Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 212 of 316
Found at i:69328265 original size:38 final size:38
Alignment explanation
Indices: 69328223--69328333 Score: 186
Period size: 38 Copynumber: 2.9 Consensus size: 38
69328213 GAAGGCCCGA
* * *
69328223 ATATAATACCAACACTAGGCCTGCGGGATTTAACCAGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCAGG
*
69328261 ATATAATACCAGCACGAAGCCTGCGGGATTTATCCAGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCAGG
69328299 ATATAATACCAGCACGAAGCCTGCGGGATTTAACC
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACC
69328334 CGATTACACA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 68 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCAGG
Found at i:69331816 original size:43 final size:43
Alignment explanation
Indices: 69331789--69331912 Score: 106
Period size: 43 Copynumber: 2.9 Consensus size: 43
69331779 TATCGTATAT
* * *
69331789 CGATGGCATTGTCCCAGACAGGGTCTTATATGAAATCGATTAA
1 CGATGCCAATGTCCCAGACAGGGTCTTACATGAAATCGATTAA
** * * * *
69331832 CGATGCCAATGTCCCAGACATTGTCCTACATGTAATCTCAAT-A
1 CGATGCCAATGTCCCAGACAGGGTCTTACATGAAATC-GATTAA
* * * * *
69331875 CAATACAAATGTCCCAGACATGGTCTTACATGTAATCG
1 CGATGCCAATGTCCCAGACAGGGTCTTACATGAAATCG
69331913 CATCTCTGTA
Statistics
Matches: 65, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
43 63 0.97
44 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACAGGGTCTTACATGAAATCGATTAA
Found at i:69333909 original size:9 final size:9
Alignment explanation
Indices: 69333848--69333910 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
69333838 ATTATTATAA
*
69333848 ATAAATATT
1 ATAAAAATT
69333857 ATAAAAATT
1 ATAAAAATT
*
69333866 -TGAAAATT
1 ATAAAAATT
*
69333874 ATAAAAGTT
1 ATAAAAATT
*
69333883 ATAGAAAAACT
1 AT--AAAAATT
69333894 ATAAAAATT
1 ATAAAAATT
*
69333903 ATTAAAAT
1 ATAAAAAT
69333911 AATTTCAATA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
8 7 0.16
9 29 0.67
11 7 0.16
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:69334109 original size:10 final size:10
Alignment explanation
Indices: 69334067--69334160 Score: 52
Period size: 10 Copynumber: 9.3 Consensus size: 10
69334057 TTTGAAAAAT
*
69334067 AAAAGTATTA
1 AAAATTATTA
*
69334077 AAATTTA-TA
1 AAAATTATTA
*
69334086 GAAAGTTATATA
1 -AAAATTAT-TA
69334098 AAAATTATT-
1 AAAATTATTA
* *
69334107 AAAATGATAA
1 AAAATTATTA
*
69334117 ATAAATTA-GA
1 A-AAATTATTA
69334127 AAAATT-TATA
1 AAAATTAT-TA
69334137 AAAATTATTA
1 AAAATTATTA
*
69334147 AAAAATATATA
1 AAAATTAT-TA
69334158 AAA
1 AAA
69334161 TTTAGTTATT
Statistics
Matches: 65, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
9 14 0.22
10 31 0.48
11 18 0.28
12 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (10 bp):
AAAATTATTA
Found at i:69334161 original size:30 final size:30
Alignment explanation
Indices: 69334092--69334164 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
69334082 TATAGAAAGT
* *
69334092 TATATAAAAATTATTAAAATGATAAATAAA
1 TATATAAAATTTATAAAAATGATAAATAAA
* *
69334122 T-TAGAAAAATTTATAAAAATTATTAAA-AAA
1 TATA-TAAAATTTATAAAAATGA-TAAATAAA
69334152 TATATAAAATTTA
1 TATATAAAATTTA
69334165 GTTATTTTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
29 2 0.06
30 27 0.77
31 6 0.17
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (30 bp):
TATATAAAATTTATAAAAATGATAAATAAA
Found at i:69334491 original size:16 final size:17
Alignment explanation
Indices: 69334456--69334503 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
69334446 TTATAAATTT
*
69334456 ATTATAAAAATTTTGAAA
1 ATTATAAAAA-TTAGAAA
69334474 ATTATAAAAA-TAGAAA
1 ATTATAAAAATTAGAAA
*
69334490 ATTTATAGAAATTA
1 A-TTATAAAAATTA
69334504 TTAAATGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 6 0.23
17 8 0.31
18 12 0.46
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
ATTATAAAAATTAGAAA
Found at i:69334566 original size:27 final size:27
Alignment explanation
Indices: 69334524--69334579 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
69334514 CTCCTTTTAA
69334524 AATTTTAATAAGTTTTATATAATTATTT
1 AATTTTAATAAGTTTTATATAATT-TTT
* *
69334552 AATTTTTAT-AGTTTTTTATAATTTTT
1 AATTTTAATAAGTTTTATATAATTTTT
69334578 AA
1 AA
69334580 AGATGGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 5 0.19
27 13 0.50
28 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (27 bp):
AATTTTAATAAGTTTTATATAATTTTT
Found at i:69337055 original size:17 final size:16
Alignment explanation
Indices: 69337026--69337069 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
69337016 TTGTGACCAA
*
69337026 TTTTTTTAGTTAAAAT
1 TTTTTTTAATTAAAAT
69337042 TTTTGTTTAATTAAAAT
1 TTTT-TTTAATTAAAAT
* *
69337059 ATTTATTAATT
1 TTTTTTTAATT
69337070 TGTAATTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (16 bp):
TTTTTTTAATTAAAAT
Found at i:69342323 original size:39 final size:39
Alignment explanation
Indices: 69342279--69342370 Score: 139
Period size: 39 Copynumber: 2.4 Consensus size: 39
69342269 ATTATATTAT
*
69342279 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAACCCGGATACATTTC
** *
69342318 CAGCACGAAGCCTGCGGGACTTTGGCTCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAACCCGGATACATTTC
*
69342357 CAGCATGAAGCCTG
1 CAGCACGAAGCCTG
69342371 GATACATTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAACCCGGATACATTTC
Found at i:69342378 original size:24 final size:24
Alignment explanation
Indices: 69342346--69342394 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
69342336 ACTTTGGCTC
*
69342346 GGATACATTTCCAGCATGAAGCCT
1 GGATACATTTCCAGCACGAAGCCT
69342370 GGATACATTTCCAGCACGAAGCCT
1 GGATACATTTCCAGCACGAAGCCT
69342394 G
1 G
69342395 CGGGACTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (24 bp):
GGATACATTTCCAGCACGAAGCCT
Found at i:69342412 original size:63 final size:63
Alignment explanation
Indices: 69342307--69342433 Score: 218
Period size: 63 Copynumber: 2.0 Consensus size: 63
69342297 ACTTTAACCC
* * **
69342307 GGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCTCGGATACATTTCCAGCATGAAGCCT
1 GGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCT
69342370 GGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCT
1 GGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCT
69342433 G
1 G
69342434 CGGGACTTTG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (63 bp):
GGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCT
Found at i:69342424 original size:39 final size:39
Alignment explanation
Indices: 69342365--69342539 Score: 296
Period size: 39 Copynumber: 4.5 Consensus size: 39
69342355 TCCAGCATGA
*
69342365 AGCCTGGATACATTTCCAGCACGAAGCCTGCGGGACTTT
1 AGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTT
*
69342404 AGCCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTT
1 AGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTT
* * *
69342443 GGCCCGGATATATTTCCAGCACGAAGCCTACGGGACTTT
1 AGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTT
*
69342482 AGCCCAGATACATTTCCAGCACGAAGCCTGCGGGACTTT
1 AGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTT
69342521 AGCCCGGATACATTTCCAG
1 AGCCCGGATACATTTCCAG
69342540 TGTCTTGCAT
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 125 1.00
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
AGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTT
Found at i:69342458 original size:102 final size:102
Alignment explanation
Indices: 69342279--69342471 Score: 332
Period size: 102 Copynumber: 1.9 Consensus size: 102
69342269 ATTATATTAT
*
69342279 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTGGC
* *
69342344 TCGGATACATTTCCAGCATGAAGCCTGGATACATTTC
66 CCGGATACATTTCCAGCACGAAGCCTGGATACATTTC
* *
69342381 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTGGC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTGGC
*
69342446 CCGGATATATTTCCAGCACGAAGCCT
66 CCGGATACATTTCCAGCACGAAGCCT
69342472 ACGGGACTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 85 1.00
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (102 bp):
CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACAAAGCCTGCGGGACTTTGGC
CCGGATACATTTCCAGCACGAAGCCTGGATACATTTC
Found at i:69347688 original size:10 final size:10
Alignment explanation
Indices: 69347644--69347710 Score: 73
Period size: 10 Copynumber: 6.6 Consensus size: 10
69347634 TATAATGGGT
69347644 ATATCATGTGC
1 ATATCATGT-C
* **
69347655 ATCTCATAAC
1 ATATCATGTC
*
69347665 ATGTCATGTGC
1 ATATCATGT-C
69347676 ATATCATGTC
1 ATATCATGTC
69347686 ATATCATGTC
1 ATATCATGTC
69347696 ATATCATGT-
1 ATATCATGTC
69347705 ATATCA
1 ATATCA
69347711 AAATCTCATG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
9 6 0.12
10 27 0.56
11 15 0.31
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (10 bp):
ATATCATGTC
Found at i:69347692 original size:21 final size:21
Alignment explanation
Indices: 69347644--69347710 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
69347634 TATAATGGGT
* **
69347644 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATGTC
*
69347665 ATGTCATGTGCATATCATGTC
1 ATATCATGTGCATATCATGTC
69347686 ATATCATGT-CATATCATGT-
1 ATATCATGTGCATATCATGTC
69347705 ATATCA
1 ATATCA
69347711 AAATCTCATG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
19 6 0.15
20 10 0.24
21 25 0.61
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATGTC
Found at i:69349574 original size:18 final size:20
