Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 37 of 205
Found at i:11033209 original size:8 final size:8
Alignment explanation
Indices: 11033196--11033236 Score: 64
Period size: 8 Copynumber: 4.9 Consensus size: 8
11033186 TAATCAATAT
11033196 TTTTTTTC
1 TTTTTTTC
11033204 TTTTTTGATC
1 TTTTTT--TC
11033214 TTTTTTTC
1 TTTTTTTC
11033222 TTTTTTTC
1 TTTTTTTC
11033230 TTTTTTT
1 TTTTTTT
11033237 ACAAGAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 23 0.74
10 8 0.26
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.85
Consensus pattern (8 bp):
TTTTTTTC
Found at i:11033219 original size:18 final size:16
Alignment explanation
Indices: 11033196--11033236 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 16
11033186 TAATCAATAT
11033196 TTTTTTTCTTTTTTGATC
1 TTTTTTTCTTTTTT--TC
11033214 TTTTTTTCTTTTTTTC
1 TTTTTTTCTTTTTTTC
11033230 TTTTTTT
1 TTTTTTT
11033237 ACAAGAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 9 0.39
18 14 0.61
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.85
Consensus pattern (16 bp):
TTTTTTTCTTTTTTTC
Found at i:11034208 original size:23 final size:22
Alignment explanation
Indices: 11034182--11034256 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 22
11034172 AATAAGTCTA
*
11034182 AAAAAATAAATAAAAATAAAAAT
1 AAAAAACAAA-AAAAATAAAAAT
* *
11034205 AAAACAACGAAAAAAATAAACAT
1 AAAA-AACAAAAAAAATAAAAAT
* *
11034228 AAAAAGAAAAAAGAAAACTAAAAAG
1 AAAAA-ACAAAA-AAAA-TAAAAAT
11034253 AAAA
1 AAAA
11034257 CAAATAAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
22 1 0.02
23 23 0.56
24 8 0.20
25 9 0.22
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.09
Consensus pattern (22 bp):
AAAAAACAAAAAAAATAAAAAT
Found at i:11034223 original size:29 final size:28
Alignment explanation
Indices: 11034184--11034249 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
11034174 TAAGTCTAAA
*
11034184 AAAATAAATAAAAATAAAAATAAAACAACG
1 AAAATAAATAAAAATAAAAAGAAAA-AA-G
*
11034214 AAAA-AAATAAACATAAAAAGAAAAAAG
1 AAAATAAATAAAAATAAAAAGAAAAAAG
11034241 AAAACTAAA
1 AAAA-TAAA
11034250 AAGAAAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 5 0.16
28 2 0.06
29 21 0.66
30 4 0.12
ACGTcount: A:0.79, C:0.06, G:0.05, T:0.11
Consensus pattern (28 bp):
AAAATAAATAAAAATAAAAAGAAAAAAG
Found at i:11034225 original size:16 final size:15
Alignment explanation
Indices: 11034181--11034237 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 15
11034171 AAATAAGTCT
*
11034181 AAAAAAATAAATAAA
1 AAAAAAATAAACAAA
*
11034196 AATAAAAATAAAACAACG
1 AA-AAAAAT-AAACAA-A
11034214 AAAAAAATAAACATAA
1 AAAAAAATAAACA-AA
11034230 AAAGAAAA
1 AAA-AAAA
11034238 AAGAAAACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 2 0.06
16 14 0.41
17 16 0.47
18 2 0.06
ACGTcount: A:0.81, C:0.05, G:0.04, T:0.11
Consensus pattern (15 bp):
AAAAAAATAAACAAA
Found at i:11034239 original size:19 final size:19
Alignment explanation
Indices: 11034213--11034256 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
11034203 ATAAAACAAC
11034213 GAAAAAA-ATAAACATAAAAA
1 GAAAAAAGA-AAAC-TAAAAA
11034233 GAAAAAAGAAAACTAAAAA
1 GAAAAAAGAAAACTAAAAA
11034252 GAAAA
1 GAAAA
11034257 CAAATAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.48
20 11 0.48
21 1 0.04
ACGTcount: A:0.80, C:0.05, G:0.09, T:0.07
Consensus pattern (19 bp):
GAAAAAAGAAAACTAAAAA
Found at i:11034251 original size:33 final size:33
Alignment explanation
Indices: 11034179--11034251 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
11034169 CGAAATAAGT
*
11034179 CTAAAAAAATAAATAAAAATAAAAATAAAACAA
1 CTAAAAAAATAAATAAAAAGAAAAATAAAACAA
* *
11034212 CGAAAAAAATAAACATAAAAAGAAAAA-AGAA-AA
1 CTAAAAAAAT-AA-ATAAAAAGAAAAATAAAACAA
11034245 CTAAAAA
1 CTAAAAA
11034252 GAAAACAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
33 17 0.50
34 5 0.15
35 12 0.35
ACGTcount: A:0.78, C:0.07, G:0.04, T:0.11
Consensus pattern (33 bp):
CTAAAAAAATAAATAAAAAGAAAAATAAAACAA
Found at i:11034266 original size:20 final size:19
Alignment explanation
Indices: 11034181--11034266 Score: 76
Period size: 20 Copynumber: 4.7 Consensus size: 19
11034171 AAATAAGTCT
11034181 AAAAAAATAAA-T-AAAA-
1 AAAAAAATAAACTAAAAAG
* * *
11034197 ATAAAAATAAA--ACAACG
1 AAAAAAATAAACTAAAAAG
11034214 AAAAAAATAAACATAAAAAG
1 AAAAAAATAAAC-TAAAAAG
11034234 AAAAAAGA-AAACTAAAAAG
1 AAAAAA-ATAAACTAAAAAG
11034253 AAAACAAATAAACT
1 AAAA-AAATAAACT
11034267 CAATGATCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
16 12 0.21
17 10 0.18
19 12 0.21
20 21 0.38
21 1 0.02
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (19 bp):
AAAAAAATAAACTAAAAAG
Found at i:11035465 original size:9 final size:8
Alignment explanation
Indices: 11035447--11035532 Score: 50
Period size: 9 Copynumber: 10.2 Consensus size: 8
11035437 ATAGCGAAGC
11035447 AAAAAAAT
1 AAAAAAAT
11035455 AAAAGAAAT
1 AAAA-AAAT
*
11035464 AAACATAAT
1 AAA-AAAAT
11035473 -AAAAAAT
1 AAAAAAAT
*
11035480 AGAAAGAAT
1 A-AAAAAAT
11035489 AAATAAGAAT
1 AAA-AA-AAT
*
11035499 -AATAAAT
1 AAAAAAAT
*
11035506 AAGAATAAT
1 AA-AAAAAT
*
11035515 AAATAAAT
1 AAAAAAAT
*
11035523 ATAAAAAT
1 AAAAAAAT
11035531 AA
1 AA
11035533 TAATAAGGAA
Statistics
Matches: 58, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
7 7 0.12
8 21 0.36
9 26 0.45
10 4 0.07
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (8 bp):
AAAAAAAT
Found at i:11035490 original size:19 final size:19
Alignment explanation
Indices: 11035468--11035535 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 19
11035458 AGAAATAAAC
*
11035468 ATAATAAAAAATAGAAAGA
1 ATAATAAAAAATAAAAAGA
11035487 ATAAATAAGAATAATAAATAAGA
1 AT-AATAA-AA-AATAAA-AAGA
*
11035510 ATAATAAATAAATATAAA-A
1 ATAATAAA-AAATAAAAAGA
11035529 ATAATAA
1 ATAATAA
11035536 TAAGGAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
19 10 0.24
20 7 0.17
21 8 0.19
22 11 0.26
23 6 0.14
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (19 bp):
ATAATAAAAAATAAAAAGA
Found at i:11035499 original size:26 final size:24
Alignment explanation
Indices: 11035448--11035529 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 24
11035438 TAGCGAAGCA
* *
11035448 AAAAAATAAAAGAAATAAACATAAT
1 AAAAAATAAAAG-AATAAATAAAAT
11035473 AAAAAATAGAAAGAATAAATAAGAAT
1 AAAAAATA-AAAGAATAAATAA-AAT
* *
11035499 AATAAATAAGAATAATAAATAAATAT
1 AAAAAATAA-AAGAATAAATAAA-AT
11035525 AAAAA
1 AAAAA
11035530 TAATAATAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
25 17 0.35
26 31 0.65
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.18
Consensus pattern (24 bp):
AAAAAATAAAAGAATAAATAAAAT
Found at i:11035502 original size:13 final size:13
Alignment explanation
Indices: 11035486--11035538 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
11035476 AAATAGAAAG
11035486 AATAAATAAGAAT
1 AATAAATAAGAAT
11035499 AATAAATAAGAAT
1 AATAAATAAGAAT
11035512 AATAAATAA-ATAT
1 AATAAATAAGA-AT
*
11035525 AA-AAATAATAAT
1 AATAAATAAGAAT
11035537 AA
1 AA
11035539 GGAAAAGGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.29
13 27 0.71
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (13 bp):
AATAAATAAGAAT
Found at i:11043580 original size:16 final size:16
Alignment explanation
Indices: 11043559--11043591 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11043549 TTACCCAAGT
*
11043559 ACAATGAGCAATGAGA
1 ACAATGAACAATGAGA
11043575 ACAATGAACAATGAGA
1 ACAATGAACAATGAGA
11043591 A
1 A
11043592 AAAAAACATT
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:0.55, C:0.12, G:0.21, T:0.12
Consensus pattern (16 bp):
ACAATGAACAATGAGA
Found at i:11045149 original size:29 final size:28
Alignment explanation
Indices: 11045116--11045197 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 28
11045106 CATTAACATC
*
11045116 AATAAAAGTTATAAATATTATTAAATTTT
1 AATAAAA-TTATAAATATTATTAAAATTT
11045145 AATAAAAAATT-TAAATATTA--AAAATTT
1 AAT--AAAATTATAAATATTATTAAAATTT
*
11045172 AGTAAAATTA-AAATATATATATAAAA
1 AATAAAATTATAAATAT-TAT-TAAAA
11045198 ATCGTAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
25 12 0.27
26 2 0.05
27 8 0.18
29 16 0.36
30 2 0.05
31 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (28 bp):
AATAAAATTATAAATATTATTAAAATTT
Found at i:11045212 original size:19 final size:19
Alignment explanation
Indices: 11045190--11045255 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
11045180 TAAAATATAT
11045190 ATATAAAAATCGTAAAAAA
1 ATATAAAAATCGTAAAAAA
* **
11045209 ATATAAAAAATTGTAAAATT
1 ATAT-AAAAATCGTAAAAAA
* * *
11045229 TTATAAAGATCGTAAAGAA
1 ATATAAAAATCGTAAAAAA
*
11045248 TTATAAAA
1 ATATAAAA
11045256 TATGTAGAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
19 21 0.58
20 15 0.42
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (19 bp):
ATATAAAAATCGTAAAAAA
Found at i:11045509 original size:16 final size:16
Alignment explanation
