Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003053.1 Hibiscus syriacus cultivar Beakdansim tig00006365_pilon, whole genome shotgun sequence
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: 776842
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:3010 original size:21 final size:22
Alignment explanation
Indices: 2964--3023 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 22
2954 TATGAAATTA
* *
2964 TCCCGAATGACCTGTGAGTATG
1 TCCCGAAGGACCTATGAGTATG
2986 TCCCGAAGGACCTATGAGT-TG
1 TCCCGAAGGACCTATGAGTATG
*
3007 TCCCGAAGGACTTATGA
1 TCCCGAAGGACCTATGA
3024 AACCCTCGAC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (22 bp):
TCCCGAAGGACCTATGAGTATG
Found at i:3879 original size:20 final size:21
Alignment explanation
Indices: 3842--3880 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
3832 ACTCATTCTT
3842 ACTCAACAATCACTTCCTTAA
1 ACTCAACAATCACTTCCTTAA
3863 ACTCAA-AATC-CTATCCTT
1 ACTCAACAATCACT-TCCTT
3881 TATATGACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 9 0.53
21 6 0.35
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (21 bp):
ACTCAACAATCACTTCCTTAA
Found at i:9410 original size:44 final size:44
Alignment explanation
Indices: 9340--9492 Score: 227
Period size: 44 Copynumber: 3.4 Consensus size: 44
9330 TGGTATATGG
* * *
9340 TTATGGA-ATAATGGCAAGTGTTTTGGTAAAATAAGCTTACGAGC
1 TTATGGATA-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
9384 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
9428 TTATGGTATTAAATGGTAAGTATAATGGTAAAATAAGCTTACGAGC
1 TTATGG-A-TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
9474 TTATGAGATAAATGGTAAG
1 TTATG-GATAAATGGTAAG
9493 AGATTTTATA
Statistics
Matches: 101, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
44 45 0.45
45 13 0.13
46 42 0.42
47 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.32
Consensus pattern (44 bp):
TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:9458 original size:46 final size:44
Alignment explanation
Indices: 9363--9492 Score: 224
Period size: 46 Copynumber: 2.9 Consensus size: 44
9353 GCAAGTGTTT
*
9363 TGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATAT
1 TGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATAA
9407 TGGTAAAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATAA
1 TGGTAAAATAAGCTTACGAGCTTATGG-A-TAAATGGTAAGTATAA
9453 TGGTAAAATAAGCTTACGAGCTTATGAGATAAATGGTAAG
1 TGGTAAAATAAGCTTACGAGCTTATG-GATAAATGGTAAG
9493 AGATTTTATA
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
44 27 0.33
45 12 0.15
46 42 0.51
47 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (44 bp):
TGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATAA
Found at i:12738 original size:21 final size:22
Alignment explanation
Indices: 12692--12748 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
12682 TATGAAATTA
*
12692 TCCCGAAGGACCGT-TGAGTATG
1 TCCCGAAGGACC-TACGAGTATG
12714 TCCCGAAGGACCTACGAGT-TG
1 TCCCGAAGGACCTACGAGTATG
*
12735 TCCCGAATGACCTA
1 TCCCGAAGGACCTA
12749 TGAAACCCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.21
Consensus pattern (22 bp):
TCCCGAAGGACCTACGAGTATG
Found at i:13583 original size:20 final size:21
Alignment explanation
Indices: 13546--13584 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
13536 ACTCATTCCT
*
13546 ACTCAATAATCATTTCCTTAA
1 ACTCAATAATCATATCCTTAA
*
13567 ACTCAA-AATCCTATCCTT
1 ACTCAATAATCATATCCTT
13585 TATATGACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (21 bp):
ACTCAATAATCATATCCTTAA
Found at i:26246 original size:21 final size:21
Alignment explanation
Indices: 26220--26259 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26210 CCCCCTTTGA
*
26220 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
26241 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
26260 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:30752 original size:108 final size:108
Alignment explanation
Indices: 30546--31378 Score: 961
Period size: 108 Copynumber: 7.8 Consensus size: 108
30536 CTATGTGTAC
* * * ** * * *
30546 TATCGGCATTAAGTTTGCAACCCATAAAATTCATAATAAGTTTATGAACGACCATGTCGACACTA
1 TATCAGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCGTATCGACACTA
* * *
30611 AGTGTGCAACCCACAAAATTCATAATAATTTTATGAATGACCG
66 AGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * * *
30654 TATCAGCACTACGTGTGCAACCCACGAAATTCATAATATGTTTATGAATGACTGTATCGGCACTA
1 TATCAGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCGTATCGACACTA
* *
30719 AGTGTGCAACCCACGGAATTCAGAATAAGTTTATGAACGACCG
66 AGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * ** *
30762 TATCAACACTAAGTGTGCAACCCAC-ATAATTCATAATATGTTTATGAATGATTGTATCGATACT
1 TATCAGCACTAAGTGTGCAACCCACGA-AATTCATAATATGTTTATGAACGACCGTATCGACACT
* * *
30826 AAGTGTGCAACTCACGGAAATCATAATAAGTTTATGAACGACCG
65 AAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * * * *
30870 TATC-GACACTAAGTGTGCAACCCATGCAATTCATAATATGTTTGTGAACAATCGTATCGACACT
1 TATCAG-CACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCGTATCGACACT
* * * *
30934 AAGTGTGCATCCTACAAAATTCATAATATGTTTATGAACGACCG
65 AAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * * *
30978 TATCGGCACTAAGTGTGCAACCCAC-AGAATTCATAATAAGTTTATGAACGATCATATCGACACT
1 TATCAGCACTAAGTGTGCAACCCACGA-AATTCATAATATGTTTATGAACGACCGTATCGACACT
*
31042 AAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
65 AAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * *
31086 TATC-GACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGCATTGACACT
1 TATCAG-CACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCGTATCGACACT
31150 AAGTGTGCAACCCAC-G-----AT--T-A---TA--AACGACCG
65 AAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * *
31180 TATCGGCACTAAGTGTGCAACCCACGGAATTCATATTATGTTTATGAACGACCGTATCGACACTA
1 TATCAGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCGTATCGACACTA
** *
31245 AGTGTGCAACTGACAAAATTCATAATAAGTTTATGAACGACCG
66 AGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * * *
31288 TAT-AGACACTATGTGTGCAACCCACAAAATTCATAATGA-GCTTATGAATGACCGTATCGACAC
1 TATCAG-CACTAAGTGTGCAACCCACGAAATTCATAAT-ATGTTTATGAACGACCGTATCGACAC
* * *
31351 TATGTGTGCACCCCAAAGAACTT-ATAAT
64 TAAGTGTGCAACCCACAGAA-TTCATAAT
31379 GTTATGAAAA
Statistics
Matches: 625, Mismatches: 75, Indels: 50
0.83 0.10 0.07
Matches are distributed among these distances:
94 78 0.12
95 1 0.00
96 2 0.00
100 3 0.00
102 3 0.00
103 1 0.00
106 2 0.00
107 4 0.01
108 526 0.84
109 5 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (108 bp):
TATCAGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCGTATCGACACTA
AGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
Found at i:30834 original size:162 final size:161
Alignment explanation
Indices: 30546--31365 Score: 999
Period size: 162 Copynumber: 5.1 Consensus size: 161
30536 CTATGTGTAC
* * * *** * * *
30546 TATCGGCATTAAGTTTGCAACCCATAAAATTCATAATAAGTTTATGAACGACCATGTCGACACTA
1 TATCGACACTAAGTGTGCAACCCACGGAATTCATAATATGTTTATGAACGACCGTATCGACACTA
* *
30611 AGTGTGCAACCCACAAAATTCATAATAAT-TTTATGAATGACCGTATC-AGCACTACGTGTGCAA
66 AGTGTGCAACCCACAAAATTCATAAT-ATGTTTATGAACGACCGTATCGA-CACTAAGTGTGCAA
* *
30674 CCCACGAAATTCATAATATGTTTATGAATGACTG
129 CCCACGAAATTCATAATA-GTTTATGAACGACCG
* * * *
30708 TATCGGCACTAAGTGTGCAACCCACGGAATTCAGAATAAGTTTATGAACGACCGTATCAACACTA
1 TATCGACACTAAGTGTGCAACCCACGGAATTCATAATATGTTTATGAACGACCGTATCGACACTA
* * ** * *
30773 AGTGTGCAACCCACATAATTCATAATATGTTTATGAATGATTGTATCGATACTAAGTGTGCAACT
66 AGTGTGCAACCCACAAAATTCATAATATGTTTATGAACGACCGTATCGACACTAAGTGTGCAACC
30838 CACGGAAA-TCATAATAAGTTTATGAACGACCG
131 CAC-GAAATTCATAAT-AGTTTATGAACGACCG
* * * * *
30870 TATCGACACTAAGTGTGCAACCCATGCAATTCATAATATGTTTGTGAACAATCGTATCGACACTA
1 TATCGACACTAAGTGTGCAACCCACGGAATTCATAATATGTTTATGAACGACCGTATCGACACTA
* * *
30935 AGTGTGCATCCTACAAAATTCATAATATGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACC
66 AGTGTGCAACCCACAAAATTCATAATATGTTTATGAACGACCGTATCGACACTAAGTGTGCAACC
* *
31000 CAC-AGAATTCATAATAAGTTTATGAACGATCA
131 CACGA-AATTCATAAT-AGTTTATGAACGACCG
*
31032 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACACTA
1 TATCGACACTAAGTGTGCAACCCACGGAATTCATAATATGTTTATGAACGACCGTATCGACACTA
* * * *
31097 AGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGCATTGACACTAAGTGTGCAACC
66 AGTGTGCAACCCACAAAATTCATAATATGTTTATGAACGACCGTATCGACACTAAGTGTGCAACC
31162 CACG------AT--TA---TA--AACGACCG
131 CACGAAATTCATAATAGTTTATGAACGACCG
* *
31180 TATCGGCACTAAGTGTGCAACCCACGGAATTCATATTATGTTTATGAACGACCGTATCGACACTA
1 TATCGACACTAAGTGTGCAACCCACGGAATTCATAATATGTTTATGAACGACCGTATCGACACTA
** * * *
31245 AGTGTGCAACTGACAAAATTCATAATAAGTTTATGAACGACCGTATAGACACTATGTGTGCAACC
66 AGTGTGCAACCCACAAAATTCATAATATGTTTATGAACGACCGTATCGACACTAAGTGTGCAACC
* * *
31310 CACAAAATTCATAATGAGCTTATGAATGACCG
131 CACGAAATTCATAAT-AGTTTATGAACGACCG
* *
31342 TATCGACACTATGTGTGCACCCCA
1 TATCGACACTAAGTGTGCAACCCA
31366 AAGAACTTAT
Statistics
Matches: 571, Mismatches: 66, Indels: 42
0.84 0.10 0.06
Matches are distributed among these distances:
148 130 0.23
150 2 0.00
153 1 0.00
154 3 0.01
156 3 0.01
157 1 0.00
160 3 0.01
161 4 0.01
162 418 0.73
163 6 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (161 bp):
TATCGACACTAAGTGTGCAACCCACGGAATTCATAATATGTTTATGAACGACCGTATCGACACTA
AGTGTGCAACCCACAAAATTCATAATATGTTTATGAACGACCGTATCGACACTAAGTGTGCAACC
CACGAAATTCATAATAGTTTATGAACGACCG
Found at i:31165 original size:54 final size:54
Alignment explanation
Indices: 30546--31166 Score: 802
Period size: 54 Copynumber: 11.5 Consensus size: 54
30536 CTATGTGTAC
* * * ** *
30546 TATCGGCATTAAGTTTGCAACCCATAAAATTCATAATAAGTTTATGAACGACCA
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * * *
30600 TGTCGACACTAAGTGTGCAACCCACAAAATTCATAATAATTTTATGAATGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * * *
30654 TATC-AGCACTACGTGTGCAACCCACGAAATTCATAATATGTTTATGAATGACTG
1 TATCGA-CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * *
30708 TATCGGCACTAAGTGTGCAACCCACGGAATTCAGAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * * **
30762 TATCAACACTAAGTGTGCAACCCAC-ATAATTCATAATATGTTTATGAATGATTG
1 TATCGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCG
* *
30816 TATCGATACTAAGTGTGCAACTCACGGAAA-TCATAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCAC-GAAATTCATAATAAGTTTATGAACGACCG
* * * * * *
30870 TATCGACACTAAGTGTGCAACCCATGCAATTCATAATATGTTTGTGAACAATCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * * *
30924 TATCGACACTAAGTGTGCATCCTACAAAATTCATAATATGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * *
30978 TATCGGCACTAAGTGTGCAACCCAC-AGAATTCATAATAAGTTTATGAACGATCA
1 TATCGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCG
*
31032 TATCGACACTAAGTGTGCAACCCAC-AGAATTCATAATATGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCG
31086 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* *
