Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 113 of 171
Found at i:36172108 original size:16 final size:17
Alignment explanation
Indices: 36172061--36172109 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
36172051 TCTCTCAATC
*
36172061 ATAAAAAAAAGAAA-AA
1 ATAAGAAAAAGAAAGAA
* *
36172077 ATGAGAAAAAGGAAGAA
1 ATAAGAAAAAGAAAGAA
36172094 A-AAGAAAAAGAAAGAA
1 ATAAGAAAAAGAAAGAA
36172110 TTTTTTGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 24 0.89
17 3 0.11
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (17 bp):
ATAAGAAAAAGAAAGAA
Found at i:36174906 original size:72 final size:72
Alignment explanation
Indices: 36174705--36174881 Score: 259
Period size: 72 Copynumber: 2.5 Consensus size: 72
36174695 TTTTATATCC
* * *
36174705 AAAATCAAATATAAACAA-TATTGATAAAACTA-ACTTACATATAAATAAGTAGAACATAAATTC
1 AAAACCAAACATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTC
36174768 AATAACCA
65 AATAACCA
* *
36174776 AAAACCAAACATAAACAGCTATTGATAAAATTAGATTACACATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
**
36174841 ATATTCA
66 ATAACCA
*
36174848 AAAACCAAATATAAACAACTATTGATAAAACTAG
1 AAAACCAAACATAAACAACTATTGATAAAACTAG
36174882 TTTAGCATTG
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
71 15 0.16
72 78 0.83
73 1 0.01
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.24
Consensus pattern (72 bp):
AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
ATAACCA
Found at i:36175333 original size:18 final size:18
Alignment explanation
Indices: 36175306--36175357 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
36175296 CGTTTCCATC
36175306 AATGTTAACATCATTTGA
1 AATGTTAACATCATTTGA
*
36175324 AATGTGAACATCATTTGA
1 AATGTTAACATCATTTGA
*
36175342 AGTGTTAACATCATTT
1 AATGTTAACATCATTT
36175358 CCTGCATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (18 bp):
AATGTTAACATCATTTGA
Found at i:36176385 original size:15 final size:15
Alignment explanation
Indices: 36176365--36176397 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
36176355 TTGGGATGAG
36176365 TTAGCCTTTACTTGT
1 TTAGCCTTTACTTGT
36176380 TTAGCCTTTACTTGT
1 TTAGCCTTTACTTGT
36176395 TTA
1 TTA
36176398 TGTGTCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.12, T:0.55
Consensus pattern (15 bp):
TTAGCCTTTACTTGT
Found at i:36182220 original size:4 final size:4
Alignment explanation
Indices: 36182213--36182263 Score: 54
Period size: 4 Copynumber: 13.0 Consensus size: 4
36182203 ATATATATAT
*
36182213 ATAA ATAA ATAA ATAA AT-- ATAA ATCCA ATAA A-AA ATAA ATAAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA AT-AA ATAA
36182260 ATAA
1 ATAA
36182264 CAAATAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 28 0.70
5 7 0.17
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:36182231 original size:26 final size:25
Alignment explanation
Indices: 36182201--36182271 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
36182191 TTCACATTAC
*
36182201 AAATATATATATATAAATAAATAAAT
1 AAATATAAATA-ATAAATAAATAAAT
36182227 AAATATAAATCCAATAAA-AAATAAAT
1 AAATATAAAT--AATAAATAAATAAAT
*
36182253 AAA-ATAAATAACAAATAAA
1 AAATATAAATAATAAATAAA
36182272 AAAGAATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
23 5 0.12
24 3 0.08
25 6 0.15
26 20 0.50
27 5 0.12
28 1 0.03
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.25
Consensus pattern (25 bp):
AAATATAAATAATAAATAAATAAAT
Found at i:36182258 original size:16 final size:16
Alignment explanation
Indices: 36182215--36182272 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
36182205 ATATATATAT
36182215 AAATAAAT-AAAT-AA
1 AAATAAATAAAATAAA
* **
36182229 ATATAAATCCAATAAA
1 AAATAAATAAAATAAA
36182245 AAATAAATAAAATAAA
1 AAATAAATAAAATAAA
* *
36182261 TAACAAATAAAA
1 AAATAAATAAAA
36182273 AAGAATAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
14 7 0.20
15 3 0.09
16 25 0.71
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATAAATAAAATAAA
Found at i:36182272 original size:26 final size:25
Alignment explanation
Indices: 36182213--36182282 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 25
36182203 ATATATATAT
*
36182213 ATAAATAAATAAATAAATATAAATCCA
1 ATAAA-AAATAAATAAA-ATAAATCAA
36182240 ATAAAAAATAAATAAAATAAATAACAA
1 ATAAAAAATAAATAAAATAAAT--CAA
*
36182267 ATAAAAAA-GAATAAAA
1 ATAAAAAATAAATAAAA
36182283 GGATTTAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.15
26 18 0.46
27 15 0.38
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.20
Consensus pattern (25 bp):
ATAAAAAATAAATAAAATAAATCAA
Found at i:36182280 original size:30 final size:29
Alignment explanation
Indices: 36182215--36182281 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 29
36182205 ATATATATAT
*
36182215 AAATAAATAAATAAATATAAATCCAATAAA
1 AAATAAATAAATAAATACAAAT-CAATAAA
36182245 AAATAAATAAAATAAATAACAAAT-AA-AAA
1 AAATAAAT-AAATAAAT-ACAAATCAATAAA
36182274 AGAATAAA
1 A-AATAAA
36182282 AGGATTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 4 0.12
30 16 0.48
31 8 0.24
32 5 0.15
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.19
Consensus pattern (29 bp):
AAATAAATAAATAAATACAAATCAATAAA
Found at i:36184725 original size:28 final size:27
Alignment explanation
Indices: 36184680--36184733 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
36184670 TCTTTCGAAA
36184680 TCAAACACAGACAAAGTGTATTCAAAGC
1 TCAAACACAGACAAAGTG-ATTCAAAGC
* * * *
36184708 TCAAACATAGAGATAGTGATTGAAAG
1 TCAAACACAGACAAAGTGATTCAAAG
36184734 TTAATACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (27 bp):
TCAAACACAGACAAAGTGATTCAAAGC
Found at i:36184921 original size:13 final size:13
Alignment explanation
Indices: 36184903--36184927 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36184893 TTGATCTTAC
36184903 TGATATTTATTGG
1 TGATATTTATTGG
36184916 TGATATTTATTG
1 TGATATTTATTG
36184928 CAAGTGTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
TGATATTTATTGG
Found at i:36184994 original size:23 final size:20
Alignment explanation
Indices: 36184941--36185002 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
36184931 GTGTTTTAGT
36184941 AAATA-ATTAATAAATAATA
1 AAATATATTAATAAATAATA
* *
36184960 AAATATAGTAATAAATACCTA
1 AAATATATTAATAAATA-ATA
36184981 ATACATATATTAAT-AATAATA
1 A-A-ATATATTAATAAATAATA
36185002 A
1 A
36185003 TTAATAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 5 0.14
20 10 0.29
21 6 0.17
22 5 0.14
23 9 0.26
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (20 bp):
AAATATATTAATAAATAATA
Found at i:36185867 original size:30 final size:30
Alignment explanation
Indices: 36185841--36185996 Score: 192
Period size: 30 Copynumber: 5.2 Consensus size: 30
36185831 AAACTTTCAA
* *
36185841 AAAATTGCATTTTGACCCTCAAACTTTTCC
1 AAAATTACATTTTAACCCTCAAACTTTTCC
36185871 AAAATTACATTTTAACCC-CTAAACTTTTCC
1 AAAATTACATTTTAACCCTC-AAACTTTTCC
*
36185901 AAAATTACATTTTAACCCTTAAACTTCTT-C
1 AAAATTACATTTTAACCCTCAAACTT-TTCC
* * * *
36185931 AAAATTACATTTTAAGCCTTAAACTTCTCT
1 AAAATTACATTTTAACCCTCAAACTTTTCC
* *
36185961 AAAATTACATTTTGACCC-CAAACTTCTCC
1 AAAATTACATTTTAACCCTCAAACTTTTCC
36185990 AAAATTA
1 AAAATTA
36185997 TGATTTTTCC
Statistics
Matches: 112, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
29 18 0.16
30 92 0.82
31 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTAACCCTCAAACTTTTCC
Found at i:36186003 original size:60 final size:59
Alignment explanation
Indices: 36185827--36185996 Score: 225
Period size: 60 Copynumber: 2.8 Consensus size: 59
36185817 CCCAAAAGGT
* *
36185827 CCTTAAACTTTCAAAAAATTGCATTTTGACCCTCAAACTTTTCCAAAATTACATTTTAAC
1 CCTTAAACTTTC-AAAAATTACATTTTGACCCTCAAACTTCTCCAAAATTACATTTTAAC
* * * * * *
36185887 CCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTCTTCAAAATTACATTTTAAG
1 CCTTAAAC-TTTCAAAAATTACATTTTGACCCTCAAACTTCTCCAAAATTACATTTTAAC
*
36185947 CCTTAAACTTCTCTAAAATTACATTTTGACCC-CAAACTTCTCCAAAATTA
1 CCTTAAACTT-TCAAAAATTACATTTTGACCCTCAAACTTCTCCAAAATTA
36185997 TGATTTTTCC
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
59 18 0.19
60 73 0.77
61 4 0.04
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.36
Consensus pattern (59 bp):
CCTTAAACTTTCAAAAATTACATTTTGACCCTCAAACTTCTCCAAAATTACATTTTAAC
Found at i:36186032 original size:90 final size:90
Alignment explanation
Indices: 36185838--36186092 Score: 209
Period size: 90 Copynumber: 2.8 Consensus size: 90
36185828 CTTAAACTTT
* * * *
36185838 CAAAAAATTGCATTTTGACCCTCAAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCCAA
1 CAAAAAATTACATTTTAACCCTCAAACTTCTCCAAAATTACATTTTAACCCCTAAACTTCTCCAA
* *
36185903 AATTACATTTTAACCCTTAAACTTC
66 AATTACATTTTAACCCTCAAACTGC
*** * * * *
36185928 TTCAAAATTACATTTTAAGCCTTAAACTTCTCTAAAATTACATTTTGACCCC-AAACTTCTCCAA
1 CAAAAAATTACATTTTAACCCTCAAACTTCTCCAAAATTACATTTTAACCCCTAAACTTCTCCAA
* *
36185992 AATTATGATTTT-TCCCTCAAA-TAGC
66 AATTA-CATTTTAACCCTCAAACT-GC
* * * * * *
36186017 CAAAAAATTACCATTTT-GCCCCCGAACATC-CAAAAATTTCAATTTTAA-CCCTCAAA-TTCCT
1 CAAAAAATTA-CATTTTAACCCTCAAACTTCTCCAAAATTAC-ATTTTAACCCCT-AAACTT-CT
*
36186078 CAAAAATTACATTTT
62 CCAAAATTACATTTT
36186093 CATCCCGAAT
Statistics
Matches: 129, Mismatches: 29, Indels: 15
0.75 0.17 0.09
Matches are distributed among these distances:
88 12 0.09
89 51 0.40
90 66 0.51
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (90 bp):
CAAAAAATTACATTTTAACCCTCAAACTTCTCCAAAATTACATTTTAACCCCTAAACTTCTCCAA
AATTACATTTTAACCCTCAAACTGC
Found at i:36190219 original size:24 final size:23
Alignment explanation
Indices: 36190175--36190220 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
36190165 AGCAAATTCA
**
36190175 AAAAGAGATGCAAGATTAAATGC
1 AAAAGAGATGCAAGAACAAATGC
*
36190198 AAAAGCAGTTGCAAGAACAAATG
1 AAAAG-AGATGCAAGAACAAATG
36190221 ACGATGATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.52, C:0.11, G:0.22, T:0.15
Consensus pattern (23 bp):
AAAAGAGATGCAAGAACAAATGC
Found at i:36198134 original size:39 final size:39
Alignment explanation
Indices: 36198089--36198753 Score: 443
Period size: 39 Copynumber: 17.0 Consensus size: 39
36198079 TCTTTAACCT
**
36198089 CGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACAT
1 CGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
* * * * *
36198128 CGAGCCTGGGGCAGATTACAACCATCCGATCTCTTACCC
1 CGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
*
36198167 CGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCC
1 CGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
* *
36198206 CGAGCCTGGGGCAGATTGCAGCCATTC-G---ATCTTTTACCT
1 CGAGCCTGGGGCAGA-T-CA-CCA-TCAGCCAATCTCTTACCC
* *
36198245 CAAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCC
1 CGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
** * * * *
36198284 CGAGCCTATGGTAGATTGCAGCA--ATCCGATCTCTTACCC
1 CGAGCCTGGGGCAGA-T-CACCATCAGCCAATCTCTTACCC
* *
36198323 TGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCC
1 CGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
* * *
36198362 CAAGCTTGGGGCAGATCACCATCAGCTAATCTCTTACCC
1 CGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
**** * * * *
36198401 C-AGGCCTATAACAGATTGCAGCCAT---TCTATTTTTTACCC
1 CGA-GCCTGGGGCAGA-T-CA-CCATCAGCCAATCTCTTACCC
* * *
36198440 CGAGCCTAGGGTAGATCACCATCAACCAATCTCCTTACCC
1 CGAGCCTGGGGCAGATCACCATCAGCCAATCT-CTTACCC
* * ** * * * *
36198480 CGAGCTTAGGGCAGATTGCAATCATCCGATCTTTTACCC
1 CGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
* * * *
36198519 CTAGCCTAGGGCAGATCATCATCAGCCAATCTCTTACCA
1 CGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
* * *
36198558 TGAGCCTAGGGCAGATTGCAGCCATTC-G---ATCTTTTACCC
1 CGAGCCTGGGGCAGA-T-CA-CCA-TCAGCCAATCTCTTACCC
* * ****
36198597 CGAGCTTGGGGCAGATTA-CAGTCATTTGATCTCTTACCC
1 CGAGCCTGGGGCAGATCACCA-TCAGCCAATCTCTTACCC
*
36198636 CGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCC
1 CGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
* * *
36198675 CGAGCCT-AGGCTAGATTGTAGCCAT---CCGATCTCTTACCC
1 CGAGCCTGGGGC-AGA-T-CA-CCATCAGCCAATCTCTTACCC
* * *
36198714 CGAGCTTGAGGCATATCACCATCAAG-CAATCTCTTACCC
1 CGAGCCTGGGGCAGATCACCATC-AGCCAATCTCTTACCC
36198753 C
1 C
36198754 ACGACAGAGG
Statistics
Matches: 487, Mismatches: 100, Indels: 78
0.73 0.15 0.12
