Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 181 of 343
Found at i:60063493 original size:40 final size:40
Alignment explanation
Indices: 60063296--60063479 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
60063286 CGAATGATGT
* * * * *
60063296 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAATGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
60063336 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
60063376 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
60063414 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
60063455 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
60063480 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:60063501 original size:79 final size:79
Alignment explanation
Indices: 60063348--60063512 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
60063338 GGACTAAGAT
* **
60063348 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
60063413 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
60063427 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
60063490 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
60063506 CCGAAGG
1 CCGAAGG
60063513 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:60066469 original size:41 final size:41
Alignment explanation
Indices: 60066424--60066591 Score: 153
Period size: 41 Copynumber: 4.1 Consensus size: 41
60066414 CCTTCGGAAT
* * *
60066424 CAAGCCCAATTCTTAGCACTGGCTCAAAAGCCCTTCGAGAC
1 CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
* * * *
60066465 CAAGCTCGGATTA-GACCACTGGCTCGAAGGCCCTTC-AGAAC
1 CAAGC-CCGATTATGAGCACTGGCTCAAAAGCCCTTCGAG-AC
* * * *
60066506 TAAGTCCGATTATGA-CACTGGCTCTAAAGCCCTTCGAAAC
1 CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
* ** * *
60066546 TAAGTTCGGTTATTAGCACTGGCTCAAAAGCCCTTCGAGAC
1 CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
60066587 CAAGC
1 CAAGC
60066592 TCGGATTTAG
Statistics
Matches: 102, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
40 40 0.39
41 58 0.57
42 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (41 bp):
CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
Found at i:60066528 original size:40 final size:40
Alignment explanation
Indices: 60066440--60066583 Score: 157
Period size: 41 Copynumber: 3.5 Consensus size: 40
60066430 CAATTCTTAG
* *
60066440 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTA-GAC
1 CACTGGCTCAAAAGCCCTTCGA-ACTAAG-TCCGATTATGAC
* *
60066481 CACTGGCTCGAAGGCCCTTCAGAACTAAGTCCGATTATGA-
1 CACTGGCTCAAAAGCCCTTC-GAACTAAGTCCGATTATGAC
* * * * *
60066521 CACTGGCTCTAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCG-AACTAAGTCCGATTATGAC
60066562 CACTGGCTCAAAAGCCCTTCGA
1 CACTGGCTCAAAAGCCCTTCGA
60066584 GACCAAGCTC
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
39 1 0.01
40 41 0.46
41 45 0.51
42 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
CACTGGCTCAAAAGCCCTTCGAACTAAGTCCGATTATGAC
Found at i:60071014 original size:93 final size:93
Alignment explanation
Indices: 60070855--60071026 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
60070845 GGATGGTTGA
* *
60070855 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCGTTGAGT
60070920 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
60070948 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCGTTGAGT
60071013 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
60071027 CTTATGGACG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60071032 original size:46 final size:46
Alignment explanation
Indices: 60070859--60071034 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
60070849 GGTTGAGCAT
* * *
60070859 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * *
60070905 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
* *
60070950 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* *
60070998 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
60071035 CGGGTTACAT
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 4 0.04
46 62 0.56
47 28 0.25
48 5 0.05
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:60078009 original size:41 final size:40
Alignment explanation
Indices: 60077964--60078081 Score: 114
Period size: 41 Copynumber: 2.9 Consensus size: 40
60077954 CGATTCTTAG
*
60077964 CACTGGCTCAAAAGCCCTTCAAGACCAAGCTTAGATTA-GA
1 CACTGGCTCAAAAGCCCTTC-AGACCAAGCTCAGATTATGA
* * * * * *
60078004 CCACTGGCTCGAAGGCCCTTCGGAACTAAG-TCCGGTTATGA
1 -CACTGGCTCAAAAGCCCTTCAG-ACCAAGCTCAGATTATGA
*
60078045 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATT
1 CACTGGCTCAAAAGCCCTTC-AGACCAAGCTCAGATT
60078082 TAGACCCCGA
Statistics
Matches: 60, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
40 29 0.48
41 31 0.52
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (40 bp):
CACTGGCTCAAAAGCCCTTCAGACCAAGCTCAGATTATGA
Found at i:60081299 original size:29 final size:30
Alignment explanation
Indices: 60081267--60081340 Score: 114
Period size: 29 Copynumber: 2.5 Consensus size: 30
60081257 GCTATCGATT
*
60081267 ATGAAAAGGGATGGTGATGACCAT-CAACA
1 ATGAAAAGGGATGGTGACGACCATACAACA
* *
60081296 ATGAAAAGGGATGGTGACGACCATAGAACT
1 ATGAAAAGGGATGGTGACGACCATACAACA
60081326 ATGAAAAGGGATGGT
1 ATGAAAAGGGATGGT
60081341 TTCGGTTGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 23 0.56
30 18 0.44
ACGTcount: A:0.41, C:0.11, G:0.31, T:0.18
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATACAACA
Found at i:60081332 original size:30 final size:29
Alignment explanation
Indices: 60081266--60081457 Score: 127
Period size: 30 Copynumber: 6.4 Consensus size: 29
60081256 GGCTATCGAT
*
60081266 TATGAAAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
60081295 AATGAAAAGGGATGGTGACGACCATAGAAC
1 TATGAAAAGGGATGGTGACGACCAT-CAAC
** **** **
60081325 TATGAAAAGGGATGGTTTCGGTTGTCGATT
1 TATGAAAAGGGATGGTGACGACCATC-AAC
* * * *
60081355 TATGAAAAGGGAGTGCT-TC-AGCTATCAAAT
1 TATGAAAAGGGA-TGGTGACGA-CCATC-AAC
*
60081385 TATGAAAATGGATGGTGACGACCATCAAGC
1 TATGAAAAGGGATGGTGACGACCATCAA-C
* * * *
60081415 AATAAAAAGGGATGGTGATGACCATCAAAT
1 TATGAAAAGGGATGGTGACGACCATC-AAC
60081445 TATGAAAAGGGAT
1 TATGAAAAGGGAT
60081458 AGCTTCGGCT
Statistics
Matches: 124, Mismatches: 31, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
29 28 0.23
30 90 0.73
31 6 0.05
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:60081503 original size:30 final size:30
Alignment explanation
Indices: 60081442--60081513 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
60081432 ATGACCATCA
* *
60081442 AATTATGAAAAGGGATAGCTTCGGCTGTCG
1 AATTATGAAAAGGGATAGCTTCAGCTATCG
* *
60081472 AATTATAAAAAGGGATAAG-TTCAGTTATCG
1 AATTATGAAAAGGGAT-AGCTTCAGCTATCG
*
60081502 AACTATGAAAAG
1 AATTATGAAAAG
60081514 AGATGGGTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (30 bp):
AATTATGAAAAGGGATAGCTTCAGCTATCG
Found at i:60088566 original size:34 final size:33
Alignment explanation
Indices: 60088519--60088602 Score: 96
Period size: 34 Copynumber: 2.5 Consensus size: 33
60088509 AGGCCCTTAT
* * *
60088519 CAGTAGCAATATCAGTGTGGGCCTTAGCCCACTA
1 CAGTA-CAGTATCAGTGTAGGCCTTAGCCCAATA
* * *
60088553 CGGTAACAGTATCAGTATAGGCCTTAGCCCAATT
1 CAGT-ACAGTATCAGTGTAGGCCTTAGCCCAATA
60088587 CAGTACAGTATCAGTG
1 CAGTACAGTATCAGTG
60088603 ATGCAATCAG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
33 11 0.27
34 29 0.71
35 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (33 bp):
CAGTACAGTATCAGTGTAGGCCTTAGCCCAATA
Found at i:60101302 original size:23 final size:23
Alignment explanation
Indices: 60101276--60101327 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
60101266 ACGGTACAAG
* *
60101276 TTAAAGTACATCAACGGCTAAGA
1 TTAAAATACATCAACGACTAAGA
60101299 TTAAAATACATCAACGACTAAGA
1 TTAAAATACATCAACGACTAAGA
60101322 TTAAAA
1 TTAAAA
60101328 ACAATCTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (23 bp):
TTAAAATACATCAACGACTAAGA
Found at i:60101395 original size:17 final size:17
Alignment explanation
Indices: 60101375--60101418 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
60101365 CATATTTTCT
60101375 AAGATTACATATCATCC
1 AAGATTACATATCATCC
* *
60101392 AAGATTACATATCTTCG
1 AAGATTACATATCATCC
60101409 AAGATTACAT
1 AAGATTACAT
60101419 TCCATATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (17 bp):
AAGATTACATATCATCC
Found at i:60102084 original size:19 final size:18
Alignment explanation
Indices: 60102056--60102091 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
60102046 AGTTTGTAAT
*
60102056 ATAATATATAGATAAATA
1 ATAATATATACATAAATA
60102074 ATAACTATATACATAAAT
1 ATAA-TATATACATAAAT
60102092 TTTAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (18 bp):
ATAATATATACATAAATA
Found at i:60106354 original size:30 final size:31
Alignment explanation
Indices: 60106310--60106370 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
60106300 TCGGTGATTA
*
60106310 TTTTGTCACTTTTTTATAACGTT-AGTGACTG
1 TTTTGTCACTTTTTTA-AAAGTTGAGTGACTG
*
60106341 TTTTGTTA-TTTTTTAAAAGTTGAGTGACTG
1 TTTTGTCACTTTTTTAAAAGTTGAGTGACTG
60106371 ATATGAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 5 0.19
30 15 0.56
31 7 0.26
ACGTcount: A:0.21, C:0.08, G:0.18, T:0.52
Consensus pattern (31 bp):
TTTTGTCACTTTTTTAAAAGTTGAGTGACTG
Found at i:60114912 original size:21 final size:20
Alignment explanation
Indices: 60114866--60114913 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
60114856 AAATAGAAAA
* * *
60114866 ATAATTTTAAAAAATGTAAT
1 ATAAATTTAAAATATATAAT
60114886 AGTAAATTTAAAATATATATAT
1 A-TAAATTTAAAATATATA-AT
60114908 ATAAAT
1 ATAAAT
60114914 AAAAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 19 0.83
22 3 0.13
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
ATAAATTTAAAATATATAAT
Found at i:60115347 original size:28 final size:28
Alignment explanation
Indices: 60115303--60115368 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
60115293 GGAGATTTAT
*
60115303 AAAATAAATTGGAGTTTAGGGA-TTTAAA
1 AAAATAAATTGAAGTTTA-GGATTTTAAA
*
60115331 AAAATAAA-TGAAGGTTTAGGATTTTTAA
1 AAAATAAATTGAA-GTTTAGGATTTTAAA
*
60115359 AAAATTAATT
1 AAAATAAATT
60115369 AAATTAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 6 0.19
28 25 0.78
29 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (28 bp):
AAAATAAATTGAAGTTTAGGATTTTAAA
Found at i:60115361 original size:27 final size:28
Alignment explanation
Indices: 60115298--60115361 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
