Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 213 of 250
Found at i:66188205 original size:9 final size:9
Alignment explanation
Indices: 66188167--66188206 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
66188157 AAAAAAGGGG
66188167 AAAGAAAAA
1 AAAGAAAAA
66188176 AAAGAAAAA
1 AAAGAAAAA
66188185 AAAGAAAGAA
1 AAAGAAA-AA
66188195 AAA-AATAAA
1 AAAGAA-AAA
66188204 AAA
1 AAA
66188207 ATAATATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 23 0.79
10 6 0.21
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.03
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:66188304 original size:14 final size:14
Alignment explanation
Indices: 66188295--66188344 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
66188285 AAAAAAACCA
66188295 AAGCAAAAAAAAAG
1 AAGCAAAAAAAAAG
*
66188309 AAGCAAAAAAGAAG
1 AAGCAAAAAAAAAG
*
66188323 AAGAAAGAAGAAGAAAG
1 AAGCAA-AA-AA-AAAG
66188340 AAGCA
1 AAGCA
66188345 GCCCAAATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 18 0.62
15 2 0.07
16 2 0.07
17 7 0.24
ACGTcount: A:0.72, C:0.06, G:0.22, T:0.00
Consensus pattern (14 bp):
AAGCAAAAAAAAAG
Found at i:66188329 original size:10 final size:10
Alignment explanation
Indices: 66188305--66188342 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
66188295 AAGCAAAAAA
*
66188305 AAAGAAGCAAA
1 AAAGAAG-AAG
66188316 AAAGAAGAAG
1 AAAGAAGAAG
66188326 AAAGAAGAAG
1 AAAGAAGAAG
66188336 AAAGAAG
1 AAAGAAG
66188343 CAGCCCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 19 0.73
11 7 0.27
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAG
Found at i:66188481 original size:9 final size:9
Alignment explanation
Indices: 66188467--66188523 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
66188457 CCCAGCAGAA
66188467 AAAAAAGAG
1 AAAAAAGAG
*
66188476 AAAAAAAAG
1 AAAAAAGAG
66188485 AAAAAA-AG
1 AAAAAAGAG
66188493 AGAAAAAGA-
1 A-AAAAAGAG
66188502 AAAAAAGA-
1 AAAAAAGAG
66188510 AAAAACA-AG
1 AAAAA-AGAG
66188519 AAAAA
1 AAAAA
66188524 GGGGTTCAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
8 16 0.37
9 26 0.60
10 1 0.02
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:66188481 original size:10 final size:10
Alignment explanation
Indices: 66188466--66188499 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
66188456 GCCCAGCAGA
66188466 AAAAAAAGAG
1 AAAAAAAGAG
66188476 AAAAAAA-AG
1 AAAAAAAGAG
66188485 AAAAAAAGAG
1 AAAAAAAGAG
66188495 AAAAA
1 AAAAA
66188500 GAAAAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:66188509 original size:24 final size:24
Alignment explanation
Indices: 66188477--66188524 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
66188467 AAAAAAGAGA
66188477 AAAAAAAGAAAAAA-AGAGAAAAAG
1 AAAAAAAGAAAAAACA-AGAAAAAG
66188501 AAAAAAAGAAAAAACAAGAAAAAG
1 AAAAAAAGAAAAAACAAGAAAAAG
66188525 GGGTTCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (24 bp):
AAAAAAAGAAAAAACAAGAAAAAG
Found at i:66188519 original size:10 final size:9
Alignment explanation
Indices: 66188466--66188523 Score: 68
Period size: 8 Copynumber: 6.6 Consensus size: 9
66188456 GCCCAGCAGA
66188466 AAAAAAAGAG
1 AAAAAAA-AG
66188476 AAAAAAAAG
1 AAAAAAAAG
66188485 -AAAAAAAG
1 AAAAAAAAG
*
66188493 -AGAAAAAG
1 AAAAAAAAG
66188501 -AAAAAAAG
1 AAAAAAAAG
66188509 AAAAAACAAG
1 AAAAAA-AAG
66188519 AAAAA
1 AAAAA
66188524 GGGGTTCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
8 22 0.50
9 7 0.16
10 15 0.34
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:66188522 original size:8 final size:8
Alignment explanation
Indices: 66188467--66188514 Score: 69
Period size: 8 Copynumber: 5.8 Consensus size: 8
66188457 CCCAGCAGAA
66188467 AAAAAAGAG
1 AAAAAA-AG
66188476 AAAAAAAAG
1 -AAAAAAAG
66188485 AAAAAAAG
1 AAAAAAAG
*
66188493 AGAAAAAG
1 AAAAAAAG
66188501 AAAAAAAG
1 AAAAAAAG
66188509 AAAAAA
1 AAAAAA
66188515 CAAGAAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
8 28 0.78
9 2 0.06
10 6 0.17
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:66188916 original size:21 final size:20
Alignment explanation
Indices: 66188884--66188925 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
66188874 TCGCGTTTCG
66188884 AAATTTTCGTGTCTTCAAAA
1 AAATTTTCGTGTCTTCAAAA
*
66188904 AAATTTCTCGTGTTTTCAAAA
1 AAATTT-TCGTGTCTTCAAAA
66188925 A
1 A
66188926 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
AAATTTTCGTGTCTTCAAAA
Found at i:66188926 original size:19 final size:19
Alignment explanation
Indices: 66188884--66188925 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
66188874 TCGCGTTTCG
66188884 AAATTTTCGTGTCTTCAAAA
1 AAATTTTCGTGTCTTC-AAA
*
66188904 AAATTTCTCGTGTTTTCAAA
1 AAATTT-TCGTGTCTTCAAA
66188924 AA
1 AA
66188926 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (19 bp):
AAATTTTCGTGTCTTCAAA
Found at i:66189053 original size:18 final size:18
Alignment explanation
Indices: 66189030--66189519 Score: 247
Period size: 17 Copynumber: 27.3 Consensus size: 18
66189020 GAAAAATCAG
66189030 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
66189048 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* * *
66189066 AAAAAATTCCAT-TTTTC
1 AAAAATTTTCGTGTTTTC
* *
66189083 AAAATTTTTCGTGTTTTTTTA
1 AAAAATTTTCGTG---TTTTC
* * *
66189104 AAAAATTTCCAT-ATTTC
1 AAAAATTTTCGTGTTTTC
*
66189121 TAAAATTTTCGTG-TTT-
1 AAAAATTTTCGTGTTTTC
* *
66189137 AAAAAATTTCGTATTTTC
1 AAAAATTTTCGTGTTTTC
* ** *
66189155 AAAATTTTTATTTTTTTC
1 AAAAATTTTCGTGTTTTC
* *
66189173 AACAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* * *
66189190 ACAAATTCTCGTATTTT-
1 AAAAATTTTCGTGTTTTC
* ** *
66189207 AAAATTTTTTATGTTTTA
1 AAAAATTTTCGTGTTTTC
66189225 AAAAATAAATTTC-TCGTGTTTC
1 AAAAAT---TTTCGT-GT-TTTC
* *
66189247 AAAAATTGTCATGTTTT-
1 AAAAATTTTCGTGTTTTC
*
66189264 AAAAATTTTCATG-TTTC
1 AAAAATTTTCGTGTTTTC
* * *
66189281 TAAAATGTTCGT-ATTTC
1 AAAAATTTTCGTGTTTTC
**
66189298 AAAAAATCCTCGTGTTTTC
1 -AAAAATTTTCGTGTTTTC
* *
66189317 AAAAATTCTCATG-TTTC
1 AAAAATTTTCGTGTTTTC
*
66189334 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
66189352 -AAAATTCTAGTG-TTTC
1 AAAAATTTTCGTGTTTTC
*
66189368 AAAAATTTTCATGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
66189386 AAAAATTTCCCCTGTTTTC
1 AAAAATTT-TCGTGTTTTC
* *
66189405 AAAAATTCTCGT-ATTTC
1 AAAAATTTTCGTGTTTTC
* *
66189422 AAAAATTTTCTTTTTTTC
1 AAAAATTTTCGTGTTTTC
* *
66189440 AAAAAAAAACTTCCGTGTTTT-
1 ----AAAAATTTTCGTGTTTTC
* * *
66189461 ATAAATCTCCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* **
66189479 AAAAAATTCTCG-ACTTTC
1 -AAAAATTTTCGTGTTTTC
*
66189497 AAAAAATTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
66189515 AAAAA
1 AAAAA
66189520 ATTGACATTG
Statistics
Matches: 351, Mismatches: 90, Indels: 62
0.70 0.18 0.12
Matches are distributed among these distances:
16 17 0.05
17 150 0.43
18 111 0.32
19 31 0.09
20 2 0.01
21 18 0.05
22 22 0.06
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.46
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:66189084 original size:35 final size:35
Alignment explanation
Indices: 66189043--66189444 Score: 155
Period size: 35 Copynumber: 11.3 Consensus size: 35
66189033 AATTTTCGTG
*
66189043 TTTTCAAAAATCTTCGTGTTTTCAAAAAATTCCAT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTCCAT
* *
66189078 TTTTCAAAATTTTTCGTGTTTTTTTAAAAAATTTCCAT
1 TTTTCAAAAATTTTCGTG--TTTTCAAAAAA-TTCCAT
* * * *
66189116 ATTTCTAAAATTTTCGTG-TTT-AAAAAATTTCGT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTCCAT
* ** * * *
66189149 ATTTTCAAAATTTTTATTTTTTTC-AACAATTCTCGT
1 -TTTTCAAAAATTTTCGTGTTTTCAAAAAATTC-CAT
* * * * ** **
66189185 GTTTCACAAATTCTCGTATTTT-AAAATTTTTTAT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTCCAT
* *
66189219 GTTTTAAAAAATAAATTTC-TCGTGTTTC-AAAAATTGTCAT
1 -TTTTCAAAAAT---TTTCGT-GT-TTTCAAAAAATT-CCAT
* * * *
66189259 GTTTT-AAAAATTTTCATG-TTTC-TAAAATGTTCGT
1 -TTTTCAAAAATTTTCGTGTTTTCAAAAAAT-TCCAT
* **
66189293 ATTTCAAAAAATCCTCGTGTTTTC-AAAAATTCTCAT
1 TTTTC-AAAAATTTTCGTGTTTTCAAAAAATTC-CAT
* * *
66189329 GTTTCAAAAATCTTCGTGTTTTC--AAAATTCTAGT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTCCA-T
* * * *
66189363 GTTTCAAAAATTTTCATGTTTTCAAAAATTTCCCCT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATT-CCAT
* * * **
66189399 GTTTTCAAAAATTCTCGT-ATTTCAAAAATTTTCTTT
1 -TTTTCAAAAATTTTCGTGTTTTCAAAAA-ATTCCAT
66189435 TTTTCAAAAA
1 TTTTCAAAAA
66189445 AAAACTTCCG
Statistics
Matches: 279, Mismatches: 60, Indels: 56
0.71 0.15 0.14
Matches are distributed among these distances:
33 8 0.03
34 60 0.22
35 94 0.34
36 40 0.14
37 30 0.11
38 25 0.09
39 14 0.05
40 8 0.03
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (35 bp):
TTTTCAAAAATTTTCGTGTTTTCAAAAAATTCCAT
Found at i:66189130 original size:38 final size:36
Alignment explanation
Indices: 66189044--66189136 Score: 109
Period size: 38 Copynumber: 2.5 Consensus size: 36
66189034 ATTTTCGTGT
* *
66189044 TTTCAAAAATCTTCGTG--TTTTCAAAAAATTCCATT
1 TTTC-AAAATTTTCGTGTTTTTTCAAAAAATTCCATA
*
66189079 TTTCAAAATTTTTCGTGTTTTTTTAAAAAATTTCCATA
1 TTTCAAAA-TTTTCGTGTTTTTTCAAAAAA-TTCCATA
66189117 TTTCTAAAATTTTCGTGTTT
1 TTTC-AAAATTTTCGTGTTT
66189137 AAAAAATTTC
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
34 4 0.08
35 11 0.22
37 10 0.20
38 21 0.42
39 4 0.08
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.51
Consensus pattern (36 bp):
TTTCAAAATTTTCGTGTTTTTTCAAAAAATTCCATA
Found at i:66189369 original size:16 final size:16
Alignment explanation
Indices: 66189313--66189371 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
66189303 ATCCTCGTGT
66189313 TTTCAAAAATTCTCA-TG
1 TTTC-AAAATTCT-AGTG
* *
66189330 TTTCAAAAATCTTCGTG
1 TTTCAAAATTC-TAGTG
66189347 TTTTCAAAATTCTAGTG
1 -TTTCAAAATTCTAGTG
66189364 TTTCAAAA
1 TTTCAAAA
66189372 ATTTTCATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 14 0.40
17 11 0.31
18 10 0.29
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (16 bp):
TTTCAAAATTCTAGTG
Found at i:66189520 original size:18 final size:18
Alignment explanation
Indices: 66189030--66189522 Score: 167
Period size: 18 Copynumber: 27.4 Consensus size: 18
66189020 GAAAAATCAG
*
66189030 AAAAATTTTCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
66189048 -AAAAATCTTCGTGTTTTC
1 AAAAAAT-TTCGTGTTTTC
* *
66189066 AAAAAATTCCAT-TTTTC
1 AAAAAATTTCGTGTTTTC
** *
66189083 AAAATTTTTCGTGTTTTTTT
1 AAAAAATTTCGTG--TTTTC
* *
66189103 AAAAAATTTCCAT-ATTTC
1 AAAAAATTT-CGTGTTTTC
* *
66189121 TAAAATTTTCGTG-TTT-
1 AAAAAATTTCGTGTTTTC
*
66189137 AAAAAATTTCGTATTTTC
1 AAAAAATTTCGTGTTTTC
** ** *
66189155 AAAATTTTTATTTTTTTC
1 AAAAAATTTCGTGTTTTC
*
66189173 -AACAATTCTCGTG-TTTC
1 AAAAAATT-TCGTGTTTTC
* *
66189190 -ACAAATTCTCGTATTTT-
1 AAAAAATT-TCGTGTTTTC
** ** *
66189207 AAAATTTTTTATGTTTTAAA
1 AAAAAATTTCGTGTTTT--C
66189227 AAATAAATTTC-TCGTGTTTC
1 AAA-AAATTTCGT-GT-TTTC
*
66189247 -AAAAATTGTCATGTTTT-
1 AAAAAATT-TCGTGTTTTC
* *
66189264 AAAAATTTTCATG-TTTC
1 AAAAAATTTCGTGTTTTC
* *
66189281 -TAAAATGTTCGT-ATTTC
1 AAAAAAT-TTCGTGTTTTC
*
66189298 AAAAAATCCTCGTGTTTTC
1 AAAAAAT-TTCGTGTTTTC
*
66189317 -AAAAATTCTCATG-TTTC
1 AAAAAATT-TCGTGTTTTC
66189334 -AAAAATCTTCGTGTTTTC
1 AAAAAAT-TTCGTGTTTTC
*
66189352 --AAAATTCTAGTG-TTTC