31140 CATTGACACTAAGTGTGCAACCCACGA
1 TATCGACACTAAGTGTGCAACCCACGA
31167 TTATAAACGA
Statistics
Matches: 494, Mismatches: 65, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
53 5 0.01
54 485 0.98
55 3 0.01
56 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (54 bp):
TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
Found at i:31190 original size:40 final size:40
Alignment explanation
Indices: 31127--31205 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
31117 CATAATAAGT
* *
31127 TTATGAACGACCGCATTGACACTAAGTGTGCAACCCACGA
1 TTATAAACGACCGCATCGACACTAAGTGTGCAACCCACGA
* *
31167 TTATAAACGACCGTATCGGCACTAAGTGTGCAACCCACG
1 TTATAAACGACCGCATCGACACTAAGTGTGCAACCCACG
31206 GAATTCATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (40 bp):
TTATAAACGACCGCATCGACACTAAGTGTGCAACCCACGA
Found at i:31242 original size:94 final size:94
Alignment explanation
Indices: 31073--31254 Score: 301
Period size: 94 Copynumber: 1.9 Consensus size: 94
31063 CATAATATGT
*
31073 TTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGAC
1 TTATAAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGAC
*
31138 CGCATTGACACTAAGTGTGCAACCCACGA
66 CGCATCGACACTAAGTGTGCAACCCACGA
* * * *
31167 TTATAAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTCATATTATGTTTATGAACGAC
1 TTATAAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGAC
*
31232 CGTATCGACACTAAGTGTGCAAC
66 CGCATCGACACTAAGTGTGCAAC
31255 TGACAAAATT
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 81 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (94 bp):
TTATAAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGAC
CGCATCGACACTAAGTGTGCAACCCACGA
Found at i:31296 original size:148 final size:148
Alignment explanation
Indices: 31032--31312 Score: 481
Period size: 148 Copynumber: 1.9 Consensus size: 148
31022 TGAACGATCA
31032 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACACTA
1 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACACTA
* *
31097 AGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGCATTGACACTAAGTGTGCAACC
66 AGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGCATAGACACTAAGTGTGCAACC
31162 CACGATTATAAACGACCG
131 CACGATTATAAACGACCG
* * *
31180 TATCGGCACTAAGTGTGCAACCCACGGAATTCATATTATGTTTATGAACGACCGTATCGACACTA
1 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACACTA
** * *
31245 AGTGTGCAACTGACAAAATTCATAATAAGTTTATGAACGACCGTATAGACACTATGTGTGCAACC
66 AGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGCATAGACACTAAGTGTGCAACC
31310 CAC
131 CAC
31313 AAAATTCATA
Statistics
Matches: 124, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
148 124 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (148 bp):
TATCGACACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACACTA
AGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGCATAGACACTAAGTGTGCAACC
CACGATTATAAACGACCG
Found at i:31320 original size:202 final size:202
Alignment explanation
Indices: 30965--31365 Score: 622
Period size: 202 Copynumber: 2.0 Consensus size: 202
30955 CATAATATGT
* *
30965 TTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGAT
1 TTATAAACGACCGTATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGAC
* * *
31030 CATATCGACACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGACAC
66 CATATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATAGACAC
* * *
31095 TAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGCATTGACACTAAGTGTGCAA
131 TAAGTGTGCAACCCACAAAATTCATAATAAGCTTATGAACGACCGCATCGACACTAAGTGTGCAA
31160 CCCACGA
196 CCCACGA
* * *
31167 TTATAAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTCATATTATGTTTATGAACGAC
1 TTATAAACGACCGTATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGAC
* **
31232 CGTATCGACACTAAGTGTGCAACTGACAAAATTCATAATAAGTTTATGAACGACCGTATAGACAC
66 CATATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATAGACAC
* * * * * *
31297 TATGTGTGCAACCCACAAAATTCATAATGAGCTTATGAATGACCGTATCGACACTATGTGTGCAC
131 TAAGTGTGCAACCCACAAAATTCATAATAAGCTTATGAACGACCGCATCGACACTAAGTGTGCAA
31362 CCCA
196 CCCA
31366 AAGAACTTAT
Statistics
Matches: 179, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
202 179 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (202 bp):
TTATAAACGACCGTATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGAC
CATATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATAGACAC
TAAGTGTGCAACCCACAAAATTCATAATAAGCTTATGAACGACCGCATCGACACTAAGTGTGCAA
CCCACGA
Found at i:31379 original size:54 final size:54
Alignment explanation
Indices: 31167--31365 Score: 247
Period size: 54 Copynumber: 3.7 Consensus size: 54
31157 CAACCCACGA
* * * ** * *
31167 TTATAAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTCAT-ATTATGT
1 TTATGAACGACCGTATCGACACTATGTGTGCAACCCACAAAATTCATAATGA-GC
* ** * *
31221 TTATGAACGACCGTATCGACACTAAGTGTGCAACTGACAAAATTCATAATAAGT
1 TTATGAACGACCGTATCGACACTATGTGTGCAACCCACAAAATTCATAATGAGC
*
31275 TTATGAACGACCGTATAGACACTATGTGTGCAACCCACAAAATTCATAATGAGC
1 TTATGAACGACCGTATCGACACTATGTGTGCAACCCACAAAATTCATAATGAGC
* *
31329 TTATGAATGACCGTATCGACACTATGTGTGCACCCCA
1 TTATGAACGACCGTATCGACACTATGTGTGCAACCCA
31366 AAGAACTTAT
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 125 0.98
55 3 0.02
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (54 bp):
TTATGAACGACCGTATCGACACTATGTGTGCAACCCACAAAATTCATAATGAGC
Found at i:33225 original size:2 final size:2
Alignment explanation
Indices: 33212--33249 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
33202 TCCAGTGTAT
* *
33212 TA TA TA TG TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33250 ATTTCCATGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33593 original size:35 final size:35
Alignment explanation
Indices: 33547--33615 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
33537 ATTCATACCG
33547 TCCAGAAATTTTATTGTTCATTTGATTTATGGTAT
1 TCCAGAAATTTTATTGTTCATTTGATTTATGGTAT
33582 TCCAGAAATTTTATTGTTCATTTGATTTATGGTA
1 TCCAGAAATTTTATTGTTCATTTGATTTATGGTA
33616 CAAAAGCCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (35 bp):
TCCAGAAATTTTATTGTTCATTTGATTTATGGTAT
Found at i:41725 original size:2 final size:2
Alignment explanation
Indices: 41718--41743 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
41708 AAGAAGTGAA
41718 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
41744 GTGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42635 original size:29 final size:29
Alignment explanation
Indices: 42593--42652 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
42583 AATTATGAAG
*
42593 GATTGAATGCATTGTCTCTCCAAGAATAT
1 GATTGAATGCATTGTCTATCCAAGAATAT
42622 GATTGAATGCATTGTCTATCCAAGAATAT
1 GATTGAATGCATTGTCTATCCAAGAATAT
42651 GA
1 GA
42653 ACAACCTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (29 bp):
GATTGAATGCATTGTCTATCCAAGAATAT
Found at i:43759 original size:18 final size:18
Alignment explanation
Indices: 43717--43762 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
43707 TAGTTTGATT
*
43717 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
*
43735 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
43753 AATGAACTAA
1 AATGAACTAA
43763 AGGCATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:43838 original size:17 final size:17
Alignment explanation
Indices: 43818--43860 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
43808 ACTACTTCCC
43818 TAAATGAAATATCA-GCT
1 TAAATGAAATA-CATGCT
*
43835 TAAATGCAATACATGCT
1 TAAATGAAATACATGCT
*
43852 TTAATGAAA
1 TAAATGAAA
43861 AGCACACTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:47278 original size:16 final size:17
Alignment explanation
Indices: 47243--47308 Score: 57
Period size: 17 Copynumber: 4.0 Consensus size: 17
47233 GTGAAAATTG
*
47243 AGACAAATAAAAGATTA
1 AGACAAATAAAAGATAA
*
47260 AGACAAA-ACAAGATAA
1 AGACAAATAAAAGATAA
*
47276 AGA-AAACAAAAGGATAA
1 AGACAAATAAAA-GATAA
* *
47293 AGA-TAATTAAAGATAA
1 AGACAAATAAAAGATAA
47309 GATAGGATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
15 3 0.07
16 18 0.44
17 20 0.49
ACGTcount: A:0.67, C:0.06, G:0.14, T:0.14
Consensus pattern (17 bp):
AGACAAATAAAAGATAA
Found at i:55661 original size:20 final size:21
Alignment explanation
Indices: 55638--55677 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
55628 AATTTCACAT
55638 TCTAAC-ATCAAATT-CAACAC
1 TCTAACAAT-AAATTCCAACAC
55658 TCTAACAATAAATTCCAACA
1 TCTAACAATAAATTCCAACA
55678 TAGTACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (21 bp):
TCTAACAATAAATTCCAACAC
Found at i:56849 original size:39 final size:38
Alignment explanation
Indices: 56802--56876 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 38
56792 TGATTTTATC
56802 AAAACCATGATAAACAATATCATACATAATAGTCATCT
1 AAAACCATGATAAACAATATCATACATAATAGTCATCT
56840 AAAAGCCATGATAAACAATATCATACATAATAGTCAT
1 AAAA-CCATGATAAACAATATCATACATAATAGTCAT
56877 ATCATATTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 4 0.11
39 32 0.89
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.25
Consensus pattern (38 bp):
AAAACCATGATAAACAATATCATACATAATAGTCATCT
Found at i:56960 original size:19 final size:18
Alignment explanation
Indices: 56932--56967 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
56922 CATTTTCATT
56932 TTTCACTTTCATATTCAC
1 TTTCACTTTCATATTCAC
*
56950 TTTCACATTTCATTTTCA
1 TTTCAC-TTTCATATTCA
56968 TAATTCGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTCACTTTCATATTCAC
Found at i:56986 original size:28 final size:25
Alignment explanation
Indices: 56910--56989 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 25
56900 ATAGTACAAA
**
56910 ACTTTCATA-TCACATTTTCATTTTTC
1 ACTTTCATATTCAC--TTTCACATTTC
56936 ACTTTCATATTCACTTTCACATTTC
1 ACTTTCATATTCACTTTCACATTTC
*
56961 ATTTTCATAATTCGTACTTTCACATTTC
1 ACTTTCAT-ATTC--ACTTTCACATTTC
56989 A
1 A
56990 GAACTTTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
25 16 0.34
26 13 0.28
27 4 0.09
28 14 0.30
ACGTcount: A:0.25, C:0.24, G:0.01, T:0.50
Consensus pattern (25 bp):
ACTTTCATATTCACTTTCACATTTC
Found at i:57031 original size:18 final size:19
Alignment explanation
Indices: 57008--57043 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56998 TTCTAGACTC
57008 AACTT-ATTGCAGATTCAT
1 AACTTAATTGCAGATTCAT
*
57026 AACTTAATTTCAGATTCA
1 AACTTAATTGCAGATTCA
57044 CATGTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (19 bp):
AACTTAATTGCAGATTCAT
Found at i:57490 original size:21 final size:23
Alignment explanation
Indices: 57448--57490 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
57438 AAATGCACAT
*
57448 ATAAATATCATATTTTTGTATATA
1 ATAAATATCATA-TATTGTATATA
57472 ATAAATATCATA-ATT-TATA
1 ATAAATATCATATATTGTATA
57491 ATACCAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 2 0.11
24 12 0.67
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (23 bp):
ATAAATATCATATATTGTATATA
