Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 119 of 126
Found at i:23602031 original size:128 final size:131
Alignment explanation
Indices: 23601828--23602083 Score: 378
Period size: 128 Copynumber: 2.0 Consensus size: 131
23601818 CCTTAAAATG
* *
23601828 TTTTTTAATAATTTTATTTTCAAAGAAAAATTGATATTTTCAACTTTTTCCTCAAAAATATTTTT
1 TTTTTGAATAATTTTATTTTCAAAGAAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTT
* * ** *
23601893 TTTGAAAATTTTAT-TTTCAAGGAAAGTTAATACTTTTAACTTTTCCTTAAAAGT-ATTTTTTTA
66 TTTGAAAATTTTATAGTT-AAGAAAAAATAATACTTTTAACTTTTCCTTAAAAATAATTTTTTTA
23601956 TA
130 TA
*
23601958 TTTTTGAA-AATTTTATTTTC-AAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTT
1 TTTTTGAATAATTTTATTTTCAAAGAAAAATTGATACTTTCAACTTTTTCCTCAAAAATA-TTTT
*
23602020 TTTTGAAAATTTTATAGTTAAGAAAAAATGATACTTTTAACTTTTCCTTAAAAATAATTTTTTT
65 TTTTGAAAATTTTATAGTTAAGAAAAAATAATACTTTTAACTTTTCCTTAAAAATAATTTTTTT
23602084 GTTTTTTTTA
Statistics
Matches: 114, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
127 15 0.13
128 70 0.61
129 22 0.19
130 7 0.06
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.50
Consensus pattern (131 bp):
TTTTTGAATAATTTTATTTTCAAAGAAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTT
TTTGAAAATTTTATAGTTAAGAAAAAATAATACTTTTAACTTTTCCTTAAAAATAATTTTTTTAT
A
Found at i:23602916 original size:6 final size:6
Alignment explanation
Indices: 23602907--23602932 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
23602897 ATTTTTTATT
23602907 TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT
23602933 AATCTGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:23602988 original size:22 final size:20
Alignment explanation
Indices: 23602941--23602996 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 20
23602931 TTAATCTGTT
*
23602941 AAAAACTAATGATAAATCCAA
1 AAAAAC-AAAGATAAATCCAA
*
23602962 TAAAAA-ATAGATAAATCAACAA
1 -AAAAACAAAGATAAATC--CAA
23602984 AAAAACAAAGATA
1 AAAAACAAAGATA
23602997 GATAAAAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 9 0.32
21 5 0.18
22 14 0.50
ACGTcount: A:0.68, C:0.11, G:0.05, T:0.16
Consensus pattern (20 bp):
AAAAACAAAGATAAATCCAA
Found at i:23603869 original size:46 final size:46
Alignment explanation
Indices: 23603802--23604098 Score: 305
Period size: 46 Copynumber: 6.5 Consensus size: 46
23603792 GGTTTTACAT
* * *
23603802 CTCAAACATTCTCATTTGAAAATGTATTAAAGGTTCTTATTTAAGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTTATTTAAGA
* * * *
23603848 CTCAAATATGCTCATTTGAAAATGTCTTAAAAATT-TTCACTTGAA-A
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTT-A-TTTAAGA
* * * *
23603894 CTCAAAGATTTTCATTTAAAAATATCTTAAAGATTCTAATTTAAGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTTATTTAAGA
* * * **
23603940 CTCAAAGATTCTCATTTGGAAATGTCTTAAATATTCTCATTTGGGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTTATTTAAGA
* **
23603986 CTCAAAGGTTCTCATTTGAAAACATCTTAAAGATT-TTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTT-ATTTAAGA
* * * *
23604032 TTCAAAGATTCTCATTTAAAAACGTCTTAAAGATTCTCATTTGAA-A
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTTATTT-AAGA
* *
23604078 TTCAAAGATTTTCATTTGAAA
1 CTCAAAGATTCTCATTTGAAA
23604099 TTCAAAGATT
Statistics
Matches: 207, Mismatches: 37, Indels: 14
0.80 0.14 0.05
Matches are distributed among these distances:
45 7 0.03
46 192 0.93
47 8 0.04
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (46 bp):
CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTTATTTAAGA
Found at i:23603963 original size:92 final size:92
Alignment explanation
Indices: 23603802--23604098 Score: 369
Period size: 92 Copynumber: 3.2 Consensus size: 92
23603792 GGTTTTACAT
* * * * * * *
23603802 CTCAAACATTCTCATTTGAAAATGTATTAAAGGTTCTTATTTAAGACTCAAATATGCTCATTTGA
1 CTCAAAGATTCTCATTTGAAAATATCTTAAAGATTCTAATTTAAGACTCAAAGATTCTCATTTGA
* *
23603867 AAATGTCTTAAAAATTTTCACTTGAAA
66 AAATGTCTTAAAAATTCTCATTTGAAA
* * *
23603894 CTCAAAGATTTTCATTTAAAAATATCTTAAAGATTCTAATTTAAGACTCAAAGATTCTCATTTGG
1 CTCAAAGATTCTCATTTGAAAATATCTTAAAGATTCTAATTTAAGACTCAAAGATTCTCATTTGA
* **
23603959 AAATGTCTTAAATATTCTCATTTGGGA
66 AAATGTCTTAAAAATTCTCATTTGAAA
* * * * * *
23603986 CTCAAAGGTTCTCATTTGAAAACATCTTAAAGATTTTCATTTAAGATTCAAAGATTCTCATTTAA
1 CTCAAAGATTCTCATTTGAAAATATCTTAAAGATTCTAATTTAAGACTCAAAGATTCTCATTTGA
* *
23604051 AAACGTCTTAAAGATTCTCATTTGAAA
66 AAATGTCTTAAAAATTCTCATTTGAAA
* *
23604078 TTCAAAGATTTTCATTTGAAA
1 CTCAAAGATTCTCATTTGAAA
23604099 TTCAAAGATT
Statistics
Matches: 174, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
92 174 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (92 bp):
CTCAAAGATTCTCATTTGAAAATATCTTAAAGATTCTAATTTAAGACTCAAAGATTCTCATTTGA
AAATGTCTTAAAAATTCTCATTTGAAA
Found at i:23603964 original size:138 final size:138
Alignment explanation
Indices: 23603802--23604115 Score: 361
Period size: 138 Copynumber: 2.3 Consensus size: 138
23603792 GGTTTTACAT
* * * * *
23603802 CTCAAACATTCTCATTTGAAAATGTATTAAAGGTTCTTATTTAAGACTCAAATATGCTCATTTGA
1 CTCAAAGATTCTCATTTGGAAATGTATTAAAGATTCTCATTTAAGACTCAAAGATGCTCATTTGA
** * *
23603867 AAATGTCTTAAAAATTTTCACTTGAA-ACTCAAAGATTTTCATTTAAAAATATCTTAAAGATTCT
66 AAACATCTTAAAAATTTTCA-TTGAAGACTCAAAGATTCTCATTTAAAAACATCTTAAAGATTCT
23603931 AATTT-AAGA
130 AATTTGAA-A
* * ** * *
23603940 CTCAAAGATTCTCATTTGGAAATGTCTTAAATATTCTCATTTGGGACTCAAAGGTTCTCATTTGA
1 CTCAAAGATTCTCATTTGGAAATGTATTAAAGATTCTCATTTAAGACTCAAAGATGCTCATTTGA
* * * * *
23604005 AAACATCTTAAAGATTTTCATTTAAGATTCAAAGATTCTCATTTAAAAACGTCTTAAAGATTCTC
66 AAACATCTTAAAAATTTTCATTGAAGACTCAAAGATTCTCATTTAAAAACATCTTAAAGATTCTA
23604070 ATTTGAAA
131 ATTTGAAA
* * *
23604078 TTCAAAGATTTTCATTT-GAAA--T-TCAAAGATTCTCATTT
1 CTCAAAGATTCTCATTTGGAAATGTATTAAAGATTCTCATTT
23604116 GAAAATATCT
Statistics
Matches: 150, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
134 14 0.09
135 1 0.01
137 8 0.05
138 125 0.83
139 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (138 bp):
CTCAAAGATTCTCATTTGGAAATGTATTAAAGATTCTCATTTAAGACTCAAAGATGCTCATTTGA
AAACATCTTAAAAATTTTCATTGAAGACTCAAAGATTCTCATTTAAAAACATCTTAAAGATTCTA
ATTTGAAA
Found at i:23603981 original size:25 final size:25
Alignment explanation
Indices: 23603809--23604432 Score: 400
Period size: 25 Copynumber: 26.4 Consensus size: 25
23603799 CATCTCAAAC
*
23603809 ATTCTCATTTGAAAATGTATTAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
* * * * *
23603834 GTTCTTATTT---AA-GACTCAAAT
1 ATTCTCATTTGAAAATGTCTTAAAG
* *
23603855 ATGCTCATTTGAAAATGTCTTAAAA
1 ATTCTCATTTGAAAATGTCTTAAAG
* * *
23603880 ATTTTCACTTG-AAA---CTCAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
* * *
23603901 ATTTTCATTTAAAAATATCTTAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
* * *
23603926 ATTCTAATTT---AA-GACTCAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
* *
23603947 ATTCTCATTTGGAAATGTCTTAAAT
1 ATTCTCATTTGAAAATGTCTTAAAG
* * *
23603972 ATTCTCATTTG----GGACTCAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
* **
23603993 GTTCTCATTTGAAAACATCTTAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
* *
23604018 ATTTTCATTT-AAGAT-TC--AAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
* *
23604039 ATTCTCATTTAAAAACGTCTTAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
23604064 ATTCTCATTTG-AAAT-TC--AAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
*
23604085 ATTTTCATTTG-AAAT-TC--AAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
*
23604106 ATTCTCATTTGAAAATATCTTAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
* *
23604131 ATTCTCATTTAAGACTAAAAGAACGTCTTAAAA
1 ATTCTCATTT--G-----AA-AATGTCTTAAAG
*
23604164 ATTCTCATTTGAAAACGTCTTAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
*
23604189 ATTCTCATTT-AAAA---CTCAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
*
23604210 ATTCTCATTTAAAAATGTCTTAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
* *
23604235 ATTCTCATTT-AAAA---CTCAAAT
1 ATTCTCATTTGAAAATGTCTTAAAG
*
23604256 ATTCTCATTTGAAAATGTCTTAAAT
1 ATTCTCATTTGAAAATGTCTTAAAG
* * *
23604281 ATTCTAATTTGAAAACGTCATAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
* *
23604306 ATTCTCATTTGAAAACGTCTTAAAA
1 ATTCTCATTTGAAAATGTCTTAAAG
* * *
23604331 ATTTTCATTT-AAAA---CTCAAAT
1 ATTCTCATTTGAAAATGTCTTAAAG
* *
23604352 ATTCTCATTTGAAAATGCCATAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
* *
23604377 ATTCTCATTT-AAAA---CTCAAAT
1 ATTCTCATTTGAAAATGTCTTAAAG
*
23604398 ATTCTTATTTGAAAATGTCTTAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
23604423 ATTCTCATTT
1 ATTCTCATTT
23604433 AAGACTCAAA
Statistics
Matches: 472, Mismatches: 79, Indels: 96
0.73 0.12 0.15
Matches are distributed among these distances:
21 162 0.34
22 30 0.06
23 8 0.02
24 29 0.06
25 218 0.46
26 2 0.00
27 1 0.00
31 1 0.00
32 2 0.00
33 19 0.04
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (25 bp):
ATTCTCATTTGAAAATGTCTTAAAG
Found at i:23604131 original size:46 final size:46
Alignment explanation
Indices: 23603989--23604442 Score: 438
Period size: 46 Copynumber: 9.5 Consensus size: 46
23603979 TTTGGGACTC
* * *
23603989 AAAGGTTCTCATTTGAAAACATCTTAAAGATTTTCATTT-AAGAT-TC--
1 AAAGATTCTCATTT-AAAAC-TC--AAAGATTCTCATTTGAAAATGTCTT
23604035 AAAGATTCTCATTTAAAAACGTCTTAAAGATTCTCATTTG-AAAT-TC--
1 AAAGATTCTCATTT-AAAAC-TC--AAAGATTCTCATTTGAAAATGTCTT
* * * *
23604081 AAAGATTTTCATTTGAAATTCAAAGATTCTCATTTGAAAATATCTT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAATGTCTT
* *
23604127 AAAGATTCTCATTTAAGACTAAAAGAACGTCTTAAAAATTCTCATTTGAAAACGTCTT
1 AAAGATTCTCA-TT-----T--AA-AAC-TC--AAAGATTCTCATTTGAAAATGTCTT
*
23604185 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTAAAAATGTCTT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAATGTCTT
*
23604231 AAAGATTCTCATTTAAAACTCAAATATTCTCATTTGAAAATGTCTT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAATGTCTT
* * *
23604277 AAATATTCTAATTTGAAAACGTCATAAAGATTCTCATTTGAAAACGTCTT
1 AAAGATTCTCATTT-AAAAC-TC--AAAGATTCTCATTTGAAAATGTCTT
* * * * *
23604327 AAAAATTTTCATTTAAAACTCAAATATTCTCATTTGAAAATGCCAT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAATGTCTT
* *
23604373 AAAGATTCTCATTTAAAACTCAAATATTCTTATTTGAAAATGTCTT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAATGTCTT
*
23604419 AAAGATTCTCATTTAAGACTCAAA
1 AAAGATTCTCATTTAAAACTCAAA
23604443 ACTTTATCAA
Statistics
Matches: 351, Mismatches: 36, Indels: 42
0.82 0.08 0.10
Matches are distributed among these distances:
42 15 0.04
43 4 0.01
44 4 0.01
45 3 0.01
46 226 0.64
47 7 0.02
48 6 0.02
49 8 0.02
50 36 0.10
52 2 0.01
54 1 0.00
55 2 0.01
56 2 0.01
57 2 0.01
58 33 0.09
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.37
Consensus pattern (46 bp):
AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAAAATGTCTT
Found at i:23604131 original size:92 final size:94
Alignment explanation
Indices: 23603858--23604434 Score: 424
Period size: 92 Copynumber: 6.1 Consensus size: 94
23603848 CTCAAATATG
* * * * * * *
23603858 CTCATTTGAAAATGTCTTAAAAATTTTCACTTG-AAA-CTCAAAGATTTTCATTTAAAAATATCT
1 CTCATTTAAAAACGTCTTAAATATTCTCATTTGAAAATGTCAAAGATTCTCATTT-AAAAT-TC-
* * *
23603921 TAAAGATTCTAATTT---AA-GACTCAAAGATT
63 -AAAGATTCTCATTTGAAAATGTCTTAAAGATT
** * ** * *
23603950 CTCATTTGGAAATGTCTTAAATATTCTCATTTG-GGA-CTCAAAGGTTCTCATTTGAAAACATCT
1 CTCATTTAAAAACGTCTTAAATATTCTCATTTGAAAATGTCAAAGATTCTCATTT--AAA-AT-T
* * *
23604013 TAAAGATTTTCATTT-AAGAT-TC--AAAGATT
62 CAAAGATTCTCATTTGAAAATGTCTTAAAGATT
* * *
23604042 CTCATTTAAAAACGTCTTAAAGATTCTCATTTG-AAAT-TCAAAGATTTTCATTTGAAATTCAAA
1 CTCATTTAAAAACGTCTTAAATATTCTCATTTGAAAATGTCAAAGATTCTCATTTAAAATTCAAA
*
23604105 GATTCTCATTTGAAAATATCTTAAAGATT
66 GATTCTCATTTGAAAATGTCTTAAAGATT
* *
23604134 CTCATTTAAGACTAAAAGAACGTCTTAAAAATTCTCATTTGAAAACGTCTTAAAGATTCTCATTT
1 CTCA-TT-----T-AAA-AACGTCTTAAATATTCTCATTTGAAAATGTC--AAAGATTCTCATTT
* *
23604199 AAAACTCAAAGATTCTCATTTAAAAATGTCTTAAAGATT
56 AAAATTCAAAGATTCTCATTTGAAAATGTCTTAAAGATT
* * *
23604238 CTCATTT-AAAAC-TC--AAATATTCTCATTTGAAAATGTCTTAAATATTCTAATTTGAAAACGT
1 CTCATTTAAAAACGTCTTAAATATTCTCATTTGAAAATGTC--AAAGATTCTCATTT-AAAA-TT
* *
23604299 CATAAAGATTCTCATTTGAAAACGTCTTAAAAATT
