Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 29 of 132
Found at i:7958180 original size:20 final size:21
Alignment explanation
Indices: 7958146--7958184 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
7958136 AATATCATGC
7958146 GATATTTACTTTTATTATTCA
1 GATATTTACTTTTATTATTCA
7958167 GATATTTA-TTTTATTATT
1 GATATTTACTTTTATTATT
7958185 ATAATTCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (21 bp):
GATATTTACTTTTATTATTCA
Found at i:7960738 original size:3 final size:3
Alignment explanation
Indices: 7960730--7960782 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
7960720 AATAACATCG
7960730 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7960778 -AT AAT
1 AAT AAT
7960783 GTGTTATAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:7960943 original size:16 final size:18
Alignment explanation
Indices: 7960908--7960948 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
7960898 TCCTAAAAAT
*
7960908 ATTTTTGAAAATAGATTG
1 ATTTTTGAAAATAAATTG
7960926 ATTTTT-AAAA-AAATTG
1 ATTTTTGAAAATAAATTG
7960942 ATATTTT
1 AT-TTTT
7960949 TTGGTTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 7 0.33
17 8 0.38
18 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (18 bp):
ATTTTTGAAAATAAATTG
Found at i:7962380 original size:20 final size:20
Alignment explanation
Indices: 7962350--7962399 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
7962340 ATTAGCATGA
*
7962350 GTTATATTAAG-TATAAATAGG
1 GTTA-ATTAAGAT-TAAAAAGG
*
7962371 TTTAATTAAGATTAAAAAGG
1 GTTAATTAAGATTAAAAAGG
7962391 GTTAATTAA
1 GTTAATTAA
7962400 AGCTTATTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (20 bp):
GTTAATTAAGATTAAAAAGG
Found at i:7964266 original size:21 final size:22
Alignment explanation
Indices: 7964239--7964294 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
7964229 TGGAGTTTTT
**
7964239 AGTATCGGTAGAAGCT-TCATT
1 AGTATCGGTAGAAGCTGTCACA
*
7964260 TGTATCGGTAGAA-CTGTCACA
1 AGTATCGGTAGAAGCTGTCACA
7964281 AGTATCGGTAGAAG
1 AGTATCGGTAGAAG
7964295 TCTGCACTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (22 bp):
AGTATCGGTAGAAGCTGTCACA
Found at i:7966412 original size:15 final size:15
Alignment explanation
Indices: 7966392--7966421 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7966382 CGTGTGTATG
*
7966392 TATTTATTGTTTATT
1 TATTTATTATTTATT
7966407 TATTTATTATTTATT
1 TATTTATTATTTATT
7966422 AACATTGTTC
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:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (15 bp):
TATTTATTATTTATT
Found at i:7971215 original size:27 final size:26
Alignment explanation
Indices: 7971184--7971234 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
7971174 TTATTGAAAC
7971184 CCAAACCATTTAGCCCGAAACCCAAAA
1 CCAAACCATTTAGCCC-AAACCCAAAA
7971211 CCAAACCATTTAGCCCAAACCCAA
1 CCAAACCATTTAGCCCAAACCCAA
7971235 TTGAACCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.43, C:0.39, G:0.06, T:0.12
Consensus pattern (26 bp):
CCAAACCATTTAGCCCAAACCCAAAA
Found at i:7971264 original size:11 final size:11
Alignment explanation
Indices: 7971248--7971303 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
7971238 AACCAAGTCA
7971248 GACCGTTGACC
1 GACCGTTGACC
7971259 GACCGTTGACC
1 GACCGTTGACC
*
7971270 -AGCCATTGACC
1 GA-CCGTTGACC
*
7971281 GATCGTTGACC
1 GACCGTTGACC
7971292 -AGCCGTTGACC
1 GA-CCGTTGACC
7971303 G
1 G
7971304 GCTGTTAACC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
10 2 0.05
11 34 0.92
12 1 0.03
ACGTcount: A:0.20, C:0.34, G:0.27, T:0.20
Consensus pattern (11 bp):
GACCGTTGACC
Found at i:7971281 original size:22 final size:22
Alignment explanation
Indices: 7971253--7971303 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
7971243 AGTCAGACCG
7971253 TTGACCGACCGTTGACCAGCCA
1 TTGACCGACCGTTGACCAGCCA
* *
7971275 TTGACCGATCGTTGACCAGCCG
1 TTGACCGACCGTTGACCAGCCA
7971297 TTGACCG
1 TTGACCG
7971304 GCTGTTAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGACCGACCGTTGACCAGCCA
Found at i:7971298 original size:33 final size:34
Alignment explanation
Indices: 7971251--7971339 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 34
7971241 CAAGTCAGAC
*
7971251 CGTTGACC-GACCGTTGACCAGCCATTGACCGAT
1 CGTTGACCAGACCGTTGACCAGCCATTAACCGAT
* **
7971284 CGTTGACCAG-CCGTTGACCGGCTGTTAACCGAT
1 CGTTGACCAGACCGTTGACCAGCCATTAACCGAT
* *
7971317 CGGTGACCATTGACCGTTAACCA
1 CGTTGACCA--GACCGTTGACCA
7971340 TTGATCGTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
33 35 0.78
34 1 0.02
35 1 0.02
36 8 0.18
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.22
Consensus pattern (34 bp):
CGTTGACCAGACCGTTGACCAGCCATTAACCGAT
Found at i:7971350 original size:7 final size:7
Alignment explanation
Indices: 7971320--7971434 Score: 88
Period size: 7 Copynumber: 16.6 Consensus size: 7
7971310 AACCGATCGG
*
7971320 TGACCAT
1 TGACCGT
7971327 TGACCGT
1 TGACCGT
* *
7971334 TAACCAT
1 TGACCGT
*
7971341 TGATCGT
1 TGACCGT
**
7971348 TGATTGT
1 TGACCGT
*
7971355 TAACCGT
1 TGACCGT
7971362 TGACCGT
1 TGACCGT
*
7971369 TGACTGT
1 TGACCGT
*
7971376 TGACCAT
1 TGACCGT
7971383 TGACCGT
1 TGACCGT
**
7971390 TGATAGT
1 TGACCGT
**
7971397 TGATTGT
1 TGACCGT
*
7971404 TAACCGT
1 TGACCGT
7971411 TGACCGT
1 TGACCGT
*
7971418 TGA-CTT
1 TGACCGT
7971424 TGACCGT
1 TGACCGT
7971431 TGAC
1 TGAC
7971435 TTTTTTGAAA
Statistics
Matches: 83, Mismatches: 24, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
6 5 0.06
7 78 0.94
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (7 bp):
TGACCGT
Found at i:7971428 original size:13 final size:13
Alignment explanation
Indices: 7971410--7971437 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7971400 TTGTTAACCG
7971410 TTGACCGTTGACT
1 TTGACCGTTGACT
7971423 TTGACCGTTGACT
1 TTGACCGTTGACT
7971436 TT
1 TT
7971438 TTTGAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (13 bp):
TTGACCGTTGACT
Found at i:7972490 original size:14 final size:14
Alignment explanation
Indices: 7972467--7972500 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
7972457 AATTTACATC
*
7972467 ATTTTATTATTATT
1 ATTTTGTTATTATT
7972481 ATTTTGTTATTATT
1 ATTTTGTTATTATT
7972495 ATTTTG
1 ATTTTG
7972501 GTTTTGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (14 bp):
ATTTTGTTATTATT
Found at i:7974489 original size:29 final size:28
Alignment explanation
Indices: 7974455--7974851 Score: 145
Period size: 29 Copynumber: 13.5 Consensus size: 28
7974445 ACCCGAGGGC
*
7974455 AAAATGGTAATTTTGGTAAAATAGGGATT
1 AAAATGG-AATTTTGGTAAAATCGGGATT
* *
7974484 AAAATGGAATTTTGG-AAAGTTCGAGG-GT
1 AAAATGGAATTTTGGTAAA-ATCG-GGATT
* * *
7974512 AAAATGGTGATTTTGGATGAAATCGGGGTT
1 AAAATGG-AATTTTGG-TAAAATCGGGATT
* *
7974542 AAAAATGGAATTTTGG-AAAGTTCGGGAGT
1 -AAAATGGAATTTTGGTAAA-ATCGGGATT
* *
7974571 AAAAT-GATGATTTTCGGTGAAATCGAGATT
1 AAAATGGA--ATTTT-GGTAAAATCGGGATT
* * *
7974601 AAAAATGGAATTTTGG-AAAGTTTGGGAGT
1 -AAAATGGAATTTTGGTAAA-ATCGGGATT
* *
7974630 AAAATGGTAATTTTCGGTGAAATCGGGGTT
1 AAAATGG-AATTTT-GGTAAAATCGGGATT
* **
7974660 AAAAATGGAATTTT--AAAAGATTCGGGGGT
1 -AAAATGGAATTTTGGTAAA-A-TCGGGATT
* *
7974689 AAAATGGTAATTTTCGATAAAAGCGAGG-TT
1 AAAATGG-AATTTT-GGTAAAATCG-GGATT
* *
7974719 AAAATGGAATTTT--AAAAGATTCGAGG-GT
1 AAAATGGAATTTTGGTAAA-A-TCG-GGATT
* * * *
7974747 AAATTGGTAATTTTTGATGAAATCGGGGTT
1 AAAATGG-AA-TTTTGGTAAAATCGGGATT
* **
7974777 AAAAATGGAATTTT--AAAAGATTCGGGGGT
1 -AAAATGGAATTTTGGTAAA-A-TCGGGATT
* *
7974806 AAAATGGTAATTTTTGGTGAAATCGGGGTT
1 AAAATGG-AA-TTTTGGTAAAATCGGGATT
7974836 AAAAATGGAATTTTGG
1 -AAAATGGAATTTTGG
7974852 AAAGTTTGAG
Statistics
Matches: 281, Mismatches: 46, Indels: 82
0.69 0.11 0.20
Matches are distributed among these distances:
26 3 0.01
27 10 0.04
28 62 0.22
29 84 0.30
30 70 0.25
31 43 0.15
32 9 0.03
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.32
Consensus pattern (28 bp):
AAAATGGAATTTTGGTAAAATCGGGATT
Found at i:7974786 original size:176 final size:176
Alignment explanation
Indices: 7974455--7974878 Score: 554
Period size: 176 Copynumber: 2.4 Consensus size: 176
7974445 ACCCGAGGGC
* * *
7974455 AAAATGGTAATTTTGGTAAAATAGGGATT-AAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGG
1 AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGG
* * * * * * *
7974519 TGATTTTGGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGAGTAAAATGATGATTT
66 TAATTTTCGATAAAAGCGAGGTTAAAAATGGAATTTTGAAAAGTTCGGGAGTAAAATGATAATTT
* * *
7974584 TCGGTGAAATCGAGATTAAAAATGGAATTTTGGAAAG-TTTGGGAGT
131 TCGATGAAATCGAGATTAAAAATGGAATTTT-AAAAGATTCGGGAGT
* *
7974630 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT-AAAAGATTCGGGGGTAAAAT
1 AAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAG-TTCGAGGGTAAAAT
* *
7974694 GGTAATTTTCGATAAAAGCGAGGTT-AAAATGGAATTTT-AAAAGATTCGAGG-GTAAATTGGTA
64 GGTAATTTTCGATAAAAGCGAGGTTAAAAATGGAATTTTGAAAAG-TTCG-GGAGTAAAATGATA
* * * *
7974756 ATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
127 ATTTTCGATGAAATCGAGATTAAAAATGGAATTTTAAAAGATTCGGGAGT
*
7974806 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATG
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATG
7974871 GTAATTTT
65 GTAATTTT
7974879 TAGACTGTTT
Statistics
Matches: 217, Mismatches: 24, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
175 22 0.10
176 139 0.64
177 56 0.26
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (176 bp):
AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGG
TAATTTTCGATAAAAGCGAGGTTAAAAATGGAATTTTGAAAAGTTCGGGAGTAAAATGATAATTT
TCGATGAAATCGAGATTAAAAATGGAATTTTAAAAGATTCGGGAGT
Found at i:7974879 original size:59 final size:59
Alignment explanation
Indices: 7974413--7974879 Score: 531
Period size: 59 Copynumber: 8.0 Consensus size: 59
7974403 TGATGAACGA
* * * ** *
7974413 TGAAATCGGGGTGAAAAATGGGACTTTTGGATA-CCCGAGGGCAAAATGGTAA-TTTTGG
1 TGAAATCGGGGTTAAAAAT-GGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
* * * *
7974471 TAAAATAGGGATT-AAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTGA-TTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
* * *
7974528 ATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG-GGAGTAAAATGATGATTTTCGG
1 -TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGG-GTAAAATGGTAATTTTTGG
* * * *
7974588 TGAAATCGAGATTAAAAATGGAATTTTGGAAAGTTTG-GGAGTAAAATGGTAATTTTCGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGG-GTAAAATGGTAATTTTTGG
* * * *
7974647 TGAAATCGGGGTTAAAAATGGAATTTT-AAAAGATTCGGGGGTAAAATGGTAATTTTCGA
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAG-TTCGAGGGTAAAATGGTAATTTTTGG
* * * * * *
7974706 TAAAAGCGAGGTT-AAAATGGAATTTT-AAAAGATTCGAGGGTAAATTGGTAATTTTTGA
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAG-TTCGAGGGTAAAATGGTAATTTTTGG
* *
7974764 TGAAATCGGGGTTAAAAATGGAATTTT-AAAAGATTCGGGGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAG-TTCGAGGGTAAAATGGTAATTTTTGG
*
7974823 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTT
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTT
7974880 AGACTGTTTG
Statistics