60115288 GGTTTGGAGA
*
60115298 TTTATAAAATAAATTGGAGTTTAGGGATT
1 TTTA-AAAATAAATTGAAGTTTAGGGATT
**
60115327 TAAAAAAATAAA-TGAAGGTTTA-GGATT
1 TTTAAAAATAAATTGAA-GTTTAGGGATT
60115354 TTTAAAAA
1 TTTAAAAA
60115362 ATTAATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 14 0.48
28 13 0.45
29 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (28 bp):
TTTAAAAATAAATTGAAGTTTAGGGATT
Found at i:60122380 original size:5 final size:5
Alignment explanation
Indices: 60122370--60122397 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
60122360 ACAGGGTGAA
60122370 GGGAG GGGAG GGGAG GGGAG GGGAG GGG
1 GGGAG GGGAG GGGAG GGGAG GGGAG GGG
60122398 GAGAGAGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.82, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:60122478 original size:12 final size:12
Alignment explanation
Indices: 60122433--60122492 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
60122423 TTTATTGTAT
60122433 TAAATATTAATA
1 TAAATATTAATA
*
60122445 TAATTATATTTAT-
1 TAA--ATATTAATA
**
60122458 TTTATATTAATA
1 TAAATATTAATA
*
60122470 TGAATATTAATA
1 TAAATATTAATA
*
60122482 TAAATTTTAAT
1 TAAATATTAAT
60122493 TTTTTATTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
11 7 0.19
12 22 0.59
13 1 0.03
14 7 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
TAAATATTAATA
Found at i:60122515 original size:29 final size:28
Alignment explanation
Indices: 60122483--60122557 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 28
60122473 ATATTAATAT
60122483 AAATTTTAATTTTTTATTATAT-TTTATGA
1 AAATTTTAATTTTTTATTATATATTT-T-A
*
60122512 AAA-TAT-ATTTATTT-TTATATATTTTA
1 AAATTTTAATTT-TTTATTATATATTTTA
60122538 AAATTTTATATATTTTTATT
1 AAATTTTA-AT-TTTTTATT
60122558 TCTTGTCAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
26 4 0.11
27 13 0.35
28 8 0.22
29 8 0.22
30 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (28 bp):
AAATTTTAATTTTTTATTATATATTTTA
Found at i:60122529 original size:27 final size:27
Alignment explanation
Indices: 60122493--60122556 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
60122483 AAATTTTAAT
*
60122493 TTTTTATTATATTTTATGAAAATATATTTA
1 TTTTTA-TATATTTTA--AAATTATATTTA
* *
60122523 TTTTTATATATTTTAAAATTTTATATA
1 TTTTTATATATTTTAAAATTATATTTA
60122550 TTTTTAT
1 TTTTTAT
60122557 TTCTTGTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 16 0.52
29 9 0.29
30 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTTTATATATTTTAAAATTATATTTA
Found at i:60122608 original size:21 final size:21
Alignment explanation
Indices: 60122581--60122635 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
60122571 ATTTTTTTAT
60122581 TTTATATATTTTTAAAAAAT-
1 TTTATATATTTTTAAAAAATA
*
60122601 TATTATAT-TTTTT-GAAAATA
1 T-TTATATATTTTTAAAAAATA
*
60122621 TTTATGTATTTTTAA
1 TTTATATATTTTTAA
60122636 TTTCTTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 10 0.36
20 12 0.43
21 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTATATATTTTTAAAAAATA
Found at i:60124323 original size:27 final size:27
Alignment explanation
Indices: 60124293--60124353 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
60124283 CCTAAATTCG
60124293 AATGTAAAAACCTTAT-AGTTTCATTAA
1 AATGTAAAAACCTTATGA-TTTCATTAA
*
60124320 AATGTAAAAACGTTATGATTTCATTAA
1 AATGTAAAAACCTTATGATTTCATTAA
60124347 AATGTAA
1 AATGTAA
60124354 CACCTACTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (27 bp):
AATGTAAAAACCTTATGATTTCATTAA
Found at i:60125423 original size:41 final size:42
Alignment explanation
Indices: 60125360--60125445 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 42
60125350 TAAAACGACT
* * *
60125360 AAAAAACATATTTTTATTTTAAAAATCTAAA-CTTTCTTTTTTA
1 AAAAAAAATATTTTTATCTTAAAAATC-AAAGCTTT-TATTTTA
*
60125403 AAAAAAAATA-TTTT-TCTTAAAGATCAAAGCTTTTATTTTA
1 AAAAAAAATATTTTTATCTTAAAAATCAAAGCTTTTATTTTA
60125443 AAA
1 AAA
60125446 TATTTGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
40 12 0.32
41 13 0.34
42 4 0.11
43 9 0.24
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.44
Consensus pattern (42 bp):
AAAAAAAATATTTTTATCTTAAAAATCAAAGCTTTTATTTTA
Found at i:60125536 original size:51 final size:52
Alignment explanation
Indices: 60125439--60125540 Score: 129
Period size: 51 Copynumber: 2.0 Consensus size: 52
60125429 AAGCTTTTAT
* *
60125439 TTTAAAATATTTGAAAAAAATCAAAATTTTGTTTTAAAAATTTAAACTTTCC
1 TTTAAAATATTTGAAAAAAAACAAAATTTTGTTTTAAAAATCTAAACTTTCC
* *
60125491 TTTAAAATGA-TT-AAAAAAAACATATTTTTAGTTTT-AAAATCTAAACTTTC
1 TTTAAAAT-ATTTGAAAAAAAACAAAATTTT-GTTTTAAAAATCTAAACTTTC
60125541 TTTTTTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
51 28 0.64
52 15 0.34
53 1 0.02
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (52 bp):
TTTAAAATATTTGAAAAAAAACAAAATTTTGTTTTAAAAATCTAAACTTTCC
Found at i:60125555 original size:145 final size:143
Alignment explanation
Indices: 60125271--60125546 Score: 396
Period size: 145 Copynumber: 1.9 Consensus size: 143
60125261 AATCATGTAC
** *
60125271 TTTTCTTAAAAATCAAAATTTTATTTCGAATAGTTGAAAAATATCAAAAATTTGTTTTAAAAAAT
1 TTTTCTTAAAAATCAAAATTTTATTTAAAATAGTTGAAAAAAATCAAAAATTTGTTTTAAAAAAT
60125336 CTAAACTTTTCCTTTAAAACGACTAAAAAACATATTTTTATTTTAAAAATCTAAACTTTCTTTTT
66 CTAAACTTTTCCTTTAAAACGACTAAAAAACATATTTTTATTTTAAAAATCTAAACTTTCTTTTT
60125401 TAAAAAAAAATAT
131 TAAAAAAAAATAT
* * * *
60125414 TTTTCTTAAAGATCAAAGCTTTTATTTTAAAATATTTGAAAAAAATCAAAATTTTGTTTT-AAAA
1 TTTTCTTAAAAATCAAA-ATTTTA-TTTAAAATAGTTGAAAAAAATCAAAAATTTGTTTTAAAAA
* * *
60125478 ATTTAAAC-TTTCCTTTAAAATGATTAAAAAAAACATATTTTTAGTTTT-AAAATCTAAACTTTC
64 ATCTAAACTTTTCCTTTAAAACGACT--AAAAAACATATTTTTA-TTTTAAAAATCTAAACTTTC
60125541 TTTTTT
126 TTTTTT
60125547 TTTAAAAAAA
Statistics
Matches: 118, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
143 31 0.26
144 16 0.14
145 67 0.57
146 4 0.03
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (143 bp):
TTTTCTTAAAAATCAAAATTTTATTTAAAATAGTTGAAAAAAATCAAAAATTTGTTTTAAAAAAT
CTAAACTTTTCCTTTAAAACGACTAAAAAACATATTTTTATTTTAAAAATCTAAACTTTCTTTTT
TAAAAAAAAATAT
Found at i:60126164 original size:26 final size:26
Alignment explanation
Indices: 60126111--60126164 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
60126101 TTGTTCGATC
* ** *
60126111 AAATAAATTATTTAAAAAATTCATAA
1 AAATAAAATATTTAAAAAATAAAGAA
*
60126137 AAATAAAATATTTAAACAATAAAGAA
1 AAATAAAATATTTAAAAAATAAAGAA
60126163 AA
1 AA
60126165 TCAATACAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (26 bp):
AAATAAAATATTTAAAAAATAAAGAA
Found at i:60128284 original size:23 final size:24
Alignment explanation
Indices: 60128245--60128289 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
60128235 AAGCTCACAA
*
60128245 AGAGCCATATCGGGAAGCTTATAT
1 AGAGCCATATCGAGAAGCTTATAT
*
60128269 AGAGCC-TATCGAGAAGTTTAT
1 AGAGCCATATCGAGAAGCTTAT
60128290 CTGGGCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (24 bp):
AGAGCCATATCGAGAAGCTTATAT
Found at i:60129424 original size:17 final size:18
Alignment explanation
Indices: 60129395--60129428 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
60129385 TGTGGCCTGC
60129395 CCGTGTGAGCCCACACGT
1 CCGTGTGAGCCCACACGT
60129413 CCGTGT-AGCCCACACG
1 CCGTGTGAGCCCACACG
60129429 GCTCAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.18, C:0.41, G:0.26, T:0.15
Consensus pattern (18 bp):
CCGTGTGAGCCCACACGT
Found at i:60141690 original size:18 final size:19
Alignment explanation
Indices: 60141649--60141690 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
60141639 AATTTAAAAC
60141649 TTATAAAAAAATATAAATA
1 TTATAAAAAAATATAAATA
*
60141668 -AATAAAAAAATA-AAATA
1 TTATAAAAAAATATAAATA
60141685 TTATAA
1 TTATAA
60141691 GTTTATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
TTATAAAAAAATATAAATA
Found at i:60141809 original size:9 final size:9
Alignment explanation
Indices: 60141795--60141834 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
60141785 ATAATAATAT
60141795 TATTTTATA
1 TATTTTATA
60141804 TATTTTA-A
1 TATTTTATA
60141812 -ATTTTATA
1 TATTTTATA
*
60141820 TATTTTTTA
1 TATTTTATA
60141829 -ATTTTA
1 TATTTTA
60141835 CAATAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
7 6 0.22
8 7 0.26
9 14 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TATTTTATA
Found at i:60141829 original size:18 final size:15
Alignment explanation
Indices: 60141796--60141825 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
60141786 TAATAATATT
60141796 ATTTTATATATTTTAA
1 ATTTTATATATTTT-A
60141812 ATTTTATATATTTT
1 ATTTTATATATTTT
60141826 TTAATTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTATATATTTTA
Found at i:60141846 original size:24 final size:24
Alignment explanation
Indices: 60141787--60141846 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
60141777 ATTTTTTAAT
*
60141787 AATAATATTATTTTATATATTTTA
1 AATAATAATATTTTATATATTTTA
** *
60141811 AATTTTATATATTTTTTA-ATTTTA
1 AATAATA-ATATTTTATATATTTTA
60141835 CAATAATAATAT
1 -AATAATAATAT
60141847 AAATAACATG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
AATAATAATATTTTATATATTTTA
Found at i:60141991 original size:8 final size:8
Alignment explanation
Indices: 60141960--60142005 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
60141950 AAAAGATTAT
60141960 ATTTTTTA
1 ATTTTTTA
*
60141968 ATTAATTTA
1 ATT-TTTTA
60141977 TATTTTTTA
1 -ATTTTTTA
60141986 ATTTTTTA
1 ATTTTTTA
60141994 ATTTTTTA
1 ATTTTTTA
60142002 ATTT
1 ATTT
60142006 AGATCCATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 23 0.68
9 8 0.24
10 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
ATTTTTTA
Found at i:60141997 original size:16 final size:17
Alignment explanation
Indices: 60141956--60142005 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 17
60141946 GTGAAAAAGA
*
60141956 TTATATTTTTTAATTAAT
1 TTATATTTTTTAATT-TT
60141974 TTATATTTTTTAATTTT
1 TTATATTTTTTAATTTT
60141991 TTA-ATTTTTTAATTT
1 TTATATTTTTTAATTT
60142006 AGATCCATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 12 0.39
17 4 0.13
18 15 0.48
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATATTTTTTAATTTT
Found at i:60145202 original size:22 final size:21
Alignment explanation
Indices: 60145177--60145232 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
60145167 TTCCCAAAGT
*
60145177 AGCGATTCT-TTCTCTTTAAGCC
1 AGCGATGCTCTTCTC-TT-AGCC
*
60145199 AGCGCTGCTCTTCTCTTAGCC
1 AGCGATGCTCTTCTCTTAGCC
*
60145220 AGCGTTGCTCTTC
1 AGCGATGCTCTTC