Matches are distributed among these distances:
35 6 0.01
36 12 0.02
37 10 0.02
38 9 0.02
39 377 0.77
40 43 0.09
41 11 0.02
42 15 0.03
43 4 0.01
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (39 bp):
CGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
Found at i:36198171 original size:78 final size:78
Alignment explanation
Indices: 36198073--36198787 Score: 538
Period size: 78 Copynumber: 9.2 Consensus size: 78
36198063 CAGATTGAAG
* * **
36198073 ATCCGATCT-TTAACCTCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACATCGAGCCTGG
1 ATCCGATCTCTT-ACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGG
36198137 GGCAGATTACAACC
65 GGCAGATTACAACC
36198151 ATCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGG
1 ATCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGG
* *
36198216 GCAGATTGCAGCC
66 GCAGATTACAACC
* * * * **
36198229 ATTCGATCTTTTACCTCAAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTATG
1 ATCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGG
* * * *
36198294 GTAGATTGCAGCA
66 GCAGATTACAACC
* * *
36198307 ATCCGATCTCTTACCCTGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCAAGCTTGGG
1 ATCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGG
* * *
36198372 GCAGATCACCATC
66 GCAGATTACAACC
* ** * **** * * * *
36198385 AGCTAATCTCTTACCCC-AGGCCTATAACAGATTGCAGCCAT---TCTATTTTTTACCCCGAGCC
1 ATCCGATCTCTTACCCCGA-GCTTGGGGCAGA-T-CA-CCATCAGCCAATCTCTTACCCCGAGCC
* * * * *
36198446 TAGGGTAGATCACCATC
62 TGGGGCAGATTACAACC
* * * ** * * * * * *
36198463 AACCAATCTCCTTACCCCGAGCTTAGGGCAGATTGCAATCATCCGATCTTTTACCCCTAGCCTAG
1 ATCCGATCT-CTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGG
* *
36198528 GGCAGATCATC-ATC
65 GGCAGATTA-CAACC
* * ** * * * *
36198542 AGCCAATCTCTTACCATGAGCCTAGGGCAGATTGCAGCCATTC-G---ATCTTTTACCCCGAGCT
1 ATCCGATCTCTTACCCCGAGCTTGGGGCAGA-T-CA-CCA-TCAGCCAATCTCTTACCCCGAGCC
**
36198603 TGGGGCAGATTACAGTC
62 TGGGGCAGATTACAACC
** *
36198620 ATTTGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCT-AG
1 ATCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGG
** *
36198684 GCTAGATTGTAGCC
66 GC-AGATTACAACC
* * * *
36198698 ATCCGATCTCTTACCCCGAGCTTGAGGCATATCACCATCAAG-CAATCTCTTACCCC-ACGACAG
1 ATCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATC-AGCCAATCTCTTACCCCGA-GCCTG
* *
36198761 AGGCAGATTGCAACC
64 GGGCAGATTACAACC
*
36198776 ATCCAATCTCTT
1 ATCCGATCTCTT
36198788 CCTAAAAAAA
Statistics
Matches: 516, Mismatches: 97, Indels: 48
0.78 0.15 0.07
Matches are distributed among these distances:
74 2 0.00
75 4 0.01
76 5 0.01
77 7 0.01
78 422 0.82
79 64 0.12
80 4 0.01
81 6 0.01
82 2 0.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (78 bp):
ATCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGG
GCAGATTACAACC
Found at i:36199358 original size:21 final size:21
Alignment explanation
Indices: 36199334--36199375 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36199324 AAACCAAACC
* *
36199334 CAAATAAATTTTAAATTTAAA
1 CAAAAAAAATTTAAATTTAAA
*
36199355 CAAAAAAAATTTGAATTTAAA
1 CAAAAAAAATTTAAATTTAAA
36199376 ATGTCCAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
CAAAAAAAATTTAAATTTAAA
Found at i:36201068 original size:29 final size:30
Alignment explanation
Indices: 36200937--36201071 Score: 155
Period size: 30 Copynumber: 4.5 Consensus size: 30
36200927 AAGGTTCCTG
* * *
36200937 AACTTTTCAAAAATTACAATTTAACCCCCA
1 AACTTCTCCAAAATTACATTTTAACCCCCA
* *
36200967 AACTTTTCCAAAATTACATTTTAACCCTCA
1 AACTTCTCCAAAATTACATTTTAACCCCCA
** *
36200997 AACTTCTTTAAAATTACATTTTGACCCCCA
1 AACTTCTCCAAAATTACATTTTAACCCCCA
** * *
36201027 AACTTCTTTAAAATTACATTTTGA-CCCTA
1 AACTTCTCCAAAATTACATTTTAACCCCCA
36201056 AACTTCTCCAAAATTA
1 AACTTCTCCAAAATTA
36201072 TGATTTTTCC
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
29 18 0.19
30 76 0.81
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.36
Consensus pattern (30 bp):
AACTTCTCCAAAATTACATTTTAACCCCCA
Found at i:36201078 original size:60 final size:60
Alignment explanation
Indices: 36200937--36201071 Score: 175
Period size: 60 Copynumber: 2.3 Consensus size: 60
36200927 AAGGTTCCTG
* * * *
36200937 AACTTTTCAAAAATTACAATTTAACCCCCAAACTTTTCCAAAATTACATTTTAACCCTCA
1 AACTTCTCCAAAATTACATTTTGACCCCCAAACTTTTCCAAAATTACATTTTAACCCTCA
** * *
36200997 AACTTCTTTAAAATTACATTTTGACCCCCAAACTTCTT-TAAAATTACATTTTGACCCT-A
1 AACTTCTCCAAAATTACATTTTGACCCCCAAACTT-TTCCAAAATTACATTTTAACCCTCA
36201056 AACTTCTCCAAAATTA
1 AACTTCTCCAAAATTA
36201072 TGATTTTTCC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 15 0.23
60 48 0.74
61 2 0.03
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.36
Consensus pattern (60 bp):
AACTTCTCCAAAATTACATTTTGACCCCCAAACTTTTCCAAAATTACATTTTAACCCTCA
Found at i:36201105 original size:28 final size:29
Alignment explanation
Indices: 36201036--36201156 Score: 84
Period size: 29 Copynumber: 4.2 Consensus size: 29
36201026 AAACTTCTTT
* * * *
36201036 AAAATTA-CATTTTGACCCTAAACTTCTCC
1 AAAATTACCATTTTGCCCCTGAACATC-CA
** * * *
36201065 AAAATTATGATTTTTCCTC-GAATATCCA
1 AAAATTACCATTTTGCCCCTGAACATCCA
*
36201093 AAAATTACCATTTTGCCCCTGAACATCTA
1 AAAATTACCATTTTGCCCCTGAACATCCA
* * ** *
36201122 AAATTTACCATTTTACCCCCAAACATTCA
1 AAAATTACCATTTTGCCCCTGAACATCCA
36201151 AAAATT
1 AAAATT
36201157 TCAATTTGGC
Statistics
Matches: 69, Mismatches: 21, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
28 16 0.23
29 46 0.67
30 7 0.10
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTGCCCCTGAACATCCA
Found at i:36203928 original size:31 final size:31
Alignment explanation
Indices: 36203888--36203946 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
36203878 GAGAAAATTT
* * *
36203888 TTTTAGGCCCTTTAAAATTTGTTAAAAAAAA
1 TTTTAGGCCCCTTAAAAGTTGGTAAAAAAAA
*
36203919 TTTTGGGCCCCTTAAAAGTTGGTAAAAA
1 TTTTAGGCCCCTTAAAAGTTGGTAAAAA
36203947 CTTCTTTTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (31 bp):
TTTTAGGCCCCTTAAAAGTTGGTAAAAAAAA
Found at i:36203978 original size:32 final size:29
Alignment explanation
Indices: 36203912--36204006 Score: 93
Period size: 32 Copynumber: 3.2 Consensus size: 29
36203902 AAATTTGTTA
* * **
36203912 AAAAAAATTTTGGGCCCCTTAAAAGTTGG
1 AAAAAATTTTTGGACCCCTTAAAAACTGG
* *
36203941 TAAAAACTTCTTTTGGACCCCTTAAAACCTGG
1 -AAAAA-AT-TTTTGGACCCCTTAAAAACTGG
*
36203973 AAAAAATTTTTGAACCCCTTAAAAACT-G
1 AAAAAATTTTTGGACCCCTTAAAAACTGG
36204001 AAAAAA
1 AAAAAA
36204007 GAAATTTAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
28 7 0.13
29 18 0.33
30 6 0.11
31 5 0.09
32 19 0.35
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (29 bp):
AAAAAATTTTTGGACCCCTTAAAAACTGG
Found at i:36204004 original size:28 final size:29
Alignment explanation
Indices: 36203951--36204006 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
36203941 TAAAAACTTC
* *
36203951 TTTTGGACCCCTTAAAACCTGGAAAAAAT
1 TTTTGAACCCCTTAAAAACTGGAAAAAAT
36203980 TTTTGAACCCCTTAAAAACT-GAAAAAA
1 TTTTGAACCCCTTAAAAACTGGAAAAAA
36204007 GAAATTTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.27
Consensus pattern (29 bp):
TTTTGAACCCCTTAAAAACTGGAAAAAAT
Found at i:36205947 original size:140 final size:141
Alignment explanation
Indices: 36205629--36205958 Score: 448
Period size: 143 Copynumber: 2.3 Consensus size: 141
36205619 TTTGTAAGAT
* * * *
36205629 AACGCTTAAATAAGAGTTGGCTTTTTCTAACACTATGCCAACACTTTTGGGACGACACTTTCCTA
1 AACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACACTTTTGGGACAACACTTTCCTA
* * * *
36205694 AGTATTGGGATAGACTTGCCGACATACACTTTTGCCAACTCTTTTTTGTATAAGGGTTGGGATAT
66 AGTATTGGGATAGACTTGCCGACATACACTATGGCCAACTC--TTTTGTATAAAGGTTGAGATAT
* *
36205759 GCATGCCTAAGGT
129 GCATGCATAAGGC
* * * * * *
36205772 AACGCTTAAATAAGAGTCGACTTTGTCCAATACTATGGCGACACTTTTGGGCCAACACTTTTCTA
1 AACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACACTTTTGGGACAACACTTTCCTA
* * *
36205837 AGTGTTGGGATAGACTTGCTGACATACGCTATGGCCAACTC-TTTGTATAAAGGTTGAGATATGC
66 AGTATTGGGATAGACTTGCCGACATACACTATGGCCAACTCTTTTGTATAAAGGTTGAGATATGC
36205901 ATGCATAAGGC
131 ATGCATAAGGC
*
36205912 AACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGTCAAC-CTTTT
1 AACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACACTTTT
36205959 TAAGGTTGCC
Statistics
Matches: 164, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
139 5 0.03
140 68 0.41
143 91 0.55
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (141 bp):
AACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACACTTTTGGGACAACACTTTCCTA
AGTATTGGGATAGACTTGCCGACATACACTATGGCCAACTCTTTTGTATAAAGGTTGAGATATGC
ATGCATAAGGC
Found at i:36206057 original size:38 final size:35
Alignment explanation
Indices: 36205950--36206058 Score: 137
Period size: 36 Copynumber: 3.0 Consensus size: 35
36205940 AACACTATGT
**
36205950 CAACCTTTTTAAGGTTGCCTTAGGTAAGGTCTATCC
1 CAACC-TTTTAAGGTTGCCTTAGACAAGGTCTATCC
*
36205986 CAACCATTTTAAGGTTTCCTTAGACAAGGTCTATCC
1 CAACC-TTTTAAGGTTGCCTTAGACAAGGTCTATCC
*
36206022 CAACCTTTTAAAATGGTTGCCTTAGACAAGCTCTATC
1 CAACCTTTT--AA-GGTTGCCTTAGACAAGGTCTATC
36206059 TATAACACCC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
35 4 0.06
36 37 0.58
37 2 0.03
38 21 0.33
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (35 bp):
CAACCTTTTAAGGTTGCCTTAGACAAGGTCTATCC
Found at i:36207075 original size:23 final size:23
Alignment explanation
Indices: 36207049--36207148 Score: 103
Period size: 23 Copynumber: 4.2 Consensus size: 23
36207039 CTGAGTCTTT
36207049 CAGAAATTTAGCTCATACGAGCC
1 CAGAAATTTAGCTCATACGAGCC
*
36207072 CAGACAAAATTAGCTCATACGAGCC
1 CAG--AAATTTAGCTCATACGAGCC
** *
36207097 CAGATAGGTTAGCTCTTACGAGCC
1 CAGA-AATTTAGCTCATACGAGCC
* *
36207121 CAG-AATGTTAACTCTTACGAGCC
1 CAGAAAT-TTAGCTCATACGAGCC
36207144 CAGAA
1 CAGAA
36207149 TGGATAGCTC
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
22 1 0.02
23 22 0.34
24 20 0.31
25 22 0.34
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (23 bp):
CAGAAATTTAGCTCATACGAGCC
Found at i:36207158 original size:47 final size:48
Alignment explanation
Indices: 36207057--36207197 Score: 160
Period size: 47 Copynumber: 2.9 Consensus size: 48
36207047 TTCAGAAATT
* ** * *
36207057 TAGCTCATACGAGCCCAGACAAAATTAGCTCATACGAGCCCAG-ATAGGT
1 TAGCTCTTACGAGCCCAG--AATGTTAGCTCTTACGAGCCCAGAATAGGA
*
36207106 TAGCTCTTACGAGCCCAGAATGTTAACTCTTACGAGCCCAGAAT-GGA
1 TAGCTCTTACGAGCCCAGAATGTTAGCTCTTACGAGCCCAGAATAGGA
* * *
36207153 TAGCTCTTTCGAGCCCAGAATGGTTAGCTCTTACCAGCCTAGAAT
1 TAGCTCTTACGAGCCCAGAAT-GTTAGCTCTTACGAGCCCAGAAT
36207198 CAGAATAATG
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
47 41 0.51
48 22 0.28
49 17 0.21
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (48 bp):
TAGCTCTTACGAGCCCAGAATGTTAGCTCTTACGAGCCCAGAATAGGA
Found at i:36207197 original size:24 final size:24
Alignment explanation
Indices: 36207056--36207197 Score: 162
Period size: 24 Copynumber: 5.9 Consensus size: 24
36207046 TTTCAGAAAT
* ***
36207056 TTAGCTCATACGAGCCCAGACAAAA
1 TTAGCTCTTACGAGCCCAGA-ATGG
*
36207081 TTAGCTCATACGAGCCCAG-ATAGG
1 TTAGCTCTTACGAGCCCAGAAT-GG
36207105 TTAGCTCTTACGAGCCCAGAAT-G
1 TTAGCTCTTACGAGCCCAGAATGG
*
36207128 TTAACTCTTACGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
* *
36207152 ATAGCTCTTTCGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
* *
36207176 TTAGCTCTTACCAGCCTAGAAT
1 TTAGCTCTTACGAGCCCAGAAT
36207198 CAGAATAATG
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
23 23 0.23
24 58 0.57
25 21 0.21
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAGAATGG
Found at i:36207225 original size:27 final size:27
Alignment explanation
Indices: 36207179--36207273 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 27
36207169 AGAATGGTTA
* *
36207179 GCTCTTACCAGCCTAGAATCAGAATAAT
1 GCTCTTTCAAGCC-AGAATCAGAATAAT
* * *
36207207 GTTTTTTTAAGCCAGAATCAGAATAAT
1 GCTCTTTCAAGCCAGAATCAGAATAAT
* * *
36207234 GCTCTTTCGAGCCAGAATCAGATTAAC
1 GCTCTTTCAAGCCAGAATCAGAATAAT
*
36207261 GCTCTTTCGAGCC
1 GCTCTTTCAAGCC
36207274 TTCAGTTTCG
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
27 48 0.86
28 8 0.14
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (27 bp):
GCTCTTTCAAGCCAGAATCAGAATAAT
Found at i:36209233 original size:110 final size:110
Alignment explanation
