Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 119 of 196
Found at i:35998549 original size:18 final size:17
Alignment explanation
Indices: 35998523--35998561 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
35998513 ATTTTCCTTC
35998523 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
35998540 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
35998558 CACA
1 CACA
35998562 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:36005353 original size:15 final size:16
Alignment explanation
Indices: 36005333--36005366 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
36005323 ACGGATTGGG
36005333 TTTTTATT-TTTCTAT
1 TTTTTATTATTTCTAT
*
36005348 TTTTTATTATTTTTAT
1 TTTTTATTATTTCTAT
36005364 TTT
1 TTT
36005367 CTTCTGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTATTATTTCTAT
Found at i:36005509 original size:11 final size:11
Alignment explanation
Indices: 36005493--36005518 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36005483 ATTTCAGATT
36005493 TTTTTATTTTA
1 TTTTTATTTTA
36005504 TTTTTATTTTA
1 TTTTTATTTTA
36005515 TTTT
1 TTTT
36005519 CTTTCCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:36006204 original size:23 final size:20
Alignment explanation
Indices: 36006176--36006220 Score: 54
Period size: 23 Copynumber: 2.1 Consensus size: 20
36006166 ATATAGATCC
36006176 TTTTATTTTGTTATATGATATTA
1 TTTTATTTT-TT-TATG-TATTA
*
36006199 TTTTATGTTTTTATGTATTA
1 TTTTATTTTTTTATGTATTA
36006219 TT
1 TT
36006221 ACTTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 4 0.19
22 2 0.10
23 8 0.38
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (20 bp):
TTTTATTTTTTTATGTATTA
Found at i:36008748 original size:4 final size:4
Alignment explanation
Indices: 36008741--36008766 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
36008731 AATAAGTACG
36008741 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
36008767 GCATCAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:36011891 original size:21 final size:23
Alignment explanation
Indices: 36011867--36011911 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
36011857 GGCTGTAATG
*
36011867 AGAATTT-CTAGAAATTTT-AAA
1 AGAATTTAATAGAAATTTTCAAA
36011888 AGAATTTAATAGAAATTTTCAAA
1 AGAATTTAATAGAAATTTTCAAA
36011911 A
1 A
36011912 ATCCTATGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 10 0.48
23 4 0.19
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (23 bp):
AGAATTTAATAGAAATTTTCAAA
Found at i:36014979 original size:24 final size:23
Alignment explanation
Indices: 36014940--36015016 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 23
36014930 TGGAAGAGTT
*
36014940 ACAAAGCGGTAAAGCAAAAGAGGC
1 ACAAAGCAG-AAAGCAAAAGAGGC
* **
36014964 ACAGAGCA-AAGCAGCAGCAGAGGC
1 ACAAAGCAGAA--AGCAAAAGAGGC
36014988 ACAAAGCAGTAAAGCAAAAGAGGC
1 ACAAAGCAG-AAAGCAAAAGAGGC
36015012 ACAAA
1 ACAAA
36015017 AGCCAGAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
22 2 0.05
24 38 0.90
26 2 0.05
ACGTcount: A:0.51, C:0.19, G:0.27, T:0.03
Consensus pattern (23 bp):
ACAAAGCAGAAAGCAAAAGAGGC
Found at i:36020455 original size:10 final size:10
Alignment explanation
Indices: 36020440--36020469 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
36020430 TATATATTTT
36020440 TATTTTTAAA
1 TATTTTTAAA
*
36020450 TATTTTAAAA
1 TATTTTTAAA
36020460 TATTTTTAAA
1 TATTTTTAAA
36020470 ATACTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATTTTTAAA
Found at i:36022928 original size:31 final size:31
Alignment explanation
Indices: 36022893--36022975 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 31
36022883 TAGCCAAGTA
* *
36022893 ACTTAAATAAAAACTTTCGAATAATTCGATG
1 ACTTAAATGAAAACTTTCAAATAATTCGATG
*
36022924 ACTTAAATGAAAACTTTCAAATAGTTCGATG
1 ACTTAAATGAAAACTTTCAAATAATTCGATG
* *
36022955 ACTAAAATGGAAACTTTCAAA
1 ACTTAAATGAAAACTTTCAAA
36022976 CAGTCAAGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (31 bp):
ACTTAAATGAAAACTTTCAAATAATTCGATG
Found at i:36029384 original size:16 final size:16
Alignment explanation
Indices: 36029363--36029404 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
36029353 TAGTTCACTG
36029363 TAATTGAATAGAGCTA
1 TAATTGAATAGAGCTA
*
36029379 TAATTGAATAGAGCTG
1 TAATTGAATAGAGCTA
*
36029395 TAATGGAATA
1 TAATTGAATA
36029405 AAGTTGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (16 bp):
TAATTGAATAGAGCTA
Found at i:36029412 original size:16 final size:16
Alignment explanation
Indices: 36029360--36029414 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
36029350 GTTTAGTTCA
* *
36029360 CTGTAATTGAATAGAG
1 CTGTAATGGAATAAAG
* * *
36029376 CTATAATTGAATAGAG
1 CTGTAATGGAATAAAG
36029392 CTGTAATGGAATAAAG
1 CTGTAATGGAATAAAG
*
36029408 TTGTAAT
1 CTGTAAT
36029415 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (16 bp):
CTGTAATGGAATAAAG
Found at i:36029603 original size:22 final size:22
Alignment explanation
Indices: 36029576--36029627 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
36029566 ATTGTTATTG
36029576 TTATTAAATTTTAATAAGATTA
1 TTATTAAATTTTAATAAGATTA
*
36029598 TTATTAAATTTTAATAAGGTTA
1 TTATTAAATTTTAATAAGATTA
36029620 TTATTAAA
1 TTATTAAA
36029628 AATACTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (22 bp):
TTATTAAATTTTAATAAGATTA
Found at i:36029733 original size:58 final size:58
Alignment explanation
Indices: 36029621--36029735 Score: 151
Period size: 58 Copynumber: 2.0 Consensus size: 58
36029611 ATAAGGTTAT
* * *
36029621 TATTAAAAATACTTTAATAAAAATAATAAATAATTTAACCATATTTTAACATAATTAC
1 TATTAAAAATAATTTAATAAAAATAATAAATAATTTAACAAAATTTTAACATAATTAC
* * * *
36029679 TATTAAATATAATTTAAT-AAAATAATATATAATTTAATAAAATTCTTAATATAATTA
1 TATTAAAAATAATTTAATAAAAATAATAAATAATTTAACAAAATT-TTAACATAATTA
36029736 TTATATGAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
57 22 0.45
58 27 0.55
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (58 bp):
TATTAAAAATAATTTAATAAAAATAATAAATAATTTAACAAAATTTTAACATAATTAC
Found at i:36029784 original size:23 final size:23
Alignment explanation
Indices: 36029748--36029793 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
36029738 ATATGAATTA
*
36029748 AAAAATCATAATATATAATACTAT
1 AAAAATAATAATATATAAT-CTAT
36029772 AAAAATAAT-ATATATAATCTAT
1 AAAAATAATAATATATAATCTAT
36029794 TTTATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.19
23 9 0.43
24 8 0.38
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAAATAATAATATATAATCTAT
Found at i:36032453 original size:23 final size:23
Alignment explanation
Indices: 36032427--36032473 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
36032417 TCAAAAATAC
*
36032427 ATAATTTGGGCATTTTTCATTTT
1 ATAATTTGGGCATTTTGCATTTT
36032450 ATAATTTGGGCATTTTGCATTTT
1 ATAATTTGGGCATTTTGCATTTT
36032473 A
1 A
36032474 GCCCCTAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.15, T:0.53
Consensus pattern (23 bp):
ATAATTTGGGCATTTTGCATTTT
Found at i:36040841 original size:41 final size:41
Alignment explanation
Indices: 36040776--36040921 Score: 195
Period size: 41 Copynumber: 3.6 Consensus size: 41
36040766 TTTAAACAGA
* * * * *
36040776 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTCTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAG
*
36040817 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
* * *
36040858 TTTACTGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
36040899 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
36040922 ATGTATAGTC
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 1 0.01
41 91 0.99
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
Found at i:36040944 original size:41 final size:41
Alignment explanation
Indices: 36040817--36040949 Score: 128
Period size: 41 Copynumber: 3.2 Consensus size: 41
36040807 TCTAATTCCG
** *
36040817 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAGT
1 TTCACCGGCACTTAGCCTGCTA-GATTATAGCCTGATTCAAT
* * * *
36040859 TT-ACTGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTC-AG
1 TTCACCGGCACTTAGCCTGCTA-GATTATAGCCTGATTCAAT
* *
36040899 TTCACCGGCACTTAGCCTGCTAGATGTATAGTCTGA-ACAAT
1 TTCACCGGCACTTAGCCTGCTAGAT-TATAGCCTGATTCAAT
*
36040940 TTCACTGGCA
1 TTCACCGGCA
36040950 ATAAATCCGA
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
40 5 0.07
41 69 0.91
42 2 0.03
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGATTATAGCCTGATTCAAT
Found at i:36040947 original size:82 final size:83
Alignment explanation
Indices: 36040776--36040949 Score: 219
Period size: 82 Copynumber: 2.1 Consensus size: 83
36040766 TTTAAACAGA
* * *
36040776 TTCACTGGCACTTCACCTGATAGGCTTATAGTCTAATTCCGTTCACCGGCACTTAGCCTGCTAGG
1 TTCACTGGCACTTCACCTGATAGGCTTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAGA
* *
36040841 CCTATAGCCTGATTCAGT
66 CCTATAGCCTGATACAAT
* * *
36040859 TT-ACTGGCACTT-AGCCTGCTAGGCTTGTAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAG
1 TTCACTGGCACTTCA-CCTGATAGGCTTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAG
** *
36040922 ATGTATAGTCTGA-ACAAT
65 ACCTATAGCCTGATACAAT
36040940 TTCACTGGCA
1 TTCACTGGCA
36040950 ATAAATCCGA
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
81 6 0.08
82 70 0.90
83 2 0.03
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (83 bp):
TTCACTGGCACTTCACCTGATAGGCTTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAGA
CCTATAGCCTGATACAAT
Found at i:36048306 original size:33 final size:29
Alignment explanation
Indices: 36048268--36048342 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 29
36048258 CAACTATAAG
36048268 TGCCGAATGCACATAT-TCACTTATACCTACCTA
1 TGCCGAATGCACATATAT-A--TAT-CC-ACCTA
36048301 TGCCGAATGCATACATATATATATCCACCTA
1 TGCCGAATGC--ACATATATATATCCACCTA
36048332 TGCCGAATGCA
1 TGCCGAATGCA
36048343 TACATATACA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
29 1 0.03
31 15 0.38
32 2 0.05
33 13 0.33
35 7 0.18
36 1 0.03
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (29 bp):
TGCCGAATGCACATATATATATCCACCTA
Found at i:36048319 original size:27 final size:27
Alignment explanation
Indices: 36048289--36048351 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 27
36048279 CATATTCACT
36048289 TATACCTACCTATGCCGAATGCATACATATA
1 TATACC-ACCTATGCCGAATGCATAC--A-A
36048320 TATATCCACCTATGCCGAATGCATAC-A
1 TATA-CCACCTATGCCGAATGCATACAA
36048347 TATAC
1 TATAC
36048352 ACACTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
26 1 0.03
27 5 0.16
31 23 0.74
32 2 0.06
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.29
Consensus pattern (27 bp):
TATACCACCTATGCCGAATGCATACAA
Found at i:36048605 original size:41 final size:41
Alignment explanation
Indices: 36048540--36048685 Score: 204
Period size: 41 Copynumber: 3.6 Consensus size: 41
36048530 TTTAAGCAGA
* * * * *
