Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 148 of 318
Found at i:45996584 original size:42 final size:42
Alignment explanation
Indices: 45996525--45996608 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
45996515 AAAAAAGATA
45996525 AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
1 AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
45996567 AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
1 AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
45996609 GAGAGACTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (42 bp):
AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
Found at i:45997105 original size:20 final size:20
Alignment explanation
Indices: 45997067--45997105 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45997057 GATGTGATAC
* *
45997067 ATTAACTAGCCATATTGGAT
1 ATTAACTAGCCACAGTGGAT
45997087 ATTAACTAGCCACAGTGGA
1 ATTAACTAGCCACAGTGGA
45997106 AACCCAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (20 bp):
ATTAACTAGCCACAGTGGAT
Found at i:45999498 original size:49 final size:49
Alignment explanation
Indices: 45999376--45999558 Score: 173
Period size: 49 Copynumber: 3.8 Consensus size: 49
45999366 TATGAGATGT
*
45999376 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAAATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCG-AATGTGAGA
* * * * *
45999426 GTTAGTGTAAGACCATGTTTGGGACATGGCGTCGGC-CTCG-ATTTCGATA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGAATGT-GAGA
* * *
45999475 GTCAGTGTAGGACCATGTCTGGGACATGGCATC--AACTTG-ATG-GATGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGAATGTGA-GA
*
45999522 G-CTAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
45999559 TTATACCCTA
Statistics
Matches: 109, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
46 3 0.03
47 30 0.28
48 8 0.07
49 34 0.31
50 34 0.31
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAATGTGAGA
Found at i:46020397 original size:71 final size:71
Alignment explanation
Indices: 46020281--46020425 Score: 272
Period size: 71 Copynumber: 2.0 Consensus size: 71
46020271 GTGTGCGATT
46020281 TAAACTAGCTTCGGCTACTTGAGGCACTAAGTGTGTGATACCAACTTGGTTTCGGGTAATTGAGA
1 TAAACTAGCTTCGGCTACTTGAGGCACTAAGTGTGTGATACCAACTTGGTTTCGGGTAATTGAGA
46020346 TGGCAC
66 TGGCAC
* *
46020352 TAAACTAGCTTCGGCTACTTGAGGCACTACGTGTGTGATACCAACTTGGTTTCGGGTAATTGGGA
1 TAAACTAGCTTCGGCTACTTGAGGCACTAAGTGTGTGATACCAACTTGGTTTCGGGTAATTGAGA
46020417 TGGCAC
66 TGGCAC
46020423 TAA
1 TAA
46020426 GTGTATGGAA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (71 bp):
TAAACTAGCTTCGGCTACTTGAGGCACTAAGTGTGTGATACCAACTTGGTTTCGGGTAATTGAGA
TGGCAC
Found at i:46027190 original size:51 final size:51
Alignment explanation
Indices: 46027130--46027233 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 51
46027120 AAGCTTACGA
46027130 AAGCCTGATACTACCATTAAATCAATCAAGAGTTAATCTGCAAAGTTTTTC
1 AAGCCTGATACTACCATTAAATCAATCAAGAGTTAATCTGCAAAGTTTTTC
* * * * * *
46027181 AAGCCTGATAGTATCATTAAATCAATCAATATTTAATTTGCAAATTTTTTC
1 AAGCCTGATACTACCATTAAATCAATCAAGAGTTAATCTGCAAAGTTTTTC
46027232 AA
1 AA
46027234 ACATTCAAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (51 bp):
AAGCCTGATACTACCATTAAATCAATCAAGAGTTAATCTGCAAAGTTTTTC
Found at i:46028227 original size:28 final size:28
Alignment explanation
Indices: 46028187--46028263 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 28
46028177 AAGATCAGGG
* *
46028187 TTGCTCACGCAAGTTGACATTTATGAAT
1 TTGCTCACACAAGATGACATTTATGAAT
*
46028215 TTGCTCACACAAGCT-ACAATTTTATGAAT
1 TTGCTCACACAAGATGAC-A-TTTATGAAT
*
46028244 TTTCTCACACAAGATGACAT
1 TTGCTCACACAAGATGACAT
46028264 CATAATCAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
27 2 0.05
28 15 0.36
29 23 0.55
30 2 0.05
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (28 bp):
TTGCTCACACAAGATGACATTTATGAAT
Found at i:46030936 original size:28 final size:28
Alignment explanation
Indices: 46030904--46030968 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
46030894 ATTTACTAGA
*
46030904 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
46030932 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
46030960 ATACCCCTA
1 ATACCCCTA
46030969 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:46031114 original size:28 final size:27
Alignment explanation
Indices: 46031073--46031161 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
46031063 GAGGAAGGTC
46031073 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* **
46031101 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
46031128 CTGGTGGCAC-GCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
46031156 CTGGTG
1 CTGGTG
46031162 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
26 5 0.10
27 25 0.48
28 22 0.42
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:46031646 original size:19 final size:19
Alignment explanation
Indices: 46031624--46031662 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
46031614 TTTAATTATT
* *
46031624 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
46031643 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
46031662 T
1 T
46031663 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:46032274 original size:11 final size:10
Alignment explanation
Indices: 46032246--46032279 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
46032236 AGCTTGTAAG
46032246 TATTCTGAAT
1 TATTCTGAAT
*
46032256 TTTTCTGAAT
1 TATTCTGAAT
46032266 ATATTCTGAAT
1 -TATTCTGAAT
46032277 TAT
1 TAT
46032280 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:46038808 original size:28 final size:28
Alignment explanation
Indices: 46038776--46038840 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
46038766 ATTTACTAGA
*
46038776 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
46038804 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
46038832 ATACCCCTA
1 ATACCCCTA
46038841 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:46038987 original size:28 final size:27
Alignment explanation
Indices: 46038946--46039019 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
46038936 AGGAAGCATC
46038946 CTGGTGGCTA-TGCCACAAATTATTTGTT
1 CTGGTGGC-ACTGCCACAAA-TATTTGTT
* **
46038974 CTGGTGGCCCTGCCACGTATATTTGTT
1 CTGGTGGCACTGCCACAAATATTTGTT
*
46039001 CTAGTGGCACTGCCACAAA
1 CTGGTGGCACTGCCACAAA
46039020 ATATCTATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATTTGTT
Found at i:46039525 original size:19 final size:19
Alignment explanation
Indices: 46039501--46039539 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
46039491 TTAATTATTT
* *
46039501 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
46039520 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
46039539 T
1 T
46039540 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:46040156 original size:11 final size:11
Alignment explanation
Indices: 46040140--46040176 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
46040130 TAAATAATTC
46040140 ATTAATCCTTA
1 ATTAATCCTTA
46040151 ATTAAT-C-TA
1 ATTAATCCTTA
*
46040160 ATTAATCTTTA
1 ATTAATCCTTA
46040171 ATTAAT
1 ATTAAT
46040177 TAATCTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 8 0.35
10 1 0.04
11 14 0.61
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (11 bp):
ATTAATCCTTA
Found at i:46040165 original size:20 final size:19
Alignment explanation
Indices: 46040129--46040180 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
46040119 TATTTAAACT
* *
46040129 TTAAATAATTCATTAATCC
1 TTAATTAATTAATTAATCC
*
46040148 TTAATTAATCTAATTAATCT
1 TTAATTAAT-TAATTAATCC
46040168 TTAATTAATTAAT
1 TTAATTAATTAAT
46040181 CTTAACCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAATTAATTAATTAATCC
Found at i:46040178 original size:15 final size:16
Alignment explanation
Indices: 46040152--46040183 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
46040142 TAATCCTTAA
46040152 TTAATCTAATTAATCT
1 TTAATCTAATTAATCT
46040168 TTAAT-TAATTAATCT
1 TTAATCTAATTAATCT
46040183 T
1 T
46040184 AACCTTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATCTAATTAATCT
Found at i:46042948 original size:215 final size:215
Alignment explanation
Indices: 46042574--46043005 Score: 837
Period size: 215 Copynumber: 2.0 Consensus size: 215
46042564 AGTGTAGTTC
*
46042574 ACTGACTATGAATAATGCGGACTTAATATGCCACCGGTACTCCACGGAACTCCTCTGTCAACCAC
1 ACTGACTATGAATAATGCGGACTTAAAATGCCACCGGTACTCCACGGAACTCCTCTGTCAACCAC
*
46042639 AAAATCCGAACCCCATGCATATGCAATATGTCACACAATCTCATACATAATCATATCTCAATACT
66 AAAATCCCAACCCCATGCATATGCAATATGTCACACAATCTCATACATAATCATATCTCAATACT
*
46042704 TTTCACATTCATTTGACATGCTTAGCATGTCCTCAATAATCACATGCTTTCAGTAAATAGAAATA
131 TTTCACATTCATTTGACATGCTCAGCATGTCCTCAATAATCACATGCTTTCAGTAAATAGAAATA
46042769 GTGTTCCAATCTTTCGAATT
196 GTGTTCCAATCTTTCGAATT
46042789 ACTGACTATGAATAATGCGGACTTAAAATGCCACCGGTACTCCACGGAACTCCTCTGTCAACCAC
1 ACTGACTATGAATAATGCGGACTTAAAATGCCACCGGTACTCCACGGAACTCCTCTGTCAACCAC
46042854 AAAATCCCAACCCCATGCATATGCAATATGTCACACAATCTCATACATAATCATATCTCAATACT
66 AAAATCCCAACCCCATGCATATGCAATATGTCACACAATCTCATACATAATCATATCTCAATACT
46042919 TTTCACATTCATTTGACATGCTCAGCATGTCCTCAATAATCACATGCTTTCAGTAAATAGAAATA
