Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 30 of 318
Found at i:11082239 original size:21 final size:23
Alignment explanation
Indices: 11082196--11082242 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11082186 ATCAAGGCTC
* *
11082196 CACACGCTTGTGTAGGTATAGAA
1 CACACGCTTGGGTAGCTATAGAA
11082219 CACACGCTTGGGT-GCTA-AGAA
1 CACACGCTTGGGTAGCTATAGAA
11082240 CAC
1 CAC
11082243 GCCCGTGTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 3 0.14
23 12 0.55
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (23 bp):
CACACGCTTGGGTAGCTATAGAA
Found at i:11093697 original size:16 final size:15
Alignment explanation
Indices: 11093678--11093728 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 15
11093668 TGTGAATAAT
11093678 AAATATATAAAATATA
1 AAATAT-TAAAATATA
11093694 AAATATTAAAATATCA
1 AAATATTAAAATAT-A
*
11093710 AAATATTAGAATAATA
1 AAATATTAAAAT-ATA
11093726 AAA
1 AAA
11093729 AAATGTACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 8 0.25
16 22 0.69
17 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
AAATATTAAAATATA
Found at i:11093703 original size:8 final size:8
Alignment explanation
Indices: 11093678--11093728 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
11093668 TGTGAATAAT
11093678 AAATATATA
1 AAATAT-TA
11093687 AAATA-TA
1 AAATATTA
11093694 AAATATTA
1 AAATATTA
*
11093702 AAATATCA
1 AAATATTA
11093710 AAATATTA
1 AAATATTA
* *
11093718 GAATAATA
1 AAATATTA
11093726 AAA
1 AAA
11093729 AAATGTACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
7 7 0.19
8 24 0.67
9 5 0.14
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (8 bp):
AAATATTA
Found at i:11093953 original size:25 final size:25
Alignment explanation
Indices: 11093830--11094048 Score: 118
Period size: 25 Copynumber: 9.0 Consensus size: 25
11093820 TAAATACGTG
* *
11093830 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
11093855 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
11093880 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
11093902 ATAACATGTAAAAAAATATATAAATAAT
1 ATAATAT-T--AAAGATATATACATAAT
*
11093930 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * * **
11093955 ATAGTATAAAATATATATATGTAAT
1 ATAATATTAAAGATATATACATAAT
* * *
11093980 ATAGA-ATTTAA-A-ATATACCTGAT
1 ATA-ATATTAAAGATATATACATAAT
* *
11094003 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
11094025 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
11094048 A
1 A
11094049 ACAAAAAAGG
Statistics
Matches: 148, Mismatches: 34, Indels: 26
0.71 0.16 0.12
Matches are distributed among these distances:
21 4 0.03
22 26 0.18
23 26 0.18
24 8 0.05
25 64 0.43
27 1 0.01
28 19 0.13
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:11094577 original size:30 final size:30
Alignment explanation
Indices: 11094541--11094625 Score: 143
Period size: 30 Copynumber: 2.8 Consensus size: 30
11094531 TAGGTACAAA
*
11094541 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
11094571 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
11094601 TGGTGGTGGAAAATGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
11094626 TGAGAAAAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.20, C:0.04, G:0.49, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:11096447 original size:19 final size:18
Alignment explanation
Indices: 11096415--11096462 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
11096405 AACTATTTTT
* *
11096415 TTAAAATTTAATTAAATTA
1 TTAAAATAT-ATTAAAATA
*
11096434 TATAAATTATATTAAAATA
1 T-TAAAATATATTAAAATA
11096453 TTAAAATATA
1 TTAAAATATA
11096463 ATCTATTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 8 0.33
19 10 0.42
20 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAAATATATTAAAATA
Found at i:11110037 original size:66 final size:66
Alignment explanation
Indices: 11109931--11110057 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
11109921 ACCAATACCC
* * *
11109931 AAATATGAAAATCAGGTGTAAAACTAAAACTATCCCATAATGGGTTATTGAAAATTATGAACATC
1 AAATATGAAAATCAGCTGTAAAACCAAAACTATCCAATAATGGGTTATTGAAAATTATGAACATC
11109996 T
66 T
11109997 AAATATGAAAATCAGCTGTAAAACCAAAACTATCCAATAATGGGTTATTGAAAATTATGAA
1 AAATATGAAAATCAGCTGTAAAACCAAAACTATCCAATAATGGGTTATTGAAAATTATGAA
11110058 TATCCATGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (66 bp):
AAATATGAAAATCAGCTGTAAAACCAAAACTATCCAATAATGGGTTATTGAAAATTATGAACATC
T
Found at i:11111667 original size:13 final size:13
Alignment explanation
Indices: 11111649--11111727 Score: 77
Period size: 13 Copynumber: 5.6 Consensus size: 13
11111639 AAGCAACCGT
11111649 AAATGGGAATGGG
1 AAATGGGAATGGG
11111662 AAATGGGAATGGG
1 AAATGGGAATGGG
*
11111675 AAATGGGAGGAGGGG
1 AAATGGGA--ATGGG
* *
11111690 AATCGATGGAAGAGGGG
1 AA---ATGGGA-ATGGG
11111707 AAATGGGAATGGG
1 AAATGGGAATGGG
11111720 AAATGGGA
1 AAATGGGA
11111728 GGAGGGCACG
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
13 33 0.58
14 5 0.09
15 6 0.11
17 8 0.14
18 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.48, T:0.13
Consensus pattern (13 bp):
AAATGGGAATGGG
Found at i:11111668 original size:7 final size:7
Alignment explanation
Indices: 11111649--11111727 Score: 58
Period size: 7 Copynumber: 11.1 Consensus size: 7
11111639 AAGCAACCGT
11111649 AAATGGG
1 AAATGGG
11111656 -AATGGG
1 AAATGGG
11111662 AAATGGG
1 AAATGGG
11111669 -AATGGG
1 AAATGGG
11111675 AAATGGG
1 AAATGGG
*
11111682 AGGA-GGG
1 A-AATGGG
*
11111689 GAATCGATGG
1 AAAT-G--GG
*
11111699 AAGAGGGG
1 AA-ATGGG
11111707 AAATGGG
1 AAATGGG
11111714 -AATGGG
1 AAATGGG
11111720 AAATGGG
1 AAATGGG
11111727 A
1 A
11111728 GGAGGGCACG
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
6 19 0.33
7 27 0.47
8 6 0.11
10 4 0.07
11 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.48, T:0.13
Consensus pattern (7 bp):
AAATGGG
Found at i:11111723 original size:45 final size:43
Alignment explanation
Indices: 11111659--11111751 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 43
11111649 AAATGGGAAT
11111659 GGGAAATGGGAATGGGAAATGGGAGGAGGGGAATCGATGGAAGAG
1 GGGAAATGGGAATGGGAAATGGGAGGA-GGGAA-CGATGGAAGAG
* *
11111704 GGGAAATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAG
1 GGGAAATGGGAATGGGAAATGGGAGGAGGGAACGATGGAAGAG
11111747 GGGAA
1 GGGAA
11111752 TTGATGGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 15 0.33
44 4 0.09
45 27 0.59
ACGTcount: A:0.34, C:0.03, G:0.53, T:0.10
Consensus pattern (43 bp):
GGGAAATGGGAATGGGAAATGGGAGGAGGGAACGATGGAAGAG
Found at i:11111773 original size:60 final size:58
Alignment explanation
Indices: 11111649--11111784 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 58
11111639 AAGCAACCGT
* * *
11111649 AAATGGGAATGGGAAATGGGAATGGGAAATGGGAGGAGGGGAATCGATGGAAGAGGGG
1 AAATGGGAATGGGAAATGGGAATGGGAAAGGGGAAGAGGGGAATCGATGGAAGAAGGG
* * *
11111707 AAATGGGAATGGGAAATGGGAGGA-GGGCACGGTGGAAGAGGGGAATTGATGGAA-AAGGG
1 AAATGGGAATGGGAAATGGGA--ATGGGAAAGG-GGAAGAGGGGAATCGATGGAAGAAGGG
11111766 AAGATGGGAATGGGGAAAT
1 AA-ATGGGAAT-GGGAAAT
11111785 TGCATTGTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
58 21 0.31
59 11 0.16
60 28 0.42
61 7 0.10
ACGTcount: A:0.37, C:0.02, G:0.49, T:0.12
Consensus pattern (58 bp):
AAATGGGAATGGGAAATGGGAATGGGAAAGGGGAAGAGGGGAATCGATGGAAGAAGGG
Found at i:11111851 original size:30 final size:29
Alignment explanation
Indices: 11111797--11112038 Score: 405
Period size: 30 Copynumber: 8.2 Consensus size: 29
11111787 CATTGTATTT
11111797 GTGTATTTTAAAAATAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAATATATGTA
*
11111826 ATGTATTTTAAAAATAAAGAAATATATGTA
1 GTGTATTTTAAAAATAAA-AAATATATGTA
11111856 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAAT-AAAAAATATATGTA
11111886 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAAT-AAAAAATATATGTA
*
11111916 GTGTATTTTAAAAATAAAAAATATATTTA
1 GTGTATTTTAAAAATAAAAAATATATGTA
11111945 GTGTATTTTAAAAATAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAATATATGTA
*
11111974 CTGTA-TTTAAAAATAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAATATATGTA
11112002 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAAT-AAAAAATATATGTA
*
11112032 CTGTATT
1 GTGTATT
11112039 CGGTTTATTC
Statistics
Matches: 202, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
28 27 0.13
29 71 0.35
30 101 0.50
31 3 0.01
ACGTcount: A:0.52, C:0.01, G:0.10, T:0.38
Consensus pattern (29 bp):
GTGTATTTTAAAAATAAAAAATATATGTA
Found at i:11112879 original size:16 final size:16
Alignment explanation
Indices: 11112844--11112900 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
11112834 TTTAAATAAC
*
11112844 TTCTATTATATATCAA
1 TTCTAATATATATCAA
11112860 TTCTAATATGA-AT-AA
1 TTCTAATAT-ATATCAA
*
11112875 CTTCTATTATATATCAA
1 -TTCTAATATATATCAA
11112892 TTCTAATAT
1 TTCTAATAT
11112901 GATGTCCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 3 0.09
16 28 0.82
17 3 0.09
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (16 bp):
TTCTAATATATATCAA
Found at i:11112879 original size:32 final size:32
Alignment explanation
Indices: 11112838--11112902 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
11112828 AAATAATTTA
11112838 AATAACTTCTATTATATATCAATTCTAATATG
1 AATAACTTCTATTATATATCAATTCTAATATG
11112870 AATAACTTCTATTATATATCAATTCTAATATG
1 AATAACTTCTATTATATATCAATTCTAATATG
11112902 A
1 A
11112903 TGTCCTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.43
Consensus pattern (32 bp):
AATAACTTCTATTATATATCAATTCTAATATG
Found at i:11113008 original size:21 final size:21
Alignment explanation
Indices: 11112984--11113036 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
11112974 CATTGTTTCT
*
11112984 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