Alignment explanation
Indices: 69349551--69349587 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
69349541 CACAACCAAA
69349551 TACCAAATT-T-AAAAATTT
1 TACCAAATTCTCAAAAATTT
69349569 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
69349588 ACGAAAATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:69355563 original size:24 final size:24
Alignment explanation
Indices: 69355536--69355589 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 24
69355526 GCCTAGCCTC
69355536 TTTTAATAACTGGGGCAAAGCCCT
1 TTTTAATAACTGGGGCAAAGCCCT
*
69355560 TTTTGATTAACTGGGGCAAAGCCCT
1 TTTT-AATAACTGGGGCAAAGCCCT
69355585 TTTTA
1 TTTTA
69355590 CACTTCCTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (24 bp):
TTTTAATAACTGGGGCAAAGCCCT
Found at i:69355679 original size:21 final size:21
Alignment explanation
Indices: 69355635--69355695 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
69355625 TATAATGAGT
* **
69355635 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATGTC
*
69355656 ATATCAAGTGCATATCATGTC
1 ATATCATGTGCATATCATGTC
*
69355677 ATAACATGT-CATATCATGT
1 ATATCATGTGCATATCATGT
69355696 ATACCAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 10 0.29
21 24 0.71
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (21 bp):
ATATCATGTGCATATCATGTC
Found at i:69355684 original size:10 final size:10
Alignment explanation
Indices: 69355635--69355695 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
69355625 TATAATGAGT
69355635 ATATCATGTGC
1 ATATCATGT-C
* **
69355646 ATCTCATAAC
1 ATATCATGTC
*
69355656 ATATCAAGTGC
1 ATATCATGT-C
69355667 ATATCATGTC
1 ATATCATGTC
*
69355677 ATAACATGTC
1 ATATCATGTC
69355687 ATATCATGT
1 ATATCATGT
69355696 ATACCAAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
10 24 0.62
11 15 0.38
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (10 bp):
ATATCATGTC
Found at i:69364876 original size:27 final size:26
Alignment explanation
Indices: 69364807--69364921 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
69364797 AGCACGGCTC
* *
69364807 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
69364833 CCAGATATAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
69364860 CCAGAACAAATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
*
69364887 TCAGAAACAGATATTTGTGGCATG-GCCA
1 CCAG-AACAGATA-TTGTGGCA-GAGCCA
69364915 CCAGAAC
1 CCAGAAC
69364922 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
26 10 0.13
27 42 0.56
28 23 0.31
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:69365387 original size:8 final size:8
Alignment explanation
Indices: 69365339--69365384 Score: 74
Period size: 8 Copynumber: 5.8 Consensus size: 8
69365329 ATTTTGGCTC
69365339 TTCGGCAT
1 TTCGGCAT
69365347 TTCGGCAT
1 TTCGGCAT
69365355 TTCGGCAT
1 TTCGGCAT
69365363 TTCGGCAT
1 TTCGGCAT
* *
69365371 TTCGACTT
1 TTCGGCAT
69365379 TTCGGC
1 TTCGGC
69365385 TTTAGCCGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.11, C:0.26, G:0.24, T:0.39
Consensus pattern (8 bp):
TTCGGCAT
Found at i:69372693 original size:28 final size:28
Alignment explanation
Indices: 69372624--69372706 Score: 109
Period size: 28 Copynumber: 3.1 Consensus size: 28
69372614 GTCACTAGAT
*
69372624 ACAGATA-TTGTGGCAAAGCCACCAG-A
1 ACAGATATTTGTGGCATAGCCACCAGAA
*
69372650 ATAGATATTTGTGGCATAGCCACCAGAA
1 ACAGATATTTGTGGCATAGCCACCAGAA
* *
69372678 ACAGATATTTGAGGCATGGCCACCA-AA
1 ACAGATATTTGTGGCATAGCCACCAGAA
69372705 AC
1 AC
69372707 GCTTCCTTCA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.12
27 21 0.42
28 23 0.46
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (28 bp):
ACAGATATTTGTGGCATAGCCACCAGAA
Found at i:69382470 original size:40 final size:39
Alignment explanation
Indices: 69382214--69382470 Score: 247
Period size: 40 Copynumber: 6.5 Consensus size: 39
69382204 GAATCACGTA
* * * * **
69382214 CCTTCGGAATTTAACCGGATATAGCAACTCGTTCAAATG
1 CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
* *
69382253 CCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
* * * *
69382293 CCTTCGGGACTTAACCCGAATTTAGTAACTCGCACCAATG
1 CCTTCGGGACTT-AGCCGGATATAGTAACTCGCACAAATG
69382333 CCTTCGGG-CTTAGCTCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGC-CGGATA-TAGTAACTCGCACAAATG
*
69382372 CCTTC-GAACTTAGCTCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGC-CGGATA-TAGTAACTCGCACAAATG
* *
69382411 CCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAG-CCGGATATAGTAAC-TCGCACAAATG
69382451 CCTTCGGGACTTAGTCCGGA
1 CCTTCGGGACTTAG-CCGGA
69382471 CATCATTCGA
Statistics
Matches: 186, Mismatches: 22, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
38 3 0.02
39 76 0.41
40 93 0.50
41 14 0.08
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:69400808 original size:12 final size:13
Alignment explanation
Indices: 69400782--69400810 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
69400772 ACGTTTGCTC
69400782 TTTTTCTTTTATT
1 TTTTTCTTTTATT
69400795 TTTTTCTTTT-TT
1 TTTTTCTTTTATT
69400807 TTTT
1 TTTT
69400811 CAAGTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTCTTTTATT
Found at i:69403209 original size:17 final size:17
Alignment explanation
Indices: 69403187--69403221 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
69403177 TCTAAGAAGT
*
69403187 ACTTTTGAGGTAAAAAC
1 ACTTTTGAGATAAAAAC
69403204 ACTTTTGAGATAAAAAC
1 ACTTTTGAGATAAAAAC
69403221 A
1 A
69403222 TTGCTAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (17 bp):
ACTTTTGAGATAAAAAC
Found at i:69413072 original size:30 final size:30
Alignment explanation
Indices: 69413036--69413092 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
69413026 CATAATTGGG
*
69413036 CAAAATGACTATTTTGCCCCTAGACTTTCA
1 CAAAATGACTATTTTACCCCTAGACTTTCA
*
69413066 CAAAATGACTATTTTACCCCTATACTT
1 CAAAATGACTATTTTACCCCTAGACTT
69413093 GAAAATCGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (30 bp):
CAAAATGACTATTTTACCCCTAGACTTTCA
Found at i:69415203 original size:29 final size:29
Alignment explanation
Indices: 69415128--69415234 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
69415118 GCTTTCACTT
* * **
69415128 CAGAGTATTGCCACAAAAGCATTCAATTAA
1 CAGAG-ATAGCCACAAAGGCATTCCTTTAA
* * * * *
69415158 CATAGGTAGACATAAAGGCATTCCTTTAG
1 CAGAGATAGCCACAAAGGCATTCCTTTAA
69415187 CAGAGATAGCCACAAAGGCATTCCTTTAA
1 CAGAGATAGCCACAAAGGCATTCCTTTAA
*
69415216 CAGAGATAGCCTCAAAGGC
1 CAGAGATAGCCACAAAGGC
69415235 TATAACAACC
Statistics
Matches: 62, Mismatches: 15, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
29 58 0.94
30 4 0.06
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (29 bp):
CAGAGATAGCCACAAAGGCATTCCTTTAA
Found at i:69419287 original size:48 final size:48
Alignment explanation
Indices: 69419250--69419370 Score: 136
Period size: 48 Copynumber: 2.5 Consensus size: 48
69419240 ACATAAATCT
**
69419250 ACATATCATCACCGATGCCATGT-CTTAGACATAGTCTTACAGTGGCAC
1 ACATATCATCACCGATGCCATGTAC-TAGACATAGTCTTACAGTGAAAC
* * ** **
69419298 ACATATCATCGCCGATGCCATGTACTAGACATGGTCTTACACAGGCAC
1 ACATATCATCACCGATGCCATGTACTAGACATAGTCTTACAGTGAAAC
*
69419346 ATATATTCATCACCGATGCCATGTA
1 ACATA-TCATCACCGATGCCATGTA
69419371 ACATCCTGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
48 46 0.71
49 19 0.29
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (48 bp):
ACATATCATCACCGATGCCATGTACTAGACATAGTCTTACAGTGAAAC
Found at i:69420646 original size:42 final size:43
Alignment explanation
Indices: 69420564--69420667 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 43
69420554 AGGTTATTAA
* * *
69420564 GATTCCGTATAAGACCATATACGGGATATGACCTCGGTATG-T
1 GATTTCGTATAAGACCATATACGGGACATGACCTCAGTATGAT
* * *
69420606 GATTTCGTATAAGACCATGT-CAGGGACATGGCGTCAGTATGAT
1 GATTTCGTATAAGACCATATAC-GGGACATGACCTCAGTATGAT
* *
69420649 -ATTTCATGTAAGACCATAT
1 GATTTCGTATAAGACCATAT
69420668 CTGGGATTTG
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.02
42 49 0.96
43 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (43 bp):
GATTTCGTATAAGACCATATACGGGACATGACCTCAGTATGAT
Found at i:69422086 original size:40 final size:40
Alignment explanation
Indices: 69422042--69422161 Score: 96
Period size: 40 Copynumber: 3.1 Consensus size: 40
69422032 TATATATTAT
69422042 ATGTGTTTTGGTAAGTTTGGACTTGAATAAGAGAAATGTC
1 ATGTGTTTTGGTAAGTTTGGACTTGAATAAGAGAAATGTC
** * * *
69422082 ATGTG-CAT-GCATGTGTT-G--TTG--TGAG-GATACCATG-C
1 ATGTGTTTTGGTAAGT-TTGGACTTGAATAAGAGA-A--ATGTC
69422117 ATGTGTTTTGGTAAGTTTGGACTTGAATAAGAGAAATGTC
1 ATGTGTTTTGGTAAGTTTGGACTTGAATAAGAGAAATGTC
69422157 ATGTG
1 ATGTG
69422162 CATGCAAATG
Statistics
Matches: 57, Mismatches: 10, Indels: 26
0.61 0.11 0.28
Matches are distributed among these distances:
33 2 0.04
34 4 0.07
35 6 0.11
36 9 0.16
37 5 0.09
38 5 0.09
39 9 0.16
40 11 0.19
41 4 0.07
42 2 0.04
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (40 bp):
ATGTGTTTTGGTAAGTTTGGACTTGAATAAGAGAAATGTC
Found at i:69422806 original size:48 final size:48
Alignment explanation
Indices: 69422735--69422914 Score: 225
Period size: 48 Copynumber: 3.8 Consensus size: 48
69422725 GGGGTGTTAC
* * * *
69422735 ATGCCACGTCCCAGACATGGTATTACACAGGCACATATATCATTGTTG
1 ATGCCATGTCCCAGACATGGTATTACACAGACACATATATCATCGTCG
* * * * **
69422783 ATGCCATGTCCCAAACATGGTATTGCATAGACACATTTATCATCACCG
1 ATGCCATGTCCCAGACATGGTATTACACAGACACATATATCATCGTCG
* * *