36048540 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTCTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAG
* *
36048581 TTCATCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
*
36048622 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
36048663 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
36048686 ACGTATAGTC
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 1 0.01
41 93 0.99
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
Found at i:36048708 original size:82 final size:82
Alignment explanation
Indices: 36048540--36048713 Score: 208
Period size: 82 Copynumber: 2.1 Consensus size: 82
36048530 TTTAAGCAGA
* * * *
36048540 TTCACTGGCACTTCACCTGATAGGCTTATAGTCTAATTCCGTTCATCGGCACTTAGCCTGCTAGG
1 TTCACTGGCACTTCACCTGATAGGCTTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAGA
*
36048605 CCTATAGCCTGATTCAG
66 CCTATAGCCTGATACAG
* * * *
36048622 TTCACCGGCACTT-AGCCTGCTAGGCTTGTAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAG
1 TTCACTGGCACTTCA-CCTGATAGGCTTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAG
* * *
36048686 ACGTATAGTCTGA-ACAAT
65 ACCTATAGCCTGATAC-AG
36048704 TTCACTGGCA
1 TTCACTGGCA
36048714 ATAAATCCGA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
81 2 0.03
82 75 0.97
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (82 bp):
TTCACTGGCACTTCACCTGATAGGCTTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAGA
CCTATAGCCTGATACAG
Found at i:36051879 original size:30 final size:30
Alignment explanation
Indices: 36051822--36051880 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
36051812 TTGGGATTGA
* * **
36051822 GAAGACTTGATATCTCGTTCAGGAGCTTGT
1 GAAGACTTGATATCGCATTCAAAAGCTTGT
36051852 GAAGACTTGATATCGCATTCAAAAGCTTG
1 GAAGACTTGATATCGCATTCAAAAGCTTG
36051881 GGATTGAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (30 bp):
GAAGACTTGATATCGCATTCAAAAGCTTGT
Found at i:36051892 original size:66 final size:66
Alignment explanation
Indices: 36051776--36051909 Score: 178
Period size: 66 Copynumber: 2.0 Consensus size: 66
36051766 GAGTATGTTT
* ** * *
36051776 AGGAACTTGAGAAGACTCGATATCTCATTCAGGATATTGGGATTGAGAAGACTTGATATCTCGTT
1 AGGAACTTGAGAAGACTCGATATCGCATTCAAAAGATTGGGATTGAGAAGACTTGATATCTCATT
36051841 C
66 C
* * * * *
36051842 AGGAGCTTGTGAAGACTTGATATCGCATTCAAAAGCTTGGGATTGAGAAGACTTGATATGTCATT
1 AGGAACTTGAGAAGACTCGATATCGCATTCAAAAGATTGGGATTGAGAAGACTTGATATCTCATT
36051907 C
66 C
36051908 AG
1 AG
36051910 AAGCATGGGA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (66 bp):
AGGAACTTGAGAAGACTCGATATCGCATTCAAAAGATTGGGATTGAGAAGACTTGATATCTCATT
C
Found at i:36051899 original size:36 final size:36
Alignment explanation
Indices: 36051782--36051919 Score: 128
Period size: 36 Copynumber: 4.0 Consensus size: 36
36051772 GTTTAGGAAC
* * * **
36051782 TTGAGAAGACTCGATATCTCATTCAGGATATTGGGA
1 TTGAGAAGACTTGATATCGCATTCAGAAGCTTGGGA
* * *
36051818 TTGAGAAGACTTGATATCTCGTTCAGGAGCTT--G-
1 TTGAGAAGACTTGATATCGCATTCAGAAGCTTGGGA
*
36051851 -T--GAAGACTTGATATCGCATTCAAAAGCTTGGGA
1 TTGAGAAGACTTGATATCGCATTCAGAAGCTTGGGA
*
36051884 TTGAGAAGACTTGATAT-GTCATTCAGAAGCATGGGA
1 TTGAGAAGACTTGATATCG-CATTCAGAAGCTTGGGA
36051920 ATATCTGATA
Statistics
Matches: 85, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
30 24 0.28
32 2 0.02
34 2 0.02
35 1 0.01
36 56 0.66
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (36 bp):
TTGAGAAGACTTGATATCGCATTCAGAAGCTTGGGA
Found at i:36056210 original size:16 final size:16
Alignment explanation
Indices: 36056191--36056221 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36056181 AAAAAACAGA
*
36056191 AAAATATTAAAATTAT
1 AAAATATAAAAATTAT
36056207 AAAATATAAAAATTA
1 AAAATATAAAAATTA
36056222 AAATTGATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATATAAAAATTAT
Found at i:36056327 original size:21 final size:21
Alignment explanation
Indices: 36056286--36056340 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
36056276 ATAAATTATG
36056286 AAAA-ATA-TAAAA-TTAAT-
1 AAAACATATTAAAATTTAATA
*
36056303 AAAACATATTTAAAATTTTATA
1 AAAACATA-TTAAAATTTAATA
*
36056325 AAAACGTATTAAAATT
1 AAAACATATTAAAATT
36056341 CTAAAATCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 4 0.13
18 3 0.10
20 5 0.16
21 12 0.39
22 7 0.23
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAACATATTAAAATTTAATA
Found at i:36056375 original size:20 final size:20
Alignment explanation
Indices: 36056293--36056396 Score: 58
Period size: 20 Copynumber: 5.3 Consensus size: 20
36056283 ATGAAAAATA
* *
36056293 TAAAATTAATAAAACA-TATT
1 TAAAATTATTAAAAAATTA-T
*
36056313 TAAAATT-TTATAAAAACGTAT
1 TAAAATTATTA-AAAAA-TTAT
* *
36056334 TAAAATT-CT--AAAATCAT
1 TAAAATTATTAAAAAATTAT
*
36056351 GAAAATTATTAAAAAATTAT
1 TAAAATTATTAAAAAATTAT
*
36056371 TAAAAATA-TAAAAAATATAT
1 TAAAATTATTAAAAAAT-TAT
*
36056391 AAAAAT
1 TAAAAT
36056397 ATATCGTTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
17 8 0.12
18 5 0.08
19 10 0.15
20 31 0.48
21 9 0.14
22 2 0.03
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAAATTATTAAAAAATTAT
Found at i:36056382 original size:19 final size:19
Alignment explanation
Indices: 36056360--36056399 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
36056350 TGAAAATTAT
36056360 TAAAAAAT-TATTAAAAATA
1 TAAAAAATATA-TAAAAATA
36056379 TAAAAAATATATAAAAATA
1 TAAAAAATATATAAAAATA
36056398 TA
1 TA
36056400 TCGTTAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAAAATATATAAAAATA
Found at i:36056397 original size:10 final size:10
Alignment explanation
Indices: 36056362--36056400 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
36056352 AAAATTATTA
36056362 AAAAAT-TATT
1 AAAAATATA-T
36056372 AAAAATATA-
1 AAAAATATAT
36056381 AAAAATATAT
1 AAAAATATAT
36056391 AAAAATATAT
1 AAAAATATAT
36056401 CGTTAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.33
10 16 0.59
11 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAAATATAT
Found at i:36056560 original size:16 final size:16
Alignment explanation
Indices: 36056541--36056574 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36056531 TGATTTTTCA
36056541 TTTTAAATATTTTTAT
1 TTTTAAATATTTTTAT
**
36056557 TTTTTTATATTTTTAT
1 TTTTAAATATTTTTAT
36056573 TT
1 TT
36056575 AATTGAACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTAAATATTTTTAT
Found at i:36056963 original size:9 final size:9
Alignment explanation
Indices: 36056942--36057047 Score: 51
Period size: 9 Copynumber: 11.4 Consensus size: 9
36056932 TTAAAATATG
36056942 TTTTACTAA-
1 TTTTA-TAAT
36056951 TTTTATAATTT
1 TTTTATAA--T
36056962 TTTTATAAT
1 TTTTATAAT
* *
36056971 ATTTATAGGT
1 TTTTATA-AT
*
36056981 TTATATCAAT
1 TTTTAT-AAT
*
36056991 TTTAATAAT
1 TTTTATAAT
*
36057000 TTTCAT-AT
1 TTTTATAAT
36057008 TATCTT-T-A-
1 T-T-TTATAAT
36057016 TTTTATAATT
1 TTTTATAA-T
36057026 TTTTATAAT
1 TTTTATAAT
*
36057035 TTTTCTAAT
1 TTTTATAAT
36057044 TTTT
1 TTTT
36057048 GAATTTTTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 22
0.70 0.09 0.20
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 8 0.11
9 36 0.47
10 19 0.25
11 9 0.12
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:36057539 original size:22 final size:22
Alignment explanation
Indices: 36057511--36057560 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
36057501 ACAAATCCTA
36057511 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
36057533 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCCAAAATCC
36057555 TCTCAA
1 TCTCAA
36057561 ACTCTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:36057567 original size:52 final size:52
Alignment explanation
Indices: 36057511--36057613 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
36057501 ACAAATCCTA
* *
36057511 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAATTCTCTCAAAC
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAAATCTATCAAAC
*
36057563 TCTCAATTTCCTTCCAAAATCCTTTCAATTTCCTTCCAAAAATCTATCAAA
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAAATCTATCAAA
36057614 TCCATATTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.31, C:0.32, G:0.00, T:0.37
Consensus pattern (52 bp):
TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAAATCTATCAAAC
Found at i:36057612 original size:22 final size:22
Alignment explanation
Indices: 36057565--36057612 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
36057555 TCTCAAACTC
*
36057565 TCAATTTCCTTCCAAAATCCTT
1 TCAATTTCCTTCCAAAATCCTA
36057587 TCAATTTCCTTCCAAAAAT-CTA
1 TCAATTTCCTTCC-AAAATCCTA
36057609 TCAA
1 TCAA
36057613 ATCCATATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (22 bp):
TCAATTTCCTTCCAAAATCCTA
Found at i:36057680 original size:30 final size:30
Alignment explanation
Indices: 36057646--36057703 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
36057636 CCTCAATTTC
36057646 ATTTTTTTAAAATAATTTTAATTTTTTTAT
1 ATTTTTTTAAAATAATTTTAATTTTTTTAT
36057676 ATTTTTTTAAAATAATTTTAATTTTTTT
1 ATTTTTTTAAAATAATTTTAATTTTTTT
36057704 TAAATTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (30 bp):
ATTTTTTTAAAATAATTTTAATTTTTTTAT
Found at i:36057701 original size:20 final size:21
Alignment explanation
Indices: 36057670--36057708 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
36057660 ATTTTAATTT
36057670 TTTTATATTTTTTTAAAATAA
1 TTTTATATTTTTTTAAAATAA
*
36057691 TTTTA-ATTTTTTTTAAAT
1 TTTTATATTTTTTTAAAAT
36057709 TTTCATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATATTTTTTTAAAATAA
Found at i:36057702 original size:31 final size:30
Alignment explanation
Indices: 36057646--36057711 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
36057636 CCTCAATTTC
*
36057646 ATTTTTTTAAAATAATTTTAATTTTTTTAT
1 ATTTTTTTAAAATAATTTTAATTTTTTTAA
36057676 ATTTTTTTAAAATAATTTTAATTTTTTTTAA
1 ATTTTTTTAAAATAATTTTAA-TTTTTTTAA
36057707 ATTTT
1 ATTTT
36057712 CATCAATGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 21 0.62
31 13 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (30 bp):
ATTTTTTTAAAATAATTTTAATTTTTTTAA
Found at i:36058809 original size:7 final size:7
Alignment explanation
Indices: 36058793--36058830 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
36058783 AGTGGATTGA
*
36058793 TATTTAG
1 TATTTTG
36058800 TATTTTG
1 TATTTTG
36058807 TATTTTG
1 TATTTTG
36058814 TATTTTG
1 TATTTTG
*
36058821 TATTATG
1 TATTTTG
36058828 TAT
1 TAT
36058831 ATAACTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (7 bp):
TATTTTG
Found at i:36060139 original size:29 final size:29
Alignment explanation
Indices: 36060020--36061027 Score: 1595
Period size: 29 Copynumber: 34.9 Consensus size: 29
36060010 GTAAAAAAAT
*
36060020 CCTAATTTAATTAAAAACCCTAAACACTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
*