62 C--AAAGATTCTCATTTGAAAATGTCTTAAAGATT
* * *
23604334 TTCATTT-AAAAC-TC--AAATATTCTCATTTGAAAATGCCATAAAGATTCTCATTTAAAACTCA
1 CTCATTTAAAAACGTCTTAAATATTCTCATTTGAAAATGTC--AAAGATTCTCATTTAAAATTCA
* *
23604395 AATATTCTTATTTGAAAATGTCTTAAAGATT
64 AAGATTCTCATTTGAAAATGTCTTAAAGATT
23604426 CTCATTTAA
1 CTCATTTAA
23604435 GACTCAAAAC
Statistics
Matches: 406, Mismatches: 52, Indels: 53
0.79 0.10 0.10
Matches are distributed among these distances:
88 14 0.03
89 6 0.01
90 4 0.01
92 188 0.46
93 11 0.03
94 11 0.03
95 7 0.02
96 79 0.19
98 2 0.00
99 3 0.01
100 22 0.05
101 3 0.01
102 2 0.00
103 2 0.00
104 52 0.13
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.38
Consensus pattern (94 bp):
CTCATTTAAAAACGTCTTAAATATTCTCATTTGAAAATGTCAAAGATTCTCATTTAAAATTCAAA
GATTCTCATTTGAAAATGTCTTAAAGATT
Found at i:23604225 original size:104 final size:100
Alignment explanation
Indices: 23604052--23604246 Score: 291
Period size: 104 Copynumber: 1.9 Consensus size: 100
23604042 CTCATTTAAA
* * * * *
23604052 AACGTCTTAAAGATTCTCATTTGAAATTCAAAGATTTTCATTTGAAATTCAAAGATTCTCATTTG
1 AACGTCTTAAAAATTCTCATTTGAAATTCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTA
23604117 AAAATATCTTAAAGATTCTCATTTAAGACTAAAAG
66 AAAATATCTTAAAGATTCTCATTTAAGACTAAAAG
*
23604152 AACGTCTTAAAAATTCTCATTTGAAAACGTCTTAAAGATTCTCATTTAAAACTCAAAGATTCTCA
1 AACGTCTTAAAAATTCTCATTTG-AAA--T-TCAAAGATTCTCATTTAAAACTCAAAGATTCTCA
*
23604217 TTTAAAAATGTCTTAAAGATTCTCATTTAA
62 TTTAAAAATATCTTAAAGATTCTCATTTAA
23604247 AACTCAAATA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
100 22 0.26
101 3 0.04
103 1 0.01
104 58 0.69
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (100 bp):
AACGTCTTAAAAATTCTCATTTGAAATTCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTA
AAAATATCTTAAAGATTCTCATTTAAGACTAAAAG
Found at i:23604356 original size:142 final size:145
Alignment explanation
Indices: 23604039--23604433 Score: 498
Period size: 142 Copynumber: 2.7 Consensus size: 145
23604029 AGATTCAAAG
* * * * *
23604039 ATTCTCATTTAAAAACGTCTTAAAGATTCTCATTT-GAAAT-TC--AAAGATTTTCATTTGAAAT
1 ATTCTCATTT-AAAAC-TC--AAAGATTCTCATTTAAAAATGCCATAAAGATTCTCATTTAAAAC
* * *
23604100 TCAAAGATTCTCATTTGAAAATATCTTAAAGATTCTCATTTAAGACTAAAAGAACGTCTTAAAAA
62 TCAAATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTT-AG----AAAGAACGTCATAAAAA
*
23604165 TTCTCATTTGAAAACGTCTTAAAG
122 TTCTCATTTGAAAACGTCTTAAAA
* *
23604189 ATTCTCATTTAAAACTCAAAGATTCTCATTTAAAAATGTCTTAAAGATTCTCATTTAAAACTCAA
1 ATTCTCATTTAAAACTCAAAGATTCTCATTTAAAAATGCCATAAAGATTCTCATTTAAAACTCAA
* * *
23604254 ATATTCTCATTTGAAAATGTCTTAAATATTCTAATTT-G-AA-AACGTCATAAAGATTCTCATTT
66 ATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAGAAAGAACGTCATAAAAATTCTCATTT
23604316 GAAAACGTCTTAAAA
131 GAAAACGTCTTAAAA
* * *
23604331 ATTTTCATTTAAAACTCAAATATTCTCATTTGAAAATGCCATAAAGATTCTCATTTAAAACTCAA
1 ATTCTCATTTAAAACTCAAAGATTCTCATTTAAAAATGCCATAAAGATTCTCATTTAAAACTCAA
*
23604396 ATATTCTTATTTGAAAATGTCTTAAAGATTCTCATTTA
66 ATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTA
23604434 AGACTCAAAA
Statistics
Matches: 221, Mismatches: 19, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
142 128 0.58
143 2 0.01
146 14 0.06
147 4 0.02
148 5 0.02
149 5 0.02
150 63 0.29
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (145 bp):
ATTCTCATTTAAAACTCAAAGATTCTCATTTAAAAATGCCATAAAGATTCTCATTTAAAACTCAA
ATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAGAAAGAACGTCATAAAAATTCTCATTT
GAAAACGTCTTAAAA
Found at i:23605432 original size:58 final size:57
Alignment explanation
Indices: 23605370--23605642 Score: 322
Period size: 58 Copynumber: 4.7 Consensus size: 57
23605360 TTTGTGCAGA
* **
23605370 AAAAATTGATACTTTCAACTTTCTTCCAAAAATATTTTTTTGAAA-CTTTAATTTCGAG
1 AAAAATTGATACTTTCAACTTT-TTCCAAAAATATTTTTTTGAAAGC-TTATTTTTAAG
* *** *
23605428 AAAAATAGATACTTTCAACTTTTTCTCAAAAATCCATTTTTGAAAACTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTC-CAAAAATATTTTTTTGAAAGCTTATTTTTAAG
* *
23605486 AAAAATTGATACTTTCAACTTTTTTTCAAAAATA-TTTTTAGAAAGCTTATTTTTTAA-
1 AAAAATTGATACTTTCAAC-TTTTTCCAAAAATATTTTTTTGAAAGCTTA-TTTTTAAG
*
23605543 AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTTTAATG
1 AAAAATTGATACTTTCAACTTTTTC-CAAAAATATTTTTTTGAAAGCTTATTTTTAA-G
23605602 -AAAATTGATACTTTCAA-TTTTTCCTTAAAAATATATTTTTT
1 AAAAATTGATACTTTCAACTTTTTCC--AAAAATAT-TTTTTT
23605643 TGAATTTTAT
Statistics
Matches: 189, Mismatches: 15, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
56 6 0.03
57 55 0.29
58 117 0.62
59 11 0.06
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.45
Consensus pattern (57 bp):
AAAAATTGATACTTTCAACTTTTTCCAAAAATATTTTTTTGAAAGCTTATTTTTAAG
Found at i:23605575 original size:115 final size:116
Alignment explanation
Indices: 23605370--23605641 Score: 349
Period size: 115 Copynumber: 2.3 Consensus size: 116
23605360 TTTGTGCAGA
* * * *
23605370 AAAAATTGATACTTTCAACTTTCTTCCAAAAATATTTTTTTGAAACTTTAATTTCGAGAAAAATA
1 AAAAATTGATACTTTCAACTTTTTTTCAAAAATA-TTTTTAGAAACTTTAATTTCGAAAAAAATA
23605435 GATACTTTCAACTTTTTCTCAAAAATCCA-TTTTT-GAAAACTTATTTTTAA-G
65 GATACTTTCAACTTTTTCTCAAAAAT--ATTTTTTAGAAAACTTATTTTTAATG
* ** *
23605486 AAAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTAGAAAGC-TTATTTTTTAAAAAAATT
1 AAAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTAGAAA-CTTTAATTTCGAAAAAAATA
*
23605550 GATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTTTAATG
65 GATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTTAATG
*
23605602 -AAAATTGATACTTTCAA-TTTTTCCTTAAAAATATATTTTT
1 AAAAATTGATACTTTCAACTTTTT--TTCAAAA-ATATTTTT
23605642 TTGAATTTTA
Statistics
Matches: 139, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
113 1 0.01
114 10 0.07
115 80 0.58
116 40 0.29
117 8 0.06
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (116 bp):
AAAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTAGAAACTTTAATTTCGAAAAAAATAG
ATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTTAATG
Found at i:23605698 original size:11 final size:12
Alignment explanation
Indices: 23605670--23605702 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
23605660 AAAAAAGATA
*
23605670 AAAATAAAGATG
1 AAAATAAAAATG
23605682 AAAATAAAAAT-
1 AAAATAAAAATG
23605693 AAAATAAAAA
1 AAAATAAAAA
23605703 GTATTAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (12 bp):
AAAATAAAAATG
Found at i:23605759 original size:12 final size:12
Alignment explanation
Indices: 23605722--23605769 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
23605712 AATTCTAATC
*
23605722 TAATCAAATAAA
1 TAATAAAATAAA
23605734 TAATAATAAT-AA
1 TAATAA-AATAAA
23605746 TAATAAAATAAA
1 TAATAAAATAAA
23605758 TAA-ATAAATAAA
1 TAATA-AAATAAA
23605770 CCTAGAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 4 0.12
12 25 0.78
13 3 0.09
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (12 bp):
TAATAAAATAAA
Found at i:23606629 original size:4 final size:4
Alignment explanation
Indices: 23606622--23606750 Score: 68
Period size: 4 Copynumber: 31.2 Consensus size: 4
23606612 AAAAAATTAG
* * *
23606622 ATAA ATAAA AAAA ATAG ATAA AT-A AT-A AT-A ATAA ATAAA AGTAG ATAA
1 ATAA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA A-TAA ATAA
* *
23606670 ATAA TATAA ATATTA ATAG ATAA ATAA ATAA A-AA ATAAA ATAA ATAT
1 ATAA -ATAA ATA--A ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA
* * * * *
23606717 ATAT ATTA ATAA CTAG ATAA ATAA TAAAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA A
23606751 AATAAAAATA
Statistics
Matches: 97, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
3 12 0.12
4 61 0.63
5 19 0.20
6 5 0.05
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:23606629 original size:22 final size:20
Alignment explanation
Indices: 23606571--23606635 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 20
23606561 ATCTTAACCG
23606571 AAAATTAATAAA-AAAAGATAA
1 AAAATTAATAAATAAAA-A-AA
* *
23606592 ATATATTAATAGATAACAAAAA
1 A-AAATTAATAAATAA-AAAAA
23606614 AAAATTAGATAAATAAAAAAA
1 AAAATTA-ATAAATAAAAAAA
23606635 A
1 A
23606636 TAGATAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
21 12 0.33
22 19 0.53
23 3 0.08
24 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.22
Consensus pattern (20 bp):
AAAATTAATAAATAAAAAAA
Found at i:23606633 original size:17 final size:17
Alignment explanation
Indices: 23606599--23606660 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
23606589 TAAATATATT
23606599 AATAGATAACA-AAAAAA
1 AATAGATAA-ATAAAAAA
23606616 AATTAGATAAATAAAAAA
1 AA-TAGATAAATAAAAAA
* *
23606634 AATAGATAAATAATAAT
1 AATAGATAAATAAAAAA
*
23606651 AATAAATAAA
1 AATAGATAAA
23606661 AGTAGATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
17 25 0.62
18 15 0.38
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.21
Consensus pattern (17 bp):
AATAGATAAATAAAAAA
Found at i:23606667 original size:44 final size:41
Alignment explanation
Indices: 23606609--23606781 Score: 90
Period size: 44 Copynumber: 4.1 Consensus size: 41
23606599 AATAGATAAC
*
23606609 AAAAA-AAAATTAGATAAATAAAAAAAATAGATAAATAATAAT
1 AAAAATAAAA-TAGATAAATAAAAAAAATA-ATAAATAAAAAT
* *
23606651 AATAAATAAAAGTAGATAAATAATATAAATATTAATAGATAAATAAAT
1 AA-AAATAAAA-TAGATAAATAA-A-AAA-AATAATAAAT-AA-AAAT
* * * ** *
23606699 AAAAAATAAAATAAATATAT-ATATTAATAACTAGATAAATAAT
1 -AAAAATAAAATAGATAAATAAAAAAAATAA-TAAATAAA-AAT
* *
23606742 AAAAAT-AAA-A-ATAAA-AATAAAAATAA-AAATAAAAGT
1 AAAAATAAAATAGATAAATAAAAAAAATAATAAATAAAAAT
23606778 AAAA
1 AAAA
23606782 GCCCATTGGG
Statistics
Matches: 105, Mismatches: 15, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
36 6 0.06
37 6 0.06
39 12 0.11
40 1 0.01
41 3 0.03
42 9 0.09
43 12 0.11
44 21 0.20
45 1 0.01
46 9 0.09
47 12 0.11
48 11 0.10
49 2 0.02
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.24
Consensus pattern (41 bp):
AAAAATAAAATAGATAAATAAAAAAAATAATAAATAAAAAT
Found at i:23606679 original size:36 final size:35
Alignment explanation
Indices: 23606639--23606763 Score: 118
Period size: 34 Copynumber: 3.7 Consensus size: 35
23606629 AAAAAAATAG
23606639 ATAAATAATAATAATAAATAAAAGTAGATAAATAAT
1 ATAAATAATAATAATAAATAAAA-TAGATAAATAAT
* * *
23606675 ATAAATATTAATAGATAAAT-AAATA-AAAAATAAA
1 ATAAATAATAATA-ATAAATAAAATAGATAAATAAT
* *
23606709 ATAAAT-AT-ATATATTAAT-AACTAGATAAATAAT
1 ATAAATAATAATA-ATAAATAAAATAGATAAATAAT
* *
23606742 AAAAATAAAAATAA-AAATAAAA
1 ATAAATAATAATAATAAATAAAA
23606764 ATAAAAATAA
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
32 12 0.17
33 16 0.23
34 17 0.24
35 5 0.07
36 15 0.21
37 6 0.08
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (35 bp):
ATAAATAATAATAATAAATAAAATAGATAAATAAT
Found at i:23606725 original size:40 final size:39
Alignment explanation
Indices: 23606624--23606756 Score: 121
Period size: 40 Copynumber: 3.3 Consensus size: 39
23606614 AAAATTAGAT
* * *
23606624 AAATAAAAAAAATAGATA-AATAATAAT-AATAAATAAA
1 AAATAAAATAAATATATATATTAATAATAAATAAATAAA
*
23606661 AGTAGAT-AAAT-AATATAAATATTAATAGATAAATAAATAAA
1 A--A-ATAAAATAAATATATATATTAATA-ATAAATAAATAAA
*
23606702 AAATAAAATAAATATATATATTAATAACTAGATAAATAATAA
1 AAATAAAATAAATATATATATTAATAA-TAAATAAAT-A-AA
23606744 AAATAAAAATAAA
1 AAAT-AAAATAAA
23606757 AATAAAAATA
Statistics
Matches: 78, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
37 1 0.01
38 8 0.10
39 16 0.21
40 27 0.35
41 12 0.15
42 6 0.08
43 8 0.10
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (39 bp):
AAATAAAATAAATATATATATTAATAATAAATAAATAAA
Found at i:23606782 original size:6 final size:6
Alignment explanation
Indices: 23606733--23606781 Score: 80
Period size: 6 Copynumber: 8.0 Consensus size: 6
23606723 TAATAACTAG
*
23606733 ATAAATA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA GTAAAA
1 ATAAA-A ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
23606782 GCCCATTGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
6 36 0.88
7 5 0.12
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:23607265 original size:42 final size:42
Alignment explanation
Indices: 23607034--23607419 Score: 380
Period size: 40 Copynumber: 9.2 Consensus size: 42