1 AAAAAATT-TCGTGTTTTC
* *
66189368 AAAAATTTTCATGTTTTC
1 AAAAAATTTCGTGTTTTC
*
66189386 -AAAAATTTCCCCTGTTTTC
1 AAAAAATTT--CGTGTTTTC
*
66189405 -AAAAATTCTCGT-ATTTC
1 AAAAAATT-TCGTGTTTTC
* * *
66189422 AAAAATTTTCTTTTTTTC
1 AAAAAATTTCGTGTTTTC
*
66189440 AAAAAAAAACTTCCGTGTTTT-
1 ---AAAAAA-TTTCGTGTTTTC
* *
66189461 -ATAAATCTCCGTGTTTTC
1 AAAAAAT-TTCGTGTTTTC
**
66189479 AAAAAATTCTCG-ACTTTC
1 AAAAAATT-TCGTGTTTTC
66189497 AAAAAATTTCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
66189515 AAAAAATT
1 AAAAAATT
66189523 GACATTGTTT
Statistics
Matches: 352, Mismatches: 76, Indels: 94
0.67 0.15 0.18
Matches are distributed among these distances:
16 23 0.07
17 120 0.34
18 130 0.37
19 38 0.11
20 17 0.05
21 13 0.04
22 11 0.03
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.46
Consensus pattern (18 bp):
AAAAAATTTCGTGTTTTC
Found at i:66189612 original size:19 final size:19
Alignment explanation
Indices: 66189588--66189662 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
66189578 ATCAAAATTT
66189588 TTGTGTTTTCAAAATAAAA
1 TTGTGTTTTCAAAATAAAA
*
66189607 TTGTGTTTTAAAAATAAAA
1 TTGTGTTTTCAAAATAAAA
*
66189626 TTCGTGTTTTCAAAAAAAAA
1 TT-GTGTTTTCAAAATAAAA
*
66189646 TTCTCGTGTTTCAAAAT
1 TTGT-GT-TTTCAAAAT
66189663 TTTTGTGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 21 0.44
20 19 0.40
21 8 0.17
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (19 bp):
TTGTGTTTTCAAAATAAAA
Found at i:66189661 original size:20 final size:19
Alignment explanation
Indices: 66189536--66189661 Score: 67
Period size: 20 Copynumber: 5.9 Consensus size: 19
66189526 ATTGTTTCAT
66189536 AAATTTCCGTGTTTCAAAAA
1 AAATTT-CGTGTTTCAAAAA
*
66189556 AAATCCTCGTGTTTCATAATTTATCA
1 AAAT-TTCGTGTTTCA-AA---A--A
*
66189582 AAATTTTTGTGTTTTCAAAATA
1 AAA-TTTCGTG-TTTCAAAA-A
*
66189604 AAA-TT-GTGTTTTAAAAA
1 AAATTTCGTGTTTCAAAAA
*
66189621 TAAAATTCGTGTTTTCAAAAAA
1 -AAATTTCGTG-TTTC-AAAAA
66189643 AAATTCTCGTGTTTCAAAA
1 AAATT-TCGTGTTTCAAAA
66189662 TTTTTGTGTT
Statistics
Matches: 84, Mismatches: 7, Indels: 30
0.69 0.06 0.25
Matches are distributed among these distances:
17 1 0.01
18 10 0.12
19 5 0.06
20 22 0.26
21 14 0.17
22 14 0.17
23 1 0.01
24 1 0.01
26 10 0.12
27 6 0.07
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (19 bp):
AAATTTCGTGTTTCAAAAA
Found at i:66189680 original size:38 final size:38
Alignment explanation
Indices: 66189581--66189715 Score: 102
Period size: 39 Copynumber: 3.6 Consensus size: 38
66189571 ATAATTTATC
* *
66189581 AAAATTTTTGTGTTTTC-AAAATAAAA-TTGTGTTT-T
1 AAAATTCTTGTGTTTTCAAAAAAAAAATTTGTGTTTCT
**
66189616 AAAAATAAAATTCGTGTTTTC-AAAAAAAAATTCTCGTGTTTC-
1 -AAAAT--TCTT-GTGTTTTCAAAAAAAAAATT-T-GTGTTTCT
* **
66189658 AAAATTTTTGTGTTTTTTAAAAAAAAATTTGTGTTTCT
1 AAAATTCTTGTGTTTTCAAAAAAAAAATTTGTGTTTCT
*
66189696 AAAATTCTTGTATTTT-AAAA
1 AAAATTCTTGTGTTTTCAAAA
66189716 TATTTCGTGT
Statistics
Matches: 81, Mismatches: 9, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
36 5 0.06
37 10 0.12
38 24 0.30
39 29 0.36
40 1 0.01
41 6 0.07
42 6 0.07
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.46
Consensus pattern (38 bp):
AAAATTCTTGTGTTTTCAAAAAAAAAATTTGTGTTTCT
Found at i:66189699 original size:19 final size:20
Alignment explanation
Indices: 66189587--66189699 Score: 71
Period size: 20 Copynumber: 5.8 Consensus size: 20
66189577 TATCAAAATT
*
66189587 TTTGTGTTT-TCAAAATAAAA
1 TTTGTGTTTCT-AAAAAAAAA
66189607 -TTGTGTTT-TAAAAATAAAA
1 TTTGTGTTTCTAAAAA-AAAA
*
66189626 TTCGTGTTT-TCAAAAAAAAA
1 TTTGTGTTTCT-AAAAAAAAA
**
66189646 TTCTCGTGTTTC----AAAATT
1 TT-T-GTGTTTCTAAAAAAAAA
*
66189664 TTTGTGTTTTTTAAAAAAAAA
1 TTTGTG-TTTCTAAAAAAAAA
66189685 TTTGTGTTTCTAAAA
1 TTTGTGTTTCTAAAA
66189700 TTCTTGTATT
Statistics
Matches: 73, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
16 3 0.04
17 4 0.05
18 10 0.14
19 13 0.18
20 22 0.30
21 15 0.21
22 6 0.08
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (20 bp):
TTTGTGTTTCTAAAAAAAAA
Found at i:66194423 original size:118 final size:116
Alignment explanation
Indices: 66194286--66194512 Score: 357
Period size: 118 Copynumber: 1.9 Consensus size: 116
66194276 AAATTTCTCC
*
66194286 TTTTAAAAAAAACACTATTTTTCTTAAAGATTAAAG-TTCTTACTTTGAAATAGTTGAAAAAAAA
1 TTTTAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTT-TTAATTTGAAATAGTTG-AAAAAAA
* *
66194350 TCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAACTTTATT
64 TCAAAACTTT-ATTTAAAAATTTAAACTTTCCTTTAAAATAACTAAACTTTATT
* * *
66194404 TTTTTAAAAAAATATTATTTTTCTTAAAGATTAAAGCTTTTAATTTGAAATAGTTGAAAAAAATC
1 TTTTAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTAATTTGAAATAGTTGAAAAAAATC
*
66194469 AAAACTTTATTTAAAAATTTAAACTTTCTTTTAAAATAACTAAA
66 AAAACTTTATTTAAAAATTTAAACTTTCCTTTAAAATAACTAAA
66194513 AAAATAGATT
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
116 33 0.33
117 17 0.17
118 49 0.49
119 2 0.02
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.41
Consensus pattern (116 bp):
TTTTAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTAATTTGAAATAGTTGAAAAAAATC
AAAACTTTATTTAAAAATTTAAACTTTCCTTTAAAATAACTAAACTTTATT
Found at i:66194486 original size:19 final size:19
Alignment explanation
Indices: 66194462--66194505 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
66194452 AATAGTTGAA
66194462 AAAAATCAAAACTTTATTT
1 AAAAATCAAAACTTTATTT
** *
66194481 AAAAATTTAAACTTTCTTT
1 AAAAATCAAAACTTTATTT
*
66194500 TAAAAT
1 AAAAAT
66194506 AACTAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATCAAAACTTTATTT
Found at i:66208016 original size:18 final size:18
Alignment explanation
Indices: 66207977--66208045 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
66207967 CATTTACAGC
* **
66207977 ACTATTCACGTATATGAC
1 ACTATTCACGTATACGGT
66207995 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGT
* *
66208013 ACTATTTACGTATACAGT
1 ACTATTCACGTATACGGT
*
66208031 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
66208046 AATAGTTGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (18 bp):
ACTATTCACGTATACGGT
Found at i:66213029 original size:18 final size:19
Alignment explanation
Indices: 66213006--66213049 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
66212996 CCACAACAGT
66213006 AAAAAAA-ACTGAAAAAGA
1 AAAAAAACACTGAAAAAGA
*
66213024 AAAAAAACACTGAAAACGA
1 AAAAAAACACTGAAAAAGA
66213043 AAAAAAA
1 AAAAAAA
66213050 TAAAAAATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.77, C:0.09, G:0.09, T:0.05
Consensus pattern (19 bp):
AAAAAAACACTGAAAAAGA
Found at i:66213212 original size:19 final size:20
Alignment explanation
Indices: 66213188--66213265 Score: 72
Period size: 19 Copynumber: 4.0 Consensus size: 20
66213178 AATAAAGGGA
*
66213188 AAGAAAGGAGAA-GAGAAGG
1 AAGAAAGAAGAACGAGAAGG
66213207 AAGAAA-AAGAACGAGAAGG
1 AAGAAAGAAGAACGAGAAGG
* * * *
66213226 AAAAAAGAAAGAAAGAAAAGAA
1 AAGAAAG-AAGAACGAGAAG-G
66213248 AAGAAA-AAGAACGAGAAG
1 AAGAAAGAAGAACGAGAAG
66213266 AAAATTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
18 4 0.09
19 18 0.38
20 10 0.21
21 10 0.21
22 5 0.11
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (20 bp):
AAGAAAGAAGAACGAGAAGG
Found at i:66213224 original size:15 final size:13
Alignment explanation
Indices: 66213206--66213269 Score: 58
Period size: 15 Copynumber: 4.6 Consensus size: 13
66213196 AGAAGAGAAG
66213206 GAAGAAAAAGAACGA
1 GAAGAAAAA-AA-GA
*
66213221 GAAGGAAAAAAGA
1 GAAGAAAAAAAGA
66213234 -AAGAAAGAAAAGA
1 GAAGAAA-AAAAGA
*
66213247 AAAGAAAAAGAACGA
1 GAAGAAAAA-AA-GA
66213262 GAAGAAAA
1 GAAGAAAA
66213270 TTTTTTTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
12 5 0.12
13 10 0.24
14 10 0.24
15 17 0.40
ACGTcount: A:0.72, C:0.03, G:0.25, T:0.00
Consensus pattern (13 bp):
GAAGAAAAAAAGA
Found at i:66213256 original size:20 final size:20
Alignment explanation
Indices: 66213207--66213269 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
66213197 GAAGAGAAGG
*
66213207 AAGAAAAAGAACGAGAAGGAA
1 AAGAAAAAGAACGA-AAAGAA
*
66213228 AA-AAGAAAGAAAGAAAAGAA
1 AAGAA-AAAGAACGAAAAGAA
*
66213248 AAGAAAAAGAACGAGAAGAA
1 AAGAAAAAGAACGAAAAGAA
66213268 AA
1 AA
66213270 TTTTTTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 24 0.67
21 12 0.33
ACGTcount: A:0.73, C:0.03, G:0.24, T:0.00
Consensus pattern (20 bp):
AAGAAAAAGAACGAAAAGAA
Found at i:66213351 original size:20 final size:19
Alignment explanation
Indices: 66213315--66213361 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
66213305 GTGTTTTTGC
66213315 TGTTATTATTATTGTTGATT
1 TGTTATTATTATTGTTG-TT
*
66213335 T-TTATTATTTTTTGTTGTT
1 TGTTATTA-TTATTGTTGTT
66213354 TGTTATTA
1 TGTTATTA
66213362 ACATTGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (19 bp):
TGTTATTATTATTGTTGTT
Found at i:66218133 original size:17 final size:18
Alignment explanation
Indices: 66218111--66218154 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
66218101 CGGTAATAGT
66218111 ATGTTCTAATTTA-ATTA
1 ATGTTCTAATTTAGATTA
66218128 ATGTTCTAA-TTAGATTA
1 ATGTTCTAATTTAGATTA
*
66218145 ATGTTGTAAT
1 ATGTTCTAAT
66218155 GTATTTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (18 bp):
ATGTTCTAATTTAGATTA
Found at i:66218805 original size:72 final size:72
Alignment explanation
Indices: 66218688--66218828 Score: 228
Period size: 72 Copynumber: 2.0 Consensus size: 72
66218678 GCCCCCCGAT
* **
66218688 GAGCCCGGAAAATTTTCATTGCCCGCCAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
1 GAGCCCGAAAAATAGTCATTGCCCGCCAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
66218753 CGATGAC
66 CGATGAC
* * *
66218760 GAGCCCGAAAAATAGTCATTGCCTGCCAAATCTGGATGATAAGAAGTATCAGTCGAATGTGAATG
1 GAGCCCGAAAAATAGTCATTGCCCGCCAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
66218825 CGAT
66 CGAT
66218829 CGCTCGGACT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (72 bp):
GAGCCCGAAAAATAGTCATTGCCCGCCAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
CGATGAC
Found at i:66220560 original size:18 final size:17
Alignment explanation
Indices: 66220519--66220560 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
66220509 TAATTTTCAG
*
66220519 TTATTA-ATTTTAATGT
1 TTATTAGATTTTAATAT
*
66220535 TTAATAGATTTTAAATAT
1 TTATTAGATTTT-AATAT
66220553 TTATTAGA
1 TTATTAGA
66220561 ATAACTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 5 0.24
17 5 0.24
18 11 0.52
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (17 bp):
TTATTAGATTTTAATAT
Found at i:66221004 original size:146 final size:146
Alignment explanation
Indices: 66220690--66221899 Score: 1461
Period size: 146 Copynumber: 8.2 Consensus size: 146
66220680 ATAAGTAAAA
* * * * *
66220690 TATTTTCGTATATTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
** * * * *
66220754 TTTTTTTTATATTAATTTAATACATAACCCTGAGTTTGGCACTTTCTTCGTATTTTTTTGTTTTC
66 --TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA----TTT-TTTTC
66220819 GTATCTTATTTTTTAAAATATAT
124 GTATCTTATTTTTTAAAATATAT
* *
66220842 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTT-AAAGTGTATTATTTAAGC
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAA-TGTATTATTTAAGT
*
66220906 GTTTTATATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCT
65 GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCT
*
66220971 TATTTTTTAAAAAATAT
130 TATTTTTTAAAATATAT
* * * *
66220988 TATTTTCATATTTTATTTCTTTATATTATTTTATTACATAATATTTCAAATGTATTATTTGAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* *
66221053 TTTTTTATATTTTTTTAATAAATAACCCTAATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTT
66221118 ATTTTTTAAAATATAT
131 ATTTTTTAAAATATAT
* * * * *
66221134 TATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
** * *
66221199 TTTTTTTATATTAATTTAATAAATAATCCTGATTTT-GACACTTTCTTCGTATTTTTATTTTCGT
66 -TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTA--TTT-TTTTCGT
66221263 ATCTTATTTTTTAAAATATAT
126 ATCTTATTTTTTAAAATATAT
*
66221284 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-
* * * * *
66221349 TTATTTTTATATTTTTTCAATAAATAATCCTGATTTTAGCACTTTATTCATATTTTTTTCGTATA
65 GT-TTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATC
66221414 TTATTTTTTAAAATATAT
129 TTATTTTTTAAAATATAT
* * * *
66221432 TATTTTCGTATTTTATTT-TTT-TATTATTTTAGCAAAAAATGTTTCAAATGTATTACTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
** *
66221495 TTTCTTTATATTAATTTAATAAATAACCCTGATTTT-GACACTTTCTTCGTAATTTTTTTATTTT
66 TTT-TTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGT-A----TTT-TTTT
66221559 CGTATCTTATTTTTTAAAATATAT
123 CGTATCTTATTTTTTAAAATATAT
*
66221583 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAATG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* * *
66221648 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGT-GTTTTTTCGTCTATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTT
66221712 ATTTTTTAAAATATAT
131 ATTTTTTAAAATATAT
** * *
66221728 TATTTTCGTATTTTA------T-T-TTA--GCA-TA-A-AATCTTTCAAATGTATTATTTAAGTT
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
** * * * * * *
66221780 TTTTTTATATTAATTTAATAAATAACCCTGACTTTGGCACCTTGTTCGTATTTTTTTATTTTTGG
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA----TTT-TTTTCGT
*
66221845 ATTTTATTTTTTAAAATATAT
126 ATCTTATTTTTTAAAATATAT
* *
66221866 TATTTTCATATTTTATTTTTTTTATATTATTTTA
1 TATTTTCGTATTTTA-TTTCTTTATATTATTTTA
66221900 ACAAAAAAAC
Statistics
Matches: 925, Mismatches: 94, Indels: 81
0.84 0.09 0.07
Matches are distributed among these distances:
132 66 0.07
133 1 0.00
134 2 0.00
135 1 0.00
137 5 0.01
138 39 0.04
139 1 0.00
144 3 0.00
145 81 0.09
146 259 0.28
147 54 0.06
148 45 0.05
149 7 0.01
150 89 0.10
151 130 0.14
152 65 0.07
153 77 0.08
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.57
Consensus pattern (146 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTT
ATTTTTTAAAATATAT
Found at i:66221333 original size:296 final size:295
Alignment explanation
Indices: 66220690--66221899 Score: 1645
Period size: 296 Copynumber: 4.1 Consensus size: 295
66220680 ATAAGTAAAA
* * * * *
66220690 TATTTTCGTATATTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
** * * * *
66220754 TTTTTTTTATATTAATTTAATACATAACCCTGAGTTTGGCACTTTCTTCGTATTTTTTTGTTTTC
66 --TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA----TTT-TTTTC
* * * *
66220819 GTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAAT
124 GTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTT-TTT-TATTATTTTAGCAAAAAAT
* * * **
66220884 ATTT-AAAGTGTATTATTTAAGCG-TTTTATATATTTTTTTAATAAATAACCCTGATTTT-AGCA
187 GTTTCAAA-TGTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGA-CA
* *
66220946 CTTTATTCGTA---TTT-TTTTCGTATCTTATTTTTTAAAAAATAT
250 CTTTCTTCGTATTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
* * * *
66220988 TATTTTCATATTTTATTTCTTTATATTATTTTATTACATAATATTTCAAATGTATTATTTGAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
*
66221053 TTTTTTATATTTTTTTAATAAATAACCCTAATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
66221118 ATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAA
131 ATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTT-TATTATTTTAGCAAAAAATGTTTCAA
* *
66221183 ATGTATTATGTAAGTGTTTTTTTATATTAATTTAATAAATAATCCTGATTTTGACACTTTCTTCG
194 ATGTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCG
66221248 TA-TTTTTATTTTCGTATCTTATTTTTTAAAATATAT
259 TATTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
*
66221284 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-
* * * *
66221349 TTATTTTTATATTTTTTCAATAAATAATCCTGATTTTAGCACTTTATTCATATTTTTTTCGTATA
65 GT-TTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATA
66221414 TTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATTATTTTAGCAAAAAATGTTTCAA
129 TTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATTATTTTAGCAAAAAATGTTTCAA
* *
66221479 ATGTATTACTTAAGTGTTTCTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCG
194 ATGTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCG
66221544 TAATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
259 T-A-TTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
*
66221583 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAATG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* *
66221648 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGT-GTTTTTTCGTCTATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
* *
66221712 ATTTTTTAAAATATATTATTTTCG-----TA-----TT-TTATTTTAGCATAAAATCTTTCAAAT
131 ATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATTATTTTAGCAAAAAATGTTTCAAAT
* * * *
66221766 GTATTATTTAAGT-TTTTTTTATATTAATTTAATAAATAACCCTGACTTTGGCACCTTGTTCGTA
196 GTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTA
* * *
66221830 TTTTTTTATTTTTGGATTTTATTTTTTAAAATATAT
261 -TTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
* *
66221866 TATTTTCATATTTTATTTTTTTTATATTATTTTA
1 TATTTTCGTATTTTA-TTTCTTTATATTATTTTA
66221900 ACAAAAAAAC
Statistics
Matches: 834, Mismatches: 64, Indels: 42
0.89 0.07 0.04
Matches are distributed among these distances:
283 48 0.06
284 62 0.07
285 36 0.04
286 2 0.00
291 2 0.00
292 78 0.09
293 52 0.06
294 1 0.00
295 3 0.00
296 211 0.25
297 96 0.12
298 108 0.13
299 135 0.16
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.57
Consensus pattern (295 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
ATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATTATTTTAGCAAAAAATGTTTCAAAT
GTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTA
TTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
Found at i:66221561 original size:595 final size:578
Alignment explanation
Indices: 66220690--66221907 Score: 1662
Period size: 595 Copynumber: 2.1 Consensus size: 578
66220680 ATAAGTAAAA
* *
66220690 TATTTTCGTATATTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTGT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTAT
* * * * *
66220755 TTTTTTTATATTAATTTAATACATAACCCTGAGTTTGGCACTTTCTTCGTATTTTTTTGTTTTCG
66 TATTTTTATATTAATTTAATAAATAACCCTGAGTTTAGCACTTTATTCG-A-TTATTTGTTTTCG
* * * *
66220820 TATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATA
129 TATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATA
* **
66220885 TTTAAAGTGTATTATTTAAGCGTTTTATATATTTTTTTAATAAATAACCCTGATTTTAGCACTTT
194 TTTAAAGTGTATTACTTAAGCGTTTTATATATTAATTTAATAAATAACCCTGATTTTAGCACTTT
66220950 ATTCGTATTTTTTTCGTATCTTATTTTTTAAAAAATATTATTTTCATATTTTATTTCTTTATATT
259 ATTCGTATTTTTTTCGTATCTTATTTTTTAAAAAATATTATTTTCATATTTTATTTCTTTATATT
* * *
66221015 ATTTTATTACATAATATTTCAAATGTATTATTTGAGTGTTTTTTATATTTTTTTAATAAATAACC
324 ATTTTAGTACATAATATTTCAAATGTATTATTTAAATGTTTTTTATATTTTTTTAATAAATAACC
*
66221080 CTAATTTTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTAT
389 CTAATTTTAGCACTTTATTCGT-GTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCG---
*
66221145 TTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTGTTTTTTTATAT
450 --TA------T-T-TTATTTTAGCAAAAAATCTTTCAAATGTATTATGTAAGT-TTTTTTTATAT
* * * *
66221210 TAATTTAATAAATAATCCTGATTTTGACACTTTCTTCGTA-TTTTTATTTTCGTATCTTATTTTT
504 TAATTTAATAAATAACCCTGACTTTGACACCTTCTTCGTATTTTTTATTTTCGGATCTTATTTTT
66221274 TAAAATATAT
569 TAAAATATAT
* * * * *
66221284 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTA
* * *
66221349 TTATTTTTATATT-TTTTCAATAAATAATCCTGATTTTAGCACTTTATTC-A-TATTT-TTTTCG
65 TTATTTTTATATTAATTT-AATAAATAACCCTGAGTTTAGCACTTTATTCGATTATTTGTTTTCG
*
66221410 TATATTATTTTTTAAAATATATTATTTTCGTATTTTATTT-TTT-TATTATTTTAGCAAAAAATG
129 TATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATA
* *
66221473 TTTCAAA-TGTATTACTTAAGTGTTTCTTTATATTAATTTAATAAATAACCCTGATTTT-GACAC
194 TTT-AAAGTGTATTACTTAAGCGTTT-TATATATTAATTTAATAAATAACCCTGATTTTAG-CAC
* * *
66221536 TTTCTTCGTAATTTTTTTATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTT
256 TTTATTCGT-A----TTT-TTTTCGTATCTTATTTTTTAAAAAATATTATTTTCATATTTTATTT
*
66221601 CTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAATGTTTTTTATATTTTTTTAA
315 CTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAATGTTTTTTATATTTTTTTAA
* *
66221666 TAAATAACCCTGATTTTAGCACTTTATTCGTGTTTTTTCGTCTATTATTTTTTAAAATATATTAT
380 TAAATAACCCTAATTTTAGCACTTTATTCGTGTTTTTTCGTATATTATTTTTTAAAATATATTAT
* *
66221731 TTTCGTATTTTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGTTTTTTTTATATTAATTT
445 TTTCGTATTTTATTTTAGCAAAAAATCTTTCAAATGTATTATGTAAGTTTTTTTTATATTAATTT
* * * *
66221796 AATAAATAACCCTGACTTTGGCACCTTGTTCGTATTTTTTTATTTTTGGATTTTATTTTTTAAAA
510 AATAAATAACCCTGACTTTGACACCTTCTTCGTA-TTTTTTATTTTCGGATCTTATTTTTTAAAA
66221861 TATAT
574 TATAT
* *
66221866 TATTTTCATATTTTATTTTTTTTATATTATTTTAACAAAAAA
1 TATTTTCGTATTTTA--TTTTTTATATTATTTTAGCAAAAAA
66221908 ACTCTTCAGC
Statistics
Matches: 557, Mismatches: 52, Indels: 41
0.86 0.08 0.06
Matches are distributed among these distances:
580 46 0.08
581 36 0.06
582 46 0.08
583 18 0.03
584 3 0.01
588 36 0.06
589 48 0.09
590 46 0.08
591 4 0.01
593 1 0.00
594 60 0.11
595 213 0.38
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (578 bp):
TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTAT
TATTTTTATATTAATTTAATAAATAACCCTGAGTTTAGCACTTTATTCGATTATTTGTTTTCGTA
TATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGCAAAAAATATT
TAAAGTGTATTACTTAAGCGTTTTATATATTAATTTAATAAATAACCCTGATTTTAGCACTTTAT
TCGTATTTTTTTCGTATCTTATTTTTTAAAAAATATTATTTTCATATTTTATTTCTTTATATTAT
TTTAGTACATAATATTTCAAATGTATTATTTAAATGTTTTTTATATTTTTTTAATAAATAACCCT
AATTTTAGCACTTTATTCGTGTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTT
ATTTTAGCAAAAAATCTTTCAAATGTATTATGTAAGTTTTTTTTATATTAATTTAATAAATAACC
CTGACTTTGACACCTTCTTCGTATTTTTTATTTTCGGATCTTATTTTTTAAAATATAT
Found at i:66222509 original size:16 final size:16
Alignment explanation
Indices: 66222477--66222509 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
66222467 TTTTTCTTTC
*
66222477 TTCTTCTTCTCTTCTT
1 TTCTTCTTCTCCTCTT
66222493 TTCTTCTTCTCCTCTT
1 TTCTTCTTCTCCTCTT
66222509 T
1 T
66222510 CCTCATTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
TTCTTCTTCTCCTCTT
Found at i:66222518 original size:19 final size:17
Alignment explanation
Indices: 66222471--66222510 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
66222461 CCCTTCTTTT
*
66222471 TCTTTCTTCTTCTTCTCT
1 TCTTTC-TCTTCTTCTCC
66222489 TCTTT-TCTTCTTCTCC
1 TCTTTCTCTTCTTCTCC
66222505 TCTTTC
1 TCTTTC
66222511 CTCATTCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 15 0.75
18 5 0.25