36060050 CCTAATTTAATTAAAAACCCTAAACACTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
*
36060080 CCTAATTTAATTAAAAACCCTAAACACTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
36060110 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
36060139 CTTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
36060168 CTTAATTTAATTAAAAACCCTAACCCTAG
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
36060197 CTTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
36060226 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
* *
36060256 CCTAATTTAATTAAAAACTCTAACTCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
36060285 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
36060314 CTTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
** *
36060343 TTTAATTTAATTAAAAATCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
36060372 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
36060402 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
36060431 CCTAATTTAATTAAAAACCCTAA-CCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
36060459 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
36060488 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
**
36060517 CCTAATTTAATTAAAAACCCTAAAATCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
*
36060547 CCTAATTTAATTAAAAACCCTAACTCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
36060576 CCTAATTTAATT--AAA----AACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
36060599 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
36060628 CCTAATTTAAGTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
36060657 CCTAATTTAAGTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* * *
36060686 CTTAAATTAATTAAAAACTCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
36060715 CCTAATTTAATTAAAAACCCTAACCCT-A
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
36060743 --TAATTTAATTAAAAACTCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
36060770 CCTAATTTAATTAAAAACCCTAACCCTGA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
36060799 CTTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
36060828 CTTAATTTAATTGAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
36060857 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
36060886 CTTAATTTAATTGAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
36060915 CCTAATTTAATTAAAAACCCTAACCCTAG
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
36060944 CTTGATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
36060973 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
*
36061003 CTTAATTTAATTAAAAACCCTAACC
1 CCTAATTTAATTAAAAACCCTAACC
36061028 ATTCACAAAA
Statistics
Matches: 918, Mismatches: 46, Indels: 29
0.92 0.05 0.03
Matches are distributed among these distances:
23 19 0.02
25 3 0.00
26 24 0.03
27 4 0.00
28 29 0.03
29 646 0.70
30 193 0.21
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:36060621 original size:18 final size:20
Alignment explanation
Indices: 36060575--36060617 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
36060565 CCTAACTCTA
36060575 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
36060596 TAACCTAATTTAATTAAAAACC
1 --ACCTAATTTAATTAAAAACC
36060618 CTAACCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:36062835 original size:27 final size:27
Alignment explanation
Indices: 36062805--36062955 Score: 171
Period size: 27 Copynumber: 5.6 Consensus size: 27
36062795 ATATTGAGTC
* * *
36062805 CGCACACTCAGTGCTATATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36062832 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
36062860 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
36062887 CGCACACTTAGTGCATCACAT--TCATTT
1 CGCACACTTAGTGC-T-ACATAGTCAAAT
*
36062914 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36062941 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36062956 GTACAATTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.04
27 75 0.71
28 23 0.22
29 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:36074504 original size:3 final size:3
Alignment explanation
Indices: 36074496--36074522 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
36074486 GCGGTGCTGT
36074496 TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG
36074523 ACCTTGTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:36082706 original size:54 final size:54
Alignment explanation
Indices: 36082648--36082750 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
36082638 TTATAATTTA
* *
36082648 TTTTTTAGTCACTCAACTATG-AAAATTATAAAATGGTCATTCAACTATTAGTAT
1 TTTTTTA-TCACTCAAATATGAAAAATTATAAAATGGTCACTCAACTATTAGTAT
* *
36082702 TTTTTTATCACTCAAATATGAAAAATTATAGAATGGTCACTCAATTATT
1 TTTTTTATCACTCAAATATGAAAAATTATAAAATGGTCACTCAACTATT
36082751 TAATTTTGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 12 0.27
54 32 0.73
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.41
Consensus pattern (54 bp):
TTTTTTATCACTCAAATATGAAAAATTATAAAATGGTCACTCAACTATTAGTAT
Found at i:36084193 original size:3 final size:3
Alignment explanation
Indices: 36084185--36084209 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
36084175 ATTATTGCCA
36084185 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
36084210 GTTTAATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:36086753 original size:29 final size:29
Alignment explanation
Indices: 36086721--36086783 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
36086711 TCATGTGTAT
* *
36086721 AATTGT-ACTAAATCAAAGTTCATGTATCA
1 AATTGTAACTAAACCAAAGTTCATATAT-A
*
36086750 AATTGTAAATTAAACCAAAGTTCATATATA
1 AATTGT-AACTAAACCAAAGTTCATATATA
36086780 AATT
1 AATT
36086784 TGATATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 6 0.21
30 5 0.17
31 18 0.62
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (29 bp):
AATTGTAACTAAACCAAAGTTCATATATA
Found at i:36088329 original size:27 final size:28
Alignment explanation
Indices: 36088280--36088332 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
36088270 AAAAAATCAA
* *
36088280 CTTTTAAGGGGCTCAAAAGTTTTTTTAG
1 CTTTTAAGAGCCTCAAAAGTTTTTTTAG
*
36088308 CTTTTAAGAGCCT-AAAATTTTTTTT
1 CTTTTAAGAGCCTCAAAAGTTTTTTT
36088333 TACCAACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.47
Consensus pattern (28 bp):
CTTTTAAGAGCCTCAAAAGTTTTTTTAG
Found at i:36088385 original size:32 final size:32
Alignment explanation
Indices: 36088308--36088388 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 32
36088298 GTTTTTTTAG
* *
36088308 CTTTTAAGAGCCT-AAAATTTTTTTTTACCAA
1 CTTTTAAGAACCTAAAAATTTTTTTCTACCAA
* * *
36088339 CTTTTGAGGGACCTAAAAATTTTTTTCT-CTAA
1 CTTTT-AAGAACCTAAAAATTTTTTTCTACCAA
36088371 CTTTTAAAGAACCTAAAA
1 CTTTT-AAGAACCTAAAA
36088389 CTCCATTTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
31 5 0.12
32 23 0.57
33 12 0.30
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.41
Consensus pattern (32 bp):
CTTTTAAGAACCTAAAAATTTTTTTCTACCAA
Found at i:36097653 original size:2 final size:2
Alignment explanation
Indices: 36097646--36097676 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36097636 TGAAGGAAGA
36097646 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36097677 GCAGGTGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36106039 original size:19 final size:19
Alignment explanation
Indices: 36106017--36106065 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
36106007 TTTAAAATTT
36106017 AAAATAATTAAAATTATAAA
1 AAAATAATTAAAATT-TAAA
* *
36106037 AAAATAATTTTATATTT-AA
1 AAAATAA-TTAAAATTTAAA
36106056 AAAATAATTA
1 AAAATAATTA
36106066 CTGACCTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 9 0.36
20 8 0.32
21 6 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATAATTAAAATTTAAA
Found at i:36112249 original size:3 final size:3
Alignment explanation
Indices: 36112241--36112274 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
36112231 CAATATGTTT
36112241 TAA TAA TAA TAA -AA TAA TAA TAA TAA TAA CTAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA T
36112275 TTTATAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:36120014 original size:19 final size:20
Alignment explanation
Indices: 36119979--36120017 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
36119969 AAAAGGCGGG
*
36119979 CTGAGGGTTTCTTTTTTTCT
1 CTGAAGGTTTCTTTTTTTCT
36119999 CTGAAGGTTT-TTTTTTTCT
1 CTGAAGGTTTCTTTTTTTCT
36120018 AAACAATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.08, C:0.13, G:0.18, T:0.62
Consensus pattern (20 bp):
CTGAAGGTTTCTTTTTTTCT
Found at i:36120448 original size:3 final size:3
Alignment explanation
Indices: 36120440--36120471 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
36120430 CAATTTTATG
36120440 TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T
36120472 ATATATCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36133095 original size:44 final size:43
Alignment explanation
Indices: 36133028--36133193 Score: 156
Period size: 44 Copynumber: 3.8 Consensus size: 43
36133018 AAAGAATTTC
* *
36133028 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACA
*
36133071 GAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA
1 -AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACA
** * * * * *
36133115 CTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATT-AAAATAA
1 AGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGA-CA
* * * *
36133158 AGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGAT
1 A-GATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
36133194 CGCATCAAGT
Statistics
Matches: 98, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 4 0.04
43 29 0.30
44 65 0.66
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACA
Found at i:36133145 original size:87 final size:88
Alignment explanation
Indices: 36132985--36133195 Score: 212
Period size: 87 Copynumber: 2.4 Consensus size: 88
36132975 ATTATACAGG
* * * * * *
36132985 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAA--TCAGATCCTATCTCCCTGAAGTTA
* * *
36133050 CAGCGGAGCAGATTGAAGC-CAGAGA
64 CAGCGGAGCAGATTAAAACAAAG-GA
*
36133075 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-CACTATCCTATCTCCCTGAAGTTAC
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAATCA-GATCCTATCTCCCTGAAGTTAC
* * *
36133138 AGTGGAGCGGATTAAAATAAAGGA
65 AGCGGAGCAGATTAAAACAAAGGA
* * * *
36133162 TCTTATCTCTCTGAGGTTACAGCAGAGTAGATCG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCG
36133196 CATCAAGTCT
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
86 2 0.02
87 64 0.63
88 2 0.02
89 1 0.01
90 33 0.32
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (88 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAATCAGATCCTATCTCCCTGAAGTTACA