69422831 ATGCCATGTCCCAGATATGGTCTTACACAGGCACATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTATTACACAGACACATATATCATCGTCG
* *
69422879 ATGCCATGTCCCAGACATGGTCTTACATAGACACAT
1 ATGCCATGTCCCAGACATGGTATTACACAGACACAT
69422915 TTAGCATGGT
Statistics
Matches: 110, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 110 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTATTACACAGACACATATATCATCGTCG
Found at i:69422899 original size:96 final size:96
Alignment explanation
Indices: 69422735--69422917 Score: 294
Period size: 96 Copynumber: 1.9 Consensus size: 96
69422725 GGGGTGTTAC
* *
69422735 ATGCCACGTCCCAGACATGGTATTACACAGGCACATATATCATTGTTGATGCCATGTCCCAAACA
1 ATGCCACGTCCCAGACATGGTATTACACAGGCACATATATCATCGTCGATGCCATGTCCCAAACA
*
69422800 TGGTATTGCATAGACACATTTATCATCACCG
66 TGGTATTACATAGACACATTTATCATCACCG
* * * *
69422831 ATGCCATGTCCCAGATATGGTCTTACACAGGCACATATATCATCGTCGATGCCATGTCCCAGACA
1 ATGCCACGTCCCAGACATGGTATTACACAGGCACATATATCATCGTCGATGCCATGTCCCAAACA
*
69422896 TGGTCTTACATAGACACATTTA
66 TGGTATTACATAGACACATTTA
69422918 GCATGGTGTC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 79 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (96 bp):
ATGCCACGTCCCAGACATGGTATTACACAGGCACATATATCATCGTCGATGCCATGTCCCAAACA
TGGTATTACATAGACACATTTATCATCACCG
Found at i:69428723 original size:30 final size:30
Alignment explanation
Indices: 69428687--69428750 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
69428677 TTTTTGTAAT
*
69428687 AATCTCGCCATCAGAGTAGCAATCATGGAG
1 AATCTCGCCATCAGAGTAGCAATCACGGAG
*
69428717 AATCTCGTCATCAGAGTAGCAATCACGGAG
1 AATCTCGCCATCAGAGTAGCAATCACGGAG
69428747 AATC
1 AATC
69428751 CTTTCACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (30 bp):
AATCTCGCCATCAGAGTAGCAATCACGGAG
Found at i:69437658 original size:29 final size:29
Alignment explanation
Indices: 69437626--69437761 Score: 143
Period size: 29 Copynumber: 4.8 Consensus size: 29
69437616 TTGGGATGTT
*
69437626 ACAAAGACGTCCCTTTAATAGAGATAGCC
1 ACAAAGGCGTCCCTTTAATAGAGATAGCC
* *
69437655 ACAAAGGCGTCCC-TTAATACAAATAGCC
1 ACAAAGGCGTCCCTTTAATAGAGATAGCC
* * *
69437683 ACAAAGGCATTCCTTTAACAGAGATAGCC
1 ACAAAGGCGTCCCTTTAATAGAGATAGCC
* *
69437712 ACAAAGGTC-TCCATTTAATAGAGATAACC
1 ACAAAGG-CGTCCCTTTAATAGAGATAGCC
* * *
69437741 CCAAAGGC-TCACTTTTATAGA
1 ACAAAGGCGTCCCTTTAATAGA
69437762 AATTATTATT
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
28 35 0.39
29 53 0.60
30 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.22
Consensus pattern (29 bp):
ACAAAGGCGTCCCTTTAATAGAGATAGCC
Found at i:69437680 original size:28 final size:28
Alignment explanation
Indices: 69437626--69437718 Score: 98
Period size: 28 Copynumber: 3.2 Consensus size: 28
69437616 TTGGGATGTT
* * *
69437626 ACAAAGACGTCCCTTTAATAGAGATAGCC
1 ACAAAGGCGTCCC-TTAATACAAATAGCC
69437655 ACAAAGGCGTCCCTTAATACAAATAGCC
1 ACAAAGGCGTCCCTTAATACAAATAGCC
* * *
69437683 ACAAAGGCATTCCTTTA-ACAGAGATAGCC
1 ACAAAGGCGTCCCTTAATACA-A-ATAGCC
69437712 ACAAAGG
1 ACAAAGG
69437719 TCTCCATTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
27 3 0.05
28 28 0.50
29 25 0.45
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (28 bp):
ACAAAGGCGTCCCTTAATACAAATAGCC
Found at i:69444717 original size:38 final size:38
Alignment explanation
Indices: 69444675--69444769 Score: 172
Period size: 38 Copynumber: 2.5 Consensus size: 38
69444665 CTCAGCGTAT
69444675 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAC
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAC
69444713 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAC
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAC
* *
69444751 ACTGGGTCGGAGCCTTTTC
1 ACTGGGCCGAAGCCTTTTC
69444770 TGTAAACGGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAC
Found at i:69445072 original size:26 final size:25
Alignment explanation
Indices: 69444976--69445073 Score: 128
Period size: 25 Copynumber: 3.9 Consensus size: 25
69444966 CTGGAGGCCT
*
69444976 AGCCTCTTTTAAT-AACTGGGG-AAA
1 AGCC-CTTTTGATAAACTGGGGCAAA
69445000 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
69445025 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
69445050 AGCCCGTTTCGGTAAACTGGGGCA
1 AGCCC-TTTTGATAAACTGGGGCA
69445074 TAGCTCTTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
23 7 0.11
24 12 0.18
25 32 0.48
26 15 0.23
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:69445178 original size:20 final size:20
Alignment explanation
Indices: 69445131--69445196 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
69445121 TTATGAATAC
69445131 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
69445151 AT-ATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
69445170 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
69445190 ATCATGT
1 ATCATGT
69445197 ATATCAAAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.43
20 23 0.52
21 2 0.05
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:69445183 original size:11 final size:11
Alignment explanation
Indices: 69445131--69445185 Score: 57
Period size: 9 Copynumber: 5.5 Consensus size: 11
69445121 TTATGAATAC
69445131 ATCATGTGCAT
1 ATCATGTGCAT
*
69445142 ATCA--TACAT
1 ATCATGTGCAT
69445151 AT-ATGTGCAT
1 ATCATGTGCAT
*
69445161 ATCA--TACAT
1 ATCATGTGCAT
69445170 ATCATGTGCAT
1 ATCATGTGCAT
69445181 ATCAT
1 ATCAT
69445186 ATCAATCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
8 1 0.03
9 14 0.40
10 6 0.17
11 14 0.40
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:69446706 original size:27 final size:27
Alignment explanation
Indices: 69446676--69446926 Score: 283
Period size: 27 Copynumber: 9.3 Consensus size: 27
69446666 TACTGAAATG
*
69446676 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
69446703 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
69446730 CCCTCAATTTACAAAATTA-CAGTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
69446756 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*** *
69446783 CCCTCGATTTATAGAATTATTGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
69446810 CCCTCGATTTACAAAATTA-CAGTTTTA
1 CCCTCGATTTATAGAATTACCA-TTTTA
*
69446837 CCCTCGATTTATAGAATTATCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
69446864 CCCTCGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
69446891 CCATC-AGTTTAAAAAATTACCATTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
69446918 CCCTCGATT
1 CCCTCGATT
69446927 GTGAAATTAC
Statistics
Matches: 187, Mismatches: 32, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.11
27 163 0.87
28 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:69446771 original size:80 final size:80
Alignment explanation
Indices: 69446676--69446926 Score: 385
Period size: 81 Copynumber: 3.1 Consensus size: 80
69446666 TACTGAAATG
* *
69446676 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCAATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCCTCAATTTA
69446741 CAAAATTACAGTTTA
66 CAAAATTACAGTTTA
* *
69446756 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATTGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCCTCAATTTA
69446821 CAAAATTACAGTTTTA
66 CAAAATTACAG-TTTA
* * * * *
69446837 CCCTCGATTTATAGAATTATCATTTTACCCTCGATTTACAGAATTATCGTTTTACCATCAGTTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCCTCAATTTA
* *
69446902 AAAAATTACCATTTTA
66 CAAAATTA-CAGTTTA
69446918 CCCTCGATT
1 CCCTCGATT
69446927 GTGAAATTAC
Statistics
Matches: 156, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
80 72 0.46
81 82 0.53
82 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.39
Consensus pattern (80 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCCTCAATTTA
CAAAATTACAGTTTA
Found at i:69446988 original size:27 final size:27
Alignment explanation
Indices: 69446958--69447108 Score: 191
Period size: 27 Copynumber: 5.6 Consensus size: 27
69446948 TGTAGGATAG
69446958 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
69446985 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
69447012 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
69447039 AATTATCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
69447066 AATTACCAAAATACCCC-AGATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
69447093 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
69447109 TTGACTTTCT
Statistics
Matches: 108, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
26 6 0.06
27 99 0.92
28 3 0.03
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:69446998 original size:54 final size:54
Alignment explanation
Indices: 69446925--69447080 Score: 181
Period size: 54 Copynumber: 2.9 Consensus size: 54
69446915 TTACCCTCGA
* * *
69446925 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* * **
69446979 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* * **
69447033 TTGTGAAATTATCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCGAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
69447081 CCAGATTTAC
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
53 4 0.04
54 82 0.92
55 3 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:69447159 original size:27 final size:27
Alignment explanation
Indices: 69447086--69447171 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
69447076 ATACCCCAGA
* *
69447086 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
*
69447114 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCCTTGG
69447142 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
69447169 TTT
1 TTT
69447172 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 23 0.47
28 7 0.14
29 19 0.39
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:69447419 original size:25 final size:26
Alignment explanation
Indices: 69447348--69447444 Score: 162
Period size: 25 Copynumber: 3.8 Consensus size: 26
69447338 GAGGAAGTGC
**
69447348 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
69447374 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
69447400 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
69447425 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
69447445 ATTAAAGAGG
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
25 35 0.51
26 34 0.49
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:69447428 original size:51 final size:51
Alignment explanation
Indices: 69447348--69447444 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
69447338 GAGGAAGTGC
**
69447348 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTTTACCG
69447400 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
69447445 ATTAAAGAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
50 10 0.23
51 23 0.53
52 10 0.23
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:69447648 original size:42 final size:42
Alignment explanation
Indices: 69447589--69447680 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
69447579 TAGTCTCCCC
* **
69447589 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTTCATGTGATATTG
69447631 AAATGGGCTTGCATACATCCATTGACATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTTCATGTGATATTG
69447673 AAATGGGC
1 AAATGGGC
69447681 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTTCATGTGATATTG
Found at i:69454277 original size:28 final size:27
Alignment explanation
Indices: 69454220--69454371 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
69454210 TAAATTGTGC
*
69454220 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
69454247 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
69454275 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
69454302 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
69454330 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
69454357 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69454372 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:69454284 original size:55 final size:55
Alignment explanation
Indices: 69454220--69454371 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
69454210 TAAATTGTGC
*
69454220 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
69454275 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
69454330 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
69454372 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:69461098 original size:29 final size:29
Alignment explanation
Indices: 69461063--69461136 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
69461053 GTTGTGAGAT
* *
69461063 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
69461092 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
69461121 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
69461137 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:69469188 original size:29 final size:29
Alignment explanation
Indices: 69469155--69469228 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
69469145 GTTGTGAGAT
* * *
69469155 TGGCACTAAGTATGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
69469184 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
69469213 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
69469229 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:69472408 original size:39 final size:40
Alignment explanation
Indices: 69472294--69472477 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
69472284 GCTACTCGTT
*
69472294 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
69472334 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
69472374 CCAATGCCTTC-GGTCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
69472413 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
69472454 CAAA--CCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69472478 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 52 0.42
40 63 0.50
41 10 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:69472471 original size:79 final size:81
Alignment explanation
Indices: 69472300--69472477 Score: 206
Period size: 79 Copynumber: 2.2 Consensus size: 81
69472290 CGTTCAAATG
* * *
69472300 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
* *
69472364 GTAACTCGCACCAATG
66 GTAACTAGCACCAATA
* **
69472380 CCTTC-GGTCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATAT
1 CCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATAT
* *
69472442 GGTCACTTAGCA-CAA-A
65 AGTAAC-TAGCACCAATA
69472458 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
69472478 CATCATTCGA
Statistics
Matches: 83, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
78 8 0.10
79 65 0.78
80 10 0.12
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (81 bp):
CCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
GTAACTAGCACCAATA
Found at i:69473754 original size:22 final size:23
Alignment explanation
Indices: 69473715--69473767 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
69473705 GATGGACACA
*
69473715 TTTTTTTTCT-TTTGTTTTCATCC
1 TTTTCTTTCTCTTTGTTTTC-TCC
69473738 TTTTCTTTCTCTTT-TTTTCTCC
1 TTTTCTTTCTCTTTGTTTTCTCC
*
69473760 ATTTCTTT
1 TTTTCTTT
69473768 ATTACTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 10 0.37
23 14 0.52
24 3 0.11
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTCTTTCTCTTTGTTTTCTCC
Found at i:69480475 original size:79 final size:80
Alignment explanation
Indices: 69480307--69480491 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
69480297 GCTACTCGTT
* *
69480307 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
69480371 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * **
69480388 CAATGCCTTC-GGTCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
69480451 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
69480467 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
69480492 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:69480491 original size:40 final size:40
Alignment explanation
Indices: 69480307--69480491 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
69480297 GCTACTCGTT
* *
69480307 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
69480347 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
69480387 CCAATGCCTTC-GGTCTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
69480426 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
69480467 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69480492 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 36 0.29
40 77 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:69481765 original size:23 final size:23
Alignment explanation
Indices: 69481734--69481787 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
69481724 ATGGACACAT
*
69481734 TTTTTTTTCT-TTTGTTTTCATCC
1 TTTTCTTTCTCTTTGTTTTC-TCC
*
69481757 TTTTCTTTCTCTTTTTTTTCTCC
1 TTTTCTTTCTCTTTGTTTTCTCC
*
69481780 ATTTCTTT
1 TTTTCTTT
69481788 ATTACTAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTCTTTCTCTTTGTTTTCTCC
Found at i:69486888 original size:46 final size:46
Alignment explanation
Indices: 69486821--69486948 Score: 229
Period size: 46 Copynumber: 2.8 Consensus size: 46
69486811 AACTAGGCAT
69486821 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
69486867 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
69486913 CCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69486949 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:69503924 original size:28 final size:27
Alignment explanation
Indices: 69503869--69503924 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
69503859 TTGACATAGA
* * * *
69503869 TTAAAAAATTTTAATTATTATTTTTAT
1 TTAAAAAAATTTAATCATTAATTATAT
69503896 TTAAAAAAATTTAATCATTTAATTATAT
1 TTAAAAAAATTTAATCA-TTAATTATAT
69503924 T
1 T
69503925 AATATAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
TTAAAAAAATTTAATCATTAATTATAT
Found at i:69515730 original size:36 final size:36
Alignment explanation
Indices: 69515687--69515758 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
69515677 GATGAAAAAA
69515687 TATTTTTATTTATTTTAAGTTCATAATTGTCTTATT
1 TATTTTTATTTATTTTAAGTTCATAATTGTCTTATT
69515723 TATTTTTATTTATTTTAAGTTCATAATTGTCTTATT
1 TATTTTTATTTATTTTAAGTTCATAATTGTCTTATT
69515759 AACATTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (36 bp):
TATTTTTATTTATTTTAAGTTCATAATTGTCTTATT
Found at i:69518637 original size:78 final size:81
Alignment explanation
Indices: 69518470--69518653 Score: 218
Period size: 78 Copynumber: 2.3 Consensus size: 81
69518460 GCTACTCGTT
* *
69518470 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
69518534 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* **
69518551 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCG-ACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
69518612 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
69518629 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