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (17 bp):
TCTTTCTCTTCTTCTCC
Found at i:66222538 original size:14 final size:15
Alignment explanation
Indices: 66222521--66222549 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
66222511 CTCATTCTCA
66222521 TTCTCCTT-TTCTTT
1 TTCTCCTTCTTCTTT
66222535 TTCTCCTTCTTCTTT
1 TTCTCCTTCTTCTTT
66222550 GTTCCCGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TTCTCCTTCTTCTTT
Found at i:66227669 original size:48 final size:48
Alignment explanation
Indices: 66227611--66227714 Score: 190
Period size: 48 Copynumber: 2.2 Consensus size: 48
66227601 GTACTGAATT
66227611 AACTTATACCCATGTTATCATATTAACCAACCAAACAAAGTTGAGATA
1 AACTTATACCCATGTTATCATATTAACCAACCAAACAAAGTTGAGATA
* *
66227659 ATCTTATACCCATGTTATTATATTAACCAACCAAACAAAGTTGAGATA
1 AACTTATACCCATGTTATCATATTAACCAACCAAACAAAGTTGAGATA
66227707 AACTTATA
1 AACTTATA
66227715 TTAACCAACC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (48 bp):
AACTTATACCCATGTTATCATATTAACCAACCAAACAAAGTTGAGATA
Found at i:66227752 original size:34 final size:34
Alignment explanation
Indices: 66227680--66227753 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
66227670 ATGTTATTAT
* * *
66227680 ATTAACCAACCAAACAAAGTTGAGATAAACTTAT
1 ATTAACCAACCAAACAAAGTTGAAATAAACATAA
66227714 ATTAACCAACCAAACAAAGTTGAAATATAA-ATAA
1 ATTAACCAACCAAACAAAGTTGAAATA-AACATAA
66227748 ATTAAC
1 ATTAAC
66227754 GACAACACCT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 34 0.94
35 2 0.06
ACGTcount: A:0.54, C:0.16, G:0.07, T:0.23
Consensus pattern (34 bp):
ATTAACCAACCAAACAAAGTTGAAATAAACATAA
Found at i:66233511 original size:21 final size:22
Alignment explanation
Indices: 66233482--66233528 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
66233472 CAGAAGGAGT
*
66233482 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
66233504 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
66233525 GAGT
1 GAGT
66233529 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:66238697 original size:20 final size:19
Alignment explanation
Indices: 66238647--66238697 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
66238637 AATTTATAAG
66238647 AAAAA-ATAAAAACTTATT
1 AAAAATATAAAAACTTATT
*
66238665 AAAAATATTAAAA-TTGATAT
1 AAAAATATAAAAACTT-AT-T
*
66238685 AAAATTATAAAAA
1 AAAAATATAAAAA
66238698 ATCATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 7 0.26
19 8 0.30
20 12 0.44
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATATAAAAACTTATT
Found at i:66239104 original size:23 final size:22
Alignment explanation
Indices: 66239065--66239121 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
66239055 ATTAAATAAA
*
66239065 ATATTAAAAAAATAAAATATAT
1 ATATTAAAAAAATAAAAAATAT
*
66239087 ATATTAAAAACTAA-AAAAAATGT
1 ATATTAAAAA--AATAAAAAATAT
*
66239110 ATACTAAAAAAA
1 ATATTAAAAAAA
66239122 AATAGTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.07
22 10 0.33
23 16 0.53
24 2 0.07
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (22 bp):
ATATTAAAAAAATAAAAAATAT
Found at i:66240636 original size:22 final size:22
Alignment explanation
Indices: 66240617--66240659 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
66240607 AGATTTTTTT
66240617 ATATGTTTTTATAAAATTTTAA
1 ATATGTTTTTATAAAATTTTAA
* *
66240639 ATATTTTTTTATTAAATTTTA
1 ATATGTTTTTATAAAATTTTA
66240660 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATATGTTTTTATAAAATTTTAA
Found at i:66240668 original size:17 final size:17
Alignment explanation
Indices: 66240646--66240700 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
66240636 TAAATATTTT
66240646 TTTATTAAATTTTATAA
1 TTTATTAAATTTTATAA
*
66240663 TTTATTAAAATTTATTAGA
1 TTTATTAAATTTTA-TA-A
* *
66240682 TTCATTAGATTTTTATAA
1 TTTATTA-AATTTTATAA
66240700 T
1 T
66240701 ATTTATAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 13 0.42
18 4 0.13
19 9 0.29
20 5 0.16
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (17 bp):
TTTATTAAATTTTATAA
Found at i:66242640 original size:17 final size:18
Alignment explanation
Indices: 66242615--66242648 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
66242605 TAATATAAAA
*
66242615 TAATTTATTTAA-AATTT
1 TAATATATTTAATAATTT
66242632 TAATATATTTAATAATT
1 TAATATATTTAATAATT
66242649 CATCTTATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATATATTTAATAATTT
Found at i:66248597 original size:61 final size:60
Alignment explanation
Indices: 66248527--66248704 Score: 161
Period size: 61 Copynumber: 3.0 Consensus size: 60
66248517 TTGTTAAATT
*
66248527 ATATTTAATAATAATAATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
1 ATATTTAATAATAATAATTTTATA-TATTATATATTATGATTTTAATAAATTCATATAAGA
* * * * * *
66248588 ATATTTAATACTAAGAATTTTATTAAATTATATATT-T--TTGTTAAATTATATTTA-ATAATA
1 ATATTTAATAATAATAATTTTA-TATATTATATATTATGATT-TT-AA-TAAATTCATATAAGA
* * *
66248648 ATTATTTTA-AATTAT-ATTTTATAATATTATATATTATAATTTTAATAAATTCATATA
1 A-TATTTAATAATAATAATTTTAT-ATATTATATATTATGATTTTAATAAATTCATATA
66248705 TTTTATCAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
58 3 0.03
59 25 0.27
60 17 0.18
61 44 0.47
62 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (60 bp):
ATATTTAATAATAATAATTTTATATATTATATATTATGATTTTAATAAATTCATATAAGA
Found at i:66248657 original size:26 final size:25
Alignment explanation
Indices: 66248619--66248677 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
66248609 ATTAAATTAT
*
66248619 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
66248645 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
66248671 ATATTAT
1 ATATTAT
66248678 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:66248676 original size:15 final size:15
Alignment explanation
Indices: 66248632--66248687 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
66248622 TTTTTGTTAA
*
66248632 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
66248647 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
66248658 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
66248673 ATTATATATTATAAT
1 ATTATATTTTATAAT
66248688 TTTAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:66248703 original size:24 final size:22
Alignment explanation
Indices: 66248658--66248726 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
66248648 ATTATTTTAA
66248658 ATTATATTTTATAATATTATAT
1 ATTATATTTTATAATATTATAT
* *
66248680 ATTATAATTT-TAATA-AAT-T
1 ATTATATTTTATAATATTATAT
66248699 CA-TATATTTTATCAA-ATTATAT
1 -ATTATATTTTAT-AATATTATAT
66248721 ATTATA
1 ATTATA
66248727 AAAAATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
19 8 0.22
20 5 0.14
21 10 0.27
22 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATATTTTATAATATTATAT
Found at i:66248722 original size:17 final size:17
Alignment explanation
Indices: 66248604--66248743 Score: 61
Period size: 17 Copynumber: 8.6 Consensus size: 17
66248594 AATACTAAGA
*
66248604 ATTTTATTAAATTATAT
1 ATTTTAATAAATTATAT
**
66248621 ATTTTTGTTAAA-T-TAT
1 A-TTTTAATAAATTATAT
*
66248637 A-TTTAAT-AATAAT-T
1 ATTTTAATAAATTATAT
* *
66248651 ATTTTAAATTATATTTTAT
1 ATTTT-AA-TAAATTATAT
* *
66248670 AATATT-ATATATTATA-
1 -ATTTTAATAAATTATAT
66248686 ATTTTAATAAATTCATAT
1 ATTTTAATAAATT-ATAT
66248704 ATTTT-ATCAAATTATAT
1 ATTTTAAT-AAATTATAT
*
66248721 ATTATAA-AAA--ATAT
1 ATTTTAATAAATTATAT
66248735 A-TTTAATAA
1 ATTTTAATAA
66248744 TAATTATGTT
Statistics
Matches: 95, Mismatches: 13, Indels: 33
0.67 0.09 0.23
Matches are distributed among these distances:
13 6 0.06
14 13 0.14
15 8 0.08
16 15 0.16
17 24 0.25
18 24 0.25
19 1 0.01
20 4 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
ATTTTAATAAATTATAT
Found at i:66248992 original size:16 final size:16
Alignment explanation
Indices: 66248971--66249038 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
66248961 GATTTGCTAT
66248971 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
66248987 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
66249003 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
66249019 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
66249035 TACA
1 TACA
66249039 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:66249445 original size:28 final size:30
Alignment explanation
Indices: 66249402--66249460 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
66249392 CATGTCAACA
**
66249402 TTTAATTTTTTTAAAAT-A-TATTATAATT
1 TTTAATTTTTAAAAAATGATTATTATAATT
*
66249430 TTTAATTTTTAAAAAATGATTTTTATAATT
1 TTTAATTTTTAAAAAATGATTATTATAATT
66249460 T
1 T
66249461 ATTTATGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 15 0.58
29 1 0.04
30 10 0.38
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (30 bp):
TTTAATTTTTAAAAAATGATTATTATAATT
Found at i:66251207 original size:19 final size:19
Alignment explanation
Indices: 66251183--66251236 Score: 94
Period size: 17 Copynumber: 2.9 Consensus size: 19
66251173 ATAATCTTCA
66251183 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
66251202 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
66251219 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
66251237 ATATATGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 17 0.52
19 16 0.48
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:66251226 original size:22 final size:20
Alignment explanation
Indices: 66251199--66251245 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
66251189 TGCAATCTTA
66251199 GATATGATACAATCTTAGATAT
1 GATATGAT-CAATCTTAGA-AT
66251221 GATATG--CAATCTTAGAAT
1 GATATGATCAATCTTAGAAT
66251239 -ATATGAT
1 GATATGAT
66251246 TTTGTAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 5 0.22
18 2 0.09
19 10 0.43
22 6 0.26
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (20 bp):
GATATGATCAATCTTAGAAT
Found at i:66251242 original size:17 final size:17
Alignment explanation
Indices: 66251186--66251243 Score: 73
Period size: 17 Copynumber: 3.3 Consensus size: 17
66251176 ATCTTCAATG
66251186 ATATGCAATCTTAG-AT
1 ATATGCAATCTTAGAAT
*
66251202 ATGATACAATCTTAGATAT
1 AT-ATGCAATCTTAGA-AT
66251221 GATATGCAATCTTAGAAT
1 -ATATGCAATCTTAGAAT
66251239 ATATG
1 ATATG
66251244 ATTTTGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
16 2 0.06
17 16 0.44
18 2 0.06
19 14 0.39
20 2 0.06
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (17 bp):
ATATGCAATCTTAGAAT
Found at i:66251517 original size:7 final size:7
Alignment explanation
Indices: 66251507--66251563 Score: 78
Period size: 7 Copynumber: 8.0 Consensus size: 7
66251497 TTTATTTTGA
66251507 TTTAGGG
1 TTTAGGG
66251514 TTTAGGG
1 TTTAGGG
*
66251521 TTTTAGGA
1 -TTTAGGG
* *
66251529 TTTAAGA
1 TTTAGGG
66251536 TTTAGGG
1 TTTAGGG
66251543 TTTAGGG
1 TTTAGGG
66251550 TTTAGGG
1 TTTAGGG
66251557 TTTAGGG
1 TTTAGGG
66251564 ATCTTATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:66251537 original size:29 final size:28
Alignment explanation
Indices: 66251505--66251560 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
66251495 TTTTTATTTT
66251505 GATTTAGGGTTTAGGGTTTTAGGATTTAA
1 GATTTAGGGTTTAGGG-TTTAGGATTTAA
*
66251534 GATTTAGGGTTTAGGGTTTAGGGTTTA
1 GATTTAGGGTTTAGGGTTTAGGATTTA
66251561 GGGATCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (28 bp):
