Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 330 of 349
Found at i:109438311 original size:9 final size:9
Alignment explanation
Indices: 109438271--109438400 Score: 83
Period size: 9 Copynumber: 14.6 Consensus size: 9
109438261 CTTTATAAAA
109438271 TTTTATAAT
1 TTTTATAAT
* *
109438280 TTTTTTGTAT
1 TTTTAT-AAT
109438290 TTTTAT-AT
1 TTTTATAAT
109438298 ATTTTATAATT
1 -TTTTATAA-T
*
109438309 TTTTACAAT
1 TTTTATAAT
*
109438318 TTTTATAAAAA
1 TTTTAT--AAT
* *
109438329 TTTTACATT
1 TTTTATAAT
*
109438338 TTTTATATT
1 TTTTATAAT
*
109438347 TTTTATGAT
1 TTTTATAAT
*
109438356 TTTTATGAT
1 TTTTATAAT
109438365 TTTTAT--T
1 TTTTATAAT
*
109438372 TTTTCT-AT
1 TTTTATAAT
109438380 TTTT-TAAT
1 TTTTATAAT
109438388 TTTT-TAAT
1 TTTTATAAT
109438396 TTTTA
1 TTTTA
109438401 ATTAAAATTT
Statistics
Matches: 99, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
7 7 0.07
8 21 0.21
9 48 0.48
10 15 0.15
11 8 0.08
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTATAAT
Found at i:109438383 original size:25 final size:25
Alignment explanation
Indices: 109438338--109438400 Score: 58
Period size: 25 Copynumber: 2.5 Consensus size: 25
109438328 ATTTTACATT
*
109438338 TTTTATATTTTTTATGA-TTTTTATGA
1 TTTT-TATTTTTTAT-ATTTTTTAAGA
* *
109438364 TTTTTATTTTTTCTATTTTTTAA-T
1 TTTTTATTTTTTATATTTTTTAAGA
*
109438388 TTTTTAATTTTTA
1 TTTTTATTTTTTA
109438401 ATTAAAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 12 0.39
25 15 0.48
26 4 0.13
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.75
Consensus pattern (25 bp):
TTTTTATTTTTTATATTTTTTAAGA
Found at i:109438427 original size:79 final size:81
Alignment explanation
Indices: 109438282--109438437 Score: 212
Period size: 79 Copynumber: 1.9 Consensus size: 81
109438272 TTTATAATTT
*
109438282 TTTTGTATTTTTATATATTTTATAATTTTTTACAATTTTTATAAAAATTTTACATTTTTTATATT
1 TTTTGTATTTTTATATATTTTATAATTTTTTA-AATTTTTATAAAAATTTAACATTTTTTATATT
109438347 TTT-TATGATTTTTATGA
65 TTTAT-TGATTTTTATGA
* * * *
109438364 TTTT-TATTTTT-TCTATTTTTTAATTTTTT-AATTTTTAATTAAAATTTAATATTTTTTATATT
1 TTTTGTATTTTTATATATTTTATAATTTTTTAAATTTTT-ATAAAAATTTAACATTTTTTATATT
109438426 TTTATTGATTTT
65 TTTATTGATTTT
109438438 ACTTTTATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
78 7 0.10
79 32 0.48
80 17 0.25
81 7 0.10
82 4 0.06
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.68
Consensus pattern (81 bp):
TTTTGTATTTTTATATATTTTATAATTTTTTAAATTTTTATAAAAATTTAACATTTTTTATATTT
TTATTGATTTTTATGA
Found at i:109438444 original size:23 final size:24
Alignment explanation
Indices: 109438417--109438461 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
109438407 ATTTAATATT
109438417 TTTTAT-ATTTTTATTG-ATTTTAC
1 TTTTATAATTTTT-TTGTATTTTAC
109438440 TTTTATAATTTTTTTGTATTTT
1 TTTTATAATTTTTTTGTATTTT
109438462 TATATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTTATAATTTTTTTGTATTTTAC
Found at i:109438476 original size:11 final size:10
Alignment explanation
Indices: 109438271--109438480 Score: 71
Period size: 9 Copynumber: 22.3 Consensus size: 10
109438261 CTTTATAAAA
109438271 TTTTATA-AT
1 TTTTATATAT
* *
109438280 TTTTTTGTAT
1 TTTTATATAT
109438290 TTTTATATA-
1 TTTTATATAT
109438299 TTTTATA-AT
1 TTTTATATAT
*
109438308 TTTT-TACAAT
1 TTTTATA-TAT
* *
109438318 TTTTATAAAAA
1 TTTTAT-ATAT
*
109438329 TTTTACAT-T
1 TTTTATATAT
109438338 TTTTATAT-T
1 TTTTATATAT
*
109438347 TTTTAT-GAT
1 TTTTATATAT
*
109438356 TTTTAT-GA-
1 TTTTATATAT
109438364 TTTT-TAT-T
1 TTTTATATAT
*
109438372 TTTTCTAT-T
1 TTTTATATAT
109438381 TTTTA-AT-T
1 TTTTATATAT
109438389 TTTTA-AT-T
1 TTTTATATAT
* * *
109438397 TTTAATTAAAA
1 TTTTA-TATAT
*
109438408 TTTAATAT-T
1 TTTTATATAT
*
109438417 TTTTATATTT
1 TTTTATATAT
* *
109438427 TTATTGATTTTAC
1 TT-TT-A-TATAT
109438440 TTTTATA-AT
1 TTTTATATAT
* *
109438449 TTTTTTGTAT
1 TTTTATATAT
109438459 TTTTATATA-
1 TTTTATATAT
109438468 TTTTATATAT
1 TTTTATATAT
109438478 TTT
1 TTT
109438481 GTGATTTTTA
Statistics
Matches: 155, Mismatches: 27, Indels: 37
0.71 0.12 0.17
Matches are distributed among these distances:
7 1 0.01
8 26 0.17
9 69 0.45
10 35 0.23
11 16 0.10
12 4 0.03
13 4 0.03
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTATATAT
Found at i:109438561 original size:16 final size:16
Alignment explanation
Indices: 109438525--109438559 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
109438515 TTTTTTACCA
*
109438525 TTTTAATTTTTCTAAT
1 TTTTAATATTTCTAAT
109438541 TTTTAATATTT-TAAT
1 TTTTAATATTTCTAAT
109438556 TTTT
1 TTTT
109438560 TATTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAATATTTCTAAT
Found at i:109443929 original size:17 final size:17
Alignment explanation
Indices: 109443899--109443932 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
109443889 GAATTTGGTA
**
109443899 ATTTTTTTTTATTTAAT
1 ATTTTTTTGGATTTAAT
109443916 ATTTTTTTGGATTTAAT
1 ATTTTTTTGGATTTAAT
109443933 TTGCATCTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
ATTTTTTTGGATTTAAT
Found at i:109447872 original size:44 final size:45
Alignment explanation
Indices: 109447777--109447910 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 45
109447767 ACAGGACAGA
* *
109447777 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
109447823 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
109447867 ACAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
109447911 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
46 37 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:109455250 original size:44 final size:45
Alignment explanation
Indices: 109455155--109455288 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 45
109455145 ACAGGACAGA
* *
109455155 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
109455201 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
109455245 ACAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
109455289 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
46 37 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:109464626 original size:86 final size:87
Alignment explanation
Indices: 109464435--109464630 Score: 217
Period size: 88 Copynumber: 2.3 Consensus size: 87
109464425 AATTTTTTTT
* * * *
109464435 AAAAAAAGCAATTAAG--TCTA--TTTTTTCACTCATTTGGATATTTGAACTTTCAAAATATATC
1 AAAAAAAGCAATTAAGCCCCTATTTTTTTTCACACAATTGGATACTTGAACTTTCAAAATATATC
***
109464496 AAAAAAATCCTTAAACCTTGTC
66 AAAAAAATCCTTAAACCTTAAA
*
109464518 AAAAAAAGCAATTAAGCCCCTATCTTTTTTTCACACAATTGGATACTTGAGCTTTCAAAAT-TCA
1 AAAAAAAGCAATTAAGCCCCTAT-TTTTTTTCACACAATTGGATACTTGAACTTTCAAAATAT-A
* * *
109464582 TCAAAAAGA-CCTTCAA-TTTAAA
64 TCAAAAAAATCCTTAAACCTTAAA
*
109464604 AAAAAAAGCATTTAAGCCCCTATTTTT
1 AAAAAAAGCAATTAAGCCCCTATTTTT
109464631 ATTAAAAATA
Statistics
Matches: 95, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
83 16 0.17
85 7 0.07
86 24 0.25
87 7 0.07
88 41 0.43
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.34
Consensus pattern (87 bp):
AAAAAAAGCAATTAAGCCCCTATTTTTTTTCACACAATTGGATACTTGAACTTTCAAAATATATC
AAAAAAATCCTTAAACCTTAAA
Found at i:109465146 original size:19 final size:18
Alignment explanation
Indices: 109465098--109465149 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
109465088 TTTGAAATTT
109465098 TTTATATTTTTATTAAAA
1 TTTATATTTTTATTAAAA
*
109465116 TTTAATAATTTTT-CTAAAA
1 TTT-AT-ATTTTTATTAAAA
109465135 TTTATTATTTTTATT
1 TTTA-TATTTTTATT
109465150 TTTTCTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 10 0.36
19 12 0.43
20 6 0.21
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATATTTTTATTAAAA
Found at i:109465347 original size:90 final size:91
Alignment explanation
Indices: 109465181--109465362 Score: 206
Period size: 90 Copynumber: 2.0 Consensus size: 91
109465171 TTTTTATAAG
* * * *
109465181 AGCAAGGGTTTAATTGCTTTTTTGAAAAATTTTGAAGGTCTTTTTTTAATGTATTCTGAAAGTTC
1 AGCAAGGGCTTAATTGCTTTTTTGAAAAAGTTTGAAGGACTTTTTTTAATGCATTCTGAAAGTTC
* * * *
109465246 AAGTACCCAATTGAGTGGAATAAAAA
66 AAATACCCAATTAAGTGCAAAAAAAA
* * * *
109465272 AGCAGGGGCTTAATTGCTTTTCTTGAAGAAGTTTG-AGGAC-TTTTTTGATGCATTTTGAAAGTT
1 AGCAAGGGCTTAATTGCTTTT-TTGAAAAAGTTTGAAGGACTTTTTTTAATGCATTCTGAAAGTT
* * *
109465335 TAAATGCTCAATTAAGTGCAAAAAAAA
65 CAAATACCCAATTAAGTGCAAAAAAAA
109465362 A
1 A
109465363 AAGTAACTTA
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
90 41 0.55
91 23 0.31
92 11 0.15
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (91 bp):
AGCAAGGGCTTAATTGCTTTTTTGAAAAAGTTTGAAGGACTTTTTTTAATGCATTCTGAAAGTTC
AAATACCCAATTAAGTGCAAAAAAAA
Found at i:109472211 original size:17 final size:16
Alignment explanation
Indices: 109472173--109472210 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
109472163 TTCTATATGG
109472173 ATTTTACATTTATTTT
1 ATTTTACATTTATTTT
109472189 ATTTTACCATTGTATTTT
1 ATTTTA-CATT-TATTTT
109472207 ATTT
1 ATTT
109472211 AAATAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (16 bp):
ATTTTACATTTATTTT
Found at i:109475040 original size:45 final size:45
Alignment explanation
Indices: 109474988--109475074 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
109474978 TATGTAATCT
* *
109474988 GAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTAGCCTAAGTTCATGATATATGTGACATCC
* *
109475033 GAACTCATTGAGTTGTAGCCTGAGTTCGTGATATATGTGACA
1 GAACTCATTGAGTTGTAGCCTAAGTTCATGATATATGTGACA
109475075 CATGTTTTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.34
Consensus pattern (45 bp):
GAACTCATTGAGTTGTAGCCTAAGTTCATGATATATGTGACATCC
Found at i:109479279 original size:18 final size:18
Alignment explanation
Indices: 109479256--109479300 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
109479246 AGGAAGAGAA
109479256 AGTGATAGTTGCATCACC
1 AGTGATAGTTGCATCACC
109479274 AGTGATAGTTGCATCACC
1 AGTGATAGTTGCATCACC
*
109479292 AGTAATAGT
1 AGTGATAGT
109479301 AAAACTCTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (18 bp):
AGTGATAGTTGCATCACC
Found at i:109488043 original size:20 final size:20
Alignment explanation
Indices: 109488005--109488052 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
109487995 TAAATTCTAA
**
109488005 AAAGATAAATACATTTAATT
1 AAAGATAAATACAGATAATT
*
109488025 AAAGATAAATAGAGATAATT
1 AAAGATAAATACAGATAATT
109488045 AAA-ATAAA
1 AAAGATAAA
109488053 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (20 bp):
AAAGATAAATACAGATAATT
Found at i:109488063 original size:19 final size:18
Alignment explanation
Indices: 109488039--109488082 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
109488029 ATAAATAGAG
109488039 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
109488059 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
109488076 ATAATTA
1 ATAATTA
109488083 TCCTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:109488098 original size:15 final size:15
Alignment explanation
Indices: 109488078--109488110 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
109488068 TAATCCTAAT
109488078 AATTATCCTAATATA
1 AATTATCCTAATATA
109488093 AATTATCCTAATATA
1 AATTATCCTAATATA
109488108 AAT
1 AAT
109488111 AAAATGGAGT
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:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTATCCTAATATA
Found at i:109489064 original size:18 final size:18
Alignment explanation
Indices: 109489022--109489057 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
109489012 GCAAAGGTAC
109489022 GTCATCGACCTTGCCTAT
1 GTCATCGACCTTGCCTAT
109489040 GTCATCGACCTTGCCTAT
1 GTCATCGACCTTGCCTAT
109489058 TTTATCGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (18 bp):
GTCATCGACCTTGCCTAT
Found at i:109504213 original size:16 final size:16
Alignment explanation
Indices: 109504169--109504211 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
109504159 AAAAACAACC
*
109504169 AAATTAAAGTTTAAAA
1 AAATTAAGGTTTAAAA
109504185 AAATTAAGGTTTAAAA
1 AAATTAAGGTTTAAAA
109504201 AAA-TAAGGTTT
1 AAATTAAGGTTT
109504212 TAGTCAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (16 bp):
AAATTAAGGTTTAAAA
Found at i:109505227 original size:3 final size:3
Alignment explanation
Indices: 109505219--109505244 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
109505209 TTCACTTCCC
109505219 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
109505245 GGTTCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:109507825 original size:13 final size:14
Alignment explanation
Indices: 109507790--109507826 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
