Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 14 of 295
Found at i:4275640 original size:35 final size:35
Alignment explanation
Indices: 4275594--4275756 Score: 170
Period size: 35 Copynumber: 4.7 Consensus size: 35
4275584 CGAGATTTTT
**
4275594 TTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* ** *
4275629 TTTTTGAAAACAAGAGGATTTTTGAAATA-CGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCG-AAA
* *
4275664 ATTTTGAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
**
4275699 TTTTTG-AAA-ACGAAAATTTTTGAAACACAAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* * *
4275732 TTTTTAGAAGACACTAAAAATTTTG
1 TTTTT-GAAAACACGAAAATTTTTG
4275757 GAAAATGGAT
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
33 27 0.26
34 6 0.06
35 60 0.57
36 12 0.11
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
Found at i:4275971 original size:20 final size:19
Alignment explanation
Indices: 4275933--4275979 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
4275923 GAATATATTT
4275933 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
4275953 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
4275972 -TTTTGAAA
1 TTTTTGAAA
4275980 AATAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:4276177 original size:17 final size:16
Alignment explanation
Indices: 4276143--4276193 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
4276133 AAAATTATTT
4276143 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
* *
4276159 AAAATCAAATTAAATTA
1 AAAAT-AAAATAAAATA
4276176 AAAATATAAATATAAATA
1 AAAATA-AAATA-AAATA
4276194 TGCATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.21
17 18 0.64
18 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:4276336 original size:8 final size:8
Alignment explanation
Indices: 4276323--4276380 Score: 50
Period size: 8 Copynumber: 7.6 Consensus size: 8
4276313 TTGAACCTCT
4276323 TTTTTTTC
1 TTTTTTTC
4276331 TTTTTTTC
1 TTTTTTTC
* *
4276339 CTTCTTT-
1 TTTTTTTC
**
4276346 TTTCCTTC
1 TTTTTTTC
*
4276354 TTTTCTTC
1 TTTTTTTC
4276362 -TTTTTTC
1 TTTTTTTC
4276369 TTTTTTT-
1 TTTTTTTC
4276376 TTTTT
1 TTTTT
4276381 GCTGGGCCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
7 16 0.38
8 26 0.62
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTC
Found at i:4276343 original size:12 final size:12
Alignment explanation
Indices: 4276328--4276357 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
4276318 CCTCTTTTTT
4276328 TTCTTTTTTTCC
1 TTCTTTTTTTCC
4276340 TTC-TTTTTTCC
1 TTCTTTTTTTCC
4276351 TTCTTTT
1 TTCTTTT
4276358 CTTCTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTCTTTTTTTCC
Found at i:4276346 original size:11 final size:10
Alignment explanation
Indices: 4276320--4276376 Score: 61
Period size: 9 Copynumber: 6.1 Consensus size: 10
4276310 GAATTGAACC
4276320 TCTT-TTTTT
1 TCTTCTTTTT
4276329 TCTT-TTTTT
1 TCTTCTTTTT
*
4276338 CCTTCTTTTT
1 TCTTCTTTTT
4276348 TC--CTTCTTT
1 TCTTCTT-TTT
4276357 TCTTCTTTTT
1 TCTTCTTTTT
4276367 TCTT-TTTTT
1 TCTTCTTTTT
4276376 T
1 T
4276377 TTTTGCTGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 3 0.07
9 23 0.55
10 13 0.31
11 3 0.07
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TCTTCTTTTT
Found at i:4276376 original size:19 final size:19
Alignment explanation
Indices: 4276320--4276376 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
4276310 GAATTGAACC
4276320 TCTT-TTTTTTCTTTTTTT
1 TCTTCTTTTTTCTTTTTTT
* * *
4276338 CCTTCTTTTTTCCTTCTTT
1 TCTTCTTTTTTCTTTTTTT
4276357 TCTTCTTTTTTCTTTTTTT
1 TCTTCTTTTTTCTTTTTTT
4276376 T
1 T
4276377 TTTTGCTGGG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 3 0.09
19 29 0.91
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TCTTCTTTTTTCTTTTTTT
Found at i:4276657 original size:18 final size:18
Alignment explanation
Indices: 4276636--4276704 Score: 56
Period size: 17 Copynumber: 3.9 Consensus size: 18
4276626 TTTTTTATTA
4276636 TTTCTTTTCTTT-TTCTTT
1 TTTC-TTTCTTTCTTCTTT
4276654 TTTCTTTCTTTCTTC-TT
1 TTTCTTTCTTTCTTCTTT
** *
4276671 CCTCTTT-TCTTCTTCCTT
1 TTTCTTTCT-TTCTTCTTT
*
4276689 CTTCTTTC-TTCTTCTT
1 TTTCTTTCTTTCTTCTT
4276705 CTTCAAAGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 1 0.02
17 27 0.63
18 15 0.35
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTCTTTCTTTCTTCTTT
Found at i:4276671 original size:3 final size:3
Alignment explanation
Indices: 4276637--4276708 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
4276627 TTTTTATTAT
* *
4276637 TTC TT- TTC TTT TTC TT- TT- TTC TTTC TTTC TTC TTC CTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC
4276680 TTC TTCC TTC TTC TTTC TTC TTC TTC TTC
1 TTC TT-C TTC TTC -TTC TTC TTC TTC TTC
4276709 AAAGTCTAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 38 0.64
4 13 0.22
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:4276676 original size:17 final size:17
Alignment explanation
Indices: 4276656--4276705 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
4276646 TTTTCTTTTT
4276656 TCTTTCTTTCTTCTTCC
1 TCTTTCTTTCTTCTTCC
*
4276673 TCTTT-TCTTCTTCCTTCT
1 TCTTTCT-TTCTT-CTTCC
4276691 TCTTTC-TTCTTCTTC
1 TCTTTCTTTCTTCTTC
4276706 TTCAAAGTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.17
17 15 0.52
18 9 0.31
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (17 bp):
TCTTTCTTTCTTCTTCC
Found at i:4276681 original size:14 final size:14
Alignment explanation
Indices: 4276662--4276707 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
4276652 TTTTTCTTTC
4276662 TTTCTTCTTCCTCT
1 TTTCTTCTTCCTCT
4276676 TTTCTTCTTCCTTCTT
1 TTTCTTCTTCC-TC-T
*
4276692 CTTTCTTCTTCTTCT
1 -TTTCTTCTTCCTCT
4276707 T
1 T
4276708 CAAAGTCTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 12 0.43
15 3 0.11
16 3 0.11
17 10 0.36
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTCTTCTTCCTCT
Found at i:4276776 original size:20 final size:20
Alignment explanation
Indices: 4276751--4276796 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
4276741 GTCGACTGCT
4276751 GCCGCCAACGCCACGGTGCC
1 GCCGCCAACGCCACGGTGCC
*
4276771 GCCGCCAATGCCACGGTGCC
1 GCCGCCAACGCCACGGTGCC
4276791 GCCGCC
1 GCCGCC
4276797 GATTCCTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.13, C:0.50, G:0.30, T:0.07
Consensus pattern (20 bp):
GCCGCCAACGCCACGGTGCC
Found at i:4277131 original size:29 final size:29
Alignment explanation
Indices: 4277098--4277214 Score: 101
Period size: 30 Copynumber: 3.9 Consensus size: 29
4277088 TGTAATTTTT
*
4277098 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * * *
4277127 TGAAAGTTTAGGGGTTTAAGTGAAATTTAA
1 AGAAAATTTA-GGGTTAAAATGAAATTTAA
* *
4277157 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
4277186 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
4277215 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
29 14 0.19
30 57 0.79
31 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:4277153 original size:30 final size:30
Alignment explanation
Indices: 4277113--4277214 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
4277103 ATTTAGGATT
* *
4277113 AAAATGAAATTTAATGAAAGTTTAGGGGTT
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
4277143 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
4277173 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
4277203 AAAATGCAATTT
1 AAAATGAAATTT
4277215 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:4277246 original size:16 final size:15
Alignment explanation
Indices: 4277210--4277238 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4277200 GTCAAAATGC
4277210 AATTTTTATTTTTTT
1 AATTTTTATTTTTTT
4277225 AATTTTT-TTTTTTT
1 AATTTTTATTTTTTT
4277239 GAAATTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
AATTTTTATTTTTTT
Found at i:4279583 original size:21 final size:21
Alignment explanation
Indices: 4279557--4279629 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
4279547 GCTCGTAAGC
*
4279557 TGAATAGAAGCTCGTAAGAGT
1 TGAATAGAAACTCGTAAGAGT
* *
4279578 TGAATAAAAACTCATAAGAGT
1 TGAATAGAAACTCGTAAGAGT
* * *
4279599 TAAATAGAAACTCGTGAGAGA
1 TGAATAGAAACTCGTAAGAGT
4279620 TGAATAGAAA
1 TGAATAGAAA
4279630 GTAAAGCACG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.48, C:0.08, G:0.22, T:0.22
Consensus pattern (21 bp):
TGAATAGAAACTCGTAAGAGT
Found at i:4282356 original size:21 final size:20
Alignment explanation
Indices: 4282310--4282354 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
4282300 TGTCCATGAT
4282310 TTAAATAAAAAAATTTTCTA
1 TTAAATAAAAAAATTTTCTA
*
4282330 TTAAATATAAAAATTTTCTA
1 TTAAATAAAAAAATTTTCTA
4282350 TTAAA
1 TTAAA
4282355 ATTCATTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAAATAAAAAAATTTTCTA
Found at i:4282417 original size:19 final size:19
Alignment explanation
Indices: 4282372--4282418 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
4282362 ATCAAATTAA
*
