Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 81 of 438
Found at i:21990264 original size:25 final size:25
Alignment explanation
Indices: 21990233--21990282 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
21990223 AAATTTTATA
* * *
21990233 ATTTTTTTATATTTTTATATATTTT
1 ATTTTTTTACAATTTTATAAATTTT
21990258 ATTTTTTTACAATTTTATAAATTTT
1 ATTTTTTTACAATTTTATAAATTTT
21990283 TTACGATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (25 bp):
ATTTTTTTACAATTTTATAAATTTT
Found at i:21990272 original size:16 final size:17
Alignment explanation
Indices: 21990237--21990276 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
21990227 TTTATAATTT
*
21990237 TTTTATATTTTTATATA
1 TTTTATATTTTTACATA
*
21990254 TTTTATTTTTTTACA-A
1 TTTTATATTTTTACATA
21990270 TTTTATA
1 TTTTATA
21990277 AATTTTTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTATATTTTTACATA
Found at i:21990283 original size:20 final size:20
Alignment explanation
Indices: 21990226--21990301 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 20
21990216 CTTTATAAAA
* *
21990226 TTTTATAATTTTTTTATATT
1 TTTTATAATTTTTTTACAAT
21990246 TTTATATATTTTATTTTTTTACAA-
1 TTT-TATA----ATTTTTTTACAAT
* *
21990270 TTTTATAAATTTTTTACGAT
1 TTTTATAATTTTTTTACAAT
21990290 TTTTATAATTTT
1 TTTTATAATTTT
21990302 AATTCTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
19 10 0.22
20 14 0.31
21 4 0.09
23 4 0.09
24 3 0.07
25 10 0.22
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (20 bp):
TTTTATAATTTTTTTACAAT
Found at i:21990331 original size:10 final size:9
Alignment explanation
Indices: 21990226--21990323 Score: 60
Period size: 9 Copynumber: 10.7 Consensus size: 9
21990216 CTTTATAAAA
21990226 TTTTATAAT
1 TTTTATAAT
*
21990235 TTTTTTATAT
1 TTTTATA-AT
21990245 TTTTAT-AT
1 TTTTATAAT
*
21990253 ATTTTAT-TT
1 -TTTTATAAT
*
21990262 TTTTACAA-
1 TTTTATAAT
21990270 TTTTATAAAT
1 TTTTAT-AAT
21990280 TTTT-TACGAT
1 TTTTATA--AT
21990290 TTTTATAAT
1 TTTTATAAT
* **
21990299 TTTAATTCTT
1 TTTTA-TAAT
21990309 TTTTATAAT
1 TTTTATAAT
21990318 TTTTAT
1 TTTTAT
21990324 CATCTTTTGC
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
8 13 0.19
9 30 0.44
10 23 0.34
11 2 0.03
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTTATAAT
Found at i:21990331 original size:19 final size:19
Alignment explanation
Indices: 21990237--21990331 Score: 62
Period size: 19 Copynumber: 5.2 Consensus size: 19
21990227 TTTATAATTT
21990237 TTTTAT-ATTTTTAT-ATA
1 TTTTATAATTTTTATCATA
*
21990254 TTTTAT-TTTTTTA-CA-A
1 TTTTATAATTTTTATCATA
21990270 TTTTATAAATTTTT-TACGAT-
1 TTTTAT-AATTTTTAT-C-ATA
* *
21990290 TTTTATAATTTTAATTC-TT
1 TTTTATAATTTTTA-TCATA
*
21990309 TTTTATAATTTTTATCATC
1 TTTTATAATTTTTATCATA
21990328 TTTT
1 TTTT
21990332 GCCACATGTC
Statistics
Matches: 62, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
16 7 0.11
17 13 0.21
18 8 0.13
19 25 0.40
20 8 0.13
21 1 0.02
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTTTATCATA
Found at i:21990862 original size:24 final size:24
Alignment explanation
Indices: 21990817--21990863 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
21990807 TAAAAGAATT
*
21990817 TAGATTTTTAAAAATTTTTAAAAA
1 TAGATTTTTAAAAATTTATAAAAA
21990841 TAGATTTTTCAAAAA-TTATAAAA
1 TAGATTTTT-AAAAATTTATAAAA
21990864 TTATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (24 bp):
TAGATTTTTAAAAATTTATAAAAA
Found at i:21993626 original size:27 final size:28
Alignment explanation
Indices: 21993576--21993636 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
21993566 TAAATTAATA
*
21993576 TTTTTAATTAATAAATATGTTTTTCAAG
1 TTTTTAATTAATAAACATGTTTTTCAAG
* *
21993604 TTTTTAATTAATATACATGTTTTT-ATG
1 TTTTTAATTAATAAACATGTTTTTCAAG
21993631 TTTTTA
1 TTTTTA
21993637 TTTTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 8 0.27
28 22 0.73
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (28 bp):
TTTTTAATTAATAAACATGTTTTTCAAG
Found at i:21993997 original size:18 final size:18
Alignment explanation
Indices: 21993975--21994027 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
21993965 CAAAAATTAA
* *
21993975 AAAAATCAAAATAATTTTT
1 AAAATTCAAAAT-ATTTAT
21993994 AAAATTCAAAATATTTAT
1 AAAATTCAAAATATTTAT
21994012 AAAAATT-AAAAT-TTTA
1 -AAAATTCAAAATATTTA
21994028 AAATTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 4 0.13
18 10 0.32
19 17 0.55
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:21994002 original size:19 final size:18
Alignment explanation
Indices: 21993975--21994027 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
21993965 CAAAAATTAA
*
21993975 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTAT
*
21993994 AAAATTCAAAATATTTAT
1 AAAAATCAAAATATTTAT
*
21994012 AAAAATTAAAAT-TTTA
1 AAAAATCAAAATATTTA
21994028 AAATTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 4 0.13
18 15 0.50
19 11 0.37
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAATCAAAATATTTAT
Found at i:21994020 original size:25 final size:23
Alignment explanation
Indices: 21993992--21994041 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
21993982 AAAATAATTT
21993992 TTAAAATTCAAAATATTTATAAAAA
1 TTAAAATTCAAAA-ATTT-TAAAAA
**
21994017 TTAAAATTTTAAAATTTTAAAAA
1 TTAAAATTCAAAAATTTTAAAAA
21994040 TT
1 TT
21994042 CTAAAGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 8 0.35
24 4 0.17
25 11 0.48
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TTAAAATTCAAAAATTTTAAAAA
Found at i:21994076 original size:8 final size:8
Alignment explanation
Indices: 21993994--21994077 Score: 51
Period size: 8 Copynumber: 9.6 Consensus size: 8
21993984 AATAATTTTT
*
21993994 AAAATTCA
1 AAAATTTA
21994002 AAATATTTA
1 AAA-ATTTA
*
21994011 TAAAAATTA
1 -AAAATTTA
*
21994020 AAATTTTA
1 AAAATTTA
*
21994028 AAATTTTA
1 AAAATTTA
21994036 AAAATTCTA
1 AAAATT-TA
21994045 AAGAATATATA
1 AA-AAT-T-TA
**
21994056 AAGAAAGTA
1 AA-AATTTA
21994065 AAAATTTA
1 AAAATTTA
21994073 AAAAT
1 AAAAT
21994078 ATTCTAAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
8 31 0.51
9 16 0.26
10 6 0.10
11 8 0.13
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (8 bp):
AAAATTTA
Found at i:21994477 original size:42 final size:42
Alignment explanation
Indices: 21994413--21994494 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
21994403 TGCTCAGCCC
21994413 TATATATATATATATATAATTTTGTTAAATATATTTTATATA
1 TATATATATATATATATAATTTTGTTAAATATATTTTATATA
*
21994455 TATATATATATATATATCATTTTGTTAAATATATTTTATA
1 TATATATATATATATATAATTTTGTTAAATATATTTTATA
21994495 CTTTAAAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (42 bp):
TATATATATATATATATAATTTTGTTAAATATATTTTATATA
Found at i:21994488 original size:2 final size:2
Alignment explanation
Indices: 21994413--21994471 Score: 54
Period size: 2 Copynumber: 31.5 Consensus size: 2
21994403 TGCTCAGCCC
* * * *
21994413 TA TA TA TA TA TA TA TA TA -A T- TT TG T- TA AA TA TA T- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21994451 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
21994472 CATTTTGTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
1 4 0.08
2 45 0.92
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:21995110 original size:30 final size:31
Alignment explanation
Indices: 21995044--21995110 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
21995034 TAAAACTTTA
* * *
21995044 AAAACATGTTTTTTATTTAAAAATTTGAAAAT
1 AAAA-ATGTTTATTAATTAAAAATATGAAAAT
*
21995076 -AAAATGTTTATTAATTAAAAATAT-AAATT
1 AAAAATGTTTATTAATTAAAAATATGAAAAT
21995105 AAAAAT
1 AAAAAT
21995111 AAAAAAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 4 0.13
30 23 0.77
31 3 0.10
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (31 bp):
AAAAATGTTTATTAATTAAAAATATGAAAAT
Found at i:22002767 original size:28 final size:28
Alignment explanation
Indices: 22002706--22002803 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
22002696 TCACAAATTG
** * *
22002706 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
22002735 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
22002763 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
22002791 GCACTAAGTGTGC
1 GCACTAAGTGTGC
22002804 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:22010387 original size:28 final size:28
Alignment explanation
Indices: 22010326--22010423 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
22010316 TCACAAATTG
** * *
22010326 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
22010355 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
22010383 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
22010411 GCACTAAGTGTGC
1 GCACTAAGTGTGC
22010424 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:22013018 original size:39 final size:40
Alignment explanation
Indices: 22012917--22013416 Score: 669
Period size: 39 Copynumber: 12.7 Consensus size: 40
22012907 TCGAATGATG
* * *
22012917 TCCGGGCGAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
22012956 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
22012997 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
22013036 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
22013076 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
22013115 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
22013155 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
22013194 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
22013234 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
22013273 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
22013312 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
22013351 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
22013390 AACTGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
22013417 AATGAGTAGC
Statistics
Matches: 405, Mismatches: 44, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
39 211 0.52
40 184 0.45
41 10 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:22013054 original size:79 final size:79
Alignment explanation
Indices: 22012917--22013414 Score: 806
Period size: 79 Copynumber: 6.3 Consensus size: 79
22012907 TCGAATGATG
* * * * * **
22012917 TCCGGGCGAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
22012980 TTGTGCGAGTTACTAAT
63 TTGTGCGAGTTACTAAT
22012997 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
*
22013062 TGCGAGTTATTAAT
66 TGCGAGTTACTAAT
22013076 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
22013141 TGCGAGTTACTAAT
66 TGCGAGTTACTAAT
22013155 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
*
22013220 TGCGAGTTATTAAT
66 TGCGAGTTACTAAT
*