Indices: 36209034--36209284 Score: 276
Period size: 109 Copynumber: 2.3 Consensus size: 110
36209024 GGCTATTACA
* *
36209034 CTATCCCAACCTTTTAAAAAGGTTGCCTTAGACAAGGTCTATCCCAACATTTTTAAGGTTGCCTT
1 CTATCCCAACCTTTT-AAAAGGTTGCCTTAGACAAGATCTATCCCAACATTTTTAAAGTTGCCTT
* *
36209099 AAACAGAATCTGTCCCAACCTTTTTGAAAGGTTGCCTCAAACAAGGT
65 AAACAGAATCTATCCCAACCTTTTT-AAAAGTTGCCTCAAACAAGGT
* * * *
36209146 CTATCCCAACCTTTT-TAAGGTTGTCTTAGACATGATTTATCCCAACCA-TTTTAAAGTTGCCTT
1 CTATCCCAACCTTTTAAAAGGTTGCCTTAGACAAGATCTATCCCAA-CATTTTTAAAGTTGCCTT
* * **** * *
36209209 AGACA-AGTCTATCCCAACCTTTTTTAAAAGTTGCCTTGGGCAAAGC
65 AAACAGAATCTATCCCAACC-TTTTTAAAAGTTGCCTCAAACAAGGT
* *
36209255 CTACCCCAACCTTTTTAAA-GTTGCCTTAGA
1 CTATCCCAACCTTTTAAAAGGTTGCCTTAGA
36209285 TGAGTCTGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
109 50 0.43
110 50 0.43
111 2 0.02
112 15 0.13
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (110 bp):
CTATCCCAACCTTTTAAAAGGTTGCCTTAGACAAGATCTATCCCAACATTTTTAAAGTTGCCTTA
AACAGAATCTATCCCAACCTTTTTAAAAGTTGCCTCAAACAAGGT
Found at i:36209278 original size:73 final size:74
Alignment explanation
Indices: 36209034--36209284 Score: 273
Period size: 74 Copynumber: 3.4 Consensus size: 74
36209024 GGCTATTACA
* *
36209034 CTATCCCAACCTTTTAAAAAGGTTGCCTTAGACAAGGTCTATCCCAA-CATTTTTAAGGTTGCCT
1 CTATCCCAACCTTTT-TAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAGGTTGCCT
*
36209098 TAAACAGAA-T
65 TAGACA-AAGT
* * * *
36209108 CTGTCCCAACCTTTTTGAAAGGTTGCCTCAAACAAGGTCTATCCCAACC-TTTTTAAGGTTGTCT
1 CTATCCCAACCTTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAGGTTGCCT
*
36209172 TAGAC-ATGAT
65 TAGACAAAG-T
* * *
36209182 TTATCCCAACCATTTTAAA-GTTGCCTTAGACAA-GTCTATCCCAACCTTTTTTAAAAGTTGCCT
1 CTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTT-AAGGTTGCCT
* * *
36209245 TGGGCAAAGC
65 TAGACAAAGT
*
36209255 CTACCCCAACCTTTTTAAA-GTTGCCTTAGA
1 CTATCCCAACCTTTTTAAAGGTTGCCTTAGA
36209285 TGAGTCTGTC
Statistics
Matches: 149, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
71 13 0.09
72 18 0.12
73 41 0.28
74 76 0.51
75 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (74 bp):
CTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAGGTTGCCTT
AGACAAAGT
Found at i:36209302 original size:36 final size:35
Alignment explanation
Indices: 36209034--36209303 Score: 252
Period size: 36 Copynumber: 7.4 Consensus size: 35
36209024 GGCTATTACA
*
36209034 CTATCCCAACCTTTTAAAAAGGTTGCCTTAGACAAGGT
1 CTATCCCAACCTTTT-TAAA-GTTGCCTTAGACAA-GT
* * * *
36209072 CTATCCCAACATTTTTAAGGTTGCCTTAAACAGAAT
1 CTATCCCAACCTTTTTAAAGTTGCCTTAGACA-AGT
* * *
36209108 CTGTCCCAACCTTTTTGAAAGGTTGCCTCAAACAAGGT
1 CTATCCCAACCTTTTT-AAA-GTTGCCTTAGACAA-GT
* * *
36209146 CTATCCCAACCTTTTTAAGGTTGTCTTAGACATGAT
1 CTATCCCAACCTTTTTAAAGTTGCCTTAGACAAG-T
* *
36209182 TTATCCCAACCATTTTAAAGTTGCCTTAGACAAGT
1 CTATCCCAACCTTTTTAAAGTTGCCTTAGACAAGT
* * *
36209217 CTATCCCAACCTTTTTTAAAAGTTGCCTTGGGCAAAGC
1 CTATCCCAACC-TTTTT-AAAGTTGCCTTAGAC-AAGT
* **
36209255 CTACCCCAACCTTTTTAAAGTTGCCTTAGATGAGT
1 CTATCCCAACCTTTTTAAAGTTGCCTTAGACAAGT
*
36209290 CTGTCCCAAACCTT
1 CTATCCC-AACCTT
36209304 CAATAAAGGT
Statistics
Matches: 189, Mismatches: 34, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
35 19 0.10
36 89 0.47
37 26 0.14
38 55 0.29
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (35 bp):
CTATCCCAACCTTTTTAAAGTTGCCTTAGACAAGT
Found at i:36211453 original size:94 final size:94
Alignment explanation
Indices: 36211317--36211509 Score: 307
Period size: 94 Copynumber: 2.1 Consensus size: 94
36211307 TTGTCAATAA
* * *
36211317 GTTTGTTGATGGTTTACTAGACATTAGTTGTTGTTATTTGGCTATTTCATTGTGTTTGTAACTGA
1 GTTTGTTGATGATTTACTAGACATTAGTTGTTGTTATCTGGCTATTTCATTGTGTTTGTAACTAA
* *
36211382 CTATTAGGTTCTTATTTGATGTCTTCATT
66 ATATTAGATTCTTATTTGATGTCTTCATT
*
36211411 GTTTGTTGATGATTTACTAGACATT-GATTGTTTTTATCTGGCTATTTCATTGTGTTTGTAACTA
1 GTTTGTTGATGATTTACTAGACATTAG-TTGTTGTTATCTGGCTATTTCATTGTGTTTGTAACTA
*
36211475 AATGTTAGATTCTTATTTGATGTCTTCATT
65 AATATTAGATTCTTATTTGATGTCTTCATT
36211505 GTTTG
1 GTTTG
36211510 GGATGTACTG
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
93 1 0.01
94 90 0.99
ACGTcount: A:0.19, C:0.09, G:0.19, T:0.52
Consensus pattern (94 bp):
GTTTGTTGATGATTTACTAGACATTAGTTGTTGTTATCTGGCTATTTCATTGTGTTTGTAACTAA
ATATTAGATTCTTATTTGATGTCTTCATT
Found at i:36211725 original size:2 final size:2
Alignment explanation
Indices: 36211714--36211748 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
36211704 GGCATGCTGC
36211714 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36211749 GTTATAGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:36212201 original size:74 final size:74
Alignment explanation
Indices: 36212080--36212408 Score: 387
Period size: 74 Copynumber: 4.4 Consensus size: 74
36212070 GTTTTAAATG
* * ** *
36212080 GATCTATCCCAACCTTTTTAAGGTTTCCTTAGACGATTTC-ATACCAA-CTTTTTCTAAAAGGTT
1 GATCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTT-T-AAAGGTT
*
36212143 TCCTTAGACAA
64 GCCTTAGACAA
* * * *
36212154 GATCTATGCCAACCTTTTAAAGGTTGCTTTAGAC-ATGTCTATCCCAACCTTTTTTAAAGGTTGC
1 GATCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGC
*
36212218 CTTAAACAA
66 CTTAGACAA
* * * * *
36212227 GGTATATCCCAACCTTTTTAAGGTTACTTTAGACAAGGTTTATCCCAACCTTTTTTAAAGGTTGC
1 GATCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGC
36212292 CTTAGACAA
66 CTTAGACAA
* * * *
36212301 GGTCTATCCCAACCTTTTTGAGGTTGCCTTAGAC-GGGTCTATCCCAACCTTTTTTAAATCGTTG
1 GATCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAA-GGTTG
36212365 CCTTAGACAA
65 CCTTAGACAA
*
36212375 GACCTATCCCAACCTTTTTTAAAGGTTGGCCTTA
1 GATCTATCCCAACC-TTTTT-AAGGTT-GCCTTA
36212409 ACTCGATTTT
Statistics
Matches: 222, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
73 71 0.32
74 129 0.58
75 11 0.05
76 5 0.02
77 6 0.03
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (74 bp):
GATCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGC
CTTAGACAA
Found at i:36212243 original size:38 final size:38
Alignment explanation
Indices: 36212082--36212408 Score: 354
Period size: 38 Copynumber: 8.8 Consensus size: 38
36212072 TTTAAATGGA
* * **
36212082 TCTATCCCAACC-TTTTT-AAGGTTTCCTTAGACGATT
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
* * *
36212118 TC-ATACCAA-CTTTTTCTAAAAGGTTTCCTTAGACAAGA
1 TCTATCCCAACCTTTTT-T-AAAGGTTGCCTTAGACAAGG
* * *
36212156 TCTATGCCAACC--TTTTAAAGGTTGCTTTAGAC-ATG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
*
36212191 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAAACAAGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
* * *
36212229 TATATCCCAACC-TTTTT-AAGGTTACTTTAGACAAGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
*
36212265 TTTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
* *
36212303 TCTATCCCAACC-TTTTT-GAGGTTGCCTTAGAC-GGG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
* *
36212338 TCTATCCCAACCTTTTTTAAATCGTTGCCTTAGACAAGA
1 TCTATCCCAACCTTTTTTAAA-GGTTGCCTTAGACAAGG
*
36212377 CCTATCCCAACCTTTTTTAAAGGTTGGCCTTA
1 TCTATCCCAACCTTTTTTAAAGGTT-GCCTTA
36212409 ACTCGATTTT
Statistics
Matches: 246, Mismatches: 29, Indels: 29
0.81 0.10 0.10
Matches are distributed among these distances:
34 1 0.00
35 36 0.15
36 63 0.26
37 35 0.14
38 77 0.31
39 33 0.13
40 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (38 bp):
TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
Found at i:36212351 original size:147 final size:148
Alignment explanation
Indices: 36212084--36212393 Score: 412
Period size: 147 Copynumber: 2.1 Consensus size: 148
36212074 TAAATGGATC
* *
36212084 TATCCCAACCTTTTTAAGGTTTCCTTAGACGATTTCATACCAACTTTTTCTAAAAGGTTTCCTTA
1 TATCCCAACCTTTTTAAGGTTACCTTAGACGATTTCATACCAACTTTTTCTAAAAGGTTGCCTTA
* * * *
36212149 GACAAGATCTATGCCAACCTTTTAAAGGTTGCTTTAGACATGTCTATCCCAACCTTTTTTAAA-G
66 GACAAGATCTATCCCAACCTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAATC
**
36212213 GTTGCCTTAAACAAGGTA
131 GTTGCCTTAAACAAGACA
* * *
36212231 TATCCCAACCTTTTTAAGGTTACTTTAGACAAGGTTT-ATCCCAACCTTTTT-T-AAAGGTTGCC
1 TATCCCAACCTTTTTAAGGTTACCTTAGAC--GATTTCATACCAA-CTTTTTCTAAAAGGTTGCC
* ** *
36212293 TTAGACAAGGTCTATCCCAACCTTTTTGAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAA
63 TTAGACAAGATCTATCCCAACCTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAA
* *
36212358 ATCGTTGCCTTAGACAAGACC
128 ATCGTTGCCTTAAACAAGACA
36212379 TATCCCAACCTTTTT
1 TATCCCAACCTTTTT
36212394 TAAAGGTTGG
Statistics
Matches: 142, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
147 96 0.68
148 36 0.25
149 10 0.07
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (148 bp):
TATCCCAACCTTTTTAAGGTTACCTTAGACGATTTCATACCAACTTTTTCTAAAAGGTTGCCTTA
GACAAGATCTATCCCAACCTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAATC
GTTGCCTTAAACAAGACA
Found at i:36216772 original size:39 final size:39
Alignment explanation
Indices: 36216587--36216793 Score: 147
Period size: 39 Copynumber: 5.3 Consensus size: 39
36216577 TGAACTATCG
* *
36216587 GTGACGCTGTAAACACCATAATACTGTA-TCGAACT-AGCA
1 GTGACACTGTAAACACCGTAATACTGTACT-GAACTGA-CA
* * ** * *
36216626 GTGACACTATAAACACCGCAA-ACCAATACTGAATTGATA
1 GTGACACTGTAAACACCGTAATA-CTGTACTGAACTGACA
* * *
36216665 GTGACACTGTAAA-ACCGTAATATTGTATCT-AATTGGCA
1 GTGACACTGTAAACACCGTAATACTGTA-CTGAACTGACA
* * ** *
36216703 GTGACACTGTAAACACTGCAA-ACCAATACTGAACTGACG
1 GTGACACTGTAAACACCGTAATA-CTGTACTGAACTGACA
* * *
36216742 GTGACACCGTAAACACCGTAATACTGTACTGAGCTGGCA
1 GTGACACTGTAAACACCGTAATACTGTACTGAACTGACA
*
36216781 GTGACATTGTAAA
1 GTGACACTGTAAA
36216794 ACTGCATAGC
Statistics
Matches: 126, Mismatches: 33, Indels: 18
0.71 0.19 0.10
Matches are distributed among these distances:
38 31 0.25
39 92 0.73
40 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (39 bp):
GTGACACTGTAAACACCGTAATACTGTACTGAACTGACA
Found at i:36216798 original size:77 final size:78
Alignment explanation
Indices: 36216571--36216799 Score: 270
Period size: 77 Copynumber: 3.0 Consensus size: 78
36216561 CTTTAAAATG
* * * *
36216571 CAATATTGAACT-ATCGGTGACGCTGTAAACACCATAATACTGTA-TCGAACTAGCAGTGACACT
1 CAATACTGAACTGA-CGGTGACACTGTAAACACCGTAATACTGTACT-GAACTGGCAGTGACACT
* *
36216634 ATAAACACCGCAAAC
64 GTAAACACTGCAAAC
* ** * *
36216649 CAATACTGAATTGATAGTGACACTGTAAA-ACCGTAATATTGTATCT-AATTGGCAGTGACACTG
1 CAATACTGAACTGACGGTGACACTGTAAACACCGTAATACTGTA-CTGAACTGGCAGTGACACTG
36216712 TAAACACTGCAAAC
65 TAAACACTGCAAAC
* * *
36216726 CAATACTGAACTGACGGTGACACCGTAAACACCGTAATACTGTACTGAGCTGGCAGTGACATTGT
1 CAATACTGAACTGACGGTGACACTGTAAACACCGTAATACTGTACTGAACTGGCAGTGACACTGT
36216791 AAA-ACTGCA
66 AAACACTGCA
36216800 TAGCTATGTT
Statistics
Matches: 127, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
77 72 0.57
78 53 0.42
79 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.24
Consensus pattern (78 bp):
CAATACTGAACTGACGGTGACACTGTAAACACCGTAATACTGTACTGAACTGGCAGTGACACTGT
AAACACTGCAAAC
Found at i:36226693 original size:22 final size:22
Alignment explanation
Indices: 36226668--36226709 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
36226658 AAATAAAGAG
* *
36226668 AAAACAATAAGAAAATAGCATT
1 AAAACAACAAAAAAATAGCATT
36226690 AAAACAACAAAAAAATAGCA
1 AAAACAACAAAAAAATAGCA
36226710 AATTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.69, C:0.12, G:0.07, T:0.12
Consensus pattern (22 bp):
AAAACAACAAAAAAATAGCATT
Found at i:36228203 original size:25 final size:25
Alignment explanation
Indices: 36228170--36228220 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
36228160 AAACAACCTA
*
36228170 AAGGCAGAAGCTTGCAAAAATAGAT
1 AAGGCAGAAGCCTGCAAAAATAGAT
*
36228195 AAGGTAGAAGCCTGCAAAAATAGAT
1 AAGGCAGAAGCCTGCAAAAATAGAT
36228220 A
1 A
36228221 TATCATCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.12, G:0.24, T:0.16
Consensus pattern (25 bp):
AAGGCAGAAGCCTGCAAAAATAGAT
Found at i:36231936 original size:6 final size:6
Alignment explanation
Indices: 36231927--36232001 Score: 68
Period size: 6 Copynumber: 12.7 Consensus size: 6
36231917 ACTTTTTGAT
**
36231927 TTTAAA TTTATT TTTAAA TTTAAA TTT--A TGTTAAA TTTAAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTT-AAA TTTAAA
*
36231975 TTTAAA TTT--A TGTTAAA TTTAAG TTTA