GCGGAGCAGATTAAAACAAAGGA
Found at i:36133505 original size:87 final size:87
Alignment explanation
Indices: 36133400--36133695 Score: 255
Period size: 87 Copynumber: 3.4 Consensus size: 87
36133390 GAAGTCACGA
* * * * *
36133400 ATCTTATCCCCCTGAAGTTGTAGTGGGGCA-AGTTGAAGATATGAGTCCTATCTCCCTGAAGTTA
1 ATCTTATCTCCCTGAAGTTATAGTGGAGCAGA-TCGAAGACATGAGTCCTATCTCCCTGAAGTTA
36133464 TAGTGGAGCGGATTAAAATAAGG
65 TAGTGGAGCGGATTAAAATAAGG
* * * * * * * *
36133487 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-CCA-G-GTCTTATCTCCTTG-AGATTA
1 ATCTTATCTCCCTGAAGTTATAGTGGAGCAGATCGAAGACATGAGTCCTATCTCCCTGAAG-TTA
* ** *
36133548 TAGTGGAGCAGACCGAAGAATTTCA-G
65 TAGTGGAGCGGA-TTAA-AA--TAAGG
* * * *
36133574 ATCTTATCTCCCTGAGGTTATAGCGGAGCAGATCGAAGACAT-AATCCTATCTCCCTGAAGTTAC
1 ATCTTATCTCCCTGAAGTTATAGTGGAGCAGATCGAAGACATGAGTCCTATCTCCCTGAAGTTAT
36133638 AGTGGAGCGGATTAAAATAAAGG
66 AGTGGAGCGGATTAAAAT-AAGG
* * * *
36133661 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
1 ATCTTATCTCCCTGAAGTTATAGTGGAGCAGATCG
36133696 CATCAGGTCT
Statistics
Matches: 158, Mismatches: 39, Indels: 24
0.71 0.18 0.11
Matches are distributed among these distances:
83 2 0.01
84 26 0.16
85 4 0.03
86 4 0.03
87 89 0.56
88 7 0.04
89 24 0.15
90 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (87 bp):
ATCTTATCTCCCTGAAGTTATAGTGGAGCAGATCGAAGACATGAGTCCTATCTCCCTGAAGTTAT
AGTGGAGCGGATTAAAATAAGG
Found at i:36133506 original size:43 final size:43
Alignment explanation
Indices: 36133400--36133680 Score: 148
Period size: 43 Copynumber: 6.5 Consensus size: 43
36133390 GAAGTCACGA
* * * * *
36133400 ATCTTATCCCCCTGAAGTTGTAGTGGGGCA-AGTTGAAGAT-ATG
1 ATCTTATCTCCCTGAAGTTATAGTGGAGCAGA-TT-AAAATAAGG
* *
36133443 AGTCCTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAATAAGG
1 A-TCTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAATAAGG
* * * * *** **
36133487 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCGCACCAGG
1 ATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAATAAGG
* ** *
36133529 -TCTTATCTCCTTG-AGATTATAGTGGAGCAGACCGAAGAATTTCA-G
1 ATCTTATCTCCCTGAAG-TTATAGTGGAGCAGA-TTAA-AA--TAAGG
* * *
36133574 ATCTTATCTCCCTGAGGTTATAGCGGAGCAGATCGAAGACAT-A--
1 ATCTTATCTCCCTGAAGTTATAGTGGAGCAGAT-TAA-A-ATAAGG
* * *
36133617 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
1 ATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAAT-AAGG
*
36133661 ATCTTATCTCTCTGAAGTTA
1 ATCTTATCTCCCTGAAGTTA
36133681 CAGTAGAGTA
Statistics
Matches: 181, Mismatches: 40, Indels: 33
0.71 0.16 0.13
Matches are distributed among these distances:
40 4 0.02
41 24 0.13
42 8 0.04
43 58 0.32
44 49 0.27
45 3 0.02
46 33 0.18
47 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAATAAGG
Found at i:36133801 original size:174 final size:171
Alignment explanation
Indices: 36133445--36133783 Score: 502
Period size: 174 Copynumber: 2.0 Consensus size: 171
36133435 AAGATATGAG
*
36133445 TCCTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAATAAGGATCTTATCTCTCTGAAGTTACAG
1 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGGATCTTATCTCTCTGAAGTTACAG
* *
36133510 TAGAGTAGATCGCACCAGGTCTTATCTCCTTGAGATTATAGTGGAGCAGACCGAAGAATTTCAGA
66 TAGAGTAGATCGCACCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAA--TCAGA
* * *
36133575 TCTTATCTCCCTGAGGTTATAGCGGAGCAGATCGAAGACATAA
129 TCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGACATAA
36133618 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
1 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT-AAGGATCTTATCTCTCTGAAGTTACA
* * ** *
36133683 GTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTGCAGTGGAGCAGATTGAAG-A-CACTA
65 GTAGAGTAGATCGCACCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATCA-GA
* * *
36133746 TCTTATTTTCCTGAGATTACAGTGGAGCAGACCGAAGA
129 TCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGA
36133784 AGTGCAGATC
Statistics
Matches: 150, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
170 2 0.01
171 33 0.22
173 38 0.25
174 77 0.51
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (171 bp):
TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGGATCTTATCTCTCTGAAGTTACAG
TAGAGTAGATCGCACCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATCAGATC
TTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGACATAA
Found at i:36133812 original size:46 final size:44
Alignment explanation
Indices: 36133529--36134025 Score: 272
Period size: 46 Copynumber: 11.5 Consensus size: 44
36133519 TCGCACCAGG
* * *
36133529 TCTTATCTCCTTGAGATTATAGTGGAGCAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAA--TCAGA
* * *
36133575 TCTTATCTCCCTGAGGTTATAGCGGAGCAGATCGAAGACAT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGA-ATCAGA
* * * *
36133618 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGAT-TAA-AATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAAT-CA-GA
* * * * *
36133662 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCATCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATCAGA
* * *
36133703 TCTTATCTCCCTGAGATTGCAGTGGAGCAGATTGAAG-A-CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATCA-GA
* * *
36133746 TCTTATTTTCCTGAGATTACAGTGGAGCAGACCGAAGAAGTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAA-T-CAGA
* *
36133792 TCTTATCTCCTTGAGATTACAGCGGAGCAGATC-AA-ATAT-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGA-ATCAG--A
* * * *
36133836 TCCTATTTCCCTGAGATTACAGTGGAGCGGATTGAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATCAGA
* ** * *
36133875 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG-CG--TCA-A
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATCAGA
* * * *
36133915 GTCTTATTTCCCTGAGGTTACAGTGGAACAGACCGAAGAATTTCAGA
1 -TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAA--TCAGA
* * * * *
36133962 TCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCCA-GAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG-AATCAGA
*
36134006 T-TTATCTCCCTAAGATTACA
1 TCTTATCTCCCTGAGATTACA
36134026 ACGGAGCAAA
Statistics
Matches: 345, Mismatches: 71, Indels: 73
0.71 0.15 0.15
Matches are distributed among these distances:
38 2 0.01
39 25 0.07
40 3 0.01
41 54 0.16
42 10 0.03
43 79 0.23
44 65 0.19
45 6 0.02
46 96 0.28
47 5 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATCAGA
Found at i:36133858 original size:174 final size:169
Alignment explanation
Indices: 36133468--36133993 Score: 469
Period size: 174 Copynumber: 3.1 Consensus size: 169
36133458 AAGTTATAGT
* * * *
36133468 GGAGCGGATTAAAAT-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCT
1 GGAGCAGA-TAAAATAAAGAATCCTATCTCCCTGAAGTTACAGTAGAGTAGATCGCA-CAGGTCT
* * * * * *
36133532 TATCTCCTTGAGATTATAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTATAG
64 TATCTCCCTGAGATTACAGTGGAGCAGATCGAAG-A---CACATCTTATTTCCCTGAGGTTACAG
* * * * *
36133597 CGGAGCAGATCGAAGACAT-A-ATCCTATCTCCCTGA-AGTTACAGT
125 TGGAGCAGACCGAAGA-ATCAGATCTTATCTCCTTGAGA-TTACAGC
* * * *
36133641 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
1 GGAGCAGA-TAAAATAAAGAATCCTATCTCCCTGAAGTTACAGTAGAGTAGATCGCA-CAGGTCT
* * * *
36133706 TATCTCCCTGAGATTGCAGTGGAGCAGATTGAAGACACTATCTTATTTTCCTGAGATTACAGTGG
64 TATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACAC-ATCTTATTTCCCTGAGGTTACAGTGG
36133771 AGCAGACCGAAGAAGTGCAGATCTTATCTCCTTGAGATTACAGC
128 AGCAGACCGAAGAA-T-CAGATCTTATCTCCTTGAGATTACAGC
* * * * ** *
36133815 GGAGCAGATCAAATATAGTAATCCTATTTCCCTG-AGATTACAGTGGAGCGGATTG-A-AGGATC
1 GGAGCAGATAAAATAAAG-AATCCTATCTCCCTGAAG-TTACAGTAGAGTAGATCGCACAGG-TC
* ** * * *
36133877 TTATCTCTCTGA-AGTTACAGCAGAGTAGATCG-CGTCA-AGTCTTATTTCCCTGAGGTTACAGT
63 TTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGACACA-TCTTATTTCCCTGAGGTTACAGT
*
36133939 GGAACAGACCGAAGAATTTCAGATCTTATCTCCTTGAGATTACAGC
126 GGAGCAGACCGAAGAA--TCAGATCTTATCTCCTTGAGATTACAGC
36133985 GGAGCAGAT
1 GGAGCAGAT
36133994 TGAAGCCAGA
Statistics
Matches: 301, Mismatches: 39, Indels: 29
0.82 0.11 0.08
Matches are distributed among these distances:
169 1 0.00
170 75 0.25
171 42 0.14
172 26 0.09
173 28 0.09
174 128 0.43
175 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (169 bp):
GGAGCAGATAAAATAAAGAATCCTATCTCCCTGAAGTTACAGTAGAGTAGATCGCACAGGTCTTA
TCTCCCTGAGATTACAGTGGAGCAGATCGAAGACACATCTTATTTCCCTGAGGTTACAGTGGAGC
AGACCGAAGAATCAGATCTTATCTCCTTGAGATTACAGC
Found at i:36133930 original size:213 final size:211
Alignment explanation
Indices: 36133529--36134129 Score: 669
Period size: 213 Copynumber: 2.8 Consensus size: 211
36133519 TCGCACCAGG
* * *
36133529 TCTTATCTCCTTGAGATTATAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCTTGAGATTACAGTGGAGCAGACCGAAGAA-TGCAGATCTTATCTCCCTGAGATTA
* * *
36133594 TAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAA
65 CAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAA-TTACAGTGGAGCGGA-T----TGAA
* * *
36133659 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTGCA
124 GGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGATTACA
* ** *
36133724 GTGGAGCAGATTGAAG-A-CACTA
189 GTGGAACAGACCGAAGAATCA-GA
* *
36133746 TCTTATTTTCC-TGAGATTACAGTGGAGCAGACCGAAGAAGTGCAGATCTTATCTCCTTGAGATT
1 TCTTA-TCTCCTTGAGATTACAGTGGAGCAGACCGAAGAA-TGCAGATCTTATCTCCCTGAGATT
* * *
36133810 ACAGCGGAGCAGATCAAATATAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTGAAGGA
64 ACAGCGGAGCAGATCAAAGACA-TAATCCTATCTCCCTGA-ATTACAGTGGAGCGGATTGAAGGA
* * *
36133875 TCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAAGTCTTATTTCCCTGAGGTTACAGTG
127 TCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGATTACAGTG
36133940 GAACAGACCGAAGAATTTCAGA
192 GAACAGACCGAAGAA--TCAGA
* ** * *
36133962 TCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCCA-G-AGAT-TTATCTCCCTAAGATTA
1 TCTTATCTCCTTGAGATTACAGTGGAGCAGACCGAAG-AATGCAGATCTTATCTCCCTGAGATTA
* *
36134024 CAACGGAGCAAATCAAAGACACT-ATCCTATCTCCCTGAATTA-AGGTGGAGCGGATTGAAATAA
65 CAGCGGAGCAGATCAAAGACA-TAATCCTATCTCCCTGAATTACA-GTGGAGCGGATTG-----A
* * *
36134087 AAGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGTATCA
123 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
36134130 GATGGAAGCC
Statistics
Matches: 330, Mismatches: 39, Indels: 31
0.82 0.10 0.08
Matches are distributed among these distances:
210 1 0.00
211 17 0.05
212 14 0.04
213 108 0.33
214 5 0.02
215 5 0.02
216 69 0.21
217 75 0.23
218 35 0.11
219 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (211 bp):
TCTTATCTCCTTGAGATTACAGTGGAGCAGACCGAAGAATGCAGATCTTATCTCCCTGAGATTAC
AGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAATTACAGTGGAGCGGATTGAAGGATCTT
ATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGATTACAGTGGAAC
AGACCGAAGAATCAGA
Found at i:36135369 original size:19 final size:20