23607024 CTTTAAAAAA
* * * * *
23607034 AAAATAAACAAAGCTCCTTTAAACAGAGGTTCCACGA-TCTTG
1 AAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACT-TTG
* * *
23607076 AAAATAAAT--GGCTCC-CATAATTAGAGGTTCAACGACTTT-
1 AAAATAAATAAAGCTCCTC-TAATCAGAGGCTCAACGACTTTG
* * **
23607115 -AAA-AAATAAATGGCTTCTCTAATCAGAGGCTCAATGACTTCA
1 AAAATAAATAAA--GCTCCTCTAATCAGAGGCTCAACGACTTTG
* * *
23607157 AAAATAAAT--GGCTCCTCTAATCAAAGGCTCAACGACTTTA
1 AAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
* * * *
23607197 AAAATAAAT-GA-CTCATCTAATCAGAGGCTTAATGACTTTG
1 AAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
*
23607237 AAAATGAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
1 AAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
23607279 AAAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
1 ---AAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
* * * * *
23607324 AAAATGAATAAAGCTCCTATAATAAGAGGCTCAATGATTTTG
1 AAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
23607366 AAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
1 --AAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
23607410 AAAAGTAAAT
1 AAAA-TAAAT
23607420 TGTTCCTCTA
Statistics
Matches: 286, Mismatches: 39, Indels: 37
0.79 0.11 0.10
Matches are distributed among these distances:
37 4 0.01
38 3 0.01
40 89 0.31
41 24 0.08
42 76 0.27
43 8 0.03
44 41 0.14
45 41 0.14
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (42 bp):
AAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG
Found at i:23607330 original size:87 final size:86
Alignment explanation
Indices: 23607032--23607413 Score: 412
Period size: 87 Copynumber: 4.6 Consensus size: 86
23607022 AACTTTAAAA
* * * * * ** *
23607032 AAAAAATAAACAAAGCTCCTTTAAACAGAGGTTCCACGA-TCTTGAAAAT-AA-ATGGCTCCCAT
1 AAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACT-TTGAAAATGAATAAAGCTCCTAT
* *
23607094 AATTAGAGGTTCAACGACTTT-
65 AATAAGAGGCTCAACGACTTTG
* * * ** ** *
23607115 AAAAAATAAAT--GGCTTCTCTAATCAGAGGCTCAATGACTTCAAAAAT-AA-ATGGCTCCTCTA
1 AAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAAGCTCCTATA
23607176 ATCAA-AGGCTCAACGACTTT-
66 AT-AAGAGGCTCAACGACTTTG
* * * * *
23607196 -AAAAATAAAT-GA-CTCATCTAATCAGAGGCTTAATGACTTTGAAAATGAATAAAGCTCCTCTA
1 AAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAAGCTCCTATA
*
23607258 ATCAGAGGCTCAACGACTTTG
66 ATAAGAGGCTCAACGACTTTG
23607279 AAAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAAGCTCCTAT
1 -AAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAAGCTCCTAT
* *
23607344 AATAAGAGGCTCAATGATTTTG
65 AATAAGAGGCTCAACGACTTTG
23607366 AAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAA
1 AAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAA
23607414 GTAAATTGTT
Statistics
Matches: 257, Mismatches: 31, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
80 39 0.15
81 56 0.22
82 29 0.11
83 10 0.04
85 10 0.04
86 49 0.19
87 64 0.25
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (86 bp):
AAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAAGCTCCTATA
ATAAGAGGCTCAACGACTTTG
Found at i:23607449 original size:41 final size:41
Alignment explanation
Indices: 23607105--23607508 Score: 194
Period size: 41 Copynumber: 9.7 Consensus size: 41
23607095 ATTAGAGGTT
* * * * * * *
23607105 CAACGACTTTAAAAAATAAATGGCTTCTCTAATCAGAGGCT
1 CAACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
** * * * * * *
23607146 CAATGAC-TTCAAAAATAAATGGCTCCTCTAATCAAAGGCT
1 CAACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
* * * * *
23607186 CAACGACTTT-AAAAATAAA-TGACTCATCTAATCAGAGGCT
1 CAACAACTTTGAAAAGTAAATTG-CTCCTCTAAACAGAGGCA
* ** * *
23607226 TAATGACTTTGAAAATGAATAAA--GCTCCTCTAATCAGAGGCT
1 CAACAACTTTGAAAA-G--TAAATTGCTCCTCTAAACAGAGGCA
* * * * *
23607268 CAACGACTTTGAAAAAAATAAATAAAGCTCCTCTAATCAGAGGCT
1 CAACAACTTTG--AAAAGTAAAT--TGCTCCTCTAAACAGAGGCA
* * *
23607313 CAACGACTTTGAAAATGAATAAA--GCTCCTATAATA-AGAGGCT
1 CAACAACTTTGAAAA-G--TAAATTGCTCCTCTAA-ACAGAGGCA
** * * * * *
23607355 CAATGATTTTGAAAAAATAAATAAAGCTCCTCTAATCAGAGGCT
1 CAACAACTTTG-AAAAGTAAAT--TGCTCCTCTAAACAGAGGCA
* *
23607399 CAACGACTTTGAAAAGTAAATTGTTCCTCTAAACAGAGGCA
1 CAACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
* * *
23607440 CTACAACTTTGGAAAGTAAATTGCTCCTCTAAACAAAGGCA
1 CAACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
* *
23607481 CCACAACTTTAAAAAGTAAATTGCTCCT
1 CAACAACTTTGAAAAGTAAATTGCTCCT
23607509 TAACAATCAT
Statistics
Matches: 303, Mismatches: 38, Indels: 44
0.79 0.10 0.11
Matches are distributed among these distances:
39 1 0.00
40 73 0.24
41 93 0.31
42 51 0.17
43 18 0.06
44 33 0.11
45 30 0.10
46 4 0.01
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (41 bp):
CAACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
Found at i:23609265 original size:20 final size:20
Alignment explanation
Indices: 23609242--23609280 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23609232 TCTCTATTTT
23609242 TTCTTTT-TTTTTTCATCATC
1 TTCTTTTCTTTTTTC-TCATC
23609262 TTCTTTTCTTTTTTCTCAT
1 TTCTTTTCTTTTTTCTCAT
23609281 TTTTCATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.72
Consensus pattern (20 bp):
TTCTTTTCTTTTTTCTCATC
Found at i:23613584 original size:58 final size:59
Alignment explanation
Indices: 23613233--23613576 Score: 391
Period size: 58 Copynumber: 5.8 Consensus size: 59
23613223 TGCTTTTGTG
* * * * * *
23613233 CAAGAAAAATCGATACTTTCAACTTTTCCTCAAAAAT-CTATTTTTGAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAGCTTATTTT
*
23613291 TAAGGAAAATTGATACTTTCAACTTTT--TTCCAAAAATATTTTTTTTTGGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTT--AAAAATA-TTTTTTTT-GAAAGCTTATTTT
*
23613352 CAAGGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTTTTGGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAAC-TTTTCCTTAAAAATA--TTTTTTTT-GAAAGCTTATTTT
* * * *
23613414 CAAGAAAAATTGATACTTTCAACTTTTTC-TCAAAATA--TTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAGCTTATTTT
* * ** *
23613470 CAAAGAAAATTGATAGTTTCAA-TTTTTTTTCAAAAATA-TTTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTT-AAAAATATTTTTTTTGAAAGCTTATTTT
23613528 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAA
23613577 TTTTATTTAA
Statistics
Matches: 248, Mismatches: 24, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
55 5 0.02
56 34 0.14
57 11 0.04
58 76 0.31
59 15 0.06
60 6 0.02
61 52 0.21
62 49 0.20
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (59 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAGCTTATTTT
Found at i:23614572 original size:17 final size:17
Alignment explanation
Indices: 23614535--23614600 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
23614525 TAAATATATT
*
23614535 AATAGATAACAAAAAAAA
1 AATAGATAA-ATAAAAAA
* *
23614553 AATTGATAAATAAAAGA
1 AATAGATAAATAAAAAA
* *
23614570 AATAGATAAATAATAAT
1 AATAGATAAATAAAAAA
*
23614587 AATA-AAAAATAAAA
1 AATAGATAAATAAAA
23614601 GCAGATAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
16 8 0.21
17 23 0.59
18 8 0.21
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.20
Consensus pattern (17 bp):
AATAGATAAATAAAAAA
Found at i:23614588 original size:27 final size:27
Alignment explanation
Indices: 23614558--23614673 Score: 85
Period size: 27 Copynumber: 4.3 Consensus size: 27
23614548 AAAAAAATTG
*
23614558 ATAAATAAAAGAAATAGATAAATAATA
1 ATAAATAAAATAAATAGATAAATAATA
* *
23614585 ATAATAAAAAATAAAAGCAGATAAATAATA
1 ATAA-ATAAAAT-AAA-TAGATAAATAATA
* * *
23614615 A-ATATAAATATTAATAGATAAAAAATA
1 ATAAATAAA-ATAAATAGATAAATAATA
* * * *
23614642 AAAAACAAAATAAA-A-ATATATATTA
1 ATAAATAAAATAAATAGATAAATAATA
23614667 ATAAATA
1 ATAAATA
23614674 GGCAAAAAAT
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
25 12 0.18
26 1 0.01
27 20 0.29
28 16 0.24
29 6 0.09
30 13 0.19
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (27 bp):
ATAAATAAAATAAATAGATAAATAATA
Found at i:23614591 original size:13 final size:14
Alignment explanation
Indices: 23614570--23614642 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 14
23614560 AAATAAAAGA
*
23614570 AATAGATAAATAAT
1 AATAGATAAAAAAT
23614584 AATA-ATAAAAAAT
1 AATAGATAAAAAAT
* *
23614597 AAAAGCAGATAAATAAT
1 --AA-TAGATAAAAAAT
* * *
23614614 AA-ATATAAATATT
1 AATAGATAAAAAAT
23614627 AATAGATAAAAAAT
1 AATAGATAAAAAAT
23614641 AA
1 AA
23614643 AAAACAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
13 19 0.41
14 14 0.30
15 4 0.09
16 1 0.02
17 8 0.17
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.25
Consensus pattern (14 bp):
AATAGATAAAAAAT
Found at i:23614663 original size:43 final size:41
Alignment explanation
Indices: 23614569--23614699 Score: 115
Period size: 43 Copynumber: 3.0 Consensus size: 41
23614559 TAAATAAAAG
* *
23614569 AAATAGATAAATAATAATA-ATAAAAAATAAAAGCAGATAAATAA
1 AAATATATAAAT-ATAATAGATAAAAAATAAAA--A-AAAAATAA
*
23614613 TAA-ATATAAATATTAATAGATAAAAAATAAAAAACAAAATAA
1 AAATATATAAATA-TAATAGATAAAAAATAAAAAA-AAAATAA
**
23614655 AAATATATATTAATA-AATAGGCAAAAAATAAAAATAAAAATAA
1 AAATATATA--AATATAATAGATAAAAAATAAAAA-AAAAATAA
23614698 AA
1 AA
23614700 GTAAAAGCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
41 1 0.01
42 10 0.14
43 43 0.58
44 16 0.22
45 4 0.05
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (41 bp):
AAATATATAAATATAATAGATAAAAAATAAAAAAAAAATAA
Found at i:23615440 original size:26 final size:26
Alignment explanation
Indices: 23615411--23615469 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
23615401 GGTTTTCATA
*
23615411 TTTTTTTCATTCTTTCATCTTTCTCT
1 TTTTTTTCATTCATTCATCTTTCTCT
* * * * *
23615437 TTTTCTTCTTTCATTCTTTTTTTTCT
1 TTTTTTTCATTCATTCATCTTTCTCT
23615463 TTTTTTT
1 TTTTTTT
23615470 TCTCATCTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (26 bp):
TTTTTTTCATTCATTCATCTTTCTCT
Found at i:23615445 original size:11 final size:10
Alignment explanation
Indices: 23615412--23615498 Score: 50
Period size: 11 Copynumber: 7.9 Consensus size: 10
23615402 GTTTTCATAT
23615412 TTTTTTCATTC
1 TTTTTTC-TTC
**
23615423 TTTCATCTTTC
1 TTTTTTC-TTC
23615434 TCTTTTTCTTC
1 T-TTTTTCTTC
*
23615445 TTTCATTCTT-
1 TTT-TTTCTTC
*
23615455 TTTTTTCTTT
1 TTTTTTCTTC
23615465 TTTTTTCTCATC
1 TTTTTTCT--TC
23615477 TTTTTTCATCCTC
1 TTTTTTC-T--TC
23615490 TTTTTTCTT
1 TTTTTTCTT
23615499 TTTATCTCAT
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
9 5 0.08
10 14 0.23
11 18 0.30
12 13 0.21
13 11 0.18
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:23615480 original size:13 final size:13
Alignment explanation
Indices: 23615451--23615540 Score: 52
Period size: 13 Copynumber: 7.4 Consensus size: 13
23615441 CTTCTTTCAT
23615451 TCTTTTTTT-TC-
1 TCTTTTTTTCTCA
*
23615462 TTTTTTTTTCTCA
1 TCTTTTTTTCTCA
23615475 TC--TTTTT-TCA
1 TCTTTTTTTCTCA
* *
23615485 TCCTCTTTT-T--
1 TCTTTTTTTCTCA
*
23615495 TCTTTTTATCTCA
1 TCTTTTTTTCTCA
* *
23615508 TCTTTTTCATCATCT
1 TCTTTTT-TTC-TCA
23615523 TCTTTTTTTCTCA
1 TCTTTTTTTCTCA
23615536 TCTTT
1 TCTTT
23615541 CACCCATTGT
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
10 11 0.18
11 14 0.23
12 7 0.11
13 15 0.25
14 5 0.08
15 9 0.15
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.70
Consensus pattern (13 bp):
TCTTTTTTTCTCA
Found at i:23615491 original size:28 final size:28
Alignment explanation
Indices: 23615460--23615540 Score: 92
Period size: 32 Copynumber: 2.7 Consensus size: 28
23615450 TTCTTTTTTT
*
23615460 TCTTTTTTTTTCTCATCTTTTTTCATCC
1 TCTTTTTTTTTCTCATCTTTTTTCATCA
23615488 TCTTTTTTCTTTTTATCTCATC-TTTTTCATCA
1 TC---TTT-TTTTT-TCTCATCTTTTTTCATCA
23615520 TCTTCTTTTTTTCTCATCTTT
1 TCTT-TTTTTTTCTCATCTTT
23615541 CACCCATTGT
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
28 9 0.20
29 9 0.20
30 1 0.02
31 3 0.07
32 16 0.36
33 7 0.16
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.68
Consensus pattern (28 bp):
TCTTTTTTTTTCTCATCTTTTTTCATCA
Found at i:23615494 original size:35 final size:33
Alignment explanation
Indices: 23615440--23615530 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 33
23615430 TTTCTCTTTT
* * * *
23615440 TCTTCTTTCATTCTTTTTTTTCTTTTTTTTTCTCA