109507780 TATTTTTAAC
*
109507790 AAATATTT-AGATT
1 AAATATTTAATATT
109507803 AAATATTTAATATT
1 AAATATTTAATATT
109507817 AAA-ATTTAAT
1 AAATATTTAAT
109507827 TGATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (14 bp):
AAATATTTAATATT
Found at i:109511683 original size:4 final size:4
Alignment explanation
Indices: 109511676--109511707 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
109511666 CAGAGGGAGG
109511676 AAGA AAGA AAGA AAGA AAGA AAGAA AAGA AAG
1 AAGA AAGA AAGA AAGA AAGA AAG-A AAGA AAG
109511708 GAAAAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:109513217 original size:20 final size:20
Alignment explanation
Indices: 109513180--109513218 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
109513170 AAGTTAGTTT
* * *
109513180 AAATGATTTTATATTTTAAA
1 AAATGATTTAAAAGTTTAAA
109513200 AAATGATTTAAAAGTTTAA
1 AAATGATTTAAAAGTTTAA
109513219 GTATATTAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (20 bp):
AAATGATTTAAAAGTTTAAA
Found at i:109516392 original size:30 final size:30
Alignment explanation
Indices: 109516346--109516469 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
109516336 TTTTATTATG
*
109516346 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
109516377 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
109516407 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
109516437 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
109516467 CCA
1 CCA
109516470 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:109516401 original size:15 final size:15
Alignment explanation
Indices: 109516356--109516463 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
109516346 CCAATATCTC
109516356 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
109516371 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
109516386 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
109516401 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
109516416 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
109516431 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
109516446 GATACCCATATCTTT
1 GATACCCATATCTTT
109516461 GAT
1 GAT
109516464 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:109521083 original size:30 final size:30
Alignment explanation
Indices: 109521039--109521159 Score: 165
Period size: 30 Copynumber: 4.0 Consensus size: 30
109521029 TTTATTATGC
*
109521039 CAATATCTCGATACCCATATCTTTGACTTTT
1 CAATAT-TTGATACCCATATCTTTGACTTTT
* *
109521070 CAATATTTGATACCCATATATTTGACTTTC
1 CAATATTTGATACCCATATCTTTGACTTTT
109521100 CAATATTTGATACCCATATCTTTGAC-TTT
1 CAATATTTGATACCCATATCTTTGACTTTT
* *
109521129 CTATTATTTGATACCAATATCTTTGA-TTTT
1 C-AATATTTGATACCCATATCTTTGACTTTT
109521159 C
1 C
109521160 CATAAATATG
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
29 3 0.04
30 72 0.89
31 6 0.07
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.45
Consensus pattern (30 bp):
CAATATTTGATACCCATATCTTTGACTTTT
Found at i:109521090 original size:15 final size:15
Alignment explanation
Indices: 109521072--109521155 Score: 64
Period size: 15 Copynumber: 5.6 Consensus size: 15
109521062 TGACTTTTCA
109521072 ATATTTGATACCCAT
1 ATATTTGATACCCAT
**
109521087 ATATTTGACTTTCCA-
1 ATATTTGA-TACCCAT
109521102 ATATTTGATACCCAT
1 ATATTTGATACCCAT
* ** *
109521117 ATCTTTGACTTTCTAT
1 ATATTTGA-TACCCAT
*
109521133 -TATTTGATACCAAT
1 ATATTTGATACCCAT
*
109521147 ATCTTTGAT
1 ATATTTGAT
109521156 TTTCCATAAA
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
14 8 0.15
15 36 0.69
16 8 0.15
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (15 bp):
ATATTTGATACCCAT
Found at i:109525732 original size:31 final size:32
Alignment explanation
Indices: 109525694--109525764 Score: 108
Period size: 31 Copynumber: 2.2 Consensus size: 32
109525684 CTTCCTGCAT
109525694 AAAAACAGCAAATATAACAT-AAAATACAACC
1 AAAAACAGCAAATATAACATAAAAATACAACC
* *
109525725 AAAAACAGCAAATTTAGCATAAAAAATACAACC
1 AAAAACAGCAAATATAACAT-AAAAATACAACC
109525758 AAAAACA
1 AAAAACA
109525765 TTAATTCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 18 0.50
33 18 0.50
ACGTcount: A:0.65, C:0.18, G:0.04, T:0.13
Consensus pattern (32 bp):
AAAAACAGCAAATATAACATAAAAATACAACC
Found at i:109526011 original size:21 final size:20
Alignment explanation
Indices: 109525982--109526047 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
109525972 ACTTTCTACT
109525982 CTGCTCTG-CTGCCATCGCTG
1 CTGCTCTGCCT-CCATCGCTG
*
109526002 CTGCTTCTGCCTCCCTCGCTG
1 CTGC-TCTGCCTCCATCGCTG
* * * *
109526023 CTACCGCTGCCTCCCTCTCTG
1 CT-GCTCTGCCTCCATCGCTG
109526044 CTGC
1 CTGC
109526048 CTCCGCTCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 5 0.13
21 30 0.79
22 3 0.08
ACGTcount: A:0.03, C:0.47, G:0.20, T:0.30
Consensus pattern (20 bp):
CTGCTCTGCCTCCATCGCTG
Found at i:109526486 original size:13 final size:14
Alignment explanation
Indices: 109526460--109526488 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
109526450 ACTAATGACG
109526460 AATTAAACCATTAT
1 AATTAAACCATTAT
109526474 AATTAAA-CATTAT
1 AATTAAACCATTAT
109526487 AA
1 AA
109526489 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:109527524 original size:25 final size:25
Alignment explanation
Indices: 109527491--109527538 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
109527481 GTAAAATATC
* *
109527491 GAATTAGTAGAATCGAACTATTATG
1 GAATAAGTAGAATCAAACTATTATG
* *
109527516 GAATAAGTATAATCAAATTATTA
1 GAATAAGTAGAATCAAACTATTA
109527539 CAACACAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (25 bp):
GAATAAGTAGAATCAAACTATTATG
Found at i:109530072 original size:40 final size:40
Alignment explanation
Indices: 109529980--109530090 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 40
109529970 CAATTAAACA
** *
109529980 TTTAGTGGCG-TTTTACAAAAGCATCGCTAAATCTCAATC
1 TTTAGTGGCGTTTTTACAAAAGCGCCGCTAATTCTCAATC
* * * *
109530019 TTTTGCGGTGTTTTTACAAAAGCGCCGCTAATTCTCTATC
1 TTTAGTGGCGTTTTTACAAAAGCGCCGCTAATTCTCAATC
* * **
109530059 TTTAGTAGCGTTTTTAGAAAAATGCCGCTAAT
1 TTTAGTGGCGTTTTTACAAAAGCGCCGCTAAT
109530091 GCCTCTGGAG
Statistics
Matches: 57, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
39 7 0.12
40 50 0.88
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (40 bp):
TTTAGTGGCGTTTTTACAAAAGCGCCGCTAATTCTCAATC
Found at i:109531229 original size:36 final size:37
Alignment explanation
Indices: 109531187--109531266 Score: 126
Period size: 38 Copynumber: 2.2 Consensus size: 37
109531177 CCCGGCCCAT
109531187 ACCATAAACTT-AACATACTATACCATTGAACCCTAA
1 ACCATAAACTTAAACATACTATACCATTGAACCCTAA
* *
109531223 ACCATAAACTTAAAATATATTATACCATTGAACCCTAA
1 ACCATAAACTT-AAACATACTATACCATTGAACCCTAA
109531261 ACCATA
1 ACCATA
109531267 CGCCTTAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
36 11 0.28
38 29 0.73
ACGTcount: A:0.46, C:0.25, G:0.03, T:0.26
Consensus pattern (37 bp):
ACCATAAACTTAAACATACTATACCATTGAACCCTAA
Found at i:109532110 original size:25 final size:25
Alignment explanation
Indices: 109532069--109532116 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
109532059 AAGGTTTATG
109532069 GGTTTAGGGATTATGGTTTAAGGGT
1 GGTTTAGGGATTATGGTTTAAGGGT
*
109532094 GGTTTAAGGG-TTGTGGTTTAAGG
1 GGTTT-AGGGATTATGGTTTAAGG
109532117 TTTAAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.40
Consensus pattern (25 bp):
GGTTTAGGGATTATGGTTTAAGGGT
Found at i:109532118 original size:21 final size:22
Alignment explanation
Indices: 109532094--109532156 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
109532084 GTTTAAGGGT
*
109532094 GGTTTAAGGGTT-GTGGTTTAA
1 GGTTTAAGGGTTAGGGGTTTAA
*
109532115 GGTTTAAGTGTTAGGGGTTT-A
1 GGTTTAAGGGTTAGGGGTTTAA
* *
109532136 GGGTTAGGGGTTCA-GGGTTTA
1 GGTTTAAGGGTT-AGGGGTTTA
109532157 GATTAAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
21 27 0.79
22 7 0.21
ACGTcount: A:0.17, C:0.02, G:0.41, T:0.40
Consensus pattern (22 bp):
GGTTTAAGGGTTAGGGGTTTAA
Found at i:109532143 original size:14 final size:14
Alignment explanation
Indices: 109532124--109532154 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
109532114 AGGTTTAAGT
*
109532124 GTTAGGGGTTTAGG
1 GTTAGGGGTTCAGG
109532138 GTTAGGGGTTCAGG
1 GTTAGGGGTTCAGG
109532152 GTT
1 GTT
109532155 TAGATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.03, G:0.48, T:0.35
Consensus pattern (14 bp):
GTTAGGGGTTCAGG
Found at i:109532313 original size:22 final size:21
Alignment explanation
Indices: 109532288--109532337 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
109532278 GAGTTACTAT
*
109532288 TTTAAGGTTTATGAATTATGAG
1 TTTAAGGATTATGAATTATG-G
* *
109532310 TTTAGGGATTATGATTTATGG
1 TTTAAGGATTATGAATTATGG
109532331 TTTAAGG
1 TTTAAGG
109532338 GTTGGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGAATTATGG
Found at i:109532346 original size:14 final size:15
Alignment explanation
Indices: 109532329--109532361 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
109532319 TATGATTTAT
*
109532329 GGTTTAAGGGTT-GG
1 GGTTTAAGGCTTAGG
109532343 GGTTTAAGGCTTAGG
1 GGTTTAAGGCTTAGG
109532358 GGTT
1 GGTT
109532362 AGGGGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.15, C:0.03, G:0.45, T:0.36
Consensus pattern (15 bp):
GGTTTAAGGCTTAGG
Found at i:109533183 original size:37 final size:37
Alignment explanation
Indices: 109533142--109533219 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
109533132 ATGGGTATCC
*
109533142 TCAAAACACCCCCAATCTCACCCCTCCGTTGCTCTTT
1 TCAAAACACCCCCAATCTCACCCCTCCATTGCTCTTT
*
109533179 TCAAAACACCCCCAATCTCATCCCTCCATTGCTCTTT
1 TCAAAACACCCCCAATCTCACCCCTCCATTGCTCTTT
109533216 TCAA
1 TCAA
109533220 TCAAGAAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.24, C:0.44, G:0.04, T:0.28
Consensus pattern (37 bp):
TCAAAACACCCCCAATCTCACCCCTCCATTGCTCTTT
Found at i:109535669 original size:18 final size:18
Alignment explanation
Indices: 109535646--109535682 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
109535636 TCTGATTTTA
109535646 ACATTCGTGAATTCCATG
1 ACATTCGTGAATTCCATG
109535664 ACATTCGTGAATTCCATG
1 ACATTCGTGAATTCCATG
109535682 A
1 A
109535683 ATTAAGTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (18 bp):
ACATTCGTGAATTCCATG
Found at i:109537596 original size:30 final size:30
Alignment explanation
Indices: 109537557--109537624 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
109537547 GATATTTAAT
* *
109537557 AATAGATTTAAAATA-TAATATATAATAAAA
1 AATATATTTAAAAGAGTAATA-ATAATAAAA
* * *
109537587 AATATATTTATAAGAGTAATAATTATATAA
1 AATATATTTAAAAGAGTAATAATAATAAAA
109537617 AATATATT
1 AATATATT
109537625 GGTTTAGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (30 bp):
AATATATTTAAAAGAGTAATAATAATAAAA
Found at i:109537908 original size:21 final size:18
Alignment explanation
Indices: 109537865--109537933 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 18
109537855 AAATGATAAT
109537865 AATAT-ATAG-ATAAAAA
1 AATATAATAGTATAAAAA
109537881 AATATAATAGTATAAAAA
1 AATATAATAGTATAAAAA
*
109537899 AATGGCATAATAATATAAAATA
1 AAT---ATAATAGTATAAAA-A
*
109537921 ATTATAATA-TATA
1 AATATAATAGTATA
109537934 TAATAGGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
16 5 0.11
17 4 0.09
18 14 0.31
19 6 0.13
21 13 0.29
22 3 0.07
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.30
Consensus pattern (18 bp):
AATATAATAGTATAAAAA
Found at i:109537934 original size:20 final size:20
Alignment explanation
Indices: 109537905--109538122 Score: 77
Period size: 20 Copynumber: 10.9 Consensus size: 20
109537895 AAAAAATGGC
109537905 ATAATA-ATATAAAATAATT
1 ATAATATATATAAAATAATT
** *
109537924 ATAATATATATAATAGGAA-A
1 ATAATATATATAA-AATAATT
* *
109537944 ATACATATGTA-AAAATAATAC
1 ATA-ATATATATAAAATAAT-T
109537965 ATAATATATAT-AAATAATT
1 ATAATATATATAAAATAATT
* * *
109537984 AATAA-ATATATAACACAAGT
1 -ATAATATATATAAAATAATT
109538004 A-AA-A-ATATAATAATAATAT
1 ATAATATATATAA-AATAAT-T
* *
109538023 ATAAATAATGATGTAAAATAATA
1 AT-AAT-AT-ATATAAAATAATT
* *
109538046 ATAATTTGTGA-AAAATAATAT
1 ATAATATAT-ATAAAATAAT-T
*
109538067 ATAATA-A-ATAATAATAA-C
1 ATAATATATATAA-AATAATT
*
109538085 ATAAATAATATATAAAGTAATT
1 AT-AAT-ATATATAAAATAATT
*
109538107 AT-ATA-ATATAATATAA
1 ATAATATATATAAAATAA
109538123 AAATAAGGTT
Statistics
Matches: 146, Mismatches: 28, Indels: 51
0.65 0.12 0.23
Matches are distributed among these distances:
17 6 0.04
18 18 0.12
19 24 0.16