60145233 ACGGAGCCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.53
22 9 0.30
23 5 0.17
ACGTcount: A:0.12, C:0.32, G:0.18, T:0.38
Consensus pattern (21 bp):
AGCGATGCTCTTCTCTTAGCC
Found at i:60145221 original size:21 final size:23
Alignment explanation
Indices: 60145186--60145232 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
60145176 TAGCGATTCT
60145186 TTCTCTTTAAGCCAGCGCTGCTC
1 TTCTCTTTAAGCCAGCGCTGCTC
*
60145209 TTCTC-TT-AGCCAGCGTTGCTC
1 TTCTCTTTAAGCCAGCGCTGCTC
60145230 TTC
1 TTC
60145233 ACGGAGCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
22 2 0.09
23 5 0.22
ACGTcount: A:0.11, C:0.34, G:0.17, T:0.38
Consensus pattern (23 bp):
TTCTCTTTAAGCCAGCGCTGCTC
Found at i:60145240 original size:21 final size:21
Alignment explanation
Indices: 60145195--60145262 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
60145185 TTTCTCTTTA
* **
60145195 AGCCAGCGCTGCTCTTCTCTT
1 AGCCAGCGCTGCTCTTCACGG
*
60145216 AGCCAGCGTTGCTCTTCACGG
1 AGCCAGCGCTGCTCTTCACGG
* * * *
60145237 AGCCATCGCTGTTCCTCACGA
1 AGCCAGCGCTGCTCTTCACGG
60145258 AGCCA
1 AGCCA
60145263 CCTGGTTTCT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.16, C:0.37, G:0.22, T:0.25
Consensus pattern (21 bp):
AGCCAGCGCTGCTCTTCACGG
Found at i:60148555 original size:15 final size:13
Alignment explanation
Indices: 60148517--60148546 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60148507 GGGGACACAC
60148517 GGCCGTGTCACCT
1 GGCCGTGTCACCT
*
60148530 GGCCGTGTCACTT
1 GGCCGTGTCACCT
60148543 GGCC
1 GGCC
60148547 ATGTGTCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.37, G:0.33, T:0.23
Consensus pattern (13 bp):
GGCCGTGTCACCT
Found at i:60154317 original size:42 final size:42
Alignment explanation
Indices: 60154211--60154366 Score: 208
Period size: 42 Copynumber: 3.7 Consensus size: 42
60154201 TACCGTACCA
*
60154211 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCGTATCG
* * ***
60154253 AAT-CCAATAGCCCAGCTATGGTCTTACACGAAGTCTCACCTCG
1 -ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCGTATCG
60154296 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCGTATCG
*
60154338 ATGCCACATCCCAGATATGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
60154367 TAATCTTAGT
Statistics
Matches: 98, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
42 66 0.67
43 32 0.33
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCGTATCG
Found at i:60156981 original size:34 final size:34
Alignment explanation
Indices: 60156943--60157010 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
60156933 TAACTTGATC
*
60156943 TAAATAATCAAATTCAATCCATTTAGTATTCATT
1 TAAATAATCAAATTCAATCCATTTAGCATTCATT
60156977 TAAATAATCAAATTCAATCCATTTAGCATTCATT
1 TAAATAATCAAATTCAATCCATTTAGCATTCATT
60157011 CTATTTGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.40
Consensus pattern (34 bp):
TAAATAATCAAATTCAATCCATTTAGCATTCATT
Found at i:60163251 original size:40 final size:41
Alignment explanation
Indices: 60163221--60163405 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
60163211 GCTACTCGTT
*
60163221 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
*
60163261 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* *
60163301 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* * * *
60163340 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCA
60163381 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60163406 CATCATTCAA
Statistics
Matches: 128, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 79 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
Found at i:60163339 original size:79 final size:82
Alignment explanation
Indices: 60163221--60163405 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
60163211 GCTACTCGTT
* *
60163221 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
60163284 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
60163301 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
60163364 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
60163381 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60163406 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:60173863 original size:115 final size:115
Alignment explanation
Indices: 60173657--60174004 Score: 597
Period size: 115 Copynumber: 3.0 Consensus size: 115
60173647 TTTCCACCAC
* *
60173657 CCATTTCAAACATGTACCTACAAGCCATTTGCACCCTCGTTCAAAGCATCAAAACATACCAAAAC
1 CCATTTCAAGCATGTACCTACAAGCCATTTGCACCCTTGTTCAAAGCATCAAAACATACCAAAAC
*
60173722 ATGCATGAAATGACCAATTCACTATACCATTATTCCATCCGACCAATATG
66 ATGCATGAAATGACCAATTCACTATACCATTATTCCATCCAACCAATATG
** * * * *
60173772 CCATTTGGAGCATGTACCTACAAGCTATTTGCACCCTTTTTCAAAGTATTAAAACATACCAAAAC
1 CCATTTCAAGCATGTACCTACAAGCCATTTGCACCCTTGTTCAAAGCATCAAAACATACCAAAAC
*
60173837 ATGCATGAAATGACCAATTCAGTATACCATTATTCCATCCAACCAATATG
66 ATGCATGAAATGACCAATTCACTATACCATTATTCCATCCAACCAATATG
*
60173887 CCATTTCAAGCATGTACCTATAAGCCATTTGCACCCTTGTTCAAAGCATCAAAACATACCAAAAC
1 CCATTTCAAGCATGTACCTACAAGCCATTTGCACCCTTGTTCAAAGCATCAAAACATACCAAAAC
60173952 ATGCATGAAATGACCAATTCACTATACCATTATTCCATCCAACCAATATG
66 ATGCATGAAATGACCAATTCACTATACCATTATTCCATCCAACCAATATG
60174002 CCA
1 CCA
60174005 ATAAGGAACC
Statistics
Matches: 215, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
115 215 1.00
ACGTcount: A:0.37, C:0.28, G:0.09, T:0.26
Consensus pattern (115 bp):
CCATTTCAAGCATGTACCTACAAGCCATTTGCACCCTTGTTCAAAGCATCAAAACATACCAAAAC
ATGCATGAAATGACCAATTCACTATACCATTATTCCATCCAACCAATATG
Found at i:60186383 original size:21 final size:21
Alignment explanation
Indices: 60186343--60186401 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
60186333 AACAAACATA
*
60186343 TTTCTCTTCTTCTTTCTTCTCTC
1 TTTCT-TTCTTTTTTCTTCTC-C
*
60186366 TTT-TTTCTTTTTTTTTCTCC
1 TTTCTTTCTTTTTTCTTCTCC
*
60186386 TTTCTTTCTTTCTTCT
1 TTTCTTTCTTTTTTCT
60186402 CCCTCTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 4 0.13
21 23 0.74
22 1 0.03
23 3 0.10
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTCTTTCTTTTTTCTTCTCC
Found at i:60186409 original size:21 final size:18
Alignment explanation
Indices: 60186352--60186413 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
60186342 ATTTCTCTTC
60186352 TTCTTTCTTCTCTCTTTT
1 TTCTTTCTTCTCTCTTTT
* *
60186370 TTCTTTTTTTTTCTCCTTTCT
1 TTC-TTTCTTCTCT-CTTT-T
* *
60186391 TTCTTTCTTCTCCCTCTT
1 TTCTTTCTTCTCTCTTTT
60186409 TTCTT
1 TTCTT
60186414 CTTTACTGCT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 9 0.26
19 11 0.31
20 11 0.31
21 4 0.11
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
TTCTTTCTTCTCTCTTTT
Found at i:60186415 original size:21 final size:20
Alignment explanation
Indices: 60186349--60186417 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 20
60186339 CATATTTCTC
*
60186349 TTCTTCTTTCTTCTCTCTTTT
1 TTCTTCTTTCTTCTC-CCTTT
* *
60186370 TTCTTTTTTTTTCT-CCTTT
1 TTCTTCTTTCTTCTCCCTTT
*
60186389 CT-TTCTTTCTTCTCCCTCTT
1 TTCTTCTTTCTTCTCCCT-TT
60186409 TTCTTCTTT
1 TTCTTCTTT
60186418 ACTGCTGCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
18 9 0.24
19 8 0.21
20 3 0.08
21 18 0.47
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TTCTTCTTTCTTCTCCCTTT
Found at i:60196311 original size:27 final size:26
Alignment explanation
Indices: 60196263--60196314 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
60196253 GCGAGGCTGC
*
60196263 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
60196289 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
60196315 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:60197075 original size:26 final size:27
Alignment explanation
Indices: 60196979--60197133 Score: 116
Period size: 27 Copynumber: 5.8 Consensus size: 27
60196969 TGCCCTACAG
* * **
60196979 GGGTATTTCGGTAATTTTATAAATTAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*** * ** * *
60197006 GGGTAAAATGGTAATTCTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* ***
60197033 GGGTACTTTGGTAATTTTACAAGTTAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
60197060 GGGT-TTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
*
60197086 GGGTATTTTGGTAA-TTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
60197112 GGGTATTTTAGTAATTCTACAA
1 GGGTATTTTGGTAATTTTACAA
60197134 CTTATCCACT
Statistics
Matches: 102, Mismatches: 24, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
26 46 0.45
27 56 0.55
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:60197096 original size:53 final size:54
Alignment explanation
Indices: 60196976--60197107 Score: 151
Period size: 54 Copynumber: 2.5 Consensus size: 54
60196966 TCTTGCCCTA
* * ** *
60196976 CAGGGGTATTTCGGTAATTTTATAAATTAAGGGTAAAATGGTAATTCTGTAAAT
1 CAGGGGTATTTTGGTAATTTTACAAATTAAGGGTAAAATGGTAATTCTACAAAC
* * *** *
60197030 CAGGGGTACTTTGGTAATTTTACAAGTTAAGGGT-TTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAATTAAGGGTAAAATGGTAATTCTACAAAC
60197083 CAGGGGTATTTTGGTAA-TTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
60197108 CCAGGGGTAT
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
52 7 0.11
53 28 0.43
54 30 0.46
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.38
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAATTAAGGGTAAAATGGTAATTCTACAAAC
Found at i:60197126 original size:53 final size:53
Alignment explanation
Indices: 60197016--60197133 Score: 130
Period size: 53 Copynumber: 2.2 Consensus size: 53
60197006 GGGTAAAATG
** * *** *
60197016 GTAATTCTGTAAATCAGGGGTACTTTGGTAATTTTACAAGTTAAGGGTTTTTG
1 GTAATTCTACAAACCAGGGGTACTTTGGTAATTTTACAAACCAAGGGTTTTTA
* * *
60197069 GTAATTTTACAAACCAGGGGTATTTTGGTAA-TTTACAAACCAGGGGTATTTTA
1 GTAATTCTACAAACCAGGGGTACTTTGGTAATTTTACAAACCAAGGGT-TTTTA
60197122 GTAATTCTACAA
1 GTAATTCTACAA
60197134 CTTATCCACT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
52 12 0.23
53 41 0.77
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (53 bp):
GTAATTCTACAAACCAGGGGTACTTTGGTAATTTTACAAACCAAGGGTTTTTA
Found at i:60201586 original size:37 final size:37
Alignment explanation
Indices: 60201527--60201672 Score: 193
Period size: 37 Copynumber: 3.9 Consensus size: 37
60201517 AGCTCAGACG
* *
60201527 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
60201564 AAATCTCCATACGTAGTCATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * * *
60201601 TACTCTCCACACATAGTCATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
** *
60201638 TGATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