22013234 TCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGT-CCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
22013298 TGCGAGTTACTAAT
66 TGCGAGTTACTAAT
22013312 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
22013377 TGCGAGTTACT-AT
66 TGCGAGTTACTAAT
* * *
22013390 AACTGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAG-CCCGAAGGCATT
22013415 TGAATGAGTA
Statistics
Matches: 397, Mismatches: 16, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
78 79 0.20
79 290 0.73
80 28 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAGTTACTAAT
Found at i:22021361 original size:40 final size:40
Alignment explanation
Indices: 22021277--22021619 Score: 439
Period size: 40 Copynumber: 8.7 Consensus size: 40
22021267 TCGAATGATG
* * *
22021277 TCCGGACTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
22021316 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
22021357 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
22021396 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
22021436 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
22021475 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
22021515 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
22021554 TCTGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
22021593 AACCGGGCTATGTCCCGAAGGAATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
22021620 AACGAGTAGC
Statistics
Matches: 267, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
39 107 0.40
40 150 0.56
41 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:22021641 original size:158 final size:156
Alignment explanation
Indices: 22021311--22021652 Score: 499
Period size: 158 Copynumber: 2.2 Consensus size: 156
22021301 GTGCTAAGTG
*
22021311 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
* *
22021376 CATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGG
64 CATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAATACCGG
* **
22021441 GCTAAGCCCGAAGGCATTGGTGCGAGTT
129 GCTAAGCCCGAAGGAATTGGAACGAGTT
*
22021469 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
*
22021534 CATTGGTGCGAGTTACTAAATCTGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACT-ATAACCG
64 CATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAT-ACCG
* *
22021598 GGCTATGTCCCGAAGGAATTTGAACGAG-T
128 GGCTAAG-CCCGAAGGAATTGGAACGAGTT
*
22021627 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
22021653 TACGTGATTC
Statistics
Matches: 166, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
157 3 0.02
158 135 0.81
159 28 0.17
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (156 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCA
TTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAATACCGGGC
TAAGCCCGAAGGAATTGGAACGAGTT
Found at i:22021642 original size:79 final size:79
Alignment explanation
Indices: 22021277--22021613 Score: 509
Period size: 79 Copynumber: 4.2 Consensus size: 79
22021267 TCGAATGATG
* * * * * **
22021277 TCCGGACTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
22021340 TTGTGCGAGTTACTAAT
63 TTGTGCGAGTTACTAAT
22021357 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
22021422 TGCGAGTTACTAAT
66 TGCGAGTTACTAAT
22021436 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
22021501 TGCGAGTTACTAAT
66 TGCGAGTTACTAAT
* *
22021515 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCTGGGTTAAGTCCCAAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
22021580 TGCGAGTTACT-AT
66 TGCGAGTTACTAAT
* *
22021593 AACCGGGCTATGTCCCGAAGG
1 -TCCGGGCTAAG-CCCGAAGG
22021614 AATTTGAACG
Statistics
Matches: 242, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
78 3 0.01
79 215 0.89
80 24 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAGTTACTAAT
Found at i:22026499 original size:9 final size:9
Alignment explanation
Indices: 22026487--22026519 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
22026477 TTGAAAAATT
22026487 GAGTTATTC
1 GAGTTATTC
22026496 GAGTTATTC
1 GAGTTATTC
*
22026505 GAATTATTC
1 GAGTTATTC
22026514 GAGTTA
1 GAGTTA
22026520 ACTTAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.42
Consensus pattern (9 bp):
GAGTTATTC
Found at i:22027840 original size:41 final size:40
Alignment explanation
Indices: 22027756--22027907 Score: 169
Period size: 41 Copynumber: 3.7 Consensus size: 40
22027746 GCTAGAAGGA
*
22027756 AAACGCAGCAAAAAGTTGAGCAATAGTGGCGTTTTTCTACC
1 AAACGCAGCAAAAAGTTGAGCAATAGTGGCGTTTTTGT-CC
* *
22027797 AAACGTAGCAAAAAGTTGAGCAATAGTGGCGTTTTAGGTCC
1 AAACGCAGCAAAAAGTTGAGCAATAGTGGCGTTTT-TGTCC
* * ** *
22027838 AAACGCCGCTAAAAGTTGTTCAATACTGGCGTTTTTGTCTC
1 AAACGCAGCAAAAAGTTGAGCAATAGTGGCGTTTTTGTC-C
* * * *
22027879 AAACACTGCTAAAATTTGAGCAATAGTGG
1 AAACGCAGCAAAAAGTTGAGCAATAGTGG
22027908 TCGCCGCTAA
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.03
41 89 0.96
42 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (40 bp):
AAACGCAGCAAAAAGTTGAGCAATAGTGGCGTTTTTGTCC
Found at i:22027852 original size:82 final size:82
Alignment explanation
Indices: 22027756--22027907 Score: 191
Period size: 82 Copynumber: 1.9 Consensus size: 82
22027746 GCTAGAAGGA
* *
22027756 AAACGCAGCAAAAAGTTGAGCAATAGTGGCGTTTTTCTAC-CAAAC-GTAGCAAAAAGTTGAGCA
1 AAACGCAGCAAAAAGTTGAGCAATACTGGCGTTTTTCT-CTCAAACACT-GCAAAAAGTTGAGCA
22027819 ATAGTGGCGTTTTAGGTCC
64 ATAGTGGCGTTTTAGGTCC
* * ** * * *
22027838 AAACGCCGCTAAAAGTTGTTCAATACTGGCGTTTTTGTCTCAAACACTGCTAAAATTTGAGCAAT
1 AAACGCAGCAAAAAGTTGAGCAATACTGGCGTTTTTCTCTCAAACACTGCAAAAAGTTGAGCAAT
22027903 AGTGG
66 AGTGG
22027908 TCGCCGCTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
81 1 0.02
82 57 0.97
83 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (82 bp):
AAACGCAGCAAAAAGTTGAGCAATACTGGCGTTTTTCTCTCAAACACTGCAAAAAGTTGAGCAAT
AGTGGCGTTTTAGGTCC
Found at i:22027950 original size:68 final size:68
Alignment explanation
Indices: 22027841--22027975 Score: 189
Period size: 68 Copynumber: 2.0 Consensus size: 68
22027831 TAGGTCCAAA
** * * * *
22027841 CGCCGCTAAAAGTTGTTCAATACTGGCGTTTTTGTCTCAAACACTGCTAAAATTTGAGCAATAGT
1 CGCCGCTAAAAGTTGAGCAATAATGGCGTTTTTGTCCCAAACACCGCTAAAAATTGAGCAATAGT
22027906 GGT
66 GGT
* * *
22027909 CGCCGCTAAAAGTTGAGCAGTAATGGCTTTTTTGTCCCAAACACCGCTAAAAATTGAGCAATTGT
1 CGCCGCTAAAAGTTGAGCAATAATGGCGTTTTTGTCCCAAACACCGCTAAAAATTGAGCAATAGT
22027974 GG
66 GG
22027976 CGTTTTAGGT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (68 bp):
CGCCGCTAAAAGTTGAGCAATAATGGCGTTTTTGTCCCAAACACCGCTAAAAATTGAGCAATAGT
GGT
Found at i:22027968 original size:41 final size:41
Alignment explanation
Indices: 22027909--22028104 Score: 207
Period size: 41 Copynumber: 4.8 Consensus size: 41
22027899 CAATAGTGGT
* * **
22027909 CGCCGCTAAAAGTTGAGCAGTAATGGC-TTTTTTGTCCCAAA
1 CGCCGCTAAAAATTGAGCAATAATGGCGTTTTAGGT-CCAAA
* **
22027950 CACCGCTAAAAATTGAGCAATTGTGGCGTTTTAGGTCCAAA
1 CGCCGCTAAAAATTGAGCAATAATGGCGTTTTAGGTCCAAA
* * * * *
22027991 CGCCGCTGAAAGTTGGGCAATAGTGGCGTTTT-TGTCCCAAA
1 CGCCGCTAAAAATTGAGCAATAATGGCGTTTTAGGT-CCAAA
*
22028032 CGCTGCTAAAAATTGAGCAATAATGGCGTTTTAGGTCCAAA
1 CGCCGCTAAAAATTGAGCAATAATGGCGTTTTAGGTCCAAA
** * *
22028073 CGCCGCTAAAAGCTGATCAATAGTGGCGTTTT
1 CGCCGCTAAAAATTGAGCAATAATGGCGTTTT
22028105 TGGTTAAAAC
Statistics
Matches: 128, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
40 2 0.02
41 118 0.92
42 8 0.06
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (41 bp):
CGCCGCTAAAAATTGAGCAATAATGGCGTTTTAGGTCCAAA
Found at i:22028011 original size:109 final size:109
Alignment explanation
Indices: 22027807--22028016 Score: 244
Period size: 109 Copynumber: 1.9 Consensus size: 109
22027797 AAACGTAGCA
* * * **
22027807 AAAAGTTGAGCAATAGTGGCGTTTTAGGTCCAAACGCCGCTAAAAGTTGTTCAATACTGGCGTTT
1 AAAAGTTGAGCAATAATGGCGTTTTAGGTCCAAACACCGCTAAAAATTGAGCAATACTGGCGTTT
* * *
22027872 TTGTCTCAAACACTGCTAAAATTTGAGCAATAGTGGTCGCCGCT
66 TGGTCTCAAACACCGCTAAAAGTTGAGCAATAGTGGTCGCCGCT
* ** **
22027916 AAAAGTTGAGCAGTAATGGC-TTTTTTGTCCCAAACACCGCTAAAAATTGAGCAATTGTGGCGTT
1 AAAAGTTGAGCAATAATGGCGTTTTAGGT-CCAAACACCGCTAAAAATTGAGCAATACTGGCGTT
* * *
22027980 TTAGGTC-CAAACGCCGCTGAAAGTTGGGCAATAGTGG
65 TT-GGTCTCAAACACCGCTAAAAGTTGAGCAATAGTGG
22028017 CGTTTTTGTC
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
108 6 0.07
109 74 0.89
110 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (109 bp):
AAAAGTTGAGCAATAATGGCGTTTTAGGTCCAAACACCGCTAAAAATTGAGCAATACTGGCGTTT
TGGTCTCAAACACCGCTAAAAGTTGAGCAATAGTGGTCGCCGCT
Found at i:22028038 original size:150 final size:150
Alignment explanation
Indices: 22027766--22028053 Score: 416
Period size: 150 Copynumber: 1.9 Consensus size: 150
22027756 AAACGCAGCA
* **
22027766 AAAAGTTGAGCAATAGTGGCGTTTTTCTACCAAACGTAGCAAAAAGTTGAGCAATAGTGGCGTTT
1 AAAAGTTGAGCAATAATGGCGTTTTTCTACCAAACACAGCAAAAAGTTGAGCAATAGTGGCGTTT
** * *
22027831 TAGGTCCAAACGCCGCTAAAAGTTGTTCAATACTGGCGTTTTTGTCTCAAACACTGCTAAAATTT
66 TAGGTCCAAACGCCGCTAAAAGTTGGGCAATACTGGCGTTTTTGTCCCAAACACTGCTAAAAATT
22027896 GAGCAATAGTGGTCGCCGCT
131 GAGCAATAGTGGTCGCCGCT
* * * * * *
22027916 AAAAGTTGAGCAGTAATGGCTTTTTTGTCCCAAACACCGCTAAAAA-TTGAGCAATTGTGGCGTT
1 AAAAGTTGAGCAATAATGGCGTTTTTCTACCAAACACAGC-AAAAAGTTGAGCAATAGTGGCGTT
* * *
22027980 TTAGGTCCAAACGCCGCTGAAAGTTGGGCAATAGTGGCGTTTTTGTCCCAAACGCTGCTAAAAAT
65 TTAGGTCCAAACGCCGCTAAAAGTTGGGCAATACTGGCGTTTTTGTCCCAAACACTGCTAAAAAT
22028045 TGAGCAATA
130 TGAGCAATA
22028054 ATGGCGTTTT
Statistics
Matches: 121, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
150 116 0.96
151 5 0.04
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (150 bp):
AAAAGTTGAGCAATAATGGCGTTTTTCTACCAAACACAGCAAAAAGTTGAGCAATAGTGGCGTTT
TAGGTCCAAACGCCGCTAAAAGTTGGGCAATACTGGCGTTTTTGTCCCAAACACTGCTAAAAATT
GAGCAATAGTGGTCGCCGCT
Found at i:22028046 original size:82 final size:82
Alignment explanation
Indices: 22027909--22028106 Score: 297
Period size: 82 Copynumber: 2.4 Consensus size: 82
22027899 CAATAGTGGT
* * * **
22027909 CGCCGCTAAAAGTTGAGCAGTAATGGCTTTTTTGTCCCAAACACCGCTAAAAATTGAGCAATTGT
1 CGCCGCTAAAAGTTGAGCAATAGTGGCGTTTTTGTCCCAAACACCGCTAAAAATTGAGCAATAAT
22027974 GGCGTTTTAGGTCCAAA
66 GGCGTTTTAGGTCCAAA
* * * *
22027991 CGCCGCTGAAAGTTGGGCAATAGTGGCGTTTTTGTCCCAAACGCTGCTAAAAATTGAGCAATAAT
1 CGCCGCTAAAAGTTGAGCAATAGTGGCGTTTTTGTCCCAAACACCGCTAAAAATTGAGCAATAAT
22028056 GGCGTTTTAGGTCCAAA
66 GGCGTTTTAGGTCCAAA
* *
22028073 CGCCGCTAAAAGCTGATCAATAGTGGCGTTTTTG
1 CGCCGCTAAAAGTTGAGCAATAGTGGCGTTTTTG
22028107 GTTAAAACCC
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 103 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (82 bp):
CGCCGCTAAAAGTTGAGCAATAGTGGCGTTTTTGTCCCAAACACCGCTAAAAATTGAGCAATAAT