GATTTAGGGTTTAGGGTTTAGGATTTAA
Found at i:66251641 original size:45 final size:47
Alignment explanation
Indices: 66251578--66251697 Score: 153
Period size: 44 Copynumber: 2.7 Consensus size: 47
66251568 TATTTTTAAT
66251578 TTTTTTTATATATTTTAATTTTTCAATAATT-AA-ATAATTCCCGGA
1 TTTTTTTATATATTTTAATTTTTCAATAATTCAACATAATTCCCGGA
* ** *
66251623 TTTTTTTATATATTTTAATTTTT---T-TTTCAACCATGTTTCTCGGA
1 TTTTTTTATATATTTTAATTTTTCAATAATTCAA-CATAATTCCCGGA
66251667 TTTTTTTATATATTTTAATTTTTCAATAATT
1 TTTTTTTATATATTTTAATTTTTCAATAATT
66251698 TTAGTATCAT
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
41 2 0.03
42 3 0.05
44 32 0.51
45 23 0.37
47 1 0.02
48 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (47 bp):
TTTTTTTATATATTTTAATTTTTCAATAATTCAACATAATTCCCGGA
Found at i:66260336 original size:25 final size:25
Alignment explanation
Indices: 66260306--66260443 Score: 215
Period size: 25 Copynumber: 5.5 Consensus size: 25
66260296 GACCTCAGCA
*
66260306 TGCTCTCTGATTATTAGCACGTCAG
1 TGCTCTCTGATTATTAGCACGCCAG
*
66260331 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTGATTATTAGCACGCCAG
*
66260356 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTGATTATTAGCACGCCAG
*
66260381 TGCTCTCTGATTATTAGCATGCCAG
1 TGCTCTCTGATTATTAGCACGCCAG
*
66260406 TGCTCTCTGA-TATTTAGCACGTCAG
1 TGCTCTCTGATTA-TTAGCACGCCAG
66260431 TGCTCTCTGATTA
1 TGCTCTCTGATTA
66260444 GCACATTTGT
Statistics
Matches: 105, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
24 2 0.02
25 101 0.96
26 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (25 bp):
TGCTCTCTGATTATTAGCACGCCAG
Found at i:66260484 original size:22 final size:21
Alignment explanation
Indices: 66260419--66260485 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
66260409 TCTCTGATAT
*
66260419 TTAGCACGTCAGTGCTCTCTG
1 TTAGCACTTCAGTGCTCTCTG
*
66260440 ATTAGCACATT-TGTGCTCTCTG
1 -TTAGCAC-TTCAGTGCTCTCTG
66260462 TGTAGCACTTCAGTGCTCTCTG
1 T-TAGCACTTCAGTGCTCTCTG
66260484 TT
1 TT
66260486 CATTAGTGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 4 0.10
22 34 0.87
23 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (21 bp):
TTAGCACTTCAGTGCTCTCTG
Found at i:66266641 original size:89 final size:87
Alignment explanation
Indices: 66266512--66266673 Score: 209
Period size: 89 Copynumber: 1.8 Consensus size: 87
66266502 ATTCGACGGA
* * *
66266512 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTACAC-T-GAAGCAGATCCAAGATG
*
66266577 ATTTGGCATCCTTGCGTTTACAAG
64 ATTTGACATCCTTGCGTTTACAAG
* ** * *
66266601 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACG-TGTTTACGCTGAAGCAGATCCAAGATGA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC-CGATGTTTACACTGAAGCAGATCCAAGATGA
66266665 TTTGACATC
65 TTTGACATC
66266674 TCTGTACTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 25 0.40
88 1 0.02
89 36 0.57
90 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTACACTGAAGCAGATCCAAGATGAT
TTGACATCCTTGCGTTTACAAG
Found at i:66266783 original size:220 final size:220
Alignment explanation
Indices: 66266395--66267204 Score: 1334
Period size: 220 Copynumber: 3.7 Consensus size: 220
66266385 CAGGCTAAAG
* * * *
66266395 CATAGTAGATTTGACCTTCAGGTGTTTACGCTAAAGCGGATCCAAGATGATTTAACATCTCTGTA
1 CATAGCAGATTTGACCTTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACATCTCTGTA
* *
66266460 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66 CTATCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66266525 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
66266590 GCGTTTACAAGGAGCAGATCGAAGA
196 GCGTTTACAAGGAGCAGATCGAAGA
* * *
66266615 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTGACATCTCTGTA
1 CATAGCAGATTTGACCTTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACATCTCTGTA
* * *
66266680 CTATCAGAGAACAAATCGAAGAAAAAGATTTGGCATCTCCCTATTCGACGGAGAGCAGATTGAAG
66 CTATCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
* * *
66266745 ACATAGTAGATCTAACCTTCGGATGATTTCACATCGAAGTAGATCTAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
* *
66266810 GCGTATATAAGGAGCAGATCGAAGA
196 GCGTTTACAAGGAGCAGATCGAAGA
*
66266835 CATAGCAGATTT-AGCTTTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACATCTCTGT
1 CATAGCAGATTTGA-CCTTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACATCTCTGT
* *
66266899 ATTATCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
65 ACTATCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
* *
66266964 TACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGACATCCT
130 GACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
*
66267029 TACGTTTACAAGGAGCAGATCGAAGA
195 TGCGTTTACAAGGAGCAGATCGAAGA
* * **
66267055 CATAGCAGATTTGACCTTCAGGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGACCTTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACATCTCTGTA
* *
66267120 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAG
66 CTATCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
*
66267185 ACATAGCAGATCTGACCTTC
131 ACATAGCAGATCTAACCTTC
66267205 ATTGAAGCAG
Statistics
Matches: 546, Mismatches: 42, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
220 545 1.00
221 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (220 bp):
CATAGCAGATTTGACCTTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACATCTCTGTA
CTATCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
GCGTTTACAAGGAGCAGATCGAAGA
Found at i:66267254 original size:78 final size:78
Alignment explanation
Indices: 66267146--66267752 Score: 869
Period size: 78 Copynumber: 7.8 Consensus size: 78
66267136 CGAAGAAACA
** * * * *
66267146 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
66267211 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
66267224 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGAT-TGGACCTTTATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT-GACCTTCATTGA
66267288 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* **
66267302 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACACAGCAGAT-TGGAAATTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT-GACCTTCATTGA
66267366 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
** * *
66267380 GATTTGGCATCTCCATATTCGACGGGGAGCAGATCGAAGACACAGCAGATTTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
66267445 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* ** * * * * *
66267458 GATTTGGAATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
66267523 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
66267536 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
*
66267601 GCAGGTCCAAGAT
66 GCAGATCCAAGAT
* * * * * *
66267614 GATTTGGCATCTCTGTATTAGACAGGGAACAGATCAAAGACATAACAGAT-TGAACCGTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTG-ACCTTCATTGA
66267678 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
66267692 GATTTGGCATATCTGTATTAGACGGGGAGCAGATCGGAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCAT
66267753 GTGTTTACAT
Statistics
Matches: 477, Mismatches: 48, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
77 3 0.01
78 471 0.99
79 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:66267845 original size:45 final size:46
Alignment explanation
Indices: 66267692--66267965 Score: 269
Period size: 45 Copynumber: 6.1 Consensus size: 46
66267682 GATCCAAGAT
* * * *
66267692 GATTTGGCATATCTGTATTAGACGGGGAGCAGATCGGAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGA-AGATAACA
* * * * * * * *
66267739 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATC-CAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCAGAAGATAACA
*
66267784 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAG-AGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
* * *
66267829 GATTTGGCATCTCTGTATTAGACAGGGAGCAGAT-TGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
*
66267873 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC-GAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
* * *
66267918 GATTTGGCGTCTCTGTATTAGACGGAGAGCAGATCA-AAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
66267963 GAT
1 GAT
66267966 ATCACCTTCC
Statistics
Matches: 188, Mismatches: 28, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 45 0.24
45 113 0.60
46 5 0.03
47 19 0.10
48 4 0.02
49 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (46 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
Found at i:66267891 original size:89 final size:90
Alignment explanation
Indices: 66267692--66267965 Score: 292
Period size: 89 Copynumber: 3.0 Consensus size: 90
66267682 GATCCAAGAT
* * * * * * *
66267692 GATTTGGCATATCTGTATTAGACGGGGAGCAGATCGGAGACATAGCAGATCTGACCT-TCATGTG
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATC-GA-AGATAACAGATTTGGCATCTC-TGT-
* * *
66267756 TTTACATC-GA-AGCAGATCCAAGAT-GACA
62 ATTAGA-CGGAGAGCAGATCAAAGATAG-CA
66267784 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATC-AGAGATAACAGATTTGGCATCTCTGTATT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGA-AGATAACAGATTTGGCATCTCTGTATT
**
66267848 AGACAGG-GAGCAGATTGAAGA-AGCA
65 AGAC-GGAGAGCAGATCAAAGATAGCA
* * *
66267873 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTA
66267938 GACGGAGAGCAGATCAAAGATAGCA
66 GACGGAGAGCAGATCAAAGATAGCA
66267963 GAT
1 GAT
66267966 ATCACCTTCC
Statistics
Matches: 158, Mismatches: 16, Indels: 18
0.82 0.08 0.09
Matches are distributed among these distances:
88 3 0.02
89 81 0.51
90 39 0.25
91 2 0.01
92 33 0.21
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (90 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTA
GACGGAGAGCAGATCAAAGATAGCA
Found at i:66268336 original size:14 final size:15
Alignment explanation
Indices: 66268317--66268372 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
66268307 AATCTTCAAT
66268317 GATATG-CAATCTTA
1 GATATGACAATCTTA
66268331 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
66268348 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
66268366 GATATGA
1 GATATGA
66268373 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:66268361 original size:35 final size:37
Alignment explanation
Indices: 66268315--66268393 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
66268305 ATAATCTTCA
66268315 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
66268351 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
66268387 A-GATATG
1 ATGATATG
66268394 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:66268393 original size:17 final size:19
Alignment explanation
Indices: 66268315--66268386 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
66268305 ATAATCTTCA
66268315 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
66268334 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
66268351 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
66268369 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
66268387 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:66268412 original size:22 final size:22
Alignment explanation
Indices: 66268315--66268409 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 22
66268305 ATAATCTTCA
66268315 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
