Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 34 of 203
Found at i:11339495 original size:36 final size:36
Alignment explanation
Indices: 11339454--11339530 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
11339444 TTTTGGTTAA
*
11339454 AAATTAACCGAATTATCCGAATTAACCGAATTAACC
1 AAATTAACCGAACTATCCGAATTAACCGAATTAACC
* *
11339490 AAATTACCCGAACTATCCGAATTACCCGAATTAACC
1 AAATTAACCGAACTATCCGAATTAACCGAATTAACC
*
11339526 GAATT
1 AAATT
11339531 GAATCACTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.25
Consensus pattern (36 bp):
AAATTAACCGAACTATCCGAATTAACCGAATTAACC
Found at i:11344446 original size:18 final size:19
Alignment explanation
Indices: 11344423--11344460 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11344413 ACCCTTAAAA
*
11344423 TTGAATTATT-AAATTTTT
1 TTGAATGATTAAAATTTTT
*
11344441 TTGAATGGTTAAAATTTTT
1 TTGAATGATTAAAATTTTT
11344460 T
1 T
11344461 AAATATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (19 bp):
TTGAATGATTAAAATTTTT
Found at i:11346328 original size:19 final size:20
Alignment explanation
Indices: 11346291--11346338 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
11346281 AAAATGTTAT
*
11346291 TAAATTTATCATAAGAGAATA
1 TAAATTTATCATAAAAGAA-A
11346312 TAAATTT-T-ATAAAAGAAA
1 TAAATTTATCATAAAAGAAA
11346330 TCAAATTTA
1 T-AAATTTA
11346339 AAAGTTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 2 0.08
19 14 0.58
20 1 0.04
21 7 0.29
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.35
Consensus pattern (20 bp):
TAAATTTATCATAAAAGAAA
Found at i:11349346 original size:62 final size:62
Alignment explanation
Indices: 11349266--11349385 Score: 222
Period size: 62 Copynumber: 1.9 Consensus size: 62
11349256 AAGATCTATT
11349266 AAAAGCTGAAAATCAGATTAATTAAGTTTGCCTTCACACCCAGATCCAGATCATTGCAAGGA
1 AAAAGCTGAAAATCAGATTAATTAAGTTTGCCTTCACACCCAGATCCAGATCATTGCAAGGA
* *
11349328 AAAAGCTGAAAATTAGATTAATTAAGTTTGCCTTGACACCCAGATCCAGATCATTGCA
1 AAAAGCTGAAAATCAGATTAATTAAGTTTGCCTTCACACCCAGATCCAGATCATTGCA
11349386 TATAATTAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (62 bp):
AAAAGCTGAAAATCAGATTAATTAAGTTTGCCTTCACACCCAGATCCAGATCATTGCAAGGA
Found at i:11354090 original size:25 final size:25
Alignment explanation
Indices: 11354062--11354113 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
11354052 AATGTCTTAC
11354062 CCTTTCAATTTCCGTAAGACATTTT
1 CCTTTCAATTTCCGTAAGACATTTT
11354087 CCTTTCAATTTCCGTAAGACATTTT
1 CCTTTCAATTTCCGTAAGACATTTT
11354112 CC
1 CC
11354114 GTGCTCTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.27, G:0.08, T:0.42
Consensus pattern (25 bp):
CCTTTCAATTTCCGTAAGACATTTT
Found at i:11356042 original size:14 final size:15
Alignment explanation
Indices: 11356020--11356096 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
11356010 CAATCAAACA
11356020 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
11356034 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
11356049 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
11356069 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
11356083 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
11356097 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:11356061 original size:20 final size:20
Alignment explanation
Indices: 11356036--11356075 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11356026 AATATTTTCC
*
11356036 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
11356056 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
11356076 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:11356081 original size:34 final size:35
Alignment explanation
Indices: 11356024--11356090 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
11356014 CAAACACCAG
*
11356024 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
11356059 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
11356091 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:11357685 original size:11 final size:11
Alignment explanation
Indices: 11357669--11357696 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
11357659 GTCGCCTCTT
11357669 CCTTCGTTCTA
1 CCTTCGTTCTA
11357680 CCTTCGTTCTA
1 CCTTCGTTCTA
11357691 CCTTCG
1 CCTTCG
11357697 CCTCCCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.39, G:0.11, T:0.43
Consensus pattern (11 bp):
CCTTCGTTCTA
Found at i:11358253 original size:48 final size:48
Alignment explanation
Indices: 11358182--11358277 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
11358172 GAATGTCAGC
* *
11358182 AGTGCCTGTTTCTCAGTTTTGAGTTGCAAGAAACCCAACCGAATAAGA
1 AGTGCCTGTTTCTCAGTTTTGAGTTGCAAGAAAACCAACCAAATAAGA
11358230 AGTGCCTGTTTCTCAGTTTTGAGTTGCAAGAAAACCAACCAAATAAGA
1 AGTGCCTGTTTCTCAGTTTTGAGTTGCAAGAAAACCAACCAAATAAGA
11358278 GAGGTTGCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (48 bp):
AGTGCCTGTTTCTCAGTTTTGAGTTGCAAGAAAACCAACCAAATAAGA
Found at i:11361276 original size:18 final size:17
Alignment explanation
Indices: 11361248--11361282 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11361238 ATTATTAAGA
*
11361248 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11361265 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11361283 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:11361334 original size:120 final size:120
Alignment explanation
Indices: 11361198--11361419 Score: 435
Period size: 120 Copynumber: 1.9 Consensus size: 120
11361188 TTGGTCCAAT
*
11361198 TCATATATTATGATTTGAGTCAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
1 TCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
11361263 ATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTA
66 ATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTA
11361318 TCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
1 TCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
11361383 ATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 ATATTTTAATTAAAATATATTTAATAATAATTATGTT
11361420 TAAATATGAT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 101 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
TCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
ATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTA
Found at i:11361396 original size:18 final size:17
Alignment explanation
Indices: 11361368--11361402 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11361358 ATTATTAAGA
*
11361368 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11361385 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11361403 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:11361632 original size:44 final size:45
Alignment explanation
Indices: 11361567--11361657 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
11361557 ACCTCTATTC
* * *
11361567 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
11361611 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
11361656 CA
1 CA
11361658 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:11361659 original size:16 final size:16
Alignment explanation
Indices: 11361638--11361706 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
11361628 GATTAGCTAT
11361638 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11361654 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
11361671 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
11361687 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
11361703 TACA
1 TACA
11361707 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11361680 original size:33 final size:32
Alignment explanation
Indices: 11361638--11361706 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
11361628 GATTAGCTAT
11361638 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
11361671 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
11361703 TACA
1 TACA
11361707 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:11365318 original size:34 final size:32
Alignment explanation
Indices: 11365267--11365334 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 32
11365257 TTTAATGTGT
** *
11365267 TTTTTGTCACTTAATTATTAAAAAAATCTTTTA
1 TTTTTGTCACCAAATTATGAAAAAAAT-TTTTA
*
11365300 TTTTTGTCACCAATATTATGAAAAATATTTTTA
1 TTTTTGTCACCAA-ATTATGAAAAAAATTTTTA
11365333 TT
1 TT
11365335 ACTTAACCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 18 0.60
34 12 0.40
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.51
Consensus pattern (32 bp):
TTTTTGTCACCAAATTATGAAAAAAATTTTTA
Found at i:11365540 original size:19 final size:20
Alignment explanation
Indices: 11365516--11365555 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
11365506 CAAAATTTGA
11365516 ATTTTTTAAT-ATAATGTTT
1 ATTTTTTAATCATAATGTTT
*
11365535 A-TTTTTATTCATAATGTTT
1 ATTTTTTAATCATAATGTTT
11365554 AT
1 AT
11365556 AAAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (20 bp):
ATTTTTTAATCATAATGTTT
Found at i:11370233 original size:56 final size:56
Alignment explanation
Indices: 11370169--11370315 Score: 285
Period size: 56 Copynumber: 2.6 Consensus size: 56
11370159 TATGTCAGCA
11370169 AATTTAACATATCTTAATTATTTTGTCAATTTGGAGTTGTTTTGACAAAAAAAAGG
1 AATTTAACATATCTTAATTATTTTGTCAATTTGGAGTTGTTTTGACAAAAAAAAGG
11370225 AATTTAACATATCTTAATTATTTTGTCAATTTGGAGTTGTTTTGACAAAAAAAAGG
1 AATTTAACATATCTTAATTATTTTGTCAATTTGGAGTTGTTTTGACAAAAAAAAGG
*
11370281 AATTTAACATATCTTAATTAGTTTGTCAATTTGGA
1 AATTTAACATATCTTAATTATTTTGTCAATTTGGA
11370316 ACATATCTTA
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 90 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (56 bp):
AATTTAACATATCTTAATTATTTTGTCAATTTGGAGTTGTTTTGACAAAAAAAAGG
Found at i:11370321 original size:29 final size:29
Alignment explanation
Indices: 11370286--11370344 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
11370276 AAAGGAATTT
11370286 AACATATCTTAATTAGTTTGTCAATTTGG
1 AACATATCTTAATTAGTTTGTCAATTTGG
*
11370315 AACATATCTTAATTATTTTGTCAATTTGG
1 AACATATCTTAATTAGTTTGTCAATTTGG
11370344 A
1 A
11370345 GTTGTTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (29 bp):
AACATATCTTAATTAGTTTGTCAATTTGG
Found at i:11371029 original size:13 final size:13
Alignment explanation
Indices: 11371011--11371038 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11371001 AATTTTGGAA
11371011 ATATCATATGTAC
1 ATATCATATGTAC
11371024 ATATCATATGTAC
1 ATATCATATGTAC
11371037 AT
1 AT
11371039 GATGTTAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.39
Consensus pattern (13 bp):
ATATCATATGTAC
Found at i:11373492 original size:16 final size:15
Alignment explanation