GGCGTTTTAGGTCCAAA
Found at i:22028129 original size:41 final size:41
Alignment explanation
Indices: 22027911--22028146 Score: 172
Period size: 41 Copynumber: 5.8 Consensus size: 41
22027901 ATAGTGGTCG
* * * * * *
22027911 CCGCTAAAAGTTGAGCAGTAATGGC-TTTTTTGTCCCAAACA
1 CCGCTAAAAGCTGAGCAATAGTGGCGTTTTTGGT-CAAAACC
** * * * *
22027952 CCGCTAAAAATTGAGCAATTGTGGCGTTTTAGGTCCAAACG
1 CCGCTAAAAGCTGAGCAATAGTGGCGTTTTTGGTCAAAACC
* * * * *
22027993 CCGCTGAAAGTTGGGCAATAGTGGCGTTTTT-GTCCCAAACG
1 CCGCTAAAAGCTGAGCAATAGTGGCGTTTTTGGT-CAAAACC
* ** * * * *
22028034 CTGCTAAAAATTGAGCAATAATGGCGTTTTAGGTCCAAACG
1 CCGCTAAAAGCTGAGCAATAGTGGCGTTTTTGGTCAAAACC
* *
22028075 CCGCTAAAAGCTGATCAATAGTGGCGTTTTTGGTTAAAACC
1 CCGCTAAAAGCTGAGCAATAGTGGCGTTTTTGGTCAAAACC
**
22028116 CCGC-AAAAGGCTGAGCTCTAGTGGCGTTTTT
1 CCGCTAAAA-GCTGAGCAATAGTGGCGTTTTT
22028147 TATCCAAACG
Statistics
Matches: 161, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
40 6 0.04
41 147 0.91
42 8 0.05
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (41 bp):
CCGCTAAAAGCTGAGCAATAGTGGCGTTTTTGGTCAAAACC
Found at i:22028131 original size:82 final size:82
Alignment explanation
Indices: 22027909--22028145 Score: 253
Period size: 82 Copynumber: 2.9 Consensus size: 82
22027899 CAATAGTGGT
* * * * * * * *
22027909 CGCCGCTAAAAGTTGAGCAGTAATGGCTTTTTTGTCCCAAACACCGCTAAAAATTGAGCAATTGT
1 CGCCGCTAAAAGCTGAGCAATAGTGGCGTTTTTGTCCAAAACCCCGCTAAAAACTGAGCAATAGT
22027974 GGCGTTTTAGGTCCAAA
66 GGCGTTTTAGGTCCAAA
* * * * * * * *
22027991 CGCCGCTGAAAGTTGGGCAATAGTGGCGTTTTTGTCCCAAACGCTGCTAAAAATTGAGCAATAAT
1 CGCCGCTAAAAGCTGAGCAATAGTGGCGTTTTTGTCCAAAACCCCGCTAAAAACTGAGCAATAGT
22028056 GGCGTTTTAGGTCCAAA
66 GGCGTTTTAGGTCCAAA
* * * **
22028073 CGCCGCTAAAAGCTGATCAATAGTGGCGTTTTTGGT-TAAAACCCCGC-AAAAGGCTGAGCTCTA
1 CGCCGCTAAAAGCTGAGCAATAGTGGCGTTTTT-GTCCAAAACCCCGCTAAAA-ACTGAGCAATA
22028136 GTGGCGTTTT
64 GTGGCGTTTT
22028146 TTATCCAAAC
Statistics
Matches: 131, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
81 4 0.03
82 125 0.95
83 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (82 bp):
CGCCGCTAAAAGCTGAGCAATAGTGGCGTTTTTGTCCAAAACCCCGCTAAAAACTGAGCAATAGT
GGCGTTTTAGGTCCAAA
Found at i:22028157 original size:123 final size:123
Alignment explanation
Indices: 22027913--22028146 Score: 274
Period size: 123 Copynumber: 1.9 Consensus size: 123
22027903 AGTGGTCGCC
* * ** * *
22027913 GCTAAAAGTTGAGCAGTAATGGCTTTTTTGTCCCAAACACCGCTAAAAATTGAGCAATTGTGGCG
1 GCTAAAAATTGAGCAATAATGGCTTTTAGGTCCCAAACACCGCTAAAAACTGAGCAATAGTGGCG
* * * * *
22027978 TTTTAGGTCCAAACGCCGCTGAAAGTTGGGCAATAGTGGCGTTTTTGTCCCAAACGCT
66 TTTTAGGTCAAAACCCCGCTAAAAGCTGAGCAATAGTGGCGTTTTTGTCCCAAACGCT
* * *
22028036 GCTAAAAATTGAGCAATAATGGCGTTTTAGGT-CCAAACGCCGCTAAAAGCTGATCAATAGTGGC
1 GCTAAAAATTGAGCAATAATGGC-TTTTAGGTCCCAAACACCGCTAAAAACTGAGCAATAGTGGC
* * **
22028100 GTTTTTGGTTAAAACCCCGC-AAAAGGCTGAGCTCTAGTGGCGTTTTT
65 GTTTTAGGTCAAAACCCCGCTAAAA-GCTGAGCAATAGTGGCGTTTTT
22028147 TATCCAAACG
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
122 3 0.03
123 82 0.90
124 6 0.07
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (123 bp):
GCTAAAAATTGAGCAATAATGGCTTTTAGGTCCCAAACACCGCTAAAAACTGAGCAATAGTGGCG
TTTTAGGTCAAAACCCCGCTAAAAGCTGAGCAATAGTGGCGTTTTTGTCCCAAACGCT
Found at i:22028827 original size:41 final size:42
Alignment explanation
Indices: 22028767--22028861 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 42
22028757 CTAAATGACA
* * *
22028767 CAAAAGGTCAAGTAGTAGCGGCGTTTGTAATAAAAACGCCG-
1 CAAAAGGTCAAGCAATAGCGACGTTTGTAATAAAAACGCCGT
* *
22028808 CAAAAGGTCAAGCAATAGCGACGTTTGTGATTAAAACGCCGT
1 CAAAAGGTCAAGCAATAGCGACGTTTGTAATAAAAACGCCGT
*
22028850 TAAAA-GTCAAGC
1 CAAAAGGTCAAGC
22028862 CATAAAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 43 0.91
42 4 0.09
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (42 bp):
CAAAAGGTCAAGCAATAGCGACGTTTGTAATAAAAACGCCGT
Found at i:22028948 original size:8 final size:7
Alignment explanation
Indices: 22028883--22029021 Score: 70
Period size: 7 Copynumber: 19.4 Consensus size: 7
22028873 ATAATTTTAT
*
22028883 TTTAGGG
1 TTTAAGG
22028890 TTT-AGG
1 TTTAAGG
*
22028896 TTTTAAGA
1 -TTTAAGG
*
22028904 TTTAATG
1 TTTAAGG
22028911 TTTAAGG
1 TTTAAGG
22028918 TTTAAGG
1 TTTAAGG
* *
22028925 TCTATGG
1 TTTAAGG
*
22028932 TTTATGG
1 TTTAAGG
22028939 TTTTAAGG
1 -TTTAAGG
22028947 TTTTAAGG
1 -TTTAAGG
* *
22028955 TTTATGC
1 TTTAAGG
*
22028962 TTTAATG
1 TTTAAGG
22028969 TTT-A-G
1 TTTAAGG
**
22028974 TATATTGGG
1 T-T-TAAGG
22028983 TTT-AGAG
1 TTTAAG-G
*
22028990 TTTAATGT
1 TTTAA-GG
22028998 TTTAAGG
1 TTTAAGG
*
22029005 TTTAGGG
1 TTTAAGG
22029012 TTTAAGG
1 TTTAAGG
22029019 TTT
1 TTT
22029022 GTAGTTTAGG
Statistics
Matches: 102, Mismatches: 20, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
5 2 0.02
6 5 0.05
7 69 0.68
8 23 0.23
9 3 0.03
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.50
Consensus pattern (7 bp):
TTTAAGG
Found at i:22029087 original size:22 final size:22
Alignment explanation
Indices: 22029062--22029104 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22029052 GGCCTTAGTA
22029062 ATTAGGGTTT-AGTGGTTAGGGT
1 ATTAGGGTTTAAG-GGTTAGGGT
*
22029084 ATTATGGTTTAAGGGTTAGGG
1 ATTAGGGTTTAAGGGTTAGGG
22029105 ATTTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.40
Consensus pattern (22 bp):
ATTAGGGTTTAAGGGTTAGGGT
Found at i:22029310 original size:21 final size:21
Alignment explanation
Indices: 22029286--22029326 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22029276 AAGGTTATGT
22029286 TTTAAAGTTTA-GGCTTTAGGC
1 TTTAAAGTTTATGG-TTTAGGC
*
22029307 TTTAAGGTTTATGGTTTAGG
1 TTTAAAGTTTATGGTTTAGG
22029327 GATTTAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.22, C:0.05, G:0.27, T:0.46
Consensus pattern (21 bp):
TTTAAAGTTTATGGTTTAGGC
Found at i:22030315 original size:18 final size:17
Alignment explanation
Indices: 22030292--22030339 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
22030282 CCCCCTAACA
22030292 AAATTTCCCCAATTCCCT
1 AAATTTCCCCAA-TCCCT
**
22030310 AAATTTCCTTTAATCCCT
1 AAATTTCC-CCAATCCCT
*
22030328 AAATTTTCCCAA
1 AAATTTCCCCAA
22030340 ATCAAAATCC
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTTCCCCAATCCCT
Found at i:22032914 original size:13 final size:13
Alignment explanation
Indices: 22032898--22032923 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22032888 TAATTAAAGG
22032898 GTTAAAATTTAAA
1 GTTAAAATTTAAA
22032911 GTTAAAATTTAAA
1 GTTAAAATTTAAA
22032924 TATGCTAATC
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:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:22032947 original size:9 final size:9
Alignment explanation
Indices: 22032933--22033030 Score: 94
Period size: 9 Copynumber: 11.1 Consensus size: 9
22032923 ATATGCTAAT
22032933 CATAACTTA
1 CATAACTTA
22032942 CATAACTTA
1 CATAACTTA
*
22032951 CAT-A-GTA
1 CATAACTTA
*
22032958 CATAA-ATA
1 CATAACTTA
* * *
22032966 AATATCATA
1 CATAACTTA
22032975 TCATAACTTA
1 -CATAACTTA
*
22032985 AATAACTTA
1 CATAACTTA
*
22032994 CATAATTTA
1 CATAACTTA
*
22033003 CATTACTTA
1 CATAACTTA
22033012 CATAACTTA
1 CATAACTTA
22033021 CATAACTTA
1 CATAACTTA
22033030 C
1 C
22033031 GTAATACATA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
7 5 0.07
8 7 0.10
9 55 0.75
10 6 0.08
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:22039020 original size:42 final size:42
Alignment explanation
Indices: 22038984--22039269 Score: 385
Period size: 42 Copynumber: 6.7 Consensus size: 42
22038974 TTTAGCAGTT
*
22038984 TTTTGAGAAAAGGGCCGCTAAAGGTCATGTTCTTTAGCGGCG
1 TTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG
* *
22039026 TTTTGAGAAAAGTGCCGCTAAAGGTCATTTTCTTTAGCGGCG
1 TTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG
*
22039068 TTTTGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCG
1 TTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG
** *
22039110 TTTTTTGAGAAAAGCGATGCTAAAGGCCATGTTCTTTAGCGGCG
1 --TTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG
* * **
22039154 TTTTGAGAAAAGCACCGCTAAATGTCACATTCTTTAGCGGCG
1 TTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG
* * *
22039196 -TTTGTATGAAAAGTGCCGCTAAAAGTCACGTTCTTTAGCGGCG
1 TTTTG-A-GAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG
*
22039239 TTTTTGAGAAAAGTGCCGCTAAAGGTCATGT
1 -TTTTGAGAAAAGCGCCGCTAAAGGTCATGT
22039270 CTAAAAAAAG
Statistics
Matches: 216, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
41 4 0.02
42 115 0.53
43 54 0.25
44 39 0.18
45 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
TTTTGAGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG
Found at i:22039147 original size:86 final size:85
Alignment explanation
Indices: 22038984--22039266 Score: 399
Period size: 86 Copynumber: 3.3 Consensus size: 85
22038974 TTTAGCAGTT
* *
22038984 TTTTGAGAAAAGGGCCGCTAAAGGTCATGTTCTTTAGCGGCG-TTTTGAGAAAAGTGCCGCTAAA
1 TTTTGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTTTGAGAAAAGTGCCGCTAAA
*
22039048 GGTCATTTTCTTTAGCGGCG
66 GGTCATGTTCTTTAGCGGCG
* **
22039068 TTTTGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTTTTGAGAAAAGCGATGCTAA
1 TTTTGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCG-TTTTTGAGAAAAGTGCCGCTAA
*
22039133 AGGCCATGTTCTTTAGCGGCG
65 AGGTCATGTTCTTTAGCGGCG
* * * *
22039154 TTTTGAGAAAAGCACCGCTAAATGTCACATTCTTTAGCGGCGTTTGT-ATGAAAAGTGCCGCTAA
1 TTTTGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTTTGA-GAAAAGTGCCGCTAA
* *
22039218 AAGTCACGTTCTTTAGCGGCG
65 AGGTCATGTTCTTTAGCGGCG
*
22039239 TTTTTGAGAAAAGTGCCGCTAAAGGTCA
1 -TTTTGAGAAAAGCGCCGCTAAAGGTCA
22039267 TGTCTAAAAA
Statistics
Matches: 175, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
84 41 0.23
85 34 0.19
86 100 0.57
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (85 bp):
TTTTGAGAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTTTGAGAAAAGTGCCGCTAAA
GGTCATGTTCTTTAGCGGCG
Found at i:22039383 original size:42 final size:42
Alignment explanation
Indices: 22039279--22039462 Score: 226
Period size: 42 Copynumber: 4.3 Consensus size: 42
22039269 TCTAAAAAAA
* ** *
22039279 GCCACTAAAGGTCATGTTCTTTAGC-GTTTTTTGTATGAAAAGT
1 GCCACTAAAGGTCACGTTCTTTAGCGGCGTTTTG-A-GAAAAGC
* * * *
22039322 GCCGCTAAAGTTCATGTTCTTTAGCAGCGTTTTGAGAAAAGC
1 GCCACTAAAGGTCACGTTCTTTAGCGGCGTTTTGAGAAAAGC
22039364 GCCACTAAAGGTCACGTTCTTTAGCGGCGTTTTGAGAAAAGC
1 GCCACTAAAGGTCACGTTCTTTAGCGGCGTTTTGAGAAAAGC
* * *
22039406 GCCGCTAAAGGTCACGTTCTTTAGTGGTGTTTTTGAGAAAAGC
1 GCCACTAAAGGTCACGTTCTTTAGCGGCG-TTTTGAGAAAAGC
*
22039449 GCCTCTAAAGGTCA
1 GCCACTAAAGGTCA
22039463 TGTCTCAAGA
Statistics
