Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 80 of 240
Found at i:25476985 original size:28 final size:27
Alignment explanation
Indices: 25476921--25477036 Score: 89
Period size: 28 Copynumber: 4.2 Consensus size: 27
25476911 AAAAAAAATA
25476921 ATGAAATGAAATGTTAA-ATGAAATATGAAT
1 ATGAAATGAAATG--AATATG-AA-ATGAAT
* * *
25476951 ATAAAATGAAATGTAATTTGTAATGAAT
1 ATGAAATGAAATG-AATATGAAATGAAT
25476979 ATGAAATGTTAAATGAATATGAAATGAA-
1 ATGAAATG--AAATGAATATGAAATGAAT
* *
25477007 ATGAAATG--ATGATTATGAAATGGA-
1 ATGAAATGAAATGAATATGAAATGAAT
25477031 ATGAAA
1 ATGAAA
25477037 GTTTAAATGA
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
24 20 0.27
28 21 0.28
29 15 0.20
30 19 0.25
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (27 bp):
ATGAAATGAAATGAATATGAAATGAAT
Found at i:25476993 original size:35 final size:35
Alignment explanation
Indices: 25476920--25477071 Score: 118
Period size: 35 Copynumber: 4.3 Consensus size: 35
25476910 AAAAAAAAAT
25476920 AATGAAATGAAATGTTAAATGAAATATGAATATAA
1 AATGAAATGAAATGTTAAATGAAATATGAATATAA
* * * *
25476955 AATGAAATGTAAT-TTGTAATG-AATATGAAATGTTA
1 AATGAAATGAAATGTT-AAATGAAATATG-AATATAA
* *
25476990 AATGAATATGAAATG--AAATGAAATGATGATTATGA
1 AATGAA-ATGAAATGTTAAATGAAAT-ATGAATATAA
* *
25477025 AATGGAATGAAA-GTTTAAATGAAA-ATAAATTATAA
1 AATGAAATGAAATG-TTAAATGAAATATGAA-TATAA
* *
25477060 ATTTAAATGAAA
1 AATGAAATGAAA
25477072 ACAAAAACTG
Statistics
Matches: 91, Mismatches: 16, Indels: 20
0.72 0.13 0.16
Matches are distributed among these distances:
33 1 0.01
34 21 0.23
35 52 0.57
36 17 0.19
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (35 bp):
AATGAAATGAAATGTTAAATGAAATATGAATATAA
Found at i:25477023 original size:24 final size:23
Alignment explanation
Indices: 25476926--25477036 Score: 91
Period size: 23 Copynumber: 4.7 Consensus size: 23
25476916 AAATAATGAA
*
25476926 ATGAAATGTTAAATGAAATATGAAT
1 ATGAAATG--AAATGAAATATGATT
* * * *
25476951 ATAAAATGAAATGTAATTTG-TA
1 ATGAAATGAAATGAAATATGATT
* *
25476973 ATGAATATGAAATGTTAA-ATGAAT
1 ATGAA-ATGAAATG-AAATATGATT
25476997 ATGAAATGAAATGAAATGATGATT
1 ATGAAATGAAATGAAAT-ATGATT
*
25477021 ATGAAATGGAATGAAA
1 ATGAAATGAAATGAAA
25477037 GTTTAAATGA
Statistics
Matches: 69, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
22 6 0.09
23 28 0.41
24 28 0.41
25 7 0.10
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (23 bp):
ATGAAATGAAATGAAATATGATT
Found at i:25477100 original size:17 final size:18
Alignment explanation
Indices: 25477058--25477104 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
25477048 AATAAATTAT
25477058 AAATTT-AAATGAAAACA
1 AAATTTGAAATGAAAACA
**
25477075 AAAACTGAAATGAAAA-A
1 AAATTTGAAATGAAAACA
25477092 AAATTTGAAATGA
1 AAATTTGAAATGA
25477105 GAAATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.64, C:0.04, G:0.11, T:0.21
Consensus pattern (18 bp):
AAATTTGAAATGAAAACA
Found at i:25477137 original size:21 final size:21
Alignment explanation
Indices: 25477087--25477145 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
25477077 AACTGAAATG
25477087 AAAAA-AAATTTGAAATGAGAA
1 AAAAATAAATTT-AAATGAGAA
*
25477108 ATAAATAAATTTAAATG-GAA
1 AAAAATAAATTTAAATGAGAA
25477128 AAAAATTAAA-TTAAATGA
1 AAAAA-TAAATTTAAATGA
25477146 AATGGAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 14 0.42
21 13 0.39
22 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.25
Consensus pattern (21 bp):
AAAAATAAATTTAAATGAGAA
Found at i:25477149 original size:5 final size:5
Alignment explanation
Indices: 25477130--25477192 Score: 54
Period size: 6 Copynumber: 11.6 Consensus size: 5
25477120 AAATGGAAAA
* *
25477130 AAATT AAATT AAATG AAATGG AAATG TAAATG AAATGG AAATGG AAATGG
1 AAATG AAATG AAATG AAAT-G AAATG -AAATG AAAT-G AAAT-G AAAT-G
*
25477180 AAATG AAACG AAA
1 AAATG AAATG AAA
25477193 AAAATAAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
5 26 0.49
6 27 0.51
ACGTcount: A:0.57, C:0.02, G:0.21, T:0.21
Consensus pattern (5 bp):
AAATG
Found at i:25477155 original size:6 final size:6
Alignment explanation
Indices: 25477140--25477184 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
25477130 AAATTAAATT
*
25477140 AAAT-G AAATGG AAATGT AAAT-G AAATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
25477185 AAACGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 8 0.22
6 28 0.78
ACGTcount: A:0.53, C:0.00, G:0.27, T:0.20
Consensus pattern (6 bp):
AAATGG
Found at i:25477161 original size:17 final size:17
Alignment explanation
Indices: 25477135--25477184 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 17
25477125 GAAAAAAATT
25477135 AAAT-TAAATGAAATGG
1 AAATGTAAATGAAATGG
25477151 AAATGTAAATGAAATGG
1 AAATGTAAATGAAATGG
*
25477168 AAATGGAAATGGAAATG
1 AAATGTAAAT-GAAATG
25477185 AAACGAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 4 0.13
17 21 0.68
18 6 0.19
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (17 bp):
AAATGTAAATGAAATGG
Found at i:25477455 original size:20 final size:20
Alignment explanation
Indices: 25477430--25477477 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
25477420 GGTACTTAAG
25477430 AAATTTTCCCAAAATTTCAA
1 AAATTTTCCCAAAATTTCAA
25477450 AAATTTTCCCAAAATTTCAA
1 AAATTTTCCCAAAATTTCAA
25477470 AAATTTTC
1 AAATTTTC
25477478 TTAGAAGCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTTTCCCAAAATTTCAA
Found at i:25482311 original size:88 final size:86
Alignment explanation
Indices: 25482206--25482617 Score: 210
Period size: 90 Copynumber: 4.6 Consensus size: 86
25482196 TTCGAATAAT
*
25482206 AATAGTACACGAC-AAATTAAATTTACAGACACAATAAAATACAAACATTCTACAATATTAATAC
1 AATAATACA-GACTAAATTAAATTTACAGACACAA-AAAATACAAACATTCTA-AA-ATTAATAC
25482270 AAAAAAATGTAAAATTCAAAC-AAA
62 AAAAAAATGTAAAATTCAAACTAAA
* * * * **
25482294 AATAATAC-GCACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAATA
1 AATAATACAG-ACTAAATTAAATTTACAGACACAA-AAAATACAAAC--AT-TCTAAAATTAATA
* * * *
25482358 CAAGAAAATTTTAAATTCAAACTACA
61 CAAAAAAATGTAAAATTCAAACTAAA
** * * * *
25482384 TTTAATACAGATTAAATTAAATTTACAGATACAAAAAGGTACAAACATTCTAAGAAATTAATATA
1 AATAATACAGACTAAATTAAATTTACAGACACAAAAA-ATACAAACATTCT-A-AAATTAATACA
** * * * *
25482449 CGAAAATATAAAAATGAAACCT-TA
63 AAAAAATGTAAAATTCAAA-CTAAA
* * * * * * *
25482473 AATCCTAGACA-ACTATATTAAATTTATAGATATAAAAAAATACAAATATTCTAAGAAATTAATA
1 AAT--AATACAGACTAAATTAAATTTACAGACA-CAAAAAATACAAACATTCT-A-AAATTAATA
** * *
25482537 CACGAAAATATAAGAA-TGAAACCTTAAA
61 CAAAAAAATGTAA-AATTCAAA-C-TAAA
** * * *
25482565 TCCTAA-ACA-ACTACATTAAATTTACAGATATAAAAAAATACAAACATTCTAAA
1 -AATAATACAGACTAAATTAAATTTACAGACA-CAAAAAATACAAACATTCTAAA
25482618 GAAATAATAC
Statistics
Matches: 259, Mismatches: 47, Indels: 36
0.76 0.14 0.11
Matches are distributed among these distances:
86 1 0.00
87 3 0.01
88 40 0.15
89 56 0.22
90 141 0.54
91 16 0.06
92 1 0.00
93 1 0.00
ACGTcount: A:0.55, C:0.14, G:0.06, T:0.25
Consensus pattern (86 bp):
AATAATACAGACTAAATTAAATTTACAGACACAAAAAATACAAACATTCTAAAATTAATACAAAA
AAATGTAAAATTCAAACTAAA
Found at i:25482493 original size:90 final size:90
Alignment explanation
Indices: 25482399--25482628 Score: 363
Period size: 90 Copynumber: 2.6 Consensus size: 90
25482389 TACAGATTAA
* ** *
25482399 ATTAAATTTACAGATACAAAAAGGTACAAACATTCTAAGAAATTAATATACGAAAATATAAAAAT
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
* *
25482464 GAAACCTTAAATCCTAGACAACTAT
66 GAAACCTTAAATCCTAAACAACTAC
* * *
25482489 ATTAAATTTATAGATATAAAAAAATACAAATATTCTAAGAAATTAATACACGAAAATATAAGAAT
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
25482554 GAAACCTTAAATCCTAAACAACTAC
66 GAAACCTTAAATCCTAAACAACTAC
25482579 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAAGAAA-TAATACA
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCT-AAGAAATTAATACA
25482629 ATTATTTTAA
Statistics
Matches: 128, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
90 122 0.95
91 6 0.05
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (90 bp):
ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
GAAACCTTAAATCCTAAACAACTAC
Found at i:25489008 original size:25 final size:22
Alignment explanation
Indices: 25488957--25489011 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
25488947 TATTATTTTA
* *
25488957 TGTAAATATTTTCTAAATTTAT
1 TGTATATATTTTCTAAAATTAT
25488979 TGTATATATTTTCTTTAAAATTAT
1 TGTATATATTTTC--TAAAATTAT
25489003 TCGTATATA
1 T-GTATATA
25489012 GCTTGGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 12 0.43
24 9 0.32
25 7 0.25
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
TGTATATATTTTCTAAAATTAT
Found at i:25490161 original size:19 final size:18
Alignment explanation
Indices: 25490124--25490175 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
25490114 AATTTTATTC
25490124 ATTTATTTA-TTAT-TATT
1 ATTTATTTATTTATGT-TT
25490141 ATTGT-TTTACTTTATGTTT
1 ATT-TATTTA-TTTATGTTT
25490160 ATTTATTTATTTATGT
1 ATTTATTTATTTATGT
25490176 GTCCATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
17 7 0.23
18 9 0.30
19 13 0.43
20 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (18 bp):
ATTTATTTATTTATGTTT
Found at i:25490270 original size:17 final size:18
Alignment explanation
Indices: 25490238--25490275 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
25490228 CTTGTTATTG
*
25490238 TATATAATTGATTTTTTT
1 TATATAATTGATTTTTGT
*
25490256 TATAT-ATTTATTTTTGT
1 TATATAATTGATTTTTGT
25490273 TAT
1 TAT
25490276 TTTTGCTCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TATATAATTGATTTTTGT
Found at i:25490292 original size:15 final size:15
Alignment explanation
Indices: 25490272--25490305 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
25490262 TTTATTTTTG
*
25490272 TTATTTTTGCTCGTA
1 TTATTTTTGCTCGCA
25490287 TTATTTTTGCTCGCA
1 TTATTTTTGCTCGCA
25490302 TTAT
1 TTAT
25490306 CGTAATTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.59
Consensus pattern (15 bp):
TTATTTTTGCTCGCA
Found at i:25492288 original size:62 final size:62
Alignment explanation
Indices: 25492187--25492310 Score: 185
Period size: 62 Copynumber: 2.0 Consensus size: 62
25492177 TTTTTTTTGC
* * *
25492187 ATTCATGCATCAACATTTCATTTCATCGCATGCAATAAATTTCCTAAAATCCAAAAATACGT
1 ATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATACGT
* * * *
25492249 ATTCATGCATCAACACTACGTTTCATTGCATACAGTAAATTTCCTAAAATCCAAAAGTACGT
1 ATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATACGT
25492311 CGAGTTTAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (62 bp):
ATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATACGT
Found at i:25493608 original size:12 final size:12
Alignment explanation
Indices: 25493589--25493621 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