Alignment explanation
Indices: 36135334--36135372 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
36135324 AAAAGGCGGG
*
36135334 CTGAGGGTTTCTTTTTTTCT
1 CTGAAGGTTTCTTTTTTTCT
36135354 CTGAAGGTTT-TTTTTTTCT
1 CTGAAGGTTTCTTTTTTTCT
36135373 AAACAATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.08, C:0.13, G:0.18, T:0.62
Consensus pattern (20 bp):
CTGAAGGTTTCTTTTTTTCT
Found at i:36135804 original size:3 final size:3
Alignment explanation
Indices: 36135796--36135823 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
36135786 CAATTTTATG
36135796 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
36135824 ATATATATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:36139490 original size:29 final size:29
Alignment explanation
Indices: 36139435--36139495 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
36139425 CACAAATAAT
* * * *
36139435 CACTCAACTATAAAAATTTTCATTTTAGG
1 CACTCAACAATAAAAATTTGCAATTTAAG
36139464 CACTCAA-AATAAAAAGTTTGCAATTTAAG
1 CACTCAACAATAAAAA-TTTGCAATTTAAG
36139493 CAC
1 CAC
36139496 CCACGTTACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (29 bp):
CACTCAACAATAAAAATTTGCAATTTAAG
Found at i:36152031 original size:25 final size:25
Alignment explanation
Indices: 36151947--36152089 Score: 109
Period size: 25 Copynumber: 5.7 Consensus size: 25
36151937 AGTTATGTAA
* *
36151947 CGGGAAGCTTTGGAGAGCC-ATTAAT
1 CGGGAAGCTCTGAAGAGCCAATT-AT
*
36151972 CGGGAAGCTCAT-AAGAGCCAGTTAT
1 CGGGAAGCTC-TGAAGAGCCAATTAT
36151997 CGGGAAGCTCTGAAGAGCCAATTAT
1 CGGGAAGCTCTGAAGAGCCAATTAT
* * * *
36152022 CGAGAAGCTC-GCAGGAACCATATAAT
1 CGGGAAGCTCTG-AAGAGCCA-ATTAT
*
36152048 -GGGAAGCTC-GTAAGAGCCAAATAT
1 CGGGAAGCTCTG-AAGAGCCAATTAT
*
36152072 CGGGACGCTCAT-AAGAGC
1 CGGGAAGCTC-TGAAGAGC
36152090 TGTGGTGTGT
Statistics
Matches: 95, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
24 5 0.05
25 83 0.87
26 7 0.07
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (25 bp):
CGGGAAGCTCTGAAGAGCCAATTAT
Found at i:36155129 original size:2 final size:2
Alignment explanation
Indices: 36155124--36155151 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36155114 TTTTTCAGGG
36155124 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
36155152 CTTTCAGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:36161644 original size:76 final size:75
Alignment explanation
Indices: 36161506--36161645 Score: 226
Period size: 76 Copynumber: 1.9 Consensus size: 75
36161496 AATAATATTG
* *
36161506 TTTTCAAAATTCGAACTTAAGTTTTCTTTTAAAAATGCTATTTAATATTTGTTACTACTGCAATT
1 TTTTCAAAATTCGAACTTAAGTTTTCCTTTAAAAATGCTATTTAATATTAGTTACTACTGCAATT
36161571 TGGATGTGCA
66 TGGATGTGCA
* * *
36161581 TTTTTAAATATTCGAACTTGAGTTTTCCTTTAAAAATGCTATTTAATATTAGTTACTATTGCAAT
1 TTTTCAAA-ATTCGAACTTAAGTTTTCCTTTAAAAATGCTATTTAATATTAGTTACTACTGCAAT
36161646 CCTTGGATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
75 7 0.12
76 52 0.88
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (75 bp):
TTTTCAAAATTCGAACTTAAGTTTTCCTTTAAAAATGCTATTTAATATTAGTTACTACTGCAATT
TGGATGTGCA
Found at i:36162478 original size:103 final size:103
Alignment explanation
Indices: 36162299--36162488 Score: 271
Period size: 103 Copynumber: 1.8 Consensus size: 103
36162289 TATCAAGACC
* *
36162299 GTATCAATACTTTGTAGGTTTTGTGAGAAACATAATGCTATTTTGGTATCGCTTTTAAGAATAGG
1 GTATCAATACTTTGTAGGTTTTGTGAGAAACATAATACCATTTTGGTATCGCTTTTAAGAATAGG
36162364 TATCGATAATTCAGAAAATATCGATACTTAATCAAAAG
66 TATCGATAATTCAGAAAATATCGATACTTAATCAAAAG
* *
36162402 GTATCTATACTTAT-TAGGTTTTGTGA-AAA-ATGAAATACCATTTTGGTATCGTTTTTAAGAGA
1 GTATCAATACTT-TGTAGGTTTTGTGAGAAACAT--AATACCATTTTGGTATCGCTTTTAAGA-A
*
36162464 -AGGTATCGATAATTCATAAAATATC
62 TAGGTATCGATAATTCAGAAAATATC
36162489 AACACTTGGC
Statistics
Matches: 78, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
101 2 0.03
102 3 0.04
103 71 0.91
104 2 0.03
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (103 bp):
GTATCAATACTTTGTAGGTTTTGTGAGAAACATAATACCATTTTGGTATCGCTTTTAAGAATAGG
TATCGATAATTCAGAAAATATCGATACTTAATCAAAAG
Found at i:36162503 original size:103 final size:104
Alignment explanation
Indices: 36162299--36162510 Score: 263
Period size: 103 Copynumber: 2.0 Consensus size: 104
36162289 TATCAAGACC
* *
36162299 GTATCAATACTTTGTAGGTTTTGTGAGAAACATAATGCTATTTTGGTATCGCTTTTAAGAATAGG
1 GTATCAATACTTTGTAGGTTTTGTGAGAAACATAATACCATTTTGGTATCGCTTTTAAGAATAGG
* * *
36162364 TATCGATAATTCAGAAAATATCGATACTTAATC-AAAAG
66 TATCGATAATTCAGAAAATATCAACACTTAACCAAAAAG
* *
36162402 GTATCTATACTTAT-TAGGTTTTGTGA-AAA-ATGAAATACCATTTTGGTATCGTTTTTAAGAGA
1 GTATCAATACTT-TGTAGGTTTTGTGAGAAACAT--AATACCATTTTGGTATCGCTTTTAAGA-A
* **
36162464 -AGGTATCGATAATTCATAAAATATCAACACTTGGCCAAAAAG
62 TAGGTATCGATAATTCAGAAAATATCAACACTTAACCAAAAAG
36162506 GTATC
1 GTATC
36162511 GATGCTTTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
101 2 0.02
102 3 0.03
103 77 0.82
104 12 0.13
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.35
Consensus pattern (104 bp):
GTATCAATACTTTGTAGGTTTTGTGAGAAACATAATACCATTTTGGTATCGCTTTTAAGAATAGG
TATCGATAATTCAGAAAATATCAACACTTAACCAAAAAG
Found at i:36169058 original size:43 final size:42
Alignment explanation
Indices: 36168995--36169120 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 42
36168985 AGGACTCCGA
36168995 TATGTGTTTTTGTGTAAGACCACGTCTGGGACGTCGGCATCGAC
1 TATGTGTTTTTGTGTAAGACCACGTCTGGGACGT-GGCATCG-C
*
36169039 T-TGTGTTTTTGTGTAAGACC-CTGTCTGGGACAGTGGCATCGG
1 TATGTGTTTTTGTGTAAGACCAC-GTCTGGGAC-GTGGCATCGC
* ***
36169081 TATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TATGTGTTTTTGTGTAAGACCACGTCTGGGACG-TGGCAT
36169121 TGTACTAGCT
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
42 3 0.04
43 65 0.90
44 4 0.06
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (42 bp):
TATGTGTTTTTGTGTAAGACCACGTCTGGGACGTGGCATCGC
Found at i:36169467 original size:47 final size:47
Alignment explanation
Indices: 36169377--36169691 Score: 431
Period size: 47 Copynumber: 7.0 Consensus size: 47
36169367 TAAAAAAAAT
*
36169377 TATATATGTATATGCTGTCAA-TTTTGATGTACAAATGCAGTCCAAA
1 TATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAAA
*
36169423 TATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAAT
1 TATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAAA
* * * * *
36169470 TATATAAGTATATGCTGTTAATTTTTTATGTAT-AAGGCAGTCCAAT
1 TATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAAA
* *
36169516 TATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAAT
1 TATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAAA
*
36169563 TATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAA
1 TATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAAA
36169610 TATATATGTATATGCTGTCAA--TTT--T-T-T--AT---GTCCAAA
1 TATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAAA
* *
36169646 TATATATGTATATGCTGTCAATTTTTGATTTATAAATGCAATCCAA
1 TATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAA
36169692 TTTTGTAAAT
Statistics
Matches: 240, Mismatches: 16, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
36 28 0.12
38 3 0.01
39 2 0.01
40 1 0.00
41 1 0.00
42 2 0.01
43 1 0.00
44 2 0.01
45 3 0.01
46 62 0.26
47 135 0.56
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (47 bp):
TATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAAA
Found at i:36169533 original size:93 final size:94
Alignment explanation
Indices: 36169374--36169640 Score: 448
Period size: 93 Copynumber: 2.9 Consensus size: 94
36169364 TTTTAAAAAA
36169374 AATTATATATGTATATGCTGTCAA-TTTTGATGTACAAATGCAGTCCAAATATATATGTATATGC
1 AATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGC
36169438 TGTCAATTTTTGATGTATAAATGCAGTCC
66 TGTCAATTTTTGATGTATAAATGCAGTCC
* * * * * *
36169467 AATTATATAAGTATATGCTGTTAATTTTTTATGTA-TAAGGCAGTCCAATTATATATGTATATGC
1 AATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGC
*
36169531 TGTCAATTTTTGACGTATAAATGCAGTCC
66 TGTCAATTTTTGATGTATAAATGCAGTCC
36169560 AATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGC
1 AATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGC
*
36169625 TGTCAATTTTTTATGT
66 TGTCAATTTTTGATGT
36169641 CCAAATATAT
Statistics
Matches: 157, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
93 108 0.69
94 49 0.31
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (94 bp):
AATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGC
TGTCAATTTTTGATGTATAAATGCAGTCC
Found at i:36169625 original size:140 final size:130
Alignment explanation
Indices: 36169374--36169693 Score: 453
Period size: 140 Copynumber: 2.4 Consensus size: 130
36169364 TTTTAAAAAA
* *
36169374 AATTATATATGTATATGCTGTCAA-TTTTGATGTACAAATGCAGTCCAAATATATATGTATATGC
1 AATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGC
* * *
36169438 TGTCAATTTTTGATGTATAAATGCAGTCCAATTATATAAGTATATGCTGTTAATTTTTTATGTAT
66 TGTCAATTTTTGATGTACAAATGCAGTCCAAATATATAAGTATATGCTGTCAA--TTTT-T-TAT
36169503 AAGGCAGTCC
127 ------GTCC
*
36169513 AATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGC
1 AATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGC
*
36169578 TGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTTATGTCC
66 TGTCAATTTTTGATGTACAAATGCAGTCCAAATATATAAGTATATGCTGTCAATTTTTTATGTCC
* * *
36169643 AAATATATATGTATATGCTGTCAATTTTTGATTTATAAATGCAATCCAATT
1 AATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATT
36169694 TTGTAAATAT
Statistics
Matches: 169, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
130 51 0.30
136 3 0.02
137 1 0.01
138 4 0.02
139 24 0.14
140 86 0.51
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (130 bp):
AATTATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGC
TGTCAATTTTTGATGTACAAATGCAGTCCAAATATATAAGTATATGCTGTCAATTTTTTATGTCC
Found at i:36169643 original size:36 final size:36
Alignment explanation
Indices: 36169603--36169671 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
36169593 TACAAATGCA
36169603 GTCCAAATATATATGTATATGCTGTCAATTTTTTAT
1 GTCCAAATATATATGTATATGCTGTCAATTTTTTAT
36169639 GTCCAAATATATATGTATATGCTGTCAATTTTT
1 GTCCAAATATATATGTATATGCTGTCAATTTTT
36169672 GATTTATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (36 bp):
GTCCAAATATATATGTATATGCTGTCAATTTTTTAT
Found at i:36170049 original size:12 final size:12
Alignment explanation
Indices: 36170032--36170058 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36170022 ATTGGTTATC
36170032 TGTATATATATA
1 TGTATATATATA
36170044 TGTATATATATA
1 TGTATATATATA
36170056 TGT
1 TGT
36170059 GGAATGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (12 bp):
TGTATATATATA
Found at i:36170297 original size:25 final size:24
Alignment explanation
Indices: 36170221--36170311 Score: 101
Period size: 25 Copynumber: 3.7 Consensus size: 24
36170211 GCCTTGTAAA
*