Matches: 360, Mismatches: 40, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
56 11 0.03
57 26 0.07
58 77 0.21
59 235 0.65
60 11 0.03
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.31
Consensus pattern (59 bp):
TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
Found at i:7975235 original size:162 final size:163
Alignment explanation
Indices: 7974970--7975286 Score: 539
Period size: 162 Copynumber: 2.0 Consensus size: 163
7974960 GACCAAATTG
*
7974970 TAAATATTGAAAAATTCTTGGGCCAATTTAGTAATTAAGTAAAAGTCGATTTAGGGATTAAATTA
1 TAAATATTGAAAAATTATTGGGCCAATTTAGTAATTAAGTAAAAGTCGATTTAGGGATTAAATTA
* *
7975035 AAACAAATTAAAAAATGTCAGGGACTAAATGCATAAATAAGTCAAAAAGTGACACGTGGCAGTCC
66 AAACAAATTAAAAAATGTCAGGGACTAAATGCATAAATAAGCCAAAAAGTGACACGTGGCA-ACC
*
7975100 -CTGGTGCAGCCACACAGTCAAAGGACTAATTTA
130 TCTGGTGCAGCCAAACAGTCAAAGGACTAATTTA
* *
7975133 TAAATCTTGAAAAATTATTGGGCCAATTTCGTAATTAAGTAAAAGTCGATTTAGGGATTAAATTA
1 TAAATATTGAAAAATTATTGGGCCAATTTAGTAATTAAGTAAAAGTCGATTTAGGGATTAAATTA
*
7975198 ATACAAATT-AAAAATGTCAGGGACTAAATGCATAAATAAGCCAAAAAGTGACACGTGGCAACCT
66 AAACAAATTAAAAAATGTCAGGGACTAAATGCATAAATAAGCCAAAAAGTGACACGTGGCAACCT
*
7975262 CTGGTGCAGTCAAACAGTCAAAGGA
131 CTGGTGCAGCCAAACAGTCAAAGGA
7975287 TTAAATTGAA
Statistics
Matches: 145, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
161 2 0.01
162 73 0.50
163 70 0.48
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.26
Consensus pattern (163 bp):
TAAATATTGAAAAATTATTGGGCCAATTTAGTAATTAAGTAAAAGTCGATTTAGGGATTAAATTA
AAACAAATTAAAAAATGTCAGGGACTAAATGCATAAATAAGCCAAAAAGTGACACGTGGCAACCT
CTGGTGCAGCCAAACAGTCAAAGGACTAATTTA
Found at i:7976822 original size:6 final size:6
Alignment explanation
Indices: 7976793--7976853 Score: 65
Period size: 6 Copynumber: 10.3 Consensus size: 6
7976783 TTTAATTTTT
* *
7976793 ATTTAA ATTTAA ATTCAA A-GTAA ATTTAA ATAATTAA ATTTAA A--TAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT--TTAA ATTTAA ATTTAA
7976840 ATTTAA ATTTAA AT
1 ATTTAA ATTTAA AT
7976854 AAAATTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
4 4 0.09
5 3 0.07
6 33 0.72
8 6 0.13
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (6 bp):
ATTTAA
Found at i:7976844 original size:24 final size:23
Alignment explanation
Indices: 7976793--7976853 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 23
7976783 TTTAATTTTT
7976793 ATTTAAATTTAAATTCAAAGTAA
1 ATTTAAATTTAAATTCAAAGTAA
*
7976816 ATTTAAATAATTAAATTTAAA-TAA
1 ATTTAAAT--TTAAATTCAAAGTAA
7976840 ATTTAAATTTAAAT
1 ATTTAAATTTAAAT
7976854 AAAATTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
22 6 0.17
23 8 0.23
24 11 0.31
25 10 0.29
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTTAAATTTAAATTCAAAGTAA
Found at i:7977439 original size:145 final size:144
Alignment explanation
Indices: 7977160--7978134 Score: 1294
Period size: 145 Copynumber: 6.8 Consensus size: 144
7977150 GCTCTTCAGG
* * * * *
7977160 GAGATAAAGACTTTGCTATCCAACTTTACTTCAATTTCTAGAGGATAAGAAATGATGTTACTCCT
1 GAGATAAAGAC-GTGATATCCAACTTTACTTCAATTTCAAGAGGAT-AGAAACGATGTTACTCTT
* * *
7977225 ACTACAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAGTTTCAAGAGGATGACGTTGC
64 ACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGC
7977290 TCTTACTTCAATTTCA
129 TCTTACTTCAATTTCA
* *
7977306 GAGGTAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTA
1 GAGATAAAGACGTGATATCCAACTTTACTTCAATTTCAAGAGGATA-GAAACGATGTTACTCTTA
*
7977371 CTTCAATTTCAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGGCGTTGCT
65 CTTCAATTTCAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCT
7977436 CTTACTTCAATTTCA
130 CTTACTTCAATTTCA
* * * * *
7977451 GAGATAAGGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGAT-G--AC---GTTGCTCTTAC
1 GAGATAAAGACGTGATATCCAACTTTACTTCAATTTCAAGAGGATAGAAACGATGTTACTCTTAC
* * * *
7977509 TTCAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGAT
66 TTCAATTTCAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGAT--G--AC---
* *
7977574 GTTACTCTTACTTCAATTTTA
124 GTTGCTCTTACTTCAATTTCA
* * * *
7977595 GAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGAT-G--AC---GTTGCTCTTAC
1 GAGATAAAGACGTGATATCCAACTTTACTTCAATTTCAAGAGGATAGAAACGATGTTACTCTTAC
* *
7977654 TTCAATTTCAGAGAT-AAGGACGTGTTATCC-ACTCTACTTCAATTTCAAG-GGAATGACGTTGC
66 TTCAATTTCAGAGATGAA-GACTTGTTATCCAACTTTACTTCAATTTCAAGAGG-ATGACGTTGC
7977716 TCTTACTTCAATTTCA
129 TCTTACTTCAATTTCA
*
7977732 GAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTA
1 GAGATAAAGACGTGATATCCAACTTTACTTCAATTTCAAGAGGATA-GAAACGATGTTACTCTTA
*
7977797 CTTCAATTTTAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCT
65 CTTCAATTTCAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCT
7977862 CTTACTTCAATTTCA
130 CTTACTTCAATTTCA
* *
7977877 GAGATAAAGACTTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTA
1 GAGATAAAGACGTGATATCCAACTTTACTTCAATTTCAAGAGGATA-GAAACGATGTTACTCTTA
*
7977942 CTTCAATTTTAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCT
65 CTTCAATTTCAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCT
7978007 CTTACTTCAATTTCA
130 CTTACTTCAATTTCA
* * * *
7978022 GAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGAT-G--A-G--GTTGCTCTTAC
1 GAGATAAAGACGTGATATCCAACTTTACTTCAATTTCAAGAGGATAGAAACGATGTTACTCTTAC
* * * *
7978080 TTCAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGAT
66 TTCAATTTCAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGAT
7978135 AGAAAACGAT
Statistics
Matches: 753, Mismatches: 55, Indels: 51
0.88 0.06 0.06
Matches are distributed among these distances:
137 181 0.24
139 3 0.00
140 5 0.01
141 3 0.00
142 3 0.00
143 2 0.00
144 135 0.18
145 409 0.54
146 12 0.02
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (144 bp):
GAGATAAAGACGTGATATCCAACTTTACTTCAATTTCAAGAGGATAGAAACGATGTTACTCTTAC
TTCAATTTCAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCTC
TTACTTCAATTTCA
Found at i:7977444 original size:31 final size:31
Alignment explanation
Indices: 7977406--7977518 Score: 104
Period size: 31 Copynumber: 3.5 Consensus size: 31
7977396 TTATCCAACT
7977406 TTACTTCAATTTCAAGAGGATGGCGTTGCTC
1 TTACTTCAATTTCAAGAGGATGGCGTTGCTC
* *
7977437 TTACTTCAATTTC-AGA-GATAAGGACGTGTTATCCAC
1 TTACTTCAATTTCAAGAGGAT--GG-C--G-T-TGCTC
* *
7977473 TCTACTTCAATTTCAAGGGGATGACGTTGCTC
1 T-TACTTCAATTTCAAGAGGATGGCGTTGCTC
7977505 TTACTTCAATTTCA
1 TTACTTCAATTTCA
7977519 GAGATAAAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
29 3 0.05
30 3 0.05
31 28 0.42
32 5 0.08
33 1 0.02
34 2 0.03
35 1 0.02
36 5 0.08
37 13 0.20
38 2 0.03
39 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (31 bp):
TTACTTCAATTTCAAGAGGATGGCGTTGCTC
Found at i:7977551 original size:213 final size:214
Alignment explanation
Indices: 7977160--7978134 Score: 1389
Period size: 213 Copynumber: 4.5 Consensus size: 214
7977150 GCTCTTCAGG
* * * * * *
7977160 GAGATAAAGACTTTGCTATCCAACTTTACTTCAATTTCTAGAGGATAAGAAATGATGTTACTCCT
1 GAGATGAAGAC-TTGTTATCCAACTTTACTTCAATTTCAAGAGGAT--G----G-CGTTGCTCTT
* * * *
7977225 ACTACAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAGTTTCAAGAGGATGACGTTGC
58 ACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGC
*
7977290 TCTTACTTCAATTTCAGAGGTAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGA
123 TCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGA
7977355 AACGATGTTACTCTTACTTCAATTTCA
188 AACGATGTTACTCTTACTTCAATTTCA
7977382 GAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGGCGTTGCTCTTACTTCAAT
1 GAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGGCGTTGCTCTTACTTCAAT
* *
7977447 TTCAGAGATAAGGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTT
66 TTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTT
7977511 CAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATGT
131 CAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATGT
*
7977576 TACTCTTACTTCAATTTTA
196 TACTCTTACTTCAATTTCA
*
7977595 GAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGGCGTTGCTCTTACTTCAAT
*
7977660 TTCAGAGATAAGGACGTGTTATCC-ACTCTACTTCAATTTCAAG-GGAATGACGTTGCTCTTACT
66 TTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGG-ATGACGTTGCTCTTACT
7977723 TCAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATG
130 TCAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATG
*
7977788 TTACTCTTACTTCAATTTTA
195 TTACTCTTACTTCAATTTCA
*
7977808 GAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGGCGTTGCTCTTACTTCAAT
* * * * *
7977873 TTCAGAGATAAAGACTTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACT
66 TTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT--G--AC---GTTGCT
* * * * *
7977938 CTTACTTCAATTTTAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGAT--G--
124 CTTACTTCAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAA
*
7977999 AC---GTTGCTCTTACTTCAATTTCA
189 ACGATGTTACTCTTACTTCAATTTCA
* * * *
7978022 GAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAG-GTTGCTCTTACTTCAA
1 GAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATG-GCGTTGCTCTTACTTCAA
* * *
7978085 TTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGAT
65 TTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
7978135 AGAAAACGAT
Statistics
Matches: 708, Mismatches: 34, Indels: 31
0.92 0.04 0.04
Matches are distributed among these distances:
212 2 0.00
213 503 0.71
214 91 0.13
215 3 0.00
216 1 0.00
217 2 0.00
218 2 0.00
219 2 0.00
221 92 0.13
222 10 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (214 bp):
GAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGGCGTTGCTCTTACTTCAAT
TTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTT
CAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATGT
TACTCTTACTTCAATTTCA
Found at i:7977839 original size:358 final size:357
Alignment explanation
Indices: 7977160--7978147 Score: 1551
Period size: 358 Copynumber: 2.8 Consensus size: 357
7977150 GCTCTTCAGG
* * * * * *
7977160 GAGATAAAGACTTTGCTATCCAACTTTACTTCAATTTCTAGAGGATAAGAAATGATGTTACTCCT
1 GAGATAAAGAC-TTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTT
* * * *
7977225 ACTACAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAGTTTCAAGAGGATGACGTTGC
65 ACTTCAATTTTAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGC
* * * * *
7977290 TCTTACTTCAATTTCAGAGGTAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGA
130 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAG-GGA-ATG-
* * * * *
7977355 AACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCA
191 -AC---GTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCA
*
7977420 AGAGGAT-GG---C---GTTGCTCTTACTTCAATTTCAGAGATAAGGACGTGTTATCCACTCTAC
252 AGAGGATAGGAAACGATGTTACTCTTACTTCAATTTCAGAGATAAGGACGTGTTATCCACTCTAC
*
7977478 TTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCA
317 TTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCA
*
7977519 GAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTA
1 GAGATAAAGACTTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTA
7977584 CTTCAATTTTAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCT
66 CTTCAATTTTAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCT
*
7977649 CTTACTTCAATTTCAGAGATAAGGACGTGTTATCCACTCTACTTCAATTTCAAGGGAATGACGTT
131 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGAATGACGTT
7977714 GCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAG
196 GCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAG
* * *
7977779 GAAACGATGTTACTCTTACTTCAATTTTAGAGATGAA-GACTTGTTATCCAACTTTACTTCAATT
261 GAAACGATGTTACTCTTACTTCAATTTCAGAGAT-AAGGACGTGTTATCC-ACTCTACTTCAATT
7977843 TCAAGAGGATGACGTTGCTCTTACTTCAATTTCA
324 TCAAGAGGATGACGTTGCTCTTACTTCAATTTCA
7977877 GAGATAAAGACTTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTA
1 GAGATAAAGACTTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTA
7977942 CTTCAATTTTAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCT
66 CTTCAATTTTAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCT
* *
7978007 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGAGGTT
131 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGAATGACGTT
7978072 GCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAG
196 GCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAG
*
7978137 AAAACGATGTT
261 GAAACGATGTT
7978148 GTTTGGTCTG
Statistics
Matches: 588, Mismatches: 32, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
350 61 0.10
351 2 0.00
353 2 0.00
354 1 0.00
355 2 0.00
356 3 0.01
357 52 0.09
358 454 0.77
359 11 0.02
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (357 bp):
GAGATAAAGACTTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTA
CTTCAATTTTAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCT
CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGAATGACGTT
GCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAATTTTACTTCAATTTCAAGAGGATAG
GAAACGATGTTACTCTTACTTCAATTTCAGAGATAAGGACGTGTTATCCACTCTACTTCAATTTC
AAGAGGATGACGTTGCTCTTACTTCAATTTCA
Found at i:7989713 original size:59 final size:59
Alignment explanation
Indices: 7989637--7989892 Score: 408
Period size: 59 Copynumber: 4.3 Consensus size: 59
7989627 GATATGGATA
7989637 GGGGTGTAAAATGGTAATTTTCGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
1 GGGG-GTAAAATGGTAATTTTCGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* * *
7989697 GGGGGTAAAATAGTAATTTTTGGTAAAATCGGGGTT-AAAATGGAATTTT-AAAAGATTC
1 GGGGGTAAAATGGTAATTTTCGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAG-TTC
* *
7989755 GGGGGTAAATTGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTCGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* *
7989814 GGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGATAAAAATGGAATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTCGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
*
7989873 GAGGGTAAAATGGTAATTTT
1 GGGGGTAAAATGGTAATTTT
7989893 TAGACTGTTT
Statistics
Matches: 182, Mismatches: 11, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
57 4 0.02
58 48 0.26
59 122 0.67
60 8 0.04
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (59 bp):
GGGGGTAAAATGGTAATTTTCGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
Found at i:7989714 original size:29 final size:28
Alignment explanation
Indices: 7989637--7989892 Score: 146
Period size: 30 Copynumber: 8.7 Consensus size: 28
7989627 GATATGGATA
* *
7989637 GGGGTGTAAAATGGTAATTTTCGGTAAAATC
1 GGGG-GTAAAATAGTAATTTT-GG-AAATTC
* *
7989668 GGGGTTAAAA-ATGGAATTTTGGAAAGTTC
1 GGGGGTAAAATA-GTAATTTTGGAAA-TTC
*
7989697 GGGGGTAAAATAGTAATTTTTGGTAAAATC
1 GGGGGTAAAATAGTAA-TTTTGG-AAATTC
* * **
7989727 GGGGTTAAAAT-GGAATTTTAAAAGATTC
1 GGGGGTAAAATAGTAATTTTGGAA-ATTC
* *
7989755 GGGGGTAAATTGGTAATTTTCGGTGAAA-TC
1 GGGGGTAAAATAGTAATTTT--G-GAAATTC
* *
7989785 GGGGTTAAAA-ATGGAATTTTGGAAAGTTC
1 GGGGGTAAAATA-GTAATTTTGGAAA-TTC
*
7989814 GGGGGTAAAATGGTAATTTTCGGTGAAA-TC
1 GGGGGTAAAATAGTAATTTT--G-GAAATTC
* *
7989844 GGGGATAAAA-ATGGAATTTTGGAAAGTTC
1 GGGGGTAAAATA-GTAATTTTGGAAA-TTC
* *
7989873 GAGGGTAAAATGGTAATTTT
1 GGGGGTAAAATAGTAATTTT
7989893 TAGACTGTTT
Statistics
Matches: 173, Mismatches: 31, Indels: 44
0.70 0.12 0.18
Matches are distributed among these distances:
27 10 0.06
28 21 0.12
29 61 0.35
30 66 0.38
31 9 0.05
32 6 0.03
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (28 bp):
GGGGGTAAAATAGTAATTTTGGAAATTC
Found at i:7989853 original size:117 final size:118
Alignment explanation
Indices: 7989637--7989892 Score: 408
Period size: 117 Copynumber: 2.2 Consensus size: 118
7989627 GATATGGATA
7989637 GGGGTGTAAAATGGTAATTTTCGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGG
1 GGGG-GTAAAATGGTAATTTTCGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGG
* *
7989702 TAAAATAGTAATTTTTGGTAAAATCGGGG-TTAAAATGGAATTTT-AAAAGATTC
65 TAAAATAGTAATTTTCGGTAAAATCGGGGATAAAAATGGAATTTTGAAAAG-TTC
* *
7989755 GGGGGTAAATTGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
1 GGGGGTAAAATGGTAATTTTCGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
* * *
7989820 AAAATGGTAATTTTCGGTGAAATCGGGGATAAAAATGGAATTTTGGAAAGTTC
66 AAAATAGTAATTTTCGGTAAAATCGGGGATAAAAATGGAATTTTGAAAAGTTC
*
7989873 GAGGGTAAAATGGTAATTTT
1 GGGGGTAAAATGGTAATTTT
7989893 TAGACTGTTT
Statistics
Matches: 127, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
117 84 0.66
118 39 0.31
119 4 0.03
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (118 bp):
GGGGGTAAAATGGTAATTTTCGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
AAAATAGTAATTTTCGGTAAAATCGGGGATAAAAATGGAATTTTGAAAAGTTC
Found at i:7990258 original size:162 final size:162
Alignment explanation
Indices: 7989984--7990299 Score: 535
Period size: 162 Copynumber: 2.0 Consensus size: 162
7989974 GACCAAATTG
*
7989984 TAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGTAAAAGTCGATTTAGGGATTAAATTA
1 TAAATCTTAAAAAATTCTTGGGCCAATTTTGTAATTAAGTAAAAGTCGATTTAGGGATTAAATTA
* * *
7990049 AAATAAATTAAAAATGTCAGGGACTAAATGTATAAATAAGTCAAAAAGTGACACGTGGCAGTCCT
66 AAACAAATTAAAAATGTCAGGGACTAAATGCATAAATAAGCCAAAAAGTGACACGTGGCAG-CCT
*
7990114 -TGGTGCAGCCACACAGTCAAAGGACTAATTTA
130 CTGGTGCAGCCAAACAGTCAAAGGACTAATTTA
*
7990146 TAAATCTTAAAAAATTGTTGGGCCAATTTTGTAATTAAGTAAAAGTCGATTTAGGGATTAAATTA
1 TAAATCTTAAAAAATTCTTGGGCCAATTTTGTAATTAAGTAAAAGTCGATTTAGGGATTAAATTA
* *
7990211 ATACAAATTAAAAATGTCAGGGACTAAATGCATAAATAAGCCAAAAAGTGTCACGTGGCAGCCTC
66 AAACAAATTAAAAATGTCAGGGACTAAATGCATAAATAAGCCAAAAAGTGACACGTGGCAGCCTC
*
7990276 TGGTGCAGTCAAACAGTCAAAGGA
131 TGGTGCAGCCAAACAGTCAAAGGA
7990300 TTAAATTGAA
Statistics
Matches: 144, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
161 3 0.02
162 141 0.98
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (162 bp):
TAAATCTTAAAAAATTCTTGGGCCAATTTTGTAATTAAGTAAAAGTCGATTTAGGGATTAAATTA
AAACAAATTAAAAATGTCAGGGACTAAATGCATAAATAAGCCAAAAAGTGACACGTGGCAGCCTC
TGGTGCAGCCAAACAGTCAAAGGACTAATTTA
Found at i:7999978 original size:22 final size:24
Alignment explanation
Indices: 7999944--7999988 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
7999934 TTAACCTTTC
7999944 AATTTTATAAAATAAT-TTATTTT
1 AATTTTATAAAATAATATTATTTT
*
7999967 AATTTT-TAAAATTATATTATTT
1 AATTTTATAAAATAATATTATTT
7999989 GTCAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
AATTTTATAAAATAATATTATTTT
Found at i:8002985 original size:7 final size:7
Alignment explanation
Indices: 8002973--8003009 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
8002963 TAATGATCTC
8002973 TTTATGG
1 TTTATGG
8002980 TTTATGG
1 TTTATGG
8002987 TTTATGG
1 TTTATGG
*
8002994 TTTAGGG
1 TTTATGG
*
8003001 TTTAGGG
1 TTTATGG
8003008 TT
1 TT
8003010 CAGGGTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.00, G:0.32, T:0.54
Consensus pattern (7 bp):
TTTATGG
Found at i:8002992 original size:14 final size:14
Alignment explanation
Indices: 8002973--8003016 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
8002963 TAATGATCTC
*
8002973 TTTATGGTTTATGG
1 TTTATGGTTTAGGG
8002987 TTTATGGTTTAGGG
1 TTTATGGTTTAGGG
* *
8003001 TTTAGGGTTCAGGG
1 TTTATGGTTTAGGG
8003015 TT
1 TT
8003017 CAGGGTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.14, C:0.02, G:0.34, T:0.50
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:8003016 original size:21 final size:21
Alignment explanation
Indices: 8002973--8003024 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
8002963 TAATGATCTC
* * * *
8002973 TTTATGGTTTATGGTTTATGG
1 TTTAGGGTTTAGGGTTCAGGG
8002994 TTTAGGGTTTAGGGTTCAGGG
1 TTTAGGGTTTAGGGTTCAGGG
*
8003015 TTCAGGGTTT
1 TTTAGGGTTT
8003025 TTTAGACTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.13, C:0.04, G:0.35, T:0.48
Consensus pattern (21 bp):
TTTAGGGTTTAGGGTTCAGGG
Found at i:8003347 original size:41 final size:41
Alignment explanation
Indices: 8003290--8003372 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
8003280 TTTAACAAAG
8003290 ATATCATTCAAAAGTCTTATGTCACCACAAACAGAGACTAA
1 ATATCATTCAAAAGTCTTATGTCACCACAAACAGAGACTAA
*
8003331 ATATCATTCAAAAGTCTTATGTCACCTCAAACAGAGACTAA
1 ATATCATTCAAAAGTCTTATGTCACCACAAACAGAGACTAA
8003372 A
1 A
8003373 GCAAATGTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (41 bp):
ATATCATTCAAAAGTCTTATGTCACCACAAACAGAGACTAA
Found at i:8008016 original size:51 final size:51
Alignment explanation
Indices: 8007900--8008189 Score: 341
Period size: 51 Copynumber: 5.6 Consensus size: 51
8007890 TTTCATCTAA
* * * * * *
8007900 TACTCACGAAGACA-TATAGTCATCGAACCCCTTTATTCCGTATAGGAATTTATA
1 TACTCACGATGACACT-TAGTCATCGGA--CCTTTAATCCGTAAAGG-ATTCATT
* * * *
8007954 TACTCACGATGACACTGAGTCATCGGACCTTTAATTCGTCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * *
8008005 TACTCACGATGATACTTAGTCATCGAACCTCTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * * *
8008056 AACTCACGATGACACTTAATCATCGGAACTTTATTCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
8008107 TACTCACGATGGCACTTAGTCATCGGACCTTTAATCCGT-AAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* *
8008157 TACTCACGATAACACTTAGTCATCAGACTCTTT
1 TACTCACGATGACACTTAGTCATCGGAC-CTTT
8008190 CGTTTATAGC
Statistics
Matches: 202, Mismatches: 32, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
50 36 0.18
51 131 0.65
52 12 0.06
54 22 0.11
55 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
Found at i:8011421 original size:25 final size:24
Alignment explanation
Indices: 8011364--8011422 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
8011354 TAAAGTAGGT
* *
8011364 TATA-TATTATTTTTCTAATATTA
1 TATATTATAATTTTTCTAATATCA
8011387 TATATTATAATTTTTACTAAT-TCA
1 TATATTATAATTTTT-CTAATATCA
*
8011411 TATTTTAATAAT
1 TATATT-ATAAT
8011423 AATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 16 0.53
25 10 0.33
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATTATAATTTTTCTAATATCA
Found at i:8011503 original size:56 final size:58
Alignment explanation
Indices: 8011405--8011556 Score: 200
Period size: 57 Copynumber: 2.6 Consensus size: 58
8011395 AATTTTTACT
* * *
8011405 AATTCATATTTTAATAATAATTATATTAAAAATGTTATTAAATTATTTATTA-TTTTATTA