Indices: 11045488--11045518 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11045478 TTTTATAAAA
11045488 TTTTACAATTTTTATT
1 TTTTACAATTTTTATT
11045504 TTTTACAATTTTTAT
1 TTTTACAATTTTTAT
11045519 AAAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTACAATTTTTATT
Found at i:11045534 original size:36 final size:35
Alignment explanation
Indices: 11045467--11045537 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
11045457 AAAAGTTAAT
** **
11045467 TTTTTTATGATTTTTATAAAATTTTACAATTTTTA
1 TTTTTTACAATTTTTATAAAAAATTACAATTTTTA
*
11045502 TTTTTTACAATTTTTATAAAAAAATTATAATTTTTA
1 TTTTTTACAATTTTTAT-AAAAAATTACAATTTTTA
11045538 ATAAATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 15 0.50
36 15 0.50
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTTTTACAATTTTTATAAAAAATTACAATTTTTA
Found at i:11045568 original size:26 final size:28
Alignment explanation
Indices: 11045531--11045585 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
11045521 AAAAATTATA
*
11045531 ATTTTTAAT-AAATTTAA-ATTTTTTTT
1 ATTTTTAATAAAATTTAATAATTTTTTT
*
11045557 ATTTTTATTAAAATTTAATAATTTTTTT
1 ATTTTTAATAAAATTTAATAATTTTTTT
11045585 A
1 A
11045586 AAATTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.32
27 8 0.32
28 9 0.36
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
ATTTTTAATAAAATTTAATAATTTTTTT
Found at i:11045600 original size:18 final size:19
Alignment explanation
Indices: 11045555--11045601 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
11045545 TAAATTTTTT
11045555 TTATTTTTATTAAAATTTAA
1 TTATTTTT-TTAAAATTTAA
*
11045575 TAATTTTTTTAAAATTT-A
1 TTATTTTTTTAAAATTTAA
11045593 TTATTTTTT
1 TTATTTTTT
11045602 ATAATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 9 0.36
20 7 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTTTTTTAAAATTTAA
Found at i:11053303 original size:18 final size:18
Alignment explanation
Indices: 11053282--11053318 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11053272 AAATTCACAT
11053282 ATTTT-AATAATTTTAAAA
1 ATTTTAAATAA-TTTAAAA
11053300 ATTTTAAATAATTTAAAA
1 ATTTTAAATAATTTAAAA
11053318 A
1 A
11053319 ACTTCTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTAAATAATTTAAAA
Found at i:11053316 original size:9 final size:10
Alignment explanation
Indices: 11053282--11053313 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
11053272 AAATTCACAT
11053282 ATTTT-AATA
1 ATTTTAAATA
11053291 ATTTTAAA-A
1 ATTTTAAATA
11053300 ATTTTAAATA
1 ATTTTAAATA
11053310 ATTT
1 ATTT
11053314 AAAAAACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 14 0.67
10 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
ATTTTAAATA
Found at i:11053319 original size:19 final size:18
Alignment explanation
Indices: 11053282--11053319 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
11053272 AAATTCACAT
*
11053282 ATTTTAATAATTTTAAAA
1 ATTTTAATAATTTAAAAA
11053300 ATTTTAAATAATTTAAAAA
1 ATTTT-AATAATTTAAAAA
11053319 A
1 A
11053320 CTTCTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTTAATAATTTAAAAA
Found at i:11053452 original size:21 final size:21
Alignment explanation
Indices: 11053428--11053479 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
11053418 CATGGTTTCT
*
11053428 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
11053449 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
11053470 AATCTCACCG
1 AATCTCACCG
11053480 TCACCGCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.37, G:0.10, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:11058439 original size:19 final size:19
Alignment explanation
Indices: 11058398--11058440 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11058388 AATTGAACTG
*
11058398 ATTTTTTTATAATTTTTTA
1 ATTTTTTTATAATTTTTAA
11058417 ATTTTTTTAT-ATTTTTAA
1 ATTTTTTTATAATTTTTAA
11058435 TATTTT
1 -ATTTT
11058441 ATTTGCTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTTTTTATAATTTTTAA
Found at i:11058750 original size:7 final size:7
Alignment explanation
Indices: 11058740--11058795 Score: 112
Period size: 7 Copynumber: 8.0 Consensus size: 7
11058730 TATTTTTTGA
11058740 AAAATTT
1 AAAATTT
11058747 AAAATTT
1 AAAATTT
11058754 AAAATTT
1 AAAATTT
11058761 AAAATTT
1 AAAATTT
11058768 AAAATTT
1 AAAATTT
11058775 AAAATTT
1 AAAATTT
11058782 AAAATTT
1 AAAATTT
11058789 AAAATTT
1 AAAATTT
11058796 TTTATTTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAAATTT
Found at i:11058810 original size:6 final size:7
Alignment explanation
Indices: 11058792--11058816 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11058782 AAAATTTAAA
11058792 ATTTTTT
1 ATTTTTT
11058799 ATTTTTT
1 ATTTTTT
11058806 ATTTTTT
1 ATTTTTT
11058813 ATTT
1 ATTT
11058817 AAAATATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
ATTTTTT
Found at i:11059517 original size:16 final size:15
Alignment explanation
Indices: 11059490--11059542 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
11059480 ATTATAACAC
11059490 TAATTATCATATTAT-
1 TAATTAT-ATATTATA
11059505 TAAATTAATATATTATA
1 T-AATT-ATATATTATA
*
11059522 TAATTATATATTTTA
1 TAATTATATATTATA
11059537 T-ATTAT
1 TAATTAT
11059543 CATTAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 5 0.15
15 11 0.32
16 15 0.44
17 3 0.09
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATTATATATTATA
Found at i:11059519 original size:8 final size:7
Alignment explanation
Indices: 11059492--11059601 Score: 50
Period size: 7 Copynumber: 15.9 Consensus size: 7
11059482 TATAACACTA
11059492 ATTATCAT
1 ATTAT-AT
*
11059500 ATTATTAA
1 ATTA-TAT
11059508 ATTAATAT
1 ATT-ATAT
11059516 ATTATAT
1 ATTATAT
11059523 AATTATAT
1 -ATTATAT
*
11059531 ATTTTAT
1 ATTATAT
*
11059538 ATTAT-C
1 ATTATAT
11059544 ATTA-AT
1 ATTATAT
* *
11059550 TTTAGAT
1 ATTATAT
*
11059557 TTTATAT
1 ATTATAT
11059564 ATT-T-T
1 ATTATAT
* *
11059569 AATAAAT
1 ATTATAT
*
11059576 ATTATTT
1 ATTATAT
*
11059583 TTTATAT
1 ATTATAT
11059590 ATT-TAT
1 ATTATAT
*
11059596 AATATA
1 ATTATA
11059602 AATAATTATA
Statistics
Matches: 76, Mismatches: 18, Indels: 17
0.68 0.16 0.15
Matches are distributed among these distances:
5 3 0.04
6 13 0.17
7 38 0.50
8 20 0.26
9 2 0.03
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (7 bp):
ATTATAT
Found at i:11059549 original size:24 final size:22
Alignment explanation
Indices: 11059513--11059563 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
11059503 ATTAAATTAA
*
11059513 TATATTATATAATTATATATTT
1 TATATTATATAATTATAGATTT
*
11059535 TATATTATCATTAATTTTAGATTT
1 TATATTAT-A-TAATTATAGATTT
11059559 TATAT
1 TATAT
11059564 ATTTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.32
23 1 0.04
24 16 0.64
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TATATTATATAATTATAGATTT
Found at i:11071599 original size:32 final size:32
Alignment explanation
Indices: 11071556--11071623 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
11071546 TTCATTTTTA
*
11071556 TTTTTTAATTTTAAAATACTTTTAAAATTATT
1 TTTTTTAATTTTAAAATACTTTTAAAATAATT
* *** *
11071588 TTTTTTTATTTTTTTATATTTTTAAAATAATT
1 TTTTTTAATTTTAAAATACTTTTAAAATAATT
11071620 TTTT
1 TTTT
11071624 AATGTTTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (32 bp):
TTTTTTAATTTTAAAATACTTTTAAAATAATT
Found at i:11074904 original size:9 final size:9
Alignment explanation
Indices: 11074890--11074917 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
11074880 TTTTGTTACA
11074890 ACAATTAAT
1 ACAATTAAT
11074899 ACAATTAAT
1 ACAATTAAT
11074908 ACAATTAAT
1 ACAATTAAT
11074917 A
1 A
11074918 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:11074939 original size:68 final size:66
Alignment explanation
Indices: 11074860--11075001 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
11074850 TCAAGTTTGT
*
11074860 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAAT--AATTAATAATTTGAT
11074925 AAA
64 AAA
11074928 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTAATAATTTGATAA
*
11074993 T
66 A
11074994 TTTACTAA
1 TTTACTAA
11075002 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 25 0.35
68 47 0.65
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTAATAATTTGATAA
A
Found at i:11075011 original size:16 final size:16
Alignment explanation
Indices: 11074990--11075031 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
11074980 AATAATTTGA
*
11074990 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
*
11075006 TAATTTTAATAATAAT
1 TAATTTTAATAACAAT
*
11075022 TAGTTTTAAT
1 TAATTTTAAT
11075032 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:11075015 original size:22 final size:22
Alignment explanation
Indices: 11075011--11075059 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11075001 ACAATTAATT
* * *
11075011 TTAATAATAATTAGTTTTAATT
1 TTAATAAAAAATAATTTTAATT
*
11075033 TTATTAAAAAATAATTTTAATT
1 TTAATAAAAAATAATTTTAATT
11075055 TTAAT
1 TTAAT