36170221 GGGAAGCTCATAAGAGCCATAATC
1 GGGAAGCTCATAAGAGCCATTATC
* * * *
36170245 GGGAAGTTCACAAGAACCATATAAC
1 GGGAAGCTCATAAGAGCCAT-TATC
*
36170270 GGGAAGCTCATGAGAGCCAATTATC
1 GGGAAGCTCATAAGAGCC-ATTATC
*
36170295 GGGATGCTCATAAGAGC
1 GGGAAGCTCATAAGAGC
36170312 TACTAACTGG
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
24 17 0.32
25 34 0.64
26 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (24 bp):
GGGAAGCTCATAAGAGCCATTATC
Found at i:36171913 original size:21 final size:21
Alignment explanation
Indices: 36171847--36171903 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
36171837 AATTCTGGAA
*
36171847 TTTT-AAAAAGTTATTTTGAAT
1 TTTTGAAAAA-TTATTTTAAAT
36171868 TTTTGAAAAATTATTTTAAAT
1 TTTTGAAAAATTATTTTAAAT
36171889 TTTTGAAAAATTATT
1 TTTTGAAAAATTATT
36171904 GTTTGATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (21 bp):
TTTTGAAAAATTATTTTAAAT
Found at i:36173970 original size:31 final size:30
Alignment explanation
Indices: 36173932--36174001 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
36173922 GGTTTGGAGT
*
36173932 TTTTAAAAATTTTGAAA-AATCTAATTAAAAA
1 TTTTAAAAACTTTGAAAGAAT-TAATT-AAAA
*
36173963 TTTTAAAAACTTTGAAAGGATTAATTAAAA
1 TTTTAAAAACTTTGAAAGAATTAATTAAAA
36173993 TTTCTAAAA
1 TTT-TAAAA
36174002 TTGAAGGGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 7 0.20
31 26 0.74
32 2 0.06
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (30 bp):
TTTTAAAAACTTTGAAAGAATTAATTAAAA
Found at i:36177937 original size:6 final size:6
Alignment explanation
Indices: 36177926--36177954 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
36177916 GTTTTAAGCA
36177926 TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATAT
36177955 ATGAAAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:36184019 original size:20 final size:20
Alignment explanation
Indices: 36183981--36184019 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
36183971 ACCGACATAT
*
36183981 TTAAATGTTTACAATTAAAC
1 TTAAATGTTTAAAATTAAAC
36184001 TTAAAT-TTTAAAATCTAAA
1 TTAAATGTTTAAAAT-TAAA
36184020 AAATACGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (20 bp):
TTAAATGTTTAAAATTAAAC
Found at i:36193701 original size:30 final size:26
Alignment explanation
Indices: 36193665--36193748 Score: 98
Period size: 26 Copynumber: 3.0 Consensus size: 26
36193655 TTATTTATTT
36193665 ATTTTTTAAATTTTAAAATACTTTTTTAAA
1 ATTTTTT-AATTTTAAAATAC--TTTT-AA
36193695 ATTTTTTTAATTTTAAAATACTTTTAA
1 A-TTTTTTAATTTTAAAATACTTTTAA
*
36193722 CTTTTTTAATTTTAAAATA-TTATTAA
1 ATTTTTTAATTTTAAAATACTT-TTAA
36193748 A
1 A
36193749 ATAAATTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
25 2 0.04
26 22 0.44
27 2 0.04
28 4 0.08
30 14 0.28
31 6 0.12
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTTTTAATTTTAAAATACTTTTAA
Found at i:36193719 original size:17 final size:17
Alignment explanation
Indices: 36193668--36193726 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
36193658 TTTATTTATT
36193668 TTTTAAATTTTAAAATAC
1 TTTT-AATTTTAAAATAC
**
36193686 --TT--TTTTAAAATTT
1 TTTTAATTTTAAAATAC
36193699 TTTTAATTTTAAAATAC
1 TTTTAATTTTAAAATAC
36193716 TTTTAACTTTT
1 TTTTAA-TTTT
36193727 TTAATTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
13 9 0.28
15 2 0.06
16 2 0.06
17 15 0.47
18 4 0.12
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTAATTTTAAAATAC
Found at i:36193804 original size:32 final size:32
Alignment explanation
Indices: 36193744--36193804 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
36193734 TAAAATATTA
* *
36193744 TTAAAATAAATTTTTTATTTTTGTTTTAATTT
1 TTAAAATAAATTTTTTATATTTGATTTAATTT
*
36193776 TTAAAATAAATTTTTTGGTATTT-ATTTAA
1 TTAAAATAAATTTTTT-ATATTTGATTTAA
36193805 AAAAACGGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 21 0.84
33 4 0.16
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (32 bp):
TTAAAATAAATTTTTTATATTTGATTTAATTT
Found at i:36200203 original size:27 final size:27
Alignment explanation
Indices: 36200173--36200241 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
36200163 CGCCTATCTT
36200173 AGAGGCGCCAATGGTGGTCCCAATG-TG
1 AGAGGCGCCAATGGTGGTCCC-ATGTTG
* * *
36200200 AGAGGCGCCATTAGTGGTGCCATGTTG
1 AGAGGCGCCAATGGTGGTCCCATGTTG
*
36200227 AAAGGCGCCAATGGT
1 AGAGGCGCCAATGGT
36200242 CTGATTTTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.20
Consensus pattern (27 bp):
AGAGGCGCCAATGGTGGTCCCATGTTG
Found at i:36200324 original size:21 final size:19
Alignment explanation
Indices: 36200300--36200344 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
36200290 AGAGAAACGT
* *
36200300 AAGAAATAAGAAGGAAGACAG
1 AAGAAAAAAAAAGGAA-A-AG
36200321 AAGAAAAAAAAAGGAAAAG
1 AAGAAAAAAAAAGGAAAAG
36200340 AAGAA
1 AAGAA
36200345 GAAGGATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 1 0.05
21 14 0.64
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (19 bp):
AAGAAAAAAAAAGGAAAAG
Found at i:36202370 original size:25 final size:24
Alignment explanation
Indices: 36202269--36202390 Score: 128
Period size: 22 Copynumber: 5.2 Consensus size: 24
36202259 CACTAATGAA
*
36202269 CAGAGAGCACTAAAGTGCTAT-A-
1 CAGAGAGCACTAACGTGCTATAAT
*
36202291 CAGAGAGCAC-AGATGTGCTA-AA-
1 CAGAGAGCACTA-ACGTGCTATAAT
* *
36202313 CAGAGAGCACTGACGTGCTAAAAT
1 CAGAGAGCACTAACGTGCTATAAT
* *
36202337 CAGAGAGCACCAACGTGCTAGTAGT
1 CAGAGAGCACTAACGTGCTA-TAAT
36202362 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCT-ATAAT
36202387 CAGA
1 CAGA
36202391 AAGCGCGCTA
Statistics
Matches: 84, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
21 1 0.01
22 35 0.42
23 2 0.02
24 18 0.21
25 27 0.32
26 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (24 bp):
CAGAGAGCACTAACGTGCTATAAT
Found at i:36203481 original size:16 final size:16
Alignment explanation
Indices: 36203460--36203496 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
36203450 GTTTTATCTA
36203460 TATAATAATATAATAT
1 TATAATAATATAATAT
36203476 TATAATAATATAATAT
1 TATAATAATATAATAT
*
36203492 AATAA
1 TATAA
36203497 CTTACTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAATAATATAATAT
Found at i:36203496 original size:8 final size:8
Alignment explanation
Indices: 36203459--36203490 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
36203449 TGTTTTATCT
36203459 ATATAATA
1 ATATAATA
36203467 ATATAATA
1 ATATAATA
*
36203475 TTATAATA
1 ATATAATA
36203483 ATATAATA
1 ATATAATA
36203491 TAATAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAATA
Found at i:36203496 original size:13 final size:13
Alignment explanation
Indices: 36203459--36203539 Score: 53
Period size: 13 Copynumber: 6.1 Consensus size: 13
36203449 TGTTTTATCT
36203459 ATATAATAATATAA
1 ATATAATAATAT-A
36203473 TATTATAATAATATA
1 -A-TATAATAATATA
36203488 ATATAATAACT-TA
1 ATATAATAA-TATA
* *
36203501 CT-TATTAAT-TA
1 ATATAATAATATA
*
36203512 AT-TAAATAACATA
1 ATAT-AATAATATA
36203525 ATATAATATATATA
1 ATATAATA-ATATA
36203539 A
1 A
36203540 CTTAAATTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
11 5 0.09
12 9 0.17
13 19 0.35
14 8 0.15
15 2 0.04
16 11 0.20
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATAATAATATA
Found at i:36203556 original size:37 final size:39
Alignment explanation
Indices: 36203480--36203556 Score: 88
Period size: 42 Copynumber: 1.9 Consensus size: 39
36203470 TAATATTATA
*
36203480 ATAATATAATATAATAACTTACTTATTAATTAATTAAATAAC
1 ATAATATAATATAATAACTTAC-AATTAA-TAA-TAAATAAC
36203522 ATAATATAATATATATAACTTA-AATTAA-AA-AAATA
1 ATAATATAATATA-ATAACTTACAATTAATAATAAATA
36203557 TCTTAGATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
37 5 0.15
39 2 0.06
41 5 0.15
42 13 0.39
43 8 0.24
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (39 bp):
ATAATATAATATAATAACTTACAATTAATAATAAATAAC
Found at i:36207787 original size:60 final size:60
Alignment explanation
Indices: 36207713--36207834 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 60
36207703 ATACTAAACT
* * * * *
36207713 AAACACAATAATTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
36207773 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
36207833 AA
1 AA
36207835 TATTCATACA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 4 0.07
60 52 0.93
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:36207925 original size:60 final size:61
Alignment explanation
Indices: 36207857--36207998 Score: 268
Period size: 61 Copynumber: 2.3 Consensus size: 61
36207847 AAATTACAAT
36207857 ATTACAATATTCATACAAAATACTAATCCAAAACTATAAA-ACAAAATTAATTATAAAATA
1 ATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAAATTAATTATAAAATA
*
36207917 ATTACAATATTCATACAAAATACTCATCCAAAACTATAAATACAAAATTAATTATAAAATA
1 ATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAAATTAATTATAAAATA
36207978 ATTACAATATTCATACAAAAT
1 ATTACAATATTCATACAAAAT
36207999 TACAATATTC
Statistics
Matches: 80, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
60 39 0.49
61 41 0.51
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (61 bp):
ATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAAATTAATTATAAAATA
Found at i:36208001 original size:19 final size:19
Alignment explanation
Indices: 36207977--36208036 Score: 93
Period size: 19 Copynumber: 3.1 Consensus size: 19
36207967 ATTATAAAAT
36207977 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
36207996 AATTACAATATTCATACAAAA
1 AATTACAATATTCATAC--AA
*
36208017 AATTAGAATATTCATACAA
1 AATTACAATATTCATACAA
36208036 A
1 A
36208037 GTACTAATCC
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
19 20 0.53
21 18 0.47
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:36208020 original size:21 final size:21
Alignment explanation
Indices: 36207972--36208036 Score: 98
Period size: 21 Copynumber: 3.1 Consensus size: 21
36207962 AATTAATTAT
36207972 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
36207994 --AAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
*
36208013 AAAAAATTAGAATATTCATAC
1 AAAAAATTACAATATTCATAC
36208034 AAA
1 AAA
36208037 GTACTAATCC
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
19 17 0.43
20 2 0.05
21 21 0.52
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:36208385 original size:27 final size:27
Alignment explanation
Indices: 36208321--36208385 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
36208311 AGAAGGCCAC
**
36208321 CATTGGTGCCTCCCTATGAGGCATTTT
1 CATTGGTGCCTCCCTATGAGGCACATT
* * *
36208348 TAATGGTGCCTCTCTATGAGGCACATT
1 CATTGGTGCCTCCCTATGAGGCACATT
*
36208375 CATTGGCGCCT
1 CATTGGTGCCT
36208386 ATCTGACAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (27 bp):
CATTGGTGCCTCCCTATGAGGCACATT
Found at i:36208484 original size:24 final size:24
Alignment explanation
Indices: 36208457--36208502 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