1 AATT-ATA-TTTAATAATAATTATATT-AAAATATAATTAAATTATTTATTATTTTTATAA
* *
8011465 AATTGTATTT-ATAATAATTATGTTAAAATATAATTAAATTATTTATTATTTTTATAA
1 AATTATATTTAATAATAATTATATTAAAATATAATTAAATTATTTATTATTTTTATAA
* *
8011522 AATTATATTTAATAATAATTTTATTAAAATTTAAT
1 AATTATATTTAATAATAATTATATTAAAATATAAT
8011557 AACAATAATC
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
56 22 0.27
57 29 0.36
58 24 0.30
59 2 0.02
60 4 0.05
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.53
Consensus pattern (58 bp):
AATTATATTTAATAATAATTATATTAAAATATAATTAAATTATTTATTATTTTTATAA
Found at i:8011740 original size:16 final size:16
Alignment explanation
Indices: 8011716--8011751 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8011706 TTACTGATTG
*
8011716 CAGCCCTATTTCATTA
1 CAGCCCTATTCCATTA
*
8011732 CAGCTCTATTCCATTA
1 CAGCCCTATTCCATTA
8011748 CAGC
1 CAGC
8011752 GAACTAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.25, C:0.33, G:0.08, T:0.33
Consensus pattern (16 bp):
CAGCCCTATTCCATTA
Found at i:8019742 original size:7 final size:7
Alignment explanation
Indices: 8019727--8019840 Score: 104
Period size: 7 Copynumber: 16.4 Consensus size: 7
8019717 ACCGATCATC
8019727 GACCGTT
1 GACCGTT
*
8019734 GACCTTT
1 GACCGTT
* *
8019741 GATCTTT
1 GACCGTT
*
8019748 GACCATT
1 GACCGTT
*
8019755 GACCTTT
1 GACCGTT
*
8019762 GACCATT
1 GACCGTT
8019769 GACCGTT
1 GACCGTT
*
8019776 GACCATT
1 GACCGTT
8019783 GACCGTT
1 GACCGTT
8019790 GACCGTT
1 GACCGTT
*
8019797 GACCTTT
1 GACCGTT
*
8019804 AACCGTT
1 GACCGTT
*
8019811 GACCGCT
1 GACCGTT
**
8019818 GACTATT
1 GACCGTT
*
8019825 GA-CTTT
1 GACCGTT
8019831 GACCGTT
1 GACCGTT
8019838 GAC
1 GAC
8019841 TATTTCGAAA
Statistics
Matches: 86, Mismatches: 20, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
6 4 0.05
7 82 0.95
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.33
Consensus pattern (7 bp):
GACCGTT
Found at i:8019751 original size:21 final size:21
Alignment explanation
Indices: 8019727--8019840 Score: 133
Period size: 21 Copynumber: 5.5 Consensus size: 21
8019717 ACCGATCATC
* *
8019727 GACCGTTGACCTTTGATCTTT
1 GACCGTTGACCTTTGACCGTT
* *
8019748 GACCATTGACCTTTGACCATT
1 GACCGTTGACCTTTGACCGTT
*
8019769 GACCGTTGACCATTGACCGTT
1 GACCGTTGACCTTTGACCGTT
*
8019790 GACCGTTGACCTTTAACCGTT
1 GACCGTTGACCTTTGACCGTT
* *
8019811 GACCGCTGA-CTATTGA-CTTT
1 GACCGTTGACCT-TTGACCGTT
8019831 GACCGTTGAC
1 GACCGTTGAC
8019841 TATTTCGAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.16
21 66 0.84
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.33
Consensus pattern (21 bp):
GACCGTTGACCTTTGACCGTT
Found at i:8020950 original size:3 final size:3
Alignment explanation
Indices: 8020895--8020933 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
8020885 AGTTACAAAT
8020895 TTA TT- TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8020934 TTGATTTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:8026971 original size:25 final size:25
Alignment explanation
Indices: 8026941--8027022 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 25
8026931 TTGAATAAAA
8026941 TTAAAAACCAAATAACCCAAACCCT
1 TTAAAAACCAAATAACCCAAACCCT
*
8026966 TTAAAAATCC--TTAAGCCCAAA--C-
1 TTAAAAA-CCAAATAA-CCCAAACCCT
*
8026988 TT--AAACCCAATAACCCAAACCCT
1 TTAAAAACCAAATAACCCAAACCCT
*
8027011 TTTAAAACCAAA
1 TTAAAAACCAAA
8027023 CCAAACCCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 18
0.68 0.05 0.27
Matches are distributed among these distances:
19 2 0.04
20 9 0.20
21 3 0.07
22 3 0.07
23 3 0.07
24 3 0.07
25 20 0.44
26 2 0.04
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (25 bp):
TTAAAAACCAAATAACCCAAACCCT
Found at i:8027102 original size:7 final size:7
Alignment explanation
Indices: 8027087--8027146 Score: 52
Period size: 7 Copynumber: 8.9 Consensus size: 7
8027077 ATTGACCGAC
*
8027087 CGTTCAT
1 CGTTGAT
8027094 CGTTGAT
1 CGTTGAT
*
8027101 CGTTGAC
1 CGTTGAT
*
8027108 CTTTGAT
1 CGTTGAT
8027115 CGTTGA-
1 CGTTGAT
*
8027121 CCTTGAT
1 CGTTGAT
8027128 CGTTGA-
1 CGTTGAT
* *
8027134 CTTTGAC
1 CGTTGAT
8027141 CGTTGA
1 CGTTGA
8027147 CTTTTTCGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
6 10 0.24
7 32 0.76
ACGTcount: A:0.15, C:0.22, G:0.23, T:0.40
Consensus pattern (7 bp):
CGTTGAT
Found at i:8027148 original size:13 final size:13
Alignment explanation
Indices: 8027096--8027150 Score: 83
Period size: 13 Copynumber: 4.2 Consensus size: 13
8027086 CCGTTCATCG
8027096 TTGATCGTTGACCT
1 TTGATCGTTGA-CT
*
8027110 TTGATCGTTGACC
1 TTGATCGTTGACT
8027123 TTGATCGTTGACT
1 TTGATCGTTGACT
*
8027136 TTGACCGTTGACT
1 TTGATCGTTGACT
8027149 TT
1 TT
8027151 TTCGAAAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
13 27 0.71
14 11 0.29
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.44
Consensus pattern (13 bp):
TTGATCGTTGACT
Found at i:8028246 original size:3 final size:3
Alignment explanation
Indices: 8028200--8028235 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
8028190 TACAAATTTA
8028200 TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8028236 TTGGATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:8028321 original size:23 final size:23
Alignment explanation
Indices: 8028295--8028342 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
8028285 TACAATTTAC
** *
8028295 TTTGGGACTTTTGTTAATTTATT
1 TTTGGGACTTTAATTAACTTATT
*
8028318 TTTGGGAGTTTAATTAACTTATT
1 TTTGGGACTTTAATTAACTTATT
8028341 TT
1 TT
8028343 ATTTTTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.21, C:0.04, G:0.17, T:0.58
Consensus pattern (23 bp):
TTTGGGACTTTAATTAACTTATT
Found at i:8030943 original size:18 final size:18
Alignment explanation
Indices: 8030920--8030962 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
8030910 AGAAAAAAAT
8030920 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
8030938 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
8030956 TTAATTA
1 TTAATTA
8030963 CAATTGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:8037436 original size:43 final size:43
Alignment explanation
Indices: 8037338--8037603 Score: 311
Period size: 43 Copynumber: 6.0 Consensus size: 43
8037328 GCGGATGATT
*
8037338 TTTAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGACC-TGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
* * **
8037380 TTTAGCGGTGTTTGTGGGATAAGCGCTACTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
* * *
8037423 TTTAGCGGCGTTTGTGAGG-TAAGCGTCACTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTG-GGAAAAGCGCCGCTAAAGACCATGTTC
*
8037466 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTAGC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATG----TT--C
* *
8037515 GGTTTAGCGGCGTTTGTGGGATAAGCGTCGCTAAAGACCATGTTC
1 --TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
* * *
8037560 TTTAGCGGTGTTTGTGAGAAAAGTGCCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
8037603 T
1 T
8037604 ATATCGGCAT
Statistics
Matches: 193, Mismatches: 20, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
42 33 0.17
43 115 0.60
44 2 0.01
45 1 0.01
47 4 0.02
49 1 0.01
51 37 0.19
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
Found at i:8037547 original size:51 final size:51
Alignment explanation
Indices: 8037466--8037603 Score: 184
Period size: 51 Copynumber: 2.9 Consensus size: 51
8037456 GACCATGTTC
8037466 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGG
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGG
* * *
8037517 TTTAGCGGCGTTTGTGGGATAAGCGTCGCTAAAGACCATGTTCTTTAGCGG
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGG
*
8037568 --T------GTTTGTGAGAAAAGTGCCGCTAAAGACCATGTTCT
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCT
8037604 ATATCGGCAT
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
43 31 0.39
49 1 0.01
51 48 0.60
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (51 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGG
Found at i:8037588 original size:94 final size:94
Alignment explanation
Indices: 8037423--8037603 Score: 319
Period size: 94 Copynumber: 1.9 Consensus size: 94
8037413 GACCATGTTC
8037423 TTTAGCGGCGTTTGTGAGGTAAGCGTCACTAAAGACCATGTTCTTTAGCGGCGTTTGTGAGAAAA
1 TTTAGCGGCGTTTGTGAGGTAAGCGTCACTAAAGACCATGTTCTTTAGCGGCGTTTGTGAGAAAA
8037488 GCGCCGCTAAAGACCATGTTCTTTAGCGG
66 GCGCCGCTAAAGACCATGTTCTTTAGCGG
* *
8037517 TTTAGCGGCGTTTGTG-GGATAAGCGTCGCTAAAGACCATGTTCTTTAGCGGTGTTTGTGAGAAA
1 TTTAGCGGCGTTTGTGAGG-TAAGCGTCACTAAAGACCATGTTCTTTAGCGGCGTTTGTGAGAAA
*
8037581 AGTGCCGCTAAAGACCATGTTCT
65 AGCGCCGCTAAAGACCATGTTCT
8037604 ATATCGGCAT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
93 2 0.02
94 81 0.98
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (94 bp):
TTTAGCGGCGTTTGTGAGGTAAGCGTCACTAAAGACCATGTTCTTTAGCGGCGTTTGTGAGAAAA
GCGCCGCTAAAGACCATGTTCTTTAGCGG
Found at i:8041501 original size:27 final size:27
Alignment explanation
Indices: 8041463--8041550 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 27
8041453 TAAAGAATTT
8041463 AAAAAATGTAAAATTATTTTTAAATTAA
1 AAAAAAT-TAAAATTATTTTTAAATTAA
*
8041491 AAAAAATTAAAATTA---TTAAAATAA
1 AAAAAATTAAAATTATTTTTAAATTAA
* **
8041515 AAAATATTTTTAA-TATTTTTAAATT-A
1 AAAA-AATTAAAATTATTTTTAAATTAA
8041541 AAAAAATTAA
1 AAAAAATTAA
8041551 TTAAATGTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
24 14 0.29
25 8 0.17
26 5 0.10
27 14 0.29
28 7 0.15
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (27 bp):
AAAAAATTAAAATTATTTTTAAATTAA
Found at i:8043702 original size:21 final size:18
Alignment explanation
Indices: 8043678--8043724 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 18
8043668 GGTTCCCCCT
8043678 AAGAAAGAAGATGCCGGAGAG
1 AAGAAAGAAG--G-CGGAGAG
*
8043699 AAGAAAGACGGCGGAGAG
1 AAGAAAGAAGGCGGAGAG
8043717 AAGAAAGA
1 AAGAAAGA
8043725 CGCCGGCGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 15 0.60
19 1 0.04
21 9 0.36
ACGTcount: A:0.51, C:0.09, G:0.38, T:0.02
Consensus pattern (18 bp):
AAGAAAGAAGGCGGAGAG
Found at i:8043706 original size:18 final size:18
Alignment explanation
Indices: 8043685--8043730 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
8043675 CCTAAGAAAG
*
8043685 AAGATGCCGGAGAGAAGA
1 AAGACGCCGGAGAGAAGA
*
8043703 AAGACGGCGGAGAGAAGA
1 AAGACGCCGGAGAGAAGA
8043721 AAGACGCCGG
1 AAGACGCCGG
8043731 CGGTGCTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.41, C:0.15, G:0.41, T:0.02
Consensus pattern (18 bp):
AAGACGCCGGAGAGAAGA
Found at i:8043829 original size:18 final size:17
Alignment explanation
Indices: 8043780--8043835 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
8043770 TGCTGCAGGC
8043780 GGCGGCGAGAAGAAGGAA
1 GGCGGCGAGAAGAA-GAA
* *
8043798 GGAGGTG-GAGAGAAGAA
1 GGCGGCGAGA-AGAAGAA
8043815 TGGCGGCGAGAAGAAGGAA
1 -GGCGGCGAGAAGAA-GAA
8043834 GG
1 GG
8043836 AGGAGGCGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
17 5 0.17
18 20 0.67
19 5 0.17
ACGTcount: A:0.38, C:0.07, G:0.52, T:0.04
Consensus pattern (17 bp):
GGCGGCGAGAAGAAGAA
Found at i:8043856 original size:36 final size:35