Indices: 11373471--11373523 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
11373461 TATATTTCAT
11373471 TTTTTTAACTTTTTTA
1 TTTTTTAA-TTTTTTA
* *
11373487 TTTTTTAA-TTATGA
1 TTTTTTAATTTTTTA
*
11373501 TTTTTTAATTTTATA
1 TTTTTTAATTTTTTA
*
11373516 ATTTTTAA
1 TTTTTTAA
11373524 ATTATTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 12 0.40
15 10 0.33
16 8 0.27
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (15 bp):
TTTTTTAATTTTTTA
Found at i:11373506 original size:30 final size:28
Alignment explanation
Indices: 11373471--11373536 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
11373461 TATATTTCAT
* *
11373471 TTTTTTAACTTTTTTATTTTTTAATTATGA
1 TTTTTTAACTTTTATAATTTTTAA--ATGA
*
11373501 TTTTTTAA-TTTTATAATTTTTAAATTA
1 TTTTTTAACTTTTATAATTTTTAAATGA
11373528 TTTTTTAAC
1 TTTTTTAAC
11373537 ATGGCATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 11 0.34
29 13 0.41
30 8 0.25
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (28 bp):
TTTTTTAACTTTTATAATTTTTAAATGA
Found at i:11375427 original size:23 final size:23
Alignment explanation
Indices: 11375390--11375436 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
11375380 GTTTTTTGAA
11375390 TTTTTGAATTATTTTACT-ATTAT
1 TTTTTGAATTATTTTA-TAATTAT
11375413 TTTTTGAA-TATTTTTATAATTAT
1 TTTTTGAATTA-TTTTATAATTAT
11375436 T
1 T
11375437 AAATAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (23 bp):
TTTTTGAATTATTTTATAATTAT
Found at i:11376515 original size:14 final size:16
Alignment explanation
Indices: 11376496--11376527 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
11376486 TTAAGAAAAA
11376496 ATAATATA-AA-ATTT
1 ATAATATATAACATTT
11376510 ATAATATATAACATTT
1 ATAATATATAACATTT
11376526 AT
1 AT
11376528 GAAAACATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATATATAACATTT
Found at i:11382849 original size:21 final size:21
Alignment explanation
Indices: 11382794--11382850 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 21
11382784 TTAATAAATA
*
11382794 ATTATTACTT-AAGAAATTTT
1 ATTATTACTTAAATAAATTTT
* *
11382814 A--ATT--TTAATTTAATTTT
1 ATTATTACTTAAATAAATTTT
11382831 ATTATTACTTAAATAAATTT
1 ATTATTACTTAAATAAATTT
11382851 AAAAAATGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 9
0.66 0.12 0.22
Matches are distributed among these distances:
16 2 0.07
17 8 0.30
18 3 0.11
19 3 0.11
20 1 0.04
21 10 0.37
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTATTACTTAAATAAATTTT
Found at i:11382917 original size:18 final size:18
Alignment explanation
Indices: 11382894--11382931 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11382884 TTAACAGTTA
*
11382894 TAGTTAGCTGTTAGCAGT
1 TAGTTAGCTATTAGCAGT
*
11382912 TAGTTAGTTATTAGCAGT
1 TAGTTAGCTATTAGCAGT
11382930 TA
1 TA
11382932 CTGATGTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (18 bp):
TAGTTAGCTATTAGCAGT
Found at i:11407468 original size:60 final size:60
Alignment explanation
Indices: 11407358--11407516 Score: 196
Period size: 60 Copynumber: 2.6 Consensus size: 60
11407348 GCTCGAAAGT
* ** *
11407358 TCTCCC-GACTATTCCAGCTTCTTTTCTAGATTCAGCAGCCGGTTGGCTTGGCTCTAAA-C
1 TCTCCCAG-CTATTCCAACTTCTTTTCTAGATTCAGCAGCAAGTTGACTTGGCTCTAAATC
* *
11407417 TCTTCCCAGCTATTCCAACTTCTTTTCTAGATTCAGCAGTAAGTTGACTTGGCTCTAAATT
1 TC-TCCCAGCTATTCCAACTTCTTTTCTAGATTCAGCAGCAAGTTGACTTGGCTCTAAATC
* * * *
11407478 TCTCCCAGTTATTCCAACTTCGTTTCTTGAATCAGCAGC
1 TCTCCCAGCTATTCCAACTTCTTTTCTAGATTCAGCAGC
11407517 CTGCTCCACA
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
59 2 0.02
60 81 0.94
61 3 0.03
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.36
Consensus pattern (60 bp):
TCTCCCAGCTATTCCAACTTCTTTTCTAGATTCAGCAGCAAGTTGACTTGGCTCTAAATC
Found at i:11407555 original size:51 final size:51
Alignment explanation
Indices: 11407477--11407575 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
11407467 GGCTCTAAAT
* *
11407477 TTCTCCCAGTTATTCCAACTTCGTTTCTTGAATCAGCAGCCTGCTCCACAC
1 TTCTCCCAGATATTCCAACTTCGTTTCTTGAATCAGCAGCCTGATCCACAC
* *
11407528 TTCTCCCAGATATTCCAACTTCTTTTCTTGATTCAGCAGCCTGATCCA
1 TTCTCCCAGATATTCCAACTTCGTTTCTTGAATCAGCAGCCTGATCCA
11407576 ACCTAGCATC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.20, C:0.33, G:0.11, T:0.35
Consensus pattern (51 bp):
TTCTCCCAGATATTCCAACTTCGTTTCTTGAATCAGCAGCCTGATCCACAC
Found at i:11409865 original size:33 final size:33
Alignment explanation
Indices: 11409823--11409892 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
11409813 GTGAATCAAA
11409823 AACAATGTGTGAAACAAGATAGATAGTCTATCC
1 AACAATGTGTGAAACAAGATAGATAGTCTATCC
11409856 AACAATGTGTGAAACAAGATAGATAGTCTATCC
1 AACAATGTGTGAAACAAGATAGATAGTCTATCC
11409889 AACA
1 AACA
11409893 TCTTCAGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.23
Consensus pattern (33 bp):
AACAATGTGTGAAACAAGATAGATAGTCTATCC
Found at i:11411031 original size:16 final size:15
Alignment explanation
Indices: 11411010--11411051 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
11411000 GAAAAATATA
*
11411010 TTTTCTATCTTGCTAT
1 TTTTCTATCTT-CAAT
11411026 TTTTCTATTCTTCAAT
1 TTTTCTA-TCTTCAAT
11411042 TTTTC-ATCTT
1 TTTTCTATCTT
11411052 TCCAATTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 4 0.17
15 1 0.04
16 15 0.62
17 4 0.17
ACGTcount: A:0.14, C:0.19, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTTCTATCTTCAAT
Found at i:11414058 original size:29 final size:31
Alignment explanation
Indices: 11414002--11414066 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
11413992 TAGTGATTTA
11414002 ATATAAATATATATAATAATTATTTAACA-T
1 ATATAAATATATATAATAATTATTTAACATT
* *
11414032 ATATAATTA-ATATAAT-ATTTTTATAACATT
1 ATATAAATATATATAATAATTATT-TAACATT
11414062 ATATA
1 ATATA
11414067 TTCAGGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 5 0.16
29 12 0.39
30 14 0.45
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (31 bp):
ATATAAATATATATAATAATTATTTAACATT
Found at i:11416117 original size:18 final size:19
Alignment explanation
Indices: 11416094--11416129 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11416084 AAATAAACAT
11416094 TAAAAAA-TATTTTAAAAA
1 TAAAAAATTATTTTAAAAA
11416112 TAAAAAATTATTTTAAAA
1 TAAAAAATTATTTTAAAA
11416130 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAAAATTATTTTAAAAA
Found at i:11421599 original size:17 final size:19
Alignment explanation
Indices: 11421577--11421612 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
11421567 AATTAAATTC
11421577 AATTTTAA-A-AAATAAAA
1 AATTTTAATATAAATAAAA
11421594 AATTTTAATATAAATAAAA
1 AATTTTAATATAAATAAAA
11421613 TTCCTCTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 1 0.06
19 8 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTTTAATATAAATAAAA
Found at i:11427690 original size:68 final size:66
Alignment explanation
Indices: 11427555--11427691 Score: 161
Period size: 68 Copynumber: 2.0 Consensus size: 66
11427545 TTGGAGTAAA
** * ** *
11427555 AAAGCTTGCTTCATTCATATTATTAAGAAACTAATTACAAATGCTAATCCAACTACATTAAAGAG
1 AAAGCTTGCTTCATTCATATTATTAAGAAACTAATTACAAATGCTAATCCAAAAAAAAAAAAAAG
11427620 G
66 G
*
11427621 AAAGCTTGCTTCA-TCAAATATTATTAA-AGAACTAATTCCAAAATGCTAATCCAAAAAAAAAAA
1 AAAGCTTGCTTCATTC--ATATTATTAAGA-AACTAATTAC-AAATGCTAATCCAAAAAAAAAAA
11427684 AAAGG
62 AAAGG
11427689 AAA
1 AAA
11427692 AGAAAGTGAC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
65 2 0.03
66 14 0.23
67 19 0.32
68 25 0.42
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.26
Consensus pattern (66 bp):
AAAGCTTGCTTCATTCATATTATTAAGAAACTAATTACAAATGCTAATCCAAAAAAAAAAAAAAG
G
Found at i:11431223 original size:21 final size:20
Alignment explanation
Indices: 11431191--11431235 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
11431181 CATTTTTTAA
**
11431191 TAAATATTAAAAATTTATTT
1 TAAATATTAAAAAAATATTT
*
11431211 TAAATTTTAAAAAAAATATTT
1 TAAATATT-AAAAAAATATTT
11431232 TAAA
1 TAAA
11431236 AATATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAATATTAAAAAAATATTT
Found at i:11431228 original size:32 final size:30
Alignment explanation
Indices: 11431192--11431258 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 30
11431182 ATTTTTTAAT
*
11431192 AAATA-TTAAAAATTTATTTTAAATTTTAAAAA
1 AAATATTTAAAAA--TATTTTAAA-ATTAAAAA
11431224 AAATATTTTAAAAATATTTTAAAATTAAAAA
1 AAATA-TTTAAAAATATTTTAAAATTAAAAA
11431255 AAAT
1 AAAT
11431259 TAAAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 11 0.34
32 14 0.44
34 7 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
AAATATTTAAAAATATTTTAAAATTAAAAA
Found at i:11431248 original size:10 final size:11
Alignment explanation
Indices: 11431222--11431247 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11431212 AAATTTTAAA
11431222 AAAAATATTTT
1 AAAAATATTTT
11431233 AAAAATATTTT
1 AAAAATATTTT
11431244 AAAA
1 AAAA
11431248 TTAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:11431257 original size:10 final size:10
Alignment explanation
Indices: 11431244--11431268 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11431234 AAAATATTTT
11431244 AAAATTAAAA
1 AAAATTAAAA
11431254 AAAATTAAAA
1 AAAATTAAAA
11431264 AAAAT
1 AAAAT
11431269 AAATATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:11435198 original size:23 final size:23
Alignment explanation
Indices: 11435168--11435214 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
11435158 CGAATAAAAT
*
11435168 CATCCAAAATAAGCCTTTAAGTA
1 CATCCAAAATAAGCCTCTAAGTA
11435191 CATCCAAAATAAGCCTCTAAGTA
1 CATCCAAAATAAGCCTCTAAGTA
11435214 C
1 C
11435215 TTGTATTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.23
Consensus pattern (23 bp):
CATCCAAAATAAGCCTCTAAGTA
Found at i:11436326 original size:19 final size:19
Alignment explanation
Indices: 11436304--11436362 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
11436294 ATATTAAATA
11436304 AAAATAATTATTTTAATTT
1 AAAATAATTATTTTAATTT
*
11436323 AAAATAATTACTTATAATTT
1 AAAATAATTA-TTTTAATTT
**
11436343 -TTATAATTAATTTTAATTT
1 AAAATAATT-ATTTTAATTT
11436362 A
1 A
11436363 TTCTTAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 24 0.73
20 9 0.27
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
AAAATAATTATTTTAATTT
Found at i:11445629 original size:943 final size:943
Alignment explanation
Indices: 11443804--11445833 Score: 4015
Period size: 943 Copynumber: 2.2 Consensus size: 943
11443794 AAATGAGATA
*
11443804 AAAGTTATATATTTTTTTACAAAATGAAATTACCATTTAAAATGTTATAAAAGTTTTAAAACTTC
1 AAAGTTATATATATTTTTACAAAATGAAATTACCATTTAAAATGTTATAAAAGTTTTAAAACTTC
11443869 AATTTCATTATTAAACTAAATCTTCATTCTTCATTTTATTTATTTTGAAATTAGAAAACCTTAAC