11113005 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
11113026 AATCTCACCGC
1 AATCTCACCGC
11113037 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:11144303 original size:16 final size:16
Alignment explanation
Indices: 11144282--11144315 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
11144272 CTTCAACCTC
*
11144282 TCATTTCCTTCTCATT
1 TCATTTCCTCCTCATT
11144298 TCATTTCCTCCTCATT
1 TCATTTCCTCCTCATT
11144314 TC
1 TC
11144316 CTCTCCGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (16 bp):
TCATTTCCTCCTCATT
Found at i:11145188 original size:13 final size:11
Alignment explanation
Indices: 11145160--11145193 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
11145150 ATTTTTTTCT
11145160 CATATATTGTA
1 CATATATTGTA
11145171 CATATATTGTA
1 CATATATTGTA
11145182 CATATATTGTA
1 CATATATTGTA
11145193 C
1 C
11145194 TAATTCCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (11 bp):
CATATATTGTA
Found at i:11165560 original size:21 final size:20
Alignment explanation
Indices: 11165522--11165560 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
11165512 TGAATGTGTT
*
11165522 CTTTTTTTTAAATCTAAATG
1 CTTTTTTTTAAATATAAATG
*
11165542 CTTTTCTTTTATATATAAA
1 CTTTT-TTTTAAATATAAA
11165561 ATGACTATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (20 bp):
CTTTTTTTTAAATATAAATG
Found at i:11167511 original size:26 final size:26
Alignment explanation
Indices: 11167475--11167526 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
11167465 CTACACAAAC
11167475 AAGTAAGATTAATATGAAAGGAAAGG
1 AAGTAAGATTAATATGAAAGGAAAGG
*
11167501 AAGTAATATTAATATGAAAGGAAAGG
1 AAGTAAGATTAATATGAAAGGAAAGG
11167527 CATACTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.21
Consensus pattern (26 bp):
AAGTAAGATTAATATGAAAGGAAAGG
Found at i:11172108 original size:78 final size:78
Alignment explanation
Indices: 11172026--11172235 Score: 267
Period size: 81 Copynumber: 2.7 Consensus size: 78
11172016 TGCCTTCTCG
** *
11172026 GGAGATGCATGTAATGAGGTTGATGATGGCACCATTGGAGGAGGATGCATTTTCTGTTTTGATGG
1 GGAGATGCATGTAATGAGGTTGATGATGGCATTATTGGAGGAGGATGCATTCTCTGTTTTGATGG
* **
11172091 AACTGCTGGTGTA
66 AACCGCTGGCATA
* * *
11172104 GGAGATGCATGGAATGAGGTTGGTGATGGCATTATTGGAGGAGGATGCACTGAACTCTGTTTTGA
1 GGAGATGCATGTAATGAGGTTGATGATGGCATTATTGGAGGAGGATGCA-T--TCTCTGTTTTGA
*
11172169 TGGAACCGCTGGCATG
63 TGGAACCGCTGGCATA
* * * *
11172185 GGAAATGCATGTAATGAGGTCGATGATGGCATTGTTAGAGGAGGATGCATT
1 GGAGATGCATGTAATGAGGTTGATGATGGCATTATTGGAGGAGGATGCATT
11172236 GAGATCTCTG
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
78 45 0.40
79 1 0.01
80 1 0.01
81 65 0.58
ACGTcount: A:0.25, C:0.10, G:0.36, T:0.29
Consensus pattern (78 bp):
GGAGATGCATGTAATGAGGTTGATGATGGCATTATTGGAGGAGGATGCATTCTCTGTTTTGATGG
AACCGCTGGCATA
Found at i:11174614 original size:231 final size:231
Alignment explanation
Indices: 11174208--11175134 Score: 1622
Period size: 231 Copynumber: 4.0 Consensus size: 231
11174198 AATAAATTTG
* * * *
11174208 CTGGGAGGGGAGTTGCATGTGGAGTGGTTGGTGATGGCATTATTGGGGAAGGATGCGCTAAGCTT
1 CTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAGCTC
*
11174273 TGTATGGGTGGACATGCTGGAATAGGCGACAACAACATGGCTCTTGGTGCTGGTAGTGTAGGAGG
66 TGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCTTGGTGCTGGTAGTGTAGGAGG
*
11174338 TAAAATTAAATTTGATGAAGGTATCATTATCTTATCGCATGGTTTTGCAGTTTCATCGTTTTGAT
131 TAAAATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGAT
*
11174403 CACTTTTGCGGTTAACTTGTTGCTGCTCAATTGTTT
196 CACTTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
* *
11174439 CTAGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCAATAAGCTC
1 CTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAGCTC
* *
11174504 TGTATGGGTGGAAATGCTGGAATAGGCGACAACATCATGGCT-TCTGGTGCTGGTAGTGTAGGAG
66 TGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCT-TGGTGCTGGTAGTGTAGGAG
11174568 GTAAAATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGA
130 GTAAAATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGA
*
11174633 TCACTTTTGCGGTTTACTTGTTGCTGCTCAATTATTT
195 TCACTTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
11174670 CTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAGCTC
1 CTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAGCTC
*
11174735 TGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATTGCTCTTGGTGCTGGTAGTGTAGGAGG
66 TGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCTTGGTGCTGGTAGTGTAGGAGG
* *
11174800 TAAAATTAAATTTAATGAAGGTATCATTATCTTATCGCATGGTTTTGCAGTTTCATCGTTTTGAT
131 TAAAATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGAT
*
11174865 CACTTTTGCGGTTTACTTGTTGCTCCTCAATTGTTT
196 CACTTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
*
11174901 CTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATTGGGGAAGGATGCACTAAGCTC
1 CTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAGCTC
11174966 TGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCTTGGTGCTGGTAGTGTAGGAGG
66 TGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCTTGGTGCTGGTAGTGTAGGAGG
* ** *
11175031 TAAAATTAAATTTGATGAAGGTATCATTGACACATCGCATGGTTCTGCAGTTTCATCGTTTTGAT
131 TAAAATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGAT
** *
11175096 CACTTTTATGGTTTACTTGTTGTTGCTCAATTGTTT
196 CACTTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
11175132 CTG
1 CTG
11175135 CTGCCTTTGG
Statistics
Matches: 662, Mismatches: 32, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
230 1 0.00
231 660 1.00
232 1 0.00
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.34
Consensus pattern (231 bp):
CTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAGCTC
TGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCTTGGTGCTGGTAGTGTAGGAGG
TAAAATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGAT
CACTTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
Found at i:11177125 original size:19 final size:19
Alignment explanation
Indices: 11177069--11177125 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
11177059 TAATTTCAAA
*
11177069 AAATAAAAAATAGATAAATT
1 AAATAAAAAAT-TATAAATT
* * *
11177089 AAATTAAAATTTAAAAATT
1 AAATAAAAAATTATAAATT
**
11177108 CTATAAAAAATTATAAAT
1 AAATAAAAAATTATAAAT
11177126 AAGTAAACCA
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AAATAAAAAATTATAAATT
Found at i:11179164 original size:6 final size:6
Alignment explanation
Indices: 11179153--11179178 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11179143 AATTTGATAT
11179153 TTTAAA TTTAAA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT
11179179 ATTTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:11182939 original size:22 final size:21
Alignment explanation
Indices: 11182914--11182957 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11182904 AAAATATTCT
**
11182914 TATAAAATTATTTTTTAAAAAA
1 TATAAAATT-TTACTTAAAAAA
*
11182936 TATATAATTTTACTTAAAAAA
1 TATAAAATTTTACTTAAAAAA
11182957 T
1 T
11182958 TACTTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TATAAAATTTTACTTAAAAAA
Found at i:11183201 original size:17 final size:17
Alignment explanation
Indices: 11183159--11183203 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
11183149 TTTAATAATG
* * *
11183159 TTTTAAAAAATTACAAT
1 TTTTAAAAAAATAAAAA
11183176 TTTTAAAAAAAATAAAAA
1 TTTT-AAAAAAATAAAAA
11183194 TTTTAAAAAA
1 TTTTAAAAAA
11183204 CTAATCTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
TTTTAAAAAAATAAAAA
Found at i:11184448 original size:34 final size:34
Alignment explanation
Indices: 11184406--11184477 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
11184396 TCACAATATT
11184406 CAACAACATCGATATTGAACCGAAATTAGTAATA
1 CAACAACATCGATATTGAACCGAAATTAGTAATA
11184440 CAACAACATCGATATTGAACCGAAATTAGTAATA
1 CAACAACATCGATATTGAACCGAAATTAGTAATA
11184474 CAAC
1 CAAC
11184478 TTGTCCAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.22
Consensus pattern (34 bp):
CAACAACATCGATATTGAACCGAAATTAGTAATA
Found at i:11191261 original size:20 final size:19
Alignment explanation
Indices: 11191218--11191263 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
11191208 ATAGTGGTGG
11191218 ATTTTTTATTTTTATGTAA
1 ATTTTTTATTTTTATGTAA
11191237 ATTTTATTATTTATTAT-T-A
1 ATTTT-TTATTT-TTATGTAA
11191256 ATTTTTTA
1 ATTTTTTA
11191264 AATAGACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.12
19 11 0.44
20 7 0.28
21 4 0.16
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
ATTTTTTATTTTTATGTAA
Found at i:11198026 original size:24 final size:24
Alignment explanation
Indices: 11197994--11198050 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
11197984 GCATTAAATA
11197994 ATATCTAGTCTTGGCCAATATCCT
1 ATATCTAGTCTTGGCCAATATCCT
11198018 ATATCTAGTCTTGGCCAATATCCT
1 ATATCTAGTCTTGGCCAATATCCT
*
11198042 ATGTCTAGT
1 ATATCTAGT
11198051 GTATTGAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.39
Consensus pattern (24 bp):
ATATCTAGTCTTGGCCAATATCCT
Found at i:11207387 original size:20 final size:20
Alignment explanation
Indices: 11207354--11207391 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11207344 CACTTGTCAC
* *
11207354 AAAAAGAAATTATAATTTCA
1 AAAAACAAAGTATAATTTCA
11207374 AAAAACAAAGTATAATTT
1 AAAAACAAAGTATAATTT
11207392 AGATAGATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAACAAAGTATAATTTCA
Found at i:11208708 original size:32 final size:32
Alignment explanation
Indices: 11208667--11208731 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
11208657 ATCATTAACC
* * *
11208667 CATCAGTCTTACTTTGTCTGTATACTTCCTTT
1 CATCAGTCTTACTTTGCCTATATACTTCATTT
11208699 CATCAGTCTTACTTTGCCTATATACTTCATTT
1 CATCAGTCTTACTTTGCCTATATACTTCATTT
11208731 C
1 C