Found at i:62751 original size:30 final size:30
Alignment explanation
Indices: 62715--62782 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
62705 GTCACTTTGG
62715 ATCAATTCTATCAAAATGTCCCTTTCTTTA
1 ATCAATTCTATCAAAATGTCCCTTTCTTTA
62745 ATCAATTCTATCAAAATGTCCCTTTCTTTA
1 ATCAATTCTATCAAAATGTCCCTTTCTTTA
62775 ATCAATTC
1 ATCAATTC
62783 AATACTCATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.43
Consensus pattern (30 bp):
ATCAATTCTATCAAAATGTCCCTTTCTTTA
Found at i:63987 original size:24 final size:25
Alignment explanation
Indices: 63888--63989 Score: 86
Period size: 24 Copynumber: 4.2 Consensus size: 25
63878 ATATTGGGCT
* * *
63888 AGGAGTACACGA-ACGTACTAACAC
1 AGGAGTACACAATAGGTACTAATAC
*
63912 AGGAGTAC-CAAAAGGTACTAATAC
1 AGGAGTACACAATAGGTACTAATAC
* * * * *
63936 ATGAGTTCAC-ATATGCACTTATAC
1 AGGAGTACACAATAGGTACTAATAC
*
63960 AGGAGTACAC-ATAGGTACTAATAT
1 AGGAGTACACAATAGGTACTAATAC
63984 AGGAGT
1 AGGAGT
63990 GCATGAATGC
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
23 2 0.03
24 58 0.95
25 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.22
Consensus pattern (25 bp):
AGGAGTACACAATAGGTACTAATAC
Found at i:66767 original size:29 final size:31
Alignment explanation
Indices: 66719--66781 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
66709 CTTAAGTCCT
*
66719 TAAACTTTTCTAAACTTTATACTTTGGCCAC
1 TAAACTTTTCTAAAATTTATACTTTGGCCAC
**
66750 TAAA-TTTTC-AAAATTTATGTTTTGGCCAC
1 TAAACTTTTCTAAAATTTATACTTTGGCCAC
66779 TAA
1 TAA
66782 CCAAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.69
30 5 0.17
31 4 0.14
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (31 bp):
TAAACTTTTCTAAAATTTATACTTTGGCCAC
Found at i:67932 original size:35 final size:35
Alignment explanation
Indices: 67748--67932 Score: 223
Period size: 35 Copynumber: 5.3 Consensus size: 35
67738 GAGGCACCTA
* * *
67748 TTGGTGAAGTATCATGT-CTCATGGAAAGAAATCTT
1 TTGGTGAAGCATCATGTCCT-TTGGAAAGGAATCTT
*
67783 TTGGTGAAACATCATGTCCTTTGGAAAGGAATCTT
1 TTGGTGAAGCATCATGTCCTTTGGAAAGGAATCTT
*
67818 TTGGTGAAACATCATGTCCTTTGGAAAGGAATCTT
1 TTGGTGAAGCATCATGTCCTTTGGAAAGGAATCTT
*
67853 TTGGTGAAGCATCATGTCCTTTGGAAAGGGCAA-CTC
1 TTGGTGAAGCATCATGTCCTTTGGAAA-GG-AATCTT
* * * *
67889 TTGATGAAGCATAATGCCCTTTGGAAA-GACATCTC
1 TTGGTGAAGCATCATGTCCTTTGGAAAGGA-ATCTT
67924 TTGGTGAAG
1 TTGGTGAAG
67933 AATTACTTCT
Statistics
Matches: 135, Mismatches: 10, Indels: 10
0.87 0.06 0.06
Matches are distributed among these distances:
33 1 0.01
34 2 0.01
35 100 0.74
36 30 0.22
37 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (35 bp):
TTGGTGAAGCATCATGTCCTTTGGAAAGGAATCTT
Found at i:67932 original size:71 final size:69
Alignment explanation
Indices: 67769--67932 Score: 213
Period size: 71 Copynumber: 2.3 Consensus size: 69
67759 TCATGTCTCA
* * * *
67769 TGGAAAGAAATCTTTTGGTGAAACATCATGTCCTTTGGAAAGGAATCTTTTGGTGAAACATCATG
1 TGGAAAG-AATCTTTTGGTGAAGCATCATGTCCTTTGGAAAGGAATCTCTTGATGAAACATAATG
*
67834 TCCTT
65 CCCTT
*
67839 TGGAAAGGAATCTTTTGGTGAAGCATCATGTCCTTTGGAAAGGGCAA-CTCTTGATGAAGCATAA
1 TGGAAA-GAATCTTTTGGTGAAGCATCATGTCCTTTGGAAA-GG-AATCTCTTGATGAAACATAA
67903 TGCCCTT
63 TGCCCTT
*
67910 TGGAAAGACATCTCTTGGTGAAG
1 TGGAAAGA-ATCTTTTGGTGAAG
67933 AATTACTTCT
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
70 40 0.48
71 41 0.49
72 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (69 bp):
TGGAAAGAATCTTTTGGTGAAGCATCATGTCCTTTGGAAAGGAATCTCTTGATGAAACATAATGC
CCTT
Found at i:69669 original size:3 final size:3
Alignment explanation
Indices: 69655--69714 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
69645 GCTTCACCAC
*
69655 ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
69703 ATA ATA ATA ATA
1 ATA ATA ATA ATA
69715 CTACTTGAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:78995 original size:22 final size:20
Alignment explanation
Indices: 78956--79025 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 20
78946 AGTGTTATGA
* *
78956 CACTTTTTTATAGTGTGAATG
1 CACTTTTGTATAGTGTG-AGG
78977 CACTTTTGTATCAGTGTGAGG
1 CACTTTTGTAT-AGTGTGAGG
* *
78998 CACTTTAGTATTAGTGCTAAGG
1 CACTTTTGTA-TAGTG-TGAGG
79020 CACTTT
1 CACTTT
79026 CGTGATTACT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 25 0.60
22 17 0.40
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.41
Consensus pattern (20 bp):
CACTTTTGTATAGTGTGAGG
Found at i:80180 original size:30 final size:30
Alignment explanation
Indices: 80141--80220 Score: 151
Period size: 30 Copynumber: 2.7 Consensus size: 30
80131 TATTAACGTC
*
80141 AAATGGCTATATTGAAACTATTTTTTGAGT
1 AAATAGCTATATTGAAACTATTTTTTGAGT
80171 AAATAGCTATATTGAAACTATTTTTTGAGT
1 AAATAGCTATATTGAAACTATTTTTTGAGT
80201 AAATAGCTATATTGAAACTA
1 AAATAGCTATATTGAAACTA
80221 ATTGAATAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (30 bp):
AAATAGCTATATTGAAACTATTTTTTGAGT
Found at i:80958 original size:20 final size:18
Alignment explanation
Indices: 80931--80975 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
80921 GTATTTCTTT
80931 TATTTTTTTAAAGATAAAA
1 TATTTTTTTAAA-ATAAAA
*
80950 TACTTTTTTTACAATAAAA
1 TA-TTTTTTTAAAATAAAA
80969 TATTTTT
1 TATTTTT
80976 CATTAAACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 10 0.42
20 9 0.38
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (18 bp):
TATTTTTTTAAAATAAAA
Found at i:81712 original size:2 final size:2
Alignment explanation
Indices: 81705--81809 Score: 65
Period size: 2 Copynumber: 54.5 Consensus size: 2
81695 CTTGAAATAA
* * * *
81705 TC TC TC TC TC CC TC -C CC CC TC TC TC TC TC TC TC TC TC TT TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * * *
81746 TC TC TC TC CC TC CC TC TC CC T- TC CC TC -C CC CC AC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* *
81786 TC TC -C CC CC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
81810 ATATATATAT
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
1 4 0.05
2 79 0.95
ACGTcount: A:0.01, C:0.60, G:0.00, T:0.39
Consensus pattern (2 bp):
TC
Found at i:88768 original size:201 final size:203
Alignment explanation
Indices: 88392--88768 Score: 553
Period size: 201 Copynumber: 1.9 Consensus size: 203
88382 AAGACCTTGA
* *
88392 CAATTAAATCCTTATAACTTACATTCATGAGTAATATATAAACATGCATAATCAAAGGGTGCAAC
1 CAATTAAATCATTATAACTTACATTCATGAGTAATAGATAAACATGCATAATCAAAGGGTGCAAC
* *
88457 TATGACCAAATTTTTTTTATAACATGACATGATTCTTGCAATATCTCAATAACATGGAAATCTTG
66 TATGACCAAATTTTTTTTATAACATGACATGATTCTTGCAACATCTCAATAACATGAAAATCTTG
* *
88522 TTATCATAAATTGTTCATGTGAATTAAGTACATGAAATGTCATACCATATGAACTCTATCTAGTT
131 TTATCATAAATTGTTCATGTGAACTAAGTACATGAAATATCATACCATATGAACTCTATCTAGTT
88587 TACTTGGG
196 TACTTGGG
* * * * *
88595 CAATTAAATTATTATAACTTACATTTATGAGTAATAGCTAAACATGGATAATCATAGGGTGCAA-
1 CAATTAAATCATTATAACTTACATTCATGAGTAATAGATAAACATGCATAATCAAAGGGTGCAAC
* *
88659 TCATGACC-AA-TTTTTTTGTAAGATGACATGATTCTTGCAACATCTCAATAACATGAAAATCTT
66 T-ATGACCAAATTTTTTTTATAACATGACATGATTCTTGCAACATCTCAATAACATGAAAATCTT
* * * * * *
88722 GTTATCGTACATTGTTCATGTGAACTGAGTATATGGATTATCATACC
130 GTTATCATAAATTGTTCATGTGAACTAAGTACATGAAATATCATACC
88769 TTTACCTATA
Statistics
Matches: 154, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
201 88 0.57
202 3 0.02
203 63 0.41
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (203 bp):
CAATTAAATCATTATAACTTACATTCATGAGTAATAGATAAACATGCATAATCAAAGGGTGCAAC
TATGACCAAATTTTTTTTATAACATGACATGATTCTTGCAACATCTCAATAACATGAAAATCTTG
TTATCATAAATTGTTCATGTGAACTAAGTACATGAAATATCATACCATATGAACTCTATCTAGTT
TACTTGGG
Found at i:91091 original size:26 final size:26
Alignment explanation
Indices: 91059--91121 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
91049 ACTTAGTGTG
91059 TATAGTGGGCATGGCCTTATGTCTAT
1 TATAGTGGGCATGGCCTTATGTCTAT
91085 TATAGTGGGCATGGCCTTATGTCTAT
1 TATAGTGGGCATGGCCTTATGTCTAT
*
91111 TATGGTGGGCA
1 TATAGTGGGCA
91122 CAACCTTATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (26 bp):
TATAGTGGGCATGGCCTTATGTCTAT
Found at i:91128 original size:26 final size:26
Alignment explanation
Indices: 91059--91137 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
91049 ACTTAGTGTG
***
91059 TATAGTGGGCATGGCCTTATGTCTAT
1 TATAGTGGGCACAACCTTATGTCTAT
***
91085 TATAGTGGGCATGGCCTTATGTCTAT
1 TATAGTGGGCACAACCTTATGTCTAT
* *
91111 TATGGTGGGCACAACCTTATGTGTAT
1 TATAGTGGGCACAACCTTATGTCTAT
91137 T
1 T
91138 GGCATTTCAG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.38
Consensus pattern (26 bp):
TATAGTGGGCACAACCTTATGTCTAT
Found at i:91649 original size:14 final size:12
Alignment explanation
Indices: 91618--91642 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91608 AATGAACATT
91618 TTATATTTTAAA
1 TTATATTTTAAA
91630 TTATATTTTAAA
1 TTATATTTTAAA
91642 T
1 T
91643 ATTATATCTT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATATTTTAAA
Found at i:94684 original size:23 final size:23
Alignment explanation
Indices: 94656--94754 Score: 101
Period size: 23 Copynumber: 4.3 Consensus size: 23
94646 GAGTCGAGAG
*
94656 TTCTATGTAGTCCTTCGAGATAA
1 TTCTATGTAGTCCTTCGGGATAA
* * *
94679 TTCTATGTGGTCCTTCGGGACAT
1 TTCTATGTAGTCCTTCGGGATAA
* *
94702 TTCTATGCAGTTCTTCGGGATAA
1 TTCTATGTAGTCCTTCGGGATAA
* * * *
94725 TACTATGTGGTTCTTCGGGA-CA
1 TTCTATGTAGTCCTTCGGGATAA
94747 TTCTATGT
1 TTCTATGT
94755 GGCACTTCAG
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
22 8 0.13
23 54 0.87
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.40
Consensus pattern (23 bp):
TTCTATGTAGTCCTTCGGGATAA
Found at i:94708 original size:46 final size:45
Alignment explanation
Indices: 94656--94754 Score: 144
Period size: 46 Copynumber: 2.2 Consensus size: 45
94646 GAGTCGAGAG
*
94656 TTCTATGTAGTCCTTCGAGATAATTCTATGTGGTCCTTCGGGACA
1 TTCTATGTAGTCCTTCGAGATAATACTATGTGGTCCTTCGGGACA
* * * *
94701 TTTCTATGCAGTTCTTCGGGATAATACTATGTGGTTCTTCGGGACA
1 -TTCTATGTAGTCCTTCGAGATAATACTATGTGGTCCTTCGGGACA
94747 TTCTATGT
1 TTCTATGT
94755 GGCACTTCAG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 7 0.15
46 40 0.85
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.40
Consensus pattern (45 bp):
TTCTATGTAGTCCTTCGAGATAATACTATGTGGTCCTTCGGGACA
Found at i:100957 original size:46 final size:46
Alignment explanation
Indices: 100904--101180 Score: 374
Period size: 46 Copynumber: 6.0 Consensus size: 46
100894 TTATTCATTA
* * * *
100904 ATTTCATTTATGGCATCATTTCATACCTTAATGCATCCTTTTATGC
1 ATTTCAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * * * *
100950 ATTTCATTTATGGCATCCTTACATGCCTTAGTGCATCATTTCATTC
1 ATTTCAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * * **
100996 ATTTTAGCTATGGCATCCTTTCATGCCTTAATTCATCCTTTCATATA
1 ATTTCAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCAT-GC
*
101043 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
101089 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATAC
1 ATTTCAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