20 50 0.34
21 25 0.17
22 9 0.06
23 3 0.02
24 6 0.04
25 5 0.03
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (20 bp):
ATAATATATATAAAATAATT
Found at i:109538128 original size:29 final size:26
Alignment explanation
Indices: 109538060--109538128 Score: 61
Period size: 29 Copynumber: 2.6 Consensus size: 26
109538050 TTTGTGAAAA
*
109538060 ATAATAT-ATAATAAATAATAATAAC
1 ATAATATAAAAATAAATAATAATAAC
* *
109538085 ATAA-ATAATATATAAAGTAATTATATAAT
1 ATAATATAA-AAATAAA-TAA-TA-ATAAC
109538114 ATAATATAAAAATAA
1 ATAATATAAAAATAA
109538129 GGTTAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
24 2 0.06
25 5 0.15
26 5 0.15
27 3 0.09
28 2 0.06
29 13 0.38
30 4 0.12
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (26 bp):
ATAATATAAAAATAAATAATAATAAC
Found at i:109540150 original size:205 final size:205
Alignment explanation
Indices: 109539797--109540379 Score: 941
Period size: 205 Copynumber: 2.8 Consensus size: 205
109539787 AAATCTGCTT
* * * *
109539797 CTTCGATTTGTTCTCTAACAATACAAAGATGCCAAATCATCTTAGATTTGCTCCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* * * *
109539862 GCGAAAACCAAATCAGCTATGTCTTTGATTTGCTCCTTTTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATGCCAAACCATCTT
*
109539927 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTAG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCATCGAAGTAG
109539992 AGATGCCAGA
196 AGATGCCAGA
* *
109540002 TTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
109540067 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCATTATAAGCACAAGGATGCCAAACCATATT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATGCCAAACCATCTT
* *
109540132 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTCTGCCCTCCATCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCATCGAAGTAG
*
109540197 AGATGCTAGA
196 AGATGCCAGA
* * * *
109540207 CTTCAATTTGTTCTCTGACAATACAGAGATGTCAAATCATCTTAGATTTGCTTCAATGTAAGCAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
109540272 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATGCCAAACCATCTT
* * *
109540337 GGATCTACTTCAGTATAAACATCTGAAGGCTAGATTTGCTATG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATG
109540380 CTGCAGCCTA
Statistics
Matches: 348, Mismatches: 30, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
205 348 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCATCGAAGTAG
AGATGCCAGA
Found at i:109546757 original size:19 final size:19
Alignment explanation
Indices: 109546734--109546780 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
109546724 ATTTAATCTA
*
109546734 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
109546752 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
109546772 ATTTTTATT
1 ATTTTTATT
109546781 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:109548721 original size:27 final size:26
Alignment explanation
Indices: 109548691--109548867 Score: 149
Period size: 27 Copynumber: 6.5 Consensus size: 26
109548681 AAATTGTACA
* *
109548691 GCACTAAGTATGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
109548718 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
109548745 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
*
109548772 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* * *
109548800 GCACTAAGTGTGCAATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
109548827 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
109548854 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
109548868 GGCTCAATAT
Statistics
Matches: 124, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:109548805 original size:82 final size:81
Alignment explanation
Indices: 109548691--109548846 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 81
109548681 AAATTGTACA
* * *
109548691 GCACTAAGTATGCGATTCGACTATGTTGCACTAAGTGTGCGAA-ATGAATATGAT-GCACTAAGT
1 GCACTAAGTATGCGAGTCGACTATGTAGCACTAAGTGTGC-AATATGAATACG-TGGCACTAAGT
109548754 GTGCGAATTGACCATGCG
64 GTGCGAATTGACCATGCG
* * *
109548772 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCAATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTATGCGAGTC-GACTATGTAGCACTAAGTGTGCAATATGAATACGTGGCACTAAGTG
*
109548837 TGCGAGTTGA
65 TGCGAATTGA
109548847 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
81 19 0.29
82 46 0.71
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTATGCGAGTCGACTATGTAGCACTAAGTGTGCAATATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:109548858 original size:82 final size:81
Alignment explanation
Indices: 109548687--109548867 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
109548677 GATTAAATTG
* * * *
109548687 TACAGCACTAAGTATGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
109548752 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
109548768 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGC-AATTTGATTACG-TGGCAC
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAA-ATGAATACGAT-GCAC
* **
109548831 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
109548850 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
109548868 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:109550351 original size:43 final size:43
Alignment explanation
Indices: 109550281--109550388 Score: 157
Period size: 43 Copynumber: 2.6 Consensus size: 43
109550271 AATAATTTTT
* *
109550281 TAAAGGTTAT-TTTTTTAGC-GCGTTTGTGGTAAAAGCGCCGC
1 TAAAGGTTATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
109550322 TAAAGGTTATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTTATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* **
109550365 TAAAGGTCATGACCTTTAGCGGCG
1 TAAAGGTTATGATTTTTAGCGGCG
109550389 CTTTTCCCAC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 10 0.17
42 8 0.13
43 42 0.70
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (43 bp):
TAAAGGTTATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:109550406 original size:43 final size:43
Alignment explanation
Indices: 109550294--109550407 Score: 108
Period size: 43 Copynumber: 2.7 Consensus size: 43
109550284 AGGTTATTTT
*** * **
109550294 TTTAGC-GCGTTTGTGGTAAAAGCGCCGCTAAAGGTTATGATT
1 TTTAGCGGCGTTTGTCCCAAAAGCGCCGCTAAAGGTCATGACC
***
109550336 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTCCCAAAAGCGCCGCTAAAGGTCATGACC
109550379 TTTAGCGGCGCTTT-TCCCACAAA-CGCCGC
1 TTTAGCGGCG-TTTGTCCCA-AAAGCGCCGC
109550408 AAATTTTAGC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 6 0.10
43 50 0.81
44 6 0.10
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTCCCAAAAGCGCCGCTAAAGGTCATGACC
Found at i:109550647 original size:21 final size:21
Alignment explanation
Indices: 109550623--109550673 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 21
109550613 AGTTTATGGA
* *
109550623 TTAGTGTTTATGGTTTATGTT
1 TTAGTGTTTAGGGTTTATGGT
**
109550644 TTAGAATTTAGGGTTTA-GGT
1 TTAGTGTTTAGGGTTTATGGT
*
109550664 TTAATGTTTA
1 TTAGTGTTTA
109550674 AGACTTAAGG
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.55
Consensus pattern (21 bp):
TTAGTGTTTAGGGTTTATGGT
Found at i:109550684 original size:28 final size:28
Alignment explanation
Indices: 109550628--109550688 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
109550618 ATGGATTAGT
* *
109550628 GTTTATGGTTTATGTTTTAGAATTTAGG
1 GTTTATGGTTTATGTTTAAGAATTAAGG
*
109550656 GTTTA-GGTTTAATGTTTAAGACTTAAGG
1 GTTTATGGTTT-ATGTTTAAGAATTAAGG
109550684 GTTTA
1 GTTTA
109550689 CAGAAAGCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.49
Consensus pattern (28 bp):
GTTTATGGTTTATGTTTAAGAATTAAGG
Found at i:109551230 original size:41 final size:40
Alignment explanation
Indices: 109550977--109551227 Score: 286
Period size: 41 Copynumber: 6.2 Consensus size: 40
109550967 AACTTTTTGC
* *
109550977 GGCGTTTGGACCAAAAACGCCGCTGTTGCTCAGTTTTTAGT
1 GGCGTTTGG-CCAAAAACGCCGCTATTGATCAGTTTTTAGT
* ** * * *
109551018 GGTGTTTTACATAAAAACACTGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGC-CAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
109551059 GGCGTTTGGGCCAAAAATGCCGTTATTGATTAGTTTTTAGT
1 GGCGTTT-GGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
109551100 GGCGTTTGGGCCAAAAATGCCGCTATTGATAAGTTTTTAGT
1 GGCGTTT-GGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
109551141 GGCGTTTGGCCGAAAACGCTGCTATTGATCAATTTTTAGT
1 GGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * *
109551181 GGCGTTTTGCCAAAAACGCCGCTATTGTTCAGTTTTTTGC
1 GGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
109551221 GGCGTTT
1 GGCGTTT
109551228 TTGTAAAATA
Statistics
Matches: 177, Mismatches: 31, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
40 69 0.39
41 107 0.60
42 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.37
Consensus pattern (40 bp):
GGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:109554679 original size:3 final size:3
Alignment explanation
Indices: 109554671--109554729 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
109554661 CCAACCGCAA
109554671 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
109554719 AAG AAG AAG AA
1 AAG AAG AAG AA
109554730 TTTATAAGAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:109566569 original size:30 final size:30
Alignment explanation
Indices: 109566483--109566569 Score: 86
Period size: 33 Copynumber: 2.8 Consensus size: 30
109566473 AAATCGCTAC
* *
109566483 ACCAACCACTA-CACCTACTCAACCTGAATT
1 ACCAACCACCACCACC-ACTCAACCTGAATA
* *
109566513 ACCAACCCTGCCCACCTCCACTCAACCTGAATA
1 ACCAA-CC--ACCACCACCACTCAACCTGAATA
*
109566546 ACCAACCACCACCACCACACAACC
1 ACCAACCACCACCACCACTCAACC
109566570 ACCTTTACCC
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
30 19 0.41
31 2 0.04
32 2 0.04
33 20 0.43
34 3 0.07
ACGTcount: A:0.36, C:0.48, G:0.03, T:0.13
Consensus pattern (30 bp):
ACCAACCACCACCACCACTCAACCTGAATA
Found at i:109589449 original size:111 final size:111
Alignment explanation
Indices: 109589281--109589557 Score: 410
Period size: 111 Copynumber: 2.5 Consensus size: 111
109589271 AGCATTTTGC
* * * * *
109589281 GTGTTATCAGTTGGATTAGATCTTATGAGCATTTGGTGTGTTATTGGTTGGATTAGCTCTTATGA
1 GTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGAGTGTTTTTGGTTGGATTAGCTCTGATGA
** *
109589346 GCATTTGGCATGTTTTCGATTGGATCAGCTCTTATGAACATTTGGT
66 GCATTTGGCATGTTAGCGATTGGATCAGCTCTTATGAACATGTGGT
*
109589392 GTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGAATGTTTTTGGTTGGATTAGCTCTGATGA
1 GTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGAGTGTTTTTGGTTGGATTAGCTCTGATGA
* * * * *
109589457 GCATTTGGCGTGTTAGCGGTTGGATTAGCTGTTATGAGCATGTGGT
66 GCATTTGGCATGTTAGCGATTGGATCAGCTCTTATGAACATGTGGT
* *
109589503 GTGTTTTCAGTTGGATTAGCTCTTATAAGCATTTGGCGTGTTTTTGGTTGGATTA
1 GTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGAGTGTTTTTGGTTGGATTA
109589558 CTTGTGTACT
Statistics
Matches: 149, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
111 149 1.00
ACGTcount: A:0.18, C:0.10, G:0.29, T:0.43
Consensus pattern (111 bp):
GTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGAGTGTTTTTGGTTGGATTAGCTCTGATGA
GCATTTGGCATGTTAGCGATTGGATCAGCTCTTATGAACATGTGGT
Found at i:109589545 original size:37 final size:37
Alignment explanation
Indices: 109589244--109589557 Score: 353
Period size: 37 Copynumber: 8.5 Consensus size: 37
109589234 GTGCCGTGGT
* * * * *
109589244 GTGTTATCAGATGGATTAGTTCTTGTGAGCATTTTGC
1 GTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGC
* * *
109589281 GTGTTATCAGTTGGATTAGATCTTATGAGCATTTGGT
1 GTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGC
*
109589318 GTGTTATT-GGTTGGATTAGCTCTTATGAGCATTTGGC
1 GTGTT-TTCAGTTGGATTAGCTCTTATGAGCATTTGGC
* * * *
109589355 ATGTTTTC-GATTGGATCAGCTCTTATGAACATTTGGT
1 GTGTTTTCAG-TTGGATTAGCTCTTATGAGCATTTGGC
*
109589392 GTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGA
1 GTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGC
* ** *
109589429 ATGTTTTTGGTTGGATTAGCTCTGATGAGCATTTGGC
1 GTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGC
** * * * *
109589466 GTGTTAGCGGTTGGATTAGCTGTTATGAGCATGTGGT
1 GTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGC
*
109589503 GTGTTTTCAGTTGGATTAGCTCTTATAAGCATTTGGC
1 GTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGC
**
109589540 GTGTTTTTGGTTGGATTA
1 GTGTTTTCAGTTGGATTA
109589558 CTTGTGTACT
Statistics
Matches: 234, Mismatches: 39, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
36 3 0.01
37 229 0.98