11075060 TTAAAACGGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATAAAAAATAATTTTAATT
Found at i:11078224 original size:23 final size:22
Alignment explanation
Indices: 11078169--11078226 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
11078159 TTAGATTTAC
11078169 ATATAAATATATTTACATGAAT
1 ATATAAATATATTTACATGAAT
* *
11078191 -TATTGAAATATATTTCCATGTAT
1 ATA-T-AAATATATTTACATGAAT
11078214 ATATAATATATAT
1 ATATAA-ATATAT
11078227 AATTTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 3 0.10
23 23 0.77
24 2 0.07
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
ATATAAATATATTTACATGAAT
Found at i:11084481 original size:21 final size:21
Alignment explanation
Indices: 11084437--11084482 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
11084427 CCATTCGTTT
* *
11084437 AACATATTCAAAACACGATCA
1 AACATAATCAAAACACGATAA
* *
11084458 AACATAATCAAAACATGCTAA
1 AACATAATCAAAACACGATAA
11084479 AACA
1 AACA
11084483 ATCATCCTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.22, G:0.04, T:0.17
Consensus pattern (21 bp):
AACATAATCAAAACACGATAA
Found at i:11085735 original size:16 final size:16
Alignment explanation
Indices: 11085714--11085744 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11085704 AATTCAATCC
11085714 ATTTCAATCCACTATA
1 ATTTCAATCCACTATA
*
11085730 ATTTCAATTCACTAT
1 ATTTCAATCCACTAT
11085745 CAAAGTGCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTCAATCCACTATA
Found at i:11088805 original size:16 final size:16
Alignment explanation
Indices: 11088786--11088820 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11088776 AAAAAATCCT
11088786 AAACCCTAAAATTAAA
1 AAACCCTAAAATTAAA
**
11088802 AAACCCTAACCTTAAA
1 AAACCCTAAAATTAAA
11088818 AAA
1 AAA
11088821 ATTAAAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (16 bp):
AAACCCTAAAATTAAA
Found at i:11088809 original size:23 final size:22
Alignment explanation
Indices: 11088776--11088818 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11088766 AACCCTTCCA
*
11088776 AAAAAATCCTAAACCCTAAAATT
1 AAAAAACCCT-AACCCTAAAATT
*
11088799 AAAAAACCCTAACCTTAAAA
1 AAAAAACCCTAACCCTAAAA
11088819 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (22 bp):
AAAAAACCCTAACCCTAAAATT
Found at i:11088819 original size:23 final size:24
Alignment explanation
Indices: 11088776--11088828 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
11088766 AACCCTTCCA
*
11088776 AAAAAATCCTAAACCCT-AAAATT
1 AAAAAACCCTAAACCCTAAAAATT
*
11088799 AAAAAACCCT-AACCTTAAAAAAATT
1 AAAAAACCCTAAACCCT--AAAAATT
11088824 AAAAA
1 AAAAA
11088829 CAGTTAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 5 0.20
23 9 0.36
25 11 0.44
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (24 bp):
AAAAAACCCTAAACCCTAAAAATT
Found at i:11093508 original size:38 final size:39
Alignment explanation
Indices: 11093460--11093539 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 39
11093450 GTTTATGAAA
11093460 TTAGGGTTAAGATTTAAGGTTGT-TTAATTTTTAAGTGT
1 TTAGGGTTAAGATTTAAGGTTGTATTAATTTTTAAGTGT
* * * * *
11093498 TTAGGTTTAAGGTTTAGGGTTTTATTTATTTTTAAGTGT
1 TTAGGGTTAAGATTTAAGGTTGTATTAATTTTTAAGTGT
11093537 TTA
1 TTA
11093540 TTAATTATGG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 19 0.53
39 17 0.47
ACGTcount: A:0.24, C:0.00, G:0.23, T:0.54
Consensus pattern (39 bp):
TTAGGGTTAAGATTTAAGGTTGTATTAATTTTTAAGTGT
Found at i:11093565 original size:41 final size:40
Alignment explanation
Indices: 11093482--11093582 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 40
11093472 TTTAAGGTTG
11093482 TTTAATTTTTAAGTGTTTAGGTTTAAGGTTTAGGGTTTTA
1 TTTAATTTTTAAGTGTTTAGGTTTAAGGTTTAGGGTTTTA
* *
11093522 TTT-ATTTTTAAGTGTTTA-TTAATTATGGATTTAGGGTTTTA
1 TTTAATTTTTAAGTGTTTAGGT--TTAAGG-TTTAGGGTTTTA
*
11093563 TTTAATTTTT-AGGGTTTAGG
1 TTTAATTTTTAAGTGTTTAGG
11093583 GATTCTAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
38 1 0.02
39 15 0.29
40 8 0.15
41 22 0.42
42 6 0.12
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (40 bp):
TTTAATTTTTAAGTGTTTAGGTTTAAGGTTTAGGGTTTTA
Found at i:11093645 original size:29 final size:29
Alignment explanation
Indices: 11093585--11093673 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 29
11093575 GGTTTAGGGA
11093585 TTCTAAAAAAATAAATTTT-AGAAGATAGG
1 TTCTAAAAAAAT-AATTTTGAGAAGATAGG
**
11093614 TTCTAAAAAAATAATTTTGAGGGGAT-GAG
1 TTCTAAAAAAATAATTTTGAGAAGATAG-G
* * * *
11093643 TTCTGAAGAAATAATTTTGACAAGATGGG
1 TTCTAAAAAAATAATTTTGAGAAGATAGG
11093672 TT
1 TT
11093674 GAGTTTTGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
28 7 0.14
29 42 0.84
30 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (29 bp):
TTCTAAAAAAATAATTTTGAGAAGATAGG
Found at i:11100250 original size:20 final size:18
Alignment explanation
Indices: 11100206--11100256 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
11100196 AATTAAAAGT
11100206 TTTTTTTTAAAAAAACTA
1 TTTTTTTTAAAAAAACTA
* *
11100224 TTGTTTTTAAAAAAATTA
1 TTTTTTTTAAAAAAACTA
11100242 TGATTTTTTTAAAAA
1 T--TTTTTTTAAAAA
11100257 GTTTTTATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 17 0.61
20 11 0.39
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTTTTTTAAAAAAACTA
Found at i:11101449 original size:18 final size:17
Alignment explanation
Indices: 11101426--11101464 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
11101416 CAAATGCTTA
11101426 TTTTTGTAATTAATATAT
1 TTTTTGTAATTAAT-TAT
11101444 TTTTTGTAATTAATTAT
1 TTTTTGTAATTAATTAT
11101461 TTTT
1 TTTT
11101465 ACATTAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTTTGTAATTAATTAT
Found at i:11106251 original size:49 final size:49
Alignment explanation
Indices: 11106191--11106431 Score: 150
Period size: 50 Copynumber: 4.7 Consensus size: 49
11106181 GATAATAACA
* *
11106191 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTTCTTATACG
* * * * *
11106240 TGCCAATGCCATATCCCAGATATGGTCTGACATGAGAG-TTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTTCTTATA-C-G
* ** ** * *
11106290 TGTCC-ATGCCATGTCCTAGACATGGTCTTACGGGGGA-CCTCTCATCTCGG
1 TG-CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTTCTTAT-AC-G
** * * *
11106340 TGCCAACACCATGTCCCAGACATGGTCTTACATGGCACCTCTCATAGCCTTA-ATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GT-T--T---CTTATACG
11106395 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
11106432 GCCTCTTTAC
Statistics
Matches: 146, Mismatches: 30, Indels: 25
0.73 0.15 0.12
Matches are distributed among these distances:
47 6 0.04
48 2 0.01
49 34 0.23
50 64 0.44
51 2 0.01
55 2 0.01
56 33 0.23
58 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTTCTTATACG
Found at i:11116791 original size:6 final size:6
Alignment explanation
Indices: 11116780--11116840 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
11116770 GTTTTTTTAT
** *
11116780 TTAATA TTAATA -TAATTA TTTTTA TT--TA ATAATA TTAATA TTAATA
1 TTAATA TTAATA TTAA-TA TTAATA TTAATA TTAATA TTAATA TTAATA
11116826 TTAATA TTAAT- TTAA
1 TTAATA TTAATA TTAA
11116841 AATTTAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
4 3 0.06
5 7 0.15
6 36 0.77
7 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTAATA
Found at i:11116849 original size:6 final size:7
Alignment explanation
Indices: 11116834--11116865 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
11116824 TATTAATATT
11116834 AATTTAA
1 AATTTAA
11116841 AATTTAA
1 AATTTAA
*
11116848 ATTTTAA
1 AATTTAA
11116855 AATTTAA
1 AATTTAA
11116862 AATT
1 AATT
11116866 ATCATTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
AATTTAA
Found at i:11117141 original size:29 final size:29
Alignment explanation
Indices: 11117108--11117210 Score: 102
Period size: 29 Copynumber: 3.5 Consensus size: 29
11117098 CAATCTCAAT
*
11117108 TAGTTGGGTGACCAATTTTAAA-AAGTTCA
1 TAGTTGGGTGACCAA-TTTAAACAAATTCA
*** *
11117137 TAGTTGGGTGACCAAAAAAGAAACAAATCCA
1 TAGTTGGGTGACC--AATTTAAACAAATTCA
*
11117168 TAGTT-GGTGACCAATTTAAATAAATTCA
1 TAGTTGGGTGACCAATTTAAACAAATTCA
*
11117196 TAGTTGCGTGACCAA
1 TAGTTGGGTGACCAA
11117211 AAAAGAAAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
28 16 0.27
29 21 0.36
30 10 0.17
31 12 0.20
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (29 bp):
TAGTTGGGTGACCAATTTAAACAAATTCA
Found at i:11117173 original size:31 final size:30
Alignment explanation
Indices: 11117135--11117239 Score: 106
Period size: 31 Copynumber: 3.5 Consensus size: 30
11117125 TTAAAAAGTT
11117135 CATAGTTGGGTGACCAAAAAAGAAACAAATC
1 CATAGTTGGGTGACCAAAAAAGAAA-AAATC
*** * *
11117166 CATAGTT-GGTGACCAATTTA-AATAAATT
1 CATAGTTGGGTGACCAAAAAAGAAAAAATC
* *
11117194 CATAGTTGCGTGACCAAAAAAGAAAATGATC
1 CATAGTTGGGTGACCAAAAAAGAAAA-AATC
*
11117225 CATAATTGGGTGACC
1 CATAGTTGGGTGACC
11117240 TATGGTGTAC
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
28 11 0.19
29 11 0.19
30 13 0.23
31 22 0.39
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (30 bp):