1 TCTTTTTTCATCCTCTTTTTTC--TTTTTATCTCA
23615475 TCTTTTTTCATCCTCTTTTTTCTTTTTATCTCA
1 TCTTTTTTCATCCTCTTTTTTCTTTTTATCTCA
*
23615508 TCTTTTTCATCATCTTCTTTTTT
1 TCTTTTT--TCATCCTCTTTTTT
23615531 TCTCATCTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 17 0.35
35 32 0.65
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.70
Consensus pattern (33 bp):
TCTTTTTTCATCCTCTTTTTTCTTTTTATCTCA
Found at i:23615498 original size:20 final size:20
Alignment explanation
Indices: 23615475--23615514 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23615465 TTTTTTCTCA
*
23615475 TCTTTTT-TCATCCTCTTTTT
1 TCTTTTTATC-TCATCTTTTT
23615495 TCTTTTTATCTCATCTTTTT
1 TCTTTTTATCTCATCTTTTT
23615515 CATCATCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (20 bp):
TCTTTTTATCTCATCTTTTT
Found at i:23615909 original size:16 final size:16
Alignment explanation
Indices: 23615888--23615921 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23615878 ATATATGGTA
*
23615888 TTTTTTCTT-TTTCTC
1 TTTTTTTTTCTTTCTC
23615903 TTTTTTTTTCTTTCTC
1 TTTTTTTTTCTTTCTC
23615919 TTT
1 TTT
23615922 CTATCTTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTTTTCTTTCTC
Found at i:23619672 original size:67 final size:65
Alignment explanation
Indices: 23619528--23619662 Score: 157
Period size: 67 Copynumber: 2.0 Consensus size: 65
23619518 TTTTTTTTGA
* * *
23619528 AAATTTTATTTTCAAGAAAAATTGGTACTTTCAACTTTTCCTCAAAAGTATTTTTTTGTATTTTT
1 AAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGTAGTTTT
* *
23619593 GAAAATTTTATTTTCAA-AGAAAATTGATACTTTCAACTTTTTCTTAAAAATATATATTTTT-TA
1 --AAATTTTATTTTCAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-T-TTTTTGT-
23619656 AGTTTT
60 AGTTTT
23619662 A
1 A
23619663 TTTTATATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
66 1 0.02
67 46 0.78
68 2 0.03
69 10 0.17
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (65 bp):
AAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGTAGTTTT
Found at i:23619907 original size:17 final size:17
Alignment explanation
Indices: 23619885--23619925 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
23619875 CGGGTTGAAG
23619885 CAGGTTGCACTACGGGT
1 CAGGTTGCACTACGGGT
*
23619902 CAGGTTGCGCTACGGGT
1 CAGGTTGCACTACGGGT
23619919 CAGGTTG
1 CAGGTTG
23619926 TCCAAGGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.39, T:0.24
Consensus pattern (17 bp):
CAGGTTGCACTACGGGT
Found at i:23620590 original size:10 final size:10
Alignment explanation
Indices: 23620575--23620655 Score: 50
Period size: 10 Copynumber: 8.4 Consensus size: 10
23620565 AACTAATGAT
23620575 AAATATAATA
1 AAATATAATA
23620585 AAATATAGAT-
1 AAATATA-ATA
*
23620595 AAATCA-ACTA
1 AAAT-ATAATA
23620605 AAA-A-AATA
1 AAATATAATA
*
23620613 AAAGATAGATA
1 AAATATA-ATA
23620624 AAA-ATTAA-A
1 AAATA-TAATA
23620633 AAA-ATAATA
1 AAATATAATA
*
23620642 AAATAAAATA
1 AAATATAATA
23620652 AAAT
1 AAAT
23620656 GAAAAGAATA
Statistics
Matches: 59, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
8 10 0.17
9 11 0.19
10 27 0.46
11 11 0.19
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (10 bp):
AAATATAATA
Found at i:23620639 original size:26 final size:27
Alignment explanation
Indices: 23620581--23620639 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
23620571 TGATAAATAT
*
23620581 AATAAAATATAGATAAATCAACTAAAAA
1 AATAAAAGATAGATAAA-CAACTAAAAA
*
23620609 AATAAAAGATAGATAAA-AATTAAAAA
1 AATAAAAGATAGATAAACAACTAAAAA
23620635 AATAA
1 AATAA
23620640 TAAAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 13 0.45
28 16 0.55
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.20
Consensus pattern (27 bp):
AATAAAAGATAGATAAACAACTAAAAA
Found at i:23620652 original size:28 final size:28
Alignment explanation
Indices: 23620579--23620671 Score: 84
Period size: 27 Copynumber: 3.3 Consensus size: 28
23620569 AATGATAAAT
*
23620579 ATAATAAAATATAGATAAATCAACTAAAAAA
1 ATAATAAAATA-AGATAAA--AATTAAAAAA
*
23620610 ATAA-AAGAT-AGATAAAAATTAAAAAA
1 ATAATAAAATAAGATAAAAATTAAAAAA
* * *
23620636 ATAATAAAATAAAAT-AAAATGAAAAGA
1 ATAATAAAATAAGATAAAAATTAAAAAA
*
23620663 ATAAAAAAA
1 ATAATAAAA
23620672 AACCAATTGA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
26 13 0.25
27 22 0.42
28 10 0.19
30 4 0.08
31 4 0.08
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.19
Consensus pattern (28 bp):
ATAATAAAATAAGATAAAAATTAAAAAA
Found at i:23621100 original size:2 final size:2
Alignment explanation
Indices: 23621093--23621122 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23621083 TGTCTAGAGC
23621093 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
23621123 TTTTTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23626241 original size:149 final size:149
Alignment explanation
Indices: 23625971--23626242 Score: 368
Period size: 149 Copynumber: 1.8 Consensus size: 149
23625961 TTACAATACA
* * *
23625971 CTTTACTCTTTCCAAATGGAGAACTTTATTAACATCAAAATATCAAAAGAACCATTTTGAATGAT
1 CTTTACTCTTTCCAAATGGAGAACTTAATTAACATCAAAATATCAAAAAAACCATTTTGAAGGAT
* * * **
23626036 GGTAATAAGAATGAAGTAACATTTAAATATATAATATCTTTTCGTTTAGTCGAAAAAATATTTTT
66 GGTAATAAGAATGAAGTAACAATTAAAAATATAATATCTTTTCGGTTAGTAAAAAAAATATTTTT
23626101 ATGGAGAATGAAAAATATT
131 ATGGAGAATGAAAAATATT
* * ** **
23626120 CTTTACTCTTTCTAAATGGAGAAGTTAATTGGCATCAAAATATCAAAAAAATTATTTTGAAGGAT
1 CTTTACTCTTTCCAAATGGAGAACTTAATTAACATCAAAATATCAAAAAAACCATTTTGAAGGAT
* *
23626185 GGTAATTAA-AATGAAGTAACAATTAAAAATAT-ATCATGTTTTTGGTTAGTAAAAAAAA
66 GGTAA-TAAGAATGAAGTAACAATTAAAAATATAAT-ATCTTTTCGGTTAGTAAAAAAAA
23626243 AAATTTATGT
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
148 2 0.02
149 100 0.95
150 3 0.03
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (149 bp):
CTTTACTCTTTCCAAATGGAGAACTTAATTAACATCAAAATATCAAAAAAACCATTTTGAAGGAT
GGTAATAAGAATGAAGTAACAATTAAAAATATAATATCTTTTCGGTTAGTAAAAAAAATATTTTT
ATGGAGAATGAAAAATATT
Found at i:23626957 original size:22 final size:22
Alignment explanation
Indices: 23626932--23626992 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
23626922 AATTTAGTAG
23626932 TAAATAAGTGATAACTT-AATAA
1 TAAATAA-TGATAACTTGAATAA
*
23626954 TAAATTAATGATAA-TTGAGTAA
1 TAAA-TAATGATAACTTGAATAA
*
23626976 TAAATAATTAATAACTT
1 TAAATAA-TGATAACTT
23626993 TTTAGTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 5 0.15
22 23 0.70
23 5 0.15
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.36
Consensus pattern (22 bp):
TAAATAATGATAACTTGAATAA
Found at i:23626968 original size:44 final size:43
Alignment explanation
Indices: 23626920--23627348 Score: 185
Period size: 44 Copynumber: 9.9 Consensus size: 43
23626910 GTAATTATCA
* * *
23626920 ATAATTTAGTAGTAAATAAGTGATAACTTAATAATAAATTAATG
1 ATAATTTAGTAATAAATAA-TAATAACTTAATAGTAAATTAATG
* ** * *
23626964 ATAATTGAGTAATAAATAATTAATAACTTTTTAGTAAA-AAAGTA
1 ATAATTTAGTAATAAATAA-TAATAACTTAATAGTAAATTAA-TG
* * * * * * *
23627008 ATAATATAATAATATATGATAATACCTTAATGGTAAATTAATT
1 ATAATTTAGTAATAAATAATAATAACTTAATAGTAAATTAATG
* * * * * * *
23627051 ATAATATAG-ATGTAAATGTATAATAACATAATACTAAATCAAAG
1 ATAATTTAGTA-ATAAAT-AATAATAACTTAATAGTAAATTAATG
* ** * * * * * *
23627095 ATAACTTAACAAAAAATAAGTGATAATTTAGTAGTTAATTATTG
1 ATAATTTAGTAATAAATAA-TAATAACTTAATAGTAAATTAATG
* *
23627139 ATAATTTAGTAATAAATTAATGATAACTTAATAGTAAATTAATA
1 ATAATTTAGTAATAAA-TAATAATAACTTAATAGTAAATTAATG
* * * ** *
23627183 ATAATTTAATAGTAAATTAGTTTTAATTTAATAGT-AATTAATTG
1 ATAATTTAGTAATAAA-TAATAATAACTTAATAGTAAATTAA-TG
* * * *
23627227 A-AA---A-TAATAAATCATAAATTACTTAGTAGTAAATCAATG
1 ATAATTTAGTAATAAATAAT-AATAACTTAATAGTAAATTAATG
* * * * * * *
23627266 ATAAATTAGTAGTAAATAATTGATAATTTCATAGTTAATTATTG
1 ATAATTTAGTAATAAATAA-TAATAACTTAATAGTAAATTAATG
* * * * *
23627310 AAAACTTA-AAATAAATTAGT-ATAACTTAGTAGTAAATTA
1 ATAATTTAGTAATAAA-TAATAATAACTTAATAGTAAATTA
23627349 TTTATAACAT
Statistics
Matches: 278, Mismatches: 90, Indels: 36
0.69 0.22 0.09
Matches are distributed among these distances:
38 2 0.01
39 18 0.06
40 8 0.03
42 16 0.06
43 45 0.16
44 184 0.66
45 5 0.02
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (43 bp):
ATAATTTAGTAATAAATAATAATAACTTAATAGTAAATTAATG
Found at i:23627140 original size:22 final size:22
Alignment explanation
Indices: 23627115--23627227 Score: 113
Period size: 22 Copynumber: 5.1 Consensus size: 22
23627105 AAAAAATAAG
* *
23627115 TGATAATTTAGTAGTTAATTAT
1 TGATAATTTAATAGTAAATTAT
* * *
23627137 TGATAATTTAGTAATAAATTAA
1 TGATAATTTAATAGTAAATTAT
* *
23627159 TGATAACTTAATAGTAAATTAA
1 TGATAATTTAATAGTAAATTAT
*
23627181 TAATAATTTAATAGTAAATTAGT
1 TGATAATTTAATAGTAAATTA-T
*
23627204 T-TTAATTTAATAGT-AATTAAT
1 TGATAATTTAATAGTAAATT-AT
23627225 TGA
1 TGA
23627228 AAATAATAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
21 6 0.08
22 70 0.91
23 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.44
Consensus pattern (22 bp):
TGATAATTTAATAGTAAATTAT
Found at i:23627164 original size:11 final size:10
Alignment explanation
Indices: 23627150--23627201 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
23627140 TAATTTAGTA
23627150 ATAAATTAAT
1 ATAAATTAAT
*
23627160 GATAACTTAAT
1 -ATAAATTAAT
23627171 AGTAAATTAAT
1 A-TAAATTAAT
*
23627182 AATAATTTAAT
1 -ATAAATTAAT
23627193 AGTAAATTA
1 A-TAAATTA
23627202 GTTTTAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 2 0.06
11 31 0.91
12 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (10 bp):
ATAAATTAAT
Found at i:23627300 original size:22 final size:22
Alignment explanation
Indices: 23627108--23627291 Score: 80
Period size: 22 Copynumber: 8.6 Consensus size: 22
23627098 ACTTAACAAA
* *
23627108 AAATAAGTGATAATTTAGTAGT
1 AAATAATTGATAAATTAGTAGT
* * * *
23627130 TAATTATTGATAATTTAGTAAT
1 AAATAATTGATAAATTAGTAGT
* *
23627152 AAATTAA-TGATAACTTAATAGT
1 AAA-TAATTGATAAATTAGTAGT
* * *
23627174 AAATTAA-TAATAATTTAATAGT
1 AAA-TAATTGATAAATTAGTAGT
* * * *
23627196 AAATTAGTT-TTAATTTAATAGT
1 AAA-TAATTGATAAATTAGTAGT
*
23627218 AATTAATTGA-AAA-TA--A-T
1 AAATAATTGATAAATTAGTAGT
* ** * *
23627235 AAATCATAAATTACTTAGTAGT
1 AAATAATTGATAAATTAGTAGT
23627257 AAATCAA-TGATAAATTAGTAGT
1 AAAT-AATTGATAAATTAGTAGT
23627279 AAATAATTGATAA
1 AAATAATTGATAA
23627292 TTTCATAGTT
Statistics
Matches: 124, Mismatches: 28, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
17 7 0.06
18 2 0.02
19 2 0.02
20 2 0.02
21 9 0.07
22 98 0.79
23 4 0.03
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (22 bp):
AAATAATTGATAAATTAGTAGT
Found at i:23627340 original size:83 final size:81
Alignment explanation
Indices: 23627108--23627340 Score: 179
Period size: 83 Copynumber: 2.7 Consensus size: 81
23627098 ACTTAACAAA
* * *
23627108 AAATAAGTGATAATTTAGTAGTTAATTATTGATAATTTAGTAATAAATTAATGATAACTTAATAG
1 AAATAATTGATAATTTA-TAGTTAATTATTGA-AAATTA-AAATAAATTAAT-ATAAC-T--TAG
* *
23627173 TAAATTAATAATAATTTAATAGT
59 TAAATCAATAATAAATTAATAGT
* * * *
23627196 AAATTAGTT-TTAATTTAATAG-TAATTAATTGAAAATAATAAATCATAAATTACT-T-A-GTAG
1 AAA-TAATTGATAATTT-ATAGTTAATT-ATTGAAAAT--TAAA--ATAAATTAATATAACTTAG
* *
23627256 TAAATCAATGATAAATTAGTAGT
59 TAAATCAATAATAAATTAATAGT
*
23627279 AAATAATTGATAATTTCATAGTTAATTATTGAAAACTTAAAATAAATTAGTATAACTTAGTA
1 AAATAATTGATAATTT-ATAGTTAATTATTGAAAA-TTAAAATAAATTAATATAACTTAGTA
23627341 GTAAATTATT
Statistics
Matches: 116, Mismatches: 16, Indels: 31
0.71 0.10 0.19
Matches are distributed among these distances:
80 9 0.08
81 1 0.01
82 9 0.08
83 48 0.41
84 6 0.05
87 9 0.08
88 19 0.16
89 6 0.05
90 9 0.08
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (81 bp):
AAATAATTGATAATTTATAGTTAATTATTGAAAATTAAAATAAATTAATATAACTTAGTAAATCA
ATAATAAATTAATAGT
Found at i:23627543 original size:22 final size:22
Alignment explanation
Indices: 23627516--23627633 Score: 125
Period size: 22 Copynumber: 5.5 Consensus size: 22
23627506 ATATAAAACA
*
23627516 TAATAGTAAATCATTAATAGTT
1 TAATAGTAAATCATTAATAATT
*
23627538 TAATAG-CAA--ATTAATAATT
1 TAATAGTAAATCATTAATAATT
* * *
23627557 TAGTAGTAAATCACTAATAATG
1 TAATAGTAAATCATTAATAATT
* *
23627579 TAATAGTAAATTATTAATAACT
1 TAATAGTAAATCATTAATAATT
* *
23627601 TAATTGTAAATCAATAATAATT
1 TAATAGTAAATCATTAATAATT