60201673 ATATATTTCC
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 94 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:60201887 original size:47 final size:47
Alignment explanation
Indices: 60201835--60202112 Score: 461
Period size: 47 Copynumber: 6.0 Consensus size: 47
60201825 TTTCACACTA
* * * *
60201835 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
60201882 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCACATT-
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
60201928 GCCATTC-GCCTTATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
60201974 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
60202021 GCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
60202068 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
60202113 AAAATCCTAA
Statistics
Matches: 215, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 34 0.16
46 14 0.07
47 167 0.78
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:60201993 original size:22 final size:22
Alignment explanation
Indices: 60201965--60202088 Score: 65
Period size: 22 Copynumber: 5.4 Consensus size: 22
60201955 GTTCACATTC
60201965 ATCACATAGGCCATTCGGCCTT
1 ATCACATAGGCCATTCGGCCTT
* * *
60201987 ATCACATATATG-CATGTTC-ACATT
1 ATCAC--ATAGGCCA--TTCGGCCTT
*
60202011 CATCACATTGGCCATTCGGCCTT
1 -ATCACATAGGCCATTCGGCCTT
** * *
60202034 ATCACATATACGCATGTTC-ACATT
1 ATCACATAGGC-CA--TTCGGCCTT
*
60202058 CATCACATTGGCCATTCGGCCTT
1 -ATCACATAGGCCATTCGGCCTT
60202081 ATCACATA
1 ATCACATA
60202089 TATGCATGTT
Statistics
Matches: 72, Mismatches: 18, Indels: 24
0.63 0.16 0.21
Matches are distributed among these distances:
22 26 0.36
23 13 0.18
24 14 0.19
25 19 0.26
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATAGGCCATTCGGCCTT
Found at i:60202154 original size:139 final size:137
Alignment explanation
Indices: 60201861--60202156 Score: 354
Period size: 139 Copynumber: 2.1 Consensus size: 137
60201851 ACATATATGC
* *
60201861 ATGTTCATATTCAC--CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCA
1 ATGTTCATATTCACATCACATTGGCCATTCGGCCTTATCACACATACGCATGCTCACATTCATCA
* * *
60201924 CATTGCCATTCGCCTTATCACATATATGCATGTTCACATTCATCACATAGGCCATTCGGCCTTAT
66 CATTGCCATTCGCCTTATCACATATATGCATGTTCACATTCATCACATA-G-AAAT--GCCTAAT
* **
60201989 CACATATATGC
127 CACAAATATAA
* * *
60202000 ATGTTCACATT--CATCACATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
1 ATGTTCATATTCACATCACATTGGCCATTCGGCCTTATCACACATACGCATGCTCACATTCATCA
60202063 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATA-AAAT-CCTAAATC
66 CATT-GCCATTC-GCCTTATCACATATATGCATGTTCACATTCATCACATAGAAATGCCT-AATC
60202126 A-AAATATAA
128 ACAAATATAA
*
60202135 ATTTTCATGTATTCACATCACA
1 ATGTTCA--TATTCACATCACA
60202157 ATTATCCAAA
Statistics
Matches: 135, Mismatches: 13, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
135 14 0.10
136 4 0.03
137 4 0.03
138 2 0.01
139 66 0.49
140 7 0.05
141 38 0.28
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.33
Consensus pattern (137 bp):
ATGTTCATATTCACATCACATTGGCCATTCGGCCTTATCACACATACGCATGCTCACATTCATCA
CATTGCCATTCGCCTTATCACATATATGCATGTTCACATTCATCACATAGAAATGCCTAATCACA
AATATAA
Found at i:60207314 original size:27 final size:26
Alignment explanation
Indices: 60207266--60207317 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
60207256 GCGAGGCTGC
*
60207266 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
60207292 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
60207318 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:60208042 original size:27 final size:26
Alignment explanation
Indices: 60207972--60208044 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
60207962 TCCTACCCTA
* *
60207972 CAGGGGTATTTCGATAATTTTGTAAAT
1 CAGGGGTATTT-GGTAATTCTGTAAAT
* ** *
60207999 CAAGGGTAAAATAGTAATTCTGTAAAT
1 CAGGGGT-ATTTGGTAATTCTGTAAAT
60208026 CAGGGGTACTTTGGTAATT
1 CAGGGGTA-TTTGGTAATT
60208045 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
26 1 0.03
27 31 0.91
28 2 0.06
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
CAGGGGTATTTGGTAATTCTGTAAAT
Found at i:60208086 original size:27 final size:27
Alignment explanation
Indices: 60208027--60208104 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
60208017 TCTGTAAATC
* *
60208027 AGGGGTACTTTGGTAATTTTAC-AAGT
1 AGGGGTATTTTGGTAATTTTACAAACT
*
60208053 CGAGGGTATTTTGGTAATTTTACAAACT
1 AG-GGGTATTTTGGTAATTTTACAAACT
* *
60208081 AGGGGTATTTTAGTAATTCTACAA
1 AGGGGTATTTTGGTAATTTTACAA
60208105 CTTATCCACT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.02
27 39 0.89
28 4 0.09
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:60209943 original size:37 final size:37
Alignment explanation
Indices: 60209893--60209971 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
60209883 TTATTACGAA
* * *
60209893 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
60209930 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
60209967 GTCTT
1 GTCTT
60209972 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:60210249 original size:47 final size:47
Alignment explanation
Indices: 60210089--60210407 Score: 557
Period size: 47 Copynumber: 6.7 Consensus size: 47
60210079 ACCCTTCGGG
*
60210089 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
60210139 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
60210188 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
60210235 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
60210282 ACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
60210329 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
60210376 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
60210408 ATACTATCAT
Statistics
Matches: 264, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 177 0.67
49 83 0.31
50 4 0.02
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:60214466 original size:16 final size:16
Alignment explanation
Indices: 60214445--60214496 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
60214435 GACATCCCAA
*
60214445 TTTTCAACCTTTCGGC
1 TTTTCAACTTTTCGGC
* *
60214461 TTTTCAAATTTTCGAC
1 TTTTCAACTTTTCGGC
*
60214477 TTTTCAGCTTTTCGGC
1 TTTTCAACTTTTCGGC
60214493 TTTT
1 TTTT
60214497 ACTATTACAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.13, C:0.23, G:0.12, T:0.52
Consensus pattern (16 bp):
TTTTCAACTTTTCGGC
Found at i:60214481 original size:24 final size:24
Alignment explanation
Indices: 60214443--60214489 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
60214433 TCGACATCCC
*
60214443 AATTTTCAACCTTTCGGCTTTTCA
1 AATTTTCAACCTTTCAGCTTTTCA
* *
60214467 AATTTTCGACTTTTCAGCTTTTC
1 AATTTTCAACCTTTCAGCTTTTC
60214490 GGCTTTTACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.23, G:0.09, T:0.49
Consensus pattern (24 bp):
AATTTTCAACCTTTCAGCTTTTCA
Found at i:60234697 original size:40 final size:40
Alignment explanation
Indices: 60234612--60234752 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
60234602 CTTGGTCTCA
* * * *
60234612 AAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTTCG
1 AAGGGCTTTTGAGCCAGTG-TCATAATCGGACTTAGTTCCG
*
60234653 AAGGGCTTTAGAGCCAGTGTCATAATCGGACTTAGTTCCG
1 AAGGGCTTTTGAGCCAGTGTCATAATCGGACTTAGTTCCG
* * * *
60234693 AAGGGCCTTCGAGCCAGTGGTC-TAATCCGAGCTT-GGTCTCG
1 AAGGGCTTTTGAGCCAGT-GTCATAATCGGA-CTTAGTTC-CG
*
60234734 AATGGCTTTTGAGCCAGTG
1 AAGGGCTTTTGAGCCAGTG
60234753 CTAAGAATCA
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
40 44 0.52
41 41 0.48
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
AAGGGCTTTTGAGCCAGTGTCATAATCGGACTTAGTTCCG
Found at i:60234768 original size:41 final size:42
Alignment explanation
Indices: 60234594--60234761 Score: 166
Period size: 41 Copynumber: 4.1 Consensus size: 42
60234584 TCGGGATCTA
*
60234594 AATCCGAGCTTGGTCTCAAAGGGCTTTTGAGCCAGTGCTAAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAT
* * * * *
60234636 AA-CCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAT
* * * * * *
60234676 AATCGGA-CTTAGT-TCCGAAGGGCCTTCGAGCCAGTGGT-CT
1 AATCCGAGCTTGGTCT-CGAAGGGCTTTTGAGCCAGTGCTAAT
* *
60234716 AATCCGAGCTTGGTCTCGAATGGCTTTTGAGCCAGTGCTAAG
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAT
60234758 AATC
1 AATC
60234762 AGGCTTGATT
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
39 1 0.01
40 37 0.36
41 57 0.56
42 7 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (42 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAT
Found at i:60243581 original size:28 final size:28
Alignment explanation
Indices: 60243507--60243660 Score: 220
Period size: 28 Copynumber: 5.5 Consensus size: 28
60243497 CATGAGATTG
* * * *
60243507 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
60243536 GCACTAAGTGTACGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
60243564 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
60243592 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
60243620 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
60243647 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
60243661 GACTTAATAT
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 24 0.21
28 73 0.64
29 17 0.15
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:60246804 original size:41 final size:41
Alignment explanation
Indices: 60246633--60246792 Score: 168
Period size: 41 Copynumber: 3.9 Consensus size: 41
60246623 GGATCTAAAT
60246633 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * * * *
60246674 CCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * *
60246714 CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGAG-CTTGGTCT-CGAAGGGCTTTTGAGCCAGT-G-CTAATAA
*
60246755 CCGAGCTTGGTCTCGAATGGCTTTTGAGCCAGTGCTAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
60246793 GAATCGGGCT
Statistics
Matches: 99, Mismatches: 13, Indels: 16
0.77 0.10 0.12
Matches are distributed among these distances:
39 5 0.05
40 33 0.33
41 56 0.57
42 2 0.02
43 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (41 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
Found at i:60248831 original size:871 final size:872
Alignment explanation
Indices: 60247148--60248891 Score: 3445
Period size: 871 Copynumber: 2.0 Consensus size: 872
60247138 ATTCGGTTAT
60247148 GGATTGGATTTAGCTGGATAAATTGGTTTCACCTTTGTGATATTAATGATAAAAGTGATATCTCG
1 GGATTGGATTTAGCTGGATAAATTGGTTTCACCTTTGTGATATTAATGATAAAAGTGATATCTCG