25493579 TCAGTGGAGG
25493589 CAAAAAAAAAGGA
1 CAAAAAAAAA-GA
25493602 CAAAAAAAAAGA
1 CAAAAAAAAAGA
25493614 CAAAAAAA
1 CAAAAAAA
25493622 GGTAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAGA
Found at i:25493622 original size:23 final size:22
Alignment explanation
Indices: 25493591--25493656 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
25493581 AGTGGAGGCA
25493591 AAAAAAAAGGACAAAAAAAAAG
1 AAAAAAAAGGACAAAAAAAAAG
**
25493613 ACAAAAAAAGGTA-AAAAAACGAG
1 A-AAAAAAAGG-ACAAAAAAAAAG
*
25493636 AAAATAAAAAG-CAAAAAAAAA
1 AAAA-AAAAGGACAAAAAAAAA
25493657 CCAAATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
22 11 0.31
23 23 0.66
24 1 0.03
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.03
Consensus pattern (22 bp):
AAAAAAAAGGACAAAAAAAAAG
Found at i:25493629 original size:33 final size:33
Alignment explanation
Indices: 25493592--25493654 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
25493582 GTGGAGGCAA
*
25493592 AAAAAAAGGACAAAA-AAAAAGACAAAAAAAGGT
1 AAAAAAACGACAAAATAAAAAG-CAAAAAAAGGT
*
25493625 AAAAAAACGAGAAAATAAAAAGCAAAAAAA
1 AAAAAAACGACAAAATAAAAAGCAAAAAAA
25493655 AACCAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.78, C:0.06, G:0.13, T:0.03
Consensus pattern (33 bp):
AAAAAAACGACAAAATAAAAAGCAAAAAAAGGT
Found at i:25493630 original size:12 final size:11
Alignment explanation
Indices: 25493590--25493656 Score: 62
Period size: 11 Copynumber: 5.8 Consensus size: 11
25493580 CAGTGGAGGC
25493590 AAAAAAAAAGG
1 AAAAAAAAAGG
*
25493601 ACAAAAAAAAAG
1 A-AAAAAAAAGG
*
25493613 ACAAAAAAAGG
1 AAAAAAAAAGG
* *
25493624 TAAAAAAACGAG
1 AAAAAAAAAG-G
*
25493636 AAAATAAAAAGC
1 AAAA-AAAAAGG
25493648 AAAAAAAAA
1 AAAAAAAAA
25493657 CCAAATAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
11 21 0.48
12 18 0.41
13 5 0.11
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAGG
Found at i:25493631 original size:13 final size:12
Alignment explanation
Indices: 25493590--25493656 Score: 50
Period size: 13 Copynumber: 5.7 Consensus size: 12
25493580 CAGTGGAGGC
25493590 AAAAAAAAAGGA
1 AAAAAAAAAGGA
25493602 CAAAAAAAAA-G-
1 -AAAAAAAAAGGA
*
25493613 ACAAAAAAAGG-
1 AAAAAAAAAGGA
* *
25493624 TAAAAAAACGAGA
1 AAAAAAAAAG-GA
* *
25493637 AAATAAAAAGCA
1 AAAAAAAAAGGA
25493649 AAAAAAAA
1 AAAAAAAA
25493657 CCAAATAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
10 8 0.19
11 8 0.19
12 10 0.24
13 16 0.38
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAGGA
Found at i:25493655 original size:11 final size:11
Alignment explanation
Indices: 25493588--25493666 Score: 54
Period size: 11 Copynumber: 6.8 Consensus size: 11
25493578 TTCAGTGGAG
25493588 GCAAAAAAAAA
1 GCAAAAAAAAA
25493599 GGACAAAAAAAAA
1 -G-CAAAAAAAAA
*
25493612 G-ACAAAAAAAG
1 GCA-AAAAAAAA
* *
25493623 GTAAAAAAACGA
1 GCAAAAAAA-AA
25493635 G-AAAATAAAAA
1 GCAAAA-AAAAA
25493646 GCAAAAAAAAA
1 GCAAAAAAAAA
*
25493657 CCAAATAAAA
1 GCAAA-AAAA
25493667 GAAAAACCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
10 1 0.02
11 29 0.53
12 15 0.27
13 10 0.18
ACGTcount: A:0.76, C:0.09, G:0.11, T:0.04
Consensus pattern (11 bp):
GCAAAAAAAAA
Found at i:25494101 original size:6 final size:6
Alignment explanation
Indices: 25494086--25494143 Score: 55
Period size: 6 Copynumber: 9.0 Consensus size: 6
25494076 TCACTTGAAA
*
25494086 AAAAAC AAAAAG AAAAATG AAAAAATG AAAAA- AGAAAAG AAAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAA-G -AAAAA-G AAAAAG A-AAAAG -AAAAAG AAAAAG
25494138 AAAAAG
1 AAAAAG
25494144 GAGAGGCCAA
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
5 1 0.02
6 26 0.57
7 11 0.24
8 8 0.17
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:25494102 original size:7 final size:7
Alignment explanation
Indices: 25494082--25494142 Score: 65
Period size: 7 Copynumber: 8.9 Consensus size: 7
25494072 TACTTCACTT
25494082 GAAAAAA
1 GAAAAAA
*
25494089 AACAAAAA
1 GA-AAAAA
*
25494097 GAAAAAT
1 GAAAAAA
25494104 GAAAAAA
1 GAAAAAA
25494111 TGAAAAAA
1 -GAAAAAA
25494119 G--AAAA
1 GAAAAAA
25494124 GAAAAAA
1 GAAAAAA
25494131 G-AAAAA
1 GAAAAAA
25494137 GAAAAA
1 GAAAAA
25494143 GGAGAGGCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
5 5 0.11
6 6 0.13
7 21 0.47
8 13 0.29
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.03
Consensus pattern (7 bp):
GAAAAAA
Found at i:25494110 original size:15 final size:15
Alignment explanation
Indices: 25494082--25494136 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
25494072 TACTTCACTT
25494082 GAAAAAA-AACAAAAA
1 GAAAAAAGAA-AAAAA
* *
25494097 GAAAAATGAAAAAAT
1 GAAAAAAGAAAAAAA
25494112 GAAAAAAG---AAAA
1 GAAAAAAGAAAAAAA
25494124 GAAAAAAGAAAAA
1 GAAAAAAGAAAAA
25494137 GAAAAAGGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 11 0.34
15 19 0.59
16 2 0.06
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.04
Consensus pattern (15 bp):
GAAAAAAGAAAAAAA
Found at i:25494143 original size:12 final size:12
Alignment explanation
Indices: 25494086--25494143 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 12
25494076 TCACTTGAAA
*
25494086 AAAAACAAAAAG
1 AAAAAGAAAAAG
25494098 AAAAATGAAAAAATG
1 AAAAA-G-AAAAA-G
25494113 AAAAA-AGAAAAG
1 AAAAAGA-AAAAG
25494125 AAAAAAGAAAAAG
1 -AAAAAGAAAAAG
25494138 AAAAAG
1 AAAAAG
25494144 GAGAGGCCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
12 13 0.33
13 14 0.36
14 6 0.15
15 6 0.15
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.03
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:25495247 original size:46 final size:46
Alignment explanation
Indices: 25495187--25495383 Score: 145
Period size: 46 Copynumber: 4.4 Consensus size: 46
25495177 ATAATTCTAT
*
25495187 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * *
25495233 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* *** * * ** * * *
25495279 CTCCCCG-A--CCACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
*
25495321 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
*
25495367 CTTCCTGTATTTGGCAG
1 CTCCCTGTATTTGGCAG
25495384 CAAAGTAGGT
Statistics
Matches: 105, Mismatches: 38, Indels: 16
0.66 0.24 0.10
Matches are distributed among these distances:
41 3 0.03
42 9 0.09
43 10 0.10
44 2 0.02
45 20 0.19
46 57 0.54
47 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
Found at i:25495321 original size:134 final size:134
Alignment explanation
Indices: 25495080--25495459 Score: 625
Period size: 134 Copynumber: 2.8 Consensus size: 134
25495070 GAAGTGGATC
25495080 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAAGATGGCAGATTTTAC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATC-AAAGATGGCAGATTTTAC
*
25495145 CTCCCTGACCACAGTGGAGTACACTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAAT
65 CTCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAAT
25495210 AGATT
130 AGATT
25495215 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
* *
25495280 TCCCCGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATA
66 TCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
25495345 GATT
131 GATT
* * * ** * *
25495349 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGTAGGTTGAAGACGGCGGATTTTACC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
** * *
25495414 TCCCTGATTACAGTGGAGTACATTGAAGCTGATAGTTCTATCTCCC
66 TCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCC
25495460 GGGGCAAGAA
Statistics
Matches: 229, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
134 183 0.80
135 46 0.20
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (134 bp):
GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
TCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
GATT
Found at i:25495521 original size:44 final size:45
Alignment explanation
Indices: 25495467--25496546 Score: 961
Period size: 44 Copynumber: 24.5 Consensus size: 45
25495457 CCCGGGGCAA
* * *
25495467 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * *
25495511 GAAATAGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * *
25495555 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * *
25495599 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGCAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
25495643 GAAATGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
25495687 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * *
25495731 GAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * *
25495775 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
25495819 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * *
25495863 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * * * *
25495907 GAAATGGATCAAAGATAACAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * * *
25495952 GAAGTAGATCGCAGAAAGCAGATCTTGTTTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * *
25495996 GAAGTAGATCAAAGATAACAGGTCTGGTCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
25496040 GAAGTGGATCGACGAT-GCAGATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
25496084 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
25496128 GAAGTAGATCGAAGAT-GCAGAT-TCTGTCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCT-TGTCTTCCTATATTGGTAGT
* * * *
25496171 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * **
25496215 GAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * * *
25496259 GAAGTGGATCGACGAT-GCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
25496303 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * *
25496347 GAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * *
25496391 GAAGTGGATCGACGAT-GCAGAT-TCTGTCTTCCTATGTTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCT-TGTCTTCCTATATTGGTAGT
* * * * * * *
25496434 GAAGTGGATCGACGAT-GCAGGTCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * * *
25496478 GAAGTAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATA-TTGGTAGT
* *
25496524 GAAGCAGATCGAAGATGGCAGAT
1 GAAGTAGATCGAAGATAGCAGAT
25496547 TTTACCTCCC
Statistics
Matches: 819, Mismatches: 190, Indels: 52
0.77 0.18 0.05
Matches are distributed among these distances:
42 1 0.00
43 200 0.24
44 438 0.53
45 155 0.19
46 25 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (45 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
Found at i:25495704 original size:132 final size:132
Alignment explanation
Indices: 25495467--25496546 Score: 1298
Period size: 132 Copynumber: 8.2 Consensus size: 132
25495457 CCCGGGGCAA
* * *
25495467 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATAGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
25495532 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
25495597 GT
131 GT