131 TTTCACATTCATTTGACATGCTCAGCATGTCCTCAATAATCACATGCTTTCAGTAAATAGAAATA
46042984 GTGTTCCAATCTTTCGAATT
196 GTGTTCCAATCTTTCGAATT
46043004 AC
1 AC
46043006 CATTGTGTTG
Statistics
Matches: 214, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
215 214 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.29
Consensus pattern (215 bp):
ACTGACTATGAATAATGCGGACTTAAAATGCCACCGGTACTCCACGGAACTCCTCTGTCAACCAC
AAAATCCCAACCCCATGCATATGCAATATGTCACACAATCTCATACATAATCATATCTCAATACT
TTTCACATTCATTTGACATGCTCAGCATGTCCTCAATAATCACATGCTTTCAGTAAATAGAAATA
GTGTTCCAATCTTTCGAATT
Found at i:46043720 original size:12 final size:12
Alignment explanation
Indices: 46043703--46043729 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46043693 ATAAGTAGAT
46043703 ATTAATGATTAA
1 ATTAATGATTAA
46043715 ATTAATGATTAA
1 ATTAATGATTAA
46043727 ATT
1 ATT
46043730 CTTTCATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (12 bp):
ATTAATGATTAA
Found at i:46046336 original size:25 final size:24
Alignment explanation
Indices: 46046302--46046441 Score: 128
Period size: 24 Copynumber: 5.8 Consensus size: 24
46046292 TTAGGGTTAC
* *
46046302 CGATTCTCAGCTCGAAAGAGCTTAT
1 CGATT-TCAGCTCGTATGAGCTTAT
46046327 CGATATTCAGCT-GTATGAGCTTAT
1 CGAT-TTCAGCTCGTATGAGCTTAT
* *
46046351 CGATATTTAGCTCGTATGAGCTTAC
1 CGAT-TTCAGCTCGTATGAGCTTAT
46046376 CG--TT-AGCTCGTATGAGCTTAT
1 CGATTTCAGCTCGTATGAGCTTAT
* * * *
46046397 CGATTACAGCTCGTAAGAGCATAC
1 CGATTTCAGCTCGTATGAGCTTAT
46046421 CGA-TTCAAAGCTCGTATGAGC
1 CGATTTC--AGCTCGTATGAGC
46046442 ATACATGTAC
Statistics
Matches: 97, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
21 18 0.19
22 2 0.02
23 3 0.03
24 38 0.39
25 35 0.36
26 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
CGATTTCAGCTCGTATGAGCTTAT
Found at i:46046351 original size:24 final size:24
Alignment explanation
Indices: 46046310--46046400 Score: 109
Period size: 21 Copynumber: 3.9 Consensus size: 24
46046300 ACCGATTCTC
* *
46046310 AGCTCGAAAGAGCTTATCGATATT
1 AGCTCGTATGAGCTTATCGATATT
46046334 CAGCT-GTATGAGCTTATCGATATTT
1 -AGCTCGTATGAGCTTATCGATA-TT
*
46046359 AGCTCGTATGAGCTTACCG---TT
1 AGCTCGTATGAGCTTATCGATATT
46046380 AGCTCGTATGAGCTTATCGAT
1 AGCTCGTATGAGCTTATCGAT
46046401 TACAGCTCGT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
21 20 0.34
24 19 0.33
25 19 0.33
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (24 bp):
AGCTCGTATGAGCTTATCGATATT
Found at i:46046381 original size:21 final size:23
Alignment explanation
Indices: 46046335--46046441 Score: 103
Period size: 25 Copynumber: 4.6 Consensus size: 23
46046325 ATCGATATTC
* *
46046335 AGCT-GTATGAGCTTATCGATATTT
1 AGCTCGTATGAGCTTACCG--ATTA
46046359 AGCTCGTATGAGCTTACCG-TT-
1 AGCTCGTATGAGCTTACCGATTA
*
46046380 AGCTCGTATGAGCTTATCGATTA
1 AGCTCGTATGAGCTTACCGATTA
* *
46046403 CAGCTCGTAAGAGCATACCGATTCAA
1 -AGCTCGTATGAGCTTACCGATT--A
46046429 AGCTCGTATGAGC
1 AGCTCGTATGAGC
46046442 ATACATGTAC
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
21 18 0.25
22 4 0.06
24 23 0.32
25 25 0.35
26 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (23 bp):
AGCTCGTATGAGCTTACCGATTA
Found at i:46054420 original size:39 final size:40
Alignment explanation
Indices: 46054325--46054586 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
46054315 TTGAATGATG
*
46054325 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
46054363 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
46054404 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
46054443 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
46054482 TCTGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
46054521 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
46054560 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
46054587 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 130 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:46057943 original size:40 final size:40
Alignment explanation
Indices: 46057868--46058013 Score: 240
Period size: 40 Copynumber: 3.7 Consensus size: 40
46057858 TTTCCAAACC
* * *
46057868 CAAATACCTTCGGGATTTAG-CCGGATATAGCAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
46057907 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
46057947 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
46057987 CAAATGCCTTTGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
46058014 CTTCTGAATA
Statistics
Matches: 101, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 18 0.18
40 83 0.82
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:46060523 original size:18 final size:18
Alignment explanation
Indices: 46060500--46060534 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46060490 TACTTACTTC
*
46060500 TTACTATTCACGCATTCT
1 TTACTATTCACACATTCT
46060518 TTACTATTCACACATTC
1 TTACTATTCACACATTC
46060535 CTTATAGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.43
Consensus pattern (18 bp):
TTACTATTCACACATTCT
Found at i:46065594 original size:13 final size:13
Alignment explanation
Indices: 46065576--46065604 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
46065566 GGTTGTTTAT
46065576 TAAACTAATTAAC
1 TAAACTAATTAAC
46065589 TAAACTAATTAAC
1 TAAACTAATTAAC
46065602 TAA
1 TAA
46065605 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:46071142 original size:25 final size:25
Alignment explanation
Indices: 46071114--46071192 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
46071104 GTAATGACCG
46071114 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
46071139 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
46071161 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
46071186 ATGTGAT
1 ATGTGAT
46071193 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:46071346 original size:49 final size:47
Alignment explanation
Indices: 46071105--46071574 Score: 771
Period size: 47 Copynumber: 9.9 Consensus size: 47
46071095 TAGTATGGCG
*
46071105 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46071152 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46071199 TAATGGCCGATGTGAT-AATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
46071245 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
46071292 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
46071341 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
46071390 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46071437 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
46071484 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATCTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
46071531 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
46071575 TCCCAAAGGG
Statistics
Matches: 403, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
46 46 0.11
47 263 0.65
49 94 0.23
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:46071762 original size:37 final size:37
Alignment explanation
Indices: 46071693--46071771 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
46071683 CCGAGCTCTA
* * *
46071693 AAGACCCGATGACTACGCGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
* *
46071730 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
46071767 AAGAC
1 AAGAC
46071772 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
Found at i:46073039 original size:40 final size:40
Alignment explanation
Indices: 46072984--46073253 Score: 389
Period size: 40 Copynumber: 6.8 Consensus size: 40
46072974 GAGAATTGAG
*
46072984 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
46073024 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
46073064 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTTGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
46073104 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
46073144 AGTGATGTATCTGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
46073184 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
* * * * *
46073224 GGTGTTATATCCAGGCTAGGTCCCAAAGAG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAG
46073254 TAATCATGCT
Statistics
Matches: 206, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.00
40 203 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:46076697 original size:25 final size:25
Alignment explanation
Indices: 46076669--46076747 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
46076659 GTAATGACCG
46076669 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
46076694 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
46076716 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
46076741 ATGTGAT
1 ATGTGAT
46076748 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:46076719 original size:47 final size:47
Alignment explanation
Indices: 46076660--46077367 Score: 1254
Period size: 47 Copynumber: 14.9 Consensus size: 47
46076650 TAGTATGGCG
*
46076660 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46076707 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
46076754 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46076801 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46076848 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46076895 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46076942 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46076989 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