60247213 GTTATGTTTCTATTCGGCCAAGGGATGAAACAAACAAACTTGATATTATTATGCCATTCTTTTAA
66 GTTATGTTTCTATTCGGCCAAGGGATGAAACAAACAAACTTGATATTATTATGCCATTCTTTTAA
60247278 ATGATTTCATTACTTAAAACTTACTGAGCATCAAAATGCTTATTATGTTGCTTTAATTCTCTGTT
131 ATGATTTCATTACTTAAAACTTACTGAGCATCAAAATGCTTATTATGTTGCTTTAATTCTCTGTT
60247343 TTATAGAATTTGTTCGTCAGCTATCGGACTTGGGAGTGTCAAAGTCGAAGTCATCCACACTATCT
196 TTATAGAATTTGTTCGTCAGCTATCGGACTTGGGAGTGTCAAAGTCGAAGTCATCCACACTATCT
60247408 AAGCCACTTTTTGGTACTCTTCAGTTGAACTTGATAATGGCATGTATAGGGCTGACCCTTGATGT
261 AAGCCACTTTTTGGTACTCTTCAGTTGAACTTGATAATGGCATGTATAGGGCTGACCCTTGATGT
60247473 TAATTAAGTATCTTTTGGTAATGTATATTCGTATAGCCATGCGAAAATGGCTTGTTTATTTTGAG
326 TAATTAAGTATCTTTTGGTAATGTATATTCGTATAGCCATGCGAAAATGGCTTGTTTATTTTGAG
*
60247538 TATAACATTATGGTCATTTTGTATATATGGTCTTATGATATGGTTATTAAGTGGTGTGGAAATGT
391 TATAACATTATGGTCATTTTATATATATGGTCTTATGATATGGTTATTAAGTGGTGTGGAAATGT
60247603 TTGGTAATGATTAGCCATTGGAATGGCCAATCATGGTCCTATTGGTGCTACGTACGTCATGGCTA
456 TTGGTAATGATTAGCCATTGGAATGGCCAATCATGGTCCTATTGGTGCTACGTACGTCATGGCTA
60247668 ATCGTGATTATACTTGAAAATAATGTATGTCAATTTACTAATTGATTCATGGAAAATTTGAAATA
521 ATCGTGATTATACTTGAAAATAATGTATGTCAATTTACTAATTGATTCATGGAAAATTTGAAATA
60247733 GGTAAAATTTACCTTAAAAGAGATGCTGACAGCAGCAGTGATGTGAATTTGAAAAATCACTAAAA
586 GGTAAAATTTACCTTAAAAGAGATGCTGACAGCAGCAGTGATGTGAATTTGAAAAATCACTAAAA
*
60247798 ATAGTAGGAATGGAATTAAATAGTGGATAAATTATATAATTGAAGCTTGATGAGTCTATTTTCAT
651 ATAGTAGGAATGGAATTAAATAGTGAATAAATTATATAATTGAAGCTTGATGAGTCTATTTTCAT
*
60247863 ATGAAAGAAACGAAATGACCATATGAGCCGTATTTTATGAGATGTTTAAGTTTTCATGAAACAGG
716 ATGAAAGAAACGAAATGAACATATGAGCCGTATTTTATGAGATGTTTAAGTTTTCATGAAACAGG
60247928 GCCAGAGCGTTTTCTGGATCCCCTATGTTCTGATTTTGAAAATTTACCATAAATTAACCAGAGAC
781 GCCAGAGCGTTTTCTGGATCCCCTATGTTCTGATTTTGAAAATTTACCATAAATTAACCAGAGAC
60247993 AATTAGAAGTCATGATTTATATGTACA
846 AATTAGAAGTCATGATTTATATGTACA
60248020 GGATTGGATTTAGCTGGATAAATTGGTTTCACCTTTGTGATATTAATGATAAAAGTGATATCTCG
1 GGATTGGATTTAGCTGGATAAATTGGTTTCACCTTTGTGATATTAATGATAAAAGTGATATCTCG
60248085 GTTATGTTTCTATTCGGCCAAGGGATGAAACAAACAAACTTGATATTATTATGCCATTCTTTTAA
66 GTTATGTTTCTATTCGGCCAAGGGATGAAACAAACAAACTTGATATTATTATGCCATTCTTTTAA
60248150 ATGATTTCATTACTTAAAACTTACTGAGCATCAAAATGCTTATTATGTTGCTTTAATTCTCTGTT
131 ATGATTTCATTACTTAAAACTTACTGAGCATCAAAATGCTTATTATGTTGCTTTAATTCTCTGTT
60248215 TTATAGAA-TTGTTCGTCAGCTATCGGACTTGGGAGTGTCAAAGTCGAAGTCATCCACACTATCT
196 TTATAGAATTTGTTCGTCAGCTATCGGACTTGGGAGTGTCAAAGTCGAAGTCATCCACACTATCT
60248279 AAGCCACTTTTTGGTACTCTTCAGTTGAACTTGATAATGGCATGTATAGGGCTGACCCTTGATGT
261 AAGCCACTTTTTGGTACTCTTCAGTTGAACTTGATAATGGCATGTATAGGGCTGACCCTTGATGT
60248344 TAATTAAGTATCTTTTGGTAATGTATATTCGTATAGCCATGCGAAAATGGCTTGTTTATTTTGAG
326 TAATTAAGTATCTTTTGGTAATGTATATTCGTATAGCCATGCGAAAATGGCTTGTTTATTTTGAG
60248409 TATAACATTATGGTCATTTTATATATATGGTCTTATGATATGGTTATTAAGTGGTGTGGAAATGT
391 TATAACATTATGGTCATTTTATATATATGGTCTTATGATATGGTTATTAAGTGGTGTGGAAATGT
60248474 TTGGTAATGATTAGCCATTGGAATGGCCAATCATGGTCCTATTGGTGCTACGTACGTCATGGCTA
456 TTGGTAATGATTAGCCATTGGAATGGCCAATCATGGTCCTATTGGTGCTACGTACGTCATGGCTA
60248539 ATCGTGATTATACTTGAAAATAATGTATGTCAATTTACTAATTGATTCATGGAAAATTTGAAATA
521 ATCGTGATTATACTTGAAAATAATGTATGTCAATTTACTAATTGATTCATGGAAAATTTGAAATA
60248604 GGTAAAATTTACCTTAAAAGAGATGCTGACAGCAGCAGTGATGTGAATTTGAAAAATCACTAAAA
586 GGTAAAATTTACCTTAAAAGAGATGCTGACAGCAGCAGTGATGTGAATTTGAAAAATCACTAAAA
*
60248669 ATAGTAGGAATGGAATTAAATAGTGAATAAATTATATAATTTAAGCTTGATGAGTCTATTTTCAT
651 ATAGTAGGAATGGAATTAAATAGTGAATAAATTATATAATTGAAGCTTGATGAGTCTATTTTCAT
60248734 ATGAAAGAAACGAAATGAACATATGAGCCGTATTTTATGAGATGTTTAAGTTTTCATGAAACAGG
716 ATGAAAGAAACGAAATGAACATATGAGCCGTATTTTATGAGATGTTTAAGTTTTCATGAAACAGG
60248799 GCCAGAGCGTTTTCTGGATCCCCTATGTTCTGATTTTGAAAATTTACCATAAATTAACCAGAGAC
781 GCCAGAGCGTTTTCTGGATCCCCTATGTTCTGATTTTGAAAATTTACCATAAATTAACCAGAGAC
60248864 AATTAGAAGTCATGATTTATATGTACA
846 AATTAGAAGTCATGATTTATATGTACA
60248891 G
1 G
60248892 ATTACTTTTT
Statistics
Matches: 868, Mismatches: 4, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
871 665 0.77
872 203 0.23
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (872 bp):
GGATTGGATTTAGCTGGATAAATTGGTTTCACCTTTGTGATATTAATGATAAAAGTGATATCTCG
GTTATGTTTCTATTCGGCCAAGGGATGAAACAAACAAACTTGATATTATTATGCCATTCTTTTAA
ATGATTTCATTACTTAAAACTTACTGAGCATCAAAATGCTTATTATGTTGCTTTAATTCTCTGTT
TTATAGAATTTGTTCGTCAGCTATCGGACTTGGGAGTGTCAAAGTCGAAGTCATCCACACTATCT
AAGCCACTTTTTGGTACTCTTCAGTTGAACTTGATAATGGCATGTATAGGGCTGACCCTTGATGT
TAATTAAGTATCTTTTGGTAATGTATATTCGTATAGCCATGCGAAAATGGCTTGTTTATTTTGAG
TATAACATTATGGTCATTTTATATATATGGTCTTATGATATGGTTATTAAGTGGTGTGGAAATGT
TTGGTAATGATTAGCCATTGGAATGGCCAATCATGGTCCTATTGGTGCTACGTACGTCATGGCTA
ATCGTGATTATACTTGAAAATAATGTATGTCAATTTACTAATTGATTCATGGAAAATTTGAAATA
GGTAAAATTTACCTTAAAAGAGATGCTGACAGCAGCAGTGATGTGAATTTGAAAAATCACTAAAA
ATAGTAGGAATGGAATTAAATAGTGAATAAATTATATAATTGAAGCTTGATGAGTCTATTTTCAT
ATGAAAGAAACGAAATGAACATATGAGCCGTATTTTATGAGATGTTTAAGTTTTCATGAAACAGG
GCCAGAGCGTTTTCTGGATCCCCTATGTTCTGATTTTGAAAATTTACCATAAATTAACCAGAGAC
AATTAGAAGTCATGATTTATATGTACA
Found at i:60252607 original size:13 final size:13
Alignment explanation
Indices: 60252589--60252616 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
60252579 GTGTTAGTAG
60252589 CAGAATTAAAGGC
1 CAGAATTAAAGGC
60252602 CAGAATTAAAGGC
1 CAGAATTAAAGGC
60252615 CA
1 CA
60252617 AACCATTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (13 bp):
CAGAATTAAAGGC
Found at i:60256093 original size:28 final size:28
Alignment explanation
Indices: 60256019--60256172 Score: 220
Period size: 28 Copynumber: 5.5 Consensus size: 28
60256009 CATGAGATTG
* * * *
60256019 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
60256048 ACACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
60256076 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
60256104 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
60256132 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
60256159 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
60256173 GACTTAATAT
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 24 0.21
28 73 0.64
29 17 0.15
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:60259314 original size:41 final size:41
Alignment explanation
Indices: 60259143--60259302 Score: 168
Period size: 41 Copynumber: 3.9 Consensus size: 41
60259133 GGATCTAAAT
60259143 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * * * *
60259184 CCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * *
60259224 CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGAG-CTTGGTCT-CGAAGGGCTTTTGAGCCAGT-G-CTAATAA
*
60259265 CCGAGCTTGGTCTCGAATGGCTTTTGAGCCAGTGCTAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
60259303 GAATCGGGCT
Statistics
Matches: 99, Mismatches: 13, Indels: 16
0.77 0.10 0.12
Matches are distributed among these distances:
39 5 0.05
40 33 0.33
41 56 0.57
42 2 0.02
43 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (41 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
Found at i:60263915 original size:55 final size:54
Alignment explanation
Indices: 60263774--60263973 Score: 179
Period size: 55 Copynumber: 3.7 Consensus size: 54
60263764 ATTAGGGTTT
* * * * **
60263774 AAAGATACCAAGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAAGATACCATGTAAGACCATGTCAAGGCATGGCAATGATAACTACTACAAGGC
* * * * *
60263828 AAGGAAATCATGTAAGACCATGTCAAGACATGGCAATGATAAACTACTATAAGGC
1 AAAGATACCATGTAAGACCATGTCAAGGCATGGCAATGAT-AACTACTACAAGGC
* * * * * *
60263883 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAAT-AGTGAGTTC-ATAAGGC
1 AAAGATACCATGTAAGACCATGTCAAGGCATGGCAATGA-TAACTACTACAAGGC
* * * *
60263936 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATG
1 AAAGATACCATGTAAGACCATGTCAAGGCATGGCAATG
60263974 GTAAGTTTAA
Statistics
Matches: 117, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
53 38 0.32
54 37 0.32
55 42 0.36
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.20
Consensus pattern (54 bp):
AAAGATACCATGTAAGACCATGTCAAGGCATGGCAATGATAACTACTACAAGGC
Found at i:60263965 original size:108 final size:109
Alignment explanation
Indices: 60263774--60263973 Score: 285
Period size: 108 Copynumber: 1.8 Consensus size: 109
60263764 ATTAGGGTTT
* * * * * *
60263774 AAAGATACCAAGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCAT
1 AAAGATACCAAGTAAGACCATGCCAAGGCATGGCAATAGTAAGTTTCACAAGGCAAGGAAACCAC
*
60263839 GTAAGACCATGTCAAGACATGGCAATGATAAACTACTATAAGGC
66 GTAAGACCATGTCAAGACATGGAAATGATAAACTACTATAAGGC
* * * * *
60263883 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATAGTGAG-TTCATAAGGCAAGGATACCAC
1 AAAGATACCAAGTAAGACCATGCCAAGGCATGGCAATAGTAAGTTTCACAAGGCAAGGAAACCAC
60263947 GTAAGACCATGTCAAGACATGGAAATG
66 GTAAGACCATGTCAAGACATGGAAATG
60263974 GTAAGTTTAA
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
108 42 0.53
109 37 0.47
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.20
Consensus pattern (109 bp):
AAAGATACCAAGTAAGACCATGCCAAGGCATGGCAATAGTAAGTTTCACAAGGCAAGGAAACCAC
GTAAGACCATGTCAAGACATGGAAATGATAAACTACTATAAGGC
Found at i:60276479 original size:16 final size:14
Alignment explanation
Indices: 60276455--60276491 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
60276445 AAAACAAGAA
60276455 AAAGAAATAGAGAAG
1 AAAGAAATAGA-AAG
60276470 AAACGAAATAGAAAG
1 AAA-GAAATAGAAAG
60276485 AAAGAAA
1 AAAGAAA
60276492 GAAGAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.19
15 9 0.43
16 8 0.38
ACGTcount: A:0.70, C:0.03, G:0.22, T:0.05
Consensus pattern (14 bp):
AAAGAAATAGAAAG
Found at i:60276486 original size:26 final size:25
Alignment explanation
Indices: 60276455--60276508 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
60276445 AAAACAAGAA
* * *
60276455 AAAGAAATAGAGAAGAAACGAAATAG
1 AAAGAAAGAAAGAAGAAAAGAAA-AG
60276481 AAAGAAAGAAAGAAGAAAAGAAAAG
1 AAAGAAAGAAAGAAGAAAAGAAAAG
60276506 AAA
1 AAA
60276509 AAAAATGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.04
Consensus pattern (25 bp):
AAAGAAAGAAAGAAGAAAAGAAAAG
Found at i:60276509 original size:53 final size:50
Alignment explanation
Indices: 60276417--60276519 Score: 120
Period size: 53 Copynumber: 2.0 Consensus size: 50
60276407 TTAAGTAAAT
* *
60276417 GAAAGAAATAAAATGAAATAAAAAATAAAAAACAAGAAAAAGAAATAGAGAA
1 GAAAGAAATAAAATGAAAGAAAAAAGAAAAAACAAGAAAAA-AAAT-GAGAA
*
60276469 GAAACGAAATAGAAA-GAAAGAAAGAAGAAAAGAA-AAGAAAAAAAATGAGAA
1 GAAA-GAAATA-AAATGAAAGAAAAAAGAAAA-AACAAGAAAAAAAATGAGAA