66 AATTTCATTATTAAACTAAATCTTCATTCTTCATTTTATTTATTTTGAAATTAGAAAACCTTAAC
11443934 TAAACAAATCATCAATAAAAAAATTAATCAATGATCAAACTTTGAACATGCTTTATTAGATCTTA
131 TAAACAAATCATCAATAAAAAAATTAATCAATGATCAAACTTTGAACATGCTTTATTAGATCTTA
11443999 AATTTCATTATACGAAATTAAATTTAAATTTAAATTTAAATGTCCAAACTATAATGTTCAAACTT
196 AATTTCATTATACGAAATTAAATTTAAATTTAAATTTAAATGTCCAAACTATAATGTTCAAACTT
11444064 TGAACATGCTTTAAGTAACTAATCAATATATTTATACGATATCATTTTAGGTCAATTAATTTGGG
261 TGAACATGCTTTAAGTAACTAATCAATATATTTATACGATATCATTTTAGGTCAATTAATTTGGG
11444129 TGATTTTAATTAACTAATCAATATATTTAAATGTCCAAATTATAATGAGTTTAGTTATAATCTAA
326 TGATTTTAATTAACTAATCAATATATTTAAATGTCCAAATTATAATGAGTTTAGTTATAATCTAA
11444194 CAAATACCAACCTTCAAATTTTAGGTCAATTAATTCTACGTCAATTATACATAATATATTAAATT
391 CAAATACCAACCTTCAAATTTTAGGTCAATTAATTCTACGTCAATTATACATAATATATTAAATT
11444259 TTAATGTAAGTTTTTGAAGAAATAAAATTTAAATAGTTATAATTAACCTTTTATGCACGCAATAC
456 TTAATGTAAGTTTTTGAAGAAATAAAATTTAAATAGTTATAATTAACCTTTTATGCACGCAATAC
11444324 ATGTTATTTAAAACAAATGTTAATTGATTCAAAACATTATTTTTCCCCTATAATGGAAATAATGT
521 ATGTTATTTAAAACAAATGTTAATTGATTCAAAACATTATTTTTCCCCTATAATGGAAATAATGT
11444389 TATCTTAATTATAAAAATCAAAATGGACTGAAATTTATTGTCTAATTCTATCTTAGATTTTAAGT
586 TATCTTAATTATAAAAATCAAAATGGACTGAAATTTATTGTCTAATTCTATCTTAGATTTTAAGT
11444454 TAATTACATTATACGTAAAATATTCCTCATTCATAATATGATTTCCCTATAATACATAAATTATA
651 TAATTACATTATACGTAAAATATTCCTCATTCATAATATGATTTCCCTATAATACATAAATTATA
11444519 ATTGTGAAAGTGTAAGGAAGTTTTTAAAATTAACGTATATATAATATGATAAATAAAATTTTTAA
716 ATTGTGAAAGTGTAAGGAAGTTTTTAAAATTAACGTATATATAATATGATAAATAAAATTTTTAA
11444584 TAATTTTACTTAAAAAGTCAAAATTGGCTGTTAAATTAATAAATTCTATAGAATTCTGAAATTTT
781 TAATTTTACTTAAAAAGTCAAAATTGGCTGTTAAATTAATAAATTCTATAGAATTCTGAAATTTT
11444649 AATAATAATAATTTTTTGATGAAAAAATGCTAAACATGTATTTTAAACTCGAAACTAGAAAGATA
846 AATAATAATAATTTTTTGATGAAAAAATGCTAAACATGTATTTTAAACTCGAAACTAGAAAGATA
11444714 AGTAACAATTCTTGTAAAAAATAAGTCCTCTTC
911 AGTAACAATTCTTGTAAAAAATAAGTCCTCTTC
11444747 AAAGTTATATATATTTTTACAAAATGAAATTACCATTTAAAATGTTATAAAAGTTTTAAAACTTC
1 AAAGTTATATATATTTTTACAAAATGAAATTACCATTTAAAATGTTATAAAAGTTTTAAAACTTC
11444812 AATTTCATTATTAAACTAAATCTTCATTCTTCATTTTATTTATTTTGAAATTAGAAAACCTTAAC
66 AATTTCATTATTAAACTAAATCTTCATTCTTCATTTTATTTATTTTGAAATTAGAAAACCTTAAC
11444877 TAAACAAATCATCAATAAAAAAATTAATCAATGATCAAACTTTGAACATGCTTTATTAGATCTTA
131 TAAACAAATCATCAATAAAAAAATTAATCAATGATCAAACTTTGAACATGCTTTATTAGATCTTA
11444942 AATTTCATTATACGAAATTAAATTTAAATTTAAATTTAAATGTCCAAACTATAATGTTCAAACTT
196 AATTTCATTATACGAAATTAAATTTAAATTTAAATTTAAATGTCCAAACTATAATGTTCAAACTT
11445007 TGAACATGCTTTAAGTAACTAATCAATATATTTATACGATATCATTTTAGGTCAATTAATTTGGG
261 TGAACATGCTTTAAGTAACTAATCAATATATTTATACGATATCATTTTAGGTCAATTAATTTGGG
11445072 TGATTTTAATTAACTAATCAATATATTTAAATGTCCAAATTATAATGAGTTTAGTTATAATCTAA
326 TGATTTTAATTAACTAATCAATATATTTAAATGTCCAAATTATAATGAGTTTAGTTATAATCTAA
11445137 CAAATACCAACCTTCAAATTTTAGGTCAATTAATTCTACGTCAATTATACATAATATATTAAATT
391 CAAATACCAACCTTCAAATTTTAGGTCAATTAATTCTACGTCAATTATACATAATATATTAAATT
11445202 TTAATGTAAGTTTTTGAAGAAATAAAATTTAAATAGTTATAATTAACCTTTTATGCACGCAATAC
456 TTAATGTAAGTTTTTGAAGAAATAAAATTTAAATAGTTATAATTAACCTTTTATGCACGCAATAC
11445267 ATGTTATTTAAAACAAATGTTAATTGATTCAAAACATTATTTTTCCCCTATAATGGAAATAATGT
521 ATGTTATTTAAAACAAATGTTAATTGATTCAAAACATTATTTTTCCCCTATAATGGAAATAATGT
11445332 TATCTTAATTATAAAAATCAAAATGGACTGAAATTTATTGTCTAATTCTATCTTAGATTTTAAGT
586 TATCTTAATTATAAAAATCAAAATGGACTGAAATTTATTGTCTAATTCTATCTTAGATTTTAAGT
11445397 TAATTACATTATACGTAAAATATTCCTCATTCATAATATGATTTCCCTATAATACATAAATTATA
651 TAATTACATTATACGTAAAATATTCCTCATTCATAATATGATTTCCCTATAATACATAAATTATA
11445462 ATTGTGAAAGTGTAAGGAAGTTTTTAAAATTAACGTATATATAATATGATAAATAAAATTTTTAA
716 ATTGTGAAAGTGTAAGGAAGTTTTTAAAATTAACGTATATATAATATGATAAATAAAATTTTTAA
11445527 TAATTTTACTTAAAAAGTCAAAATTGGCTGTTAAATTAATAAATTCTATAGAATTCTGAAATTTT
781 TAATTTTACTTAAAAAGTCAAAATTGGCTGTTAAATTAATAAATTCTATAGAATTCTGAAATTTT
11445592 AATAATAATAATTTTTTGATGAAAAAATGCTAAACATGTATTTTAAACTCGAAACTAGAAAGATA
846 AATAATAATAATTTTTTGATGAAAAAATGCTAAACATGTATTTTAAACTCGAAACTAGAAAGATA
11445657 AGTAACAATTCTTGTAAAAAATAAGTCCTCTTC
911 AGTAACAATTCTTGTAAAAAATAAGTCCTCTTC
11445690 AAAGTTATATATATTTTTACAAAATGAAATTACCATTTAAAATGTTATAAAAGTTTTAAAACTTC
1 AAAGTTATATATATTTTTACAAAATGAAATTACCATTTAAAATGTTATAAAAGTTTTAAAACTTC
* * *
11445755 AATTTCATTATTAAACCAAATCCTCATTCTTCATTTTATTTATTTTGAAATTAGAAAACCTTAAT
66 AATTTCATTATTAAACTAAATCTTCATTCTTCATTTTATTTATTTTGAAATTAGAAAACCTTAAC
*
11445820 TAAACTAATCATCA
131 TAAACAAATCATCA
11445834 GTAATTAAAT
Statistics
Matches: 1082, Mismatches: 5, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
943 1082 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (943 bp):
AAAGTTATATATATTTTTACAAAATGAAATTACCATTTAAAATGTTATAAAAGTTTTAAAACTTC
AATTTCATTATTAAACTAAATCTTCATTCTTCATTTTATTTATTTTGAAATTAGAAAACCTTAAC
TAAACAAATCATCAATAAAAAAATTAATCAATGATCAAACTTTGAACATGCTTTATTAGATCTTA
AATTTCATTATACGAAATTAAATTTAAATTTAAATTTAAATGTCCAAACTATAATGTTCAAACTT
TGAACATGCTTTAAGTAACTAATCAATATATTTATACGATATCATTTTAGGTCAATTAATTTGGG
TGATTTTAATTAACTAATCAATATATTTAAATGTCCAAATTATAATGAGTTTAGTTATAATCTAA
CAAATACCAACCTTCAAATTTTAGGTCAATTAATTCTACGTCAATTATACATAATATATTAAATT
TTAATGTAAGTTTTTGAAGAAATAAAATTTAAATAGTTATAATTAACCTTTTATGCACGCAATAC
ATGTTATTTAAAACAAATGTTAATTGATTCAAAACATTATTTTTCCCCTATAATGGAAATAATGT
TATCTTAATTATAAAAATCAAAATGGACTGAAATTTATTGTCTAATTCTATCTTAGATTTTAAGT
TAATTACATTATACGTAAAATATTCCTCATTCATAATATGATTTCCCTATAATACATAAATTATA
ATTGTGAAAGTGTAAGGAAGTTTTTAAAATTAACGTATATATAATATGATAAATAAAATTTTTAA
TAATTTTACTTAAAAAGTCAAAATTGGCTGTTAAATTAATAAATTCTATAGAATTCTGAAATTTT
AATAATAATAATTTTTTGATGAAAAAATGCTAAACATGTATTTTAAACTCGAAACTAGAAAGATA
AGTAACAATTCTTGTAAAAAATAAGTCCTCTTC
Found at i:11449001 original size:92 final size:92
Alignment explanation
Indices: 11448844--11449037 Score: 277
Period size: 92 Copynumber: 2.1 Consensus size: 92
11448834 TTGATTTTAG
* * *
11448844 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
11448909 ATTTAAT-ATTAATTATTTTAAATTGTA
66 ATGTAATAATT-ATTATTTTAAATTATA
*
11448936 TAAATTCATATAAGAAAATTTT-TTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATT
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATT
11448999 ATATGTAATAATTATTATTTTAAATTATA
64 ATATGTAATAATTATTATTTTAAATTATA
*
11449028 CAAATTCATA
1 TAAATTCATA
11449038 AAATATAATT
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
90 1 0.01
91 24 0.26
92 64 0.70
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:11449007 original size:24 final size:25
Alignment explanation
Indices: 11448980--11449027 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
11448970 TTATGAAATT
11448980 TAAT-ATTAATTA-TTAAATTATATG
1 TAATAATT-ATTATTTAAATTATATG
11449004 TAATAATTATTATTTTAAATTATA
1 TAATAATTATTA-TTTAAATTATA
11449028 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):
TAATAATTATTATTTAAATTATATG
Found at i:11449223 original size:16 final size:16
Alignment explanation
Indices: 11449202--11449243 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11449192 TTATTAAATT
*
11449202 ATATATTTTAATTATA
1 ATATATTTTAATAATA
11449218 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
11449233 AT-TATGTTTAA
1 ATATAT-TTTAA
11449244 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:11449228 original size:15 final size:15
Alignment explanation
Indices: 11449193--11449234 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11449183 TTAAGAATTT
*
11449193 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11449207 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11449221 TATTTAATAATAAT
1 TATTTAATTATAAT
11449235 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:11449355 original size:157 final size:157
Alignment explanation
Indices: 11449177--11449486 Score: 593
Period size: 157 Copynumber: 2.0 Consensus size: 157
11449167 ATAAGAATAT
*
11449177 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
11449242 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
11449307 TAATAATTTACCAAAACAAATTTCTAC
131 TAATAATTTACCAAAACAAATTTCTAC
11449334 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
11449399 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
11449464 TAATCATTTACCAAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
11449487 ATGCTAAAGG
Statistics
Matches: 150, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 150 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTAC
Found at i:11449374 original size:18 final size:17
Alignment explanation
Indices: 11449346--11449380 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11449336 ATTATTAAGA
*
11449346 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11449363 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11449381 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:11449414 original size:75 final size:75
Alignment explanation
Indices: 11449178--11449416 Score: 200
Period size: 75 Copynumber: 3.1 Consensus size: 75
11449168 TAAGAATATT
*
11449178 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
11449243 AATATGATTA
66 AATATGATTA
* ** * * * * *
11449253 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * *
11449315 -TACCAAAACAAAT-TTCTA
59 AT-GTTTAA-ATATGAT-TA
11449333 CTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 --AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
11449398 TAAATATGATTA
64 TAAATATGATTA
11449410 AATTATT
1 AATTATT
11449417 TATTATTGAT
Statistics
Matches: 118, Mismatches: 29, Indels: 34
0.65 0.16 0.19
Matches are distributed among these distances:
75 22 0.19
76 16 0.14
77 9 0.08
78 16 0.14
79 16 0.14
80 9 0.08
81 15 0.13
82 15 0.13
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:11449630 original size:45 final size:44
Alignment explanation
Indices: 11449541--11449635 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
11449531 TTACACCTCT
*
11449541 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
11449585 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
11449630 ATTACA
1 ATTACA
11449636 CCTCTAATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:11458729 original size:17 final size:18
Alignment explanation
Indices: 11458691--11458734 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
11458681 ACCGTAGCAA
*
11458691 ATATCAATATATTATCAT
1 ATATCACTATATTATCAT
*
11458709 ATATCACTATA-TATTAT
1 ATATCACTATATTATCAT
*
11458726 ATATAACTA
1 ATATCACTA
11458735 GAGCATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATCACTATATTATCAT
Found at i:11460284 original size:3 final size:3