1 TTTAAA TTTAAA T-TTAAA TTTAAA TTTA
36232002 GTTAAATTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
4 4 0.07
5 4 0.07
6 39 0.68
7 10 0.18
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:36231962 original size:17 final size:17
Alignment explanation
Indices: 36231927--36232010 Score: 106
Period size: 17 Copynumber: 5.2 Consensus size: 17
36231917 ACTTTTTGAT
*
36231927 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TGTTAAA
36231945 TTTAAATTTATGTTAAA
1 TTTAAATTTATGTTAAA
36231962 TTTAAA---AT-TTAAA
1 TTTAAATTTATGTTAAA
36231975 TTTAAATTTATGTTAAA
1 TTTAAATTTATGTTAAA
*
36231992 TTTAAGTTTA-GTTAAA
1 TTTAAATTTATGTTAAA
36232008 TTT
1 TTT
36232011 GAAACAATTT
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
13 11 0.18
14 2 0.03
16 11 0.18
17 26 0.43
18 10 0.17
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATGTTAAA
Found at i:36231975 original size:30 final size:30
Alignment explanation
Indices: 36231939--36231996 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
36231929 TAAATTTATT
36231939 TTTAAATTTAAATTTATGTTAAATTTAAAA
1 TTTAAATTTAAATTTATGTTAAATTTAAAA
36231969 TTTAAATTTAAATTTATGTTAAATTTAA
1 TTTAAATTTAAATTTATGTTAAATTTAA
36231997 GTTTAGTTAA
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:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (30 bp):
TTTAAATTTAAATTTATGTTAAATTTAAAA
Found at i:36232734 original size:3 final size:3
Alignment explanation
Indices: 36232714--36232785 Score: 76
Period size: 3 Copynumber: 24.0 Consensus size: 3
36232704 ATTGTAGTAT
* *
36232714 TAA TAA TAT TAA T-C TAA TAA TAA TAA -ATA TAA TAA TAA TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA -TAA
**
36232759 TAA TAA TAA TAA TTT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
36232786 ATAAAAAAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
2 2 0.04
3 51 0.89
4 4 0.07
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:36233879 original size:30 final size:30
Alignment explanation
Indices: 36233751--36233883 Score: 109
Period size: 29 Copynumber: 4.5 Consensus size: 30
36233741 GAGGTCCCTA
* *
36233751 AACTATCCAAAAA-T-CATATTTTGACCCTTG
1 AACTTTCCAAAAATTCCAT-TTTTGACCC-CG
36233781 AACTTTTCC-AAAATTCCATTTTTGACCCCG
1 AAC-TTTCCAAAAATTCCATTTTTGACCCCG
** * *
36233811 ATTTTTTC-AAAATTACCA-TTTT-ATCCCCA
1 AACTTTCCAAAAATT-CCATTTTTGA-CCCCG
*
36233840 AAC-TTCCAAAAATTCCATTTTTGACTCCG
1 AACTTTCCAAAAATTCCATTTTTGACCCCG
36233869 AACTTTCCAAAAATT
1 AACTTTCCAAAAATT
36233884 GTCATTTTGT
Statistics
Matches: 83, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
28 7 0.08
29 35 0.42
30 24 0.29
31 14 0.17
32 3 0.04
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTCCAAAAATTCCATTTTTGACCCCG
Found at i:36241725 original size:57 final size:54
Alignment explanation
Indices: 36241658--36241900 Score: 207
Period size: 57 Copynumber: 4.4 Consensus size: 54
36241648 ACCCGAGGGC
* *
36241658 AAAATGGTAATTTTGGTTGAAAT-TGGGTCAAAAAGGGATTTTGGAAAGTTCAGGGGT
1 AAAAT-GTAATTTTGG-TGAAATCTGGG--AAAAAGGAATTTTAGAAAGTTCAGGGGT
* * * *
36241715 AAAATAGTAATTTTTGGT--AA------AAAATGAAATTTTAGAAAGTTCGGGGGA
1 AAAAT-GTAA-TTTTGGTGAAATCTGGGAAAAAGGAATTTTAGAAAGTTCAGGGGT
*
36241763 AAAATGTCAATTTTGGTGAAATCGGGGGCAAAAATGGAATTTTAGAAAGTTCAGGGGT
1 AAAATGT-AATTTTGGTGAAATC-TGGG-AAAAA-GGAATTTTAGAAAGTTCAGGGGT
* *
36241821 AAAATGGTAATTTTGGTGAAATCAGTGGGAAAATGGAATTTTAGAAAGTTCGGGGGT
1 AAAAT-GTAATTTTGGTGAAATC--TGGGAAAAAGGAATTTTAGAAAGTTCAGGGGT
*
36241878 AAAATGATAATTTTGGTAAAATC
1 AAAATG-TAATTTTGGTGAAATC
36241901 GGGGTCAAAA
Statistics
Matches: 155, Mismatches: 15, Indels: 32
0.77 0.07 0.16
Matches are distributed among these distances:
47 9 0.06
48 29 0.19
49 2 0.01
55 2 0.01
56 1 0.01
57 56 0.36
58 50 0.32
59 6 0.04
ACGTcount: A:0.38, C:0.04, G:0.28, T:0.30
Consensus pattern (54 bp):
AAAATGTAATTTTGGTGAAATCTGGGAAAAAGGAATTTTAGAAAGTTCAGGGGT
Found at i:36241775 original size:29 final size:27
Alignment explanation
Indices: 36241734--36241884 Score: 96
Period size: 29 Copynumber: 5.3 Consensus size: 27
36241724 ATTTTTGGTA
36241734 AAAAATGAAATTTTAGAAAGTTCGGGGG
1 AAAAATG-AATTTTAGAAAGTTCGGGGG
*
36241762 AAAAATGTCAATTTTGGTGAAA--TCGGGGG
1 AAAAATG--AATTTT--AGAAAGTTCGGGGG
*
36241791 CAAAAATGGAATTTTAGAAAGTTCAGGGG
1 -AAAAAT-GAATTTTAGAAAGTTCGGGGG
* * *
36241820 TAAAATGGTAATTTTGGTGAAA--TCAGTGGG
1 AAAAAT-G-AATTTT--AGAAAGTTC-GGGGG
36241850 -AAAATGGAATTTTAGAAAGTTCGGGGG
1 AAAAAT-GAATTTTAGAAAGTTCGGGGG
*
36241877 TAAAATGA
1 AAAAATGA
36241885 TAATTTTGGT
Statistics
Matches: 99, Mismatches: 10, Indels: 29
0.72 0.07 0.21
Matches are distributed among these distances:
26 4 0.04
27 10 0.10
28 27 0.27
29 40 0.40
30 9 0.09
31 9 0.09
ACGTcount: A:0.39, C:0.05, G:0.29, T:0.27
Consensus pattern (27 bp):
AAAAATGAATTTTAGAAAGTTCGGGGG
Found at i:36241804 original size:58 final size:57
Alignment explanation
Indices: 36241734--36241910 Score: 250
Period size: 58 Copynumber: 3.1 Consensus size: 57
36241724 ATTTTTGGTA
* *
36241734 AAAAATGAAATTTTAGAAAGTTCGGGGGAAAAATGTCAATTTTGGTGAAATCGGGGGC
1 AAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGT-AATTTTGGTGAAATCGGGGGC
* *
36241792 AAAAATGGAATTTTAGAAAGTTCAGGGGTAAAATGGTAATTTTGGTGAAATCAGTGGG-
1 AAAAATGGAATTTTAGAAAGTTCGGGGGTAAAAT-GTAATTTTGGTGAAATC-GGGGGC
* *
36241850 -AAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGATAATTTTGGTAAAATCGGGGTC
1 AAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATG-TAATTTTGGTGAAATCGGGGGC
36241907 AAAA
1 AAAA
36241911 TGAAATTATG
Statistics
Matches: 106, Mismatches: 8, Indels: 10
0.85 0.06 0.08
Matches are distributed among these distances:
56 4 0.04
57 47 0.44
58 49 0.46
59 6 0.06
ACGTcount: A:0.39, C:0.05, G:0.28, T:0.28
Consensus pattern (57 bp):
AAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGTAATTTTGGTGAAATCGGGGGC
Found at i:36241891 original size:29 final size:29
Alignment explanation
Indices: 36241735--36242132 Score: 134
Period size: 30 Copynumber: 13.7 Consensus size: 29
36241725 TTTTTGGTAA
*
36241735 AAAATGA-AATTTTAGAAAGTTCGGGGGA
1 AAAATGATAATTTTAGAAAGTTCGGGGGT
* *
36241763 AAAATG-TCAATTTTGGTGAAA--TCGGGGGCA
1 AAAATGAT-AATTTT--AGAAAGTTCGGGGG-T
* *
36241793 AAAATG-GAATTTTAGAAAGTTCAGGGGT
1 AAAATGATAATTTTAGAAAGTTCGGGGGT
* * *
36241821 AAAATGGTAATTTTGGTGAAA--TCAGTGGG-
1 AAAATGATAATTTT--AGAAAGTTC-GGGGGT
*
36241850 AAAATG-GAATTTTAGAAAGTTCGGGGGT
1 AAAATGATAATTTTAGAAAGTTCGGGGGT
* *
36241878 AAAATGATAATTTTGGTAAA-ATC-GGGGT
1 AAAATGATAATTTTAG-AAAGTTCGGGGGT
* * * **
36241906 CAAAATGA-AATTATGGAAAACTT-AAGGGT
1 -AAAATGATAATTTTAG-AAAGTTCGGGGGT
***
36241935 AAAAATG-TAATTTTAGAAAGTTTTAGGGT
1 -AAAATGATAATTTTAGAAAGTTCGGGGGT
****
36241964 CAAAAT-ATAATTTATAGAAAGTTTTAAGGT
1 -AAAATGATAATTT-TAGAAAGTTCGGGGGT
* * *
36241994 CAAAAT-ATAATTTTGAAAAAGTTTAGGGGTT
1 -AAAATGATAATTTT-AGAAAG-TTCGGGGGT
* * *
36242025 AAAATG-TAATTTACAGAAAGTTTTGGGGTT
1 AAAATGATAATTT-TAGAAAG-TTCGGGGGT
* * *
36242055 AAAAT-ATAATTTTGGAAAAGTTCAAGGGTT
1 AAAATGATAATTTTAG-AAAGTTC-GGGGGT
** *
36242085 AAAATG-TAATTTATAGAAAGTTTTAGGGTT
1 AAAATGATAATTT-TAGAAAG-TTCGGGGGT
*
36242115 AAAAT-ATAATTTTGGAAA
1 AAAATGATAATTTTAGAAA
36242133 AGTTTAAGGG
Statistics
Matches: 294, Mismatches: 42, Indels: 67
0.73 0.10 0.17
Matches are distributed among these distances:
26 4 0.01
27 8 0.03
28 46 0.16
29 97 0.33
30 123 0.42
31 16 0.05
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (29 bp):
AAAATGATAATTTTAGAAAGTTCGGGGGT
Found at i:36241911 original size:57 final size:55
Alignment explanation
Indices: 36241735--36241917 Score: 242
Period size: 57 Copynumber: 3.2 Consensus size: 55
36241725 TTTTTGGTAA
*
36241735 AAAATGAAATTTTAGAAAGTTCGGGGGAAAAATGTCAATTTTGGTGAAATCGGGGGC
1 AAAATGAAATTTTAGAAAGTTCGGGGGTAAAATGT-AATTTTGGTGAAATC-GGGGC
* *
36241792 AAAAATGGAATTTTAGAAAGTTCAGGGGTAAAATGGTAATTTTGGTGAAATCAGTGGG-
1 -AAAATGAAATTTTAGAAAGTTCGGGGGTAAAAT-GTAATTTTGGTGAAATC-G-GGGC
* *
36241850 AAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGATAATTTTGGTAAAATCGGGGTC
1 AAAATGAAATTTTAGAAAGTTCGGGGGTAAAATG-TAATTTTGGTGAAATCGGGG-C
36241907 AAAATGAAATT
1 AAAATGAAATT
36241918 ATGGAAAACT
Statistics
Matches: 113, Mismatches: 7, Indels: 11
0.86 0.05 0.08
Matches are distributed among these distances:
55 3 0.03
56 2 0.02
57 57 0.50
58 46 0.41
59 5 0.04
ACGTcount: A:0.39, C:0.05, G:0.28, T:0.28
Consensus pattern (55 bp):
AAAATGAAATTTTAGAAAGTTCGGGGGTAAAATGTAATTTTGGTGAAATCGGGGC
Found at i:36241984 original size:30 final size:29
Alignment explanation
Indices: 36241930--36242231 Score: 275
Period size: 30 Copynumber: 10.1 Consensus size: 29
36241920 GGAAAACTTA
* *
36241930 AGGGTAAAAATGTAATTTTAGAAAGTTTT
1 AGGGTTAAAATATAATTTTAGAAAGTTTT
*
36241959 AGGGTCAAAATATAATTTATAGAAAGTTTT
1 AGGGTTAAAATATAATTT-TAGAAAGTTTT
* * *
36241989 AAGGTCAAAATATAATTTTGAAAAAG-TTT
1 AGGGTTAAAATATAATTTT-AGAAAGTTTT
* *
36242018 AGGGGTTAAAATGTAATTTACAGAAAGTTTT
1 A-GGGTTAAAATATAATTT-TAGAAAGTTTT
* * **
36242049 GGGGTTAAAATATAATTTTGGAAAAGTTCA
1 AGGGTTAAAATATAATTTTAG-AAAGTTTT
*
36242079 AGGGTTAAAATGTAATTTATAGAAAGTTTT
1 AGGGTTAAAATATAATTT-TAGAAAGTTTT
* *
36242109 AGGGTTAAAATATAATTTTGGAAAAGTTTA
1 AGGGTTAAAATATAATTTTAG-AAAGTTTT
* * * *
36242139 AGGGTCAAAATATAATTTTGGGAAAATTTA
1 AGGGTTAAAATATAATTTT-AGAAAGTTTT
* * * *
36242169 AGGGTTAAAATGTAATTTACAAAAAATTTT
1 AGGGTTAAAATATAATTT-TAGAAAGTTTT
* *
36242199 AGGGTCAAAATATAATTTTGAAAAAG-TTT
1 AGGGTTAAAATATAATTTT-AGAAAGTTTT
36242228 AGGG
1 AGGG
36242232 ACCTTTAGGG
Statistics
Matches: 227, Mismatches: 35, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
29 31 0.14
30 189 0.83
31 7 0.03
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (29 bp):
AGGGTTAAAATATAATTTTAGAAAGTTTT
Found at i:36242016 original size:60 final size:60
Alignment explanation
Indices: 36241927--36242216 Score: 309
Period size: 60 Copynumber: 4.8 Consensus size: 60
36241917 TATGGAAAAC
* * *
36241927 TTAAGGGTAAAAATGTAATTTT-AGAAAGTTTTAGGGTCAAAATATAATTTATAGAAAGTT
1 TTAA-GGTTAAAATATAATTTTGAAAAAGTTTTAGGGTCAAAATATAATTTATAGAAAGTT
* * * *
36241987 TTAAGGTCAAAATATAATTTTGAAAAAG-TTTAGGGGTTAAAATGTAATTTACAGAAAGTT
1 TTAAGGTTAAAATATAATTTTGAAAAAGTTTTA-GGGTCAAAATATAATTTATAGAAAGTT
** * ** * *
36242047 TTGGGGTTAAAATATAATTTTGGAAAAGTTCAAGGGTTAAAATGTAATTTATAGAAAGTT
1 TTAAGGTTAAAATATAATTTTGAAAAAGTTTTAGGGTCAAAATATAATTTATAGAAAGTT
* * * * *
36242107 TTAGGGTTAAAATATAATTTTGGAAAAGTTTAAGGGTCAAAATATAATTT-TGGGAAA-AT
1 TTAAGGTTAAAATATAATTTTGAAAAAGTTTTAGGGTCAAAATATAATTTAT-AGAAAGTT
* ** *
36242166 TTAAGGGTTAAAATGTAATTTACAAAAAATTTTAGGGTCAAAATATAATTT
1 TTAA-GGTTAAAATATAATTTTGAAAAAGTTTTAGGGTCAAAATATAATTT
36242217 TGAAAAAGTT
Statistics
Matches: 199, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
59 24 0.12
60 173 0.87
61 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.19, T:0.36
Consensus pattern (60 bp):
TTAAGGTTAAAATATAATTTTGAAAAAGTTTTAGGGTCAAAATATAATTTATAGAAAGTT
Found at i:36244350 original size:17 final size:17
Alignment explanation
Indices: 36244325--36244406 Score: 103
Period size: 17 Copynumber: 4.8 Consensus size: 17
36244315 TTAAATTTGT
36244325 AAATAAATTTAAACTTA
1 AAATAAATTTAAACTTA
*
36244342 AATTAAATTT-AACTTTA
1 AAATAAATTTAAAC-TTA
*
36244359 AAATAAATTTAAATTTTA
1 AAATAAATTTAAA-CTTA
* *
36244377 AAACAAATTTAATCTTA
1 AAATAAATTTAAACTTA
36244394 AAATAAATTTAAA
1 AAATAAATTTAAA
36244407 ATGGGTTTGG
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
16 3 0.06
17 35 0.65
18 16 0.30
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATAAATTTAAACTTA
Found at i:36244353 original size:11 final size:11
Alignment explanation
Indices: 36244324--36244373 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
36244314 TTTAAATTTG
36244324 TAAA-TAAATT
1 TAAATTAAATT
36244334 TAAACTTAAA-T
1 TAAA-TTAAATT
*
36244345 TAAATTTAACTT
1 TAAA-TTAAATT
*
36244357 TAAAATAAATT
1 TAAATTAAATT
36244368 TAAATT
1 TAAATT
36244374 TTAAAACAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
10 4 0.12
11 19 0.59
12 9 0.28
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (11 bp):
TAAATTAAATT
Found at i:36244353 original size:35 final size:35
Alignment explanation
Indices: 36244314--36244406 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 35