* * *
25495599 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGCAGGAAATGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
*
25495664 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
25495729 GT
131 GT
*
25495731 GAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
*
25495796 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
25495861 GT
131 GT
* * * * *
25495863 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAATGGATCAAAGATAACAG
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-GCAG
* *
25495928 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTTTTCATGTATTGG
65 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
25495993 CGT
130 CGT
* * * * *
25495996 GAAGTAGATCAAAGATAACAGGT-CTGGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAG
1 GAAGTAGATCGAAGATAGCAGATCCT-ATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAG
* * *
25496060 ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGG
65 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
25496125 CGT
130 CGT
* * * *
25496128 GAAGTAGATCGAAGAT-GCAGATTCTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAAAGCAG
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAG-ATGCAG
*** * * * * ** * *
25496192 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAA-CAGGTCCGGTCTTCCTATATTG
65 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTATTG
*
25496255 GTAG-
129 G-CGT
* * * * * * * * *
25496259 GAAGTGGATCGACGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCA
* *** * * * * * * *
25496323 GATCTTATCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAA-CAGGTCCTGTCTTCCTATATT
64 GATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTATT
*
25496386 GGTAG-
128 GG-CGT
* * * * * * *
25496391 GAAGTGGATCGACGAT-GCAGATTCTGTCTTCCTATGTTGGTAGGAAGTGGATCGACGATGCAGG
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
* * ** * *
25496455 TCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGG
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA-TTGG
*
25496520 CAGC
130 C-GT
* *
25496524 GAAGCAGATCGAAGATGGCAGAT
1 GAAGTAGATCGAAGATAGCAGAT
25496547 TTTACCTCCC
Statistics
Matches: 851, Mismatches: 84, Indels: 24
0.89 0.09 0.03
Matches are distributed among these distances:
130 19 0.02
131 144 0.17
132 549 0.65
133 133 0.16
134 6 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:25496421 original size:219 final size:220
Alignment explanation
Indices: 25495467--25496421 Score: 862
Period size: 219 Copynumber: 4.3 Consensus size: 220
25495457 CCCGGGGCAA
* * * * * * *
25495467 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATAGATCGAAG-ATGCAG
1 GAAGTAGATCAAAGATAACAGATCCTGTCTTCCTATATTGGTAGGAAGTAGATCGACGAAAGCAG
*** * * * * ** * *
25495531 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTATTG
66 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAA-CAGGTCCGGTCTTCCTATATTG
* * * * * * * * ** * *
25495595 G-CGTGAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGCAG-GAAATGGATCGAAG-
129 GTAG-GAAGTGGATCGACGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
* * *** * *
25495657 ATGCAGATCTTGTCTTCCCATATTGGTGGC
192 AAGCAGATCTTATCTTCATGTATTGG-CGT
** * * * * * **
25495687 GAAGTAGATCGCAGA-AAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGC
1 GAAGTAGATCAAAGATAA-CAGATCCTGTCTTCCTATATTGGTAG-GAAGTAGATCGACGAAAGC
* * * * * * * * * ** *
25495750 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATT
64 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATT
* * * *** * * *
25495813 GGTGGCGAAGTAGATCG-CAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAA
128 GGTAG-GAAGTGGATCGAC-G-ATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
* * * * * **
25495876 GATAGCAGGTCCTATCTTCCTATATTGATAG-
190 GAAAGCAGATCTTATCTTCATGTATTG-GCGT
* * * * *
25495907 GAAATGGATCAAAGATAACAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG-CAGAAAGC
1 GAAGTAGATCAAAGATAACAGATCCTGTCTTCCTATATTGGTAG-GAAGTAGATCGAC-GAAAGC
* *
25495971 AGATCTTGTTTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCTGGTCTTCCTATATTG
64 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTG
*
25496036 GTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAA
129 GTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
25496101 GCAGATCTTATCTTCATGTATTGGCGT
194 GCAGATCTTATCTTCATGTATTGGCGT
* * * *
25496128 GAAGTAGATCGAAGAT-GCAGATTCTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAAAGCAG
1 GAAGTAGATCAAAGATAACAGATCCTGTCTTCCTATATTGGTAGGAAGTAGATCGACGAAAGCAG
25496192 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGT
25496257 AGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGC
131 AGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGC
25496322 AGATCTTATCTTCATGTATTGGCGT
196 AGATCTTATCTTCATGTATTGGCGT
* * *
25496347 GAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACG-ATGCAG
1 GAAGTAGATCAAAGATAACAGATCCTGTCTTCCTATATTGGTAGGAAGTAGATCGACGAAAGCAG
25496411 AT-TCTGTCTTC
66 ATCT-TGTCTTC
25496422 CTATGTTGGT
Statistics
Matches: 616, Mismatches: 98, Indels: 43
0.81 0.13 0.06
Matches are distributed among these distances:
218 1 0.00
219 223 0.36
220 215 0.35
221 154 0.25
222 23 0.04
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (220 bp):
GAAGTAGATCAAAGATAACAGATCCTGTCTTCCTATATTGGTAGGAAGTAGATCGACGAAAGCAG
ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGT
AGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGC
AGATCTTATCTTCATGTATTGGCGT
Found at i:25496642 original size:95 final size:95
Alignment explanation
Indices: 25496529--25496907 Score: 556
Period size: 95 Copynumber: 4.0 Consensus size: 95
25496519 GCAGCGAAGC
*
25496529 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAATGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAATGGAGTACATTGAAGCCGATAACTCTAT
*
25496594 CTCCCTGTATTTGGCATTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
25496624 AGATCGAAGATGGCAGATTTTACCTCCTTGACTACAATGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAATGGAGTACATTGAAGCCGATAACTCTAT
* *
25496689 CTCCCTGTATTTGGCAG-CG---A-A--GC
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
** * *
25496712 AGATCAAAGATGGCAGATTTTACCTTCATGTGACTACAGTGGAGTACATTGAAGCCGATGACTCT
1 AGATCAAAGATGGCAGATTTTACC-TC-CCTGACTACAATGGAGTACATTGAAGCCGATAACTCT
* *
25496777 ATCTTCCTGTATTTGGCAGTGGAATAAATTGA
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
*
25496809 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAATGGAGTACATTGAAGCCGATAACTCTAT
* *
25496874 CTCCCTGTATCTGGCAGTGGAATTGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
25496904 AGAT
1 AGAT
25496908 TGCAGATCTT
Statistics
Matches: 256, Mismatches: 19, Indels: 18
0.87 0.06 0.06
Matches are distributed among these distances:
88 24 0.09
89 2 0.01
90 52 0.20
91 2 0.01
94 2 0.01
95 147 0.57
96 2 0.01
97 25 0.10
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAATGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:25496821 original size:185 final size:183
Alignment explanation
Indices: 25496509--25496890 Score: 638
Period size: 185 Copynumber: 2.1 Consensus size: 183
25496499 ATCTTGCCTT
*
25496509 CCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTACAATGGAGTAC
1 CCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAATGGAGTAC
* * *
25496574 ATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCATTGGAATAGATTGAAGATCGAAGATGGCA
66 ATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAAATTGAAGATCAAAGATGGCA
*
25496639 GATTTTACCTCCTTGACTACAATGGAGTACATTGAAGCCGATAACTCTATCTC
131 GATTTTACCTCCCTGACTACAATGGAGTACATTGAAGCCGATAACTCTATCTC
** *
25496692 CCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTTCATGTGACTACAGTGGAGT
1 CCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC-TC-CCTGACTACAATGGAGT
* *
25496757 ACATTGAAGCCGATGACTCTATCTTCCTGTATTTGGCAGTGGAATAAATTGAAGATCAAAGATGG
64 ACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAAATTGAAGATCAAAGATGG
*
25496822 CAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
129 CAGATTTTACCTCCCTGACTACAATGGAGTACATTGAAGCCGATAACTCTATCTC
*
25496877 CCTGTATCTGGCAG
1 CCTGTATTTGGCAG
25496891 TGGAATTGAT
Statistics
Matches: 185, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
183 43 0.23
184 2 0.01
185 140 0.76
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (183 bp):
CCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAATGGAGTAC
ATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAAATTGAAGATCAAAGATGGCA
GATTTTACCTCCCTGACTACAATGGAGTACATTGAAGCCGATAACTCTATCTC
Found at i:25497026 original size:134 final size:134
Alignment explanation
Indices: 25496809--25497103 Score: 545
Period size: 134 Copynumber: 2.2 Consensus size: 134
25496799 AATAAATTGA
* *
25496809 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCATGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
25496874 CTCCCTGTATCTGGCAGTGGAATTGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
25496939 AAGC
131 AAGC
25496943 AGATCGAAGATGGCAGATTTTACCTCCATGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCATGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
25497008 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGTAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
25497073 AAGC
131 AAGC
*
25497077 AGATCGAAAATGGCAGATTTTACCTCC
1 AGATCGAAGATGGCAGATTTTACCTCC
25497104 CTGCATTCAA
Statistics
Matches: 156, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 156 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (134 bp):
AGATCGAAGATGGCAGATTTTACCTCCATGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGC
Found at i:25498728 original size:25 final size:22
Alignment explanation
Indices: 25498677--25498731 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
25498667 TATTATTTTA
* *
25498677 TGTAAATATTTTCTAAATTTAT
1 TGTATATATTTTCTAAAATTAT
25498699 TGTATATATTTTCTTTAAAATTAT
1 TGTATATATTTTC--TAAAATTAT
25498723 TCGTATATA
1 T-GTATATA
25498732 GCTTGGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 12 0.43
24 9 0.32
25 7 0.25
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
TGTATATATTTTCTAAAATTAT
Found at i:25499747 original size:14 final size:14
Alignment explanation
Indices: 25499730--25499758 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25499720 ACATACACAT
25499730 ATATATACGTATAG
1 ATATATACGTATAG
25499744 ATATATACGTATAG
1 ATATATACGTATAG
25499758 A
1 A
25499759 CATACATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (14 bp):
ATATATACGTATAG
Found at i:25499896 original size:19 final size:18
Alignment explanation
Indices: 25499859--25499910 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
25499849 AATTTTATTC