Alignment explanation
Indices: 11460278--11460306 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11460268 AAAAGAAGAA
11460278 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
11460307 AGCAATGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:11466904 original size:13 final size:13
Alignment explanation
Indices: 11466886--11466911 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11466876 AAAGAGATTT
11466886 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
11466899 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
11466912 AAATTGAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:11472846 original size:13 final size:13
Alignment explanation
Indices: 11472828--11472852 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11472818 TAAATCAATT
11472828 TCTTTGTTATCCA
1 TCTTTGTTATCCA
11472841 TCTTTGTTATCC
1 TCTTTGTTATCC
11472853 TCGACAATTT
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:0.12, C:0.24, G:0.08, T:0.56
Consensus pattern (13 bp):
TCTTTGTTATCCA
Found at i:11474728 original size:44 final size:44
Alignment explanation
Indices: 11473681--11474729 Score: 231
Period size: 44 Copynumber: 23.9 Consensus size: 44
11473671 CTGAGGTTAC
* *** * **
11473681 AGTGGAGTACATTGAAGCCAGTA-ATTTTATCTCCAT-GTGCAAC
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAG-GCAGT
* *** * *
11473724 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* * * * *
11473768 AGTGGAGCATA-TCAAGGATGGCAGATTTTACCTCCCT-GTG--GTT
1 AGTGGAGTAGATTGAA-GATGGTAGATTTTATCTCCCTAG-GCAG-T
* *** * * **
11473811 ACGATGGAGTACATTGAAGCCAGTA-ATTCTATCTCCCTGGGCAAC
1 A-G-TGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* *** * * *
11473856 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGT
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* * * * * *
11473900 AGTGGAGCAGA-TCAGAGATGGTGGATTTTACCTCCCTGAGGTTA-C
1 AGTGGAGTAGATTGA-AGATGGTAGATTTTATCTCCCT-AGG-CAGT
* *** * * **
11473945 AGTGGAGTACATTGAAGCCAGTA-ATTCTATCTCCCTAAGCAAC
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* *** * * * *
11473988 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCTTAAGTAGT
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* ** * * * *
11474032 AGTGGAGCAGATCAAATATGGT-GTATTTTACCTCCCTGAGGTTA-C
1 AGTGGAGTAGATTGAAGATGGTAG-ATTTTATCTCCCT-AGG-CAGT
* * *** * * * *
11474077 AGTAGAGTACATTGAAGCCAGTA-ATTCTATCTCCTTGGGCAGC
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* * *** * *
11474120 AGTGGAATAGATTGAATATTCCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* * * * * *
11474164 AGTGGAGCAGATCGAAGATGG-CGAATTTTACCTCCCTGAGGTTA-C
1 AGTGGAGTAGATTGAAGATGGTAG-ATTTTATCTCCCT-AGG-CAGT
* * * * * * *
11474209 AGTGGAGTACATTGAAGCTAGTA-ATTCTATCTCTCTGGGCAGC
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* *** * *
11474252 AGTGGAATAGATTGAAGATTAAAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* * ** * *
11474296 AGTGGAGCAGA-TCAATGATGGCGGATTTTATCTCCCTGAGGTTA-C
1 AGTGGAGTAGATTGAA-GATGGTAGATTTTATCTCCCT-AGG-CAGT
** * ** * * **
11474341 AGTGGAGTCTATTGAAGCTAATA-ATTCTATCTCCCTGGGCAAC
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* * * *** * * * *
11474384 AGTTGAATAGATTAAAGATTACAGATCTTATCTCCTTAAGTAGT
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* * * * * *
11474428 AGTGGAGCAGA-TCAAGGATGGCAGATTTTACCTCCCTGAGGTTA-C
1 AGTGGAGTAGATTGAA-GATGGTAGATTTTATCTCCCT-AGG-CAGT
* * *** * * *
11474473 AGTGGAGCACATTGAAGCCAGTA-ATTCTATCTCCCTGGGCAGC
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* ** * * *
11474516 AGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGTAGT
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* * ** * * *
11474560 AGTGGAGCAGA-TCAATGATGGCGGATTTTACCTCCCTGAGGTTA-C
1 AGTGGAGTAGATTGAA-GATGGTAGATTTTATCTCCCT-AGG-CAGT
* **** * * *
11474605 AGTGGAGTACATTGAAGCCAATA-ATTCTATCTCCCTGGGCAAT
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* ** * *
11474648 AGTGGAATAGATTGAAGATTATAGATCTTATTTCCCTAGGCAGT
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
* *
11474692 AGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTA
1 AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTA
11474730 AGGTTACAGT
Statistics
Matches: 685, Mismatches: 273, Indels: 95
0.65 0.26 0.09
Matches are distributed among these distances:
42 7 0.01
43 161 0.24
44 394 0.58
45 99 0.14
46 24 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGATGGTAGATTTTATCTCCCTAGGCAGT
Found at i:11474836 original size:132 final size:131
Alignment explanation
Indices: 11473660--11474769 Score: 1661
Period size: 132 Copynumber: 8.4 Consensus size: 131
11473650 TTGATGGTGA
* * *
11473660 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTTTATCTCCATGTGCAACA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACA
* *
11473725 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCATATCAAGGATGGC
66 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAA-GATGGC
11473790 AG
130 AG
*
11473792 ATTTTACCTCCCTGTGGTTAC-GATGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAAC
1 ATTTTACCTCCCTGAGGTTACAG-TGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAAC
11473856 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAGAGATGG
65 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCA-AGATGG
**
11473921 TGG
129 CAG
**
11473924 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAAGCAACA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACA
* *
11473989 GTGGAATAGATTGAAGATTACAGATCTTATCTCCTTAAGTAGTAGTGGAGCAGATCAAATATGG-
66 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC-AAGATGGC
*
11474053 TG
130 AG
* * *
11474055 TATTTTACCTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCTTGGGCAGC
1 -ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAAC
* * *
11474120 AGTGGAATAGATTGAATATTCCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
65 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC-AAGATGG
11474185 C-G
129 CAG
* * *
11474187 AATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCTCTGGGCAGC
1 -ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAAC
* *
11474252 AGTGGAATAGATTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAATGATGG
65 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAA-GATGG
*
11474317 CGG
129 CAG
* * *
11474320 ATTTTATCTCCCTGAGGTTACAGTGGAGT-CTATTGAAGCTAATAATTCTATCTCCCTGGGCAAC
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTAC-ATTGAAGCCAGTAATTCTATCTCCCTGGGCAAC
* * *
11474384 AGTTGAATAGATTAAAGATTACAGATCTTATCTCCTTAAGTAGTAGTGGAGCAGATCAAGGATGG
65 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAA-GATGG
11474449 CAG
129 CAG
* *
11474452 ATTTTACCTCCCTGAGGTTACAGTGGAGCACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACA
*
11474517 GTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAATGATGGC
66 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAA-GATGGC
*
11474582 GG
130 AG
* *
11474584 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCAATA
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACA
* * * * * *
11474649 GTGGAATAGATTGAAGATTATAGATCTTATTTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGT
66 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC-AAGATGGC
11474714 AG
130 AG
* * * *
11474716 ATTTTACCTCCCTAAGGTTACAGTGGAATATATTGAAGCTAGTAATTCTATCTC
1 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTC
11474770 TCTAGTCGGC
Statistics
Matches: 897, Mismatches: 70, Indels: 22
0.91 0.07 0.02
Matches are distributed among these distances:
131 5 0.01
132 885 0.99
133 7 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (131 bp):
ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACA
GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAGATGGCA
G
Found at i:11492553 original size:17 final size:17
Alignment explanation
Indices: 11492508--11492553 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
11492498 CACCATATAC
*
11492508 TTATATAATACTAACAA
1 TTATATAATATTAACAA
*
11492525 ATATAT-ATATTAA-AA
1 TTATATAATATTAACAA
11492540 TTTATATAATATTA
1 -TTATATAATATTA
11492554 TTTTACATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 2 0.08
16 11 0.46
17 11 0.46
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TTATATAATATTAACAA
Found at i:11497862 original size:50 final size:50
Alignment explanation
Indices: 11497747--11497995 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
11497737 GTAAAAAACA
* * * ** *
11497747 TGCCAAAGCCATGTCCCAGGCATGGTCTTACATGGAATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
11497798 TGCCCAA-GCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TG-CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
11497848 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCGTTTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
11497898 TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCGTGATCTCAAGAA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--G-G
* * *
11497954 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11497996 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
49 4 0.02
50 91 0.54
51 28 0.17
52 4 0.02
53 3 0.02
55 1 0.01
56 38 0.22
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:11498113 original size:13 final size:13
Alignment explanation
Indices: 11498095--11498119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11498085 AATCAACATC
11498095 AAATAAATTCATG
1 AAATAAATTCATG
11498108 AAATAAATTCAT
1 AAATAAATTCAT
11498120 AGTTGCTGGA
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:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATAAATTCATG
Found at i:11499320 original size:23 final size:23
Alignment explanation
Indices: 11499269--11499320 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
11499259 TCAATCATCG
*
11499269 TATTTTTTTAAATTTCATTTTTT
1 TATTTTTTTAAATTTCATTGTTT
11499292 TATTTTTTTATAATTT-ATATGTTT
1 TATTTTTTTA-AATTTCAT-TGTTT
11499316 T-TTTT
1 TATTTT
11499321 CTAGATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (23 bp):
TATTTTTTTAAATTTCATTGTTT
Found at i:11502493 original size:27 final size:27
Alignment explanation
Indices: 11502462--11502517 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
11502452 ACATGGTTTA
11502462 AGCTCATGCGTGAAAATAAAGTTTCAT
1 AGCTCATGCGTGAAAATAAAGTTTCAT
11502489 AGCTCATGCGTGAAAATAAAGTTTCAT
1 AGCTCATGCGTGAAAATAAAGTTTCAT
11502516 AG
1 AG
11502518 TATGTGTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (27 bp):
AGCTCATGCGTGAAAATAAAGTTTCAT
Found at i:11503267 original size:52 final size:51