Matches: 126, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
42 70 0.56
43 50 0.40
44 6 0.05
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
GCCACTAAAGGTCACGTTCTTTAGCGGCGTTTTGAGAAAAGC
Found at i:22039440 original size:85 final size:85
Alignment explanation
Indices: 22039279--22039462 Score: 246
Period size: 85 Copynumber: 2.2 Consensus size: 85
22039269 TCTAAAAAAA
* ** * * *
22039279 GCCACTAAAGGTCATGTTCTTTAGCGTTTTTTGTATGAAAAGTGCCGCTAAAGTTCATGTTCTTT
1 GCCACTAAAGGTCACGTTCTTTAGCGCGTTTTGTATGAAAAGCGCCGCTAAAGGTCACGTTCTTT
22039344 AGCAGCGTTTTGAGAAAAGC
66 AGCAGCGTTTTGAGAAAAGC
22039364 GCCACTAAAGGTCACGTTCTTTAGCGGCGTTTTG-A-GAAAAGCGCCGCTAAAGGTCACGTTCTT
1 GCCACTAAAGGTCACGTTCTTTAGC-GCGTTTTGTATGAAAAGCGCCGCTAAAGGTCACGTTCTT
** *
22039427 TAGTGGTGTTTTTGAGAAAAGC
65 TAGCAGCG-TTTTGAGAAAAGC
*
22039449 GCCTCTAAAGGTCA
1 GCCACTAAAGGTCA
22039463 TGTCTCAAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
84 30 0.34
85 51 0.59
86 6 0.07
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (85 bp):
GCCACTAAAGGTCACGTTCTTTAGCGCGTTTTGTATGAAAAGCGCCGCTAAAGGTCACGTTCTTT
AGCAGCGTTTTGAGAAAAGC
Found at i:22039467 original size:196 final size:195
Alignment explanation
Indices: 22039085--22039498 Score: 564
Period size: 196 Copynumber: 2.1 Consensus size: 195
22039075 AAAAGCGCCG
* *
22039085 CTAAAGGTCACGTTCTTTAGCGGCGTTTTTTGAGAAAAGCGATGCTAAAGGCCATGTTCTTTAGC
1 CTAAAGGTCATGTTCTTTA---GCGTTTTTTGAGAAAAGCGACGCTAAAGGCCATGTTCTTTAGC
* * * *
22039150 GGCGTTTTGAGAAAAGCACCGCTAAATGTCACATTCTTTAGCGGCGTTTGTATGAAAAGTGCCGC
63 AGCGTTTTGAGAAAAGCACCACTAAAGGTCACATTCTTTAGCGGCGTTTGTATGAAAAGCGCCGC
*
22039215 TAAAAGTCACGTTCTTTAGCGGCGTTTTTGAGAAAAGTGCCGCTAAAGGTCATGTCT-AAAAAAA
128 TAAAAGTCACGTTCTTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTCTCAAAAAAA
22039279 GCCA
193 -CCA
* * **
22039283 CTAAAGGTCATGTTCTTTAGCGTTTTTTGTATGAAAAGTGCCGCTAAAGTTCATGTTCTTTAGCA
1 CTAAAGGTCATGTTCTTTAGCGTTTTTTG-A-GAAAAGCGACGCTAAAGGCCATGTTCTTTAGCA
* *
22039348 GCGTTTTGAGAAAAGCGCCACTAAAGGTCACGTTCTTTAGCGGCGTTT-TGA-GAAAAGCGCCGC
64 GCGTTTTGAGAAAAGCACCACTAAAGGTCACATTCTTTAGCGGCGTTTGT-ATGAAAAGCGCCGC
* * * * * *
22039411 TAAAGGTCACGTTCTTTAGTGGTGTTTTTGAGAAAAGCGCCTCTAAAGGTCATGTCTCAAGAACA
128 TAAAAGTCACGTTCTTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTCTCAAAAAAA
*
22039476 CCG
193 CCA
22039479 CTAAAGGTCATGTTCTTTAG
1 CTAAAGGTCATGTTCTTTAG
22039499 TGGTGTTTCT
Statistics
Matches: 192, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
195 10 0.05
196 87 0.45
197 77 0.40
198 18 0.09
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (195 bp):
CTAAAGGTCATGTTCTTTAGCGTTTTTTGAGAAAAGCGACGCTAAAGGCCATGTTCTTTAGCAGC
GTTTTGAGAAAAGCACCACTAAAGGTCACATTCTTTAGCGGCGTTTGTATGAAAAGCGCCGCTAA
AAGTCACGTTCTTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCATGTCTCAAAAAAACCA
Found at i:22039730 original size:143 final size:143
Alignment explanation
Indices: 22039472--22039758 Score: 565
Period size: 143 Copynumber: 2.0 Consensus size: 143
22039462 ATGTCTCAAG
22039472 AACACCGCTAAAGGTCATGTTCTTTAGTGGTGTTTCTTACCTAAACGCCGCAAAATGTTAGCGGT
1 AACACCGCTAAAGGTCATGTTCTTTAGTGGTGTTTCTTACCTAAACGCCGCAAAATGTTAGCGGT
22039537 GTTGTCTTTAGCGGCATTTTTTGCTCCCAAAAAAAGGCCGCTAAAAACCTGTTTTGCTGTAGTGT
66 GTTGTCTTTAGCGGCATTTTTTGCTCCCAAAAAAAGGCCGCTAAAAACCTGTTTTGCTGTAGTGT
22039602 CCGTCATATATAA
131 CCGTCATATATAA
*
22039615 AACACCGCTAAAGGTCATGTTCTTTAGTGGTGTTTCTTACCTAAACGCCGCAAAATGTTAGTGGT
1 AACACCGCTAAAGGTCATGTTCTTTAGTGGTGTTTCTTACCTAAACGCCGCAAAATGTTAGCGGT
22039680 GTTGTCTTTAGCGGCATTTTTTGCTCCCAAAAAAAGGCCGCTAAAAACCTGTTTTGCTGTAGTGT
66 GTTGTCTTTAGCGGCATTTTTTGCTCCCAAAAAAAGGCCGCTAAAAACCTGTTTTGCTGTAGTGT
22039745 CCGTCATATATAA
131 CCGTCATATATAA
22039758 A
1 A
22039759 CTTTGGTTTT
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 143 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (143 bp):
AACACCGCTAAAGGTCATGTTCTTTAGTGGTGTTTCTTACCTAAACGCCGCAAAATGTTAGCGGT
GTTGTCTTTAGCGGCATTTTTTGCTCCCAAAAAAAGGCCGCTAAAAACCTGTTTTGCTGTAGTGT
CCGTCATATATAA
Found at i:22045605 original size:13 final size:13
Alignment explanation
Indices: 22045587--22045623 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
22045577 TAATTTTCCT
22045587 TTTCTTTCTTTTC
1 TTTCTTTCTTTTC
22045600 TTTCTTTCTTTTC
1 TTTCTTTCTTTTC
* *
22045613 CTCCTTTCTTT
1 TTTCTTTCTTT
22045624 CCCCTGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTCTTTCTTTTC
Found at i:22048288 original size:16 final size:15
Alignment explanation
Indices: 22048267--22048336 Score: 59
Period size: 15 Copynumber: 4.4 Consensus size: 15
22048257 AGATATATAT
22048267 AAATATTAATATAAA
1 AAATATTAATATAAA
*
22048282 AATATATTATTAGTTAAA
1 AA-ATATTAATA--TAAA
* * * *
22048300 AAAAAATATTTTAAA
1 AAATATTAATATAAA
22048315 AAATATTAATATAAA
1 AAATATTAATATAAA
22048330 AATATAT
1 AA-ATAT
22048337 AATTTGTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
15 19 0.44
16 12 0.28
17 6 0.14
18 6 0.14
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (15 bp):
AAATATTAATATAAA
Found at i:22053356 original size:24 final size:22
Alignment explanation
Indices: 22053329--22053374 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
22053319 AAGAAAGAAA
*
22053329 AGGAAAAGTGCATATTTTAAAAAT
1 AGGAAAAG-GCA-ACTTTAAAAAT
22053353 AGGAAAAGGCAACTTTAAAAAT
1 AGGAAAAGGCAACTTTAAAAAT
22053375 TCAAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
23 3 0.14
24 8 0.38
ACGTcount: A:0.52, C:0.07, G:0.17, T:0.24
Consensus pattern (22 bp):
AGGAAAAGGCAACTTTAAAAAT
Found at i:22055691 original size:21 final size:21
Alignment explanation
Indices: 22055667--22055709 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22055657 GATATTAAGG
22055667 TATGTTTGTATTTATTTTATA
1 TATGTTTGTATTTATTTTATA
22055688 TATGTTTGTATTTATTTTATA
1 TATGTTTGTATTTATTTTATA
22055709 T
1 T
22055710 TTTCATTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (21 bp):
TATGTTTGTATTTATTTTATA
Found at i:22055947 original size:17 final size:17
Alignment explanation
Indices: 22055927--22055963 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
22055917 TCTTACTAAA
*
22055927 AAAATATGAAAAGAAAT
1 AAAATATGAAAAAAAAT
22055944 AAAATATGAAAAAAAAT
1 AAAATATGAAAAAAAAT
22055961 AAA
1 AAA
22055964 TTTTGGGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (17 bp):
AAAATATGAAAAAAAAT
Found at i:22056296 original size:152 final size:151
Alignment explanation
Indices: 22056001--22056672 Score: 1109
Period size: 152 Copynumber: 4.5 Consensus size: 151
22055991 TTTTTTTTTA
** *
22056001 AAAATAATAT-AAAAATAAAGCACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTAA
1 AAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAA
** *
22056065 AAATACAAA-AAAAAGACAAAATTAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAAT
66 AAATACAAACAAAGGGACAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAAT
*
22056129 ACATTTGAAACATTATATACT
131 ACATTTGAAACATTATGTACT
22056150 AAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTA
1 AAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTA
* * *
22056215 AAAATACAAACAAAGGGCCAAAATCAAGGTTATTTACTAAATTAATATAAAAAACGCTAAAATAA
65 AAAATACAAACAAAGGGACAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAA
22056280 TACATTTGAAACATTATGTACT
130 TACATTTGAAACATTATGTACT
* * *
22056302 AAAATAATATAAAAAAATGAAATACAAAAATAGTATATTTTAAAAAATAAAATCTGAAAATTTTA
1 AAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTA
*
22056367 AAAATACAAACAAAGGG-CTAAAATCAGGGTTATTTACTAAATTAATATAAAAAATACTAAAATA
65 AAAATACAAACAAAGGGAC-AAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATA
*
22056431 ATATATTTGAAACATTATGTACT
129 ATACATTTGAAACATTATGTACT
* *
22056454 AAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCTGAAAATTTTAA
1 AAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAA
* *
22056519 AAATACAAACAAAGGGACAAAATTAGGGTTATTTACTAAATTAATATAAAAAA-ACCAAAATAAT
66 AAATACAAACAAAGGGACAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAAT
22056583 ACATTTGAAACATTATGTACT
131 ACATTTGAAACATTATGTACT
*
22056604 AAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAGAATCCGAAAATTTTAA
1 AAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAA
22056669 AAAT
66 AAAT
22056673 TTTAAAAATA
Statistics
Matches: 494, Mismatches: 24, Indels: 9
0.94 0.05 0.02
Matches are distributed among these distances:
149 10 0.02
150 96 0.19
151 165 0.33
152 223 0.45
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (151 bp):
AAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAA
AAATACAAACAAAGGGACAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAAT
ACATTTGAAACATTATGTACT
Found at i:22056502 original size:303 final size:300
Alignment explanation
Indices: 22056001--22056672 Score: 1107
Period size: 303 Copynumber: 2.2 Consensus size: 300
22055991 TTTTTTTTTA
* *
22056001 AAAATAATAT-AAAAATAAAGCACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTAA
1 AAAATAATATAAAAAATAAA-TACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAA
*
22056065 AAATACAAAAAAAAGACAAAATTAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATA
65 AAATACAAAAAAAAGACAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATA
*
22056130 CATTTGAAACATTATATACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAA
130 CATTTGAAACATTATATACTAAAATAATATAAAAAAATAAAATACAAAAATAGTATATTTTAAAA
*
22056195 AATAAAATCCGAAAATTTTAAAAATACAAACAAAGGGCCAAAATCAAGGTTATTTACTAAATTAA
195 AATAAAATCCGAAAATTTTAAAAATACAAACAAAGGGACAAAATCAAGGTTATTTACTAAATTAA
22056260 TAT-AAAAAACGCTAAAATAATACATTTGAAACATTATGTACT
260 TATAAAAAAAC-C-AAAATAATACATTTGAAACATTATGTACT
* *
22056302 AAAATAATATAAAAAAATGAAATACAAAAATAGTATATTTTAAAAAATAAAATCTGAAAATTTTA
1 AAAATAATAT-AAAAAAT-AAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTA
* * * *
22056367 AAAATACAAACAAAGGGCTAAAATCAGGGTTATTTACTAAATTAATATAAAAAATACTAAAATAA
64 AAAATACAAAAAAAAGAC-AAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAA
* *
22056432 TATATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACAAAAATAGTATATTTTAA
128 TACATTTGAAACATTATATACTAAAATAATATAAAAAAATAAAATACAAAAATAGTATATTTTAA
* * *
22056496 AAAATAAAATCTGAAAATTTTAAAAATACAAACAAAGGGACAAAATTAGGGTTATTTACTAAATT
193 AAAATAAAATCCGAAAATTTTAAAAATACAAACAAAGGGACAAAATCAAGGTTATTTACTAAATT
22056561 AATATAAAAAAACCAAAATAATACATTTGAAACATTATGTACT
258 AATATAAAAAAACCAAAATAATACATTTGAAACATTATGTACT
*
22056604 AAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAGAATCCGAAAATTTTAA
1 AAAATAATATAAAAAAT-AAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAA
22056669 AAAT
65 AAAT
22056673 TTTAAAAATA
Statistics
Matches: 346, Mismatches: 20, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