46077038 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46077085 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
46077132 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
46077181 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
46077230 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
46077277 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
46077324 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
46077368 TCCCGAAGGG
Statistics
Matches: 642, Mismatches: 15, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
47 500 0.78
49 142 0.22
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:46077069 original size:143 final size:141
Alignment explanation
Indices: 46076660--46077367 Score: 1254
Period size: 143 Copynumber: 5.0 Consensus size: 141
46076650 TAGTATGGCG
*
46076660 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
46076725 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATAT
66 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
46076790 GTGATAAGGCC
131 GTGATAAGGCC
46076801 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
46076866 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
46076931 GTGATAAGGCC
131 GTGATAAGGCC
46076942 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
46077007 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
46077072 ATGTGATAAGGCC
129 ATGTGATAAGGCC
46077085 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
46077150 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
46077215 ATATGTGATAGGGCC
127 ATATGTGATAAGGCC
46077230 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
46077295 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
66 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
46077360 GTGATAAG
131 GTGATAAG
46077368 TCCCGAAGGG
Statistics
Matches: 551, Mismatches: 12, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
141 228 0.41
143 230 0.42
145 93 0.17
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (141 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCC
Found at i:46077529 original size:37 final size:37
Alignment explanation
Indices: 46077486--46077564 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
46077476 CTGAGCTCTA
* * *
46077486 AAGACCCGATGACTTCGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
46077523 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
46077560 AAGAC
1 AAGAC
46077565 TTCGTAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
Found at i:46085627 original size:22 final size:22
Alignment explanation
Indices: 46085596--46085649 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
46085586 ACAAAGTTGA
46085596 TGTCGTGACACACCAGATCCTG
1 TGTCGTGACACACCAGATCCTG
*
46085618 TGTCGCGACACACCAGATCCTG
1 TGTCGTGACACACCAGATCCTG
46085640 TGTCGTGACA
1 TGTCGTGACA
46085650 TCAAAGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.22
Consensus pattern (22 bp):
TGTCGTGACACACCAGATCCTG
Found at i:46088579 original size:5 final size:5
Alignment explanation
Indices: 46088566--46088595 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
46088556 ATATGATTGT
*
46088566 ATGAT ATGAC ATGAC ATGAC ATGAC ATGAC
1 ATGAC ATGAC ATGAC ATGAC ATGAC ATGAC
46088596 TGTATGATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (5 bp):
ATGAC
Found at i:46088838 original size:18 final size:18
Alignment explanation
Indices: 46088815--46088863 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
46088805 AAGACTTATA
46088815 TACTGTTACTGCACTGAT
1 TACTGTTACTGCACTGAT
*
46088833 TACTGTTACTGCACTGTT
1 TACTGTTACTGCACTGAT
*
46088851 TATTGTTACTGCA
1 TACTGTTACTGCA
46088864 ATGGGCCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (18 bp):
TACTGTTACTGCACTGAT
Found at i:46095367 original size:32 final size:32
Alignment explanation
Indices: 46095326--46095388 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
46095316 AAAAAAATAC
46095326 TTTACTATTTCTAAGTTTACAATTCCACCATA
1 TTTACTATTTCTAAGTTTACAATTCCACCATA
46095358 TTTACTATTTCTAAGTTTACAATTCCACCAT
1 TTTACTATTTCTAAGTTTACAATTCCACCAT
46095389 TAAATATTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.22, G:0.03, T:0.44
Consensus pattern (32 bp):
TTTACTATTTCTAAGTTTACAATTCCACCATA
Found at i:46114829 original size:23 final size:24
Alignment explanation
Indices: 46114786--46114833 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
46114776 TAATGGCCGA
46114786 TAGTGGTCCGACGGTGGTTGGTGG
1 TAGTGGTCCGACGGTGGTTGGTGG
46114810 TAGTGGT-CGACGG-GGTTTGGTGG
1 TAGTGGTCCGACGGTGG-TTGGTGG
46114833 T
1 T
46114834 GGCCCGAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 2 0.09
23 14 0.61
24 7 0.30
ACGTcount: A:0.08, C:0.10, G:0.50, T:0.31
Consensus pattern (24 bp):
TAGTGGTCCGACGGTGGTTGGTGG
Found at i:46114835 original size:20 final size:23
Alignment explanation
Indices: 46114786--46114840 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 23
46114776 TAATGGCCGA
46114786 TAGTGGTCCGACGGTGGTTGGTGG
1 TAGTGGTCCGACGGTGGTT-GTGG
46114810 TAGTGGT-CGACGG-GGTT-TGG
1 TAGTGGTCCGACGGTGGTTGTGG
* *
46114830 TGGTGGCCCGA
1 TAGTGGTCCGA
46114841 GGCTATTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 8 0.29
21 3 0.11
22 4 0.14
23 6 0.21
24 7 0.25
ACGTcount: A:0.09, C:0.15, G:0.49, T:0.27
Consensus pattern (23 bp):
TAGTGGTCCGACGGTGGTTGTGG
Found at i:46116037 original size:15 final size:15
Alignment explanation
Indices: 46116026--46116059 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
46116016 TATTATTTTC
46116026 ATGTTAATTATTAAT
1 ATGTTAATTATTAAT
*
46116041 ATGTTAATTATTATT
1 ATGTTAATTATTAAT
46116056 ATGT
1 ATGT
46116060 AGTGGGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (15 bp):
ATGTTAATTATTAAT
Found at i:46116511 original size:67 final size:67
Alignment explanation
Indices: 46116403--46116538 Score: 209
Period size: 67 Copynumber: 2.0 Consensus size: 67
46116393 CATGATTTTG
* * *
46116403 TGCTAAAAATAAGCAACCAAATCACCTCCATTTCCACATATTGTGGTCGGCCAAGCAATGGCGAA
1 TGCTAAAAATAAGCAACCAAATCACCTCCACTTCCACATATTGTGGTCGGCCAAGCAATAGAGAA
46116468 GA
66 GA
* * * *
46116470 TGCTATAAATTAGCAGCCAAATCACCTCCCCTTCCACATATTGTGGTCGGCCAAGCAATAGAGAA
1 TGCTAAAAATAAGCAACCAAATCACCTCCACTTCCACATATTGTGGTCGGCCAAGCAATAGAGAA
46116535 GA
66 GA
46116537 TG
1 TG
46116539 GAGGGATTCC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (67 bp):
TGCTAAAAATAAGCAACCAAATCACCTCCACTTCCACATATTGTGGTCGGCCAAGCAATAGAGAA
GA
Found at i:46123239 original size:163 final size:163
Alignment explanation
Indices: 46122969--46123295 Score: 489
Period size: 163 Copynumber: 2.0 Consensus size: 163
46122959 AGGTCTTTTC
* * *
46122969 CATATTATTTTTAGAAATTGATTTAATTTCAAAAAACCATAGAGTAAAATATTTTCGATTTACCT
1 CATATTATTTTTAGAAATTGATTTAACTTCAAAAAACCATAGAGCAAAATATTTTAGATTTACCT
* * *
46123034 CACTTGAAATTTCAGAACTCAATTTCAAGCCAAAATTCCAAAACTATCCTCGAAACTTTTAGACC
66 CACTTGAAATTTCAGAACTCAATTTCAAGCCAAAAATCCAAAACTATCCTCGAAACATCTAGACC
* *
46123099 TAATTTCGAGATGTGACAAAGAGAACCAAGAAG
131 CAATTTCGAGATCTGACAAAGAGAACCAAGAAG
* *
46123132 CATATTATTTTTATAAATTGATTTAACTTCAAAAACCCATAGA-CAAATATATTTTTAG-TTTAC
1 CATATTATTTTTAGAAATTGATTTAACTTCAAAAAACCATAGAGCAAA-ATA-TTTTAGATTTAC
* *
46123195 CTCACTTTGAATTTTC-GAACTCAATTTCAATCCAAAAATCCAAAACTATCCTCGAAACATCTAG
64 CTCAC-TTGAAATTTCAGAACTCAATTTCAAGCCAAAAATCCAAAACTATCCTCGAAACATCTAG
*
46123259 ACCCAATTTTGAGATCTGACAAAGAGAACCAAGAAG
128 ACCCAATTTCGAGATCTGACAAAGAGAACCAAGAAG
46123295 C
1 C
46123296 CTAAAGACTT
Statistics
Matches: 148, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
162 3 0.02
163 131 0.89
164 14 0.09
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (163 bp):
CATATTATTTTTAGAAATTGATTTAACTTCAAAAAACCATAGAGCAAAATATTTTAGATTTACCT
CACTTGAAATTTCAGAACTCAATTTCAAGCCAAAAATCCAAAACTATCCTCGAAACATCTAGACC
CAATTTCGAGATCTGACAAAGAGAACCAAGAAG
Found at i:46128214 original size:12 final size:12
Alignment explanation
Indices: 46128197--46128223 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46128187 ATTCCGAAGT
46128197 ATATATATATAC
1 ATATATATATAC
46128209 ATATATATATAC
1 ATATATATATAC
46128221 ATA
1 ATA
46128224 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:46128736 original size:27 final size:27
Alignment explanation
Indices: 46128705--46128882 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
46128695 TAAATTGTAC
46128705 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
46128732 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46128758 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
46128786 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
46128814 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46128841 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
46128868 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46128883 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:46128819 original size:82 final size:81
Alignment explanation
Indices: 46128706--46128861 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
46128696 AAATTGTACA
* *