11208732 CTTCCCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.18, C:0.26, G:0.08, T:0.48
Consensus pattern (32 bp):
CATCAGTCTTACTTTGCCTATATACTTCATTT
Found at i:11213139 original size:13 final size:13
Alignment explanation
Indices: 11213121--11213145 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11213111 AAATTATCCA
11213121 ACCCAACCCAATT
1 ACCCAACCCAATT
11213134 ACCCAACCCAAT
1 ACCCAACCCAAT
11213146 AAAACTAAAA
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:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:11213184 original size:38 final size:41
Alignment explanation
Indices: 11213126--11213206 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
11213116 ATCCAACCCA
*
11213126 ACCCAATTACCCAACCCAAT-AAA-ACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAATAATAAAACTAAAGTCT
11213165 ACCCAATTA-CCAACCCAATAAAAATAATAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAAT-AAAATAATAAAACTAAAGTCT
11213206 A
1 A
11213207 ACCCTTAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
38 10 0.26
39 9 0.24
40 3 0.08
41 16 0.42
ACGTcount: A:0.52, C:0.27, G:0.02, T:0.19
Consensus pattern (41 bp):
ACCCAATTACCCAACCCAATAAAATAATAAAACTAAAGTCT
Found at i:11213382 original size:37 final size:37
Alignment explanation
Indices: 11213336--11213410 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
11213326 TGTTAATTTC
* *
11213336 AAGAATTATGTAATGTTTTTAATTATATAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATACAGTGATTCA
* *
11213373 AAGACTTATGTAATATTTTTAATTATGCAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATACAGTGATTCA
11213410 A
1 A
11213411 TTCGGGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.44
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATACAGTGATTCA
Found at i:11215897 original size:83 final size:83
Alignment explanation
Indices: 11215758--11215951 Score: 361
Period size: 83 Copynumber: 2.3 Consensus size: 83
11215748 TTGTGGCTTT
*
11215758 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGG
1 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGA
*
11215823 GTATTTAATTACTTGATA
66 GTATTTAACTACTTGATA
11215841 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGA
1 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGA
*
11215906 GTATTTAACTACTTGATG
66 GTATTTAACTACTTGATA
11215924 GAACTTGTAACATTGTGTTTCTCATTCT
1 GAACTTGTAACATTGTGTTTCTCATTCT
11215952 AGTATAGTCA
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 108 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (83 bp):
GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAAATGA
GTATTTAACTACTTGATA
Found at i:11225522 original size:9 final size:9
Alignment explanation
Indices: 11225491--11225567 Score: 75
Period size: 9 Copynumber: 8.4 Consensus size: 9
11225481 TTTGGTTAAA
11225491 AATTAACCCG
1 AATT-ACCCG
* **
11225501 AATTAACAA
1 AATTACCCG
*
11225510 AATTATCCG
1 AATTACCCG
11225519 AATTACCCG
1 AATTACCCG
*
11225528 AATTAACC-
1 AATTACCCG
11225536 AATTTACCCG
1 AA-TTACCCG
*
11225546 AATTACTCG
1 AATTACCCG
11225555 AATTACCCG
1 AATTACCCG
11225564 AATT
1 AATT
11225568 GAATCCCTAC
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
8 2 0.04
9 46 0.85
10 6 0.11
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTACCCG
Found at i:11225530 original size:27 final size:27
Alignment explanation
Indices: 11225491--11225559 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
11225481 TTTGGTTAAA
*
11225491 AATTAACCCGAATTAACAAAATTATCCG
1 AATT-ACCCGAATTAACAAAATTACCCG
* *
11225519 AATTACCCGAATTAACCAATTTACCCG
1 AATTACCCGAATTAACAAAATTACCCG
*
11225546 AATTACTCGAATTA
1 AATTACCCGAATTA
11225560 CCCGAATTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 33 0.89
28 4 0.11
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCCGAATTAACAAAATTACCCG
Found at i:11237843 original size:43 final size:41
Alignment explanation
Indices: 11237771--11238293 Score: 403
Period size: 43 Copynumber: 12.4 Consensus size: 41
11237761 CGCAATACAT
* * *
11237771 GAAGACAAGATCTGCTTCTCAATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTCCTCGATCTACTTC-CCACCA-TATAG
* *
11237814 GAAGAC-AGATCTGCATCCTCGATCCACTT-CTACCAATATAG
1 GAAGACAAGATCTGC-TCCTCGATCTACTTCCCACC-ATATAG
* * * * * * *
11237855 GAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGC--TCCTCGATCTACTTCCCACC-ATATAG
** * *
11237899 GAAGACAAGATCTG-TTTTCGATCTACTTCGCACCATATGG
1 GAAGACAAGATCTGCTCCTCGATCTACTTCCCACCATATAG
* *
11237939 GAAGACAAGATCTGCT-CTCGATCTACTTCCTACAATATAG
1 GAAGACAAGATCTGCTCCTCGATCTACTTCCCACCATATAG
* * * * * *
11237979 GAAGA-TAGATCTG-TACTCGATCTACTTCACGCCATACAT
1 GAAGACAAGATCTGCTCCTCGATCTACTTCCCACCATATAG
* * *
11238018 GAAGACAAGATCTGTTTCTGCGATCTACTTCGCCACCATATGG
1 GAAGACAAGATCTGCTCCT-CGATCTACTTC-CCACCATATAG
* *
11238061 GAAGACAAGATCTGCGTCGTCGATCTACTTCCTACCAATATAG
1 GAAGACAAGATCTGC-TCCTCGATCTACTTCCCACC-ATATAG
* * * *
11238104 GAAGATAAGATCTGCTACCTTCGATCTACTTCAC-CCAGTACAT
1 GAAGACAAGATCTGCT-CC-TCGATCTACTTCCCACCA-TATAG
* * *
11238147 GAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCATATGG
1 GAAGACAAGATCTG-CTCCT-CGATCTACTTC-CCACCATATAG
* * *
11238191 GAAGACAAGATCTGCGTCGTCGATTTACTTCCTACCAATATAG
1 GAAGACAAGATCTGC-TCCTCGATCTACTTCCCACC-ATATAG
* * * * *
11238234 GAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCT-CC-TCGATCTACTTCCCACCA-TATAG
11238278 GAAGACAAGATCTGCT
1 GAAGACAAGATCTGCT
11238294 TTAATGACTT
Statistics
Matches: 381, Mismatches: 74, Indels: 49
0.76 0.15 0.10
Matches are distributed among these distances:
38 1 0.00
39 30 0.08
40 48 0.13
41 34 0.09
42 39 0.10
43 142 0.37
44 84 0.22
45 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (41 bp):
GAAGACAAGATCTGCTCCTCGATCTACTTCCCACCATATAG
Found at i:11238192 original size:130 final size:129
Alignment explanation
Indices: 11237750--11238291 Score: 860
Period size: 130 Copynumber: 4.3 Consensus size: 129
11237740 AACCATTACT
* *
11237750 GATCTACTTCACG-CAATACATGAAGACAAGATCTGCTTCTCAATCTACTTCGCCACCAGTATGG
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTCTCGATCTACTTCGCCACCA-TATGG
* * * * *
11237814 GAAGAC-AGATCTGCATCCTCGATCCACTT-CTACCAATATAGGAAGATAGGATCTGCTATCTTC
65 GAAGACAAGATCTGCGTCGTCGATCTACTTCCTACCAATATAGGAAGATAAGATCTGCTACCTTC
11237877 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT-TCGATCTACTTCG-CACCATATGGG
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTCTCGATCTACTTCGCCACCATATGGG
11237940 AAGACAAGATCTGC-TC-TCGATCTACTTCCTA-CAATATAGGAAGAT-AGATCTG-TA-C-TC
66 AAGACAAGATCTGCGTCGTCGATCTACTTCCTACCAATATAGGAAGATAAGATCTGCTACCTTC
11237997 GATCTACTTCACGCC-ATACATGAAGACAAGATCTGTTTCTGCGATCTACTTCGCCACCATATGG
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTCT-CGATCTACTTCGCCACCATATGG
11238061 GAAGACAAGATCTGCGTCGTCGATCTACTTCCTACCAATATAGGAAGATAAGATCTGCTACCTTC
65 GAAGACAAGATCTGCGTCGTCGATCTACTTCCTACCAATATAGGAAGATAAGATCTGCTACCTTC
*
11238126 GATCTACTTCAC-CCAGTACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCATATG
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTTCT-CGATCTACTTCGCCACCATATG
*
11238190 GGAAGACAAGATCTGCGTCGTCGATTTACTTCCTACCAATATAGGAAGATAAGATCTGCTACCTT
64 GGAAGACAAGATCTGCGTCGTCGATCTACTTCCTACCAATATAGGAAGATAAGATCTGCTACCTT
11238255 C
129 C
*
11238256 GATCTACTTCACGCCAGTACATGAAGACAAGATCTG
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTG
11238292 CTTTAATGAC
Statistics
Matches: 393, Mismatches: 6, Indels: 28
0.92 0.01 0.07
Matches are distributed among these distances:
119 23 0.06
120 18 0.05
121 13 0.03
122 27 0.07
123 8 0.02
124 39 0.10
125 30 0.08
126 20 0.05
127 27 0.07
128 27 0.07
129 33 0.08
130 105 0.27
131 23 0.06
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (129 bp):
GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTCTCGATCTACTTCGCCACCATATGGG
AAGACAAGATCTGCGTCGTCGATCTACTTCCTACCAATATAGGAAGATAAGATCTGCTACCTTC
Found at i:11238238 original size:87 final size:82
Alignment explanation
Indices: 11237771--11238293 Score: 391
Period size: 87 Copynumber: 6.2 Consensus size: 82
11237761 CGCAATACAT
* * * * * *
11237771 GAAGACAAGATCTGCTTCTCAATCTACTTCGCCACCAGTATGGGAAGAC-AGATCTGCATCCTCG
1 GAAGACAAGATCTGC-TCTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTG-TTTCTCG
* *
11237835 ATCCACTT-CTACCAATATAG
63 ATCTACTTCCCACC-ATATAG
* * * * *
11237855 GAAGATAGGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGTTT-TC
1 GAAGACAAGATCTGC--TC-TCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGTTTCTC
* *
11237918 GATCTACTTCGCACCATATGG
62 GATCTACTTCCCACCATATAG
* *
11237939 GAAGACAAGATCTGCTCTCGATCTACTTCCTA-CAATATAGGAAGA-TAGATCTG-TACTCGATC
1 GAAGACAAGATCTGCTCTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGTTTCTCGATC
* * * *
11238001 TACTTCACGCCATACAT
66 TACTTCCCACCATATAG
* * * **
11238018 GAAGACAAGATCTGTTTCTGCGATCTACTTCGCCACC-ATATGGGAAGACAAGATCTGCGTCGTC
1 GAAGACAAGATCTG-CTCT-CGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGTTTC-TC
*
11238082 GATCTACTTCCTACCAATATAG
62 GATCTACTTCCCACC-ATATAG
* * * *
11238104 GAAGATAAGATCTGCTACCTTCGATCTACTT-C-ACCCAGTACATGAAGACAAGATCTGTTTTCT
1 GAAGACAAGATCTGCT--C-TCGATCTACTTCCTA-CCAATATAGGAAGACAAGATCTG-TTTCT
*
11238167 GCGATCTACTTCGCCACCATATGG
61 -CGATCTACTTC-CCACCATATAG
* * **
11238191 GAAGACAAGATCTGCGTCGTCGATTTACTTCCTACCAATATAGGAAGATAAGATCTGCTACCTTC
1 GAAGACAAGATCTGC-TC-TCGATCTACTTCCTACCAATATAGGAAGACAAGATCTG-TTTC-TC
* * * *
11238256 GATCTACTTCACGCCAGTACAT
62 GATCTACTTCCCACCA-TATAG
11238278 GAAGACAAGATCTGCT
1 GAAGACAAGATCTGCT
11238294 TTAATGACTT
Statistics
Matches: 348, Mismatches: 64, Indels: 52
0.75 0.14 0.11
Matches are distributed among these distances:
78 1 0.00
79 39 0.11
80 15 0.04
81 23 0.07
82 14 0.04
83 8 0.02
84 43 0.12
85 35 0.10
86 69 0.20
87 93 0.27