60276520 ATTAGGGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
51 5 0.11
52 8 0.18
53 27 0.60
54 5 0.11
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (50 bp):
GAAAGAAATAAAATGAAAGAAAAAAGAAAAAACAAGAAAAAAAATGAGAA
Found at i:60288389 original size:68 final size:64
Alignment explanation
Indices: 60288273--60288531 Score: 242
Period size: 68 Copynumber: 3.9 Consensus size: 64
60288263 TGGATGATAC
** * * *
60288273 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGCTAC
60288337 AAG
64 --G
* *
60288340 ACATTATGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCACATGGGTGGTACTGA-GTGTACACCATGTAGACAAGAGAGCTA
60288404 CG
63 CG
* * *
60288406 AGATATATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAG-G-ACACCATGTAGACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGG-T--A-CTG-AGTGTACACCATGTAGACAAGAGAGC
60288469 TACG
61 TACG
* * *
60288473 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGC
60288532 CGAACTATAT
Statistics
Matches: 161, Mismatches: 18, Indels: 30
0.77 0.09 0.14
Matches are distributed among these distances:
61 2 0.01
62 4 0.02
63 19 0.12
64 20 0.12
65 5 0.03
66 20 0.12
67 37 0.23
68 51 0.32
69 2 0.01
70 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:60293195 original size:79 final size:81
Alignment explanation
Indices: 60293059--60293243 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
60293049 TTGAATGATG
*
60293059 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
60293123 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
60293138 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
60293200 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
60293218 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60293244 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:60293257 original size:40 final size:40
Alignment explanation
Indices: 60293060--60293243 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
60293050 TGAATGATGT
* * * *
60293060 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
60293100 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
60293140 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
60293178 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
60293219 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
60293244 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:60293265 original size:79 final size:79
Alignment explanation
Indices: 60293112--60293276 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
60293102 GGACTAAGAT
* **
60293112 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
60293177 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
60293191 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
60293254 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
60293270 CCGAAGG
1 CCGAAGG
60293277 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:60451764 original size:29 final size:29
Alignment explanation
Indices: 60451731--60451791 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
60451721 GTTGTATACA
60451731 AAATTTAG-AAATTGTGAGTTCTGGTTGCG
1 AAATTTAGTAAA-TGTGAGTTCTGGTTGCG
60451760 AAATTTAGTAAATGTGAGTTCTGGTTGCG
1 AAATTTAGTAAATGTGAGTTCTGGTTGCG
60451789 AAA
1 AAA
60451792 AGTTGGTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 28 0.90
30 3 0.10
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (29 bp):
AAATTTAGTAAATGTGAGTTCTGGTTGCG
Found at i:60458819 original size:56 final size:54
Alignment explanation
Indices: 60458754--60458871 Score: 209
Period size: 56 Copynumber: 2.1 Consensus size: 54
60458744 ACAAGGGATG
60458754 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAAT--AATAAGAAGC
*
60458810 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAATAATAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAATAAGAAGC
60458864 ATGGGCAA
1 ATGGGCAA
60458872 TAAACTAATA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
54 18 0.30
56 43 0.70
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (54 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAATAAGAAGC
Found at i:60460216 original size:80 final size:80
Alignment explanation
Indices: 60459998--60460221 Score: 296
Period size: 78 Copynumber: 2.8 Consensus size: 80
60459988 TCGAATGATG
* * * * *
60459998 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
60460061 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
60460078 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
60460140 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
60460156 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
60460221 G
66 G
60460222 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
77 2 0.02
78 49 0.39
79 25 0.20
80 49 0.39
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:60460235 original size:40 final size:40
Alignment explanation
Indices: 60459998--60460221 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
60459988 TCGAATGATG
* * * *
60459998 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
60460038 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
60460078 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60460116 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60460156 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60460197 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60460222 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 25 0.15
39 19 0.12
40 111 0.67
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60466741 original size:54 final size:56
Alignment explanation
Indices: 60466654--60466771 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 56
60466644 ACAAGGGATG
60466654 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
60466710 ATGGGCAAAA-ATGTCATGAAA-ATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
60466764 ATGGGCAA
1 ATGGGCAA
60466772 TAAACTAATA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
54 40 0.66
55 11 0.18
56 10 0.16
ACGTcount: A:0.46, C:0.08, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:60467994 original size:38 final size:39
Alignment explanation
Indices: 60467859--60468075 Score: 236
Period size: 38 Copynumber: 5.7 Consensus size: 39
60467849 TCGAATGATG
* * *
60467859 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
60467899 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGAT-CTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
60467937 TTCCGGGCTAAG-CCC-AAGGCATTGGTGCGAGTTACTAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
60467975 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
60468013 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAG-TACT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
60468049 TAACGGGCTATGTCCCGAAGGCATTTG
1 T-CCGGGCTAAGTCCCGAAGGCATTTG
60468076 AACGAGTAGC
Statistics
Matches: 154, Mismatches: 13, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
36 10 0.06
37 32 0.21
38 62 0.40
39 22 0.14
40 20 0.13
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:60468082 original size:76 final size:75
Alignment explanation
Indices: 60467912--60468107 Score: 220
Period size: 76 Copynumber: 2.6 Consensus size: 75
60467902 GGACTAAGAT
* *
60467912 CCGAAGGCATTTGTGCGAG-ATCTAATTCCGGGCTAAG-CCCAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTA-CTAA-TCCGGGTTAAGTCCGAAGGCATTGGTGCGAGTTACTAA
* *
60467975 TCGGGTTAAGTC
64 ACGGGCTAAGTC
*
60467987 CCGAAGGCATTTGTGCGAGTTACTAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAG-TACTATA
1 CCGAAGGCATTTGTGCGAG-TACTAATCCGGGTTAAGTCCGAAGGCATTGGTGCGAGTTACTA-A
*
60468051 ACGGGCTATGTC
64 ACGGGCTAAGTC
** * *
60468063 CCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAAATTCGAAGG
1 CCGAAGGCATTTGTGCGAGTA-CTA-ATCCGGGTTAAGTCCGAAGG
60468108 TACGTGATTT
Statistics
Matches: 105, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
75 36 0.34
76 64 0.61
77 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (75 bp):
CCGAAGGCATTTGTGCGAGTACTAATCCGGGTTAAGTCCGAAGGCATTGGTGCGAGTTACTAAAC
GGGCTAAGTC
Found at i:60471941 original size:86 final size:85
Alignment explanation
Indices: 60471796--60472224 Score: 478
Period size: 86 Copynumber: 5.1 Consensus size: 85
60471786 TATTTAAAAA
* *** *** * * *
60471796 AATTAAAATTGAATAAAATATGTTTCAAAATTTATTCCCGTCATTTAACAAATTTTATTCCATTC
1 AATTAAAATTGAATAAAATTTGTTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCCATT-
*
60471861 TTTATTTTGTTTCCAAACGAG
65 TTTATTTTGTTTCCAAACAAG
* *
60471882 AATTAAAATTGAATAAAATTTGTTTCGAGATTTATTCCTACCATTCAACAGATTTTATTCCATTT
1 AATTAAAATTGAATAAAATTTGTTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCCA-TT
* *
60471947 TTTATTTTGTCTCCAAACGAG
65 TTTATTTTGTTTCCAAACAAG
* * *
60471968 ATTTAAAATTGAATAAAATTTGTTTAGGGATTTATTACCT-CCGTTCAACATATTTTATTCCATT
1 AATTAAAATTGAATAAAATTTGTTTCGGGATTTATT-CCTACCGTTCAACAGATTTTATTCCATT
*
60472032 TTAATTTTGTTTCCAAACAAG
65 TTTATTTTGTTTCCAAACAAG
* * *
60472053 AATTAAAATTGAAT--AATTCTGTTTCGGGATTTATTCCCACCGTTCAATAGATTTTATTCAATT
1 AATTAAAATTGAATAAAATT-TGTTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCCATT
*
60472116 TTTATTTTGTTTCCAAATAAG
65 TTTATTTTGTTTCCAAACAAG
* * * *
60472137 AATT--AATTGAAT--AATTCTATTTCGGGATTTATTCCTGCCGTGT-AACAGATTTTATTCGAG
1 AATTAAAATTGAATAAAATT-TGTTTCGGGATTTATTCCTACCGT-TCAACAGATTTTATTCCAT
* *
60472197 TTTGATTTAGTTTCCAAACAAG
64 TTTTATTTTGTTTCCAAACAAG
*
60472219 ATTTAA
1 AATTAA
60472225 TTAAATCGTT
Statistics
Matches: 301, Mismatches: 35, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
82 70 0.23
83 7 0.02
84 59 0.20
85 33 0.11
86 127 0.42
87 5 0.02
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.44
Consensus pattern (85 bp):
AATTAAAATTGAATAAAATTTGTTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCCATTT
TTATTTTGTTTCCAAACAAG
Found at i:60472229 original size:170 final size:168
Alignment explanation
Indices: 60471842--60472224 Score: 454
Period size: 166 Copynumber: 2.3 Consensus size: 168
60471832 CCCGTCATTT
* * * * *
60471842 AACAAATTTTATTCCATTCTTTATTTTGTTTCCAAACGAGAATTAAAATTGAATAAAATTTGTTT
1 AACAGATTTTATTCCAGT-TTAATTTAGTTTCCAAACAAGAATTAAAATTGAAT-AAATTTGTTT
* * * *
60471907 CGAGATTTATTCCTACCATTCAACAGATTTTATTCCATTTTTTATTTTGTCTCCAAACGAGATTT
64 CGAGATTTATTCCCACCATTCAACAGATTTTATTCCAATTTTTATTTTGTCTCCAAACAAGAATT
*
60471972 AAAATTGAATAAAATTTGTTTAGGGATTTATTACCTCCGTTC
129 -AAATTGAAT-AAATTTATTTAGGGATTTATTACCTCCGTTC
* * *