Alignment explanation
Indices: 8043776--8043879 Score: 120
Period size: 36 Copynumber: 2.9 Consensus size: 35
8043766 CTGCTGCTGC
*
8043776 AGGCGGCGGCGAGAAGAAGGAAGGAGGTGGAGAGA
1 AGGCGGCGGCGAGAAGAAGGAAGGAGGAGGAGAGA
** * *
8043811 AGAATGGCGGCGAGAAGAAGGAAGGAGGAGGCGGGGA
1 AG-GCGGCGGCGAGAAGAAGGAAGGAGGAGG-AGAGA
* *
8043848 AGGCGGCGGAGAGAAGAAGGAAGGCGG-GGAGA
1 AGGCGGCGGCGAGAAGAAGGAAGGAGGAGGAGA
8043880 AGAAAGAAGG
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
34 1 0.02
35 4 0.07
36 46 0.82
37 5 0.09
ACGTcount: A:0.35, C:0.09, G:0.55, T:0.02
Consensus pattern (35 bp):
AGGCGGCGGCGAGAAGAAGGAAGGAGGAGGAGAGA
Found at i:8043869 original size:21 final size:22
Alignment explanation
Indices: 8043845--8043889 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
8043835 GAGGAGGCGG
8043845 GGAAGGCGGCGGAG-AG-AAGAA
1 GGAAGGCGG-GGAGAAGAAAGAA
8043866 GGAAGGCGGGGAGAAGAAAGAA
1 GGAAGGCGGGGAGAAGAAAGAA
8043888 GG
1 GG
8043890 TAGTGGTGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.18
21 11 0.50
22 7 0.32
ACGTcount: A:0.40, C:0.07, G:0.53, T:0.00
Consensus pattern (22 bp):
GGAAGGCGGGGAGAAGAAAGAA
Found at i:8044953 original size:26 final size:26
Alignment explanation
Indices: 8044923--8044979 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
8044913 ATTTCAGATC
*
8044923 AAATTTAAGTTTAAATCACGTTAATT
1 AAATTTAAGTTCAAATCACGTTAATT
* * *
8044949 AAATTTAGGTTCGAATCACGTTGATT
1 AAATTTAAGTTCAAATCACGTTAATT
8044975 AAATT
1 AAATT
8044980 CCTGTTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (26 bp):
AAATTTAAGTTCAAATCACGTTAATT
Found at i:8047781 original size:15 final size:15
Alignment explanation
Indices: 8047763--8047792 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8047753 ATATAAATTG
8047763 GTTAAAAAATTAAGT
1 GTTAAAAAATTAAGT
*
8047778 GTTAAAATATTAAGT
1 GTTAAAAAATTAAGT
8047793 TTTGATAATT
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:0.13, T:0.37
Consensus pattern (15 bp):
GTTAAAAAATTAAGT
Found at i:8054585 original size:24 final size:23
Alignment explanation
Indices: 8054541--8054586 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
8054531 TTCACTGAAA
**
8054541 ATTTTTATCAAATTATATTTAAT
1 ATTTTTATCAAACAATATTTAAT
*
8054564 ATTTGTTATCAAACAATTTTTAA
1 ATTT-TTATCAAACAATATTTAA
8054587 AAATTAAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTTTATCAAACAATATTTAAT
Found at i:8055566 original size:19 final size:17
Alignment explanation
Indices: 8055534--8055591 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 17
8055524 AATCTAGATA
8055534 TAAAAATTAAAAATTAT
1 TAAAAATTAAAAATTAT
*
8055551 TAAAATTCTAAAAAATTAAT
1 TAAAAAT-T-AAAAATT-AT
8055571 TAAAAATTAAAAATT-T
1 TAAAAATTAAAAATTAT
8055587 TAAAA
1 TAAAA
8055592 CTTTATTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
16 6 0.17
17 6 0.17
18 8 0.22
19 8 0.22
20 8 0.22
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAAATTAAAAATTAT
Found at i:8055729 original size:19 final size:20
Alignment explanation
Indices: 8055697--8055735 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
8055687 TATAAAAATG
* *
8055697 AAAAATATATAATTTTTAAA
1 AAAAATAGATAATTTATAAA
8055717 AAAAATAGA-AATTTATAAA
1 AAAAATAGATAATTTATAAA
8055736 GTTTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAATAGATAATTTATAAA
Found at i:8061468 original size:25 final size:23
Alignment explanation
Indices: 8061440--8061485 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
8061430 GTTGGATCCA
8061440 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
8061465 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
8061486 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:8063530 original size:16 final size:16
Alignment explanation
Indices: 8063511--8063545 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8063501 TGCATAATTA
8063511 AAATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
* *
8063527 AAATGAAAATGAAAAT
1 AAATAAAAATAAAAAT
8063543 AAA
1 AAA
8063546 AATACTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:8067552 original size:25 final size:23
Alignment explanation
Indices: 8067524--8067569 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
8067514 GTTGGATCCA
8067524 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
8067549 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
8067570 CCTTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:8071046 original size:19 final size:19
Alignment explanation
Indices: 8071019--8071065 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
8071009 AATTAAAATA
* * *
8071019 AAATAAAATAAAATATATT
1 AAATTAAATAAAAGATACT
*
8071038 AAATTAAATAATAGATACT
1 AAATTAAATAAAAGATACT
8071057 AAATTAAAT
1 AAATTAAAT
8071066 TGTTTTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AAATTAAATAAAAGATACT
Found at i:8076611 original size:25 final size:25
Alignment explanation
Indices: 8076604--8076691 Score: 176
Period size: 25 Copynumber: 3.5 Consensus size: 25
8076594 AAGTGCTGGG
8076604 TAACAGAGGGCACACGAAGTGCTAA
1 TAACAGAGGGCACACGAAGTGCTAA
8076629 TAACAGAGGGCACACGAAGTGCTAA
1 TAACAGAGGGCACACGAAGTGCTAA
8076654 TAACAGAGGGCACACGAAGTGCTAA
1 TAACAGAGGGCACACGAAGTGCTAA
8076679 TAACAGAGGGCAC
1 TAACAGAGGGCAC
8076692 GAAACATGCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.40, C:0.20, G:0.28, T:0.11
Consensus pattern (25 bp):
TAACAGAGGGCACACGAAGTGCTAA
Found at i:8076703 original size:25 final size:24
Alignment explanation
Indices: 8076583--8076691 Score: 155
Period size: 25 Copynumber: 4.4 Consensus size: 24
8076573 AGTACTTAAT
* **
8076583 AGAGGGCACATAAGTGCTGGGTAAC
1 AGAGGGCACACAAGTGCT-AATAAC
8076608 AGAGGGCACACGAAGTGCTAATAAC
1 AGAGGGCACAC-AAGTGCTAATAAC
8076633 AGAGGGCACACGAAGTGCTAATAAC
1 AGAGGGCACAC-AAGTGCTAATAAC
8076658 AGAGGGCACACGAAGTGCTAATAAC
1 AGAGGGCACAC-AAGTGCTAATAAC
8076683 AGAGGGCAC
1 AGAGGGCAC
8076692 GAAACATGCT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 73 0.91
26 7 0.09
ACGTcount: A:0.38, C:0.19, G:0.31, T:0.12
Consensus pattern (24 bp):
AGAGGGCACACAAGTGCTAATAAC
Found at i:8082736 original size:23 final size:24
Alignment explanation
Indices: 8082663--8082765 Score: 81
Period size: 25 Copynumber: 4.3 Consensus size: 24
8082653 AGTACTTAAT
* *
8082663 AGAGGGCACATA-AGTGCTGGGAAAC
1 AGAGGGCACACACAGTGCT-AG-AAC
* * *
8082688 AAAGGGCACACAAAGTGCTAATAAC
1 AGAGGGCACACACAGTGCT-AGAAC
8082713 AGAGGGCACACACAGTGCT-GAAC
1 AGAGGGCACACACAGTGCTAGAAC
8082736 AGAGGGCACGGA-ACA-TGCTA-AAC
1 AGAGGGCAC--ACACAGTGCTAGAAC
8082759 AGAGGGC
1 AGAGGGC
8082766 GCGCTAGTGT
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
23 26 0.39
24 3 0.05
25 31 0.47
26 6 0.09
ACGTcount: A:0.39, C:0.20, G:0.31, T:0.10
Consensus pattern (24 bp):
AGAGGGCACACACAGTGCTAGAAC
Found at i:8083051 original size:12 final size:12
Alignment explanation
Indices: 8083034--8083060 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8083024 GAAATTAGAC
8083034 TTAAATATATTT
1 TTAAATATATTT
8083046 TTAAATATATTT
1 TTAAATATATTT
8083058 TTA
1 TTA
8083061 CCATAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATATATTT
Found at i:8089562 original size:21 final size:22
Alignment explanation
Indices: 8089526--8089568 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
8089516 CAGCAAATGA
*
8089526 TTTTAAAATTATTAAAATTATT
1 TTTTAAAAATATTAAAATTATT
8089548 TTTTAAAAATA-TAAAATTATT
1 TTTTAAAAATATTAAAATTATT
8089569 AAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAAAATATTAAAATTATT
Found at i:8089589 original size:29 final size:30
Alignment explanation
Indices: 8089529--8089608 Score: 144
Period size: 29 Copynumber: 2.7 Consensus size: 30
8089519 CAAATGATTT
8089529 TAAAATTATTAAAATTATTTTTTAAAAATA
1 TAAAATTATTAAAATTATTTTTTAAAAATA
8089559 TAAAATTATTAAAATTATTTTTT-AAAATA
1 TAAAATTATTAAAATTATTTTTTAAAAATA
*
8089588 TAAAACTATTAAAATTATTTT
1 TAAAATTATTAAAATTATTTT
8089609 AATATTTTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 26 0.53
30 23 0.47
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (30 bp):
TAAAATTATTAAAATTATTTTTTAAAAATA
Found at i:8089647 original size:25 final size:25
Alignment explanation
Indices: 8089619--8089669 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
8089609 AATATTTTAA
*
8089619 TCATCATCATCTTGTTCTTTTGGGT
1 TCATCATCATCCTGTTCTTTTGGGT
8089644 TCATCATCATCCTGTTCTTTTGGGT
1 TCATCATCATCCTGTTCTTTTGGGT
8089669 T
1 T
8089670 TTTCTGTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.22, G:0.16, T:0.51
Consensus pattern (25 bp):
TCATCATCATCCTGTTCTTTTGGGT
Found at i:8090380 original size:6 final size:6
Alignment explanation
Indices: 8090347--8090376 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
8090337 AAATAAGAAA
*
8090347 AAGGGG AAGGGG AAGGGG AAGGGG GAGGGG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG
8090377 GAGGAGGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:8090526 original size:11 final size:10
Alignment explanation
Indices: 8090503--8090544 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
8090493 ATATTTTAAA
*
8090503 AAATAATTCT
1 AAATAATTTT
8090513 AAATTAATTTT
1 AAA-TAATTTT
8090524 AAAATAATTTT
1 -AAATAATTTT
8090535 -AATAATTTT
1 AAATAATTTT
8090544 A
1 A
8090545 TATTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 9 0.32
10 3 0.11
11 13 0.46
12 3 0.11
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATAATTTT
Found at i:8090530 original size:22 final size:20
Alignment explanation
Indices: 8090502--8090544 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
8090492 TATATTTTAA
8090502 AAAATAATTCTAAATTAATTTT
1 AAAATAATT-TAAA-TAATTTT
*
8090524 AAAATAATTTTAATAATTTT
1 AAAATAATTTAAATAATTTT
8090544 A
1 A
8090545 TATTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 3 0.15
22 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAATAATTTAAATAATTTT
Found at i:8090542 original size:20 final size:20
Alignment explanation
Indices: 8090484--8090544 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
8090474 ATGATATTTT
8090484 AATAATTTT-AT-ATTTTAAAA
1 AATAATTTTAATAATTTT--AA
*
8090504 AATAATTCTAAATTAATTTTAA
1 AATAATT-TTAA-TAATTTTAA
8090526 AATAATTTTAATAATTTTA
1 AATAATTTTAATAATTTTA
8090545 TATTTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
20 15 0.43
21 4 0.11
22 10 0.29
23 1 0.03
24 5 0.14
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AATAATTTTAATAATTTTAA
Found at i:8092579 original size:105 final size:105
Alignment explanation
Indices: 8092442--8092654 Score: 381
Period size: 105 Copynumber: 2.0 Consensus size: 105
8092432 ACTCTTTCAA
*
8092442 TTTCCCAATTCTGAGTCTCTGACATCTTTTTCTCTCTTATTATTTAATTTTATTGTTATATTTTA
1 TTTCCCAATTCTGAGTCTCTGACATCTTTTTCTCTCTTATTATTTAATTTTATTATTATATTTTA
8092507 TAATAAAATATTAACATTTAATTTTTAAACTTTAAAAAGT
66 TAATAAAATATTAACATTTAATTTTTAAACTTTAAAAAGT
* *
8092547 TTTCCTAATTCTGAGTCTCTGACATCTTTTTCTCTTTTATTATTTAATTTTATTATTATATTTTA
1 TTTCCCAATTCTGAGTCTCTGACATCTTTTTCTCTCTTATTATTTAATTTTATTATTATATTTTA
**
8092612 TAATAAAATATTAGTATTTAATTTTTAAACTTTAAAAAGT