Alignment explanation
Indices: 11503118--11503326 Score: 321
Period size: 51 Copynumber: 4.1 Consensus size: 51
11503108 ACTTTTTATC
* * * * * *
11503118 AGTGGCAAGTGATAAGTAGCAGCTTCAGCTACACTTATTTGATCAATGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
11503169 AGTGGCAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
11503219 GGTGACAACTGATAAGTGGTAGCTTTAGGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTA-GCTACACTTATCTGATCAGTGACA
11503271 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
11503322 AGTGA
1 AGTGA
11503327 TAAATGTGAT
Statistics
Matches: 146, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
50 44 0.30
51 53 0.36
52 49 0.34
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:11508027 original size:26 final size:26
Alignment explanation
Indices: 11507995--11508048 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
11507985 ATTACGTTAA
11507995 AAGAAATAGAGAAGGTAAGAAAACAG
1 AAGAAATAGAGAAGGTAAGAAAACAG
11508021 AAGAAATAGAGAAGGTAAGAAAACAG
1 AAGAAATAGAGAAGGTAAGAAAACAG
11508047 AA
1 AA
11508049 AGAGAAGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.63, C:0.04, G:0.26, T:0.07
Consensus pattern (26 bp):
AAGAAATAGAGAAGGTAAGAAAACAG
Found at i:11508053 original size:21 final size:24
Alignment explanation
Indices: 11507995--11508056 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 24
11507985 ATTACGTTAA
11507995 AAGAAATAGAGAAGGTAAGAAAAC
1 AAGAAATAGAGAAGGTAAGAAAAC
11508019 AGAAGAAATAGAGAAGGTAAGAAAAC
1 --AAGAAATAGAGAAGGTAAGAAAAC
11508045 -AG-AA-AGAGAAGG
1 AAGAAATAGAGAAGG
11508057 AGACGGGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.22
22 2 0.06
23 2 0.06
26 24 0.67
ACGTcount: A:0.61, C:0.03, G:0.29, T:0.06
Consensus pattern (24 bp):
AAGAAATAGAGAAGGTAAGAAAAC
Found at i:11513297 original size:13 final size:14
Alignment explanation
Indices: 11513281--11513313 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
11513271 TTTATTTCAG
*
11513281 TTTAGTATTTAAT-
1 TTTAATATTTAATA
11513294 TTTAATATTTAATA
1 TTTAATATTTAATA
11513308 TTTAAT
1 TTTAAT
11513314 TTAATAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
TTTAATATTTAATA
Found at i:11513304 original size:7 final size:7
Alignment explanation
Indices: 11513281--11513313 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
11513271 TTTATTTCAG
*
11513281 TTTAGTA
1 TTTAATA
11513288 TTTAAT-
1 TTTAATA
11513294 TTTAATA
1 TTTAATA
11513301 TTTAATA
1 TTTAATA
11513308 TTTAAT
1 TTTAAT
11513314 TTAATAGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (7 bp):
TTTAATA
Found at i:11513309 original size:20 final size:19
Alignment explanation
Indices: 11513281--11513319 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
11513271 TTTATTTCAG
*
11513281 TTTAGTATTTAATTTTAATA
1 TTTAATATTTAA-TTTAATA
11513301 TTTAATATTTAATTTAATA
1 TTTAATATTTAATTTAATA
11513320 GTCAAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTAATATTTAATTTAATA
Found at i:11519947 original size:15 final size:15
Alignment explanation
Indices: 11519927--11519961 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11519917 AGGAAGTAGG
*
11519927 ACTGAGCAACAAAAA
1 ACTGAGAAACAAAAA
*
11519942 ACTGAGAAACCAAAA
1 ACTGAGAAACAAAAA
11519957 ACTGA
1 ACTGA
11519962 CCCGATCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.20, G:0.14, T:0.09
Consensus pattern (15 bp):
ACTGAGAAACAAAAA
Found at i:11527046 original size:48 final size:48
Alignment explanation
Indices: 11526992--11527089 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
11526982 TCTGGGTATA
11526992 ATAAAAAAGGACTACAAAGCCATCTTTCTTTCCTCCATGCTATTTGAT
1 ATAAAAAAGGACTACAAAGCCATCTTTCTTTCCTCCATGCTATTTGAT
11527040 ATAAAAAAGGACTACAAAGCCATCTTTCTTTCCTCCATGCTATTTGAT
1 ATAAAAAAGGACTACAAAGCCATCTTTCTTTCCTCCATGCTATTTGAT
11527088 AT
1 AT
11527090 TTGGCCGGGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (48 bp):
ATAAAAAAGGACTACAAAGCCATCTTTCTTTCCTCCATGCTATTTGAT
Found at i:11531349 original size:12 final size:12
Alignment explanation
Indices: 11531332--11531375 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
11531322 TTATTAAATG
11531332 ATTAAATG-GTT
1 ATTAAATGAGTT
11531343 CATTAAATGAGTT
1 -ATTAAATGAGTT
*
11531356 ATTAGATGAGTT
1 ATTAAATGAGTT
11531368 ATTAAATG
1 ATTAAATG
11531376 GTTTAGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 26 0.90
13 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (12 bp):
ATTAAATGAGTT
Found at i:11536580 original size:43 final size:43
Alignment explanation
Indices: 11536514--11536629 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 43
11536504 AGCTCGTACA
*
11536514 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AA-TCAAACGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACTCAAA--TCG
11536557 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACCTCAAATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAA-CTCAAATCG
11536601 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
11536630 AAATACTCAT
Statistics
Matches: 65, Mismatches: 1, Indels: 13
0.82 0.01 0.16
Matches are distributed among these distances:
42 2 0.03
43 26 0.40
44 30 0.46
45 2 0.03
46 5 0.08
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACTCAAATCG
Found at i:11537543 original size:23 final size:22
Alignment explanation
Indices: 11537508--11537557 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
11537498 AATGCATGTC
*
11537508 ATTTTGTGTTTTATTTATTTAAT
1 ATTTTGTGTTTTACTTA-TTAAT
*
11537531 ATTTTGT-TATTTACTTATTACT
1 ATTTTGTGT-TTTACTTATTAAT
11537553 ATTTT
1 ATTTT
11537558 AACCTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.68
Consensus pattern (22 bp):
ATTTTGTGTTTTACTTATTAAT
Found at i:11541115 original size:3 final size:3
Alignment explanation
Indices: 11541109--11541155 Score: 58
Period size: 3 Copynumber: 14.7 Consensus size: 3
11541099 CTAATCAGTT
*
11541109 TTA TTA TTA TTA TTA TTA TTA TTGCA TTTA TTA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT--A -TTA TTA TTA TTA TTA TTA TT
11541156 TACCCATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
3 35 0.90
4 1 0.03
5 1 0.03
6 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:11541163 original size:27 final size:27
Alignment explanation
Indices: 11541108--11541166 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
11541098 ACTAATCAGT
* **
11541108 TTTATTATTATTATTATTATTATTGCA
1 TTTATTATTATAATTATTATTATCCCA
11541135 TTTATTATTATAATTATTATT-TACCCA
1 TTTATTATTATAATTATTATTAT-CCCA
11541162 TTTAT
1 TTTAT
11541167 ACCGTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTATTATTATAATTATTATTATCCCA
Found at i:11543371 original size:33 final size:33
Alignment explanation
Indices: 11543334--11543423 Score: 128
Period size: 33 Copynumber: 2.7 Consensus size: 33
11543324 TCAGCTCATA
11543334 GCTGTTCGTGCACATCAATGGACACAGCACAAG
1 GCTGTTCGTGCACATCAATGGACACAGCACAAG
* *
11543367 GCTGTTCGTGCACACCAATGGACACAGCACATG
1 GCTGTTCGTGCACATCAATGGACACAGCACAAG
* *
11543400 ACTGTTCGGGCATC-TCAATGGACA
1 GCTGTTCGTGCA-CATCAATGGACA
11543424 GCCAACCATT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
33 50 0.98
34 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (33 bp):
GCTGTTCGTGCACATCAATGGACACAGCACAAG
Found at i:11544900 original size:20 final size:19
Alignment explanation
Indices: 11544870--11544920 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
11544860 AAAAAAAGAG
11544870 AAAAATAAATAAATAAATGAA
1 AAAAAT-AATAAATAAAT-AA
* * *
11544891 AAAAATAATAATTACATTA
1 AAAAATAATAAATAAATAA
11544910 AAAAATAATAA
1 AAAAATAATAA
11544921 GAAATTACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 12 0.44
20 9 0.33
21 6 0.22
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAATAATAAATAAATAA
Found at i:11545898 original size:5 final size:5
Alignment explanation
Indices: 11545888--11545919 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
11545878 AGAAATATGC
*
11545888 TTGAT TTGAT TTGAT TTGAT TTGAT TTTAT TT
1 TTGAT TTGAT TTGAT TTGAT TTGAT TTGAT TT
11545920 CCTTTCTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.66
Consensus pattern (5 bp):
TTGAT
Found at i:11546643 original size:217 final size:217
Alignment explanation
Indices: 11546262--11547040 Score: 1272
Period size: 217 Copynumber: 3.6 Consensus size: 217
11546252 CTAGTGCTGC
* *
11546262 AGTCTACTCCACTGCAA-TGTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
1 AGTCTGCTCCACTGCAACT-TCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGA
* *
11546326 GAGATAAGATCCAAGATTTTAATCCACTCCACTGCAACTTTAGGGAGATAGGATTATCGGCTTTA
65 GAGATAAGATCCAAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTTA
* *
11546391 ACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGCCATCTTCAGTTTGCCCCACTGCAACTTC
130 ACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTC
11546456 AGGAGGATAAGACTTGCTTACTT
195 AGGAGGATAAGACTTGCTTACTT
*
11546479 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAG
11546544 AGATAAGATCCAAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTTAA
66 AGATAAGATCCAAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTTAA
11546609 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCA
131 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCA
11546674 GGAGGATAAGACTTGCTTACTT
196 GGAGGATAAGACTTGCTTACTT
* *
11546696 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTACAATTTCAGAG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAG
* * * ** * *
11546761 AAATAAGATCTAAGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGTATTATCGGCTTTAA
66 AGATAAGATCCAAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTTAA
* * * **
11546826 TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTTCACTGCAACTTCA
131 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCA
* * * *
11546891 AGAAGATAGGACTTGCTTGCTT
196 GGAGGATAAGACTTGCTTACTT
* *
11546913 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAG
* * *
11546978 AGATAAGATCCAAGTTTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATCATTGGCTTT
66 AGATAAGATCCAAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTT
11547041 TGATCTGTTC
Statistics
Matches: 522, Mismatches: 39, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
217 521 1.00
218 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (217 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAG
AGATAAGATCCAAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTTAA
CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCA
GGAGGATAAGACTTGCTTACTT