301 65 0.19
302 39 0.11
303 158 0.46
304 84 0.24
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (300 bp):
AAAATAATATAAAAAATAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAA
AATACAAAAAAAAGACAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATAC
ATTTGAAACATTATATACTAAAATAATATAAAAAAATAAAATACAAAAATAGTATATTTTAAAAA
ATAAAATCCGAAAATTTTAAAAATACAAACAAAGGGACAAAATCAAGGTTATTTACTAAATTAAT
ATAAAAAAACCAAAATAATACATTTGAAACATTATGTACT
Found at i:22062666 original size:16 final size:16
Alignment explanation
Indices: 22062645--22062681 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
22062635 TGATTTGATG
22062645 GTCCCGTTCTATTAAT
1 GTCCCGTTCTATTAAT
22062661 GTCCCGTTCTATTAAT
1 GTCCCGTTCTATTAAT
22062677 GTCCC
1 GTCCC
22062682 TCTAAGGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.30, G:0.14, T:0.41
Consensus pattern (16 bp):
GTCCCGTTCTATTAAT
Found at i:22063189 original size:39 final size:39
Alignment explanation
Indices: 22063145--22063285 Score: 173
Period size: 39 Copynumber: 3.5 Consensus size: 39
22063135 AATATAAATC
22063145 AACAATAATAATAACTAACAATAATTAAGGTTTTTTACT
1 AACAATAATAATAACTAACAATAATTAAGGTTTTTTACT
* *
22063184 AACAATAATAACCAAC-AATCCTAATAA-T-A-GTTTTTTATT
1 AACAATAATAA-TAACTAA--C-AATAATTAAGGTTTTTTACT
22063223 AACAATAATAATAACTAACAATAATAATAAGGGTTTTTTACT
1 AACAATAATAATAACTAACAATAAT--TAA-GGTTTTTTACT
22063265 AACAATAATAATAACTAACAA
1 AACAATAATAATAACTAACAA
22063286 AAAAAAATCA
Statistics
Matches: 87, Mismatches: 4, Indels: 19
0.79 0.04 0.17
Matches are distributed among these distances:
36 5 0.06
37 1 0.01
38 3 0.03
39 36 0.41
40 5 0.06
41 2 0.02
42 35 0.40
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (39 bp):
AACAATAATAATAACTAACAATAATTAAGGTTTTTTACT
Found at i:22063243 original size:16 final size:16
Alignment explanation
Indices: 22063222--22063252 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22063212 AGTTTTTTAT
22063222 TAACAATAATAATAAC
1 TAACAATAATAATAAC
22063238 TAACAATAATAATAA
1 TAACAATAATAATAA
22063253 GGGTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.26
Consensus pattern (16 bp):
TAACAATAATAATAAC
Found at i:22063408 original size:22 final size:22
Alignment explanation
Indices: 22063359--22063405 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
22063349 AAAAAATATA
* *
22063359 CTTTCTCTTTTCTATTTTTTTT
1 CTTTCTCCTTTCTATTCTTTTT
*
22063381 CCTTCTCCTTTCT-TTCTTTTT
1 CTTTCTCCTTTCTATTCTTTTT
22063402 CTTT
1 CTTT
22063406 TCTTCTCCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (22 bp):
CTTTCTCCTTTCTATTCTTTTT
Found at i:22063410 original size:25 final size:26
Alignment explanation
Indices: 22063367--22063415 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
22063357 TACTTTCTCT
22063367 TTTCTATTTTTTTTCCTTCTCCTTTC
1 TTTCTATTTTTTTTCCTTCTCCTTTC
22063393 TTTCT-TTTTCTTTT-CTTCTCCTT
1 TTTCTATTTT-TTTTCCTTCTCCTT
22063416 GCTGCTGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTCTATTTTTTTTCCTTCTCCTTTC
Found at i:22063462 original size:19 final size:19
Alignment explanation
Indices: 22063405--22063466 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
22063395 TCTTTTTCTT
22063405 TTCTTCTCCTTGCTGCTGC
1 TTCTTCTCCTTGCTGCTGC
* * * *
22063424 TTCTTGCTTCTCG-AGTTGC
1 TTCTT-CTCCTTGCTGCTGC
22063443 TTCTTCTCCTTGCTGCTGC
1 TTCTTCTCCTTGCTGCTGC
22063462 TTCTT
1 TTCTT
22063467 GCTTCCAGAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
18 5 0.15
19 23 0.70
20 5 0.15
ACGTcount: A:0.02, C:0.32, G:0.16, T:0.50
Consensus pattern (19 bp):
TTCTTCTCCTTGCTGCTGC
Found at i:22072524 original size:26 final size:23
Alignment explanation
Indices: 22072495--22072552 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
22072485 TTGTTTTCAT
22072495 ATTTTAAGTATATTATTTTATTTAAA
1 ATTTTAAGTATA-TA-TTTA-TTAAA
*
22072521 ATTTAGTAATTATATATTTATTAAA
1 ATTT--TAAGTATATATTTATTAAA
22072546 ATTTTAA
1 ATTTTAA
22072553 ATAGAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.10
25 9 0.31
26 8 0.28
27 2 0.07
28 7 0.24
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (23 bp):
ATTTTAAGTATATATTTATTAAA
Found at i:22085424 original size:66 final size:68
Alignment explanation
Indices: 22085348--22085534 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
22085338 TAGTACCACT
*
22085348 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
22085410 CACG
65 CACG
22085414 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
22085479 ATCACG
63 ATCACG
22085485 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
22085535 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:22085459 original size:71 final size:71
Alignment explanation
Indices: 22085371--22085534 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22085361 CGATTTGTCT
22085371 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22085436 CTTTCA
66 CTTTCA
22085442 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22085507 CTTTCA
66 CTTTCA
22085513 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
22085535 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:22085572 original size:71 final size:70
Alignment explanation
Indices: 22085371--22085568 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
22085361 CGATTTGTCT
* * *
22085371 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
22085436 CTTTCA
65 CTTTCA
* * *
22085442 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
22085507 CTTTCA
65 CTTTCA
* *
22085513 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
22085569 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:22087405 original size:22 final size:22
Alignment explanation
Indices: 22087380--22087431 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
22087370 AAAACTTTCT
*
22087380 TTTAAAAATATAT-TTTATAAAA
1 TTTAAAAATATATAATTAT-AAA
22087402 TTT-AAAATATATAATTATAAA
1 TTTAAAAATATATAATTATAAA
22087423 TTCTAAAAA
1 TT-TAAAAA
22087432 GGTATACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 14 0.54
22 8 0.31
23 4 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAAAAATATATAATTATAAA
Found at i:22087978 original size:15 final size:14
Alignment explanation
Indices: 22087948--22087995 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
22087938 AAATATTAAT
*
22087948 ATAAAATTCATATA
1 ATAAAATCCATATA
*
22087962 ATAAAATCTATTATA
1 ATAAAATCCA-TATA
*
22087977 ATGAAATCCATATA
1 ATAAAATCCATATA
22087991 ATAAA
1 ATAAA
22087996 TGAATAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.33
Consensus pattern (14 bp):
ATAAAATCCATATA
Found at i:22095585 original size:40 final size:40
Alignment explanation
Indices: 22095458--22095587 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
22095448 ATGCTGGAAA
* *
22095458 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
22095498 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
22095538 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
22095578 TTATATCCGG
1 TTATATCCGG
22095588 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:22103556 original size:40 final size:40
Alignment explanation
Indices: 22103429--22103558 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
22103419 ATGCTGGAAA
* *
22103429 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
22103469 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
22103509 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
22103549 TTATATCCGG
1 TTATATCCGG
22103559 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:22110317 original size:29 final size:30
Alignment explanation
Indices: 22110284--22110342 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
22110274 CTTTAATACT
*
22110284 AACTTTGGCAAAATTACA-TTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
22110313 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
22110343 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:22110806 original size:10 final size:10
Alignment explanation
Indices: 22110791--22110817 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
22110781 TTAAATTTGT
22110791 TTTTAATTCA
1 TTTTAATTCA
22110801 TTTTAATTCA
1 TTTTAATTCA
22110811 TTTTAAT
1 TTTTAAT
22110818 AACTAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTAATTCA
Found at i:22112100 original size:27 final size:27
Alignment explanation
Indices: 22112069--22112144 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
22112059 TAATTTGATG
* *
22112069 AAATGATTGTTATGCCCCTATGAGGTA
1 AAATGACTGTTATACCCCTATGAGGTA
22112096 AAATGACTGTTATACCCCTATGAGGTA
1 AAATGACTGTTATACCCCTATGAGGTA
* *
22112123 AAATGGCTGATATACCCC-ATGA
1 AAATGACTGTTATACCCCTATGA
22112145 CATGTATGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 4 0.09
27 41 0.91
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (27 bp):
AAATGACTGTTATACCCCTATGAGGTA
Found at i:22112877 original size:28 final size:28
Alignment explanation
Indices: 22112845--22112901 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
22112835 ACATAATGAG
22112845 AATCTAATATGTTTAACATTTTACTAAA
1 AATCTAATATGTTTAACATTTTACTAAA
*
22112873 AATCTAATATGTTTAACATTTTGCTAAA
1 AATCTAATATGTTTAACATTTTACTAAA
22112901 A
1 A
22112902 CAACTTGAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (28 bp):
AATCTAATATGTTTAACATTTTACTAAA
Found at i:22116867 original size:46 final size:46
Alignment explanation
Indices: 22116719--22117031 Score: 244
Period size: 46 Copynumber: 6.6 Consensus size: 46
22116709 TTTGTGTGCT
* * *
22116719 AGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
** * * *
22116765 AGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGATGATG-GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGA-GAGCC
*
22116813 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* * *
22116859 AGTATAAGACATGTCTGGGACATGCATCGG-CTACGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCC
* * * *
22116903 AGTGTAAGACCATGTCTGGGACATGGCATTGG-CACGAATGTGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCG-A-G-ATGAGAGCC
* * ** *
22116953 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATTTTGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-GATGAGAGCC
22117002 AGTGTAAGACCATGTCTGGGACATGACATC
1 AGTGTAAGA-CATGTCTGGGACATG-CATC
22117032 AGCATTATAT
Statistics
Matches: 216, Mismatches: 34, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
44 10 0.05
45 18 0.08
46 66 0.31
47 28 0.13
48 23 0.11
49 35 0.16
50 33 0.15
51 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:22120530 original size:27 final size:26
Alignment explanation
Indices: 22120486--22120537 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