36208447 TTTAAAAAAT
36208457 AAAAAAAATAATATTTTATTCAAA
1 AAAAAAAATAATATTTTATTCAAA
** *
36208481 AAAATTAATAATTTTTTATTCA
1 AAAAAAAATAATATTTTATTCA
36208503 TTGGCGCCTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (24 bp):
AAAAAAAATAATATTTTATTCAAA
Found at i:36209166 original size:19 final size:19
Alignment explanation
Indices: 36209139--36209175 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36209129 CAAATTATAT
*
36209139 TTATATAAAATTAATAATA
1 TTATATAAAAATAATAATA
*
36209158 TTATTTAAAAATAATAAT
1 TTATATAAAAATAATAAT
36209176 GAAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTATATAAAAATAATAATA
Found at i:36209432 original size:6 final size:6
Alignment explanation
Indices: 36209421--36209445 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
36209411 TTATGATGAT
36209421 TAATTA TAATTA TAATTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA T
36209446 TTGAATATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:36210567 original size:23 final size:23
Alignment explanation
Indices: 36210539--36210590 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
36210529 GGATGCCACT
36210539 TTGCATCGAAGTGCCACTAACAC
1 TTGCATCGAAGTGCCACTAACAC
* * *
36210562 TTGCATCGTAGTGTCACTATCAC
1 TTGCATCGAAGTGCCACTAACAC
36210585 TTGCAT
1 TTGCAT
36210591 GCATAGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (23 bp):
TTGCATCGAAGTGCCACTAACAC
Found at i:36216069 original size:125 final size:125
Alignment explanation
Indices: 36215847--36216224 Score: 585
Period size: 125 Copynumber: 3.0 Consensus size: 125
36215837 TTAAGGTTTT
* * *
36215847 TAGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
** * * *
36215912 ATAATGATGTTTGATAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
36215972 TAGGTCCTGGAAGAAATAATTTTGAGTTGACATTTCTAAGCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* *
36216037 AGGATGCTATTTAAGAAGAATTTGTGAAATCGCGCCCTTGTGGACGCGCTTTTGCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * * * *
36216097 TAGGTCATGAAAGAAATAATTTCGAGTTTACTTTTCTGAGAAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* *
36216162 AGGATGCTATTTGAGAAGAATTTGTGAAAGCACGCCCTCGTGGACGCGCTTTTGCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
36216222 TAG
1 TAG
36216225 CATGTTTGGG
Statistics
Matches: 230, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 230 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (125 bp):
TAGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:36219560 original size:45 final size:45
Alignment explanation
Indices: 36219424--36220494 Score: 856
Period size: 45 Copynumber: 23.7 Consensus size: 45
36219414 CTAGTTTAAA
* * *
36219424 GTTTTAAAGTT-AAGGGTTAAGGGTTTTTAAGTTAAGGG-TTAAG
1 GTTTTTAAGTTAAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGG
* *
36219467 ATTTTTAAGTT-GAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAAGTTAAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGG
**
36219510 GTTTTTAA-TTAAATTAG-TTAGGGTTTTTAAGTTTAAGGGTTTAGG
1 GTTTTTAAGTTAAA-GGGTTTAGGGTTTTTAAG-TTAAGGGTTTAGG
* ** * *
36219555 ATTTTTAA-TTAAATTAGTTTAAGGTTTTTAAGTTAAGGGGTTAGG
1 GTTTTTAAGTTAAA-GGGTTTAGGGTTTTTAAGTTAAGGGTTTAGG
* * * *
36219600 GTTTTTAAATTTAAGGGTTTAAGGTTTTTAA-TTAAGTTAGTTTAGG
1 GTTTTTAAGTTAAAGGGTTTAGGGTTTTTAAGTTAAG--GGTTTAGG
*
36219646 GTTTTTAAGTT-AAGGAG-TTAAGGTTTTTAAGTTTAAGGGTTTAGG
1 GTTTTTAAGTTAAAGG-GTTTAGGGTTTTTAAG-TTAAGGGTTTAGG
** *
36219691 GTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTAAGGGCTTAGG
1 GTTTTTAAGTTAAA-GGGTTTAGGGTTTTTAAGTTAAGGGTTTAGG
* * *
36219736 GTTTTTAATTTTAAGGGTTTAGGATTTTTAAGTTAAGGG-TTAGG
1 GTTTTTAAGTTAAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGG
**
36219780 GTTTTTAAGTT-AAGGGTTTAGGGTTTTTAA-TTAA-ATTAGTTAGG
1 GTTTTTAAGTTAAAGGGTTTAGGGTTTTTAAGTTAAGGGT--TTAGG
* * ***
36219824 GTTTTTAAGTTTAAGGGTTTAGAGTTTTTAA-TTAAATTAATTTAGG
1 GTTTTTAAGTTAAAGGGTTTAGGGTTTTTAAGTT-AA-GGGTTTAGG
* * * * *
36219870 GTTTTTAAGTT-AAGGGGTTAGGATTTTTAAATTTAAGGGTCTATG
1 GTTTTTAAGTTAAAGGGTTTAGGGTTTTT-AAGTTAAGGGTTTAGG
** *
36219915 GTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTAAGGGGTTAGG
1 GTTTTTAAGTTAAA-GGGTTTAGGGTTTTTAAGTTAAGGGTTTAGG
**
36219960 GTTTTTAAGTTTAAA-GGTTTAGGGTTTTTAA-TTAAATTAGTTTAGG
1 GTTTTTAAG-TTAAAGGGTTTAGGGTTTTTAAGTT-AA-GGGTTTAGG
* ** *
36220006 GTTTTTAAGTTAAGGGTTATGGTTTAGGGTTTTTATTTTTAAGGGTTTAAG
1 GTTTTTAAGTTAA-----AGGGTTTAGGGTTTTTA-AGTTAAGGGTTTAGG
** *
36220057 GTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTAAGGGCTTAGG
1 GTTTTTAAGTTAAA-GGGTTTAGGGTTTTTAAGTTAAGGGTTTAGG
* *
36220102 GTTTTTAA-TTGTAAGGGTTTAGGGTTTTTAATTTAAGGG-TTAGG
1 GTTTTTAAGTT-AAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGG
** *
36220146 GTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTAAGGG-TTAGA
1 GTTTTTAAGTTAAA-GGGTTTAGGGTTTTTAAGTTAAGGGTTTAGG
* * * **
36220190 GTTTTTATGTTTAAGGGTTTATGGTTTTTAA-TTAAATTAGTTTAGG
1 GTTTTTAAGTTAAAGGGTTTAGGGTTTTTAAGTT-AA-GGGTTTAGG
* * **
36220236 ATTTTTAAGTTAAGGGTTCGGGTTTAGGGTTTTTATTTTTAAGGGTTTAGG
1 GTTTTTAAGTTAA-----AGGGTTTAGGGTTTTTA-AGTTAAGGGTTTAGG
*** *
36220287 GTTTTTAA-TTAAATTATTTTAGGGTTTTTAAGTTAAGGGTTTATG
1 GTTTTTAAGTTAAA-GGGTTTAGGGTTTTTAAGTTAAGGGTTTAGG
* * ** * *
36220332 GTTTTTAATTTTAAGGGTTTAGAATTTTTAATTTAAGGG-TTAGA
1 GTTTTTAAGTTAAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGG
* * *
36220376 GTTTTTAAGTTAAA-GG-TTAAGGTTTTTAAGTTAAGGATTTAGT
1 GTTTTTAAGTTAAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGG
* * * * ** *
36220419 GTTTTTAATTTTAAGGGTTTAAGATTTTTAA-TTAAATTAGTTTAGA
1 GTTTTTAAGTTAAAGGGTTTAGGGTTTTTAAGTT-AA-GGGTTTAGG
36220465 GTTTTTAAGTT-AAGGGTTTAGGGTTTTTAA
1 GTTTTTAAGTTAAAGGGTTTAGGGTTTTTAA
36220495 TTTTAAGAAT
Statistics
Matches: 846, Mismatches: 123, Indels: 116
0.78 0.11 0.11
Matches are distributed among these distances:
42 42 0.05
43 65 0.08
44 140 0.17
45 348 0.41
46 162 0.19
47 12 0.01
48 2 0.00
50 9 0.01
51 58 0.07
52 4 0.00
53 4 0.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (45 bp):
GTTTTTAAGTTAAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGG
Found at i:36219583 original size:68 final size:68
Alignment explanation
Indices: 36219468--36220516 Score: 650
Period size: 68 Copynumber: 15.4 Consensus size: 68
36219458 AGGGTTAAGA
*
36219468 TTTTTAAG-TTGAGGG-TTAGGGTTTTTAAGTT-AAGGGTTTAGGGTTTTTAATTAAATTAG-TT
1 TTTTTAAGTTTAAGGGTTTAGGGTTTTTAA-TTAAAGGGTTTAGGGTTTTTAATTAAATTAGTTT
36219529 AGGG
65 AGGG
* ** * ** *
36219533 TTTTTAAGTTTAAGGGTTTAGGATTTTTAATTAAATTAGTTTAAGGTTTTTAAGTT-AA-GGGGT
1 TTTTTAAGTTTAAGGGTTTAGGGTTTTTAATTAAA-GGGTTTAGGGTTTTTAA-TTAAATTAGTT
36219596 TAGGG
64 TAGGG
* * * **
36219601 TTTTTAAATTTAAGGGTTTAAGGTTTTTAATT-AAGTTAGTTTAGGGTTTTTAAGTT-AAGGAG-
1 TTTTTAAGTTTAAGGGTTTAGGGTTTTTAATTAAAG--GGTTTAGGGTTTTTAA-TTAAATTAGT
*
36219663 TTAAGG
63 TTAGGG
** ** *
36219669 TTTTTAAGTTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGTTTTTAAGTT-AA-GGGCT
1 TTTTTAAGTTTAAGGGTTTAGGGTTTTTAATTAAA-GGGTTTAGGGTTTTTAA-TTAAATTAGTT
36219732 TAGGG
64 TAGGG
* * **
36219737 TTTTTAATTTTAAGGGTTTAGGATTTTTAAGTT-AAGGG-TTAGGGTTTTTAAGTT-AA-GGGTT
1 TTTTTAAGTTTAAGGGTTTAGGGTTTTTAA-TTAAAGGGTTTAGGGTTTTTAA-TTAAATTAGTT
36219798 TAGGG
64 TAGGG
* ** * * *
36219803 TTTTTAA-TTAAATTAG-TTAGGGTTTTTAAGTTTAAGGGTTTAGAGTTTTTAATTAAATTAATT
1 TTTTTAAGTTTAA-GGGTTTAGGGTTTTTAA-TTAAAGGGTTTAGGGTTTTTAATTAAATTAGTT
36219866 TAGGG
64 TAGGG
* * * * *
36219871 TTTTTAAG-TTAAGGGGTTAGGATTTTTAAATTTAAGGGTCTATGGTTTTTAATTAAATTAGTTT
1 TTTTTAAGTTTAAGGGTTTAGGGTTTTT-AATTAAAGGGTTTAGGGTTTTTAATTAAATTAGTTT
36219935 AGGG
65 AGGG
*
36219939 TTTTTAAG-TTAAGGGGTTAGGGTTTTTAAGTTTAAA-GGTTTAGGGTTTTTAATTAAATTAGTT
1 TTTTTAAGTTTAAGGGTTTAGGGTTTTTAA--TTAAAGGGTTTAGGGTTTTTAATTAAATTAGTT
36220002 TAGGG
64 TAGGG
* * *
36220007 TTTTTAAG-TTAAGGGTTATGGTTTAGGGTTTTTATTTTTAAGGGTTTAAGGTTTTTAATTAAAT
1 TTTTTAAGTTTAA--G----GGTTTAGGGTTTTTA-ATTAAAGGGTTTAGGGTTTTTAATTAAAT
36220071 TAGTTTAGGG
59 TAGTTTAGGG
* * * * *
36220081 TTTTTAAG-TTAAGGGCTTAGGGTTTTTAATTGTAAGGGTTTAGGGTTTTTAATTTAA--GGGTT
1 TTTTTAAGTTTAAGGGTTTAGGGTTTTTAATT-AAAGGGTTTAGGGTTTTTAATTAAATTAGTTT
36220143 AGGG
65 AGGG
* ** * * * **
36220147 TTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTT-AAGGG-TTAGAGTTTTTATGTTTAA-GGGT
1 TTTTTAAGTTTAA-GGGTTTAGGGTTTTTAA-TTAAAGGGTTTAGGGTTTTTA-ATTAAATTAGT
*
36220208 TTATGG
63 TTAGGG
* ** * * * *
36220214 TTTTTAA-TTAAATTAGTTTAGGATTTTTAAGTTAAGGGTTCGGGTTTAGGGTTTTTATTTTTAA
1 TTTTTAAGTTTAA-GGGTTTAGGGTTTTTAA-TTAA-----AGGGTTTAGGGTTTTTA-ATTAAA
**
36220278 -GGGTTTAGGG
58 TTAGTTTAGGG
* *** * * **
36220288 TTTTTAA-TTAAATTATTTTAGGGTTTTTAAGTT-AAGGGTTTATGGTTTTTAATTTTAA-GGGT
1 TTTTTAAGTTTAA-GGGTTTAGGGTTTTTAA-TTAAAGGGTTTAGGGTTTTTAA-TTAAATTAGT
**
36220350 TTAGAA
63 TTAGGG
* * **
36220356 TTTTTAA-TTTAAGGG-TTAGAGTTTTTAAGTTAAA-GG-TTAAGGTTTTTAAGTT-AAGGA-TT
1 TTTTTAAGTTTAAGGGTTTAGGGTTTTTAA-TTAAAGGGTTTAGGGTTTTTAA-TTAAATTAGTT
*
36220415 TAGTG
64 TAGGG
* * * ** * **
36220420 TTTTTAATTTTAAGGGTTTAAGATTTTTAATTAAATTAGTTTAGAGTTTTTAAGTT-AA-GGGTT
1 TTTTTAAGTTTAAGGGTTTAGGGTTTTTAATTAAA-GGGTTTAGGGTTTTTAA-TTAAATTAGTT
36220483 TAGGG
64 TAGGG
* ** *
36220488 TTTTTAATTTTAAGAATTTAGGGGTTTTA
1 TTTTTAAGTTTAAGGGTTTAGGGTTTTTA
36220517 GGTAATAACT
Statistics
Matches: 834, Mismatches: 97, Indels: 103
0.81 0.09 0.10
Matches are distributed among these distances:
64 14 0.02
65 66 0.08
66 104 0.12
67 96 0.12
68 416 0.50
69 14 0.02
70 1 0.00
72 1 0.00
73 8 0.01
74 114 0.14
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (68 bp):
TTTTTAAGTTTAAGGGTTTAGGGTTTTTAATTAAAGGGTTTAGGGTTTTTAATTAAATTAGTTTA
GGG
Found at i:36220281 original size:74 final size:74
Alignment explanation
Indices: 36220185--36220327 Score: 241
Period size: 74 Copynumber: 1.9 Consensus size: 74
36220175 AAGTTAAGGG
*
36220185 TTAGAGTTTTTATGTTTAAGGGTTTATGGTTTTTAATTAAATTAGTTTAGGATTTTTAAGTTAAG
1 TTAGAGTTTTTATGTTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGATTTTTAAGTTAAG
36220250 GGTTCGGGT
66 GGTTCGGGT
* * * *
36220259 TTAGGGTTTTTATTTTTAAGGGTTTAGGGTTTTTAATTAAATTATTTTAGGGTTTTTAAGTTAAG
1 TTAGAGTTTTTATGTTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGATTTTTAAGTTAAG
36220324 GGTT
66 GGTT
36220328 TATGGTTTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.24, C:0.01, G:0.24, T:0.52
Consensus pattern (74 bp):
TTAGAGTTTTTATGTTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGATTTTTAAGTTAAG
GGTTCGGGT
Found at i:36220500 original size:23 final size:22
Alignment explanation
Indices: 36219424--36220516 Score: 795
Period size: 23 Copynumber: 48.3 Consensus size: 22
36219414 CTAGTTTAAA
* * *
36219424 GTTTTAAAGTTAAGGGTTAAGG
1 GTTTTTAATTTAAGGGTTTAGG
* *
36219446 GTTTTTAAGTTAAGGG-TTAAG
1 GTTTTTAATTTAAGGGTTTAGG
* * *
36219467 ATTTTTAAGTTGAGGG-TTAGG