88 8 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (82 bp):
GAAGACAAGATCTGCTCTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGTTTCTCGATC
TACTTCCCACCATATAG
Found at i:11239193 original size:1 final size:1
Alignment explanation
Indices: 11239187--11239217 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
11239177 GCCTCTCCCC
11239187 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
11239218 AGGCAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:11253245 original size:50 final size:50
Alignment explanation
Indices: 11253187--11253291 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
11253177 TTTTAATGTG
11253187 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
11253236 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
11253286 AGTATT
1 AGTATT
11253292 AGTCATGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:11258745 original size:21 final size:21
Alignment explanation
Indices: 11258711--11258751 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11258701 AATTAACTAA
*
11258711 TTTTAGATTATTTATTTTAAT
1 TTTTAGATTATTTAATTTAAT
11258732 TTTTA-ATTATTTTAATTTAA
1 TTTTAGATTA-TTTAATTTAA
11258752 AAATGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTAGATTATTTAATTTAAT
Found at i:11267795 original size:14 final size:14
Alignment explanation
Indices: 11267776--11267817 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
11267766 TTATTTTACT
11267776 GAAAATAATTTTAA
1 GAAAATAATTTTAA
*
11267790 GAAAATTATTTTTAA
1 GAAAA-TAATTTTAA
11267805 -AAAATAACTTTTA
1 GAAAATAA-TTTTA
11267818 CACAAAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 2 0.08
14 14 0.58
15 8 0.33
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (14 bp):
GAAAATAATTTTAA
Found at i:11273542 original size:53 final size:53
Alignment explanation
Indices: 11273457--11273574 Score: 166
Period size: 53 Copynumber: 2.2 Consensus size: 53
11273447 AAAATATGTG
*
11273457 ATAAGTGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGT
1 ATAA-TGTGATAATGTGACTCCGTATAAGACCAT-GTCTGGGATATGGCATCGGT
* *
11273511 ATAATGTGATAATGTGATTCCGTATAAGACCATGTCTGGGATATGGCTTCGGT
1 ATAATGTGATAATGTGACTCCGTATAAGACCATGTCTGGGATATGGCATCGGT
11273564 ATGATATGTGA
1 AT-A-ATGTGA
11273575 ACCGTGTAAG
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
52 1 0.02
53 46 0.79
54 5 0.09
55 6 0.10
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (53 bp):
ATAATGTGATAATGTGACTCCGTATAAGACCATGTCTGGGATATGGCATCGGT
Found at i:11281050 original size:53 final size:53
Alignment explanation
Indices: 11280914--11281059 Score: 195
Period size: 53 Copynumber: 2.7 Consensus size: 53
11280904 TGTGCCCATT
**
11280914 TAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
* *
11280967 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTTCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
* * *
11281020 TAAGATCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
11281060 ACCGTGTAAG
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 75 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (53 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
Found at i:11296625 original size:5 final size:5
Alignment explanation
Indices: 11296615--11296641 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11296605 ATTGTTATAA
11296615 TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TA
11296642 CATAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:11303919 original size:17 final size:18
Alignment explanation
Indices: 11303897--11303930 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11303887 TTTTTATTTA
11303897 TTTTTTA-AAAATGTTTT
1 TTTTTTAGAAAATGTTTT
*
11303914 TTTTTTAGTAAATGTTT
1 TTTTTTAGAAAATGTTT
11303931 GGAATTATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (18 bp):
TTTTTTAGAAAATGTTTT
Found at i:11310413 original size:16 final size:16
Alignment explanation
Indices: 11310392--11310442 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
11310382 GATGGGAATA
11310392 ATAAAATATATAAAAT
1 ATAAAATATATAAAAT
11310408 ATAAAATAT-TAAAAT
1 ATAAAATATATAAAAT
11310423 ATCAAAATATTATAATAAT
1 AT-AAAATA-TATAA-AAT
11310442 A
1 A
11310443 ATAATTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.26
16 15 0.48
17 1 0.03
18 3 0.10
19 4 0.13
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAATATATAAAAT
Found at i:11310422 original size:8 final size:8
Alignment explanation
Indices: 11310388--11310439 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
11310378 CAATGATGGG
*
11310388 AATAATAA
1 AATATTAA
11310396 AATATATAA
1 AATAT-TAA
11310405 AATA-TAA
1 AATATTAA
11310412 AATATTAA
1 AATATTAA
*
11310420 AATATCAA
1 AATATTAA
*
11310428 AATATTAT
1 AATATTAA
11310436 AATA
1 AATA
11310440 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (8 bp):
AATATTAA
Found at i:11310439 original size:24 final size:24
Alignment explanation
Indices: 11310388--11310443 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
11310378 CAATGATGGG
*
11310388 AATAATAAAATATATAAAATATAA
1 AATAATAAAATATACAAAATATAA
* *
11310412 AATATTAAAATAT-CAAAATATTAT
1 AATAATAAAATATACAAAATA-TAA
11310436 AATAATAA
1 AATAATAA
11310444 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AATAATAAAATATACAAAATATAA
Found at i:11310604 original size:23 final size:22
Alignment explanation
Indices: 11310553--11310606 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
11310543 ATACTACATC
11310553 AATATGTACATAT-ATA--AAA
1 AATATGTACATATAATATTAAA
**
11310572 AATAAATACATGATAATATTAAA
1 AATATGTACAT-ATAATATTAAA
11310595 AATATGTACATA
1 AATATGTACATA
11310607 ATATAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 3 0.11
22 1 0.04
23 12 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
AATATGTACATATAATATTAAA
Found at i:11310653 original size:22 final size:24
Alignment explanation
Indices: 11310569--11310654 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
11310559 TACATATATA
* *
11310569 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
11310592 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
11310617 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
11310640 -AAGATATATACATAA
1 AAAAATATATACATAA
11310655 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:11310708 original size:25 final size:24
Alignment explanation
Indices: 11310674--11310805 Score: 89
Period size: 25 Copynumber: 5.6 Consensus size: 24
11310664 TAGAAAAAAT
11310674 ATATATAAATAATATAATATTAAA
1 ATATATAAATAATATAATATTAAA
* *
11310698 GATATATAAATAAAATAGTA-TAATA
1 -ATATATAAATAATATAATATTAA-A
** * *
11310723 TATATATACGTAATATAAAATTTAA
1 -ATATATAAATAATATAATATTAAA
**
11310748 A-ATATACCT-A-AT-ATATTAAA
1 ATATATAAATAATATAATATTAAA
*
11310768 ATAATATATATAATATAATATTAAGA
1 AT-ATATAAATAATATAATATTAA-A
11310794 A-ATAT-AATAATA
1 ATATATAAATAATA
11310806 ACAAAAAAAA
Statistics
Matches: 84, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
20 7 0.08
21 2 0.02
22 7 0.08
23 14 0.17
24 10 0.12
25 40 0.48
26 4 0.05
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.36
Consensus pattern (24 bp):
ATATATAAATAATATAATATTAAA
Found at i:11310729 original size:27 final size:27
Alignment explanation
Indices: 11310604--11310730 Score: 77
Period size: 25 Copynumber: 4.9 Consensus size: 27
11310594 AAATATGTAC
* * * *
11310604 ATAATATAGTGT--TAAAAATACATAC
1 ATAATATAGTATAATAAATATATATAA
* * *
11310629 ATAATATAGT-TAAGATATATACATAA
1 ATAATATAGTATAATAAATATATATAA
* * *
11310655 GATAACAT-GTAGAAAAAATATATATAA
1 -ATAATATAGTATAATAAATATATATAA
* *
11310682 ATAATATA--ATATTAAAGATATATAA
1 ATAATATAGTATAATAAATATATATAA
* *
11310707 ATAAAATAGTATAATATATATATA
1 ATAATATAGTATAATAAATATATA
11310731 CGTAATATAA
Statistics
Matches: 77, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
24 1 0.01
25 30 0.39
26 17 0.22
27 29 0.38
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (27 bp):
ATAATATAGTATAATAAATATATATAA
Found at i:11311319 original size:30 final size:30
Alignment explanation
Indices: 11311283--11311456 Score: 267
Period size: 30 Copynumber: 5.8 Consensus size: 30
11311273 TAGGTACAAG
* *
11311283 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
11311313 TGGTGGTGGAAAAAGACTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* * *
11311343 TGGTGGTGGAAAATGTGTGCCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
11311373 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
11311403 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
11311433 TGGTGGTGGAAAAGGAGTGGCTAG
1 TGGTGGTGGAAAAGGAGTGGCTAG
11311457 GTTTTTTTAT
Statistics
Matches: 130, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 130 1.00
ACGTcount: A:0.22, C:0.05, G:0.48, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:11311376 original size:60 final size:60
Alignment explanation
Indices: 11311283--11311456 Score: 303
Period size: 60 Copynumber: 2.9 Consensus size: 60
11311273 TAGGTACAAG
* *
11311283 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGACTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* *
11311343 TGGTGGTGGAAAATGTGTGCCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
11311403 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAG
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAG
11311457 GTTTTTTTAT
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 107 1.00
ACGTcount: A:0.22, C:0.05, G:0.48, T:0.25
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:11312340 original size:73 final size:75
Alignment explanation
Indices: 11312207--11312688 Score: 358
Period size: 75 Copynumber: 6.3 Consensus size: 75
11312197 AAAACAAAAA
* * ** *
11312207 TTGA-AAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATA
1 TTGACAAA-CAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATA
*
11312271 TGAGTT-A-ATTT
63 TGAGTTGATTTTT
* * *
11312282 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTTAACTCACCTTTCGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
*
11312347 ATTGATTTTT
66 GTTGATTTTT
* * *
11312357 TTGAAAAACA-AAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGACAAACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
11312421 AGTTGATTTTT
65 AGTTGATTTTT
* * ** * ** * *
11312432 TTTACGAACAGAAATTGAAGAATAGAAATTGAAAAG-G-CCTCAGCATGTGAGC-CGAGGCTCAA
1 TTGACAAACAGAAATTGAA-AAT---ACCT-CAGCGTGTCC-C-G-A---G-GCTC-A-ACTCAC
* * * *
11312494 CTCAC-C--TCTCGCAATATGAGTTAATT
52 CTCTCGCAATAT-G-AGT-TGA-TT-TTT
* *
11312520 TTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATATG
1 TT-GACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
11312585 AGTTGA--TTT
65 AGTTGATTTTT
* * *
11312594 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGACAAACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
11312659 AGTTGATTTTT
65 AGTTGATTTTT
* *
11312670 TTTACGAACAGAAATTGAA
1 TTGACAAACAGAAATTGAA
11312689 GAACAGAAAT
Statistics
Matches: 316, Mismatches: 57, Indels: 68
0.72 0.13 0.15
Matches are distributed among these distances:
73 43 0.14
74 60 0.19
75 105 0.33
76 23 0.07
78 13 0.04
79 8 0.03
80 6 0.02
81 3 0.01
83 3 0.01
84 6 0.02
85 10 0.03
86 13 0.04
87 2 0.01
88 6 0.02
89 15 0.05
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (75 bp):
TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:11312461 original size:164 final size:163
Alignment explanation
Indices: 11312291--11312595 Score: 434
Period size: 164 Copynumber: 1.9 Consensus size: 163
11312281 TTTGACAAAC
** * * * *
11312291 AGAAATTGAAATTACCTCAGC-GTGTCCCGAGGCTTAACTCACCTTTCGCAATATGAATTGATTT
1 AGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATT-A-AT
*
11312355 TTTTGAAAAACA-AAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
64 TTTTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
11312419 TGAGTTGATTTTTTTTACGAACAGAAATTGAAGAAT
128 TGAGTTGATTTTTTTTACGAACAGAAATTGAAGAAT
* * *
11312455 AGAAATTGAAAAGGCCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
1 AGAAATTGAAAAGACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTAATT
* * * *
11312520 TTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATATG
65 TTTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
11312585 AGTTGATTTTT
130 AGTTGATTTTT
11312596 GAAAAACAGA
Statistics
Matches: 124, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
164 87 0.70
165 4 0.03
166 33 0.27
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (163 bp):
AGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTAATTT
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTTACGAACAGAAATTGAAGAAT
Found at i:11312663 original size:74 final size:73
Alignment explanation
Indices: 11312483--11312669 Score: 311
Period size: 74 Copynumber: 2.5 Consensus size: 73
11312473 AGCATGTGAG
* * * *
11312483 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTC
11312548 AGCGTGTC
66 AGCGTGTC
*
11312556 CCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTAAAAATACCT
11312621 CAGCGTGTC
65 CAGCGTGTC
*
11312630 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
11312670 TTTACGAACA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
73 49 0.46
74 57 0.54
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (73 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTC
AGCGTGTC
Found at i:11312694 original size:14 final size:14
Alignment explanation
Indices: 11312675--11312702 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11312665 TTTTTTTTAC
11312675 GAACAGAAATTGAA
1 GAACAGAAATTGAA
11312689 GAACAGAAATTGAA
1 GAACAGAAATTGAA
11312703 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:11312726 original size:238 final size:238
Alignment explanation
Indices: 11312199--11312852 Score: 1132
Period size: 238 Copynumber: 2.7 Consensus size: 238
11312189 AAATTGAAAA
* * *
11312199 AACAAAAATTGAA-AAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTC
1 AACAGAAATTGAAGAA-CAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTC
*
11312263 TCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTTAA
65 TCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAA
* *
11312328 CTCACCTTTCGCAATATGAATTGATTTTTTTGAAAAACA-AAATTTAAAAATACCTCAGCGTGTC
130 CTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTC
11312392 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACG
193 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACG
* *
11312438 AACAGAAATTGAAGAATAGAAATTGAAAAGGCCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
1 AACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
11312503 CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
66 CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
*
11312568 TCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTG
131 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTG
11312633 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACG
196 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACG
11312676 AACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
1 AACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
* * *
11312741 CGCAATATGAGTTAATTTTTGACAAACATAAATTGAAATTACCTTAGCGTGTCTCGAGGCTCAAC
66 CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
* * *
11312806 TCACCTCTAGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAA
131 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA
11312853 CCAGAAATTG
Statistics
Matches: 395, Mismatches: 18, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
237 13 0.03
238 239 0.61
239 141 0.36
240 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (238 bp):
AACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTG
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACG
Found at i:11312748 original size:91 final size:90
Alignment explanation
Indices: 11312594--11312760 Score: 248
Period size: 91 Copynumber: 1.8 Consensus size: 90
11312584 GAGTTGATTT
* *
11312594 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
*
11312659 AGTTGATTTTTTTTACGAACAGAAA
66 AGTTAATTTTTTTTACGAACAGAAA
* *
11312684 TTGAAGAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
11312747 ATGAGTTAATTTTT
63 ATGAGTTAATTTTT
11312761 GACAAACATA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
89 14 0.20
90 13 0.19
91 40 0.58
92 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (90 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTTTTTTTACGAACAGAAA
Found at i:11312851 original size:14 final size:14
Alignment explanation
Indices: 11312832--11312866 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
11312822 GAGTCGATTT
11312832 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
11312846 TTGAAAACCAGAAA
1 TTGAAAAACAGAAA
11312860 TTGAAAA
1 TTGAAAA
11312867 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:11312892 original size:162 final size:161
Alignment explanation
Indices: 11312521--11312995 Score: 650
Period size: 162 Copynumber: 2.9 Consensus size: 161
11312511 GAGTTAATTT
* * *
11312521 TTGACAAACAGAAATTGAAATTACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGTAATAT
1 TTGA-AAACAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
* *
11312584 GAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
65 GAGTTAATTTTTGAAAAACATAAA-TTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
* **
11312649 TCGCAATATGAGTTGATTTTTTTTACGAACAGAAA
129 TCGCAATATGAGTTGA--TTTTTGAAAAACAGAAA
* *
11312684 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAA-AACAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
* * * *
11312749 GAGTTAATTTTTGACAAACATAAATTGAAATTACCTTAGCGTGT-CTCGAGGCTCAACTCACCTC
65 GAGTTAATTTTTGAAAAACATAAATTAAAAATACCTCAGCGTGTCCT-GAGGCTCAACTCACCTC
* *
11312813 TAGCAATATGAGTCGATTTTTGAAAAACAGAAA
129 TCGCAATATGAGTTGATTTTTGAAAAACAGAAA
* *
11312846 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAA-CAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
* * ** **
11312911 GAGCTAATTTTTTATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
65 GAGTTAATTTTTGAAAAACATAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
11312976 CGCAATATGAGTTGATTTTT
130 CGCAATATGAGTTGATTTTT
11312996 TTGAAAATCA
Statistics
Matches: 276, Mismatches: 30, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
161 2 0.01
162 145 0.53
163 33 0.12
164 48 0.17
165 48 0.17
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (161 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTTTTGAAAAACATAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTGAAAAACAGAAA
Found at i:11321334 original size:12 final size:12
Alignment explanation
Indices: 11321314--11321349 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
11321304 TGGGATATGC
*
11321314 AATGTATGAATG
1 AATGCATGAATG
11321326 AATGCATGAATG
1 AATGCATGAATG
11321338 AATGCATGAATG
1 AATGCATGAATG
11321350 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:11322936 original size:16 final size:15
Alignment explanation
Indices: 11322915--11322962 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
11322905 GACGGGAATA
*
11322915 ATAAAATGTATAAAAT
1 ATAAAATAT-TAAAAT
11322931 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
11322946 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
11322962 A
1 A
11322963 ATAATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:11322945 original size:8 final size:8
Alignment explanation
Indices: 11322911--11322962 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
11322901 CAATGACGGG
*
11322911 AATAATAA