22120476 CTCGCTGCAA
*
22120486 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
22120513 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
22120538 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:22120636 original size:27 final size:26
Alignment explanation
Indices: 22120584--22120643 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
22120574 AAATATATAT
*
22120584 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
22120610 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
22120637 ATATCTG
1 ATATCTG
22120644 GCAGCCTCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:22125753 original size:27 final size:28
Alignment explanation
Indices: 22125723--22125791 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
22125713 ATAGTAAGTC
*
22125723 CGCACACTTAGTGCT-TA-ATAGTCAACT
1 CGCACACTTAGTGCTATACA-AGTAAACT
*
22125750 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAAGTAAACT
22125778 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22125792 CAATCTCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 15 0.39
28 22 0.58
29 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAAGTAAACT
Found at i:22128178 original size:40 final size:39
Alignment explanation
Indices: 22128013--22128196 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
22128003 AAATTGAATG
* * *
22128013 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * * *
22128053 ATAACCGGGTTAAGACCTGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
22128093 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
22128133 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
22128172 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
22128197 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 102 0.92
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:22136779 original size:27 final size:28
Alignment explanation
Indices: 22136749--22136817 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
22136739 ATAGTAAGTC
*
22136749 CGCACACTTAGTGCT-TA-ATAGTCAACT
1 CGCACACTTAGTGCTATACA-AGTAAACT
*
22136776 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAAGTAAACT
22136804 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22136818 CAATCTCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 15 0.39
28 22 0.58
29 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAAGTAAACT
Found at i:22138465 original size:53 final size:53
Alignment explanation
Indices: 22138394--22138554 Score: 191
Period size: 53 Copynumber: 3.0 Consensus size: 53
22138384 TTTTCCTTTT
* *
22138394 TGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
1 TGAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * *
22138447 TGAACTCACCAATACCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTA
1 TGAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTA
* * *
22138500 TAGCAACTTATCAATGCCATGTCTTGACAT-GTCTTACATGATTTCCTTGCCTTA
1 T-G-AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
22138554 T
1 T
22138555 AATGGACAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 44 0.49
54 20 0.22
55 23 0.26
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
TGAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:22140329 original size:40 final size:39
Alignment explanation
Indices: 22140284--22140491 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
22140274 CGGAATACAA
*
22140284 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
22140324 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
22140364 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
22140404 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
22140444 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
22140484 CCGGATAT
1 CCGGATAT
22140492 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:22140424 original size:80 final size:80
Alignment explanation
Indices: 22140284--22140490 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
22140274 CGGAATACAA
* * *
22140284 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
22140348 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
22140364 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
22140428 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
22140444 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
22140491 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:22142495 original size:27 final size:27
Alignment explanation
Indices: 22142464--22142571 Score: 87
Period size: 27 Copynumber: 4.0 Consensus size: 27
22142454 GGGCATAATC
*
22142464 ATCATATTACCATATAGGGGTATTACG
1 ATCATATTACCATACAGGGGTATTACG
*
22142491 ATCATATTA-CACTACAGGGGCATTAC-
1 ATCATATTACCA-TACAGGGGTATTACG
* * * *
22142517 AGTCATTTTACCCTATAGGGATATTACAG
1 A-TCATATTACCATACAGGGGTATTAC-G
* * *
22142546 AT-ATTTTACCTTACAGGCGTATTACG
1 ATCATATTACCATACAGGGGTATTACG
22142572 GTCAGATAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 11
0.75 0.13 0.13
Matches are distributed among these distances:
26 4 0.06
27 58 0.89
28 2 0.03
29 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (27 bp):
ATCATATTACCATACAGGGGTATTACG
Found at i:22142570 original size:54 final size:54
Alignment explanation
Indices: 22142465--22142575 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 54
22142455 GGCATAATCA
* *
22142465 TCATATTACCATATAGGGGTATTACGATCATATTACACTACAGGGGCATTACAG
1 TCATATTACCATATAGGGATATTACGATCATATTACACTACAGGCGCATTACAG
* * * * *
22142519 TCATTTTACCCTATAGGGATATTACAGAT-ATTTTAC-CTTACAGGCGTATTACGG
1 TCATATTACCATATAGGGATATTAC-GATCATATTACAC-TACAGGCGCATTACAG
22142573 TCA
1 TCA
22142576 GATAACGACC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
53 1 0.02
54 44 0.92
55 3 0.06
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (54 bp):
TCATATTACCATATAGGGATATTACGATCATATTACACTACAGGCGCATTACAG
Found at i:22143915 original size:12 final size:12
Alignment explanation
Indices: 22143894--22143925 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22143884 CGATCTAGAA
22143894 AGAAGAAATGAG
1 AGAAGAAATGAG
*
22143906 AGAGGAAATGAG
1 AGAAGAAATGAG
22143918 AGAAGAAA
1 AGAAGAAA
22143926 AGAAATAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.34, T:0.06
Consensus pattern (12 bp):
AGAAGAAATGAG
Found at i:22146116 original size:76 final size:76
Alignment explanation
Indices: 22145990--22146132 Score: 286
Period size: 76 Copynumber: 1.9 Consensus size: 76
22145980 TCCCGATATG
22145990 AAATCCATCATAATTCTGTCCCATTTCCACTCTGGTATCATCACAGTCTGAAGCAAACCTGAAGG
1 AAATCCATCATAATTCTGTCCCATTTCCACTCTGGTATCATCACAGTCTGAAGCAAACCTGAAGG
22146055 CATGAAATACA
66 CATGAAATACA
22146066 AAATCCATCATAATTCTGTCCCATTTCCACTCTGGTATCATCACAGTCTGAAGCAAACCTGAAGG
1 AAATCCATCATAATTCTGTCCCATTTCCACTCTGGTATCATCACAGTCTGAAGCAAACCTGAAGG
22146131 CA
66 CA
22146133 CTTCATGCTC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (76 bp):
AAATCCATCATAATTCTGTCCCATTTCCACTCTGGTATCATCACAGTCTGAAGCAAACCTGAAGG
CATGAAATACA
Found at i:22146450 original size:35 final size:35
Alignment explanation
Indices: 22146404--22146509 Score: 185
Period size: 35 Copynumber: 3.0 Consensus size: 35
22146394 CACTTGCCTC
*
22146404 TTCCCACTCTCCCATGCTGTCTGTCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
22146439 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
22146474 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
22146509 T
1 T
22146510 CACACACCCC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.16, C:0.48, G:0.12, T:0.24
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:22146956 original size:33 final size:34
Alignment explanation
Indices: 22146914--22146979 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
22146904 AGAGGGGAAG
*
22146914 CAAAAAAAAAAATCCAGCAAAAAA-TTCCAGCAC
1 CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCAC
**
22146947 CAAAAAAAAATTTCCAGAAAAAAATTTCCAGCA
1 CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
22146980 AAACCAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 21 0.72
34 8 0.28
ACGTcount: A:0.59, C:0.21, G:0.06, T:0.14
Consensus pattern (34 bp):
CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCAC
Found at i:22146969 original size:13 final size:14
Alignment explanation
Indices: 22146950--22146982 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
22146940 CCAGCACCAA
22146950 AAAAAAATTTCCAG
1 AAAAAAATTTCCAG
22146964 AAAAAAATTTCCAG
1 AAAAAAATTTCCAG
22146978 CAAAA
1 -AAAA
22146983 CCAAAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.61, C:0.15, G:0.06, T:0.18
Consensus pattern (14 bp):
AAAAAAATTTCCAG
Found at i:22147269 original size:11 final size:11
Alignment explanation
Indices: 22147240--22147289 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
22147230 CGACCGGATT
* *
22147240 TCCCTTCCCCC
1 TCCCTTCTCTC
22147251 TCCCTTCTCTC
1 TCCCTTCTCTC
22147262 TCCCTTCTCTC
1 TCCCTTCTCTC
22147273 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
22147284 TTCCTT
1 TCCCTT
22147290 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:22156103 original size:46 final size:46
Alignment explanation
Indices: 22156048--22156228 Score: 215
Period size: 46 Copynumber: 3.9 Consensus size: 46
22156038 TAGGATGGTT
22156048 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
22156094 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
* * *
22156140 TAGGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
22156187 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22156229 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 15, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 69 0.61
47 32 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:22156209 original size:93 final size:93
Alignment explanation
Indices: 22156050--22156220 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
22156040 GGATGGTTGA
* * * *
22156050 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
22156115 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
22156143 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
22156208 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
22156221 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:22163015 original size:70 final size:70
Alignment explanation
Indices: 22162928--22163726 Score: 1328
Period size: 70 Copynumber: 11.2 Consensus size: 70
22162918 CAAGTGACAG
* *
22162928 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
22162993 GTTTC
66 GTTTC
22162998 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
22163063 GTTTC
66 GTTTC
*
22163068 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