46128706 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
46128770 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
46128787 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
46128852 TGCGAGTTGA
65 TGCGAATTGA
46128862 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:46128873 original size:82 final size:81
Alignment explanation
Indices: 46128702--46128882 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
46128692 GATTAAATTG
* *
46128702 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
46128767 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
46128783 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
46128847 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
46128865 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
46128883 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:46135725 original size:12 final size:12
Alignment explanation
Indices: 46135708--46135734 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46135698 ATTCCGAAGT
46135708 ATATATATATAC
1 ATATATATATAC
46135720 ATATATATATAC
1 ATATATATATAC
46135732 ATA
1 ATA
46135735 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:46136249 original size:27 final size:27
Alignment explanation
Indices: 46136218--46136395 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
46136208 TAAATTGTAC
*
46136218 AGCACTAAGTGTTCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
46136245 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46136271 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
46136299 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
46136327 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46136354 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
46136381 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46136396 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:46136332 original size:82 final size:81
Alignment explanation
Indices: 46136219--46136374 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
46136209 AAATTGTACA
* * *
46136219 GCACTAAGTGTTCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
46136283 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
46136300 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
46136365 TGCGAGTTGA
65 TGCGAATTGA
46136375 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:46136386 original size:82 final size:81
Alignment explanation
Indices: 46136215--46136395 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
46136205 GATTAAATTG
* * *
46136215 TACAGCACTAAGTGTTCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
46136280 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
46136296 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
46136360 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
46136378 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
46136396 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:46154469 original size:64 final size:64
Alignment explanation
Indices: 46154385--46154511 Score: 200
Period size: 64 Copynumber: 2.0 Consensus size: 64
46154375 TATTTGACGA
* *
46154385 TTAGGTCCATTTCCCACTATTGCTGTACCGAGGTAAGTTCTTATCTAAATAATGCAATGTTTAG
1 TTAGGTCCATTTCCCACTATTGCTATACCAAGGTAAGTTCTTATCTAAATAATGCAATGTTTAG
* * * *
46154449 TTAGTTCCATTTCCTACTATTTCTATATCAAGGTAAGTTCTTATCTAAATAATGCAATGTTTA
1 TTAGGTCCATTTCCCACTATTGCTATACCAAGGTAAGTTCTTATCTAAATAATGCAATGTTTA
46154512 ATTATGTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (64 bp):
TTAGGTCCATTTCCCACTATTGCTATACCAAGGTAAGTTCTTATCTAAATAATGCAATGTTTAG
Found at i:46154708 original size:42 final size:42
Alignment explanation
Indices: 46154649--46154770 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 42
46154639 TAGGGTTACG
* **
46154649 GAGACTATGTGTAAGACCATATCTGGGATATGGCATC-ATTAT
1 GAGACTTTGTGTAAGACCATATCTGGGATATAACATCTA-TAT
*
46154691 GAGACTTTGTATAAGACCATATCTGGGATATAACATCTATAT
1 GAGACTTTGTGTAAGACCATATCTGGGATATAACATCTATAT
* *
46154733 GAGA-TTTCGTGTAAGACCATAGCTGGGCTATTAACATC
1 GAGACTTT-GTGTAAGACCATATCTGGGATA-TAACATC
46154771 AAAACGAGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
41 3 0.04
42 59 0.84
43 8 0.11
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (42 bp):
GAGACTTTGTGTAAGACCATATCTGGGATATAACATCTATAT
Found at i:46157649 original size:40 final size:40
Alignment explanation
Indices: 46157594--46157775 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
46157584 TATTCGAATG
*
46157594 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
46157634 ATATCCGCGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
46157674 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
46157714 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
46157754 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
46157776 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.11
40 115 0.87
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:46175542 original size:20 final size:20
Alignment explanation
Indices: 46175513--46175563 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
46175503 CCGTTTGGTA
*
46175513 TCATGACACTGTCAAAATTT
1 TCATGCCACTGTCAAAATTT
46175533 TCATGCCACTGTCAAAATTT
1 TCATGCCACTGTCAAAATTT
46175553 TCATGCCACTG
1 TCATGCCACTG
46175564 CTTTGGTGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (20 bp):
TCATGCCACTGTCAAAATTT
Found at i:46178437 original size:47 final size:47
Alignment explanation
Indices: 46178369--46178488 Score: 222
Period size: 47 Copynumber: 2.6 Consensus size: 47
46178359 GATGCGAATG
46178369 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
*
46178416 TCCGAACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
*
46178463 TCCGAGCTCGTTGAGTTGAGTCCGAG
1 TCCGAACTCGTTGAGTTGAGTCCGAG
46178489 CTCACTTATG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:46184893 original size:20 final size:19
Alignment explanation
Indices: 46184863--46184946 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
46184853 GATGTTAGAA
46184863 TATTAATTCTATTATATATT
1 TATT-ATTCTATTATATATT
46184883 TATCTATTCTATTATATA--
1 TAT-TATTCTATTATATATT
*
46184901 TA-TATTCTAATATATATT
1 TATTATTCTATTATATATT
46184919 AGTATTATT-T-TTATATTATT
1 --TATTATTCTATTATA-TATT
46184939 TATCTATT
1 TAT-TATT
46184947 TCTTATCTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
16 13 0.24
18 5 0.09
19 8 0.15
20 23 0.43
21 5 0.09
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (19 bp):
TATTATTCTATTATATATT
Found at i:46184908 original size:16 final size:17
Alignment explanation
Indices: 46184868--46184917 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
46184858 TAGAATATTA
46184868 ATTCTATTATATATTTATCT
1 ATTCTATTATATA--TA-CT
46184888 ATTCTATTATATATA-T
1 ATTCTATTATATATACT
*
46184904 ATTCTAATATATAT
1 ATTCTATTATATAT
46184918 TAGTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 14 0.48
18 2 0.07
20 13 0.45
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTCTATTATATATACT
Found at i:46192168 original size:42 final size:42
Alignment explanation
Indices: 46192103--46192203 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
46192093 GTTAACGTCT
** ** *
46192103 CAGACATGGTCTTACACGTAATCAAATTTAATGCCACTGTCC
1 CAGACATGGTCTTACACAAAATCAAATACAATGCCAATGTCC
* *
46192145 CAGACAGGGTCTTACACAAAATCAAGTACAATGCCAATGTCC
1 CAGACATGGTCTTACACAAAATCAAATACAATGCCAATGTCC
*
46192187 CAGACATAGTCTTACAC
1 CAGACATGGTCTTACAC
46192204 GTAAATCATA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
CAGACATGGTCTTACACAAAATCAAATACAATGCCAATGTCC
Found at i:46193687 original size:21 final size:21
Alignment explanation
Indices: 46193654--46193697 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
46193644 GGGATGTTAC
*
46193654 AAAAACGAGTATTAGTGAAAGT
1 AAAAACGAATATTAG-GAAAGT
*
46193676 AAAAAC-AATATTAGGAATGT
1 AAAAACGAATATTAGGAAAGT
46193696 AA
1 AA
46193698 CATCCCGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 7 0.35
22 6 0.30
ACGTcount: A:0.55, C:0.05, G:0.18, T:0.23
Consensus pattern (21 bp):
AAAAACGAATATTAGGAAAGT
Found at i:46197712 original size:16 final size:17
Alignment explanation
Indices: 46197691--46197723 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
46197681 CACATTGAAG
46197691 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
46197707 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
46197724 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:46198912 original size:27 final size:26
Alignment explanation
Indices: 46198856--46198912 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
46198846 CAACCTTAAC
* *
46198856 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
* *
46198882 CCTAGGGGTAAATCTGTAAATTTTTCA
1 CCTAGGGGTAAATCAGT-AATTTTACA
46198909 CCTA
1 CCTA
46198913 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:46200171 original size:5 final size:5
Alignment explanation
Indices: 46200161--46200197 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
46200151 GTAGATGATG
46200161 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AG-AAA AGAAA A
46200198 AACTGAATCC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:46201188 original size:25 final size:27
Alignment explanation