CATAGTTGGGTGACCAAAAAAGAAAAAATC
Found at i:11117220 original size:28 final size:27
Alignment explanation
Indices: 11117128--11117220 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 27
11117118 ACCAATTTTA
11117128 AAAAGTTCATAGTTGGGTGACCAAAAAAG
1 AAAA-TTCATAGTT-GGTGACCAAAAAAG
* *
11117157 AAACAAATCCATAGTTGGTGACCAATTTAAA-
1 --A-AAATTCATAGTTGGTGACCAA--AAAAG
*
11117188 TAAATTCATAGTTGCGTGACCAAAAAAG
1 AAAATTCATAGTTG-GTGACCAAAAAAG
11117216 AAAAT
1 AAAAT
11117221 GATCCATAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
27 3 0.06
28 16 0.31
29 8 0.16
30 9 0.18
31 9 0.18
32 6 0.12
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (27 bp):
AAAATTCATAGTTGGTGACCAAAAAAG
Found at i:11117226 original size:59 final size:60
Alignment explanation
Indices: 11117108--11117239 Score: 189
Period size: 59 Copynumber: 2.2 Consensus size: 60
11117098 CAATCTCAAT
* *
11117108 TAGTTGGGTGACCAATTTTAAAAAGTTCATAGTTGGGTGACCAAAAAAGAAACAAATCCA
1 TAGTTGGGTGACCAATTTTAAAAAATTCATAGTTGCGTGACCAAAAAAGAAACAAATCCA
*
11117168 TAGTT-GGTGACCAA-TTTAAATAAATTCATAGTTGCGTGACCAAAAAAGAAA-ATGATCCA
1 TAGTTGGGTGACCAATTTTAAA-AAATTCATAGTTGCGTGACCAAAAAAGAAACA-AATCCA
*
11117227 TAATTGGGTGACC
1 TAGTTGGGTGACC
11117240 TATGGTGTAC
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
58 7 0.11
59 46 0.71
60 12 0.18
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (60 bp):
TAGTTGGGTGACCAATTTTAAAAAATTCATAGTTGCGTGACCAAAAAAGAAACAAATCCA
Found at i:11122900 original size:18 final size:18
Alignment explanation
Indices: 11122877--11122919 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
11122867 CATATATGAT
11122877 GACCAATCTTATCAATTG
1 GACCAATCTTATCAATTG
11122895 GACCAATCTTATCAATTG
1 GACCAATCTTATCAATTG
*
11122913 GAACAAT
1 GACCAAT
11122920 GTTCACGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (18 bp):
GACCAATCTTATCAATTG
Found at i:11127352 original size:13 final size:13
Alignment explanation
Indices: 11127334--11127358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11127324 TTCACTTGCA
11127334 AGAGAGAGAGCCT
1 AGAGAGAGAGCCT
11127347 AGAGAGAGAGCC
1 AGAGAGAGAGCC
11127359 CTTATCTCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.40, T:0.04
Consensus pattern (13 bp):
AGAGAGAGAGCCT
Found at i:11129913 original size:4 final size:4
Alignment explanation
Indices: 11129904--11129929 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11129894 TGGATTTGAA
11129904 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
11129930 TAGGAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:11142878 original size:44 final size:44
Alignment explanation
Indices: 11142312--11142877 Score: 819
Period size: 44 Copynumber: 12.9 Consensus size: 44
11142302 ATCACAAAGC
* *
11142312 CCTATCTCCCTGACCAGTAGTGGAATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* * * *
11142356 CCTAGCTCCCTGAACAGTAGTGGAATAAGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* *
11142400 CCTATCTCCCTGACCAGTAGTAGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* *
11142444 CTTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
11142488 CATATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAG-
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* * *
11142531 CCTGATCTCCCTGACAAGTATTGGAATAGGTTGAAGATTGCAAGT
1 CCT-ATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* *
11142576 CCTATCTCCTTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGC
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* * **
11142620 CCTATCTCCTTGACCAGCAGTGAAATAGGTTGAAGATTGTGAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* * * *
11142664 CCTATCTCCTTGATCAGCATTAGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* * *
11142708 CCTATCTCCTTGACCAGCATTAGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
11142752 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
11142796 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTACAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
** * * *
11142840 TTTATCTCCCTAACCAACAGTGGAATAGGTGGAAGATT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATT
11142878 AGTTTCTATG
Statistics
Matches: 477, Mismatches: 43, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
43 2 0.00
44 472 0.99
45 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
Found at i:11143421 original size:20 final size:19
Alignment explanation
Indices: 11143393--11143430 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
11143383 AGACAGGGGG
11143393 TTTTCTTTGGTTTTATTTTA
1 TTTTCTTTGGTTTT-TTTTA
*
11143413 TTTTTTTTGGTTTTTTTT
1 TTTTCTTTGGTTTTTTTT
11143431 CACACAGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.05, C:0.03, G:0.11, T:0.82
Consensus pattern (19 bp):
TTTTCTTTGGTTTTTTTTA
Found at i:11152758 original size:29 final size:30
Alignment explanation
Indices: 11152723--11152780 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
11152713 TTTTGAAGAA
**
11152723 AAATTTTAGAATTTTTTACTTAT-ATTTTG
1 AAATTTTAGAAAATTTTACTTATAATTTTG
*
11152752 AAATTTTAGAAAATTTTATTTATAATTTT
1 AAATTTTAGAAAATTTTACTTATAATTTT
11152781 TATTTTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (30 bp):
AAATTTTAGAAAATTTTACTTATAATTTTG
Found at i:11161443 original size:19 final size:19
Alignment explanation
Indices: 11161416--11161453 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11161406 TTTAAAGTTG
*
11161416 TTTAGGTAGATAAATCTTA
1 TTTAAGTAGATAAATCTTA
11161435 TTTAAGTAGATAAATCTTA
1 TTTAAGTAGATAAATCTTA
11161454 AAATAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.42
Consensus pattern (19 bp):
TTTAAGTAGATAAATCTTA
Found at i:11161569 original size:41 final size:41
Alignment explanation
Indices: 11161477--11161556 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
11161467 GAGATATTCT
* *
11161477 AAGAA-TATTTT-ATTATATTTTAGTAGTTTATTAGAATAA
1 AAGAATTATTTTCCTTATATTTCAGTAGTTTATTAGAATAA
*
11161516 AAGAATTATTTTCCTTATCTTTCAGTAGTTTATTAGAATAA
1 AAGAATTATTTTCCTTATATTTCAGTAGTTTATTAGAATAA
11161557 GGGAATTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 5 0.14
40 6 0.17
41 25 0.69
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (41 bp):
AAGAATTATTTTCCTTATATTTCAGTAGTTTATTAGAATAA
Found at i:11165268 original size:19 final size:19
Alignment explanation
Indices: 11165244--11165282 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11165234 TATTTTAAAA
*
11165244 TTATTTAGGTAGATAAATC
1 TTATTTAAGTAGATAAATC
11165263 TTATTTAAGTAGATAAATC
1 TTATTTAAGTAGATAAATC
11165282 T
1 T
11165283 AAGAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (19 bp):
TTATTTAAGTAGATAAATC
Found at i:11174836 original size:14 final size:13
Alignment explanation
Indices: 11174797--11174829 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
11174787 TTAATTCTCG
11174797 ATTTTTTA-TCTTA
1 ATTTTTTACT-TTA
11174810 ATTTTTTACTTTA
1 ATTTTTTACTTTA
11174823 ATTTTTT
1 ATTTTTT
11174830 GGATTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 18 0.95
14 1 0.05
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTTTTACTTTA
Found at i:11183448 original size:92 final size:91
Alignment explanation
Indices: 11183291--11183499 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
11183281 TTGATTTTAG
* * *
11183291 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
11183356 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
11183383 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
11183447 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
11183475 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
11183500 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:11183462 original size:24 final size:25
Alignment explanation
Indices: 11183427--11183474 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
11183417 TTATGAAATT
11183427 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
11183451 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
11183475 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:11183594 original size:59 final size:56
Alignment explanation
Indices: 11183504--11183812 Score: 161
Period size: 54 Copynumber: 5.2 Consensus size: 56
11183494 TTATTAGTTA
*
11183504 TAATTATTTTAAA-TTTTATTAA--ATCATATATTTTAATTAAAATATATTTAATAT
1 TAATTA-TTTAAATTTTTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
* * **
11183558 TAATTATTTCAAATTTTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TAATTATTT-AAATTTT-TTTTA-AGTATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
11183623 T
56 T
* * * *
11183624 TAATTA-TTAAGAATTTTTTTAA--ATTATATAGTTTAATTAAAATATATTTAATAA
1 TAATTATTTAA-ATTTTTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
* * **
11183678 TAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAAT
1 TAATTAT-TTAAATTT-T-TTTTA-AGTATCATATATT-TTAATT-A--AAA-T-ATAT-TTAAT
11183742 AT
55 AT
* * * *