4282372 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
4282391 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
4282410 AATAAAAAT
1 AATAAAAAT
4282419 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:4282866 original size:39 final size:39
Alignment explanation
Indices: 4282823--4282908 Score: 172
Period size: 39 Copynumber: 2.2 Consensus size: 39
4282813 TAAAGCACTG
4282823 ATGCCATCTCCTTCCCATCCTGGATAAATGTGTTCTGCC
1 ATGCCATCTCCTTCCCATCCTGGATAAATGTGTTCTGCC
4282862 ATGCCATCTCCTTCCCATCCTGGATAAATGTGTTCTGCC
1 ATGCCATCTCCTTCCCATCCTGGATAAATGTGTTCTGCC
4282901 ATGCCATC
1 ATGCCATC
4282909 AAATACAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.19, C:0.34, G:0.15, T:0.33
Consensus pattern (39 bp):
ATGCCATCTCCTTCCCATCCTGGATAAATGTGTTCTGCC
Found at i:4286671 original size:14 final size:14
Alignment explanation
Indices: 4286652--4286681 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4286642 AATGGTGAAA
*
4286652 GGATTTTGATTTGG
1 GGATTTCGATTTGG
4286666 GGATTTCGATTTGG
1 GGATTTCGATTTGG
4286680 GG
1 GG
4286682 GAAAAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.40, T:0.43
Consensus pattern (14 bp):
GGATTTCGATTTGG
Found at i:4286726 original size:13 final size:13
Alignment explanation
Indices: 4286710--4286743 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4286700 TGGGGATACC
4286710 GATTTTAGGGGGA
1 GATTTTAGGGGGA
*
4286723 GATTTTAAGGGGA
1 GATTTTAGGGGGA
*
4286736 AATTTTAG
1 GATTTTAG
4286744 ACGTTCCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (13 bp):
GATTTTAGGGGGA
Found at i:4288141 original size:21 final size:22
Alignment explanation
Indices: 4288105--4288145 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4288095 TGTTTTTTGG
4288105 AGTTTAGGGTTTTAGGGGTTAT
1 AGTTTAGGGTTTTAGGGGTTAT
*
4288127 AGTTTAGTG-TTTAGGGGTT
1 AGTTTAGGGTTTTAGGGGTT
4288146 TTTAGGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (22 bp):
AGTTTAGGGTTTTAGGGGTTAT
Found at i:4288402 original size:41 final size:41
Alignment explanation
Indices: 4288233--4288372 Score: 237
Period size: 41 Copynumber: 3.4 Consensus size: 41
4288223 ATTATATGAC
*
4288233 TTTTAGCGGCGTTTTAT-CGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTT-TCCAAAAGCGCCGCTAATGCTCTGGT
*
4288274 TTTTAGCGGCATTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
4288315 TTTTAGCGGCGTTATTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTT-TTTCCAAAAGCGCCGCTAATGCTCTGGT
4288357 TTTTAGCGGCGTTTTT
1 TTTTAGCGGCGTTTTT
4288373 GGTAAAACGC
Statistics
Matches: 94, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
40 1 0.01
41 52 0.55
42 41 0.44
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:4288402 original size:83 final size:82
Alignment explanation
Indices: 4288233--4288401 Score: 234
Period size: 83 Copynumber: 2.0 Consensus size: 82
4288223 ATTATATGAC
*
4288233 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCATTTTTCCAAAAGC
1 TTTTAGCGGCGTTTTATCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCATTTTTCCAAAAGC
*
4288298 GCCGCTAATGCTCTGGT
66 GCCGCTAATGCTCCGGT
* **
4288315 TTTTAGCGGCGTTATT-TCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTGGTAAA
1 TTTTAGCGGCGTT-TTAT-CAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCATTTTT-CCAAA
*
4288379 A-CGCCGCTATTGCTCCGTGT
63 AGCGCCGCTAATGCTCCG-GT
4288399 TTT
1 TTT
4288402 ATAATTTTTG
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
82 14 0.18
83 54 0.70
84 9 0.12
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.36
Consensus pattern (82 bp):
TTTTAGCGGCGTTTTATCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCATTTTTCCAAAAGC
GCCGCTAATGCTCCGGT
Found at i:4290782 original size:30 final size:30
Alignment explanation
Indices: 4290746--4290808 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
4290736 ACTTATTTTA
4290746 TTGTTAATTTTGTTATTATATTAAAGACAT
1 TTGTTAATTTTGTTATTATATTAAAGACAT
* *
4290776 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATATTAAAGACAT
4290806 TTG
1 TTG
4290809 CTTGTTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATATTAAAGACAT
Found at i:4290954 original size:11 final size:12
Alignment explanation
Indices: 4290932--4290965 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4290922 TATATATTCT
*
4290932 AAATTTATATAA
1 AAATTAATATAA
4290944 AAA-TAATATAA
1 AAATTAATATAA
4290955 AAATTAATATA
1 AAATTAATATA
4290966 GGCGGGCAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAATTAATATAA
Found at i:4293720 original size:12 final size:12
Alignment explanation
Indices: 4293703--4293741 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
4293693 CAAAATATTT
4293703 TATATTAAAAAA
1 TATATTAAAAAA
4293715 TATATTTATAAAAA
1 TATA-TTA-AAAAA
*
4293729 TATATTAATAAA
1 TATATTAAAAAA
4293741 T
1 T
4293742 GATTATTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 9 0.38
13 6 0.25
14 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATTAAAAAA
Found at i:4293729 original size:14 final size:14
Alignment explanation
Indices: 4293710--4293740 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4293700 TTTTATATTA
*
4293710 AAAAATATATTTAT
1 AAAAATATATTAAT
4293724 AAAAATATATTAAT
1 AAAAATATATTAAT
4293738 AAA
1 AAA
4293741 TGATTATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAAATATATTAAT
Found at i:4296477 original size:33 final size:33
Alignment explanation
Indices: 4296435--4296499 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
4296425 CTTCTGTATT
*
4296435 GTTAGAATGTATCTAAGTAAAGTATTATGAAGA
1 GTTAGAATGTATCTAAGTAAAATATTATGAAGA
*
4296468 GTTAGAATGTATCTAAGTAAAATATTTTGAAG
1 GTTAGAATGTATCTAAGTAAAATATTATGAAG
4296500 GCCTTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.35
Consensus pattern (33 bp):
GTTAGAATGTATCTAAGTAAAATATTATGAAGA
Found at i:4300407 original size:6 final size:6
Alignment explanation
Indices: 4300370--4300403 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
4300360 ACCATTTCTG
* *
4300370 AACCTT AACCTT AACCTT AACTTT AACCCT AACC
1 AACCTT AACCTT AACCTT AACCTT AACCTT AACC
4300404 CTAATTCCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (6 bp):
AACCTT
Found at i:4301850 original size:114 final size:114
Alignment explanation
Indices: 4301719--4301934 Score: 432
Period size: 114 Copynumber: 1.9 Consensus size: 114
4301709 ACAAAAAATA
4301719 ATAATATTACAATAAATTTGAATTCATAAAAGTATATGATGAAATTCATATAAATAAAATACAAA
1 ATAATATTACAATAAATTTGAATTCATAAAAGTATATGATGAAATTCATATAAATAAAATACAAA
4301784 ACTAAATTCTCTATTAAAAATACATAAACTCAGACTATATTTTAACTTT
66 ACTAAATTCTCTATTAAAAATACATAAACTCAGACTATATTTTAACTTT
4301833 ATAATATTACAATAAATTTGAATTCATAAAAGTATATGATGAAATTCATATAAATAAAATACAAA
1 ATAATATTACAATAAATTTGAATTCATAAAAGTATATGATGAAATTCATATAAATAAAATACAAA
4301898 ACTAAATTCTCTATTAAAAATACATAAACTCAGACTA
66 ACTAAATTCTCTATTAAAAATACATAAACTCAGACTA
4301935 CTACTATTAT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (114 bp):
ATAATATTACAATAAATTTGAATTCATAAAAGTATATGATGAAATTCATATAAATAAAATACAAA
ACTAAATTCTCTATTAAAAATACATAAACTCAGACTATATTTTAACTTT
Found at i:4301945 original size:3 final size:3
Alignment explanation
Indices: 4301939--4301971 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4301929 AGACTACTAC
4301939 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4301972 AAATTTGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4309202 original size:16 final size:16
Alignment explanation
Indices: 4309160--4309217 Score: 73
Period size: 17 Copynumber: 3.6 Consensus size: 16
4309150 ATTTGCCCGG
4309160 CCCAAAACCCAACTAT
1 CCCAAAACCCAACTAT
*
4309176 CCCTTAAACCCAACTAT
1 CCC-AAAACCCAACTAT
* *
4309193 CTCAAAACCCAAC-AG
1 CCCAAAACCCAACTAT
4309208 CCCAAAACCC
1 CCCAAAACCC
4309218 TTTTAACCCT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.28
16 12 0.33
17 14 0.39
ACGTcount: A:0.41, C:0.45, G:0.02, T:0.12
Consensus pattern (16 bp):
CCCAAAACCCAACTAT
Found at i:4310318 original size:15 final size:15
Alignment explanation
Indices: 4310300--4310344 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
4310290 TGTAAATTAA
4310300 TGTATTATTATTATT
1 TGTATTATTATTATT
*
4310315 TGTATTATTATT-TAC
1 TGTATTATTATTAT-T
*
4310330 AGTATTATTATTATT
1 TGTATTATTATTATT
4310345 ATTACTACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (15 bp):
TGTATTATTATTATT
Found at i:4310488 original size:39 final size:40
Alignment explanation
Indices: 4310440--4310521 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 40
4310430 TATATGTTAT
* *
4310440 TATTTACATTATTGTTATTA-CA-ATTATTATTTTTATTAC
1 TATTAACATTAGTGTTATTATCATATTATT-TTTTTATTAC
*
4310479 TATTAACATTAGTGTTATTATCATTTTATTTTTTTATTAC
1 TATTAACATTAGTGTTATTATCATATTATTTTTTTATTAC
4310519 TAT
1 TAT
4310522 CATTTTTGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 18 0.47
40 15 0.39
41 5 0.13
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (40 bp):
TATTAACATTAGTGTTATTATCATATTATTTTTTTATTAC
Found at i:4310611 original size:33 final size:31