*
23627623 TAGTAGTAAAT
1 TAATAGTAAAT
23627634 TAGTTAATCA
Statistics
Matches: 76, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
19 14 0.18
20 2 0.03
21 2 0.03
22 58 0.76
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.38
Consensus pattern (22 bp):
TAATAGTAAATCATTAATAATT
Found at i:23627567 original size:41 final size:41
Alignment explanation
Indices: 23627519--23627596 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
23627509 TAAAACATAA
* * *
23627519 TAGTAAATCATTAATAGTTTAATAGCAAATTAATAATTTAG
1 TAGTAAATCACTAATAATGTAATAGCAAATTAATAATTTAG
* *
23627560 TAGTAAATCACTAATAATGTAATAGTAAATTATTAAT
1 TAGTAAATCACTAATAATGTAATAGCAAATTAATAAT
23627597 AACTTAATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.38
Consensus pattern (41 bp):
TAGTAAATCACTAATAATGTAATAGCAAATTAATAATTTAG
Found at i:23627610 original size:44 final size:44
Alignment explanation
Indices: 23627516--23627649 Score: 132
Period size: 44 Copynumber: 3.1 Consensus size: 44
23627506 ATATAAAACA
* * * * *
23627516 TAATAGTAAATCATTAATAGTTTAATAG-CAA--ATTAATAATT
1 TAATAGTAAATCAATAATAATGTAATAGTAAATTATTAATAACT
* *
23627557 TAGTAGTAAATCACTAATAATGTAATAGTAAATTATTAATAACT
1 TAATAGTAAATCAATAATAATGTAATAGTAAATTATTAATAACT
* * * *
23627601 TAATTGTAAATCAATAATAATTTAGTAGTAAATTAGTTAATCA-T
1 TAATAGTAAATCAATAATAATGTAATAGTAAATTA-TTAATAACT
23627645 TAATA
1 TAATA
23627650 ACTTTTTAGT
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
41 24 0.32
42 2 0.03
44 44 0.58
45 6 0.08
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (44 bp):
TAATAGTAAATCAATAATAATGTAATAGTAAATTATTAATAACT
Found at i:23627647 original size:52 final size:52
Alignment explanation
Indices: 23627582--23627691 Score: 134
Period size: 52 Copynumber: 2.1 Consensus size: 52
23627572 AATAATGTAA
* * *
23627582 TAGTAAATTATTAATAACTTAATT-GTAAATCAAT-AATAATTTAGTAGTAAAT
1 TAGTTAATCATTAATAACTT-ATTAGTAAATC-ATCAATAAATTAGTAGTAAAT
* * *
23627634 TAGTTAATCATTAATAACTTTTTAGTGAATCATCAGTAAATTAGTAGTAAAT
1 TAGTTAATCATTAATAACTTATTAGTAAATCATCAATAAATTAGTAGTAAAT
23627686 TAGTTA
1 TAGTTA
23627692 TAATTTTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
51 4 0.08
52 46 0.92
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (52 bp):
TAGTTAATCATTAATAACTTATTAGTAAATCATCAATAAATTAGTAGTAAAT
Found at i:23627786 original size:22 final size:22
Alignment explanation
Indices: 23627761--23627808 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
23627751 CTTTTATAGC
*
23627761 TTAATGATAAATAATTCATAAT
1 TTAATGATAAATAATTCATAAA
*
23627783 TTAATGATAAATCATTCATAAA
1 TTAATGATAAATAATTCATAAA
23627805 TTAA
1 TTAA
23627809 AAGTAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (22 bp):
TTAATGATAAATAATTCATAAA
Found at i:23627815 original size:22 final size:23
Alignment explanation
Indices: 23627766--23627825 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
23627756 ATAGCTTAAT
* *
23627766 GATAAATAATTCAT-AATTTAAT
1 GATAAATAATTCATAAATTAAAA
*
23627788 GATAAATCATTCATAAATTAAAA
1 GATAAATAATTCATAAATTAAAA
* *
23627811 G-TAAATTATTGATAA
1 GATAAATAATTCATAA
23627826 TTTAGTAGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 25 0.78
23 7 0.22
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.37
Consensus pattern (23 bp):
GATAAATAATTCATAAATTAAAA
Found at i:23628183 original size:11 final size:11
Alignment explanation
Indices: 23628164--23628224 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
23628154 TTAATCATTG
*
23628164 ATAACTTAATA
1 ATAAATTAATA
23628175 ATAAATTAATA
1 ATAAATTAATA
*
23628186 ATAATTTAATA
1 ATAAATTAATA
* * *
23628197 GTAAATTAGTG
1 ATAAATTAATA
*
23628208 ATAACTTAATA
1 ATAAATTAATA
*
23628219 GTAAAT
1 ATAAAT
23628225 CAATTTCAAT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:23628189 original size:22 final size:22
Alignment explanation
Indices: 23628164--23628314 Score: 103
Period size: 22 Copynumber: 6.9 Consensus size: 22
23628154 TTAATCATTG
*
23628164 ATAACTTAATAATAAATTAATA
1 ATAACTTAATAGTAAATTAATA
* * *
23628186 ATAATTTAATAGTAAATTAGTG
1 ATAACTTAATAGTAAATTAATA
*
23628208 ATAACTTAATAGTAAATCAAT-
1 ATAACTTAATAGTAAATTAATA
* * *
23628229 TTCAATTTAATAGT-AATTAATTG
1 AT-AACTTAATAGTAAATTAA-TA
*
23628252 ATAAACTTAGTAGTAAATT-ATAA
1 AT-AACTTAATAGTAAATTAAT-A
** *
23628275 ATAA-TTTGTAGTAAATTAATG
1 ATAACTTAATAGTAAATTAATA
* * *
23628296 ATAATTTAGTAGTTAATTA
1 ATAACTTAATAGTAAATTA
23628315 TTAAAACATA
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
21 22 0.21
22 64 0.62
23 13 0.13
24 4 0.04
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTAATA
Found at i:23628210 original size:44 final size:44
Alignment explanation
Indices: 23628162--23628314 Score: 161
Period size: 44 Copynumber: 3.5 Consensus size: 44
23628152 TGTTAATCAT
* *
23628162 TGATAACTTAATAATAAATTAATAATAATTTAATAGTAAATTAG
1 TGATAACTTAATAGTAAATTAATAATAATTTAATAGTAAATTAA
* *
23628206 TGATAACTTAATAGTAAATCAAT-TTCAATTTAATAGT-AATTAA
1 TGATAACTTAATAGTAAATTAATAAT-AATTTAATAGTAAATTAA
* *
23628249 TTGATAAACTTAGTAGTAAATT-ATAAATAATTT-GTAGTAAATTAA
1 -TGAT-AACTTAATAGTAAATTAAT-AATAATTTAATAGTAAATTAA
* * *
23628294 TGATAATTTAGTAGTTAATTA
1 TGATAACTTAATAGTAAATTA
23628315 TTAAAACATA
Statistics
Matches: 92, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
43 20 0.22
44 46 0.50
45 25 0.27
46 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (44 bp):
TGATAACTTAATAGTAAATTAATAATAATTTAATAGTAAATTAA
Found at i:23628383 original size:16 final size:15
Alignment explanation
Indices: 23628362--23628395 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
23628352 GTTAATTATC
23628362 AATAACTTAATAGTTA
1 AATAACTTAATAG-TA
23628378 AATAACTTAATAGTA
1 AATAACTTAATAGTA
23628393 AAT
1 AAT
23628396 TATGACTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (15 bp):
AATAACTTAATAGTA
Found at i:23628633 original size:22 final size:22
Alignment explanation
Indices: 23628587--23628867 Score: 179
Period size: 22 Copynumber: 12.8 Consensus size: 22
23628577 AGTAGTAAAT
* * * *
23628587 TAGTTAATCACTGATAGCTTTA
1 TAGTAAATCATTGATAACTTAA
*
23628609 TAGTAAATCATTGATAAATTAA
1 TAGTAAATCATTGATAACTTAA
* * * *
23628631 TAGTAAATTAGCT-ATATCTTTA
1 TAGTAAATCA-TTGATAACTTAA
* * * *
23628653 CAATAAATTATTAATAACTTAA
1 TAGTAAATCATTGATAACTTAA
* * *
23628675 TAATAAATCATTAATAATTTAA
1 TAGTAAATCATTGATAACTTAA
*
23628697 TAGTAAATCATTTATAACTTAA
1 TAGTAAATCATTGATAACTTAA
* * *
23628719 TAATAAATCATTCATAAATTAA
1 TAGTAAATCATTGATAACTTAA
* * * * * *
23628741 TAGCAAATTAATGCTAATTTAG
1 TAGTAAATCATTGATAACTTAA
* *
23628763 TAGTAAATCATTTATAATTTAA
1 TAGTAAATCATTGATAACTTAA
* * *
23628785 TAATATATTATTGATAACTTAA
1 TAGTAAATCATTGATAACTTAA
* * **
23628807 TAGTAAATTACTGATAAAATAA
1 TAGTAAATCATTGATAACTTAA
* * *
23628829 TAATAAATCAATAATAACTTAA
1 TAGTAAATCATTGATAACTTAA
*
23628851 TTA-TCAATCATTGATAA
1 -TAGTAAATCATTGATAA
23628868 ATTTTTTTAG
Statistics
Matches: 199, Mismatches: 57, Indels: 6
0.76 0.22 0.02
Matches are distributed among these distances:
21 1 0.01
22 195 0.98
23 3 0.02
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (22 bp):
TAGTAAATCATTGATAACTTAA
Found at i:23628678 original size:11 final size:11
Alignment explanation
Indices: 23628654--23628851 Score: 90
Period size: 11 Copynumber: 18.0 Consensus size: 11
23628644 ATATCTTTAC
*
23628654 AATAAATTATT
1 AATAAATTAAT
*
23628665 AATAACTTAAT
1 AATAAATTAAT
* *
23628676 AATAAATCATT
1 AATAAATTAAT
*
23628687 AATAATTTAAT
1 AATAAATTAAT
* * *
23628698 AGTAAATCATT
1 AATAAATTAAT
* *
23628709 TATAACTTAAT
1 AATAAATTAAT
* *
23628720 AATAAATCATT
1 AATAAATTAAT
*
23628731 CATAAATTAAT
1 AATAAATTAAT
**
23628742 AGCAAATTAAT
1 AATAAATTAAT
** * *
23628753 GCTAATTTAGT
1 AATAAATTAAT
* * *
23628764 AGTAAATCATT
1 AATAAATTAAT
* *
23628775 TATAATTTAAT
1 AATAAATTAAT
* *
23628786 AATATATTATT
1 AATAAATTAAT
* *
23628797 GATAACTTAAT
1 AATAAATTAAT
* *
23628808 AGTAAATTACT
1 AATAAATTAAT
* *
23628819 GATAAAATAAT
1 AATAAATTAAT
*
23628830 AATAAATCAAT
1 AATAAATTAAT
*
23628841 AATAACTTAAT
1 AATAAATTAAT
23628852 TATCAATCAT
Statistics
Matches: 124, Mismatches: 63, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
11 124 1.00
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.39
Consensus pattern (11 bp):
AATAAATTAAT
Found at i:23628704 original size:44 final size:44
Alignment explanation
Indices: 23628654--23628870 Score: 200
Period size: 44 Copynumber: 4.9 Consensus size: 44
23628644 ATATCTTTAC
* *
23628654 AATAAATTATTAATAACTTAATAATAAATCATTAATAATTTAAT
1 AATAAATTATTAATAACTTAATAATAAATCATTGATAAATTAAT
* * * *
23628698 AGTAAATCATTTATAACTTAATAATAAATCATTCATAAATTAAT
1 AATAAATTATTAATAACTTAATAATAAATCATTGATAAATTAAT
** * ** * * * * *
23628742 AGCAAATTAATGCTAATTTAGTAGTAAATCATTTATAATTTAAT
1 AATAAATTATTAATAACTTAATAATAAATCATTGATAAATTAAT
* * * * * *
23628786 AATATATTATTGATAACTTAATAGTAAATTACTGATAAAATAAT
1 AATAAATTATTAATAACTTAATAATAAATCATTGATAAATTAAT
* * * *
23628830 AATAAATCAATAATAACTTAATTATCAATCATTGATAAATT
1 AATAAATTATTAATAACTTAATAATAAATCATTGATAAATT
23628871 TTTTTAGACT
Statistics
Matches: 136, Mismatches: 37, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
44 136 1.00
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (44 bp):
AATAAATTATTAATAACTTAATAATAAATCATTGATAAATTAAT
Found at i:23628724 original size:66 final size:66
Alignment explanation
Indices: 23628608--23628851 Score: 245
Period size: 66 Copynumber: 3.7 Consensus size: 66
23628598 TGATAGCTTT
* ** * * *
23628608 ATAGTAAATCATTGATAAATTAATAGTAAATTAGCTATATCTTTACAATAAATTATTAATAACTT
1 ATAGTAAATCATTGATAAATTAATAGTAAATCATTTATAACTTAATAATAAATTATTAATAACTT
23628673 A
66 A
* * * * * *
23628674 ATAATAAATCATTAATAATTTAATAGTAAATCATTTATAACTTAATAATAAATCATTCATAAATT
1 ATAGTAAATCATTGATAAATTAATAGTAAATCATTTATAACTTAATAATAAATTATTAATAACTT
23628739 A
66 A
* * * * * * * * *
23628740 ATAGCAAATTAATGCTAATTTAGTAGTAAATCATTTATAATTTAATAATATATTATTGATAACTT
1 ATAGTAAATCATTGATAAATTAATAGTAAATCATTTATAACTTAATAATAAATTATTAATAACTT
23628805 A
66 A
* * * * * *
23628806 ATAGTAAATTACTGATAAAATAATAATAAATCAATAATAACTTAAT
1 ATAGTAAATCATTGATAAATTAATAGTAAATCATTTATAACTTAAT
23628852 TATCAATCAT
Statistics
Matches: 144, Mismatches: 34, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
66 144 1.00
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (66 bp):
ATAGTAAATCATTGATAAATTAATAGTAAATCATTTATAACTTAATAATAAATTATTAATAACTT
A
Found at i:23628864 original size:66 final size:65
Alignment explanation
Indices: 23628591--23628867 Score: 230
Period size: 66 Copynumber: 4.2 Consensus size: 65
23628581 GTAAATTAGT
* * * * * * * ** * * *
23628591 TAATCACTGATAGCTTTATAGTAAATCATTGATAAATTAATAGTAAATTAGCTATATCTTTACAA
1 TAATCATTGATAACTTAATAGTAAATTAATGATAATTTAATAGTAAATCATTTATAACTTAATAA
* * * * * *
23628656 TAAATTATTAATAACTTAATAATAAATCATTAATAATTTAATAGTAAATCATTTATAACTTAATA
1 T-AATCATTGATAACTTAATAGTAAATTAATGATAATTTAATAGTAAATCATTTATAACTTAATA
23628721 A
65 A
* * * * * *
23628722 TAAATCATTCATAAATTAATAGCAAATTAATGCTAATTTAGTAGTAAATCATTTATAATTTAATA
1 T-AATCATTGATAACTTAATAGTAAATTAATGATAATTTAATAGTAAATCATTTATAACTTAATA
23628787 A
65 A
* * ** * * * *
23628788 TATATTATTGATAACTTAATAGTAAATTACTGATAAAATAATAATAAATCAATAATAACTTAATT
1 TA-ATCATTGATAACTTAATAGTAAATTAATGATAATTTAATAGTAAATCATTTATAACTTAATA
23628853 A
65 A
23628854 TCAATCATTGATAA
1 T-AATCATTGATAA
23628868 ATTTTTTTAG
Statistics
Matches: 169, Mismatches: 40, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
65 2 0.01
66 166 0.98
67 1 0.01
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (65 bp):
TAATCATTGATAACTTAATAGTAAATTAATGATAATTTAATAGTAAATCATTTATAACTTAATAA
Found at i:23629216 original size:21 final size:21
Alignment explanation
Indices: 23629178--23629217 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23629168 ACATCAAGAT
* **
23629178 ATTACTAAAATTTTATCAATG
1 ATTACCAAAATTGAATCAATG
23629199 ATTACCAAAATTGAATCAA
1 ATTACCAAAATTGAATCAA
23629218 AAGTTAATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (21 bp):
ATTACCAAAATTGAATCAATG
Found at i:23629229 original size:21 final size:21
Alignment explanation
Indices: 23629205--23629251 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