Indices: 46201129--46201189 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
46201119 TTTTCTTTCC
*
46201129 TATCTAATAATAAAAATTTTATAAATA
1 TATCTAATAATAAAAATTTTACAAATA
*
46201156 TATTTAATAATAAAAA-TTT-CAAATA
1 TATCTAATAATAAAAATTTTACAAATA
46201181 TCA-CTAATA
1 T-ATCTAATA
46201190 CAGTAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 11 0.37
26 4 0.13
27 15 0.50
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (27 bp):
TATCTAATAATAAAAATTTTACAAATA
Found at i:46201274 original size:19 final size:18
Alignment explanation
Indices: 46201237--46201280 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
46201227 ATACATACAG
46201237 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
46201254 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
46201273 TACTAATT
1 TAATAATT
46201281 AAAATTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:46203612 original size:20 final size:21
Alignment explanation
Indices: 46203569--46203614 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
46203559 ACTGTTTTGT
46203569 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
46203589 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
46203608 TATGGGC
1 TATGGGC
46203615 AAGGCCCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:46203674 original size:60 final size:60
Alignment explanation
Indices: 46203607--46203743 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 60
46203597 AACTGTGTTA
* *
46203607 ATATGGGCAAGGCCCAACATA-TCTCA-ACTTGTAATAGGGTTATGGCCCAGATTGACACTG
1 ATATGGGCAAGGCCCAACATACTCTCATAC-TGTAA-AGGGCTATGGCCCAGATTAACACTG
* ** * * * *
46203667 ATATGGGCTAGGCCCAGTATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCAAGGCCCAACATACTCTCATACTGTAAAGGGCTATGGCCCAGATTAACACTG
*
46203727 ATATGGGCTAAGACCCA
1 ATATGGGC-AAGGCCCA
46203744 GTTAACTCTG
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
60 46 0.73
61 15 0.24
62 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (60 bp):
ATATGGGCAAGGCCCAACATACTCTCATACTGTAAAGGGCTATGGCCCAGATTAACACTG
Found at i:46212013 original size:20 final size:19
Alignment explanation
Indices: 46211983--46212066 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
46211973 GATGTTAGAA
46211983 TATTAATTCTATTATATATT
1 TATT-ATTCTATTATATATT
46212003 TATCTATTCTATTATATA--
1 TAT-TATTCTATTATATATT
*
46212021 TA-TATTCTAATATATATT
1 TATTATTCTATTATATATT
46212039 AGTATTATT-T-TTATATTATT
1 --TATTATTCTATTATA-TATT
46212059 TATCTATT
1 TAT-TATT
46212067 TCTTATCTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
16 13 0.24
18 5 0.09
19 8 0.15
20 23 0.43
21 5 0.09
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (19 bp):
TATTATTCTATTATATATT
Found at i:46212028 original size:16 final size:17
Alignment explanation
Indices: 46211988--46212037 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
46211978 TAGAATATTA
46211988 ATTCTATTATATATTTATCT
1 ATTCTATTATATA--TA-CT
46212008 ATTCTATTATATATA-T
1 ATTCTATTATATATACT
*
46212024 ATTCTAATATATAT
1 ATTCTATTATATAT
46212038 TAGTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 14 0.48
18 2 0.07
20 13 0.45
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTCTATTATATATACT
Found at i:46220409 original size:42 final size:42
Alignment explanation
Indices: 46220304--46220411 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 42
46220294 GTACAATGTA
*** * *
46220304 AACGTCCCAGACATGGTCTTACATGTAATCAAATTCAATGCC
1 AACGTCCCAGACATGGTCTTACACAAAATCAAATACAACGCC
* *
46220346 -ACTGTCCCAGACAGGGTCTTACACAAAATCAAGTACAACGCC
1 AAC-GTCCCAGACATGGTCTTACACAAAATCAAATACAACGCC
* *
46220388 AACGTCCCAGACATAGCCTTACAC
1 AACGTCCCAGACATGGTCTTACAC
46220412 GTAAATCATA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.04
42 50 0.93
43 2 0.04
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.20
Consensus pattern (42 bp):
AACGTCCCAGACATGGTCTTACACAAAATCAAATACAACGCC
Found at i:46221896 original size:21 final size:21
Alignment explanation
Indices: 46221863--46221906 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
46221853 GGGATGTTAC
*
46221863 AAAAACGAGTATTAGTGAAAGT
1 AAAAACGAATATTAG-GAAAGT
*
46221885 AAAAAC-AATATTAGGAATGT
1 AAAAACGAATATTAGGAAAGT
46221905 AA
1 AA
46221907 CATCCCGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 7 0.35
22 6 0.30
ACGTcount: A:0.55, C:0.05, G:0.18, T:0.23
Consensus pattern (21 bp):
AAAAACGAATATTAGGAAAGT
Found at i:46222752 original size:30 final size:30
Alignment explanation
Indices: 46222716--46222774 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
46222706 TACGAGCCTT
*
46222716 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAATGTAAATATGCAAAAGTTTA
* * *
46222746 GGGGCAAAAATGTAATTTTGCCAAAGTTT
1 GGGGCAAAAATGTAAATATGCAAAAGTTT
46222775 GGGTCAAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.27
Consensus pattern (30 bp):
GGGGCAAAAATGTAAATATGCAAAAGTTTA
Found at i:46223214 original size:50 final size:46
Alignment explanation
Indices: 46223111--46223215 Score: 129
Period size: 46 Copynumber: 2.2 Consensus size: 46
46223101 GACAGGACAG
* * *
46223111 GACAGAAATGAGCCATGTAAGTCCATATCAGATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGATATATGGCATTGGA
* *
46223157 GAGAGGAATGAGCCATGTAAGCCCATATTAGACATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATA-T---CAGATATATGGCATTGGA
46223207 GACAGGAAT
1 GACAGGAAT
46223216 AATTCATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
46 24 0.49
47 1 0.02
50 24 0.49
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (46 bp):
GACAGGAATGAGCCATGTAAGCCCATATCAGATATATGGCATTGGA
Found at i:46230134 original size:30 final size:30
Alignment explanation
Indices: 46230098--46230156 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
46230088 TACGAGCCTT
*
46230098 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAATGTAAATATGCAAAAGTTTA
* * *
46230128 GGGGCAAAAATGTAATTTTGCCAAAGTTT
1 GGGGCAAAAATGTAAATATGCAAAAGTTT
46230157 GGGTCAAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.27
Consensus pattern (30 bp):
GGGGCAAAAATGTAAATATGCAAAAGTTTA
Found at i:46232621 original size:32 final size:33
Alignment explanation
Indices: 46232575--46232638 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
46232565 AACAGCGGGT
46232575 ACTGGGCCGAAGCCC-TTTTCAGA-ATACAGTAA
1 ACTGGGCCGAAGCCCATTTTCAGATA-ACAGTAA
**
46232607 ACTGGGCCTTAGCCCATTTTCAGATAACAGTA
1 ACTGGGCCGAAGCCCATTTTCAGATAACAGTA
46232639 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 13 0.46
33 14 0.50
34 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (33 bp):
ACTGGGCCGAAGCCCATTTTCAGATAACAGTAA
Found at i:46232637 original size:33 final size:32
Alignment explanation
Indices: 46232575--46232638 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
46232565 AACAGCGGGT
46232575 ACTGGGCCGAAGCCCTTTTCAGAATACAGTAA
1 ACTGGGCCGAAGCCCTTTTCAGAATACAGTAA
**
46232607 ACTGGGCCTTAGCCCATTTTCAG-ATAACAGTA
1 ACTGGGCCGAAGCCC-TTTTCAGAAT-ACAGTA
46232639 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (32 bp):
ACTGGGCCGAAGCCCTTTTCAGAATACAGTAA
Found at i:46234268 original size:5 final size:5
Alignment explanation
Indices: 46234258--46234294 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
46234248 GTAGATGATG
46234258 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AG-AAA AGAAA A
46234295 AACTGAATCC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:46237623 original size:22 final size:22
Alignment explanation
Indices: 46237592--46237633 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
46237582 TCCCCACAGG
*
46237592 AAGTGTAGGGATGGACGGAGGC
1 AAGTGCAGGGATGGACGGAGGC
* *
46237614 AAGTGCAGGGTTGGATGGAG
1 AAGTGCAGGGATGGACGGAG
46237634 TTATCATGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.07, G:0.50, T:0.17
Consensus pattern (22 bp):
AAGTGCAGGGATGGACGGAGGC
Found at i:46237710 original size:20 final size:21
Alignment explanation
Indices: 46237667--46237712 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
46237657 ACTGTTTTGT
46237667 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
46237687 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
46237706 TATGGGC
1 TATGGGC
46237713 AAGGCCCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:46245528 original size:24 final size:25
Alignment explanation
Indices: 46245486--46245533 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
46245476 ACACAAATGC
*
46245486 AGCTCTTCGTGAGCATCCTGATATA
1 AGCTCTTCATGAGCATCCTGATATA
*
46245511 AGCTCTT-ATGAGCTTCCTGATAT
1 AGCTCTTCATGAGCATCCTGATAT
46245534 GGCTCGCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (25 bp):
AGCTCTTCATGAGCATCCTGATATA
Found at i:46247567 original size:41 final size:41
Alignment explanation
Indices: 46247514--46247704 Score: 294
Period size: 41 Copynumber: 4.7 Consensus size: 41
46247504 CGCTGACTCA
* *
46247514 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * *** *
46247555 GAAGGCCCTTCGAAACTTGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
46247595 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
46247636 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
46247677 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
46247705 TAAACCCCAA
