATGAAGAAAATGAG
1 AGAATGAAGAAAATGAG
47074517 AGAATGAA-AAAATGA
1 AGAATGAAGAAAATGA
47074532 ATGGATGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (17 bp):
AGAATGAAGAAAATGAG
Done.