Found at i:11546926 original size:44 final size:43
Alignment explanation
Indices: 11546393--11546947 Score: 280
Period size: 44 Copynumber: 12.7 Consensus size: 43
11546383 CGGCTTTAAC
** *
11546393 CTGCTCCACTGCAACTTCAAGG-AGATAAGGTTTGCCATCTTCAGT
1 CTGCTCCACTGCAACTTC-AGGAAGATAAGACTTG-CTTCTT-AGT
* * *
11546438 TTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
1 CTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCTT-CTTAGT
* * * * *
11546482 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATAC-GA-T
1 CTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCTTCTTAGT
* * ** * *
11546523 CTACT-CTCTGCAACTTCA-GAGAGATAAGATCCAAGATT-TTAAT
1 CTGCTCCACTGCAACTTCAGGA-AGATAAGA--CTTGCTTCTTAGT
* * * * * * **
11546566 CCGCTCCACTACAACTTTAGGGAGATAGGATTATCGGC-T-TTAAC
1 CTGCTCCACTGCAACTTCAGGAAGATAAGACT-T--GCTTCTTAGT
* ** *
11546610 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGAAGATAAGACTTG-CTTCTT-AGT
* *
11546655 CTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
1 CTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCTT-CTTAGT
* * * * *
11546699 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGC-GA-T
1 CTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCTTCTTAGT
* * * * * * *
11546740 CTACT-CTCTACAATTTCAGAGAA-ATAAGATCTAAGGTT-TTAAT
1 CTGCTCCACTGCAACTTCAG-GAAGATAAGA-CT-TGCTTCTTAGT
* * * * *
11546783 CCGCTCCACTGTAACTTCAGGGAGAT-AGTATTATCGGC-T-TTAAT
1 CTGCTCCACTGCAACTTCAGGAAGATAAG-ACT-T--GCTTCTTAGT
* * * *
11546827 CTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGAAGATAAGACTTG-CTTCTT-AGT
* * *
11546872 CTGCTTCACTGCAACTTCAAGAAGATAGGACTTGCTTGCTTAGT
1 CTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCTT-CTTAGT
11546916 CTGCTCCACTGCAACTTCA-GAGAGATAAGACT
1 CTGCTCCACTGCAACTTCAGGA-AGATAAGACT
11546948 AGATGCGATC
Statistics
Matches: 393, Mismatches: 83, Indels: 69
0.72 0.15 0.13
Matches are distributed among these distances:
39 1 0.00
40 37 0.09
41 16 0.04
42 14 0.04
43 22 0.06
44 204 0.52
45 99 0.25
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCTTCTTAGT
Found at i:11559683 original size:103 final size:104
Alignment explanation
Indices: 11559504--11559768 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
11559494 AACCGTTATT
* * * *
11559504 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
11559569 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
11559607 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
11559672 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
11559711 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
11559769 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:11560130 original size:30 final size:29
Alignment explanation
Indices: 11560096--11560160 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
11560086 TAATCCACCA
11560096 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
11560126 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
11560156 CCCAA
1 CCCAA
11560161 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:11560134 original size:31 final size:30
Alignment explanation
Indices: 11560103--11560160 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11560093 CCACCCAACT
11560103 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
11560133 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
11560161 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:11569799 original size:19 final size:20
Alignment explanation
Indices: 11569777--11569842 Score: 59
Period size: 19 Copynumber: 3.4 Consensus size: 20
11569767 ATAACAAATT
11569777 AATATATATAT-AAATAAAA
1 AATATATATATAAAATAAAA
* *
11569796 AATAT-TAT-TGACAATAAAT
1 AATATATATAT-AAAATAAAA
*
11569815 AATA-ATATATAAAATTTAAA
1 AATATATATATAAAA-TAAAA
11569835 AATATATA
1 AATATATA
11569843 AAGAAATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
17 1 0.03
18 3 0.08
19 21 0.58
20 8 0.22
21 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
AATATATATATAAAATAAAA
Found at i:11576384 original size:47 final size:47
Alignment explanation
Indices: 11576313--11576403 Score: 173
Period size: 47 Copynumber: 1.9 Consensus size: 47
11576303 TTGTTCAACT
*
11576313 AAATGTTTGAAACCCCCCCTCCCCCCCCCCCAAAAAAAAAAACCACA
1 AAATGTTTGAAACCCCCCCCCCCCCCCCCCCAAAAAAAAAAACCACA
11576360 AAATGTTTGAAACCCCCCCCCCCCCCCCCCCAAAAAAAAAAACC
1 AAATGTTTGAAACCCCCCCCCCCCCCCCCCCAAAAAAAAAAACC
11576404 TCCAAAACCC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.40, C:0.46, G:0.04, T:0.10
Consensus pattern (47 bp):
AAATGTTTGAAACCCCCCCCCCCCCCCCCCCAAAAAAAAAAACCACA
Found at i:11583868 original size:41 final size:41
Alignment explanation
Indices: 11583823--11584207 Score: 116
Period size: 41 Copynumber: 9.3 Consensus size: 41
11583813 TTTATGTTTG
11583823 CGCCGCTAATGGTGGAGGTTTTAGTGGCGTTTTTGGTCAAT
1 CGCCGCTAATGGTGGAGGTTTTAGTGGCGTTTTTGGTCAAT
* ** * ** * * * *
11583864 CGCCGCTAGT-GTTAAGGTATTAGCAGCATTTTT-CTCGTAG
1 CGCCGCTAATGGTGGAGGTTTTAGTGGCGTTTTTGGTC-AAT
**
11583904 CGCCGCT-ATCGGTTGGAGGTGATAGTGGCGTTTTTTGGTCAAT
1 CGCCGCTAAT-GG-TGGAGGTTTTAGTGGCG-TTTTTGGTCAAT
* ** * * *
11583947 CGCCACTAAT-GTTAAGGTATTTAGCGGCGTTTCTAT-G-CTAG
1 CGCCGCTAATGGTGGAGGT-TTTAGTGGCGTTT-T-TGGTCAAT
* * * *
11583988 CGCCGCTAATGTTGTGA-ATTTTACTGGCGTTTTTATGT--AT
1 CGCCGCTAATGGTG-GAGGTTTTAGTGGCGTTTTT-GGTCAAT
* * **
11584028 GCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAAT
1 -CGCCGCTAATGG-TGGAGGTTTTAGTGGCGT-TTTTGGTCAAT
* ** * * *
11584072 CGCCACTAAT-GTTAAGGTATTTAGCGGCGTTTCTAT-G-CTAG
1 CGCCGCTAATGGTGGAGGT-TTTAGTGGCGTTT-T-TGGTCAAT
* * * *
11584113 CGCCGCTAATGTTGTGA-ATTTTACTGGCGTTTTTATGT--AT
1 CGCCGCTAATGGTG-GAGGTTTTAGTGGCGTTTTT-GGTCAAT
* * **
11584153 GCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAAT
1 -CGCCGCTAATGG-TGGAGGTTTTAGTGGCGT-TTTTGGTCAAT
*
11584197 CGCCACTAATG
1 CGCCGCTAATG
11584208 TTAAGGTATT
Statistics
Matches: 236, Mismatches: 73, Indels: 68
0.63 0.19 0.18
Matches are distributed among these distances:
39 5 0.02
40 29 0.12
41 92 0.39
42 61 0.26
43 41 0.17
44 8 0.03
ACGTcount: A:0.17, C:0.17, G:0.30, T:0.36
Consensus pattern (41 bp):
CGCCGCTAATGGTGGAGGTTTTAGTGGCGTTTTTGGTCAAT
Found at i:11584016 original size:83 final size:83
Alignment explanation
Indices: 11583801--11584228 Score: 253
Period size: 84 Copynumber: 5.2 Consensus size: 83
11583791 TGCTCTTACC
* * * *
11583801 TTTACCGGCGTTTTTATGTTTGCGCCGCTAATGGTGGAGGTTTTAGTGGCG-TTTTTGGTCAATC
1 TTTAGCGGCGTTTTTATGCTAGCGCCGCTAATGTTGGAGGTTTTAGTGGCGTTTTTTGGTCAATC
* *
11583865 GCCGCTAGTGTTAAGGTA
66 GCCACTAATGTTAAGGTA
* * * **
11583883 -TTAGCAGCATTTTTCT-CGTAGCGCCGCT-ATCGGTTGGAGGTGATAGTGGCGTTTTTTGGTCA
1 TTTAGCGGCGTTTTTATGC-TAGCGCCGCTAAT--GTTGGAGGTTTTAGTGGCGTTTTTTGGTCA
11583945 ATCGCCACTAATGTTAAGGTA
63 ATCGCCACTAATGTTAAGGTA
* * *
11583966 TTTAGCGGCGTTTCTATGCTAGCGCCGCTAATGTTGTGA-ATTTTACTGGCGTTTTTAT-GT--A
1 TTTAGCGGCGTTTTTATGCTAGCGCCGCTAATGTTG-GAGGTTTTAGTGGCGTTTTT-TGGTCAA
* * **
11584027 TGCGCCGCTATTGGTTGGGGGTGA
64 T-CGCCACTAAT-GTT-AAGGT-A
* * * * * * * *
11584051 --TAGTGGCGTGTTTT-GGTCAATCGCCACTAATGTT-AAGGTATTTAGCGGCGTTTCTAT-G-C
1 TTTAGCGGCGT-TTTTATG-CTAGCGCCGCTAATGTTGGAGGT-TTTAGTGGCGTTT-TTTGGTC
* * * *
11584110 TAGCGCCGCTAATGTT--GTGAA
62 AATCGCCACTAATGTTAAG-GTA
* * ** *
11584131 TTTTA-CTGGCGTTTTTATG-TATGCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTC
1 -TTTAGC-GGCGTTTTTATGCTA-GCGCCGCTAAT-GTTGGAGGTTTTAGTGGCGTTTTTTGGTC
11584194 AATCGCCACTAATGTTAAGGTA
62 AATCGCCACTAATGTTAAGGTA
11584216 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
11584229 GGTTTTAAAA
Statistics
Matches: 258, Mismatches: 54, Indels: 66
0.68 0.14 0.17
Matches are distributed among these distances:
80 4 0.02
81 25 0.10
82 39 0.15
83 85 0.33
84 95 0.37
85 9 0.03
86 1 0.00
ACGTcount: A:0.17, C:0.16, G:0.29, T:0.38
Consensus pattern (83 bp):
TTTAGCGGCGTTTTTATGCTAGCGCCGCTAATGTTGGAGGTTTTAGTGGCGTTTTTTGGTCAATC
GCCACTAATGTTAAGGTA
Found at i:11584055 original size:125 final size:125
Alignment explanation
Indices: 11583903--11584228 Score: 625
Period size: 125 Copynumber: 2.6 Consensus size: 125
11583893 TTTTCTCGTA
* * *
11583903 GCGCCGCTATCGGTTGGAGGTGATAGTGGCGTTTTTTGGTCAATCGCCACTAATGTTAAGGTATT
1 GCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATT
11583968 TAGCGGCGTTTCTATGCTAGCGCCGCTAATGTTGTGAATTTTACTGGCGTTTTTATGTAT
66 TAGCGGCGTTTCTATGCTAGCGCCGCTAATGTTGTGAATTTTACTGGCGTTTTTATGTAT
11584028 GCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATT
1 GCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATT
11584093 TAGCGGCGTTTCTATGCTAGCGCCGCTAATGTTGTGAATTTTACTGGCGTTTTTATGTAT
66 TAGCGGCGTTTCTATGCTAGCGCCGCTAATGTTGTGAATTTTACTGGCGTTTTTATGTAT
11584153 GCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATT
1 GCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATT
11584218 TAGCGGCGTTT
66 TAGCGGCGTTT
11584229 GGTTTTAAAA
Statistics
Matches: 198, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 198 1.00
ACGTcount: A:0.17, C:0.16, G:0.30, T:0.37
Consensus pattern (125 bp):
GCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATT
TAGCGGCGTTTCTATGCTAGCGCCGCTAATGTTGTGAATTTTACTGGCGTTTTTATGTAT
Found at i:11585334 original size:15 final size:15
Alignment explanation
Indices: 11585314--11585359 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
11585304 GGATTAAGGT
11585314 TTAGGGGTTAGAG-AC
1 TTAGGGGTTAG-GTAC
*
11585329 TTAGGGGTTAGGTAT
1 TTAGGGGTTAGGTAC
11585344 TTAGGGGTTAGGTAC
1 TTAGGGGTTAGGTAC
11585359 T
1 T
11585360 CAAGTTAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 1 0.04
15 27 0.96
ACGTcount: A:0.22, C:0.04, G:0.39, T:0.35
Consensus pattern (15 bp):
TTAGGGGTTAGGTAC
Found at i:11585859 original size:16 final size:17
Alignment explanation
Indices: 11585832--11585866 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
11585822 TTATACTTAG
*
11585832 TAATTAAAAGATACAAT
1 TAATTAAAAGATAAAAT
11585849 TAATT-AAAGATAAAAT
1 TAATTAAAAGATAAAAT
11585865 TA
1 TA
11585867 TGAAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (17 bp):
TAATTAAAAGATAAAAT
Found at i:11586213 original size:23 final size:25
Alignment explanation
Indices: 11586178--11586233 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
11586168 CACTTAGCCG
11586178 AAATT-CCCCCAAA-TTAT-CCCCA
1 AAATTCCCCCCAAATTTATCCCCCA
*
11586200 AAATTCCCCCCAAATTTTTCCCCCA
1 AAATTCCCCCCAAATTTATCCCCCA
11586225 AAA-TCCCCC
1 AAATTCCCCC
11586234 AATTCTAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 5 0.17
23 8 0.27
24 9 0.30
25 8 0.27
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.23