36244304 GACTTTTATT
* **
36244314 TTTAAATTTGTAAATAAATTTAAA-CTTAAATTAAA
1 TTTAAATTT-AAAATAAATTTAAATCTTAAAACAAA
* *
36244349 TTTAACTTTAAAATAAATTTAAATTTTAAAACAAA
1 TTTAAATTTAAAATAAATTTAAATCTTAAAACAAA
36244384 TTT-AATCTTAAAATAAATTTAAA
1 TTTAAAT-TTAAAATAAATTTAAA
36244407 ATGGGTTTGG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
34 15 0.30
35 35 0.70
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (35 bp):
TTTAAATTTAAAATAAATTTAAATCTTAAAACAAA
Found at i:36244378 original size:7 final size:6
Alignment explanation
Indices: 36244328--36244374 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
36244318 AATTTGTAAA
* * *
36244328 TAAATT TAAACT TAAA-T TAAATT TAACTT TAAA-A TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
36244374 T
1 T
36244375 TAAAACAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
5 9 0.26
6 25 0.74
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (6 bp):
TAAATT
Found at i:36245429 original size:92 final size:92
Alignment explanation
Indices: 36244763--36245420 Score: 1208
Period size: 92 Copynumber: 7.2 Consensus size: 92
36244753 CTGTATCTCG
*
36244763 TCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGATGTTTG
1 TCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACGTTTG
36244828 AAGCTTCATCTTGCTCTTACTATAACT
66 AAGCTTCATCTTGCTCTTACTATAACT
*
36244855 TTAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACGTTTG
1 TCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACGTTTG
*
36244920 AAGCTTCATCTTGCTCTTACTTTAACT
66 AAGCTTCATCTTGCTCTTACTATAACT
*
36244947 TCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGTATAAGAATTGACGTTTG
1 TCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACGTTTG
*
36245012 AAGCTTCATCTTGCTCTTACTACAACT
66 AAGCTTCATCTTGCTCTTACTATAACT
*
36245039 TCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGTATAAGAATTGACGTTTG
1 TCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACGTTTG
36245104 AAGCTTCATCTTGCTCTTACTATAACT
66 AAGCTTCATCTTGCTCTTACTATAACT
*
36245131 TCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGATGTTTG
1 TCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACGTTTG
*
36245196 AAGCTTCATCTTGCTCTTGCTATAACT
66 AAGCTTCATCTTGCTCTTACTATAACT
* *
36245223 TCAGAGAGATAAAGGTTTGTTATCCAACTTTACTGTAACTTCAAGAGGATAAGAATTGACGTTTG
1 TCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACGTTTG
36245288 AAGCTTCATCTTGCTCTTACTATAACT
66 AAGCTTCATCTTGCTCTTACTATAACT
*
36245315 TCAGAGAGATAATGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACGTTTG
1 TCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACGTTTG
*
36245380 AAGCTTCATTTTGCTCTTACTATAACT
66 AAGCTTCATCTTGCTCTTACTATAACT
36245407 TCAGAGAGATAAAG
1 TCAGAGAGATAAAG
36245421 ACTTGTTATT
Statistics
Matches: 546, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 546 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (92 bp):
TCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACGTTTG
AAGCTTCATCTTGCTCTTACTATAACT
Found at i:36245608 original size:50 final size:49
Alignment explanation
Indices: 36245549--36245842 Score: 153
Period size: 50 Copynumber: 5.9 Consensus size: 49
36245539 TCTTTTTATC
36245549 TTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCGTTATGTT
1 TTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCC-TTATGTT
* * * * * *
36245599 TTCGTGGTACTGGATTCGTCATTACAGTCTTAGATCTTTCCCTTCATG-C
1 TTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTT-ATGTT
* ** * *
36245648 TTCTGAGGTAC-ACAGTCCGCCGTTGC-GACTTAGA-CGTTTCCATT-TAGTAT
1 TTC-GTGGTACTGGA-TCCGCCGTTGCGGTCTTAGATC-TTTCCCTTAT-GT-T
* * * *
36245698 CTTTGCGGTACTGGATCCACCGTTGCGGTCTTAGA----TCCCTTCATG-C
1 -TTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTT-ATGTT
* * * *
36245744 TTCTGAGGTACACGG-TCCGCCGTTGC-GACTTAGACCTTTCCCTTTAGTTAGTAT
1 TTC-GTGGTAC-TGGATCCGCCGTTGCGGTCTTAGATCTTTCCC-TTA--T-GT-T
* * *
36245798 CTTTGTGGTACTGGATCCACCGTTGTGGTCTTAGATCTTTCCCTT
1 -TTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTT
36245843 CAGACCTGTA
Statistics
Matches: 180, Mismatches: 37, Indels: 50
0.67 0.14 0.19
Matches are distributed among these distances:
45 9 0.05
46 16 0.09
47 8 0.04
48 3 0.02
49 26 0.14
50 71 0.39
51 11 0.06
52 1 0.01
53 2 0.01
54 17 0.09
55 16 0.09
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (49 bp):
TTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTTATGTT
Found at i:36245765 original size:96 final size:98
Alignment explanation
Indices: 36245637--36245834 Score: 319
Period size: 96 Copynumber: 2.0 Consensus size: 98
36245627 CTTAGATCTT
* *
36245637 TCCCTTCATGCTTCTGAGGTACACAGTCCGCCGTTGCGACTTAGACGTTT-CC-ATTTAGTATCT
1 TCCCTTCATGCTTCTGAGGTACACAGTCCGCCGTTGCGACTTAGACCTTTCCCTAGTTAGTATCT
36245700 TTGCGGTACTGGATCCACCGTTGCGGTCTTAGA
66 TTGCGGTACTGGATCCACCGTTGCGGTCTTAGA
*
36245733 TCCCTTCATGCTTCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTAGTTAGTAT
1 TCCCTTCATGCTTCTGAGGTACACAGTCCGCCGTTGCGACTTAGACCTTTCCC--TAGTTAGTAT
* *
36245798 CTTTGTGGTACTGGATCCACCGTTGTGGTCTTAGA
64 CTTTGCGGTACTGGATCCACCGTTGCGGTCTTAGA
36245833 TC
1 TC
36245835 TTTCCCTTCA
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
96 48 0.52
97 2 0.02
100 43 0.46
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.35
Consensus pattern (98 bp):
TCCCTTCATGCTTCTGAGGTACACAGTCCGCCGTTGCGACTTAGACCTTTCCCTAGTTAGTATCT
TTGCGGTACTGGATCCACCGTTGCGGTCTTAGA
Found at i:36245946 original size:13 final size:13
Alignment explanation
Indices: 36245928--36245952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36245918 AATGCTCCTA
36245928 AAATGATGAATAT
1 AAATGATGAATAT
36245941 AAATGATGAATA
1 AAATGATGAATA
36245953 CAAAATGTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (13 bp):
AAATGATGAATAT
Found at i:36251296 original size:29 final size:29
Alignment explanation
Indices: 36251250--36251357 Score: 78
Period size: 29 Copynumber: 3.7 Consensus size: 29
36251240 GGTTAAAATT
36251250 GGGTAAAA-AATGAGATTTTGGAAAGTTCGA
1 GGGTAAAATAAT-A-ATTTTGGAAAGTTCGA
* **
36251280 GGGTAAAATAATAATTTTTGATAAAATCG-
1 GGGTAAAATAATAATTTTGGA-AAGTTCGA
** **
36251309 GGGTTAAAAT-GGAATTTTAAAAAGTTCGA
1 GGG-TAAAATAATAATTTTGGAAAGTTCGA
* *
36251338 GGGAAAAATGATAATTTTGG
1 GGGTAAAATAATAATTTTGG
36251358 TGAAATCAGG
Statistics
Matches: 59, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
28 10 0.17
29 26 0.44
30 20 0.34
31 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.31
Consensus pattern (29 bp):
GGGTAAAATAATAATTTTGGAAAGTTCGA
Found at i:36251297 original size:58 final size:58
Alignment explanation
Indices: 36251218--36251495 Score: 194
Period size: 58 Copynumber: 4.8 Consensus size: 58
36251208 TTTTGGATAC
* * * **
36251218 TCGAGGGCAAAATGGTAATTTTGGTTAAAAT-TGGGTAAAAAAT-GAGATTTTGGAAAGT
1 TCGAGGGAAAAATGATAATTTTGGTTAAAATCGGGGT-AAAAATGGA-ATTTTAAAAAGT
* * * * *
36251276 TCGAGGGTAAAATAATAATTTTTGATAAAATCGGGGTTAAAATGGAATTTTAAAAAGT
1 TCGAGGGAAAAATGATAATTTTGGTTAAAATCGGGGTAAAAATGGAATTTTAAAAAGT
* * *
36251334 TCGAGGGAAAAATGATAATTTTGG-TGAAATCAGGGGCAAAAATGGAATTTT-AGAAGT
1 TCGAGGGAAAAATGATAATTTTGGTTAAAATC-GGGGTAAAAATGGAATTTTAAAAAGT
* * * * * * * * *
36251391 T-TAGGGGTAAAATGGTAATTTTGG-TGAAATCGATGGCAAATATGGAA-TTTAGAATGT
1 TCGA-GGGAAAAATGATAATTTTGGTTAAAATCG-GGGTAAAAATGGAATTTTAAAAAGT
* * * ** * *
36251448 TCGGGGGTAAAATGGTAATTTT-CATAAAATTGGGGTGAAAATGGAATT
1 TCGAGGGAAAAATGATAATTTTGGTTAAAATCGGGGTAAAAATGGAATT
36251496 ATGGAAAACT
Statistics
Matches: 178, Mismatches: 33, Indels: 19
0.77 0.14 0.08
Matches are distributed among these distances:
56 15 0.08
57 78 0.44
58 79 0.44
59 6 0.03
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (58 bp):
TCGAGGGAAAAATGATAATTTTGGTTAAAATCGGGGTAAAAATGGAATTTTAAAAAGT
Found at i:36251403 original size:57 final size:56
Alignment explanation
Indices: 36251280--36251469 Score: 186
Period size: 57 Copynumber: 3.3 Consensus size: 56
36251270 GAAAGTTCGA
* * * ** * *
36251280 GGGTAAAATAATAATTTTTGATAAAATCGGGGTTAAAATGGAATTTTAAAAAG-TTCG
1 GGGTAAAATGATAA-TTTTGGTGAAATCGGGGCAAAAATGGAATTTT-AGAAGTTTAG
*
36251337 AGGGAAAAATGATAATTTTGGTGAAATCAGGGGCAAAAATGGAATTTTAGAAGTTTAG
1 -GGGTAAAATGATAATTTTGGTGAAATC-GGGGCAAAAATGGAATTTTAGAAGTTTAG
* * * **
36251395 GGGTAAAATGGTAATTTTGGTGAAATCGATGGCAAATATGGAA-TTTAGAATGTTCGG
1 GGGTAAAATGATAATTTTGGTGAAATCG-GGGCAAAAATGGAATTTTAGAA-GTTTAG
*
36251452 GGGTAAAATGGTAATTTT
1 GGGTAAAATGATAATTTT
36251470 CATAAAATTG
Statistics
Matches: 114, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
56 8 0.07
57 74 0.65
58 32 0.28
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (56 bp):
GGGTAAAATGATAATTTTGGTGAAATCGGGGCAAAAATGGAATTTTAGAAGTTTAG
Found at i:36251531 original size:29 final size:29
Alignment explanation
Indices: 36251479--36251679 Score: 122
Period size: 30 Copynumber: 6.9 Consensus size: 29
36251469 TCATAAAATT
* * *
36251479 GGGGTGAAAATGGAATTATGGAAAACTTA
1 GGGGTCAAAATGTAATTTTGGAAAACTTA
* * **
36251508 GGGGTAAAAATGTAATTTTTGAAAGTTTTA
1 GGGGTCAAAATGTAATTTTGGAAA-ACTTA
* * * * **
36251538 -AGGTGAAAATATAATTTATAGAAAGTTTTA
1 GGGGTCAAAATGTAATTT-TGGAAA-ACTTA
* *
36251568 -GGGTCAAAATATAATTTTGGAAAAGTTA
1 GGGGTCAAAATGTAATTTTGGAAAACTTA
*
36251596 TGGGGTCAAAATGTAATTTTAGGAAAGCTTA
1 -GGGGTCAAAATGTAATTTT-GGAAAACTTA
* *** *
36251627 AGGGTCAAAATGTAATTTACAAAAAATTTA
1 GGGGTCAAAATGTAATTT-TGGAAAACTTA
*
36251657 -GGGTCAAAA-ATAATTTTGGAAAA
1 GGGGTCAAAATGTAATTTTGGAAAA
36251680 GTTCAGGGAC
Statistics
Matches: 138, Mismatches: 28, Indels: 14
0.77 0.16 0.08
Matches are distributed among these distances:
27 4 0.03
28 9 0.07
29 48 0.35
30 69 0.50
31 8 0.06
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (29 bp):
GGGGTCAAAATGTAATTTTGGAAAACTTA
Found at i:36251667 original size:60 final size:59
Alignment explanation
Indices: 36251543--36251678 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 59
36251533 TTTTAAGGTG
* * *** * *
36251543 AAAATATAATTTATA-GAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTATGGGGTC
1 AAAAT-TAATTT-TAGGAAAGCTTAAGGGTCAAAATATAATTTACAAAAAATTATAGGGTC
*
36251603 AAAATGTAATTTTAGGAAAGCTTAAGGGTCAAAATGTAATTTACAAAAAATT-TAGGGTC
1 AAAAT-TAATTTTAGGAAAGCTTAAGGGTCAAAATATAATTTACAAAAAATTATAGGGTC
*
36251662 AAAAATAATTTT-GGAAA
1 AAAATTAATTTTAGGAAA
36251679 AGTTCAGGGA
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
57 5 0.08
58 7 0.11
59 12 0.18
60 41 0.63
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.32
Consensus pattern (59 bp):
AAAATTAATTTTAGGAAAGCTTAAGGGTCAAAATATAATTTACAAAAAATTATAGGGTC
Found at i:36253806 original size:17 final size:17
Alignment explanation
Indices: 36253785--36253876 Score: 105
Period size: 17 Copynumber: 5.4 Consensus size: 17
36253775 GACTTTTATT
* *
36253785 TTTAAATTTATAATAAT
1 TTTAAATTTAAAATAAA
*
36253802 TTTAAATTTGTAAATAAA
1 TTTAAATTT-AAAATAAA
* *
36253820 TTTAAACTTAAATTAAA
1 TTTAAATTTAAAATAAA
*
36253837 TTTAACTTTAAAATAAA
1 TTTAAATTTAAAATAAA
36253854 TTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
36253871 TTTAAA
1 TTTAAA
36253877 ATGGGTTTGG
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
16 2 0.03
17 45 0.73
18 15 0.24
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:36253841 original size:11 final size:12
Alignment explanation
Indices: 36253816--36253865 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
36253806 AATTTGTAAA
36253816 TAAATTTAAACT
1 TAAATTTAAACT
*
36253828 TAAA-TTAAATT
1 TAAATTTAAACT
* *
36253839 TAACTTTAAA-A
1 TAAATTTAAACT
*
36253850 TAAATTTAATCT
1 TAAATTTAAACT
36253862 TAAA
1 TAAA
36253866 ATAAATTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
11 17 0.57
12 13 0.43
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (12 bp):
TAAATTTAAACT
Found at i:36255169 original size:4 final size:4
Alignment explanation
Indices: 36255162--36255187 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
36255152 TATTTATTTA
36255162 TTGT TTGT TTGT TTGT TTGT TTGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TT
36255188 ATTATTCATT
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:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTGT
Found at i:36255317 original size:28 final size:28
Alignment explanation