101135 ATTTCATTTATGGCATCCTTTCAGGCCTTAATGCATCCTTTCATGC
1 ATTTCAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
101181 TTTAATGCAT
Statistics
Matches: 206, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 163 0.79
47 43 0.21
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.44
Consensus pattern (46 bp):
ATTTCAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:101086 original size:93 final size:93
Alignment explanation
Indices: 100912--101180 Score: 400
Period size: 93 Copynumber: 2.9 Consensus size: 93
100902 TAATTTCATT
* * *
100912 TATGGCATCATTTCATACCTTAATGCATCCTTT--TATGCATTTCATTTATGGCATCCTTACATG
1 TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATAT-CATTTCATTTATGGCATCCTTTCATG
* * *
100975 CCTTAGTGCATCATTTCATTCATTTTAGC
65 CCTTAATGCATCCTTTCATGCATTTTAGC
* * * *
101004 TATGGCATCCTTTCATGCCTTAATTCATCCTTTCATATAATTTTAGTTATGGCATCCTTTCATGC
1 TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATATCATTTCATTTATGGCATCCTTTCATGC
*
101069 CTTAATGCATCCTTTCATGCATTTTAGT
66 CTTAATGCATCCTTTCATGCATTTTAGC
*
101097 TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATA-CATTTCATTTATGGCATCCTTTCAGGC
1 TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATATCATTTCATTTATGGCATCCTTTCATGC
101161 CTTAATGCATCCTTTCATGC
66 CTTAATGCATCCTTTCATGC
101181 TTTAATGCAT
Statistics
Matches: 159, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
92 73 0.46
93 83 0.52
94 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (93 bp):
TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATATCATTTCATTTATGGCATCCTTTCATGC
CTTAATGCATCCTTTCATGCATTTTAGC
Found at i:101152 original size:139 final size:138
Alignment explanation
Indices: 100897--101178 Score: 411
Period size: 139 Copynumber: 2.0 Consensus size: 138
100887 TTAGTAATTA
* * *
100897 TTCATTAATTTCATTTATGGCATCATTTCATACCTTAATGCATCCTTTTATGCATTTCATTTATG
1 TTCATTAATTTCAGTTATGGCATCATTTCATACCTTAATGCATCCTTTCATGCATTTCAGTTATG
* * * *
100962 GCATCCTTACATGCCTTAGTGCATCATTTCATTCATTTTAGCTATGGCATCCTTTCATGCCTTAA
66 GCATCCTTACATGCCTTAATGCATCATTTCATACATTTCAGCTATGGCATCCTTTCAGGCCTTAA
*
101027 TTCATCCT
131 TGCATCCT
* * * *
101035 TTCATATAATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAT
1 TTCAT-TAATTTCAGTTATGGCATCATTTCATACCTTAATGCATCCTTTCATGCATTTCAGTTAT
* * **
101100 GGCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTCATTTATGGCATCCTTTCAGGCCTTA
65 GGCATCCTTACATGCCTTAATGCATCATTTCATACATTTCAGCTATGGCATCCTTTCAGGCCTTA
101165 ATGCATCCT
130 ATGCATCCT
101174 TTCAT
1 TTCAT
101179 GCTTTAATGC
Statistics
Matches: 127, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
138 5 0.04
139 122 0.96
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.44
Consensus pattern (138 bp):
TTCATTAATTTCAGTTATGGCATCATTTCATACCTTAATGCATCCTTTCATGCATTTCAGTTATG
GCATCCTTACATGCCTTAATGCATCATTTCATACATTTCAGCTATGGCATCCTTTCAGGCCTTAA
TGCATCCT
Found at i:101176 original size:66 final size:66
Alignment explanation
Indices: 101101--101246 Score: 197
Period size: 66 Copynumber: 2.2 Consensus size: 66
101091 TTTAGTTATG
*
101101 GCATCCTTTCATGCCTTAATGCATCCTTTCATACA-TTTCATTTATG-GCATCCTTTCAGGCCTT
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTCAGTTATGAG--TCCTTTCAGGCCTT
101164 AAT
64 AAT
* * * **
101167 GCATCCTTTCATGCTTTAATGCATCCTTTCATGCATTTTTAGTTATGAGTCCTTTCATTCCTTAA
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTCAGTTATGAGTCCTTTCAGGCCTTAA
101232 T
66 T
*
101233 GCATCCTCTCATGC
1 GCATCCTTTCATGC
101247 ATTTTAGTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
66 61 0.86
67 9 0.13
68 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.11, T:0.42
Consensus pattern (66 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTCAGTTATGAGTCCTTTCAGGCCTTAA
T
Found at i:101192 original size:112 final size:112
Alignment explanation
Indices: 101055--101292 Score: 354
Period size: 112 Copynumber: 2.1 Consensus size: 112
101045 TTTAGTTATG
101055 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCA-TTTTAGTTATG-GCATCCTTTCATGCCTT
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATGAG--TCCTTTCATGCCTT
* * * *
101118 AATGCATCCTTTCATACATTTCATTTATGGCATCCTTTCAGGCCTTAAT
64 AATGCATCCTCTCATACATTTCAGTTATGACATCATTTCAGGCCTTAAT
* *
101167 GCATCCTTTCATGCTTTAATGCATCCTTTCATGCATTTTTAGTTATGAGTCCTTTCATTCCTTAA
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATGAGTCCTTTCATGCCTTAA
* * *
101232 TGCATCCTCTCATGCATTTTAGTTATGACATCATTTCATGCCTTAAT
66 TGCATCCTCTCATACATTTCAGTTATGACATCATTTCAGGCCTTAAT
*
101279 GCATCATTTCATGC
1 GCATCCTTTCATGC
101293 ATTTTAGTTA
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
112 102 0.89
113 11 0.10
114 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.11, T:0.43
Consensus pattern (112 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATGAGTCCTTTCATGCCTTAA
TGCATCCTCTCATACATTTCAGTTATGACATCATTTCAGGCCTTAAT
Found at i:101220 original size:46 final size:45
Alignment explanation
Indices: 101170--101351 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 45
101160 CCTTAATGCA
* *
101170 TCCTTTCATGCTTTAATGCATCCTTTCATGCATTTTTAGTTATGAG
1 TCCTTTCATGCCTTAATGCATCATTTCATGCA-TTTTAGTTATGAG
* * * *
101216 TCCTTTCATTCCTTAATGCATCCTCTCATGCATTTTAGTTATGACA
1 TCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGA-G
*
101262 TCATTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATG-G
1 TCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGAG
* *
101306 CATCCTTTCATGTCTTACTGCATCATTTCATGCATTTTAGTTATGA
1 --TCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGA
101352 ATTCGTTTTA
Statistics
Matches: 120, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
45 12 0.10
46 108 0.90
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (45 bp):
TCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGAG
Found at i:101269 original size:158 final size:158
Alignment explanation
Indices: 101008--101338 Score: 484
Period size: 158 Copynumber: 2.1 Consensus size: 158
100998 TTTAGCTATG
* *
101008 GCATCCTTTCATGCCTTAATTCATCCTTTCATATAATTTTAGTTATGGCATCCTTTCATGCCTTA
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATACAATTTTAGTTATGG-ATCCTTTCATGCCTTA
* * * *
101073 ATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATACATT
65 ATGCATCCTCTCATGCATTTTAGTTATGACATCATTTCATGCCTTAATGCATCATTTCATACATT
*
101138 TCATTTATGGCATCCTTTCAGGCCTTAAT
130 TCAGTTATGGCATCCTTTCAGGCCTTAAT
* * * *
101167 GCATCCTTTCATGCTTTAATGCATCCTTTCATGCATTTTTAGTTAT-GAGTCCTTTCATTCCTTA
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATACAATTTTAGTTATGGA-TCCTTTCATGCCTTA
*
101231 ATGCATCCTCTCATGCATTTTAGTTATGACATCATTTCATGCCTTAATGCATCATTTCATGCATT
65 ATGCATCCTCTCATGCATTTTAGTTATGACATCATTTCATGCCTTAATGCATCATTTCATACATT
* * * *
101296 TTAGTTATGGCATCCTTTCATGTCTTACT
130 TCAGTTATGGCATCCTTTCAGGCCTTAAT
*
101325 GCATCATTTCATGC
1 GCATCCTTTCATGC
101339 ATTTTAGTTA
Statistics
Matches: 154, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
157 1 0.01
158 112 0.73
159 41 0.27
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.44
Consensus pattern (158 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATACAATTTTAGTTATGGATCCTTTCATGCCTTAA
TGCATCCTCTCATGCATTTTAGTTATGACATCATTTCATGCCTTAATGCATCATTTCATACATTT
CAGTTATGGCATCCTTTCAGGCCTTAAT
Found at i:108190 original size:46 final size:46
Alignment explanation
Indices: 108134--108553 Score: 624
Period size: 46 Copynumber: 9.0 Consensus size: 46
108124 TTAATTTCAT
* * * *
108134 TTATGACATCCTTTCATGCCTTAATGCATCATTTCATGCATTTCAT
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* *
108180 TTATGGCATCCTTACATGCCTTAATGCATCCTTTCATTCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCA-TTTTAG
* * **
108227 TTATGGCATCCTTTCATGCCTTAATTCATCATTTCATATATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCA-TTTTAG
*
108274 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* *
108320 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCAT
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* *
108366 TTATGGCATCCTTTTATGCCTTAATGCATCCTTTCATGCATTTTTTG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCA-TTTTAG
* * **
108413 TTATGACATCGTTTCATGCCTTAATTTATCCTTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCA-TTTTAG
*
108460 TTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
108506 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
108552 TT
1 TT
108554 GTGAATTTAT
Statistics
Matches: 339, Mismatches: 33, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
46 177 0.52
47 162 0.48
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (46 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
Found at i:108411 original size:140 final size:139
Alignment explanation
Indices: 108134--108549 Score: 643
Period size: 140 Copynumber: 3.0 Consensus size: 139
108124 TTAATTTCAT
* * * *
108134 TTATGACATCCTTTCATGCCTTAATGCATCATTTCATGCATTTCATTTATGGCATCCTTACATGC
1 TTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGC
* * *
108199 CTTAATGCATCCTTTCATTCATTTTTAGTTATGGCATCCTTTCATGCCTTAATTCATCATTTCAT
66 CTTAATGCATCCTTTCATGCA-TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCAT
** *
108264 ATATTTTTAG
130 GCATTTTTTG
* *
108274 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAGTTATGGCATCCTTTCATGC
1 TTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGC
* * *
108339 CTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTTATGCCTTAATGCATCCTTTCATG
66 CTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
108404 CATTTTTTG
131 CATTTTTTG
* ** *
108413 TTATGACATCGTTTCATGCCTTAATTTATCCTTTCATGCATTTTTAGTTATGGTATCCTTTCATG
1 TTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCA-TTTTAGTTATGGCATCCTTTCATG
108478 CCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCAT
65 CCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCAT
108543 GCATTTT
130 GCATTTT
108550 AGTTGTGAAT
Statistics
Matches: 251, Mismatches: 24, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
139 80 0.32
140 171 0.68
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.46
Consensus pattern (139 bp):
TTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGC
CTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
CATTTTTTG
Found at i:108458 original size:186 final size:186
Alignment explanation
Indices: 108134--108548 Score: 704
Period size: 186 Copynumber: 2.2 Consensus size: 186
108124 TTAATTTCAT
* *
108134 TTATGACATCCTTTCATGCCTTAATGCATCATTTCATGCATTTCATTTATGGCATCCTTACATGC
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTACATGC
* *
108199 CTTAATGCATCCTTTCATTCATTTTTAGTTATGGCATCCTTTCATGCCTTAATTCATCATTTCAT
66 CTTAATGCATCCTTTCATGCATTTTTAGTTATGACATCCTTTCATGCCTTAATTCATCATTTCAT
*
108264 ATATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAG
131 ACATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAG
**
108320 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTTATGC
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTACATGC
* * * *
108385 CTTAATGCATCCTTTCATGCATTTTTTGTTATGACATCGTTTCATGCCTTAATTTATCCTTTCAT
66 CTTAATGCATCCTTTCATGCATTTTTAGTTATGACATCCTTTCATGCCTTAATTCATCATTTCAT
* * *
108450 GCATTTTTAGTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
131 ACATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAG
108506 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTT
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTT
108549 TAGTTGTGAA
Statistics
Matches: 215, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
186 215 1.00
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.46
Consensus pattern (186 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTACATGC
CTTAATGCATCCTTTCATGCATTTTTAGTTATGACATCCTTTCATGCCTTAATTCATCATTTCAT
ACATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAG
Found at i:109923 original size:24 final size:24
Alignment explanation
Indices: 109885--109939 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
109875 CTTCGGGACA
* *
109885 TTCTATGTGGCACTTCGGTGTAAT
1 TTCTATGCGGCACTTCGGTGCAAT
*
109909 TTCTATGCGGTACTTCGGTGCAAT
1 TTCTATGCGGCACTTCGGTGCAAT
*
109933 TTATATG
1 TTCTATG
109940 AGATGTGGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.42
Consensus pattern (24 bp):
TTCTATGCGGCACTTCGGTGCAAT
Found at i:110088 original size:6 final size:6
Alignment explanation
Indices: 110044--110070 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
110034 ATGAACAGTG
110044 AATGAT AATGAT AATGAT AATGAT AAT
1 AATGAT AATGAT AATGAT AATGAT AAT
110071 TATGTTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (6 bp):
AATGAT
Found at i:111314 original size:24 final size:21
Alignment explanation
Indices: 111269--111329 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 21
111259 AAAGATACGT
111269 TATCAAAAAATTATTTTTTAA
1 TATCAAAAAATTATTTTTTAA
111290 TATCAGAAAGAATTATTTTTTTAA
1 TATCA-AAA-AATTA-TTTTTTAA
*
111314 TGT-AAAAAA-TATTTTT
1 TATCAAAAAATTATTTTT
111330 ATATTTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 7 0.19
22 6 0.17
23 6 0.17
24 10 0.28
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (21 bp):
TATCAAAAAATTATTTTTTAA
Found at i:113556 original size:27 final size:28
Alignment explanation
Indices: 113525--113581 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 28
113515 AAAGAAAGTA
113525 AAAT-AAAGAAGAGAAAAAAAT-AACAAC
1 AAATAAAAGAAG-GAAAAAAATAAACAAC
*
113552 AAATAAAATAAGGAAAAAAATCAAACAAC
1 AAATAAAAGAAGGAAAAAAAT-AAACAAC
113581 A
1 A
113582 TAATTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 13 0.50
28 6 0.23
29 7 0.27
ACGTcount: A:0.74, C:0.09, G:0.09, T:0.09
Consensus pattern (28 bp):
AAATAAAAGAAGGAAAAAAATAAACAAC
Found at i:113673 original size:27 final size:26
Alignment explanation
Indices: 113617--113715 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 26
113607 GAAATGAACA
*
113617 AAAATAAAG--ACAAAATGGAATAAGAT
1 AAAATAAAGAAACAAAAT-AAATAA-AT
113643 -AAATAAAGAAACAAAGATAAATAAAT
1 AAAATAAAGAAACAAA-ATAAATAAAT
** *
113669 AAAATACGAA-AAAGTAAATTAATAAAT
1 AAAATA--AAGAAACAAAATAAATAAAT
*
113696 AAAA-AAATAAACAAAATAAA
1 AAAATAAAGAAACAAAATAAA
113716 CAAAAACAAG
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
24 2 0.03
25 17 0.29
26 3 0.05
27 28 0.47
28 7 0.12
29 2 0.03
ACGTcount: A:0.72, C:0.04, G:0.08, T:0.16
Consensus pattern (26 bp):
AAAATAAAGAAACAAAATAAATAAAT
Found at i:113713 original size:9 final size:9
Alignment explanation
Indices: 113692--113720 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
113682 GTAAATTAAT
113692 AAATAAA-A
1 AAATAAACA
113700 AAATAAACA
1 AAATAAACA
113709 AAATAAACA
1 AAATAAACA
113718 AAA
1 AAA
113721 ACAAGGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (9 bp):
AAATAAACA
Found at i:113741 original size:2 final size:2
Alignment explanation
Indices: 113734--113783 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
113724 AGGGAAAAGA
113734 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
113776 AT GT AT AT
1 AT AT AT AT
113784 TAGCTTGTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113926 original size:14 final size:15
Alignment explanation
Indices: 113898--113946 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
113888 ACATGTATGT
113898 AAAAATAAAATATAA
1 AAAAATAAAATATAA
*
113913 AAAAATAATA-ATAA
1 AAAAATAAAATATAA
* **
113927 TACTATAAAATATAA
1 AAAAATAAAATATAA
113942 AAAAA
1 AAAAA
113947 AGATTTAAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAAATAAAATATAA
Found at i:117171 original size:17 final size:17
Alignment explanation
Indices: 117149--117194 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
117139 CCCTAAACGT
*
117149 TTTTCTTTTTTTTGTTC
1 TTTTCTTTTTTTTCTTC
* * *
117166 TTTTCTTTTCTCTCTTT
1 TTTTCTTTTTTTTCTTC
117183 TTTTCTTTTTTT
1 TTTTCTTTTTTT
117195 CGACTTAGGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (17 bp):
TTTTCTTTTTTTTCTTC
Found at i:117174 original size:22 final size:22
Alignment explanation
Indices: 117149--117191 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
117139 CCCTAAACGT
*
117149 TTTTCT-TTTTTTTGTTCTTTTC
1 TTTTCTCTCTTTTT-TTCTTTTC
117171 TTTTCTCTCTTTTTTTCTTTT
1 TTTTCTCTCTTTTTTTCTTTT
117192 TTTCGACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTCTCTCTTTTTTTCTTTTC
Found at i:122168 original size:21 final size:21
Alignment explanation
Indices: 122142--122225 Score: 116
Period size: 21 Copynumber: 4.0 Consensus size: 21
122132 ATCAGATTTT
122142 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
* *
122163 CCAGGGGGTACCGATTTCCCC
1 CCAGGGGGTACAGATTCCCCC
*
122184 CCAGGGGGAACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
*
122205 CCAGAGGGTATC-GATTCCCCC
1 CCAGGGGGTA-CAGATTCCCCC
122226 TGTCTAATGG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
21 54 0.98
22 1 0.02
ACGTcount: A:0.19, C:0.38, G:0.27, T:0.15
Consensus pattern (21 bp):
CCAGGGGGTACAGATTCCCCC
Found at i:122197 original size:42 final size:41
Alignment explanation
Indices: 122142--122225 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 41
122132 ATCAGATTTT
* *
122142 CCAGGGGGTACAGATTCCCCCCCAGGGGGTACCGATTTCCCC
1 CCAGGGGGAACAGATTCCCCCCCAGAGGGTACCGA-TTCCCC
*
122184 CCAGGGGGAACAGATTCCCCCCCAGAGGGTATCGATTCCCC
1 CCAGGGGGAACAGATTCCCCCCCAGAGGGTACCGATTCCCC
122225 C
1 C
122226 TGTCTAATGG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 7 0.18
42 32 0.82
ACGTcount: A:0.19, C:0.38, G:0.27, T:0.15
Consensus pattern (41 bp):
CCAGGGGGAACAGATTCCCCCCCAGAGGGTACCGATTCCCC
Found at i:125257 original size:24 final size:24
Alignment explanation
Indices: 125229--125283 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
125219 TAACAAAAAG
*
125229 GGGGAGAAGTGTTAAGGTGTTAAA
1 GGGGAGAAATGTTAAGGTGTTAAA
*
125253 TGGGAGAAATGTTAAGGTGTTAAA
1 GGGGAGAAATGTTAAGGTGTTAAA
125277 GGGGAGA
1 GGGGAGA
125284 CAAATGGGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.42, T:0.24
Consensus pattern (24 bp):
GGGGAGAAATGTTAAGGTGTTAAA
Found at i:132860 original size:12 final size:12
Alignment explanation
Indices: 132843--132867 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
132833 TTATTTAAAG
132843 ATAAACAAACTC
1 ATAAACAAACTC
132855 ATAAACAAACTC
1 ATAAACAAACTC
132867 A
1 A
132868 CCAGAGGGGA
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:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAAACAAACTC
Found at i:134946 original size:14 final size:14
Alignment explanation
Indices: 134923--134969 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
134913 CATAATTGAA
*
134923 TTTAGGATTTAGGG
1 TTTAGTATTTAGGG
134937 TTTAGTATTTAGGG
1 TTTAGTATTTAGGG
* *
134951 TTTAGTGTTTAGGT
1 TTTAGTATTTAGGG
134965 TTTAG
1 TTTAG
134970 GGTTTATTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (14 bp):
TTTAGTATTTAGGG
Found at i:134948 original size:21 final size:22
Alignment explanation
Indices: 134922--134975 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
134912 ACATAATTGA
*
134922 ATTTAGGATTTAGGGTTTA-GT
1 ATTTAGGGTTTAGGGTTTAGGT
*
134943 ATTTAGGGTTTAGTGTTTAGGT
1 ATTTAGGGTTTAGGGTTTAGGT
134965 -TTTAGGGTTTA
1 ATTTAGGGTTTA
134976 TTGCAAAGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (22 bp):
ATTTAGGGTTTAGGGTTTAGGT
Found at i:134974 original size:14 final size:14
Alignment explanation
Indices: 134923--134975 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
134913 CATAATTGAA
134923 TTTAGGATTTAGGG
1 TTTAGGATTTAGGG
*
134937 TTTAGTATTTAGGG
1 TTTAGGATTTAGGG
*
134951 TTTAGTG-TTTAGGT
1 TTTAG-GATTTAGGG
*
134965 TTTAGGGTTTA
1 TTTAGGATTTA
134976 TTGCAAAGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
13 1 0.03
14 33 0.97
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (14 bp):
TTTAGGATTTAGGG
Found at i:135165 original size:25 final size:26
Alignment explanation
Indices: 135120--135174 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
135110 AAAAATTAGT
135120 TATTAAAAATATTATCATTAGA-AATA
1 TATTAAAAATATTATCATTAGATAA-A
* *
135146 TATTAAATAT-TTGTCATTAGATAAA
1 TATTAAAAATATTATCATTAGATAAA
135171 TATT
1 TATT
135175 TTTTTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (26 bp):
TATTAAAAATATTATCATTAGATAAA
Found at i:135487 original size:11 final size:11
Alignment explanation
Indices: 135471--135533 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
135461 GTATTATAGA
135471 ATTTTTAATAT
1 ATTTTTAATAT
135482 ATTTTTAA-A-
1 ATTTTTAATAT
135491 ATTTTATAAT-T
1 ATTTT-TAATAT
*** *
135502 ATCAATAATGT
1 ATTTTTAATAT
135513 ATTTTTAATAT
1 ATTTTTAATAT
135524 ATTTTTAATA
1 ATTTTTAATA
135534 ATGTAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 28 0.68
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:141783 original size:16 final size:16
Alignment explanation
Indices: 141759--141790 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
141749 TATCGCCGAC
*
141759 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
141775 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
141791 TGTGAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:143704 original size:28 final size:29
Alignment explanation
Indices: 143630--143705 Score: 68
Period size: 28 Copynumber: 2.7 Consensus size: 29
143620 CGGTAAAGGT
*
143630 GTAATATCTATTTAAAGATAAATATCTAAT
1 GTAATATCTATTTAAAGATAAATA-CTAAG
* ** * *
143660 TTTTTAT-AATTT-GAGATAAATA-TAAG
1 GTAATATCTATTTAAAGATAAATACTAAG
143686 GTAATATCTATTTAAAGATA
1 GTAATATCTATTTAAAGATA
143706 GCTCTCAACT
Statistics
Matches: 33, Mismatches: 11, Indels: 6
0.66 0.22 0.12
Matches are distributed among these distances:
26 7 0.21
27 4 0.12
28 14 0.42
29 4 0.12
30 4 0.12
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (29 bp):
GTAATATCTATTTAAAGATAAATACTAAG
Found at i:146786 original size:117 final size:117
Alignment explanation
Indices: 146623--146844 Score: 322
Period size: 117 Copynumber: 1.9 Consensus size: 117