Consensus pattern (25 bp):
AAATTCCCCCCAAATTTATCCCCCA
Found at i:11586234 original size:23 final size:22
Alignment explanation
Indices: 11586178--11586235 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 22
11586168 CACTTAGCCG
11586178 AAATTCCCCCAAATTATCCCCA
1 AAATTCCCCCAAATTATCCCCA
*
11586200 AAATTCCCCCCAAATTTTTCCCCCA
1 AAATT-CCCCCAAA-TTAT-CCCCA
11586225 AAA-TCCCCCAA
1 AAATTCCCCCAA
11586236 TTCTAGAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 5 0.16
23 15 0.47
24 4 0.12
25 8 0.25
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.22
Consensus pattern (22 bp):
AAATTCCCCCAAATTATCCCCA
Found at i:11586650 original size:12 final size:12
Alignment explanation
Indices: 11586633--11586658 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11586623 AGTTTGAAAC
11586633 TGTTCATAATTT
1 TGTTCATAATTT
11586645 TGTTCATAATTT
1 TGTTCATAATTT
11586657 TG
1 TG
11586659 ACTATCCTGT
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:0.23, C:0.08, G:0.12, T:0.58
Consensus pattern (12 bp):
TGTTCATAATTT
Found at i:11586722 original size:12 final size:12
Alignment explanation
Indices: 11586707--11586746 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
11586697 TGTAATACTG
11586707 TTTGTTCATAAT
1 TTTGTTCATAAT
11586719 TTTGTT-ACTAAT
1 TTTGTTCA-TAAT
*
11586731 TTTGTTCATAAG
1 TTTGTTCATAAT
11586743 TTTG
1 TTTG
11586747 AAACTGTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.23, C:0.07, G:0.12, T:0.57
Consensus pattern (12 bp):
TTTGTTCATAAT
Found at i:11588180 original size:21 final size:21
Alignment explanation
Indices: 11588156--11588324 Score: 76
Period size: 21 Copynumber: 7.4 Consensus size: 21
11588146 TATTAACATA
*
11588156 TATATTTTCAATAATAAATTT
1 TATATTTTAAATAATAAATTT
*
11588177 TATAATTTTAGAAATAATTGTAAATGT
1 TAT-ATTTT--AAATAA---TAAATTT
* *
11588204 TAT-TTTCTAAATATTAACA-TC
1 TATATTT-TAAATAATAA-ATTT
*
11588225 TATATTTTCAATAATAAATTT
1 TATATTTTAAATAATAAATTT
* *
11588246 TATAATTTTAGAAAGAATTGTAAATGT
1 TAT-ATTTT--AAATAA---TAAATTT
*
11588273 TAT-TTTCTAAATATTAACA-TT
1 TATATTT-TAAATAATAA-ATTT
*
11588294 TATATTTTCAATAATAAATTT
1 TATATTTTAAATAATAAATTT
11588315 TATAATTTTA
1 TAT-ATTTTA
11588325 GAAAGAATTG
Statistics
Matches: 110, Mismatches: 17, Indels: 41
0.65 0.10 0.24
Matches are distributed among these distances:
20 2 0.02
21 41 0.37
22 23 0.21
24 18 0.16
25 6 0.05
26 2 0.02
27 18 0.16
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (21 bp):
TATATTTTAAATAATAAATTT
Found at i:11588229 original size:69 final size:69
Alignment explanation
Indices: 11588122--11588343 Score: 399
Period size: 69 Copynumber: 3.2 Consensus size: 69
11588112 TTTTAAAACT
*
11588122 AATTGTACATGTTATTTTTCTAAATATTAACATATATATTTTCAATAATAAATTTTATAATTTTA
1 AATTGTAAATGTTA-TTTTCTAAATATTAACATATATATTTTCAATAATAAATTTTATAATTTTA
*
11588187 GAAAT
65 GAAAG
*
11588192 AATTGTAAATGTTATTTTCTAAATATTAACATCTATATTTTCAATAATAAATTTTATAATTTTAG
1 AATTGTAAATGTTATTTTCTAAATATTAACATATATATTTTCAATAATAAATTTTATAATTTTAG
11588257 AAAG
66 AAAG
*
11588261 AATTGTAAATGTTATTTTCTAAATATTAACATTTATATTTTCAATAATAAATTTTATAATTTTAG
1 AATTGTAAATGTTATTTTCTAAATATTAACATATATATTTTCAATAATAAATTTTATAATTTTAG
11588326 AAAG
66 AAAG
11588330 AATTGTAAATGTTA
1 AATTGTAAATGTTA
11588344 CGTAATTCAA
Statistics
Matches: 148, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
69 135 0.91
70 13 0.09
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (69 bp):
AATTGTAAATGTTATTTTCTAAATATTAACATATATATTTTCAATAATAAATTTTATAATTTTAG
AAAG
Found at i:11588467 original size:28 final size:28
Alignment explanation
Indices: 11588436--11588517 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 28
11588426 ATTATATAAC
11588436 AACTTATATATAAACTTACATAATACAT
1 AACTTATATATAAACTTACATAATACAT
11588464 AAC-----T-T--A-TTACATAATACAT
1 AACTTATATATAAACTTACATAATACAT
11588483 AACTTATATATAAACTTACATAATACAT
1 AACTTATATATAAACTTACATAATACAT
11588511 AACTTAT
1 AACTTAT
11588518 TACATAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 18
0.71 0.00 0.29
Matches are distributed among these distances:
19 16 0.36
20 1 0.02
22 1 0.02
23 1 0.02
24 1 0.02
25 1 0.02
27 1 0.02
28 23 0.51
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.37
Consensus pattern (28 bp):
AACTTATATATAAACTTACATAATACAT
Found at i:11588475 original size:19 final size:19
Alignment explanation
Indices: 11588451--11588526 Score: 82
Period size: 19 Copynumber: 4.5 Consensus size: 19
11588441 ATATATAAAC
11588451 TTACATAATACATAACTTA
1 TTACATAATACATAACTTA
11588470 TTACATAATACATAACTTA
1 TTACATAATACATAACTTA
11588489 -T--AT-AT--A-AAC---
1 TTACATAATACATAACTTA
11588498 TTACATAATACATAACTTA
1 TTACATAATACATAACTTA
11588517 TTACATAATA
1 TTACATAATA
11588527 AGTTACGTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 20
0.70 0.00 0.30
Matches are distributed among these distances:
10 1 0.02
12 5 0.11
13 3 0.06
15 3 0.06
16 5 0.11
18 1 0.02
19 29 0.62
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (19 bp):
TTACATAATACATAACTTA
Found at i:11588487 original size:47 final size:47
Alignment explanation
Indices: 11588436--11588526 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
11588426 ATTATATAAC
11588436 AACTTATATATAAACTTACATAATACATAACTTATTACATAATACAT
1 AACTTATATATAAACTTACATAATACATAACTTATTACATAATACAT
11588483 AACTTATATATAAACTTACATAATACATAACTTATTACATAATA
1 AACTTATATATAAACTTACATAATACATAACTTATTACATAATA
11588527 AGTTACGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.36
Consensus pattern (47 bp):
AACTTATATATAAACTTACATAATACATAACTTATTACATAATACAT
Found at i:11588633 original size:9 final size:9
Alignment explanation
Indices: 11588615--11588674 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
11588605 AACTTGTCGG
*
11588615 ACTTGCATA
1 ACTTACATA
*
11588624 ACTTATATA
1 ACTTACATA
*
11588633 A--TACTTA
1 ACTTACATA
11588640 ACTTACATA
1 ACTTACATA
11588649 ACTTACATA
1 ACTTACATA
11588658 A--TACATA
1 ACTTACATA
11588665 ACTTACATA
1 ACTTACATA
11588674 A
1 A
11588675 TAACATAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
7 12 0.29
9 30 0.71
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (9 bp):
ACTTACATA
Found at i:11588649 original size:25 final size:25
Alignment explanation
Indices: 11588615--11588684 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
11588605 AACTTGTCGG
* * *
11588615 ACTTGCATAACTTATATAATACTTA
1 ACTTACATAACTTACATAATACATA
11588640 ACTTACATAACTTACATAATACATA
1 ACTTACATAACTTACATAATACATA
*
11588665 ACTTACATAA-TAACATAATA
1 ACTTACATAACTTACATAATA
11588685 AGTTACATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 9 0.22
25 32 0.78
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.34
Consensus pattern (25 bp):
ACTTACATAACTTACATAATACATA
Found at i:11588662 original size:16 final size:16
Alignment explanation
Indices: 11588643--11588682 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 16
11588633 ATACTTAACT
11588643 TACATAACTTACATAA
1 TACATAACTTACATAA
11588659 TACATAACTTACATAA
1 TACATAACTTACATAA
11588675 TAACATAA
1 T-ACATAA
11588683 TAAGTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:11588726 original size:135 final size:135
Alignment explanation
Indices: 11588567--11589190 Score: 1167
Period size: 135 Copynumber: 4.7 Consensus size: 135
11588557 TAACAACTTG
11588567 CATAACTCACATAACTAAATTAATTTATATTATACATTAACTTGTCGGACTTGCATAACTTATAT
1 CATAACTCACATAACTAAATTAATTTATATTATACATTAACTTGTCGGACTTGCATAACTTATAT
11588632 AATACTTAACTTACATAACTTACATAATACATAACTTACATAATAACATAATAAGTTACATAATA
66 AATACTTAACTTACATAACTTACATAATACATAACTTACATAATAACATAATAAGTTACATAATA
11588697 TTATA
131 TTATA
11588702 CATAACTCACATAACTAAATTAATTTATATTATACATTAACTTGTCGGACTTGCATAACTTATAT
1 CATAACTCACATAACTAAATTAATTTATATTATACATTAACTTGTCGGACTTGCATAACTTATAT
11588767 AATACTTAACTTACATAACTTACATAATACATAACTTACATAATAACATAATAAGTTACATAATA
66 AATACTTAACTTACATAACTTACATAATACATAACTTACATAATAACATAATAAGTTACATAATA
11588832 TTATA
131 TTATA
11588837 CATAACTCACATAACTAAATTAATTTATATTATACATTAACTTGTCGGACTTGCATAACTTATAT
1 CATAACTCACATAACTAAATTAATTTATATTATACATTAACTTGTCGGACTTGCATAACTTATAT
11588902 AATACTTAACTTACATAACTTACATAATACATAACTTACATAATAACATAATAAGTTACATAATA
66 AATACTTAACTTACATAACTTACATAATACATAACTTACATAATAACATAATAAGTTACATAATA
11588967 TTATA
131 TTATA
*
11588972 CATAACTCACATAACTAAATTAATTTATATTATACATTAACTTGTCGGACTTGCATAACTTACAT
1 CATAACTCACATAACTAAATTAATTTATATTATACATTAACTTGTCGGACTTGCATAACTTATAT
11589037 -A-A--T-AC-T---TAACTTACATAATACATAACTTACATAATAACATAATAAGTTACATAATA
66 AATACTTAACTTACATAACTTACATAATACATAACTTACATAATAACATAATAAGTTACATAATA
11589093 TTATA
131 TTATA
11589098 CATAACTCACATAACTAAATTAATTTATATTATACATTAACTTGTCGGACTTGCATAACTTATAT
1 CATAACTCACATAACTAAATTAATTTATATTATACATTAACTTGTCGGACTTGCATAACTTATAT
*
11589163 AATACTTAACTTACATAACGTACATAAT
66 AATACTTAACTTACATAACTTACATAAT
11589191 TTACATAATA
Statistics
Matches: 477, Mismatches: 3, Indels: 18
0.96 0.01 0.04
Matches are distributed among these distances:
126 119 0.25
127 1 0.00
128 1 0.00
129 1 0.00
130 3 0.01
131 3 0.01
132 1 0.00
133 1 0.00
134 1 0.00
135 346 0.73
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (135 bp):
CATAACTCACATAACTAAATTAATTTATATTATACATTAACTTGTCGGACTTGCATAACTTATAT
AATACTTAACTTACATAACTTACATAATACATAACTTACATAATAACATAATAAGTTACATAATA
TTATA
Found at i:11588768 original size:9 final size:9
Alignment explanation
Indices: 11588750--11588809 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
11588740 AACTTGTCGG
*
11588750 ACTTGCATA
1 ACTTACATA
*
11588759 ACTTATATA
1 ACTTACATA
*
11588768 A--TACTTA
1 ACTTACATA
11588775 ACTTACATA
1 ACTTACATA
11588784 ACTTACATA
1 ACTTACATA
11588793 A--TACATA
1 ACTTACATA
11588800 ACTTACATA
1 ACTTACATA
11588809 A
1 A
11588810 TAACATAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
7 12 0.29
9 30 0.71
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (9 bp):
ACTTACATA
Found at i:11588784 original size:25 final size:25
Alignment explanation
Indices: 11588750--11588819 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
11588740 AACTTGTCGG
* * *
11588750 ACTTGCATAACTTATATAATACTTA
1 ACTTACATAACTTACATAATACATA
11588775 ACTTACATAACTTACATAATACATA
1 ACTTACATAACTTACATAATACATA
*
11588800 ACTTACATAA-TAACATAATA
1 ACTTACATAACTTACATAATA
11588820 AGTTACATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 9 0.22
25 32 0.78
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.34
Consensus pattern (25 bp):
ACTTACATAACTTACATAATACATA
Found at i:11588797 original size:16 final size:16
Alignment explanation