Indices: 36255262--36255323 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
36255252 TTTGTGAACA
* * *
36255262 TTAAACAAACAAACATGAACACATAATT
1 TTAAATAAACAAACATGAACAAAAAATT
*
36255290 TTAAATAAACAAACATGAATAAAAAATT
1 TTAAATAAACAAACATGAACAAAAAATT
*
36255318 TGAAAT
1 TTAAAT
36255324 TTTTAATGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.60, C:0.11, G:0.05, T:0.24
Consensus pattern (28 bp):
TTAAATAAACAAACATGAACAAAAAATT
Found at i:36263432 original size:23 final size:23
Alignment explanation
Indices: 36263406--36263510 Score: 129
Period size: 23 Copynumber: 4.6 Consensus size: 23
36263396 GTGTTTTTAT
* *
36263406 ATTTTTGCTTAAATATTAATATG
1 ATTTATGCTTAAATATTAATGTG
* ** *
36263429 ATTTTTTATCAAATATTAATGTG
1 ATTTATGCTTAAATATTAATGTG
*
36263452 ATTTATGCTTAAATATTAGTGTG
1 ATTTATGCTTAAATATTAATGTG
36263475 ATTTATGCTTAAATATTAATGTG
1 ATTTATGCTTAAATATTAATGTG
* *
36263498 ATATGTGCTTAAA
1 ATTTATGCTTAAA
36263511 GAATTAAGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (23 bp):
ATTTATGCTTAAATATTAATGTG
Found at i:36268610 original size:39 final size:39
Alignment explanation
Indices: 36268558--36268643 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
36268548 AGTCAGTAAT
* *
36268558 TCGCTC-TTAAGAGCCCATATTGCTCTTACGAGCCAGTA
1 TCGCTCTTTAAGAGCCAATATTGCTCTTACGAGCCAATA
36268596 TCGCTCTTTAAGAGCCAATATTGCTCTTACGAGCCAATA
1 TCGCTCTTTAAGAGCCAATATTGCTCTTACGAGCCAATA
36268635 TCGCTCTTT
1 TCGCTCTTT
36268644 CGAGCTAGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 6 0.13
39 39 0.87
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (39 bp):
TCGCTCTTTAAGAGCCAATATTGCTCTTACGAGCCAATA
Found at i:36268647 original size:19 final size:19
Alignment explanation
Indices: 36268558--36268648 Score: 110
Period size: 19 Copynumber: 4.7 Consensus size: 19
36268548 AGTCAGTAAT
* *
36268558 TCGCTCTTAAGAGCCCATA
1 TCGCTCTTACGAGCCAATA
* *
36268577 TTGCTCTTACGAGCCAGTA
1 TCGCTCTTACGAGCCAATA
*
36268596 TCGCTCTTTAAGAGCCAATA
1 TCGCTC-TTACGAGCCAATA
*
36268616 TTGCTCTTACGAGCCAATA
1 TCGCTCTTACGAGCCAATA
*
36268635 TCGCTCTTTCGAGC
1 TCGCTCTTACGAGC
36268649 TAGTGCAGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
19 44 0.73
20 16 0.27
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.31
Consensus pattern (19 bp):
TCGCTCTTACGAGCCAATA
Found at i:36271590 original size:20 final size:21
Alignment explanation
Indices: 36271560--36271600 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
36271550 AGACGTGTTC
36271560 ACAGTATACAT-GCATAACATA
1 ACAGTATACATAGCAT-ACATA
36271581 ACAG-ATACATAGCATACATA
1 ACAGTATACATAGCATACATA
36271601 GCATTTTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.22
Consensus pattern (21 bp):
ACAGTATACATAGCATACATA
Found at i:36283663 original size:42 final size:41
Alignment explanation
Indices: 36283596--36284110 Score: 296
Period size: 39 Copynumber: 13.0 Consensus size: 41
36283586 GAATGGTGTT
* *
36283596 TTCAATCTACCCCATGATCGAGGTAAGAGATTAGATGATGTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAG-TGATGTC
* * *
36283638 TTTAATCTGCCTCATGATCGGGGTAAGAGATCAGTG-TGTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGTGATGTC
* * ** * *
36283678 TTCAATTTGCCCTC-TAATTAGGGTAA-A-A-TATTTATGT-
1 TTCAATCTGCCC-CATGATCGGGGTAAGAGATTAGTGATGTC
* *
36283715 TTCAGTCTGCCCCATATGATCGGGGTAA-ATGATTGGATGATGTC
1 TTCAATCTGCCCC--ATGATCGGGGTAAGA-GATTAG-TGATGTC
* *
36283759 TTCAATCTACCCCATGATCGGGGTAAGAGATT-G-GATGAC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGTGATGTC
* * **
36283798 TTCAATCTGCCTCATGATAGGGGTAAGAGATCGGTG-TGTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGTGATGTC
* * * *
36283838 TTCAACCTGCCTTC-TGA-CTAGGGTAAAAGATT-G-GATG-C
1 TTCAATCTGCC-CCATGATC-GGGGTAAGAGATTAGTGATGTC
* * * *
36283876 TGCAGTCTGCCCTATGATCGGGGTAAGAGATTGGTG-TGTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGTGATGTC
* * ** ** *
36283916 TTCAATCTACTCTTTGATTAGGGTAAAAGATT-G-GATGT-
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGTGATGTC
** * *
36283954 TTCAATCT-CCTTATGATCAGGGTAAAGAGATT-G-GATGGC
1 TTCAATCTGCCCCATGATCGGGGT-AAGAGATTAGTGATGTC
* * * *
36283993 TTCAATCTACCCCATGATCGAGGTGAGAGA-TCGTG-TGTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGTGATGTC
* ** *
36284032 TTCAACCTG-CCCACTGATTAGGGTAAAAGATT-G-GATGT-
1 TTCAATCTGCCCCA-TGATCGGGGTAAGAGATTAGTGATGTC
* * *
36284070 TACAATCTGCCCCATGATCGGGATAAGAGATTGGTG-TGTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGTGATGTC
36284110 T
1 T
36284111 CACTTTGCTC
Statistics
Matches: 364, Mismatches: 75, Indels: 70
0.72 0.15 0.14
Matches are distributed among these distances:
36 1 0.00
37 23 0.06
38 76 0.21
39 102 0.28
40 90 0.25
41 8 0.02
42 47 0.13
43 6 0.02
44 11 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (41 bp):
TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGTGATGTC
Found at i:36283863 original size:160 final size:156
Alignment explanation
Indices: 36283591--36283984 Score: 454
Period size: 160 Copynumber: 2.5 Consensus size: 156
36283581 GGATCGAATG
* * *
36283591 GTGTTTTCAATCTACCCCATGATCGAGGTAAGAGATTAGATGATGTCTTTAATCTGCCTCATGAT
1 GTGTCTTCAATCTACCCCATGATCGGGGTAAGAGATT-G--GATG-CTTCAATCTGCCTCATGAT
* ** * * * * *
36283656 CGGGGTAAGAGATCAGTGTGTCTTCAATTTGCCCTCTAATTAGGGTAAAATATT-TATGTTTCAG
62 AGGGGTAAGAGATCAGTGTGTCTTCAACCTGCCCTCTAACTAGGGTAAAAGATTGGATGCTGCAG
36283720 TCTGCCCCATATGATCGGGGTAA-ATGATTGGAT
127 TCTG-CCC-TATGATCGGGGTAAGA-GATTGG-T
36283753 GATGTCTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGACTTCAATCTGCCTCATGATAG
1 G-TGTCTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATG-CTTCAATCTGCCTCATGATAG
* * *
36283818 GGGTAAGAGATCGGTGTGTCTTCAACCTGCCTTCTGACTAGGGTAAAAGATTGGATGCTGCAGTC
64 GGGTAAGAGATCAGTGTGTCTTCAACCTGCCCTCTAACTAGGGTAAAAGATTGGATGCTGCAGTC
36283883 TGCCCTATGATCGGGGTAAGAGATTGGT
129 TGCCCTATGATCGGGGTAAGAGATTGGT
* ** ** * * *
36283911 GTGTCTTCAATCTACTCTTTGATTAGGGTAAAAGATTGGATGTTTCAATCT-CCTTATGATCA-G
1 GTGTCTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGCTTCAATCTGCCTCATGAT-AGG
36283974 GGTAAAGAGAT
65 GGT-AAGAGAT
36283985 TGGATGGCTT
Statistics
Matches: 204, Mismatches: 23, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
155 12 0.06
156 16 0.08
157 35 0.17
158 2 0.01
159 20 0.10
160 72 0.35
161 11 0.05
162 2 0.01
163 34 0.17
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (156 bp):
GTGTCTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGCTTCAATCTGCCTCATGATAGGG
GTAAGAGATCAGTGTGTCTTCAACCTGCCCTCTAACTAGGGTAAAAGATTGGATGCTGCAGTCTG
CCCTATGATCGGGGTAAGAGATTGGT
Found at i:36283912 original size:78 final size:78
Alignment explanation
Indices: 36283632--36284003 Score: 339
Period size: 78 Copynumber: 4.7 Consensus size: 78
36283622 GAGATTAGAT
* ** * * * *
36283632 GATGTCTTTAATCTG-CCTCATGATCGGGGTAAGAGATCAGTGTGTCTTCAATTTGCCCTCTAAT
1 GATG-CTTCAATCTGCCCT-ATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCTTCTGAT
*
36283696 TAGGGTAAAATATT-
64 TAGGGTAAAAGATTG
* * * *
36283710 TATGTTTCAGTCTGCCCCATATGATCGGGGTAA-ATGATTGGATGATGTCTTCAATCTACC-CCA
1 GATGCTTCAATCTG-CCC-TATGATCGGGGTAAGA-GATTGG-TG-TGTCTTCAATCTACCTTC-
** *
36283773 TGATCGGGGTAAGAGATTG
60 TGATTAGGGTAAAAGATTG
* * * * *
36283792 GATGACTTCAATCTG-CCTCATGATAGGGGTAAGAGATCGGTGTGTCTTCAACCTGCCTTCTGAC
1 GATG-CTTCAATCTGCCCT-ATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCTTCTGAT
36283856 TAGGGTAAAAGATTG
64 TAGGGTAAAAGATTG
* *
36283871 GATGCTGCAGTCTGCCCTATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACTCTT-TGATT
1 GATGCTTCAATCTGCCCTATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTAC-CTTCTGATT
36283935 AGGGTAAAAGATTG
65 AGGGTAAAAGATTG
* * *
36283949 GATGTTTCAATCT-CCTTATGATCAGGGTAAAGAGATTGGATG-G-CTTCAATCTACC
1 GATGCTTCAATCTGCCCTATGATCGGGGT-AAGAGATTGG-TGTGTCTTCAATCTACC
36284004 CCATGATCGA
Statistics
Matches: 240, Mismatches: 38, Indels: 34
0.77 0.12 0.11
Matches are distributed among these distances:
76 1 0.00
77 31 0.13
78 84 0.35
79 59 0.25
80 8 0.03
81 45 0.19
82 4 0.02
83 8 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (78 bp):
GATGCTTCAATCTGCCCTATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCTTCTGATTA
GGGTAAAAGATTG
Found at i:36284029 original size:116 final size:116
Alignment explanation
Indices: 36283632--36284103 Score: 438
Period size: 116 Copynumber: 4.0 Consensus size: 116
36283622 GAGATTAGAT
* * * * * *
36283632 GATGTCTTTAATCTGCCTCATGATCGGGGTAAGAGATCAGTGTGTCTTCAATTTGCCCTCTAATT
1 GATGGCTTCAATCTACCCCATGATCGGGGTAAGAGATC-GTGTGTCTTCAATCTGCCCTCTGATT
* * * * * *
36283697 AGGGTAAAATATT-TATGTTTCAGTCTGCCCCATATGATCGGGGTAAATGATTG
65 AGGGTAAAAGATTGGATGTTTCAATCTG--CCTTATGATCAGGGTAAAAGATTG
* *
36283750 GATGATGTCTTCAATCTACCCCATGATCGGGGTAAGAGATTG-GATGACTTCAATCTG-CCTCAT
1 GATG--G-CTTCAATCTACCCCATGATCGGGGTAAGAGATCGTG-TGTCTTCAATCTGCCCTC-T
* * * * *
36283813 GA-TAGGGGTAAGAGATCGGTGTGTCTTCAACCTGCCTTCTGA-CTAGGGTAAAAGATTG
61 GATTA-GGGTAAAAGATTGG-ATGT-TTCAATCTGCCTTATGATC-AGGGTAAAAGATTG
* * * * * * * *
36283871 GAT-GCTGCAGTCTGCCCTATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACTCTTTGATT
1 GATGGCTTCAATCTACCCCATGATCGGGGTAAGAGA-TCGTGTGTCTTCAATCTGCCCTCTGATT
36283935 AGGGTAAAAGATTGGATGTTTCAATCT-CCTTATGATCAGGGTAAAGAGATTG
65 AGGGTAAAAGATTGGATGTTTCAATCTGCCTTATGATCAGGGTAAA-AGATTG
* * * *
36283987 GATGGCTTCAATCTACCCCATGATCGAGGTGAGAGATCGTGTGTCTTCAACCTGCCCACTGATTA
1 GATGGCTTCAATCTACCCCATGATCGGGGTAAGAGATCGTGTGTCTTCAATCTGCCCTCTGATTA
* ** *
36284052 GGGTAAAAGATTGGATGTTACAATCTGCCCCATGATC-GGGATAAGAGATTG
66 GGGTAAAAGATTGGATGTTTCAATCTGCCTTATGATCAGGG-TAAAAGATTG
36284103 G
1 G
36284104 TGTGTCTCAC
Statistics
Matches: 286, Mismatches: 49, Indels: 40
0.76 0.13 0.11
Matches are distributed among these distances:
115 15 0.05
116 75 0.26
117 67 0.23
118 33 0.12
119 12 0.04
120 24 0.08
121 50 0.17
122 3 0.01
123 7 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (116 bp):
GATGGCTTCAATCTACCCCATGATCGGGGTAAGAGATCGTGTGTCTTCAATCTGCCCTCTGATTA
GGGTAAAAGATTGGATGTTTCAATCTGCCTTATGATCAGGGTAAAAGATTG
Found at i:36284081 original size:194 final size:196
Alignment explanation
Indices: 36283753--36284110 Score: 533
Period size: 194 Copynumber: 1.8 Consensus size: 196
36283743 ATGATTGGAT
* * *
36283753 GATGTCTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGACTTCAATCTGCCTCATGATAG
1 GATGTCTTCAATCTACCCCATGATCAGGGTAAGAGATTGGATGACTTCAATCTACCCCATGATAG
* ** * *
36283818 GGGTAAGAGATCGGTGTGTCTTCAACCTGCCTTCTGACTAGGGTAAAAGATTGGATGCTGCAGTC
66 AGGTAAGAGATCGGTGTGTCTTCAACCTGCCCACTGACTAGGGTAAAAGATTGGATGCTACAATC
* *
36283883 TGCCCTATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACTCTTTGATTAGGGTAAAAGATT
131 TGCCCCATGATCGGGATAAGAGATTGGTGTGTCTTCAATCTACTCTTTGATTAGGGTAAAAGATT
36283948 G
196 G
** * *
36283949 GATGT-TTCAATCT-CCTTATGATCAGGGTAAAGAGATTGGATGGCTTCAATCTACCCCATGATC
1 GATGTCTTCAATCTACCCCATGATCAGGGT-AAGAGATTGGATGACTTCAATCTACCCCATGATA
* * *
36284012 GAGGTGAGAGATC-GTGTGTCTTCAACCTGCCCACTGATTAGGGTAAAAGATTGGATGTTACAAT
65 GAGGTAAGAGATCGGTGTGTCTTCAACCTGCCCACTGACTAGGGTAAAAGATTGGATGCTACAAT
36284076 CTGCCCCATGATCGGGATAAGAGATTGGTGTGTCT
130 CTGCCCCATGATCGGGATAAGAGATTGGTGTGTCT
36284111 CACTTTGCTC
Statistics
Matches: 144, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
194 90 0.62
195 49 0.34
196 5 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (196 bp):
GATGTCTTCAATCTACCCCATGATCAGGGTAAGAGATTGGATGACTTCAATCTACCCCATGATAG
AGGTAAGAGATCGGTGTGTCTTCAACCTGCCCACTGACTAGGGTAAAAGATTGGATGCTACAATC
TGCCCCATGATCGGGATAAGAGATTGGTGTGTCTTCAATCTACTCTTTGATTAGGGTAAAAGATT
G
Found at i:36284182 original size:51 final size:51
Alignment explanation
Indices: 36284122--36284244 Score: 192
Period size: 51 Copynumber: 2.4 Consensus size: 51
36284112 ACTTTGCTCT
*
36284122 ACTGTAACTTCAGAGAGATAAAAACTTGCTACTACAACTTTAATCTGATCC
1 ACTGTAACTTCAGAGAGATAAAAACTTGCTACTACAACTTTAATCCGATCC
* * *
36284173 ACTGCAACTTCAGAGAGATAAAATCTTGCTACTACAGCTTTAATCCGATCC
1 ACTGTAACTTCAGAGAGATAAAAACTTGCTACTACAACTTTAATCCGATCC
* *
36284224 ACTGTAACTTTAGAGATATAA
1 ACTGTAACTTCAGAGAGATAA
36284245 GATTTGTTGT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (51 bp):
ACTGTAACTTCAGAGAGATAAAAACTTGCTACTACAACTTTAATCCGATCC
Found at i:36284796 original size:20 final size:20