69518654 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
77 3 0.03
78 39 0.44
79 34 0.38
80 10 0.11
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:69518653 original size:40 final size:40
Alignment explanation
Indices: 69518451--69518653 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
69518441 CGGAATTTAA
** *
69518451 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
69518491 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
69518531 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
69518570 CCGGA-ATTAGTAACTCG-ACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
69518609 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
69518649 CCGGA
1 CCGGA
69518654 CATCATTCGA
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
37 2 0.01
38 11 0.08
39 36 0.26
40 82 0.59
41 8 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:69519921 original size:23 final size:23
Alignment explanation
Indices: 69519888--69519931 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
69519878 AGGATGGACA
*
69519888 CATTTTTTTTCT-TTTGTTTTCAT
1 CATTTTCTTTCTCTTT-TTTTCAT
69519911 CATTTTCTTTCTCTTTTTTTC
1 CATTTTCTTTCTCTTTTTTTC
69519932 CATTTCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (23 bp):
CATTTTCTTTCTCTTTTTTTCAT
Found at i:69526570 original size:39 final size:40
Alignment explanation
Indices: 69526456--69526640 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
69526446 GCTACTCGTT
*
69526456 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
69526496 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
69526536 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
69526575 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
69526616 TAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69526641 CATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 79 0.64
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:69526624 original size:79 final size:81
Alignment explanation
Indices: 69526456--69526640 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
69526446 GCTACTCGTT
* *
69526456 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
69526520 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * **
69526537 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGGACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
69526599 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
*
69526616 TAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
69526641 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:69527923 original size:24 final size:24
Alignment explanation
Indices: 69527879--69527924 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
69527869 AGGATGGACA
*
69527879 CATTTTTTTTTCTTTTGTTTTCAT
1 CATTTTTTTCTCTTTTGTTTTCAT
69527903 CATTTTCTTTCTCTTTT-TTTTC
1 CATTTT-TTTCTCTTTTGTTTTC
69527925 CCTTTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.74
Consensus pattern (24 bp):
CATTTTTTTCTCTTTTGTTTTCAT
Found at i:69531243 original size:28 final size:28
Alignment explanation
Indices: 69531211--69531292 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 28
69531201 AATCTCATAT
* *
69531211 CTGTAGGCTAGTATTACTGAAATACCCC
1 CTGTAGGGTAGAATTACTGAAATACCCC
* *
69531239 CTGTAGGGTTGAATTACTGAAAT-GCCC
1 CTGTAGGGTAGAATTACTGAAATACCCC
* *
69531266 CTATAGGGTAGAATTATTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
69531293 TTGGTTTACA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
27 23 0.51
28 22 0.49
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (28 bp):
CTGTAGGGTAGAATTACTGAAATACCCC
Found at i:69531557 original size:27 final size:27
Alignment explanation
Indices: 69531285--69531591 Score: 217
Period size: 27 Copynumber: 11.4 Consensus size: 27
69531275 AGAATTATTG
* **
69531285 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
* * * *
69531312 AAATACCCTCGATTAGCAAAATTATCA
1 AAATACCCTTGATTTGTAAAATTACCA
* * *
69531339 AAATATCCC-TGGTTTATAAAATTACTA
1 AAATA-CCCTTGATTTGTAAAATTACCA
*
69531366 AAATACCC-TAATTTGT-AAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
* * * *
69531391 AAATACCTTTAACTTGTAAAATTACTA
1 AAATACCCTTGATTTGTAAAATTACCA
* * * *
69531418 AAATACTCTCGACTTGTAAAATTACCT
1 AAATACCCTTGATTTGTAAAATTACCA
** *
69531445 AAATACCCTCAATTTATAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
* * *
69531472 AAATACCCCTGGTTTGGAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
* **
69531499 AAATACCTTTGACTTTCAAAAATTA-CA
1 AAATACCCTTGA-TTTGTAAAATTACCA
* * *
69531526 TAAATACCCTTGGTTTGTAAAATTATCG
1 -AAATACCCTTGATTTGTAAAATTACCA
* * ** * *
69531554 AAATGCCCTTGGTTCATAGATTTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
*
69531581 AAACACCCTTG
1 AAATACCCTTG
69531592 TATGGTGAAA
Statistics
Matches: 219, Mismatches: 55, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
25 15 0.07
26 15 0.07
27 165 0.75
28 24 0.11
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGATTTGTAAAATTACCA
Found at i:69531874 original size:41 final size:41
Alignment explanation
Indices: 69531829--69531946 Score: 164
Period size: 41 Copynumber: 2.9 Consensus size: 41
69531819 AGAGGAAGAA
69531829 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* ** * *
69531870 ATTGAGGATCGCATGGTTGCTTGATGATTGCGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
69531911 ATTAAGGATCACATGGTTGCTTGACGACCATGGATC
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATC
69531947 TATTGATGGC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:69532141 original size:19 final size:20
Alignment explanation
Indices: 69532098--69532141 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
69532088 TTATTCTGAT
69532098 TATGGCTTTGCGCCAACCTACA
1 TATGGCTTTGCGCCAA-C-ACA
*
69532120 TATGGCTTTGTGCCAA-ACA
1 TATGGCTTTGCGCCAACACA
69532139 TAT
1 TAT
69532142 TTGCCTAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
22 15 0.71
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (20 bp):
TATGGCTTTGCGCCAACACA
Found at i:69532351 original size:22 final size:22
Alignment explanation
Indices: 69532333--69532376 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
69532323 CGTTGCTGCA
69532333 ATGTTTACAGCTATGTGCTGTC
1 ATGTTTACAGCTATGTGCTGTC
* * *
69532355 TTGTTTACGGCTATGTGTTGTC
1 ATGTTTACAGCTATGTGCTGTC
69532377 CTGTCTATGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.45
Consensus pattern (22 bp):
ATGTTTACAGCTATGTGCTGTC
Found at i:69536840 original size:27 final size:28
Alignment explanation
Indices: 69536797--69536915 Score: 95
Period size: 28 Copynumber: 4.3 Consensus size: 28
69536787 AGTCCTTACC
*
69536797 GACTATCTTTCAAGCAAGTGTCTGTATG
1 GACTATCTTTCAAGCAAGTGTCTGCATG
*
69536825 GACTAT-TTTGAAGCAA-TAGTCTGCATG
1 GACTATCTTTCAAGCAAGT-GTCTGCATG
* * * **
69536852 GGCTATCTTTCAAGAAAGAGTCTGCAAA
1 GACTATCTTTCAAGCAAGTGTCTGCATG
*
69536880 GACTAT-TCTTCAAACAAGTG-CT-CATATG
1 GACTATCT-TTCAAGCAAGTGTCTGC--ATG
69536908 GACTATCT
1 GACTATCT
69536916 GTAACACCTC
Statistics
Matches: 70, Mismatches: 14, Indels: 13
0.72 0.14 0.13
Matches are distributed among these distances:
26 2 0.03
27 25 0.36
28 42 0.60
29 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (28 bp):
GACTATCTTTCAAGCAAGTGTCTGCATG
Found at i:69538551 original size:20 final size:21
Alignment explanation
Indices: 69538522--69538562 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
69538512 CAAAACACAC
69538522 TAGAGAGCATCAAAATGCAAA
1 TAGAGAGCATCAAAATGCAAA
**
69538543 TAGAG-GCATTGAAATGCAAA
1 TAGAGAGCATCAAAATGCAAA
69538563 GGCACTGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.17
Consensus pattern (21 bp):
TAGAGAGCATCAAAATGCAAA
Found at i:69544207 original size:13 final size:13
Alignment explanation
Indices: 69544189--69544215 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
69544179 GCTCAGCAAG
69544189 GACACGCCCGTGT
1 GACACGCCCGTGT
69544202 GACACGCCCGTGT
1 GACACGCCCGTGT
69544215 G
1 G
69544216 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:69552351 original size:100 final size:100
Alignment explanation
Indices: 69552178--69552377 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
69552168 TTAGTTCATG
*
69552178 ACTAAATAAGAAAACATCTCAGGAGAATATAGAATACAAAACATAAAGAAAACCCAAAACTTCTG
1 ACTAAATAAGAAAACATCTCAGAAGAATATAGAATACAAAACATAAAGAAAACCCAAAACTTCTG
69552243 AAGGGAAATTGAGGAGAGGTCTTCAGTCTTGATGA
66 AAGGGAAATTGAGGAGAGGTCTTCAGTCTTGATGA
69552278 ACTAAATAAGAAAACATCTCAGAAGAATATAGAATACAAAACATAAAGAAAACCCAAAACTTCTG
1 ACTAAATAAGAAAACATCTCAGAAGAATATAGAATACAAAACATAAAGAAAACCCAAAACTTCTG
69552343 AAGGGAAATTGAGGAGAGGTCTTCAGTCTTGATGA
66 AAGGGAAATTGAGGAGAGGTCTTCAGTCTTGATGA
69552378 TGAATCCGGC
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.20
Consensus pattern (100 bp):
ACTAAATAAGAAAACATCTCAGAAGAATATAGAATACAAAACATAAAGAAAACCCAAAACTTCTG
AAGGGAAATTGAGGAGAGGTCTTCAGTCTTGATGA
Found at i:69555480 original size:107 final size:107
Alignment explanation
Indices: 69555271--69555599 Score: 371
Period size: 108 Copynumber: 3.1 Consensus size: 107
69555261 GGCAAATCAG
* ** * * * * *
69555271 TCATTTTACCTTACAAGGGTATTACAGTCATTTTACCTTAGA-GGGGTATTACAGTCATTATACC
1 TCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTACAGGGGGTATTTCAGTCATT-TACC
* *
69555335 CTACAGGGGTATTTTGGTCATTTTACCCTA-GAGGGGTATTTCGG
65 CTATAGGGGTATTTTGGTCATTTTA-CCTATGA-GGGTATTTCGA
* * * * **