Alignment explanation
Indices: 4310536--4310623 Score: 99
Period size: 32 Copynumber: 2.7 Consensus size: 31
4310526 TTTGTAATTA
*
4310536 TTATTACTATTATTATTATGT-TTTCTCTTTTT
1 TTATTACTATTA-TATTAT-TATTTCTATTTTT
4310568 TTATTACTATTACTATTATTATTT-TATTATTT
1 TTATTACTATTA-TATTATTATTTCTATT-TTT
4310600 TCTATTACTATTATCATTATTATT
1 T-TATTACTATTAT-ATTATTATT
4310624 AATACTAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
31 4 0.08
32 26 0.52
33 20 0.40
ACGTcount: A:0.25, C:0.09, G:0.01, T:0.65
Consensus pattern (31 bp):
TTATTACTATTATATTATTATTTCTATTTTT
Found at i:4310721 original size:3 final size:3
Alignment explanation
Indices: 4310447--4310703 Score: 99
Period size: 3 Copynumber: 85.7 Consensus size: 3
4310437 TATTATTTAC
* ** * * ** * *
4310447 ATT ATT GTT ATT ACA ATT ATT ATT TTT ATT ACT ATT AAC ATT AGT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
4310495 ATT ATC ATT -TT ATT -TT TTT ATT ACT ATC ATT TTT GTA ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
4310541 ACT ATT ATT ATT ATGT TTT CTCT TTT TTT ATT ACT ATT ACT ATT ATT
1 ATT ATT ATT ATT AT-T ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
4310588 ATT -TT ATT ATT TTCT ATT ACT ATT ATC ATT ATT ATT AAT ACT AAT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
4310633 ATT AAT ATT CTT ATT ATT ACTT -TT ATT ATC ATC ATT AGT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** *
4310678 ATT TTT ACT ACA ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
4310704 CAACATTGTT
Statistics
Matches: 182, Mismatches: 64, Indels: 16
0.69 0.24 0.06
Matches are distributed among these distances:
2 8 0.04
3 166 0.91
4 8 0.04
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:4311230 original size:128 final size:128
Alignment explanation
Indices: 4311002--4311425 Score: 624
Period size: 128 Copynumber: 3.3 Consensus size: 128
4310992 GCAAGCTTCG
* * * * * *
4311002 TATTTAGAAATCCGAGGAATTGTGTCCTATCGTGCTGGGTTTCGATTTCCCGTTTGTTCAAAATA
1 TATTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCTGTTTGTTCAAAATA
4311067 ATCGAATATTCCTTTAGAATTTCACTCGTGTTTTTCTAAATTCTAAAACAAGGTAATGTTTGA
66 ATCGAATATTCCTTTAGAATTTCACTCGTGTTTTTCTAAATTCTAAAACAAGGTAATGTTTGA
* *
4311130 TATTTGGAAATTTGGGGAATCGTGCCCTATCGTGTTGGGTTTCGATTTCCTGTTTGTTCAAAATA
1 TATTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCTGTTTGTTCAAAATA
4311195 ATCGAATATTCCTTTAGAATTTCACTCGTGTTTTTCTAAATTCTAAAACAAGGTAATGTTTGA
66 ATCGAATATTCCTTTAGAATTTCACTCGTGTTTTTCTAAATTCTAAAACAAGGTAATGTTTGA
* *
4311258 TATTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCAATTTCTTGTTTGTTCAAAATA
1 TATTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCTGTTTGTTCAAAATA
* * * **
4311323 ATCGAATATTCCTTTAGAATTTCATTCGTATTCTT-TAAATTCTAAAAC-A---AATGTTCAAA
66 ATCGAATATTCCTTTAGAATTTCACTCGTGTTTTTCTAAATTCTAAAACAAGGTAATGTT-TGA
* * * * *
4311382 TTTTTGGAAGTTCGAGGAATCGTGCCCTACCGTGTTGGGTTTCG
1 TATTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCG
4311426 GTTTTTCGTT
Statistics
Matches: 272, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
123 6 0.02
124 39 0.14
126 1 0.00
127 13 0.05
128 213 0.78
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (128 bp):
TATTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCTGTTTGTTCAAAATA
ATCGAATATTCCTTTAGAATTTCACTCGTGTTTTTCTAAATTCTAAAACAAGGTAATGTTTGA
Found at i:4316612 original size:25 final size:26
Alignment explanation
Indices: 4316557--4316636 Score: 146
Period size: 25 Copynumber: 3.2 Consensus size: 26
4316547 TGAAATGCCC
4316557 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
4316583 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
4316608 ATCATGGAA-ATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
4316633 ATCA
1 ATCA
4316637 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
24 10 0.19
25 23 0.43
26 20 0.38
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:4322140 original size:104 final size:103
Alignment explanation
Indices: 4321948--4322140 Score: 302
Period size: 104 Copynumber: 1.8 Consensus size: 103
4321938 ACAGGATATC
4321948 GCACTTAGCAACCCCATCGGGGGAATCAGCACATAGCAAACCCTTTCACATTTTCAAAGATATGG
1 GCACTTAGCAACCCCATCGGGGGAATCAGCACATAGCAAACCCTTTCACATTTTCAAAGATATGG
*
4322013 TGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 TGGATATCGCACATAG--CCACCAATGAACCGGGGAATCA
4322053 GCACTTAGCAACCCC-TCGGGGGAATCAGCACATAGCAAACCCCCTTTCACATTTTCAAAGATAT
1 GCACTTAGCAACCCCATCGGGGGAATCAGCACATAGCAAA--CCCTTTCACATTTTCAAAGATAT
4322117 GGTGGACTCA-CGCACATAG-CACCA
64 GGTGGA-T-ATCGCACATAGCCACCA
4322141 CCCATAAATC
Statistics
Matches: 83, Mismatches: 1, Indels: 9
0.89 0.01 0.10
Matches are distributed among these distances:
104 29 0.35
105 15 0.18
106 29 0.35
107 9 0.11
108 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.20
Consensus pattern (103 bp):
GCACTTAGCAACCCCATCGGGGGAATCAGCACATAGCAAACCCTTTCACATTTTCAAAGATATGG
TGGATATCGCACATAGCCACCAATGAACCGGGGAATCA
Found at i:4322155 original size:106 final size:104
Alignment explanation
Indices: 4321948--4322173 Score: 334
Period size: 106 Copynumber: 2.2 Consensus size: 104
4321938 ACAGGATATC
4321948 GCACTTAGCAACCCCATCGGGGGAATCAGCACATAGCAAACCCTTTCACATTTTCAAAGATATGG
1 GCACTTAGCAACCCC-TCGGGGGAATCAGCACATAGCAAACCCTTTCACATTTTCAAAGATATGG
* *
4322013 TGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
65 TGGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
4322053 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAAACCCCCTTTCACATTTTCAAAGATATG
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAAA--CCCTTTCACATTTTCAAAGATATG
* *
4322118 GTGGACTCA-CGCACATAGCACCACCCATAAATC-GGGAATCA
64 GTGGA-T-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
4322159 GCAAC--AGCAACCCCT
1 GC-ACTTAGCAACCCCT
4322174 TTTATATATA
Statistics
Matches: 112, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
104 24 0.21
105 25 0.22
106 39 0.35
107 23 0.21
108 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.19
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAAACCCTTTCACATTTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:4322539 original size:29 final size:29
Alignment explanation
Indices: 4322506--4322564 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
4322496 TCCACCACCC
4322506 AACTTTTGAAAAATTACAATTTTGCCCCA
1 AACTTTTGAAAAATTACAATTTTGCCCCA
* * * *
4322535 AACTTTTGCATAATTACACTTTTGTCCCA
1 AACTTTTGAAAAATTACAATTTTGCCCCA
4322564 A
1 A
4322565 GCTCTGGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTTGAAAAATTACAATTTTGCCCCA
Found at i:4324132 original size:17 final size:17
Alignment explanation
Indices: 4324110--4324142 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4324100 ACGGGTAGCC
4324110 AATATTGTCCCCGTCCT
1 AATATTGTCCCCGTCCT
*
4324127 AATATTGTCTCCGTCC
1 AATATTGTCCCCGTCC
4324143 CTAAAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.36
Consensus pattern (17 bp):
AATATTGTCCCCGTCCT
Found at i:4327927 original size:68 final size:68
Alignment explanation
Indices: 4327684--4328289 Score: 805
Period size: 68 Copynumber: 9.0 Consensus size: 68
4327674 AAATTACAAC
* * * * * *
4327684 TCTCTTCTCCCTGAAATAGCGTTGAAACGACTAAAAGCCACAATAGATCTCCTTGAAGTTTCAGC
1 TCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC
4327749 -GA
66 GGA
* * *
4327751 -ATCTTCTCCCTGAAATAGCGTTGGAGCGGTTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC
1 TCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC
4327815 -GA
66 GGA
* * * * *
4327817 -ATCTTCTCCCTGAAATGGCGTCGGAGTGACTAGAAGCCACAACAGATCTCCTTAAAGTTTCAGC
1 TCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC
*
4327881 AGA
66 GGA
*
4327884 TCTCTTCTCCCT-AACATGGCGTTGGAGCGGCTAGAAGACACAACAGATCTCCTTGAAGTTTCAG
1 TCTCTTCTCCCTGAA-ATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAG
4327948 CGGA
65 CGGA
* *
4327952 TCTCTTCTCCTTGAAATGGCGTTGGAGCGGCTAGAAGCCACAATAGATCTCCTTGAAGTTTCAG-
1 TCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC
*
4328016 TGA
66 GGA
* * * * *
4328019 -ATCTTCTCCTTAAAATGGCGTTGGAGCTGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
1 TCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC
4328083 GGA
66 GGA
* * * *
4328086 TCTCTTCTCCCTGAAATGGTGTTGGAGTGGTTAGAAGCCACAATAGATCTCCTTGAAGTTTCAGC
1 TCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC
4328151 GGA
66 GGA
* * * * *
4328154 TCTCTTCTCTCTGAAATGGCGTTAGAGCGGCTAGAACCCACAACAGATCTCCTTAAAGTTTTAGC
1 TCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC
4328219 GGA
66 GGA
* * * *
4328222 TCTCTTTTCCCTGAAATGGCGTTGGAACGGCTCA-AAGCCACAGCAGATCTCTTTGAAGTTTCAG
1 TCTCTTCTCCCTGAAATGGCGTTGGAGCGGCT-AGAAGCCACAACAGATCTCCTTGAAGTTTCAG
4328286 CGGA
65 CGGA
4328290 GTAGATTGAA
Statistics
Matches: 475, Mismatches: 57, Indels: 13
0.87 0.10 0.02
Matches are distributed among these distances:
66 175 0.37
67 8 0.02
68 289 0.61
69 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (68 bp):
TCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC
GGA
Found at i:4328037 original size:202 final size:202
Alignment explanation
Indices: 4327684--4328286 Score: 802
Period size: 202 Copynumber: 3.0 Consensus size: 202
4327674 AAATTACAAC
* * * * *
4327684 TCTCTTCTCCCTGAAATAGCGTTGAAACGACTAAAAGCCACAATAGATCTCCTTGAAGTTTCAGC
1 TCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTAGAAGCCACAATAGATCTCCTTGAAGTTTCAGC
* * * *
4327749 -GA-ATCTTCTCCCTGAAATAGCGTTGGAGCGGTTAGAAGCCACAACAGATCTCCTTGAAGTTTC
66 GGATCTCTTCTCCTTGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTC
* *
4327812 AGCGAATCTTCTCCCTGAAATGGCGTCGGAG-TGACTAGAAGCCACAACAGATCTCCTTAAAGTT
131 AGCGAATCTTCTCCCTAAAATGGCGTCGGAGCTG-CTAAAAGCCACAACAGATCTCCTTAAAGTT
4327876 TCAGCAGA
195 TCAGCAGA
* *
4327884 TCTCTTCTCCCT-AACATGGCGTTGGAGCGGCTAGAAGACACAACAGATCTCCTTGAAGTTTCAG
1 TCTCTTCTCCCTGAA-ATGGCGTTGGAGCGGCTAGAAGCCACAATAGATCTCCTTGAAGTTTCAG
*
4327948 CGGATCTCTTCTCCTTGAAATGGCGTTGGAGCGGCTAGAAGCCACAATAGATCTCCTTGAAGTTT
65 CGGATCTCTTCTCCTTGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTT
* * * *
4328013 CAGTGAATCTTCTCCTTAAAATGGCGTTGGAGCTGCTAAAAGCCACAACAGATCTCCTTGAAGTT
130 CAGCGAATCTTCTCCCTAAAATGGCGTCGGAGCTGCTAAAAGCCACAACAGATCTCCTTAAAGTT
*
4328078 TCAGCGGA
195 TCAGCAGA
* * *
4328086 TCTCTTCTCCCTGAAATGGTGTTGGAGTGGTTAGAAGCCACAATAGATCTCCTTGAAGTTTCAGC
1 TCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTAGAAGCCACAATAGATCTCCTTGAAGTTTCAGC
* * *
4328151 GGATCTCTTCT-CTCTGAAATGGCGTTAGAGCGGCTAGAACCCACAACAGATCTCCTTAAAGTTT
66 GGATCTCTTCTCCT-TGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTT
* * * * * * * * * * *
4328215 TAGCGGATCTCTTTTCCCTGAAATGGCGTTGGAACGGCTCAAAGCCACAGCAGATCTCTTTGAAG
130 CAGC-GA-ATCTTCTCCCTAAAATGGCGTCGGAGCTGCTAAAAGCCACAACAGATCTCCTTAAAG
4328280 TTTCAGC
193 TTTCAGC
4328287 GGAGTAGATT
Statistics
Matches: 356, Mismatches: 39, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
199 2 0.01
200 55 0.15
201 4 0.01
202 234 0.66
203 6 0.02
204 55 0.15
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (202 bp):
TCTCTTCTCCCTGAAATGGCGTTGGAGCGGCTAGAAGCCACAATAGATCTCCTTGAAGTTTCAGC
GGATCTCTTCTCCTTGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTC
AGCGAATCTTCTCCCTAAAATGGCGTCGGAGCTGCTAAAAGCCACAACAGATCTCCTTAAAGTTT
CAGCAGA
Found at i:4328704 original size:16 final size:16
Alignment explanation
Indices: 4328662--4328719 Score: 82
Period size: 17 Copynumber: 3.6 Consensus size: 16
4328652 ATTTGCCCGG
4328662 CCCAAAACCCAACTAT
1 CCCAAAACCCAACTAT
*
4328678 CCCTTAAACCCAACTAT
1 CCC-AAAACCCAACTAT
*
4328695 CCCAAAACCCAAC-AG
1 CCCAAAACCCAACTAT
4328710 CCCAAAACCC
1 CCCAAAACCC
4328720 TTTTAACCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.29
16 12 0.32
17 15 0.39
ACGTcount: A:0.41, C:0.47, G:0.02, T:0.10
Consensus pattern (16 bp):
CCCAAAACCCAACTAT
Found at i:4330125 original size:3 final size:3
Alignment explanation
Indices: 4329807--4330107 Score: 139
Period size: 3 Copynumber: 101.0 Consensus size: 3
4329797 TAAATTAATG
* * *
4329807 TAT TAT TAT TAT T-T GTAT TAT TAT T-T ACAT TAT TAT TAT AAT TAC
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* * * * * * * * * *
4329852 TAC TAT TGT TAT TAC AAT TAT TAT TTT TAT TAC TAT TAA CAT TAG TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
4329900 TAT TAT CAT T-T TAT T-T TTT TAT TAC TAT CAT TTT TGT AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
4329946 TAC TAT TAT TAT TAT GTTT TCT T-T TTT TAT TAC TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
4329991 TAT T-T TAT TAT TTT CTAT TAC TAT TAT CAT TAT TAA TAA TAA TAA
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
4330036 TAT TAA TAT TCT TAT TAT TACT T-T TAT TAT CAT CAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * *
4330081 TAT TTT TAC TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
4330108 CAACATTGTT
Statistics
Matches: 221, Mismatches: 65, Indels: 24
0.71 0.21 0.08
Matches are distributed among these distances:
2 12 0.05
3 201 0.91
4 8 0.04
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:4330635 original size:128 final size:128
Alignment explanation
Indices: 4330407--4330834 Score: 642
Period size: 128 Copynumber: 3.3 Consensus size: 128
4330397 GCAAGCTTCG
* * * * *
4330407 TATTTAGAAATCTGAGGAATTGTGCCCTATCGTGCTGGGTTTTGATTTCCCGTTTGTTCAAAATA
1 TATTTGGAAATTTGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCTCGTTTGTTCAAAATA
* *
4330472 ATCGAATATTCCTTTAGAATTTCACTCTTATTTTTCTAAATTCTAAAACAATGTAATGTTTGA
66 ATCGAATATTCCTTTAGAATTTCACTCGTATTTTTCTAAATTCTAAAACAAAGTAATGTTTGA
* *
4330535 TATTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCTCGTTTGTTCAAAATA
1 TATTTGGAAATTTGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCTCGTTTGTTCAAAATA
* *
4330600 ATCGAATATTCCTTTAGAATTTCACTCGTATTTTTCTAAATTCTACAACAAGGTAATGTTTGA
66 ATCGAATATTCCTTTAGAATTTCACTCGTATTTTTCTAAATTCTAAAACAAAGTAATGTTTGA
* *
4330663 TATTTGGAAATTTGAGGAATCGTGCCCTATCTTGCTAGGTTTCGATTTCTCGTTTGTTCAAAATA
1 TATTTGGAAATTTGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCTCGTTTGTTCAAAATA
* * * * *
4330728 ATCGAATATTCTTTTAGAATTTCATTCGTATTCTT-TAAATTCTAAAACAAAGCAATGTTCGAA
66 ATCGAATATTCCTTTAGAATTTCACTCGTATTTTTCTAAATTCTAAAACAAAGTAATGTTTG-A
* * * *
4330791 TTTTTGGAAGTTTGAGGAATCATGCCCTACCGTGCTGGGTTTCG
1 TATTTGGAAATTTGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
4330835 GTTTTTTGTT
Statistics
Matches: 272, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
127 22 0.08
128 250 0.92
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (128 bp):
TATTTGGAAATTTGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCTCGTTTGTTCAAAATA
ATCGAATATTCCTTTAGAATTTCACTCGTATTTTTCTAAATTCTAAAACAAAGTAATGTTTGA
Found at i:4333881 original size:46 final size:46
Alignment explanation
Indices: 4333848--4334048 Score: 233
Period size: 46 Copynumber: 4.3 Consensus size: 46
4333838 CTGCTAGTAT
4333848 TGTGGACAAGCCACCAGTAACGGTAATGCAGATAAACTACCAATA-
1 TGTGGACAAGCCACCAGTAACGGTAATGCAGATAAACTACCAATAG
* * ** * * *
4333893 TATGAAGACGAGTTACTAGTAACGATAATGTAGATAAACTACCAATAG
1 TGTG--GACAAGCCACCAGTAACGGTAATGCAGATAAACTACCAATAG
* * *
4333941 TGTGGACAAGTCACCAGTAACAGTAATGCAGATAAACTATCAATAG
1 TGTGGACAAGCCACCAGTAACGGTAATGCAGATAAACTACCAATAG
* * * * * *
4333987 TGTGGACAAACCACCAGTAACGATAATGCAGTTAAATTGCCAATAA
1 TGTGGACAAGCCACCAGTAACGGTAATGCAGATAAACTACCAATAG
4334033 TGTGGACAAGCCACCA
1 TGTGGACAAGCCACCA
4334049 ATAATGCAGT
Statistics
Matches: 128, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
45 3 0.02
46 87 0.68
47 35 0.27
48 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (46 bp):
TGTGGACAAGCCACCAGTAACGGTAATGCAGATAAACTACCAATAG
Found at i:4334069 original size:20 final size:20
Alignment explanation
Indices: 4334009--4334075 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
4333999 ACCAGTAACG
* *
4334009 ATAATGCAGTTAAATTGCCA
1 ATAATGCAGTCAAGTTGCCA
** * ***
4334029 ATAATGTGGACAAGCCACCA
1 ATAATGCAGTCAAGTTGCCA
4334049 ATAATGCAGTCAAGTTGCCA
1 ATAATGCAGTCAAGTTGCCA
4334069 ATAATGC
1 ATAATGC
4334076 GATTAAAAAT
Statistics
Matches: 33, Mismatches: 14, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (20 bp):
ATAATGCAGTCAAGTTGCCA
Found at i:4338155 original size:15 final size:14
Alignment explanation
Indices: 4338119--4338157 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
4338109 CTTAAAATTT
4338119 ATTTTAATATAAAA
1 ATTTTAATATAAAA
**
4338133 ATAATAATATAAAAA
1 ATTTTAATAT-AAAA
4338148 ATTTTAATAT
1 ATTTTAATAT
4338158 GGGTAAGTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTTAATATAAAA
Found at i:4345172 original size:14 final size:14
Alignment explanation
Indices: 4345153--4345182 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4345143 TATCTACTTA
*
4345153 TTTTATTCAACATT
1 TTTTATTCAAAATT
4345167 TTTTATTCAAAATT
1 TTTTATTCAAAATT
4345181 TT
1 TT
4345183 GAATTAAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTATTCAAAATT
Found at i:4358607 original size:46 final size:46
Alignment explanation
Indices: 4358555--4358718 Score: 224
Period size: 46 Copynumber: 3.6 Consensus size: 46
4358545 TGCCATAGTG
* *
4358555 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTACCAAGGTA
1 TCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCAAGGTA
* *
4358601 TCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGTTGCCATA-GTA
1 TCTTTCAACCATGGTCTTACTCATTTTC-TGTCATGTTGCCA-AGGTA
* * *
4358647 TCTTTCAACCATGGTCTTATTCATTTTCTATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCAAGGTA
*
4358693 TCTTTCAACCATGGTCTTACACATTT
1 TCTTTCAACCATGGTCTTACTCATTT
4358719 CATTTCAGAA
Statistics
Matches: 105, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
45 4 0.04
46 96 0.91
47 5 0.05
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.43
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCAAGGTA
Found at i:4358702 original size:92 final size:92
Alignment explanation
Indices: 4358545--4358721 Score: 282
Period size: 92 Copynumber: 1.9 Consensus size: 92
4358535 TTTGACATGA
* * *
4358545 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTACCAAGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCTATCATGTTACCAAGGTATCTTTCAAC
**
4358610 CATGGTCTTATTCATTTCATGTCACGT
66 CATGGTCTTACACATTTCATGTCACGT
* * *
4358637 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTCTATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCTATCATGTTACCAAGGTATCTTTCAAC
4358702 CATGGTCTTACACATTTCAT
66 CATGGTCTTACACATTTCAT
4358722 TTCAGAAAGC
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 77 1.00
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.42
Consensus pattern (92 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCTATCATGTTACCAAGGTATCTTTCAAC
CATGGTCTTACACATTTCATGTCACGT
Found at i:4364591 original size:19 final size:20
Alignment explanation
Indices: 4364519--4364604 Score: 77
Period size: 20 Copynumber: 4.1 Consensus size: 20
4364509 TTATTTATTC
4364519 TTTATATTTTTT-AAAATT-T
1 TTTA-ATTTTTTAAAAATTAT
4364538 TTATAATTTTTTAAAAAATATAAAT
1 TT-TAATTTTTT-AAAAAT-T--AT
* *
4364563 TTGAAATTTTTAAAAATTAT
1 TTTAATTTTTTAAAAATTAT
*
4364583 TTTAATTTTTTTAAAATTAT
1 TTTAATTTTTTAAAAATTAT
4364603 TT
1 TT
4364605 CGAATTCTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
19 9 0.16
20 23 0.42
21 5 0.09
22 2 0.04
23 6 0.11
24 7 0.13
25 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (20 bp):
TTTAATTTTTTAAAAATTAT
Found at i:4364610 original size:21 final size:20
Alignment explanation
Indices: 4364525--4364616 Score: 69
Period size: 20 Copynumber: 4.3 Consensus size: 20
4364515 ATTCTTTATA
*
4364525 TTTTTTAAAATT-TTTATAAT
1 TTTTTTAAAATTATTT-GAAT
* *
4364545 TTTTTAAAAAATATAAATTTGAAA
1 TTTTT-TAAAAT-T--ATTTGAAT
* *
4364569 TTTTTAAAAATTATTTTAAT
1 TTTTTTAAAATTATTTGAAT
4364589 TTTTTTAAAATTATTTCGAAT
1 TTTTTTAAAATTATTT-GAAT
4364610 TCTTTTT
1 T-TTTTT
4364617 TGTAATTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
20 26 0.45
21 9 0.16
22 7 0.12
23 6 0.10
24 7 0.12
25 3 0.05
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTTTAAAATTATTTGAAT
Found at i:4365994 original size:14 final size:14
Alignment explanation
Indices: 4365975--4366001 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4365965 AGCATGAAGT
4365975 ACACGTAGATTGCC
1 ACACGTAGATTGCC
4365989 ACACGTAGATTGC
1 ACACGTAGATTGC
4366002 AATGCCAACA
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:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (14 bp):
ACACGTAGATTGCC
Found at i:4372575 original size:4 final size:4
Alignment explanation
Indices: 4372566--4372595 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
4372556 GCAACTATAT
4372566 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
4372596 GATGATTGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:4374727 original size:18 final size:17
Alignment explanation
Indices: 4374689--4374721 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4374679 TTTACTCTCT
4374689 CTTTTTTTTCAATTTTA
1 CTTTTTTTTCAATTTTA
4374706 CTTTATTTTT-AATTTT
1 CTTT-TTTTTCAATTTT
4374722 TGCTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (17 bp):
CTTTTTTTTCAATTTTA
Found at i:4379085 original size:19 final size:19
Alignment explanation
Indices: 4379061--4379097 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4379051 TATTGTTAAT
*
4379061 ATATTTATAATTACAATAA
1 ATATTTATAATTAAAATAA
*
4379080 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
4379098 TTAATATTGA
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:4379201 original size:20 final size:19
Alignment explanation
Indices: 4379176--4379236 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
4379166 TTAAAATAAA
4379176 ATTAAAATATTAAATCATTT
1 ATTAAAATATTAAAT-ATTT
* *
4379196 ATTAAAATAATAAAT-TAT
1 ATTAAAATATTAAATATTT
*
4379214 ATTAATATATT-AATAATTT
1 ATTAAAATATTAAAT-ATTT
4379233 ATTA
1 ATTA
4379237 TATGACTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
17 3 0.09
18 11 0.32
19 6 0.18
20 14 0.41
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTAAAATATTAAATATTT
Found at i:4379320 original size:22 final size:22
Alignment explanation
Indices: 4379276--4379318 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4379266 ATGTTTAATA
4379276 ATATTAAAATATATAATATTTT
1 ATATTAAAATATATAATATTTT
* *
4379298 ATATTAATATTTA-AATATTTT
1 ATATTAAAATATATAATATTTT
4379319 TAAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTAAAATATATAATATTTT
Found at i:4379811 original size:15 final size:15
Alignment explanation
Indices: 4379793--4379866 Score: 60
Period size: 15 Copynumber: 4.6 Consensus size: 15
4379783 GAAATTAAAT
*
4379793 TAAATTAAATTTATA
1 TAAATTAATTTTATA
4379808 TAAAATATAATTTTACAGTA
1 T-AAAT-TAATTTT--A-TA
*
4379828 AATAATTAATTTTATA
1 TA-AATTAATTTTATA
*
4379844 TAAATTAATTTTATG
1 TAAATTAATTTTATA
4379859 T-AATTAAT
1 TAAATTAAT
4379867 AATATTTATG
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
14 7 0.14
15 14 0.29
16 7 0.14
17 7 0.14
19 9 0.18
20 5 0.10
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (15 bp):
TAAATTAATTTTATA
Found at i:4388589 original size:21 final size:22
Alignment explanation
Indices: 4388548--4388589 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4388538 TAAACTTGAC
**
4388548 AATTATTTTTATATTGGGTCTG
1 AATTATTTTTATATTAAGTCTG
4388570 AATTATTTTTAT-TTAAGTCT
1 AATTATTTTTATATTAAGTCT
4388590 TAAATTTGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.57
Consensus pattern (22 bp):
AATTATTTTTATATTAAGTCTG
Found at i:4388595 original size:22 final size:22
Alignment explanation
Indices: 4388548--4388595 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
4388538 TAAACTTGAC
** *
4388548 AATTATTTTTATATTGGGTCTG
1 AATTATTTTTATATTAAGTCTA
4388570 AATTATTTTTAT-TTAAGTCTTA
1 AATTATTTTTATATTAAGTC-TA
4388592 AATT
1 AATT
4388596 TGGCAATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.56
Consensus pattern (22 bp):
AATTATTTTTATATTAAGTCTA
Found at i:4389876 original size:23 final size:23
Alignment explanation
Indices: 4389846--4389892 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
4389836 CGTAACAGAA
*
4389846 GTCTAGGATCAAGATTGTTTGAG
1 GTCTAGGATCAAGATTGCTTGAG
4389869 GTCTAGGATCAAGATTGCTTGAG
1 GTCTAGGATCAAGATTGCTTGAG
4389892 G
1 G
4389893 ATCCCTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (23 bp):
GTCTAGGATCAAGATTGCTTGAG
Found at i:4390279 original size:19 final size:19
Alignment explanation
Indices: 4390255--4390295 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4390245 TTTACTGTTG
*
4390255 ATAAAAATATATAAATATT
1 ATAAAAATATAAAAATATT
* *
4390274 ATAAAAATGTAAAAATTTT
1 ATAAAAATATAAAAATATT
4390293 ATA
1 ATA
4390296 CACGAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAAAAATATAAAAATATT
Found at i:4392052 original size:47 final size:47
Alignment explanation
Indices: 4391958--4392053 Score: 131
Period size: 47 Copynumber: 2.0 Consensus size: 47
4391948 TAATTAGCTC
* * * *
4391958 AACAAGTAAGAAACTCTTTAAAATTAAACTTGAAACTTAATCAAATT
1 AACAAGCAAGAAACTCTTGAAAATTAAACTTGAAAATGAATCAAATT
*
4392005 AACAAGCAAGAAACTCTTGAAAATTAAA-TTGAAAAATGAATCCAATT
1 AACAAGCAAGAAACTCTTGAAAATTAAACTTG-AAAATGAATCAAATT
4392052 AA
1 AA
4392054 TTGATACTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
46 3 0.07
47 40 0.93
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.26
Consensus pattern (47 bp):
AACAAGCAAGAAACTCTTGAAAATTAAACTTGAAAATGAATCAAATT
Found at i:4395656 original size:20 final size:20
Alignment explanation
Indices: 4395631--4395672 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4395621 AAATAAACAC
**
4395631 ATAATTATTTATTTAATATT
1 ATAATTATTTAAATAATATT
4395651 ATAATTATTTAAATAATATT
1 ATAATTATTTAAATAATATT
4395671 AT
1 AT
4395673 TTAAATAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAATTATTTAAATAATATT
Found at i:4395671 original size:14 final size:15
Alignment explanation
Indices: 4395639--4395679 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
4395629 ACATAATTAT
*
4395639 TTATTTAATATTATAA
1 TTATTTAA-ATAATAA
4395655 TTATTTAAATAAT-A
1 TTATTTAAATAATAA
4395669 TTATTTAAATA
1 TTATTTAAATA
4395680 GTTATAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 12 0.50
15 4 0.17
16 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATTTAAATAATAA
Found at i:4396799 original size:16 final size:17
Alignment explanation
Indices: 4396764--4396799 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
4396754 CATCATTCGC
4396764 AAAAATCATTTTAAGTA
1 AAAAATCATTTTAAGTA
*
4396781 AAAAATTATTTTAAG-A
1 AAAAATCATTTTAAGTA
4396797 AAA
1 AAA
4396800 GGCTGAGCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (17 bp):
AAAAATCATTTTAAGTA
Found at i:4398873 original size:73 final size:73
Alignment explanation
Indices: 4398753--4398893 Score: 201