38 2 0.01
ACGTcount: A:0.18, C:0.10, G:0.28, T:0.43
Consensus pattern (37 bp):
GTGTTTTCAGTTGGATTAGCTCTTATGAGCATTTGGC
Found at i:109593301 original size:46 final size:46
Alignment explanation
Indices: 109593251--109593426 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
109593241 TGGTTGAACA
109593251 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
109593297 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGA--GA-GG-TG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAA-T--G
* * **
109593342 CATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
109593390 CCCGAGCTCGTTGAGTTGAGTCTGATTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
109593427 GCAGGTTACT
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 62 0.58
47 28 0.26
48 2 0.02
49 2 0.02
50 2 0.02
51 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:109598597 original size:26 final size:26
Alignment explanation
Indices: 109598566--109598673 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
109598556 TGAAATGCCC
*
109598566 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
109598592 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
109598618 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
109598644 ATCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
109598670 ATCA
1 ATCA
109598674 ATTTGTATTA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:109603560 original size:12 final size:12
Alignment explanation
Indices: 109603543--109603573 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
109603533 AGTACTACCT
109603543 CGGCCTCGACCA
1 CGGCCTCGACCA
109603555 CGGCCTCGACCA
1 CGGCCTCGACCA
109603567 CGGCCTC
1 CGGCCTC
109603574 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:109605209 original size:24 final size:26
Alignment explanation
Indices: 109605173--109605221 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
109605163 TCAAACATGC
109605173 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
109605198 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
109605222 GTAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:109606713 original size:25 final size:26
Alignment explanation
Indices: 109606670--109606774 Score: 153
Period size: 25 Copynumber: 4.2 Consensus size: 26
109606660 ATGAAATGCC
*
109606670 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAATATTTACCTAAACCATT
*
109606696 ATCATGGAA-ATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATT
*
109606721 ATCAT-GAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAAACCATT
*
109606746 ATCATGGAATATTTACCT-AATCATT
1 ATCATGGAATATTTACCTAAACCATT
109606771 ATCA
1 ATCA
109606775 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
24 3 0.04
25 49 0.67
26 21 0.29
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (26 bp):
ATCATGGAATATTTACCTAAACCATT
Found at i:109613717 original size:9 final size:9
Alignment explanation
Indices: 109613703--109613928 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
109613693 TATTTAAGTA
109613703 TTATGTAAG
1 TTATGTAAG
*
109613712 TTATGTAAT
1 TTATGTAAG
*
109613721 TTATGATATG
1 TTATG-TAAG
* * *
109613731 ATATAT-AT
1 TTATGTAAG
*
109613739 TTATGTAAA
1 TTATGTAAG
* *
109613748 TTATAT-AT
1 TTATGTAAG
*
109613756 TTATCTAAG
1 TTATGTAAG
*
109613765 TTATATAAG
1 TTATGTAAG
109613774 TTATGTAAG
1 TTATGTAAG
*
109613783 TTATGTAAA
1 TTATGTAAG
*
109613792 TTATGATATAAAA
1 TTATG---T-AAG
*
109613805 TATATTTAAG
1 T-TATGTAAG
109613815 TATTATGTAAG
1 --TTATGTAAG
109613826 TTATGTAAG
1 TTATGTAAG
* *
109613835 TTATAT-AT
1 TTATGTAAG
*
109613843 TTATCTAAG
1 TTATGTAAG
*
109613852 TTATATAAG
1 TTATGTAAG
*
109613861 TTATATAAG
1 TTATGTAAG
*
109613870 TTATGTAGG
1 TTATGTAAG
*
109613879 TTATATAAG
1 TTATGTAAG
109613888 TTATGTAAG
1 TTATGTAAG
* *
109613897 TTATATATG
1 TTATGTAAG
*
109613906 TTATATAAG
1 TTATGTAAG
*
109613915 TTATGTAAA
1 TTATGTAAG
109613924 TTATG
1 TTATG
109613929 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.09
9 131 0.77
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:109613782 original size:18 final size:18
Alignment explanation
Indices: 109613703--109613928 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
109613693 TATTTAAGTA
* *
109613703 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
109613721 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
109613739 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
109613756 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
109613774 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
109613792 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
109613815 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
109613835 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
109613852 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
109613870 TTATGTAGGTTATATAAG
1 TTATGTAAGTTATATAAG
*
109613888 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
109613906 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
109613924 TTATG
1 TTATG
109613929 ATATCAAATA
Statistics
Matches: 167, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
17 37 0.22
18 97 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:109613795 original size:27 final size:27
Alignment explanation
Indices: 109613756--109613928 Score: 159
Period size: 27 Copynumber: 6.2 Consensus size: 27
109613746 AATTATATAT
*
109613756 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
109613783 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
109613815 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
109613843 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
109613870 TTATGTAGGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
109613897 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
109613924 TTATG
1 TTATG
109613929 ATATCAAATA
Statistics
Matches: 119, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
26 22 0.18
27 58 0.49
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:109613813 original size:114 final size:114
Alignment explanation
Indices: 109613679--109613900 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
109613669 ACTAGTTATG
* * * *
109613679 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
109613743 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
109613793 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
109613858 AAGTTATATAAGTTATGTAGGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
109613901 ATATGTTATA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 73 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:109614053 original size:15 final size:15
Alignment explanation
Indices: 109614033--109614088 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
109614023 AAGTAGCGAG
109614033 ATTAAATAATATTTA
1 ATTAAATAATATTTA
109614048 ATTAAATAATATTT-
1 ATTAAATAATATTTA
109614062 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
109614077 ATTAAATAATAT
1 ATTAAATAATAT
109614089 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:109614293 original size:24 final size:24
Alignment explanation
Indices: 109614265--109614332 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
109614255 ACTTAAATGG
109614265 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
*
109614289 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
* *
109614313 TAAAACAGACGAGAATATTT
1 TAAAACGGACGATAATATTT
109614333 CAATAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
23 1 0.03
24 37 0.95
25 1 0.03
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Found at i:109616414 original size:134 final size:132
Alignment explanation
Indices: 109616244--109616495 Score: 468
Period size: 134 Copynumber: 1.9 Consensus size: 132
109616234 GAATTCAACA
109616244 ATATAAAACGTAAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTAAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
109616309 TAAGTTGGATAGAAACATGAAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTT
66 TAAGTTGGATAG-AACATG-AAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTT
109616374 TATT
129 TATT
*
109616378 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTAAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
*
109616443 TAAGTTGGATAGAACATGAAAACAGACCAAAATAACATCTAAATAACCAAAAT
66 TAAGTTGGATAGAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAAT
109616496 GGAATCACCA
Statistics
Matches: 116, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
132 34 0.29
133 6 0.05
134 76 0.66
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.20
Consensus pattern (132 bp):
ATATAAAACGTAAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
TAAGTTGGATAGAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTTA
TT
Found at i:109619274 original size:15 final size:15
Alignment explanation
Indices: 109619254--109619285 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
109619244 AAATAATATT
*
109619254 TTATATATATTTATC
1 TTATATACATTTATC
109619269 TTATATACATTTATC
1 TTATATACATTTATC
109619284 TT
1 TT
109619286 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:109620166 original size:14 final size:13
Alignment explanation
Indices: 109620147--109620180 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
109620137 ATTGAACCTG
109620147 CTTAAACCATATAT
1 CTTAAACCATA-AT
109620161 CTTAAACCATAAT
1 CTTAAACCATAAT
109620174 CATTAAA
1 C-TTAAA
109620181 ATATAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (13 bp):
CTTAAACCATAAT
Found at i:109620397 original size:40 final size:40
Alignment explanation
Indices: 109620343--109620481 Score: 183
Period size: 40 Copynumber: 3.4 Consensus size: 40
109620333 GGGTTATGGG
109620343 GTTTTTAGCGGCGTTTTACCTAAAGCGCCGC-AATGCTCT
1 GTTTTTAGCGGCGTTTTACCTAAAGCGCCGCGAATGCTCT
* *
109620382 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCACTAATGCTCT
1 -GTTTTTAGCGGCGTTTTACCTAAAGCGCCGCGAATGCTCT
* *
109620423 GTTTTTAGCGGCGTTTTA-GTAAAAAAACGCCGCGAATGCTCT
1 GTTTTTAGCGGCGTTTTACCT---AAAGCGCCGCGAATGCTCT
*
109620465 GTTTTTACCGGCGTTTT
1 GTTTTTAGCGGCGTTTT
109620482 TTTGGAACGC
Statistics
Matches: 89, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
39 1 0.01
40 48 0.54
41 8 0.09
42 32 0.36
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.35
Consensus pattern (40 bp):
GTTTTTAGCGGCGTTTTACCTAAAGCGCCGCGAATGCTCT
Found at i:109627794 original size:35 final size:35
Alignment explanation
Indices: 109627755--109628024 Score: 278
Period size: 35 Copynumber: 7.7 Consensus size: 35
109627745 ATGGCAAAGT
* **
109627755 TATGACACGTAGGTATGGTATTGTCCATATTGAGC
1 TATGAAACGTAGGTATGGTATTGTCCATACCGAGC
* * * *
109627790 TATGACACATAGGTATGGTATTATCCATATCGAGC
1 TATGAAACGTAGGTATGGTATTGTCCATACCGAGC
*
109627825 TAT-AATACGTAGGTATGGTATT-TCTCATACCGAGT
1 TATGAA-ACGTAGGTATGGTATTGTC-CATACCGAGC
* * *
109627860 TGTGAAACGTAAGTATGGTATTGTCCATACTGAGC
1 TATGAAACGTAGGTATGGTATTGTCCATACCGAGC
* *
109627895 TATGAAACGTAGGTATGGTATTATCCAAACCGAGC
1 TATGAAACGTAGGTATGGTATTGTCCATACCGAGC
* *
109627930 TAT-AATATGTAGGTATGGTATT-TCACATACCGAGT
1 TATGAA-ACGTAGGTATGGTATTGTC-CATACCGAGC
* * **
109627965 TGTGAAACGTAGGTATCGTATTGTCCATACTAAGC
1 TATGAAACGTAGGTATGGTATTGTCCATACCGAGC
* *
109628000 GATGAAACGTAGATATGGTAGTTGT
1 TATGAAACGTAGGTATGGTA-TTGT
109628025 AACGGCCCAA
Statistics
Matches: 197, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
34 7 0.04
35 178 0.90
36 12 0.06
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (35 bp):
TATGAAACGTAGGTATGGTATTGTCCATACCGAGC
Found at i:109627916 original size:105 final size:105
Alignment explanation
Indices: 109627752--109628019 Score: 410
Period size: 105 Copynumber: 2.6 Consensus size: 105
109627742 TCCATGGCAA
* * * * *
109627752 AGTTATGACACGTAGGTATGGTATTGTCCATATTGAGCTATGACACATAGGTATGGTATTATCCA
1 AGTTGTGAAACGTAGGTATGGTATTGTCCATACTGAGCTATGAAACGTAGGTATGGTATTATCCA
* * *
109627817 TATCGAGCTATAATACGTAGGTATGGTATTTCTCATACCG
66 AACCGAGCTATAATACGTAGGTATGGTATTTCACATACCG
*
109627857 AGTTGTGAAACGTAAGTATGGTATTGTCCATACTGAGCTATGAAACGTAGGTATGGTATTATCCA
1 AGTTGTGAAACGTAGGTATGGTATTGTCCATACTGAGCTATGAAACGTAGGTATGGTATTATCCA
*
109627922 AACCGAGCTATAATATGTAGGTATGGTATTTCACATACCG
66 AACCGAGCTATAATACGTAGGTATGGTATTTCACATACCG
* * * *
109627962 AGTTGTGAAACGTAGGTATCGTATTGTCCATACTAAGCGATGAAACGTAGATATGGTA
1 AGTTGTGAAACGTAGGTATGGTATTGTCCATACTGAGCTATGAAACGTAGGTATGGTA
109628020 GTTGTAACGG
Statistics