60472014 AACATATTTTATTCCATTTTAATTTTGTTTCCAAACAAGAATTAAAATTGAAT-AATTCTGTTTC
1 AACAGATTTTATTCCAGTTTAATTTAGTTTCCAAACAAGAATTAAAATTGAATAAATT-TGTTTC
* * * * *
60472078 GGGATTTATTCCCACCGTTCAATAGATTTTATT-CAATTTTTATTTTGTTTCCAAATAAGAATT-
65 GAGATTTATTCCCACCATTCAACAGATTTTATTCCAATTTTTATTTTGTCTCCAAACAAGAATTA
*
60472141 AATTGAAT-AATTCTATTTCGGGATTTATT-CCTGCCGTGT-
130 AATTGAATAAATT-TATTTAGGGATTTATTACCT-CCGT-TC
* * *
60472180 AACAGATTTTATTCGAGTTTGATTTAGTTTCCAAACAAGATTTAA
1 AACAGATTTTATTCCAGTTTAATTTAGTTTCCAAACAAGAATTAA
60472225 TTAAATCGTT
Statistics
Matches: 187, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
165 7 0.04
166 57 0.30
167 9 0.05
169 29 0.16
170 35 0.19
171 33 0.18
172 17 0.09
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (168 bp):
AACAGATTTTATTCCAGTTTAATTTAGTTTCCAAACAAGAATTAAAATTGAATAAATTTGTTTCG
AGATTTATTCCCACCATTCAACAGATTTTATTCCAATTTTTATTTTGTCTCCAAACAAGAATTAA
ATTGAATAAATTTATTTAGGGATTTATTACCTCCGTTC
Found at i:60475944 original size:27 final size:27
Alignment explanation
Indices: 60475906--60476011 Score: 142
Period size: 27 Copynumber: 3.9 Consensus size: 27
60475896 AGTGGATAAG
* *
60475906 TTGTAGAATTACTAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
60475933 TTGTAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
***
60475960 TTGTAAAATTACCAAAATA-CCCTCAAC
1 TTGTAAAATTACCAAAATACCCCT-GGT
*
60475987 TTGTAAAATTACCAAAGTACCCCTG
1 TTGTAAAATTACCAAAATACCCCTG
60476012 ATTTAAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 4 0.06
27 62 0.89
28 4 0.06
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGGT
Found at i:60476049 original size:54 final size:54
Alignment explanation
Indices: 60475937--60476064 Score: 125
Period size: 54 Copynumber: 2.4 Consensus size: 54
60475927 CCTGGTTTGT
* * **
60475937 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCAACTTGT
1 AAAATTACCAAAATACCCCTGATTTGAAAAATTACCAAAATACCCTCAACTTAA
* *** * *
60475991 AAAATTACCAAAGTACCCCTGATTT-AAAGAATTACCATTTTACCCTCGATTTAA
1 AAAATTACCAAAATACCCCTGATTTGAAA-AATTACCAAAATACCCTCAACTTAA
* *
60476045 AAAA-TATCAAAATATCCCTG
1 AAAATTACCAAAATACCCCTG
60476065 TAGGGTAGGA
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
53 15 0.25
54 45 0.75
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGATTTGAAAAATTACCAAAATACCCTCAACTTAA
Found at i:60476770 original size:27 final size:26
Alignment explanation
Indices: 60476726--60476777 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
60476716 CTCGCTGCAA
*
60476726 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
60476753 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
60476778 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:60476841 original size:31 final size:32
Alignment explanation
Indices: 60476793--60476853 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
60476783 CTCGCTGCAA
*
60476793 TCTGGTGGCTTCACCAC-ATATATATATCTAT
1 TCTGGTGGCCTCACCACAATATATATATCTAT
*
60476824 TCTGGTGGCCT-AGCCACAATATCTATATCT
1 TCTGGTGGCCTCA-CCACAATATATATATCT
60476854 GGTGACTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 1 0.04
31 14 0.54
32 11 0.42
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTCACCACAATATATATATCTAT
Found at i:60476868 original size:27 final size:26
Alignment explanation
Indices: 60476816--60476874 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
60476806 CCACATATAT
*
60476816 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTATTCTGGTGACCTAGCCACA
* * *
60476842 ATATCTATATCTGGTGACTTCGTCACA
1 ATATCTAT-TCTGGTGACCTAGCCACA
60476869 ATATCT
1 ATATCT
60476875 GGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (26 bp):
ATATCTATTCTGGTGACCTAGCCACA
Found at i:60483532 original size:27 final size:27
Alignment explanation
Indices: 60483489--60483593 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
60483479 AGTGGATAAG
* *
60483489 TTGTAGAATTACTAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
*
60483516 TTGTAAAACTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
**
60483543 TTGTAAAATTACCAAAATA-CCCTCGAC
1 TTGTAAAATTACCAAAATACCCCT-GGT
*
60483570 TTGTAAAATTACCAAAGTACCCCT
1 TTGTAAAATTACCAAAATACCCCT
60483594 AATTTACAGA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
26 4 0.06
27 61 0.88
28 4 0.06
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGGT
Found at i:60483607 original size:54 final size:53
Alignment explanation
Indices: 60483493--60483648 Score: 143
Period size: 54 Copynumber: 2.9 Consensus size: 53
60483483 GATAAGTTGT
* * * ** **
60483493 AGAATTACTAAAATACCC-CTGGTTTGTAAAACTACCAAAATACCCCTGGTTTGT
1 AGAATTACCAAAATACCCTC-GATTTGTAAAATTACC-AAATACCCCTAATTTAC
* *
60483547 AAAATTACCAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTAATTTAC
1 AGAATTACCAAAATACCCTCGATTTGTAAAATTACCAAA-TACCCCTAATTTAC
*** **
60483601 AGAATTACCATTTTACCCTCGATTTACAAAATTACCAACATACCCCTA
1 AGAATTACCAAAATACCCTCGATTTGTAAAATTACCAA-ATACCCCTA
60483649 TAGGGTAGGA
Statistics
Matches: 83, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
53 3 0.04
54 78 0.94
55 2 0.02
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.28
Consensus pattern (53 bp):
AGAATTACCAAAATACCCTCGATTTGTAAAATTACCAAATACCCCTAATTTAC
Found at i:60483644 original size:27 final size:26
Alignment explanation
Indices: 60483547--60483645 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 26
60483537 CCTGGTTTGT
* **
60483547 AAAATTACCAAAATACCCTCGACTTGT
1 AAAATTACC-AAATACCCTCGATTTAC
*
60483574 AAAATTACCAAAGTACCC-CTAATTTAC
1 AAAATTACCAAA-TACCCTC-GATTTAC
* **
60483601 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCA-AATACCCTCGATTTAC
60483628 AAAATTACCAACATACCC
1 AAAATTACCAA-ATACCC
60483646 CTATAGGGTA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
26 4 0.07
27 51 0.91
28 1 0.02
ACGTcount: A:0.40, C:0.27, G:0.05, T:0.27
Consensus pattern (26 bp):
AAAATTACCAAATACCCTCGATTTAC
Found at i:60484345 original size:27 final size:26
Alignment explanation
Indices: 60484301--60484352 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
60484291 CTTGCTGCAA
*
60484301 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
60484328 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
60484353 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:60484417 original size:33 final size:32
Alignment explanation
Indices: 60484370--60484431 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
60484360 CGCTACAATT
* *
60484370 TGGTGGCTTCGCCACATATATATATATCTGTTC
1 TGGTGGCCTAGCCACA-ATATATATATCTGTTC
* *
60484403 TGGTGGCCTAGCCACAATATCTGTATCTG
1 TGGTGGCCTAGCCACAATATATATATCTG
60484432 GTGACTTCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 11 0.44
33 14 0.56
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (32 bp):
TGGTGGCCTAGCCACAATATATATATCTGTTC
Found at i:60484445 original size:27 final size:26
Alignment explanation
Indices: 60484393--60484452 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
60484383 ACATATATAT
*
60484393 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
60484419 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
60484446 ATATCTG
1 ATATCTG
60484453 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:60500006 original size:40 final size:40
Alignment explanation
Indices: 60499901--60500117 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
60499891 CGGATGATAA
* *
60499901 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
60499941 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
60499980 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
60500020 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
60500060 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
60500100 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
60500118 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 51 0.31
40 115 0.69
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:60500115 original size:119 final size:119
Alignment explanation
Indices: 60499897--60500117 Score: 331
Period size: 119 Copynumber: 1.9 Consensus size: 119
60499887 TATTCGGATG
* *
60499897 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* * *
60499962 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
*
60500016 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
60500080 ATTTGAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGG
64 ATTTGAGCAAGTTA-CTATATCCGGGCTAAATCCCGAAGG
60500118 TACTTGGTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
118 2 0.02
119 64 0.70
120 26 0.28
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:60508004 original size:40 final size:39
Alignment explanation
Indices: 60507899--60508074 Score: 216
Period size: 39 Copynumber: 4.5 Consensus size: 39
60507889 TGGATGATAA
* *
60507899 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-T
60507939 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
*
60507978 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
60508018 CCGGGCT-AGTCCCGAAGGCATTTGAGCAAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
* *
60508057 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
60508075 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 8, Indels: 11
0.87 0.06 0.08
Matches are distributed among these distances:
38 6 0.05
39 71 0.58
40 46 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:60508032 original size:79 final size:79
Alignment explanation
Indices: 60507899--60508074 Score: 225
Period size: 79 Copynumber: 2.2 Consensus size: 79
60507889 TGGATGATAA
* * * *
60507899 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
*
60507964 GCGAGCTA-CTATAT
66 GCAAG-TAGCTATAT
*
60507978 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCT-AGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTT
60508041 GAGCAAGTAGCTATAT
64 GAGCAAGTAGCTATAT
* *
60508057 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
60508075 TACTTGGTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
78 20 0.23
79 66 0.77
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
GCAAGTAGCTATAT
Found at i:60515758 original size:53 final size:54
Alignment explanation
Indices: 60515677--60515876 Score: 226
Period size: 53 Copynumber: 3.7 Consensus size: 54
60515667 TTTCCTTTTT
* * * *
60515677 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATTCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATTCTTGCCTTATA
* * *