11183744 TAATTA-TTAAGAATTTTATTAA--ATTATATATTTTAATTAAAATATATTTAATAA
1 TAATTATTTAA-ATTTTTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
11183798 TAATCATATTTAAAT
1 TAAT--TATTTAAAT
11183813 ATGATTAAAA
Statistics
Matches: 192, Mismatches: 30, Indels: 64
0.67 0.10 0.22
Matches are distributed among these distances:
53 3 0.02
54 30 0.16
55 13 0.07
56 16 0.08
57 12 0.06
59 20 0.10
60 16 0.08
61 19 0.10
63 8 0.04
64 15 0.08
65 16 0.08
66 24 0.12
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (56 bp):
TAATTATTTAAATTTTTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
Found at i:11183624 original size:66 final size:62
Alignment explanation
Indices: 11183553--11183760 Score: 175
Period size: 66 Copynumber: 3.3 Consensus size: 62
11183543 AAATATATTT
11183553 AATATTAATTATTTCAAATTTTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-TTTTA-AGTATCATATATTATGATTTGAGTAAATT-ATATAA
11183618 G
62 G
* * * * **
11183619 AATATTAATTA-TTAAGAATTTTTTTAA--AT--TATA-TA-G-TTTAATTAAAATATAT-TT
1 AATATTAATTATTTAA-ATTTTTTTTAAGTATCATATATTATGATTTGAGTAAATTATATAAG
*
11183673 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATA
1 AATATTAATTAT-TTAAATTT-T-TTTTA-AGTATCATATATTATGATTTGAGTAAATT-ATATA
11183737 AG
61 AG
*
11183739 AATATTAATTATTAAGAATTTT
1 AATATTAATTATTTA-AATTTT
11183761 ATTAAATTAT
Statistics
Matches: 110, Mismatches: 15, Indels: 34
0.69 0.09 0.21
Matches are distributed among these distances:
54 13 0.12
55 6 0.05
56 16 0.15
57 2 0.02
58 2 0.02
59 6 0.05
61 6 0.05
62 2 0.02
63 2 0.02
64 16 0.15
65 11 0.10
66 23 0.21
67 5 0.05
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (62 bp):
AATATTAATTATTTAAATTTTTTTTAAGTATCATATATTATGATTTGAGTAAATTATATAAG
Found at i:11183653 original size:120 final size:120
Alignment explanation
Indices: 11183515--11183801 Score: 479
Period size: 120 Copynumber: 2.4 Consensus size: 120
11183505 AATTATTTTA
* * *
11183515 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
* *
11183578 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
* *
11183635 AATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
11183700 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
11183755 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAAT
11183802 CATATTTAAA
Statistics
Matches: 156, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
119 5 0.03
120 149 0.96
121 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
Found at i:11183784 original size:18 final size:17
Alignment explanation
Indices: 11183756--11183790 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11183746 ATTATTAAGA
*
11183756 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11183773 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11183791 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11183806 original size:16 final size:15
Alignment explanation
Indices: 11183769--11183810 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
11183759 TTATTAAATT
11183769 ATATATTTTAATTAAA
1 ATATA-TTTAATTAAA
11183785 ATATATTTAA-TAATA
1 ATATATTTAATTAA-A
11183800 ATCATATTTAA
1 AT-ATATTTAA
11183811 ATATGATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 8 0.33
16 13 0.54
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATTTAATTAAA
Found at i:11183950 original size:15 final size:15
Alignment explanation
Indices: 11183924--11183964 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
11183914 TTATTAAATT
11183924 ATATATTTTAATTAAA
1 ATATA-TTTAATTAAA
11183940 ATATATTTAATTAAA
1 ATATATTTAATTAAA
* *
11183955 TTATGTTTAA
1 ATATATTTAA
11183965 ATATGATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATATATTTAATTAAA
Found at i:11184040 original size:154 final size:155
Alignment explanation
Indices: 11183751--11184057 Score: 526
Period size: 154 Copynumber: 2.0 Consensus size: 155
11183741 TATTAATTAT
11183751 TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATCATATTTAAATATG
1 TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATCATATTTAAATATG
* *
11183816 ATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAATCAT
66 ATTAAAATATTAATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCAT
*
11183881 CTACCAAAACAATTTTCTGCTAATA
131 CTACCAAAACAATTTTATGCTAATA
* * * *
11183906 TAAGCATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTA-AATTATGTTTAAATATG
1 TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATCATATTTAAATATG
*
11183970 ATTAAAATATTAATTACTGATAATAATAATCTTTTTAAAATTTAAATAACAATAACAATAATCAT
66 ATTAAAATATTAATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCAT
*
11184035 TTACCAAAACAATTTTATGCTAA
131 CTACCAAAACAATTTTATGCTAA
11184058 GGGTATTCTA
Statistics
Matches: 143, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
154 98 0.69
155 45 0.31
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (155 bp):
TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATCATATTTAAATATG
ATTAAAATATTAATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCAT
CTACCAAAACAATTTTATGCTAATA
Found at i:11184201 original size:16 final size:16
Alignment explanation
Indices: 11184180--11184215 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
11184170 GATTGGCTAT
11184180 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11184196 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11184212 TACA
1 TACA
11184216 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11185575 original size:29 final size:25
Alignment explanation
Indices: 11185525--11185576 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
11185515 AGATTACTTG
11185525 TTTGAATTTAATTACAAACAATTAA
1 TTTGAATTTAATTACAAACAATTAA
*
11185550 TTTGAATTTAATTACAAACAATCAA
1 TTTGAATTTAATTACAAACAATTAA
11185575 TT
1 TT
11185577 CTTAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (25 bp):
TTTGAATTTAATTACAAACAATTAA
Found at i:11187001 original size:14 final size:14
Alignment explanation
Indices: 11186984--11187020 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
11186974 GTGCAAGACC
11186984 GGAGGTGGATCGGT
1 GGAGGTGGATCGGT
11186998 GGAGGTGGATCGGT
1 GGAGGTGGATCGGT
11187012 GGAGGTGGA
1 GGAGGTGGA
11187021 GGTAGCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.16, C:0.05, G:0.59, T:0.19
Consensus pattern (14 bp):
GGAGGTGGATCGGT
Found at i:11187515 original size:5 final size:5
Alignment explanation
Indices: 11187505--11187531 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11187495 TAATATGAAA
11187505 CCGGG CCGGG CCGGG CCGGG CCGGG CC
1 CCGGG CCGGG CCGGG CCGGG CCGGG CC
11187532 CAGGCCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.44, G:0.56, T:0.00
Consensus pattern (5 bp):
CCGGG
Found at i:11189274 original size:114 final size:113
Alignment explanation
Indices: 11189099--11189305 Score: 324
Period size: 114 Copynumber: 1.8 Consensus size: 113
11189089 AAAATAAGCA
* * *
11189099 TTAGCGGCGTTTTCCAGAAAGCGCCGCAAAAAACCTAAGCCCAATGATGCCATTTTCTGAGCATT
1 TTAGCGGCATTTTCCAGAAAGCGCCGAAAAAAACCTAAGCCCAACGATGCCATTTTCTGAGCATT
11189164 CTGGAATTTAGCGGCGTTTTTAAGAAAGAACCGCTAATGCTCAGGGCT
66 CTGGAATTTAGCGGCGTTTTTAAGAAAGAACCGCTAATGCTCAGGGCT
** * * *
11189212 TTAGCGGCATTTTTGAGAAAGCGCCATAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCAT
1 TTAGCGGCATTTTCCAGAAAGCGCC-GAAAAAAACCTAAGCCCAACGATGCCATTTTCTGAGCAT
*
11189277 TCTGGGATTTAGCGGCGTTTTTAAGAAAG
65 TCTGGAATTTAGCGGCGTTTTTAAGAAAG
11189306 CGCCGCAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
113 22 0.26
114 62 0.74
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (113 bp):
TTAGCGGCATTTTCCAGAAAGCGCCGAAAAAAACCTAAGCCCAACGATGCCATTTTCTGAGCATT
CTGGAATTTAGCGGCGTTTTTAAGAAAGAACCGCTAATGCTCAGGGCT
Found at i:11189362 original size:72 final size:73
Alignment explanation
Indices: 11189211--11189383 Score: 260
Period size: 73 Copynumber: 2.4 Consensus size: 73
11189201 TGCTCAGGGC
* ** * *
11189211 TTTAGCGGCATTTTTGAGAAAGCGCCATAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCA
1 TTTAGCGGCATTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGAA
*
11189276 TTCTGGGA
66 TTCGGGGA
*
11189284 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCG-TTTTTGAGTA
1 TTTAGCGGCATTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAG-A
11189348 ATT-GGGGA
65 ATTCGGGGA
11189356 TTTAGCGGCATTTTTAAGAAAGCGCCGC
1 TTTAGCGGCATTTTTAAGAAAGCGCCGC
11189384 TAATGCTCAG
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
72 39 0.43
73 52 0.57
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (73 bp):
TTTAGCGGCATTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGAA
TTCGGGGA
Found at i:11189496 original size:115 final size:112
Alignment explanation
Indices: 11189284--11189498 Score: 333
Period size: 115 Copynumber: 1.9 Consensus size: 112
11189274 CATTCTGGGA
*
11189284 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTGAGTAA
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTTGAGT-A