Period size: 73 Copynumber: 1.9 Consensus size: 73
4398743 TTTGTTTTTT
* * ** * *
4398753 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTG
1 AAATCAACTCATACTACAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTACTG
4398818 TTTGTCAA
66 TTTGTCAA
* * *
4398826 AAATCAACTCATACTACAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCGATTTCTG
1 AAATCAACTCATACTACAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTACTG
4398891 TTT
66 TTT
4398894 TACAATTTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 59 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (73 bp):
AAATCAACTCATACTACAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTACTG
TTTGTCAA
Found at i:4399017 original size:74 final size:74
Alignment explanation
Indices: 4398891--4399056 Score: 230
Period size: 74 Copynumber: 2.2 Consensus size: 74
4398881 TCGATTTCTG
*
4398891 TTTTACAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCGGGTCGCA
1 TTTT-CAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCAGGT--CA
4398956 TA-G-CGAGGTA
63 TACGCCGAGGTA
*
4398966 TTTTCAATTT-TGGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGTCATA
1 TTTTCAATTTAT-GTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCAGGTCATA
*
4399030 CGCCGATGTA
65 CGCCGAGGTA
**
4399040 TTTTCAATAGATGTTTT
1 TTTTCAATTTATGTTTT
4399057 TTTCAATTTC
Statistics
Matches: 82, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
72 4 0.05
73 2 0.02
74 71 0.87
75 5 0.06
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (74 bp):
TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCAGGTCATAC
GCCGAGGTA
Found at i:4405765 original size:21 final size:21
Alignment explanation
Indices: 4405739--4405782 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4405729 ACAGTGAAGA
*
4405739 AGAAGAAGGAGGAGGAGGAGG
1 AGAAGAAGAAGGAGGAGGAGG
4405760 AGAAGAAGAAGGAGGAGGAGG
1 AGAAGAAGAAGGAGGAGGAGG
4405781 AG
1 AG
4405783 GAATATAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (21 bp):
AGAAGAAGAAGGAGGAGGAGG
Found at i:4405768 original size:24 final size:24
Alignment explanation
Indices: 4405736--4405784 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4405726 TGTACAGTGA
4405736 AGAAGAAGAAGGAGGAGGAGGAGG
1 AGAAGAAGAAGGAGGAGGAGGAGG
4405760 AGAAGAAGAAGGAGGAGGAGGAGG
1 AGAAGAAGAAGGAGGAGGAGGAGG
4405784 A
1 A
4405785 ATATAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (24 bp):
AGAAGAAGAAGGAGGAGGAGGAGG
Found at i:4405775 original size:3 final size:3
Alignment explanation
Indices: 4405745--4405784 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
4405735 AAGAAGAAGA
* * *
4405745 AGG AGG AGG AGG AGG AGA AGA AGA AGG AGG AGG AGG AGG A
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG A
4405785 ATATAATGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.57, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:4407034 original size:14 final size:14
Alignment explanation
Indices: 4407015--4407067 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 14
4407005 GGTTTATACC
4407015 TTTTATTAATTTAA
1 TTTTATTAATTTAA
*
4407029 TTTTATTCATTTTATA
1 TTTTATT-AATTTA-A
4407045 CCTTTTATTAATTTAA
1 --TTTTATTAATTTAA
4407061 TTTTATT
1 TTTTATT
4407068 CGTTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 14 0.42
15 5 0.15
16 2 0.06
17 5 0.15
18 7 0.21
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTATTAATTTAA
Found at i:4407048 original size:32 final size:32
Alignment explanation
Indices: 4407007--4407073 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
4406997 TATAATGAGG
4407007 TTTATACCTTTTATTAATTTAATTTTATTCAT
1 TTTATACCTTTTATTAATTTAATTTTATTCAT
*
4407039 TTTATACCTTTTATTAATTTAATTTTATTCGT
1 TTTATACCTTTTATTAATTTAATTTTATTCAT
4407071 TTT
1 TTT
4407074 TTTAACTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.25, C:0.09, G:0.01, T:0.64
Consensus pattern (32 bp):
TTTATACCTTTTATTAATTTAATTTTATTCAT
Found at i:4407261 original size:24 final size:23
Alignment explanation
Indices: 4407219--4407269 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 23
4407209 TCATGCTAAT
4407219 TATTATTTTTTAAAATTTT-AAA
1 TATTATTTTTTAAAATTTTAAAA
*
4407241 TATTATATTTTTATAATTTTTAAAA
1 TATTAT-TTTTTA-AAATTTTAAAA
4407266 TATT
1 TATT
4407270 TGTTAATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 6 0.24
23 6 0.24
24 6 0.24
25 7 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTATTTTTTAAAATTTTAAAA
Found at i:4407760 original size:21 final size:21
Alignment explanation
Indices: 4407736--4407795 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
4407726 TAAAATATTT
4407736 AAAATTTATATTTTATATATC
1 AAAATTTATATTTTATATATC
** * *
4407757 AAAATATTA-ATAATAAATTTC
1 AAAAT-TTATATTTTATATATC
4407778 AATAATTTAT-TTTTATAT
1 AA-AATTTATATTTTATAT
4407796 TTTTACTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATTTATATTTTATATATC
Found at i:4410966 original size:21 final size:21
Alignment explanation
Indices: 4410940--4410980 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4410930 ATCTGCTCAA
* *
4410940 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
4410961 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
4410981 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:4426539 original size:14 final size:15
Alignment explanation
Indices: 4426512--4426540 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4426502 AATTTTATGA
4426512 ATTTCATGATGTGTT
1 ATTTCATGATGTGTT
4426527 ATTTCAT-ATGTGTT
1 ATTTCATGATGTGTT
4426541 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTGTT
Found at i:4426731 original size:40 final size:41
Alignment explanation
Indices: 4426662--4426755 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 41
4426652 TGGCAGCAAG
*
4426662 TGATAAGTGATAGCTTCGACTACATTTATCTGATCAAGGA-AAA
1 TGATAAGTGAT---TTCGACTACACTTATCTGATCAAGGACAAA
* *
4426705 GTGA-AAGTGATTTCGGCTACACTTATCTGATCAATGACAAA
1 -TGATAAGTGATTTCGACTACACTTATCTGATCAAGGACAAA
4426746 TGATAAGTGA
1 TGATAAGTGA
4426756 AAGTGGTAGC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
40 26 0.58
41 9 0.20
43 7 0.16
44 3 0.07
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (41 bp):
TGATAAGTGATTTCGACTACACTTATCTGATCAAGGACAAA
Found at i:4426792 original size:31 final size:31
Alignment explanation
Indices: 4426746--4426898 Score: 211
Period size: 31 Copynumber: 5.0 Consensus size: 31
4426736 CAATGACAAA
* *
4426746 TGATAAGTG-AAAGTGGTAGCTTCAGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
4426776 TGATCAGTGAAAAGTGGTAG-TTCCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTT-CGGCTACC
* *
4426807 TGATCAGTGAAAAGTGATAGCTCCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
* * *
4426838 TGATCTGTGAAAAATGGTAGCTCCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
*
4426869 TGATCAGTGAATAGTGGTAGCTTCGGCTAC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTAC
4426899 AAGTGACAAG
Statistics
Matches: 109, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
30 10 0.09
31 98 0.90
32 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (31 bp):
TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
Found at i:4426993 original size:47 final size:46
Alignment explanation
Indices: 4426923--4427087 Score: 169
Period size: 47 Copynumber: 3.7 Consensus size: 46
4426913 AAGTGATTTC
* *
4426923 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
4426969 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
4427016 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
4427058 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
4427088 ATTATGTGAA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
41 7 0.07
42 31 0.29
46 27 0.25
47 41 0.39
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:4427075 original size:42 final size:43
Alignment explanation
Indices: 4427017--4427131 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
4427007 TATGTGATTC
*
4427017 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
4427059 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
4427101 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
4427132 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:4428225 original size:31 final size:32
Alignment explanation
Indices: 4428140--4428225 Score: 83
Period size: 31 Copynumber: 2.8 Consensus size: 32
4428130 CAAAGTGAAT
* * *
4428140 ATTAAAGCCAAACTTAGGTACCAAATTGAAAC
1 ATTAAAACTAAACTTAAGTACCAAATTGAAAC
* *
4428172 A--AAAA-TAAA-TTCAAATACCAAATT-AAGC
1 ATTAAAACTAAACTT-AAGTACCAAATTGAAAC
4428200 ATTAAAACTAAACTTAAGTACCAAAT
1 ATTAAAACTAAACTTAAGTACCAAAT
4428226 AGTATATTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
28 6 0.14
29 13 0.30
30 7 0.16
31 14 0.33
32 3 0.07
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.23
Consensus pattern (32 bp):
ATTAAAACTAAACTTAAGTACCAAATTGAAAC
Found at i:4428890 original size:94 final size:94
Alignment explanation