1 GTTTTTAATTTAAGGGTTTAGG
*
36219488 GTTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAATTTAAGGGTTTAGG
* **
36219510 GTTTTTAATTAAATTAG-TTAGG
1 GTTTTTAATTTAA-GGGTTTAGG
36219532 GTTTTTAAGTTTAAGGGTTTAGG
1 GTTTTTAA-TTTAAGGGTTTAGG
* * ** *
36219555 ATTTTTAATTAAATTAGTTTAAG
1 GTTTTTAATTTAA-GGGTTTAGG
* *
36219578 GTTTTTAAGTTAAGGGGTTAGG
1 GTTTTTAATTTAAGGGTTTAGG
*
36219600 GTTTTTAAATTTAAGGGTTTAAG
1 GTTTTT-AATTTAAGGGTTTAGG
*
36219623 GTTTTTAA-TTAAGTTAGTTTAGG
1 GTTTTTAATTTAAG--GGTTTAGG
* *
36219646 GTTTTTAAGTTAAGGAG-TTAAG
1 GTTTTTAATTTAAGG-GTTTAGG
36219668 GTTTTTAAGTTTAAGGGTTTAGG
1 GTTTTTAA-TTTAAGGGTTTAGG
* **
36219691 GTTTTTAATTAAATTAGTTTAGG
1 GTTTTTAATTTAA-GGGTTTAGG
* *
36219714 GTTTTTAAGTTAAGGGCTTAGG
1 GTTTTTAATTTAAGGGTTTAGG
36219736 GTTTTTAATTTTAAGGGTTTAGG
1 GTTTTTAA-TTTAAGGGTTTAGG
* *
36219759 ATTTTTAAGTTAAGGG-TTAGG
1 GTTTTTAATTTAAGGGTTTAGG
*
36219780 GTTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAATTTAAGGGTTTAGG
* **
36219802 GTTTTTAATTAAATTAG-TTAGG
1 GTTTTTAATTTAA-GGGTTTAGG
*
36219824 GTTTTTAAGTTTAAGGGTTTAGA
1 GTTTTTAA-TTTAAGGGTTTAGG
* ***
36219847 GTTTTTAATTAAATTAATTTAGG
1 GTTTTTAATTTAA-GGGTTTAGG
* *
36219870 GTTTTTAAGTTAAGGGGTTAGG
1 GTTTTTAATTTAAGGGTTTAGG
* * *
36219892 ATTTTTAAATTTAAGGGTCTATG
1 GTTTTT-AATTTAAGGGTTTAGG
* **
36219915 GTTTTTAATTAAATTAGTTTAGG
1 GTTTTTAATTTAA-GGGTTTAGG
* *
36219938 GTTTTTAAGTTAAGGGGTTAGG
1 GTTTTTAATTTAAGGGTTTAGG
*
36219960 GTTTTTAAGTTTAAAGGTTTAGG
1 GTTTTTAA-TTTAAGGGTTTAGG
* **
36219983 GTTTTTAATTAAATTAGTTTAGG
1 GTTTTTAATTTAA-GGGTTTAGG
*
36220006 GTTTTTAAGTTAAGGGTTATGGTTTAGG
1 GTTTTTAATTTAA--G----GGTTTAGG
* *
36220034 GTTTTTATTTTTAAGGGTTTAAG
1 GTTTTTA-ATTTAAGGGTTTAGG
* **
36220057 GTTTTTAATTAAATTAGTTTAGG
1 GTTTTTAATTTAA-GGGTTTAGG
* *
36220080 GTTTTTAAGTTAAGGGCTTAGG
1 GTTTTTAATTTAAGGGTTTAGG
36220102 GTTTTTAATTGTAAGGGTTTAGG
1 GTTTTTAATT-TAAGGGTTTAGG
36220125 GTTTTTAATTTAAGGG-TTAGG
1 GTTTTTAATTTAAGGGTTTAGG
* **
36220146 GTTTTTAATTAAATTAGTTTAGG
1 GTTTTTAATTTAA-GGGTTTAGG
* *
36220169 GTTTTTAAGTTAAGGG-TTAGA
1 GTTTTTAATTTAAGGGTTTAGG
* *
36220190 GTTTTTATGTTTAAGGGTTTATG
1 GTTTTTA-ATTTAAGGGTTTAGG
* **
36220213 GTTTTTAATTAAATTAGTTTAGG
1 GTTTTTAATTTAA-GGGTTTAGG
* *
36220236 ATTTTTAAGTTAAGGGTTCGGGTTTAGG
1 GTTTTTAATTTAA------GGGTTTAGG
* * * * **
36220264 GTTTTTATTTTTAAGGGTTTAG
1 GTTTTTAATTTAAGGGTTTAGG
* * ***
36220286 GGTTTTTAATTAAATTATTTTAGG
1 GTTTTT-AATTTAA-GGGTTTAGG
* *
36220310 GTTTTTAAGTTAAGGGTTTATG
1 GTTTTTAATTTAAGGGTTTAGG
*
36220332 GTTTTTAATTTTAAGGGTTTAGA
1 GTTTTTAA-TTTAAGGGTTTAGG
* *
36220355 ATTTTTAATTTAAGGG-TTAGA
1 GTTTTTAATTTAAGGGTTTAGG
* * *
36220376 GTTTTTAAGTTAAAGG-TTAAG
1 GTTTTTAATTTAAGGGTTTAGG
* * *
36220397 GTTTTTAAGTTAAGGATTTAGT
1 GTTTTTAATTTAAGGGTTTAGG
*
36220419 GTTTTTAATTTTAAGGGTTTAAG
1 GTTTTTAA-TTTAAGGGTTTAGG
* * ** *
36220442 ATTTTTAATTAAATTAGTTTAGA
1 GTTTTTAATTTAA-GGGTTTAGG
*
36220465 GTTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAATTTAAGGGTTTAGG
**
36220487 GTTTTTAATTTTAAGAATTTAGG
1 GTTTTTAA-TTTAAGGGTTTAGG
*
36220510 GGTTTTA
1 GTTTTTA
36220517 GGTAATAACT
Statistics
Matches: 832, Mismatches: 191, Indels: 95
0.74 0.17 0.08
Matches are distributed among these distances:
21 123 0.15
22 266 0.32
23 395 0.47
24 13 0.02
27 1 0.00
28 30 0.04
29 4 0.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (22 bp):
GTTTTTAATTTAAGGGTTTAGG
Found at i:36221827 original size:20 final size:20
Alignment explanation
Indices: 36221790--36221827 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36221780 TTTATTTTTA
*
36221790 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
36221810 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
36221828 TACCTCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:36223430 original size:23 final size:24
Alignment explanation
Indices: 36223404--36223453 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
36223394 AAGTTTCTCA
36223404 AATTAT-ATT-TATACAAAATTATT
1 AATTATCATTATATACAAAATT-TT
*
36223427 AATTATCATTATATACAAAGTTTT
1 AATTATCATTATATACAAAATTTT
36223451 AAT
1 AAT
36223454 GAAAAAGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 8 0.33
25 10 0.42
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (24 bp):
AATTATCATTATATACAAAATTTT
Found at i:36226021 original size:26 final size:26
Alignment explanation
Indices: 36225950--36226021 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
36225940 TATGGGCTAG
* *
36225950 TTTGACAA-TGCTTTTAAAAAGTGAT
1 TTTGAAAAGTGCTTTTAAAAAATGAT
* * *
36225975 TTTGAAAAGTGACGTGT-AAAAATGCT
1 TTTGAAAAGTG-CTTTTAAAAAATGAT
*
36226001 TTTGAGAAGTGCTTTTAAAAA
1 TTTGAAAAGTGCTTTTAAAAA
36226022 GTTTGGTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
25 10 0.28
26 23 0.64
27 3 0.08
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (26 bp):
TTTGAAAAGTGCTTTTAAAAAATGAT
Found at i:36232142 original size:16 final size:16
Alignment explanation
Indices: 36232120--36232156 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
36232110 CAATTTTATT
36232120 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
36232137 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
36232152 TAATA
1 TAATA
36232157 TTCATCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:36232529 original size:20 final size:21
Alignment explanation
Indices: 36232506--36232549 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
36232496 ATATTTTAAT
36232506 ATATGCAAA-AATA-ATATAAA
1 ATATG-AAATAATAGATATAAA
*
36232526 ATATGAAATTATAGATATAAA
1 ATATGAAATAATAGATATAAA
36232547 ATA
1 ATA
36232550 AACTCAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 8 0.38
21 10 0.48
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (21 bp):
ATATGAAATAATAGATATAAA
Found at i:36236777 original size:31 final size:31
Alignment explanation
Indices: 36236714--36236779 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
36236704 AAGTTGTGGA
* *
36236714 TTTAGTCCCTATATTTTTTGAATTTATCAAT
1 TTTAGTCCCTATACTTTTTGAATTTATAAAT
*
36236745 TTTAGTCTCTATACTTTTTGAATTT-TGAAAT
1 TTTAGTCCCTATACTTTTTGAATTTAT-AAAT
36236776 TTTA
1 TTTA
36236780 ATCTAGACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.56
Consensus pattern (31 bp):
TTTAGTCCCTATACTTTTTGAATTTATAAAT
Found at i:36242202 original size:25 final size:25
Alignment explanation
Indices: 36242154--36242216 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
36242144 TAATTGAATA
* **
36242154 TTTAATAAATTTATATATTTTTAT-T
1 TTTAA-AATTTTATATATAATTATCT
36242179 TATTAAAATTTTATATATAATTATCT
1 T-TTAAAATTTTATATATAATTATCT
*
36242205 TTTAACATTTTA
1 TTTAAAATTTTA
36242217 AATGTTTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 26 0.81
26 6 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTAAAATTTTATATATAATTATCT
Found at i:36247644 original size:5 final size:5
Alignment explanation
Indices: 36247636--36247661 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
36247626 GAGATGAAAT
36247636 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
36247662 ATATTTGTTC
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:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:36248343 original size:30 final size:31
Alignment explanation
Indices: 36248304--36248363 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
36248294 GGAGGTGGGA
*
36248304 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
36248335 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
36248364 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:36248683 original size:9 final size:9
Alignment explanation
Indices: 36248666--36248696 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
36248656 TCGAGTTGAT
36248666 TCGAATAAC
1 TCGAATAAC
*
36248675 TCGATTAAC
1 TCGAATAAC
36248684 TCGAATAAC
1 TCGAATAAC
36248693 TCGA
1 TCGA
36248697 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:36255280 original size:49 final size:50
Alignment explanation
Indices: 36255178--36255369 Score: 260
Period size: 49 Copynumber: 3.8 Consensus size: 50
36255168 ATTTGGGTAA
*
36255178 AGAGGTCCCATGTAAGACCATGTGTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
36255228 AGAGGTCCCATGTAAGACCATGTCT-GGATATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
36255277 AGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
36255327 AGAACATCTCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
36255370 TGTTATTATC
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
49 46 0.37
50 46 0.37
51 32 0.26
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:36257596 original size:20 final size:21
Alignment explanation
Indices: 36257564--36257608 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
36257554 GTAAGGTGTT
36257564 AATATGCATAATG-GAATAATA
1 AATATGCATAATGTGAATAA-A
36257585 AATATG-ATAATGTGAATAAA
1 AATATGCATAATGTGAATAAA
36257605 AATA
1 AATA
36257609 ATATGAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.29
Consensus pattern (21 bp):
AATATGCATAATGTGAATAAA
Found at i:36257970 original size:22 final size:23
Alignment explanation
Indices: 36257945--36258004 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
36257935 ATAAAAAAAA
*
36257945 CATATAATTATGTATATATAT-T
1 CATATAATTATGTATATAGATAT
* **
36257967 CATAAAAAAATGTATATAGATAT
1 CATATAATTATGTATATAGATAT
*
36257990 -ATATAGTTATGTATA
1 CATATAATTATGTATA
36258005 AAAATATGAG
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (23 bp):
CATATAATTATGTATATAGATAT
Found at i:36260574 original size:28 final size:28
Alignment explanation
Indices: 36260538--36260597 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
36260528 GAAAGAAAGG
*
36260538 AAATTATATATGAA-AATAAATTTAAAAT
1 AAATAATATATGAATAA-AAATTTAAAAT
* *
36260566 AAATAATATATGAATGAAAATTTGAAAT
1 AAATAATATATGAATAAAAATTTAAAAT
36260594 AAAT
1 AAAT
36260598 TAAAAATACG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (28 bp):
AAATAATATATGAATAAAAATTTAAAAT
Found at i:36261000 original size:15 final size:15
Alignment explanation
Indices: 36260971--36261010 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
36260961 TAATAATACT
* *
36260971 AATAATTATAGTAAC
1 AATAATAATATTAAC
*
36260986 ATTAATAATATTAAC
1 AATAATAATATTAAC
36261001 AATAATAATA
1 AATAATAATA
36261011 AACAATAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (15 bp):
AATAATAATATTAAC
Found at i:36269666 original size:23 final size:23
Alignment explanation
Indices: 36269632--36269680 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
36269622 TTCATATATA
*
36269632 TTTTAAAAAATATTATTCAGGTT
1 TTTTAAAAAATATTATTCAAGTT
* *
36269655 TTTTAAATAATATTATTTAAGTT
1 TTTTAAAAAATATTATTCAAGTT
36269678 TTT
1 TTT
36269681 CATTACATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (23 bp):
TTTTAAAAAATATTATTCAAGTT
Done.