11189349 TTGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
65 TTGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * *
11189397 TTTAGCGGCGTTTTTGAGAAAGCGTCGCAAAAAAACCCTAAGCCCAACTACGCCATTTTCTGAGC
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAA-CCTAAGCCCAACGACGCCATTTT-TGAG-
*
11189462 T-TTCGGGGATTTAGCGGCATTTTTGAGAAAGCGCCGC
63 TATT-GGGGATTTAGCGGCATTTTTAAGAAAGCGCCGC
11189499 AAAAAAATCT
Statistics
Matches: 93, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
113 33 0.35
114 23 0.25
115 36 0.39
116 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (112 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTTGAGTAT
TGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:11189497 original size:187 final size:186
Alignment explanation
Indices: 11189099--11189685 Score: 867
Period size: 187 Copynumber: 3.1 Consensus size: 186
11189089 AAAATAAGCA
** * * *
11189099 TTAGCGGCGTTTTCCAGAAAGCGCCGC-AAAAAACCTAAGCCCAATGATGCCATTTTCTGAGCAT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAT
* * **
11189163 TCTGGAATTTAGCGGCGTTTTTAAGAAAGAACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGA
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGA
* * *
11189228 GAAAGCGC-CATAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCATTCTGGGAT
131 GAAAGCGCGC--AAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGAT
*
11189285 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT-TGAGTAA
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAG-CA
* *
11189349 TT-GGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
65 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG
* * *
11189413 AGAAAGCGTCGCAAAAAAACCCTAAGCCCAACTACGCCATTTTCTGAGCTTTCGGGGAT
130 AGAAAGCG-CGCAAAAAAA-CCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGAT
* * * * *
11189472 TTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAATCTAAGCTCAACGACGTCGTTTTCTGAGCAT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAT
11189537 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGA
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGA
*
11189602 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAGTCGGGGAT
131 GAAAGCG-CGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGAT
*
11189659 TTAGCGGTGTTTTTAAGAAAGCGCCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGC
11189686 TAATGCTCAG
Statistics
Matches: 360, Mismatches: 34, Indels: 13
0.88 0.08 0.03
Matches are distributed among these distances:
186 100 0.28
187 177 0.49
188 83 0.23
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (186 bp):
TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGA
GAAAGCGCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGAT
Found at i:11189545 original size:73 final size:74
Alignment explanation
Indices: 11189397--11189571 Score: 262
Period size: 73 Copynumber: 2.4 Consensus size: 74
11189387 TGCTCAGGGC
* *
11189397 TTTAGCGGCGTTTTTGAGAAAGCGTCGCAAAAAAACCCTAAGCCCAACTACGCCATTTTCTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCCTAAGCCCAACGACGCCATTTTCTGAGC
*
11189462 TTTCGGGGA
66 ATTCGGGGA
* * * * *
11189471 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAA-TCTAAGCTCAACGACGTCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCCTAAGCCCAACGACGCCATTTTCTGAGC
11189535 ATTCGGGGA
66 ATTCGGGGA
*
11189544 TTTAGCGGCGTTTTTAAGAAAGCGCCGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC
11189572 TAATGCTCAG
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 58 0.64
74 33 0.36
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (74 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCCTAAGCCCAACGACGCCATTTTCTGAGC
ATTCGGGGA
Found at i:11189758 original size:229 final size:230
Alignment explanation
Indices: 11189471--11189929 Score: 733
Period size: 229 Copynumber: 2.0 Consensus size: 230
11189461 CTTTCGGGGA
* *
11189471 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAATCTAAGCTCAACGACGTCGTTTTCTGAGCA
1 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAATCTAAGCTCAACGACGCCGTTTTCAGAGCA
* ** *
11189536 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG
66 TTCGGGGATTTAGCGGCGCTTTTAAGAAAGAACCGCTAATGCCCAGGGCTTTAGCGGCATTTTTG
11189601 AGAAAGCGCCGC-AAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAGTCGGGGATTTAGCG
131 AGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAGTCGGGGATTTAGCG
*
11189665 GTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGTT
196 GCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGTT
* ** *
11189700 TTTAGCGGCGTTTTTGAGAAAGCGCCTTAAAAAAATCTAATC-CGAACGACGCCGTTTTCAGAGC
1 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAATCTAAGCTC-AACGACGCCGTTTTCAGAGC
*
11189764 ATTCGGGGATTTAGCGGCGCTTTTAAGAAAGAACCGCTAATGCCCAGGGCTTTAGCGGCGTTTTT
65 ATTCGGGGATTTAGCGGCGCTTTTAAGAAAGAACCGCTAATGCCCAGGGCTTTAGCGGCATTTTT
* * **
11189829 GAGAAAGCGCCGCAAAAAAAAAACCTAAGCTCAACGACGCTGTTTTCTGAGCTTTCGGGGATTTA
130 GAGAAAGCGCCGC--AAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAGTCGGGGATTTA
11189894 GCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGG
193 GCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGG
11189930 CTTTCTCAAA
Statistics
Matches: 210, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
228 1 0.00
229 129 0.61
232 80 0.38
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (230 bp):
TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAATCTAAGCTCAACGACGCCGTTTTCAGAGCA
TTCGGGGATTTAGCGGCGCTTTTAAGAAAGAACCGCTAATGCCCAGGGCTTTAGCGGCATTTTTG
AGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAGTCGGGGATTTAGCG
GCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGTT
Found at i:11189764 original size:115 final size:114
Alignment explanation
Indices: 11189471--11189933 Score: 703
Period size: 114 Copynumber: 4.0 Consensus size: 114
11189461 CTTTCGGGGA
* *
11189471 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAATCTAAGCTCAACGACGTCGTTTTCTGAGCA
1 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCTCAACGACGCCGTTTTCTGAGCA
11189536 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
*
11189585 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCA
1 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCTCAACGACGCCGTTTTCTGAGCA
* * *
11189650 GTCGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGTT
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGG-C
* ** * * *
11189700 TTTAGCGGCGTTTTTGAGAAAGCGCCTTAAAAAAATCTAATC-CGAACGACGCCGTTTTCAGAGC
1 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCTC-AACGACGCCGTTTTCTGAGC
* ** *
11189764 ATTCGGGGATTTAGCGGCGCTTTTAAGAAAGAACCGCTAATGCCCAGGGC
65 ATTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
11189814 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAAAACCTAAGCTCAACGACGCTGTTTTCTGA
1 TTTAGCGGCATTTTTGAGAAAGCGCCGC---AAAAAAACCTAAGCTCAACGACGCCGTTTTCTGA
*
11189879 GCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
63 GCATTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
11189931 TTT
1 TTT
11189934 CTCAAAAGCA
Statistics
Matches: 313, Mismatches: 30, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
114 135 0.43
115 99 0.32
117 78 0.25
118 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCTCAACGACGCCGTTTTCTGAGCA
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:11190188 original size:15 final size:15
Alignment explanation
Indices: 11190160--11190229 Score: 58
Period size: 15 Copynumber: 4.8 Consensus size: 15
11190150 GGTTTAAAGG
* *
11190160 TTATGTGTTAAGGGT
1 TTATGGGTTTAGGGT
11190175 TTATGGGTTTAGGGT
1 TTATGGGTTTAGGGT
11190190 TT-TAGGGTTTTAGGGT
1 TTAT-GGG-TTTAGGGT
* *
11190206 TTA--AGTTTATGGT
1 TTATGGGTTTAGGGT
11190219 TTA-GGGTTTAG
1 TTATGGGTTTAG
11190230 ATTAACTAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
13 10 0.22
14 7 0.16
15 18 0.40
16 10 0.22
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (15 bp):
TTATGGGTTTAGGGT
Found at i:11190191 original size:7 final size:7
Alignment explanation
Indices: 11190170--11190229 Score: 68
Period size: 8 Copynumber: 8.3 Consensus size: 7
11190160 TTATGTGTTA
11190170 AGGGTTT
1 AGGGTTT
11190177 ATGGGTTT
1 A-GGGTTT
11190185 AGGGTTTT
1 AGGG-TTT
11190193 AGGGTTTT
1 AGGG-TTT
11190201 AGGGTTT
1 AGGGTTT
*
11190208 A-AGTTT
1 AGGGTTT
*
11190214 ATGGTTT
1 AGGGTTT
11190221 AGGGTTT
1 AGGGTTT
11190228 AG
1 AG
11190230 ATTAACTAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
6 5 0.11
7 20 0.43
8 22 0.47
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (7 bp):
AGGGTTT
Found at i:11190520 original size:21 final size:20
Alignment explanation
Indices: 11190486--11190526 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
11190476 TATGGATTTA
*
11190486 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
11190506 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