66268334 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
66268351 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
66268369 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
66268391 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
66268410 GATTTAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 15 0.22
22 8 0.12
23 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:66268700 original size:17 final size:17
Alignment explanation
Indices: 66268675--66268710 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
66268665 ATGTTTCCCG
*
66268675 AATTTTTTTATATATTTT
1 AATTTTTTAATA-ATTTT
66268693 AATTTTTTAATAATTTT
1 AATTTTTTAATAATTTT
66268710 A
1 A
66268711 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
AATTTTTTAATAATTTT
Found at i:66273252 original size:18 final size:20
Alignment explanation
Indices: 66273215--66273252 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
66273205 ATTTTCATCC
66273215 CATTTAGAAATCTAAGTTGG
1 CATTTAGAAATCTAAGTTGG
66273235 CATTTA-AAATCT-AGTTGG
1 CATTTAGAAATCTAAGTTGG
66273253 ACTGTCACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 6 0.33
20 6 0.33
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (20 bp):
CATTTAGAAATCTAAGTTGG
Found at i:66274948 original size:9 final size:9
Alignment explanation
Indices: 66274920--66274950 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
66274910 CTTTTTTATT
66274920 TTATCATCA
1 TTATCATCA
*
66274929 TCATCATCA
1 TTATCATCA
66274938 TTATCATCA
1 TTATCATCA
66274947 TTAT
1 TTAT
66274951 TATTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (9 bp):
TTATCATCA
Found at i:66282076 original size:9 final size:9
Alignment explanation
Indices: 66282062--66282094 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
66282052 GTTTAACGAA
66282062 TCGAGTTAT
1 TCGAGTTAT
*
66282071 TCGAGTTAA
1 TCGAGTTAT
66282080 TCGAGTTAT
1 TCGAGTTAT
66282089 TCGAGT
1 TCGAGT
66282095 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:66282083 original size:18 final size:18
Alignment explanation
Indices: 66282060--66282094 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
66282050 GAGTTTAACG
66282060 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
66282078 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
66282095 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:66282162 original size:9 final size:9
Alignment explanation
Indices: 66282148--66282208 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
66282138 GTTTTCGAAT
66282148 TCGAATAAC
1 TCGAATAAC
*
66282157 TCGAATAAT
1 TCGAATAAC
66282166 TCGAATAAC
1 TCGAATAAC
*
66282175 TCGAATAAT
1 TCGAATAAC
66282184 TCGAATAAC
1 TCGAATAAC
*
66282193 TCGAATAAT
1 TCGAATAAC
66282202 TCGAATA
1 TCGAATA
66282209 TTAAACTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.28
Consensus pattern (9 bp):
TCGAATAAC
Found at i:66282166 original size:18 final size:18
Alignment explanation
Indices: 66282145--66282208 Score: 128
Period size: 18 Copynumber: 3.6 Consensus size: 18
66282135 TGAGTTTTCG
66282145 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
66282163 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
66282181 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
66282199 AATTCGAATA
1 AATTCGAATA
66282209 TTAAACTATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:66283823 original size:113 final size:113
Alignment explanation
Indices: 66283620--66284104 Score: 611
Period size: 113 Copynumber: 4.3 Consensus size: 113
66283610 GAAAAAAAAA
* *
66283620 TTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTCTAGGAAAAAAAAATTCAAAATTTTTCGGGT
1 TTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTA-GAAAAAAAAATTCAAAATTTTTTGGGT
* * *
66283685 GTTGGTCTTCTAATGGCCGGCACCAGTACAAAAATATGAGGAATTTTTT
65 GCTAGTCTTCTAATGGCCGGCACCAGTACAAAAATATTAGGAATTTTTT
* * *
66283734 TTCTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTA-ATAAAAAAATTTAAAATTTTTTAGGT
1 TT-TTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTAGAAAAAAAAATTCAAAATTTTTTGGGT
* * ******
66283798 GCTAGTCTTCTAATGGTCGGCACCAGTACAAAAATATCAGGAAAAAAAAAA
65 GCTAGTCTTCTAATGGCCGGCACCAGTACAAAAATATTAGG--AATTTTTT
* * **
66283849 TTTT-ATGCTGGCCTTCTAATGGTCGGCACCACTGTA-ATAAAAAAAATTCAATTTTTTTTGGGT
1 TTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTAGA-AAAAAAAATTCAAAATTTTTTGGGT
*
66283912 GCTAGTCTTCTAATGGCTGGCACCAGTACAAAAATATTA-GAATTTTTT
65 GCTAGTCTTCTAATGGCCGGCACCAGTACAAAAATATTAGGAATTTTTT
* * * *
66283960 TTTT-GTGCTGGCTTTCTAATGGTCGGTACCACTGTAGTAAAAAAAAATTCAAAATTTTTTTGGT
1 TTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTAG-AAAAAAAAATTCAAAATTTTTTGGGT
* * *
66284024 GCTGGTCTTTTAATGGCCGGCACCAGTACAAAAATATTAGGATTTTTTT
65 GCTAGTCTTCTAATGGCCGGCACCAGTACAAAAATATTAGGAATTTTTT
* *
66284073 TTTTGGTGCTGACCTTCTAATGGCCAGCACCA
1 TTTTGGTGCTGGCCTTCTAATGGCCGGCACCA
66284105 AACCTTATAT
Statistics
Matches: 317, Mismatches: 46, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
111 35 0.11
112 58 0.18
113 104 0.33
114 82 0.26
115 38 0.12
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (113 bp):
TTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTGTAGAAAAAAAAATTCAAAATTTTTTGGGTG
CTAGTCTTCTAATGGCCGGCACCAGTACAAAAATATTAGGAATTTTTT
Found at i:66284076 original size:58 final size:55
Alignment explanation
Indices: 66283682--66284104 Score: 265
Period size: 57 Copynumber: 7.5 Consensus size: 55
66283672 AAATTTTTCG
* *
66283682 GGTGTTGGTCTTCTAATGGCCGGCACCAGTACAAAAATATGAGGAATTTTTTTTCTT
1 GGTGCTGGTCTTCTAATGGCCGGCACCAGTACAAAAATATTA-GAATTTTTTTT-TT
* * * * *
66283739 GGTGCTGGCCTTCTAATGGCCGGCACCACTGTAATAAAAAAATTTA-AA--ATTTTTTA
1 GGTGCTGGTCTTCTAATGGCCGGCACCA--GT-ACAAAAATA-TTAGAATTTTTTTTTT
* * * ******
66283795 GGTGCTAGTCTTCTAATGGTCGGCACCAGTACAAAAATATCAGGAAAAAAAAAATTTT
1 GGTGCTGGTCTTCTAATGGCCGGCACCAGTACAAAAATATTA-G--AATTTTTTTTTT
* * * * * * *
66283853 -ATGCTGGCCTTCTAATGGTCGGCACCACTGTAATAAAAAAAATT-CAA-TTTTTTTTG
1 GGTGCTGGTCTTCTAATGGCCGGCACCA--GT-A-CAAAAATATTAGAATTTTTTTTTT
* *
66283909 GGTGCTAGTCTTCTAATGGCTGGCACCAGTACAAAAATATTAGAATTTTTTTTTT
1 GGTGCTGGTCTTCTAATGGCCGGCACCAGTACAAAAATATTAGAATTTTTTTTTT
* * * * *
66283964 -GTGCTGG-CTTTCTAATGGTCGGTACCACTGTAGTAAAAAAAAATTCA-AA--ATTTTTTT
1 GGTGCTGGTC-TTCTAATGGCCGG---CAC--CAGTACAAAAATATT-AGAATTTTTTTTTT
* *
66284021 GGTGCTGGTCTTTTAATGGCCGGCACCAGTACAAAAATATTAGGATTTTTTTTTTT
1 GGTGCTGGTCTTCTAATGGCCGGCACCAGTACAAAAATATTA-GAATTTTTTTTTT
** *
66284077 GGTGCTGACCTTCTAATGGCCAGCACCA
1 GGTGCTGGTCTTCTAATGGCCGGCACCA
66284105 AACCTTATAT
Statistics
Matches: 279, Mismatches: 57, Indels: 61
0.70 0.14 0.15
Matches are distributed among these distances:
52 3 0.01
53 28 0.10
54 23 0.08
55 13 0.05
56 62 0.22
57 89 0.32
58 22 0.08
59 21 0.08
60 9 0.03
61 9 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (55 bp):
GGTGCTGGTCTTCTAATGGCCGGCACCAGTACAAAAATATTAGAATTTTTTTTTT
Found at i:66284255 original size:28 final size:27
Alignment explanation
Indices: 66284215--66284282 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 27
66284205 ATCATCAAAT
66284215 GAGTT-TTT-TAGTGGATTGTATA-AG
1 GAGTTATTTGTAGTGGATTGTATATAG
*
66284239 GAAGTTTGTTTGTAGTGGATTGTATATAG
1 G-AG-TTATTTGTAGTGGATTGTATATAG
66284268 GAGTTATTTGTAGTG
1 GAGTTATTTGTAGTG
66284283 TACAACCGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
24 1 0.03
25 2 0.05
26 2 0.05
27 14 0.37
28 16 0.42
29 3 0.08
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.46
Consensus pattern (27 bp):
GAGTTATTTGTAGTGGATTGTATATAG
Found at i:66288399 original size:28 final size:27
Alignment explanation
Indices: 66288365--66288423 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
66288355 TTTTTATTTC
* *
66288365 TTTCCAATTTAATTTGATTTCAATTTTA
1 TTTCCAATTTAATTTCATTT-AATTTAA
*
66288393 TTTCCAATTTCATTTCATTTAATTTAA
1 TTTCCAATTTAATTTCATTTAATTTAA
66288420 TTTC
1 TTTC
66288424 TATTTTTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 10 0.36
28 18 0.64
ACGTcount: A:0.27, C:0.14, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTCCAATTTAATTTCATTTAATTTAA
Found at i:66288407 original size:23 final size:22
Alignment explanation
Indices: 66288375--66288417 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
66288365 TTTCCAATTT
* *
66288375 AATTTGATTTCAATTTTATTTCC
1 AATTTCATTTC-ATTTAATTTCC
66288398 AATTTCATTTCATTTAATTT
1 AATTTCATTTCATTTAATTT
66288418 AATTTCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.28, C:0.12, G:0.02, T:0.58
Consensus pattern (22 bp):
AATTTCATTTCATTTAATTTCC
Found at i:66288461 original size:15 final size:15
Alignment explanation
Indices: 66288443--66288490 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
66288433 GTGCACTTCA
66288443 TTTAAATTAAATTTT
1 TTTAAATTAAATTTT
*
66288458 TTTAAATTAAGATTTA
1 TTTAAATTAA-ATTTT
**
66288474 TTTCCATT-AATTTT
1 TTTAAATTAAATTTT
66288488 TTT
1 TTT
66288491 TCATTTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 7 0.25
15 11 0.39
16 10 0.36
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (15 bp):
TTTAAATTAAATTTT
Found at i:66288717 original size:5 final size:5
Alignment explanation
Indices: 66288709--66288761 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
66288699 CTTTCCATCC
* *
66288709 AATTT AATTT CATTTT AATTT TATTT CCAATTT AATTT AATTT AATTT
1 AATTT AATTT -AATTT AATTT AATTT --AATTT AATTT AATTT AATTT
66288757 AATTT
1 AATTT
66288762 CTATTTTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 33 0.80
6 4 0.10
7 4 0.10
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:66288741 original size:28 final size:27
Alignment explanation
Indices: 66288706--66288762 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
66288696 TTTCTTTCCA
* *
66288706 TCCAATTTAATTTCATTTTAATTTTATT
1 TCCAATTTAATTT-AATTTAATTTAATT
66288734 TCCAATTTAATTTAATTTAATTTAATT
1 TCCAATTTAATTTAATTTAATTTAATT
66288761 TC
1 TC
66288763 TATTTTTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (27 bp):
TCCAATTTAATTTAATTTAATTTAATT
Found at i:66288779 original size:33 final size:32
Alignment explanation
Indices: 66288709--66288786 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
66288699 CTTTCCATCC
* *
66288709 AATTTAATTTCATTTTAATTTTATTTCCAATTT
1 AATTTAATTT-AATTTAATTTTATTTCCAATTG
** *
66288742 AATTTAATTTAATTTAATTTCTATTTTTACTTG
1 AATTTAATTTAATTTAATTT-TATTTCCAATTG
*
66288775 AATTTCATTTAA
1 AATTTAATTTAA
66288787 ATCAAATGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 9 0.24
33 29 0.76
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (32 bp):
AATTTAATTTAATTTAATTTTATTTCCAATTG
Found at i:66288779 original size:38 final size:38
Alignment explanation
Indices: 66288709--66288786 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
66288699 CTTTCCATCC
* *
66288709 AATTTAATTTCATTTTAATTTTATTTCCAATTTAATTT
1 AATTTAATTTAATTTTAATTTTACTTCCAATTTAATTT
* * *
66288747 AATTTAATTTAATTTCTATTTTTACTT-GAATTTCATTT
1 AATTTAATTTAATTT-TAATTTTACTTCCAATTTAATTT
66288785 AA
1 AA
66288787 ATCAAATGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 25 0.74
39 9 0.26
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (38 bp):
AATTTAATTTAATTTTAATTTTACTTCCAATTTAATTT
Found at i:66288819 original size:21 final size:21