66 TAATAAAATATTAACATTTAATTTTTAAACTTTAAAAAGT
8092652 TTT
1 TTT
8092655 TTTTTTATCC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 103 1.00
ACGTcount: A:0.31, C:0.11, G:0.05, T:0.54
Consensus pattern (105 bp):
TTTCCCAATTCTGAGTCTCTGACATCTTTTTCTCTCTTATTATTTAATTTTATTATTATATTTTA
TAATAAAATATTAACATTTAATTTTTAAACTTTAAAAAGT
Found at i:8092599 original size:13 final size:13
Alignment explanation
Indices: 8092581--8092636 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
8092571 TCTTTTTCTC
8092581 TTTTATTATTTAA
1 TTTTATTATTTAA
8092594 TTTTATTA-TTATA
1 TTTTATTATTTA-A
* **
8092607 TTTTATAATAAAA
1 TTTTATTATTTAA
* *
8092620 TATTAGTATTTAA
1 TTTTATTATTTAA
8092633 TTTT
1 TTTT
8092637 TAAACTTTAA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
12 3 0.09
13 28 0.88
14 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TTTTATTATTTAA
Found at i:8093804 original size:16 final size:17
Alignment explanation
Indices: 8093776--8093808 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
8093766 TATATATTTT
8093776 TAAAATAAATAAAAATA
1 TAAAATAAATAAAAATA
8093793 TAAAAT-AATAAAAATA
1 TAAAATAAATAAAAATA
8093809 ATTTTTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAATAAATAAAAATA
Found at i:8094156 original size:27 final size:28
Alignment explanation
Indices: 8094126--8094181 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
8094116 AGTTATGGAT
*
8094126 TCTTTTATT-ATATTGTTTTTTATT-TTG
1 TCTTTTATTAAT-TTGTTTTTGATTGTTG
*
8094153 TCTTTTTTTAATTTGTTTTTGATTGTTG
1 TCTTTTATTAATTTGTTTTTGATTGTTG
8094181 T
1 T
8094182 TTATCCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.12, C:0.04, G:0.11, T:0.73
Consensus pattern (28 bp):
TCTTTTATTAATTTGTTTTTGATTGTTG
Found at i:8100452 original size:18 final size:19
Alignment explanation
Indices: 8100429--8100469 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
8100419 AATATTTTAA
* *
8100429 AAATTTTAAA-TTAGAAAT
1 AAATTTAAAATTTAAAAAT
8100447 AAATTTAAAATTTAAAAAT
1 AAATTTAAAATTTAAAAAT
8100466 AAAT
1 AAAT
8100470 AATAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAATTTAAAATTTAAAAAT
Found at i:8100473 original size:26 final size:27
Alignment explanation
Indices: 8100409--8100486 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 27
8100399 TGGCTCCACC
* *
8100409 AAAATAAAATAAT-ATTTTAAAAATTTT
1 AAAAT-AAATAATAAATTTAAAAATTTA
* *
8100436 AAATTAGA-AATAAATTT-AAAATTTA
1 AAAATAAATAATAAATTTAAAAATTTA
**
8100461 AAAATAAATAATAAATAAAAAAATTT
1 AAAATAAATAATAAATTTAAAAATTT
8100487 CATCGGGAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
25 16 0.40
26 13 0.32
27 11 0.28
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (27 bp):
AAAATAAATAATAAATTTAAAAATTTA
Found at i:8100577 original size:26 final size:26
Alignment explanation
Indices: 8100527--8100578 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
8100517 GCTCCATCAA
*
8100527 AAATAAAATATATATTTTAAAAATAT
1 AAATAAAATATATATTTAAAAAATAT
8100553 AAATAAAA-A-ATCATTTAAAAGAATAT
1 AAATAAAATATAT-ATTTAAAA-AATAT
8100579 TTAATTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 2 0.09
25 8 0.35
26 13 0.57
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (26 bp):
AAATAAAATATATATTTAAAAAATAT
Found at i:8100593 original size:92 final size:92
Alignment explanation
Indices: 8100497--8100793 Score: 456
Period size: 92 Copynumber: 3.2 Consensus size: 92
8100487 CATCGGGAAT
8100497 TGGTGGCGCCATTTAATATGGCTCCATCAAAAATAAAATATATATTTTAAAAATATAAATAAAAA
1 TGGTGGCGCCATTTAATATGGCTCCATCAAAAATAAAATATATATTTTAAAAATATAAATAAAAA
8100562 ATCATTTAAAAGAATATTTAATTAAAG
66 ATCATTTAAAAGAATATTTAATTAAAG
8100589 TGGTGGCGCCATTTAATATGGCTCCATCAAAAATAAAATATATATTTTAAAAATATAAATAAAAA
1 TGGTGGCGCCATTTAATATGGCTCCATCAAAAATAAAATATATATTTTAAAAATATAAATAAAAA
*
8100654 ATCATTTGAAAGAATATTTAATTAAAG
66 ATCATTTAAAAGAATATTTAATTAAAG
* ** *
8100681 TGGTGGCGCCATTTAATATGGCACCA-CAAAAA-AATTTTAATTTATTTTAAAAATATAAATTAA
1 TGGTGGCGCCATTTAATATGGCTCCATCAAAAATAA-AAT-ATATATTTTAAAAATATAAA-TAA
* *
8100744 AAAAT-AATTAAAAAAATTATTTAATTAAAG
63 AAAATCATTTAAAAGAA-TATTTAATTAAAG
* *
8100774 TGATGGCGCCATCTAATATG
1 TGGTGGCGCCATTTAATATG
8100794 ACACCACCAA
Statistics
Matches: 191, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
90 2 0.01
91 7 0.04
92 143 0.75
93 39 0.20
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (92 bp):
TGGTGGCGCCATTTAATATGGCTCCATCAAAAATAAAATATATATTTTAAAAATATAAATAAAAA
ATCATTTAAAAGAATATTTAATTAAAG
Found at i:8100669 original size:26 final size:26
Alignment explanation
Indices: 8100619--8100670 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
8100609 GCTCCATCAA
*
8100619 AAATAAAATATATATTTTAAAAATAT
1 AAATAAAATATATATTTGAAAAATAT
8100645 AAATAAAA-A-ATCATTTGAAAGAATAT
1 AAATAAAATATAT-ATTTGAAA-AATAT
8100671 TTAATTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 2 0.09
25 8 0.35
26 13 0.57
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (26 bp):
AAATAAAATATATATTTGAAAAATAT
Found at i:8100873 original size:18 final size:18
Alignment explanation
Indices: 8100847--8100882 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8100837 TATAAAATAT
8100847 AATAATAATAATGTTTAA
1 AATAATAATAATGTTTAA
*
8100865 AATACTAATAATGTTTAA
1 AATAATAATAATGTTTAA
8100883 GTTGGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (18 bp):
AATAATAATAATGTTTAA
Found at i:8101300 original size:28 final size:28
Alignment explanation
Indices: 8101255--8101308 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
8101245 GCAGATTTTA
** *
8101255 AGTTATTTTTGTATTTAATCAAAAAATG
1 AGTTATTTACGTAATTAATCAAAAAATG
*
8101283 AGTTATTTACGTAATTAATTAAAAAA
1 AGTTATTTACGTAATTAATCAAAAAA
8101309 AAGGGTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (28 bp):
AGTTATTTACGTAATTAATCAAAAAATG
Found at i:8101806 original size:28 final size:29
Alignment explanation
Indices: 8101755--8101812 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
8101745 ACCCATATAA
* * *
8101755 AATTATGCATTGTTAAT-TTTTTTAATAT
1 AATTATGCATTATTAATATATTTAAATAT
8101783 AATTATGCATTATTAATATATTTAAATAT
1 AATTATGCATTATTAATATATTTAAATAT
8101812 A
1 A
8101813 TATAAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
AATTATGCATTATTAATATATTTAAATAT
Found at i:8108967 original size:17 final size:18
Alignment explanation
Indices: 8108942--8108975 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8108932 AAAAATATAA
*
8108942 AATTTAAAAA-TAAATTT
1 AATTAAAAAATTAAATTT
8108959 AATTAAAAAATTAAATT
1 AATTAAAAAATTAAATT
8108976 CGTTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTAAAAAATTAAATTT
Found at i:8109210 original size:16 final size:16
Alignment explanation
Indices: 8109191--8109238 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
8109181 AAAAATTAAT
8109191 AAATAAAT-AATATATA
1 AAATAAATAAATAT-TA
* *
8109207 AAATTACTAAATATTA
1 AAATAAATAAATATTA
8109223 AAATAAAATAAATATT
1 AAAT-AAATAAATATT
8109239 TTTTAAGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATAAATAAATATTA
Found at i:8109556 original size:24 final size:25
Alignment explanation
Indices: 8109526--8109577 Score: 97
Period size: 24 Copynumber: 2.1 Consensus size: 25
8109516 AATATATTTT
8109526 TAATTACTTTTAATTAGAATAA-AA
1 TAATTACTTTTAATTAGAATAACAA
8109550 TAATTACTTTTAATTAGAATAACAA
1 TAATTACTTTTAATTAGAATAACAA
8109575 TAA
1 TAA
8109578 AATACTGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (25 bp):
TAATTACTTTTAATTAGAATAACAA
Found at i:8110671 original size:2 final size:2
Alignment explanation
Indices: 8110666--8110699 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8110656 ATACTATATA
8110666 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8110700 ATGAAATCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8112188 original size:22 final size:22
Alignment explanation
Indices: 8112163--8112217 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
8112153 ATGTCTCTGA
8112163 TCTCGAGACATGTAAGTCC-TAG
1 TCTCGAGACATGTAAG-CCATAG
* * *
8112185 TCTCGAGACGTGTATGCCATTG
1 TCTCGAGACATGTAAGCCATAG
8112207 TCTCGAGACAT
1 TCTCGAGACAT
8112218 ATTTATTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (22 bp):
TCTCGAGACATGTAAGCCATAG
Found at i:8119540 original size:29 final size:30
Alignment explanation
Indices: 8119476--8119564 Score: 85
Period size: 31 Copynumber: 3.0 Consensus size: 30
8119466 ATATCAAAAT
*
8119476 TATACATGAATTATGGTTTAATGTGCAATTG
1 TATACATGAATTATGATTTAATGT-CAATTG
*
8119507 TATACATGAACTT-TGATTTTATGT-AATTG
1 TATACATGAA-TTATGATTTAATGTCAATTG
* * *
8119536 TATACATAAAATTTTGATTTGAT-TCAATT
1 TATACAT-GAATTATGATTTAATGTCAATT
8119565 CTTGTAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
29 15 0.30
30 14 0.28
31 19 0.38
32 2 0.04
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.46
Consensus pattern (30 bp):
TATACATGAATTATGATTTAATGTCAATTG
Found at i:8119928 original size:22 final size:21
Alignment explanation
Indices: 8119861--8119928 Score: 50
Period size: 22 Copynumber: 3.1 Consensus size: 21
8119851 TTTGTTATAT
* *
8119861 TTTG-ATATTAAAAATAGGGA
1 TTTGAATATTAAAAATAAGAA
*
8119881 TATT-AATATTATAAAATTATAAAA
1 T-TTGAATATTA-AAAA-TA-AGAA
8119905 TTTGAATATTAAAAATACAGAA
1 TTTGAATATTAAAAATA-AGAA
8119927 TT
1 TT
8119929 CTGTTTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
20 1 0.03
21 8 0.22
22 11 0.30
23 8 0.22
24 9 0.24
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (21 bp):
TTTGAATATTAAAAATAAGAA
Found at i:8125945 original size:30 final size:30
Alignment explanation
Indices: 8125911--8125982 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
8125901 AAATTTCAAT
* *
8125911 AAATAAAATATATAAA-ATTATTAAATATTA
1 AAATAAAATATATAAATATT-TAAAAAATTA
*
8125941 AAATAATATAATATAAATATTTAAAAAATTA
1 AAATAAAAT-ATATAAATATTTAAAAAATTA
8125972 AAA-AATAATAT
1 AAATAA-AATAT
8125983 GGACGGGTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 12 0.34
31 20 0.57
32 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (30 bp):
AAATAAAATATATAAATATTTAAAAAATTA
Found at i:8130187 original size:97 final size:97
Alignment explanation
Indices: 8130079--8130256 Score: 320
Period size: 97 Copynumber: 1.8 Consensus size: 97
8130069 AAAAGTTAAA
* * *
8130079 TTAACAATTTTAGTAACGAAATGACTTAATTAATATAACATCGATAGTTTGAGGATGTAATTAAA
1 TTAACAATTTTAGTAACGAAAAGACTTAATTAATATAACATCAATAGTTTGAAGATGTAATTAAA
8130144 ATATTTTAAAGTTTAATGGTTAATTTAAAATT
66 ATATTTTAAAGTTTAATGGTTAATTTAAAATT
*
8130176 TTAACAATTTTAGTAACGAAAAGACTTTATTAATATAACATCAATAGTTTGAAGATGTAATTAAA
1 TTAACAATTTTAGTAACGAAAAGACTTAATTAATATAACATCAATAGTTTGAAGATGTAATTAAA
8130241 ATATTTTAAAGTTTAA
66 ATATTTTAAAGTTTAA
8130257 AAATCAATTT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 77 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (97 bp):
TTAACAATTTTAGTAACGAAAAGACTTAATTAATATAACATCAATAGTTTGAAGATGTAATTAAA
ATATTTTAAAGTTTAATGGTTAATTTAAAATT
Found at i:8134955 original size:6 final size:6
Alignment explanation
Indices: 8134937--8135019 Score: 68
Period size: 6 Copynumber: 14.0 Consensus size: 6
8134927 TTAAATTGAT
*