23629195 AATGATTACC
*
23629205 AAAATTGAATCAAAAGTTAAT
1 AAAATTGAATCAAAACTTAAT
** *
23629226 AAAATTTTATCAAAACTTACT
1 AAAATTGAATCAAAACTTAAT
23629247 AAAAT
1 AAAAT
23629252 CAAAATTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (21 bp):
AAAATTGAATCAAAACTTAAT
Found at i:23629265 original size:37 final size:36
Alignment explanation
Indices: 23629212--23629294 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 36
23629202 ACCAAAATTG
**
23629212 AATCAAAAGTTAATAAAATTTTATCAAAACTT-ACTAA
1 AATCAAAA-TTAATAAAAAGTTATCAAAA-TTAACTAA
*
23629249 AATCAAAATTATATAAAAAGTTATCAAAATTAACTTA
1 AATCAAAATTA-ATAAAAAGTTATCAAAATTAACTAA
*
23629286 TATCAAAAT
1 AATCAAAAT
23629295 CAAGATTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
36 5 0.12
37 35 0.88
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (36 bp):
AATCAAAATTAATAAAAAGTTATCAAAATTAACTAA
Found at i:23629311 original size:3 final size:3
Alignment explanation
Indices: 23629299--23629329 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
23629289 CAAAATCAAG
23629299 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
23629330 AAGATTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:23629385 original size:2 final size:2
Alignment explanation
Indices: 23629378--23629411 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
23629368 TCAAAAACTA
23629378 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23629412 AGAACTTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:23629398 original size:17 final size:17
Alignment explanation
Indices: 23629376--23629412 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
23629366 TGTCAAAAAC
23629376 TAATATATATATATATA
1 TAATATATATATATATA
23629393 TAATATATATATATATA
1 TAATATATATATATATA
23629410 TAA
1 TAA
23629413 GAACTTAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATATATATATATATA
Found at i:23629400 original size:15 final size:15
Alignment explanation
Indices: 23629380--23629409 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23629370 AAAAACTAAT
23629380 ATATATATATATATA
1 ATATATATATATATA
23629395 ATATATATATATATA
1 ATATATATATATATA
23629410 TAAGAACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:23631824 original size:12 final size:12
Alignment explanation
Indices: 23631807--23631832 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23631797 TTAAAAATGA
23631807 TTTAATAAAAAT
1 TTTAATAAAAAT
23631819 TTTAATAAAAAT
1 TTTAATAAAAAT
23631831 TT
1 TT
23631833 CAATTCAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTAATAAAAAT
Found at i:23632060 original size:15 final size:15
Alignment explanation
Indices: 23632042--23632077 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
23632032 TTAATTTTAA
23632042 TTAATTTATTTAATT
1 TTAATTTATTTAATT
*
23632057 TTAATTTATTTATTT
1 TTAATTTATTTAATT
23632072 TTAATT
1 TTAATT
23632078 AAAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTAATTTATTTAATT
Found at i:23632079 original size:19 final size:19
Alignment explanation
Indices: 23632031--23632071 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
23632021 AACGAAATCT
23632031 TTTAATTTTAATTAATTTA
1 TTTAATTTTAATTAATTTA
*
23632050 TTTAATTTTAATTTATTTA
1 TTTAATTTTAATTAATTTA
23632069 TTT
1 TTT
23632072 TTAATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTAATTTTAATTAATTTA
Found at i:23632467 original size:2 final size:2
Alignment explanation
Indices: 23632454--23632487 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
23632444 CAGCAAGTCA
23632454 TC TC TC -C T- TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
23632488 CAGCATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:23642557 original size:30 final size:29
Alignment explanation
Indices: 23642521--23642614 Score: 92
Period size: 30 Copynumber: 3.3 Consensus size: 29
23642511 GTTATATTCG
23642521 TAATTAAATATTATATTTATATATAAATAA
1 TAATTAAATATTATATTTATAT-TAAATAA
*
23642551 TAATTAATTATTATATTT-T-TTAAAT--
1 TAATTAAATATTATATTTATATTAAATAA
*
23642576 TAATTAAATAATTAAATTTATATCT-AATAA
1 TAATTAAAT-ATTATATTTATAT-TAAATAA
23642606 -AACTTAAAT
1 TAA-TTAAAT
23642615 CTAAAACTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
25 8 0.15
26 8 0.15
27 6 0.11
28 5 0.09
29 4 0.07
30 23 0.43
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (29 bp):
TAATTAAATATTATATTTATATTAAATAA
Found at i:23643123 original size:3 final size:3
Alignment explanation
Indices: 23643115--23643155 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
23643105 TTAATTGCTA
* *
23643115 ATT ATT ATT ATT ATT AGT ATT ATT GTT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
23643156 CGAGTCATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:23643914 original size:6 final size:6
Alignment explanation
Indices: 23643905--23643932 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
23643895 AAACTTAAAA
23643905 TTTATT TTTATT TTTATT TTTATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTA
23643933 AAAAACTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:23645162 original size:22 final size:21
Alignment explanation
Indices: 23645135--23645178 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
23645125 TAAAAATTCG
23645135 ATTAAAT-TTATAAATTATTTAA
1 ATTAAATATTA-AAA-TATTTAA
23645157 ATTAAATATTAAAATATTTAA
1 ATTAAATATTAAAATATTTAA
23645178 A
1 A
23645179 CTCGACTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 10 0.48
23 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTAAATATTAAAATATTTAA
Found at i:23649704 original size:16 final size:16
Alignment explanation
Indices: 23649683--23649713 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23649673 CGCAAGGGTG
23649683 TTTTCTTTTTTTTTTT
1 TTTTCTTTTTTTTTTT
23649699 TTTTCTTTTTTTTTT
1 TTTTCTTTTTTTTTT
23649714 CCTCAATTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (16 bp):
TTTTCTTTTTTTTTTT
Found at i:23653365 original size:18 final size:18
Alignment explanation
Indices: 23653344--23653387 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23653334 TTGTCTATGT
*
23653344 ATATAATTTTTAATAATA
1 ATATAATTTTTAAAAATA
**
23653362 ATATTTTTTTTAAAAATA
1 ATATAATTTTTAAAAATA
23653380 ATAATAAT
1 AT-ATAAT
23653388 ATTGGTTTAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATAATTTTTAAAAATA
Found at i:23654152 original size:28 final size:29
Alignment explanation
Indices: 23654121--23654181 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
23654111 ATAAAGAAAA
**
23654121 CATAAAAG-CAAAACGACGTCGTTTTGAG
1 CATAAAAGCCAAAACGACGTCGTTTCAAG
* *
23654149 CAT-AGAGCCAAAACGATGTCGTTTCAAG
1 CATAAAAGCCAAAACGACGTCGTTTCAAG
23654177 CATAA
1 CATAA
23654182 GAGGATTCGC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 3 0.11
28 23 0.85
29 1 0.04
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (29 bp):
CATAAAAGCCAAAACGACGTCGTTTCAAG
Found at i:23654924 original size:32 final size:32
Alignment explanation
Indices: 23654886--23655018 Score: 125
Period size: 32 Copynumber: 4.2 Consensus size: 32
23654876 TTCTAAAACT
23654886 CTTAAAATCCAAAATCCTCTAAAATCCAAAATC
1 CTTAAAATCCAAAA-CCTCTAAAATCCAAAATC
** *
23654919 C-TAAAATCTGAAACCCCTAAAAATCCAAAATC
1 CTTAAAATCCAAAACCTCT-AAAATCCAAAATC
*
23654951 CTTTAAATCC-AAA-CTACTAAAATCCAAAATCC
1 CTTAAAATCCAAAACCT-CTAAAATCCAAAAT-C
* *
23654983 CTTAAAATCTAAAATCCT-T-AAATCC-AAACC
1 CTTAAAATCCAAAA-CCTCTAAAATCCAAAATC
23655013 CTTAAA
1 CTTAAA
23655019 TAAAAACCCC
Statistics
Matches: 84, Mismatches: 9, Indels: 17
0.76 0.08 0.15
Matches are distributed among these distances:
30 7 0.08
31 20 0.24
32 44 0.52
33 11 0.13
35 2 0.02
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (32 bp):
CTTAAAATCCAAAACCTCTAAAATCCAAAATC
Found at i:23654963 original size:48 final size:48
Alignment explanation
Indices: 23654889--23655010 Score: 156
Period size: 48 Copynumber: 2.5 Consensus size: 48
23654879 TAAAACTCTT
* * **
23654889 AAAATCCAAAATCCTCTAAAATCCAAAATCCTAAAATCTGAAACCCCTA
1 AAAATCCAAAATCCT-TTAAATCCAAAATACTAAAATCCAAAACCCCTA
* * *
23654938 AAAATCCAAAATCCTTTAAATCCAAACTACTAAAATCCAAAATCCCTT
1 AAAATCCAAAATCCTTTAAATCCAAAATACTAAAATCCAAAACCCCTA
*
23654986 AAAATCTAAAATCC-TTAAATCCAAA
1 AAAATCCAAAATCCTTTAAATCCAAA
23655011 CCCTTAAATA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
47 11 0.17
48 39 0.60
49 15 0.23
ACGTcount: A:0.50, C:0.26, G:0.01, T:0.23
Consensus pattern (48 bp):
AAAATCCAAAATCCTTTAAATCCAAAATACTAAAATCCAAAACCCCTA
Found at i:23663107 original size:33 final size:33
Alignment explanation
Indices: 23663065--23663372 Score: 344
Period size: 33 Copynumber: 9.5 Consensus size: 33
23663055 AATAATAAAA
* *
23663065 TTTAAGCCCAGTTTATCTGGCCATTAATGAAGT
1 TTTAAGCCCAGTTTATCTGGCCATCAATGAAGC
*
23663098 TTTAAGCCCAGTTTATCTGGTCATCAATGAAGC
1 TTTAAGCCCAGTTTATCTGGCCATCAATGAAGC
* *
23663131 TTTAAGCCCAGTTTATCAGGCC-TCAAATGAAGT
1 TTTAAGCCCAGTTTATCTGGCCATC-AATGAAGC
*
23663164 TTTAAGCCCAGTTTATCTGGCCATCAATGAAAC
1 TTTAAGCCCAGTTTATCTGGCCATCAATGAAGC
* *
23663197 TTTAAGCCTAG-TTATCTGGCTATCAATG-A-C
1 TTTAAGCCCAGTTTATCTGGCCATCAATGAAGC
* * **
23663227 ATTTAAACCCAGTTTATCTGACCATCAAT-AAAA
1 -TTTAAGCCCAGTTTATCTGGCCATCAATGAAGC
* *
23663260 TTTAAGCTCAGTTTATCTGACCATCAATG-A-C
1 TTTAAGCCCAGTTTATCTGGCCATCAATGAAGC
* *
23663291 ATTTAAGCCCAGTTTATCTAGTCATCAATGAAGC
1 -TTTAAGCCCAGTTTATCTGGCCATCAATGAAGC
* * *
23663325 TTTAAGCCCAGTTTATTTGGCC-TCAAATGAGGT
1 TTTAAGCCCAGTTTATCTGGCCATC-AATGAAGC
*
23663358 TTTAAGCCTAGTTTA
1 TTTAAGCCCAGTTTA
23663373 GCTTACTTTC
Statistics
Matches: 235, Mismatches: 29, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
30 1 0.00
31 10 0.04
32 87 0.37
33 134 0.57
34 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (33 bp):
TTTAAGCCCAGTTTATCTGGCCATCAATGAAGC
Found at i:23664199 original size:111 final size:110
Alignment explanation
Indices: 23663998--23664386 Score: 448
Period size: 111 Copynumber: 3.5 Consensus size: 110
23663988 GACCTCCGAA
* * *
23663998 CATAAATTCGATTCGCGATGTTATCTCGATCGATTCATTATTCTCGACTTACAGTGTTATCCCAG
1 CATAAATTCGATTCGCGGTGTTATCTCGATCGATTCATTATTCTTGACTTACGGTGTTATCCCAG
* * * ** *
23664063 TCAATTCTGTAAGACCTCCGAGCATGATTTCTGTAAAAATTTTGAG
66 TCGATTCTGTAAGACCTTCGTGCATGATTTCTGTAAAACCTCTG-G
*
23664109 CATAAATTCGATTCGCGGTGTTATCTCGATCGATTCATTATTCTTGACTTACGGTGTTGTCCCAG
1 CATAAATTCGATTCGCGGTGTTATCTCGATCGATTCATTATTCTTGACTTACGGTGTTATCCCAG
* *
23664174 TCGATTCTGTAAAACCTTCGTGCATGATTTCTGTAAAACCTCCGG
66 TCGATTCTGTAAGACCTTCGTGCATGATTTCTGTAAAACCTCTGG
* * * *
23664219 ACATAATTTCAATTCGCGGTGTTATCTCGATCGATTCTTTAATT-TTGACTTGCGGTGTTAT-CC
1 -CATAAATTCGATTCGCGGTGTTATCTCGATCGATTCATT-ATTCTTGACTTACGGTGTTATCCC
* *
23664282 AGTCGATTCTGTAAGACC-TCCTAGCATGATTTCT-T-AGACCTCTGGG
64 AGTCGATTCTGTAAGACCTTCGT-GCATGATTTCTGTAAAACCTCT-GG
* * * * * * *
23664328 CATAATTTTGATTCGCGGTGTTGTCCCAATCAATTCCA-TATTTTTTGACTTACGGTGTT
1 CATAAATTCGATTCGCGGTGTTATCTCGATCGATT-CATTA-TTCTTGACTTACGGTGTT
23664387 GTCTTAGTCA
Statistics
Matches: 242, Mismatches: 29, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
107 1 0.00
108 38 0.16
109 21 0.09
110 31 0.13
111 148 0.61
112 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (110 bp):
CATAAATTCGATTCGCGGTGTTATCTCGATCGATTCATTATTCTTGACTTACGGTGTTATCCCAG
TCGATTCTGTAAGACCTTCGTGCATGATTTCTGTAAAACCTCTGG
Found at i:23664227 original size:24 final size:24
Alignment explanation
Indices: 23664178--23664228 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
23664168 TCCCAGTCGA
* *
23664178 TTCTGTAAAACCTTCGTGCATGAT
1 TTCTGTAAAACCTCCGTGCATAAT
23664202 TTCTGTAAAACCTCCG-GACATAAT
1 TTCTGTAAAACCTCCGTG-CATAAT
23664226 TTC
1 TTC
23664229 AATTCGCGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (24 bp):
TTCTGTAAAACCTCCGTGCATAAT
Found at i:23664446 original size:110 final size:109
Alignment explanation
Indices: 23663978--23664445 Score: 414
Period size: 111 Copynumber: 4.3 Consensus size: 109
23663968 TTAAAGATCT
** * * *
23663978 TGATTTCTAAGACCTCCGAACATAAATTCGATTCGCGATGTTATCTCGATCGATT-CAT-TATTC
1 TGATTTCTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTATCTCGATCGATTCCATAT-TTT
* * * * *
23664041 TCGACTTACAGTGTTATCCCAGTCAATTCTGTAAGACCTCCGAGCA