25499859 ATTTATTTA-TTAT-TATT
1 ATTTATTTATTTATGT-TT
25499876 ATTGT-TTTACTTTATGTTT
1 ATT-TATTTA-TTTATGTTT
25499895 ATTTATTTATTTATGT
1 ATTTATTTATTTATGT
25499911 GTCCATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
17 7 0.23
18 9 0.30
19 13 0.43
20 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (18 bp):
ATTTATTTATTTATGTTT
Found at i:25500024 original size:15 final size:15
Alignment explanation
Indices: 25500004--25500037 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
25499994 TTTATTTTTG
*
25500004 TTATTTTTGCTCGTA
1 TTATTTTTGCTCGCA
25500019 TTATTTTTGCTCGCA
1 TTATTTTTGCTCGCA
25500034 TTAT
1 TTAT
25500038 CGTAATTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.59
Consensus pattern (15 bp):
TTATTTTTGCTCGCA
Found at i:25502756 original size:3 final size:3
Alignment explanation
Indices: 25502748--25502779 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
25502738 AGGTGATCTT
25502748 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25502780 TATTTGTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:25503566 original size:14 final size:14
Alignment explanation
Indices: 25503549--25503591 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
25503539 ATTATTAAAA
*
25503549 TAAAATTATAGTAT
1 TAAAATTATATTAT
* *
25503563 T-AAATTTTTTTAT
1 TAAAATTATATTAT
25503576 TAAAATTATATTAT
1 TAAAATTATATTAT
25503590 TA
1 TA
25503592 GAGATTAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
TAAAATTATATTAT
Found at i:25505087 original size:13 final size:13
Alignment explanation
Indices: 25505069--25505105 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
25505059 AATTCTTCAT
25505069 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
25505082 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
25505095 TGCTTTT-AAAA
1 TGCTTTTGAAAA
25505106 AATTTGAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:25505357 original size:20 final size:19
Alignment explanation
Indices: 25505332--25505378 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
25505322 ATTAATTATT
25505332 TATAAAATTTAATTAGAATA
1 TATAAAATTTAATTA-AATA
* * *
25505352 TATAAACTATATTTAAATA
1 TATAAAATTTAATTAAATA
25505371 TA-AAAATT
1 TATAAAATT
25505379 AAATATTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 4 0.18
19 6 0.27
20 12 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TATAAAATTTAATTAAATA
Found at i:25506551 original size:14 final size:17
Alignment explanation
Indices: 25506520--25506556 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
25506510 ATTATAAAGG
25506520 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
25506537 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
25506551 ATATTA
1 ATATTA
25506557 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:25506732 original size:14 final size:14
Alignment explanation
Indices: 25506706--25506756 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
25506696 GAAAACAAAA
25506706 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
25506720 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
25506734 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
25506749 G-AATAAAA
1 GAAATAAAA
25506757 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:25506767 original size:17 final size:16
Alignment explanation
Indices: 25506745--25506778 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25506735 AAGTTAAAAT
25506745 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
25506762 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
25506778 A
1 A
25506779 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:25507638 original size:17 final size:18
Alignment explanation
Indices: 25507606--25507639 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25507596 AATTGAATGG
*
25507606 AAATGTATTGAGTTGTGA
1 AAATGTATTGAATTGTGA
25507624 AAATGTA-TGAATTGTG
1 AAATGTATTGAATTGTG
25507640 GATTAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.38
Consensus pattern (18 bp):
AAATGTATTGAATTGTGA
Found at i:25515741 original size:20 final size:21
Alignment explanation
Indices: 25515716--25515792 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 21
25515706 ACTATCATAT
*
25515716 AATAATAGTATGATAAATAA-
1 AATAATAATATGATAAATAAC
*
25515736 AATAATAATATTATAAATAAC
1 AATAATAATATGATAAATAAC
* * *
25515757 AATAATATTATGA-ATAATGAT
1 AATAATAATATGATA-AATAAC
25515778 AATAATAA-ATGATAA
1 AATAATAATATGATAA
25515793 TACATTGAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
20 24 0.51
21 23 0.49
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (21 bp):
AATAATAATATGATAAATAAC
Found at i:25515781 original size:21 final size:18
Alignment explanation
Indices: 25515714--25515794 Score: 76
Period size: 18 Copynumber: 4.5 Consensus size: 18
25515704 AAACTATCAT
* *
25515714 ATAATAATAGTATGATAA
1 ATAATAATAATATTATAA
25515732 ATAAAATAATAATATTATAA
1 AT--AATAATAATATTATAA
* *
25515752 ATAACAATAATATTATGA
1 ATAATAATAATATTATAA
*
25515770 ATAATGATAATA--ATAA
1 ATAATAATAATATTATAA
*
25515786 ATGATAATA
1 ATAATAATA
25515795 CATTGAAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
16 10 0.19
18 26 0.50
20 16 0.31
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.33
Consensus pattern (18 bp):
ATAATAATAATATTATAA
Found at i:25516388 original size:13 final size:13
Alignment explanation
Indices: 25516370--25516394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25516360 AAATAAAACT
25516370 CCCCTTTTCTCTC
1 CCCCTTTTCTCTC
25516383 CCCCTTTTCTCT
1 CCCCTTTTCTCT
25516395 TATGCTTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (13 bp):
CCCCTTTTCTCTC
Found at i:25519836 original size:20 final size:18
Alignment explanation
Indices: 25519798--25519836 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
25519788 ATTCAAACAT
*
25519798 ATCATATAACATTCTTAA
1 ATCATATAACATGCTTAA
25519816 ATCATATTAATCATGCTTAA
1 ATCATA-TAA-CATGCTTAA
25519836 A
1 A
25519837 CACACAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 3 0.17
20 9 0.50
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (18 bp):
ATCATATAACATGCTTAA
Found at i:25523978 original size:21 final size:21
Alignment explanation
Indices: 25523954--25524004 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
25523944 AGTTTCCCTC
25523954 TCTTGTAATTATCTAGTCATT
1 TCTTGTAATTATCTAGTCATT
25523975 TCTTGTAATTATCTAGTCATT
1 TCTTGTAATTATCTAGTCATT
25523996 TCTTGTAAT
1 TCTTGTAAT
25524005 ATAAAATTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.53
Consensus pattern (21 bp):
TCTTGTAATTATCTAGTCATT
Found at i:25524307 original size:24 final size:24
Alignment explanation
Indices: 25524261--25524347 Score: 75
Period size: 21 Copynumber: 4.0 Consensus size: 24
25524251 AAATTAAATC
* *
25524261 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTGCATATATCATATCT
*
25524284 TCTAAGATTGTATATATCATA---
1 TCTAAGATTGCATATATCATATCT
*
25524305 TCTAAGATTGCATATGTCATA---
1 TCTAAGATTGCATATATCATATCT
25524326 TCTAAGATTGC--ATATCATATCT
1 TCTAAGATTGCATATATCATATCT
25524348 AAGATTGTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
19 7 0.13
21 30 0.56
23 10 0.19
24 7 0.13
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (24 bp):
TCTAAGATTGCATATATCATATCT
Found at i:25524310 original size:21 final size:21
Alignment explanation
Indices: 25524284--25524359 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
25524274 AATCATATCT
25524284 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
* *
25524305 TCTAAGATTGCATATGTCATA
1 TCTAAGATTGTATATATCATA
*
25524326 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
25524345 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
25524360 CCTCGAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 17 0.35
21 31 0.65
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.41
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:25524319 original size:19 final size:19
Alignment explanation
Indices: 25524297--25524360 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
25524287 AAGATTGTAT
25524297 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
25524316 ATATGTCATATCTAAGATTGC
1 ATA--TCATATCTAAGATTGC
*
25524337 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
25524356 ATATC
1 ATATC
25524361 CTCGAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:25524763 original size:44 final size:44
Alignment explanation
Indices: 25524672--25524784 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 44
25524662 TAATCCACTC
* * * *
25524672 CACTACAACTT-AGGGAGACAGGA-TTAGTTTATTTAGCCTGTCT
1 CACTGCAACTTCAGGGAGATAAGACTT-GTTTACTTAGCCTGTCT
*
25524715 CACTGCAACTTCA-GGAGGATAAGACTTGTTTACTTAGTCTG-CT
1 CACTGCAACTTCAGGGA-GATAAGACTTGTTTACTTAGCCTGTCT
25524758 CCACTGCAACTTCAGGGAGATAAGACT
1 -CACTGCAACTTCAGGGAGATAAGACT
25524785 AGACGCGATC
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
43 15 0.25
44 40 0.67
45 5 0.08
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGACTTGTTTACTTAGCCTGTCT
Found at i:25524887 original size:44 final size:43
Alignment explanation
Indices: 25524752--25525129 Score: 204
Period size: 44 Copynumber: 8.8 Consensus size: 43
25524742 GTTTACTTAG
* * * *
25524752 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-GACGC-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTCTAA
* * ** ** * * * * *
25524793 TCAGCT-CTCTATAACTTCAAAGAGATAAGATCCAAGGTTTTGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTCTAA
* *
25524836 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTCTAA
* * *
25524880 TCTGCTCCACTACAACTTCAGGGAGATAAGATT-TGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-TC-T-AA
* * *
25524925 TCTAC-CTCACTGCAACTTCA-GGAGGATAAGACT-T-GCTTGCTGAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T-CT-AA
* * * *
25524969 TCTGCTCCATTGCAACTTTAGGGAGATAAGATTA--GATGC-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCT-CTAA
* * * * *
25525010 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTCTAA
* * ** * * *
25525053 TCCGCTCCACTACAACTTCAATGAGATAGGATTATCGACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTCTAA
25525097 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT
25525130 TGCCATCTTC
Statistics
Matches: 253, Mismatches: 64, Indels: 37
0.71 0.18 0.10
Matches are distributed among these distances:
40 40 0.16
41 13 0.05
42 3 0.01
43 23 0.09
44 143 0.57
45 31 0.12
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTCTAA
Found at i:25525036 original size:217 final size:217
Alignment explanation
Indices: 25524713--25525140 Score: 685
Period size: 217 Copynumber: 2.0 Consensus size: 217
25524703 TTTAGCCTGT
* *