69555379 TCATTTTACCCTATTG-GGGTATTTTGGTCATTTTACCCTA-TGGGGTTGTTTTGGTCATTTACC
1 TCATTTTACCCTA-TGAGGGTATTTCGGTCATTTTACCCTACAGGGGGTATTTCAGTCATTTACC
* *
69555442 CTATAGGGGTATTTTGCTCATTTTACCTTATGAAGGTATTTCGA
65 CTATAGGGGTATTTTGGTCATTTTACC-TATGAGGGTATTTCGA
69555486 TCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTACAGGGGGTATTTCAGTCATTTACCC
1 TCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTACAGGGGGTATTTCAGTCATTTACCC
* * * *
69555551 AATGGGGGTATTTCGGTCATTTTAGCCTATGGGGGTATTT-GA
66 TATAGGGGTATTTTGGTCATTTTA-CCTATGAGGGTATTTCGA
69555593 TCATTTT
1 TCATTTT
69555600 CTTGCACAAC
Statistics
Matches: 185, Mismatches: 29, Indels: 15
0.81 0.13 0.07
Matches are distributed among these distances:
106 4 0.02
107 83 0.45
108 96 0.52
109 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (107 bp):
TCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTACAGGGGGTATTTCAGTCATTTACCC
TATAGGGGTATTTTGGTCATTTTACCTATGAGGGTATTTCGA
Found at i:69555590 original size:27 final size:27
Alignment explanation
Indices: 69555287--69555599 Score: 321
Period size: 27 Copynumber: 11.7 Consensus size: 27
69555277 TACCTTACAA
* * *
69555287 GGGTATTACAGTCATTTTACCTTA-GAG
1 GGGTATTTCGGTCATTTTACCCTATG-G
* * * **
69555314 GGGTATTACAGTCATTATACCCTACAG
1 GGGTATTTCGGTCATTTTACCCTATGG
*
69555341 GGGTATTTTGGTCATTTTACCCTA-GAG
1 GGGTATTTCGGTCATTTTACCCTATG-G
*
69555368 GGGTATTTCGGTCATTTTACCCTATTG
1 GGGTATTTCGGTCATTTTACCCTATGG
*
69555395 GGGTATTTTGGTCATTTTACCCTATGG
1 GGGTATTTCGGTCATTTTACCCTATGG
* * * *
69555422 GGTTGTTTTGGTCA-TTTACCCTATAG
1 GGGTATTTCGGTCATTTTACCCTATGG
* * * *
69555448 GGGTATTTTGCTCATTTTACCTTATGA
1 GGGTATTTCGGTCATTTTACCCTATGG
* * *
69555475 AGGTATTTCGATCATTTTACCCTATGA
1 GGGTATTTCGGTCATTTTACCCTATGG
*
69555502 GGGTATTTCGGTCATTTTACCCTACAGG
1 GGGTATTTCGGTCATTTTACCCTA-TGG
* *
69555530 GGGTATTTCAGTCA-TTTACCCAATGG
1 GGGTATTTCGGTCATTTTACCCTATGG
*
69555556 GGGTATTTCGGTCATTTTAGCCTATGG
1 GGGTATTTCGGTCATTTTACCCTATGG
*
69555583 GGGTATTT-GATCATTTT
1 GGGTATTTCGGTCATTTT
69555600 CTTGCACAAC
Statistics
Matches: 244, Mismatches: 36, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
26 45 0.18
27 185 0.76
28 14 0.06
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTATGG
Found at i:69565261 original size:32 final size:32
Alignment explanation
Indices: 69565220--69565283 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
69565210 AATGGACTAC
69565220 TTAGACACCTATAACTTTAACTCATGCATGAT
1 TTAGACACCTATAACTTTAACTCATGCATGAT
69565252 TTAGACACCTATAACTTTAACTCATGCATGAT
1 TTAGACACCTATAACTTTAACTCATGCATGAT
69565284 AAATATATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (32 bp):
TTAGACACCTATAACTTTAACTCATGCATGAT
Found at i:69566429 original size:48 final size:48
Alignment explanation
Indices: 69566260--69566440 Score: 184
Period size: 48 Copynumber: 3.8 Consensus size: 48
69566250 TCATATCAAC
** * * *
69566260 GCCATATCCCAGATATGGTCTTACA-TGAAATCACATACCGAGGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTG-GCTCACATATCAACGCCGAT
* ** * * * *
69566308 GCCATATCCTAGATATGGTCTTACACAAGCACACGTATCAATGCTGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCTCACATATCAACGCCGAT
* * * *
69566356 GCGATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACCGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCTCACATATCAACGCCGAT
* *
69566404 GCCATGTCCCAGATATGGTCTTACACTGGCTCTCATA
1 GCCATATCCCAGATATGGTCTTACACTGGCTCACATA
69566441 AATCGTGGTG
Statistics
Matches: 107, Mismatches: 25, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
48 107 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACACTGGCTCACATATCAACGCCGAT
Found at i:69578880 original size:12 final size:12
Alignment explanation
Indices: 69578847--69578881 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
69578837 CAAGACTAGA
69578847 TATTCTTTAAAT
1 TATTCTTTAAAT
*
69578859 TACTCTTTTAAAT
1 TATTC-TTTAAAT
69578872 TATTCTTTAA
1 TATTCTTTAA
69578882 GTAACATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:69579030 original size:19 final size:22
Alignment explanation
Indices: 69578984--69579029 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
69578974 AAGTAGGTTG
69578984 TATATTATTTTTTGTAATATTA
1 TATATTATTTTTTGTAATATTA
69579006 TATATTATTTTTAT-TAAT-TTA
1 TATATTATTTTT-TGTAATATTA
69579027 TAT
1 TAT
69579030 TTTAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TATATTATTTTTTGTAATATTA
Found at i:69579082 original size:21 final size:20
Alignment explanation
Indices: 69579053--69579092 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
69579043 ATATTAAGAA
69579053 TATTATTAAATTATATATTAT
1 TATTATTAAATTATA-ATTAT
*
69579074 TATTGTTAAATTATAATTA
1 TATTATTAAATTATAATTA
69579093 ATAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TATTATTAAATTATAATTAT
Found at i:69579156 original size:58 final size:58
Alignment explanation
Indices: 69579002--69579157 Score: 156
Period size: 60 Copynumber: 2.6 Consensus size: 58
69578992 TTTTTGTAAT
* * **
69579002 ATTATATATTATTTTTATTAATTTATATTTTAATAATTGCTATATTAAGAATATTATTAA
1 ATTATATATTATTTTTATTAAATTATA-TTTAATAAAT-CTATATTAAGAATAGGATTAA
* *
69579062 ATTATATATTATTATTGTTAAATTATAATTAATAATAAAT-T-TATTAA-AATAGGATTAA
1 ATTATATATTATTTTTATTAAATTAT-ATT--TAATAAATCTATATTAAGAATAGGATTAA
*
69579120 ATTATGTATTATTGTTTTTATTAAATTATATTTAATAA
1 ATTA--TA-TATTATTTTTATTAAATTATATTTAATAA
69579158 TAATCCTATT
Statistics
Matches: 81, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
58 19 0.23
59 6 0.07
60 31 0.38
61 18 0.22
62 7 0.09
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (58 bp):
ATTATATATTATTTTTATTAAATTATATTTAATAAATCTATATTAAGAATAGGATTAA
Found at i:69579353 original size:16 final size:16
Alignment explanation
Indices: 69579331--69579386 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
69579321 AATTGAATTG
69579331 CTATTACAGTTCTATT
1 CTATTACAGTTCTATT
* **
69579347 TTATTACAACTCTATT
1 CTATTACAGTTCTATT
*
69579363 CCATTACAGTTCTATT
1 CTATTACAGTTCTATT
*
69579379 CCATTACA
1 CTATTACA
69579387 ACCCTATTCC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.45
Consensus pattern (16 bp):
CTATTACAGTTCTATT
Found at i:69579374 original size:32 final size:32
Alignment explanation
Indices: 69579333--69579402 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
69579323 TTGAATTGCT
** *
69579333 ATTACAGTTCTATTTTATTACAACTCTATTCC
1 ATTACAGTTCTATTCCATTACAACCCTATTCC
69579365 ATTACAGTTCTATTCCATTACAACCCTATTCC
1 ATTACAGTTCTATTCCATTACAACCCTATTCC
69579397 ATTACA
1 ATTACA
69579403 TTGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.30, C:0.26, G:0.03, T:0.41
Consensus pattern (32 bp):
ATTACAGTTCTATTCCATTACAACCCTATTCC
Found at i:69579393 original size:16 final size:16
Alignment explanation
Indices: 69579349--69579402 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
69579339 GTTCTATTTT
69579349 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
**
69579365 ATTACAGTTCTATTCC
1 ATTACAACTCTATTCC
*
69579381 ATTACAACCCTATTCC
1 ATTACAACTCTATTCC
69579397 ATTACA
1 ATTACA
69579403 TTGAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.30, G:0.02, T:0.37
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:69588333 original size:42 final size:43
Alignment explanation
Indices: 69588285--69588382 Score: 123
Period size: 42 Copynumber: 2.3 Consensus size: 43
69588275 ACTAAGTTTA
*
69588285 TGTGTAAGACCATATCTAGG-ATATGACATCGATATGAGATTT-
1 TGTGTAAGACCATATCT-GGTATATGACATCAATATGAGATTTC
* *
69588327 TGTGTAAGACC-TCATCTGGTATGTGGCATCAATATGAGATTTC
1 TGTGTAAGACCAT-ATCTGGTATATGACATCAATATGAGATTTC
69588370 T-TGTAAGACCATA
1 TGTGTAAGACCATA
69588383 GTTGGGCTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
41 3 0.06
42 44 0.90
43 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (43 bp):
TGTGTAAGACCATATCTGGTATATGACATCAATATGAGATTTC
Found at i:69595056 original size:46 final size:48
Alignment explanation
Indices: 69594912--69595169 Score: 191
Period size: 46 Copynumber: 5.5 Consensus size: 48
69594902 ATGCCGATCC
* * *
69594912 CATGTCCCAGACATGGTATTACACTAGCTCTCACATATTC-ATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCT-ACATA-TCAAGGCCGATG
* * * * * *
69594961 CAATGTCCCATACATAGTCTTACACTGAG----ACATCTCGTA-GCCAAAG
1 C-ATGTCCCAGACATGGTCTTACACTG-GCTCTACATATC-AAGGCCGATG
*
69595007 CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCAAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACATATCAAGGCCGATG
* * * *
69595053 CATGTCCCAGACAT-GTCTTACACTTGCTCT-CGTATCAATGACGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACATATCAAGGCCGATG
* * * **
69595099 TCATGTTCTAGACATGGTCTTACACTGACTCT-CATAAT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCAAGGCCGATG
69595147 CATGTCCCAGACAT-GTCTTACAC
1 CATGTCCCAGACATGGTCTTACAC
69595170 AAGCGCACAA
Statistics
Matches: 170, Mismatches: 27, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 11 0.06
45 15 0.09
46 70 0.41
47 26 0.15
48 22 0.13
49 3 0.02
50 21 0.12
51 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTACATATCAAGGCCGATG
Found at i:69598711 original size:27 final size:27
Alignment explanation
Indices: 69598681--69598782 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
69598671 ATTACCAAAG
* * * *
69598681 TACCCTCGATTTATAGAATAATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
69598708 TACCCTTGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
69598735 TACCCTC-AGTTTACAAAATTACCGTTT