11190527 AGTAGTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:11190557 original size:22 final size:22
Alignment explanation
Indices: 11190532--11190578 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11190522 GGGTTAGTAG
*
11190532 TTAGAGGTTAAGAGTTAGGGAT
1 TTAGAGGTTAAGAGTTAAGGAT
* * *
11190554 TTAGGGGTTAGGATTTAAGGAT
1 TTAGAGGTTAAGAGTTAAGGAT
11190576 TTA
1 TTA
11190579 AGGATTCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.34, T:0.36
Consensus pattern (22 bp):
TTAGAGGTTAAGAGTTAAGGAT
Found at i:11193682 original size:4 final size:4
Alignment explanation
Indices: 11193675--11193721 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
11193665 AATATAGATA
11193675 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
11193722 CTAATATACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:11194257 original size:6 final size:7
Alignment explanation
Indices: 11194225--11194258 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
11194215 ACATAATATA
11194225 TAAATTC
1 TAAATTC
11194232 TAAATTC
1 TAAATTC
11194239 TAAATTC
1 TAAATTC
11194246 TAAATT-
1 TAAATTC
11194252 TAAATTC
1 TAAATTC
11194259 ATTAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
TAAATTC
Found at i:11194494 original size:43 final size:43
Alignment explanation
Indices: 11194433--11194538 Score: 194
Period size: 43 Copynumber: 2.5 Consensus size: 43
11194423 AGTCATGATA
*
11194433 GAAAAGCGTCGCTAAAGGTCTTATTCTTTAGCGGCGTTTGTGT
1 GAAAAGCGTCGCTAAAGGTCTTATTCTTTAGCGGCGTTTGTGG
11194476 GAAAAGCGTCGCTAAAGGTCTTATTCTTTAGCGGCGTTTGTGG
1 GAAAAGCGTCGCTAAAGGTCTTATTCTTTAGCGGCGTTTGTGG
*
11194519 GAAAAGCGCCGCTAAAGGTC
1 GAAAAGCGTCGCTAAAGGTC
11194539 NTCCACCTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
GAAAAGCGTCGCTAAAGGTCTTATTCTTTAGCGGCGTTTGTGG
Found at i:11196545 original size:10 final size:10
Alignment explanation
Indices: 11196532--11196566 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
11196522 TAGCTGATGT
*
11196532 AGTTAGCAGT
1 AGTTAGCAGC
11196542 AGTTAGCAGC
1 AGTTAGCAGC
11196552 AGTTAGCAGC
1 AGTTAGCAGC
11196562 AGTTA
1 AGTTA
11196567 ACGGTTAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (10 bp):
AGTTAGCAGC
Found at i:11198422 original size:4 final size:4
Alignment explanation
Indices: 11198415--11198461 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
11198405 AATATAGATA
11198415 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
11198462 CTAATATACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:11198997 original size:6 final size:7
Alignment explanation
Indices: 11198965--11198998 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
11198955 ACATAATATA
11198965 TAAATTC
1 TAAATTC
11198972 TAAATTC
1 TAAATTC
11198979 TAAATTC
1 TAAATTC
11198986 TAAATT-
1 TAAATTC
11198992 TAAATTC
1 TAAATTC
11198999 ATTAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
TAAATTC
Found at i:11199239 original size:43 final size:43
Alignment explanation
Indices: 11199171--11199360 Score: 310
Period size: 43 Copynumber: 4.4 Consensus size: 43
11199161 AAAAGTCATA
11199171 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
1 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
* *
11199214 TTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTG
1 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
*
11199257 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAAGTCTTG
1 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
* *
11199300 TT-TTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTG
1 TTCTT-TAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
*
11199343 TTCTTTAGCCGCGTTTAT
1 TTCTTTAGCGGCGTTTAT
11199361 TTCTAAAAAT
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
42 2 0.01
43 131 0.97
44 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
Found at i:11199316 original size:86 final size:86
Alignment explanation
Indices: 11199171--11199360 Score: 346
Period size: 86 Copynumber: 2.2 Consensus size: 86
11199161 AAAAGTCATA
*
11199171 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGA
1 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAAGTCTTGTTCTTTAGCGGCGTTTGTGGGA
11199236 AAAGCGCCGCTAAAGGTCTTG
66 AAAGCGCCGCTAAAGGTCTTG
11199257 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAAGTCTTGTT-TTATAGCGGCGTTTGTGGG
1 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAAGTCTTGTTCTT-TAGCGGCGTTTGTGGG
11199321 AAAAGCGCCGCTAAAGGTCTTG
65 AAAAGCGCCGCTAAAGGTCTTG
*
11199343 TTCTTTAGCCGCGTTTAT
1 TTCTTTAGCGGCGTTTAT
11199361 TTCTAAAAAT
Statistics
Matches: 101, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
85 2 0.02
86 99 0.98
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (86 bp):
TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAAGTCTTGTTCTTTAGCGGCGTTTGTGGGA
AAAGCGCCGCTAAAGGTCTTG
Found at i:11206008 original size:20 final size:20
Alignment explanation
Indices: 11205979--11206031 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
11205969 ACTAAAGGGA
11205979 AATATTGATA-CTCGGATATC
1 AATATTGATACCT-GGATATC
* *
11205999 AATATCGATACCTGGATGTC
1 AATATTGATACCTGGATATC
11206019 AATATTGATACCT
1 AATATTGATACCT
11206032 ACGGACATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (20 bp):
AATATTGATACCTGGATATC
Found at i:11207602 original size:15 final size:15
Alignment explanation
Indices: 11207582--11207613 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11207572 GGTTTATTTT
11207582 TGATTGATAACATGG
1 TGATTGATAACATGG
*
11207597 TGATTGATAACGTGG
1 TGATTGATAACATGG
11207612 TG
1 TG
11207614 TGTGAGGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.31, T:0.34
Consensus pattern (15 bp):
TGATTGATAACATGG
Found at i:11209918 original size:12 final size:12
Alignment explanation
Indices: 11209901--11209926 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11209891 CCTCACACGC
11209901 CCGTGTGCTAGG
1 CCGTGTGCTAGG
11209913 CCGTGTGCTAGG
1 CCGTGTGCTAGG
11209925 CC
1 CC
11209927 TTGTAACAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:11219688 original size:34 final size:34
Alignment explanation
Indices: 11219650--11219715 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
11219640 ATTCTCAAAG
11219650 ATTGATATAAGGTATTGGTATTATCAGTTTAAGT
1 ATTGATATAAGGTATTGGTATTATCAGTTTAAGT
* * * *
11219684 ATTGATCTGAGGTCTTGGTATTATTAGTTTAA
1 ATTGATATAAGGTATTGGTATTATCAGTTTAA
11219716 TTTTAAGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (34 bp):
ATTGATATAAGGTATTGGTATTATCAGTTTAAGT
Found at i:11223197 original size:5 final size:5
Alignment explanation
Indices: 11223187--11223258 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
11223177 TGTTAAAAAA
* *
11223187 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
11223233 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
11223259 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:11223240 original size:19 final size:19
Alignment explanation
Indices: 11223216--11223258 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
11223206 ATTATGTTTT
11223216 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
11223235 TATATTATATTATATTATA
1 TATATTATATTATATTATA
11223254 TATAT
1 TATAT
11223259 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:11223290 original size:17 final size:17
Alignment explanation
Indices: 11223268--11223301 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11223258 TACATAAAAC
*
11223268 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
11223285 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
11223302 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:11223297 original size:9 final size:9
Alignment explanation
Indices: 11223268--11223301 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
11223258 TACATAAAAC
11223268 AAAAGAAAG
1 AAAAGAAAG
*
11223277 AATAGAAA-
1 AAAAGAAAG
11223285 AAAAGAAAG
1 AAAAGAAAG
11223294 AAAAGAAA
1 AAAAGAAA
11223302 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:11223930 original size:29 final size:30
Alignment explanation
Indices: 11223871--11223928 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11223861 TCCGAGCCTT
*
11223871 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
11223901 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
11223929 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:11224320 original size:46 final size:44
Alignment explanation
Indices: 11224268--11224353 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
11224258 AGAACAGAAA
*
11224268 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAAGAT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAAGAT
*
11224314 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACA
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACA
11224354 GGAATAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 17 0.45