25524713 CTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGA
1 CTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTCAGGGAGA
* * *
25524778 TAAGACTAGACGCGATCAGCTCTCTATAACTTCAAAGAGATAAGATCCAAGGTTTTGATCCGCTC
66 TAAGACTAGACGCGATCAGCTCTCTACAACTTCAAAGAGATAAGATCCAAGGCTTTAATCCGCTC
* * *
25524843 CACTGCAACTTCAGGGAGATAGGATTATCGGCTCTAATCTGCTCCACTACAACTTCAGGGAGATA
131 CACTACAACTTCAAGGAGATAGGATTATCGACTCTAATCTGCTCCACTACAACTTCAGGGAGATA
25524908 AGATTTGCCATCTTCAGTCTAC
196 AGATTTGCCATCTTCAGTCTAC
* * *
25524930 CTCACTGCAACTTCAGGAGGATAAGACTTGCTTGCTGAGTCTGCTCCATTGCAACTTTAGGGAGA
1 CTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTCAGGGAGA
* * * * *
25524995 TAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGCTTTAATCCGCTC
66 TAAGACTAGACGCGATCAGCTCTCTACAACTTCAAAGAGATAAGATCCAAGGCTTTAATCCGCTC
* * *
25525060 CACTACAACTTCAATGAGATAGGATTATCGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
131 CACTACAACTTCAAGGAGATAGGATTATCGACTCTAATCTGCTCCACTACAACTTCAGGGAGATA
25525125 AGATTTGCCATCTTCA
196 AGATTTGCCATCTTCA
25525141 ACCTACTCCG
Statistics
Matches: 192, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
217 192 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (217 bp):
CTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTCAGGGAGA
TAAGACTAGACGCGATCAGCTCTCTACAACTTCAAAGAGATAAGATCCAAGGCTTTAATCCGCTC
CACTACAACTTCAAGGAGATAGGATTATCGACTCTAATCTGCTCCACTACAACTTCAGGGAGATA
AGATTTGCCATCTTCAGTCTAC
Found at i:25525254 original size:132 final size:132
Alignment explanation
Indices: 25525096--25525699 Score: 943
Period size: 132 Copynumber: 4.6 Consensus size: 132
25525086 ATCGACTTTA
* ** * * *
25525096 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAACCTACTCCGCTGCTGCTCA
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCA
* *
25525161 GGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCTCACTATCTTGGAAAGATAAGATTTGCCGTCT
65 GGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCT
*
25525226 TTG
130 TCG
* * *
25525229 ATCTGCTCCCCTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAG
25525294 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
25525359 CG
131 CG
* *
25525361 ATCTACTCCACTACTGCTTAGGGAGATAGGATCT---A----CAACCTACTCCGCTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAG
* * * *
25525419 GGAGATAAGGCTTTGTGGCTTAAATCTGCTTCTCACTATCTTGGAAAGATAAGATTTGCCTTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
*
25525484 TG
131 CG
25525486 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAG
* * *
25525551 GGAGACAACGCTTGGTGGCTTAAATATGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
25525616 CG
131 CG
*
25525618 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAG
25525683 GGAGACAAGGCTTGGTG
66 GGAGACAAGGCTTGGTG
25525700 TTTCACCGAT
Statistics
Matches: 430, Mismatches: 34, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
125 116 0.27
128 1 0.00
129 1 0.00
132 297 0.69
133 15 0.03
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (132 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAG
GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
CG
Found at i:25525412 original size:257 final size:257
Alignment explanation
Indices: 25525134--25525699 Score: 952
Period size: 257 Copynumber: 2.2 Consensus size: 257
25525124 AAGATTTGCC
*
25525134 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCTCACT
1 ATCTACAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCTCACT
*
25525199 ATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCCCTACTGCTTAAGGAGATAAGATCTA
66 ATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTA
* * *
25525264 CAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCA
131 CAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAACGCTTGGTGGCTTAAATATGCTTCCCA
*
25525329 CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAGG
196 CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
*
25525391 ATCTACAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTTTGTGGCTTAAATCTGCTTCTCACT
1 ATCTACAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCTCACT
* *
25525456 ATCTTGGAAAGATAAGATTTGCCTTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
66 ATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTA
25525521 CAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAACGCTTGGTGGCTTAAATATGCTTCCCA
131 CAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAACGCTTGGTGGCTTAAATATGCTTCCCA
* *
25525586 CTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
196 CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
* *
25525648 ATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
1 ATCT---A----CAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTTGGTG
25525700 TTTCACCGAT
Statistics
Matches: 288, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
257 250 0.87
260 1 0.00
264 37 0.13
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (257 bp):
ATCTACAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCTCACT
ATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTA
CAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAACGCTTGGTGGCTTAAATATGCTTCCCA
CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
Found at i:25525646 original size:44 final size:44
Alignment explanation
Indices: 25525465--25525649 Score: 110
Period size: 44 Copynumber: 4.2 Consensus size: 44
25525455 TATCTTGGAA
* * **
25525465 AGATAAGATTTGCCTTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * * *
25525509 AGATAAGATCT-ACAATCTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * *
25525553 AGACAACGCTTGGT-GGCTTAAATATGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGTCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
25525597 AGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
25525641 AGATAAGAT
1 AGATAAGAT
25525650 CTACAATCTT
Statistics
Matches: 98, Mismatches: 33, Indels: 20
0.65 0.22 0.13
Matches are distributed among these distances:
42 6 0.06
43 10 0.10
44 72 0.73
45 6 0.06
46 4 0.04
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:25526951 original size:22 final size:23
Alignment explanation
Indices: 25526925--25526977 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
25526915 CTCATTTTGC
25526925 TTTTCTTTTCCTT-TTTCT-TTCT
1 TTTTCTTTTCCTTCTTTCTCTT-T
*
25526947 TTTTCTTTTCTTTCTTTCTCTTT
1 TTTTCTTTTCCTTCTTTCTCTTT
25526970 TTTT-TTTT
1 TTTTCTTTT
25526978 GAAAAATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 16 0.57
23 10 0.36
24 2 0.07
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTCTTTTCCTTCTTTCTCTTT
Found at i:25526957 original size:15 final size:15
Alignment explanation
Indices: 25526926--25526970 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
25526916 TCATTTTGCT
*
25526926 TTTCTTTTCCTTTTTC
1 TTTCTTTTTC-TTTTC
25526942 TTTCTTTTTCTTTTC
1 TTTCTTTTTCTTTTC
*
25526957 TTTCTTTCTCTTTT
1 TTTCTTTTTCTTTT
25526971 TTTTTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 18 0.67
16 9 0.33
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTTTTTCTTTTC
Found at i:25526962 original size:19 final size:19
Alignment explanation
Indices: 25526938--25526974 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
25526928 TCTTTTCCTT
25526938 TTTCTTTCT-TTTTCTTTTC
1 TTTCTTTCTCTTTT-TTTTC
25526957 TTTCTTTCTCTTTTTTTT
1 TTTCTTTCTCTTTTTTTT
25526975 TTTGAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTCTTTCTCTTTTTTTTC
Found at i:25532242 original size:21 final size:21
Alignment explanation
Indices: 25532218--25532261 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
25532208 AGTTTCCCTC
25532218 TCTTGTAATTATCTAGTCATT
1 TCTTGTAATTATCTAGTCATT
25532239 TCTTGTAATTATCTAGTCATT
1 TCTTGTAATTATCTAGTCATT
25532260 TC
1 TC
25532262 AAACCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (21 bp):
TCTTGTAATTATCTAGTCATT
Found at i:25532798 original size:34 final size:34
Alignment explanation
Indices: 25532753--25532821 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
25532743 TAAAGGGCAG
*
25532753 AAGAAGTAGTTTTACAACATTTTTTTCTTTATCT
1 AAGAAGCAGTTTTACAACATTTTTTTCTTTATCT
25532787 AAGAAGCAGTTTTACAACATTTTTTTCTTTATCT
1 AAGAAGCAGTTTTACAACATTTTTTTCTTTATCT
25532821 A
1 A
25532822 TTGTTATAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (34 bp):
AAGAAGCAGTTTTACAACATTTTTTTCTTTATCT
Found at i:25535675 original size:20 final size:18
Alignment explanation
Indices: 25535650--25535686 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
25535640 ACCTAACACA
25535650 AATTAAATTTAAACCATATT
1 AATTAAA-TTAAA-CATATT
25535670 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
25535687 CAACATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:25537269 original size:22 final size:21
Alignment explanation
Indices: 25537244--25537284 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
25537234 GTACGTATGC
25537244 TCTTCTCTTCTTCTTCTTTTTT
1 TCTTCTCTTCTTCTT-TTTTTT
* *
25537266 TCTTTTCTTTTTCTTTTTT
1 TCTTCTCTTCTTCTTTTTT
25537285 CTTTTGTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TCTTCTCTTCTTCTTTTTTTT
Found at i:25537273 original size:19 final size:18
Alignment explanation
Indices: 25537246--25537289 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
25537236 ACGTATGCTC
*
25537246 TTCTCTTCTTCTTCTTTTT
1 TTCTTTTCTTCTTC-TTTT
*
25537265 TTCTTTTCTTTTTCTTTT
1 TTCTTTTCTTCTTCTTTT
25537283 TTCTTTT
1 TTCTTTT
25537290 GTTGTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTCTTTTCTTCTTCTTTT
Found at i:25537275 original size:13 final size:14
Alignment explanation
Indices: 25537249--25537289 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
25537239 TATGCTCTTC
25537249 TCTTCTTCTTCTTTT
1 TCTTCTT-TTCTTTT
25537264 T-TTCTTTTCTTTT
1 TCTTCTTTTCTTTT
25537277 TCTT-TTTTCTTTT
1 TCTTCTTTTCTTTT
25537290 GTTGTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 17 0.68
14 7 0.28
15 1 0.04
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TCTTCTTTTCTTTT
Found at i:25539539 original size:25 final size:25
Alignment explanation
Indices: 25539486--25539540 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
25539476 TAATTAGTAT
* * *
25539486 AAAATATTAATAATTCAATAAATTG
1 AAAATATTAATAATTAAATAAAATC
25539511 AAAA-ATTAAATAATTAAATAAAATC
1 AAAATATT-AATAATTAAATAAAATC
25539536 AAAAT
1 AAAAT
25539541 GTAGGAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (25 bp):
AAAATATTAATAATTAAATAAAATC
Found at i:25540300 original size:15 final size:15
Alignment explanation
Indices: 25540280--25540312 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
25540270 AAAGTTGATA
25540280 ATAAT-AATATATATT
1 ATAATAAATATA-ATT
25540295 ATAATAAATATAATT
1 ATAATAAATATAATT
25540310 ATA