Alignment explanation
Indices: 66288795--66288837 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
66288785 AAATCAAATG
*
66288795 TTTTGAAATTTAACATTTATT
1 TTTTGAAATTTAAAATTTATT
*
66288816 TTTTGCAATTTAAAATTTATT
1 TTTTGAAATTTAAAATTTATT
66288837 T
1 T
66288838 CTATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (21 bp):
TTTTGAAATTTAAAATTTATT
Found at i:66288968 original size:15 final size:17
Alignment explanation
Indices: 66288932--66288968 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
66288922 TATTTTATAT
66288932 ATATTTATTTCATTTTA
1 ATATTTATTTCATTTTA
66288949 A-ATTT-TTTCA-TTTA
1 ATATTTATTTCATTTTA
66288963 ATATTT
1 ATATTT
66288969 CCATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.26
15 9 0.47
16 4 0.21
17 1 0.05
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTTATTTCATTTTA
Found at i:66289225 original size:23 final size:23
Alignment explanation
Indices: 66289199--66289259 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
66289189 TCTCCAATTT
66289199 AATTTCATTTCAATTTTATTTCC
1 AATTTCATTTCAATTTTATTTCC
* * *
66289222 AATTTAATTTCTATTTTTATTTTC
1 AATTTCATTTC-AATTTTATTTCC
*
66289246 -ATTTCATTTAAATT
1 AATTTCATTTCAATT
66289260 AAATTTTTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 3 0.10
23 18 0.58
24 10 0.32
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (23 bp):
AATTTCATTTCAATTTTATTTCC
Found at i:66289277 original size:21 final size:20
Alignment explanation
Indices: 66289251--66289299 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
66289241 TTTTCATTTC
66289251 ATTTAAATTAAATTTTTTGAA
1 ATTTAAATT-AATTTTTTGAA
* *
66289272 ATTTAACATTCATTTTTTGCA
1 ATTTAA-ATTAATTTTTTGAA
66289293 ATTTAAA
1 ATTTAAA
66289300 ATGTATTTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.84
22 3 0.12
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (20 bp):
ATTTAAATTAATTTTTTGAA
Found at i:66289479 original size:17 final size:18
Alignment explanation
Indices: 66289446--66289480 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
66289436 TTCCATTAAA
*
66289446 AAAATTTTCATTTTCATT
1 AAAATTTTCAGTTTCATT
66289464 AAAATTTTC-GTTTCATT
1 AAAATTTTCAGTTTCATT
66289481 TTTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.54
Consensus pattern (18 bp):
AAAATTTTCAGTTTCATT
Found at i:66289545 original size:22 final size:23
Alignment explanation
Indices: 66289494--66289545 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
66289484 ATTATTTATA
*
66289494 TTACA-TTTCAATTTCATTACCC
1 TTACATTTTCAATTTCATTACAC
* * *
66289516 TTATATTTTCAA-TTCATTTCAT
1 TTACATTTTCAATTTCATTACAC
66289538 TTACATTT
1 TTACATTT
66289546 CTATTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (23 bp):
TTACATTTTCAATTTCATTACAC
Found at i:66289637 original size:16 final size:16
Alignment explanation
Indices: 66289618--66289664 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
66289608 ATTTTTTTGA
*
66289618 ATTTTTTTATTTTAGT
1 ATTTTTTTATTTTAAT
66289634 ATTTGTTTTCATTTTAAT
1 ATTT-TTTT-ATTTTAAT
66289652 -TTATTTTTATTTT
1 ATT-TTTTTATTTT
66289665 GATTTCTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 9 0.33
17 10 0.37
18 8 0.30
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.74
Consensus pattern (16 bp):
ATTTTTTTATTTTAAT
Found at i:66289669 original size:16 final size:15
Alignment explanation
Indices: 66289612--66289669 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 15
66289602 AAATTTATTT
*
66289612 TTTTGAATTTTTTTA
1 TTTTGATTTTTTTTA
*
66289627 TTTTAGTATTTGTTTTCA
1 TTTT-G-ATTT-TTTTTA
*
66289645 TTTTAATTTATTTTTA
1 TTTTGATTT-TTTTTA
66289661 TTTTGATTT
1 TTTTGATTT
66289670 CTAAATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
15 4 0.12
16 18 0.53
17 3 0.09
18 9 0.26
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTTGATTTTTTTTA
Found at i:66300594 original size:15 final size:15
Alignment explanation
Indices: 66300574--66300603 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
66300564 ATAATCTTAT
66300574 TTAATAATAAATTTA
1 TTAATAATAAATTTA
*
66300589 TTAATAATTAATTTA
1 TTAATAATAAATTTA
66300604 ATTTTTGTAA
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:0.00, T:0.50
Consensus pattern (15 bp):
TTAATAATAAATTTA
Found at i:66300749 original size:17 final size:17
Alignment explanation
Indices: 66300715--66300749 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
66300705 CTTCACTCAT
66300715 ATTTAATTTTAATTTTA
1 ATTTAATTTTAATTTTA
66300732 ATTT-ATTTTAATTATTA
1 ATTTAATTTTAATT-TTA
66300749 A
1 A
66300750 ATACGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTAATTTTAATTTTA
Found at i:66306757 original size:60 final size:60
Alignment explanation
Indices: 66306684--66306798 Score: 185
Period size: 60 Copynumber: 1.9 Consensus size: 60
66306674 CAAAAATATC
* *
66306684 TTTAAAGATAACATATAATATATAAGGAAAAGTATTATTTGAAATTAATTAATAAATGTG
1 TTTAAAGATAACATACAATAAATAAGGAAAAGTATTATTTGAAATTAATTAATAAATGTG
* * *
66306744 TTTAAAGATAACATACAATAAATAATGAAAAGTATTGTTTGGAATTAATTAATAA
1 TTTAAAGATAACATACAATAAATAAGGAAAAGTATTATTTGAAATTAATTAATAA
66306799 TAAAACATGA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (60 bp):
TTTAAAGATAACATACAATAAATAAGGAAAAGTATTATTTGAAATTAATTAATAAATGTG
Found at i:66308033 original size:18 final size:18
Alignment explanation
Indices: 66307988--66308051 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
66307978 ATGAAATCAG
66307988 TTATATGTTGTTGTTC-T
1 TTATATGTTGTTGTTCAT
*
66308005 TTAGGGA-GTTGTTGTTCAT
1 TTA--TATGTTGTTGTTCAT
66308024 TTATATGTTGTTGTTCAT
1 TTATATGTTGTTGTTCAT
*
66308042 TTATAAGTTG
1 TTATATGTTG
66308052 AAGTTTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.10
18 31 0.77
19 5 0.12
ACGTcount: A:0.17, C:0.05, G:0.22, T:0.56
Consensus pattern (18 bp):
TTATATGTTGTTGTTCAT
Found at i:66309942 original size:16 final size:16
Alignment explanation
Indices: 66309923--66309966 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
66309913 TAAAAATAAT
66309923 TTAAAATATAAATTTA
1 TTAAAATATAAATTTA
66309939 TTAATATATATAAATTTA
1 TTAA-A-ATATAAATTTA
*
66309957 TTAATATATA
1 TTAAAATATA
66309967 TGTAAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 9 0.36
17 1 0.04
18 15 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAAATATAAATTTA
Found at i:66309949 original size:18 final size:18
Alignment explanation
Indices: 66309928--66309967 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
66309918 ATAATTTAAA
66309928 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
66309946 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
66309964 ATAT
1 ATAT
66309968 GTAAAAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:66310122 original size:28 final size:28
Alignment explanation
Indices: 66310058--66310123 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
66310048 CCAGAAAAGT
* * *
66310058 AAATCATTTTTCAGAAATCATTTTCTAA
1 AAATCATTTTCCAAAAATCATTTTCGAA
*
66310086 AAATCATTTTCCAAAAATCATTTTCCGGA
1 AAATCATTTTCCAAAAATCATTTT-CGAA
66310115 AAAT-ATTTT
1 AAATCATTTT
66310124 ACCTGCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 27 0.82
29 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (28 bp):
AAATCATTTTCCAAAAATCATTTTCGAA
Found at i:66310123 original size:14 final size:14
Alignment explanation
Indices: 66310058--66310111 Score: 81
Period size: 14 Copynumber: 3.9 Consensus size: 14
66310048 CCAGAAAAGT
* *
66310058 AAATCATTTTTCAG
1 AAATCATTTTCCAA
*
66310072 AAATCATTTTCTAA
1 AAATCATTTTCCAA
66310086 AAATCATTTTCCAA
1 AAATCATTTTCCAA
66310100 AAATCATTTTCC
1 AAATCATTTTCC
66310112 GGAAAATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.41
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:66311925 original size:27 final size:27
Alignment explanation
Indices: 66311848--66311926 Score: 72
Period size: 27 Copynumber: 2.8 Consensus size: 27
66311838 GTGAAATACT
* *
66311848 TATTATTATTTTATATA-TCCCTCATCA
1 TATTA-TATTTTATATATTTCATCATCA
*
66311875 TATTATATTCTATTTATATATTCATCA-CA
1 TATTATATT-T-TATATAT-TTCATCATCA
66311904 TATTATATTTTACTATATTTCAT
1 TATTATATTTTA-TATATTTCAT
66311927 GATATTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
26 4 0.09
27 12 0.28
28 11 0.26
29 11 0.26
30 5 0.12
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (27 bp):
TATTATATTTTATATATTTCATCATCA
Found at i:66314163 original size:25 final size:23
Alignment explanation
Indices: 66314115--66314163 Score: 55
Period size: 25 Copynumber: 2.0 Consensus size: 23
66314105 ATACATATGT
*
66314115 AAAAAAATTAAAAAAATTTACAA
1 AAAAAAATTAAAAAAATATACAA
66314138 AAAAAATATTTAAAAAAACTAT-CAA
1 AAAAAA-A-TTAAAAAAA-TATACAA
66314163 A
1 A
66314164 CTTTCTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 6 0.27
24 1 0.05
25 13 0.59
26 2 0.09
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.22
Consensus pattern (23 bp):
AAAAAAATTAAAAAAATATACAA
Found at i:66315851 original size:10 final size:10
Alignment explanation
Indices: 66315836--66315894 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
66315826 TATATTTCAC
66315836 ATATATTATT
1 ATATATTATT
*
66315846 ATATATTTTT
1 ATATATTATT
66315856 AATATTATTAGTT
1 -ATA-TATTA-TT
* *
66315869 ATATTTTTTT
1 ATATATTATT
*
66315879 ATATACTATT
1 ATATATTATT
66315889 ATATAT
1 ATATAT
66315895 ATTTCTAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
10 23 0.61
11 6 0.16
12 7 0.18
13 2 0.05
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (10 bp):
ATATATTATT
Found at i:66315852 original size:21 final size:21
Alignment explanation
Indices: 66315826--66315940 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 21
66315816 GTTTTAATAT
66315826 TATATTTCACATA-TATTATTA
1 TATATTTCA-ATACTATTATTA
* *
66315847 TATATTTTTAATATTATTAGTTA
1 TATA-TTTCAATACTATTA-TTA
* *
66315870 TATTTTTTTATATACTATTA-TA
1 TA-TATTTCA-ATACTATTATTA
* *
66315892 TATATTTCTAATATTA-TATTG
1 TATATTTC-AATACTATTATTA
66315913 TATATTTCTAATACTATTATTTA
1 TATATTTC-AATACTATTA-TTA
66315936 TATAT
1 TATAT
66315941 ATGTGTGTGT
Statistics
Matches: 76, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
20 2 0.03
21 32 0.42
22 16 0.21
23 17 0.22
24 9 0.12
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (21 bp):
TATATTTCAATACTATTATTA
Found at i:66315905 original size:45 final size:42
Alignment explanation
Indices: 66315826--66315938 Score: 122
Period size: 43 Copynumber: 2.6 Consensus size: 42
66315816 GTTTTAATAT
* *
66315826 TATATTTCACATATATTATTATATAT-TTTTAATATTATTAGTTA
1 TATATTTC-TATATACTATTATATATATTTTAATATTA-TA-TTA
* * *
66315870 TATTTTTTTATATACTATTATATATATTTCTAATATTATATTG
1 TATATTTCTATATACTATTATATATATTT-TAATATTATATTA
*
66315913 TATATTTCTA-ATACTATTATTTATAT
1 TATATTTCTATATACTATTATATATAT
66315939 ATATGTGTGT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 15 0.25
43 25 0.42
44 11 0.19
45 8 0.14
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (42 bp):
TATATTTCTATATACTATTATATATATTTTAATATTATATTA
Found at i:66328665 original size:71 final size:71
Alignment explanation
Indices: 66328580--66328718 Score: 224
Period size: 71 Copynumber: 2.0 Consensus size: 71
66328570 AATTTTTACT
* *
66328580 TTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