Alignment explanation
Indices: 36284771--36284816 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
36284761 AGAAGAGATT
36284771 GAAAATGGTAAACATTTGTC
1 GAAAATGGTAAACATTTGTC
36284791 GAAAATGGTAAACATTTGTC
1 GAAAATGGTAAACATTTGTC
36284811 GAAAAT
1 GAAAAT
36284817 TTCCAAGTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (20 bp):
GAAAATGGTAAACATTTGTC
Found at i:36292671 original size:21 final size:21
Alignment explanation
Indices: 36292645--36292689 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
36292635 CGTAGAGATT
36292645 CTTCTAGCTCAACTATTCGGG
1 CTTCTAGCTCAACTATTCGGG
* *
36292666 CTTCTAGCTCGACTATTTGGG
1 CTTCTAGCTCAACTATTCGGG
36292687 CTT
1 CTT
36292690 TCAGTTCAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.38
Consensus pattern (21 bp):
CTTCTAGCTCAACTATTCGGG
Found at i:36294399 original size:25 final size:23
Alignment explanation
Indices: 36294370--36294415 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
36294360 GTTGGATCCA
36294370 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAATT-TAAAAA-ATAATTAG
*
36294395 AATTAAATTTAAACAATAATT
1 AATTAAATTTAAAAAATAATT
36294416 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (23 bp):
AATTAAATTTAAAAAATAATTAG
Found at i:36296462 original size:6 final size:5
Alignment explanation
Indices: 36296428--36296501 Score: 60
Period size: 6 Copynumber: 13.4 Consensus size: 5
36296418 AATAGTGCAT
*
36296428 AATAA AATAA AATAA AATAA AACTAAA AACTAA AA-AA ACTGAA AATGAA
1 AATAA AATAA AATAA AATAA AA-T-AA AA-TAA AATAA AAT-AA AAT-AA
36296477 AATGAA AATGAA AATAAA AATAA AA
1 AAT-AA AAT-AA AAT-AA AATAA AA
36296502 ATACTATTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
4 3 0.05
5 21 0.34
6 32 0.52
7 6 0.10
ACGTcount: A:0.74, C:0.04, G:0.05, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:36296532 original size:10 final size:10
Alignment explanation
Indices: 36296519--36296557 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
36296509 TTTTTTTGAA
36296519 TTTTTCAATT
1 TTTTTCAATT
36296529 TTTTTCAACTTT
1 TTTTTCAA--TT
*
36296541 TTTTTGAATT
1 TTTTTCAATT
36296551 TTTTTCA
1 TTTTTCA
36296558 TTTAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 16 0.64
12 9 0.36
ACGTcount: A:0.18, C:0.10, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTTTCAATT
Found at i:36300538 original size:25 final size:23
Alignment explanation
Indices: 36300510--36300555 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
36300500 GTAGAATCCA
36300510 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
36300535 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
36300556 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:36303904 original size:21 final size:21
Alignment explanation
Indices: 36303878--36303921 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
36303868 TTTAGTCCCC
36303878 CCTACTTAAATTGAACAATGT
1 CCTACTTAAATTGAACAATGT
36303899 CCTACTTAAATTGAACAATGT
1 CCTACTTAAATTGAACAATGT
36303920 CC
1 CC
36303922 CTATTGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (21 bp):
CCTACTTAAATTGAACAATGT
Found at i:36305550 original size:8 final size:7
Alignment explanation
Indices: 36305536--36305577 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
36305526 AATTTAAAAT
36305536 AAATTAA
1 AAATTAA
36305543 AAAGTTAA
1 AAA-TTAA
36305551 TAAATTAA
1 -AAATTAA
36305559 AAATTATA
1 AAATTA-A
36305567 AAA-TAA
1 AAATTAA
36305573 AAATT
1 AAATT
36305578 TATTACCACC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 4 0.13
7 12 0.39
8 12 0.39
9 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (7 bp):
AAATTAA
Found at i:36305573 original size:14 final size:15
Alignment explanation
Indices: 36305533--36305577 Score: 65
Period size: 14 Copynumber: 3.0 Consensus size: 15
36305523 AATAATTTAA
36305533 AATAAATTAAAAAGTT
1 AATAAATTAAAAA-TT
36305549 AATAAATTAAAAATT
1 AATAAATTAAAAATT
*
36305564 -ATAAAATAAAAATT
1 AATAAATTAAAAATT
36305578 TATTACCACC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 13 0.46
15 2 0.07
16 13 0.46
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (15 bp):
AATAAATTAAAAATT
Found at i:36313870 original size:20 final size:20
Alignment explanation
Indices: 36313842--36313884 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
36313832 CTTTGTTGTT
36313842 TTTACTCTTACTCTCT-CAAG
1 TTTACTCTT-CTCTCTACAAG
* *
36313862 TTTATTCTTTTCTCTACAAG
1 TTTACTCTTCTCTCTACAAG
36313882 TTT
1 TTT
36313885 CTTTTAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.19, C:0.23, G:0.05, T:0.53
Consensus pattern (20 bp):
TTTACTCTTCTCTCTACAAG
Found at i:36315382 original size:21 final size:21
Alignment explanation
Indices: 36315356--36315407 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 21
36315346 AGTTAGTTAC
36315356 TTGCATTTTATTTAGTTGTCA
1 TTGCATTTTATTTAGTTGTCA
*
36315377 TTGCA--TT-TTTATTTGTCA
1 TTGCATTTTATTTAGTTGTCA
*
36315395 CTGCATTTTATTT
1 TTGCATTTTATTT
36315408 GTTAGTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 14 0.54
19 2 0.08
20 2 0.08
21 8 0.31
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.60
Consensus pattern (21 bp):
TTGCATTTTATTTAGTTGTCA
Found at i:36323229 original size:23 final size:23
Alignment explanation
Indices: 36323203--36323307 Score: 129
Period size: 23 Copynumber: 4.6 Consensus size: 23
36323193 GTGTTTTTAT
* *
36323203 ATTTGTGCTTAAATATTAATATG
1 ATTTATGCTTAAATATTAATGTG
* ** *
36323226 ATTTTTTATCAAATATTAATGTG
1 ATTTATGCTTAAATATTAATGTG
*
36323249 ATTTATGCTTAAATATTAGTGTG
1 ATTTATGCTTAAATATTAATGTG
36323272 ATTTATGCTTAAATATTAATGTG
1 ATTTATGCTTAAATATTAATGTG
* *
36323295 ATATGTGCTTAAA
1 ATTTATGCTTAAA
36323308 GAATTAAGAT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (23 bp):
ATTTATGCTTAAATATTAATGTG
Found at i:36328554 original size:21 final size:21
Alignment explanation
Indices: 36328515--36328554 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36328505 TGATCTAAGG
* *
36328515 AAAAATAGAAGAAACAGAATT
1 AAAAATAAAACAAACAGAATT
*
36328536 AAAAATAAAACAAATAGAA
1 AAAAATAAAACAAACAGAA
36328555 AATAAGGAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.72, C:0.05, G:0.10, T:0.12
Consensus pattern (21 bp):
AAAAATAAAACAAACAGAATT
Found at i:36330952 original size:4 final size:4
Alignment explanation
Indices: 36330943--36330990 Score: 62
Period size: 4 Copynumber: 11.5 Consensus size: 4
36330933 TCCTGGATAA
36330943 AAAT AAAT AAAT AAAT AAAT AAAAT AAGAT AGAA- AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AA-AT A-AAT AAAT AAAT AAAT AA
36330991 TAATAATTGG
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
3 2 0.05
4 29 0.73
5 8 0.20
6 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:36332217 original size:21 final size:21
Alignment explanation
Indices: 36332175--36332218 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
36332165 CCTTAGTTTT
**
36332175 CTTTTGAAAATCCACAGTTTG
1 CTTTTGAAAATCCACAAATTG
* *
36332196 CTTTTGAAAATCTATAAATTG
1 CTTTTGAAAATCCACAAATTG
36332217 CT
1 CT
36332219 GCTGAAATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (21 bp):
CTTTTGAAAATCCACAAATTG
Found at i:36333806 original size:22 final size:22
Alignment explanation
Indices: 36333761--36333820 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
36333751 CGATCTAAGG
*
36333761 AAAAATAAAAG-AAACAGAACT
1 AAAAATAAAAGAAAATAGAACT
* *
36333782 AAAAATAAAAGAAAATATAATT
1 AAAAATAAAAGAAAATAGAACT
*
36333804 AAAAGA-AATAGAAAATA
1 AAAA-ATAAAAGAAAATA
36333821 AGGAAGTCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 11 0.33
22 21 0.64
23 1 0.03
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAACT
Found at i:36345170 original size:21 final size:21
Alignment explanation
Indices: 36345146--36345186 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36345136 TAAAGTAAAT
36345146 ACAAATTAATG-ATAAAATTTA
1 ACAAA-TAATGAATAAAATTTA
*
36345167 ACAAATCATGAATAAAATTT
1 ACAAATAATGAATAAAATTT
36345187 TAGGACGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (21 bp):
ACAAATAATGAATAAAATTTA
Found at i:36359877 original size:29 final size:29
Alignment explanation
Indices: 36359845--36359929 Score: 73
Period size: 32 Copynumber: 2.7 Consensus size: 29
36359835 TCACAAAAAT
*
36359845 TTTAAGTACAAACTT-AAAAAAGTGTCAAG
1 TTTAAGTACAAA-TTGAAAAAAGTGTCAAA
*
36359874 TTTAGGTACTAAATTAGGAAAAAAGTGTCAAA
1 TTTAAGTAC-AAATT--GAAAAAAGTGTCAAA
*
36359906 TTTGAGTATCAAATTAGACAAAAA
1 TTTAAGTA-CAAATT-GA-AAAAA
36359930 AAAGTTTAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
29 10 0.22
30 3 0.07
31 2 0.04
32 29 0.64
33 1 0.02
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.28
Consensus pattern (29 bp):
TTTAAGTACAAATTGAAAAAAGTGTCAAA
Found at i:36359929 original size:33 final size:32
Alignment explanation
Indices: 36359860--36359930 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
36359850 GTACAAACTT
* *
36359860 AAAAAAGTGTCAAGTTTAGGTACTAAATTAGG
1 AAAAAAGTGTCAAATTTAGGTACTAAATTAGC
36359892 AAAAAAGTGTCAAATTT-GAGTA-TCAAATTAGAC
1 AAAAAAGTGTCAAATTTAG-GTACT-AAATTAG-C
36359925 AAAAAA
1 AAAAAA
36359931 AAGTTTAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 2 0.06
32 26 0.76
33 6 0.18
ACGTcount: A:0.51, C:0.07, G:0.17, T:0.25
Consensus pattern (32 bp):
AAAAAAGTGTCAAATTTAGGTACTAAATTAGC
Found at i:36360154 original size:21 final size:22
Alignment explanation
Indices: 36360130--36360181 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 22
36360120 ATTATATTCC
*
36360130 ATTTAATAATTTGAA-AAAATA
1 ATTTAATAATTAGAATAAAATA
36360151 ATTT-A-AATTAGAATAAAATA
1 ATTTAATAATTAGAATAAAATA
36360171 AGTTTTAATAA
1 A--TTTAATAA
36360182 AGTCATTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 7 0.28
20 8 0.32
21 4 0.16
22 3 0.12
23 1 0.04
24 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (22 bp):
ATTTAATAATTAGAATAAAATA
Found at i:36365833 original size:11 final size:11
Alignment explanation
Indices: 36365815--36365865 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
36365805 TGAAATTTAT
36365815 TTTAATTTTAAA
1 TTTAA-TTTAAA
*
36365827 TTTATTTTAAA
1 TTTAATTTAAA
*
36365838 TTCAATTT-AA
1 TTTAATTTAAA
36365848 TTTAAATTTAAA
1 TTT-AATTTAAA
36365860 TTTAAT
1 TTTAAT
36365866 ATTATTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
10 4 0.12
11 20 0.61
12 9 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:36365863 original size:6 final size:6
Alignment explanation
Indices: 36365815--36365864 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
36365805 TGAAATTTAT
* * *
36365815 TTTAAT TTTAAA TTT-AT TTTAAA -TTCAA TTT-AA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
36365860 TTTAA
1 TTTAA
36365865 TATTATTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
5 13 0.35
6 24 0.65
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:36365864 original size:17 final size:17
Alignment explanation
Indices: 36365807--36365865 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
36365797 TTTTGAAATG
* *
36365807 AAATTTATTTTAATTTT
1 AAATTTAATTTAAATTT
*
36365824 AAATTTATTTTAAA-TT
1 AAATTTAATTTAAATTT
*
36365840 CAATTTAATTTAAATTT
1 AAATTTAATTTAAATTT
36365857 AAATTTAAT
1 AAATTTAAT
36365866 ATTATTATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.38
17 23 0.62
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATTTAATTTAAATTT
Found at i:36365876 original size:23 final size:22
Alignment explanation
Indices: 36365807--36365887 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 22
36365797 TTTTGAAATG
*
36365807 AAATTT-ATTTTAATTTTAAATTT
1 AAATTTAAATTTAA-TTT-AATTT
* *
36365830 -ATTTTAAATTCAATTTAATTT
1 AAATTTAAATTTAATTTAATTT
36365851 AAATTTAAATTTAATATT-ATTAT
1 AAATTTAAATTTAAT-TTAATT-T
*
36365874 AAATTCAAATTTAA
1 AAATTTAAATTTAA
36365888 AAAAAAGGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 5 0.10
22 22 0.46
23 21 0.44
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
AAATTTAAATTTAATTTAATTT
Found at i:36366536 original size:17 final size:17
Alignment explanation
Indices: 36366516--36366548 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36366506 TGTTCCTAAT
*
36366516 ATATTAATATTAATAAC
1 ATATTAATAATAATAAC
36366533 ATATTAATAATAATAA