Indices: 4428789--4428972 Score: 341
Period size: 94 Copynumber: 2.0 Consensus size: 94
4428779 CTCTTATTCA
4428789 ATTTGACTCTAATCAGGCAGATTTATGTCGTCTTATTTCTAGGATTGTATACAACTCCACTCAAA
1 ATTTGACTCTAATCAGGCAGATTTATGTCGTCTTATTTCTAGGATTGTATACAACTCCACTCAAA
4428854 TACGCTAGATCTACTCTTAAACAGATTTG
66 TACGCTAGATCTACTCTTAAACAGATTTG
* *
4428883 ATTTGACTTTAATCCGGCAGATTTATGTCGTCTTATTTCTAGGATTGTATACAACTCCACTCAAA
1 ATTTGACTCTAATCAGGCAGATTTATGTCGTCTTATTTCTAGGATTGTATACAACTCCACTCAAA
*
4428948 TACGCTAGATCTACTTTTAAACAGA
66 TACGCTAGATCTACTCTTAAACAGA
4428973 GTCTATTCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 87 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (94 bp):
ATTTGACTCTAATCAGGCAGATTTATGTCGTCTTATTTCTAGGATTGTATACAACTCCACTCAAA
TACGCTAGATCTACTCTTAAACAGATTTG
Found at i:4446858 original size:13 final size:13
Alignment explanation
Indices: 4446840--4446872 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4446830 ATATATATAT
*
4446840 AAAGAAAATAAAG
1 AAAGAAAACAAAG
4446853 AAAGAAAACAAAG
1 AAAGAAAACAAAG
4446866 AAAGAAA
1 AAAGAAA
4446873 CAGAATGCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAGAAAACAAAG
Found at i:4448774 original size:69 final size:69
Alignment explanation
Indices: 4448663--4448802 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 69
4448653 TCAGGTTAAA
4448663 TTAGCCACACGGGCGTGTGATACTGTTCAGAAAAAGAAAATTTAAAATTTCACAAAAAAATTACT
1 TTAGCCACACGGGCGTGTGATACTGTTCAGAAAAAGAAAATTTAAAATTTCACAAAAAAATTACT
4448728 AAGC
66 AAGC
* * *
4448732 TTAGCCACACGGGCGTTTGATACTGTTCAGAAGAAGAAAATTTAAAATTTCACAAAAAATTTACT
1 TTAGCCACACGGGCGTGTGATACTGTTCAGAAAAAGAAAATTTAAAATTTCACAAAAAAATTACT
4448797 AAGC
66 AAGC
4448801 TT
1 TT
4448803 TAGGATCGAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (69 bp):
TTAGCCACACGGGCGTGTGATACTGTTCAGAAAAAGAAAATTTAAAATTTCACAAAAAAATTACT
AAGC
Found at i:4449065 original size:56 final size:56
Alignment explanation
Indices: 4448979--4449092 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
4448969 TGTTACATTT
4448979 AGTGGCAACAGAGCTAACCGGGTTTAGACGATTCTAGGATTAAATTGAGTACAGAA
1 AGTGGCAACAGAGCTAACCGGGTTTAGACGATTCTAGGATTAAATTGAGTACAGAA
4449035 AGTGGCAACAGAGCTAACCGGGTTTAGACGATTCTAGGATTAAATTGAGTACAGAA
1 AGTGGCAACAGAGCTAACCGGGTTTAGACGATTCTAGGATTAAATTGAGTACAGAA
4449091 AG
1 AG
4449093 GAGTCTAGAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (56 bp):
AGTGGCAACAGAGCTAACCGGGTTTAGACGATTCTAGGATTAAATTGAGTACAGAA
Found at i:4452926 original size:31 final size:32
Alignment explanation
Indices: 4452875--4452937 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
4452865 TATTAAGTAA
* *
4452875 AAGATTTTTATTAATTAAATA-ATTATATTAT
1 AAGATTTTTATTAATGAAATATATTAAATTAT
4452906 AAGATTTTTATGTAA-GAAATATATTAAATTAT
1 AAGATTTTTAT-TAATGAAATATATTAAATTAT
4452938 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (32 bp):
AAGATTTTTATTAATGAAATATATTAAATTAT
Found at i:4453364 original size:37 final size:37
Alignment explanation
Indices: 4453309--4453380 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
4453299 ATTATTATGG
4453309 TATTGAATTGAATAAAAAT-TCATGAATTATT-AGTGAT
1 TATTGAATTGAATAAAAATAT-ATGAA-TATTGAGTGAT
4453346 TATTGATATTGAAT-AAAATATATGAATATTGAGTG
1 TATTGA-ATTGAATAAAAATATATGAATATTGAGTG
4453381 GAAAATTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
36 4 0.12
37 20 0.62
38 8 0.25
ACGTcount: A:0.43, C:0.01, G:0.15, T:0.40
Consensus pattern (37 bp):
TATTGAATTGAATAAAAATATATGAATATTGAGTGAT
Found at i:4453389 original size:38 final size:37
Alignment explanation
Indices: 4453310--4453390 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 37
4453300 TTATTATGGT
**
4453310 ATTGAATTGAATAAAAATTCATGAATTATTAGTGATT
1 ATTGAATTGAATAAAAATTCATGAATTATTAGTGAAA
4453347 ATTGATATTGAAT-AAAATAT-ATGAA-TATTGAGTGGAAA
1 ATTGA-ATTGAATAAAAAT-TCATGAATTATT-AGT-GAAA
4453385 ATTGAA
1 ATTGAA
4453391 AAATGTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
36 4 0.11
37 19 0.50
38 15 0.39
ACGTcount: A:0.46, C:0.01, G:0.16, T:0.37
Consensus pattern (37 bp):
ATTGAATTGAATAAAAATTCATGAATTATTAGTGAAA
Found at i:4457640 original size:21 final size:21
Alignment explanation
Indices: 4457614--4457654 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4457604 AGATGAGCAA
* *
4457614 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4457635 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4457655 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4463513 original size:11 final size:11
Alignment explanation
Indices: 4463499--4463539 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
4463489 TATTTTCTCC
4463499 CTATTTTGCTA
1 CTATTTTGCTA
*
4463510 CTATTTTACTA
1 CTATTTTGCTA
* *
4463521 TTATGTTGCTA
1 CTATTTTGCTA
4463532 CTATTTTG
1 CTATTTTG
4463540 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:4463638 original size:30 final size:30
Alignment explanation
Indices: 4463576--4463638 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
4463566 ACTTATTTTA
* *
4463576 TTGTTAATTTTTTTATTATTTTAAAGATAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
4463606 TTGTTAATTTTATTATTATTTTATAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
4463636 TTG
1 TTG
4463639 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.62
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:4463793 original size:12 final size:12
Alignment explanation
Indices: 4463763--4463796 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
4463753 TATATATTTT
4463763 AAAATT-ATATA
1 AAAATTAATATA
4463774 AAAA-TAATATA
1 AAAATTAATATA
4463785 AAAATTAATATA
1 AAAATTAATATA
4463797 GGCGGGCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:4464213 original size:43 final size:43
Alignment explanation
Indices: 4464135--4464216 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
4464125 AAAATGTATA
*
4464135 CAACTTTTTCAATAAAGGGCGGCTATTACAACTTTATTTCATT
1 CAACTTTTTCAATAAACGGCGGCTATTACAACTTTATTTCATT
* *
4464178 CAACTTTTTCAATAAACGGTGGCTGTTA-AATCTTTATTT
1 CAACTTTTTCAATAAACGGCGGCTATTACAA-CTTTATTT
4464217 TAAGGGTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 2 0.06
43 33 0.94
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (43 bp):
CAACTTTTTCAATAAACGGCGGCTATTACAACTTTATTTCATT
Found at i:4470133 original size:43 final size:43
Alignment explanation
Indices: 4470072--4470158 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
4470062 TTTAAAATGT
*
4470072 ATACAACTTTTTCAATAAAAGGTGGCTATTACAACTTTATTTC
1 ATACAACTTTTTCAATAAAAGATGGCTATTACAACTTTATTTC
* * *
4470115 ATACAACTTTTTCAATAAACGATGGCTGTTACATCTTTATTTC
1 ATACAACTTTTTCAATAAAAGATGGCTATTACAACTTTATTTC
4470158 A
1 A
4470159 AGGTTAAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.40
Consensus pattern (43 bp):
ATACAACTTTTTCAATAAAAGATGGCTATTACAACTTTATTTC
Found at i:4474782 original size:17 final size:17
Alignment explanation
Indices: 4474760--4474794 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4474750 TGCATAATGC
4474760 CATTGTCAGAACTCTAA
1 CATTGTCAGAACTCTAA
4474777 CATTGTCAGAACTCTAA
1 CATTGTCAGAACTCTAA
4474794 C
1 C
4474795 CCTTCGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (17 bp):
CATTGTCAGAACTCTAA
Found at i:4479061 original size:16 final size:16
Alignment explanation
Indices: 4479033--4479065 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4479023 TACACTCATG
4479033 TATATGTTTTATATTT
1 TATATGTTTTATATTT
4479049 TATA-GTTTATATATTT
1 TATATGTTT-TATATTT
4479065 T
1 T
4479066 CTTTGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TATATGTTTTATATTT
Found at i:4491234 original size:12 final size:12
Alignment explanation
Indices: 4491203--4491233 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
4491193 CATATATGTA
4491203 TTTTTTTTCAAC
1 TTTTTTTTCAAC
4491215 TTTTTTTTC-AC
1 TTTTTTTTCAAC
4491226 TTTTTTTT
1 TTTTTTTT
4491234 TTGAATGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTTTCAAC
Found at i:4492410 original size:17 final size:16
Alignment explanation
Indices: 4492349--4492410 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
4492339 TAGAAATAGC
4492349 AAAATAAAAATA-AAA
1 AAAATAAAAATATAAA
* * *
4492364 ATAA-AAAAGTATATA
1 AAAATAAAAATATAAA
*
4492379 AAAATTAAAATATAAA
1 AAAATAAAAATATAAA
4492395 AAAATGAAAAATATAA
1 AAAAT-AAAAATATAA
4492411 GTATAAGAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
14 6 0.17
15 8 0.22
16 13 0.36
17 9 0.25
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAATAAAAATATAAA
Found at i:4492473 original size:22 final size:20
Alignment explanation
Indices: 4492443--4492494 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
4492433 AATTAATTAT
*
4492443 TAAAATAAAAATAAATAATA
1 TAAAATAAAAATAAATAAAA
*
4492463 TAACAATTAAAAATAATTAAAA
1 TAA-AA-TAAAAATAAATAAAA
4492485 TAAAATAAAA
1 TAAAATAAAA
4492495 TTGGGGTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.29
21 4 0.14
22 16 0.57