66328645 TTTATG
66 TTTATG
** * *
66328651 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
66328716 TTT
66 TTT
66328719 CTACTTTCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (71 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
TTTATG
Found at i:66328872 original size:54 final size:54
Alignment explanation
Indices: 66328722--66328929 Score: 254
Period size: 51 Copynumber: 4.0 Consensus size: 54
66328712 TCAATTTCTA
* *
66328722 CTTTCAATTCCTG-TTTTCAAAAATCAACTCATATTGCGAGA-GTAAGTTGAGC
1 CTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
66328774 CTTTCAA-TT-TATTTTTAAAAAATCAACTCATA-CGCGAGAGGTGAGTTGAGC
1 CTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
66328825 CTTTTAATTTCTGTTTTTCAAAAAGT-AACTCATATTGCGAGAGGTGAGTTGTA-C
1 CTTTCAATTTCTGTTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTG-AGC
* * *
66328879 CTTTTAATTTTTGTTTTTC-AAAATCAAC-CATATTGCGAGAAGTGAGTTGAG
1 CTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66328930 TCTTAGGTCA
Statistics
Matches: 136, Mismatches: 11, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
50 7 0.05
51 37 0.27
52 30 0.22
53 26 0.19
54 35 0.26
55 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (54 bp):
CTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:66329224 original size:42 final size:45
Alignment explanation
Indices: 66329163--66329254 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 45
66329153 CACCGACTTG
*
66329163 GTCT-CCTGAAGCTGCAGTGG-GCATGTC-AAAGTTGCAA-TCTT
1 GTCTCCCTGAAGCTGCAGTGGAGCAGGTCAAAAGTTGCAAGTCTT
* *
66329204 GTCTCCCTGAAGCTGTAGTGGAGCCGGTCAAAAGTTGCAAGTCTT
1 GTCTCCCTGAAGCTGCAGTGGAGCAGGTCAAAAGTTGCAAGTCTT
66329249 GTCTCC
1 GTCTCC
66329255 TGAGGTCGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
41 4 0.09
42 15 0.34
43 5 0.11
44 10 0.23
45 10 0.23
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (45 bp):
GTCTCCCTGAAGCTGCAGTGGAGCAGGTCAAAAGTTGCAAGTCTT
Found at i:66330237 original size:14 final size:15
Alignment explanation
Indices: 66330218--66330251 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
66330208 TAAATGTATG
*
66330218 AAATATA-ATATAAA
1 AAATATAGAAATAAA
66330232 AAATATAGAAATAAA
1 AAATATAGAAATAAA
66330247 AAATA
1 AAATA
66330252 AAAAAGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (15 bp):
AAATATAGAAATAAA
Found at i:66330247 original size:15 final size:14
Alignment explanation
Indices: 66330218--66330255 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
66330208 TAAATGTATG
*
66330218 AAATATAATATAAA
1 AAATATAAAATAAA
66330232 AAATATAGAAATAAA
1 AAATATA-AAATAAA
66330247 AAATA-AAAA
1 AAATATAAAA
66330256 AGGAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 8 0.36
15 11 0.50
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATATAAAATAAA
Found at i:66336216 original size:119 final size:119
Alignment explanation
Indices: 66336047--66336764 Score: 1069
Period size: 119 Copynumber: 6.0 Consensus size: 119
66336037 TAGGCTGCAG
* *
66336047 TATAGCAGATCT-AGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
1 TATAGCAGATCTAAAC-TTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGT
*
66336111 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAGA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
* *
66336166 TATAGCAAATCTAAACTTCAGATGTTTATACTAAAACAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAACTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* * * *
66336231 TTTACAAGAAACAAATCGAGGACATAGCAAATTTGACTCTCAAACGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
* *
66336285 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAACTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* *
66336350 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAG--A
* * * * **
66336406 CATGGCAGATCTAACCTTCAGATGTTTATACTAAAGCCAAATCCAAGATGATTTGACATTCTTGT
1 TATAGCAGATCTAAACTTCAGATGTTTATACTAAAG-CAGATCCAAGATGATTTGGTATTCTTGT
* * *
66336471 GTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTTTCAGA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
* *
66336526 TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAACTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* *
66336591 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAG--A
* * * * **
66336647 CATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGT
1 TATAGCAGATCTAAACTTCAGATGTTTATACTAAAG-CAGATCCAAGATGATTTGGTATTCTTGT
*
66336712 GTTTACAAGAAACAAATCGAGGACATAGTAGATTTGACTCTCAGATGTTCTCA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
66336765 AACAGACTCA
Statistics
Matches: 546, Mismatches: 46, Indels: 11
0.91 0.08 0.02
Matches are distributed among these distances:
119 293 0.54
120 35 0.06
121 67 0.12
122 151 0.28
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (119 bp):
TATAGCAGATCTAAACTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTG
TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
Found at i:66336558 original size:241 final size:241
Alignment explanation
Indices: 66336047--66336766 Score: 1214
Period size: 241 Copynumber: 3.0 Consensus size: 241
66336037 TAGGCTGCAG
66336047 TATAGCAGATCT-AGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
1 TATAGCAGATCTAAGC-TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
* * * * * *
66336111 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAG--ATATAGCAA
65 GTTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAG
* * **
66336174 ATCTAAACTTCAGATGTTTATACTAAA-ACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAA
130 ATCTAACCTTCAGATGTTTATACTAAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAA
* *
66336238 GAAACAAATCGAGGACATAGCAAATTTGACTCTCAAACGTTCTCAAA
195 GAAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAAA
* *
66336285 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
66336350 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
66 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
*
66336415 TCTAACCTTCAGATGTTTATACTAAAGCCAAATCCAAGATGATTTGACATTCTTGTGTTTACAAG
131 TCTAACCTTCAGATGTTTATACTAAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
* * *
66336480 GAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTTTCAGA
196 AAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAAA
66336526 TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
66336591 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
66 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
*
66336656 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
131 TCTAACCTTCAGATGTTTATACTAAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
* *
66336721 AAACAAATCGAGGACATAGTAGATTTGACTCTCAGATGTTCTCAAA
196 AAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAAA
66336767 CAGACTCAAG
Statistics
Matches: 451, Mismatches: 27, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
238 110 0.24
239 2 0.00
240 32 0.07
241 307 0.68
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (241 bp):
TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
TCTAACCTTCAGATGTTTATACTAAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
AAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAAA
Found at i:66338581 original size:20 final size:20
Alignment explanation
Indices: 66338548--66338590 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
66338538 CTCTCATAAT
*
66338548 TATTATTTATATATATTATTA
1 TATTATTTACATATATTA-TA
66338569 TATT-TTTACATATATTATA
1 TATTATTTACATATATTATA
66338588 TAT
1 TAT
66338591 ACATATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 12 0.57
21 4 0.19
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTATTTACATATATTATA
Found at i:66338762 original size:19 final size:19
Alignment explanation
Indices: 66338738--66338779 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
66338728 ACATATTACC
66338738 AATTATAT-TATTATGTTTA
1 AATTATATATATTAT-TTTA
66338757 AATTATATATATTATTTTA
1 AATTATATATATTATTTTA
66338776 AATT
1 AATT
66338780 TGTAAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AATTATATATATTATTTTA
Found at i:66339205 original size:30 final size:30
Alignment explanation
Indices: 66339171--66339235 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
66339161 CTTCTATTTG
* * * * *
66339171 TATATCATACATTATTTGATTATTGTTTTT
1 TATATCATACATCACTTAATTATTATTTTA
*
66339201 TATATCATGCATCACTTAATTATTATTTTA
1 TATATCATACATCACTTAATTATTATTTTA
66339231 TATAT
1 TATAT
66339236 TTGTATATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.55
Consensus pattern (30 bp):
TATATCATACATCACTTAATTATTATTTTA
Found at i:66340797 original size:31 final size:30
Alignment explanation
Indices: 66340752--66340851 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 30
66340742 AAATGTTAAA
* *
66340752 AATATATTTATATTTATATTAATTTAATATTT
1 AATA-ATTTTTATTTAT-TTAATTTTATATTT
* *
66340784 AATAATTTTTATTTATTATAATTTTGTATAT
1 AATAATTTTTATTTATT-TAATTTTATATTT
* *
66340815 AATAATCTTAATTT-TTTAATGTTTATATTAT
1 AATAATTTTTATTTATTTAAT-TTTATATT-T
66340846 AATAAT
1 AATAAT
66340852 ATTATGTATT
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
29 4 0.07
30 9 0.16
31 40 0.70
32 4 0.07
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (30 bp):
AATAATTTTTATTTATTTAATTTTATATTT
Found at i:66340851 original size:17 final size:16
Alignment explanation
Indices: 66340758--66340856 Score: 64
Period size: 15 Copynumber: 6.3 Consensus size: 16
66340748 TAAAAATATA
*
66340758 TTTATATTTATATTAAT
1 TTTATA-TTATAATAAT
*
66340775 TTAATATT-TAATAAT
1 TTTATATTATAATAAT
*
66340790 TTT-TATTTATTATAAT
1 TTTATA-TTATAATAAT
*
66340806 TTTGTA-TATAATAAT
1 TTTATATTATAATAAT
* **
66340821 CTTA-ATT-TTTTAAT
1 TTTATATTATAATAAT
66340835 GTTTATATTATAATAAT
1 -TTTATATTATAATAAT
*
66340852 ATTAT
1 TTTAT
66340857 GTATTACTGT
Statistics
Matches: 62, Mismatches: 13, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
14 8 0.13
15 24 0.39
16 18 0.29
17 12 0.19
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTATATTATAATAAT
Found at i:66355527 original size:18 final size:18
Alignment explanation
Indices: 66355504--66355540 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
66355494 TAATAAAGTG
66355504 TGTATAATAAA-ATTGAAA
1 TGTATAA-AAATATTGAAA
66355522 TGTATAAAAATATTGAAA
1 TGTATAAAAATATTGAAA
66355540 T
1 T
66355541 AAGACTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (18 bp):
TGTATAAAAATATTGAAA
Found at i:66364619 original size:46 final size:46
Alignment explanation
Indices: 66364582--66364788 Score: 281
Period size: 46 Copynumber: 4.5 Consensus size: 46
66364572 ATGGAATGTG
*
66364582 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
*
66364628 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
* * *
66364674 TAAGACCATGGTTGAAAGATACAATGGCAACATGACAGGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGAA
* * * *
66364721 TAAGAACATGGTTGAAAGATACCATGGCAACATGACA-GAAAACGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGAA
* * *
66364767 TAAAACTATAGTTGAAAGATAC
1 TAAGACCATGGTTGAAAGATAC
66364789 TATGACATCA
Statistics
Matches: 146, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 105 0.72
47 41 0.28
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
Done.