1 ATATTAATAATAATAA
36366549 TAACATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATTAATAATAATAAC
Found at i:36366587 original size:29 final size:30
Alignment explanation
Indices: 36366521--36366588 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
36366511 CTAATATATT
* *
36366521 AATATTAATAACATATTAATAATAATAATA
1 AATATTATTAACATATTAATAATAACAATA
*
36366551 ACAT-TTATTAACATCATT-A-AATGACAATA
1 A-ATATTATTAACAT-ATTAATAATAACAATA
36366580 AATATTATT
1 AATATTATT
36366589 CAATAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
28 2 0.06
29 14 0.44
30 11 0.34
31 5 0.16
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.38
Consensus pattern (30 bp):
AATATTATTAACATATTAATAATAACAATA
Found at i:36366928 original size:20 final size:20
Alignment explanation
Indices: 36366903--36366944 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
36366893 CGCGATTGAT
*
36366903 GACCGGAGACGGTCGAGCAG
1 GACCGGAGACGGACGAGCAG
*
36366923 GACCGGAGATGGACGAGCAG
1 GACCGGAGACGGACGAGCAG
36366943 GA
1 GA
36366945 TGGGGGAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.45, T:0.05
Consensus pattern (20 bp):
GACCGGAGACGGACGAGCAG
Found at i:36367483 original size:162 final size:162
Alignment explanation
Indices: 36367296--36367633 Score: 604
Period size: 162 Copynumber: 2.1 Consensus size: 162
36367286 GGTTTTGAAT
*
36367296 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACCTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACATGTCACCTTTTGGCTTATTTATGTA
* * *
36367361 TCTAGTCTCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAATTTTTATTTAATTACAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTAAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
36367426 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
131 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
* *
36367458 TTAGTCCTTTGACTGTTTGACTGCACCCGAGGCTGCCACATGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACATGTCACCTTTTGGCTTATTTATGTA
*
36367523 TCTAGTCCCTGTCATTTTTAATTTGTTTAAATTTAATCCTTAAATCAACTTTTATTTATTTACAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTAAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
*
36367588 AATTGGCCCGAGAATTTTTCAAGATTTATAAA
131 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
36367620 TTAGTCCTTTGACT
1 TTAGTCCTTTGACT
36367634 TCTGGGTACT
Statistics
Matches: 168, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
162 168 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACATGTCACCTTTTGGCTTATTTATGTA
TCTAGTCCCTGTCATTTTTAATTTGTTTAAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
AATTGGCCCAAGAATTTTTCAAGATTTATAAA
Found at i:36367778 original size:29 final size:28
Alignment explanation
Indices: 36367746--36367842 Score: 92
Period size: 29 Copynumber: 3.3 Consensus size: 28
36367736 AAAATTTCAT
*
36367746 ATTTGACCCCGGTTTTACCAAAAATTACC
1 ATTT-ACCCCGATTTTACCAAAAATTACC
*
36367775 ATTTACCCTCGAACTTT-CC-AAAATT-CC
1 ATTTACCC-CG-ATTTTACCAAAAATTACC
36367802 ATTTTTAACCCCGATTTTACCAAAAATTACC
1 A--TTT-ACCCCGATTTTACCAAAAATTACC
36367833 ATTTTACCCC
1 A-TTTACCCC
36367843 TCGAACTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
27 3 0.05
28 14 0.25
29 20 0.35
30 17 0.30
31 3 0.05
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (28 bp):
ATTTACCCCGATTTTACCAAAAATTACC
Found at i:36367863 original size:29 final size:29
Alignment explanation
Indices: 36367707--36367875 Score: 97
Period size: 30 Copynumber: 5.8 Consensus size: 29
36367697 GGACTGTCCG
** *
36367707 AAAATTACCATTTTACCCTTAAACTCTTC
1 AAAATTACCATTTTACCCTCGAACTTTTC
* *
36367736 AAAATT-TCATATTTGACCC-CG--GTTTTACC
1 AAAATTACCAT-TTT-ACCCTCGAACTTTT--C
*
36367765 AAAAATTACCA-TTTACCCTCGAACTTTCC
1 -AAAATTACCATTTTACCCTCGAACTTTTC
36367794 AAAATT-CCATTTTTAACCC-CG-A-TTTTACC
1 AAAATTACCA-TTTT-ACCCTCGAACTTTT--C
36367823 AAAAATTACCATTTTACCCCTCGAACTTTTC
1 -AAAATTACCATTTTA-CCCTCGAACTTTTC
*
36367854 AAAATT-CCATTTTTAGCCTCGA
1 AAAATTACCA-TTTTACCCTCGA
36367876 TTTCACCAAA
Statistics
Matches: 109, Mismatches: 10, Indels: 42
0.68 0.06 0.26
Matches are distributed among these distances:
27 9 0.08
28 14 0.13
29 32 0.29
30 38 0.35
31 11 0.10
32 1 0.01
33 4 0.04
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCGAACTTTTC
Found at i:36367867 original size:60 final size:59
Alignment explanation
Indices: 36367707--36367885 Score: 243
Period size: 58 Copynumber: 3.0 Consensus size: 59
36367697 GGACTGTCCG
** * * * * *
36367707 AAAATTACCATTTTACCCTTAAACTCTTCAAAATTTCATATTTGACCCCGGTTTTACCA
1 AAAATTACCATTTTACCCTCGAACTTTTCAAAATTCCATTTTTAACCCCGATTTTACCA
*
36367766 AAAATTACCA-TTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCA
1 AAAATTACCATTTTACCCTCGAACTTTTCAAAATTCCATTTTTAACCCCGATTTTACCA
* * *
36367824 AAAATTACCATTTTACCCCTCGAACTTTTCAAAATTCCATTTTTAGCCTCGATTTCACCA
1 AAAATTACCATTTTA-CCCTCGAACTTTTCAAAATTCCATTTTTAACCCCGATTTTACCA
36367884 AA
1 AA
36367886 GTTTCCAAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
58 50 0.47
59 14 0.13
60 42 0.40
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.36
Consensus pattern (59 bp):
AAAATTACCATTTTACCCTCGAACTTTTCAAAATTCCATTTTTAACCCCGATTTTACCA
Found at i:36367983 original size:58 final size:59
Alignment explanation
Indices: 36367887--36368083 Score: 299
Period size: 58 Copynumber: 3.3 Consensus size: 59
36367877 TTCACCAAAG
36367887 TTTCCAAAATTCCT-TTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCTAAAC
1 TTTCCAAAATT-CTATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCTAAAC
* * *
36367946 TCTCC-AAATTCTATTTTTAACCCCGATTTTACAAAAAATTACCATTTTACCCCCAAAC
1 TTTCCAAAATTCTATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCTAAAC
* * *
36368004 TTTCCAAAATTCTGTTTTTAACCCCGGTTTTACCAAAAATTACCATTTTACCCCTCGAAC
1 TTTCCAAAATTCTATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCT-AAAC
*
36368064 TTTCCAAAATTCCATTTTTA
1 TTTCCAAAATTCTATTTTTA
36368084 GCTCCAGTTT
Statistics
Matches: 124, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
57 2 0.02
58 52 0.42
59 49 0.40
60 21 0.17
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.38
Consensus pattern (59 bp):
TTTCCAAAATTCTATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCTAAAC
Found at i:36368043 original size:59 final size:58
Alignment explanation
Indices: 36367881--36368075 Score: 293
Period size: 59 Copynumber: 3.3 Consensus size: 58
36367871 CTCGATTTCA
*
36367881 CCAAAGTTTCCAAAATTCCTTTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCC
1 CCAAACTTTCCAAAATT-CTTTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCC
* * *
36367940 CTAAACTCTCC-AAATTCTATTTTTAACCCCGATTTTACAAAAAATTACCATTTTACCC
1 CCAAACTTTCCAAAATTCT-TTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCC
*
36367998 CCAAACTTTCCAAAATTCTGTTTTTAACCCCGGTTTTACCAAAAATTACCATTTTACCC
1 CCAAACTTTCCAAAATTCT-TTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCC
*
36368057 CTCGAACTTTCCAAAATTC
1 C-CAAACTTTCCAAAATTC
36368076 CATTTTTAGC
Statistics
Matches: 123, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
57 2 0.02
58 52 0.42
59 53 0.43
60 16 0.13
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (58 bp):
CCAAACTTTCCAAAATTCTTTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCC
Found at i:36368078 original size:215 final size:215
Alignment explanation
Indices: 36367707--36368255 Score: 809
Period size: 215 Copynumber: 2.6 Consensus size: 215
36367697 GGACTGTCCG
* * * *
36367707 AAAATTACCATTTTACCCTTAAACTCTTCAAAATT-TCATATTTGACCCCGGTTTTACCAAAAAT
1 AAAATTACCATTTTACCCCTAAACTC-TCCAAATTCT-ATTTTTGACCCCGATTTTACCAAAAAT
*
36367771 TACCA-TTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCAT
64 TACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCAT
* *
36367835 TTTACCCCTCGAACTTTTCAAAATTCCATTTTTAGCCTCGA-TTTCACCAAAGTTTCCAAAATTC
129 TTTACCCCTCGAACTTTCCAAAATTCCATTTTTAG-CTCCAGTTTCACCAAAGTTTCCAAAATTC
*
36367899 CTTTTTTAACCCCGATTTTACCA
193 CATTTTTAACCCCGATTTTACCA
* *
36367922 AAAATTACCATTTTACCCCTAAACTCTCCAAATTCTATTTTTAACCCCGATTTTACAAAAAATTA
1 AAAATTACCATTTTACCCCTAAACTCTCCAAATTCTATTTTTGACCCCGATTTTACCAAAAATTA
* ** *
36367987 CCATTTTACCCCCAAACTTTCCAAAATTCTGTTTTTAACCCCGGTTTTACCAAAAATTACCATTT
66 CCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTT
36368052 TACCCCTCGAACTTTCCAAAATTCCATTTTTAGCTCCAGTTTCACCAAAGTTTCCAAAATTCCAT
131 TACCCCTCGAACTTTCCAAAATTCCATTTTTAGCTCCAGTTTCACCAAAGTTTCCAAAATTCCAT
*
36368117 TTTTAACCCCGGTTTTACCA
196 TTTTAACCCCGATTTTACCA
* * * * * *
36368137 AAAATTACCATTTTACCCCTAAACTCTTCAAATTCCATTTTTGACCTCAATTTTACCAATATTTA
1 AAAATTACCATTTTACCCCTAAACTCTCCAAATTCTATTTTTGACCCCGATTTTACCAAAAATTA
* * * * *
36368202 CCATTTTACCTCTGAACTTTCCAAAATTCCA-TTTTAGCCCTGATTTCACCAAAA
66 CCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAA
36368256 TTTCCAAAAT
Statistics
Matches: 299, Mismatches: 32, Indels: 7
0.88 0.09 0.02
Matches are distributed among these distances:
214 58 0.19
215 241 0.81
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.37
Consensus pattern (215 bp):
AAAATTACCATTTTACCCCTAAACTCTCCAAATTCTATTTTTGACCCCGATTTTACCAAAAATTA
CCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTT
TACCCCTCGAACTTTCCAAAATTCCATTTTTAGCTCCAGTTTCACCAAAGTTTCCAAAATTCCAT
TTTTAACCCCGATTTTACCA
Found at i:36368137 original size:38 final size:38
Alignment explanation
Indices: 36368064--36368138 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
36368054 CCCCTCGAAC
* *
36368064 TTTCCAAAATTCCATTTTTAGCTCCAGTTTCACCAAAG
1 TTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAAAG
* *
36368102 TTTCCAAAATTCCATTTTTAACCCCGGTTTTACCAAA
1 TTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAAA
36368139 AATTACCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (38 bp):
TTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAAAG
Found at i:36368203 original size:58 final size:59
Alignment explanation
Indices: 36368102--36368236 Score: 175
Period size: 58 Copynumber: 2.3 Consensus size: 59
36368092 TTCACCAAAG
**
36368102 TTTCCAAAATTCCATTTTTAACCCCGGTTTTACCAAAAATTACCATTTTACCCCTAAAC
1 TTTCCAAAATTCCATTTTTAACCCCAATTTTACCAAAAATTACCATTTTACCCCTAAAC
* * * * * *
36368161 TCTT-C-AAATTCCATTTTTGACCTCAATTTTACCAATATTTACCATTTTACCTCTGAAC
1 T-TTCCAAAATTCCATTTTTAACCCCAATTTTACCAAAAATTACCATTTTACCCCTAAAC
36368219 TTTCCAAAATTCCATTTT
1 TTTCCAAAATTCCATTTT
36368237 AGCCCTGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
57 2 0.03
58 47 0.72
59 14 0.22
60 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.41
Consensus pattern (59 bp):
TTTCCAAAATTCCATTTTTAACCCCAATTTTACCAAAAATTACCATTTTACCCCTAAAC
Found at i:36368236 original size:28 final size:28
Alignment explanation
Indices: 36368137--36368237 Score: 77
Period size: 28 Copynumber: 3.5 Consensus size: 28
36368127 GGTTTTACCA
*
36368137 AAAATTACCATTTTACCCCTAAACTCTT-C
1 AAAATTACCATTTTACCTCT-AACT-TTCC
*
36368166 -AAATT-CCATTTTTGACCTC-AATTTTACC
1 AAAATTACCA-TTTT-ACCTCTAACTTT-CC
*
36368194 AATATTTACCATTTTACCTCTGAACTTTCC
1 AA-AATTACCATTTTACCTCT-AACTTTCC
36368224 AAAATT-CCATTTTA
1 AAAATTACCATTTTA
36368238 GCCCTGATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
26 2 0.03
27 6 0.10
28 18 0.31
29 13 0.22
30 11 0.19
31 8 0.14
ACGTcount: A:0.32, C:0.26, G:0.02, T:0.41
Consensus pattern (28 bp):
AAAATTACCATTTTACCTCTAACTTTCC
Found at i:36368253 original size:58 final size:58
Alignment explanation
Indices: 36368102--36368258 Score: 174
Period size: 58 Copynumber: 2.7 Consensus size: 58
36368092 TTCACCAAAG
* * * *
36368102 TTTCCAAAATTCCATTTTTAACCCCGGTTTTACCAAAAATTACCATTTTACCCCTAAAC
1 TTTCCAAAATTCCA-TTTTAGCCCTGATTTTACCAAAATTTACCATTTTACCCCTAAAC
* * * * * *
36368161 TCTT-C-AAATTCCATTTTTGACCTCAATTTTACCAATATTTACCATTTTACCTCTGAAC
1 T-TTCCAAAATTCCATTTTAGCCCT-GATTTTACCAAAATTTACCATTTTACCCCTAAAC
*
36368219 TTTCCAAAATTCCATTTTAGCCCTGATTTCACCAAAATTT
1 TTTCCAAAATTCCATTTTAGCCCTGATTTTACCAAAATTT
36368259 CCAAAATTCC
Statistics
Matches: 79, Mismatches: 15, Indels: 9
0.77 0.15 0.09
Matches are distributed among these distances:
57 8 0.10
58 51 0.65
59 18 0.23
60 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.04, T:0.39
Consensus pattern (58 bp):
TTTCCAAAATTCCATTTTAGCCCTGATTTTACCAAAATTTACCATTTTACCCCTAAAC
Done.