22163133 GTTTC
66 GTTTC
*
22163138 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
22163203 AATTTATGTTTC
59 AATTTATGTTTC
*
22163215 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
22163280 GTTTC
66 GTTTC
* *
22163285 AAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
22163350 GTTTC
66 GTTTC
* *
22163355 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACATGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
22163420 AATTTATGTTTC
59 AATTTATGTTTC
*
22163432 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
22163497 GTTTC
66 GTTTC
* *
22163502 AAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
22163567 GTTTC
66 GTTTC
*
22163572 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
22163637 GTTTC
66 GTTTC
* *
22163642 AAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
22163707 GTTTC
66 GTTTC
22163712 AAAAATCAACTCATA
1 -AAAATCAACTCATA
22163727 GGTGAGTTGA
Statistics
Matches: 688, Mismatches: 26, Indels: 29
0.93 0.03 0.04
Matches are distributed among these distances:
70 533 0.77
71 18 0.03
72 2 0.00
75 2 0.00
76 4 0.01
77 129 0.19
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:22163296 original size:217 final size:210
Alignment explanation
Indices: 22162928--22163726 Score: 1364
Period size: 217 Copynumber: 3.7 Consensus size: 210
22162918 CAAGTGACAG
* * *
22162928 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTAT
*
22162993 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
*
22163058 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAAT
131 TTTATGTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAAT
22163123 TTCAATTTATGTTTC
196 TTCAATTTATGTTTC
22163138 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGG-----T-AA-TTTC
22163203 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
59 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
22163268 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCAAGACACGTTG
124 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCAAGACACGTTG
22163333 AGGTAATTTCAATTTATGTTTC
189 AGGTAATTTCAATTTATGTTTC
*
22163355 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACATGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGG-----T-AA-TTTC
22163420 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
59 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
22163485 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCAAGACACGTTG
124 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCAAGACACGTTG
22163550 AGGTAATTTCAATTTATGTTTC
189 AGGTAATTTCAATTTATGTTTC
* *
22163572 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTAT
* * *
22163637 GTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
22163702 TTTATGTTTCAAAAATCAACTCATA
131 TTTATGTTTC-AAAATCAACTCATA
22163727 GGTGAGTTGA
Statistics
Matches: 569, Mismatches: 12, Indels: 15
0.95 0.02 0.03
Matches are distributed among these distances:
210 131 0.23
211 16 0.03
212 1 0.00
215 1 0.00
216 2 0.00
217 418 0.73
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (210 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAAT
TTCAATTTATGTTTC
Found at i:22163492 original size:287 final size:290
Alignment explanation
Indices: 22162928--22163704 Score: 1322
Period size: 287 Copynumber: 2.7 Consensus size: 290
22162918 CAAGTGACAG
* *
22162928 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
22162993 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
22163058 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGG----
131 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAAT
*
22163119 -T-AA-TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACA
196 TTCAATTTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAAACA
22163181 CGTTGAGGTAATTTCAATTTTCAATTTATGTTTC
261 CGTTGAGG----TTCAATTTTCAATTTATGTTTC
*
22163215 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
* *
22163280 GTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
* * *
22163345 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACATGTTGAGGTAAT
131 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAAT
*
22163410 TTCAATTTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACA
196 TTCAATTTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAAACA
22163475 CGTTGAGG-T-AA-TTTCAATTTATGTTTC
261 CGTTGAGGTTCAATTTTCAATTTATGTTTC
* *
22163502 AAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
22163567 GTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
*
22163632 TTTATGTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAAT
131 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAAT
22163697 TTCAATTT
196 TTCAATTT
22163705 ATGTTTCAAA
Statistics
Matches: 463, Mismatches: 20, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
287 392 0.85
288 2 0.00
289 1 0.00
292 1 0.00
293 2 0.00
294 65 0.14
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (290 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAAT
TTCAATTTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAAACA
CGTTGAGGTTCAATTTTCAATTTATGTTTC
Found at i:22163869 original size:54 final size:52
Alignment explanation
Indices: 22163777--22163931 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 52
22163767 TCTACTTTCC
* *
22163777 AATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
* *
22163831 AATTTCTGTCTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-T
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTT
**
22163882 --TTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
22163931 A
1 A
22163932 GGTCATATGT
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
47 1 0.01
48 38 0.43
49 4 0.04
51 1 0.01
54 44 0.49
55 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
Found at i:22164685 original size:35 final size:35
Alignment explanation
Indices: 22164639--22164707 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
22164629 ACTTGCCTCT
22164639 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
*
22164674 TCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
22164708 TCACACACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.16, C:0.51, G:0.13, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:22165157 original size:33 final size:32
Alignment explanation
Indices: 22165112--22165190 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 32
22165102 AAAGAGGGGA
*
22165112 AGCAAAAAAAAAAAATCCAGCAAAAAA-TTCC
1 AGCAAAAAAAAAAAATCCAGAAAAAAATTTCC
** *
22165143 AGCACCAAAAAAAAATTTCCAGAAAAAAATTTCT
1 AGCA--AAAAAAAAAAATCCAGAAAAAAATTTCC
22165177 AGCAAAAAAAAAAA
1 AGCAAAAAAAAAAA
22165191 CCAAAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 4 0.10
32 9 0.22
33 20 0.50
34 7 0.17
ACGTcount: A:0.65, C:0.16, G:0.06, T:0.13
Consensus pattern (32 bp):
AGCAAAAAAAAAAAATCCAGAAAAAAATTTCC
Found at i:22165168 original size:14 final size:15
Alignment explanation
Indices: 22165151--22165186 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
22165141 CCAGCACCAA
22165151 AAAAAAATTTCCAG-
1 AAAAAAATTTCCAGC
*
22165165 AAAAAAATTTCTAGC
1 AAAAAAATTTCCAGC
22165180 AAAAAAA
1 AAAAAAA
22165187 AAAACCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.64, C:0.11, G:0.06, T:0.19
Consensus pattern (15 bp):
AAAAAAATTTCCAGC
Found at i:22165475 original size:22 final size:24
Alignment explanation
Indices: 22165450--22165497 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
22165440 CCCGATCGGA
22165450 TTTCCCTT-TCCCCTCCCT-TCTC
1 TTTCCCTTCTCCCCTCCCTCTCTC
* *
22165472 TTTCCCTTCTCTCTTCCCTCTCTC
1 TTTCCCTTCTCCCCTCCCTCTCTC
22165496 TT
1 TT
22165498 CCTTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 8 0.36
24 6 0.27
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTCCCTTCTCCCCTCCCTCTCTC
Found at i:22165477 original size:11 final size:11
Alignment explanation
Indices: 22165463--22165497 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
22165453 CCCTTTCCCC
22165463 TCCCTTCTCTT
1 TCCCTTCTCTT
22165474 TCCCTTCTCTCT
1 TCCCTTCTCT-T
22165486 TCCCTCTCTCTT
1 TCCCT-TCTCTT
22165498 CCTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 10 0.45
12 7 0.32
13 5 0.23
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (11 bp):
TCCCTTCTCTT
Found at i:22166049 original size:22 final size:21
Alignment explanation
Indices: 22166019--22166068 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 21
22166009 ATTTCTAATA
22166019 TGTATATATATATATATTATG
1 TGTATATATATATATATTATG
22166040 TGTATTATATATATATATTATG
1 TGTA-TATATATATATATTATG
*
22166062 TATATAT
1 TGTATAT
22166069 GCCATTAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (21 bp):
TGTATATATATATATATTATG
Found at i:22171033 original size:15 final size:15
Alignment explanation
Indices: 22171014--22171053 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
22171004 ATGAGTCTTC
*
22171014 AAAAATAAATAGAAAT
1 AAAAATAAAGA-AAAT
*
22171030 AAAAGTAAAGAAAAT
1 AAAAATAAAGAAAAT
22171045 AAAAATAAA
1 AAAAATAAA
22171054 ACGAGTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (15 bp):
AAAAATAAAGAAAAT
Found at i:22180900 original size:27 final size:28
Alignment explanation
Indices: 22180868--22180936 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
22180858 AATGAGATTG
*
22180868 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
22180896 G-ACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
22180923 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
22180937 GACTTACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:22187472 original size:79 final size:81
Alignment explanation
Indices: 22187336--22187518 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
22187326 TCGAATGATG
* *
22187336 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
22187400 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
22187415 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
22187477 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
22187495 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
22187519 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:22187534 original size:40 final size:40
Alignment explanation
Indices: 22187337--22187520 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
22187327 CGAATGATGT
* * * *
22187337 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
22187377 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
22187417 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
22187455 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
22187496 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