8134937 TTTAAA TTT--A TTTGAA TTTAAA TTT--A TCTTAAA TTTAATTA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA--A TTTAAA
* *
8134984 TTT-AC CTTAAA TTTAAA TTTAAA TTTAAA TTATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
8135020 ACAAATTTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
4 6 0.10
5 5 0.08
6 40 0.63
7 6 0.10
8 6 0.10
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:8135019 original size:25 final size:23
Alignment explanation
Indices: 8134946--8135011 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 23
8134936 TTTTAAATTT
*
8134946 ATTTGAATTTAAATTT-ATCTTAA
1 ATTTAAATTTAAATTTAAT-TTAA
**
8134969 ATTTAATTATTTAAATTTACCTTAA
1 ATTTAA--ATTTAAATTTAATTTAA
8134994 ATTTAAATTTAAATTTAA
1 ATTTAAATTTAAATTTAA
8135012 ATTATAAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 16 0.44
25 20 0.56
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTAAATTTAAATTTAATTTAA
Found at i:8135330 original size:26 final size:26
Alignment explanation
Indices: 8135294--8135355 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
8135284 TCTGGCACTG
8135294 CTGCCACCACCAAGCTCCACCATGCC
1 CTGCCACCACCAAGCTCCACCATGCC
8135320 CTGCCACCACCAAGCTCCACCATGCC
1 CTGCCACCACCAAGCTCCACCATGCC
8135346 CTGCCACCAC
1 CTGCCACCAC
8135356 TGCCTAGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.23, C:0.55, G:0.11, T:0.11
Consensus pattern (26 bp):
CTGCCACCACCAAGCTCCACCATGCC
Found at i:8135870 original size:3 final size:3
Alignment explanation
Indices: 8135862--8135891 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8135852 ATTAGTAACG
8135862 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8135892 GAAAAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8137087 original size:59 final size:59
Alignment explanation
Indices: 8136995--8137365 Score: 557
Period size: 59 Copynumber: 6.3 Consensus size: 59
8136985 CCCAAACAGT
* *
8136995 CCAAAAATTACCATTTTACCCCCGAACTTTTCAAAATTCCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
8137054 CCAAAAATTACCATTTTACCCCCGAACTTTTCAAAATTCCATTTTTATCCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
8137113 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCTATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
8137172 CCAAAAATTACCATTTTACCCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATCTCA
1 CCAAAAATTACCATTTTA-CCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
8137232 CCAAAAATTACCATTTTACCCCTCAAAC-TTCCAAAATTCCATTTTTAACCCCGATTACA
1 CCAAAAATTACCATTTTACCCC-CGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * **
8137291 CCCAAAATTACCATTTTACCCTCGAACTTTCCAAAATTATATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
*
8137350 CC-AAAATTGCCATTTT
1 CCAAAAATTACCATTTT
8137366 GCCCTCGGGT
Statistics
Matches: 287, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
58 17 0.06
59 211 0.74
60 59 0.21
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.34
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:8137300 original size:178 final size:177
Alignment explanation
Indices: 8136995--8137365 Score: 575
Period size: 178 Copynumber: 2.1 Consensus size: 177
8136985 CCCAAACAGT
* * * *
8136995 CCAAAAATTACCATTTTACCCCCGAACTTTTCAAAATTCCATTTTTAACCCTGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATCTCACCAAAA
* * * *
8137060 ATTACCATTTTACCCCCGAACTTTTCAAAATTCCATTTTTATCCCCAATTTCACCAAAAATTACC
66 ATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTACACCAAAAATTACC
* * *
8137125 ATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCTATTTCA
131 ATTTTACCCTCGAACTTTCCAAAATTACATTTTTAACCCCGATTTCA
8137172 CCAAAAATTACCATTTTACCCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATCTCACCAAA
1 CCAAAAATTACCATTTTA-CCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATCTCACCAAA
* *
8137237 AATTACCATTTTACCCCTCAAAC-TTCCAAAATTCCATTTTTAACCCCGATTACACCCAAAATTA
65 AATTACCATTTTACCCC-CAAACTTTCCAAAATTCCATTTTTAACCCCAATTACACCAAAAATTA
*
8137301 CCATTTTACCCTCGAACTTTCCAAAATTATATTTTTAACCCCGATTTCA
129 CCATTTTACCCTCGAACTTTCCAAAATTACATTTTTAACCCCGATTTCA
*
8137350 CC-AAAATTGCCATTTT
1 CCAAAAATTACCATTTT
8137366 GCCCTCGGGT
Statistics
Matches: 177, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
177 31 0.18
178 142 0.80
179 4 0.02
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.34
Consensus pattern (177 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATCTCACCAAAA
ATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTACACCAAAAATTACC
ATTTTACCCTCGAACTTTCCAAAATTACATTTTTAACCCCGATTTCA
Found at i:8137353 original size:29 final size:29
Alignment explanation
Indices: 8137026--8137357 Score: 158
Period size: 30 Copynumber: 11.2 Consensus size: 29
8137016 CCGAACTTTT
* *
8137026 CAAAATTCCATTTTTAACCCTGATTTCAC
1 CAAAATTACATTTTTAACCCCGATTTCAC
* *
8137055 CAAAAATTACCA-TTTTACCCCCGAACTTT--T
1 C-AAAATTA-CATTTTTAACCCCG-A-TTTCAC
* * *
8137085 CAAAATTCCATTTTTATCCCCAATTTCAC
1 CAAAATTACATTTTTAACCCCGATTTCAC
8137114 CAAAAATTACCA-TTTT-ACCCTCGAACTTT--C
1 C-AAAATTA-CATTTTTAACCC-CG-A-TTTCAC
* * *
8137144 CAAAATTCCATTTTTAACCTCTATTTCAC
1 CAAAATTACATTTTTAACCCCGATTTCAC
* *
8137173 CAAAAATTACCA-TTTTACCCCCCAAACTTT--C
1 C-AAAATTA-CATTTTTA-ACCCC-GA-TTTCAC
* *
8137204 CAAAATTCCATTTTTAACCCCGATCTCAC
1 CAAAATTACATTTTTAACCCCGATTTCAC
* * *
8137233 CAAAAATTACCA-TTTTACCCCTCAAACTT--C
1 C-AAAATTA-CATTTTTAACCC-C-GATTTCAC
* *
8137263 CAAAATTCCATTTTTAACCCCGATTACACC
1 CAAAATTACATTTTTAACCCCGATTTCA-C
8137293 CAAAATTACCA-TTTT-ACCCTCGAACTTT--C
1 CAAAATTA-CATTTTTAACCC-CG-A-TTTCAC
*
8137322 CAAAATTATATTTTTAACCCCGATTTCAC
1 CAAAATTACATTTTTAACCCCGATTTCAC
8137351 CAAAATT
1 CAAAATT
8137358 GCCATTTTGC
Statistics
Matches: 228, Mismatches: 35, Indels: 80
0.66 0.10 0.23
Matches are distributed among these distances:
27 13 0.06
28 12 0.05
29 82 0.36
30 88 0.39
31 19 0.08
32 11 0.05
33 3 0.01
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.34
Consensus pattern (29 bp):
CAAAATTACATTTTTAACCCCGATTTCAC
Found at i:8149632 original size:31 final size:31
Alignment explanation
Indices: 8149597--8149844 Score: 115
Period size: 31 Copynumber: 7.4 Consensus size: 31
8149587 TCCTTATCTC
8149597 TGAAATTGAAGTAAAAGCAACGTCATCCCCT
1 TGAAATTGAAGTAAAAGCAACGTCATCCCCT
* * ***
8149628 TGAAATTGAAGTAGAGTGGATAAC-ACGTCTTTATCT
1 TGAAATTGAAGTA-A----A-AGCAACGTCATCCCCT
*
8149664 CTGAAATTGAAGTAAGAGCAACGTCATCCCCT
1 -TGAAATTGAAGTAAAAGCAACGTCATCCCCT
* * ***
8149696 TGAAATTGAAGTAGAGTGGATAAC-ACGTCTTTATCT
1 TGAAATTGAAGTA-A----A-AGCAACGTCATCCCCT
* *
8149732 CTGAAATTGAAGTAAGAGTAACGTCATCCCCT
1 -TGAAATTGAAGTAAAAGCAACGTCATCCCCT
* * ***
8149764 TGAAATTGAAGTAGAGTGGATAAC-ACGTCCTTATCT
1 TGAAATTGAAGTA-A----A-AGCAACGTCATCCCCT
*
8149800 CTGAAATTGAAGTAAGAGCAACGTCATCCCCT
1 -TGAAATTGAAGTAAAAGCAACGTCATCCCCT
8149832 TGAAATTGAAGTA
1 TGAAATTGAAGTA
8149845 GAGTGGATAA
Statistics
Matches: 156, Mismatches: 37, Indels: 48
0.65 0.15 0.20
Matches are distributed among these distances:
31 57 0.37
32 27 0.17
36 28 0.18
37 44 0.28
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (31 bp):
TGAAATTGAAGTAAAAGCAACGTCATCCCCT
Found at i:8149665 original size:68 final size:68
Alignment explanation
Indices: 8149486--8150168 Score: 1039
Period size: 68 Copynumber: 9.9 Consensus size: 68
8149476 ATCATTTCCA
* * *
8149486 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTAAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
8149551 GTC
66 GTC
* * *
8149554 AT-CCCTTGAAATTAAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTGAAGTAAAAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
8149618 GTC
66 GTC
8149621 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
8149686 GTC
66 GTC
*
8149689 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGTAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
8149754 GTC
66 GTC
*
8149757 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
8149822 GTC
66 GTC
8149825 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
*
8149890 GCC
66 GTC
* * *
8149893 ATCCGCTTGAAATTCAAGTAGAGCTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAG
1 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
8149958 TGTC
65 CGTC
* * *
8149962 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCCTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
8150027 GTC
66 GTC
* *
8150030 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAATTTGAAGTAAGAGCAA-
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
8150094 GATC
66 G-TC
* * *
8150098 ATTTCCTATCCTCTCGAAATTGAAGTAGAGCTGGATATA-AAGCCTTTGTCCCTCTGAAATTGAA
1 A--TCC---CCT-T-GAAATTGAAGTAGAG-TGGATA-ACACGTCTTTAT--CTCTGAAATTGAA
8150162 GTAAGAG
55 GTAAGAG
8150169 TAAGGTGAAG
Statistics
Matches: 572, Mismatches: 29, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
67 64 0.11
68 389 0.68
69 63 0.11
70 3 0.01
73 3 0.01
74 1 0.00
75 15 0.03
76 14 0.02
77 1 0.00
78 19 0.03
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (68 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:8150018 original size:205 final size:203
Alignment explanation
Indices: 8149486--8150093 Score: 1072
Period size: 205 Copynumber: 3.0 Consensus size: 203
8149476 ATCATTTCCA
* *
8149486 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTAAAGTAAGAGCAAC
1 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
* *
8149551 GTCATCCCTTGAAATTAAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTGAAGTAAAAGCA
66 GTCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTGAAGTAAGAGCA
8149616 ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
131 ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
*
8149681 GCAACGTC
196 GCAACGCC
* *
8149689 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGTAAC
1 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
8149754 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTGAAGTAAGAGC
66 GTCAT-CCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTGAAGTAAGAGC
8149819 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
130 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
8149884 AGCAACGCC
195 AGCAACGCC
* *
8149893 ATCCGCTTGAAATTCAAGTAGAGCTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAG
1 ATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
* *
8149958 TGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCCTTATCTCTGAAATTGAAGTAAGAG
65 CGTCATCC-CTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTGAAGTAAGAG
* *
8150023 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAATTTGAAGTAA
129 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
8150088 GAGCAA
194 GAGCAA
8150094 GATCATTTCC
Statistics
Matches: 387, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
203 66 0.17
204 153 0.40
205 168 0.43
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (203 bp):
ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
GTCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTGAAGTAAGAGCA
ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
GCAACGCC