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (20 bp):
TAAAATAAAAATAAATAAAA
Found at i:4492666 original size:30 final size:30
Alignment explanation
Indices: 4492622--4492678 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
4492612 ATGTGAAATC
* * *
4492622 CCACACGCCTGTGTGGCTAGACCGTGTGCT
1 CCACACACCCGTGTGGCCAGACCGTGTGCT
*
4492652 CCACACACCCGTGTGGCCAGGCCGTGT
1 CCACACACCCGTGTGGCCAGACCGTGT
4492679 ATGTAATACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.14, C:0.37, G:0.30, T:0.19
Consensus pattern (30 bp):
CCACACACCCGTGTGGCCAGACCGTGTGCT
Found at i:4495393 original size:38 final size:39
Alignment explanation
Indices: 4495342--4495553 Score: 183
Period size: 46 Copynumber: 4.9 Consensus size: 39
4495332 CTGATATGAA
*
4495342 ATGTGTAAGACCATGGTTGAAAGATACCATAGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
4495381 -TGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
4495424 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G
*
4495472 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
4495511 ACATGAAAAGAATAAGACCATTGTTGAAAGATACCATGGCAAC
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
4495554 ATGACAGAAA
Statistics
Matches: 150, Mismatches: 6, Indels: 27
0.82 0.03 0.15
Matches are distributed among these distances:
38 34 0.23
39 1 0.01
41 4 0.03
43 2 0.01
44 1 0.01
46 107 0.71
48 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.23
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:4495448 original size:46 final size:46
Alignment explanation
Indices: 4495381--4495587 Score: 290
Period size: 46 Copynumber: 4.5 Consensus size: 46
4495371 TAGCAACCTG
* *
4495381 TGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
4495427 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
4495473 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** * *
4495519 AGAATAAGACCATTGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* *
4495565 TGAGTAAGACCATAGTTGAAAGA
1 TGTGTAAGACCATGGTTGAAAGA
4495588 CACTATAGCA
Statistics
Matches: 147, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 146 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:4495583 original size:138 final size:130
Alignment explanation
Indices: 4495332--4495587 Score: 334
Period size: 138 Copynumber: 1.9 Consensus size: 130
4495322 AGTGTGCTCT
*
4495332 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACCTGTGTGTAAAACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACCTGTGAGTAAAACCATGGT
* * * *
4495397 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAAC
* * * *
4495462 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACCTG---TG---AG--TAAA
*
4495527 ACCATTGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
58 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGA
4495588 CACTATAGCA
Statistics
Matches: 107, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
130 46 0.43
133 2 0.02
136 1 0.01
137 1 0.01
138 57 0.53
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACCTGTGAGTAAAACCATGGT
TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAAC
Found at i:4495903 original size:23 final size:25
Alignment explanation
Indices: 4495858--4495904 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
4495848 AATAAATATA
*
4495858 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
4495883 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
4495905 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:4506151 original size:6 final size:6
Alignment explanation
Indices: 4506136--4506168 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
4506126 TATTCAAGTC
*
4506136 TTTT-T TTTTCT TTTTCT TTTTTT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
4506169 TCCTTTTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (6 bp):
TTTTCT
Found at i:4506161 original size:12 final size:13
Alignment explanation
Indices: 4506139--4506175 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
4506129 TCAAGTCTTT
4506139 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
4506152 TTTTTT-TTTTTC
1 TTTTTTCTTTTTC
*
4506164 TTTTTTCCTTTT
1 TTTTTTCTTTTT
4506176 GGTGCAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:4506169 original size:19 final size:19
Alignment explanation
Indices: 4506136--4506175 Score: 64
Period size: 18 Copynumber: 2.1 Consensus size: 19
4506126 TATTCAAGTC
4506136 TTTTTTTTTCTTTTT-CTT
1 TTTTTTTTTCTTTTTCCTT
4506154 TTTTTTTTTCTTTTTTCCTT
1 TTTTTTTTTC-TTTTTCCTT
4506174 TT
1 TT
4506176 GGTGCAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 5 0.25
20 5 0.25
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTCTTTTTCCTT
Found at i:4508040 original size:29 final size:31
Alignment explanation
Indices: 4508008--4508066 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
4507998 AATTAAGGCC
4508008 AAATC-TTTCAAAAATGAT-AAATAAGAGTA
1 AAATCTTTTCAAAAATGATCAAATAAGAGTA
*
4508037 AAATCTTTTCAAAAATGCTCAAATAAGAGT
1 AAATCTTTTCAAAAATGATCAAATAAGAGT
4508067 TTATATCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 5 0.19
30 12 0.44
31 10 0.37
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (31 bp):
AAATCTTTTCAAAAATGATCAAATAAGAGTA
Found at i:4509366 original size:31 final size:31
Alignment explanation
Indices: 4509331--4509468 Score: 142
Period size: 31 Copynumber: 4.5 Consensus size: 31
4509321 GACCCCCCAA
* *
4509331 AAGTTTAAGTACCAACTTAAGAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAAGAAAAAGTGTC
*
4509362 AAGTTTAGGTATCAAATTAAGAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAAGAAAAAGTGTC
* **
4509393 AAGTTTGGGTACCAAATT-AGACCAAAA---AA
1 AAGTTTAGGTACCAAATTAAGA--AAAAGTGTC
* *
4509422 AAGTTTAGGTACCAAATTAGGAAAAGGTGTC
1 AAGTTTAGGTACCAAATTAAGAAAAAGTGTC
*
4509453 AA-TTTAGATACCAAAT
1 AAGTTTAGGTACCAAAT
4509469 GTTATATTAA
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
28 3 0.03
29 17 0.19
30 18 0.20
31 46 0.52
32 4 0.05
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (31 bp):
AAGTTTAGGTACCAAATTAAGAAAAAGTGTC
Found at i:4509378 original size:91 final size:90
Alignment explanation
Indices: 4509276--4509468 Score: 233
Period size: 91 Copynumber: 2.1 Consensus size: 90
4509266 CAAAAAAAAA
* * * ****
4509276 TAGGTACCAAATTAGGAAAAAGAGTCAAGTTCAGGTGCCAAATTGGACCCCCCAAAAGTTTAAGT
1 TAGGTACCAAATTAAGAAAAAGAGTCAAGTTCAGGTACCAAATTAGACCAAAAAAAAGTTTAAGT
*
4509341 ACCAACTTAAGAAAAAGTGTCAAGTT
66 ACCAAATTAAGAAAAAGTGTCAA-TT
* * ** *
4509367 TAGGTATCAAATTAAGAAAAAGTGTCAAGTTTGGGTACCAAATTAGACCAAAAAAAAGTTTAGGT
1 TAGGTACCAAATTAAGAAAAAGAGTCAAGTTCAGGTACCAAATTAGACCAAAAAAAAGTTTAAGT
* *
4509432 ACCAAATTAGGAAAAGGTGTCAATT
66 ACCAAATTAAGAAAAAGTGTCAATT
*
4509457 TAGATACCAAAT
1 TAGGTACCAAAT
4509469 GTTATATTAA
Statistics
Matches: 85, Mismatches: 17, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
90 12 0.14
91 73 0.86
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (90 bp):
TAGGTACCAAATTAAGAAAAAGAGTCAAGTTCAGGTACCAAATTAGACCAAAAAAAAGTTTAAGT
ACCAAATTAAGAAAAAGTGTCAATT
Found at i:4518365 original size:20 final size:21
Alignment explanation
Indices: 4518320--4518365 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
4518310 ATATTTATTC
*
4518320 AAAATTATTTCAAAAATAAAT
1 AAAATTATTTCAAAAATAAAG
*
4518341 CAAATT-TTTCAAAAGA-AAAG
1 AAAATTATTTCAAAA-ATAAAG
4518361 AAAAT
1 AAAAT
4518366 AAGATATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAATTATTTCAAAAATAAAG
Found at i:4520716 original size:49 final size:49
Alignment explanation
Indices: 4520659--4520756 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
4520649 TCTCAAGACC
4520659 CAGAGTTCTGCCTTAACACTAAGTGTCTCTTAGAACATGTCAATTGACT
1 CAGAGTTCTGCCTTAACACTAAGTGTCTCTTAGAACATGTCAATTGACT
4520708 CAGAGTTCTGCCTTAACACTAAGTGTCTCTTAGAACATGTCAATTGACT
1 CAGAGTTCTGCCTTAACACTAAGTGTCTCTTAGAACATGTCAATTGACT
4520757 TCAATTATCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (49 bp):
CAGAGTTCTGCCTTAACACTAAGTGTCTCTTAGAACATGTCAATTGACT
Found at i:4521783 original size:31 final size:31
Alignment explanation
Indices: 4521748--4521821 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
4521738 GAAATATTTT
4521748 TTAAAAATATATA-AAAT-TATTATATTTTAAA
1 TTAAAAATA-ATAGAAATATA-TATATTTTAAA
*
4521779 TTAAAAATAATAGAAATATATATTTTTTAAA
1 TTAAAAATAATAGAAATATATATATTTTAAA
*
4521810 TAAAAGAATAAT
1 TTAAA-AATAAT
4521822 TAAAAACAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
30 3 0.08
31 27 0.71
32 8 0.21
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (31 bp):
TTAAAAATAATAGAAATATATATATTTTAAA
Found at i:4524215 original size:13 final size:13
Alignment explanation
Indices: 4524195--4524231 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4524185 TATTTCTAGA
*
4524195 TAAAAAAATAAAAG
1 TAAAAAAA-AAAAC
4524209 TAAAAAAAAAAAC
1 TAAAAAAAAAAAC
4524222 TAAAAAAAAA
1 TAAAAAAAAA
4524232 CTAAAATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (13 bp):
TAAAAAAAAAAAC
Done.