46 21 0.55
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAAGAT
Found at i:11224367 original size:44 final size:45
Alignment explanation
Indices: 11224270--11224394 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 45
11224260 AACAGAAATG
* * *
11224270 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAAGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAAGAATA
* *
11224316 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATA
** * * *
11224360 ATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
11224395 CAGGGTATTG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.53
45 1 0.02
46 30 0.45
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATA
Found at i:11244365 original size:12 final size:12
Alignment explanation
Indices: 11244348--11244378 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11244338 AGATTCGAAG
11244348 AAATGCTTATGA
1 AAATGCTTATGA
*
11244360 AAATGCCTATGA
1 AAATGCTTATGA
11244372 AAATGCT
1 AAATGCT
11244379 GCGATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (12 bp):
AAATGCTTATGA
Found at i:11245720 original size:21 final size:21
Alignment explanation
Indices: 11245671--11245722 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 21
11245661 TGGCTACTGC
*
11245671 AGAAGAGAAA-ATTGTTGCTGA
1 AGAAGAGAAAGA-AGTTGCTGA
11245692 AG-A-A-AAAGAAGTTGCTGA
1 AGAAGAGAAAGAAGTTGCTGA
11245710 AGAAGAGAAAGAA
1 AGAAGAGAAAGAA
11245723 AGAAAAGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
18 13 0.50
19 3 0.12
20 2 0.08
21 8 0.31
ACGTcount: A:0.52, C:0.04, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAAGAGAAAGAAGTTGCTGA
Found at i:11246005 original size:5 final size:5
Alignment explanation
Indices: 11245989--11246022 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
11245979 TGCAACACCT
*
11245989 AAAGA AAGGA AAAGA AAAGA AAAGA AAAGA AAAG
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAG
11246023 GAAGCGCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:11246138 original size:17 final size:17
Alignment explanation
Indices: 11246116--11246153 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
11246106 TTGATAATTG
11246116 AGTTAGTTTTATTTTAA
1 AGTTAGTTTTATTTTAA
11246133 AGTTAGTTTTATTTTAA
1 AGTTAGTTTTATTTTAA
11246150 AGTT
1 AGTT
11246154 GTAGCTGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (17 bp):
AGTTAGTTTTATTTTAA
Found at i:11252750 original size:19 final size:20
Alignment explanation
Indices: 11252726--11252764 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11252716 AGGTAAATTG
11252726 AAAATGAT-TATTTGAGTTT
1 AAAATGATATATTTGAGTTT
* *
11252745 AAAATGCTATGTTTGAGTTT
1 AAAATGATATATTTGAGTTT
11252765 GATTATTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (20 bp):
AAAATGATATATTTGAGTTT
Found at i:11256228 original size:44 final size:42
Alignment explanation
Indices: 11256163--11256272 Score: 105
Period size: 44 Copynumber: 2.6 Consensus size: 42
11256153 ATATGTGTTA
* ** * *
11256163 TCGTGTACGACCGCGTCTGGGACGTTGACATC-GATTTGAGATT
1 TCGTGTAAGACCATGTCTGGGACATCGACATCAGATTTG-G-TT
* * *
11256206 TATGTGTAAGACCATGTCTGGGACATCGGCATCATATTTGGTT
1 T-CGTGTAAGACCATGTCTGGGACATCGACATCAGATTTGGTT
*
11256249 TCGTGTAAGACCCTGTCTGGGACA
1 TCGTGTAAGACCATGTCTGGGACA
11256273 GTGGCATTGA
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 21 0.38
43 4 0.07
44 25 0.45
45 5 0.09
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATCGACATCAGATTTGGTT
Found at i:11256298 original size:42 final size:42
Alignment explanation
Indices: 11256210--11256305 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
11256200 GAGATTTATG
* * *
11256210 TGTAAGACCATGTCTGGGACATCGGCATCATATTTGGTTTCG
1 TGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTACA
* *
11256252 TGTAAGACCCTGTCTGGGACAGT-GGCATTGATA-TTGATTACA
1 TGTAAGACCATGTCTGGGACA-TCGGCA-TCATATTTGATTACA
11256294 TGTAAGACCATG
1 TGTAAGACCATG
11256306 CCTGAGACGT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 41 0.89
43 5 0.11
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTACA
Found at i:11263307 original size:26 final size:26
Alignment explanation
Indices: 11263274--11263326 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
11263264 ATTCGTTATC
11263274 TAATTTATATGTAAATAAATGAGATG
1 TAATTTATATGTAAATAAATGAGATG
11263300 TAATTTATATGTAAATAAATGAGATG
1 TAATTTATATGTAAATAAATGAGATG
11263326 T
1 T
11263327 TAATGATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (26 bp):
TAATTTATATGTAAATAAATGAGATG
Found at i:11263335 original size:26 final size:26
Alignment explanation
Indices: 11263274--11263336 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
11263264 ATTCGTTATC
*
11263274 TAATTTATATGTAAATAAATGAGATG
1 TAATTGATATGTAAATAAATGAGATG
*
11263300 TAATTTATATGTAAATAAATGAGATG
1 TAATTGATATGTAAATAAATGAGATG
11263326 TTAA-TGATATG
1 -TAATTGATATG
11263337 GGTTGGAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 32 0.91
27 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (26 bp):
TAATTGATATGTAAATAAATGAGATG
Found at i:11270591 original size:9 final size:9
Alignment explanation
Indices: 11270552--11270611 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
11270542 GCCCAGAGCT
11270552 ACTTCTTTC
1 ACTTCTTTC
**
11270561 TTTTCTTTC
1 ACTTCTTTC
* *
11270570 TCTTGTTTC
1 ACTTCTTTC
*
11270579 ACTTCTTTT
1 ACTTCTTTC
*
11270588 ACTTCCTTC
1 ACTTCTTTC
11270597 ACTTCTTTC
1 ACTTCTTTC
*
11270606 TCTTCT
1 ACTTCT
11270612 GCTGGAATTG
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.07, C:0.30, G:0.02, T:0.62
Consensus pattern (9 bp):
ACTTCTTTC
Found at i:11271073 original size:48 final size:48
Alignment explanation
Indices: 11271010--11271191 Score: 267
Period size: 48 Copynumber: 3.8 Consensus size: 48
11271000 TTCCTTCCTT
* *
11271010 TGCAGATTTCGGAACAGAACTTACTGCTCTAGGTTCATTGGCTTCTTC
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCTTC
* *
11271058 TGCAGATTTCGGAACAGAACTTACCGCTTTCGGTTCATTGACTTCTTC
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCTTC
*
11271106 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATCGGCTT-TCTC
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCT-TC
* * * *
11271154 TACAGATTTTGGAACAGAACTTATTGCTTTCGATTCAT
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCAT
11271192 CAGCCATGGC
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
47 1 0.01
48 121 0.99
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (48 bp):
TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCTTC
Found at i:11272515 original size:9 final size:9
Alignment explanation
Indices: 11272476--11272535 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
11272466 GCCCAGAGCT
11272476 ACTTCTTTC
1 ACTTCTTTC
**
11272485 TTTTCTTTC
1 ACTTCTTTC
* *
11272494 TCTTGTTTC
1 ACTTCTTTC
*
11272503 ACTTCTTTT
1 ACTTCTTTC
*
11272512 ACTTCCTTC
1 ACTTCTTTC
11272521 ACTTCTTTC
1 ACTTCTTTC
*
11272530 TCTTCT
1 ACTTCT
11272536 GCTGGAATTG
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.07, C:0.30, G:0.02, T:0.62
Consensus pattern (9 bp):
ACTTCTTTC
Found at i:11272997 original size:48 final size:48
Alignment explanation
Indices: 11272934--11273115 Score: 276
Period size: 48 Copynumber: 3.8 Consensus size: 48
11272924 TTCCTTCCTT
* *
11272934 TGCAGATTTCGGAACAGAACTTACTGCTCTAGGTTCATTGGCTTCTTC
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCTTC
*
11272982 TGCAGATTTCGGAACAGAACTTACCGCTTTCGGTTCATTGGCTTCTTC
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCTTC
*
11273030 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATCGGCTT-TCTC
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCT-TC
* * * *
11273078 TACAGATTTTGGAACAGAACTTATTGCTTTCGATTCAT
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCAT
11273116 CAGCCATGGC
Statistics
Matches: 124, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 1 0.01
48 123 0.99
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (48 bp):
TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCTTC
Found at i:11273190 original size:24 final size:24
Alignment explanation
Indices: 11273158--11273209 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
11273148 TGGACGTGTT
11273158 CTTCAGACCTTTTTTCGGATTCGA
1 CTTCAGACCTTTTTTCGGATTCGA
* *
11273182 CTTCAGACCTTTTTTCGGTTTTGA
1 CTTCAGACCTTTTTTCGGATTCGA
11273206 CTTC
1 CTTC
11273210 CACCGGGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.13, C:0.25, G:0.15, T:0.46
Consensus pattern (24 bp):
CTTCAGACCTTTTTTCGGATTCGA
Found at i:11278574 original size:7 final size:7
Alignment explanation
Indices: 11278562--11278589 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
11278552 TCATTTCTTC
11278562 ATTTCAT
1 ATTTCAT
11278569 ATTTCAT
1 ATTTCAT
11278576 ATTTCAT
1 ATTTCAT
11278583 ATTTCAT
1 ATTTCAT
11278590 TTCGTATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTTCAT
Done.