Matches: 148, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 148 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (105 bp):
AGTTGTGAAACGTAGGTATGGTATTGTCCATACTGAGCTATGAAACGTAGGTATGGTATTATCCA
AACCGAGCTATAATACGTAGGTATGGTATTTCACATACCG
Found at i:109645726 original size:20 final size:20
Alignment explanation
Indices: 109645686--109645727 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
109645676 CTCGATTAGC
*
109645686 ATTAACATTGTTGTCAATAT
1 ATTAACATTGTTGCCAATAT
*
109645706 ATTAACATTGTTGCCAGTAT
1 ATTAACATTGTTGCCAATAT
109645726 AT
1 AT
109645728 GAGGATGGGG
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:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (20 bp):
ATTAACATTGTTGCCAATAT
Found at i:109647871 original size:46 final size:47
Alignment explanation
Indices: 109647811--109647984 Score: 228
Period size: 46 Copynumber: 3.8 Consensus size: 47
109647801 TTTGACGTGA
* * * * *
109647811 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
**
109647857 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
* *
109647903 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
* *
109647949 TGCCATGGTATCTTTCAAACATAGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
109647985 CATATCAGGT
Statistics
Matches: 114, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
45 5 0.04
46 107 0.94
47 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
Found at i:109664348 original size:27 final size:27
Alignment explanation
Indices: 109664318--109664369 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
109664308 AAATTTATTA
109664318 ATTTTTT-TCTA-ATTTAGTCTCTAAATT
1 ATTTTTTATCTATA-TTAGTC-CTAAATT
109664345 ATTTTTTATCTATATTAGTCCTAAA
1 ATTTTTTATCTATATTAGTCCTAAA
109664370 CTTGGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 12 0.52
28 10 0.43
29 1 0.04
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.56
Consensus pattern (27 bp):
ATTTTTTATCTATATTAGTCCTAAATT
Found at i:109664351 original size:28 final size:27
Alignment explanation
Indices: 109664314--109664369 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
109664304 CTTTAAATTT
*
109664314 ATTAATTTTTTTCTA-ATTTAGTCTCTAA
1 ATTAATTTTTATCTATA-TTAGTC-CTAA
*
109664342 ATTATTTTTTATCTATATTAGTCCTAA
1 ATTAATTTTTATCTATATTAGTCCTAA
109664369 A
1 A
109664370 CTTGGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 19 0.76
29 1 0.04
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (27 bp):
ATTAATTTTTATCTATATTAGTCCTAA
Found at i:109670965 original size:3 final size:3
Alignment explanation
Indices: 109670957--109670983 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
109670947 AGTACAAAAC
109670957 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
109670984 TATTGTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:109678752 original size:42 final size:42
Alignment explanation
Indices: 109678705--109678784 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
109678695 CTTAATAATT
* *
109678705 AGGGGTTAATTCAATTGATAGAGTTTACCCATGTGCTTCAAA
1 AGGGGTTAATTCAATGGATAGAGTTTACCCATGAGCTTCAAA
*
109678747 AGGGGTTAATTCAATGGATAGAGTTTATCCATGAGCTT
1 AGGGGTTAATTCAATGGATAGAGTTTACCCATGAGCTT
109678785 GAAAGCGACT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (42 bp):
AGGGGTTAATTCAATGGATAGAGTTTACCCATGAGCTTCAAA
Found at i:109679841 original size:90 final size:89
Alignment explanation
Indices: 109679712--109679895 Score: 235
Period size: 90 Copynumber: 2.1 Consensus size: 89
109679702 AATTTTTTAT
* * * * *
109679712 AAAAAAGCAATTAAGCCCCTCCTTTTTTTTTCACTCAATTA-AGTATTTGAACTTTTAAAATGCA
1 AAAAAAGCAATTAAGCCCCTCCTTTTCTTTCCACTCAATTAGA-TACTTGAACTTTCAAAATGAA
* * *
109679776 CCAAAAAGGCCCTTAAACTTCTTCA
65 CCAAAAAGACCCTCAAAATTCTTCA
*
109679801 AAAAAAGCAATTAAGCCCCTACCTTTTCTTTCCACTCAATTGGATACTTGAACTTTCAAAATGAA
1 AAAAAAGCAATTAAGCCCCT-CCTTTTCTTTCCACTCAATTAGATACTTGAACTTTCAAAATGAA
** *
109679866 TTAAAAAGACCCTCAAAATTTTTCA
65 CCAAAAAGACCCTCAAAATTCTTCA
109679891 AAAAA
1 AAAAA
109679896 GACCCTCAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
89 20 0.25
90 60 0.74
91 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.32
Consensus pattern (89 bp):
AAAAAAGCAATTAAGCCCCTCCTTTTCTTTCCACTCAATTAGATACTTGAACTTTCAAAATGAAC
CAAAAAGACCCTCAAAATTCTTCA
Found at i:109679884 original size:22 final size:22
Alignment explanation
Indices: 109679856--109679907 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
109679846 ACTTGAACTT
109679856 TCAAAATGAATT-AAAAAGACCC
1 TCAAAAT-AATTAAAAAAGACCC
**
109679878 TCAAAATTTTTCAAAAAAGACCC
1 TCAAAATAATT-AAAAAAGACCC
109679901 TCAAAAT
1 TCAAAAT
109679908 TTTTCAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 2 0.08
22 7 0.27
23 17 0.65
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (22 bp):
TCAAAATAATTAAAAAAGACCC
Found at i:109679910 original size:22 final size:23
Alignment explanation
Indices: 109679868--109679918 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
109679858 AAAATGAATT
109679868 AAAAAGACCCTCAAAATTTTTCA
1 AAAAAGACCCTCAAAATTTTTCA
109679891 AAAAAGACCCTCAAAATTTTTCA
1 AAAAAGACCCTCAAAATTTTTCA
109679914 AAAAA
1 AAAAA
109679919 TCAATAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.53, C:0.20, G:0.04, T:0.24
Consensus pattern (23 bp):
AAAAAGACCCTCAAAATTTTTCA
Found at i:109680088 original size:18 final size:17
Alignment explanation
Indices: 109680063--109680101 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
109680053 ATTTTGCAAC
109680063 TTTTTATTTTTT-TACAT
1 TTTTTATTTTTTCTA-AT
109680080 TTTTCTATTTTTTCTAAT
1 TTTT-TATTTTTTCTAAT
109680098 TTTT
1 TTTT
109680102 AATATTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 14 0.70
19 2 0.10
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTATTTTTTCTAAT
Found at i:109692239 original size:86 final size:88
Alignment explanation
Indices: 109692103--109692268 Score: 203
Period size: 86 Copynumber: 1.9 Consensus size: 88
109692093 AACATCTATT
* * *
109692103 GAAAATACCTCGGCGTATGACCTGAGGCTCCATTCACCTCTAGCAATATGAATTGATTTTTG-AA
1 GAAAATACCTCAGCG-ATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGCAA
109692167 AACA-TAAATTGAAAAACAGAAATG
65 AACAGT-AATTGAAAAACAGAAATG
* * * * * * *
109692191 GAAAATACCTCAGC-ATGTCCTGAGGCTCAACTCACCTCTCGTAGTATGAGTTGGTTTTTGCCAA
1 GAAAATACCTCAGCGATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGCAAA
109692255 ACAGTAATTGAAAA
66 ACAGTAATTGAAAA
109692269 TACCTCAGCG
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
86 38 0.58
87 14 0.21
88 14 0.21
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (88 bp):
GAAAATACCTCAGCGATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGCAAA
ACAGTAATTGAAAAACAGAAATG
Found at i:109692299 original size:73 final size:73
Alignment explanation
Indices: 109692180--109692316 Score: 193
Period size: 73 Copynumber: 1.9 Consensus size: 73
109692170 ATAAATTGAA
* * * * *
109692180 AAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGTAGTATGAGTTGG
1 AAACAGAAATGGAAAATACCTCAGCATGCCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGG
109692245 TTTTTGCC
66 TTTTTGCC
* * * *
109692253 AAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGACTCAACTCACCTCTTGCAATATGAGTTG
1 AAACAGAAATGGAAAATACCTCAGCATGCCCCGAGACTCAACTCACCTCTCGCAATATGAGTTG
109692317 ATTTAGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 55 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (73 bp):
AAACAGAAATGGAAAATACCTCAGCATGCCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGG
TTTTTGCC
Found at i:109692499 original size:74 final size:73
Alignment explanation
Indices: 109692371--109693760 Score: 1501
Period size: 74 Copynumber: 18.8 Consensus size: 73
109692361 ACGTGAGCCA
* ** * *
109692371 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTG-AAAGTAGAATTTGAAAATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTCA
* *
109692435 GCGTGCCCCG
64 GCGTGTCCTG
* * *
109692445 AGGCTCAACTCACCTCTCGCAATATAAGTTTATTTTTGAAAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAAATACCTCAG
109692510 CGTGTCCTG
65 CGTGTCCTG
109692519 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATCGAACAGGAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC----A--G---A--AATTGAA
* *
109692584 AATACCTCAACGTGTCTTG
55 AATACCTCAGCGTGTCCTG
*
109692603 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTCA
** *
109692668 ATGTGTCTTG
64 GCGTGTCCTG
** * *
109692678 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAGTAGAATTTGAAAATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTCA
*
109692742 GCGTG-CCCG
64 GCGTGTCCTG
*
109692751 A-GCTCAACTAACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAAATTA-CTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAAA-TACCTCA
109692814 GCGTGTCCTG
64 GCGTGTCCTG
*
109692824 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-A-A--AA-T--A
** * * *
109692889 AAT-ACCAATGTCTTG
59 CCTCAGC-GTGTCCTG
* *
109692904 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTTG-AAAGCAGAAATTGAAAATACCTCAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTGAAAAACAGAAATTGAAAATACCTCAG
* *
109692968 TGTGTCTTG
65 CGTGTCCTG
* *
109692977 AGGCTCAACTCACCT-TCGCAATATGAGTTGATTTTTTTG-ACAA-AGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTCA
109693039 GCGTGTCCTG
64 GCGTGTCCTG
* *
109693049 AGGCTCAACTCA-CTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTG-AAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGC
109693111 GTGTCCTG
66 GTGTCCTG
** * ** *
109693119 AGGCTC-ACTCATTTCTCGTAATATGAGTTGATTTTTTTTACAACAGAAATTG-AAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAATACCTCAG
109693182 -GTGTCCTG
65 CGTGTCCTG
* * * *
109693190 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTG-AAAACAAAAATTGAAATTACCTCAGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGC
109693253 GTGTCCTG
66 GTGTCCTG
** *
109693261 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAATTA-CTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAAATACCTCAG
109693325 CGTGT-CTG
65 CGTGTCCTG
*
109693333 AGGCTC-ACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-A-A--AA-T---
** * *
109693397 AATATCAACGTGTCTTG
58 -ACCTCAGCGTGTCCTG
*
109693414 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTCA
** *
109693479 ATGTGTCTTG
64 GCGTGTCCTG
*
109693489 AGGCTCAACTCACCTCTC-CAATATGAGTTGATTTTTTTG-ACAACAGAAATTGAAAATTACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAA-TACCTC
109693552 AGCGTGTCCTG
63 AGCGTGTCCTG
* *
109693563 AGGCTCAACTCA-CTCTAGCAATATGAGTTGA--TTTGAAAAACA-AAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGC
109693624 GTGTCCTG
66 GTGTCCTG
* * * *
109693632 AGGCTCAACTCA-TTTTCGCAATATGAGTTGATTTTTTTTTG-ACAACAGAAATTGAAATTACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAACAGAAATTGAAAATACCT
109693695 CAGCGTGTCCTG
62 CAGCGTGTCCTG
* *
109693707 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATT-AAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
109693761 GGCTTAACTC
Statistics
Matches: 1141, Mismatches: 103, Indels: 147
0.82 0.07 0.11
Matches are distributed among these distances:
69 66 0.06
70 90 0.08
71 103 0.09
72 197 0.17
73 85 0.07
74 235 0.21
75 141 0.12
76 22 0.02
77 6 0.01
78 1 0.00
79 7 0.01
80 64 0.06
81 11 0.01
82 28 0.02
83 4 0.00
84 70 0.06
85 3 0.00
86 8 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (73 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGC
GTGTCCTG
Found at i:109692804 original size:72 final size:73
Alignment explanation
Indices: 109692571--109693760 Score: 1315
Period size: 72 Copynumber: 16.2 Consensus size: 73
109692561 ACATAAATCG
* * *
109692571 AACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
109692636 TTTCTTGAAA
65 TTT-TTGAAA
* ** *
109692646 AGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
109692711 TTTTTTG-AA
65 -TTTTTGAAA
** * * * *
109692720 AGTAGAATTTGAAAATACCTCGGCGTG-CCCGA-GCTCAACTAACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
109692783 TTTTGAAAA
66 TTTTG-AAA
109692792 AACAGAAATTGAAAATTA-CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
109692856 TTTTTGAAA
65 TTTTTGAAA
* ** * * *
109692865 AACATAAATTGAACAGGAATTGAAAAT-ACCAATGTCTTGAGGCTCAACTCACCTCTCGCAATAT
1 AACAGAAATTG-A-A--AA-T--ACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
109692929 GAGTTGATTTCTTG-AA
58 GAGTTGATTT-TTGAAA
* ** *