Statistics
Matches: 133, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 31 0.23
41 102 0.77
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:46247602 original size:81 final size:82
Alignment explanation
Indices: 46247514--46247704 Score: 294
Period size: 81 Copynumber: 2.3 Consensus size: 82
46247504 CGCTGACTCA
* * * *** *
46247514 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCCGAAGGCCCTTCGAAACTTGGTTCG
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
46247579 G-TTATGACACTGGCTC
66 GATTATGACACTGGCTC
* *
46247595 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
46247660 GATTATGACACTGGCTC
66 GATTATGACACTGGCTC
46247677 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
46247705 TAAACCCCAA
Statistics
Matches: 100, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 57 0.57
82 43 0.43
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (82 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
GATTATGACACTGGCTC
Found at i:46251537 original size:21 final size:21
Alignment explanation
Indices: 46251513--46251582 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
46251503 AAATCTGAAC
46251513 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* ** **
46251534 TCA-TGATATATGTGACGTCCCAAC
1 TCATTGA-GT-TGTG--GTCTGAGT
46251558 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
46251579 TCAT
1 TCAT
46251583 GATATATATG
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 3 0.09
21 12 0.35
22 4 0.12
23 4 0.12
24 8 0.24
25 3 0.09
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.39
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:46254509 original size:27 final size:26
Alignment explanation
Indices: 46254474--46254585 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
46254464 AGCATGGCTG
* *
46254474 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
46254500 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
46254528 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
46254555 CCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
46254582 CCAG
1 CCAG
46254586 GACGTTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:46254567 original size:54 final size:54
Alignment explanation
Indices: 46254474--46254585 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
46254464 AGCATGGCTG
* *
46254474 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * *
46254528 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-TAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
46254582 CCAG
1 CCAG
46254586 GACGTTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:46259145 original size:27 final size:27
Alignment explanation
Indices: 46259107--46259159 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
46259097 AAACGATCAA
*
46259107 CTACAACCCAAATTGCATTTTTCTTTT
1 CTACAACCCAAATTGCATCTTTCTTTT
46259134 CTACAACCCAAATTGCATCTTTCTTT
1 CTACAACCCAAATTGCATCTTTCTTT
46259160 CTCGGAGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.04, T:0.42
Consensus pattern (27 bp):
CTACAACCCAAATTGCATCTTTCTTTT
Found at i:46273786 original size:13 final size:13
Alignment explanation
Indices: 46273764--46273796 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
46273754 AAGGGTTTGT
46273764 TTAT-TAAACTAA
1 TTATCTAAACTAA
46273776 TTATCTAAACTAA
1 TTATCTAAACTAA
*
46273789 TTAACTAA
1 TTATCTAA
46273797 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:46274845 original size:24 final size:24
Alignment explanation
Indices: 46274809--46274856 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
46274799 ATCTTCTCGA
*
46274809 TTTGGTCCATTTTGTCCCCTTTTG
1 TTTGGTCCATTTTGGCCCCTTTTG
** *
46274833 TTTGGTCGTTTTTGGCTCCTTTTG
1 TTTGGTCCATTTTGGCCCCTTTTG
46274857 ACTCTTGGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.02, C:0.21, G:0.21, T:0.56
Consensus pattern (24 bp):
TTTGGTCCATTTTGGCCCCTTTTG
Found at i:46276715 original size:5 final size:5
Alignment explanation
Indices: 46276705--46276785 Score: 50
Period size: 5 Copynumber: 16.8 Consensus size: 5
46276695 TATGTCTTTC
* * *
46276705 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AGTAAT AAAA- AATA-
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT A-AAAT AAAAT AAAAT
46276749 AAAAT AAAAT AAAAT -AAAT -AAA- AAAAT AAGAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAAA
46276786 AGATAGGAGG
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
3 3 0.05
4 16 0.26
5 25 0.41
6 17 0.28
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:46276751 original size:6 final size:6
Alignment explanation
Indices: 46276742--46276786 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
46276732 AATAGTAATA
*
46276742 AAAAAT AAAAAT -AAAAT -AAAAT AAATAA- AAAAAT AAGAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT AAAAA
46276787 GATAGGAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 12 0.35
6 20 0.59
7 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:46276764 original size:23 final size:23
Alignment explanation
Indices: 46276705--46276785 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 23
46276695 TATGTCTTTC
**
46276705 AAAATAAAATAATAAAATTGAAAT
1 AAAATAAAATAA-AAAATAAAAAT
*
46276729 GAAAATAGTAATAAAAAATAAAAAT
1 -AAAATA-AAATAAAAAATAAAAAT
*
46276754 AAAATAAAATAAATAA-AAAAAT
1 AAAATAAAATAAAAAATAAAAAT
46276776 AAGAATAAAA
1 AA-AATAAAA
46276786 AGATAGGAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
22 8 0.16
23 15 0.31
24 6 0.12
25 15 0.31
26 5 0.10
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (23 bp):
AAAATAAAATAAAAAATAAAAAT
Found at i:46276782 original size:14 final size:13
Alignment explanation
Indices: 46276705--46276786 Score: 51
Period size: 14 Copynumber: 5.8 Consensus size: 13
46276695 TATGTCTTTC
*
46276705 AAAATAAAATAAT
1 AAAATAAAAAAAT
46276718 AAAATTGAAATGAAAAT
1 AAAA-T-AAA--AAAAT
*
46276735 AGTAAT-AAAAAAT
1 A-AAATAAAAAAAT
46276748 AAAAATAAAATAAA-
1 -AAAATAAAA-AAAT
46276762 ATAAATAAAAAAAT
1 A-AAATAAAAAAAT
46276776 AAGAATAAAAA
1 AA-AATAAAAA
46276787 GATAGGAGGA
Statistics
Matches: 55, Mismatches: 3, Indels: 21
0.70 0.04 0.27
Matches are distributed among these distances:
13 17 0.31
14 22 0.40
15 8 0.15
17 6 0.11
18 2 0.04
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:46282183 original size:13 final size:13
Alignment explanation
Indices: 46282161--46282193 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
46282151 AAGGGTTTGT
46282161 TTAT-TAAACTAA
1 TTATCTAAACTAA
46282173 TTATCTAAACTAA
1 TTATCTAAACTAA
*
46282186 TTAACTAA
1 TTATCTAA
46282194 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:46285396 original size:55 final size:55
Alignment explanation
Indices: 46285327--46285437 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
46285317 ATTTTCTTTA
46285327 TAAAAAGAAAATATTAATGAACTTCTATGAAACTGCAACCAAATCTTTCAGGATT
1 TAAAAAGAAAATATTAATGAACTTCTATGAAACTGCAACCAAATCTTTCAGGATT
*
46285382 TAAAAAGAAGATATTAATGAACTTCTATGAAACTGCAACCAAATCTTTCAGGATT
1 TAAAAAGAAAATATTAATGAACTTCTATGAAACTGCAACCAAATCTTTCAGGATT
46285437 T
1 T
46285438 GGTTTTGAGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (55 bp):
TAAAAAGAAAATATTAATGAACTTCTATGAAACTGCAACCAAATCTTTCAGGATT
Found at i:46304150 original size:397 final size:398
Alignment explanation
Indices: 46303355--46304154 Score: 1289
Period size: 397 Copynumber: 2.0 Consensus size: 398
46303345 AAACCACAGT
46303355 TCCAATTAGGGTCTAAATCAGGCTGTTACAACTCTCCCCCATTAAGGATTTTCGTCCCCGAAAAT
1 TCCAATTAGGGTCTAAATCAGGCTGTTACAACTCTCCCCCATTAAGGATTTTCGTCCCCGAAAAT
* * *
46303420 CTTACAGGTGAATAGGTTCAGATGATGTTCTTTCATTGTATCCTCTGGCTCCCATGTTTCTTCCT
66 CTTACAGATGAATAGGTTCAGATGATGTTCTTTCATTGTATCCTCTGACTCCCATGTTGCTTCCT
* ** *
46303485 CAACTCTATGCTTATGCTACAATACTTTAACTAACGAAATCTTCTTCTTCTGCAACTCTTTAACC
131 CAACTCCATGCTTATGCTACAATACTTTAACTAACGAAATCTTCTTAGTCCGCAACTCTTTAACC
*
46303550 TCACGAGTCAAAATGCGAATCGGTTCTTCTTCATAGGTCATATCAGGCTGAATTTCAATTTCAGA
196 TCACGAGTCAAAATGCGAATCGGTTCTTCTTCATAGGTCATATCAGGCTGAATTTCAATCTCAGA
* * * * * **
46303615 CGGACTAATCACATGTGAAGGATCAAATCAATACCTTCGAAGCATTGAAATGTGGAATACATTGT
261 CAGACTAATCACATGTGAAAGATCAAAGCAATACCTCCGAAGCATCGAAACATGGAATACATTGT
* *
46303680 GTATCTTTTCTAACTCAGGTGGCAACAACAATCTGTAAGCAACCGGCTCGATACGTTCTATAACC
326 GTATCTTTTCTAACTCAGGTGGAAACAACAATCTGTAAGCAACCGGCTCGATACGTTCTAAAACC
*
46303745 TTATATGG
391 TCATATGG
* * * *
46303753 TCCAATTAGGGTCTAAATCGGGCTGTTACAACTCTCTCCC-TTTAGTGATTTTTGT-CCCGAAAA
1 TCCAATTAGGGTCTAAATCAGGCTGTTACAACTCTCCCCCATTAAG-GATTTTCGTCCCCGAAAA
* *
46303816 TCTTACCGATGAATAGGTTTAGATGATGTTCTTTCATTGTATCCTCTGACTCCCATGTTGCTTCC
65 TCTTACAGATGAATAGGTTCAGATGATGTTCTTTCATTGTATCCTCTGACTCCCATGTTGCTTCC
* *
46303881 TCAACTCCATGCTTATGCTACAATACTTTAACTAACGTAATCTTTTTAGTCCGCAACTCTTTAAC
130 TCAACTCCATGCTTATGCTACAATACTTTAACTAACGAAATCTTCTTAGTCCGCAACTCTTTAAC
* *
46303946 CTCACGAGTCAAAATGCGAATCGGTTCTTCTTCGTAGGTCATATCAGGTTGAATTTCAATCTCAG
195 CTCACGAGTCAAAATGCGAATCGGTTCTTCTTCATAGGTCATATCAGGCTGAATTTCAATCTCAG
* * *
46304011 ATAGACTAATCACATGTGAAAGATCAGAGCAATACCTCCGAAGCATCGAAACATGGAATACTTTG
260 ACAGACTAATCACATGTGAAAGATCAAAGCAATACCTCCGAAGCATCGAAACATGGAATACATTG
*
46304076 TGTATCTTTTCTAACTCAGGTGGAAACAATAATCTGTAAGCAACCGGCTCGATACGTTCTAAAAC