1 ATA
25540313 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:25545912 original size:40 final size:40
Alignment explanation
Indices: 25545864--25546130 Score: 462
Period size: 40 Copynumber: 6.7 Consensus size: 40
25545854 GCAAACACAT
* *
25545864 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
25545904 CTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
25545944 TTGCCTTCGGGTCACAGCCCGGTTATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25545984 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25546024 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25546064 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25546104 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
25546131 ATCCAATGCT
Statistics
Matches: 214, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:25549795 original size:71 final size:70
Alignment explanation
Indices: 25549645--25549845 Score: 217
Period size: 71 Copynumber: 2.8 Consensus size: 70
25549635 TGAACTTTAT
** * * *
25549645 TCGATGTTGCTCACTCAAGCTATTGAGAATCCACAAAATGTGTTGGATCTCAGCTATCGATAAGG
1 TCGATGTTGCTCACTCAAGCTATCAAGAATCCACAACATATGTTGGATCTCAGCCATCGATAA-G
25549710 TATAATG
65 -ATAATG
* * * * *
25549717 -CGGTGTTGTTCACTCAAGCTATCAAGAATCCGCAACACATGTTGGATCTCAGCCATCGTTAA-A
1 TCGATGTTGCTCACTCAAGCTATCAAGAATCCACAACATATGTTGGATCTCAGCCATCGATAAGA
25549780 TAATG
66 TAATG
* * * * *
25549785 ACTCGATGTTGCTCACTCAAGTTGTCAAGAATCCACAACTTAAGTTGTATCTCAGCCATCG
1 --TCGATGTTGCTCACTCAAGCTATCAAGAATCCACAACATATGTTGGATCTCAGCCATCG
25549846 CAGGTCGCTA
Statistics
Matches: 107, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
68 6 0.06
71 101 0.94
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (70 bp):
TCGATGTTGCTCACTCAAGCTATCAAGAATCCACAACATATGTTGGATCTCAGCCATCGATAAGA
TAATG
Found at i:25554035 original size:28 final size:28
Alignment explanation
Indices: 25554004--25554061 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
25553994 CTTTTGGTAT
* * *
25554004 TTTTGCCTAAAATAATTTTTTTAACAAA
1 TTTTCCCTAAAATAATTCTTTTAAAAAA
*
25554032 TTTTCCCTAAAATCATTCTTTTAAAAAA
1 TTTTCCCTAAAATAATTCTTTTAAAAAA
25554060 TT
1 TT
25554062 GTTTTTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.47
Consensus pattern (28 bp):
TTTTCCCTAAAATAATTCTTTTAAAAAA
Found at i:25560366 original size:25 final size:26
Alignment explanation
Indices: 25560338--25560387 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
25560328 CTCATTCATC
25560338 CTCTCTTTCTT-CATTTTTAGTTTCT
1 CTCTCTTTCTTGCATTTTTAGTTTCT
* *
25560363 CTCTCTTTCTTGTATTTTTTGTTTC
1 CTCTCTTTCTTGCATTTTTAGTTTC
25560388 AAACATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.06, C:0.22, G:0.06, T:0.66
Consensus pattern (26 bp):
CTCTCTTTCTTGCATTTTTAGTTTCT
Found at i:25563719 original size:38 final size:39
Alignment explanation
Indices: 25563668--25563743 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 39
25563658 AACATCTTTT
*
25563668 TTTTTTCTTTATCTATTATTATAAA-TTCATTAAAACTA
1 TTTTTTCTTTATCTATTATTATAAACATCATTAAAACTA
*
25563706 TTTTTTCTTTATCTATTGTTATAAACATCATTAAAACT
1 TTTTTTCTTTATCTATTATTATAAACATCATTAAAACT
25563744 TAAGGGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 24 0.69
39 11 0.31
ACGTcount: A:0.33, C:0.12, G:0.01, T:0.54
Consensus pattern (39 bp):
TTTTTTCTTTATCTATTATTATAAACATCATTAAAACTA
Found at i:25567811 original size:19 final size:19
Alignment explanation
Indices: 25567787--25567823 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25567777 ATTAAGAGAT
*
25567787 AAATAATAAAAATTTATGA
1 AAATAATAAAAAATTATGA
25567806 AAATAATAAAAAATTATG
1 AAATAATAAAAAATTATG
25567824 TAACGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAATAATAAAAAATTATGA
Found at i:25572153 original size:21 final size:21
Alignment explanation
Indices: 25572129--25572170 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
25572119 CCTTTTTGTT
25572129 AGGTCAACATGCCTTTCACAA
1 AGGTCAACATGCCTTTCACAA
25572150 AGGTCAACATGCCTTTCACAA
1 AGGTCAACATGCCTTTCACAA
25572171 CCCCCTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (21 bp):
AGGTCAACATGCCTTTCACAA
Found at i:25577719 original size:20 final size:20
Alignment explanation
Indices: 25577696--25577741 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
25577686 GTTTTATTAC
25577696 TTTGGAC-TTGGAATTTGGTA
1 TTTGGACTTTGGAATTTGG-A
*
25577716 TTTGGACTTTGGATTTTGGA
1 TTTGGACTTTGGAATTTGGA
25577736 TTTGGA
1 TTTGGA
25577742 TTCTTTTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.17, C:0.04, G:0.30, T:0.48
Consensus pattern (20 bp):
TTTGGACTTTGGAATTTGGA
Found at i:25577731 original size:13 final size:13
Alignment explanation
Indices: 25577694--25577743 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
25577684 ATGTTTTATT
*
25577694 ACTTTGGACTTGG
1 ACTTTGGATTTGG
*
25577707 AATTTGGTATTTGG
1 ACTTTGG-ATTTGG
25577721 ACTTTGGATTTTGG
1 ACTTTGGA-TTTGG
25577735 A-TTTGGATT
1 ACTTTGGATT
25577744 CTTTTGCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 2 0.06
13 13 0.41
14 17 0.53
ACGTcount: A:0.18, C:0.06, G:0.28, T:0.48
Consensus pattern (13 bp):
ACTTTGGATTTGG
Found at i:25580919 original size:19 final size:19
Alignment explanation
Indices: 25580895--25580933 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
25580885 TAGGAAGAAA
*
25580895 TATGTTAGTTAGTGGTATC
1 TATGTTAGTCAGTGGTATC
25580914 TATGTTAGTCAGTGGTATC
1 TATGTTAGTCAGTGGTATC
25580933 T
1 T
25580934 CGACAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.46
Consensus pattern (19 bp):
TATGTTAGTCAGTGGTATC
Found at i:25590676 original size:25 final size:26
Alignment explanation
Indices: 25590641--25590694 Score: 101
Period size: 25 Copynumber: 2.1 Consensus size: 26
25590631 AATACAAGTG
25590641 CCTTCTCTTTTGCATCAACATATGAC
1 CCTTCTCTTTTGCATCAACATATGAC
25590667 CCTT-TCTTTTGCATCAACATATGAC
1 CCTTCTCTTTTGCATCAACATATGAC
25590692 CCT
1 CCT
25590695 GACTTTGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.22, C:0.31, G:0.07, T:0.39
Consensus pattern (26 bp):
CCTTCTCTTTTGCATCAACATATGAC
Found at i:25590700 original size:25 final size:25
Alignment explanation
Indices: 25590647--25590700 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
25590637 AGTGCCTTCT
**
25590647 CTTTTGCATCAACATATGACCCTTT
1 CTTTTGCATCAACATATGACCCTGA
25590672 CTTTTGCATCAACATATGACCCTGA
1 CTTTTGCATCAACATATGACCCTGA
25590697 CTTT
1 CTTT
25590701 GAAAGCTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.24, C:0.28, G:0.09, T:0.39
Consensus pattern (25 bp):
CTTTTGCATCAACATATGACCCTGA
Found at i:25591916 original size:19 final size:19
Alignment explanation
Indices: 25591892--25591928 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25591882 CAAAATAAAA
* *
25591892 AAAAATGATAAGGCTTAAC
1 AAAAATAATAAGACTTAAC
25591911 AAAAATAATAAGACTTAA
1 AAAAATAATAAGACTTAA
25591929 AACTCTAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.08, G:0.11, T:0.22
Consensus pattern (19 bp):
AAAAATAATAAGACTTAAC
Found at i:25597778 original size:14 final size:13
Alignment explanation
Indices: 25597739--25597787 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
25597729 ACTAAAATTA
*
25597739 TTTAATTATTTTT
1 TTTAATTATTTAT
25597752 TATTAATT-TTTAT
1 T-TTAATTATTTAT
25597765 TTTAATTATCTTAT
1 TTTAATTAT-TTAT
*
25597779 TTTATTTAT
1 TTTAATTAT
25597788 AAATATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 6 0.19
13 7 0.23
14 18 0.58
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTAATTATTTAT
Found at i:25603842 original size:32 final size:32
Alignment explanation
Indices: 25603801--25603864 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
25603791 ACGCAATTAT
*
25603801 ATGCTAGTTTTCTCAACTTTAAAGATCTCCCA
1 ATGCTAGTTTTATCAACTTTAAAGATCTCCCA
*
25603833 ATGCTAGTTTTATCAATTTTAAAGATCTCCCA
1 ATGCTAGTTTTATCAACTTTAAAGATCTCCCA
25603865 TGTACATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (32 bp):
ATGCTAGTTTTATCAACTTTAAAGATCTCCCA
Found at i:25608664 original size:18 final size:18
Alignment explanation
Indices: 25608633--25608680 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
25608623 TGTTGTTCGT
**
25608633 TTTCAAAATATTATTC-A
1 TTTCAAAACGTTATTCAA
*
25608650 TTTACAAATCGTTATTCAA
1 TTT-CAAAACGTTATTCAA
25608669 TTTCAAAACGTT
1 TTTCAAAACGTT
25608681 TTCTTATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.44
Consensus pattern (18 bp):
TTTCAAAACGTTATTCAA
Found at i:25619412 original size:22 final size:22
Alignment explanation
Indices: 25619369--25619412 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
25619359 CTATTTAGGG
*
25619369 TATCGAGATACTGTGGGATCGA
1 TATCGAGATACTGAGGGATCGA
*
25619391 TATCGCGATACTAGAGGG-TCGA
1 TATCGAGATACT-GAGGGATCGA
25619413 ATTGTGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (22 bp):
TATCGAGATACTGAGGGATCGA
Found at i:25625602 original size:19 final size:19
Alignment explanation
Indices: 25625578--25625616 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
25625568 AAAACCAAAT
25625578 TAACATAAATAATCTAAAA
1 TAACATAAATAATCTAAAA
*
25625597 TAACATAAATTATCTAAAA
1 TAACATAAATAATCTAAAA
25625616 T
1 T
25625617 TAAGACAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (19 bp):
TAACATAAATAATCTAAAA
Found at i:25634489 original size:20 final size:20
Alignment explanation
Indices: 25634466--25634535 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 20
25634456 TCAAAAAGGG
25634466 AAATAATAAAAAGAAAACTT
1 AAATAATAAAAAGAAAACTT
25634486 AAATAAATGAAATAA-ATAAGACATT
1 AAAT-AAT-AAA-AAGA-AA-AC-TT
*
25634511 -GATAATAAAAAGAAAACTT
1 AAATAATAAAAAGAAAACTT
25634530 AAATAA
1 AAATAA
25634536 ATGAAATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
19 2 0.05
20 10 0.25
21 7 0.17
22 8 0.20
23 7 0.17
24 4 0.10
25 2 0.05
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.21
Consensus pattern (20 bp):
AAATAATAAAAAGAAAACTT
Found at i:25634518 original size:44 final size:44
Alignment explanation
Indices: 25634468--25634556 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
25634458 AAAAAGGGAA
25634468 ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
1 ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
25634512 ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
1 ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
25634556 A
1 A
25634557 CATGATGATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.22
Consensus pattern (44 bp):
ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
Found at i:25635581 original size:147 final size:145
Alignment explanation
Indices: 25635286--25635800 Score: 737
Period size: 147 Copynumber: 3.5 Consensus size: 145
25635276 TTTTCTTTAG
* *