109692945 AGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCT-TCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
109693009 TTTTTTG-AC
65 -TTTTTGAAA
* *
109693018 AA-AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-CTCTAGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
109693080 TTTTGAAA
66 TTTTGAAA
* ** *
109693088 AACAAAAATTG-AAATACCTCAGCGTGTCCTGAGGCTC-ACTCATTTCTCGTAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
** *
109693151 TTTTTTTAC
65 TTTTTGAAA
*
109693160 AACAGAAATTG-AAATACCTCAG-GTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
109693222 TTTTG-AA
66 TTTTGAAA
* * * **
109693229 AACAAAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
109693294 TTTTGAAAA
66 TTTTG-AAA
*
109693303 AACAGAAATTGAAATTA-CTCAGCGTGT-CTGAGGCTC-ACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
109693365 TTTTGAAA
66 TTTTGAAA
* ** * *
109693373 AACATAAATTGAACAGGAATTGAAAATATCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
1 AACAGAAATTG-A-A--AA-T----ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
109693438 TGAGTTGATTTTCTTGAAA
57 TGAGTTGA-TTT-TTGAAA
* ** *
109693457 AGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTC-CAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
109693521 TTTTTTG-AC
65 -TTTTTGAAA
*
109693530 AACAGAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-CTCTAGCAATATGAGTTGA
1 AACAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
109693594 --TTTGAAA
65 TTTTTGAAA
* * *
109693601 AACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-TTTTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
109693664 TTTTTTTTG-AC
65 ---TTTTTGAAA
* *
109693675 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
109693739 TTTTGAAA
66 TTTTGAAA
*
109693747 AACAAAAATT-AAAA
1 AACAGAAATTGAAAA
109693761 GGCTTAACTC
Statistics
Matches: 969, Mismatches: 89, Indels: 118
0.82 0.08 0.10
Matches are distributed among these distances:
69 66 0.07
70 90 0.09
71 103 0.11
72 191 0.20
73 79 0.08
74 143 0.15
75 145 0.15
76 22 0.02
77 4 0.00
78 1 0.00
79 6 0.01
80 63 0.07
81 11 0.01
82 26 0.03
83 4 0.00
84 15 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (73 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAA
Found at i:109693142 original size:142 final size:147
Alignment explanation
Indices: 109692371--109693742 Score: 1503
Period size: 143 Copynumber: 9.2 Consensus size: 147
109692361 ACGTGAGCCA
* ** * * *
109692371 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAG
* * * *
109692436 CGTGCCCCGAGGCTCAACTCACCTCTCGCAATATAAGTTTATTTTTGAAAAAACAGAAATTG-AA
66 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAAACAGAAATTGAAA
109692500 ATTACCTCAGCGTGTCCTG
129 ATTACCTCAGCGTGTCCTG
* * *
109692519 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATCGAACAGGAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-------TTGAA---AACAGAAATTGAA
* * *
109692584 AATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGC
56 ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAA-C
** *
109692649 AGAAATTGAAAA-TACCTCAATGTGTCTTG
118 AGAAATTGAAAATTACCTCAGCGTGTCCTG
** * * *
109692678 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAG
* *
109692743 CGTG-CCCGA-GCTCAACTAACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAA
66 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAAACAGAAATTGAAA
109692806 ATTA-CTCAGCGTGTCCTG
129 ATTACCTCAGCGTGTCCTG
*
109692824 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACATAAATTGAACAGGAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTG---A--AATT-
** * * * *
109692887 AAAAT-ACCAATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTTGAAAGCAGA
59 -ACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTGAAAACAGA
** *
109692951 AATTGAAAA-TACCTCAATGTGTCTTG
121 AATTGAAAATTACCTCAGCGTGTCCTG
*
109692977 AGGCTCAACTCACCT-TCGCAATATGAGTTGATTTTTTTGACAA-AGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAG
* *
109693040 CGTGTCCTGAGGCTCAACTCA-CTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTG-AAA
66 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAAAA
109693102 -TACCTCAGCGTGTCCTG
130 TTACCTCAGCGTGTCCTG
** * * *
109693119 AGGCTC-ACTCATTTCTCGTAATATGAGTTGATTTTTTTTACAACAGAAATTGAAA-TACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAG
* *
109693182 -GTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAACAAAAATTG-AAAT
66 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAT
*
109693244 TACCTCAGTGTGTCCTG
131 TACCTCAGCGTGTCCTG
** ***
109693261 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAATTA-CTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAG
*
109693325 CGTGT-CTGAGGCTC-ACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACA
66 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTG-A-A
** * *
109693388 GGAATTGAAAATATCAACGTGTCTTG
128 --AATT----ACCTCAGCGTGTCCTG
* *
109693414 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-CAGAAATTGAAATTACCTCA
** * *
109693479 ATGTGTCTTGAGGCTCAACTCACCTCTC-CAATATGAGTTGATTTTTTTGACAACAGAAATTGAA
65 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAA
109693543 AATTACCTCAGCGTGTCCTG
128 AATTACCTCAGCGTGTCCTG
*
109693563 AGGCTCAACTCA-CTCTAGCAATATGAGTTGA----TTTGAAAAACA-AAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTGAAATTACCTCA
* * *
109693622 GCGTGTCCTGAGGCTCAACTCA-TTTTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATTG
65 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAACAGAAATTG
109693686 -AAATTACCTCAGCGTGTCCTG
126 AAAATTACCTCAGCGTGTCCTG
*
109693707 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
109693743 GAAAAACAAA
Statistics
Matches: 1055, Mismatches: 102, Indels: 133
0.82 0.08 0.10
Matches are distributed among these distances:
141 42 0.04
142 133 0.13
143 135 0.13
144 80 0.08
145 76 0.07
146 61 0.06
147 40 0.04
148 58 0.05
149 50 0.05
150 3 0.00
151 1 0.00
152 32 0.03
153 101 0.10
154 52 0.05
155 15 0.01
156 22 0.02
157 22 0.02
158 63 0.06
159 63 0.06
160 6 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (147 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAG
CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAT
TACCTCAGCGTGTCCTG
Found at i:109693653 original size:69 final size:72
Alignment explanation
Indices: 109693384--109693756 Score: 431
Period size: 75 Copynumber: 5.1 Consensus size: 72
109693374 ACATAAATTG
* * * *
109693384 AACAGGAATTGAAAATA--TCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
109693447 TTTCTTGAAA
65 -TT-TTGAAA
* * ** *
109693457 AGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTC-CAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
109693521 TTTTTTG-AC
65 --TTTTGAAA
*
109693530 AACAGAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-CTCTAGCAATATGAGTTGA
1 AACAGAAATTG-AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
109693594 -TTTGAAA
65 TTTTGAAA
* *
109693601 AACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-TTTTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
109693664 TTTTTTTTG-AC
65 ----TTTTGAAA
*
109693675 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
109693740 TTTGAAA
66 TTTGAAA
*
109693747 AACAAAAATT
1 AACAGAAATT
109693757 AAAAGGCTTA
Statistics
Matches: 265, Mismatches: 20, Indels: 31
0.84 0.06 0.10
Matches are distributed among these distances:
69 49 0.18
70 10 0.04
71 10 0.04
72 10 0.04
73 30 0.11
74 63 0.24
75 77 0.29
76 16 0.06
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTGAAA
Found at i:109706682 original size:82 final size:83
Alignment explanation
Indices: 109706538--109706690 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 83
109706528 CAATTTCTGC
* *
109706538 TTTCAAGAATCAAACTCATATTGCGAGAGGGAGTTGAGCCTCAAGACACGTGAAGGTTTTCAATT
1 TTTCAAAAATCAAACTCATATTGCGAGAGGGAGTTGAGCCTCAAGACACGTGAAGGTATTCAATT
109706603 CCTGTTCAATTTATGTTT
66 CCTGTTCAATTTATGTTT
*
109706621 TTTCAAAAATC-AACTCATATTGCGAGAGTGAGTTGAGCCTCAAG-CACGCTG-AGGTAATTCAA
1 TTTCAAAAATCAAACTCATATTGCGAGAGGGAGTTGAGCCTCAAGACACG-TGAAGGT-ATTCAA
*
109706683 TTTCTGTT
64 TTCCTGTT
109706691 TTCAAAAATC
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
81 8 0.12
82 46 0.72
83 10 0.16
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (83 bp):
TTTCAAAAATCAAACTCATATTGCGAGAGGGAGTTGAGCCTCAAGACACGTGAAGGTATTCAATT
CCTGTTCAATTTATGTTT
Found at i:109706874 original size:73 final size:70
Alignment explanation
Indices: 109706325--109707626 Score: 650
Period size: 73 Copynumber: 17.5 Consensus size: 70
109706315 TTGTCAAAAA
* *
109706325 AAAAAATCAACTCATATTGCGAAAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTT
109706390 -TGTTT
65 CTGTTT
*** * *
109706395 TTCAAATCAACTCATATTGCTAG-GGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTT
109706459 CTGTTGT
65 CTGTT-T
* * **
109706466 CAAAAAAATCAACTCATATTGGCGGAGAGGTGAGTTGAG-CTCAAGACACATTGAGGTATTTTCA
1 --AAAAAATCAACTCATATT-GC-GAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTCA
109706530 ATTTCTGCTTT
61 ATTTCTG-TTT
* * * *
109706541 CAAGAATCAAACTCATATTGCGAG-AGGGAGTTGAGCCTCAAGACACG-TGAAGGT-TTTCAATT
1 AAAAAATC-AACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTG-AGGTATTTCAATT
* *
109706603 CCTGTTC
64 TCTGTTT
*** * * * * * * * * *
109706610 AATTTATGTTTTTTCAAAAATCA-ACT-C-ATATTGCGAGAGTGAG-TTGAGCCTCAAGCACGCT
1 AA---A----AAATC--AACTCATATTGCGAGA-AGTGAG-TTGAGCCTCAG----GA-CACGCT
*
109706671 GAGGTAATTCAATTTCTGTTTT
50 GAGGTATTTCAATTTCTG-TTT
* * * *
109706693 CAAAAATCAACTAATATT-CGAGAAATGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAATT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGT-A-TTTCAATT
*
109706757 TTTGTTT
64 TCTGTTT
** * *
109706764 -TCAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACTGCTGAGGTATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACAC-GCTGAGGTATTTCAATTT
109706828 CTGTTGT
65 CTGTT-T
* * * *
109706835 AAAAAAATCAACTCATATTACGAGAAATAAG-TGAGGCCTCAGGACACGCTGAGGTAATTCAATT
1 -AAAAAATCAACTCATATTGCGAGAAGTGAGTTGA-GCCTCAGGACACGCTGAGGTATTTCAATT
*
109706899 TTTGTTT
64 TCTGTTT
*** * *
109706906 TTCAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTT
109706971 CTGTTGT
65 CTGTT-T
* **
109706978 CAAAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAAT
1 --AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTCAAT
109707042 TTCTGCTTTT
63 TTCTG--TTT
* * * * *
109707052 CAAGAAATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCAAGACAC-TTGA-GTATTTCAATTC
1 -AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTT
*
109707114 CTGTTC
65 CTGTTT
*** * *
109707120 AATTTATGTTTTTCAAAAATCAACTCATATGCGAGAGGTGAGTTGAGCCTCAGGACA-GCTGAGT
1 AA---A---AAATC--AACTC-A-T-AT-TGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAG-
109707184 GTAATTTCAATTTCTGTTTTTT
53 GT-ATTTCAATTTCTG---TTT
* * * * * *
109707206 CAAAAATCAACTCATATTGCGAG--GTTAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTCAATTT
*
109707269 CTACTTT
65 CT-GTTT
* * * ** *
109707276 CAAAAAATCAACTCATATTGCGAGAGGTGTGTT-AGCCTCGAGAACACATTGAGGTTTTTCAATT
1 -AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTCAATT
109707340 TCTGCTTTT
64 TCTG--TTT
* *
109707349 CAAGAAAATCAACTCA-ATT-CGAG-AGTTGAGTGTGAGACGCATCAAGACACGTTG-GAGTCAT
1 -AA-AAAATCAACTCATATTGCGAGAAG-TGAGT-TGAG-C-C-TCAGGACACGCTGAG-GT-A-
*
109707410 CGTCATTCAATATCTGTTGATTTAGTTT
56 --T--TTC-A-A----TT--TCT-GTTT
109707438 ATTAAAAATCAACTCATATT-CGAGATGGGAGGTGAGTTGAGCCTCAGGAC-CTGCTGAGGTAAT
1 A--AAAAATCAACTCATATTGCGAGA----A-GTGAGTTGAGCCTCAGGACAC-GCTGAGGT-AT
109707501 TTCAATTTCTGTTTTT
57 TTCAATTTCTG--TTT
** * * * * *
109707517 TCAAAATAAACTTATATTGCGAG-AGGGAGTTGAGCCTC-GGGCACGCCGAGGTTATTTTCAATT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGG-TA-TTTCAATT
* *
109707580 TCTACTTCA
64 TCT-GTT-T
109707589 AAAACAATC-ACTCATATTTGCGA-AAGTGAGTTGAGCCT
1 AAAA-AATCAACTCATA-TTGCGAGAAGTGAGTTGAGCCT
109707627 TGCTCACGTT
Statistics
Matches: 954, Mismatches: 153, Indels: 247
0.70 0.11 0.18
Matches are distributed among these distances:
67 2 0.00
68 2 0.00
69 42 0.04
70 126 0.13
71 99 0.10
72 158 0.17
73 185 0.19
74 62 0.06
75 50 0.05
76 40 0.04
77 29 0.03
78 11 0.01
79 3 0.00
80 37 0.04
81 8 0.01
82 17 0.02
83 17 0.02
84 2 0.00
85 1 0.00
86 6 0.01
88 4 0.00
89 15 0.02
90 11 0.01
91 13 0.01
92 2 0.00
93 1 0.00
94 4 0.00
95 6 0.01
96 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (70 bp):
AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTC
TGTTT