Found at i:8150520 original size:6 final size:6
Alignment explanation
Indices: 8150502--8150584 Score: 68
Period size: 6 Copynumber: 14.0 Consensus size: 6
8150492 TTAAATTGAT
*
8150502 TTTAAA TTT--A TTTGAA TTTAAA TTT--A TCTTAAA TTTAATTA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA--A TTTAAA
* *
8150549 TTT-AC CTTAAA TTTAAA TTTAAA TTTAAA TTATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
8150585 ACAAATTTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
4 6 0.10
5 5 0.08
6 40 0.63
7 6 0.10
8 6 0.10
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:8150584 original size:25 final size:23
Alignment explanation
Indices: 8150511--8150576 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 23
8150501 TTTTAAATTT
*
8150511 ATTTGAATTTAAATTT-ATCTTAA
1 ATTTAAATTTAAATTTAAT-TTAA
**
8150534 ATTTAATTATTTAAATTTACCTTAA
1 ATTTAA--ATTTAAATTTAATTTAA
8150559 ATTTAAATTTAAATTTAA
1 ATTTAAATTTAAATTTAA
8150577 ATTATAAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 16 0.44
25 20 0.56
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTAAATTTAAATTTAATTTAA
Found at i:8152544 original size:30 final size:29
Alignment explanation
Indices: 8152510--8152836 Score: 99
Period size: 30 Copynumber: 11.1 Consensus size: 29
8152500 ACTTATAGGT
8152510 CCCCAAACAATCCAAAAATTACCATTTTAC
1 CCCCAAAC-ATCCAAAAATTACCATTTTAC
* *
8152540 CCCCAAACTTTCC-AAAATT-CCATTTTTAA
1 CCCCAAAC-ATCCAAAAATTACCA-TTTTAC
* *
8152569 CCCTAATTTCA-CCAAAAATTACCATTTTAC
1 CCCCAA--ACATCCAAAAATTACCATTTTAC
* * *
8152599 CCCTAAACTTTTC-AAAATT-CCATTTTTAAC
1 CCCCAAAC-ATCCAAAAATTACCA-TTTT-AC
** **
8152629 CCTGATTTCA-CCAAAAATTACCATTTTAC
1 CCCCA-AACATCCAAAAATTACCATTTTAC
* * *
8152658 CCTCGAACTTTCC-AAAATT-CCATTTTTAAC
1 CCCCAAAC-ATCCAAAAATTACCA-TTTT-AC
* * **
8152688 CTCGATTTCA-CCAAAAATTACCATTTTAC
1 CCCCA-AACATCCAAAAATTACCATTTTAC
* * * *
8152717 CCCCTAAACTTTCTAAAATT-CCATTTTTAA
1 CCCC-AAACATCCAAAAATTACCA-TTTTAC
* *
8152747 CCCCGATC-TCACCAAAAATTACCATTTTACC
1 CCCCAAACAT--CCAAAAATTACCATTTTA-C
* *
8152778 CCCCGAACTTCC-AAAATT-CCATTTTTAAC
1 CCCCAAACATCCAAAAATTACCA-TTTT-AC
* **
8152807 CCCGATTTCA-CC-AAAATTACCATTTTAC
1 CCCCA-AACATCCAAAAATTACCATTTTAC
8152835 CC
1 CC
8152837 TCGAACTTTC
Statistics
Matches: 219, Mismatches: 47, Indels: 64
0.66 0.14 0.19
Matches are distributed among these distances:
28 19 0.09
29 82 0.37
30 95 0.43
31 22 0.10
32 1 0.00
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (29 bp):
CCCCAAACATCCAAAAATTACCATTTTAC
Found at i:8152557 original size:29 final size:29
Alignment explanation
Indices: 8152510--8152854 Score: 187
Period size: 29 Copynumber: 11.7 Consensus size: 29
8152500 ACTTATAGGT
**
8152510 CCCCAAACAATCCAAAAATTACCATTTTAC
1 CCCCAAACTTTCC-AAAATTACCATTTTAC
8152540 CCCCAAACTTTCCAAAATT-CCATTTTTA-
1 CCCCAAACTTTCCAAAATTACCA-TTTTAC
* *
8152568 ACCCTAA-TTTCACCAAAAATTACCATTTTAC
1 CCCCAAACTTT--CC-AAAATTACCATTTTAC
* *
8152599 CCCTAAACTTTTCAAAATT-CCATTTTTA-
1 CCCCAAACTTTCCAAAATTACCA-TTTTAC
* **
8152627 ACCCTGA-TTTCACCAAAAATTACCATTTTAC
1 CCCCAAACTTT--CC-AAAATTACCATTTTAC
* * *
8152658 CCTCGAACTTTCCAAAATT-CCATTTTTAA
1 CCCCAAACTTTCCAAAATTACCA-TTTTAC
* *
8152687 CCTC-GA-TTTCACCAAAAATTACCATTTTAC
1 CCCCAAACTTT--CC-AAAATTACCATTTTAC
* *
8152717 CCCCTAAACTTTCTAAAATT-CCATTTTTAA
1 CCCC-AAACTTTCCAAAATTACCA-TTTTAC
* * **
8152747 CCCCGATCTCACCAAAAATTACCATTTTACC
1 CCCCAAACTTTCC-AAAATTACCATTTTA-C
* *
8152778 CCCCGAAC-TTCCAAAATT-CCATTTTTAA
1 CCCCAAACTTTCCAAAATTACCA-TTTTAC
*
8152806 CCCC-GA-TTTCACCAAAATTACCATTTTAC
1 CCCCAAACTTT--CCAAAATTACCATTTTAC
* *
8152835 CCTCGAACTTTCCAAAATTA
1 CCCCAAACTTTCCAAAATTA
8152855 TATTTTTAAC
Statistics
Matches: 244, Mismatches: 38, Indels: 67
0.70 0.11 0.19
Matches are distributed among these distances:
27 12 0.05
28 25 0.10
29 85 0.35
30 82 0.34
31 30 0.12
32 7 0.03
33 3 0.01
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (29 bp):
CCCCAAACTTTCCAAAATTACCATTTTAC
Found at i:8152615 original size:59 final size:59
Alignment explanation
Indices: 8152521--8152895 Score: 544
Period size: 59 Copynumber: 6.4 Consensus size: 59
8152511 CCCAAACAAT
* **
8152521 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
8152580 CCAAAAATTACCATTTTACCCCTAAACTTTTCAAAATTCCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
8152639 CCAAAAATTACCATTTTA-CCCTCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
8152698 CCAAAAATTACCATTTTACCCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATCTCA
1 CCAAAAATTACCATTTTA-CCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
**
8152758 CCAAAAATTACCATTTTACCCCCCGAAC-TTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTA-CCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* **
8152817 CC-AAAATTACCATTTTA-CCCTCGAACTTTCCAAAATTATATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
*
8152875 CC-AAAATTACCATTTTGCCCC
1 CCAAAAATTACCATTTTACCCC
8152896 GGGTATCCAA
Statistics
Matches: 291, Mismatches: 19, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
56 3 0.01
57 4 0.01
58 64 0.22
59 158 0.54
60 58 0.20
61 4 0.01
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.34
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:8152878 original size:29 final size:29
Alignment explanation
Indices: 8152551--8152890 Score: 176
Period size: 29 Copynumber: 11.5 Consensus size: 29
8152541 CCCAAACTTT
* **
8152551 CCAAAATTCCATTTTTAACCCTAATTTCA
1 CCAAAATTACATTTTTAACCCCGATTTCA
*
8152580 CCAAAAATTACCA-TTTT-ACCCCTAAACTTT--
1 CC-AAAATTA-CATTTTTAACCCC--GA-TTTCA
* * *
8152610 TCAAAATTCCATTTTTAACCCTGATTTCA
1 CCAAAATTACATTTTTAACCCCGATTTCA
8152639 CCAAAAATTACCA-TTTT-ACCCTCGAACTTT--
1 CC-AAAATTA-CATTTTTAACCC-CG-A-TTTCA
* *
8152669 CCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAATTACATTTTTAACCCCGATTTCA
* *
8152698 CCAAAAATTACCA-TTTTACCCCCTAAACTTT--
1 CC-AAAATTA-CATTTTTAACCCC--GA-TTTCA
* * *
8152729 CTAAAATTCCATTTTTAACCCCGATCTCA
1 CCAAAATTACATTTTTAACCCCGATTTCA
* *
8152758 CCAAAAATTACCA-TTTTACCCCCCGAACTT--
1 CC-AAAATTA-CATTTTTA-ACCCCG-ATTTCA
*
8152788 CCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAATTACATTTTTAACCCCGATTTCA
8152817 CCAAAATTACCA-TTTT-ACCCTCGAACTTT--
1 CCAAAATTA-CATTTTTAACCC-CG-A-TTTCA
*
8152846 CCAAAATTATATTTTTAACCCCGATTTCA
1 CCAAAATTACATTTTTAACCCCGATTTCA
8152875 CCAAAATTACCATTTT
1 CCAAAATTA-CATTTT
8152891 GCCCCGGGTA
Statistics
Matches: 238, Mismatches: 31, Indels: 83
0.68 0.09 0.24
Matches are distributed among these distances:
27 14 0.06
28 20 0.08
29 87 0.37
30 85 0.36
31 20 0.08
32 9 0.04
33 3 0.01
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.35
Consensus pattern (29 bp):
CCAAAATTACATTTTTAACCCCGATTTCA
Found at i:8154201 original size:11 final size:11
Alignment explanation
Indices: 8154185--8154325 Score: 59
Period size: 11 Copynumber: 12.5 Consensus size: 11
8154175 AAAAAACTAC
8154185 TATTTTATTAT
1 TATTTTATTAT
**
8154196 TATTTTGCTAT
1 TATTTTATTAT
* *
8154207 TATTTTTTTGT
1 TATTTTATTAT
* * *
8154218 TGTTTTCTCAT
1 TATTTTATTAT
* *
8154229 TATTTTACTAC
1 TATTTTATTAT
*
8154240 TATTTCATTAT
1 TATTTTATTAT
* *
8154251 TATGTTATTAC
1 TATTTTATTAT
* * *
8154262 TATTATGTTGT
1 TATTTTATTAT
8154273 TATTGTT-TGGATAT
1 TATT-TTAT---TAT
* *
8154287 TATATAATTAT
1 TATTTTATTAT
8154298 TATTTTATTAT
1 TATTTTATTAT
* *
8154309 TAATTTTGTTAC
1 T-ATTTTATTAT
8154321 TATTT
1 TATTT
8154326 CAGAATCATT
Statistics
Matches: 91, Mismatches: 33, Indels: 12
0.67 0.24 0.09
Matches are distributed among these distances:
11 74 0.81
12 10 0.11
13 1 0.01
14 6 0.07
ACGTcount: A:0.23, C:0.06, G:0.07, T:0.64
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:8160892 original size:44 final size:45
Alignment explanation
Indices: 8160808--8160893 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
8160798 TATTTATTAG
*
8160808 TTAATAAAGAACAAATTTAGTTTAATTTATTTAATTACTTATCAT
1 TTAATAAAGAACAAATTTAGTTTAATTTATTTAATCACTTATCAT
* * *
8160853 TTAATAAATAATAAATTTA-TTTAATTTTATTTTA-CACTTAT
1 TTAATAAAGAACAAATTTAGTTTAA-TTTATTTAATCACTTAT
8160894 ATTATCTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 11 0.31
45 25 0.69
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (45 bp):
TTAATAAAGAACAAATTTAGTTTAATTTATTTAATCACTTATCAT
Found at i:8173500 original size:2 final size:2
Alignment explanation
Indices: 8173493--8173528 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
8173483 TTCTAAAATT
8173493 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8173529 CATTCAGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8173800 original size:19 final size:21
Alignment explanation
Indices: 8173778--8173820 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 21
8173768 TTATGTAATT
8173778 TATATGAA-ATTA-AAT-TAAA
1 TATAT-AATATTACAATGTAAA
8173797 TATATAATATTACAATGTAAA
1 TATATAATATTACAATGTAAA
8173818 TAT
1 TAT
8173821 TAAAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 2 0.10
19 9 0.43
20 3 0.14
21 7 0.33
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (21 bp):
TATATAATATTACAATGTAAA
Found at i:8173901 original size:16 final size:18
Alignment explanation
Indices: 8173867--8173907 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
8173857 AAAAAATAAT
8173867 AAAAGAATATATTAATTTA
1 AAAAGAATATATT-ATTTA
8173886 AAAAGAATATA-T-TTTA
1 AAAAGAATATATTATTTA
8173902 AAAAGA
1 AAAAGA
8173908 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.45
18 1 0.05
19 11 0.50
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (18 bp):
AAAAGAATATATTATTTA
Found at i:8178835 original size:3 final size:3
Alignment explanation
Indices: 8178827--8178854 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8178817 CCAACACAAA
8178827 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
8178855 TGTATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8180125 original size:24 final size:24
Alignment explanation
Indices: 8180073--8180130 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
8180063 ATTATAATAA
* * *
8180073 ATAAACGGGTCAATAAACGAGCTT
1 ATAAACGAGCCAATAAACGAACTT
*
8180097 ATAAACGAGCCAATAAATGAACTT
1 ATAAACGAGCCAATAAACGAACTT
* *
8180121 TTAAATGAGC
1 ATAAACGAGC
8180131 TTGTTCGTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.22
Consensus pattern (24 bp):
ATAAACGAGCCAATAAACGAACTT
Found at i:8181295 original size:13 final size:11
Alignment explanation
Indices: 8181267--8181309 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
8181257 AGTTAAATAT
8181267 TATTTTATTAA
1 TATTTTATTAA
8181278 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
8181291 TA-TTTATTAT
1 TATTTTATTAA
8181301 TATTTTATT
1 TATTTTATT
8181310 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:8181296 original size:23 final size:23
Alignment explanation
Indices: 8181270--8181313 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8181260 TAAATATTAT
8181270 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
8181293 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
8181314 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Done.