25635286 AAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTTGAAATAGTTGAAAAAGATCAAAATTT
1 AAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTT
* *
25635351 TGTTTTAAAATTTTAAACTTTTCATTTAAAATGACTAAAAAATATATTTTTATTTTTAAAAATCT
66 TGTTTTAAAA-TTTAAACTTTTCCTTTAAAATGACT-AAAAACATATTTTTATTTTTAAAAATCT
25635416 AAACTTTCTCTTTTAAA
129 AAACTTTCTCTTTTAAA
* * * * ***
25635433 AAAAATCACTCTTTTTATTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAACATCAAAAAAA
1 AAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTT
***
25635498 AAATTT-AAATTTAATA-TTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTA
66 TGTTTTAAAATTTAA-ACTTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTA
25635561 AACTTTCTCTTTTAAAAA
130 AACTTTCTCTTTT--AAA
* *
25635579 AAATAATCACTATTTTTCTTAAAAATCAAAGCTTTATTTTGAAATAGTTGAAAAAGATCAAAATT
1 AAA-AATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATT
* * *
25635644 TTGTTTTAAAAATTTAAACATTTCCTTTAAAATGACTAAAAACAAATTTTTATTTTTAAAAATAT
65 TTGTTTT-AAAATTTAAACTTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCT
* *
25635709 AAAATTTCTCTTTTTAA
129 AAACTTTCTCTTTTAAA
* * *
25635726 AAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGGAAAAGATTAAAACTT
1 AAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTT
25635791 TGTTTTAAAA
66 TGTTTTAAAA
25635801 ATGTAAGCCT
Statistics
Matches: 325, Mismatches: 36, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
144 41 0.13
145 26 0.08
146 73 0.22
147 120 0.37
148 1 0.00
149 64 0.20
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (145 bp):
AAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTT
TGTTTTAAAATTTAAACTTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTAA
ACTTTCTCTTTTAAA
Found at i:25636291 original size:146 final size:145
Alignment explanation
Indices: 25635997--25636580 Score: 807
Period size: 146 Copynumber: 4.0 Consensus size: 145
25635987 TTTTCTTTAG
*
25635997 AAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTT
1 AAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTT
* *
25636062 TGTTTTAAAATTTTAAACTTTTCATTTAAAATGACTAAAAAATATATTTTTATTTTTAAAAATCT
66 TGTTTTAAAA-TTTAAACTTTTCCTTTAAAATGACT-AAAAACATATTTTTATTTTTAAAAATCT
25636127 AAACTTTCTCTTTT-AA
129 AAACTTTCTCTTTTAAA
* * * * ***
25636143 AAAAATCACTCTTTTTATTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAACATCAAAAAAA
1 AAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTT
**
25636208 AATTTT-AAATTTAATA-TTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTA
66 TGTTTTAAAATTTAA-ACTTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTA
25636271 AACTTTCTCTTTTAAAAA
130 AACTTTCTCTTTT--AAA
* *
25636289 AAATAATCACTATTTTTCTTAAAAATCAAAGCTTTATTTTGAAATAGTTGAAAAAGATCAAAATT
1 AAA-AATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATT
* * *
25636354 TTGTTTTAAAAATTTAAACATTTCCTTTAAAATGACTAAAAACAAATTTTTATTTTTAAAAATAT
65 TTGTTTT-AAAATTTAAACTTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCT
* *
25636419 AAAATTTCTCTTTTTAA
129 AAACTTTCTCTTTTAAA
* * *
25636436 AAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGGAAAAGATTAAAACTT
1 AAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTT
* * * *
25636501 TGTTTTAAAAATGTAAGCCTTTCCTTTAAAATGATTAAAGAA-ATAGATTTTTATTTTTAAAAAT
66 TGTTTT-AAAATTTAAACTTTTCCTTTAAAATGACTAAA-AACAT--ATTTTTATTTTTAAAAAT
25636565 CTAAACTTTCTCTTTT
127 CTAAACTTTCTCTTTT
25636581 TTGAAAAAAA
Statistics
Matches: 387, Mismatches: 40, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
143 41 0.11
144 22 0.06
145 4 0.01
146 159 0.41
147 64 0.17
148 33 0.09
149 64 0.17
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.42
Consensus pattern (145 bp):
AAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTT
TGTTTTAAAATTTAAACTTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTAA
ACTTTCTCTTTTAAA
Found at i:25636384 original size:710 final size:710
Alignment explanation
Indices: 25635099--25636523 Score: 2780
Period size: 710 Copynumber: 2.0 Consensus size: 710
25635089 AGGAGAAATT
25635099 CTTTCTTTTCTTGTAACCTCATTTTAAAAAAAAAAGAAAAAGAAAACTCTTCCTCCTTGTCTTCA
1 CTTTCTTTTCTTGTAACCTCATTTTAAAAAAAAAAGAAAAAGAAAACTCTTCCTCCTTGTCTTCA
* *
25635164 TCCTTCTATGTTGGCCATAGCTCCATCACTGGAGAGTCCAACAACTCTCCTGCCTCCGATGGTGG
66 TCCTTCTATGTTGACCATAGCTCCATCACTGGAGAATCCAACAACTCTCCTGCCTCCGATGGTGG
*
25635229 AACCGCTGCATATGGTGGCTGGAATTTTTTTTTTTGTAAAATCAAAGTTTTCTTTAGAAAAATCA
131 AACCGCCGCATATGGTGGCTGGAATTTTTTTTTTTGTAAAATCAAAGTTTTCTTTAGAAAAATCA
*
25635294 CTACTTTTCTTAAAAATCAAAACTTTATTTTGAAATAGTTGAAAAAGATCAAAATTTTGTTTTAA
196 CTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTTTGTTTTAA
25635359 AATTTTAAACTTTTCATTTAAAATGACTAAAAAATATATTTTTATTTTTAAAAATCTAAACTTTC
261 AATTTTAAACTTTTCATTTAAAATGACTAAAAAATATATTTTTATTTTTAAAAATCTAAACTTTC
25635424 TCTTTTAAAAAAAATCACTCTTTTTATTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAACA
326 TCTTTTAAAAAAAATCACTCTTTTTATTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAACA
25635489 TCAAAAAAAAAATTTAAATTTAATATTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAA
391 TCAAAAAAAAAATTTAAATTTAATATTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAA
25635554 AAATCTAAACTTTCTCTTTTAAAAAAAATAATCACTATTTTTCTTAAAAATCAAAGCTTTATTTT
456 AAATCTAAACTTTCTCTTTTAAAAAAAATAATCACTATTTTTCTTAAAAATCAAAGCTTTATTTT
25635619 GAAATAGTTGAAAAAGATCAAAATTTTGTTTTAAAAATTTAAACATTTCCTTTAAAATGACTAAA
521 GAAATAGTTGAAAAAGATCAAAATTTTGTTTTAAAAATTTAAACATTTCCTTTAAAATGACTAAA
25635684 AACAAATTTTTATTTTTAAAAATATAAAATTTCTCTTTTTAAAAAAATCACTATTTTTCTTAAAA
586 AACAAATTTTTATTTTTAAAAATATAAAATTTCTCTTTTTAAAAAAATCACTATTTTTCTTAAAA
25635749 ATCAAAACTTTATTTCGAAATAGTTGGAAAAGATTAAAACTTTGTTTTAAAAATGTAAGC
651 ATCAAAACTTTATTTCGAAATAGTTGGAAAAGATTAAAACTTTGTTTTAAAAATGTAAGC
*
25635809 CTTTCTTTTCTTGTGACCTCATTTTAAAAAAAAAAAGAAAAAGAAAACTCTTCCTCCTTGTCTTC
1 CTTTCTTTTCTTGTAACCTCATTTT-AAAAAAAAAAGAAAAAGAAAACTCTTCCTCCTTGTCTTC
25635874 ATCCTTCTATGTTGACCATAGCTCCATCACTGGAGAATCCAACAACTCTCCTGCCTCCGATGGTG
65 ATCCTTCTATGTTGACCATAGCTCCATCACTGGAGAATCCAACAACTCTCCTGCCTCCGATGGTG
25635939 GAACCGCCGCATATGGTGGCTGGAATTTTTTTTTTTGTAAAATCAAAGTTTTCTTTAGAAAAATC
130 GAACCGCCGCATATGGTGGCTGGAATTTTTTTTTTTGTAAAATCAAAGTTTTCTTTAGAAAAATC
25636004 ACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTTTGTTTTA
195 ACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTTTGTTTTA
25636069 AAATTTTAAACTTTTCATTTAAAATGACTAAAAAATATATTTTTATTTTTAAAAATCTAAACTTT
260 AAATTTTAAACTTTTCATTTAAAATGACTAAAAAATATATTTTTATTTTTAAAAATCTAAACTTT
25636134 CTCTTTT-AAAAAAATCACTCTTTTTATTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAAC
325 CTCTTTTAAAAAAAATCACTCTTTTTATTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAAC
*
25636198 ATCAAAAAAAAATTTTAAATTTAATATTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTA
390 ATCAAAAAAAAAATTTAAATTTAATATTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTA
25636263 AAAATCTAAACTTTCTCTTTTAAAAAAAATAATCACTATTTTTCTTAAAAATCAAAGCTTTATTT
455 AAAATCTAAACTTTCTCTTTTAAAAAAAATAATCACTATTTTTCTTAAAAATCAAAGCTTTATTT
25636328 TGAAATAGTTGAAAAAGATCAAAATTTTGTTTTAAAAATTTAAACATTTCCTTTAAAATGACTAA
520 TGAAATAGTTGAAAAAGATCAAAATTTTGTTTTAAAAATTTAAACATTTCCTTTAAAATGACTAA
25636393 AAACAAATTTTTATTTTTAAAAATATAAAATTTCTCTTTTTAAAAAAATCACTATTTTTCTTAAA
585 AAACAAATTTTTATTTTTAAAAATATAAAATTTCTCTTTTTAAAAAAATCACTATTTTTCTTAAA
25636458 AATCAAAACTTTATTTCGAAATAGTTGGAAAAGATTAAAACTTTGTTTTAAAAATGTAAGC
650 AATCAAAACTTTATTTCGAAATAGTTGGAAAAGATTAAAACTTTGTTTTAAAAATGTAAGC
25636519 CTTTC
1 CTTTC
25636524 CTTTAAAATG
Statistics
Matches: 708, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
710 406 0.57
711 302 0.43
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (710 bp):
CTTTCTTTTCTTGTAACCTCATTTTAAAAAAAAAAGAAAAAGAAAACTCTTCCTCCTTGTCTTCA
TCCTTCTATGTTGACCATAGCTCCATCACTGGAGAATCCAACAACTCTCCTGCCTCCGATGGTGG
AACCGCCGCATATGGTGGCTGGAATTTTTTTTTTTGTAAAATCAAAGTTTTCTTTAGAAAAATCA
CTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTTTGTTTTAA
AATTTTAAACTTTTCATTTAAAATGACTAAAAAATATATTTTTATTTTTAAAAATCTAAACTTTC
TCTTTTAAAAAAAATCACTCTTTTTATTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAACA
TCAAAAAAAAAATTTAAATTTAATATTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAA
AAATCTAAACTTTCTCTTTTAAAAAAAATAATCACTATTTTTCTTAAAAATCAAAGCTTTATTTT
GAAATAGTTGAAAAAGATCAAAATTTTGTTTTAAAAATTTAAACATTTCCTTTAAAATGACTAAA
AACAAATTTTTATTTTTAAAAATATAAAATTTCTCTTTTTAAAAAAATCACTATTTTTCTTAAAA
ATCAAAACTTTATTTCGAAATAGTTGGAAAAGATTAAAACTTTGTTTTAAAAATGTAAGC
Found at i:25636914 original size:3 final size:3
Alignment explanation
Indices: 25636908--25636983 Score: 62
Period size: 3 Copynumber: 25.0 Consensus size: 3
25636898 TAAAGAAAAA
* * * * *
25636908 AAT AAT AAT GAT ATTT AAT AAT AAT AAT AAT AAT AAT AGT AGT AGT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
25636954 AGT AGT AGT AAT GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25636984 TTGGGCCTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
3 62 0.97
4 2 0.03
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:25637510 original size:42 final size:42
Alignment explanation
Indices: 25637437--25637604 Score: 237
Period size: 42 Copynumber: 4.0 Consensus size: 42
25637427 ATATACACTA
* * *
25637437 CAATTAAAAGTAAATGGACCTCCACATCTGGGCTTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * *
25637479 CAATGAAAGGTAAGTGGACCTCCACACCTGGGCCTTTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* *
25637521 CAATGAAAAGTAAATGGACCTCTACACCTGGGCCTCTAAATA
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* **
25637563 CAATGAAAAGTAAGTGGACCTCCACATTTGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
25637605 TAATCAATGC
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 110 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (42 bp):
CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
Found at i:25638013 original size:2 final size:2
Alignment explanation
Indices: 25638006--25638039 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
25637996 CTTTCTCCTG
* *
25638006 CT CT CT CT CT CT CT CT CT CT TT CT GT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
25638040 TTCTTTGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.44, G:0.03, T:0.53
Consensus pattern (2 bp):
CT
Found at i:25638040 original size:14 final size:14
Alignment explanation
Indices: 25637996--25638043 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
25637986 AATTTAGTTC
25637996 CTTTCTC-CTGCTCT
1 CTTTCTCTCT-CTCT
*
25638010 CTCTCTCTCTCTCT
1 CTTTCTCTCTCTCT
*
25638024 CTTTCTGTCTCTCT
1 CTTTCTCTCTCTCT
25638038 CTTTCT
1 CTTTCT
25638044 TTGTTGTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 28 0.93
15 2 0.07