146613 CATCTTCTTT
* *
146623 TGTGATGAAATTGAACCCAGGTTGAACAAGTTCATCTCTTTATGAACTTCTTCTCCCAT-GTTGG
1 TGTGATGAAATTGAACCAAGATTGAACAAGTTCATCTCTTTATGAACTTCTTCTCCC-TCGTTGG
* * *
146687 ATGAGTTCTTTTCATTATGAACTCTCCTCTAGAAATGTTGATCTACCTCCTTC
65 ATGAGTTCTTCTCATTATGAACTCCCCACTAGAAATGTTGATCTACCTCCTTC
* * * * *
146740 TGTGATGGAATTGAACTAAGATTGAACAAGTTCTTTTCATTT-TGAACTTCTTGTCCCTCGTTGG
1 TGTGATGAAATTGAACCAAGATTGAACAAGTTCATCTC-TTTATGAACTTCTTCTCCCTCGTTGG
146804 ATGAGTTCTTCTCATTATGAACTCCCCACTAGAAATGTTGA
65 ATGAGTTCTTCTCATTATGAACTCCCCACTAGAAATGTTGA
146845 GCCAAGGTTG
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
116 1 0.01
117 89 0.96
118 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (117 bp):
TGTGATGAAATTGAACCAAGATTGAACAAGTTCATCTCTTTATGAACTTCTTCTCCCTCGTTGGA
TGAGTTCTTCTCATTATGAACTCCCCACTAGAAATGTTGATCTACCTCCTTC
Found at i:146915 original size:39 final size:39
Alignment explanation
Indices: 146861--147002 Score: 149
Period size: 39 Copynumber: 3.5 Consensus size: 39
146851 GTTGAACAAA
146861 TTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAG
* * * * ** *
146900 TTCTTCTCATTATGAACTCTCTAATGTTTATCTAAGGTTGAACAAA
1 TTCTTCTCATTATGAACT-TCT--T-CTT-CCTCA--TTGGATGAG
146946 TTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAG
*
146985 TTATTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
147003 CTCCAATTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
39 40 0.49
40 3 0.04
41 3 0.04
42 3 0.04
43 3 0.04
44 3 0.04
45 3 0.04
46 23 0.28
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.45
Consensus pattern (39 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAG
Found at i:146916 original size:91 final size:89
Alignment explanation
Indices: 146761--147197 Score: 557
Period size: 85 Copynumber: 4.9 Consensus size: 89
146751 TGAACTAAGA
* * * * *
146761 TTGAACAAGTTCTTTTCATTTTGAACTTCTTGTCCCTCGTTGGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAAC
146826 TCCCCACTAGAAATGTTGAGCCAAGG
66 T-CCCACT-GAAATGTTGAGCCAAGG
*
146852 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAAC
* * * *
146917 T--CTCT--AATGTTTATCTAAGG
66 TCCCACTGAAATGTTGAGCCAAGG
* *
146937 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTATTCTCATTATGAAC
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAAC
* *
147002 TCTC-C---AATTTTGAGCCAAGG
66 TCCCACTGAAATGTTGAGCCAAGG
* * * * *
147022 TTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCTCATCGGATGAGTTATTTTCATTATGAAC
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAAC
147087 TCTCCACTGGAAATGTTGAGCCAAGG
66 TC-CCACT-GAAATGTTGAGCCAAGG
* *
147113 TTGAACAAATTCTTCTCATTATGAATTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAAC
* *
147178 TTTCCTCTGGAAATGTTGAG
66 -TCCCACT-GAAATGTTGAG
147198 TGGTTTATCT
Statistics
Matches: 306, Mismatches: 31, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
85 150 0.49
86 2 0.01
87 2 0.01
88 3 0.01
91 148 0.48
92 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (89 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAAC
TCCCACTGAAATGTTGAGCCAAGG
Found at i:149249 original size:7 final size:7
Alignment explanation
Indices: 149237--149429 Score: 150
Period size: 7 Copynumber: 26.7 Consensus size: 7
149227 TTTCAAAAAA
149237 TTTCTTT
1 TTTCTTT
149244 TTTC--T
1 TTTCTTT
149249 TTTC-TT
1 TTTCTTT
149255 TTTCTTT
1 TTTCTTT
149262 TTTC-TT
1 TTTCTTT
*
149268 TTTCTTC
1 TTTCTTT
149275 TTT-TTT
1 TTTCTTT
149281 TTTCTTTT
1 TTTC-TTT
149289 TTTCTTT
1 TTTCTTT
149296 TTTCTTTT
1 TTTC-TTT
*
149304 TTTTTTCT
1 TTTCTT-T
149312 TTTCCTTT
1 TTT-CTTT
149320 TTTCTTT
1 TTTCTTT
149327 TTTCTTT
1 TTTCTTT
149334 TTTCTTT
1 TTTCTTT
149341 TTTCTTTT
1 TTTC-TTT
149349 TTTCTATT
1 TTTCT-TT
149357 TTTCTATT
1 TTTCT-TT
* *
149365 TTCCTACT
1 TTTCT-TT
149373 TTTCTCTT
1 TTTCT-TT
*
149381 TTTATTT
1 TTTCTTT
149388 TTCTCTCTT
1 TT-TCT-TT
149397 TTT-TTAT
1 TTTCTT-T
*
149404 TTT-TTCC
1 TTTCTT-T
149411 TTTC-TT
1 TTTCTTT
149417 TTTCTTT
1 TTTCTTT
149424 TCTTCT
1 T-TTCT
149430 CTTCAAAACA
Statistics
Matches: 156, Mismatches: 14, Indels: 31
0.78 0.07 0.15
Matches are distributed among these distances:
5 5 0.03
6 21 0.13
7 64 0.41
8 60 0.38
9 6 0.04
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTCTTT
Found at i:149260 original size:18 final size:18
Alignment explanation
Indices: 149237--149429 Score: 136
Period size: 18 Copynumber: 10.7 Consensus size: 18
149227 TTTCAAAAAA
149237 TTTCTTTTTTCTTTTCTT
1 TTTCTTTTTTCTTTTCTT
149255 TTTCTTTTTTCTTTTTCTT
1 TTTCTTTTTTC-TTTTCTT
149274 CTTT-TTTTTTC--TT-TT
1 -TTTCTTTTTTCTTTTCTT
*
149289 TTTCTTTTTTCTTTTTTT
1 TTTCTTTTTTCTTTTCTT
149307 TTTCTTTTCCTT-TTTTCTTT
1 TTTCTTTT--TTCTTTTC-TT
149327 TTTCTTTTTTCTTTT-TT
1 TTTCTTTTTTCTTTTCTT
149344 CTTT-TTTTCTAT-TTTTCTAT
1 -TTTCTTTT-T-TCTTTTCT-T
* ** *
149364 TTTCCTACTT-TTCTCTT
1 TTTCTTTTTTCTTTTCTT
* *
149381 TTTATTTTTCTCTCTT-TT
1 TTTCTTTTT-TCTTTTCTT
* *
149399 TTTATTTTTTCCTTTCTT
1 TTTCTTTTTTCTTTTCTT
149417 TTTCTTTTCTTCT
1 TTTCTTTT-TTCT
149430 CTTCAAAACA
Statistics
Matches: 140, Mismatches: 15, Indels: 39
0.72 0.08 0.20
Matches are distributed among these distances:
14 3 0.02
15 9 0.06
16 2 0.01
17 18 0.13
18 58 0.41
19 33 0.24
20 17 0.12
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTCTTTTTTCTTTTCTT
Found at i:149294 original size:52 final size:52
Alignment explanation
Indices: 149237--149429 Score: 196
Period size: 52 Copynumber: 3.6 Consensus size: 52
149227 TTTCAAAAAA
*
149237 TTTCTTTTTTCTTTTCTTTTTCTTTTTTCTTTTTCTTCTTTTTTTTTCTTTT
1 TTTCTTTTTTCTTTTCTTTTTCTTTTTTCTTTTTCTTTTTTTTTTTTCTTTT
* *
149289 TTTCTTTTTTCTTTTTTTTTTC-TTTTCCTTTTTTCTTTTTTCTTTTTTC-TTT
1 TTTCTTTTTTCTTTTCTTTTTCTTTTTTC-TTTTTCTTTTTT-TTTTTTCTTTT
* *
149341 TTTC-TTTTT-TTCTATTTTTCTATTTTCCTACTTTTCTCTTTTTATTTTTCTCTCTTTT
1 TTTCTTTTTTCTTTTCTTTTTCT-TTTT--T-CTTTT-TCTTTTT-TTTTT-T-TCTTTT
* *
149399 TTTATTTTTTCCTTTCTTTTTCTTTTCTTCT
1 TTTCTTTTTTCTTTTCTTTTTCTTTT-TTCT
149430 CTTCAAAACA
Statistics
Matches: 116, Mismatches: 10, Indels: 25
0.77 0.07 0.17
Matches are distributed among these distances:
50 9 0.08
51 10 0.09
52 43 0.37
53 7 0.06
54 4 0.03
55 12 0.10
56 2 0.02
57 4 0.03
58 7 0.06
59 8 0.07
60 10 0.09
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (52 bp):
TTTCTTTTTTCTTTTCTTTTTCTTTTTTCTTTTTCTTTTTTTTTTTTCTTTT
Found at i:149308 original size:45 final size:45
Alignment explanation
Indices: 149237--149427 Score: 171
Period size: 45 Copynumber: 4.1 Consensus size: 45
149227 TTTCAAAAAA
* *
149237 TTTCTTTTTTCTTTTCTT-TTTCTTTTTTCTTTTTCTTCTTT-TTT
1 TTTCTTTTTTCTTTT-TTCTTTTTTTTTTCTTTTCCTTCTTTCTTT
*
149281 TTTCTTTTTTTCTTTTTTCTTTTTTTTTTCTTTTCCTTTTTTCTTT
1 TTTC-TTTTTTCTTTTTTCTTTTTTTTTTCTTTTCCTTCTTTCTTT
* *
149327 TTTCTTTTTTCTTTTTTCTTTTTTTCTAT-TTTT-CTAT-TTTCCTACT
1 TTTCTTTTTTCTTTTTTCTTTTTTT-TTTCTTTTCCT-TCTTT-CT-TT
*
149373 TTTCTCTTTTTATTTTTCTCTCTTTTTTTATT-TTTTCCTTTCTTT-TTCT
1 TTTCT-TTTTTCTTTTT-TCT-TTTTTTT-TTCTTTTCC-TTCTTTCTT-T
149422 TTTCTT
1 TTTCTT
149428 CTCTTCAAAA
Statistics
Matches: 124, Mismatches: 8, Indels: 26
0.78 0.05 0.16
Matches are distributed among these distances:
44 11 0.09
45 59 0.48
46 15 0.12
47 10 0.08
48 5 0.04
49 18 0.15
50 2 0.02
51 4 0.03
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (45 bp):
TTTCTTTTTTCTTTTTTCTTTTTTTTTTCTTTTCCTTCTTTCTTT
Found at i:149359 original size:1 final size:1
Alignment explanation
Indices: 149241--149351 Score: 78
Period size: 1 Copynumber: 111.0 Consensus size: 1
149231 AAAAAATTTC
* * * * * * * * *
149241 TTTTTTCTTTTCTTTTTCTTTTTTCTTTTTCTTCTTTTTTTTTCTTTTTTTCTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** * * * *
149306 TTTTCTTTTCCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
149352 CTATTTTTCT
Statistics
Matches: 80, Mismatches: 30, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 80 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:149432 original size:16 final size:15
Alignment explanation
Indices: 149237--149432 Score: 133
Period size: 16 Copynumber: 13.0 Consensus size: 15
149227 TTTCAAAAAA
149237 TTTC-TTTTT-TC-T
1 TTTCTTTTTTCTCTT
149249 TTTC-TTTTTCT-TT
1 TTTCTTTTTTCTCTT
*
149262 TTTC-TTTTTCT-TC
1 TTTCTTTTTTCTCTT
*
149275 TTT-TTTTTTCTTTT
1 TTTCTTTTTTCTCTT
*
149289 TTTCTTTTTTCTTTT
1 TTTCTTTTTTCTCTT
*
149304 TTTTTTCTTTTC-CTTT
1 TTTCTT-TTTTCTC-TT
149320 TTTCTTTTTTCT-TT
1 TTTCTTTTTTCTCTT
*
149334 TTTCTTTTTTCTTTT
1 TTTCTTTTTTCTCTT
*
149349 TTTCTATTTTTCTATT
1 TTTCT-TTTTTCTCTT
* *
149365 TTCCTACTTTTCTCTT
1 TTTCT-TTTTTCTCTT
*
149381 TTTATTTTTCTCTCTTTT
1 TTTCTTTTT-TCTC--TT
*
149399 TTTATTTTTTCCTTTCTT
1 TTTCTTTTTT-C--TCTT
149417 TTTCTTTTCTTCTCTT
1 TTTCTTTT-TTCTCTT
149433 CAAAACAAAA
Statistics
Matches: 154, Mismatches: 13, Indels: 30
0.78 0.07 0.15
Matches are distributed among these distances:
12 9 0.06
13 24 0.16
14 18 0.12
15 31 0.20
16 45 0.29
17 1 0.01
18 22 0.14
19 2 0.01
20 2 0.01
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTCTTTTTTCTCTT
Found at i:156817 original size:400 final size:400
Alignment explanation
Indices: 156077--156873 Score: 1515
Period size: 400 Copynumber: 2.0 Consensus size: 400
156067 GGTCCTTCAG
*
156077 GGACCAAAATACAAAAACACAGAAAATGTTCAGGAGGTAAATGCAATTATACCTGAATGTTTTTC
1 GGACCAAAATACAAAAACACAGAAAATGTTCAGGAGGTAAATGCAATTATACCTGAAAGTTTTTC
*
156142 TCTAAATACCAAGTTTTGGTTTTTTCATTTGAACCGAAAAATAGAATTTTTTTTAGAGTTCTCTA
66 TATAAATACCAAGTTTTGGTTTTTTCATTTGAACCGAAAAATAGAATTTTTTTTAGAGTTCTCTA
156207 TATTCTCCCTCGGCCGGCCCACTGCTAGTTGCCTTCCCCGCCCCTGGCCGCTGCACATGGTGGCT
131 TATTCTCCCTCGGCCGGCCCACTGCTAGTTGCCTTCCCCGCCCCTGGCCGCTGCACATGGTGGCT
156272 GAAAATCTCATAATGATCCAAAACGCTCCCCTAGCATAGATATACTAACCTAGAAATTTACTTAG
196 GAAAATCTCATAATGATCCAAAACGCTCCCCTAGCATAGATATACTAACCTAGAAATTTACTTAG
* *
156337 GGCTAGAACCACCGAAAAAAGCCTAAAAACCACCCTAAATCGCCTCGACTCTTCGATTTCTTCTC
261 CGCTAGAACCACCGAAAAAAGCCTAAAAACCACCCTAAATCGCCTCGACTCTTCAATTTCTTCTC
*
156402 ACTCCGACCACCACGGTTCGGGTTTATCCCCTCACCAGGTAAATACTCACTCTTATCTCTCTTTC
326 ACTCCGACCACCACGGCTCGGGTTTATCCCCTCACCAGGTAAATACTCACTCTTATCTCTCTTTC
156467 TTTCTCTGAA
391 TTTCTCTGAA
156477 GGACCAAAATACAAAAACACA-ACAAATGTTCAGGAGGTAAATGCAATTATACCTGAAAGTTTTT
1 GGACCAAAATACAAAAACACAGA-AAATGTTCAGGAGGTAAATGCAATTATACCTGAAAGTTTTT
156541 CTATAAATACCAAGTTTTGGTTTTTTCATTTGAACCGAAAAATAGAATTTTTTTTAGAGTTCTCT
65 CTATAAATACCAAGTTTTGGTTTTTTCATTTGAACCGAAAAATAGAATTTTTTTTAGAGTTCTCT
*
156606 CTATTCTCCCTCGGCCGGCCCACTGCTAGTTGCCTTCCCCGCCCCTGGCCGCTGCACATGGTGGC
130 ATATTCTCCCTCGGCCGGCCCACTGCTAGTTGCCTTCCCCGCCCCTGGCCGCTGCACATGGTGGC
*
156671 TGAAAATCTCATAATGATTCAAAACGCTCCCCTAGCATAGATATACTAACCTAGAAATTTACTTA
195 TGAAAATCTCATAATGATCCAAAACGCTCCCCTAGCATAGATATACTAACCTAGAAATTTACTTA
156736 GCGCTAGAACCACCGAAAAAAGCCTAAAAACCACCCTAAATCGCCTCGACTCTTCAATTTCTTCT
260 GCGCTAGAACCACCGAAAAAAGCCTAAAAACCACCCTAAATCGCCTCGACTCTTCAATTTCTTCT
156801 CACTCCGACCACCACGGCTCGGGTTTATCCCCTCACCAGGTAAATACTCACTCTTATCTCTCTTT