1 AATATTAA
*
11322919 AATGTATAA
1 AATAT-TAA
11322928 AATA-TAA
1 AATATTAA
11322935 AATATTAA
1 AATATTAA
*
11322943 AATATCAA
1 AATATTAA
*
11322951 AATATTAG
1 AATATTAA
11322959 AATA
1 AATA
11322963 ATAATAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 23 0.64
9 6 0.17
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:11323139 original size:25 final size:25
Alignment explanation
Indices: 11323090--11323159 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
11323080 TACATATATA
11323090 AAAAATAAATACATAATA-A-TATT
1 AAAAATAAATACATAATATAGTATT
** *
11323113 AAAAATATGTACATAATATAGTGTT
1 AAAAATAAATACATAATATAGTATT
*
11323138 AAAAATACATACATAATATAGT
1 AAAAATAAATACATAATATAGT
11323160 TAAGATATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 16 0.40
24 1 0.03
25 23 0.57
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (25 bp):
AAAAATAAATACATAATATAGTATT
Found at i:11323226 original size:25 final size:25
Alignment explanation
Indices: 11323196--11323329 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 25
11323186 AGAAAAAAAA
11323196 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
11323221 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* * *
11323246 ATATATATACGTAATATAAAATTTAA-
1 ATATATA-A-ATAATATAATATTAAAG
** *
11323272 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
11323294 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
11323317 AAATAT-AATAATA
1 ATATATAAATAATA
11323330 ACAAAAAAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:11323233 original size:14 final size:13
Alignment explanation
Indices: 11323193--11323243 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
11323183 TGTAGAAAAA
11323193 AAAATATATAAAT
1 AAAATATATAAAT
* *
11323206 AATATA-AT-ATT
1 AAAATATATAAAT
11323217 AAAGATATATAAAT
1 AAA-ATATATAAAT
11323231 AAAATAGTATAAA
1 AAAATA-TATAAA
11323244 ATATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 4 0.13
12 5 0.17
13 10 0.33
14 11 0.37
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (13 bp):
AAAATATATAAAT
Found at i:11325552 original size:18 final size:18
Alignment explanation
Indices: 11325529--11325584 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
11325519 CCACCACCAA
11325529 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
11325547 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
11325559 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
11325577 CTCCACTA
1 CTCCACTA
11325585 CCTATTCCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 1 0.03
16 1 0.03
17 3 0.10
18 15 0.50
ACGTcount: A:0.25, C:0.48, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:11325555 original size:30 final size:30
Alignment explanation
Indices: 11325519--11325617 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
11325509 CTATCATTTG
11325519 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
11325549 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * *
11325579 CCACTACCTATTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
11325609 TCACCACCA
1 CCACCACCA
11325618 CTTGTACCTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.26, C:0.48, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:11326204 original size:27 final size:26
Alignment explanation
Indices: 11326174--11326283 Score: 73
Period size: 29 Copynumber: 4.0 Consensus size: 26
11326164 CTATATTAAG
11326174 TATATATATATTATATTATTTTATGTA
1 TATATATATATTATATTA-TTTATGTA
* *
11326201 TATATCTTTAATACTATATTATTTA--TA
1 TATA--TAT-ATATTATATTATTTATGTA
* *
11326228 TATATATTTTTTATATGTTATCTTATGTA
1 TATATATATATTATA--TTAT-TTATGTA
* *
11326257 TATAT-TTTAATTATATTATGTATGTA
1 TATATATAT-ATTATATTATTTATGTA
11326283 T
1 T
11326284 TTTTTACACT
Statistics
Matches: 66, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
24 5 0.08
25 2 0.03
26 11 0.17
27 17 0.26
28 3 0.05
29 18 0.27
30 10 0.15
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.59
Consensus pattern (26 bp):
TATATATATATTATATTATTTATGTA
Found at i:11326233 original size:15 final size:16
Alignment explanation
Indices: 11326178--11326243 Score: 59
Period size: 15 Copynumber: 4.3 Consensus size: 16
11326168 ATTAAGTATA
*
11326178 TATATATTATATTATT
1 TATATACTATATTATT
* *
11326194 T-TAT-GTATATATCTT
1 TATATACTATAT-TATT
11326209 TA-ATACTATATTATT
1 TATATACTATATTATT
*
11326224 TATATA-TATATTTTT
1 TATATACTATATTATT
11326239 TATAT
1 TATAT
11326244 GTTATCTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 5 0.12
15 27 0.66
16 9 0.22
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (16 bp):
TATATACTATATTATT
Found at i:11326233 original size:29 final size:27
Alignment explanation
Indices: 11326185--11326283 Score: 112
Period size: 27 Copynumber: 3.6 Consensus size: 27
11326175 ATATATATAT
11326185 TATATTATTTTATGTATATATCTTTAATA
1 TATATTA-TTTATGTATATAT-TTTAATA
* *
11326214 CTATATTATTTATATATATATTTT-TTA
1 -TATATTATTTATGTATATATTTTAATA
*
11326241 TATGTTATCTTATGTATATATTTTAAT-
1 TATATTAT-TTATGTATATATTTTAATA
*
11326268 TATATTATGTATGTAT
1 TATATTATTTATGTAT
11326284 TTTTTACACT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
26 14 0.23
27 23 0.38
28 4 0.07
29 12 0.20
30 7 0.12
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (27 bp):
TATATTATTTATGTATATATTTTAATA
Found at i:11326275 original size:22 final size:22
Alignment explanation
Indices: 11326245--11326352 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 22
11326235 TTTTTATATG
*
11326245 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
11326267 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
11326292 CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATA-TTTTAA
* * *
11326315 -TATTATCACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
11326335 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
11326353 ATGTAGTATT
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
19 9 0.13
20 2 0.03
21 2 0.03
22 17 0.25
23 12 0.18
24 13 0.19
25 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:11326301 original size:25 final size:24
Alignment explanation
Indices: 11326251--11326337 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 24
11326241 TATGTTATCT
*
11326251 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
11326277 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
** * *
11326302 TACATA-TTTTTAA-TATTATCACG
1 TATGTATTTTTTAACTA-TATTATG
*
11326325 TATTTATTTTTTA
1 TATGTATTTTTTA
11326338 TATATGTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.04
23 10 0.20
24 17 0.33
25 15 0.29
26 7 0.14
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:11326319 original size:20 final size:20
Alignment explanation
Indices: 11326294--11326352 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
11326284 TTTTTACACT
11326294 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
11326314 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
11326337 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
11326353 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:11326491 original size:16 final size:15
Alignment explanation
Indices: 11326467--11326501 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
11326457 TAATTATTAT
11326467 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
11326483 TATTTTAATATTTTA
1 TATTCTAATATTTTA
11326498 TATT
1 TATT
11326502 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:11329460 original size:18 final size:20
Alignment explanation
Indices: 11329437--11329474 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
11329427 ACGTGACAGT
11329437 CCAAC-TAGATTT-TAAATG
1 CCAACTTAGATTTCTAAATG
*
11329455 CCAACTTGGATTTCTAAATG
1 CCAACTTAGATTTCTAAATG
11329475 GGATGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (20 bp):
CCAACTTAGATTTCTAAATG
Found at i:11338723 original size:3 final size:3
Alignment explanation
Indices: 11338715--11338739 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11338705 CTAGACTATT
11338715 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
11338740 CGATCAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:11340116 original size:38 final size:38
Alignment explanation
Indices: 11340065--11340137 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
11340055 ATCAACTATC
11340065 AAGGTTAGTGGGAATGTTTTTATTCTTATTTTATTATA
1 AAGGTTAGTGGGAATGTTTTTATTCTTATTTTATTATA
11340103 AAGGTTAGTGGGAATGTTTTTATTCTTATTTTATT
1 AAGGTTAGTGGGAATGTTTTTATTCTTATTTTATT
11340138 TTTTATAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (38 bp):
AAGGTTAGTGGGAATGTTTTTATTCTTATTTTATTATA
Found at i:11340955 original size:35 final size:36
Alignment explanation
Indices: 11340883--11340959 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
11340873 TGTATATTTT
11340883 AGAATAATCCAATGCAGAATGCCCTCCTAATTTCTG
1 AGAATAATCCAATGCAGAATGCCCTCCTAATTTCTG
11340919 AGAATAATCCAATGCAGAATGCCCT-CTAATTTCTG
1 AGAATAATCCAATGCAGAATGCCCTCCTAATTTCTG
11340954 AGAATA
1 AGAATA
11340960 CCAAGCTGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 16 0.39
36 25 0.61
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (36 bp):
AGAATAATCCAATGCAGAATGCCCTCCTAATTTCTG
Found at i:11344331 original size:6 final size:6
Alignment explanation
Indices: 11344320--11344357 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
11344310 TAAATATTAG
11344320 GAAGCA GAAGCA GAAGCA GAAGCA GAAGCA GAAGCA GA
1 GAAGCA GAAGCA GAAGCA GAAGCA GAAGCA GAAGCA GA
11344358 CAGAATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.16, G:0.34, T:0.00
Consensus pattern (6 bp):
GAAGCA
Found at i:11345291 original size:38 final size:38
Alignment explanation
Indices: 11345248--11345320 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