Found at i:109706929 original size:143 final size:143
Alignment explanation
Indices: 109706327--109707626 Score: 951
Period size: 143 Copynumber: 8.7 Consensus size: 143
109706317 GTCAAAAAAA
* **
109706327 AAAATCAACTCATATTGCGAAAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTCT
*** * ** *
109706391 GTTT-TTCAAATCAACTCATATTGCTAG-GGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
65 GTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACACTGAGGTAATTTC
*
109706454 AATTTCTG-TTGTC
130 AATTTCTGTTTTTC
* **
109706467 AAAAAAATCAACTCATATTGGCGGAGAGGTGAGTTGAG-CTCAAGACACATTGAGGTATTTTCAA
1 ---AAAATCAACTCATATT-GC-GAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTCAA
* * ** * *
109706531 TTTCTGCTTT-CAAGAATCAAACTCATATTGCGAG-AGGGAGTTGAGCCTCAAGACAC-GTGAAG
60 TTTCTG-TTTAAAAAAATC-AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACACTG-AG
*
109706593 GTTTTCAATTCCTGTTCAATTTATGTTTTTTC
122 G---T-AA----T-TTCAATTTCTG-TTTTTC
* *
109706625 AAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAAG-CACGCTGAGGTAATTCAATTTCT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCT
** *
109706688 GTTTTCAAAAATCAACTAATATT-CGAGAAATGAGTTGAGCCTCAGGACACACTGAGGTAATTTT
65 GTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACACTGAGGTAA-TTT
*
109706752 CAATTTTTG-TTTTC
129 CAATTTCTGTTTTTC
*
109706766 -AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACTGCTGAGGTATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC-GCTGAGGTATTTCAATTTCT
* * *
109706830 GTTGTAAAAAAATCAACTCATATTACGAGAAATAAG-TGAGGCCTCAGGACACGCTGAGGTAA-T
65 GTT-TAAAAAAATCAACTCATATTGCGAGAAATGAGTTGA-GCCTCAGGACACACTGAGGTAATT
*
109706893 TCAATTTTTGTTTTTC
128 TCAATTTCTGTTTTTC
*
109706909 -AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTCT
* * * *
109706973 GTTGTCAAAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTCAAGACACATTGAGGTATTT
65 GTT-T-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACACTGAGGTAATT
*
109707037 TCAATTTCTGCTTTTC
128 TCAATTTCTGTTTTTC
* *
109707053 AAGAAATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCAAGACAC-TTGA-GTATTTCAATTCC
1 -A-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAA----
** ** *
109707115 TGTTCAATTTATGTTTTTCAAAAATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCAGGACA-G
60 T-TTC------TG-TTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACA
109707178 CTGAGTGTAATTTCAATTTCTGTTTTTTC
117 CTGAG-GTAATTTCAATTTCTG-TTTTTC
* * * * *
109707207 AAAAATCAACTCATATTGC--GAGGTTAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTC
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTCAATTTC
* * ** * * * *
109707270 TACTTTCAAAAAATCAACTCATATTGCGAGAGGTGTGTT-AGCCTCGAGAACACATTGAGGT-TT
64 T-GTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AGGACACACTGAGGTAAT
*
109707333 TTCAATTTCTGCTTTTC
127 TTCAATTTCTGTTTTTC
* * *
109707350 AAGAAAATCAACTCA-ATT-CGAGAGTTGAGTGTGAGACGCATCAAGACACGTTG-GAGTCATCG
1 ---AAAATCAACTCATATTGCGAGAGGTGAGT-TGAG-C-C-TCAGGACACGCTGAG-GT-A---
* *
109707412 TCATTCAATATCTGTTGATTTAGTTTATTAAAAATCAACTCATATT-CGAGATGGGAGGTGAGTT
54 T--TTCAAT-T-T-CTG-TTTA----A--AAAAATCAACTCATATTGCGAGA----A-ATGAGTT
*
109707476 GAGCCTCAGGAC-CTGCTGAGGTAATTTCAATTTCTGTTTTTTC
102 GAGCCTCAGGACAC-ACTGAGGTAATTTCAATTTCTG-TTTTTC
* * * *
109707519 AAAATAAACTTATATTGCGAGAGG-GAGTTGAGCCTC-GGGCACGCCGAGGTTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG-TA-TTTCAATTTC
* * *
109707582 TACTTCAAAAACAATC-ACTCATATTTGCGA-AAGTGAGTTGAGCCT
64 T-GTTTAAAAA-AATCAACTCATA-TTGCGAGAAATGAGTTGAGCCT
109707627 TGCTCACGTT
Statistics
Matches: 954, Mismatches: 103, Indels: 198
0.76 0.08 0.16
Matches are distributed among these distances:
139 20 0.02
140 16 0.02
141 8 0.01
142 41 0.04
143 147 0.15
144 141 0.15
145 70 0.07
146 45 0.05
147 53 0.06
148 6 0.01
149 20 0.02
150 16 0.02
151 40 0.04
152 51 0.05
153 84 0.09
154 31 0.03
155 16 0.02
156 29 0.03
157 5 0.01
158 10 0.01
160 1 0.00
161 1 0.00
162 13 0.01
163 21 0.02
164 1 0.00
165 1 0.00
166 15 0.02
167 23 0.02
168 24 0.03
169 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (143 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCTG
TTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACACTGAGGTAATTTCA
ATTTCTGTTTTTC
Found at i:109707085 original size:511 final size:511
Alignment explanation
Indices: 109706289--109707372 Score: 1564
Period size: 511 Copynumber: 2.1 Consensus size: 511
109706279 GTGAGTGGCC
*
109706289 GACAC-GCTGA-GTAATTTCAATTTCTGTTGTCAAAAAAAAAAATCAACTCATATTGCGAAAAAT
1 GACACTGCTGAGGT-ATTTCAATTTCTGTTGT----AAAAAAAATCAACTCATATT-CGAGAAAT
*
109706352 GAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTGTTTTTCAAATCAACTCATATTGCTA
60 AAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTGTTTTTCAAATCAACTCATATTGCTA
109706417 GGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCA
125 GGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCA
109706482 TATTGGCGGAGAGGTGAGTTGAGCTCAAGACACATTGAGGTATTTTCAATTTCTGCTTTCAAGAA
190 TATTGGCGGAGAGGTGAGTTGAGCTCAAGACACATTGAGGTATTTTCAATTTCTGCTTTCAAGAA
109706547 TCAAACTCATATTGCGAGAGGGAGTTGAGCCTCAAGACACGTGAAGGT-TTTCAATTCCTGTTCA
255 TCAAACTCATATTGCGAGAGGGAGTTGAGCCTCAAGACACGTG-A-GTATTTCAATTCCTGTTCA
109706611 ATTTATGTTTTTTCAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAAGCAC-GCTGAG
318 ATTTATG-TTTTTCAAAAATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTC-AGCACAGCTGAG
109706674 -GTAA-TTCAATTTCTG-TTTTCAAAAATCAACTAATATT-CGAGAAATGAGTTGAGCCTCAGGA
380 TGTAATTTCAATTTCTGTTTTTCAAAAATCAACTAATATTGCGAG--ATGAGTTGAGCCTCAGGA
* * * ** *
109706735 CACACTGAGGTAATTTTCAATTTTTGTTTTC-AAATCAACTCATATTGCTAGAGGTGAGTTGAGC
443 CACACCGAGGT-ATTTTCAAATTCTACTTTCAAAATCAACTCATATTGCGAGAGGTGAGTT-AGC
109706799 CTC-AG
506 CTCGAG
109706804 GACACTGCTGAGGTATTTCAATTTCTGTTGT-AAAAAAATCAACTCATATTACGAGAAATAAG-T
1 GACACTGCTGAGGTATTTCAATTTCTGTTGTAAAAAAAATCAACTCATATT-CGAGAAATAAGTT
109706867 GAGGCCTCAGGACACGCTGAGGTAA-TTCAATTTTTGTTTTTCAAATCAACTCATATTGCTAGAG
65 GA-GCCTCAGGACACGCTGAGGTAATTTCAA-TTTTGTTTTTCAAATCAACTCATATTGCTAG-G
109706931 GTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATA
127 GTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATA
109706996 TT-GC-GAGA-GTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGCTTTTCAAGAA
192 TTGGCGGAGAGGTGAGTTGAG-CTCAAGACACATTGAGGTATTTTCAATTTCTGC-TTTCAAG-A
*
109707058 ATC-AACTCATA-TGCGAGAGGTGAGTTGAGCCTCAAGACACTTGAGTATTTCAATTCCTGTTCA
254 ATCAAACTCATATTGCGAGAGG-GAGTTGAGCCTCAAGACACGTGAGTATTTCAATTCCTGTTCA
*
109707121 ATTTATGTTTTTCAAAAATCAACTCATATGCGAGAGGTGAGTTGAGCCTCAGGACAGCTGAGTGT
318 ATTTATGTTTTTCAAAAATCAACTCATATGCGAGAGGTGAGTTGAGCCTCAGCACAGCTGAGTGT
* * * * * *
109707186 AATTTCAATTTCTGTTTTTTCAAAAATCAACTCATATTGCGAGGTTAGTTGAGCCTCGGGGCACG
383 AATTTCAATTTCTG-TTTTTCAAAAATCAACTAATATTGCGAGATGAGTTGAGCCTCAGGACACA
*
109707251 CCGAGGTATTTTCAAATTCTACTTTCAAAAAATCAACTCATATTGCGAGAGGTGTGTTAGCCTCG
447 CCGAGGTATTTTCAAATTCTACTTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTAGCCTCG
109707316 AG
510 AG
* * * * *
109707318 AACACAT--TGAGGTTTTTCAATTTCTGCTTTTCAAGAAAATCAACTCA-ATTCGAGA
1 GACAC-TGCTGAGGTATTTCAATTTCTG-TTGTAAAAAAAATCAACTCATATTCGAGA
109707373 GTTGAGTGTG
Statistics
Matches: 523, Mismatches: 22, Indels: 50
0.88 0.04 0.08
Matches are distributed among these distances:
508 11 0.02
509 53 0.10
510 82 0.16
511 145 0.28
512 95 0.18
513 50 0.10
514 43 0.08
515 20 0.04
516 22 0.04
517 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (511 bp):
GACACTGCTGAGGTATTTCAATTTCTGTTGTAAAAAAAATCAACTCATATTCGAGAAATAAGTTG
AGCCTCAGGACACGCTGAGGTAATTTCAATTTTGTTTTTCAAATCAACTCATATTGCTAGGGTGA
GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGG
CGGAGAGGTGAGTTGAGCTCAAGACACATTGAGGTATTTTCAATTTCTGCTTTCAAGAATCAAAC
TCATATTGCGAGAGGGAGTTGAGCCTCAAGACACGTGAGTATTTCAATTCCTGTTCAATTTATGT
TTTTCAAAAATCAACTCATATGCGAGAGGTGAGTTGAGCCTCAGCACAGCTGAGTGTAATTTCAA
TTTCTGTTTTTCAAAAATCAACTAATATTGCGAGATGAGTTGAGCCTCAGGACACACCGAGGTAT
TTTCAAATTCTACTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAGCCTCGAG
Found at i:109707372 original size:72 final size:71
Alignment explanation
Indices: 109707117--109707373 Score: 249
Period size: 72 Copynumber: 3.6 Consensus size: 71
109707107 TCAATTCCTG
* * * *
109707117 TTCAATTTATGTTTTTCAAAAATCAACTCATATGCGAGAGGTGAGTTGAGCCTC-AGGACAGCTG
1 TTCAATTTCTGCTTTTCAAAAATCAACTCATATTCGAGAGGTGTGTTGAGCCTCGAGGACA-CTG
*
109707181 AGTGTAAT
65 AG-GTATT
* * * *
109707189 TTCAATTTCTGTTTTTTCAAAAATCAACTCATATT-GCGAGGT-TAGTTGAGCCTCGGGGCACGC
1 TTCAATTTCTG-CTTTTCAAAAATCAACTCATATTCGAGAGGTGT-GTTGAGCCTCGAGG-ACAC
*
109707252 CGAGGTATT
63 TGAGGTATT
* * *
109707261 TTCAAATTCTAC-TTTCAAAAAATCAACTCATATTGCGAGAGGTGTGTT-AGCCTCGAGAACACA
1 TTCAATTTCTGCTTTTC-AAAAATCAACTCATATT-CGAGAGGTGTGTTGAGCCTCGAGGACAC-
109707324 TTGAGGT-TT
63 -TGAGGTATT
109707333 TTCAATTTCTGCTTTTCAAGAAAATCAACTCA-ATTCGAGAG
1 TTCAATTTCTGCTTTTC-A-AAAATCAACTCATATTCGAGAG
109707374 TTGAGTGTGA
Statistics
Matches: 155, Mismatches: 18, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
70 4 0.03
71 20 0.13
72 65 0.42
73 51 0.33
74 15 0.10
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (71 bp):
TTCAATTTCTGCTTTTCAAAAATCAACTCATATTCGAGAGGTGTGTTGAGCCTCGAGGACACTGA
GGTATT
Found at i:109710024 original size:1 final size:1
Alignment explanation
Indices: 109710018--109710075 Score: 116
Period size: 1 Copynumber: 58.0 Consensus size: 1
109710008 ATTTGCCCGT
109710018 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
109710076 TTCATTCAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:109725582 original size:21 final size:20
Alignment explanation
Indices: 109725556--109725628 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
109725546 ACATATATGT
109725556 ATAATAATGATGAAAATAATA
1 ATAATAAT-ATGAAAATAATA
109725577 ATAATAATAGTGAAAATAAATA
1 ATAATAATA-TGAAAAT-AATA
109725599 AT-ATAATAAT-AAATATAATA
1 ATAATAAT-ATGAAA-ATAATA
* *
109725619 GTAACAATAT
1 ATAATAATAT
109725629 TAGTAATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
20 11 0.24
21 27 0.60
22 7 0.16
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAATAATATGAAAATAATA
Found at i:109725600 original size:16 final size:15
Alignment explanation
Indices: 109725571--109725613 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
109725561 AATGATGAAA
109725571 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
109725585 AGTGAA-AATAAATAAT
1 A-T-AATAATAAATAAT
109725601 ATAATAATAAATA
1 ATAATAATAAATA
109725614 TAATAGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:109726866 original size:13 final size:13
Alignment explanation
Indices: 109726848--109726872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109726838 ACTACAGCAA
109726848 TAATATATATTTT
1 TAATATATATTTT
109726861 TAATATATATTT
1 TAATATATATTT
109726873 AATATGTATC
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAATATATATTTT
Found at i:109732515 original size:5 final size:5
Alignment explanation
Indices: 109732504--109732538 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
109732494 AAATATGTGT
*
109732504 TTTTCA TTTCA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
109732539 CACATATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 24 0.89
6 3 0.11
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:109732532 original size:15 final size:16
Alignment explanation
Indices: 109732504--109732540 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
109732494 AAATATGTGT
109732504 TTTTCATTTCATTTTA
1 TTTTCATTTCATTTTA
*
109732520 TTTT-ATTTTATTTTA
1 TTTTCATTTCATTTTA
109732535 TTTTCA
1 TTTTCA
109732541 CATATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTCATTTCATTTTA
Found at i:109736353 original size:3 final size:3
Alignment explanation
Indices: 109736347--109736374 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
109736337 AATATTAATG
109736347 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
109736375 GAATTTAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:109736560 original size:22 final size:21
Alignment explanation
Indices: 109736521--109736565 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
109736511 TTATAAAAAT
*
109736521 TATTTTATATTGATATTTTATA
1 TATTTTATATTGA-AATTTATA
109736543 TATTTTATAATT-AAATTTATA
1 TATTTTAT-ATTGAAATTTATA
109736564 TA
1 TA
109736566 AAAATATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 9 0.43