325 CACTCCGACCACCACGGCTCGGGTTTATCCCCTCACCAGGTAAATACTCACTCTTATCTCTCTTT
156866 CTTTCTCT
390 CTTTCTCT
156874 ATTTATTGTA
Statistics
Matches: 389, Mismatches: 7, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
399 1 0.00
400 388 1.00
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (400 bp):
GGACCAAAATACAAAAACACAGAAAATGTTCAGGAGGTAAATGCAATTATACCTGAAAGTTTTTC
TATAAATACCAAGTTTTGGTTTTTTCATTTGAACCGAAAAATAGAATTTTTTTTAGAGTTCTCTA
TATTCTCCCTCGGCCGGCCCACTGCTAGTTGCCTTCCCCGCCCCTGGCCGCTGCACATGGTGGCT
GAAAATCTCATAATGATCCAAAACGCTCCCCTAGCATAGATATACTAACCTAGAAATTTACTTAG
CGCTAGAACCACCGAAAAAAGCCTAAAAACCACCCTAAATCGCCTCGACTCTTCAATTTCTTCTC
ACTCCGACCACCACGGCTCGGGTTTATCCCCTCACCAGGTAAATACTCACTCTTATCTCTCTTTC
TTTCTCTGAA
Found at i:159074 original size:19 final size:17
Alignment explanation
Indices: 159041--159089 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
159031 ATTCGATACA
159041 AATAATATAATTTAAAG
1 AATAATATAATTTAAAG
*
159058 AATAATTATACATTTAAACT
1 AATAA-TATA-ATTTAAA-G
159078 AA-AATATAATTT
1 AATAATATAATTT
159090 TATAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 9 0.32
18 8 0.29
19 9 0.32
20 2 0.07
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (17 bp):
AATAATATAATTTAAAG
Found at i:159383 original size:44 final size:48
Alignment explanation
Indices: 159301--159425 Score: 123
Period size: 44 Copynumber: 2.6 Consensus size: 48
159291 TTTTTCTTTC
* * ***
159301 TTTTTCCATGAATTTGTTATTTATCTTAAAATTTTGTTAG-T-T-TTT-
1 TTTTTCC-TGATTTTGTTATTCATCTTAAAAAAGTGTTAGCTATATTTA
159346 TTTTTCCTGATTTTGTTATTCATCTTAAAAAAGTGTTAGCTATATTTGA
1 TTTTTCCTGATTTTGTTATTCATCTTAAAAAAGTGTTAGCTATATTT-A
** *
159395 TATTTTTGTGATTTTGTTGTTCATCTTAAAA
1 T-TTTTCCTGATTTTGTTATTCATCTTAAAA
159426 TATATTGACC
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
44 27 0.41
45 8 0.12
46 1 0.02
47 3 0.05
49 1 0.02
50 26 0.39
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.57
Consensus pattern (48 bp):
TTTTTCCTGATTTTGTTATTCATCTTAAAAAAGTGTTAGCTATATTTA
Found at i:160685 original size:13 final size:13
Alignment explanation
Indices: 160641--160687 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
160631 TTCCTTGTAC
160641 TTGAATCTCTTTG
1 TTGAATCTCTTTG
*
160654 TTG-ATCTCATT-
1 TTGAATCTCTTTG
*
160665 TCGCAATCTCTTTG
1 TTG-AATCTCTTTG
160679 TTGAATCTC
1 TTGAATCTC
160688 GGAGAAAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
11 2 0.07
12 7 0.26
13 16 0.59
14 2 0.07
ACGTcount: A:0.17, C:0.21, G:0.13, T:0.49
Consensus pattern (13 bp):
TTGAATCTCTTTG
Found at i:161459 original size:23 final size:23
Alignment explanation
Indices: 161433--161477 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
161423 ATTTAATATT
161433 CATTAAAAATAGATAAGCATGAC
1 CATTAAAAATAGATAAGCATGAC
161456 CATTAAAAATAGATAAGCATGA
1 CATTAAAAATAGATAAGCATGA
161478 AAATAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.53, C:0.11, G:0.13, T:0.22
Consensus pattern (23 bp):
CATTAAAAATAGATAAGCATGAC
Found at i:163049 original size:22 final size:22
Alignment explanation
Indices: 163009--163051 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
162999 AATATACAAT
* *
163009 ATGAACAATACCGTTAACAGTA
1 ATGAACAATAACGTGAACAGTA
*
163031 ATGAACAATAATGTGAACAGT
1 ATGAACAATAACGTGAACAGT
163052 GAACAATGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (22 bp):
ATGAACAATAACGTGAACAGTA
Found at i:165195 original size:19 final size:19
Alignment explanation
Indices: 165171--165209 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
165161 GTGAACAATA
165171 CCATGTTGTAAACAAAATT
1 CCATGTTGTAAACAAAATT
165190 CCATGTTGTAAACAAAATT
1 CCATGTTGTAAACAAAATT
165209 C
1 C
165210 ACCAAATGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (19 bp):
CCATGTTGTAAACAAAATT
Found at i:168056 original size:72 final size:72
Alignment explanation
Indices: 167967--168124 Score: 226
Period size: 72 Copynumber: 2.2 Consensus size: 72
167957 AACTTTGATG
* * * * *
167967 AAAGTTTTGAAACTCTTACTTAAAAATATGACCGTTGAAGAAAATTGGGCCGTTAAAACAGTTTC
1 AAAGTTTCGAAACTCTTACTTAAAAATATGACCGTTAAAGAAAATCGGGCCGTTAAAACAATTTA
*
168032 TGGGTGC
66 TAGGTGC
* ** *
168039 AAAGTTTCGAAACTCTTACTTAAAAATATGATCGTTAAAGAAAATCGGTTCGTTAAGACAATTTA
1 AAAGTTTCGAAACTCTTACTTAAAAATATGACCGTTAAAGAAAATCGGGCCGTTAAAACAATTTA
168104 TAGGTGC
66 TAGGTGC
168111 AAAGTTTCGAAACT
1 AAAGTTTCGAAACT
168125 TCTGTAAATT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.31
Consensus pattern (72 bp):
AAAGTTTCGAAACTCTTACTTAAAAATATGACCGTTAAAGAAAATCGGGCCGTTAAAACAATTTA
TAGGTGC
Found at i:168180 original size:20 final size:22
Alignment explanation
Indices: 168133--168180 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
168123 CTTCTGTAAA
*
168133 TTTTCAAAACTCTTAATGAAAG
1 TTTTCAAAACTCTTAATCAAAG
168155 -TTTCAAAACTCTT-A-CAAAG
1 TTTTCAAAACTCTTAATCAAAG
168174 TTTTCAA
1 TTTTCAA
168181 CCTATGAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.17
20 7 0.29
21 13 0.54
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.38
Consensus pattern (22 bp):
TTTTCAAAACTCTTAATCAAAG
Found at i:168218 original size:12 final size:12
Alignment explanation
Indices: 168201--168225 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
168191 ATACCCGTGT
168201 ATGAACAATGTC
1 ATGAACAATGTC
168213 ATGAACAATGTC
1 ATGAACAATGTC
168225 A
1 A
168226 AATAGTGTCT
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:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (12 bp):
ATGAACAATGTC
Found at i:169096 original size:55 final size:54
Alignment explanation
Indices: 169010--169116 Score: 160
Period size: 55 Copynumber: 2.0 Consensus size: 54
169000 AGAAAATCAA
* *
169010 ATATTATTTTAAAATTAGATTTAAATCAAATTAATTGAATACTTTTAATATCTT
1 ATATTATTTTAAAATCAGATTTAAATCAAATTAATTGAATAATTTTAATATCTT
* * *
169064 ATATTATTTTAAAAATCATATTTTAATCAAATTAATTGAATAATTTTGATATC
1 ATATTATTTT-AAAATCAGATTTAAATCAAATTAATTGAATAATTTTAATATC
169117 AGAAGCCATT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
54 10 0.21
55 37 0.79
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.48
Consensus pattern (54 bp):
ATATTATTTTAAAATCAGATTTAAATCAAATTAATTGAATAATTTTAATATCTT
Found at i:202544 original size:24 final size:25
Alignment explanation
Indices: 202487--202544 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
202477 ACCTTTGTGT
* *
202487 ACTCCAGTATTAGTGCATTTGATGC
1 ACTCCTGTATTAATGCATTTGATGC
* *
202512 ACTCATGTATTAATGC-TTTTATGC
1 ACTCCTGTATTAATGCATTTGATGC
202536 ACTCCTGTA
1 ACTCCTGTA
202545 ACAGTGCATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.40
Consensus pattern (25 bp):
ACTCCTGTATTAATGCATTTGATGC
Found at i:210259 original size:24 final size:24
Alignment explanation
Indices: 210222--210302 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
210212 GTGTACTGTA
210222 GTATTAGTGCCTTTGATGCACTCCT
1 GTATTAGTG-CTTTGATGCACTCCT
* *
210247 GTATTAGTGCTTTTATGCAATCCT
1 GTATTAGTGCTTTGATGCACTCCT
* * * *
210271 ATAATAGTGCATCTG-TGCACTCTT
1 GTATTAGTGC-TTTGATGCACTCCT
210295 GTATTAGT
1 GTATTAGT
210303 ACCTTTGGGT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
24 34 0.76
25 11 0.24
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (24 bp):
GTATTAGTGCTTTGATGCACTCCT
Found at i:214928 original size:20 final size:20
Alignment explanation
Indices: 214909--214945 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
214899 TAATATTATG
214909 GAAA-TTAATGTTAGAATAT
1 GAAATTTAATGTTAGAATAT
*
214928 GAAATTTGATGTTAGAAT
1 GAAATTTAATGTTAGAAT
214946 GAGTAATTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (20 bp):
GAAATTTAATGTTAGAATAT
Found at i:216089 original size:24 final size:24
Alignment explanation
Indices: 216043--216089 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
216033 ATATTATGGC
* *
216043 CTTTGATGCACTCATGTATTAGTT
1 CTTTGATGCACTCATATAATAGTT
* *
216067 CTTTTATGCACTCCTATAATAGT
1 CTTTGATGCACTCATATAATAGT
216090 GTGACTGTGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (24 bp):
CTTTGATGCACTCATATAATAGTT
Found at i:216127 original size:24 final size:24
Alignment explanation
Indices: 216100--216154 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
216090 GTGACTGTGC
* *
216100 ACTCATGTATTAGTACCTTTGGC-T
1 ACTCATGTATTAATACATTT-GCAT
* *
216124 ACTCCTATATTAATACATTTGCAT
1 ACTCATGTATTAATACATTTGCAT
216148 ACTCATG
1 ACTCATG
216155 GTACTATATG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (24 bp):
ACTCATGTATTAATACATTTGCAT
Found at i:220534 original size:24 final size:24
Alignment explanation
Indices: 220501--220561 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
220491 GCCTTTGCTA
* *
220501 CACTCATGTATTATTGCATTTATG
1 CACTCATGTATTAATGCATATATG
* * *
220525 CACTCCTGTAATAATGCATATGTG
1 CACTCATGTATTAATGCATATATG
*
220549 CACTCTTGTATTA
1 CACTCATGTATTA
220562 GTACCTTTGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (24 bp):
CACTCATGTATTAATGCATATATG
Found at i:227352 original size:10 final size:10
Alignment explanation
Indices: 227337--227362 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
227327 TCCCATCTAT
227337 ATTTAAAAAA
1 ATTTAAAAAA
227347 ATTTAAAAAA
1 ATTTAAAAAA
227357 ATTTAA
1 ATTTAA
227363 TCAAGTCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATTTAAAAAA
Found at i:238615 original size:3 final size:3
Alignment explanation
Indices: 238589--238635 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
238579 TTTTATTTTA
* * *
238589 ATT ATA ATT TTT ATT CTT -TT ATT ATT ATT A-T ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
238635 A
1 A
238636 AAATAGTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:238624 original size:14 final size:14
Alignment explanation
Indices: 238607--238633 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
238597 TTTTATTCTT
238607 TTATTATTATTATA
1 TTATTATTATTATA
238621 TTATTATTATTAT
1 TTATTATTATTAT
238634 TAAAATAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:239862 original size:2 final size:2
Alignment explanation
Indices: 239855--239900 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
239845 ATTTATATTA
239855 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
239896 AT AT A
1 AT AT A
239901 ATGAAATAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:239909 original size:21 final size:21
Alignment explanation
Indices: 239855--239909 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
239845 ATTTATATTA
*
239855 ATATATATATAT-ATATATAT
1 ATATATATAAATAATATATAT
*
239875 ATATATATATATAATATATAT
1 ATATATATAAATAATATATAT
239896 ATATA-ATGAAATAA
1 ATATATAT-AAATAA
239910 AAATATAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATATATATAAATAATATATAT
Found at i:241400 original size:11 final size:11
Alignment explanation
Indices: 241384--241413 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
241374 ACTAATCATT
241384 TTATTTTTTTC
1 TTATTTTTTTC
241395 TTATTTTTTTC