11345238 AATATGTTTG
11345248 TAATTTTTTATTGATTATTATACTTTATCTAACTTTTA
1 TAATTTTTTATTGATTATTATACTTTATCTAACTTTTA
11345286 TAATTTTTTATTGATTATTATACTTTATCTAACTT
1 TAATTTTTTATTGATTATTATACTTTATCTAACTT
11345321 AGACATGTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (38 bp):
TAATTTTTTATTGATTATTATACTTTATCTAACTTTTA
Found at i:11346652 original size:13 final size:14
Alignment explanation
Indices: 11346630--11346661 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
11346620 CACATTTATA
11346630 ATTT-ATTTCATTT
1 ATTTAATTTCATTT
11346643 -TTTAATTTCATTT
1 ATTTAATTTCATTT
11346656 ATTTAA
1 ATTTAA
11346662 ACGAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTAATTTCATTT
Found at i:11372535 original size:3 final size:3
Alignment explanation
Indices: 11372527--11372552 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11372517 TATGTTCAAC
11372527 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
11372553 GAAAAGGGTG
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:11387387 original size:16 final size:16
Alignment explanation
Indices: 11387366--11387400 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11387356 ACCTATAAGG
* *
11387366 TATTAAAATAAATAAA
1 TATTAAAAAAAACAAA
11387382 TATTAAAAAAAACAAA
1 TATTAAAAAAAACAAA
11387398 TAT
1 TAT
11387401 CAATTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
TATTAAAAAAAACAAA
Found at i:11389161 original size:30 final size:30
Alignment explanation
Indices: 11389125--11389187 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
11389115 ACTTATTTTA
11389125 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
11389155 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
11389185 TTG
1 TTG
11389188 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:11389308 original size:17 final size:19
Alignment explanation
Indices: 11389268--11389308 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
11389258 GGGAAATATT
*
11389268 TATTTTGATGTTTTTAGTA
1 TATTTTGATGTTATTAGTA
11389287 T-TTTTGAT-TTATTA-TA
1 TATTTTGATGTTATTAGTA
11389303 TATTTT
1 TATTTT
11389309 TAAAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 9 0.45
18 7 0.35
19 1 0.05
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.68
Consensus pattern (19 bp):
TATTTTGATGTTATTAGTA
Found at i:11390803 original size:273 final size:273
Alignment explanation
Indices: 11390351--11390900 Score: 1082
Period size: 273 Copynumber: 2.0 Consensus size: 273
11390341 AACTAAGGAA
11390351 AATTGATGAATTAGGACCAAATTGAATAAATGAAAAAAGTATGAAGGGTTAAATCATAATTTTAT
1 AATTGATGAATTAGGACCAAATTGAATAAATGAAAAAAGTATGAAGGGTTAAATCATAATTTTAT
11390416 CAAAATAAGTGATGAGTCAATGAAAGAATTTGAAGAATCATAAGGGGCAAAATGGTCATTTAGCA
66 CAAAATAAGTGATGAGTCAATGAAAGAATTTGAAGAATCATAAGGGGCAAAATGGTCATTTAGCA
11390481 AGAAAGATAATTTTGAAGGGTAATGATGATGTTGATGATATTTTAGATTAATCAAATAAATATTA
131 AGAAAGATAATTTTGAAGGGTAATGATGATGTTGATGATATTTTAGATTAATCAAATAAATATTA
*
11390546 GTTTATTAATATTTTGATTTAATTTTTAATTATATTTTATTATTATTTTATTTAGTATATAAGGA
196 GTTTATTAATATTTTGATTTAATTTTTAATTATATTTAATTATTATTTTATTTAGTATATAAGGA
11390611 AAGAAATATGAAG
261 AAGAAATATGAAG
11390624 AATTGATGAATTAGGACCAAATTGAATAAATGAAAAAAGTATGAAGGGTTAAATCATAATTTTAT
1 AATTGATGAATTAGGACCAAATTGAATAAATGAAAAAAGTATGAAGGGTTAAATCATAATTTTAT
*
11390689 CAAAATAAGTGATGAGTCAATGAAGGAATTTGAAGAATCATAAGGGGCAAAATGGTCATTTAGCA
66 CAAAATAAGTGATGAGTCAATGAAAGAATTTGAAGAATCATAAGGGGCAAAATGGTCATTTAGCA
11390754 AGAAAGATAATTTTGAAGGGTAATGATGATGTTGATGATATTTTAGATTAATCAAATAAATATTA
131 AGAAAGATAATTTTGAAGGGTAATGATGATGTTGATGATATTTTAGATTAATCAAATAAATATTA
11390819 GTTTATTAATATTTTGATTTAATTTTTAATTATATTTAATTATTATTTTATTTAGTATATAAGGA
196 GTTTATTAATATTTTGATTTAATTTTTAATTATATTTAATTATTATTTTATTTAGTATATAAGGA
11390884 AAGAAATATGAAG
261 AAGAAATATGAAG
11390897 AATT
1 AATT
11390901 CTCTTCATCT
Statistics
Matches: 275, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
273 275 1.00
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.37
Consensus pattern (273 bp):
AATTGATGAATTAGGACCAAATTGAATAAATGAAAAAAGTATGAAGGGTTAAATCATAATTTTAT
CAAAATAAGTGATGAGTCAATGAAAGAATTTGAAGAATCATAAGGGGCAAAATGGTCATTTAGCA
AGAAAGATAATTTTGAAGGGTAATGATGATGTTGATGATATTTTAGATTAATCAAATAAATATTA
GTTTATTAATATTTTGATTTAATTTTTAATTATATTTAATTATTATTTTATTTAGTATATAAGGA
AAGAAATATGAAG
Found at i:11392611 original size:26 final size:25
Alignment explanation
Indices: 11392581--11392799 Score: 114
Period size: 24 Copynumber: 8.8 Consensus size: 25
11392571 ACAGTTCTTA
*
11392581 TGAGCATCCCGTTATATGGCTCTTCG
1 TGAGCTTCCCGTTA-ATGGCTCTTCG
* * *
11392607 TGAGCGTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCCCG-TTAATGGCTCTTCG
* * *
11392633 TGAGCTTCCCTTTAATGGCTATCCG
1 TGAGCTTCCCGTTAATGGCTCTTCG
* *
11392658 -GAACTTCCCGTTAATAGCTCTTCG
1 TGAGCTTCCCGTTAATGGCTCTTCG
* * * * *
11392682 -GAGCTACCCGTTATTGCCTC-CCA
1 TGAGCTTCCCGTTAATGGCTCTTCG
*
11392705 TGAGCTTCCCGATT-ATGGCTCTT-A
1 TGAGCTTCCCG-TTAATGGCTCTTCG
* * *
11392729 TGAGCTTTCCATTATATAGC-C--CAG
1 TGAGCTTCCCGTTA-ATGGCTCTTC-G
* * *
11392753 ATAAGCTTCCCGTTAATGGCTC-ACA
1 -TGAGCTTCCCGTTAATGGCTCTTCG
*
11392778 TGAGCTTCCTGTTATATGGCTC
1 TGAGCTTCCCGTTA-ATGGCTC
11392800 GAGAGAGGGC
Statistics
Matches: 145, Mismatches: 36, Indels: 25
0.70 0.17 0.12
Matches are distributed among these distances:
23 3 0.02
24 75 0.52
25 35 0.24
26 29 0.20
27 3 0.02
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.33
Consensus pattern (25 bp):
TGAGCTTCCCGTTAATGGCTCTTCG
Found at i:11410385 original size:16 final size:16
Alignment explanation
Indices: 11410364--11410395 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11410354 ATAAATATTT
11410364 TTATAAATATTTATGG
1 TTATAAATATTTATGG
11410380 TTATAAATATTTATGG
1 TTATAAATATTTATGG
11410396 AGTGTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (16 bp):
TTATAAATATTTATGG
Found at i:11412596 original size:67 final size:67
Alignment explanation
Indices: 11412483--11412617 Score: 207
Period size: 67 Copynumber: 2.0 Consensus size: 67
11412473 AAATATTAGG
* *
11412483 TAAGCATAATTCTTGTTACATGAGCGTACTAAGCACAAAGTGCTTACCTTATTTCCTTTTCCCCT
1 TAAGCATAATTCTTGCTACATGAGCGTACTAAGCACAAAGTGCTTACCCTATTTCCTTTTCCCCT
11412548 GT
66 GT
* * * * *
11412550 TAAGTATAATTCTTGCTATATGAGCTTACTAAGCATAAAGTGCTTACCCTATTTCCTTTTCCCTT
1 TAAGCATAATTCTTGCTACATGAGCGTACTAAGCACAAAGTGCTTACCCTATTTCCTTTTCCCCT
11412615 GT
66 GT
11412617 T
1 T
11412618 TTGTAGTGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (67 bp):
TAAGCATAATTCTTGCTACATGAGCGTACTAAGCACAAAGTGCTTACCCTATTTCCTTTTCCCCT
GT
Found at i:11429708 original size:3 final size:3
Alignment explanation
Indices: 11429700--11429724 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11429690 AATTGCACTT
11429700 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
11429725 ATCATTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11430000 original size:24 final size:25
Alignment explanation
Indices: 11429971--11430019 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
11429961 TTTTTTGTTT
*
11429971 AAATTTAATATTAAT-TATATTTAA
1 AAATTTAATATAAATATATATTTAA
*
11429995 AAATTTGATATAAATATATATTTAA
1 AAATTTAATATAAATATATATTTAA
11430020 GTATATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
AAATTTAATATAAATATATATTTAA
Found at i:11441095 original size:42 final size:42
Alignment explanation
Indices: 11441039--11441125 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
11441029 AATTTGATAT
*
11441039 TTTTTAATGCCGTGATTATATATATTTTGGTCTAATGTAATA
1 TTTTTAAAGCCGTGATTATATATATTTTGGTCTAATGTAATA
11441081 TTTTTAAAGCCGTGATTATATATATTTTGGTCTAATGTAATA
1 TTTTTAAAGCCGTGATTATATATATTTTGGTCTAATGTAATA
11441123 TTT
1 TTT
11441126 ATATTTGACA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.51
Consensus pattern (42 bp):
TTTTTAAAGCCGTGATTATATATATTTTGGTCTAATGTAATA
Found at i:11444682 original size:13 final size:14
Alignment explanation
Indices: 11444661--11444689 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11444651 TGAAAAATAG
11444661 ATTAGAAAATATTT
1 ATTAGAAAATATTT
11444675 ATTA-AAAATATTT
1 ATTAGAAAATATTT
11444688 AT
1 AT
11444690 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:11445252 original size:31 final size:32
Alignment explanation
Indices: 11445203--11445266 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
11445193 ATATTAAATA
*
11445203 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
11445234 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
11445266 A
1 A
11445267 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:11446593 original size:30 final size:27
Alignment explanation
Indices: 11446530--11446598 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 27
11446520 ATGCATTATT
* *
11446530 GGTGTGTTTGGGAGGATATGATATACT
1 GGTGTGTTTGGGAGGATATAATATACG
*
11446557 GGTGTGTTTGGGAGGATTTATAATATTCCG
1 GGTGTGTTTGGGAGGA--TATAATA-TACG
11446587 GGTGTGTTTGGG
1 GGTGTGTTTGGG
11446599 TTGGATATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.44
29 6 0.17
30 14 0.39
ACGTcount: A:0.17, C:0.04, G:0.39, T:0.39
Consensus pattern (27 bp):
GGTGTGTTTGGGAGGATATAATATACG
Found at i:11446747 original size:18 final size:19
Alignment explanation
Indices: 11446726--11446766 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
11446716 AATGAAATGA
11446726 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
11446744 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
11446763 GAAA
1 GAAA
11446767 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:11451996 original size:12 final size:12
Alignment explanation
Indices: 11451979--11452003 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11451969 TTAAAAATAT
11451979 GAAATACATTAG
1 GAAATACATTAG