1 TACCCTCGA-TTTACAAAATTACCGTTT
69598762 TACCCTCGA-TTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
69598783 TGAAATACCC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
26 13 0.20
27 51 0.78
28 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:69598791 original size:26 final size:27
Alignment explanation
Indices: 69598718--69598792 Score: 64
Period size: 27 Copynumber: 2.8 Consensus size: 27
69598708 TACCCTTGAT
** *
69598718 TTACAAAATTACC-ATTTTACCCTCAGT
1 TTACAAAATTACCGA-AATACCCTCAGA
***
69598745 TTACAAAATTACCGTTTTACCCTC-GA
1 TTACAAAATTACCGAAATACCCTCAGA
*
69598771 TTACAAAATTACTGAAATACCC
1 TTACAAAATTACCGAAATACCC
69598793 CTGTAGGATA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (27 bp):
TTACAAAATTACCGAAATACCCTCAGA
Found at i:69598794 original size:27 final size:26
Alignment explanation
Indices: 69598764--69598845 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
69598754 TACCGTTTTA
*
69598764 CCCTCGATTACAAAATTACTGAAATAC
1 CCCT-GATTATAAAATTACTGAAATAC
** **
69598791 CCCTGTAGGATAAAATTACCAAAATAC
1 CCCTG-ATTATAAAATTACTGAAATAC
* *
69598818 CCCTAGTTTGTAAAATTACTGAAATAC
1 CCCT-GATTATAAAATTACTGAAATAC
69598845 C
1 C
69598846 ACTGGTTTGT
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (26 bp):
CCCTGATTATAAAATTACTGAAATAC
Found at i:69598845 original size:54 final size:54
Alignment explanation
Indices: 69598775--69598902 Score: 152
Period size: 54 Copynumber: 2.4 Consensus size: 54
69598765 CCTCGATTAC
*
69598775 AAAATTACTGAAATACCCCT-GTAGGAT-AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTGAAATACCCCTGGTAGG-TGAAAA-TACCAAAATACCCCTAATTTGT
* ** * *
69598829 AAAATTACTGAAATACCACTGGTTTGTGAAAATACCGAAATACCCTTAATTTGT
1 AAAATTACTGAAATACCCCTGGTAGGTGAAAATACCAAAATACCCCTAATTTGT
**
69598883 AAAATTACCAAAATACCCCT
1 AAAATTACTGAAATACCCCT
69598903 AATTTACAAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
54 56 0.89
55 7 0.11
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (54 bp):
AAAATTACTGAAATACCCCTGGTAGGTGAAAATACCAAAATACCCCTAATTTGT
Found at i:69598853 original size:27 final size:27
Alignment explanation
Indices: 69598775--69598903 Score: 136
Period size: 27 Copynumber: 4.8 Consensus size: 27
69598765 CCTCGATTAC
* **
69598775 AAAATTACTGAAATACCCCT-GTAGGAT
1 AAAATTACCGAAATACCCCTAGTTTG-T
*
69598802 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCGAAATACCCCTAGTTTGT
* * *
69598829 AAAATTACTGAAATACCACTGGTTTGT
1 AAAATTACCGAAATACCCCTAGTTTGT
* *
69598856 GAAAA-TACCGAAATACCCTTAATTTGT
1 -AAAATTACCGAAATACCCCTAGTTTGT
*
69598883 AAAATTACCAAAATACCCCTA
1 AAAATTACCGAAATACCCCTA
69598904 ATTTACAACA
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.05
27 73 0.87
28 7 0.08
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTAGTTTGT
Found at i:69598905 original size:27 final size:27
Alignment explanation
Indices: 69598801--69598927 Score: 130
Period size: 27 Copynumber: 4.7 Consensus size: 27
69598791 CCCTGTAGGA
*
69598801 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTAATTTG
** * **
69598828 TAAAATTACTGAAATACCACTGGTTTG
1 TAAAATTACCAAAATACCCCTAATTTG
* *
69598855 TGAAAA-TACCGAAATACCCTTAATTTG
1 T-AAAATTACCAAAATACCCCTAATTTG
*
69598882 TAAAATTACCAAAATACCCCTAATTTA
1 TAAAATTACCAAAATACCCCTAATTTG
* * *
69598909 CAACATTACAAAAATACCC
1 TAAAATTACCAAAATACCC
69598928 TTGACTTTCT
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.05
27 75 0.90
28 4 0.05
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.28
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTAATTTG
Found at i:69598978 original size:27 final size:27
Alignment explanation
Indices: 69598939--69598990 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
69598929 TGACTTTCTA
69598939 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
* *
69598966 AAAATTATTGAAATACCCTTGGTTT
1 AAAATTATAGAAATACCATTGGTTT
69598991 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:69599953 original size:25 final size:25
Alignment explanation
Indices: 69599919--69599984 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
69599909 AGTGCTAAAG
*
69599919 GGGCTCTGCCCCAGTTTACCGAAAA
1 GGGCTTTGCCCCAGTTTACCGAAAA
* * *
69599944 GGGCTTTGCCCTAGTTTATCGGAAA
1 GGGCTTTGCCCCAGTTTACCGAAAA
69599969 GGGCTTTGCCCCAGTT
1 GGGCTTTGCCCCAGTT
69599985 ATTAAAAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (25 bp):
GGGCTTTGCCCCAGTTTACCGAAAA
Found at i:69600191 original size:42 final size:42
Alignment explanation
Indices: 69600132--69600265 Score: 243
Period size: 42 Copynumber: 3.2 Consensus size: 42
69600122 TAGTCTCCCC
69600132 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
69600174 AAATGGGCTTGCATACATTCATTGACATTACATGTGATTTTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
69600216 AAATGGGCTTGCATACATCTC-TTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACAT-TCATTGACATTACATGTGATATTG
69600258 AAATGGGC
1 AAATGGGC
69600266 CTAAGGGCCA
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
42 87 0.98
43 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:69600324 original size:31 final size:31
Alignment explanation
Indices: 69600289--69600372 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
69600279 CGTTTACAGT
*
69600289 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
69600320 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
69600351 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
69600373 TCAAGACTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:69610162 original size:35 final size:35
Alignment explanation
Indices: 69610122--69610188 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
69610112 AGGTAAGTAT
*
69610122 ATGTGAGGTTCTATTGAACTTGTATATTCGGCTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
*
69610157 ATGTGAGGTTATATTGAATTTGTATATTCGGC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGC
69610189 CATATGAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.42
Consensus pattern (35 bp):
ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
Found at i:69610209 original size:35 final size:35
Alignment explanation
Indices: 69610126--69610213 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
69610116 AAGTATATGT
* * *
69610126 GAGGTTCTATTGAACTTGTATATTCGGCTACATGT
1 GAGGTTATATTGAACTTGTATATTCGGCCACATGA
* *
69610161 GAGGTTATATTGAATTTGTATATTCGGCCATATGA
1 GAGGTTATATTGAACTTGTATATTCGGCCACATGA
*
69610196 GATGTT-TATTTGAACTTG
1 GAGGTTATA-TTGAACTTG
69610214 AACATTAGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 2 0.04
35 43 0.96
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (35 bp):
GAGGTTATATTGAACTTGTATATTCGGCCACATGA
Found at i:69610212 original size:70 final size:70
Alignment explanation
Indices: 69610135--69610265 Score: 163
Period size: 70 Copynumber: 1.9 Consensus size: 70
69610125 TGAGGTTCTA
* * * * * * *
69610135 TTGAACTTGTATATTCGGCTACATGTGAGGTTATATTGAATTTGTATATTCGGCCATATGAGATG
1 TTGAACTTGAACATTAGACTACATGTGAGGATATATTGAACTTATATATTCGGCCATATGAGATG
69610200 TTTAT
66 TTTAT
* * * *
69610205 TTGAACTTGAACATTAGATTACATTTGATGATATATTGGACTTATATATTCGGCCATATGA
1 TTGAACTTGAACATTAGACTACATGTGAGGATATATTGAACTTATATATTCGGCCATATGA
69610266 AATAATATAA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
70 50 1.00
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (70 bp):
TTGAACTTGAACATTAGACTACATGTGAGGATATATTGAACTTATATATTCGGCCATATGAGATG
TTTAT
Found at i:69616126 original size:38 final size:38
Alignment explanation
Indices: 69616070--69616149 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
69616060 GAGGTGTATT
* * *
69616070 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
69616108 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
69616146 CGGG
1 CGGG
69616150 CCTTCGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:69616196 original size:43 final size:43
Alignment explanation
Indices: 69616142--69616296 Score: 238
Period size: 43 Copynumber: 3.6 Consensus size: 43
69616132 GCTGGTATTA
* * *
69616142 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
* * *
69616185 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGTTGGTTATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
*
69616228 TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
*
69616271 TATTTGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
69616297 GTAATGCCGG
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.12, C:0.23, G:0.32, T:0.34
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
Found at i:69616308 original size:43 final size:43
Alignment explanation
Indices: 69616121--69616309 Score: 229
Period size: 43 Copynumber: 4.4 Consensus size: 43
69616111 GATAAATCCC
* * *
69616121 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
69616162 GCAGGCTTAGTGCCAGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * ** *
69616205 GTAGGCTTCGTGTTGGTTATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * * *
69616248 GCAAGCTTCGTGTCGGTGATGTGTATTTGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
69616291 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
69616310 AATGATATGT
Statistics
Matches: 126, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
41 14 0.11
42 2 0.02
43 110 0.87
ACGTcount: A:0.13, C:0.22, G:0.33, T:0.32
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:69618599 original size:46 final size:47
Alignment explanation