22187521 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:22187542 original size:79 final size:79
Alignment explanation
Indices: 22187389--22187543 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
22187379 GGACTAAGAT
* **
22187389 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
22187454 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
22187468 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
22187531 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
22187544 ATTTCGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:22192029 original size:28 final size:28
Alignment explanation
Indices: 22191997--22192066 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
22191987 AATGAGATTG
*
22191997 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
22192025 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
22192053 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
22192067 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:22200649 original size:78 final size:81
Alignment explanation
Indices: 22200530--22200711 Score: 239
Period size: 78 Copynumber: 2.3 Consensus size: 81
22200520 TACTCGTTCA
* *
22200530 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
22200593 ATTTAATAAC-TCGCAC
65 ATTTAATAACTTAGCAC
* **
22200609 CATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
22200672 TTTAGTCACTTAGCAC
66 TTTAATAACTTAGCAC
*
22200688 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
22200712 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
77 3 0.03
78 48 0.54
79 27 0.30
80 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAATAACTTAGCAC
Found at i:22200711 original size:40 final size:40
Alignment explanation
Indices: 22200528--22200711 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
22200518 GCTACTCGTT
*
22200528 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
22200568 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
22200608 C-CATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
22200646 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
22200687 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22200712 CATCATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 25 0.20
39 19 0.15
40 68 0.54
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:22208773 original size:77 final size:81
Alignment explanation
Indices: 22208666--22208846 Score: 239
Period size: 77 Copynumber: 2.3 Consensus size: 81
22208656 TACTCGTTCA
* *
22208666 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
22208729 ATTTAATAAC-TCGCAC
65 ATTTAATAACTTAGCAC
**
22208745 -ATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
22208807 TTTAGTCACTTAGCAC
66 TTTAATAACTTAGCAC
*
22208823 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
22208847 CATCATTCGA
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
76 3 0.03
77 48 0.54
78 17 0.19
79 10 0.11
80 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAATAACTTAGCAC
Found at i:22208846 original size:40 final size:40
Alignment explanation
Indices: 22208664--22208846 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
22208654 GCTACTCGTT
*
22208664 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
22208704 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
22208744 C--ATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
22208781 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
22208822 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22208847 CATCATTCGA
Statistics
Matches: 125, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
37 23 0.18
38 13 0.10
39 8 0.06
40 68 0.54
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:22211444 original size:20 final size:20
Alignment explanation
Indices: 22211401--22211446 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
22211391 ACAGGATGTG
* *
22211401 CACTTCAGTGCCCCTATTTT
1 CACTTCAGTGCCCCTATATA
* *
22211421 CACTTCCGTGCCCCTGTATA
1 CACTTCAGTGCCCCTATATA
22211441 CACTTC
1 CACTTC
22211447 GGTGATTCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.15, C:0.39, G:0.11, T:0.35
Consensus pattern (20 bp):
CACTTCAGTGCCCCTATATA
Found at i:22217458 original size:21 final size:22
Alignment explanation
Indices: 22217425--22217465 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
22217415 TTCATTTATG
*
22217425 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
22217446 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
22217466 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:22219616 original size:29 final size:28
Alignment explanation
Indices: 22219584--22219686 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 28
22219574 GTGACGAGAT
*
22219584 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCAAGCTT-AAATATA
* * *
22219613 TGGCACTAAGTGTGCGAGCTCAACTTTATA
1 TGGCACTAAGTGTGCAAGCTTAA--ATATA
* * *
22219643 TGGCACTATGTGTGCAAACTTAAATCACA
1 TGGCACTAAGTGTGCAAGCTTAAAT-ATA
22219672 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
22219687 GTGATCGAGT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 3 0.05
29 35 0.58
30 22 0.37
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCAAGCTTAAATATA
Found at i:22230158 original size:37 final size:37
Alignment explanation
Indices: 22230107--22230256 Score: 228
Period size: 37 Copynumber: 4.1 Consensus size: 37
22230097 GTTTAGCTCA
* *
22230107 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
22230144 AACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* * *
22230181 GACATAATCTTCACACGTAGTCATTGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
22230218 GACATAATCTCCACGCGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
22230255 GA
1 GA
22230257 ATATATTTCC
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:22230471 original size:47 final size:47
Alignment explanation
Indices: 22230420--22230604 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
22230410 TTCACACTAT
* * ** *
22230420 CCATTCGGCTTTACCACATATATGCATGTTCATATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATACTCACATTCATCACATTGG
* *
22230467 CCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATACTCACATTCATCACATTGG
*
22230514 CCATTCGGCCTTATCACATATATGCATACTCACGTTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATACTCACATTCATCACATTGG
* *
22230561 CCATTCGGCCTTATCACATATATGCACATTCACATTCATCACAT
1 CCATTCGGCCTTATCACATATATGCATACTCACATTCATCACAT
22230605 AAAATCCTAA
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 127 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
CCATTCGGCCTTATCACATATATGCATACTCACATTCATCACATTGG
Found at i:22230483 original size:22 final size:22
Alignment explanation
Indices: 22230457--22230579 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
22230447 GTTCATATTC
22230457 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
22230479 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
22230503 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
22230526 ATCACATATATG-CATACTC-ACGTT
1 ATCACAT-T-GGCCAT--TCGGCCTT
22230550 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
22230573 ATCACAT
1 ATCACAT
22230580 ATATGCACAT
Statistics
Matches: 75, Mismatches: 10, Indels: 32
0.64 0.09 0.27
Matches are distributed among these distances:
22 21 0.28
23 20 0.27
24 20 0.27
25 14 0.19
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:22230601 original size:25 final size:25
Alignment explanation
Indices: 22230526--22230605 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
22230516 ATTCGGCCTT
* * *
22230526 ATCACATATATGCATACTCACGTTC
1 ATCACATATATGCACATTCACATTC
* * *
22230551 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
22230573 ATCACATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
22230598 ATCACATA
1 ATCACATA
22230606 AAATCCTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
22 10 0.24
23 6 0.14
24 6 0.14
25 20 0.48
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:22235919 original size:40 final size:40
Alignment explanation
Indices: 22235822--22235974 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
22235812 TCGAATGATG
* *
22235822 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* * **
22235862 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
22235902 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
22235943 T-CGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
22235975 CGCTATATCC
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
39 2 0.02
40 78 0.85
41 12 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:22237918 original size:40 final size:40
Alignment explanation
Indices: 22237886--22238077 Score: 294
Period size: 40 Copynumber: 4.8 Consensus size: 40
22237876 CCAGCATGAT
* * * *
22237886 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
22237926 TGCTCTTCGGGACTTAGCACGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
22237966 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
22238006 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
22238046 TGCTCTTCGGGATTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
22238078 CTCAATTCTC
Statistics
Matches: 140, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:22239388 original size:37 final size:37
Alignment explanation
Indices: 22239338--22239487 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
22239328 CTTTAGCTCA
* *
22239338 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
22239375 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
22239412 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
22239449 GACATAATCTCCACGCGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
22239486 GA
1 GA
22239488 ATATATTTCC
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:22239702 original size:47 final size:47
Alignment explanation
Indices: 22239651--22239882 Score: 383
Period size: 47 Copynumber: 4.9 Consensus size: 47
22239641 TTCACACTAT
* * *
22239651 CCATTCGGCTTTACCACATATATGCATGTTCATATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
* *
22239698 CCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
**
22239745 CCATTCGGCCTTATCACATATATGCATACTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
22239792 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
**
22239839 CCATTCGGCCTTATCACATATATGCACATTCACATTCATCACAT
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
22239883 AAAATCCTAA
Statistics
Matches: 174, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 174 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
Done.