11451991 GAAATACATTAG
1 GAAATACATTAG
11452003 G
1 G
11452004 TTAATTGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (12 bp):
GAAATACATTAG
Found at i:11452889 original size:12 final size:12
Alignment explanation
Indices: 11452872--11452905 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11452862 TGACCCGCCC
11452872 ATATTAATTTTT
1 ATATTAATTTTT
*
11452884 ATATTATTTTTT
1 ATATTAATTTTT
11452896 ATA-TAATTTT
1 ATATTAATTTT
11452906 AAAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:11453065 original size:30 final size:30
Alignment explanation
Indices: 11453029--11453091 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
11453019 ACTTAACAAG
11453029 CAAATGTCTCTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAATAAAATTAA
*
11453059 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAATAAAATTAA
11453089 CAA
1 CAA
11453092 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAATAAAATTAA
Found at i:11453139 original size:14 final size:14
Alignment explanation
Indices: 11453122--11453152 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11453112 ATCTAAACCA
11453122 TAACAACAAAATAG
1 TAACAACAAAATAG
*
11453136 TAACAACATAATAG
1 TAACAACAAAATAG
11453150 TAA
1 TAA
11453153 AATAGTAGCA
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:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:11456377 original size:29 final size:29
Alignment explanation
Indices: 11456343--11456400 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
11456333 AGATGAGTTG
11456343 TCAATGGATTCCGAAATTTGCATGACATA
1 TCAATGGATTCCGAAATTTGCATGACATA
11456372 TCAATGGATTCCGAAATTTGCATGACATA
1 TCAATGGATTCCGAAATTTGCATGACATA
11456401 CTATGATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (29 bp):
TCAATGGATTCCGAAATTTGCATGACATA
Found at i:11463430 original size:40 final size:40
Alignment explanation
Indices: 11463370--11463484 Score: 158
Period size: 40 Copynumber: 2.9 Consensus size: 40
11463360 TTTTCAGGTC
11463370 AAATCCTATCCGCCTTAAGTTACCGTAGTGAATCAAAAAT
1 AAATCCTATCCGCCTTAAGTTACCGTAGTGAATCAAAAAT
* **
11463410 AAATTCTATCCGCCTTAAGTTACCGTAGTGAATCATGAAT
1 AAATCCTATCCGCCTTAAGTTACCGTAGTGAATCAAAAAT
* * * * *
11463450 AAATCCTATTCACTTTAAATTACCATAGTGAATCA
1 AAATCCTATCCGCCTTAAGTTACCGTAGTGAATCA
11463485 GGAACAAATC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (40 bp):
AAATCCTATCCGCCTTAAGTTACCGTAGTGAATCAAAAAT
Found at i:11465179 original size:10 final size:10
Alignment explanation
Indices: 11465164--11465188 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11465154 ATATTAAATA
11465164 AAATAATAAT
1 AAATAATAAT
11465174 AAATAATAAT
1 AAATAATAAT
11465184 AAATA
1 AAATA
11465189 GTAAAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAATAATAAT
Found at i:11479745 original size:22 final size:22
Alignment explanation
Indices: 11479701--11479745 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11479691 TATGTATTAT
* *
11479701 AATAGTTAGATATAAAATAAAG
1 AATAGTTAGATACAAAAAAAAG
11479723 AATAGTTA-ATACAAAAAATAAG
1 AATAGTTAGATACAAAAAA-AAG
11479745 A
1 A
11479746 CTTCTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.62, C:0.02, G:0.11, T:0.24
Consensus pattern (22 bp):
AATAGTTAGATACAAAAAAAAG
Found at i:11480476 original size:26 final size:26
Alignment explanation
Indices: 11480431--11480482 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
11480421 AATTATCATG
11480431 AATTTAATTTTAATAATTAA-AAAAAT
1 AATTTAATTTTAAT-ATTAACAAAAAT
11480457 AATTTAAATATTTAAT-TTAACAAAAA
1 AATTT-AAT-TTTAATATTAACAAAAA
11480483 GCATATCAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
26 9 0.39
27 8 0.35
28 6 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
AATTTAATTTTAATATTAACAAAAAT
Found at i:11505794 original size:51 final size:51
Alignment explanation
Indices: 11505679--11505795 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
11505669 ACACTGATCA
11505679 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTAT
* *
11505730 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTAT
* *
11505781 CATTTGTCGCTTGTC
1 CATTTATCACTTGTC
11505796 GCTTGTCACT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (51 bp):
CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTAT
Found at i:11526274 original size:16 final size:16
Alignment explanation
Indices: 11526252--11526320 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
11526242 TTTGGTTCGC
11526252 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
11526268 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11526284 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
11526301 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11526317 TGTA
1 TGTA
11526321 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:11526298 original size:33 final size:32
Alignment explanation
Indices: 11526252--11526320 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
11526242 TTTGGTTCGC
11526252 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
11526284 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
11526317 TGTA
1 TGTA
11526321 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:11526385 original size:44 final size:45
Alignment explanation
Indices: 11526301--11526391 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
11526291 GGATTAGAGG
* * *
11526301 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
11526346 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
11526390 TG
1 TG
11526392 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:11526752 original size:120 final size:120
Alignment explanation
Indices: 11526539--11527365 Score: 1586
Period size: 120 Copynumber: 6.9 Consensus size: 120
11526529 ATCATATTTA
*
11526539 AACATAATTATTATTAAATATATTTTAATTACAA-TATATAATTTAATAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTAATTA-AACTATATAATTTAAAAAAATTCTTAATAATTA
* *
11526603 ATATTCTTATATTATTTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
65 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
11526659 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
11526724 TATTCTTATATTAATTTACTCAAATCATACTATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
11526779 AACATAATTATTATTAAATATATTTTAATT-AACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
11526843 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
11526898 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
11526963 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
11527018 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
11527083 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
11527138 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
11527203 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
11527258 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
11527323 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
11527366 TGATGCTAGT
Statistics
Matches: 699, Mismatches: 6, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
119 120 0.17
120 579 0.83
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:11542301 original size:31 final size:29
Alignment explanation
Indices: 11542233--11542312 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 29
11542223 AATATTATTA
* *
11542233 AAATTATTTTGTTATATTTATATTTATTAT
1 AAATTATTTT-TTATATTTATATTAATAAT
11542263 AATATTATTTTTTA-ATTATATAATTAATAAGT
1 AA-ATTATTTTTTATATT-TAT-ATTAATAA-T
11542295 AAATTATTTTTTAT-TTTA
1 AAATTATTTTTTATATTTA
11542313 AAATATCATA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
29 3 0.07
30 10 0.23
31 27 0.63
32 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (29 bp):
AAATTATTTTTTATATTTATATTAATAAT
Found at i:11557539 original size:19 final size:20
Alignment explanation
Indices: 11557486--11557541 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
11557476 TAAAGTATGC
11557486 ATAATATAATTAAAATGTAA
1 ATAATATAATTAAAATGTAA
11557506 ATAATATAATTAAAATGTAA
1 ATAATATAATTAAAATGTAA
* *
11557526 ATATTAT-GTTAAAATG
1 ATAATATAATTAAAATG
11557542 AAGTTTCGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 8 0.24
20 26 0.76
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (20 bp):
ATAATATAATTAAAATGTAA
Found at i:11566267 original size:15 final size:15
Alignment explanation
Indices: 11566247--11566279 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
11566237 GGAGGATGAG
11566247 AATGATTATGATTAT
1 AATGATTATGATTAT
11566262 AATGATTATGATTAT
1 AATGATTATGATTAT
11566277 AAT
1 AAT
11566280 CGGAGAAGTA
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:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (15 bp):
AATGATTATGATTAT
Found at i:11566909 original size:42 final size:41
Alignment explanation
Indices: 11566820--11566917 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 41
11566810 TATTTAATTA
* * *
11566820 ATTTTTTAAAATTTTAAAAATTCAATTAAATATATAAAAATT
1 ATTTTTTAAATTTTTAAAAATT-AATAAAATATATAAAAAAT
11566862 A-TTTTTAAATTTATTAAAAATGT-ATAAAAT-TATAAAAGAAT
1 ATTTTTTAAATTT-TTAAAAAT-TAATAAAATATATAAAA-AAT
*
11566903 ATTTTTTATATTTTT
1 ATTTTTTAAATTTTT
11566918 TAAATCTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
40 7 0.15
41 21 0.44
42 19 0.40
43 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (41 bp):
ATTTTTTAAATTTTTAAAAATTAATAAAATATATAAAAAAT
Found at i:11567318 original size:6 final size:6
Alignment explanation
Indices: 11567309--11567341 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
11567299 GCTTTGGTTT
11567309 GGCTTA GGCTTA GGCTTA GGCTTA GGCTTA GGC
1 GGCTTA GGCTTA GGCTTA GGCTTA GGCTTA GGC
11567342 AATTCCCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.18, G:0.36, T:0.30
Consensus pattern (6 bp):
GGCTTA
Done.