65 TTGACTTACGGTGTTGT-CCAGTCGATTCTGTAAGACCTCTGAGCA
* ** ** * *
23664087 TGATTTCTGTAAAAATTTTGAGCATAAATTCGATTCGCGGTGTTATCTCGATCGATT-CAT-TAT
1 TGATTTC--TAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTATCTCGATCGATTCCATAT-T
* * *
23664150 TCTTGACTTACGGTGTTGTCCCAGTCGATTCTGTAAAACCT-TCGTGCA
63 TTTTGACTTACGGTGTTGT-CCAGTCGATTCTGTAAGACCTCT-GAGCA
* * * ** *
23664198 TGATTTCTGTAAAACCTCCGGACATAATTTCAATTCGCGGTGTTATCTCGATCGATTCTTTA-AT
1 TGATTTC--TAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTATCTCGATCGATTCCATATTT
* *
23664262 TTTGACTTGCGGTGTTATCCAGTCGATTCTGTAAGACCTCCT-AGCA
64 TTTGACTTACGGTGTTGTCCAGTCGATTCTGTAAGACCT-CTGAGCA
* * * * * * *
23664308 TGATTTCTTAGACCTCTGGGCATAATTTTGATTCGCGGTGTTGTCCCAATCAATTCCATATTTTT
1 TGATTTCTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTATCTCGATCGATTCCATATTTTT
* * *
23664373 TGACTTACGGTGTTGTCTTAGTCAAATT-TGTAAGACCTCTGGGCA
66 TGACTTACGGTGTTGTC-CAGTC-GATTCTGTAAGACCTCTGAGCA
23664418 TGACTTT-TAAGACCTCCGGGCATAATTT
1 TGA-TTTCTAAGACCTCCGGGCATAATTT
23664446 TTTGACTTAC
Statistics
Matches: 297, Mismatches: 50, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
108 41 0.14
109 27 0.09
110 69 0.23
111 158 0.53
112 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (109 bp):
TGATTTCTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTATCTCGATCGATTCCATATTTTT
TGACTTACGGTGTTGTCCAGTCGATTCTGTAAGACCTCTGAGCA
Found at i:23664447 original size:22 final size:22
Alignment explanation
Indices: 23664397--23664447 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
23664387 GTCTTAGTCA
* *
23664397 AATTTGTAAGACCTCTGGGCAT
1 AATTTTTAAGACCTCCGGGCAT
* *
23664419 GACTTTTAAGACCTCCGGGCAT
1 AATTTTTAAGACCTCCGGGCAT
23664441 AATTTTT
1 AATTTTT
23664448 TGACTTACGG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (22 bp):
AATTTTTAAGACCTCCGGGCAT
Found at i:23664698 original size:17 final size:19
Alignment explanation
Indices: 23664678--23664716 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
23664668 CTGAGTCTAC
23664678 ATTTTTT-A-ATAATAATA
1 ATTTTTTAAGATAATAATA
23664695 ATTTTTTTAAGATAATAATA
1 A-TTTTTTAAGATAATAATA
23664715 AT
1 AT
23664717 AATAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.05
18 6 0.32
19 2 0.11
20 10 0.53
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTTTTTAAGATAATAATA
Found at i:23664858 original size:19 final size:19
Alignment explanation
Indices: 23664836--23664872 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23664826 GGCACCGCTG
*
23664836 GCCACCCACGCCTTGCCAA
1 GCCACCCACGCCCTGCCAA
*
23664855 GCCACCCATGCCCTGCCA
1 GCCACCCACGCCCTGCCA
23664873 CTACCCCAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.54, G:0.16, T:0.11
Consensus pattern (19 bp):
GCCACCCACGCCCTGCCAA
Found at i:23666272 original size:15 final size:15
Alignment explanation
Indices: 23666244--23666474 Score: 101
Period size: 16 Copynumber: 14.9 Consensus size: 15
23666234 ATCCTCAGTT
23666244 TCTAAAACTCCTAAAA
1 TCTAAAA-TCCTAAAA
23666260 TCTAAAATCCTAAAA
1 TCTAAAATCCTAAAA
* *
23666275 TCCAAAATCCTATAA
1 TCTAAAATCCTAAAA
* **
23666290 TCCGAAACCCCTAAAAA
1 T-CTAAAATCCT-AAAA
* *
23666307 TCCAAAATCTCTTAAA
1 TCTAAAATC-CTAAAA
* *
23666323 TCCAAACTCCTAAAA
1 TCTAAAATCCTAAAA
*
23666338 TCCAAAATCTCCTAAAA
1 TCTAAAA--TCCTAAAA
* *
23666355 TCGAAAATCCTTAAA
1 TCTAAAATCCTAAAA
* *
23666370 TCAATCCAAATCCTTAAA
1 TC--T-AAAATCCTAAAA
*
23666388 TC-AAAAT-CTCAAA
1 TCTAAAATCCTAAAA
* * **
23666401 CCTTAAATTTTAAAA
1 TCTAAAATCCTAAAA
* *
23666416 -CCAAAACCCTAAAA
1 TCTAAAATCCTAAAA
* *
23666430 TCTTCAAATTCTAAAA
1 TC-TAAAATCCTAAAA
* *
23666446 TCTTCAAATTCTAAAA
1 TC-TAAAATCCTAAAA
*
23666462 TC-AAAACCCTAAA
1 TCTAAAATCCTAAA
23666475 CCTTCCATAC
Statistics
Matches: 168, Mismatches: 35, Indels: 26
0.73 0.15 0.11
Matches are distributed among these distances:
13 6 0.04
14 25 0.15
15 47 0.28
16 57 0.34
17 20 0.12
18 13 0.08
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.26
Consensus pattern (15 bp):
TCTAAAATCCTAAAA
Found at i:23666284 original size:7 final size:8
Alignment explanation
Indices: 23666245--23666371 Score: 95
Period size: 7 Copynumber: 16.0 Consensus size: 8
23666235 TCCTCAGTTT
23666245 CTAAAACTC
1 CTAAAA-TC
23666254 CTAAAAT-
1 CTAAAATC
23666261 CTAAAATC
1 CTAAAATC
23666269 CTAAAATC
1 CTAAAATC
23666277 C-AAAATC
1 CTAAAATC
*
23666284 CTATAATC
1 CTAAAATC
* **
23666292 CGAAACCC
1 CTAAAATC
23666300 CTAAAAATC
1 CT-AAAATC
23666309 C-AAAATC
1 CTAAAATC
*
23666316 TCTTAAATC
1 -CTAAAATC
*
23666325 C-AAACTC
1 CTAAAATC
23666332 CTAAAATC
1 CTAAAATC
23666340 C-AAAATCTC
1 CTAAAA--TC
23666349 CTAAAAT-
1 CTAAAATC
*
23666356 CGAAAATC
1 CTAAAATC
*
23666364 CTTAAATC
1 CTAAAATC
23666372 AATCCAAATC
Statistics
Matches: 93, Mismatches: 15, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
7 35 0.38
8 35 0.38
9 19 0.20
10 4 0.04
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.24
Consensus pattern (8 bp):
CTAAAATC
Found at i:23666309 original size:32 final size:31
Alignment explanation
Indices: 23666268--23666353 Score: 113
Period size: 31 Copynumber: 2.7 Consensus size: 31
23666258 AATCTAAAAT
23666268 CCTAAAATCCAAAATC-C-TATAATCCGAAACC
1 CCTAAAATCCAAAATCTCTTA-AATCC-AAACC
*
23666299 CCTAAAAATCCAAAATCTCTTAAATCCAAACT
1 CCT-AAAATCCAAAATCTCTTAAATCCAAACC
*
23666331 CCTAAAATCCAAAATCTCCTAAA
1 CCTAAAATCCAAAATCTCTTAAA
23666354 ATCGAAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
31 22 0.44
32 20 0.40
33 6 0.12
34 2 0.04
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (31 bp):
CCTAAAATCCAAAATCTCTTAAATCCAAACC
Found at i:23666356 original size:32 final size:31
Alignment explanation
Indices: 23666247--23666371 Score: 128
Period size: 32 Copynumber: 4.0 Consensus size: 31
23666237 CTCAGTTTCT
*
23666247 AAAACTCCTAAAATCTAAAATCCTAAAATCC
1 AAAACTCCTAAAATCCAAAATCCTAAAATCC
* **
23666278 AAAA-TCCTATAATCCGAAACCCCTAAAAATCC
1 AAAACTCCTAAAATCC-AAAATCCT-AAAATCC
* *
23666310 AAAA-TCTCTTAAATCCAAACTCCTAAAATCC
1 AAAACTC-CTAAAATCCAAAATCCTAAAATCC
* *
23666341 AAAATCTCCTAAAATCGAAAATCCTTAAATC
1 AAAA-CTCCTAAAATCCAAAATCCTAAAATC
23666372 AATCCAAATC
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
30 9 0.12
31 21 0.27
32 39 0.50
33 9 0.12
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.23
Consensus pattern (31 bp):
AAAACTCCTAAAATCCAAAATCCTAAAATCC
Found at i:23666490 original size:46 final size:46
Alignment explanation
Indices: 23666405--23666493 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 46
23666395 CTCAAACCTT
* * **
23666405 AAATTTTAAAACCAAAACCCTAAAATCTTCAAATTCTAAAATCTTC
1 AAATTCTAAAACCAAAACCCTAAAACCTTCAAACCCTAAAATCTTC
* *
23666451 AAATTCTAAAATCAAAACCCT-AAACCTTCCATACCCTAAAATC
1 AAATTCTAAAACCAAAACCCTAAAACCTT-CAAACCCTAAAATC
23666494 GAAGACTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
45 6 0.17
46 30 0.83
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (46 bp):
AAATTCTAAAACCAAAACCCTAAAACCTTCAAACCCTAAAATCTTC
Found at i:23667009 original size:15 final size:15
Alignment explanation
Indices: 23666989--23667018 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23666979 TTTTATTTTC
*
23666989 TATTTTATGATAAAA
1 TATTTTATAATAAAA
23667004 TATTTTATAATAAAA
1 TATTTTATAATAAAA
23667019 AAAGAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TATTTTATAATAAAA
Found at i:23669235 original size:15 final size:14
Alignment explanation
Indices: 23669179--23669228 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
23669169 TAAATATTAA
23669179 TTTTAATAAAATTT
1 TTTTAATAAAATTT
* * *
23669193 ATTTAATATAAGTT
1 TTTTAATAAAATTT
*
23669207 TTTTATTAAAAATTT
1 TTTTAAT-AAAATTT
23669222 TTTTAAT
1 TTTTAAT
23669229 CATAATTATA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
TTTTAATAAAATTT
Found at i:23670839 original size:18 final size:18
Alignment explanation
Indices: 23670816--23670855 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
23670806 ATTTTTCGTG
23670816 ATTATTCAAGTTAGAATT
1 ATTATTCAAGTTAGAATT
23670834 ATTATTCAAGTTAGAATT
1 ATTATTCAAGTTAGAATT
23670852 ATTA
1 ATTA
23670856 GATTAATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (18 bp):
ATTATTCAAGTTAGAATT
Found at i:23671444 original size:34 final size:36
Alignment explanation
Indices: 23671379--23671465 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
23671369 AAAATTCATG
*
23671379 CATATATAATAAATTTTTTATTCTTTCTTTTTCACA
1 CATATACAATAAATTTTTTATTCTTTCTTTTTCACA
* *
23671415 CATATACAGTAAA-TTTTTAGTTCTTT-TTTTCTGCAAA
1 CATATACAATAAATTTTTTA-TTCTTTCTTTT-T-CACA
*
23671452 CATATATAATAAAT
1 CATATACAATAAAT
23671466 CTTTGGTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
35 10 0.24
36 18 0.43
37 14 0.33
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.49
Consensus pattern (36 bp):
CATATACAATAAATTTTTTATTCTTTCTTTTTCACA
Found at i:23674054 original size:22 final size:22
Alignment explanation
Indices: 23674029--23674083 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
23674019 TTATTTTTTG
*
23674029 AAATTAAATATATGAA-TTAATT
1 AAATTAAAT-TATAAATTTAATT
23674051 AAATTAAATTATAAATTTAATT
1 AAATTAAATTATAAATTTAATT
23674073 -AATTAATATTA
1 AAATTAA-ATTA
23674084 ATTAAATCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATTAAATTATAAATTTAATT
Found at i:23677672 original size:3 final size:3
Alignment explanation
Indices: 23677666--23677714 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
23677656 ACAAAACCAA
* * *
23677666 AAT AAT AAT AAT AAT AAT AAT GAT AAT GAT AAT ATT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23677713 AA
1 AA
23677715 CAACTTAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:23677807 original size:26 final size:26
Alignment explanation
Indices: 23677754--23677808 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
23677744 TCGGGCAAGG
* * *
23677754 ATGGGCCTAATTGGGCCTAGACCCAA
1 ATGGGCCTAATTGGGCCCAAACACAA
*
23677780 ATGGGCCTAATTGGGCCCAAACATAA
1 ATGGGCCTAATTGGGCCCAAACACAA
23677806 ATG
1 ATG
23677809 AATGTCTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (26 bp):
ATGGGCCTAATTGGGCCCAAACACAA
Found at i:23678283 original size:119 final size:120
Alignment explanation
Indices: 23678000--23678753 Score: 653
Period size: 119 Copynumber: 6.3 Consensus size: 120
23677990 GTCAAAGTCA
* * * * * *
23678000 AAAATAAATGA-TCGAGATAAAATCATGAATCATAAAAAATGATCTAGATTAAGCTAAGATCAGA
1 AAAATAAATGATTAGAGATGAAACCATGAATCATAAGAAATGATCTAGACTAAGCCAAGATCA-A
* * * * *
23678064 -TGA-TCGAGACGAAATCACGAGTCAAAATAAA-CGACTACGATTGAA-TCGAGATTG
65 TTGACT-GAGATGAAATCACGAGTCAAAATAAAGCGACTAGGA-TCAAGTCGAGGTCG
* * **
23678118 AAAGTAAATGA-TCGAGATGAAACCACAAATCATAAGAAATGATCTAGACTAAGCCAAGATCAAT
1 AAAATAAATGATTAGAGATGAAACCATGAATCATAAGAAATGATCTAGACTAAGCCAAGATCAAT
* * * * **
23678182 TGACTGGGATGAAATCATGAGTCAAAATAAAGCGACTAGGATCGAGTCGATGTTA
66 TGACTGAGATGAAATCACGAGTCAAAATAAAGCGACTAGGATCAAGTCGAGGTCG
* * * * *
23678237 AAAATAAATTATTAG-GATGAAACCACGAATCATAAGAAATGATCTAGATTGAGCCAAGATCAAG
1 AAAATAAATGATTAGAGATGAAACCATGAATCATAAGAAATGATCTAGACTAAGCCAAGATCAAT
** * * * * * *
23678301 TGACCAAAATGAAATCACGAGTCAAAATAAAACGACCAGAACCAAGTTGAGGTCG
66 TGACTGAGATGAAATCACGAGTCAAAATAAAGCGACTAGGATCAAGTCGAGGTCG
* * * *
23678356 AAAATAAATGA-TCGAGATAAAACTATGAATCATAAGAAATTATCTAGACTGAAG-CAAGATCAA
1 AAAATAAATGATTAGAGATGAAACCATGAATCATAAGAAATGATCTAGACT-AAGCCAAGATCAA
* * * * * * *
23678419 TTGACTGAGACGAAACCACGAGTCAAAATAAAGTGACCAAGA-CTAAGTCAAGGTTG
65 TTGACTGAGATGAAATCACGAGTCAAAATAAAGCGACTAGGATC-AAGTCGAGGTCG
* * * * * * * *
23678475 AAAATAAATGATTAG-GATAAAATCATAAATCATAAAAAATGATCTGGACTGAGCCAAGGTCACT
1 AAAATAAATGATTAGAGATGAAACCATGAATCATAAGAAATGATCTAGACTAAGCCAAGATCAAT
* * * **
23678539 TGACTGAGA-CAAAGTCATGAGTCAAAATGAAAGC-AATCAGGACTC-AGTCGACATCG
66 TGACTGAGATGAAA-TCACGAGTCAAAAT-AAAGCGACT-AGGA-TCAAGTCGAGGTCG
* * * * *
23678595 AAAATAAATGATTAGA-ATGAAACCATGAATCATAAGAAATGATATGGACTGAGCCAATATCAAG
1 AAAATAAATGATTAGAGATGAAACCATGAATCATAAGAAATGATCTAGACTAAGCCAAGATCAAT
* * * * * *
23678659 TGACTGAGATGAAACCACTAGTCAAAATAAAACGA-TCAGGACCTAGTCGAGGTCA
66 TGACTGAGATGAAATCACGAGTCAAAATAAAGCGACT-AGGATCAAGTCGAGGTCG