23 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTTATATTGAAATTTATA
Found at i:109750802 original size:22 final size:22
Alignment explanation
Indices: 109750772--109750823 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
109750762 AATAATATAG
* *
109750772 AAAAGCACTTACAACTTGAAAT
1 AAAAACACTTACAAATTGAAAT
109750794 AAAAACACTTACAAATTGAAAT
1 AAAAACACTTACAAATTGAAAT
109750816 AAAAACAC
1 AAAAACAC
109750824 ATCCATATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.58, C:0.17, G:0.06, T:0.19
Consensus pattern (22 bp):
AAAAACACTTACAAATTGAAAT
Found at i:109755413 original size:24 final size:24
Alignment explanation
Indices: 109755381--109755426 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
109755371 ATTACAAAAG
* *
109755381 ATAAAAGAAGGTTTTTTTTTTTTT
1 ATAAAAGAAGGGTTTTTCTTTTTT
109755405 ATAAAAGAAGGGTTTTTCTTTT
1 ATAAAAGAAGGGTTTTTCTTTT
109755427 CCCTTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.52
Consensus pattern (24 bp):
ATAAAAGAAGGGTTTTTCTTTTTT
Found at i:109759702 original size:92 final size:89
Alignment explanation
Indices: 109759606--109759830 Score: 283
Period size: 91 Copynumber: 2.5 Consensus size: 89
109759596 TTAAAGGTGT
* * * *
109759606 AAAAAGCCCTCAAATTTTTCAAAAAAAAAAGCAATTAAGCCCCTCCTTTTTTTTTATACTCAATT
1 AAAAAACCCTCAAATTTTTC--AAAAAAAAGCAATTAAGCCCCTACTTTTGTTTT-CACTCAATT
109759671 GAGCACTTGAACTTTCAAAATACATAAA
63 GAGCACTTGAACTTTCAAAATACAT-AA
* *
109759699 AAAAAATCCCTCAAACTTCTT-AAAAAAAAGCAATTAAACCCCTACTTTTGTTTTCACTCAATTG
1 AAAAAA-CCCTCAAA-TTTTTCAAAAAAAAGCAATTAAGCCCCTACTTTTGTTTTCACTCAATTG
* * * *
109759763 AGTATTTGAACTTTCAAAATGCATCA
64 AGCACTTGAACTTTCAAAATACATAA
109759789 AAAAAACCCTCAAAATTTTTC-AAAAAAAGCAATTAAGCCCCT
1 AAAAAACCCTC-AAATTTTTCAAAAAAAAGCAATTAAGCCCCT
109759831 GATCTTATTA
Statistics
Matches: 116, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
89 29 0.25
90 10 0.09
91 30 0.26
92 30 0.26
93 5 0.04
94 8 0.07
95 4 0.03
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (89 bp):
AAAAAACCCTCAAATTTTTCAAAAAAAAGCAATTAAGCCCCTACTTTTGTTTTCACTCAATTGAG
CACTTGAACTTTCAAAATACATAA
Found at i:109759775 original size:91 final size:90
Alignment explanation
Indices: 109759628--109759830 Score: 282
Period size: 89 Copynumber: 2.2 Consensus size: 90
109759618 AATTTTTCAA
* * *
109759628 AAAAAAAAGCAATTAAGCCCCTCCTTTTTTTTTATACTCAATTGAGCACTTGAACTTTCAAAATA
1 AAAAAAAAGCAATTAAGCCCCTACTTTTGTTTTACACTCAATTGAGCACTTGAACTTTCAAAATA
*
109759693 CATAAAAAAAAATCCCTCAAACTTCTT
66 CAT-AAAAAAAA-CCCTCAAAATTCTT
* * * *
109759720 AAAAAAAAGCAATTAAACCCCTACTTTTGTTTT-CACTCAATTGAGTATTTGAACTTTCAAAATG
1 AAAAAAAAGCAATTAAGCCCCTACTTTTGTTTTACACTCAATTGAGCACTTGAACTTTCAAAATA
* *
109759784 CATCAAAAAAACCCTCAAAATTTTT
66 CATAAAAAAAACCCTCAAAATTCTT
*
109759809 CAAAAAAAGCAATTAAGCCCCT
1 AAAAAAAAGCAATTAAGCCCCT
109759831 GATCTTATTA
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
89 32 0.32
90 7 0.07
91 30 0.30
92 30 0.30
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.30
Consensus pattern (90 bp):
AAAAAAAAGCAATTAAGCCCCTACTTTTGTTTTACACTCAATTGAGCACTTGAACTTTCAAAATA
CATAAAAAAAACCCTCAAAATTCTT
Found at i:109759910 original size:19 final size:19
Alignment explanation
Indices: 109759849--109759912 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 19
109759839 TAAAAATTAG
*
109759849 AAAAAAATATAAT--AAAT
1 AAAAAATTATAATAAAAAT
* *
109759866 AATAAATT-TTATAAAAATT
1 AAAAAATTATAATAAAAA-T
**
109759885 ATTAAATTATAATAAAAAT
1 AAAAAATTATAATAAAAAT
109759904 AAAAAATTA
1 AAAAAATTA
109759913 AAATTTATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
16 3 0.08
17 6 0.17
18 3 0.08
19 16 0.44
20 8 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAATTATAATAAAAAT
Found at i:109760193 original size:10 final size:9
Alignment explanation
Indices: 109760178--109760250 Score: 56
Period size: 9 Copynumber: 7.7 Consensus size: 9
109760168 TTATTACGAC
109760178 TTTATAAAAT
1 TTTAT-AAAT
109760188 TTTATAAAT
1 TTTATAAAT
* *
109760197 TTTTTATAT
1 TTTATAAAT
*
109760206 TTCTATATAT
1 TT-TATAAAT
109760216 TTTATAAAT
1 TTTATAAAT
***
109760225 CTTTATGTTT
1 -TTTATAAAT
109760235 TTTATAAAAT
1 TTTAT-AAAT
109760245 TTTATA
1 TTTATA
109760251 GTTTTACAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
9 25 0.50
10 25 0.50
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (9 bp):
TTTATAAAT
Found at i:109760237 original size:19 final size:20
Alignment explanation
Indices: 109760215--109760255 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
109760205 TTTCTATATA
109760215 TTTTAT-AAATCTTTAT-GTT
1 TTTTATAAAAT-TTTATAGTT
109760234 TTTTATAAAATTTTATAGTT
1 TTTTATAAAATTTTATAGTT
109760254 TT
1 TT
109760256 ACAATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTATAAAATTTTATAGTT
Found at i:109760240 original size:28 final size:29
Alignment explanation
Indices: 109760180--109760250 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
109760170 ATTACGACTT
*
109760180 TATAAAATTTTATAAATTTTTTATATTTC
1 TATAAAATTTTATAAATTCTTTATATTTC
* * *
109760209 TAT-ATATTTTATAAA-TCTTTATGTTTTT
1 TATAAAATTTTATAAATTCTTTAT-ATTTC
109760237 TATAAAATTTTATA
1 TATAAAATTTTATA
109760251 GTTTTACAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 6 0.17
28 17 0.49
29 12 0.34
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (29 bp):
TATAAAATTTTATAAATTCTTTATATTTC
Found at i:109761500 original size:42 final size:42
Alignment explanation
Indices: 109761449--109761822 Score: 439
Period size: 42 Copynumber: 8.9 Consensus size: 42
109761439 GTTTACAAAC
* *
109761449 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
109761491 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
109761533 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
109761575 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * * *
109761617 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
109761659 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-ATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* * * ****
109761701 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAGAA
** * * * ****
109761744 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
109761785 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
109761823 TTATACAAAA
Statistics
Matches: 293, Mismatches: 33, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
41 39 0.13
42 220 0.75
43 34 0.12
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:109761914 original size:14 final size:14
Alignment explanation
Indices: 109761891--109761924 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
109761881 GCCCTCCTGT
*
109761891 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
109761905 AGCAACATTTCAAA
1 AGCAACATTTCAAA
109761919 AGCAAC
1 AGCAAC
109761925 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:109762216 original size:21 final size:21
Alignment explanation
Indices: 109762148--109762218 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
109762138 TTTTGCTCTG
* *
109762148 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
109762169 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
109762190 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
109762211 CTCTGCTT
1 CTCTGCTT
109762219 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:109767692 original size:18 final size:18
Alignment explanation
Indices: 109767669--109767833 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
109767659 AATTGCAATG
109767669 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
109767687 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
109767705 GTAAGTTAAATGTAAG-T-T
1 GTAAGTT--ATGTAAGTTAT
*
109767723 GTAAGTTAT-TATGTATTAT
1 GTAAGTTATGTAAG--TTAT
109767742 GTAAG-T-TGTAAGTTAAAT
1 GTAAGTTATGTAAGTT--AT
*
109767760 GT-A-TTGTGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
109767774 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
109767792 GTAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
109767808 -TATGTATTATGTAAG-T-T
1 GTAAG--TTATGTAAGTTAT
109767825 GTAAGTTAT
1 GTAAGTTAT
109767834 TATGTATTGT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 14 0.12
17 8 0.07
18 61 0.53
19 15 0.13
20 4 0.03
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:109767717 original size:11 final size:9
Alignment explanation
Indices: 109767669--109767833 Score: 69
Period size: 7 Copynumber: 19.0 Consensus size: 9
109767659 AATTGCAATG
109767669 GTAAGTTAT
1 GTAAGTTAT
109767678 GTAAGTTAT
1 GTAAGTTAT
109767687 GTAAGTTAAAT
1 GTAAGTT--AT
109767698 GT-A-TTAT
1 GTAAGTTAT
109767705 GTAAGTTAAAT
1 GTAAGTT--AT
109767716 GTAAG-T-T
1 GTAAGTTAT
109767723 GTAAGTTAT
1 GTAAGTTAT
*
109767732 -TATGTATTAT
1 GTAAG--TTAT
109767742 GTAAG-T-T
1 GTAAGTTAT
109767749 GTAAGTTAAAT
1 GTAAGTT--AT
*
109767760 GT-A-TTGT
1 GTAAGTTAT
109767767 GTAAG-T-T
1 GTAAGTTAT
109767774 GTAAGTTAAAT
1 GTAAGTT--AT
109767785 GT-A-TTAT
1 GTAAGTTAT
109767792 GTAAG-T-T
1 GTAAGTTAT
109767799 GTAAGTTAT
1 GTAAGTTAT
*
109767808 -TATGTATTAT
1 GTAAG--TTAT
109767818 GTAAG-T-T
1 GTAAGTTAT
109767825 GTAAGTTAT
1 GTAAGTTAT
109767834 TATGTATTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 60
0.65 0.03 0.32
Matches are distributed among these distances:
7 41 0.34
8 18 0.15
9 27 0.22
10 12 0.10
11 23 0.19
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:109767744 original size:19 final size:19
Alignment explanation
Indices: 109767683--109767979 Score: 78
Period size: 19 Copynumber: 15.6 Consensus size: 19
109767673 GTTATGTAAG
*
109767683 TTATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
*
109767701 TTATGTAAGTTA-AATGTAA
1 TTATGTAAGTTATTATGT-A
*
109767720 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
109767738 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
*
109767763 TTGTGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* *
109767788 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
109767804 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
109767822 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
109767840 TTGTGTAAGTTGCAAGTTAAATGTA
1 TTATGTAAGTT---A-TT--ATGTA
* *
109767865 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
109767881 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
109767899 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
* * *
109767917 TTGTGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
109767933 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
109767951 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
109767969 TTGTGTAAGTT
1 TTATGTAAGTT
109767980 GTAAGTTAAA
Statistics
Matches: 212, Mismatches: 31, Indels: 71
0.68 0.10 0.23
Matches are distributed among these distances:
14 3 0.01
15 18 0.08
16 11 0.05
17 3 0.01
18 53 0.25
19 60 0.28
20 3 0.01
21 1 0.00
22 2 0.01
23 5 0.02
24 1 0.00
25 52 0.25
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (19 bp):
TTATGTAAGTTATTATGTA
Found at i:109767748 original size:26 final size:26
Alignment explanation
Indices: 109767714--109768095 Score: 531
Period size: 26 Copynumber: 15.2 Consensus size: 26
109767704 TGTAAGTTAA
109767714 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
109767740 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
109767765 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
109767790 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
109767816 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * *
109767842 GTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
109767867 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
109767893 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
109767919 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
109767945 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
109767971 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
109767996 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
109768014 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
109768039 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
109768065 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
109768092 ATGT
1 ATGT
109768096 CGACAAGATT
Statistics
Matches: 323, Mismatches: 21, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
18 12 0.04
19 1 0.00
21 3 0.01
22 3 0.01
24 1 0.00
25 104 0.32
26 179 0.55
27 11 0.03
28 9 0.03
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Done.