Indices: 11588778--11588817 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 16
11588768 ATACTTAACT
11588778 TACATAACTTACATAA
1 TACATAACTTACATAA
11588794 TACATAACTTACATAA
1 TACATAACTTACATAA
11588810 TAACATAA
1 T-ACATAA
11588818 TAAGTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:11588903 original size:9 final size:9
Alignment explanation
Indices: 11588885--11588944 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
11588875 AACTTGTCGG
*
11588885 ACTTGCATA
1 ACTTACATA
*
11588894 ACTTATATA
1 ACTTACATA
*
11588903 A--TACTTA
1 ACTTACATA
11588910 ACTTACATA
1 ACTTACATA
11588919 ACTTACATA
1 ACTTACATA
11588928 A--TACATA
1 ACTTACATA
11588935 ACTTACATA
1 ACTTACATA
11588944 A
1 A
11588945 TAACATAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
7 12 0.29
9 30 0.71
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (9 bp):
ACTTACATA
Found at i:11588919 original size:25 final size:25
Alignment explanation
Indices: 11588885--11588954 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
11588875 AACTTGTCGG
* * *
11588885 ACTTGCATAACTTATATAATACTTA
1 ACTTACATAACTTACATAATACATA
11588910 ACTTACATAACTTACATAATACATA
1 ACTTACATAACTTACATAATACATA
*
11588935 ACTTACATAA-TAACATAATA
1 ACTTACATAACTTACATAATA
11588955 AGTTACATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 9 0.22
25 32 0.78
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.34
Consensus pattern (25 bp):
ACTTACATAACTTACATAATACATA
Found at i:11588932 original size:16 final size:16
Alignment explanation
Indices: 11588913--11588952 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 16
11588903 ATACTTAACT
11588913 TACATAACTTACATAA
1 TACATAACTTACATAA
11588929 TACATAACTTACATAA
1 TACATAACTTACATAA
11588945 TAACATAA
1 T-ACATAA
11588953 TAAGTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:11588973 original size:41 final size:42
Alignment explanation
Indices: 11588928--11589115 Score: 142
Period size: 41 Copynumber: 4.5 Consensus size: 42
11588918 AACTTACATA
11588928 ATACATAACTTACATAA-TAACATAATAAGTTACATAATATT
1 ATACATAACTTACATAACTAACATAATAAGTTACATAATATT
* * *
11588969 ATACATAACTCACATAACTAA-ATTAATTTATATTATACATTAA-CTT
1 ATACATAACTTACATAACTAACA-TAA--TA-AGT-TACA-TAATATT
* ** * * * *
11589015 GT-C-GGACTTGCATAACTTACATAAT-ACTTAACTTACATA--
1 ATACATAACTTACATAACTAACATAATAAGTT-ACATA-ATATT
11589054 ATACATAACTTACATAA-TAACATAATAAGTTACATAATATT
1 ATACATAACTTACATAACTAACATAATAAGTTACATAATATT
*
11589095 ATACATAACTCACATAACTAA
1 ATACATAACTTACATAACTAA
11589116 ATTAATTTAT
Statistics
Matches: 110, Mismatches: 20, Indels: 33
0.67 0.12 0.20
Matches are distributed among these distances:
39 7 0.06
40 18 0.16
41 45 0.41
42 10 0.09
44 16 0.15
45 4 0.04
46 7 0.06
47 3 0.03
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (42 bp):
ATACATAACTTACATAACTAACATAATAAGTTACATAATATT
Found at i:11589032 original size:9 final size:9
Alignment explanation
Indices: 11589020--11589070 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
11589010 AACTTGTCGG
*
11589020 ACTTGCATA
1 ACTTACATA
11589029 ACTTACATA
1 ACTTACATA
*
11589038 A--TACTTA
1 ACTTACATA
11589045 ACTTACATA
1 ACTTACATA
11589054 A--TACATA
1 ACTTACATA
11589061 ACTTACATA
1 ACTTACATA
11589070 A
1 A
11589071 TAACATAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
7 13 0.37
9 22 0.63
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
ACTTACATA
Found at i:11589180 original size:25 final size:25
Alignment explanation
Indices: 11589146--11589232 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 25
11589136 AACTTGTCGG
* * *
11589146 ACTTGCATAACTTATATAATACTTA
1 ACTTACATAACTTACATAATACATA
*
11589171 ACTTACATAACGTACATAATTTACATA
1 ACTTACATAACTTACATAA--TACATA
*
11589198 A--TACATAACTTACGTAATACATA
1 ACTTACATAACTTACATAATACATA
11589221 ACTTACATAACT
1 ACTTACATAACT
11589233 CATATATACT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
23 7 0.13
25 39 0.75
27 6 0.12
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.34
Consensus pattern (25 bp):
ACTTACATAACTTACATAATACATA
Found at i:11589181 original size:9 final size:9
Alignment explanation
Indices: 11589146--11589232 Score: 78
Period size: 9 Copynumber: 10.3 Consensus size: 9
11589136 AACTTGTCGG
*
11589146 ACTTGCATA
1 ACTTACATA
*
11589155 ACTTATATA
1 ACTTACATA
*
11589164 A--TACTTA
1 ACTTACATA
11589171 ACTTACATA
1 ACTTACATA
*
11589180 ACGTACATA
1 ACTTACATA
*
11589189 ATTTACATA
1 ACTTACATA
11589198 A--TACATA
1 ACTTACATA
*
11589205 ACTTACGTA
1 ACTTACATA
11589214 A--TACATA
1 ACTTACATA
11589221 ACTTACATA
1 ACTTACATA
11589230 ACT
1 ACT
11589233 CATATATACT
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
7 18 0.29
9 44 0.71
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.34
Consensus pattern (9 bp):
ACTTACATA
Found at i:11589236 original size:16 final size:16
Alignment explanation
Indices: 11589025--11589230 Score: 124
Period size: 16 Copynumber: 12.9 Consensus size: 16
11589015 GTCGGACTTG
11589025 CATAACTTACATAATA
1 CATAACTTACATAATA
*
11589041 CTTAACTTACATAATA
1 CATAACTTACATAATA
11589057 CATAACTTACATAATAA
1 CATAACTTACATAAT-A
11589074 CATAA--TA-AGT--TA
1 CATAACTTACA-TAATA
*
11589086 CATAA--T--ATTATA
1 CATAACTTACATAATA
*
11589098 CATAACTCACATAACTA
1 CATAACTTACATAA-TA
* * * *
11589115 AATTAATTTATATTATA
1 CA-TAACTTACATAATA
* ** * *
11589132 CATTAACTTGTCGGACTTG
1 CA-TAACTT-ACATA-ATA
*
11589151 CATAACTTATATAATA
1 CATAACTTACATAATA
*
11589167 CTTAACTTACATAACGTA
1 CATAACTTACATAA--TA
*
11589185 CATAATTTACATAATA
1 CATAACTTACATAATA
*
11589201 CATAACTTACGTAATA
1 CATAACTTACATAATA
11589217 CATAACTTACATAA
1 CATAACTTACATAA
11589231 CTCATATATA
Statistics
Matches: 145, Mismatches: 31, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
10 1 0.01
11 1 0.01
12 14 0.10
13 1 0.01
14 1 0.01
15 3 0.02
16 74 0.51
17 19 0.13
18 28 0.19
19 3 0.02
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:11595182 original size:44 final size:43
Alignment explanation
Indices: 11595084--11595254 Score: 105
Period size: 44 Copynumber: 4.0 Consensus size: 43
11595074 GTTTTTATGA
* ** * * * *
11595084 AAAGCGTCGCTAAAAGTCAAGGTCTTTTCGCGGTGTTTGTGAG
1 AAAGCGCCGCTAAAACCCAAGGCCTTTTAGCGGCGTTTGTGAC
* *
11595127 AAACGCACCGCTAAAACCCAATGCCTTTTAGCGGCGTTTGTGATC
1 AAA-GCGCCGCTAAAACCCAAGGCCTTTTAGCGGCGTTTGTGA-C
*** ** * **
11595172 AAAGCGCCGCTAAAGGTCAAGGTATTTT-GTGGCGTTTGTAGTG
1 AAAGCGCCGCTAAAACCCAAGGCCTTTTAGCGGCGTTTGT-GAC
* **
11595215 GAAGCGCCGCTAAAAGTCAA-G-CTCTTTAGCGGCGTTTGTG
1 AAAGCGCCGCTAAAACCCAAGGCCT-TTTAGCGGCGTTTGTG
11595255 GGTAAAGAGC
Statistics
Matches: 100, Mismatches: 23, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.01
42 5 0.05
43 41 0.41
44 50 0.50
45 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (43 bp):
AAAGCGCCGCTAAAACCCAAGGCCTTTTAGCGGCGTTTGTGAC
Found at i:11595267 original size:43 final size:43
Alignment explanation
Indices: 11595091--11595271 Score: 138
Period size: 43 Copynumber: 4.2 Consensus size: 43
11595081 TGAAAAGCGT
* * * *
11595091 CGCTAAAAGTCAAGGTCTTTTCGCGGTGTTTGTGAGAAACGCA-C
1 CGCTAAAAGTCAAGCTCTTTTAGCGGCGTTTGTGGGAAA-G-AGC
** ** *
11595135 CGCTAAAACCCAATGC-CTTTTAGCGGCGTTTGTGATCAAAGCGC
1 CGCTAAAAGTCAA-GCTCTTTTAGCGGCGTTTGTG-GGAAAGAGC
* * * * *
11595179 CGCTAAAGGTCAAGGTATTTT-GTGGCGTTTGTAGTGG-AAGCGC
1 CGCTAAAAGTCAAGCTCTTTTAGCGGCGTTTGT-G-GGAAAGAGC
11595222 CGCTAAAAGTCAAGCTC-TTTAGCGGCGTTTGTGGGTAAAGAGC
1 CGCTAAAAGTCAAGCTCTTTTAGCGGCGTTTGTGGG-AAAGAGC
11595265 CGCTAAA
1 CGCTAAA
11595272 GATAATAACT
Statistics
Matches: 107, Mismatches: 22, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 53 0.50
44 44 0.41
45 4 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (43 bp):
CGCTAAAAGTCAAGCTCTTTTAGCGGCGTTTGTGGGAAAGAGC
Found at i:11595310 original size:43 final size:43
Alignment explanation
Indices: 11595263--11595358 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
11595253 TGGGTAAAGA
* *
11595263 GCCGCTAAAGATAATAACTTTTAGCGGCGCTTAAGTCACAAAT
1 GCCGCTAAAGAGAATAACTTTTAGCGGCGCTTAAGTCACAAAC
** *
11595306 GCCGCTAAAGAGCTTGACTTTTAGCGGCGCTTAAGTCACAAAC
1 GCCGCTAAAGAGAATAACTTTTAGCGGCGCTTAAGTCACAAAC
11595349 GCCGCTAAAG
1 GCCGCTAAAG
11595359 GCCGTGACCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGAGAATAACTTTTAGCGGCGCTTAAGTCACAAAC
Found at i:11595372 original size:43 final size:43
Alignment explanation
Indices: 11595282--11595373 Score: 141
Period size: 43 Copynumber: 2.1 Consensus size: 43
11595272 GATAATAACT
* * *
11595282 TTTAGCGGCGCTTAAGTCACAAATGCCGCTAAAGAGCTTGACT
1 TTTAGCGGCGCTTAAGTCACAAACGCCGCTAAAGAGCGTGACC
11595325 TTTAGCGGCGCTTAAGTCACAAACGCCGCTAAAG-GCCGTGACC
1 TTTAGCGGCGCTTAAGTCACAAACGCCGCTAAAGAG-CGTGACC
11595368 TTTAGC
1 TTTAGC
11595374 AGCGTTTGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 1 0.02
43 44 0.98
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (43 bp):
TTTAGCGGCGCTTAAGTCACAAACGCCGCTAAAGAGCGTGACC
Found at i:11596336 original size:25 final size:25
Alignment explanation
Indices: 11596308--11596421 Score: 76
Period size: 25 Copynumber: 4.7 Consensus size: 25
11596298 CTTATAAGCG
11596308 TCCCGATATATGGCTCTCCAGAGCT
1 TCCCGATATATGGCTCTCCAGAGCT
* ** *
11596333 TCCCG--ATATGGCTCACTTGAACT
1 TCCCGATATATGGCTCTCCAGAGCT
* **
11596356 TCCCGATATATGGCTATCTGGAGCT
1 TCCCGATATATGGCTCTCCAGAGCT
* *
11596381 TCCTGAT-TAATGGCTC-GCATGAGCT
1 TCCCGATAT-ATGGCTCTCCA-GAGCT
**
11596406 TCCTAAT-TATGGCTCT
1 TCCCGATATATGGCTCT
11596422 TATGAGCTTT
Statistics
Matches: 70, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
23 19 0.27
24 8 0.11
25 43 0.61
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.32
Consensus pattern (25 bp):
TCCCGATATATGGCTCTCCAGAGCT
Found at i:11596345 original size:23 final size:23
Alignment explanation
Indices: 11596315--11596364 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
11596305 GCGTCCCGAT
* *
11596315 ATATGGCTCTCCAGAGCTTCCCG
1 ATATGGCTCACCAGAACTTCCCG
**
11596338 ATATGGCTCACTTGAACTTCCCG
1 ATATGGCTCACCAGAACTTCCCG
11596361 ATAT
1 ATAT
11596365 ATGGCTATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (23 bp):
ATATGGCTCACCAGAACTTCCCG
Found at i:11596426 original size:24 final size:25
Alignment explanation
Indices: 11596376--11596430 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
11596366 TGGCTATCTG
*
11596376 GAGCTTCCTGATTAATGGCTCGCAT
1 GAGCTTCCTAATTAATGGCTCGCAT
**
11596401 GAGCTTCCTAATT-ATGGCTCTTAT
1 GAGCTTCCTAATTAATGGCTCGCAT
11596425 GAGCTT
1 GAGCTT
11596431 TCTGTTATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (25 bp):
GAGCTTCCTAATTAATGGCTCGCAT
Done.