* *
23678714 AAAATAAAT-AATCGAGATGAAACCATGAATCATAA-AAATG
1 AAAATAAATGATTAGAGATGAAACCATGAATCATAAGAAATG
23678754 TTTTGGGTTG
Statistics
Matches: 516, Mismatches: 100, Indels: 40
0.79 0.15 0.06
Matches are distributed among these distances:
117 1 0.00
118 100 0.19
119 316 0.61
120 95 0.18
121 3 0.01
122 1 0.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.20
Consensus pattern (120 bp):
AAAATAAATGATTAGAGATGAAACCATGAATCATAAGAAATGATCTAGACTAAGCCAAGATCAAT
TGACTGAGATGAAATCACGAGTCAAAATAAAGCGACTAGGATCAAGTCGAGGTCG
Found at i:23678448 original size:238 final size:239
Alignment explanation
Indices: 23677956--23678751 Score: 774
Period size: 238 Copynumber: 3.3 Consensus size: 239
23677946 GATTAGGACT
* * * *
23677956 AAACCACGAGTCAAGATGGAA-CGACCAAGATCGAGTCAAAGTCAAAAATAAATGA-TCGAGATA
1 AAACCACGAGTCAAAAT-AAAGCGACCAAGATCGAGTCAAGGTCAAAAATAAATGATTAGAGATA
* * * *
23678019 AAATCATGAATCATAAAAAATGATCTAGATTAAGCTAAGATC-AGATGATCGAGACGAAATCACG
65 AAACCATGAATCATAAAAAATGATCTAGATTGAGCCAAGATCAAG-TGACCGAGA-GAAATCACG
* *** * * **
23678083 AGTCAAAAT-AAACGACTACGATTGAA-TCGAGATTGAAAGTAAATGATCGAGATGAAACCACAA
128 AGTCAAAATAAAACGACCA-GAACCAAGTCGAGATCGAAAATAAATGATCGAGATGAAACCATGA
*
23678146 ATCATAAGAAATGATCTAGACT-AAGCCAAGATCAATTGACTGGGATG
192 ATCATAAGAAATGATCTAGACTGAAGCCAAGATCAATTGACTGAGATG
* * * * * * * * *
23678193 AAATCATGAGTCAAAATAAAGCGACTAGGATCGAGTCGATGTTAAAAATAAATTATTAG-GATGA
1 AAACCACGAGTCAAAATAAAGCGACCAAGATCGAGTCAAGGTCAAAAATAAATGATTAGAGATAA
* * * *
23678257 AACCACGAATCATAAGAAATGATCTAGATTGAGCCAAGATCAAGTGACCAAAATGAAATCACGAG
66 AACCATGAATCATAAAAAATGATCTAGATTGAGCCAAGATCAAGTGACCGAGA-GAAATCACGAG
* * * *
23678322 TCAAAATAAAACGACCAGAACCAAGTTGAGGTCGAAAATAAATGATCGAGATAAAACTATGAATC
130 TCAAAATAAAACGACCAGAACCAAGTCGAGATCGAAAATAAATGATCGAGATGAAACCATGAATC
* *
23678387 ATAAGAAATTATCTAGACTGAAG-CAAGATCAATTGACTGAGACG
195 ATAAGAAATGATCTAGACTGAAGCCAAGATCAATTGACTGAGATG
* * **
23678431 AAACCACGAGTCAAAATAAAGTGACCAAGA-CTAAGTCAAGGTTGAAAATAAATGATTAG-GATA
1 AAACCACGAGTCAAAATAAAGCGACCAAGATC-GAGTCAAGGTCAAAAATAAATGATTAGAGATA
* * * * * ** * * *
23678494 AAATCATAAATCATAAAAAATGATCTGGACTGAGCCAAGGTCACTTGACTGAGACAAAGTCATGA
65 AAACCATGAATCATAAAAAATGATCTAGATTGAGCCAAGATCAAGTGACCGAGAGAAA-TCACGA
* * * * * *
23678559 GTCAAAATGAAAGCAATCAGGACTC-AGTCGACATCGAAAATAAATGAT-TAGAATGAAACCATG
129 GTCAAAAT-AAAACGACCAGAAC-CAAGTCGAGATCGAAAATAAATGATCGAG-ATGAAACCATG
* * * *
23678622 AATCATAAGAAATGATATGGACTG-AGCCAATATCAAGTGACTGAGATG
191 AATCATAAGAAATGATCTAGACTGAAGCCAAGATCAATTGACTGAGATG
* * * * * * * * * *
23678670 AAACCACTAGTCAAAATAAAACGATCAGGACCTAGTCGAGGTCAAAAATAAAT-AATCGAGATGA
1 AAACCACGAGTCAAAATAAAGCGACCAAGATCGAGTCAAGGTCAAAAATAAATGATTAGAGATAA
23678734 AACCATGAATCATAAAAA
66 AACCATGAATCATAAAAA
23678752 TGTTTTGGGT
Statistics
Matches: 454, Mismatches: 91, Indels: 26
0.80 0.16 0.05
Matches are distributed among these distances:
236 2 0.00
237 114 0.25
238 193 0.43
239 143 0.31
240 2 0.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (239 bp):
AAACCACGAGTCAAAATAAAGCGACCAAGATCGAGTCAAGGTCAAAAATAAATGATTAGAGATAA
AACCATGAATCATAAAAAATGATCTAGATTGAGCCAAGATCAAGTGACCGAGAGAAATCACGAGT
CAAAATAAAACGACCAGAACCAAGTCGAGATCGAAAATAAATGATCGAGATGAAACCATGAATCA
TAAGAAATGATCTAGACTGAAGCCAAGATCAATTGACTGAGATG
Found at i:23678720 original size:358 final size:355
Alignment explanation
Indices: 23677956--23678779 Score: 923
Period size: 358 Copynumber: 2.3 Consensus size: 355
23677946 GATTAGGACT
* ** * * * *
23677956 AAACCACGAGTCAAGATGGAACGACCA-AGATCGAGTCAAAGTCAAAAATAAATGATCGAGATAA
1 AAACCACGAGTCAAAATAAAACGACCAGA-ACCAAGTCGAGGTCAAAAATAAATGATCGAGATAA
* *
23678020 AA-TCATGAATCATAAAAAATGATCTAGATTAAGCTAAGATCAGATGATCGAGACGAAATCACGA
65 AACT-ATGAATCAT-AAAAATGATCTAGATGAAGCTAAGATCAGATGATCGAGACGAAACCACGA
* * * * * * *
23678084 GTCAAAATAAACGACTACGATTGAATCGAGATTGAAAGTAAATGATCGAGATGAAACCACAAATC
128 GTCAAAATAAACGACCAAGACTGAATCAAGATTGAAAATAAATGATAGAGATAAAACCACAAATC
* * *
23678149 ATAAGAAATGATCTAGACTAAGCCAAGATCAATTGACTGGGATGAAATCATGAGTCAAAATAAAG
193 ATAAAAAATGATCTAGACTAAGCCAAGATCAATTGACTGAGATCAAATCATGAGTCAAAATAAAG
* ** * * *
23678214 CGACTAGGATCGAGTCGATGTTAAAAATAAATTATTAGGATGAAACCACGAATCATAAGAAATGA
258 CAACTAGGATCGAGTCGACATCAAAAATAAATGATTAGAATGAAACCACGAATCATAAGAAATGA
* *
23678279 TCTAGATTGAGCCAAGATCAAGTGACCAAAATG
323 TATAGACTGAGCCAAGATCAAGTGACCAAAATG
* * *
23678312 AAATCACGAGTCAAAATAAAACGACCAGAACCAAGTTGAGGTCGAAAATAAATGATCGAGATAAA
1 AAACCACGAGTCAAAATAAAACGACCAGAACCAAGTCGAGGTCAAAAATAAATGATCGAGATAAA
*
23678377 ACTATGAATCATAAGAAATTATCTAGACTGAAGC-AAGATCA-ATTGA-CTGAGACGAAACCACG
66 ACTATGAATCATAA-AAATGATCTAGA-TGAAGCTAAGATCAGA-TGATC-GAGACGAAACCACG
* * * *
23678439 AGTCAAAATAAAGTGACCAAGACT-AAGTCAAGGTTGAAAATAAATGATTAG-GATAAAATCATA
127 AGTCAAAATAAA-CGACCAAGACTGAA-TCAAGATTGAAAATAAATGA-TAGAGATAAAACCACA
* * * *
23678502 AATCATAAAAAATGATCTGGACTGAGCCAAGGTCACTTGACTGAGA-CAAAGTCATGAGTCAAAA
189 AATCATAAAAAATGATCTAGACTAAGCCAAGATCAATTGACTGAGATCAAA-TCATGAGTCAAAA
* *
23678566 TGAAAGCAA-TCAGGACTC-AGTCGACATCGAAAATAAATGATTAGAATGAAACCATGAATCATA
253 T-AAAGCAACT-AGGA-TCGAGTCGACATCAAAAATAAATGATTAGAATGAAACCACGAATCATA
* * ** *
23678629 AGAAATGATATGGACTGAGCCAATATCAAGTGACTGAGATG
315 AGAAATGATATAGACTGAGCCAAGATCAAGTGACCAAAATG
* * * * * *
23678670 AAACCACTAGTCAAAATAAAACGATCAGGACCTAGTCGAGGTCAAAAATAAATAATCGAGATGAA
1 AAACCACGAGTCAAAATAAAACGACCAGAACCAAGTCGAGGTCAAAAATAAATGATCGAGATAAA
* * * * *
23678735 ACCATGAATCATAAAAATGTTTTGGGTTG-AGCTAAGATCAGATGA
66 ACTATGAATCATAAAAATGATCT-AGATGAAGCTAAGATCAGATGA
23678780 GTGGATAATG
Statistics
Matches: 391, Mismatches: 61, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
355 4 0.01
356 117 0.30
357 113 0.29
358 155 0.40
359 2 0.01
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (355 bp):
AAACCACGAGTCAAAATAAAACGACCAGAACCAAGTCGAGGTCAAAAATAAATGATCGAGATAAA
ACTATGAATCATAAAAATGATCTAGATGAAGCTAAGATCAGATGATCGAGACGAAACCACGAGTC
AAAATAAACGACCAAGACTGAATCAAGATTGAAAATAAATGATAGAGATAAAACCACAAATCATA
AAAAATGATCTAGACTAAGCCAAGATCAATTGACTGAGATCAAATCATGAGTCAAAATAAAGCAA
CTAGGATCGAGTCGACATCAAAAATAAATGATTAGAATGAAACCACGAATCATAAGAAATGATAT
AGACTGAGCCAAGATCAAGTGACCAAAATG
Found at i:23678971 original size:41 final size:41
Alignment explanation
Indices: 23678911--23679012 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
23678901 ATGTTCACTA
* * *
23678911 CACAT-TTTAGCAAAGAAACCATATTTCATTAACTTGAATG
1 CACATATTTGGCAAAAAAACCATATTTCATCAACTTGAATG
* *
23678951 CACATATTTGGTAAAAAAACCATTTTTCATCAACTTGAATG
1 CACATATTTGGCAAAAAAACCATATTTCATCAACTTGAATG
*
23678992 CACATCTTTGGCAAAAAAACC
1 CACATATTTGGCAAAAAAACC
23679013 TGAATGTTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 5 0.09
41 49 0.91
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (41 bp):
CACATATTTGGCAAAAAAACCATATTTCATCAACTTGAATG
Found at i:23690026 original size:20 final size:20
Alignment explanation
Indices: 23690001--23690039 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23689991 AATACCCTCT
*
23690001 TTTTTTTTTTATATTGAAAG
1 TTTTTTTATTATATTGAAAG
*
23690021 TTTTTTTATTATTTTGAAA
1 TTTTTTTATTATATTGAAA
23690040 ACTTTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
TTTTTTTATTATATTGAAAG
Found at i:23691045 original size:3 final size:3
Alignment explanation
Indices: 23691037--23691071 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
23691027 AAAAATGAAA
23691037 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23691072 CAACAACAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:23694203 original size:22 final size:22
Alignment explanation
Indices: 23694178--23694232 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
23694168 TTAATTTTTA
*
23694178 AAATTAAATATATGAA-TTAATT
1 AAATTAAAT-TATAAATTTAATT
23694200 AAATTAAATTATAAATTTAATT
1 AAATTAAATTATAAATTTAATT
23694222 -AATTAATATTA
1 AAATTAA-ATTA
23694233 ATTAAATCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATTAAATTATAAATTTAATT
Found at i:23695064 original size:25 final size:26
Alignment explanation
Indices: 23695010--23695065 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
23695000 ATGGTACTTA
23695010 TAAA-TATATGTTTTTAAAAGAAAAT
1 TAAATTATATGTTTTTAAAAGAAAAT
* *
23695035 GAAATTAT-TGTTTTTAAATA-AACAT
1 TAAATTATATGTTTTTAAA-AGAAAAT
23695060 TAAATT
1 TAAATT
23695066 CTTAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (26 bp):
TAAATTATATGTTTTTAAAAGAAAAT
Found at i:23695658 original size:50 final size:50
Alignment explanation
Indices: 23695583--23695677 Score: 181
Period size: 50 Copynumber: 1.9 Consensus size: 50
23695573 ATTAAATCAA
*
23695583 ATTATATCATTAGTTGAATTTAAATATTAATTTTAATAAATTTTAATTGT
1 ATTATATCATTAGTTGAATTTAAATATTAATTTTAATAAAATTTAATTGT
23695633 ATTATATCATTAGTTGAATTTAAATATTAATTTTAATAAAATTTA
1 ATTATATCATTAGTTGAATTTAAATATTAATTTTAATAAAATTTA
23695678 TTGAATATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (50 bp):
ATTATATCATTAGTTGAATTTAAATATTAATTTTAATAAAATTTAATTGT
Found at i:23695738 original size:25 final size:26
Alignment explanation
Indices: 23695698--23695755 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
23695688 GTTTTTTGTT
*
23695698 TAATTTTTTTTCAATTACAATTATAA
1 TAATTTTTTTTCAATTACAATTACAA
**
23695724 TAATTTTTTTT-AATTGTAATTACAA
1 TAATTTTTTTTCAATTACAATTACAA
23695749 TAATTTT
1 TAATTTT
23695756 ATTGTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 18 0.62
26 11 0.38
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (26 bp):
TAATTTTTTTTCAATTACAATTACAA
Found at i:23698663 original size:87 final size:87
Alignment explanation
Indices: 23698517--23698688 Score: 258
Period size: 87 Copynumber: 2.0 Consensus size: 87
23698507 AATGTCTAAT
23698517 CTCTTGTTCAGTGATTCAGTTGACCTCTCCATTCCAGGGCTCTTCTTCTGCATTTGAGTAGGCAT
1 CTCTTGTTCAGTGATTCAGTTGACCTCTCCATTCCAGGGCTCTTCTTCTGCATTTGAGTAGGCAT
* * *
23698582 CTGATGAGATGGGAGAGATGAG
66 CTGAAGAGACGAGAGAGATGAG
* * *
23698604 CTCTTTTTCAGTGATTCCA-TTAGCCCT-TCCATTCCCGGGCTCTTCTTCTGCATTTGAGTAGGC
1 CTCTTGTTCAGTGATT-CAGTT-GACCTCTCCATTCCAGGGCTCTTCTTCTGCATTTGAGTAGGC
23698667 ATCTGAAGAGACGAGAGAGATG
64 ATCTGAAGAGACGAGAGAGATG
23698689 GAGCATCCTT
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
87 71 0.92
88 6 0.08
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (87 bp):
CTCTTGTTCAGTGATTCAGTTGACCTCTCCATTCCAGGGCTCTTCTTCTGCATTTGAGTAGGCAT
CTGAAGAGACGAGAGAGATGAG
Found at i:23704095 original size:10 final size:10
Alignment explanation
Indices: 23704080--23704125 Score: 56
Period size: 10 Copynumber: 4.3 Consensus size: 10
23704070 CGAAAACTTA
*
23704080 TTTTTAAAAG
1 TTTTTAAAAT
23704090 TTTTTAAAATT
1 TTTTTAAAA-T
23704101 TATTTTCAAAAT
1 T-TTTT-AAAAT
23704113 TTTTTAAAAT
1 TTTTTAAAAT
23704123 TTT
1 TTT
23704126 CAACTTTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 17 0.53
11 5 0.16
12 6 0.19
13 4 0.12
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:23704103 original size:23 final size:23
Alignment explanation
Indices: 23704072--23704124 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
23704062 TTTTATTTCG
* *
23704072 AAAACTTATTTTTAAAAGTTTTT
1 AAAATTTATTTTCAAAAGTTTTT
*
23704095 AAAATTTATTTTCAAAATTTTTT
1 AAAATTTATTTTCAAAAGTTTTT
23704118 AAAATTT
1 AAAATTT
23704125 TCAACTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (23 bp):
AAAATTTATTTTCAAAAGTTTTT
Found at i:23706873 original size:21 final size:20
Alignment explanation
Indices: 23706849--23706887 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
23706839 TTCCACTACT
23706849 TCCTGCATCAACCTGCTCTTC
1 TCCTGCATCAACCT-CTCTTC
* *
23706870 TCCTTCCTCAACCTCTCT
1 TCCTGCATCAACCTCTCT
23706888 ATTTCACCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.13, C:0.46, G:0.05, T:0.36
Consensus pattern (20 bp):
TCCTGCATCAACCTCTCTTC
Found at i:23708845 original size:12 final size:14
Alignment explanation
Indices: 23708812--23708846 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
23708802 AAATATAAAA
23708812 TTATCATATCATAAT
1 TTAT-ATATCATAAT
23708827 TTATATATCATAAT
1 TTATATATCATAAT
23708841 TTATAT
1 TTATAT
23708847 TAATAGATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (14 bp):
TTATATATCATAAT
Done.