ACGTcount: A:0.00, C:0.42, G:0.04, T:0.54
Consensus pattern (14 bp):
CTTTCTCTCTCTCT
Found at i:25638077 original size:16 final size:16
Alignment explanation
Indices: 25638043--25638076 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
25638033 TCTCTCTTTC
25638043 TTTGTTGTTGTTTTTT
1 TTTGTTGTTGTTTTTT
25638059 TTTGTT-TTGTTTTTT
1 TTTGTTGTTGTTTTTT
25638074 TTT
1 TTT
25638077 TATTTAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (16 bp):
TTTGTTGTTGTTTTTT
Found at i:25639404 original size:18 final size:18
Alignment explanation
Indices: 25639381--25639417 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25639371 CAGAGAAAGC
25639381 TTTCTTCACCACATACGG
1 TTTCTTCACCACATACGG
25639399 TTTCTTCACCACATACGG
1 TTTCTTCACCACATACGG
25639417 T
1 T
25639418 CCCTCCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.32, G:0.11, T:0.35
Consensus pattern (18 bp):
TTTCTTCACCACATACGG
Found at i:25649017 original size:16 final size:15
Alignment explanation
Indices: 25648998--25649035 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
25648988 CGTTCTCCTC
25648998 TTTCTTTTTCTTTTGT
1 TTTCTTTTTCTTTT-T
*
25649014 TTTCTTTTTGTTTTT
1 TTTCTTTTTCTTTTT
25649029 TTTCTTT
1 TTTCTTT
25649036 CCTTTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (15 bp):
TTTCTTTTTCTTTTT
Found at i:25653754 original size:24 final size:23
Alignment explanation
Indices: 25653686--25653755 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
25653676 CATATTTTTA
* *
25653686 TTTTTAAAAATCTAAACTTTCTT
1 TTTTTAAAAATCAAAACTTTATT
**
25653709 TTTTTAAAAA--AAAATCACTATT
1 TTTTTAAAAATCAAAA-CTTTATT
25653731 TTTCTTAAAAATCAAAACTTTATT
1 TTT-TTAAAAATCAAAACTTTATT
25653755 T
1 T
25653756 CGAAATAGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
21 3 0.08
22 7 0.19
23 17 0.46
24 6 0.16
25 4 0.11
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTTTAAAAATCAAAACTTTATT
Found at i:25668708 original size:13 final size:13
Alignment explanation
Indices: 25668690--25668715 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25668680 ACATTAAACT
25668690 TCTCATGTTGCAA
1 TCTCATGTTGCAA
25668703 TCTCATGTTGCAA
1 TCTCATGTTGCAA
25668716 CACAGCGACT
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:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
TCTCATGTTGCAA
Found at i:25669409 original size:14 final size:14
Alignment explanation
Indices: 25669392--25669418 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25669382 ACATATAAAA
25669392 TTATAAATAAATGT
1 TTATAAATAAATGT
25669406 TTATAAATAAATG
1 TTATAAATAAATG
25669419 AATAACTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
TTATAAATAAATGT
Found at i:25671232 original size:35 final size:35
Alignment explanation
Indices: 25671177--25671247 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
25671167 ATATACAACA
25671177 AAATCGATTATCTATGTTAAATTTTATAAATTAAT
1 AAATCGATTATCTATGTTAAATTTTATAAATTAAT
* *
25671212 AAATTGATTATCTATTTTAAATTTTATAAATTAAT
1 AAATCGATTATCTATGTTAAATTTTATAAATTAAT
25671247 A
1 A
25671248 TCTATTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (35 bp):
AAATCGATTATCTATGTTAAATTTTATAAATTAAT
Found at i:25680583 original size:12 final size:12
Alignment explanation
Indices: 25680554--25680583 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25680544 GTGCTTAAAG
25680554 TTTTTTCTTTTT
1 TTTTTTCTTTTT
*
25680566 CTTTTTCTTTTT
1 TTTTTTCTTTTT
25680578 TTTTTT
1 TTTTTT
25680584 TTAGCGTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:25683359 original size:9 final size:9
Alignment explanation
Indices: 25683347--25683446 Score: 51
Period size: 9 Copynumber: 10.6 Consensus size: 9
25683337 AAATTAGAAA
25683347 AAAATATAT
1 AAAATATAT
25683356 AAAA-ATCAT
1 AAAATAT-AT
*
25683365 AAAAAAATAT
1 -AAAATATAT
*
25683375 AAAA-ATTGT
1 AAAATA-TAT
* *
25683384 AAATTTTTAT
1 AAA-ATATAT
* *
25683394 AAAAAAAAT
1 AAAATATAT
25683403 AAAAATATTAT
1 -AAAATA-TAT
25683414 AAAATATAT
1 AAAATATAT
*
25683423 AGAAATATAA
1 A-AAATATAT
*
25683433 AAAATTTAT
1 AAAATATAT
25683442 AAAAT
1 AAAAT
25683447 TTTATAAAGT
Statistics
Matches: 69, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
8 3 0.04
9 32 0.46
10 30 0.43
11 4 0.06
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAATATAT
Found at i:25683359 original size:10 final size:10
Alignment explanation
Indices: 25683346--25683445 Score: 77
Period size: 10 Copynumber: 10.4 Consensus size: 10
25683336 AAAATTAGAA
25683346 AAAAATATAT
1 AAAAATATAT
25683356 AAAAATCATA-
1 AAAAAT-ATAT
25683366 AAAAA-ATAT
1 AAAAATATAT
*
25683375 AAAAAT-TGT
1 AAAAATATAT
** *
25683384 AAATTTTTAT
1 AAAAATATAT
*
25683394 AAAAA-AAAT
1 AAAAATATAT
25683403 AAAAATAT-T
1 AAAAATATAT
25683412 ATAAAATATAT
1 A-AAAATATAT
*
25683423 AGAAATATA-
1 AAAAATATAT
*
25683432 AAAAATTTAT
1 AAAAATATAT
25683442 AAAA
1 AAAA
25683446 TTTTATAAAG
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
8 3 0.04
9 27 0.39
10 35 0.50
11 5 0.07
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAAATATAT
Found at i:25683359 original size:21 final size:21
Alignment explanation
Indices: 25683334--25683379 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
25683324 ATGCTTTTAC
*
25683334 TAAAAATTAGAAAAAAATATA
1 TAAAAATCAGAAAAAAATATA
*
25683355 TAAAAATCATAAAAAAATATA
1 TAAAAATCAGAAAAAAATATA
25683376 -AAAA
1 TAAAA
25683380 TTGTAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (21 bp):
TAAAAATCAGAAAAAAATATA
Found at i:25683386 original size:19 final size:20
Alignment explanation
Indices: 25683334--25683386 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
25683324 ATGCTTTTAC
*
25683334 TAAAAATTAGAAAAAAATATA
1 TAAAAATT-GTAAAAAATATA
**
25683355 TAAAAATCATAAAAAA-ATA
1 TAAAAATTGTAAAAAATATA
25683374 TAAAAATTGTAAA
1 TAAAAATTGTAAA
25683387 TTTTTATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 14 0.52
20 6 0.22
21 7 0.26
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (20 bp):
TAAAAATTGTAAAAAATATA
Found at i:25683994 original size:19 final size:20
Alignment explanation
Indices: 25683970--25684010 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
25683960 ATAAAATAAT
*
25683970 AAATTA-TATTAAATTCAAA
1 AAATTATTATAAAATTCAAA
*
25683989 AAATTATTATAAAATTTAAA
1 AAATTATTATAAAATTCAAA
25684009 AA
1 AA
25684011 TATAAAATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATTATTATAAAATTCAAA
Found at i:25688716 original size:20 final size:20
Alignment explanation
Indices: 25688675--25688750 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
25688665 TGCCATACAA
* **
25688675 AGGCACCATAGTGCAATTAG
1 AGGCACCAAAGTGCAAACAG
* * * *
25688695 AGACACGAAAGTGTATACAG
1 AGGCACCAAAGTGCAAACAG
25688715 AGGCACCAAAGTGCAAACAG
1 AGGCACCAAAGTGCAAACAG
25688735 AGGCACCAAAGTGCAA
1 AGGCACCAAAGTGCAA
25688751 GTCCCGTACA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (20 bp):
AGGCACCAAAGTGCAAACAG
Found at i:25688746 original size:40 final size:40
Alignment explanation
Indices: 25688669--25688747 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
25688659 ATCAAATGCC
* ** *
25688669 ATACAAAGGCACCATAGTGCAATTAGAGACACGAAAGTGT
1 ATACAAAGGCACCAAAGTGCAAACAGAGACACCAAAGTGT
* *
25688709 ATACAGAGGCACCAAAGTGCAAACAGAGGCACCAAAGTG
1 ATACAAAGGCACCAAAGTGCAAACAGAGACACCAAAGTG
25688748 CAAGTCCCGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (40 bp):
ATACAAAGGCACCAAAGTGCAAACAGAGACACCAAAGTGT
Found at i:25689256 original size:21 final size:21
Alignment explanation
Indices: 25689232--25689283 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
25689222 AACATTTAAA
25689232 TTTACATTTTTGA-CCTAAACT
1 TTTACATTTTT-ACCCTAAACT
**
25689253 TTTACACATTTACCCTAAACT
1 TTTACATTTTTACCCTAAACT
25689274 TTTACATTTT
1 TTTACATTTT
25689284 ATCCAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTACATTTTTACCCTAAACT
Found at i:25689953 original size:8 final size:9
Alignment explanation
Indices: 25689933--25689961 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
25689923 AACAATTAAA
25689933 TTTTATGAT
1 TTTTATGAT
25689942 TTTTATGAT
1 TTTTATGAT
25689951 TTTTATGAT
1 TTTTATGAT
25689960 TT
1 TT
25689962 AGTCCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (9 bp):
TTTTATGAT
Found at i:25696138 original size:23 final size:23
Alignment explanation
Indices: 25696112--25696157 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
25696102 ACCTGGCTGT
25696112 CGTAACATTTTTCATCTATGGTC
1 CGTAACATTTTTCATCTATGGTC
* *
25696135 CGTAGCTTTTTTCATCTATGGTC
1 CGTAACATTTTTCATCTATGGTC
25696158 TTACACCGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (23 bp):
CGTAACATTTTTCATCTATGGTC
Found at i:25696381 original size:31 final size:32
Alignment explanation
Indices: 25696325--25696395 Score: 108
Period size: 31 Copynumber: 2.2 Consensus size: 32
25696315 ATACATGGTC
* * *
25696325 TTATGCCATATACCGTCGTCATAGCAAGTACT
1 TTATACCATATACCGTCATCATAGCAAGTAAT
25696357 TTATACCATATA-CGTCATCATAGCAAGTAAT
1 TTATACCATATACCGTCATCATAGCAAGTAAT
25696388 TTATACCA
1 TTATACCA
25696396 GACTATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 25 0.69
32 11 0.31
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (32 bp):
TTATACCATATACCGTCATCATAGCAAGTAAT
Found at i:25705845 original size:16 final size:17
Alignment explanation
Indices: 25705824--25705869 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
25705814 TTTTTATATG
25705824 TTATTTTAAAATTTG-T
1 TTATTTTAAAATTTGTT
*
25705840 TTATTTT-TAATTTGTT
1 TTATTTTAAAATTTGTT
25705856 TTATTTTAAAATTT
1 TTATTTTAAAATTT
25705870 CTCTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 6 0.23
16 15 0.58
17 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (17 bp):
TTATTTTAAAATTTGTT
Found at i:25705933 original size:26 final size:26
Alignment explanation
Indices: 25705904--25705991 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
25705894 TTTTTTTTAA
*
25705904 TTATTTTAACTTGCTTTGTAAATTAT
1 TTATTTTAAGTTGCTTTGTAAATTAT
* *
25705930 TTATGTTAAGTTGCTTTGTATATTATT
1 TTATTTTAAGTTGCTTTGTAAATTA-T
** * *
25705957 TTATTTTAAGTTATTTTATAAATTAA
1 TTATTTTAAGTTGCTTTGTAAATTAT
25705983 TTATTTTAA
1 TTATTTTAA
25705992 AATTATCTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 31 0.60
27 21 0.40
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (26 bp):
TTATTTTAAGTTGCTTTGTAAATTAT
Found at i:25705994 original size:15 final size:17
Alignment explanation
Indices: 25705962--25705996 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
25705952 TTATTTTATT
25705962 TTAAGTTATTTTATAAA
1 TTAAGTTATTTTATAAA
25705979 TTAA-TTATTTTA-AAA
1 TTAAGTTATTTTATAAA
25705994 TTA
1 TTA
25705997 TCTTATACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTAAGTTATTTTATAAA
Done.