60515730 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATTC-TTGCCTTATA
* * * *
60515784 GTAACTCATCAATGCCATGTCTTGACATGGTCTCACATGAT-TTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATT-CTTGCCTTATA
* * *
60515839 GAACTTAACAATGCCATGCCTTGGCATGGTCTTACATG
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATG
60515877 ATACCCTTAT
Statistics
Matches: 123, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
53 44 0.36
54 33 0.27
55 44 0.36
56 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATTCTTGCCTTATA
Found at i:60515813 original size:55 final size:54
Alignment explanation
Indices: 60515688--60515881 Score: 214
Period size: 55 Copynumber: 3.6 Consensus size: 54
60515678 AACTTACCAT
* * * *
60515688 TGCCATGTCTTGACATGGTCTTACGTGGTA-TTCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACCT-TTGCCTTATAGAACTCAACAA
* * *
60515741 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACCTTTGCCTTATAG-AACTCAACAA
* * * * *
60515796 TGCCATGTCTTGACATGGTCTCACATGATTTCC-TTGCCTTATAGAACTTAACAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTTGCCTTATAGAACTCAACAA
* *
60515850 TGCCATGCCTTGGCATGGTCTTACATGATACC
1 TGCCATGCCTTGACATGGTCTTACATGGTACC
60515882 CTTATCTTAC
Statistics
Matches: 118, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
53 38 0.32
54 34 0.29
55 44 0.37
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTTGCCTTATAGAACTCAACAA
Found at i:60515918 original size:47 final size:47
Alignment explanation
Indices: 60515863--60515984 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
60515853 CATGCCTTGG
* * *
60515863 CATGGTCTTACATGATACCCTTATCTTACAAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
60515910 CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
*
60515957 TATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
60515985 GTGCCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
Found at i:60522479 original size:55 final size:53
Alignment explanation
Indices: 60522365--60522553 Score: 227
Period size: 55 Copynumber: 3.5 Consensus size: 53
60522355 AACTTACCAT
* * * *
60522365 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCCTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCAACAA
* * *
60522418 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCAACAA
* * * *
60522473 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTAACAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCAACAA
*
60522527 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
60522554 ATATCCTTAT
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 34 0.29
54 34 0.29
55 45 0.38
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCAACAA
Found at i:60522595 original size:47 final size:47
Alignment explanation
Indices: 60522540--60522661 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
60522530 CATGCCTTGG
* *
60522540 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGATCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGATCCAAA
* *
60522587 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGATCCAAA
60522634 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
60522662 GTGCCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGATCCAAA
Found at i:60530382 original size:78 final size:78
Alignment explanation
Indices: 60530253--60530409 Score: 305
Period size: 78 Copynumber: 2.0 Consensus size: 78
60530243 TTTTGGACTA
60530253 AAATGGTAATTTTGTCATTTCCGTATTCGAGGTAAGTTCGCGTGATTGAATAAGCATATTATTCA
1 AAATGGTAATTTTGTCATTTCCGTATTCGAGGTAAGTTCGCGTGATTGAATAAGCATATTATTCA
60530318 TGTTATTATTGTT
66 TGTTATTATTGTT
*
60530331 AAATGGTAATTTTGTCATTTTCGTATTCGAGGTAAGTTCGCGTGATTGAATAAGCATATTATTCA
1 AAATGGTAATTTTGTCATTTCCGTATTCGAGGTAAGTTCGCGTGATTGAATAAGCATATTATTCA
60530396 TGTTATTATTGTT
66 TGTTATTATTGTT
60530409 A
1 A
60530410 TACATGAAAT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (78 bp):
AAATGGTAATTTTGTCATTTCCGTATTCGAGGTAAGTTCGCGTGATTGAATAAGCATATTATTCA
TGTTATTATTGTT
Found at i:60530477 original size:17 final size:17
Alignment explanation
Indices: 60530438--60530480 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
60530428 CTATGATTGT
**
60530438 ATTGA-ATTTGATGTTA
1 ATTGACATTTGATGGAA
*
60530454 ATGGACATTTGATGGAA
1 ATTGACATTTGATGGAA
60530471 ATTGACATTT
1 ATTGACATTT
60530481 TAAATGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (17 bp):
ATTGACATTTGATGGAA
Found at i:60533696 original size:18 final size:18
Alignment explanation
Indices: 60533669--60533711 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
60533659 TAAATTTGCG
*
60533669 TGAGTGAACATATGTATT
1 TGAGTAAACATATGTATT
60533687 TGAGTAAACATATGTATT
1 TGAGTAAACATATGTATT
60533705 TGAGTAA
1 TGAGTAA
60533712 CTCACCAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (18 bp):
TGAGTAAACATATGTATT
Found at i:60536947 original size:17 final size:17
Alignment explanation
Indices: 60536908--60536950 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
60536898 CTATGATTGT
**
60536908 ATTGA-ATTTGATGTTA
1 ATTGACATTTGATGGAA
*
60536924 ATGGACATTTGATGGAA
1 ATTGACATTTGATGGAA
60536941 ATTGACATTT
1 ATTGACATTT
60536951 TAAATGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (17 bp):
ATTGACATTTGATGGAA
Found at i:60544358 original size:47 final size:47
Alignment explanation
Indices: 60544218--60544681 Score: 775
Period size: 47 Copynumber: 9.7 Consensus size: 47
60544208 TTAGGATTCT
60544218 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
60544267 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
60544316 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
60544363 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
60544410 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
60544457 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
60544506 ATGTGGTGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
60544553 ATGTGATGAATGTGAAAATGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
60544600 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
60544647 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
60544682 TCCCGAAGGG
Statistics
Matches: 397, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
47 283 0.71
49 114 0.29
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:60544400 original size:143 final size:141
Alignment explanation
Indices: 60544218--60544681 Score: 775
Period size: 143 Copynumber: 3.2 Consensus size: 141
60544208 TTAGGATTCT
60544218 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
60544283 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
64 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
60544348 AAGGCCTAATGGCCG
127 AAGGCCTAATGGCCG
60544363 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
60544428 TGTATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
60544493 GGCCTAATGGCCG
129 GGCCTAATGGCCG
* *
60544506 ATGTGGTGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
60544571 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* * *
60544636 CCGAGTGGCCA
131 CCTAATGGCCG
* * *
60544647 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
60544682 TCCCGAAGGG
Statistics
Matches: 304, Mismatches: 13, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
141 99 0.33
143 185 0.61
145 20 0.07
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (141 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCG
Found at i:60544460 original size:190 final size:190
Alignment explanation
Indices: 60544218--60544681 Score: 806
Period size: 190 Copynumber: 2.4 Consensus size: 190
60544208 TTAGGATTCT
60544218 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
60544283 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
64 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
*
60544348 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
129 AAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATGTGATAAGGCCTAATGGCCG
*
60544410 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
60544475 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATGTGATAA
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
60544540 GGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATGTGATAAGGCCTAATGGCCG
131 GGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATGTGATAAGGCCTAATGGCCG
* * * * * * *
60544600 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
60544665 TGTATA-A-ATGTGATAAG
66 TGTATATATATGTGATAAG
60544682 TCCCGAAGGG
Statistics
Matches: 261, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
188 10 0.04
189 1 0.00
190 230 0.88
192 20 0.08
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (190 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATGTGATAAGGCCTAATGGCCG
Found at i:60544850 original size:37 final size:37
Alignment explanation
Indices: 60544800--60544915 Score: 187
Period size: 37 Copynumber: 3.1 Consensus size: 37
60544790 CCGAGCTCTA
*
60544800 AAGACCCGATGACTACGTGTGGTGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
*
60544837 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
60544874 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
60544911 AAGAC
1 AAGAC
60544916 TTCGTAATAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:60548751 original size:45 final size:45
Alignment explanation
Indices: 60548686--60548774 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
60548676 TCTGATTCAA
*
60548686 TTCCTGACTTGTATTAAGTTCTCTTGGCTTGCAAATTACTATCAG
1 TTCCTGACTTGTATTAAGTTCTCTTGGCTTGCAAATCACTATCAG
* *
60548731 TTCCTGACTTGTATTGAGTTCTCTTGGCTTGTAAATCACTATCA
1 TTCCTGACTTGTATTAAGTTCTCTTGGCTTGCAAATCACTATCA
60548775 TTGACCTGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (45 bp):
TTCCTGACTTGTATTAAGTTCTCTTGGCTTGCAAATCACTATCAG
Found at i:60563612 original size:5 final size:5
Alignment explanation
Indices: 60563604--60563629 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
60563594 AAATCGAATC
60563604 AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA A
60563630 TTACAAACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:60563647 original size:20 final size:20
Alignment explanation
Indices: 60563624--60563661 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60563614 AATTAAATTA
60563624 AATTA-ATTACAAACAGATCC
1 AATTATATTA-AAACAGATCC
60563644 AATTATATTAAAACAGAT
1 AATTATATTAAAACAGAT
60563662 TGAGAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (20 bp):
AATTATATTAAAACAGATCC
Done.