1 TTATTTTTTTC
241406 -TATTTTTT
1 TTATTTTTT
241414 ATGTACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (11 bp):
TTATTTTTTTC
Found at i:243610 original size:90 final size:90
Alignment explanation
Indices: 243437--243603 Score: 253
Period size: 90 Copynumber: 1.9 Consensus size: 90
243427 TATGTACTCA
* * *
243437 TATTATATTATTATATACAATAAAGCTTGAGTTGTCCCTCTAAAGAATTTGGTTAATCACCCCGG
1 TATTATACTATTATATACAATAAAGCTTGAGCTGTCCCTCTAAAGAAATTGGTTAATCACCCCGG
*
243502 CTTTATGGATAATATTCAACTAGCC
66 CTTTATAGATAATATTCAACTAGCC
* * ** *
243527 TATTATACTATTATATGCAATAAAGCTTGAGCTGTCCCTCTAGAGAAATTGGTTAATTTCCCTGG
1 TATTATACTATTATATACAATAAAGCTTGAGCTGTCCCTCTAAAGAAATTGGTTAATCACCCCGG
243592 CTTTATAGATAA
66 CTTTATAGATAA
243604 GTTTCAAATA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 68 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (90 bp):
TATTATACTATTATATACAATAAAGCTTGAGCTGTCCCTCTAAAGAAATTGGTTAATCACCCCGG
CTTTATAGATAATATTCAACTAGCC
Found at i:245903 original size:36 final size:35
Alignment explanation
Indices: 245862--246038 Score: 92
Period size: 36 Copynumber: 4.9 Consensus size: 35
245852 TTTATCTCAC
245862 TTGAGATTGTTTTTCTTAAAATAAACTGTTTCTCGA
1 TTGAGATTGTTTTTCTTAAAATAAA-TGTTTCTCGA
** ** **
245898 TTGAGAAAGTTTCACTCGAAATAGCAAT-TTATCTC-A
1 TTGAGATTGTTTTTCTTAAAATA--AATGTT-TCTCGA
*
245934 CTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTCGA
1 -TTGAGATTGTTTTTCTTAAAATAAA-TGTTTCTCGA
* ** ** **
245971 TGGAGAAAGTTTCACTCGAAATAGTAAT-TTATCTC-A
1 TTGAGATTGTTTTTCTTAAAATA--AATGTT-TCTCGA
*
246007 CTTGAGATTGTTTTTCTTAAAACAAAATGTTT
1 -TTGAGATTGTTTTTCTTAAAA-TAAATGTTT
246039 ATCGCGTGAG
Statistics
Matches: 99, Mismatches: 29, Indels: 26
0.64 0.19 0.17
Matches are distributed among these distances:
35 2 0.02
36 47 0.47
37 45 0.45
38 5 0.05
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (35 bp):
TTGAGATTGTTTTTCTTAAAATAAATGTTTCTCGA
Found at i:245911 original size:73 final size:73
Alignment explanation
Indices: 245756--246103 Score: 448
Period size: 73 Copynumber: 4.7 Consensus size: 73
245746 CGCTTGATAC
* * * * ** * *
245756 AAGTTTCACGCGAAATAGAAAAATTATCGCACTTGA-AGTAATTTTTCTCAAAGCAAAGACT-TT
1 AAGTTTCACTCGAAATAG-CAATTTATCTCACTTGAGA-TTGTTTTTCTTAAAACAAA-A-TGTT
* *
245819 TCTCGCTAGAGA
62 TCTCGATTGAGA
* * * *
245831 AAGTTTCACTTGAAATAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAATAAACTGTTTCTC
1 AAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTC
245896 GATTGAGA
66 GATTGAGA
*
245904 AAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTC
1 AAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTC
*
245969 GATGGAGA
66 GATTGAGA
* *
245977 AAGTTTCACTCGAAATAGTAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTATC
1 AAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTC
**
246042 GCGTGAGA
66 GATTGAGA
* *
246050 AAATTTAACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
1 AAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
246104 TTTCCAGAAG
Statistics
Matches: 243, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
72 1 0.00
73 198 0.81
74 28 0.12
75 16 0.07
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (73 bp):
AAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTC
GATTGAGA
Found at i:245939 original size:37 final size:36
Alignment explanation
Indices: 245827--246086 Score: 120
Period size: 37 Copynumber: 7.1 Consensus size: 36
245817 TTTCTCGCTA
*
245827 GAGAAAGTTTCACTTGAAATAACAATTTATCTCACTT
1 GAGAAAGTTTCACTCGAAAT-ACAATTTATCTCACTT
** ** **
245864 GAGATTGTTTTTCTTAAAATA-AACTGTT-TCTCGA-TT
1 GAGAAAGTTTCACTCGAAATACAA-T-TTATCTC-ACTT
245900 GAGAAAGTTTCACTCGAAATAGCAATTTATCTCACTT
1 GAGAAAGTTTCACTCGAAATA-CAATTTATCTCACTT
** ** * * *
245937 GAGATTGTTTTTCT-TAAA-ACAAATTGTTTCTCGA-TG
1 GAGAAAGTTTCACTCGAAATAC-AATT-TATCTC-ACTT
*
245973 GAGAAAGTTTCACTCGAAATAGTAATTTATCTCACTT
1 GAGAAAGTTTCACTCGAAATA-CAATTTATCTCACTT
** ** ** * * * * *
246010 GAGATTGTTTTTCTTAAAACAAAATGTT-TATCGCGT
1 GAGAAAGTTTCACTCGAAATACAAT-TTATCTCACTT
* *
246046 GAGAAAATTTAACTCGAAATAGCAATTTATCTCACTT
1 GAGAAAGTTTCACTCGAAATA-CAATTTATCTCACTT
246083 GAGA
1 GAGA
246087 TTGTTTTTCT
Statistics
Matches: 157, Mismatches: 49, Indels: 34
0.65 0.20 0.14
Matches are distributed among these distances:
34 1 0.01
35 7 0.04
36 69 0.44
37 73 0.46
38 7 0.04
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (36 bp):
GAGAAAGTTTCACTCGAAATACAATTTATCTCACTT
Found at i:246321 original size:123 final size:124
Alignment explanation
Indices: 246102--246480 Score: 450
Period size: 123 Copynumber: 3.1 Consensus size: 124
246092 TTTCTTAAAA
* * *
246102 CATTTCCAGA-AGGAGTTCGTAATAAGAAGAACTCCTTTGAAGAGGAAGAAGAAGTTCATAGTCT
1 CATTTCCAGACAGGAGTTCGTAATAAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAGTCT
* *
246166 GAAGAACTTATTCAACCTTTTGCTTGACTCTATCGTAGAAGGAGATTGAGC-GACATAAC
66 GAAGAACTTATTCAACCTTTTGCTTGATTCTATCGTAGAAGGAGATAGAGCAG-CATAAC
* * *
246225 CATTTCCAGACA-GAGTTCATAATAAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCAGAGTTT
1 CATTTCCAGACAGGAGTTCGTAATAAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAGTCT
* *
246289 GAAGAACTTATTCAACCTTTTGCTTGATTCTATTGTAGAAGGAAATAGAGCAGCATAAC
66 GAAGAACTTATTCAACCTTTTGCTTGATTCTATCGTAGAAGGAGATAGAGCAGCATAAC
* * *
246348 CATTGT-CAGACAAAAGGAGTTCGTAATAAGAGGAGCTCATCT-AAAGAGGAAGATGAAGTTCAT
1 CATT-TCCAGAC---AGGAGTTCGTAATAAGAAGAACTCATCTGAAA-AGGAAGAAGAAGTTCAT
* * * * * * * *
246411 AATCTAAAGAACTTGTTCAACC-TTAGCTCGATTC-ATCGCAGAAGGAGATAGATCAACATCAA-
61 AGTCTGAAGAACTTATTCAACCTTTTGCTTGATTCTATCGTAGAAGGAGATAGAGCAGCAT-AAC
246473 CATTTCCA
1 CATTTCCA
246481 TCTTAATCAA
Statistics
Matches: 220, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
123 118 0.54
124 4 0.02
125 26 0.12
126 16 0.07
127 56 0.25
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.26
Consensus pattern (124 bp):
CATTTCCAGACAGGAGTTCGTAATAAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAGTCT
GAAGAACTTATTCAACCTTTTGCTTGATTCTATCGTAGAAGGAGATAGAGCAGCATAAC
Found at i:247923 original size:30 final size:30
Alignment explanation
Indices: 247889--247954 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
247879 TGATATTTTA
*
247889 TATTTTAATC-TTATAATTTTAATTTT-TATT
1 TATTTTAATCATT-TAATTGTAATTTTAT-TT
**
247919 TATTTTGGTCATTTAATTGTAATTTTATTT
1 TATTTTAATCATTTAATTGTAATTTTATTT
247949 TATTTT
1 TATTTT
247955 TTCACTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (30 bp):
TATTTTAATCATTTAATTGTAATTTTATTT
Found at i:251993 original size:17 final size:18
Alignment explanation
Indices: 251971--252004 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
251961 TTGAAAGGTC
*
251971 TGGAA-TAAATGATAAGT
1 TGGAATTAAATAATAAGT
251988 TGGAATTAAATAATAAG
1 TGGAATTAAATAATAAG
252005 ACATAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
TGGAATTAAATAATAAGT
Found at i:257135 original size:3 final size:3
Alignment explanation
Indices: 257129--257180 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
257119 TTATATAATA
* * * *
257129 ATT ATT ATT ATT ATA ATT ATA ATA ATT ATT ATT ATT ATT AAT ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
257175 ATT ATT
1 ATT ATT
257181 TAATATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:262587 original size:15 final size:15
Alignment explanation
Indices: 262569--262600 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
262559 ATCAATACCT
262569 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
262584 TTTTGCATACATTCA
1 TTTTGCATACATGCA
262599 TT
1 TT
262601 ATTCATTTCA
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:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:269926 original size:11 final size:10
Alignment explanation
Indices: 269910--269959 Score: 66
Period size: 11 Copynumber: 4.8 Consensus size: 10
269900 ATGCTTAAAG
269910 AGAAAAAGAAA
1 AGAAAAA-AAA
269921 AG-AAAAAAA
1 AGAAAAAAAA
269930 AGAGAAAAAAA
1 AGA-AAAAAAA
269941 AGAAAAAAAAA
1 AG-AAAAAAAA
269952 AGAAAAAA
1 AGAAAAAA
269960 GGGGGGTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
9 5 0.14
10 10 0.28
11 20 0.56
12 1 0.03
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:269932 original size:9 final size:9
Alignment explanation
Indices: 269913--269960 Score: 53
Period size: 9 Copynumber: 5.0 Consensus size: 9
269903 CTTAAAGAGA
269913 AAAAGAAAAG
1 AAAA-AAAAG
269923 AAAAAAAAGAG
1 -AAAAAAA-AG
269934 AAAAAAAAG
1 AAAAAAAAG
269943 AAAAAAAA-
1 AAAAAAAAG
269951 AAGAAAAAAG
1 AA-AAAAAAG
269961 GGGGGTCAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
8 2 0.06
9 16 0.47
10 10 0.29
11 6 0.18
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:269933 original size:22 final size:21
Alignment explanation
Indices: 269906--269959 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
269896 TATTATGCTT
269906 AAAGAGAAAAAGAAAAGAAAAA
1 AAAGAGAAAAA-AAAAGAAAAA
269928 AAAGAG-AAAAAAAAGAAAAA
1 AAAGAGAAAAAAAAAGAAAAA
*
269948 AAAAAGAAAAAA
1 AAAGAGAAAAAA
269960 GGGGGGTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 15 0.50
21 9 0.30
22 6 0.20
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (21 bp):
AAAGAGAAAAAAAAAGAAAAA
Found at i:271250 original size:83 final size:83
Alignment explanation
Indices: 271106--271822 Score: 1152
Period size: 83 Copynumber: 8.6 Consensus size: 83
271096 AACAAATGCC
*
271106 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGTTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
271171 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
* * *
271189 ATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATATGATCTGGTTTGGTATAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
271254 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
*
271272 ATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
271337 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAATA
* *
271355 ATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
* **
271420 ATTGAATGTGGAAGAGGA
66 ATTGAATTTGGAAGAATA
* *
271438 ATGTGCTCATAGCATCTTCGGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
*
271503 ATTGAATTTGAAAG-ATGA
66 ATTGAATTTGGAAGAAT-A
*
271521 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
*
271586 ATTGAATTTGAAAG-ATGA
66 ATTGAATTTGGAAGAAT-A
*
271604 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
*
271669 ATTGAATTTGAAAG-ATGA
66 ATTGAATTTGGAAGAAT-A
* * * * * *
271687 ATGTGATCATAGCATCCTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGTT
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
**
271752 ATTGAATTTGGAAGAGGA
66 ATTGAATTTGGAAGAATA
*
271770 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
271823 ATATGAAACC
Statistics
Matches: 601, Mismatches: 31, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
83 601 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (83 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
ATTGAATTTGGAAGAATA
Done.