325 TGTATCTTTTCTAACTCAGGTGGAAACAACAATCTGTAAGCAACCGGCTCGATACGTTCTAAAAC
46304141 CTCATATGG
390 CTCATATGG
46304150 TCCAA
1 TCCAA
46304155 CATACCTCGG
Statistics
Matches: 369, Mismatches: 32, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
397 323 0.88
398 46 0.12
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (398 bp):
TCCAATTAGGGTCTAAATCAGGCTGTTACAACTCTCCCCCATTAAGGATTTTCGTCCCCGAAAAT
CTTACAGATGAATAGGTTCAGATGATGTTCTTTCATTGTATCCTCTGACTCCCATGTTGCTTCCT
CAACTCCATGCTTATGCTACAATACTTTAACTAACGAAATCTTCTTAGTCCGCAACTCTTTAACC
TCACGAGTCAAAATGCGAATCGGTTCTTCTTCATAGGTCATATCAGGCTGAATTTCAATCTCAGA
CAGACTAATCACATGTGAAAGATCAAAGCAATACCTCCGAAGCATCGAAACATGGAATACATTGT
GTATCTTTTCTAACTCAGGTGGAAACAACAATCTGTAAGCAACCGGCTCGATACGTTCTAAAACC
TCATATGG
Found at i:46310899 original size:47 final size:46
Alignment explanation
Indices: 46310830--46311038 Score: 177
Period size: 47 Copynumber: 4.5 Consensus size: 46
46310820 ATTGACAGAA
* * * * *
46310830 AAGACCATGGTTGGGCCATGGCAACATGTGATATGTGATTTTCGTAT
1 AAGACCATAGCTGGGCTATGGCATCATGTGATATGTGATTCT-GTAT
** * * *
46310877 AAGACCATAGCTGGGCTATGGCATTGGTGTGATATGAGCTTCCGTAT
1 AAGACCATAGCTGGGCTATGGCA-TCATGTGATATGTGATTCTGTAT
* * * * * * * *
46310924 AAGACCATATCTAGGATATGGCATCGACGTGATTTTTGCTTCTGTGT
1 AAGACCATAGCTGGGCTATGGCATC-ATGTGATATGTGATTCTGTAT
* * *
46310971 AAGACCATATCTGGGATATGGCATCAGTGTGATATGTGA-TCTGTGT
1 AAGACCATAGCTGGGCTATGGCATCA-TGTGATATGTGATTCTGTAT
*
46311017 AAGACCATGGCTGGGCTATGGC
1 AAGACCATAGCTGGGCTATGGC
46311039 TTCGGTGTAT
Statistics
Matches: 130, Mismatches: 29, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
46 28 0.22
47 90 0.69
48 12 0.09
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (46 bp):
AAGACCATAGCTGGGCTATGGCATCATGTGATATGTGATTCTGTAT
Found at i:46314018 original size:20 final size:20
Alignment explanation
Indices: 46313993--46314039 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
46313983 GTTTTGATAT
46313993 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
46314013 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
46314033 ACATGAT
1 ACATGAT
46314040 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:46314177 original size:24 final size:24
Alignment explanation
Indices: 46314085--46314193 Score: 112
Period size: 25 Copynumber: 4.4 Consensus size: 24
46314075 GGAGGAAGTG
* *
46314085 CAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
* * *
46314109 CGAAAATGGCTTTTGCCTCAGTTTCT
1 C-AAAAGGGC-TTTGCCCCAGTTTAT
*
46314135 TAAAAGGGCTTTTGCCCCAGTTTAT
1 CAAAAGGGC-TTTGCCCCAGTTTAT
46314160 CAAAAGGGCTTTGCCCCAG-TTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
46314183 TAAAAGAGGCT
1 CAAAAG-GGCT
46314194 AGGCCTCCAG
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
23 9 0.13
24 15 0.21
25 36 0.51
26 11 0.15
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:46314204 original size:49 final size:50
Alignment explanation
Indices: 46314086--46314205 Score: 138
Period size: 49 Copynumber: 2.4 Consensus size: 50
46314076 GAGGAAGTGC
* * *
46314086 AAAAGGGCTATGCCCCAGTTTACCGAAAATGGCTTTTGCCTCAGTTTCTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
* *
46314136 AAAAGGGCTTTTGCCCCAGTTTATC-AAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGC-TATGCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
*
46314184 AAAAGAGGCTAGGCCTCCAGTT
1 AAAAG-GGCTATGCC-CCAGTT
46314206 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
48 13 0.22
49 18 0.30
50 15 0.25
51 14 0.23
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
Found at i:46315231 original size:42 final size:43
Alignment explanation
Indices: 46315165--46315301 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 43
46315155 ATACGTGGTC
* *
46315165 TTACACGTAATCAAATATCGATGCCACTGTCCCAAACAGGGTA
1 TTACACGAAATCAAATATCGATGCCAATGTCCCAAACAGGGTA
** * * *
46315208 TTACACGAAATCTTATA-CGATGCCAATGTCCCAGACATGGTC
1 TTACACGAAATCAAATATCGATGCCAATGTCCCAAACAGGGTA
* * * * *
46315250 TTACAAGTAAATCACAA-ATCCATACCAATGTCCCAGAC-GCGGTC
1 TTACACG-AAATCA-AATATCGATGCCAATGTCCCAAACAG-GGTA
46315294 TTACACGA
1 TTACACGA
46315302 TAACACATAT
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.36
43 21 0.28
44 28 0.37
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.23
Consensus pattern (43 bp):
TTACACGAAATCAAATATCGATGCCAATGTCCCAAACAGGGTA
Found at i:46337123 original size:27 final size:27
Alignment explanation
Indices: 46337086--46337241 Score: 93
Period size: 27 Copynumber: 5.7 Consensus size: 27
46337076 TGCGATTTAC
* *
46337086 TATGTTGCACTAAGTGTGTGAAATGAA
1 TATGATGCACTAAGTGTGCGAAATGAA
* *
46337113 TATGATGCACTAAGTGTGCGAATTGAC
1 TATGATGCACTAAGTGTGCGAAATGAA
* ** ** *
46337140 CATGCGGCACTAAGTGTGCGAGTTTGAC
1 TATGATGCACTAAGTGTGCGA-AATGAA
** *
46337168 TATG-TAGCACTAAGTGTGCGATTTGAT
1 TATGAT-GCACTAAGTGTGCGAAATGAA
* ** *
46337195 TACG-TAGCACTAAGTGTGCGAGTTGAT
1 TATGAT-GCACTAAGTGTGCGAAATGAA
*
46337222 TAT-ATAGCACTGAGTGTGCG
1 TATGAT-GCACTAAGTGTGCG
46337242 GACTCAATAT
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
27 88 0.79
28 23 0.21
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
TATGATGCACTAAGTGTGCGAAATGAA
Found at i:46337178 original size:82 final size:80
Alignment explanation
Indices: 46337066--46337220 Score: 204
Period size: 82 Copynumber: 1.9 Consensus size: 80
46337056 AAATTGTACA
* * * *
46337066 GCACTATGTGTGCGATTTACTATGTTGCACTAAGTGTGTGAAATGAATATG-ATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGT
46337130 GCGAATTGACCATGCG
65 GCGAATTGACCATGCG
** *
46337146 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
46337211 TGCGAGTTGA
64 TGCGAATTGA
46337221 TTATATAGCA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 14 0.22
81 3 0.05
82 46 0.72
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (80 bp):
GCACTAAGTGTGCGATTTACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
CGAATTGACCATGCG
Found at i:46337185 original size:55 final size:54
Alignment explanation
Indices: 46337092--46337241 Score: 158
Period size: 55 Copynumber: 2.8 Consensus size: 54
46337082 TTACTATGTT
* ** * * *
46337092 GCACTAAGTGTGTGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCA
* * ** *
46337146 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCA
* *
46337201 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATATAGCACTAAGTGTGCG
46337242 GACTCAATAT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
54 37 0.46
55 43 0.54
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCA
Found at i:46337232 original size:82 final size:80
Alignment explanation
Indices: 46337062--46337241 Score: 200
Period size: 82 Copynumber: 2.2 Consensus size: 80
46337052 GATTAAATTG
* * * *
46337062 TACAGCACTATGTGTGCGATTTACTATGTTGCACTAAGTGTGTGAAATGAATATGATGCACTAAG
1 TACAGCACTAAGTGTGCGATTTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
46337127 TGTGCGAATTGACCA
66 TGTGCGAATTGACCA
* * ** *
46337142 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
46337206 AAGTGTGCGAGTTGATTA
63 AAGTGTGCGAATTGACCA
* *
46337224 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
46337242 GACTCAATAT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
80 16 0.20
81 4 0.05
82 61 0.75
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (80 bp):
TACAGCACTAAGTGTGCGATTTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
TGTGCGAATTGACCA
Found at i:46344485 original size:27 final size:27
Alignment explanation
Indices: 46344427--46344603 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
46344417 TAAATTGTAC
* *
46344427 AGCACTATGTGTGCG-ATTTACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
46344453 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
46344479 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
46344507 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
46344535 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
46344562 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
46344589 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46344604 GACTCAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
26 13 0.10
27 91 0.72
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:46344540 original size:82 final size:80
Alignment explanation
Indices: 46344428--46344582 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 80
46344418 AAATTGTACA
* * *
46344428 GCACTATGTGTGCGATTTACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGT
46344492 GCGAATTGACCATGCG
65 GCGAATTGACCATGCG
** *
46344508 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
46344573 TGCGAGTTGA
64 TGCGAATTGA
46344583 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 14 0.22
81 3 0.05
82 47 0.72
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (80 bp):
GCACTAAGTGTGCGATTTACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
CGAATTGACCATGCG
Found at i:46344594 original size:82 final size:80
Alignment explanation
Indices: 46344424--46344603 Score: 209
Period size: 82 Copynumber: 2.2 Consensus size: 80
46344414 GATTAAATTG
* * *
46344424 TACAGCACTATGTGTGCGATTTACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAG
1 TACAGCACTAAGTGTGCGATTTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
46344489 TGTGCGAATTGACCA
66 TGTGCGAATTGACCA
* * ** *
46344504 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
46344568 AAGTGTGCGAGTTGATTA
63 AAGTGTGCGAATTGACCA
* *
46344586 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
46344604 GACTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 16 0.20
81 4 0.05
82 62 0.76
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (80 bp):
TACAGCACTAAGTGTGCGATTTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
TGTGCGAATTGACCA
Found at i:46351588 original size:93 final size:93
Alignment explanation
Indices: 46351476--46351647 Score: 267
Period size: 93 Copynumber: 1.8 Consensus size: 93
46351466 GCCCATAAGT
*
46351476 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCAG-ATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTC-GGAC-ATCAGCATCCATAAGTGAACTCGGACTCAACTC
*
46351539 AACGAGCTCGGATGCCTAGTTACATCTCTC
64 AACGAACTCGGATGCCTAGTTACATCTCTC
* *
46351569 GAACTCGGACTCAACTCAACGAGTTCGGACATCCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATCAGCATCCATAAGTGAACTCGGACTCAACTCAA
*
46351634 CGAATTCGGATGCC
66 CGAACTCGGATGCC
46351648 CAAACATCCT
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 5 0.07
93 67 0.93
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATCAGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAACTCGGATGCCTAGTTACATCTCTC
Found at i:46351643 original size:46 final size:44
Alignment explanation
Indices: 46351468--46351636 Score: 187
Period size: 46 Copynumber: 3.7 Consensus size: 44
46351458 TGTAACCCGC
* *
46351468 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCAGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGC-ATCCGAT
*
46351514 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCAT-CC--GAT
* *** *
46351560 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATCCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATCCG-AT
46351607 CCATAAGTGAACTCGGACTCAACTCAACGA
1 CCATAAGTGAACTCGGACTCAACTCAACGA
46351637 ATTCGGATGC
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 2 0.02
46 63 0.61
47 32 0.31
48 2 0.02
49 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATCCGAT
Found at i:46351662 original size:46 final size:45
Alignment explanation
Indices: 46351473--46351662 Score: 138
Period size: 46 Copynumber: 4.1 Consensus size: 45
46351463 CCCGCCCATA
* * ** *
46351473 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTC-AGATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCCCAACATCC-T
* *
46351518 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATC-CT
* *** *
46351568 --CGAACTCGGACTCAACTCAACGAGTTCGGACATCC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC-T
*
46351611 AAGTGAACTCGGACTCAACTCAACGAATTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCT
46351658 AGTGA
1 AGTGA
46351663 CATGTCACTT
Statistics
Matches: 114, Mismatches: 18, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
45 2 0.02
46 65 0.57
47 30 0.26
48 5 0.04
50 5 0.04
51 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCT
Found at i:46356976 original size:27 final size:27
Alignment explanation
Indices: 46356922--46357032 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
46356912 AGCATGGCTG
** *
46356922 CCAGAACAGATAA-TGTGATAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
46356948 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
46356975 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * * *
46357002 CCAGATCAGATACTTGTGGGATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
46357029 CCAG
1 CCAG
46357033 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 59 0.79
28 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:46357012 original size:54 final size:53
Alignment explanation
Indices: 46356922--46357032 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 53
46356912 AGCATGGCTG
* *
46356922 CCAGAACAGATAATGTGATAGAGTCACCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCA
* * * * *
46356975 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATACTTGTGGGATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCA
46357029 CCAG
1 CCAG
46357033 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 12 0.24
54 38 0.76
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCA
Found at i:46357179 original size:26 final size:27
Alignment explanation
Indices: 46357159--46357210 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
46357149 GGTAATTTTG
46357159 TACCTAGGGGTATATCAGTAATTTCCA
1 TACCTAGGGGTATATCAGTAATTTCCA
*
46357186 TACATAGGGGTAT-TCAAGTAATTTC
1 TACCTAGGGGTATATC-AGTAATTTC
46357211 ACTATTCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (27 bp):
TACCTAGGGGTATATCAGTAATTTCCA
Found at i:46364838 original size:27 final size:27
Alignment explanation
Indices: 46364781--46364891 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
46364771 AGCATGGCTG
* ** *
46364781 CCAGAACAGATAATGA-GATAGAGTCA
1 CCAGAACAGATAATTATGGCAGAGCCA
46364807 CCAGAACAGATAATTATGGCAGAGCCA
1 CCAGAACAGATAATTATGGCAGAGCCA
* *
46364834 CCAGAATAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TATGGCAGAGCCA
* * *
46364861 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTATGGCAGAGCCA
46364888 CCAG
1 CCAG
46364892 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 17 0.23
27 54 0.74
28 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTATGGCAGAGCCA
Found at i:46379115 original size:13 final size:13
Alignment explanation
Indices: 46379097--46379123 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46379087 GCTCGGCAGG
46379097 GACATGCCCGTGT
1 GACATGCCCGTGT
46379110 GACATGCCCGTGT
1 GACATGCCCGTGT
46379123 G
1 G
46379124 CGATTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACATGCCCGTGT
Found at i:46383711 original size:24 final size:25
Alignment explanation
Indices: 46383684--46383730 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46383674 AATTTACCCC
*
46383684 TTTTTATTTT-ATTTTATTTTTATA
1 TTTTTATTTTAATTTAATTTTTATA
*
46383708 TTTTTGTTTTAATTTAATTTTTA
1 TTTTTATTTTAATTTAATTTTTA
46383731 CATGTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTTATTTTAATTTAATTTTTATA
Found at i:46387488 original size:43 final size:43
Alignment explanation
Indices: 46387427--46387547 Score: 158
Period size: 42 Copynumber: 2.8 Consensus size: 43
46387417 CAATGCCAAC
* * *
46387427 GTCCCAGACGTGGACTTACATGTAATCAAATATCGATGCC-ACT
1 GTCCTAGACGTGGTCTTACATGAAATCAAATATCGATGCCGA-T
*
46387470 GTCCTAGACAG-GGTCTTACACGAAATCAAAT-TCGATGCCGAT
1 GTCCTAGAC-GTGGTCTTACATGAAATCAAATATCGATGCCGAT
*
46387512 GTCCTAGACGTGGTCTTACATGAAATCACATATCGA
1 GTCCTAGACGTGGTCTTACATGAAATCAAATATCGA
46387548 AAATCCTATG
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.01
42 36 0.53
43 30 0.44
44 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (43 bp):
GTCCTAGACGTGGTCTTACATGAAATCAAATATCGATGCCGAT
Found at i:46391247 original size:37 final size:37
Alignment explanation
Indices: 46391198--46391277 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
46391188 GAAATGTCTG
* *
46391198 AATCT-TTTACTCTCAACTTATAATAGCCCGATCTCA
1 AATCTATTTACTCTCAACTGATAATAGCCCAATCTCA
46391234 AATCTATTTACTCTCAACTGATAATAGCCCAATCTCA
1 AATCTATTTACTCTCAACTGATAATAGCCCAATCTCA
46391271 AATCTAT
1 AATCTAT
46391278 CTTTGAAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 5 0.12
37 36 0.88
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (37 bp):
AATCTATTTACTCTCAACTGATAATAGCCCAATCTCA
Found at i:46395189 original size:44 final size:42
Alignment explanation
Indices: 46395063--46395209 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 42
46395053 GTCTCATATG
* * * * *
46395063 TGGTCTTACATGTAATCAAATATCGATGTCACTATCCCAGACA
1 TGGTCTTACACGAAATCAAATA-CGATGCCAATGTCCCAGACA
* *
46395106 GGGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACA
1 TGGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGACA
* *
46395148 TGGTCTTACACGTAAATCATAAGT-TGATGCCAATGTCCCAGACG
1 TGGTCTTACACG-AAATCA-AA-TACGATGCCAATGTCCCAGACA
*
46395192 TGGTCTTACATGAAATCA
1 TGGTCTTACACGAAATCA
46395210 CATATCCAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 27 0.30
43 31 0.35
44 30 0.34
45 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (42 bp):
TGGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGACA
Found at i:46396785 original size:22 final size:22
Alignment explanation
Indices: 46396757--46396799 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
46396747 CACTAAGTCA
*
46396757 ACAGAACAGCTCAACGCCATAG
1 ACAGAACAGCTAAACGCCATAG
* *
46396779 ACAGAACGGCTAAAGGCCATA
1 ACAGAACAGCTAAACGCCATA
46396800 AATATCACAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
ACAGAACAGCTAAACGCCATAG
Found at i:46397091 original size:27 final size:27
Alignment explanation
Indices: 46397034--46397091 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
46397024 AGCATAATCG
* * *
46397034 TCATTCTACCATATAGGGGTATTATGC
1 TCATTCTACCATACAGGGGTATTACGA
* *
46397061 TCATTTTACCCTACAGGGGTATTACGA
1 TCATTCTACCATACAGGGGTATTACGA
46397088 TCAT
1 TCAT
46397092 AATACAACCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTCTACCATACAGGGGTATTACGA
Done.