Indices: 69618483--69618666 Score: 194
Period size: 46 Copynumber: 3.9 Consensus size: 47
69618473 AGGATATAAT
* *
69618483 GCCGATGCCATGTCTCAGACATGATCTTACACTAGCTCTCACATATTC-AT
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTAGCTCT--CATA-TCAAG
** * * * *
69618533 GCCGATGCCATGTCTTAGACATGTCTTACATTGGCT-TACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATATCAAG
* * *
69618580 GCTGATG-CATGTCCCAGACATGTCTAACACTAGCTCTCATATCAAT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAAG
69618626 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCA
69618667 AAATGTGGTC
Statistics
Matches: 114, Mismatches: 16, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
46 37 0.32
47 26 0.23
48 18 0.16
49 11 0.10
50 22 0.19
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAAG
Found at i:69624824 original size:16 final size:16
Alignment explanation
Indices: 69624803--69624834 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
69624793 GGAAAACACA
*
69624803 TAGTTATCGGTTAAAG
1 TAGTTATCGATTAAAG
69624819 TAGTTATCGATTAAAG
1 TAGTTATCGATTAAAG
69624835 AGAGAACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (16 bp):
TAGTTATCGATTAAAG
Found at i:69630003 original size:29 final size:29
Alignment explanation
Indices: 69629971--69630042 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 29
69629961 TCTGGCTATA
*
69629971 TCTATTAAATGGAAGACTTTATTGTAATC
1 TCTATTAAATGGAAGACTTTATAGTAATC
* * * *
69630000 TCTACTAAATAGAAGCCTTTGTAGTAATC
1 TCTATTAAATGGAAGACTTTATAGTAATC
* *
69630029 TCTTTTAAAAGGAA
1 TCTATTAAATGGAA
69630043 TGCCTTTGTG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (29 bp):
TCTATTAAATGGAAGACTTTATAGTAATC
Found at i:69630213 original size:28 final size:29
Alignment explanation
Indices: 69630105--69630224 Score: 82
Period size: 29 Copynumber: 4.2 Consensus size: 29
69630095 TTAAAGGAAT
* * *
69630105 GCCTTTGTGGCTATCTCTATTAAAAAGAT
1 GCCTTTGTGGCTATCTATATTAAAAGGAC
* * * * *
69630134 TCATTTGTGCCTATCTATGTGAAACA-GAC
1 GCCTTTGTGGCTATCTATATTAAA-AGGAC
***
69630163 ATTTTTGTGGCTATCTATATTAAAAGG-C
1 GCCTTTGTGGCTATCTATATTAAAAGGAC
* * * *
69630191 GCCTTTGTGGCTGTCTTTGTTAAATGGAC
1 GCCTTTGTGGCTATCTATATTAAAAGGAC
69630220 GCCTT
1 GCCTT
69630225 CCTGGTTAGA
Statistics
Matches: 68, Mismatches: 20, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
28 22 0.32
29 45 0.66
30 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (29 bp):
GCCTTTGTGGCTATCTATATTAAAAGGAC
Found at i:69631735 original size:38 final size:38
Alignment explanation
Indices: 69631661--69631736 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
69631651 ATTATATTAA
* * *
69631661 TATTCGGGCTTTGTGCCTAGTAGGCTTTATGTCAGTGT
1 TATTCAGGCTTTGTGCCTAGCAGGCTTTATGCCAGTGT
69631699 TATTCAGGCTTTGTGCCTAGCAGGC-TTAGTGCCAGTGT
1 TATTCAGGCTTTGTGCCTAGCAGGCTTTA-TGCCAGTGT
69631737 ATTAAAAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 3 0.09
38 31 0.91
ACGTcount: A:0.14, C:0.18, G:0.29, T:0.38
Consensus pattern (38 bp):
TATTCAGGCTTTGTGCCTAGCAGGCTTTATGCCAGTGT
Found at i:69632525 original size:12 final size:12
Alignment explanation
Indices: 69632508--69632532 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69632498 TCAAGCAATT
69632508 ACATGGCCTAGC
1 ACATGGCCTAGC
69632520 ACATGGCCTAGC
1 ACATGGCCTAGC
69632532 A
1 A
69632533 TACGGACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (12 bp):
ACATGGCCTAGC
Found at i:69648028 original size:16 final size:16
Alignment explanation
Indices: 69647994--69648041 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
69647984 AGTAGATCGG
*
69647994 CAAAA-GCCAAAAAGC
1 CAAAATGCCGAAAAGC
*
69648009 CAAAATGCCGAAAAGT
1 CAAAATGCCGAAAAGC
*
69648025 CAAAATGTCGAAAAGC
1 CAAAATGCCGAAAAGC
69648041 C
1 C
69648042 GAAAGTTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 5 0.18
16 23 0.82
ACGTcount: A:0.52, C:0.23, G:0.17, T:0.08
Consensus pattern (16 bp):
CAAAATGCCGAAAAGC
Found at i:69648288 original size:28 final size:29
Alignment explanation
Indices: 69648257--69648345 Score: 110
Period size: 28 Copynumber: 3.1 Consensus size: 29
69648247 GTGAGCATGA
*
69648257 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
69648285 ATATAAAGGTGATTTGGGCCTAATGGG-C
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* * ** *
69648313 ATGTGAATATGAATTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
69648342 ATAT
1 ATAT
69648346 GAATGAGATG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 27 0.52
29 25 0.48
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATGGGCC
Found at i:69652696 original size:18 final size:18
Alignment explanation
Indices: 69652675--69652711 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
69652665 GTGTGGATAG
69652675 AAAAACACATAATATTTT
1 AAAAACACATAATATTTT
69652693 AAAAACACATAATATTTT
1 AAAAACACATAATATTTT
69652711 A
1 A
69652712 TCTGTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAACACATAATATTTT
Found at i:69652961 original size:18 final size:18
Alignment explanation
Indices: 69652938--69652974 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
69652928 ATAAGTTATT
*
69652938 TTTAAAAATTAAAAATTA
1 TTTAAAAAATAAAAATTA
*
69652956 TTTAAAAAATACAAATTA
1 TTTAAAAAATAAAAATTA
69652974 T
1 T
69652975 AAATATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TTTAAAAAATAAAAATTA
Found at i:69654716 original size:21 final size:23
Alignment explanation
Indices: 69654690--69654733 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
69654680 AATTTTGTTC
69654690 AACTTTAA-CTTTTAT-TCAAAA
1 AACTTTAATCTTTTATATCAAAA
*
69654711 AACTTTAATTTTTTATATCAAAA
1 AACTTTAATCTTTTATATCAAAA
69654734 CATATTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 6 0.30
23 6 0.30
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.45
Consensus pattern (23 bp):
AACTTTAATCTTTTATATCAAAA
Found at i:69654974 original size:17 final size:16
Alignment explanation
Indices: 69654952--69654988 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
69654942 AAAAATACTC
69654952 ATATTTATATTATTAAA
1 ATATTTATATT-TTAAA
*
69654969 ATATTTATATTTTATA
1 ATATTTATATTTTAAA
69654985 ATAT
1 ATAT
69654989 AGAACATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATTTATATTTTAAA
Found at i:69655138 original size:34 final size:33
Alignment explanation
Indices: 69655070--69655156 Score: 90
Period size: 33 Copynumber: 2.6 Consensus size: 33
69655060 CCAGGAATAG
* * *
69655070 TATT-TTAAAATTAAAATTATTATTTTTAATATT
1 TATTATTAAAA-TAAAATTATAATATTAAATATT
*
69655103 TATTATTAAAATAAAATTGTAATATTAAATAATT
1 TATTATTAAAATAAAATTATAATATTAAAT-ATT
69655137 TATTA-TAATAAT-AAATTATA
1 TATTATTAA-AATAAAATTATA
69655157 TTAATTATCT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
33 29 0.63
34 17 0.37
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (33 bp):
TATTATTAAAATAAAATTATAATATTAAATATT
Found at i:69666390 original size:72 final size:72
Alignment explanation
Indices: 69666314--69666456 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 72
69666304 ATAAAAAGAA
*
69666314 TTTTGCGAGGCTTGGCTAGTGAGAAAATTTGATAAAAATTGTTTTACGAGCCTAGGGGAAAAATA
1 TTTTGCGAGGCTTGGCTAGTGAGAAAATTTGATAAAAATCGTTTTACGAGCCTAGGGGAAAAATA
69666379 GTAAATC
66 GTAAATC
69666386 TTTTGCGAGGCTTGGCTAGTGAGAAAATTTGATAAAAATCGTTTTACGAGCCTAGGGGAAAAATA
1 TTTTGCGAGGCTTGGCTAGTGAGAAAATTTGATAAAAATCGTTTTACGAGCCTAGGGGAAAAATA
69666451 GTAAAT
66 GTAAAT
69666457 TTCGAAAGTC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (72 bp):
TTTTGCGAGGCTTGGCTAGTGAGAAAATTTGATAAAAATCGTTTTACGAGCCTAGGGGAAAAATA
GTAAATC
Found at i:69666449 original size:36 final size:36
Alignment explanation
Indices: 69666337--69666449 Score: 101
Period size: 36 Copynumber: 3.1 Consensus size: 36
69666327 GGCTAGTGAG
*
69666337 AAAATTTGATAAAAATTGTTTTACGAGCCTAGGGGA
1 AAAATTTGATAAAAATCGTTTTACGAGCCTAGGGGA
* * * *
69666373 AAAA-TAG-T--AAATC-TTTTGCGAGGCTTGGCTAGTGA
1 AAAATTTGATAAAAATCGTTTTACGAGCCTAGG---G-GA
69666408 GAAAATTTGATAAAAATCGTTTTACGAGCCTAGGGGA
1 -AAAATTTGATAAAAATCGTTTTACGAGCCTAGGGGA
69666445 AAAAT
1 AAAAT
69666450 AGTAAATTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 20
0.67 0.10 0.23
Matches are distributed among these distances:
31 12 0.21
32 4 0.07
34 2 0.03
35 4 0.07
36 13 0.22
37 4 0.07
38 2 0.03
40 5 0.09
41 12 0.21
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (36 bp):
AAAATTTGATAAAAATCGTTTTACGAGCCTAGGGGA
Found at i:69667056 original size:48 final size:45
Alignment explanation
Indices: 69667000--69667167 Score: 173
Period size: 48 Copynumber: 3.6 Consensus size: 45
69666990 TGTGTGAGCT
69667000 AGTGTAAGACCATGTTTGGGACATGGCATCGGCTGCATTTCATATGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCTG-ATTT-ATA-GCC
* * *
69667048 AGTGTAAGACCATGTTTGGAAGATGACATCGGCT-ATGTTATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCTGAT-TTAT---AGCC
*
69667096 AGTGTAAGACCATG-TT-GGACATGGCATCGGTGTTGATTGTA-AGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATC-G-GCTGATT-TATAGCC
*
69667141 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACCATGTTTGGGACATGGC
69667168 GTTGGCCACC
Statistics
Matches: 102, Mismatches: 8, Indels: 21
0.78 0.06 0.16
Matches are distributed among these distances:
45 18 0.18
46 14 0.14
47 14 0.14
48 51 0.50
49 5 0.05
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (45 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCTGATTTATAGCC
Done.